Helicase 3D structures: Difference between revisions

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Line 21: Line 21:
**[[4n8o]], [[5n8o]] - EcHel I + DNA<br />
**[[4n8o]], [[5n8o]] - EcHel I + DNA<br />
**[[2a0i]] - EcHel I (mutant) + DNA<BR />
**[[2a0i]] - EcHel I (mutant) + DNA<BR />
**[[6fws]], [[6fwr]] – EcHel I + DNA + ADP <br />
**[[1e0j]], [[1e0k]] – Hel 4D domain – Phage T7
**[[1e0j]], [[1e0k]] – Hel 4D domain – Phage T7


Line 27: Line 28:
**[[1q2z]], [[1rw2]] – hHel II KU86 C terminal – human - NMR<BR />
**[[1q2z]], [[1rw2]] – hHel II KU86 C terminal – human - NMR<BR />
**[[5y58]] – yHel II + DNA – yeast<br />
**[[5y58]] – yHel II + DNA – yeast<br />
**[[6yhz]] – yHel II C terminal - NMR<br />
**[[7egs]] – yHel II C terminal + RNA polymerase<br />
**[[5y59]] – yHel II subunit 2 + Sir4P peptide<br />
**[[5y59]] – yHel II subunit 2 + Sir4P peptide<br />
**[[3lfu]] – EcHel II <BR />
**[[3lfu]] – EcHel II <BR />
Line 35: Line 38:
**[[6ppr]], [[6ppu]] – MsHel + DNA – Cryo EM<br />
**[[6ppr]], [[6ppu]] – MsHel + DNA – Cryo EM<br />
**[[6yi2]] – EcHel 645-720 - NMR<br />
**[[6yi2]] – EcHel 645-720 - NMR<br />
**[[7egt]] – TtHel II + UvrB – ''Thermus thermophilus''<br />


*ATP-dependent helicase ATRX
*ATP-dependent helicase ATRX
Line 53: Line 57:
**[[5gn1]] – yFun C-terminal<br />
**[[5gn1]] – yFun C-terminal<br />


*ATP-dependent helicase Rho
*ATP-dependent helicase Rho or transcription termination factor  Rho


**[[3l0o]] – TmRho – ''Thermotoga maritima''<BR />
**[[3l0o]] – TmRho – ''Thermotoga maritima''<BR />
**[[3ice]] – EcRho + ADP + BeF3 + RNA<BR />
**[[6wa8]] – EcRho + ATP<br />
**[[2ht1]] - EcRho + RNA<BR />
**[[3ice]], [[8e5l]] – EcRho + ADP + BeF3 + RNA<BR />
**[[1a8v]], [[1a62]] – EcRho RNA-binding domain<br />
**[[2ht1]], [[5jjl]] - EcRho + RNA<BR />
**[[8e6w]] - EcRho + RNA – Cryo EM<br />
**[[1a8v]], [[1a62]] – EcRho RNA-binding domain 1-118<br />
**[[1a63]] - EcRho RNA-binding domain – NMR<br />
**[[1a63]] - EcRho RNA-binding domain – NMR<br />
**[[2a8v]] – EcRho RNA-binding domain + RNA<br />
**[[2a8v]] – EcRho RNA-binding domain + RNA<br />
**[[5jjk]] – EcRho (mutant) + RNA<br />
**[[1pv4]] – EcRho + DNA<br />
**[[1pv4]] – EcRho + DNA<br />
**[[1pvo]] – EcRho + ssRNA + ANPPNP<br />
**[[1pvo]] – EcRho + ssRNA + ANPPNP<br />
**[[1xpr]], [[1xpu]], [[1xpo]] - EcRho + ssRNA + antibiotic
**[[1xpr]], [[1xpu]], [[1xpo]] - EcRho + ssRNA + antibiotic<br />
**[[6duq]] – EcRho + NusG + Ru12<br />
**[[7x2r]] – EcRho in transcription termination complex<br />
**[[6xas]], [[6xav]], [[6z9p]], [[6z9s]], [[6z9t]], [[6z9q]], [[6z9r]], [[7adc]], [[7adb]], [[7add]], [[7ade]], [[8e3h]], [[8e5p]], [[8e70]] – EcRho in transcription termination complex – Cryo EM<br />
**[[7oqh]] – MtRho in transcription termination complex – Cryo EM<br />


*ATP-dependent helicase MFD see [[Transcription-repair coupling factor]]
*ATP-dependent helicase MFD see [[Transcription-repair coupling factor]]
Line 69: Line 80:
*ATP-dependent helicase HEPA
*ATP-dependent helicase HEPA


**[[6bog]] – EcHEPA  
**[[6bog]] – EcHEPA<br />
**[[4s20]], [[7mkn]], [[7mkq]] – EcHEPA in RNA polymerase complex – Cryo EM<br />
**[[7m8e]] – EcHEPA in elongation complex – Cryo EM<br />


*ATP-dependent helicase E1
*ATP-dependent helicase E1


**[[2v9p]] – PvE1 helicase domain – Bovine papillomavirus<br />
**[[2v9p]], [[5a9k]] – bPvE1 helicase domain – Bovine papillomavirus<br />
**[[2gxa]] – PvE1 + DNA + Mg-ADP<br />
**[[2gxa]] – bPvE1 + DNA + Mg-ADP<br />
**[[1tue]] – PvE1 + E2 – human papillomavirus
**[[7apd]] – bPvE1 in replication fork complex – Cryo EM<br />
**[[1tue]] – hPvE1 + E2 – human papillomavirus


*ATP-dependent helicase CHD
*ATP-dependent helicase CHD
Line 82: Line 96:
**[[4b4c]] – hCHD1 DNA-binding domain<br />
**[[4b4c]] – hCHD1 DNA-binding domain<br />
**[[2b2t]], [[2b2u]], [[2b2v]], [[2b2w]] – hCHD1 (mutant) + histone H3 tail<br />
**[[2b2t]], [[2b2u]], [[2b2v]], [[2b2w]] – hCHD1 (mutant) + histone H3 tail<br />
**[[4nw2]] – hCHD1 + NS1 peptide<br />
**[[4nw2]], [[4o42]] – hCHD1 + NS1 peptide<br />
**[[2ee1]] – hCHD4 chromodomain – NMR<br />
**[[2n5n]] – hCHD1 N-terminal – NMR<br />
**[[2l5u]] – hCHD4 PHD1 domain – NMR<br />
**[[2ee1]] – hCHD4 chromodomain 2 618-674 – NMR<br />
**[[2l75]] – hCHD4 PHD2 domain + histone H3 peptide– NMR<br />
**[[4o9i]] – hCHD4 chromodomain 1+2 499-677 <br />
**[[2l5u]] – hCHD4 PHD1 domain 365-420 – NMR<br />
**[[6q3m]] – hCHD4 PHD2+chromodomain 1,2 <br />
**[[2l75]] – hCHD4 PHD2 domain 446-501 + histone H3 peptide – NMR<br />
**[[6ryr]], [[6ryu]] – hCHD4 in nucleosome – Cryo EM<br />
**[[6guu]] – hCHD5 PHD2 domain <br />
**[[2epb]] – hCHD6 chromodomain – NMR<br />
**[[2epb]] – hCHD6 chromodomain – NMR<br />
**[[2ckc]], [[2v0e]], [[2v0f]] – hCHD7 BRK domain - NMR <br />
**[[2ckc]], [[2v0e]], [[2v0f]] – hCHD7 BRK domain - NMR <br />
Line 91: Line 110:
**[[2cka]] – hCHD8 <br />
**[[2cka]] – hCHD8 <br />
**[[2h1e]], [[2xb0]], [[3mwy]] – yCHD1 chromodomain<BR />
**[[2h1e]], [[2xb0]], [[3mwy]] – yCHD1 chromodomain<BR />
**[[2dy7]] - yCHD1 chromodomain 1 – NMR<BR />
**[[2dy7]] - yCHD1 chromodomain 1 1006-1274 – NMR<BR />
**[[2dy8]] - yCHD1 chromodomain 2 – NMR<BR />
**[[2dy8]] - yCHD1 chromodomain 2 – NMR<BR />
**[[3ted]] - yCHD1 chromodomain 1 + DNA<br />
**[[3ted]] - yCHD1 chromodomain 1 + DNA<br />
**[[5j70]] - yCHD1 chromodomain 1 + DNA<br />
**[[5o9g]], [[6g0l]], [[7nkx]], [[7tn2]] - yCHD1 in nucleosome – Cryo EM<br />
*ATP-dependent helicase Sth1
**[[6kmb]], [[6mr4]], [[6uy1]] – ySth1 bromodomain 1248-1359 <br />
**[[6lqz]] – ySth1 1183-1240 + TFIID subunit 14 - NMR<br />
**[[6kmj]], [[7f3s]] – ySth1 bromodomain + hisone H3<br />
**[[6vz4]], [[6vzg]] – ySth1 + ARP7 + ARP9 + RTT102 – Cryo EM<br />
**[[6k15]], [[6v8o]], [[6v92]] – ySth1 in RSC core – Cryo EM<br />
**[[6kw3]], [[6kw4]], [[6kw5]], [[6tda]] – ySth1 in RSC + nucleosome – Cryo EM<br />
*ATP-dependent helicase GTF2F2 or general transcription factor IIF subunit 2
**[[7nvr]], [[7nvt]], [[7nvu]], [[7nvy]], [[7nvz]], [[7nw0]] – hGTF2F2 in RNA polymerase II core – Cryo EM<br />
**[[5iy6]], [[5iy7]], [[5iy8]], [[5iy9]], [[5iya]], [[5iyb]], [[5iyc]], [[5iyd]], [[6o9l]], [[7edx]], [[7eg7]], [[7eg8]], [[7eg9]], [[7ega]], [[7egb]], [[7egc]] – hGTF2F2 in core-PIC – Cryo EM<br />
*ATP-dependent DNA helicase
**[[7a8r]] – bADDH + ADP - bovine<br />
**[[8add]] – ADDH - zebrafish<br />


