3TD3 | pdb_00003td3

Crystal structure of OmpA-like domain from Acinetobacter baumannii in complex with glycine

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	d3td3a1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
A	d3td3a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
B	d3td3b1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
B	d3td3b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
C	d3td3c1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
C	d3td3c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
D	d3td3d1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
D	d3td3d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
F	d3td3f1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
F	d3td3f2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
G	d3td3g1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
G	d3td3g2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
H	d3td3h1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
H	d3td3h2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
E	d3td3e1	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	OmpA-like	automated matches	automated matches	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)
E	d3td3e2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Acinetobacter baumannii ) [TaxId: 470 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	OmpA-like	8075231	4001470	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	OmpA-like	8075232	3001650	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	OmpA-like	8075232	3001650	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	OmpA-like	8075232	3001650	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	OmpA-like	8075232	3001650	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	OmpA-like	8075232	3001650	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	OmpA-like	8075232	3001650	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	OmpA-like	8075232	3001650	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	OmpA-like	8075232	3001650	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	PDH_N, F420_oxidored	e3td3A1	A: a/b three-layered sandwiches	X: Cystatin-like	H: Cystatin/monellin	T: Cystatin/monellin	F: PDH_N, F420_oxidored	ECOD (v294.1)
B	Binary_toxB	e3td3B1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)
C	Binary_toxB	e3td3C1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)
D	Binary_toxB	e3td3D1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)
F	Binary_toxB	e3td3F1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)
G	Binary_toxB	e3td3G1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)
H	Binary_toxB	e3td3H1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)
E	Binary_toxB	e3td3E1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SH3	T: Transmembrane protein 14A	F: Binary_toxB	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
B	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
C	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
D	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
F	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
G	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
H	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
E	3.30.1330.60	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: 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	PF00691	OmpA family (OmpA)	OmpA family	-	Family

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	Outer membrane protein omp38	wide pore channel activity passive transmembrane transporter activity channel activity porin activity transporter activity transmembrane transporter activity	localization transport monoatomic ion transport establishment of localization	protein-containing complex cellular anatomical structure membrane pore complex membrane protein complex cell outer membrane external encapsulating structure extracellular region cell envelope outer membrane host intracellular membrane-bounded organelle host cellular component host intracellular part other organism part protein-containing complex cellular anatomical structure membrane pore complex membrane protein complex cell outer membrane external encapsulating structure extracellular region cell envelope outer membrane host intracellular membrane-bounded organelle host cellular component host intracellular part other organism part host cell mitochondrion host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host intracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR011250	Outer membrane protein/outer membrane enzyme PagP, beta-barrel	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR054882	Outer membrane protein Omp38	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR006664	Outer membrane protein, bacterial	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR006665	OmpA-like domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR050330	Bacterial Outer Membrane Structural/Functional	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR027385	Outer membrane protein, beta-barrel domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036737	OmpA-like 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.