6RFL | pdb_00006rfl

Structure of the complete Vaccinia DNA-dependent RNA polymerase complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth B]	RNA_pol_Rpb2_7	e6rflB1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: RNA_pol_Rpb2_7	ECOD (develop294)
A [auth B]	RNA_pol_Rpb2_5	e6rflB4	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: RNA_pol_Rpb2_5	ECOD (develop294)
A [auth B]	RNA_pol_Rpb2_6	e6rflB5	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: RNA_pol_Rpb2_6	ECOD (develop294)
A [auth B]	SH2	e6rflB7	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: SH2	ECOD (develop294)
F [auth J]	7tm_1	e6rflJ1	A: alpha bundles	X: P-loop domains-like	H: DUF1107-like	T: DUF1107-like	F: 7tm_1	ECOD (develop294)
G [auth L]	7tm_1	e6rflL1	A: alpha bundles	X: P-loop domains-like	H: DUF1107-like	T: DUF1107-like	F: 7tm_1	ECOD (develop294)
H [auth O]	7tm_1	e6rflO1	A: alpha bundles	X: P-loop domains-like	H: DUF1107-like	T: DUF1107-like	F: 7tm_1	ECOD (develop294)
L [auth A]	RNA_pol_Rpb1_3	e6rflA01	A: alpha bundles	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: RNA_pol_Rpb1_3	ECOD (develop294)
L [auth A]	SNF2-rel_dom	e6rflA04	A: alpha bundles	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: SNF2-rel_dom	ECOD (develop294)
N [auth Y]	SNF2-rel_dom	e6rflY01	A: alpha bundles	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: SNF2-rel_dom	ECOD (develop294)
N [auth Y]	AAA	e6rflY02	A: alpha bundles	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: AAA	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
G [auth L]	3.40.50.11680	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Poxvirus mRNA capping enzyme, small subunit	CATH (utative)
H [auth O]	3.20.100.20	Alpha Beta	Alpha-Beta Barrel	mRNA Triphosphatase Cet1	Chain A	CATH (utative)
H [auth O]	3.30.470.140	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (utative)
H [auth O]	2.40.50.830	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)		CATH (utative)
H [auth O]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	DNA-dependent RNA polymerase subunit rpo132	-	-	-
B [auth E]	DNA-directed RNA polymerase subunit	-	-	-
C [auth F]	DNA-directed RNA polymerase 19 kDa subunit	-	-	-
D [auth G]	DNA-dependent RNA polymerase subunit rpo18	-	-	-
E [auth I]	Putative H4L RNA polymerase-associated transcription factor RAP94	transcription regulator activity DNA-binding transcription factor activity	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression DNA-templated transcription termination macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression DNA-templated transcription termination macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	virion component
F [auth J]	DNA-dependent RNA polymerase subunit rpo7	-	-	-
G [auth L]	Small subunit of mRNA capping enzyme	-	-	-
H [auth O]	Large subunit of mRNA capping enzyme	-	-	-
I [auth R], M [auth Q]	Virion core protein	-	-	-
J [auth K]	Transcription factor VETF 82kDa large subunit	-	-	-
K [auth U]	chr17.trna16-GlnTTG	-	-	-
L [auth A]	DNA-dependent RNA polymerase subunit rpo147	-	-	-
N [auth Y]	Nucleoside triphosphate phosphohydrolase-I	-	-	-
P [auth S]	DNA-directed RNA polymerase 30 kDa polypeptide	-	-	-
O [auth C]	DNA-directed RNA polymerase 35 kDa subunit	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth I]	IPR004974	RNA polymerase-associated transcription specificity factor Rap94	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
P [auth S]	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

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