*ATP-dependent DNA helicase PIF1
*ATP-dependent DNA helicase PIF1
Line 103: Line 143:
**[[6s3e]], [[7ada]] – ToPIF residues 64-507 – ''Thermus oshimai''<br />
**[[6s3e]], [[7ada]] – ToPIF residues 64-507 – ''Thermus oshimai''<br />
**[[6xzt]] – ToPIF (mutant)<br />
**[[6xzt]] – ToPIF (mutant)<br />
**[[6s3p]], [[7bil]] – ToPIF + DNA<br />
**[[6s3p]], [[7bil]], [[7oar]] – ToPIF + DNA<br />
**[[6s3h]], [[6s3i]], [[6s3m]], [[6s3n]], [[6s3o]] – ToPIF + DNA + ADP<br />
**[[6s3h]], [[6s3i]], [[6s3m]], [[6s3n]], [[6s3o]] – ToPIF + DNA + ADP<br />
**[[6l3g]] – PIF + DNA + ADP - ''Bacterioides''<br />
**[[5ftd]] – BaPIF - ''Bacterioides''<br />
**[[5fte]], [[6l3g]] – BaPIF + DNA + ADP<br />
**[[5ftb]] – BaPIF + AMPPNP<br />
**[[5ftc]], [[5ftf]] – BaPIF + ADP<br />
**[[7otj]] – PIF + DNA + ADP – ''Candida albicans''<br />
**[[7otj]] – PIF + DNA + ADP – ''Candida albicans''<br />


Line 124: Line 167:
**[[5e7i]] - hDDX3X residues 133-584<br />
**[[5e7i]] - hDDX3X residues 133-584<br />
**[[2jgn]] – hDDX3X helicase domain residues 408-579<BR />
**[[2jgn]] – hDDX3X helicase domain residues 408-579<BR />
**[[4a4d]] – hDDX5 N-terminal<br />
**[[4ct5]] – hDDX6 95-469<br />
**[[6uv0]] – hDDX17 core domain <br />
**[[3ly5]] – hDDX18 dead domain<BR />
**[[3ly5]] – hDDX18 dead domain<BR />
**[[6l5l]], [[6l5o]] – hDDX21 residues 120-495 (mutant)<br />
**[[6l5l]], [[6l5o]] – hDDX21 residues 120-495 (mutant)<br />
**[[6l5m]] – hDDX21 + AMP<br />
**[[6l5n]] – hDDX21 + RNA<br />
**[[2rb4]] – hDDX25 helicase domain<BR />
**[[2rb4]] – hDDX25 helicase domain<BR />
**[[2p6n]] – hDDX41 helicase domain (mutant) <BR />
**[[2p6n]] – hDDX41 helicase domain (mutant) <BR />
**[[5gvr]], [[5gvs]] – hDDX41 DEAD domain 169-399<br />
**[[8dpe]] – hDDX42<br />
**[[2e29]], [[2m3d]] - hDDX50 GUCT domain - NMR<BR />
**[[2e29]], [[2m3d]] - hDDX50 GUCT domain - NMR<BR />
**[[3iuy]] – hDDX53<br />
**[[1vec]] – hP54 N terminal<BR />
**[[1vec]] – hP54 N terminal<BR />
**[[3fho]] – Dbp5 – fission yeast<BR />
**[[3fho]] – fyDbp5 – fission yeast<BR />
**[[8ark]] – yDbp2<br />
**[[2kbe]] – yDbp5 N terminal – NMR<BR />
**[[2kbe]] – yDbp5 N terminal – NMR<BR />
**[[2kbf]] - yDbp5 C terminal – NMR<BR />
**[[2kbf]] - yDbp5 C terminal – NMR<BR />
Line 138: Line 186:
**[[2hjv]] – BsDbpA domain 2 – ''Bacillus subtilis''<BR />
**[[2hjv]] – BsDbpA domain 2 – ''Bacillus subtilis''<BR />
**[[2g0c]] - BsDbpA RNA-binding domain<br />
**[[2g0c]] - BsDbpA RNA-binding domain<br />
**[[3eaq]], [[3ear]], [[3eas]] – TtHera residues 215-426 - ''Thermus thermophilus''<br />
**[[3eaq]], [[3ear]], [[3eas]] – TtHera residues 215-426 <br />
**[[3i31]] - TtHera residues 431-517<br />
**[[3i31]], [[4i68]], [[5mao]] - TtHera RRM residues 431-517<br />
**[[4i69]] - TtHera RRM (mutant)<br />
**[[3i32]] - TtHera residues 218-517<br />
**[[3i32]] - TtHera residues 218-517<br />
**[[3nej]] - TtHera N terminal (mutant)<br />
**[[3nej]] - TtHera N terminal (mutant)<br />
**[[4kbf]], [[4kbg]] - TtHera core 8-372<br />
**[[5ivl]] – GsDB CSHA - ''Geobacillus stearothermophilus''<br />
**[[5ivl]] – GsDB CSHA - ''Geobacillus stearothermophilus''<br />
**[[5b88]] - EcDbp RRM-like domain - NMR<br />
**[[5b88]] - EcDbp RRM-like domain - NMR<br />
Line 151: Line 201:
*''Dead box ATP-dependent RNA helicase complexes''
*''Dead box ATP-dependent RNA helicase complexes''


