2EJF | pdb_00002ejf

Crystal Structure Of The Biotin Protein Ligase (Mutations R48A and K111A) and Biotin Carboxyl Carrier Protein Complex From Pyrococcus Horikoshii OT3

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d2ejfb1	All beta proteins	SH3-like barrel	C-terminal domain of transcriptional repressors	Biotin repressor (BirA)	Biotin--[acetyl-CoA-carboxylase] ligase C-terminal domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
B	d2ejfb2	Alpha and beta proteins (a+b)	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases	Biotin holoenzyme synthetase	Biotin--[acetyl-CoA-carboxylase] ligase catalytic domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d2ejfa1	All beta proteins	SH3-like barrel	C-terminal domain of transcriptional repressors	Biotin repressor (BirA)	Biotin--[acetyl-CoA-carboxylase] ligase C-terminal domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d2ejfa2	Alpha and beta proteins (a+b)	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases	Biotin holoenzyme synthetase	Biotin--[acetyl-CoA-carboxylase] ligase catalytic domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Single hybrid motif	8071104	3001880	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Single hybrid motif	8071104	3001880	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Class II aaRS and biotin synthetases	8039899	3000058	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Class II aaRS and biotin synthetases	8039899	3000058	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Transcriptional regulator domain	8039898	3000121	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)
D	Me-amine-dh_H	e2ejfD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)
C	Me-amine-dh_H	e2ejfC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Me-amine-dh_H	ECOD (v294.1)
B	KOW, Ribosomal_L26	e2ejfB1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: KOW, Ribosomal_L26	ECOD (v294.1)
B	Pkinase	e2ejfB2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Pkinase	ECOD (v294.1)
A	KOW, Ribosomal_L26	e2ejfA1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: KOW, Ribosomal_L26	ECOD (v294.1)
A	Pkinase	e2ejfA2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Pkinase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.3.0)
C	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.3.0)
B	3.30.930.10	Alpha Beta	2-Layer Sandwich	BirA Bifunctional Protein	domain 2	CATH (4.3.0)
B	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
A	3.30.930.10	Alpha Beta	2-Layer Sandwich	BirA Bifunctional Protein	domain 2	CATH (4.3.0)
A	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	149aa long hypothetical methylmalonyl-CoA decarboxylase gamma chain	-	-	-
A, B	235aa long hypothetical biotin--[acetyl-CoA-carboxylase] ligase	catalytic activity, acting on a protein biotin--[biotin carboxyl-carrier protein] ligase activity catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding catalytic activity, acting on a protein biotin--[biotin carboxyl-carrier protein] ligase activity catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity 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 cation binding metal ion binding	-	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR050709	Biotin Carboxyl Carrier/Decarboxylase Components	Family
C, D	IPR011053	Single hybrid motif	Homologous Superfamily
C, D	IPR001882	Biotin-binding site	Binding Site
C, D	IPR000089	Biotin/lipoyl attachment	Domain
A, B	IPR004408	Biotin--acetyl-CoA-carboxylase ligase	Family
A, B	IPR004143	Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL), catalytic domain	Domain
A, B	IPR045864	Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)	Homologous Superfamily
A, B	IPR003142	Biotin protein ligase, C-terminal	Domain
A, B	IPR008988	Transcriptional repressor, C-terminal	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.