1VZ0 | pdb_00001vz0

Chromosome segregation protein Spo0J from Thermus thermophilus

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)
A	d1vz0a1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
A	d1vz0a2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
B	d1vz0b1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
B	d1vz0b2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
C	d1vz0c1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
C	d1vz0c2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
D	d1vz0d1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
D	d1vz0d2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
E	d1vz0e1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
E	d1vz0e2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
F	d1vz0f1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
F	d1vz0f2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
G	d1vz0g1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
G	d1vz0g2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
H	d1vz0h1	All alpha proteins	DNA/RNA-binding 3-helical bundle	KorB DNA-binding domain-like	KorB DNA-binding domain-like	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
H	d1vz0h2	Alpha and beta proteins (a+b)	ParB/Sulfiredoxin	ParB/Sulfiredoxin	ParB-like nuclease domain	Putative partitioning protein ParB/Spo0J	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	KorB DNA-binding domain-like	8029176	4002305	SCOP2 (2022-06-29)
A	SCOP2 Family	ParB-like nuclease domain	8029177	4002475	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	ParB/Sulfiredoxin	8041556	3001301	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	KorB DNA-binding domain-like	8041555	3001083	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	HTH_38	e1vz0A2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
A	nucleoid_noc	e1vz0A3	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	e1vz0A1	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	e1vz0B1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
B	nucleoid_noc	e1vz0B2	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	e1vz0B3	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
C	HTH_38	e1vz0C1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
C	nucleoid_noc	e1vz0C3	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)
C	ParBc	e1vz0C6	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
D	HTH_38	e1vz0D1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
D	nucleoid_noc	e1vz0D3	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)
D	ParBc	e1vz0D6	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
E	HTH_38	e1vz0E1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
E	nucleoid_noc	e1vz0E2	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)
E	ParBc	e1vz0E3	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
F	HTH_38	e1vz0F1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
F	nucleoid_noc	e1vz0F2	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)
F	ParBc	e1vz0F3	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
G	HTH_38	e1vz0G1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
G	nucleoid_noc	e1vz0G2	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)
G	ParBc	e1vz0G3	A: a+b complex topology	X: ParB/Sulfiredoxin (From Topology)	H: ParB/Sulfiredoxin (From Topology)	T: ParB/Sulfiredoxin	F: ParBc	ECOD (1.6)
H	HTH_38	e1vz0H1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: HTH_38	ECOD (1.6)
H	nucleoid_noc	e1vz0H2	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)
H	ParBc	e1vz0H3	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	Provenance Source (Version)
A	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
A	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
B	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
B	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
C	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
C	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
D	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
D	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
E	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
E	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
F	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
F	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
G	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
G	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)
H	3.90.1530.30	Alpha Beta	Alpha-Beta Complex	Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain	CATH (4.3.0)
H	1.10.10.2830	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	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, C, D, E A, B, C, D, E, F, G, H	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, C, D, E A, B, C, D, E, F, G, H	Chromosome-partitioning protein Spo0J	DNA binding binding nucleic acid binding	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

InterPro: Protein Family Classification InterPro Database Homepage

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