Ribonuclease 3D structures
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Revision as of 10:30, 25 October 2020 by Michal Harel (talk | contribs)
3D Structures of Ribonuclease3D Structures of Ribonuclease
Updated on 25-October-2020
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- RNase I or RNase A
- 4kxh - hRNase I - human
- 3f8g, 2e0j, 2e0l, 2e0m, 2e0o, 1h8x, 1e21, 1dza - hRNase I pancreatic (mutant)
- 2k11 - hRNase I pancreatic - NMR
- 3mwq, 3mx8, 3i67, 3i6f, 3i6h, 3i6j, 3i7w, 3eux, 3euy, 3euz, 3ev0, 3ev1, 3ev2, 3ev3, 3ev4, 3ev5, 3ev6, 3dh5, 2e3w, 2g4w, 2g4x, 2gbq, 2blp, 2blz, 2jvt, 1jvv, 1jvt, [1js0]], 1fs3, 1kf2, 1kf3, 1kf4, 1kf5, 1kf7, 1kf8, 1aqp, 1a2w, 1rnw, 1rnz, 1rno, 1rnq, 1rbx, 1ssc, 3srn, 4srn, 1srn, 5rsa, 1afu, 1bel, 1c0b, 1c0c, 1lsq, 1rat, 1rbn, 1rha, 1rhb, 1rnx, 1rny, 1rsm, 1xps, 1xpt, 2g8q, 2rat, 3mzq, 3mzr, 3rat, 3rn3, 4rat, 5rat, 6rat, 7rat, 7rsa, 8rat, 8rsa, 9rat, 9rsa, 3mwr, 4ao1, 4j5z, 4j60, 4j61, 4j62, 4j63, 4j64, 4j65, 4j66, 4j67, 4j68, 4j69, 4j6a, 4mxf, 4ooh, 4ot4, 4qh3, 4rte, 4s0q, 4s18, 5d6u, 5jmg, 5jml, 5na9, 5obc, 5obd, 5obe, 4srn, 6etr, 6etq, 6etp, 6eto, 6etn, 6etm, 6etl, 6etk - bRNase I pancreatic - bovine
- 3a1r, 4zz4, 5d97, 5rsa, 6rsa - bRNase I pancreatic - neutron
- 2aas - bRNase I pancreatic - NMR
- 3i7x, 3i7y, 3fkz, 3fl3, 3dh6, 3di7, 3di8, 3di9, 3dib, 3dic, 2oqf, 3bcm, 3bco, 3bcp, 2nui, 2op2, 1ymn, 1ymr, 1ymw, 2apq, 1izp, 1izq, 1izr, 1kh8, 1c8w, 1eic, 1eid, 1eie, 1dy5, 3rsd, 3rsk, 1ssa, 1ssb, 1a5p, 1a5q, 1c9v, 1c9x, 3rsp, 4rsd, 3ql1, 3ql2, 3rh1, 3rid, 4o36, 4o37, 4k7m, 4k7l, 4okf - bRNase I pancreatic (mutant)
- 1rar, 1ras - bRNase I pancreatic fluoroscent
- 6qmn - RNase I pancreatic - bison
- 1rra - RNase I - rat
- 3ljd, 3ln8, 2vq8, 2vq9 - ZeRNase I - Zebrafish
- 2pqx, 2pqy - EcRNase I - Escherichia coli
- 4kxh - hRNase I - human
- RNase I complex
- 1z7x - hRNase I pancreatic + inhibitor
- 3lxo, 3jw1, 3djo, 3djp, 3djq, 3djv, 3djx, 3dxg, 3dxh, 2w5g, 2w5i, 2w5k, 2w5l, 2w5m, 3d6o, 3d6p, 3d6q, 3d7b, 3d8y, 3d8z, 2pca, 2g8r, 1z6d, 1z6s, 1u1b, 1w4o, 1w4p, 1w4q, 1wbu, 1o0f, 1jn4, 1jvu, 1f0v, 1ruv, 1rnm, 1rnn, 1rbw, 1rca, 1rpf, 1rpg, 1rph, 1rnc, 1rnd, 1rob, 1rta, 1rtb, 1afk, 1afl, 1eos, 1eow, 1o0h, 1o0m, 1o0n, 1o0o, 1qhc, 1rcn, 2qca, 5ogh - bRNase I pancreatic + nucleotide
- 6rsa - bRNase I pancreatic + nucleotide - neutron
- 3fl0, 3fl1, 4rsk, 5et4, 4wyp, 4wyz - bRNase I pancreatic (mutant) + nucleotide
- 2xog, 2xoi, 2q4g, 1dfj, 4g8v, 4g8y, 4g90, 5e5e, 5e5f, 5jlg, 6gok, 6f60, 5old, 5nj7, 6pvx, 6pvw, 6pvv, 6pvu - bRNase I pancreatic + inhibitor
- 4peq - bRNase I pancreatic + inhibitor protein
