Ribonuclease
From Proteopedia
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 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.
3D Structures of Ribonuclease
RNase I
3mwq]], 3mwq, 3mx8, 3i67, 3i6f, 3i6h, 3i6j, 3i7w, 3eux, 3euy, 3euz, 3ev0, 3ev1, 3ev2, 3ev3, 3ev4, 3ev5, 3ev6, 3dh5, 2e3w, 2g4w, 2g4x, 2gbq, 2blp, 2blz, 1jvt, 1jvv, 1js0, 1fs3, 1kf2, 1kf3, 1kf4, 1kf5, 1kf7, 1kf8, 1aqp, 1a2w, 1rnw, 1rnz, 1rno, 1rnq, 1rbx, 1ssc, 3srn, 4srn, 1srn, 5rsa - bRNase I pancreatic]] - bovine
3a1r]] - bRNase I pancreatic]] - neutron
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 - bRNase I pancreatic (mutant)
3lxo]], 3jw1, 3djo, 3djp, 3djq, 3djv, 3djx, 3dxg, 3dxh, 2w5g, 2w5i, 2w5k, 2w5l, 2w5m, 3d6o, 3d6p, 3d6q, 3d7b, 3d8y, 3d8z, 2qca, 2g8r, 1z6d, 1z6s, 1u1b, 1w4o, 1w4p, 1w4q, 1wbu, 1o0f, 1jn4, 1jvu, 1f0v, 1ruv, 1rnm, 1rnn, 1rbw, 1rca, 1rpf, 1rpg, 1rph, 1rbw, 1rca, 1rpf, 1rpg, 1rph, 1rnc, 1rnd, 1rob, 1rta, 1rtb - bRNase I pancreatic + nucleotide
6rsa]] - bRNase I pancreatic + nucleotide
]] - neutron
3fl0 ]], 3fl1, 4rsk - bRNase I pancreatic (mutant) + nucleotide
2xog]], 2xoi, 2q4g, 1dfj - bRNase I pancreatic + inhibitor
1rar]], 1ras - bRNase I pancreatic fluorescent
2p42]], 2p43, 2p44, 2p45 , 2p46, 2p47, 2p48, 2p49, 2p4a, 1bzq - bRNase I + antibody
3f8g]], 2e0j, 2e0l, 2e0m, 2e0o, 1h8x, 1e21, 1dza - hRNase I pancreatic (mutant)]] - human
2k11]] - hRNase I pancreatic]] - NMR
1z7x]] - hRNase I + inhibitor
3ljd]], 3ln8, 2vq8, 2vq9 - ZeRNase I – Zebrafish
2pqx]], 2pqy - EcRNase I
2z70]], 2ea1 - EcRNAse I + DNA
RNase II
2ix0]], 2id0 - EcRNase II
2ix1]] - EcRNase II (mutant)
1m58]], 1km8, 1km9- BuRNase 2 - Bullfrog
1bc4]] - BuRNase 2 ]] - NMR
1m07]] - BuRNase 2 + DNA
RNase III
2nue]], 2nuf, 2nug, 1yyk, 1yyw - 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
2kb5]] - hRNase 3]] - NMR
1dyt]], 1qmt - hRNase 3
1h1h]] - hRNase 3 + nucleotide
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 7
2hky]] - hRNase 7]] - NMR
RNase A
1rra]] - RNase A (mutant) – rat
RNase BA
1x1u]], 1x1x, 1x1y, 1b27, 1b2u, 1b3s - 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, 1ban, 1bao - BaRNase BA (mutant)
RNase D
1yt3]] - EcRNase D -Eschericia coli
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
RNase H
3h7i]], 3h8s, 3h8w - T4RNase H (mutant)]] - Enterobacteria phage T4
2ihn]] - T4RNase H (mutant) + DNA
3h8j]], [[1tfr- T4RNase H
2rpi]], 1ril - TtRNase H]] - Thermus thermophilus]] - NMR
1jl2]] - EcRNase H /TtRNase H
3d0p]] - BhRNase H (mutant) + DNA
]] - Bacillus halodurans
1zbf]] - BhRNase H (mutant)
2r7y]], 2g8f, 2g8h, 2g8i, 2g8k, 2g8u, 2g8v, 2g8w, 1zbi, 1zbl - BhRNase H (mutant) + 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)]] - Escherichia coli
1g15]], 1rdd - 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]] - RNase HI N-terminal]] - yeast – NMR
RNase HII
3p83]] - AfRNase HII + DNA
polymerase sliding clamp]] - Archaeoglobus fulgidus
1i39]], 1i3a - AfRNAse HII
3puf]], 3p56, 3p5j - hRNAse H2 subunits a+b+g
