Temp

Ribonuclease (RNase) degrades RNA. The endonucleases cleave single or double stranded RNA and include RNase III, A, T1 H and P. Exo-RNases remove terminal nucleotide from the ends of the RNA molecule. They include RNase II D, T, PH, Polynucleotide Phosphorylase (PNPase) and oligoribonuclease (ORNase). RNase A cleaves C or U of single-stranded RNA (ssRNA). RNase BA is RNase from Bacillus amyloliquefaciens. RNase D degrades 3'-end pre-tRNA. RNase H cleaves RNA/DNA double-strand to produce ssDNA. RNase I cleaves 3'-end of ssRNA. RNase II degrades 3'-end ssRNA. RNase III cleaves rRNA. RNase 5 is known as angiogenin and is a potent stimulator of new blood vessels formation. RNase P is a ribozyme. RNase S is RNase A cleaved by subtilisin. RNase SA is RNase from Streptomyces auerofaciens. RNase T is involved in RNA maturation. RNase T1 cleaves 3'-end G from ssRNA. RNase U2 cleaves 3'-end A from ssRNA. α-sarcin is a cytotoxic RNase which cleaves a phosphodiester bond in a conserved rRNA loop and inactivates the ribosome. oligoribonuclease is an exoribonuclease which cleaves 3'-end of viral RNA-DNA hybrid. Polynucleotide phosphorylase is a bifunctional enzyme which has exoribonuclease activity. Binase is a microbial RNase which cleaves endonucleolyticly ssRNA. Poly(A)-specific RNase cleaves exonucleolyticly the poly(A) tail. For more details on RNase A see: RNase A Ribonuclease A Catalysis RNase A Oligomers RNase A NMR User:R. Jeremy Johnson/RNaseA RNaseA Nobel Prizes. For RNase B and RNase S see RNaseS RNaseB. Active Site of Ribonuclease A Ribonuclease A cleaves RNA strands by catalyzing a transphosphorylation reaction where the 2'-OH of the ribose sugar attacks the neighboring phosphate, releasing the ribose on the the other side of the phosphate. This structure shows ribonuclease A (in blue) bound to short DNA strand composed of four thymidines (in pink). Ribonuclease binds tightly to DNA, but since DNA is missing the 2'-OH, ribonuclease does not cleave it. are shown that are important for catalysis. The 3' carbon on the DNA is shown in red--it is the site where the 2'-OH is connected in RNA. The two histidines perform the proton transfers that are needed in the reaction, and the lysine stabilizes the intermediate that is formed as the 2'-OH attacks the phosphate. Ribonuclease cleaves RNA strands best next to cytidine and uridine nucleotides--the reason for this may be seen in a . Notice that the small pyrimidine base is surrounded by protein atoms. A larger purine base would not fit well in this space. Your Heading Here (maybe something like 'Structure') <StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=> This is a default text for your page Temp. Click above on edit this page to modify. Be careful with the < and > signs. You may include any references to papers as in: the use of JSmol in Proteopedia or to the article describing Jmol to the rescue.

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3D structures of ribonuclease3D structures of ribonuclease

Updated on 21-December-2014

{"openlevels":0}

• RNase I
  • 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, 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 - bRNase I pancreatic - bovine
    
  • 3a1r - 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 - bRNase I pancreatic (mutant)
    
  • 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 - bRNase I pancreatic + nucleotide
    
  • 1rar, 1ras - bRNase I pancreatic fluoroscent
    
  • 6rsa - bRNase I pancreatic + nucleotide - neutron
    
  • 3fl0, 3fl1, 4rsk - bRNase I pancreatic (mutant) + nucleotide
    
  • 2xog, 2xoi, 2q4g, 1dfj, 4g8v, 4g8y, 4g90 - bRNase I pancreatic + inhibitor
    
  • 2p42, 2p43, 2p44, 2p45, 2p46, 2p47, 2p48, 2p49, 2p4a, 1bzq, 3qsk - bRNase I + antibody
    
  • 3f8g, 2e0j, 2e0l, 2e0m, 2e0o, 1h8x, 1e21, 1dza - hRNase I pancreatic (mutant) - human
    
