8P0N

Cryo EM map and model of the vaccinia RNA polymerase intermediate pre-initiation open promoter complex shallow conformation

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000428	cellular_component	DNA-directed RNA polymerase complex
A	0001054	molecular_function	RNA polymerase I activity
A	0001055	molecular_function	RNA polymerase II activity
A	0001056	molecular_function	RNA polymerase III activity
A	0001057	molecular_function	RNA polymerase IV activity
A	0001058	molecular_function	RNA polymerase V activity
A	0001059	biological_process	transcription by RNA polymerase IV
A	0001060	biological_process	transcription by RNA polymerase V
A	0001066	molecular_function	plastid single subunit type RNA polymerase activity
A	0003677	molecular_function	DNA binding
A	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
A	0006351	biological_process	DNA-templated transcription
A	0006360	biological_process	transcription by RNA polymerase I
A	0006366	biological_process	transcription by RNA polymerase II
A	0006383	biological_process	transcription by RNA polymerase III
A	0016779	molecular_function	nucleotidyltransferase activity
A	0034062	molecular_function	5'-3' RNA polymerase activity
A	0042793	biological_process	plastid transcription
A	0044423	cellular_component	virion component
B	0000428	cellular_component	DNA-directed RNA polymerase complex
B	0001054	molecular_function	RNA polymerase I activity
B	0001055	molecular_function	RNA polymerase II activity
B	0001056	molecular_function	RNA polymerase III activity
B	0001057	molecular_function	RNA polymerase IV activity
B	0001058	molecular_function	RNA polymerase V activity
B	0001059	biological_process	transcription by RNA polymerase IV
B	0001060	biological_process	transcription by RNA polymerase V
B	0001066	molecular_function	plastid single subunit type RNA polymerase activity
B	0003677	molecular_function	DNA binding
B	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
B	0006351	biological_process	DNA-templated transcription
B	0006360	biological_process	transcription by RNA polymerase I
B	0006366	biological_process	transcription by RNA polymerase II
B	0006383	biological_process	transcription by RNA polymerase III
B	0016779	molecular_function	nucleotidyltransferase activity
B	0032549	molecular_function	ribonucleoside binding
B	0034062	molecular_function	5'-3' RNA polymerase activity
B	0042793	biological_process	plastid transcription
B	0044423	cellular_component	virion component
B	0046872	molecular_function	metal ion binding
C	0000428	cellular_component	DNA-directed RNA polymerase complex
C	0001054	molecular_function	RNA polymerase I activity
C	0001055	molecular_function	RNA polymerase II activity
C	0001056	molecular_function	RNA polymerase III activity
C	0001057	molecular_function	RNA polymerase IV activity
C	0001058	molecular_function	RNA polymerase V activity
C	0001059	biological_process	transcription by RNA polymerase IV
C	0001060	biological_process	transcription by RNA polymerase V
C	0001066	molecular_function	plastid single subunit type RNA polymerase activity
C	0003677	molecular_function	DNA binding
C	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
C	0006360	biological_process	transcription by RNA polymerase I
C	0006366	biological_process	transcription by RNA polymerase II
C	0006383	biological_process	transcription by RNA polymerase III
C	0016779	molecular_function	nucleotidyltransferase activity
C	0019083	biological_process	viral transcription
C	0034062	molecular_function	5'-3' RNA polymerase activity
C	0042793	biological_process	plastid transcription
C	0044423	cellular_component	virion component
E	0000428	cellular_component	DNA-directed RNA polymerase complex
E	0001054	molecular_function	RNA polymerase I activity
E	0001055	molecular_function	RNA polymerase II activity
E	0001056	molecular_function	RNA polymerase III activity
E	0001057	molecular_function	RNA polymerase IV activity
E	0001058	molecular_function	RNA polymerase V activity
E	0001059	biological_process	transcription by RNA polymerase IV
E	0001060	biological_process	transcription by RNA polymerase V
E	0001066	molecular_function	plastid single subunit type RNA polymerase activity
E	0003677	molecular_function	DNA binding
E	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
E	0006360	biological_process	transcription by RNA polymerase I
E	0006366	biological_process	transcription by RNA polymerase II
E	0006383	biological_process	transcription by RNA polymerase III
E	0016779	molecular_function	nucleotidyltransferase activity
E	0019083	biological_process	viral transcription
E	0034062	molecular_function	5'-3' RNA polymerase activity
E	0042793	biological_process	plastid transcription
E	0044423	cellular_component	virion component
F	0000428	cellular_component	DNA-directed RNA polymerase complex
F	0001054	molecular_function	RNA polymerase I activity
F	0001055	molecular_function	RNA polymerase II activity
F	0001056	molecular_function	RNA polymerase III activity
F	0001057	molecular_function	RNA polymerase IV activity
F	0001058	molecular_function	RNA polymerase V activity
F	0001059	biological_process	transcription by RNA polymerase IV
F	0001060	biological_process	transcription by RNA polymerase V
F	0001066	molecular_function	plastid single subunit type RNA polymerase activity
