Structure of PDB 8p0j Chain B

Receptor sequence

>8p0jB (length=1155) Species: 10245 (Vaccinia virus)

EMDQRLGYKFLVPDPKAGVFYRPLHFQYVSYSNFILHRLHEILTVKRPLL
SFKNNTERIMIEISNVKVTPPDYSPIIASIKGKSYDALATFTVNIFKEVM
TKEGISITKISSYEGKDSHLIKIPLLIGYGNKNPLDTAKYLVPNVIGGVF
INKQSVEKVGINLVEKITTWPKFRVVKPNSFTFSFSSVSPPNVLPTRYRH
YKISLDISQLEALNISSTKTFITVNIVLLSQYLSRVSLEFIRRSLSYDMP
PEVVYLVNAIIDSAKRITESITDFNIDTYINDLVEAEHIKQKSQLTINEF
KYEMLHNFLPHMNYTPDQLKGFYMISLLRKFLYCIFHTSRYPDRDSMVCH
RILTYGKYFETLAHDELENYIGNIRNDIMNNHKNRGTYAVNIHVLTTPGL
NHAFSSLLSGKFKKSDGSYRTHPHYSWMQNISIPRSVGFYPDQVKISKMF
SVRKYHPSQYLYFCSSDVPERGPQVGLVSQLSVLSSITNILTSEYLDLEK
KICEYIRSYYKDDISYFETGFPITIENALVASLNPNMICDFVTDFRRRKR
MGFFGNLEVGITLVRDHMNEIRINIGAGRLVRPFLVVDNGELMMDVCPEL
ESRLDDMTFSDIQKEFPHVIEMVDIEQFTFSNVCESVQKFRMMSKDERKQ
YDLCDFPAEFRDGYVASSLVGINHNSGPRAILGCAQAKQAISCLSSDIRN
KIDNGIHLMYPERPIVISKALETSKIAANCFGQHVTIALMSYKGINQEDG
IIIKKQFIQRGGLDIVTAKKHQVEIPLENFNNKERDRSNAYSKLESNGLV
RLNAFLESGDAMARNISSRTLEDDFARDNQISFDVSEKYTDMYKSRVERV
QVELTDKVKVRVLTMKERRPILGDKFTTRTSQKGTVAYVADETELPYDEN
GITPDVIINSTSIFSRKTISMLIEVILTAAYSAKPYNNKGENRPVCFPSS
NETSIDTYMQFAKQCYEHSNPKLSDEELSDKIFCEKILYDPETDKPYASK
VFFGPIYYLRLRHLTQDKATVRCRGKKTKLIRQANEGRKRGGGIKFGEME
RDCLIAHGAANTITEVLKDSEEDYQDVYVCENCGDIAAQIKGINTCLRCS
KLNLSPLLTKIDTTHVSKVFLTQMNARGVKVKLDFERRPPSFYKPLDKVD
LKPSF

3D structure

• PDB: 8p0j Cryo EM map and model of the vaccinia RNA polymerase intermediate pre-initiation open promoter complex (CASP target)
• Chain: B
• Resolution: 2.39 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.6: DNA-directed RNA polymerase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	B	K179 S191 Y205 R206 H207 T225 R392 P448 Q450 V451 I453	K172 S184 Y198 R199 H200 T218 R385 P441 Q443 V444 I446
BS02	ZN	B	C1087 C1090 C1103 C1106	C1080 C1083 C1096 C1099

Gene Ontology

Molecular Function

• GO:0001054 RNA polymerase I activity
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006360 transcription by RNA polymerase I

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex
• GO:0044423 virion component

External links

• PDB: RCSB:8p0j, PDBe:8p0j, PDBj:8p0j
• PDBsum: 8p0j
• UniProt: P68694|RP132_VACCC DNA-directed RNA polymerase 133 kDa polypeptide (Gene Name=OPG151)