  • 2k11 - hRNase I pancreatic - NMR
    
  • 1z7x - hRNase I pancreatic + inhibitor
    
  • 33ljd, 3ln8, 2vq8, 2vq9 - ZeRNase I - Zebrafish
    
  • 2pqx, 2pqv - EcRNase I - Escherichia coli
    
  • 2z70, 2ea1 - EcRNase I + DNA
    
  • 3tsr - mRNase I + inhibitor
    
• RNase II
  • 2ix0, 2id0 - EcRNase II
    
  • 2ix1 - EcRNase II (mutant)
    
  • 1m58, 1km8, 1km9 - BuRNase II - Bullfrog
    
  • 1bc4 - BuRNase II - NMR
    
  • 1m07 - BuRNase II + DNA
    
  • 2bex - hRNase II + RNase inhibitor protein
    
  • 2bzz, 2c01, 2c02, 2c05 - hRNase II + inhibitor
    
• RNase III
  • 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
    
  • 1z5f - BuRNase III
    
  • 2a11 - MtRNase III - Mycobacterium tuberculosis
    
  • 1o0w - TmRNase III - Thermotoga maritima
    
  • 1t4n, 1t4o - yRNase III - yeast - NMR
    
  • 2lbs - yRNase III RNA-binding domain + RNA - NMR
    
  • 2lup, 4oog - yRNase III RNA-binding domain + RNA
    
  • 2luq - yRNase III RNA-binding domain
    
  • 2kb5 - hRNase III - NMR
    
  • 1dyt, 1qmt, 2khx - hRNase III
    
  • 1h1h - hRNase III + nucleotide
    
  • 3n3w, 3o2r - RNase III nuclease domain - Campylobacter jejuni
    
• RNase 4
  • 1wdy - hRNase 4
    
  • 2rnf, 1rnf - hRNase 4 + nucleotide
    
  • 1kvz - BuRNase 4 - NMR
    
• RNase 5
  • 1un3, 1un4, 1un5, 1gv7 - hRNase 5 (mutant)
    
  • 1h0d - hRNase 5 + antibody
    
  • 3lje - ZeRNase 5
    
• RNase 6
  • 1oj1, 1oj8 - BuRNase 6 + nucleotide
    
• RNase 7
  • 2hky - hRNase 7 - NMR
    
• RNase A
  • 1rra - RNase A - rat
    
  • 44j5z, 4j60, 4j61, 4j62, 4j63, 4j64, 4j65, 4j66, 4j67, 4j68, 4j69, 4j6a, 4mxf - bRNase A
    
  • 4k7m - bRNase A (mutant)
    
  • 2aas - bRNase A - NMR
    
  • 4kxh - hRNase A
    
  • 2e33 - bRNase A + F-box only protein 2
    
  • 4l55 - bRNase A + aziru
    
• RNase B
  • 1rbb - bRNase B
    
  • 1rbj - bRNase B + tetranucleotide
    
• 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)
    
• RAase D
  • 1yt3 - EcRNase D
    
• RNase E
  • 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
    
  • 3h8a - EcRNase E recognition domain + enolase
    
• RNase F1
  • 1fus, 1fut - GfRNase F1 + nucleotide - Gibberella fujikuroi
    
  • 1rck, 1rci - GfRNase F1 - NMR
    
• RNase H
  • 3h7i, 3h8s, 3h8w - T4RNase H (mutant) - Enterobacteria phage T4
    
  • 2ihn - T4RNase H (mutant) + DNA
    
  • 3h8j, 1tfr - T4RNase H
    
  • 4e89 - RNase H - XMRV
    
  • 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
    
  • 3d0p, 3ey1, 3i8d - BhRNase H (mutant) + DNA - Bacillus halodurans
    
  • 1zbf - BhRNase H (mutant)
    
  • 2r7y, 2g8f, 2g8h, 2g8i, 2g8k, 2g8u, 2g8v, 2g8w, 1zbi, 1zbl, 3twh, 3uld - BhRNase H (mutant) + RNA + DNA
    
