2NWA | pdb_00002nwa

X-ray Crystal Structure of Protein ytmB from Bacillus subtilis. Northeast Structural Genomics Consortium Target SR466

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family 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	d2nwaa1	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
A	d2nwaa2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
B	d2nwab2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
B	d2nwab3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
C	d2nwac2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
C	d2nwac3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
D	d2nwad2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
D	d2nwad3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
E	d2nwae2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
E	d2nwae3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
H	d2nwah2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
H	d2nwah3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
G	d2nwag2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
G	d2nwag3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
F	d2nwaf2	All beta proteins	PUA domain-like	PUA domain-like	YtmB-like	Hypothetical protein YtmB	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
F	d2nwaf3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	YtmB-like	8022528	4002002	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PUA domain-like	8034908	3001015	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	PUA domain-like	8034908	3001015	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PUA domain-like	8034908	3001015	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PUA domain-like	8034908	3001015	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	PUA domain-like	8034908	3001015	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	PUA domain-like	8034908	3001015	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	PUA domain-like	8034908	3001015	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PUA domain-like	8034908	3001015	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	DUF2584	e2nwaA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: DUF2584	ECOD (v294.1)
B	Peptidase_S46, Trypsin_2	e2nwaB1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
C	Peptidase_S46, Trypsin_2	e2nwaC1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
D	Peptidase_S46, Trypsin_2	e2nwaD1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
E	Peptidase_S46, Trypsin_2	e2nwaE1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
H	Peptidase_S46, Trypsin_2	e2nwaH1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
G	Peptidase_S46, Trypsin_2	e2nwaG1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
F	Peptidase_S46, Trypsin_2	e2nwaF1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
B	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
C	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
D	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
E	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
H	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
G	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	CATH (4.3.0)
F	2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25	Chain P	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	PF10763	Protein of unknown function (DUF2584) (DUF2584)	Protein of unknown function (DUF2584)	-	Family

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR015947	PUA-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR019699	Protein of unknown function DUF2584	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.