RNA polymerase

spinqualitylabelsall models Yeast RNA polymerase II elongation complex C complexed with DNA and RNA and Zn+2 (grey) and Mg+2 (green) ions 3m3y. Subunit B1 (grey), B2 (green), B3 (pink), B9 (wheat), B11 (rust), ABC1 (magenta), ABC2 (cyan), ABC3 (red), ABC4 (aqua), ABC5 (blue) (PDB code 3m3y). Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D RNA polymerase (RNAP, DNA primase, dnaG) catalyzes the addition of nucleotides to RNA during transcription. DNA-dependent RNA polymerase catalyzes the transcription of RNA from a DNA template. The DNA-dependent eukaryote RNAP are divided to RNAP I (or Pol I) which transcribes ribosomal RNA; RNAP II (or Pol II) transcribes DNA and most snRNA and microRNA; RNAP III (or Pol III) transcribes tRNA and 5S ribosomal RNA. DNA primase (DNAP) is RNAP which catalyzes the synthesis of the RNA primer which complements an ssDNA template and initiates DNA synthesis. dnaG is a bacterial DNA primase. For DNA-dependent RNA polymerase see Molecular Playground/T7 RNAP Conformations User:Luis E Ramirez-Tapia/T7 RNA polymerase Molecular Playground/T7 RNA Polymerase (7 mer int). T7 RNA Polymerase. Molecular Playground/Human mtRNA pol. Beta-Prime Subunit of Bacterial RNA Polymerase Transcription and RNA Processing. RNA-dependent RNA polymerase catalyzes the replication of RNA from a RNA template. An example is the Influenza virus RNA polymerase which is composed of 3 subunits. Subunit PA is involved in cap-snatching. Subunit PB1 is involved in RNA synthesis. Subunit PB2 is involved in RNA replication and transcription. It is implicated in endonuclease cleavage of RNA primers. View of the nucleic acid (1qln; blue: nontemplate strand; cyan: template strand; red:RNA). See also RNA-directed RNA polymerase. For RNA-dependent RNA polymerase from Hepatitis C virus - NS5B - see NS5B. User:Michael Strong/H1N1/PB2 User:Michael Strong/H1N1/PB2/MSA User:Michael Strong/H1N1/PA User:Michael Strong/H1N1/PA/MSA Poly(A) RNA polymerase catalyzes the addition of long poly(A) tails to mRNA without a template. 3D Structures of RNA polymerase RNA polymerase 3D structures

3D Structures of RNA polymerase

Updated on 05-January-2020 {{#tree:id=OrganizedByTopic|openlevels=0|

• Prokaryotic DNA-dependent RNAP

• • 2y0s – SsRNAP – Sulfolobus shibata
    
  • 1ryq - PfRNAP subunit ε - Pyrococcus furiosus
    
  • 1go3 – MjRNAP subunit RPB4, RPB7 - Methanocaldococcus jannaschii
    
  • 1iw7, 1smy, 6asg - TtRNAP subunits α,β,β',ω Thermus thermophilus
    
  • 1doq - TtRNAP subunit α
    
  • 3lti– EcRNAP subunit β fragment – Escherichia coli
    
  • 4iqz - EcRNAP subunit β’
    
  • 3k4g, 1coo - EcRNAP subunit 
    
  • 1bdf - EcRNAP subunit α mutant)
    
  • 3lu0 - EcRNAP subunits α,β,β',ω – Electron diffraction
    
  • 2krc - BsRNAP subunit δ N-terminal – Bacillus subtilis – NMR
    
  • 2ly7 - BsRNAP subunit β NMR
    
  • 2m4k - BsRNAP subunit δ NMR
    
  • 4nc7, 4nc8 - BsRNAP subunit δ
    
  • 2max - HpRNAP subunit α - Helicobacter pylori - NMR
    
  • 1qyp – RNAP II C terminal – Thermococcus celer – NMR
    
  • 4kbj – MtuRNAP β subunit – Mycobacterium tuberculosis
    
  • 5uh7 - MtuRNAP subunit ’
    
  • 4noi – RNAP α subunit – Campylobacter jejuni
    
  • 1hqm – TaRNAP subunits α,β,β',ω Thermus aquaticus
    
  • 2gho - TaRNAP subunits α,β,β'
    
  • 2auj, 2auk - TaRNAP subunit β’
    
  • 1xpp – RNAP subunit L – Thermoplasma acidophilum
    
  • 2waq, 2wb1, 4ayb – SsRNAP
    
  • 3e7h – VcRNAP subunit – Vibrio cholera
    
  • 1ef4 – MtRNAP subunit RPB10 – Methanothermobacter thermautotrophicus
    
  • 1eik - MtRNAP subunit RPB5 – NMR
    
  • 4qiw – TkRNAP subunits a’’+d+e’+f+h+k+l+n+p – Thermococcus kodakarensis
    
  • 4qjf - TkRNAP subunits e’+f
    
  • 4qjv - TkRNAP subunits d+l
    
  • 6fed, 6f6w – MsRNAP subunits α,β,β',ω - Mycobacterium smegmatis – Cryo EM
    

• Prokaryotic DNA-dependent RNAP complex with DNA/RNA

• • 4v8s – SsRNAP + DNA
    
  • 3q22, 3q23]], 3q24, 4ff1, 4ff2, 4ff3, 4ff4 – RNAP + DNA – Enterobacteria phage N4
    
  • 2o5i, 2o5j, 4gzy, 4gzz, 4xln, 4xlr - TtRNAP subunits α,β,β',ω + DNA +RNA
    
  • 5x22 - TtRNAP subunits α,β,β',ω + DNA + RNA + CMPCPP
    
  • 5x21 - TtRNAP subunits α,β,β',ω + DNA + RNA + antibiotic
    
  • [[4wqs, 4xlp, 4xlq, 4xls, 5tjg - TtRNAP subunits α,β,β',ω + DNA
    
  • 2ppb - TtRNAP subunits α,β,β',ω + antibiotic + DNA + RNA + substrate analog
    
  • 4yg2, 4jk1, 4jk2, 4jkr, 4kmu - EcRNAP subunits α,β,β',ω RNA
    
  • 6flp, 6bjs, 6asx, 6alh, 6alf, 6rip, 6ri9 - EcRNAP subunits α,β,β',ω RNA + DNA – Cryo EM
    
