4QPQ | pdb_00004qpq

Mechanistic basis of plasmid-specific DNA binding of the F plasmid regulatory protein, TraM

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	IHF-like DNA-binding proteins	8073273	3000426	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)
A	SNF	e4qpqA1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
B	SNF	e4qpqB1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
C	SNF	e4qpqC1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
D	SNF	e4qpqD1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
E	SNF	e4qpqE1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
F	SNF	e4qpqF1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
G	SNF	e4qpqG1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)
H	SNF	e4qpqH1	A: a/b three-layered sandwiches	X: Mitochondrial mTERF-like	H: Transcription activator-like effector (TALE)	T: Transcription activator-like effector (TALE)	F: SNF	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
B	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
C	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
D	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
E	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
F	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
G	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)
H	1.10.10.450	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	TraM protein, DNA-binding	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J [auth Q]	sbmA DNA2	-	-	-
I [auth P]	sbmA DNA1	-	-	-
A, B, C, D, E A, B, C, D, E, F, G, H	Relaxosome protein TraM	DNA binding binding nucleic acid binding	-	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR010992	Integration host factor (IHF)-like DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR042073	TraM, DNA-binding domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR007925	Relaxosome protein 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.