**[[3fmo]], [[3fhc]] – hDBP5 + Nup214<BR />
**[[3fmo]], [[3fhc]] – hDbp5 + Nup214<BR />
**[[3fht]] – hDBP5 + AMPPNP + RNA<BR />
**[[3fht]] – hDbp5 + AMPPNP + RNA<BR />
**[[6cz5]] - hDDX3X residues 132-607 + AMP<br />
**[[6cz5]] - hDDX3X residues 132-607 + AMP<br />
**[[6o5f]] - hDDX3X + RNA<br />
**[[6o5f]], [[7liu]] - hDDX3X + RNA<br />
**[[5e7m]], [[5e7j]] – hDDX3X catalytic domain + nucleotide<br />
**[[3fe2]] – hDDX5 + ADP<br />
**[[2wax]], [[2way]], [[6f9s]] – hDDX6 C terminal + peptide<br />
**[[2pl3]] – hDDX10 DEAD domain + ADP<br />
**[[6uv1]], [[6uv2]], [[6uv3]], [[6uv4]] – hDDX17 core domain + RNA<br />
**[[6b4k]] – hDDX19B residues 54-479 + ANP<br />
**[[6b4k]] – hDDX19B residues 54-479 + ANP<br />
**[[6b4j]], [[6b4i]] – hDDX19B residues 54-479 + GLE1 + Nup42 + ANP<br />
**[[6b4j]], [[6b4i]] – hDDX19B residues 54-479 + GLE1 + Nup42 + ANP<br />
Line 160: Line 215:
**[[3g0h]] – hDDX19B residues 54-275 + ATP analog + RNA<BR />
**[[3g0h]] – hDDX19B residues 54-275 + ATP analog + RNA<BR />
**[[3ews]] - hDDX19B residues 54-275 + ADP<BR />
**[[3ews]] - hDDX19B residues 54-275 + ADP<BR />
**[[5e7m]], [[5e7j]] – hDDX3X catalytic domain + nucleotide<br />
**[[3b7g]] – hDDX20 + AMPPNP<br />
**[[3dkp]] – hDDX52 domain I + ADP<BR />
**[[6l5m]] – hDDX21 + AMP<br />
**[[2wax]], [[2way]] – hDDX6 C terminal + EDC3-FDF peptide<BR />
**[[6l5n]] – hDDX21 + RNA<br />
**[[7oi6]] – hDDX28 in 39S mitoribosome – Cryo EM<br />
**[[7apk]] – hDDX39B in transcription-export complex – Cryo EM<br />
**[[7evn]], [[7evo]] – hDDX42 in spliceosome – Cryo EM<br />
**[[8hk1]] – hDDX42 in pre-17S U2 – Cryo EM<br />
**[[7q3l]] – hDDX46 in pre-17S U2 – Cryo EM<br />
**[[3ber]] – hDDX47 + AMP<br />
**[[6icz]] – hDDX48 in spliceosome – Cryo EM<br />
**[[2j0s]], [[2j0q]], [[2hyi]] – hDDX48 + protein mago nashi homolog + RNA-binding protein 8A + protein CASC3 + RNA<BR />
**[[2j0s]], [[2j0q]], [[2hyi]] – hDDX48 + protein mago nashi homolog + RNA-binding protein 8A + protein CASC3 + RNA<BR />
**[[2j0u]] - hDDX48 + protein CASC3<BR />
**[[2j0u]] - hDDX48 + protein CASC3<BR />
**[[3dkp]] – hDDX52 domain I + ADP<br />
**[[3og8]] – hDDX58 C terminal + RNA<br />
**[[2db3]] – DmVASA residues 200-623 + RNA – ''Drosophila melanogaster''<br />
**[[2db3]] – DmVASA residues 200-623 + RNA – ''Drosophila melanogaster''<br />
**[[5nt7]] – DmVASA RecA-like domain + maternal effect protein<br />
**[[5nt7]] – DmVASA RecA-like domain + maternal effect protein<br />
**[[4d25]] – VASA (mutant) + RNA + AMPPNP - bee<br />
**[[3rrm]] – yDBP5 residues 91-482 (mutant) + GLE1 + NUP159 + ADP + IP6<BR />
**[[3rrm]] – yDBP5 residues 91-482 (mutant) + GLE1 + NUP159 + ADP + IP6<BR />
**[[3rrn]] - yDBP5 residues 91-482 (mutant) + GLE1 + IP6<BR />
**[[3rrn]] - yDbp5 residues 91-482 (mutant) + GLE1 + IP6<BR />
**[[5elx]] - yDBP5 residues 91-482 + RNA<br />
**[[5elx]] - yDbp5 residues 91-482 + RNA<br />
**[[3pew]], [[3pey]] - yDBP5 residues 91-482 (mutant) + ADP + BeF3 + RNA<BR />
**[[3pew]], [[3pey]] - yDbp5 residues 91-482 (mutant) + ADP + BeF3 + RNA<BR />
**[[3peu]], [[3pev]] - yDBP5 C-terminal (mutant) + GLE1 + IP6<BR />
**[[3peu]], [[3pev]] - yDbp5 C-terminal (mutant) + GLE1 + IP6<BR />
**[[3i5x]], [[3i5y]] – yMSS116 + AMPPNP + RNA<BR />
**[[3i5x]], [[3i5y]] – yMSS116 + AMPPNP + RNA<BR />
**[[3sqw]], [[3sqx]] - yMSS116 + AMPPNP + RNA<BR />
**[[3sqw]], [[3sqx]] - yMSS116 + AMPPNP + RNA<BR />
Line 177: Line 242:
**[[3i62]] - yMSS116 + ADP + AlF4 + RNA<BR />
**[[3i62]] - yMSS116 + ADP + AlF4 + RNA<BR />
**[[4tyn]] - yMSS116 + ADP + DNA<br />
**[[4tyn]] - yMSS116 + ADP + DNA<br />
**[[4db2]] - yMSS116 domain 2 + RNA<br />
**[[4db4]] - yMSS116 domain 2 + RNA + DNA<br />
**[[8arp]] – yDbp2 + ADP<br />
**[[2xau]], [[3kx2]], [[5jpt]] – yPrp43 + nucleotide<BR />
**[[2xau]], [[3kx2]], [[5jpt]] – yPrp43 + nucleotide<BR />
**[[5i8q]] - yPrp43 + ADPNP + RNA<br />
**[[5i8q]] - yPrp43 + ADPNP + RNA<br />
Line 183: Line 251:
**[[3jrv]] – DDX3X + protein K7 – Vaccinia virus<BR />
**[[3jrv]] – DDX3X + protein K7 – Vaccinia virus<BR />
**[[3nbf]] - TtHera N terminal (mutant) + 8-oxo-ADP<br />
**[[3nbf]] - TtHera N terminal (mutant) + 8-oxo-ADP<br />
**[[3moj]] - BsDBPA RNA-binding domain + RNA<br />
**[[4i67]] - TtHera RRM + RNA<br />
**[[3moj]] - BsDbpA RNA-binding domain + RNA<br />
**[[7pli]], [[7pmm]], [[7pmq]] - EcDbpA + RNA<br />
**[[6aic]] – SaDB CSHA N-terminal + AMP <br />
**[[6aic]] – SaDB CSHA N-terminal + AMP <br />
**[[7ase]], [[7ask]] – DDX60 in 43S preinitiation complex complex – Trypanosoma cruzi - Cryo EM<br />


* DEAH box RNA helicase
* DEAH box RNA helicase
Line 193: Line 264:
**[[6hyt]] – hDHX8 helicase domain + ADP<br />
**[[6hyt]] – hDHX8 helicase domain + ADP<br />
**[[6hyu]] – hDHX8 helicase domain + RNA<br />
**[[6hyu]] – hDHX8 helicase domain + RNA<br />
**[[5mqf]], [[7w59]] – hDHX8 in pre-C*-I complex – Cryo EM<br />
**[[3llm]] – hDHX9<br />
**[[3llm]] – hDHX9<br />
**[[5xdr]] – hDHX15 residues 110-795 (mutant)<br />
**[[5xdr]] – hDHX15 residues 110-795 (mutant)<br />
**[[8ejm]] – hDHX15 residues 110-795 + SUGP1<br />
**[[6sh6]], [[6sh7]] – hDHX15 + Nfkb-repressing factor + ADP<br />
**[[6sh6]], [[6sh7]] – hDHX15 + Nfkb-repressing factor + ADP<br />
**[[5z58]] – hDHX16 in spliceosome – Cryo EM<br />
**[[2n16]] – hDHX36 G-quadruplex domain - NMR<br />
**[[2n16]] – hDHX36 G-quadruplex domain - NMR<br />
**[[7a5p]] – hDHX38 in spliceosome – Cryo EM<br />
**[[2rqa]] – hDHX58 C terminal – NMR<br />
**[[2rqa]] – hDHX58 C terminal – NMR<br />
**[[3vyx]], [[3vyy]] – hDHX9 RNA-binding domain + RNA<br />
**[[3vyx]], [[3vyy]] – hDHX9 RNA-binding domain + RNA<br />
Line 203: Line 278:
**[[5e3h]] - hDHX58 residues 232-925 + RNA<br />
**[[5e3h]] - hDHX58 residues 232-925 + RNA<br />
**[[3eqt]]- hDHX58 residues 541-678 + RNA<br />
**[[3eqt]]- hDHX58 residues 541-678 + RNA<br />
**[[5vha]] – bDHX36 residues 150-1010 - bovine<br />
**[[5vha]] – bDHX36 residues 150-1010 <br />
**[[5vhc]], [[5vhd]] – bDHX36 residues 150-1010 + ADP<br />
**[[5vhc]], [[5vhd]] – bDHX36 residues 150-1010 + ADP<br />
**[[5vhe]] – bDHX36 residues 56-1010 + DNA<br />
**[[5vhe]] – bDHX36 residues 56-1010 + DNA<br />
**[[2rs6]], [[2rs7]] – mDHX9 RNA-binding domain – NMR<br />
**[[2rs6]], [[2rs7]] – mDHX9 RNA-binding domain – NMR<br />
**[[6up2]] – mDHX36  <br />
**[[6up4]] – mDHX36 + ADP <br />
**[[6up4]] – mDHX36 + ADP <br />
**[[6up3]] – mDHX36 + ANP <br />
**[[5n6e]], [[5n8r]], [[5n8s]], [[5n8u]], [[5n8z]], [[5n90]], [[5n94]], [[5n98]], [[5n9a]], [[5n9f]] – DmDHX36 + DNA <br />
**[[7dcq]] – yPrp2 – Cryo EM<br />
**[[7dcq]] – yPrp2 – Cryo EM<br />
**[[7dcr]] – yPrp2 + Spp2 – Cryo EM<br />
**[[7dcr]] – yPrp2 + Spp2 – Cryo EM<br />
**[[7dd3]] – yPrp2 + Spp2 + RNA – Cryo EM<br />
**[[7dd3]] – yPrp2 + Spp2 + RNA – Cryo EM<br />
**[[7dcp]] – yPrp2 + Spp2 + ADP – Cryo EM<br />
**[[7dcp]] – yPrp2 + Spp2 + ADP – Cryo EM<br />
**[[7d4i]] – yDhr1 in 90S ribosome – Cryo EM<br />
**[[6h57]] – yDhr1 <br />
**[[6zwx]] – EcHrpA<br />
**[[6zwx]] – EcHrpA<br />
**[[7akp]] – EcHrpA (mutant)<br />
**[[7akp]] – EcHrpA (mutant)<br />
Line 227: Line 307:
**[[6c90]] - hDOB1 residues 70-600 + ZCCHC8<br />
**[[6c90]] - hDOB1 residues 70-600 + ZCCHC8<br />
**[[6d6r]], [[6d6q]] - hDOB1 in exosome + RNA – Cryo EM<br />
**[[6d6r]], [[6d6q]] - hDOB1 in exosome + RNA – Cryo EM<br />
**[[7z4y]] – hMTR4 in exosome – Cryo EM<br />
**[[5z3g]], [[6c0f]], [[6cb1]], [[6em3]], [[6em4]], [[6em5]], [[7r6q]], [[7r72]], [[8e5t]], [[8etg]], [[8eti]], [[8euy]], [[8ev3]] - yHas1 in 60S ribosome biogenesis intermediate + RNA – Cryo EM<br />
**[[2xzl]] – yNAM7 CH and helicase domains + RNA<BR />
**[[2xzl]] – yNAM7 CH and helicase domains + RNA<BR />
**[[2xgj]] – yDOB1 residues 81-1073 + RNA<BR />
**[[2xgj]] – yDOB1 residues 81-1073 + RNA<BR />
Line 234: Line 316:
**[[5suq]] – ySUB2 + TEX1 + THO2 <br />
**[[5suq]] – ySUB2 + TEX1 + THO2 <br />
**[[5sup]] – ySUB2 + YRA1 + RNA <br />
**[[5sup]] – ySUB2 + YRA1 + RNA <br />
**[[7apx]], [[7luv]], [[7v2y]] – ySUB2 in THO complex – Cryo EM <br />
**[[2vso]], [[2vsx]] – yEIF4A + initiation factor 4F middle domain<BR />
**[[2vso]], [[2vsx]] – yEIF4A + initiation factor 4F middle domain<BR />
**[[2g9n]] - hEIF4A dead domain
**[[2g9n]] - hEIF4A dead domain
Line 239: Line 322:
*Viral ATP-dependent RNA helicase NS3
*Viral ATP-dependent RNA helicase NS3