  • 6rh3 - EcRNAP subunits α,β,β',ω RNA + DNA + GMP + CTP – Cryo EM
    
  • 4kn4, 4kn7 - EcRNAP subunits α,β,β',ω RNA + antibiotic
    

• Prokaryotic DNA-dependent RNAP complex with protein

• • 3p8b – PfRNAP subunit ε’’ + transcription antitermination protein
    
  • 3qqc - PfRNAP subunits β, ε’’ + transcription antitermination protein
    
  • 2be5- TtRNAP subunits α,β,β’,ω + σ factor + inhibitor
    
  • 2cw0, 5tmf - TtRNAP subunits α,β,β’,ω + σ factor
    
  • 3wod - TtRNAP subunits α,β,β’,ω + σ factor + GP39
    
  • 4mq9 - TtRNAP subunits α,β,β’,ω + σ factor + GE23077
    
  • 5tmc - TtRNAP subunits α,β,β’,ω + σ factor + protein
    
  • 3dxj, 3eql - TtRNAP subunits α,β,β’,ω + σ factor + antibiotic
    
  • 5xj0 - TtRNAP subunits α,β,β’,ω + σ factor + GP39 + GP76
    
  • 4wqt - TtRNAP subunits α,β,β’,ω + RNA cleavage stimulating factor
    
  • 3mlq - TtRNAP subunit β + transcription-repair coupling factor
    
  • 3woe, 3wof - TtRNAP subunit β + GP39
    
  • 2lmc - EcRNAP subunit β + RNAP inhibitor
    
  • 3mmp - EcRNAP subunit β + EF-TU
    
  • 4ljz, 4lk1, 4mey, 4xsx, 4xsy, 4xsz, 4zh2, 4zh3 , 4zh4, 5byh, 5nwt, 5uag, 5uah, 5uaj, 5ual, 5uaq, 5ui8 - EcRNAP subunits α,β,β’,ω + σ factor
    
  • 6c9y - EcRNAP subunits α,β,β’,ω + σ factor – Cryo EM
    
  • 4mex - EcRNAP subunits α,β,β’,ω + σ factor + salinamide
    
  • 4lk0, 4llg, 4mex, 4yfk, 4yfn, 4yfx - EcRNAP subunits α,β,β’,ω + σ factor + RNAP inhibitor
    
  • 5uac, 6cux - EcRNAP subunits α,β,β’,ω + σ factor + antibiotic
    
  • 6byu - EcRNAP subunits α,β,β’,ω + σ factor + PPAPP
    
  • 5w1s - EcRNAP subunits α,β,β’,ω + σ factor + TRAR
    
  • 6rin, 6ri7 - EcRNAP subunits α,β,β’,ω + GREB + RNA + DNA – Cryo EM
    
  • 5tbz - EcRNAP subunits α,β,β’ + NusG – Cryo EM
    
  • 6fbv - MtuRNAP subunits α,β,β’,ω + σ factor – single particle EM
    
  • 5zx3 - MtuRNAP subunits α,β,β’,ω + σ factor
    
  • 6dve, 6dvd, 6dvc, 6dvb, 6dv9 - MtuRNAP subunits α,β,β’,ω + σ factor + DNA
    
  • 5zx2 - MtuRNAP subunits α,β,β’,ω + σ factor + DNA + RNA
    
  • 3ihq, 1z3e, 3gfk - BsRNAP subunit α + regulatory protein SPX
    
  • 1l9u - TaRNAP subunits α,β,β’,ω + σ factor
    
  • 2jzb – RNAP subunit α + NusA transcription elongation factor – Yersinia pseudotuberculosis
    
  • 3tbi - RNAP subunit β + GP33 – Enterobacteria phage T4
    
  • 3lpe- MjRNAP subunit ε’’ + transcription antitermination protein
    
  • 6eyd - MsRNAP subunits α,β,β’,ω + σ factor – Cryo EM
    

• Prokaryotic DNA-dependent RNAP complex with σ factor + DNA/RNA

• • 4oin, 4oio - TtRNAP subunits α,β,β’,ω + σ factor + GE23077 + DNA
    
  • 4oip - TtRNAP subunits α,β,β’,ω + σ factor + GE23077 + DNA + nucleotide
    
  • 4oiq, 4oir - TtRNAP subunits α,β,β’,ω + σ factor + GE23077 + DNA + antibiotic
    
  • 4g7h, 4g7o, 4g7z, 4q4z, 5d4d, 5d4e, 5voi, 6p70 - TtRNAP subunits α,β,β’,ω + σ factor + DNA
    
  • 4q5s, 5d4c, 5e17, 5e18, 5vo8, 6p71, 6oy7, 6oy6, 6oy5, 6ow3, 6ovy, 6ovr - TtRNAP subunits α,β,β’,ω + σ factor + DNA + RNA
    
  • 5i2d - TtRNAP subunits α,β,β’,ω + σ factor + transcriptional regulator + DNA + RNA
    
  • 6cuu - TtRNAP subunits α,β,β’,ω + σ factor + DNA + antibiotic
    
  • 6n62 - EcRNAP subunits α,β,β’,ω + σ factor + DNA
    
  • 6n61 - EcRNAP subunits α,β,β’,ω + σ factor + DNA + capistruin peptide
    
  • 6n60 - EcRNAP subunits α,β,β’,ω + σ factor + DNA + microcin peptide
    
  • 5nsr, 5nss, 6gh6, 6gh5, 6ca0, 6omf - EcRNAP subunits α,β,β’,ω + σ factor + DNA – Cryo EM
    
  • 5vt0 - EcRNAP subunits α,β,β’,ω + σ factor + RNA – Cryo EM
    
  • 4yln, 4ylo, 4ylp, 5ipl, 5ipm, 5ipn, 6gfw - EcRNAP subunits α,β,β’,ω + σ factor + DNA + RNA
    
  • 6b6h - EcRNAP subunits α,β,β’,ω + σ factor + CAP + DNA + RNA – Cryo EM
    
  • 6k4y - EcRNAP subunits α,β,β’,ω + σ factor + anti-s factor + MOTA + DNA – Cryo EM
    
