4G8X | pdb_00004g8x

G1 ORF67 / Staphyloccus aureus sigmaA domain 4 complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d4g8xc_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma4 domain	automated matches	(Staphylococcus aureus subsp. aureus NCTC 8325 ) [TaxId: 93061 ],	SCOPe (2.08)
A	d4g8xa_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma4 domain	automated matches	(Staphylococcus aureus subsp. aureus NCTC 8325 ) [TaxId: 93061 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Sigma factor domain-like	8083230	3000953	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sigma factor domain-like	8083230	3000953	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D		e4g8xD1	A: immunoglobulin/albumin-binding domain-like	X: EGF-related	H: Complement control module/SCR domain	T: IU_nuc_hydro	F:	ECOD (20:10:01)
B		e4g8xB1	A: immunoglobulin/albumin-binding domain-like	X: EGF-related	H: Complement control module/SCR domain	T: IU_nuc_hydro	F:	ECOD (20:10:01)
C		e4g8xC1	A: immunoglobulin/albumin-binding domain-like	X: EGF-related	H: Complement control module/SCR domain	T: IU_nuc_hydro	F:	ECOD (20:10:01)
A		e4g8xA1	A: immunoglobulin/albumin-binding domain-like	X: EGF-related	H: Complement control module/SCR domain	T: IU_nuc_hydro	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	6.10.140.1800	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
B	6.10.140.1800	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
C	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
A	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF20881	Phage G1 gp67, C-terminal domain (G1_gp67_C)	Phage G1 gp67, C-terminal domain	gp67 from Staphylococcus virus G1 binds to the sigma(A)-subunit of the RNA polymerase (RNAP) of its host to block cell growth by inhibiting transcription. This protein is organized in two domains, an N-terminal beta-sheet-rich domain and a C-terminal ...	gp67 from Staphylococcus virus G1 binds to the sigma(A)-subunit of the RNA polymerase (RNAP) of its host to block cell growth by inhibiting transcription. This protein is organized in two domains, an N-terminal beta-sheet-rich domain and a C-terminal alpha-helical domain, which are connected by a linker-alpha-helix on the surface of gp67 opposite the interaction surface. This entry includes the C- terminal domain and the helical linker [1].	Domain
B, D	PF20880	Phage G1 gp67, N-terminal domain (G1_gp67_N)	Phage G1 gp67, N-terminal domain	gp67 from Staphylococcus virus G1 binds to the sigma(A)-subunit of the RNA polymerase (RNAP) of its host to block cell growth by inhibiting transcription. This protein is organized in two domains, an N-terminal beta-sheet-rich domain (this entry) and ...	gp67 from Staphylococcus virus G1 binds to the sigma(A)-subunit of the RNA polymerase (RNAP) of its host to block cell growth by inhibiting transcription. This protein is organized in two domains, an N-terminal beta-sheet-rich domain (this entry) and a C-terminal alpha-helical domain, which are connected by a linker-alpha-helix on the surface of gp67 opposite the interaction surface [1].	Domain
A, C	PF04545	Sigma-70, region 4 (Sigma70_r4)	Sigma-70, region 4	Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [1]. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix fami ...	Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [1]. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	ORF067	-	-	-
A, C	RNA polymerase sigma factor rpoD	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups transcription regulator activity DNA-binding transcription factor activity sigma factor activity	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process DNA-templated transcription initiation	protein-containing complex sigma factor antagonist complex transcription regulator complex cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR049103	Gp67, C-terminal domain	Domain
B, D	IPR049102	Gp67, N-terminal domain	Domain
A, C	IPR007627	RNA polymerase sigma-70 region 2	Domain
A, C	IPR007127	RNA polymerase sigma factor 70, region 1.1	Domain
A, C	IPR000943	RNA polymerase sigma-70	Domain
A, C	IPR013325	RNA polymerase sigma factor, region 2	Homologous Superfamily
A, C	IPR013324	RNA polymerase sigma factor, region 3/4-like	Homologous Superfamily
A, C	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, C	IPR012760	RNA polymerase sigma factor RpoD, C-terminal	Domain
A, C	IPR009042	RNA polymerase sigma-70 region 1.2	Domain
A, C	IPR007630	RNA polymerase sigma-70 region 4	Domain
A, C	IPR014284	RNA polymerase sigma-70-like domain	Domain
A, C	IPR007624	RNA polymerase sigma-70 region 3	Domain
A, C	IPR028630	RNA polymerase sigma factor RpoD	Family
A, C	IPR042189	Sigma-70 factor, region 1.1 superfamily	Homologous Superfamily
A, C	IPR050239	Sigma-70 factor family, RNA polymerase initiation factors	Family

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.