F	0003677	molecular_function	DNA binding
F	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
F	0006351	biological_process	DNA-templated transcription
F	0006360	biological_process	transcription by RNA polymerase I
F	0006366	biological_process	transcription by RNA polymerase II
F	0006383	biological_process	transcription by RNA polymerase III
F	0016779	molecular_function	nucleotidyltransferase activity
F	0034062	molecular_function	5'-3' RNA polymerase activity
F	0042793	biological_process	plastid transcription
F	0044423	cellular_component	virion component
G	0000428	cellular_component	DNA-directed RNA polymerase complex
G	0001054	molecular_function	RNA polymerase I activity
G	0001055	molecular_function	RNA polymerase II activity
G	0001056	molecular_function	RNA polymerase III activity
G	0001057	molecular_function	RNA polymerase IV activity
G	0001058	molecular_function	RNA polymerase V activity
G	0001059	biological_process	transcription by RNA polymerase IV
G	0001060	biological_process	transcription by RNA polymerase V
G	0001066	molecular_function	plastid single subunit type RNA polymerase activity
G	0003677	molecular_function	DNA binding
G	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
G	0006360	biological_process	transcription by RNA polymerase I
G	0006366	biological_process	transcription by RNA polymerase II
G	0006383	biological_process	transcription by RNA polymerase III
G	0016779	molecular_function	nucleotidyltransferase activity
G	0019083	biological_process	viral transcription
G	0034062	molecular_function	5'-3' RNA polymerase activity
G	0042793	biological_process	plastid transcription
G	0044423	cellular_component	virion component
J	0000428	cellular_component	DNA-directed RNA polymerase complex
J	0001054	molecular_function	RNA polymerase I activity
J	0001055	molecular_function	RNA polymerase II activity
J	0001056	molecular_function	RNA polymerase III activity
J	0001057	molecular_function	RNA polymerase IV activity
J	0001058	molecular_function	RNA polymerase V activity
J	0001059	biological_process	transcription by RNA polymerase IV
J	0001060	biological_process	transcription by RNA polymerase V
J	0001066	molecular_function	plastid single subunit type RNA polymerase activity
J	0003677	molecular_function	DNA binding
J	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
J	0006351	biological_process	DNA-templated transcription
J	0006360	biological_process	transcription by RNA polymerase I
J	0006366	biological_process	transcription by RNA polymerase II
J	0006383	biological_process	transcription by RNA polymerase III
J	0016779	molecular_function	nucleotidyltransferase activity
J	0034062	molecular_function	5'-3' RNA polymerase activity
J	0042793	biological_process	plastid transcription
J	0044423	cellular_component	virion component
L	0004482	molecular_function	mRNA 5'-cap (guanine-N7-)-methyltransferase activity
L	0006353	biological_process	DNA-templated transcription termination
L	0006370	biological_process	7-methylguanosine mRNA capping
L	0044423	cellular_component	virion component
L	0106005	biological_process	RNA 5'-cap (guanine-N7)-methylation
O	0003723	molecular_function	RNA binding
O	0004482	molecular_function	mRNA 5'-cap (guanine-N7-)-methyltransferase activity
O	0004484	molecular_function	mRNA guanylyltransferase activity
O	0004651	molecular_function	polynucleotide 5'-phosphatase activity
O	0005525	molecular_function	GTP binding
O	0006370	biological_process	7-methylguanosine mRNA capping
O	0008168	molecular_function	methyltransferase activity
O	0016779	molecular_function	nucleotidyltransferase activity
O	0016787	molecular_function	hydrolase activity
O	0032259	biological_process	methylation
O	0044423	cellular_component	virion component
O	0046872	molecular_function	metal ion binding
O	0050355	molecular_function	inorganic triphosphate phosphatase activity
O	0106005	biological_process	RNA 5'-cap (guanine-N7)-methylation
O	0140818	molecular_function	mRNA 5'-triphosphate monophosphatase activity
S	0000428	cellular_component	DNA-directed RNA polymerase complex
S	0001054	molecular_function	RNA polymerase I activity
S	0001055	molecular_function	RNA polymerase II activity
S	0001056	molecular_function	RNA polymerase III activity
S	0001057	molecular_function	RNA polymerase IV activity
S	0001058	molecular_function	RNA polymerase V activity
S	0001059	biological_process	transcription by RNA polymerase IV
S	0001060	biological_process	transcription by RNA polymerase V
S	0001066	molecular_function	plastid single subunit type RNA polymerase activity
S	0003676	molecular_function	nucleic acid binding
S	0003677	molecular_function	DNA binding
S	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
S	0006351	biological_process	DNA-templated transcription
S	0006360	biological_process	transcription by RNA polymerase I
S	0006366	biological_process	transcription by RNA polymerase II
S	0006383	biological_process	transcription by RNA polymerase III
S	0008270	molecular_function	zinc ion binding
S	0016779	molecular_function	nucleotidyltransferase activity
S	0030430	cellular_component	host cell cytoplasm
S	0034062	molecular_function	5'-3' RNA polymerase activity
S	0042793	biological_process	plastid transcription
S	0044423	cellular_component	virion component
S	0046872	molecular_function	metal ion binding