  • 3iyd - EcRNAP subunits α,β,β’,ω + σ factor + catabolite gene activator + DNA
    
  • 4s20 - EcRNAP subunits α,β,β’,ω + σ factor + RAPA + DNA
    
  • 5ms0 - EcRNAP subunits α,β,β’,ω + σ factor + NusB + NusG + NusA + antitermination protein + RS10 + DNA – Cryo EM
    
  • 5uha - MtuRNAP subunits α,β,β’,ω + σ factor + DNA
    
  • 5uh9, 5uh8, 6jcy, 6jcx, 6jbq - MtuRNAP subunits α,β,β’,ω + σ factor + DNA + RNA
    
  • 5uhg, 5uhc, 5uh6, 5uh5 - MtuRNAP subunits α,β,β’,ω + σ factor + DNA + RNA + antibiotic
    
  • 5uhd, 5uhb - MtuRNAP subunits α,β,β’,ω + σ factor + DNA + antibiotic
    
  • 5uhf, 5uhe - MtuRNAP subunits α,β,β’,ω + σ factor + DNA + RNA + inhibitor
    
  • 1l9z - TaRNAP subunits α,β,β’,ω + σ factor + DNA
    

• Prokaryotic DNA-dependent RNAP complex with protein + DNA/RNA

• • 3aoh, 3aoi - TtRNAP subunits α,β,β’,ω + DNA + RNA + GFH1
    
  • 3t72 - EcRNAP subunit β + Pho box DNA + PhoB
    
  • 1lb2, 3n4m - EcRNAP subunit α + DNA + CAP
    
  • 1xs9 - EcRNAP subunit α + DNA + MARA
    
  • 5ciz - EcRNAP subunit α + DNA + CRP
    
  • 3n97 - EcRNAP subunit α C terminal + DNA + σ factor
    
  • 6c6u - EcRNAP subunits α,β,β’,ω + NusG + DNA – Cryo EM
    
  • 6c6t, 6c6s - EcRNAP subunits α,β,β’,ω + RFAH + DNA – Cryo EM
    
  • 6gov - EcRNAP subunits α,β,β’,ω + NusB + antitermination protein + RS10 + DNA – Cryo EM
    
  • 6flq - EcRNAP subunits α,β,β’,ω + NusA + DNA + RNA – Cryo EM
    
  • 6alg - EcRNAP subunits α,β,β’,ω + NUN + DNA + RNA – Cryo EM
    
  • 6p19 - EcRNAP subunits α,β,β’,ω + protein Q + DNA + RNA – Cryo EM
    
  • 6jnx - EcRNAP subunits α,β,β’,ω + protein Q + σ factor + DNA – Cryo EM
    
  • 6p18 - EcRNAP subunits α,β,β’,ω + protein Q + σ factor + DNA + RNA – Cryo EM
    
  • 6j9f - XoRNAP subunits α,β,β’,ω + P7 + DNA + RNA – Xanthomonas oryzae - Cryo EM
    
  • 6j9e - XoRNAP subunits α,β,β’,ω + P7 + DNA + RNA + NusA - Cryo EM
    

• Prokaryotic DNA-dependent RNAP complex with small molecule

• • 1zyr, 2a68, 2a69, 2a6e, 2a6h - TtRNAP subunits α,β,β’,ω + antibiotic
    
  • 1i6v, 1ynj, 1ynn - TaRNAP subunits α,β,β’,ω + antibiotic
    

• Viral DNA-dependent RNAP

• • 6ric – VvRNAP – vaccinia virus – Cryo EM
    
  • 6rid – VvRNAP + RNA + DNA – Cryo EM
    
  • 6rie – VvRNAP + mRNA capping enzyme + RNA + DNA – Cryo EM
    

• Eukaryotic DNA-dependent RNAP I

• • 1a1d – yRNAP subunit RPB8 – yeast - NMR
    
  • 2rf4 - yRNAP I subunit RPA4
    
  • 5g5l, 5lmx, 5m3f, 5m3m, 5m5w, 5m5x, 5m5y, 5m64 – yRNAP I – Cryo EM
    
  • 5n5y, 5n5z, 5n60, 5oa1 – yRNAP I + RRN – Cryo EM
    
  • 5n61, 6h68, 6h67 – yRNAP I + RRN + DNA + RNA – Cryo EM
    
  • 5w66, 5w65, 5w64, 5w5y – yRNAP I + transcription initiation factor + DNA + RNA – Cryo EM
    

• Eukaryotic DNA-dependent RNAP II

• • 1qkl - hRNAP II subunit RPB6 - human
    
  • 2c35 - hRNAP II subunits RPB4 RPB7 (mutant) – NMR
    
  • 2f3i - hRNAP II subunits RPB8 RPB17 RPABC3 – NMR
    
  • 2ghq, 2ght - hRNAP II subunits RPB1 + hRNAP II C terminal
    
  • 2q5e, 3l0b, 3l0c - hRNAP II C terminal
    
  • 1nik, 1nt9, 1wcm, 2b8k, 3fki, 3qt1, 1i3q, 1i50, 1dzf, 5ip7, 5ip9, 5u5q – yRNAP II
    
  • 4x67, 4x6a, 4y52, 4y7n, 5c3e, 5c44, 5c4a, 5c4j, 5c4x, 6bqf, 6bm4, 6bm2, 6blp, 6blo, 5w51, 5w4u – yRNAP II + DNA + RNA
    
  • 6a5v, 6a5u, 6a5t, 6a5r, 6a5p, 6a5o, 6a5l – yRNAP II + DNA + RNA + histones – Cryo EM
    