- 2p42, 2p43, 2p44, 2p45, 2p46, 2p47, 2p48, 2p49, 2p4a, 1bzq, 3qsk, 4pou - bRNase I + antibody
- 2e33 - bRNase I + F-box only protein 2
- 4l55 - bRNase I + aziru
- 6qe9 - bRNase I + Pt
- 3tsr - mRNase I + inhibitor - mouse
- 4per - RNase I pancreatic + inhibitor protein - chicken
- 2z70, 2ea1 - EcRNase I + DNA
- 1z7x - hRNase I pancreatic + inhibitor
- RNase II
- RNase III
- 1dyt, 1qmt, 2khx - hRNase III
- 2kb5 - hRNase III - NMR
- 1h1h - hRNase III + nucleotide
- 1z5f - BuRNase III
- 1t4n, 1t4o - yRNase III - yeast - NMR
- 2luq - yRNase III RNA-binding domain
- 2lup, 4oog, 5t16 - yRNase III RNA-binding domain + RNA
- 2lbs, 1t4l - yRNase III RNA-binding domain + RNA - NMR
- 2nue, 2nuf, 2nug, 1yyk, 1yyw, 4m2z, 4m30 - AaRNase III + RNA - Aquifex aeolicus
- 2ez6, 1yyo, 1yz9, 1rc7 - AaRNase III (mutant) + RNA
- 1rc5, 1i4s, 1jfz - AaRNase III N terminal
- 2a11 - MtRNase III - Mycobacterium tuberculosis
- 1o0w - TmRNase III - Thermotoga maritima
- 3n3w, 3o2r - RNase III nuclease domain - Campylobacter jejuni
- 1dyt, 1qmt, 2khx - hRNase III
- RNase III Dicer
- 4ngg, 4ngf, 4nha – hDicer platform-PAZ-connector helix cassette residues 765-1065 + RNA
- 4ngb, 4ngc, 4ngd, 4ngf, 4ngg, 4nh3, 4nh5, 4nh6, 4nha – hDicer platform-PAZ-connector helix cassette (mutant) + RNA
- 2eb1 – hDicer C terminal
- 4wyq – hDicer residues 267-389 + polypeptide +TARBP2
- 3c4b, 3c4t – mDicer RNase III+dsRNA binding domains
- 2l6m - Dicer residues 1259-1358 - fission yeast - NMR
- 2ff1 - Dicer - Giardia intestinalis
- 4ngg, 4ngf, 4nha – hDicer platform-PAZ-connector helix cassette residues 765-1065 + RNA
- RNase 4
- RNase 5 or angiogenin
- RNase 6
- RNase 7
- 2hky - hRNase 7 - NMR
- 2hky - hRNase 7 - NMR
- RNase B
- RNase BA
- 1x1u, 1x1x, 1x1y, 1b27, 1b2u, 1b3s, 1x1w - BaRNase BA + barstar (mutant) - Bacillus amyloliquefaciens
- 3da7, 1brs, 1bgs - BaRNase BA + barstar
- 1b2s, 2za4 - BaRNase BA (mutant) + barstar (mutant)
- 1brn, 2kf5, 2kf6, 1rnb - BaRNase BA + nucleotide
- 3kch, 2f4y, 2f56, 2f5m, 2f5w - BaRNase BA crosslinked
- 2kf3, 2kf4, 1fw7, 1bnr - BaRNase BA - NMR
- 1yvs, 1b2x, 1a2p, 1bni, 1bnj - BaRNase BA
- 1b20, 1b21, 1b2z, 1bne, 1bnf, 1bng, 1brh, 1bri, 1brj, 1brk, 1bns, 1brg, 1bsa, 1bsb, 1bsc, 1bsd, 1bse, 1bna, 1bao - BaRNase BA (mutant)
- 1x1u, 1x1x, 1x1y, 1b27, 1b2u, 1b3s, 1x1w - BaRNase BA + barstar (mutant) - Bacillus amyloliquefaciens
- RAase D
- 1yt3 - EcRNase D
- 1yt3 - EcRNase D
- RNase E; Domains: recognition 1-28; S1 35-125; catalytic 1-515
- 2vmk, 2c4r, 2bx2 - EcRNase E catalytic domain
- 1slj - EcRNase E S1 domain - NMR
- 1smx, 1sn8 - EcRNase E S1 domain