Functional Information from PROSITE/UniProt

site_id	PS00466
Number of Residues	36
Details	ZF_TFIIS_1 Zinc finger TFIIS-type signature. CpnCksrnttpmmIQTRAaDEPplvrhaCrd...CkqhF

Chain	Residue	Details
S	CYS159-PHE194

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site_id	PS01166
Number of Residues	13
Details	RNA_POL_BETA RNA polymerases beta chain signature. GdKFTTrTSQKGT

Chain	Residue	Details
B	GLY880-THR892

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Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	40
Details	ZN_FING: TFIIS-type => ECO:0000255|PROSITE-ProRule:PRU00472

Chain	Residue	Details
S	TYR155-LYS195

---

site_id	SWS_FT_FI2
Number of Residues	4
Details	BINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00472

Chain	Residue	Details
S	CYS159
S	CYS162
S	CYS187
S	CYS190

---

site_id	SWS_FT_FI3
Number of Residues	6
Details	BINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00895

Chain	Residue	Details
O	LEU549
O	SER569
O	LYS573
O	ASP598
O	ASP620
O	GLN678

---

site_id	SWS_FT_FI4
Number of Residues	5
Details	SITE: Essential for RNA triphosphatase activity => ECO:0000250|UniProtKB:P04298

Chain	Residue	Details
O	ARG77
O	LYS107
O	GLU126
O	ASP159
O	LYS161

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site_id	SWS_FT_FI5
Number of Residues	5
Details	SITE: mRNA cap binding => ECO:0000255|PROSITE-ProRule:PRU00895

Chain	Residue	Details
O	LYS607
O	ARG632
O	HIS682
O	GLU763
O	TYR836

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