  • 3j1n, 4v1n, 5fmf, 5x51, 5x50, 5x4z – yRNAP II – Cryo EM
    
  • 1y14 - yRNAP II subunits RPB4 RPB7
    
  • 5flm – bRNAP II + DNA + RNA - bovine
    
  • 5oik – bRNAP II + SPT4 + SPT5 + DNA + RNA
    
  • 3ef0, 3ef1 - fyRNAP II subunit α C terminal – fission yeast
    
  • 3h0g – fyRNAP II
    
  • 5u0s – fyRNAP II + mediator complex – Cryo EM
    

• Eukaryotic DNA-dependent RNAP II complex with DNA/RNA

• • 4boc – hRNAP + DNA
    
  • 1i6h, 4a3i - yRNAP II + DNA
    
  • 4v1m - yRNAP II + DNA – Cryo EM
    
  • 1r9s, 2ja5, 2ja6, 2ja7, 2ja8, 2nvq, 2nvt, 2nvx, 2nvy, 2nvz, 3gtg, 3gtj, 3gtk, 3gtl, 3gtm, 3gto, 3gtp, 3gtq, 3hov, 3how, 3hox, 3hoy, 3hoz, 3po2, 3po3, 3m3y, 3m4o, 4a3g, 4a93, 4a3b, 4a3c, 4a3d, 4a3e, 4a3f, 4a3j, 4a3k, 4a3l, 4a3m - yRNAP II + RNA + DNA
    
  • 5vvs - yRNAP II + RNA + DNA – Cryo EM
    
  • 1y1w, 1y77, 2r7z, 2r92, 2r93, 3h3v, 3rzd, 3rzo, 3s15, 3s16, 3s17, 3s1m, 3s1n, 3s1q, 3s1r, 3s2d, 3s2h - yRNAP II + RNA
  • 2b63 - yRNAP II + nucleotide + RNA
    
  • 2e2i, 2e2j - yRNAP II + nucleotide + DNA
    
  • 2yu9, 3i4m, 3i4n - yRNAP II + nucleotide + DNA + RNA
    
  • 2vum - yRNAP II + inhibitor + DNA + RNA
    

• Eukaryotic DNA-dependent RNAP II complex with protein

• • 3o2q, 3o2s – hRNAP II subunit α C-terminal + symplekin
    
  • 3j0k, 5iy6, 5iy7, 5iy8, 5iy9, 5iya, 5iyb, 5iyc, 5iyd – hRNAP II + TFIIF – Cryo EM
    
  • 2lto - hRNAP II subunit RPB1 + Tudor domain containing protein 3
    
  • 1pqv, 1y1v, 4bbr, 4bbs - yRNAP II + TFIIS
    
  • 1y1y - yRNAP II + TFIIS + DNA +RNA
    
  • 1r5u, 3k7a, 3k1f - yRNAP II + TFIIB
    
  • 4v1o, 5fyw, 5fz5, 5sva - yRNAP II + DNA + TIIF + TBP + mediator – Cryo EM
    
  • 2l0i – yRNAP C-terminal + RTT103 – NMR
    
  • 4bxx, 4bxz, 4by1, 4by7 – yRNAP II + RNA + DNA + transcription factor Bye1
    
  • 5vvr - yRNAP II + DNA + RNA + Rad26 – Cryo EM
    
  • 6gml – pRNAP II + RNA + DNA + DSIF + NELF – pig – Cryo EM
    
  • 6gmh – pRNAP II + RNA + DNA + DSIF + PAF + SPT6 – Cryo EM
    
  • 6exv – pRNAP II + RNA + DNA + amatoxin – Cryo EM
    

• Eukaryotic DNA-dependent RNAP II complex with small molecule

• • 3pgl - hRNAP II C terminal + inhibitor
    
  • 3cqz, 1k83 - yRNAP II + inhibitor
    
  • 1twa, 1twc, 1twf, 1twg, 1twh - yRNAP II + nucleotide
    

• Eukaryotic DNA-dependent RNAP III

• • 2xub, 2xv4 - hRNAP III subunits RPC3
    
  • 5afq - hRNAP III subunits RPC3 + RPC32B
    
  • 2dk8 – RNAP III RPC34 domain - mouse – NMR
    
  • 2dk5 – hRNAP III winged helix domain (mutant) – NMR
    
  • 2yu3 - hRNAP III winged helix domain
    
  • 2ckz, 5fj9, 5fja, 6eu3, 6eu2 - yRNAP III - Cryo EM
    
  • 5fj8, 6f41 - yRNAP III + DNA + RNA - Cryo EM
    
  • 6f44, 6f42, 6f40, 6eu1 - yRNAP III + DNA – Cryo EM
    
  • 6cnf, 6cnd, 6cnc, 6cnb - yRNAP III + DNA + TFIIIB – Cryo EM
    
  • 5xon - yRNAP III + DNA + RNA + TFIIB + SPT4 + SPT5 – Cryo EM
    
  • 5xog - yRNAP III + DNA + RNA + SPT5 + KOW5 + ELF1 – Cryo EM
    
  • 6eu0 - yRNAP III + DNA + TFIIIB + TATA-box-binding protein – Cryo EM
    
  • 3ayh - fyRNAP III subunit Rpc8+Rpc9
    

• Eukaryotic DNA-dependent RNAP I+II+III

• • 6o9l, 6drd - hRNAP – Cryo EM
    
  • 6rwe, 6ruo, 6rui, 6rrd, 6rqt, 6rql, 6rqh, 6o6c, 6hls - yRNAP – Cryo EM
    
  • 6hlr, 6hlq, 6hko - yRNAP + nucleotide analog – Cryo EM
    
  • 6j51, 6j50, 6j4z, 6j4y, 6j4x, 6j4w, 6ir9 - yRNAP + Elf1 + Spt4 + Spt5 + histones – Cryo EM
    
  • 6i84 - yRNAP + DNA + histones – Cryo EM
    
  • 6gyl, 6gym, 6gyk - yRNAP + DNA + TBP + transcription initiation factors – Cryo EM
    

• Eukaryotic DNA-dependent RNAP μ or DNA-directed DNA/RNA polymerase mu

• • 4lzd – hRNAP μ
    
  • 4lzg, 4m04, 4m0a, 5twp, 5twq, 5twr, 5tws. 5txx, 5txz, 5tyb, 5tyc, 5tyd, 5tye, 5tyf, 5tyg, 5tyu, 5tyv, 5tyw, 5tyx, 5tyy, 5tyz, 6p1w, 6p1v, 6p1u, 6p1t, 6p1s, 6p1r, 6p1q, 6p1p, 6p1o, 6p1n, 6p1m, 6akh, 6ak9, 6ak8 – hRNAP μ + DNA
    
