2PMU | pdb_00002pmu

Crystal structure of the DNA-binding domain of PhoP

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)
F	d2pmuf_	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
E	d2pmue_	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
D	d2pmud_	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
C	d2pmuc_	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
B	d2pmub_	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
A	d2pmua_	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076219	3001179	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076219	3001179	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076219	3001179	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076219	3001179	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076219	3001179	SCOP2B (2022-06-29)
A	SCOP2 Family	PhoB-like	8076218	4000729	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	C-terminal effector domain of the bipartite response regulators	8076219	3001179	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Trans_reg_C	e2pmuF1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Trans_reg_C	ECOD (1.6)
E	Trans_reg_C	e2pmuE1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Trans_reg_C	ECOD (1.6)
D	Trans_reg_C	e2pmuD1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Trans_reg_C	ECOD (1.6)
C	Trans_reg_C	e2pmuC1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Trans_reg_C	ECOD (1.6)
B	Trans_reg_C	e2pmuB1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Trans_reg_C	ECOD (1.6)
A	Trans_reg_C	e2pmuA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Trans_reg_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	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 (4.2.0)
E	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 (4.2.0)
D	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 (4.2.0)
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 (4.2.0)
B	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 (4.2.0)
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 (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00486	Transcriptional regulatory protein, C terminal (Trans_reg_C)	Transcriptional regulatory protein, C terminal		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	response regulator PHOP	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 molecular transducer activity phosphorelay response regulator 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	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex protein-DNA complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR039420	Transcriptional regulatory protein WalR-like	Family
A, B, C, D, E A, B, C, D, E, F	IPR001867	OmpR/PhoB-type DNA-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011006	CheY-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR001789	Signal transduction response regulator, receiver domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR016032	Signal transduction response regulator, C-terminal effector	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily

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.