**[[3o8b]], [[3o8d]], [[1cu1]], [[8ohm]], [[1hei]], [[4a92]], [[3rvb]] – HvHel NS3 residues 1186-1658 – Hepatitis C virus<BR />
**[[3o8b]], [[3o8d]], [[1cu1]], [[8ohm]], [[1hei]], [[4a92]], [[3rvb]], [[5wdx]] – HvHel NS3 residues 1186-1658 – Hepatitis C virus<BR />
**[[1onb]], [[1jr6]] - HvHel NS3 arginine-rich domain residues 1353-1507 – NMR<BR />
**[[1onb]], [[1jr6]] - HvHel NS3 arginine-rich domain residues 1353-1507 – NMR<BR />
**[[2jlq]], [[2bhr]], [[2bmf]], [[2whx]], [[2wzq]] – DvHel NS3 residues 1646-2092 – Dengue virus<BR />
**[[2jlq]], [[2bhr]], [[2bmf]], [[2whx]], [[2wzq]] – DvHel NS3 residues 1646-2092 – Dengue virus<BR />
Line 246: Line 329:
**[[2v8o]], [[2wv9]] - Hel NS3 helicase domain – Murray valley encephalitis virus<BR />
**[[2v8o]], [[2wv9]] - Hel NS3 helicase domain – Murray valley encephalitis virus<BR />
**[[2qeq]] - Hel NS3 residues 1691-2124 – Kunjin virus<BR />
**[[2qeq]] - Hel NS3 residues 1691-2124 – Kunjin virus<BR />
**[[5txg]], [[5jmt]], [[5vi7]], [[5jps]], [[6mh3]] - ZvHel NS3 helicase domain – Zika virus<br />
**[[5txg]], [[5jmt]], [[5rhy]], [[5vi7]], [[5jps]], [[6adw]], [[6mh3]] - ZvHel NS3 helicase domain 1674-2119 – Zika virus<br />
**[[5k8u]], [[5k8l]], [[5k8i]], [[5jwh]], [[5jrz]] - ZvHel NS3 residues 164-621<br />
**[[5k8u]], [[5k8l]], [[5k8i]], [[5jwh]], [[5jrz]] - ZvHel NS3 residues 164-621<br />
**[[5x8y]] - ZvHel NS1 residues 168-352<br />
**[[5x8y]] - ZvHel NS1 residues 168-352<br />
Line 252: Line 335:
**[[2v6j]] - KvHel helicase domain (mutant)<br />
**[[2v6j]] - KvHel helicase domain (mutant)<br />
**[[5wso]], [[5gvu]] - Hel NS3 residues 1939-2414 – bovine viral diarrhea virus<br />
**[[5wso]], [[5gvu]] - Hel NS3 residues 1939-2414 – bovine viral diarrhea virus<br />
**[[1yks]], [[5ffm]] - Hel NS3 helicase domain – yellow fever virus<br />
**[[7wd4]] - Hel NS3 helicase domain – ilheus virus<br />
**[[4cbg]], [[4cbh]], [[4cbi]], [[4cbl]], [[4cbm]] - Hel NS3 helicase domain – pestivirus<br />
**[[7nno]], [[7oj4]] - TbevHel NS3 helicase domain – Tick-bourne encephalitis virus<br />


*''Viral ATP-dependent RNA helicase NS3 complexes''
*''Viral ATP-dependent RNA helicase NS3 complexes''


**[[3o8c]], [[3o8r]], [[3kqh]], [[3kqk]], [[3kql]], [[3kqn]], [[3kqu]], [[1a1v]] - HvHel NS3 + RNA<BR />
**[[3o8c]], [[3o8r]], [[3kqh]], [[3kqk]], [[3kql]], [[3kqn]], [[3kqu]], [[1a1v]] - HvHel NS3 + RNA<BR />
**[[2f55]] - HvHel NS3 + DNA<br />
**[[2f9v]] - HvHel NS3 protease domain + polyprotein<BR />
**[[2f9v]] - HvHel NS3 protease domain + polyprotein<BR />
**[[2a4g]], [[1rtl]], [[1w3c]], [[1dxp]] - HvHel NS3 protease domain + NS4A peptide<BR />
**[[2a4g]], [[1rtl]], [[1w3c]], [[1dxp]] - HvHel NS3 protease domain + NS4A peptide<BR />
**[[2zjo]], [[4ok5]], [[4oks]], [[4wxp]], [[4wxr]] - HvHel NS3 + inhibitor<br />
**[[5e4f]] - HvHel NS3 + ADP<br />
**[[2a4q]], [[2a4r]], [[2f9u]], [[2fm2]], [[1dy8]], [[1dy9]] - HvHel NS3 protease domain + NS4A peptide + inhibitor<BR />
**[[2a4q]], [[2a4r]], [[2f9u]], [[2fm2]], [[1dy8]], [[1dy9]] - HvHel NS3 protease domain + NS4A peptide + inhibitor<BR />
**[[2jlr]] - DvHel NS3 residues 1646-2092 + AMPPNP<BR />
**[[2jlr]] - DvHel NS3 helicase domain + AMPPNP<BR />
**[[2jls]] - DvHel NS3 residues 1646-2092 + ADP<BR />
**[[2jls]] - DvHel NS3 helicase domain + ADP<BR />
**[[2jlu]], [[2jlw]], [[5xc6]] - DvHel NS3 residues 1646-2092 + RNA<BR />
**[[2jlu]], [[2jlw]], [[5xc6]] - DvHel NS3 helicase domain + RNA<BR />
**[[2jlv]] - DvHel NS3 residues 1646-2092 + AMPPNP + RNA<BR />
**[[2jlv]] - DvHel NS3 helicase domain + AMPPNP + RNA<BR />
**[[2jlx]], [[2jly]], [[2jlz]] - DvHel NS3 residues 1646-2092 + ADP + RNA<BR />
**[[2jlx]], [[2jly]], [[2jlz]] - DvHel NS3 helicase domain + ADP + RNA<BR />
**[[2vbc]] - DvHel NS3 residues 1475-2092 + NS2A peptide<br />
**[[2vbc]] - DvHel NS3 residues helicase domain + NS2A peptide<br />
**[[5k8t]] - ZvHel NS3 residues 164-621 + GTP<br />
**[[5k8t]] - ZvHel NS3 residues 164-621 + GTP<br />
**[[5gjc]] - ZvHel NS3 residues 1676-2119 + ATP<br />
**[[5gjc]] - ZvHel NS3 helicase domain + ATP<br />
**[[5gjb]] - ZvHel NS3 residues 1676-2119 + RNA<br />
**[[5gjb]] - ZvHel NS3 helicase domain + RNA<br />
**[[5y4z]] - ZvHel NS3 residues 1676-2119 + AMPPNP<br />
**[[5y4z]] - ZvHel NS3 helicase domain + AMPPNP<br />
**[[5rhg]], ]]5rhh]], [[5rhi]], [[5rhj]], [[5rhk]], [[5rhl]], [[5rhm]], [[5rho]], [[5rhp]], [[5rhq]], [[5rhr]], [[5rhs]], [[5rht]], [[5rhu]], [[5rhv]], [[5rhw]], [[5rhx]] - ZvHel NS3 helicase domain + inhibitor<br />
**[[5y6m]], [[5y6n]], [[6adx]], [[6ady]], [[6rwz]], [[6s0j]] - ZvHel NS3 helicase domain + ADP<br />
**[[7blv]], [[7nxu]] - TbevHel NS3 helicase domain + ADP <br />
**[[7bm0]] - TbevHel NS3 helicase domain + AMPPNP <br />
**[[6jim]] - Hel NS3 helicase domain + RNA – chikungunya virus<br />


*ATP-dependent RNA helicase SUV3
*ATP-dependent RNA helicase SUV3


**[[3rc3]] – hSUV3 residues 47-722<BR />
**[[3rc3]], [[7w1r]] – hSUV3 residues 47-722<BR />
**[[3og8]] – hDDX58 C terminal + RNA<BR />
**[[3og8]] – hDDX58 C terminal + RNA<BR />
**[[3rc8]] - hSUV3 residues 47-722 + RNA<BR />
**[[3rc8]] - hSUV3 residues 47-722 + RNA<BR />
Line 305: Line 400:
**[[4bru]] – yDhh1 (mutant) + EDC3<br />
**[[4bru]] – yDhh1 (mutant) + EDC3<br />
**[[4brw]] – yDhh1 (mutant) + PAT1<br />
**[[4brw]] – yDhh1 (mutant) + PAT1<br />
**[[1s2m]] – yDhh1p<br />