  • 5vzi, 5vzh, 5vzg, 5vzf, 5vze, 5vzd, 5vzc, 5vzb, 5vza, 5vz9, 5vz8, 5vz7, 6ipg, 6ipf, 6ipe, 6ipd – hRNAP μ (mutant) + DNA + nucleotide
    
  • 5zlc – hRNAP μ + nucleotide
    
  • 6ipn, 6ipm, 6ipl, 6ipk, 6ipj, 6ipi, 6iph, 6ak6, 6ak5, 6aeh, 6aec – hRNAP μ (mutant) + nucleotide
    

• Eukaryotic DNA-dependent RNAP mitochondrial

• • 4boc – hRNAP + DNA
    
  • 6erq, 6erp – hRNAP + DNA + MTTFA + dimethyladenosine transferase
    
  • 3spa - hRNAP + polypeptide
    

• Eukaryotic DNA primase

• • 4lik, 4mhq, 6rb4 - hDNAP small subunit
    
  • 3q36 – hDNAP large subunit
    
  • 5i7m – hDNAP large subunit (mutant)
    
  • 3l9q – hDNAP large subunit P58C domain
    
  • 5dqo – hDNAP large subunit P58C domain (mutant)
    
  • 4rr2 - hDNAP small + large subunit
    
  • 4bpu - hDNAP small (mutant) + large subunit
    
  • 4ehs – HpDNAP C terminal
    
  • 4lim, 4mm2 - yDNAP small subunit
    
  • 3lgb, 6di6, 6dhw - yDNAP large subunit Fe-S domain
    
  • 6du0, 6dtz, 6dtv, 6di2 - yDNAP large subunit Fe-S domain (mutant)
    

• Eukaryotic DNA primase complex

• • 4lil - hDNAP small subunit + UTP
    
  • 6r4s - hDNAP small subunit + ATP
    
  • 6r5e, 6r5d, 6r4u, 6r4t - hDNAP small subunit + nucleoside analog
    
  • 5f0s, 5f0q – hDNAP large subunit C terminal + RNA
    
  • 4bpw - hDNAP small (mutant) + large subunit + UTP
    
  • 4bpx - hDNAP small (mutant) + DNA polymerase α catalytic subunit
    
  • 5exr - hDNAP small + large subunits + DNA polymerase α catalytic subunit
    

• Bacterial DNA primase

• • 1d0q - GsDNAP zinc-binding domain - Geobacillus stearothermophilus
    
  • 1z8s - GsdnaG dnaB binding domain - NMR
    
  • 2haj - EcdnaG catalytic domain - NMR
    
  • 1t3w – EcdnaG C-terminal
    
  • 1eqn, 1dd9, 1dde – EcdnaG catalytic core
    
  • 5w33 - MtudnaG RPD 112-432
    
  • 5z51 - MtudnaG helicase-binding domain 482-637
    
  • 5vaz – dnaG – Pseudomonas aeruginosa
    
  • 4im9 – VcdnaG C-terminal
    
  • 3m1m – DNAP RNA polymerase domain – Sulfolobus islandicus
    
  • 1zt2, 2pa8, 2pmz, 3hkz, 5ofn - SsDNAP small + large subunit – Sulfolobus solfataricus
    
  • 2au3 – DNAP zinc-binding and RNAP domains – Aquifex aeolicus
    
  • 1v33 - PhDNAP small subunit – Pyrocuccus horikoshii
    
  • 1g71 - PfDNAP small subunit
    
  • 4e2k – SaDNAP – Staphylococcus aureus
    
  • 2lzn – SaDNAP C terminal – NMR
    
  • 5guj – BsdnaG RNAP domain
    

• Bacterial DNA primase complex

• • 2r6a, 2r6c - GsdnaG helicase binding domain + helicase
    
  • 4m4w - GsdnaG helicase binding domain + helicase + DnaI
    
  • 3b39 – EcdnaG catalytic domain + DNA
    
  • 5w36, 5w35, 5w34 - MtudnaG + DNA
    
  • 1v34 - PhDNAP small subunit + UTP
    
  • 4edg, 4edk, 4edr, 4edt, 4edv, 4ee1 – SaDNAP + nucleotide
    
  • 5of3 - SsDNAP small + large subunit + protein
    

• RNA polymerase from Bacteriophage T7 or DNA primase/helicase or GP4

• • 1q57 – T7DNAP/helicase (mutant) – Enterobacteria phage T7
    
  • 1nui – T7DNAP/helicase primase fragment (mutant)
    
  • 1cr0 - T7DNAP/helicase helicase domain
    
  • 1cr1, 1cr2, 1cr4 - T7DNAP/helicase helicase domain + nucleotide
    
  • 4rnp – T7RNAP
    
  • 1aro – T7RNAP + T7 lysozyme
    
  • 1cez, 1h38, 1qln, 2pi4, 2pi5 - T7RNAP + DNA
    
  • 6n7v, 6n7t, 6n7s, 6n7n, 6n7i - T7RNAP (mutant) + DNA + TTP – Cryo EM
    
  • 1msw, 1s0v, 1s76, 1s77, 3e2e, 3e3j - T7RNAP + DNA + RNA
    
  • 6n9x, 6n9w, 6n9v, 6n9u - T7RNAP (mutant) + GP5 + DNA + RNA – Cryo EM
    
  • 5ikn - T7RNAP (mutant) + GP5 + thioredoxin
    

• RNA-dependent RNAP

• • 3phu, 1khv, 1khw – HfRNAP L RNA-directed – Hemorrhagic fever virus
    
  • 5v5i, 5v5h, 5v5g – HfRNAP L + ubiquitin
    
  • 2xwh, 2xxd, 2xhu,2xhw, 3i5k, 1c2p, 1csj, 1quv, 1yuy, 1yv2, 1yvx, 1yvz, 3gsz, 4aep, 4aex, 2wrm, 3mwv, 3mww – HvRNAP Ns5b domain – Hepatitis virus
    
  • 3vc8 - HvRNAP cytoplasmic domain C terminal
    
  • 3vcb, 4ry4, 4ry5, 4ry6, 4ry7 - HvRNAP cytoplasmic domain C terminal (mutant)
    
