2HJD | pdb_00002hjd

Crystal structure of a second quorum sensing antiactivator TraM2 from A. tumefaciens strain A6

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	d2hjdd_	All alpha proteins	Long alpha-hairpin	Transcriptional repressor TraM	Transcriptional repressor TraM	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
C	d2hjdc_	All alpha proteins	Long alpha-hairpin	Transcriptional repressor TraM	Transcriptional repressor TraM	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
B	d2hjdb_	All alpha proteins	Long alpha-hairpin	Transcriptional repressor TraM	Transcriptional repressor TraM	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)
A	d2hjda_	All alpha proteins	Long alpha-hairpin	Transcriptional repressor TraM	Transcriptional repressor TraM	automated matches	(Agrobacterium tumefaciens ) [TaxId: 358 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2 Family	Transcriptional repressor TraM	8085819	4002233	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Tram-like	8085820	3000130	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Tram-like	8085820	3000130	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Tram-like	8085820	3000130	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Tram-like	8085820	3000130	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	MarR	e2hjdD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MarR	ECOD (v294.1)
C	MarR	e2hjdC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MarR	ECOD (v294.1)
B	MarR	e2hjdB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MarR	ECOD (v294.1)
A	RGS	e2hjdA1	A: a/b three-layered sandwiches	X: Globin-like	H: Globin-like	T: Globin-like	F: RGS	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.287.160	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	HR1 repeat	CATH (4.3.0)
C	1.10.287.160	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	HR1 repeat	CATH (4.3.0)
B	1.10.287.160	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	HR1 repeat	CATH (4.3.0)
A	1.10.287.160	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	HR1 repeat	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Quorum-sensing antiactivator	-	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036336	Transcriptional repressor TraM superfamily	Homologous Superfamily
A, B, C, D	IPR015309	Transcriptional repressor TraM	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.

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