- 2vrt, 2c0b - EcRNase E catalytic domain + RNA
- 5f6c, 6g63 - EcRNase E catalytic domain (mutant) + RNA
- 3h8a - EcRNase E recognition domain + enolase
- 5ohg - EcRNase E residues 813-850 + enolase
- 4oxp - CcRNase E S1+ sensor domains – Caulobacter crescentus
- 2vmk, 2c4r, 2bx2 - EcRNase E catalytic domain
- RNase F1
- RNase H
- 3h7i, 3h8s, 3h8w - T4RNase H (mutant) - Enterobacteria phage T4
- 2ihn - T4RNase H (mutant) + DNA
- 3h8j, 1tfr - T4RNase H
- 4e89 - RNase H - XMRV
- 4ly7 - RNase H - ancestral
- 2rpi, 1ril - TtRNase H - Thermus thermophilus
- 1rbr, 1rbs, 1rbt, 1rbu, 1rbv, 2rn2 - EcRNase H
- 1lav, 1law, 1rda, 1rdb, 1rdc - EcRNase H (mutant)
- 1jl2 - EcRNase H/TtRNase H
- 4z0u - EcRNase H + peptide
- 3d0p, 3ey1, 3i8d, 4opj, 4opk, 5swm - BhRNase H (mutant) + DNA - Bacillus halodurans
- 1zbf - BhRNase H (mutant)
- 6dpp, 6dpo, 6dpn, 6dpm, 6dpl, 6dpk, 6dpj, 6dpi, 6dpg, 6dph, 6dpf, 6dpe, 6dpd, 6dpc, 6dpb, 6dpa, 6dp9, 6dp8 6dp7, 6dp6, 6dp5, 6dp4, 6dp3, 6dp2, 6dp1, 6dp0, 6doz, 6doy, 6dox, 6dow, 6dov, 6dou, 6dot, 6dos, 6dor, 6doq, 6dop, 6doo, 6don, 6dom, 6dol, 6dok, 6doj, 6doi, 6doh, 6dog, 6dof, 6doe, 6dod, 6doc, 6dob, 6doa, 6do9, 6do8, 6dmv, 6dmn - BhRNase H + RNA + DNA
- 2r7y, 2g8f, 2g8h, 2g8i, 2g8k, 2g8u, 2g8v, 2g8w, 1zbi, 1zbl, 3twh, 3uld, 5us2, 5usa, 5use, 5usg, 5w7n, 5w7o, 5wjr - BhRNase H (mutant) + RNA + DNA
- 4htu, 4hue, 4huf, 4hug - BhRNase H + DNA
- 4ibn - uRNase H - uncultured
- 4h8k - uRNase H + RNA + DNA
- 4e7h, 4e7i, 4e7j, 4e7k, 4e7l - RNase H + DNA – human spumaretrovirus
- 3h7i, 3h8s, 3h8w - T4RNase H (mutant) - Enterobacteria phage T4
- RNase HI
- 3bsu - hRNase HI catalytic domain + RNA + DNA
- 2qk9, 2qkb, 2qkk - hRNase HI (mutant) + RNA + DNA
- 1qhk - yRNase HI N terminal - NMR
- 3h08 - RNase HI - Chlorobaculum tepidum
- 3aa2, 3aa3, 3aa4, 3aa5, 2yv0, 2z1g, 2z1h, 2z1i, 2z1j, 1wse, 1wsf, 1wsg, 1wsh, 1wsi, 1wsj, 1jxb, 1jl1, 1f21, 1kva, 1kvb, 1kvc, 1goa, 1gob, 1goc - EcRNase HI (mutant)
- 1g15, 1rdd, 1rnh - EcRNase HI
- 1rch - EcRNase HI - NMR
- 2zqb - SoRNase HI (mutant) - Shewanella oneidensis
- 2e4l - SoRNase HI
- 2ehg - RNase HI - Sulfolobus tokodaii
- 3u3g - uRNase HI
- 4e19, 4nyn - RNase HI - Halobacterium salinarium
- 3bsu - hRNase HI catalytic domain + RNA + DNA
- RNase HII
- 3puf, 3p56, 3p5j - hRNase HII subunits α+β+γ
- 3kio - mRNase HII subunits α+β+γ
- 3p83 - AfRNase HII + DNA polymerase sliding clamp - Archaeoglobus fulgidus
- 1i39, 1i3a - AfRNase HII
- 3o3g - TmRNase HII + DNA
- 3o3f, 3o3h, 4hht - TmRNase HII (mutant) + DNA
- 2etj - TmRNase HII
- 1x1p, 1io2 - TkRNase HII - Thermococcus kodakarensis
