RNA polymerase

From Proteopedia

Template:STRUCTURE 3m3y

RNA polymerase (RNAP, DNA primase, dnaG) catalyzes the addition of nucleotides to RNA during transcription. 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 primase.

3D Structures of RNA polymerase

DNA-dependent RNAP

2y0s – RNAP – Sulfolobus shibata
3q22, 3q23, 3q24 – RNAP + DNA – Enterobacteria phage N4
3p8b – PfRNAP subunit ε’’ + transcription antitermination protein – Pyrococcus furiosus
3lpe - RNAP subunit ε’’ + transcription antitermination protein – Methanocaldococcus jannaschii
3aoh, 3aoi - TtRNAP subunits α,β,β’,ω + DNA +RNA + GFH1 – Thermus thermophilus
3mlq - TtRNAP subunit β + transcription-repair coupling factor
3lti – EcRNAP subunit β fragment – Escherichia coli
3mmp - EcRNAP subunit β + EF-TU
3k4g - EcRNAP subunit α
3lu0 - EcRNAP subunits α,β,β’,ω – Electron diffraction
3iyd - EcRNAP subunits α,β,β’,ω + RNAP sigma factor + catabolite gene activator + DNA
2l0i – yRNAP C-terminal + RTT103 – yeast – NMR
2krc - BsRNAP subunit δ N-terminal – Bacillus subtilis – NMR
3ihq - BsRNAP subunit α +regulatory protein SPX

Eukaryotic DNA-dependent RNAP

3o2q, 3o2s – RNAP II subunit α C-terminal + symplekin – human
3nff, 3nfg, 3nfh, 3nfi – RNAP I fragments (mutant) – Candida glabrata
3m3y, 3m4o – yRNAP I,II,III + RNA + DNA
3k7a, 3k1f - yRNAP I,II,III + TFIIB

RNA-dependent RNAP

3phu – HfRNAP L RNA-directed – Hemorrhagic fever virus
3phw, 2pt2 – HfRNAP + ubiquitin
3phx – HfRNAP + ISG15
3pse - HfRNAP + ISG15 (mutant)
2xwh, 2xxd, 2xhu, 2xhw, 3i5k – HvRNAP NS5B domain – Hepatitis virus
2xym, 2xhv, 2xi2 - HvRNAP NS5B domain (mutant)
2xwy, 3mf5, 3hkw, 3hky, 3lkh, 3gnv, 3gnw, 3h98, 3g86, 3h59 - HvRNAP NS5B domain + inhibitor
3gyn - HvRNAP NS5B domain (mutant) + inhibitor
2wrm – HvRNAP NS5B domain
2xi3 - HvRNAP NS5B domain (mutant) + nucleotide
3ol6 – PoRNAP (mutant) + RNA – Poliovirus
3ol7, 3ol8, 3ol9, 3ola, 3olb - PoRNAP (mutant) + RNA + nucleotide
2xi5, 2xi7 – RNAP L N-terminal – Bunyavirus
3jsb – RNAP (mutant) – Lymphocytic choriomengitis virus
2wk4 – RNAP (mutant) – Sapporo virus
3klv, 3kmq, 3kms, 3kna – FmRNAP (mutant) + RNA – Foot-and-mouth virus
3koa - FmRNAP (mutant) + RNA + nucleotide
3hw3, 3hw6 - IvRNAP subunit P2 (mutant) – Influenza virus
3hw5 - IvRNAP subunit P2 (mutant) + AMP

DNA primase

3l9q – hDNAP large subunit
3lgb - yDNAP large subunit
3m1m – DNAP RNA polymerase domain – Sulfolobus islandicus
1zt2 - DNAP small + large subunit – Sulfolobus solfataricus
2au3 – DNAP zinc-binding and RNA polymerase domains – Aquifex aeolicus
1v33 - PhDNAP small subunit – Pyrocuccus horikoshii
1v34 - PhDNAP small subunit + nucleotide
1g71 - PfDNAP small subunit
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

Bacterial primase

2r6c – dnaG helicase binding domain + helicase – Bacillus stearothermophilus
2r6a - GsdnaG helicase binding domain + helicase – Geobacillus stearothermophilus
1d0q - GsDNAP zinc-binding domain
1z8s - GsdnaG dnaB binding domain - NMR
2haj - EcdnaG catalytic domain - NMR
3b39 – EcdnaG catalytic domain + DNA
1t3w – EcdnaG C-terminal
1eqn, 1dd9, 1dde – EcdnaG catalytic core