*Werner syndrome ATP-dependent DNA helicase
*Werner syndrome ATP-dependent DNA helicase
Line 324: Line 420:
**[[5lb5]], [[5lb3]] – hQ5 + ADP<br />
**[[5lb5]], [[5lb3]] – hQ5 + ADP<br />
**[[5lba]] – hQ5 + urea derivative<br />
**[[5lba]] – hQ5 + urea derivative<br />
**[[7zml]], [[7zmm]], [[7zmn]], [[7zmp]], [[7zmq]], [[7zmt]], [[7zmv]] – hQ5 + nanobody<br />


*ATP-dependent DNA helicase RecG
*ATP-dependent DNA helicase RecG
Line 356: Line 453:
**[[1in5]], [[1in6]], [[1in7]], [[1in8]], [[1j7k]] – TmRuvB (mutant)<br />
**[[1in5]], [[1in6]], [[1in7]], [[1in8]], [[1j7k]] – TmRuvB (mutant)<br />
**[[3pfi]] – RuvB + ADP – ''Campylobacter jejuni''<br />
**[[3pfi]] – RuvB + ADP – ''Campylobacter jejuni''<br />
**[[6blb]] - PaRuvB + ADP - ''Pseudomonas aeruginosa''<br />
**[[6blb]], [[7x5b]] - PaRuvB + ADP - ''Pseudomonas aeruginosa''<br />
**[[7x5a]], [[7x7p]], [[7x7q]] - PaRuvB in Holliday junciton – Cryo EM<br />
**[[7pbl]], [[7pbm]], [[7pbn]], [[7pbo]], [[7pbp]], [[7pbq]], [[7pbr]], [[7pbs]], [[7pbt]], [[7pbu]] – RuvA + RuvB + DNA – Streptococcus thermophiles – Cryo EM<br />


*ATP-dependent DNA helicase RuvB-like
*ATP-dependent DNA helicase RuvB-like
Line 390: Line 489:


**[[2d7e]] – EcPriA DNA-binding domain<BR />
**[[2d7e]] – EcPriA DNA-binding domain<BR />
**[[2d7g]], [[2d7h]], [[2dwl]], [[2dwm]], [[2dwn]] – EcPriA N terminal + polynucleotide
**[[2d7g]], [[2d7h]], [[2dwl]], [[2dwm]], [[2dwn]] – EcPriA N terminal + polynucleotide<br />
**[[6dgd]] – KpPriA + DNA – ''Klebsiella pneumoniae''<br />
**[[4nl4]] – KpPriA + ADP<br />
**[[4nl8]] – KpPriA + peptide<br />


*ATP-dependent DNA helicase PcrA
*ATP-dependent DNA helicase PcrA
Line 402: Line 504:
*DnaB helicase or replicative DNA helicase
*DnaB helicase or replicative DNA helicase


**[[3gxv]] – HpDnaB – ''Helicobacter pylori''<BR />
**[[3gxv]], [[4zc0]] – HpDnaB – ''Helicobacter pylori''<BR />
**[[4a1f]] – HpDnaB C terminal<br />
**[[4a1f]] – HpDnaB C terminal<br />
**[[2r6d]] – BsDnaB – ''Bacillus stearothermophilus''<BR />
**[[2r6d]] – BsDnaB – ''Bacillus stearothermophilus''<BR />
Line 413: Line 515:
**[[6frg]], [[6fre]] – SyDnaB (mutant) <br />
**[[6frg]], [[6fre]] – SyDnaB (mutant) <br />
**[[6bbm]] – EcDnaB + replication protein P – Cryo EM<br />
**[[6bbm]] – EcDnaB + replication protein P – Cryo EM<br />
**[[7t21]] – EcDnaB + DNA + ADP – Cryo EM<br />
**[[7t22]], [[9eco]] – EcDnaB (mutant) + DNA primase + DNA + ADP – Cryo EM<br />
**[[1b79]] - EcDnaB N terminal<BR />
**[[1b79]] - EcDnaB N terminal<BR />
**[[1jwe]] - EcDnaB N terminal - NMR<BR />  
**[[1jwe]] - EcDnaB N terminal - NMR<BR />  
**[[6kza]] - EcDnaB C terminal + DnaC<br />
**[[6kza]] - EcDnaB C terminal + DnaC<br />
**[[7t20]] - EcDnaB + DNA + AMPPNP<br />
**[[4esv]] – BsDnaB + DNA<br />
**[[4m4w]] – BsDnaB in primosome <br />
**[[2r6c]], [[2r6a]] – BsDnaB + DnaG helicase-binding domain<br />
**[[2r6c]], [[2r6a]] – BsDnaB + DnaG helicase-binding domain<br />
**[[6bs8]], [[6own]] – MsDnaB 238-376<br />
**[[6bs8]], [[6own]] – MsDnaB 238-376<br />
**[[6rix]], [[6riy]] – DnaB (mutant) – ''Mycobacterium chimaera''<br />
**[[6rix]], [[6riy]] – DnaB (mutant) – ''Mycobacterium chimaera''<br />
**[[6own]], [[6bs8]] – MsDnaB 238-376<br />
**[[6own]], [[6bs8]] – MsDnaB 238-376<br />
**[[6t66]] – DnaB + GDP – Vibrio cholerae<br />
**[[7qxm]] – VcDnaB – ''Vibrio cholerae''<br />
**[[6t66]] – VcDnaB + GDP <br />
**[[8a3v]] – VcDnaB + DCIA<br />
**[[4nmn]] – AaDnaB + ADP – ''Aquifex aeolicus''<br />


*DnaC helicase
*DnaC helicase
Line 426: Line 536:
**[[2vyf]]– GkDnaC – ''Geobacillus kaustophilus''<br />
**[[2vyf]]– GkDnaC – ''Geobacillus kaustophilus''<br />
**[[2vye]] – GkDnaC + DNA <br />
**[[2vye]] – GkDnaC + DNA <br />
**[[3ec2]] – AaDnaC – ''Aquifex aeolicus''<br />
**[[3ec2]] – AaDnaC <br />
**[[3ecc]] – AaDnaC + ADP<br />
**[[3ecc]] – AaDnaC + ADP<br />
**[[6qel]] – EcDnaC + replicative DNA Hel - Cryo EM<br />
**[[6qel]] – EcDnaC + replicative DNA Hel - Cryo EM<br />
Line 433: Line 543:
*Helicase BLM
*Helicase BLM


**[[5lup]] – hBLM DHBN domain <br />
**[[7auc]] – hBLM 636-1298<br />
**[[7aud]] – hBLM 636-1298 + DNA<br />
**[[5lup]], [[5mk5]] – hBLM DHBN domain 362-414<br />
**[[2mh9]], [[3we2]], [[3we3]] – hBLM RQC domain 1068-1209<br />
**[[2kv2]] – hBLM HRDC domain 1210-1294 - NMR<br />
**[[5lut]] – BLM DHBN domain - chicken<br />
**[[5lut]] – BLM DHBN domain - chicken<br />
**[[5lus]] – BLM DHBN domain - pelican<br />
**[[5lus]] – BLM DHBN domain - pelican<br />
Line 440: Line 554:


**[[4w7s]] – yCa8<br />
**[[4w7s]] – yCa8<br />
**[[5dtu]] – CtPrp28 + ADP<br />


*Helicase NSP see [[Nonstructural protein]]
*Helicase NSP see [[Nonstructural protein]]
Line 454: Line 569:
*Helicase SNF2
*Helicase SNF2


**[[5x0x]], [[5x0y]], [[5z3o]], [[5z3u]], [[5z3v]], [[6iy2]], [[6iy3]], [[6uxw]], [[7c4j]], [[7egm]], [[7egp]] – ySNF2 in nucleosome – Cryo EM<br />
**[[1z5z]] – SsSNF2 C terminal – ''Sulfolobus solfataricus''<br />
**[[1z5z]] – SsSNF2 C terminal – ''Sulfolobus solfataricus''<br />
**[[1z63]] - SsSNF2 ATPase core + DNA<br />
**[[1z63]] - SsSNF2 ATPase core + DNA<br />
Line 460: Line 576:
*Helicase SKI2
*Helicase SKI2


**[[7qdy]], [[7qdz]], [[7qe0]] – hSKI2W + TPR repeat protein + SKI8 + RNA – Cryo EM<br />
**[[7qdr]], [[7qds]] – hSKI2W + TPR repeat protein + SKI8 – Cryo EM<br />
**[[4buj]] – ySKI2 + superkiller protein + SKI8 <br />
**[[4a4k]] – ySKI2 insertion domain<br />
**[[4a4k]] – ySKI2 insertion domain<br />
**[[4a4z]] – ySKI2 + AMPPNP<br />
**[[4a4z]] – ySKI2 + AMPPNP<br />
Line 476: Line 595:
**[[5ivw]] - hXPD + XPB + TFIIH ubunits 2,3,4,5 + SCP-X + SCP-Ybr />
**[[5ivw]] - hXPD + XPB + TFIIH ubunits 2,3,4,5 + SCP-X + SCP-Ybr />


*Pre-mRNA-splicing Helicase or Brr2
*Pre-mRNA-splicing Helicase or Brr2 or ski2-like