- 2dfe, 2dff, 2dfh - TkRNase HII (mutant)
- 1eke - MjRNase HII - Methanocaldococcus jannaschii
- 5y9p - SaRNase HII - Staphylococcus aureus
- 3puf, 3p56, 3p5j - hRNase HII subunits α+β+γ
- RNase HIII
- RNase J
- 3bk1 - TtRNase J
- 3bk2 - TtRNase J + nucleotide
- 3zq4 - BsRNase J1 - Bacillus subtilis
- 5haa - MpRNase - Methanolobus psychrophilus
- 5hab, 5ws2 - MpRNase (mutant) + RNA
- 4xwt - DrRNase J + nucleotide - Deinococcus radiodurans
- 4xww - DrRNase J + RNA
- 5a0t, 5a0v - RNase J + RNA - Streptomyces coelicolor
- 5vaj - BhRNase J + RNA + DNA
- 3bk1 - TtRNase J
- RNase K6
- 5oab - hRNase K6
- 5oab - hRNase K6
- RNase L
- RNase LE
- 1dix - RNase LE - Solanum lycopersicum
- 1dix - RNase LE - Solanum lycopersicum
- RNase MAR1
- RNase MC1
- RNase MS
- RNase NT
- RNase P
- 4xgl, 4xgm - hRNase P
- 6ahr - hRNase P – cryo EM
- 6ahu - hRNase P + tRNA – cryo EM
- 5nfj - hRNase P protein 1 + SAM
- 6cwx - hRNase P subunits P20+P25
- 6ahv - hRNase P subunit P40
- 6agb - yRNase P – cryo EM
- 6ah3 - yRNase P + tRNA + RNA – cryo EM
- 3iab - yRNase P subunits POP6+POP7 + RNase MRP P3 domain
- 1nz0 - TmRNase P
- 6max - TmRNase P + purpurin
- 6cqc - TmRNase P + inhibitor
- 3q1q, 3q1r - TmRNase P + TmRNase P RNA + tRNAPhe
- 1d6t, 6d1r - SaRNase P
- 2a64 - GsRNase P (mutant)
- 1a6f, 1nbs, 2jg4 - BsRNase P (mutant)
- 1ts9, 1tsf - AfRNase P
- 1u9s - RNase P - synthetic
- 2avs - PfRNase P (mutant) - Pyrococcus furiosus
- 2k3r. 2ki7 - PfRNase P
- 2ljp - EcRNase P
- 2av5 - PhRNase P component 2
- 1x0t - PhRNase P component 4
- 2zae - PhRNase P components 1+4
- 2czv - PhRNase P component 2 (mutant) +3
- 6k0a - MjRNase P components 1-4 + L7AE + RPR – Cryo EM
- 6k0b - MjRNase P components 1-4 + L7AE + tRNA + RPR – Cryo EM
- 5diz, 5ft9 - RNase P2 - Arabidopsis thaliana
- 4xgl, 4xgm - hRNase P
- RNase PH
- RNase PO1
- RNase R
- 5xgu - EcRNase R (mutant)
- 5xgu - EcRNase R (mutant)
- RNase RH
- 1bol - RNase RH - Rhizopus niveus
- 1bol - RNase RH - Rhizopus niveus
- RNase S
- 1r5d, 1r3m, 1n1x, 1n3z, 1j7z, 1j80, 1j81, 1j82, 1cjq, 1cjr, 1bsr, 1rbc, 1rbd, 1rbe, 1rbf, 1rbg, 1rbh, 1rbi, 1rnu, 1rnv, 2rns - bRNase S
- 3oqy, 3oqz, 3or0, 1z3l, 1z3m, 1z3p, 1y92, 1y94, 1fev, 1d5d, 1d5e, 1d5h, 2rln, 1qwq, 4n4c - bRNase S seminal (mutant)
- 1tq9, 1r5c, 11ba, 11bg - bRNase S + nucleotide
- 1b6v - bRNase S/bRNase A
- 4ygw - bRNase S + peptide
- 1r5d, 1r3m, 1n1x, 1n3z, 1j7z, 1j80, 1j81, 1j82, 1cjq, 1cjr, 1bsr, 1rbc, 1rbd, 1rbe, 1rbf, 1rbg, 1rbh, 1rbi, 1rnu, 1rnv, 2rns - bRNase S
- RNase S3
- 1iqq - RNase S3 - Japanese pear
- 1iqq - RNase S3 - Japanese pear
- RNase SA
