3PVP | pdb_00003pvp

Structure of Mycobacterium tuberculosis DnaA-DBD in complex with box2 DNA

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Chromosomal replication initiation factor DnaA C-terminal domain IV	8071355	4002279	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	TrpR-like	8071356	3001097	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)
B	PQQ_2	e3pvpB1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (v294.1)
A	Rubrerythrin	e3pvpA1	A: a/b three-layered sandwiches	X: Thioredoxin-like	H: Thioredoxin-like	T: Thioredoxin-like	F: Rubrerythrin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.1750.10	Mainly Alpha	Orthogonal Bundle	Chromosomal Replication Initiator Protein Dnaa	Chain: A	CATH (4.3.0)
A	1.10.1750.10	Mainly Alpha	Orthogonal Bundle	Chromosomal Replication Initiator Protein Dnaa	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF08299	Bacterial dnaA protein helix-turn-helix (Bac_DnaA_C)	Bacterial dnaA protein helix-turn-helix		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, F	DNA (5'-D(GPTPTPGPTPGPGPAPTPAPAPCP*G)-3')	-	-	-
C, E	DNA (5'-D(CPGPTPTPAPTPCPCPAPCPAPAP*C)-3')	-	-	-
A, B	Chromosomal replication initiator protein dnaA	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding nucleic acid binding DNA replication origin binding lipid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA replication initiation regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA replication initiation regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process regulation of primary metabolic process regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process	cell periphery cellular anatomical structure plasma membrane membrane external encapsulating structure extracellular region cell wall peptidoglycan-based cell wall intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR038454	DnaA, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR018312	Chromosomal replication control, initiator DnaA, conserved site	Conserved Site
A, B	IPR013159	Chromosomal replication initiator, DnaA C-terminal	Domain
A, B	IPR001957	Chromosomal replication control, initiator DnaA	Family
A, B	IPR013317	Chromosomal replication initiator protein DnaA, ATPAse domain	Domain
A, B	IPR003593	AAA+ ATPase domain	Domain
A, B	IPR020591	Chromosomal replication control, initiator DnaA-like	Family
A, B	IPR010921	Trp repressor/replication initiator	Homologous Superfamily
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.