7BNK | pdb_00007bnk

Crystal structure of ParB from Myxococcus xanthus bound to CDP and Monothiophosphate

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	HTH_38	e7bnkA2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
A	nucleoid_noc	e7bnkA3	A: alpha arrays	X: KorB C-terminal domain-like	H: KorB C-terminal domain (From Topology)	T: KorB C-terminal domain	F: nucleoid_noc	ECOD (1.6)
A	ParBc	e7bnkA1	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
B	HTH_38	e7bnkB2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
B	nucleoid_noc	e7bnkB3	A: alpha arrays	X: KorB C-terminal domain-like	H: KorB C-terminal domain (From Topology)	T: KorB C-terminal domain	F: nucleoid_noc	ECOD (1.6)
B	ParBc	e7bnkB1	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (utative)
B	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02195	ParB N-terminal domain (ParB_N)	ParB N-terminal domain	This entry describes the N-terminal domain of ParB proteins, predominantly found in bacteria. This domain is characterised by a highly conserved arginine motif, RRXR, known as the arginine patch, which is crucial for ParB DNA binding activity [1-2]. ...	This entry describes the N-terminal domain of ParB proteins, predominantly found in bacteria. This domain is characterised by a highly conserved arginine motif, RRXR, known as the arginine patch, which is crucial for ParB DNA binding activity [1-2]. ParB plays a vital role in chromosome partitioning and nucleoid occlusion. These proteins are essential for ensuring proper chromosome segregation during cell division by binding to the DNA origin of replication and localising to both poles of the predivisional cell following DNA replication. ParB comprises three highly conserved domains: an N-terminal nucleotide-binding domain (NBD), a central helix-turn-helix (HTH) parS-binding domain, a non-structured linker region, and a C-terminal dimerisation domain that tightly links the two subunits of the ParB dimer [3]. ParB proteins share significant sequence and structural similarity with Sulfiredoxin (Srx), a sulfinic acid reductase identified in eukaryotes. Sequence comparison and phylogenetic analysis of the Srx and ParB protein families suggest that Srx evolved via truncation of ParB, resulting in the removal of the entire C-terminal half of the protein including the HTH domain [4].	Domain
A, B	PF17762	ParB HTH domain (HTH_ParB)	ParB HTH domain	ParB plays a vital role in chromosome partitioning and nucleoid occlusion. These proteins are essential for ensuring proper chromosome segregation during cell division by binding to the DNA origin of replication and localising to both poles of the pr ...	ParB plays a vital role in chromosome partitioning and nucleoid occlusion. These proteins are essential for ensuring proper chromosome segregation during cell division by binding to the DNA origin of replication and localising to both poles of the predivisional cell following DNA replication. ParB comprises three highly conserved domains: an N-terminal nucleotide-binding domain (NBD), a central helix-turn-helix parS-binding domain, a non-structured linker region, and a C-terminal dimerisation domain that tightly links the two subunits of the ParB dimer [1-2]. ParB proteins share significant sequence and structural similarity with Sulfiredoxin (Srx), a sulfinic acid reductase identified in eukaryotes. Sequence comparison and phylogenetic analysis of the Srx and ParB protein families suggest that Srx evolved via truncation of ParB, resulting in the removal of the entire C-terminal half of the protein including the HTH domain [3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	ParB family protein	DNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding hydrolase activity catalytic activity	developmental process regulation of biological process regulation of developmental process biological regulation positive regulation of biological process positive regulation of developmental process sporulation resulting in formation of a cellular spore anatomical structure morphogenesis regulation of sporulation resulting in formation of a cellular spore anatomical structure formation involved in morphogenesis anatomical structure development positive regulation of sporulation sporulation positive regulation of sporulation resulting in formation of a cellular spore developmental process regulation of biological process regulation of developmental process biological regulation positive regulation of biological process positive regulation of developmental process sporulation resulting in formation of a cellular spore anatomical structure morphogenesis regulation of sporulation resulting in formation of a cellular spore anatomical structure formation involved in morphogenesis anatomical structure development positive regulation of sporulation sporulation positive regulation of sporulation resulting in formation of a cellular spore regulation of sporulation cellular process cell cycle chromosome segregation cell cycle process	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR057240	ParB, C-terminal dimerisation domain	Domain
A, B	IPR041468	ParB/Spo0J, HTH domain	Domain
A, B	IPR036086	ParB/Sulfiredoxin superfamily	Homologous Superfamily
A, B	IPR050336	Chromosome-partitioning and nucleoid occlusion protein	Family
A, B	IPR003115	ParB-like, N-terminal domain	Domain
A, B	IPR004437	ParB/RepB/Spo0J partition protein	Domain

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.