**[[6s8o]] – hBrr2 394-2136 (mutant)<br />
**[[4f92]] – hBrr2 402-2125<br />
**[[6s8q]], [[6s9i]] – hBrr2 394-2136 + pre-mRNA-splicing factor 8<br />
**[[4f91]] – hBrr2 helicase region 394-213<br />
**[[6s8o]] – hBrr2 helicase region (mutant)<br />
**[[4f93]] – hBrr2 helicase region (mutant) + ATP + ADP<br />
**[[8bch]] – hBrr2 helicase region + sulfaguanidine<br />
**[[5urj]], [[5urk]], [[5urm]] – hBrr2 helicase region + inhibitor<br />
**[[4kit]], [[6s8q]], [[6s9i]], [[8bc9]] – hBrr2 helicase region + pre-mRNA-splicing factor 8<br />
**[[8bc8]], [[8bcb]], [[8bcc]], [[8bcd]], [[8bcf]] , [[8bcg]] – hBrr2 helicase region + pre-mRNA-splicing factor 8 + inhibitor<br />
**[[7os2]] – hBrr2 helicase region + pre-mRNA-splicing factor 8 + telomere length and silencing protein – Cryo EM<br />
**[[7os1]] – hBrr2 helicase region + WBP-4 – Cryo EM<br />
**[[7px3]] – hBrr2 helicase region + pre-mRNA-splicing factor 8 + TSSC4 – Cryo EM<br />
**[[3jcm]], [[3jcr]], [[5gap]] – hBrr2 helicase region in U4/U6.U5 snRNP complex – Cryo EM<br />
**[[7bdi]], [[7bdj]], [[7bdk]], [[7bdl]] – hBrr2 394-2136 + pre-mRNA-splicing factor 8 + nucleotide<br />
**[[7bdi]], [[7bdj]], [[7bdk]], [[7bdl]] – hBrr2 394-2136 + pre-mRNA-splicing factor 8 + nucleotide<br />
**[[3hib]], [[3im1]], [[3im2]] – yBrr2 2nd SEC63 domain<br />
**[[3hib]], [[3im1]], [[3im2]] – yBrr2 2nd SEC63 domain<br />
**[[4bgd]], [[5m5p]], [[5m52]], [[5dca]] – yBrr2 + pre-mRNA-splicing factor 8<br />
**[[4bgd]], [[5m5p]], [[5m52]], [[5dca]] – yBrr2 + pre-mRNA-splicing factor 8<br />
**[[6qws]] – CtBrr2 <br />
**[[5gan]], [[5gao]] – yBrr2 in U4/U6.U5 complex – Cryo EM<br />
**[[5lj5]], [[5lqw]] – yBrr2 in spliceosome – Cryo EM<br />
**[[6qws]] – CtBrr2 473-2193<br />
**[[4rvq]] – CtBrr2 PWI-like domain 287-422<br />
**[[6qv4]] – CtBrr2 + ATPgS<br />
**[[6qv4]] – CtBrr2 + ATPgS<br />
**[[6qv3]] – CtBrr2 + ADP<br />


*crispr-associated helicase Cas3
*crispr-associated helicase Cas3
Line 496: Line 629:
**[[5gqh]] – PaCas3 + anti-crispr protein 3 <br />
**[[5gqh]] – PaCas3 + anti-crispr protein 3 <br />
**[[5b7i]] – PaCas3 + ACRF3<br />
**[[5b7i]] – PaCas3 + ACRF3<br />
*Helicase aquarius or intron-binding protein aquarius
**[[4pj3]] – hHA + AMPPNP <br />
**[[6id0]], [[6id1]] – hHA in spliceosome – Cryo EM<br />
**[[3jb9]] – fyHA in spliceosome – Cryo EM<br />


}}
}}


[[Category:Topic Page]]
[[Category:Topic Page]]