3kio]] - mRNase H2 subunits a+b+g
- mouse
3o3g]] - TmRNase HII + DNA
3o3f]], 3o3h - TmRNase HII (mutant) + DNA
2etj]] - TmRNase HII
1x1p]] - TkRNase HII
2dfe]], 2dff, 2dfh - TkRNase HII (mutant)]] - Thermococcus kodakarensis
1eke]] - RNase HII]] - Methanocalcococcus jannaschii
2d0a]], 2d0b, 2d0c - RNase HIII]] - Geobacillus stearothermophilus
RNase J
3bk1]] - TtRNase J
3bk2]] - TtRNase J + nucleotide
RNase LE
1dix]] - RNase LE]] - Solanum lycopersicum
RNase MS
1rms]] - RNase MS + nucleotide
]] - Aspergillus phoenicis
RNase MC1
1v9h]], 1j1f, 1j1g - McRNase MC1 (mutant) + nucleotide
]] - Momordica charantia
1ucd]] - McRNase MC1 + nucleotide
1bk7]] - McRNase MC1
RNase NT
1vcz]], 1vd1, 1vd3 - RNase NT + nucleotide
]] - Nicotiana glutinosa
RNase P
3ok7]], 3okb - TmRNase P + TmRNase P RNA + tRNA Phe 1nz0]] - TmRNase P 1d6t]] - RNase P]] - Staphylococcus aureus 2a64]] - RNase P (mutant)]] - Bacillus stearothermophilus
RNase PH
3dd6]] - RNase PH]] - Bacillus anthracis 1oyp]], 1oyr, 1oys - RNase PH]] - Bacillus subtilis 1r6l]], 1r6m - PaRNase PH]] - Pseudomonas aeruginosa 3b4t]] - MtRNase PH]] - Mycobacterium tuberculosis 1udn]] - AaRNase PH 1udo]], 1udq, 1uds - AaRNase PH (mutant)
RNase S
3oqy]], 3oqz, 3or0, 1z3l, 1z3m, 1z3p, 1y92, 1y94, 1fev, 1d5d, 1d5e, 1d5h, 2rln - bRNase S seminal (mutant)
1tq9]], 1r5c - bRNase S + nucleotide
1r5d]], 1r3m, 1n1x, 1n3z, 1j7z, 1j80, 1j81, 1j82, 1cjq, 1cjr, 1bsr - bRNase S
RNase S3
1iqq]] - RNase S3]] - Japanese pear
RNase SA
3a5e]], 1zgx, 1ynv, 1t2h, 1t2i, 1uci, 1ucj, 1uck, 1ucl, 1i70, 1i8v, 1box - SaRNase SA guanyl-specific (mutant)]] - Streptomyces aureofaciens
1lni]] - SaRNase SA
1gmp]], 1gmq, 1gmr - SaRNase SA +nucleotide
1ay7]] - SaRNase SA + Barstar
1rsn]] - SaRNase SA + cyclophosphothiolate
RNase SA2
3dgy]], 3dh2, 3d4a, 3d5g, 3d5i - SaRNase SA2 + mononucleotide
RNase SA3
1mgr]], 1mgw - SaRNase SA3
RNase SF11
1ioo]] - RNase SF11]] - Nicotiana alata
RNase T
2is3]] - EcRNase T 2f96]] - PaRNase T
RNase T1
1tto]] - AoRNase T1]] - Aspergillus oryzae
1q9e]], 1iyy, 1i2e, 1i2f, 1i2g, 1i3f, 1i3i, 1hz1, 1fys, 1fzu, 1ch0, 4bir, 3bir 5bir - AoRNase T1 (mutant)
1lov]], 1low, 1loy, 1i0v, 1i0x, 1b2m, 1rhl, 1bir, 1rgk, 1rgl - AoRNase T1 (mutant) + nucleotide
1bvi]], 2bu4, 2hoh, 4hoh, 5hoh, 3hoh, 2gsp, 3gsp, 4gsp, 5gsp, 6gsp, 7gsp, 1gsp, 1det, 1rls, 1lra, 1rga - AoRNase T1 + nucleotide
1ygw]] - AoRNase T1 – NMR
RNase U2
3agn]], 3ago, 3ahw - UsRNase U2 + AMP]] - Ustilago sphaerogena 1rtu]] - UsRNase U2
RNase U2B
3ahs]] - UsRNase U2B
RNase Z
2e7y]] - TmRNase Z 2fk6]] - BsRNase Z (mutant) + tRNA Thr 1y44]] - BsRNase Z (mutant)
Oligoribonuclease
2igi]], [[1yta – EcORNase 2gbz]] - ORNase]] - Xanthomonas campestris 1j9a]] - ORNase]] - Haemophilus influenzae
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]] - Streptococcus mutans
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Michal Harel, Alexander Berchansky, Wayne Decatur, David Canner, Joel L. Sussman, Jaime Prilusky