  • 4htu, 4hue, 4huf, 4hug - BhRNase H + DNA
    
  • 4ibn - uRNase H - uncultured
    
  • 4h8k - uRNase H + RNA + DNA
    
• RNase HI
  • 2qk9, 2qkb, 2qkk - hRNase HI (mutant) + RNA + DNA
    
  • 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
    
  • 3bsu - hRNase HI catalytic domain + RNA + DNA
    
  • 2ehg - RNase HI - Sulfolobus tokodaii
    
  • 1qhk - yRNase HI N terminal - NMR
    
  • 3u3g - uRNase HI
    
  • 4e19, 4nyn - RNase HI - Halobacterium salinarium
    
• RNase HII
  • 3p83 - AfRNase HII + DNA polymerase sliding clamp - Archaeoglobus fulgidus
    
  • 1i39, 1i3a - AfRNase HII
    
  • 3puf, 3p56, 3p5j - hRNase HII subunits α+β+γ
    
  • 3kio - mRNase HII subunits α+β+γ - mouse
    
  • 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 - RNase HII - Methanocaldococcus jannaschii
    
• RNase HIII
  • 2d0a, 2d0b, 2d0c - GsRNase HIII - Geobacillus stearothermophilus
    
  • 3asm - GsRNase HIII (mutant)
    
  • 1uax - PhRNase HIII - Pyrococcus horikoshii
    
  • 3vn5 - AaRNase HIII
    
• RNase J
  • 3bk1 - TtRNase J
    
  • 3bk2 - TtRNase J + nucleotide
    
  • 3zq4 - BsRNase J1 - Bacillus subtilis
    
• RNase L
  • 4o1o - pRNase L + oligoadenylate + CMP - pig
    
  • 4o1p - pRNase L + oligoadenylate + AMPPNP
    
  • 4oav - pRNase L + oligoadenylate + AMPPCP + RNA
    
• RNase LE
  • 1dix - RNase LE - Solanum lycopersicum
    
• RNase MAR1
  • 1xn4 - RNase MAR1 - Leishmania major
    
  • 2b34 - RNase MAR1 - Caenorhabditis elegans
    
• RNase MS
  • 1rms, 1rds - RNase MS - Aspergillus phoenicis
    
• RNase MC1
  • 1v9h, 1j1f, 1j1g - McRNase MC1 (mutant) + nucleotide - Momordica charantia
    
  • 1ucg - McRNase MC1 (mutant)
    
  • 1uca, 1ucc, 1ucd - McRNase MC1 + nucleotide
    
  • 1bk7 - McRNase MC1
    
• RNase NT
  • 1vcz, 1vd1, 1vd3 - NgRNase NT + nucleotide - Nicotiana glutinosa
    
  • 1iyb - NgRNase NW
    
• RNase P
  • 3ok7, 3okb, 3q1q, 3q1r - TmRNase P + TmRNase P RNA + tRNAPhe
    
  • 1nz0 - TmRNase P
    
  • 1d6t - RNase P - Staphylococcus aureus
    
  • 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
    
  • 3iab - yRNase P subunits POP6+POP7 + RNase MRP P3 domain
    
• RNase PH
  • 3dd6 - RNase PH - Bacillus anthracis
    
  • 1oyp, 1oyr, 1oys - BsRNase PH
    
  • 1r6l, 1r6m - PaRNase PH - Pseudomonas aeruginosa
    
  • 3b4t - MtRNase PH
    
  • 1udn - AaRNase PH
    
  • 1udo, 1udq, 1uds - AaRNase PH (mutant)
    
• RNase RH
  • 1bol - RNase RH - Rhizopus niveus
    
• RNase 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
    
  • 1r5d, 1r3m, 1n1x, 1n3z, 1j7z, 1j80, 1j81, 1j82, 1cjq, 1cjr, 1bsr, 1rbc, 1rbd, 1rbe, 1rbf, 1rbg, 1rbh 1rbi, 1rnu, 1rnv, 2rns - bRNase S
    