Latest revision as of 19:23, 21 December 2024

3D structures of helicase3D structures of helicase

Updated on 21-December-2024

  • ATP-dependent DNA helicase TA0057
    • 5h8w – TaTA0 + DNA – Thermoplasma acidophilum
  • ATP-dependent DNA helicase LHR
    • 5v9x – MsLHR + DNA – Mycobacterium smegmatis
  • Dead box ATP-dependent RNA helicase
    • 4xw3 – hDDX1 SPRY domain
    • 2i4i – hDDX3X residues 167-581
    • 4px9 - hDDX3X residues 135-407
    • 4pxa - hDDX3X residues 135-407 (mutant)
    • 5e7i - hDDX3X residues 133-584
    • 2jgn – hDDX3X helicase domain residues 408-579
    • 4a4d – hDDX5 N-terminal
    • 4ct5 – hDDX6 95-469
    • 6uv0 – hDDX17 core domain
    • 3ly5 – hDDX18 dead domain
    • 6l5l, 6l5o – hDDX21 residues 120-495 (mutant)
    • 2rb4 – hDDX25 helicase domain
    • 2p6n – hDDX41 helicase domain (mutant)
    • 5gvr, 5gvs – hDDX41 DEAD domain 169-399
    • 8dpe – hDDX42
    • 2e29, 2m3d - hDDX50 GUCT domain - NMR
    • 3iuy – hDDX53
    • 1vec – hP54 N terminal
    • 3fho – fyDbp5 – fission yeast
    • 8ark – yDbp2
    • 2kbe – yDbp5 N terminal – NMR
    • 2kbf - yDbp5 C terminal – NMR
    • 3gfp - yDbp5 C-terminal
    • 2hjv – BsDbpA domain 2 – Bacillus subtilis
    • 2g0c - BsDbpA RNA-binding domain
    • 3eaq, 3ear, 3eas – TtHera residues 215-426
    • 3i31, 4i68, 5mao - TtHera RRM residues 431-517
    • 4i69 - TtHera RRM (mutant)
    • 3i32 - TtHera residues 218-517
    • 3nej - TtHera N terminal (mutant)
    • 4kbf, 4kbg - TtHera core 8-372
    • 5ivl – GsDB CSHA - Geobacillus stearothermophilus
    • 5b88 - EcDbp RRM-like domain - NMR
    • 5gju - EcDbp residues 6-210
    • 5gi4 - EcDbp residues 218-445
    • 7bbb - EcDbpA residues 218-445 - NMR
    • 6aib – SaDB CSHA N-terminal – Staphylococcus aureus
  • Dead box ATP-dependent RNA helicase complexes
    • 3fmo, 3fhc – hDbp5 + Nup214
    • 3fht – hDbp5 + AMPPNP + RNA
    • 6cz5 - hDDX3X residues 132-607 + AMP
    • 6o5f, 7liu - hDDX3X + RNA
    • 5e7m, 5e7j – hDDX3X catalytic domain + nucleotide
    • 3fe2 – hDDX5 + ADP
    • 2wax, 2way, 6f9s – hDDX6 C terminal + peptide
    • 2pl3 – hDDX10 DEAD domain + ADP
    • 6uv1, 6uv2, 6uv3, 6uv4 – hDDX17 core domain + RNA
    • 6b4k – hDDX19B residues 54-479 + ANP
    • 6b4j, 6b4i – hDDX19B residues 54-479 + GLE1 + Nup42 + ANP
    • 3fmp – hDDX19B + Nup214
    • 3g0h – hDDX19B residues 54-275 + ATP analog + RNA
    • 3ews - hDDX19B residues 54-275 + ADP
    • 3b7g – hDDX20 + AMPPNP
    • 6l5m – hDDX21 + AMP
    • 6l5n – hDDX21 + RNA
    • 7oi6 – hDDX28 in 39S mitoribosome – Cryo EM
    • 7apk – hDDX39B in transcription-export complex – Cryo EM
    • 7evn, 7evo – hDDX42 in spliceosome – Cryo EM
    • 8hk1 – hDDX42 in pre-17S U2 – Cryo EM
    • 7q3l – hDDX46 in pre-17S U2 – Cryo EM
    • 3ber – hDDX47 + AMP
    • 6icz – hDDX48 in spliceosome – Cryo EM
    • 2j0s, 2j0q, 2hyi – hDDX48 + protein mago nashi homolog + RNA-binding protein 8A + protein CASC3 + RNA
    • 2j0u - hDDX48 + protein CASC3
    • 3dkp – hDDX52 domain I + ADP
    • 3og8 – hDDX58 C terminal + RNA
    • 2db3 – DmVASA residues 200-623 + RNA – Drosophila melanogaster
    • 5nt7 – DmVASA RecA-like domain + maternal effect protein
    • 4d25 – VASA (mutant) + RNA + AMPPNP - bee
    • 3rrm – yDBP5 residues 91-482 (mutant) + GLE1 + NUP159 + ADP + IP6
    • 3rrn - yDbp5 residues 91-482 (mutant) + GLE1 + IP6
    • 5elx - yDbp5 residues 91-482 + RNA
    • 3pew, 3pey - yDbp5 residues 91-482 (mutant) + ADP + BeF3 + RNA
    • 3peu, 3pev - yDbp5 C-terminal (mutant) + GLE1 + IP6
    • 3i5x, 3i5y – yMSS116 + AMPPNP + RNA
    • 3sqw, 3sqx - yMSS116 + AMPPNP + RNA
    • 3i61, 4tyw, 4tyy, 4tz0, 4tz6 - yMSS116 + nucleotide + BeF3 + RNA
    • 3i62 - yMSS116 + ADP + AlF4 + RNA
    • 4tyn - yMSS116 + ADP + DNA
    • 4db2 - yMSS116 domain 2 + RNA
    • 4db4 - yMSS116 domain 2 + RNA + DNA
    • 8arp – yDbp2 + ADP
    • 2xau, 3kx2, 5jpt – yPrp43 + nucleotide
    • 5i8q - yPrp43 + ADPNP + RNA
    • 5ltk, 5ltj, 5d0u - CtPrp43 + ADP – Chaetomium thermophilum
    • 5lta - CtPrp43 + ADP + RNA
    • 3jrv – DDX3X + protein K7 – Vaccinia virus
    • 3nbf - TtHera N terminal (mutant) + 8-oxo-ADP
    • 4i67 - TtHera RRM + RNA
    • 3moj - BsDbpA RNA-binding domain + RNA
    • 7pli, 7pmm, 7pmq - EcDbpA + RNA
    • 6aic – SaDB CSHA N-terminal + AMP
    • 7ase, 7ask – DDX60 in 43S preinitiation complex complex – Trypanosoma cruzi - Cryo EM
  • DEAH box RNA helicase
    • 2eqs – hDHX8 S1 domain residues 260-355
    • 3i4u – hDHX8 residues 950-1183
    • 6hys – hDHX8 helicase domain residues 548-1220 + ATP
    • 6hyt – hDHX8 helicase domain + ADP
    • 6hyu – hDHX8 helicase domain + RNA
    • 5mqf, 7w59 – hDHX8 in pre-C*-I complex – Cryo EM
    • 3llm – hDHX9
    • 5xdr – hDHX15 residues 110-795 (mutant)
    • 8ejm – hDHX15 residues 110-795 + SUGP1
    • 6sh6, 6sh7 – hDHX15 + Nfkb-repressing factor + ADP
    • 5z58 – hDHX16 in spliceosome – Cryo EM
    • 2n16 – hDHX36 G-quadruplex domain - NMR
    • 7a5p – hDHX38 in spliceosome – Cryo EM
    • 2rqa – hDHX58 C terminal – NMR
    • 3vyx, 3vyy – hDHX9 RNA-binding domain + RNA
    • 6q6r – hDHX36 G-quadruplex domain + DNA
    • 2n21 – hDHX36 G-quadruplex domain + DNA - NMR
    • 5e3h - hDHX58 residues 232-925 + RNA
    • 3eqt- hDHX58 residues 541-678 + RNA
    • 5vha – bDHX36 residues 150-1010
    • 5vhc, 5vhd – bDHX36 residues 150-1010 + ADP
    • 5vhe – bDHX36 residues 56-1010 + DNA
    • 2rs6, 2rs7 – mDHX9 RNA-binding domain – NMR
    • 6up2 – mDHX36
    • 6up4 – mDHX36 + ADP
    • 6up3 – mDHX36 + ANP
    • 5n6e, 5n8r, 5n8s, 5n8u, 5n8z, 5n90, 5n94, 5n98, 5n9a, 5n9f – DmDHX36 + DNA
    • 7dcq – yPrp2 – Cryo EM
    • 7dcr – yPrp2 + Spp2 – Cryo EM
    • 7dd3 – yPrp2 + Spp2 + RNA – Cryo EM
    • 7dcp – yPrp2 + Spp2 + ADP – Cryo EM
    • 7d4i – yDhr1 in 90S ribosome – Cryo EM
    • 6h57 – yDhr1
    • 6zwx – EcHrpA
    • 7akp – EcHrpA (mutant)
    • 6zww – EcHrpA + RNA
    • 6heg, 6eud – EcHrpB + ADP
  • ATP-dependent RNA helicase
    • 2g9n - hEIF4A dead domain
    • 5zbz - hEIF4A dead domain + sanguinarine
    • 5zc9 - hEIF4A dead domain + ATP + RNA
    • 6ieg - hDOB1 residues 70-1042
    • 6ro1 - hDOB1 residues 70-1042 + NVL
    • 6ieh - hDOB1 residues 70-1042 + NRDE2
    • 6c90 - hDOB1 residues 70-600 + ZCCHC8
    • 6d6r, 6d6q - hDOB1 in exosome + RNA – Cryo EM
    • 7z4y – hMTR4 in exosome – Cryo EM
    • 5z3g, 6c0f, 6cb1, 6em3, 6em4, 6em5, 7r6q, 7r72, 8e5t, 8etg, 8eti, 8euy, 8ev3 - yHas1 in 60S ribosome biogenesis intermediate + RNA – Cryo EM
    • 2xzl – yNAM7 CH and helicase domains + RNA
    • 2xgj – yDOB1 residues 81-1073 + RNA
    • 4u4c - yDOB1 residues 81-1073 + poly(A) RNA polymerase protein 2
    • 4qu4 - yDOB1
    • 5ooq - yDOB1 residues 81-1073 + NOP53
    • 5suq – ySUB2 + TEX1 + THO2
    • 5sup – ySUB2 + YRA1 + RNA
    • 7apx, 7luv, 7v2y – ySUB2 in THO complex – Cryo EM
    • 2vso, 2vsx – yEIF4A + initiation factor 4F middle domain
    • 2g9n - hEIF4A dead domain
  • Viral ATP-dependent RNA helicase NS3
    • 3o8b, 3o8d, 1cu1, 8ohm, 1hei, 4a92, 3rvb, 5wdx – HvHel NS3 residues 1186-1658 – Hepatitis C virus
    • 1onb, 1jr6 - HvHel NS3 arginine-rich domain residues 1353-1507 – NMR
    • 2jlq, 2bhr, 2bmf, 2whx, 2wzq – DvHel NS3 residues 1646-2092 – Dengue virus
    • 5xc7 – DvHel NS3 residues 1646-2092 (mutant)
    • 2z83 – Hel NS3 residues 167-624 – Japanese encephalitis virus
    • 2v8o, 2wv9 - Hel NS3 helicase domain – Murray valley encephalitis virus
    • 2qeq - Hel NS3 residues 1691-2124 – Kunjin virus
    • 5txg, 5jmt, 5rhy, 5vi7, 5jps, 6adw, 6mh3 - ZvHel NS3 helicase domain 1674-2119 – Zika virus
    • 5k8u, 5k8l, 5k8i, 5jwh, 5jrz - ZvHel NS3 residues 164-621
    • 5x8y - ZvHel NS1 residues 168-352
    • 2v6i – KvHel helicase domain – Kokobera virus
    • 2v6j - KvHel helicase domain (mutant)
    • 5wso, 5gvu - Hel NS3 residues 1939-2414 – bovine viral diarrhea virus
    • 1yks, 5ffm - Hel NS3 helicase domain – yellow fever virus
    • 7wd4 - Hel NS3 helicase domain – ilheus virus