  • 2xym, 2xhv, 2xi2, 4e76, 4adp, 4obc, 4wt9 - HvRNAP Ns5b domain (mutant)
    
  • 1rdr - PoRNAP – Polio virus
    
  • 1tql, 2ijd, 2ijf, 4nlo, 4nlp, 4nlq, 4nlr, 4nls, 4nlt, 4nlu, 4nlv, 4nlw, 4nlx, 4nly, 4r0e - PoRNAP (mutant)
    
  • 2xi5, 2xi7 – BvRNAP L N-terminal – Bunyavirus
    
  • 3jsb – RNAP (mutant) – Lymphocytic choriomengitis virus
    
  • 2wk4, 2uut, 2uuw – SvRNAP (mutant) – Sapporo virus
    
  • 2ckw - SvRNAP residues 1135-1649
    
  • 3nky, 4wyl, 4wyw, 6gvv - FmRNAP (mutant) - Foot-and-mouth virus
    
  • 1hhs, 4a8o, 4b02, 1hi8, 5fj6 – P6RNAP – Bacteriophage φ-6
    
  • 2jl9, 2jlf, 1wac – P6RNAP (mutant)
    
  • 5fj7 – P6RNAP + major inner protein P1
    
  • 2po4 – N4RNAP polymerase domain – Bacteriophage N4
    
  • 1l9k – DevRNAP N terminal – Dengue virus
    
  • 2j7u, 4c11 - DevRNAP polymerase domain
    
  • 5ccv - DevRNAP NS5
    
  • 1oks – RNAP α subunit – Measles virus
    
  • 1r4g - RNAP α subunit – Sendai virus – NMR
    
  • 1s48, 1s49, 1s4f – DvRNAP residues 71-679 – Diarrhea virus
    
  • 2cjq - DvRNAP polymerase domain
    
  • 1sh0, 1sh2, 1sh3 - NvRNAP C terminal – Norwalk virus
    
  • 1vyi - RNAP α subunit C terminal – Rabies virus
    
  • 2hcn, 2hcs, 2hfz – RNAP polymerase domain – West Nile virus
    
  • 2pgg, 2pus – RNAP – Bursal disease virus
    
  • 2r7o, 2r7q – SrRNAP – Simian rotavirus
    
  • 4au6 - RNAP – bovine rotavirus – Cryo-EM
    
  • 2yi8, 2yi9, 2yia, 2yib – IpnvRNAP – Infectious pancreatic necrosis virus
    
  • 3n6l – EvRNAP – Human enterovirus
    
  • 4uci, 4ucj, 4ucl, 4ucy, 4ucz – HmpvRNAP L residues 1600-2005 – Human metapneumovirus
    
  • 4uck, 4ud0 – HmpvRNAP L residues 1600-2005 (mutant)
    
  • 4zp8, 4zp9, 4zpa, 4zpb, 4zpc, 4zpd – CvRNAP residues 1724-2185 (mutant) – Coxsackievirus
    
  • 3ddk – CvRNAP residues 1724-2185
    
  • 3nah, 3nai, 3qid, 3uqs – MnvRNAP – Murine norovirus
    
  • 4wfx, 4wfy, 4wfz – CvRNAP RDRP domain (mutant)
    
  • 2j7n, 2j7o – RNAP residues 381-1402 – Neurospora crassa
    
  • 4gzk, 4ieg – RNAP – cystovirus 12
    
  • 4i1t – RNAP L – Pichinde virus
    
  • 5chs – RNAP L N-terminal – Vescicular stomatitis Indiana virus
    
  • 4xha, 4xhi – TavRNAP – Thosea asigna virus
    
  • 4miw, 5izh, 5j1n, 5j1p – RNAP L N terminal – Lassa virus
    
  • 4mtp – RNAP RDRP module – Encephalitis virus
    
  • 4cgx, 4chc – TvRNAP N terminal – Thogoto virus
    
  • 4chd – TvRNAP 627 domain
    
  • 4che, 4chf – TvRNAP cap-binding domain
    
  • 5fsw - NvRNAP C terminal – Thielavia terrestris
    
  • 5hsb – RNAP – Andes virus
    
  • 5ize – RNAP L – Hantaan virus
    
  • 5ltf – LcmvRNAP L – Lymphocytic choriomeningitis mammarenavirus
    
  • 5lts - LcmvRNAP (mutant)
    
  • 5u0c - ZvRNAP NS5 – Zika virus
    
  • 6qw5, 6qw0, 6qvv - RNAP – Toscana virus
    
  • 6dx5 - RNAP OTU domain – Farallon virus
    
  • 6dx3 - RNAP OTU domain – Taggert virus
    
  • 6dx2 - RNAP OTU domain – Dera Ghazi khan virus
    
  • 6dx1, 6dwx - RNAP OTU domain – Qulybus virus
    

• RNA-dependent RNAP complex with RNA

• • 4e78, 4e7a, 4wta, 4wtc, 4wtd, 4wte, 4wtf, 4wtg, 4wti, 4wtj, 4wtk, 4wtl, 4wtm - HvRNAP Ns5b domain (mutant) + RNA
    
  • 3ol6, 2jlg, 4k4s, 4k4t, 4k4u, 4k4v, 4k4w – PoRNAP (mutant) + RNA
    
  • 3ol7, 3ol8, 3ol9, 3ola, 3olb - PoRNAP (mutant) + RNA + nucleotide
    
  • 3klv, 3kmq, 3kms, 3kna, 3nl0, 3nma, 4iqx, 4wzm, 4wzq, 4x2b, 5jxs – FmRNAP (mutant) + RNA
    
  • 3koa - FmRNAP (mutant) + RNA + nucleotide
    
  • 1wne – FmRNAP + RNA
    
  • 2e9r, 2e9t, 2e9z, 2ec0 - FmRNAP + RNA + inhibitor
    
  • 1uvi, 1uvl, 1uvm, 1uvn, 4a8f, 4a8k, 4a8m, 4a8q, 4a8s, 4a8w, [[4a8y – P6RNAP + RNA
    