  • 1b6v - bRNase S/bRNase A
    
• RNase S3
  • 1iqq - RNase S3 - Japanese pear
    
• RNase SA
  • 3a5e, 1zgx, 1ynv, 1t2h, 1t2i, 1uci, 1ucj, 1uck, 1ucl, 1i70, 1i8v, 1box, 4gho - 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
    
• RNase SF11
  • 1ioo - RNase SF11 - Nicotiana alata
    
• RNase T
  • 2is3 - EcRNase T
    
  • 3ngy - EcRNase T (mutant)
    
  • 3ngz - EcRNase T (mutant) + nucleotide
    
  • 3ngo, 3nh1, 3nh2 - EcRNase T + nucleotide
    
  • 3v9s, 3v9w, 3v9u, 3v9x, 3v9z, 3va0, 3va3, 4kaz, 4kb0, 4kb1 - EcRNase T + DNA
    
  • 2f96 - PaRNase 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)
    
  • 1lov, 1low, 1loy, 1i0v, 1i0x, 1b2m, 1rhl, 1bir, 1rgk, 1rgl - AoRNase T1 (mutant) + nucleotide
    
  • 1bvi, 2bu4, 2hoh, 3hoh, 4hoh, 5hoh, 1gsp, 2gsp. 3gsp, 4gsp, 5gsp. 6gsp, 7gsp, 1det, 1rls, 1lra, 1rga, 1bu4, 1rgc, 3bu4, 4bu4, 5bu4, 3syu, 3urp - AoRNase T1 + nucleotide
    
  • 3rnt - AoRNase T1 + V
    
  • 1ygw - AoRNase T1 - NMR
    
• RNase T2
  • 3t0o - hRNase T2
    
• RNase U2
  • 3agn, 3ago, 3ahw - UsRNase U2 + AMP - Ustilago sphaerogena
    
  • 1rtu - UsRNase U2
    
  • 3ahs - UsRNase U2B
    
• RNase Z
  • 2e7y - TmRNase Z
    
  • 2fk6, 4gcw - BsRNase Z (mutant) + tRNA Thr
    
  • 1y44 - BsRNase Z (mutant)
    
  • 2cbn - EcRNase Z
    
  • 3v32, 3v33, 3v34 - hRNase Z
    
• RNase α-sarcin
  • 1de3 - AgRNase αs - Aspergillus giganteus
    
  • 1r4y - AgRNase αs (mutant)
    
• Oligoribonuclease
  • 2igi, 1yta - EcORNase
    
  • 2gbz - ORNase - Xanthomonas campestris
    
  • 1j9a - ORNase - Haemophilus influenza
    
  • 3tr8 - ORNase - Coxiella burnetii
    
• Polynucleotide phosphorylase
  • 3cdi - EcPNPase
    
  • 3gll - EcPNPase core
    
  • 3cdj - EcPNPase C terminal truncated
    
  • 1e3h, 1e3p - PNPase - Streptomyces antibioticus
    
  • 3gcm, 3gme, 3h1c - EcPNPase + RNase E recognition domain
    
  • 3h36 - PNPase fragment - Streptomyces mutans
    
• Binase
  • 1gou, 1gov, 1goy - BiBinase - Bacillus intermedius
    
  • 2rbi, 4haa - BiBinase (mutant)
    
  • 1buj - BiBinase - NMR
    
• Poly(A)-specific RNase
  • 1ug8 - mParn R3H domain - NMR
    
  • 1whv - mParn RNA-binding domain - NMR
    
  • 2rok - mParn CAP-binding domain - NMR
    
  • 3d45 - mParn + nucleotide
    
  • 2a1s - hParn
    
  • 2a1r, 3ctr - hParn + nucleotide
    
• RNase pop2
  • 4b8a - yRNase pop2 + cell division cycle protein 39
    
  • 4b8c - yRNase pop2 + cell division cycle protein 39 + CCR4
    
• Other RNases
  • 2zpo - RNase - Chelonia mydas
    
  • 3a4y, 3idz, 3ie0, 3ie2 - TtRNase (mutant) - Thermus thermophilus
    
  • 3iek - TtRNase
    
  • 3ie1, 3iem - TtRNase (mutant)
    
  • 3iel - TtRNase + nucleotide
    

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