    • 4cbg, 4cbh, 4cbi, 4cbl, 4cbm - Hel NS3 helicase domain – pestivirus
    • 7nno, 7oj4 - TbevHel NS3 helicase domain – Tick-bourne encephalitis virus
  • Viral ATP-dependent RNA helicase NS3 complexes
  • ATP-dependent RNA helicase SUV3
    • 3rc3, 7w1r – hSUV3 residues 47-722
    • 3og8 – hDDX58 C terminal + RNA
    • 3rc8 - hSUV3 residues 47-722 + RNA
    • 6f4a – ySUV3 + exoribonuclease II + RNA
  • ATP-dependent RNA helicase A
    • 3llm – hHel A
    • 3vyx, 3vyy - hHel A RNA-binding domain + RNA
    • 1whq, 2rs6, 2rs7 – Hel A RNA-binding domain – mouse - NMR
  • ATP-dependent RNA helicase Rep
    • 7lar, 7las – Rep + DNA + ADP – Porcine circovirus – Cryo EM
  • ATP-dependent RNA helicase Repa
  • ATP-dependent RNA helicase HEF
    • 1x2i – HEF DNA-binding domain – Pyrococcus furiosus
  • ATP-dependent RNA helicase Srmb
    • 2yjt - EcSrmb residues 219-388 + RRAA
  • ATP-dependent RNA helicase Dhh1
    • 4bru – yDhh1 (mutant) + EDC3
    • 4brw – yDhh1 (mutant) + PAT1
    • 1s2m – yDhh1p
  • Werner syndrome ATP-dependent DNA helicase
    • 2e1e, 2e1f, 2dgz – hWRN HRDC domain 1142-1242
    • 2fbt - hWRN exonuclease domain 38-236
    • 2fbv, 2fbx, 2fby, 2fc0 - hWRN exonuclease domain + metal ion
    • 3aaf – hWRN C terminal 949-1079 + DNA
    • 6yhr - hWRN 517-1094
    • 2e6l, 2e6m - mWRN exonuclease domain
  • ATP-dependent DNA helicase Q
  • ATP-dependent DNA helicase RecG
    • 1gm5 – TmRecG + DNA
  • ATP-dependent DNA helicase RecQ (Bloom Syndrome helicase)
    • 4cgz, 4o3m - hRecQ catalytic domain + DNA
    • 4cdg - hRecQ catalytic domain + nanobody
    • 1d8b - yRecQ HRDC domain - NMR
    • 3iuo – RecQ residues 604-725 – Porphyromonas gingivalis
    • 2rhf – DrRecQ HRDC domain 3 – Deinococcus radiodurans
    • 2ma1 - DrRecQ HRDC domain – NMR
    • 4q48 - DrRecQ catalytic domain
    • 4q47 - DrRecQ catalytic domain + ADP
    • 1wud - EcRecQ HRDC domain
    • 1oyw - EcRecQ catalytic domain
    • 1oyy - EcRecQ catalytic domain + ATP
  • ATP-dependent DNA helicase RuvA, RuvB
  • ATP-dependent DNA helicase RuvB-like
    • 2c9o – hRuvBL1 + ADP
    • 6h7x – hRuvBL2
    • 3uk6 – hRuvBL2 + ADP
    • 2cqa – hRuvBL2 C-terminal - NMR
    • 2xsz – hRuvBL1 + hRuvBL2 + ATP
    • 6qi8, 6qi9 – hRuvBL1 + hRuvBL2 + ADP
    • 5oaf – hRuvBL1 + hRuvBL2 + ADP - Cryo EM
    • 6fo1 – hRuvBL1 + hRuvBL2 + RPAP3 + ADP - Cryo EM
    • 6igm – hRuvBL1 + hRuvBL2 + actin-related protein + helicase SRCAP + protein - Cryo EM
    • 6hts – hRuvBL1 + hRuvBL2 + INO80 + ARP5 + histones + DNA - Cryo EM
    • 5oun – yRuvBL2 DII domain - yeast - NMR
    • 6gej, 6gen – yRuvBL1 + yRuvBL2 + vacuolar protein sorting-associated proteins + ARP6 + SWR complex protein 6 + histones + helicase SWR1 + ADP + ATP + DNA - Cryo EM
    • 4wvy – CtRuvBL1 + CtRuvBL2 + ATP
    • 4ww4 – CtRuvBL1 + CtRuvBL2 + ADP
    • 6fhs – CtRuvBL1 + CtRuvBL2 + INO80 + LES2 + LES5 + ARP5 + ADP + ATP - Cryo EM
    • 6fml – CtRuvBL1 + CtRuvBL2 + INO80 + LES2 + LES6 + actin-related protein + histones + ADP + ATP + DNA - Cryo EM
    • 5f4h, 5yww – RuvBL (mutant) - Sulfolobus islandicus
  • ATP-dependent DNA helicase UVSW
    • 2oca, 1rif- T4UVSW (mutant) – Enterobacteria phage T4
    • 2jpn - T4UVSW
  • ATP-dependent DNA helicase DDA
    • 3upu – T4DDA + DNA
  • ATP-dependent DNA helicase PriA
    • 2d7e – EcPriA DNA-binding domain
    • 2d7g, 2d7h, 2dwl, 2dwm, 2dwn – EcPriA N terminal + polynucleotide
    • 6dgd – KpPriA + DNA – Klebsiella pneumoniae
    • 4nl4 – KpPriA + ADP
    • 4nl8 – KpPriA + peptide
  • ATP-dependent DNA helicase PcrA
    • 1qhg – GsPcrA (mutant) + ADPNP
    • 1qhh - GsPcrA + ADPNP
    • 2pjr, 3pjr - GsPcrA + DNA
    • 1pjr - GsPcrA
    • 5dma – GsPcrA C-terminal tudor domain
  • DnaB helicase or replicative DNA helicase
    • 3gxv, 4zc0 – HpDnaB – Helicobacter pylori
    • 4a1f – HpDnaB C terminal
    • 2r6d – BsDnaB – Bacillus stearothermophilus
    • 2r6e, 2r6d - GsDnaB
    • 2r5u – MtDnaB N terminal
    • 3bgw – BpDnaB-like – Bacillus phage SPP1
    • 3bh0 - BpDnaB-like G40P ATPase domain
    • 2q6t – DnaB – Thermus aquaticus
    • 1mi8, 6frh – SyDnaB – Synechocystis
    • 6frg, 6fre – SyDnaB (mutant)
    • 6bbm – EcDnaB + replication protein P – Cryo EM
    • 7t21 – EcDnaB + DNA + ADP – Cryo EM
    • 7t22, 9eco – EcDnaB (mutant) + DNA primase + DNA + ADP – Cryo EM
    • 1b79 - EcDnaB N terminal
    • 1jwe - EcDnaB N terminal - NMR
    • 6kza - EcDnaB C terminal + DnaC
    • 7t20 - EcDnaB + DNA + AMPPNP
    • 4esv – BsDnaB + DNA
    • 4m4w – BsDnaB in primosome
    • 2r6c, 2r6a – BsDnaB + DnaG helicase-binding domain
    • 6bs8, 6own – MsDnaB 238-376
    • 6rix, 6riy – DnaB (mutant) – Mycobacterium chimaera
    • 6own, 6bs8 – MsDnaB 238-376
    • 7qxm – VcDnaB – Vibrio cholerae
    • 6t66 – VcDnaB + GDP
    • 8a3v – VcDnaB + DCIA
    • 4nmn – AaDnaB + ADP – Aquifex aeolicus
  • DnaC helicase
    • 2vyf– GkDnaC – Geobacillus kaustophilus
    • 2vye – GkDnaC + DNA
    • 3ec2 – AaDnaC
    • 3ecc – AaDnaC + ADP
    • 6qel – EcDnaC + replicative DNA Hel - Cryo EM
    • 6qem – EcDnaC + replicative DNA Hel + DNA - Cryo EM
  • Helicase BLM
    • 7auc – hBLM 636-1298
    • 7aud – hBLM 636-1298 + DNA
    • 5lup, 5mk5 – hBLM DHBN domain 362-414
    • 2mh9, 3we2, 3we3 – hBLM RQC domain 1068-1209
    • 2kv2 – hBLM HRDC domain 1210-1294 - NMR
    • 5lut – BLM DHBN domain - chicken
    • 5lus – BLM DHBN domain - pelican
  • Helicase CA8 or Prp28
  • Helicase NSP see Nonstructural protein
  • Helicase SEN1
  • Helicase DING
  • Helicase SNF2
  • Helicase SKI2
    • 7qdy, 7qdz, 7qe0 – hSKI2W + TPR repeat protein + SKI8 + RNA – Cryo EM
    • 7qdr, 7qds – hSKI2W + TPR repeat protein + SKI8 – Cryo EM
    • 4buj – ySKI2 + superkiller protein + SKI8
    • 4a4k – ySKI2 insertion domain
    • 4a4z – ySKI2 + AMPPNP
    • 2va8 – SsSKI2
  • Helicase SWR1
    • 5i9e – ySWR1 + actin + actin-related protein
  • Helicase XPD
    • 3crv, 3crw, 5h8c – XPD – Sulfolobus acidocaldarius
    • 4a15 - TaXPD + DNA
    • 2vsf - TaXPD
    • 2vl7 - XPD - Sulfolobus tokodaii
    • 5ivw - hXPD + XPB + TFIIH ubunits 2,3,4,5 + SCP-X + SCP-Ybr />
  • Pre-mRNA-splicing Helicase or Brr2 or ski2-like
    • 4f92 – hBrr2 402-2125
    • 4f91 – hBrr2 helicase region 394-213
    • 6s8o – hBrr2 helicase region (mutant)
    • 4f93 – hBrr2 helicase region (mutant) + ATP + ADP
    • 8bch – hBrr2 helicase region + sulfaguanidine
    • 5urj, 5urk, 5urm – hBrr2 helicase region + inhibitor
    • 4kit, 6s8q, 6s9i, 8bc9 – hBrr2 helicase region + pre-mRNA-splicing factor 8
    • 8bc8, 8bcb, 8bcc, 8bcd, 8bcf , 8bcg – hBrr2 helicase region + pre-mRNA-splicing factor 8 + inhibitor
    • 7os2 – hBrr2 helicase region + pre-mRNA-splicing factor 8 + telomere length and silencing protein – Cryo EM
    • 7os1 – hBrr2 helicase region + WBP-4 – Cryo EM
    • 7px3 – hBrr2 helicase region + pre-mRNA-splicing factor 8 + TSSC4 – Cryo EM
    • 3jcm, 3jcr, 5gap – hBrr2 helicase region in U4/U6.U5 snRNP complex – Cryo EM
    • 7bdi, 7bdj, 7bdk, 7bdl – hBrr2 394-2136 + pre-mRNA-splicing factor 8 + nucleotide
    • 3hib, 3im1, 3im2 – yBrr2 2nd SEC63 domain
    • 4bgd, 5m5p, 5m52, 5dca – yBrr2 + pre-mRNA-splicing factor 8
    • 5gan, 5gao – yBrr2 in U4/U6.U5 complex – Cryo EM
    • 5lj5, 5lqw – yBrr2 in spliceosome – Cryo EM
    • 6qws – CtBrr2 473-2193
    • 4rvq – CtBrr2 PWI-like domain 287-422
    • 6qv4 – CtBrr2 + ATPgS
    • 6qv3 – CtBrr2 + ADP
  • crispr-associated helicase Cas3
    • 4q2c – TteCas3 – Thermobaculum terrenum
    • 4q2d – TteCas3 + DTP
    • 4qqw, 4qqx – TfCas3 – Thermobifida fusca
    • 4qqy – TfCas3 + ADP + HD nuclease
    • 4qqz – TfCas3 + AMPPNP
    • 6c66 – TfCas3 + Cse1 + Cse3 + Cse4 + Cas5e – Cryo EM
    • 5gqh – PaCas3 + anti-crispr protein 3
    • 5b7i – PaCas3 + ACRF3
  • Helicase aquarius or intron-binding protein aquarius
    • 4pj3 – hHA + AMPPNP
    • 6id0, 6id1 – hHA in spliceosome – Cryo EM
    • 3jb9 – fyHA in spliceosome – Cryo EM

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Joel L. Sussman
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