- 3a5e, 1zgx, 1ynv, 1t2h, 1t2i, 1uci, 1ucj, 1uck, 1ucl, 1i70, 1i8v, 1box, 4gho, 4j5g, 4j5k - SaRNase SA guanyl-specific (mutant) - Streptomyces aureofaciens
- 1lni, 1c54, 1rge, 1rgf, 1rgg, 1rgh, 1sar - SaRNase SA
- 1gmp, 1gmq, 1gmr, 2sar - SaRNase SA + nucleotide
- 1ay7 - SaRNase SA + barstar
- 1rsn - SaRNase SA + cyclophosphothiolate
- 1py3, 1pyl - SaRNase SA2
- 3dgy, 3dh2, 3d4a, 3d5g, 3d5i - SaRNase SA2 + nucleotide
- 1mgr, 1mgw - SaRNase SA3
- 3a5e, 1zgx, 1ynv, 1t2h, 1t2i, 1uci, 1ucj, 1uck, 1ucl, 1i70, 1i8v, 1box, 4gho, 4j5g, 4j5k - SaRNase SA guanyl-specific (mutant) - Streptomyces aureofaciens
- RNase SF11
- 1ioo - RNase SF11 - Nicotiana alata
- 1ioo - RNase SF11 - Nicotiana alata
- RNase T
- RNase T1
- 1tto, 1rn1, 1rn4, 1rnt, 2aad, 2aae - AoRNase T1 - Aspergillus oryzae
- 1q9e, 1iyy, 1i2e, 1i2f, 1i2g, 1i3f, 1i3i, 1hz1, 1fys, 1fzu, 1ch0, 4bir, 3bir, 5bir, 1g02, 1hyf, 1trp, 1trq, 2bir, 4rnt, 5rnt, 6rnt, 7rnt, 8rnt, 9rnt - AoRNase T1 (mutant)
- 1ygw - AoRNase T1 - NMR
- 1bvi, 2bu4, 2hoh, 3hoh, 4hoh, 5hoh, 1gsp, 2gsp. 3gsp, 4gsp, 5gsp. 6gsp, 7gsp, 1det, 1rls, 1lra, 1rga, 1bu4, 1rgc, 3bu4, 4bu4, 5bu4, 3syu, 3urp, 2rnt, 6gsp - AoRNase T1 + nucleotide
- 1lov, 1low, 1loy, 1i0v, 1i0x, 1b2m, 1rhl, 1bir, 1rgk, 1rgl, 5hoh - AoRNase T1 (mutant) + nucleotide
- 3rnt - AoRNase T1 + V
- 5gy6 - RNase T1 - Hericium erinaceus
- 1tto, 1rn1, 1rn4, 1rnt, 2aad, 2aae - AoRNase T1 - Aspergillus oryzae
- RNase T2
- 3t0o - hRNase T2
- 3t0o - hRNase T2
- RNase U2
- RNase VAP
- RNase Z
- RNase ZC3H12A
- RNase α-sarcin
- Oligoribonuclease
- NanoRNase or bifunctional oligoribonuclease and PAP phosphatase nRNA
- Polynucleotide phosphorylase
- 3cdi - EcPNPase
- 3gll - EcPNPase core
- 3cdj - EcPNPase C terminal truncated
- 1sro - EcPNPase RNA-binding domain - NMR
- 3gcm, 3gme, 3h1c - EcPNPase + RNase E recognition domain
- 1e3h, 1e3p - PNPase - Streptomyces antibioticus
- 3h36 - PNPase fragment - Streptomyces mutans
- 4nbq - CbPNPase
- 4am3 - PNPase + RNA - Caulobacter vibrioides
- 3cdi - EcPNPase
- Binase
- Poly(A)-specific RNase
- 2a1s - hParn
- 2a1r, 3ctr - hParn + nucleotide
- 1ug8 - mParn R3H domain - NMR
- 1whv - mParn RNA-binding domain - NMR
- 2rok - mParn CAP-binding domain - NMR
- 3d45 - mParn + nucleotide
- 4bwp - Parn regulatory subunit – Drosophila melanogaster
- 4q8g, 4q8h - yParn catalytic subunit
- 4xr7 - yParn regulatory+catalytic subunits
- 4bwk - NcParn regulatory subunit – Neurospora crassa
- 4bwx - NcParn regulatory subunit (mutant)
- 4czv, 4czw - NcParn catalytic subunit
- 4czx, 4czy - NcParn regulatory+catalytic subunits
- 2a1s - hParn
- RNase pop2
- Other RNases