  • [[3bsn, 3bso, 3h5x, 3h5y - NvRNAP + RNA + nucleotide
    
  • 2r7r, 2r7s, 2r7t, 2r7u, 2r7v, 2r7w, 2r7x – SrRNAP + RNA
    
  • 5amq, 5amr – BvRNAP + RNA
    
  • 4k50 – RNAP + RNA – Human rhinovirus
    
  • 3c2p, 3c3l, 3c46, 3q0a - N4RNAP polymerase domain + promoter DNA
    
  • 1hht, 1hi0 – P6RNAP + DNA
    
  • 1uvj, 1uvk – P6RNAP + RNA
    
  • 4k4x, 4k4y, 4k4z – CvRNAP + RNA
    
  • 6ogz – RvaRNAP + RNA – Rotavirus A – Cryo EM
    
  • 6kwq – EvRNAP + RNA
    
  • 6kwr – EvRNAP + RNA + CMP + CTP
    

• RNA-dependent RNAP complex with protein

• • 3phw, 2pt2, 3pt2 – HfRNAP + ubiquitin
    
  • 3phx, 3pse – HfRNAP + ISG15
    
  • 6u5o – HmpvRNAP L + phosphoprotein – Cryo EM
    
  • 6pzk – RNAP L + phosphoprotein – Human respiratory syncytial virus - Cryo EM
    
  • 6po2, 6pns – RNAP + VP3 – Bluetongue virus - Cryo EM
    
  • 2d7s, 2f8e – FmRNAP + VPG
    
  • 5y3d – MnvRNAP + VPG
    
  • 3cdw - CvRNAP + POP + VPG
    
  • 4f5x – SrRNAP + Vp2 + Vp6
    
  • 3zed – IpnvRNAP + capsid protein Vp3
    
  • 4hxd – RNAP L + polyubiquitin-C – Dugbe virus
    
  • 4r71 – RNAP b chain + EF-TS EF-TU + RPS1 – Enterobacteria phage qbeta
    
  • 5jze – RNAP + ISG15 – Erve virus
    
  • 6tz0, 6ty8 – BmcpvRNAP + Vp4 – Bombyx mori cytoplasmic polyhedrosis virus – Cryo EM
    
  • 6tz2, 6tz1, 6ty9, 5h0r – BmcpvRNAP + Vp4 – RNA – Cryo EM
    
  • 6ogy – RvARNAP + Vp2 + RNA – Cryo EM
    
  • 6k32 – RvARNAP + Vp1 + Vp4 + RNA – Cypovirus 1 - Cryo EM
    

• RNA-dependent RNAP complex with small molecule

• • 2xwy, 3mf5, 3hkw, 3hky, 3lkh, 3gnv, 3gnw, 3h98, 3g86, 3h59, 1nhu, 1nhv, 2brk, 2brl, 2gc8, 2giq, 2gir]], 2hai, 2hwh, 2hwi, 2i1r, 2ijn, 2jc0, 2jc1, 2qe2, 2qe5, 2wcx, 2who, 3ciz, 3cj0, 3cj2, 3cj3, 3cj4, 3cj5, 3cso, 3cvk, 3fqk, 3fql, 3gol, 3h5s, 3h5u, 3q0z, 3qgd, 3qge, 3qgf, 3qgg, 3qgh, 3qgi, 3ska, 3ske, 3skh, 3uph]], 3upi, 4dru, 3vqs, 3udl, 4eo6, 4eo8, 4eaw, 4gmc, 4ih5, 4ih6, 4ih7, 4iz0, 4jtz, 4jtw, 4jty, 4ju1, 4ju2, 4jjs, 4jju, 4j02, 4j04, 4j06, 4j08, 2yoj, 3tuq, 3tuv, 3u4o, 3u4r, 4mk7, 4mk8, 4mk9, 4mka, 4mkb, 4mz4, 4nld, 3tyq, 3tyv, 4mia, 4mib, 4oow, 4tlr, 5pzk, 5pzl, 5pzm, 5pzn, 5pzo, 5pzp, 5trh, 5tri, 5trj - HvRNAP Ns5b domain + inhibitor
    
  • 3gyn, 1os5, 3br9, 3bsa, 3bsc, 3cde, 3co9, 3cwj, 3d28, 3d5m, 3e51, 3frz, 3igv, 3hvo, 3h2l, 4kai, 4kb7, 4kbi, 4ke5, 4khm, 4khr, 5twm, 5twn - HvRNAP Ns5b domain (mutant) + inhibitor
    
  • 2xi3 - HvRNAP Ns5b domain (mutant) + GTP
    
  • 1gx5, 1gx6 - HvRNAP Ns5b domain + nucleotide
    
  • 2im1, 2im0, 2im2, 2im3, 2ily, 2ilz - PoRNAP (mutant) + nucleotide
    
  • 3n6m, 3n6n – EvRNAP + nucleotide
    
  • 3sfg – MnvRNAP + thio-uridine
    
  • 3sfu – MnvRNAP + ribavirine
    
  • 3upf, 3ur0, 4nru, 4o4r – MnvRNAP + inhibitor
    
  • 4lq3, 4lq9 – RNAP + inhibitor – human norovirus
    
  • 3cdu– CvRNAP + POP
    
  • 3eva, 3evb, 3evc, 3evd, 3eve, 3evf, 3evg – RNAP N terminal + SAH – Yellow fever virus
    
  • 1hi1 – P6RNAP + NTP
    
  • 5cx6, 5cyr - TavRNAP + nucleotide
    
  • 5hmw, 5f3t, 5hmx, 5hmy, 5hn0, 5hmz, 5iq6, 5k5m - DevRNAP Ns5 + inhibitor
    
  • 5ehg - DevRNAP NS5 + SAM + inhibitor
    
  • 5goz, 5gp1 - ZvRNAP NS5 + SAH + GTP
    
  • 5ltn, 5t2t - LcmvRNAP + inhibitor
    
  • 6mvo – RNAP (mutant) + inhibitor – Hepacivirus C
    

• Influenza virus polymerase acidic protein (or PA or subunit P2) N terminal 1-198

• • 4p9a, 4nfz, 4avq, 4e5e, 4zqq, 5jht, 5jhv, 5des - IvRNAP PA N terminal – Influenza virus
    
