Annotations: 1M6K

Structure of the OXA-1 class D beta-lactamase

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
AMR Gene: CARD Annotation
AMR Gene Family: CARD Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1m6ka_	Multi-domain proteins (alpha and beta)	beta-lactamase/transpeptidase-like	beta-lactamase/transpeptidase-like	beta-Lactamase/D-ala carboxypeptidase	Class D beta-lactamase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1m6kb_	Multi-domain proteins (alpha and beta)	beta-lactamase/transpeptidase-like	beta-lactamase/transpeptidase-like	beta-Lactamase/D-ala carboxypeptidase	Class D beta-lactamase	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	beta-Lactamase/D-ala carboxypeptidase	8030944	4002685	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	beta-lactamase/transpeptidase-like	8043323	3001604	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	beta-lactamase/transpeptidase-like	8043323	3001604	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	Beta-lactamase	e1m6kA1	A: a+b two layers	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: Beta-lactamase	ECOD (v294.2)
A	Transpeptidase	e1m6kA2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: Transpeptidase	ECOD (v294.2)
B	Ion_trans_2	e1m6kB1	A: beta barrels	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Ion_trans_2	ECOD (v294.2)
B	Transpeptidase	e1m6kB2	A: beta barrels	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Transpeptidase	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
B	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)

AMR Gene: CARD Annotation CARD Database Homepage

Chains	Accession	Short Name	Description	Provenance Source (Version)
A, B	ARO:3001396	OXA-1	OXA-1 is a beta-lactamase found in E. coli.	CARD (4.0.1)

AMR Gene Family: CARD Annotation CARD Database Homepage

Chains	Accession	Gene Family	Drug Class	Resistance Machanism	Provenance Source (Version)
A, B	ARO:3007696	OXA-1-like beta-lactamase	cephalosporin, penicillin beta-lactam	antibiotic inactivation	CARD (4.0.1)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	beta-lactamase OXA-1	organic acid binding binding ion binding anion binding penicillin binding carboxylic acid binding heterocyclic compound binding monocarboxylic acid binding small molecule binding sulfur compound binding beta-lactamase activity hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides catalytic activity organic acid binding binding ion binding anion binding penicillin binding carboxylic acid binding heterocyclic compound binding monocarboxylic acid binding small molecule binding sulfur compound binding beta-lactamase activity hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	antibiotic metabolic process catabolic process metabolic process cellular process antibiotic catabolic process response to stimulus response to chemical response to antibiotic	cellular anatomical structure extracellular region periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR058151	Beta-lactamase OXA-1	Family
A, B	IPR012338	Beta-lactamase/transpeptidase-like	Homologous Superfamily
A, B	IPR001460	Penicillin-binding protein, transpeptidase	Domain
A, B	IPR002137	Beta-lactamase, class-D active site	Active Site

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	beta-lactamase (Class D) M-CSA #210	Class D beta lactamases are able to break down oxacillin and cloxacillin thus playing a vital role in antibiotic resistance in bacteria as they can prevent these compounds from inhibiting the DD peptidases involved in bacterial cell wall synthesis. As part of the family of serine beta lactamases, which also includes classes A B and C of the beta lactamases, they share significant homology with the DD peptidases, indicating that they diverged from a common ancestor. However, they are able to hydrolyse the acyl enzyme intermediate that forms through initial nucleophilic attack on the beta-lactam ring much more quickly, thus do not become inhibited by the beta lactams in the same way.	Defined by 6 residues: SER:A-46 [auth A-67]LYS:A-49 [auth A-70]SER:A-93 [auth A-115]SER:A-98 [auth A-120]TRP:A-138 [auth A-160]ALA:A-193 [auth A-215] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.5.2.6 (PDB Primary Data) Search M-CSA Motif + EC 3.5.2.6

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