1OZB | pdb_00001ozb

Crystal Structure of SecB complexed with SecA C-terminus

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	d1ozba_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1ozbb_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
E	d1ozbe_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
G	d1ozbg_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
H	d1ozbh_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
F	d1ozbf_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
D	d1ozbd_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
C	d1ozbc_	Alpha and beta proteins (a+b)	SecB-like	SecB-like	Bacterial protein-export protein SecB	Bacterial protein-export protein SecB	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
I	d1ozbi_	Small proteins	Sec-C motif	Sec-C motif	Sec-C motif	Preprotein translocase SecA C-terminal domain	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
J	d1ozbj_	Small proteins	Sec-C motif	Sec-C motif	Sec-C motif	Preprotein translocase SecA C-terminal domain	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Bacterial protein-export protein SecB	8025598	4001100	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	SecB-like	8037977	3000756	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SecB-like	8037977	3000756	SCOP2B (2022-06-29)
I	SCOP2 Family	Sec-C motif	8025609	4001879	SCOP2 (2022-06-29)
I	SCOP2 Superfamily	Sec-C motif	8037988	3000493	SCOP2 (2022-06-29)
J	SCOP2B Superfamily	Sec-C motif	8037988	3000493	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	SecB	e1ozbA1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
B	SecB	e1ozbB1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
E	SecB	e1ozbE1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
G	SecB	e1ozbG1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
H	SecB	e1ozbH1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
F	SecB	e1ozbF1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
D	SecB	e1ozbD1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
C	SecB	e1ozbC1	A: a+b two layers	X: Bacterial protein-export protein SecB (From Topology)	H: Bacterial protein-export protein SecB (From Topology)	T: Bacterial protein-export protein SecB	F: SecB	ECOD (1.6)
I	SEC-C	e1ozbI1	A: few secondary structure elements	X: Sec-C motif (From Topology)	H: Sec-C motif (From Topology)	T: Sec-C motif	F: SEC-C	ECOD (1.6)
J	SEC-C	e1ozbJ1	A: few secondary structure elements	X: Sec-C motif (From Topology)	H: Sec-C motif (From Topology)	T: Sec-C motif	F: SEC-C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
B	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
E	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
G	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
H	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
F	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
D	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	CATH (4.3.0)
C	3.10.420.10	Alpha Beta	Roll	Bacterial Protein-export protein SecB	SecB-like	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	PF02556	Preprotein translocase subunit SecB (SecB)	Preprotein translocase subunit SecB	-	Family
I, J	PF02810	SEC-C motif (SEC-C)	SEC-C motif	This SEC-C motif is found in the C-terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif chelates zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif [1-2]. ...	This SEC-C motif is found in the C-terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif chelates zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif [1-2]. In SecA, this zinc binding domain is involved in binding to SecB [2]. This domain has been also predicted to be a potential nucleic acid binding domain.	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	Protein-export protein secB	unfolded protein binding protein binding binding	protein folding biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein folding biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein tetramerization protein-containing complex assembly cellular component organization or biogenesis localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization establishment of localization	cellular anatomical structure intracellular anatomical structure cytoplasm
I, J	Preprotein translocase secA subunit	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 protein transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity protein transmembrane transporter activity protein-transporting ATPase activity protein-exporting ATPase activity ATP-dependent activity macromolecule transmembrane transporter activity active transmembrane transporter activity transporter activity transmembrane transporter activity cation binding metal ion binding	protein import localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization establishment of localization protein targeting cellular localization intracellular protein transmembrane transport intracellular transport transmembrane transport protein import localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization establishment of localization protein targeting cellular localization intracellular protein transmembrane transport intracellular transport transmembrane transport protein transmembrane transport establishment of localization in cell cellular process intracellular protein transport protein transport by the Sec complex	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex cell envelope Sec protein transport complex intracellular protein-containing complex 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	IPR035958	SecB-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR003708	Bacterial protein export chaperone SecB	Family
I, J	IPR011130	SecA, preprotein cross-linking domain	Domain
I, J	IPR011116	SecA Wing/Scaffold	Domain
I, J	IPR036266	SecA, Wing/Scaffold superfamily	Homologous Superfamily
I, J	IPR001650	Helicase, C-terminal domain-like	Domain
I, J	IPR000185	Protein translocase subunit SecA	Family
I, J	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
I, J	IPR004027	SEC-C motif	Conserved Site
I, J	IPR014018	SecA motor DEAD	Domain
I, J	IPR020937	SecA conserved site	Conserved Site
I, J	IPR011115	SecA DEAD-like, N-terminal	Domain
I, J	IPR044722	SecA, C-terminal helicase domain	Domain
I, J	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
I, J	IPR036670	SecA, preprotein cross-linking domain superfamily	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.