  • 5d2o, 5czn, 3hw6, 6fsb - IvRNAP PA N terminal (mutant)
    
  • 3ebj, 2w69 - IvRNAP PA residues 1-256
    
  • 4iuj - IvRNAP PA residues 254-713
    
  • 3hw3, 3hw4, 3hw5 - IvRNAP PA residues 1-256 (mutant) + Mn + nucleotide
    
  • 4w9s, 5fdd, 5fdg, 5i13, 5ieq, 5if2, 5if5, 5if7, 5if8, 5ifb, 5ifc, 5ifd, 5wa6, 5wa7, 5wb3, 5wap, 5w9g, 5w92, 5w44, 5v0u, 6nem, 6nel, 6e6x, 6e6w, 6e6v, 6dcz, 6dcy, 5ega, 5cl0, 5cgv, 5ccy, 4mk5, 4mk2, 4mk1, 4awm, 4awk, 4awh, 4awg, 4awf, 4e5f, 4e5g, 4e5h, 4e5i, 4e5j, 4e5l, 4yyl, 4zhz, 4zi0, 6fs7, 6fs6, 6fs8, 4avl, 4avg – IvRNAP PA N terminal + inhibitor
    
  • 5wg9, 5wfz, 5wfw, 5wfm, 5wf3, 5wei, 5wef, 5web, 5we9, 5we7, 5wdw, 5wdn, 5wdc, 5wct, 5wcs, 5w73, 5w7u, 5w3i, 5vrj, 5vqn, 5vpx, 5vpt, 5vp8, 6e4c, 6e3p, 6e3o, 6e3n, 6e3m, 6e0q, 6dzq, 5deb, 5dbs, 5d9j, 5d8u, 5d4g, 5d42, 6fs9 – IvRNAP PA N terminal (mutant) + inhibitor
    

• Influenza virus polymerase basic protein 2 (or RNAP subunit P3 or PB2)); Domains: cap-binding 318-483; Cap-binding and midlink 247-536; 627 538-693; NLS 694-753

• • 4enf, 4u6o, 4j2r, 2vqz, 5ef9, 5eg9 – IvRNAP PB2 cap-binding domain
    
  • 3wi0 – IvRNAP PB2 cap-binding domain (mutant)
    
  • 3cw4 - IvRNAP PB2 627 + NLS domains
    
  • 2gmo - IvRNAP PB2 627 + NLS domains - NMR
    
  • 4eqk, 5efa, 5efc – IvRNAP PB2 cap-binding domain + GTP
    
  • 4nce, 3wi1 – IvRNAP PB2 cap-binding domain (mutant) + GTP derivative
    
  • 4ncm – IvRNAP PB2 cap-binding domain (mutant) + inhibitor
    
  • 4p1u, 4yd0, 5buh, 5jun, 5jur - IvRNAP PB2 cap-binding domain + inhibitor
    
  • 6euy, 6eux, 6euv - IvRNAP PB2 cap-binding + midlink domains + inhibitor
    
  • 5wl0 - IvRNAP PB2 cap-binding + midlink + 627 + NLS domains + inhibitor
    
  • 4uad, 4uae, 4uaf - IvRNAP PB2 + importin
    
  • 2vy6 - IvRNAP PB2 627 + NLS domains
    
  • 2vy7 - IvRNAP PB2 627 domain
    
  • 2vy8 - IvRNAP PB2 627 domain (mutant)
    

• Influenza virus RNAP PA+PB1

• • 2znl - IvRNAP PA + PB1
    
  • 3cm8 - IvRNAP PA residues 256-716 + PB1 peptide
    

• Influenza virus RNAP PA+PB2

• • 5fml - IvRNAP PA N terminal + PB2 NLS peptide
    

• Influenza virus RNAP PB1+PB2

• • 2ztt, 3a1g - IvRNAP PB1 C terminal + RNAP PB2 N terminal
    
  • 3j9b - IvRNAP PB1+PB2 N terminal + RNA
    

• Influenza virus RNAP PA+PB1+PB2 (subunits P1+p2+p3)

• • 6qpf, 6qnw, 5d98, 5d9a - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2
    
  • 6kv5 - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 – Cryo EM
    
  • 4wsb, 5fmz, 5m3h, 5m3j, 5msg, 6f5o, 6evj, 6qcx, 6qcw, 6fhi, 4wrt, 4wsa - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + RNA
    
  • 6rr7, 6qx8, 6qwl, 6qct, 6qcs, 6kuv, 6kuu, 6kut, 6kur, 6kup, 6kuk, 6kuj - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + RNA – Cryo EM
    
  • 6qpg - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + RNA + nanobody
    
  • 6qxe, 6qx3 - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + RNA + nanobody – Cryo EM
    
  • 6evk - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + RNA + GTP
    
  • 6qcv - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + RNA + CTP
    
  • 6f5p - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + polyAla
    
  • 6fhh - IvRNAP PB1 + IvRNAP PA + IvRNAP PB2 + POL II peptide
    

• Poly(A) RNA polymerase

• • 3pq1 – hRNAP (mutant)
    
  • 4lt6 – hRNAP γ
    
  • 4nkt – SpRNAP (mutant) + UMPNPP
    
  • 4nku – SpRNAP (mutant) + RNA
    
  • 3nyb – yRNAP + AIR2
    
  • 4e7x, 4e80, 4e8f, 4ep7, 4fh3 – fyRNAP Cid1
    
  • 4fh5, 4fhp, 4fhv, 4fhw, 4fhy – fyRNAP Cid1 + nucleotide
    
  • 4ud4, 4ud5 - fyRNAP Cid1 (mutant)
    
  • 4fhx – fyRNAP Cid1 (mutant) + ATP
    
  • 4zrl – CeRNAP gld-2 + germline development defective 3 – Caenorhabidis elegans
    
  • 5jnb – CeRNAP gld-2 (mutant) + RNP-8
    

}}

References

• Created with the participation of Craig T Martin.

Proteopedia Page Contributors and Editors (what is this?)

Alexander Berchansky, Karsten Theis, Joel L. Sussman, Michal Harel