2QMI

Structure of the octameric penicillin-binding protein homologue from Pyrococcus abyssi

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF13969	e2qmiA3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
A	PF00144	e2qmiA1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
A	PF00144	e2qmiA2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
B	PF13969	e2qmiB3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
B	PF00144	e2qmiB1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
B	PF00144	e2qmiB2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
C	PF13969	e2qmiC3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
C	PF00144	e2qmiC1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
C	PF00144	e2qmiC2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
D	PF13969	e2qmiD3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
D	PF00144	e2qmiD1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
D	PF00144	e2qmiD2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
E	PF13969	e2qmiE3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
E	PF00144	e2qmiE1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
E	PF00144	e2qmiE2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
F	PF13969	e2qmiF3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
F	PF00144	e2qmiF1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
F	PF00144	e2qmiF2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
G	PF13969	e2qmiG3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
G	PF00144	e2qmiG1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
G	PF00144	e2qmiG2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
H	PF13969	e2qmiH3	A: beta barrels	X: Lipocalins/Streptavidin	H: D-aminopeptidase, middle and C-terminal domains (From Topology)	T: D-aminopeptidase, middle and C-terminal domains	F: PF13969	ECOD (1.6)
H	PF00144	e2qmiH1	A: alpha complex topology	X: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)
H	PF00144	e2qmiH2	A: a+b three layers	X: Profilin-like	H: a+b domain in beta-lactamase/transpeptidase-like proteins (From Topology)	T: a+b domain in beta-lactamase/transpeptidase-like proteins	F: PF00144	ECOD (1.6)

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)
A	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	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)
B	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	CATH (4.3.0)
C	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
C	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	CATH (4.3.0)
D	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
D	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	CATH (4.3.0)
E	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
E	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	CATH (4.3.0)
F	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
F	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	CATH (4.3.0)
G	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
G	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	CATH (4.3.0)
H	3.40.710.10	Alpha Beta	3-Layer(aba) Sandwich	Beta-lactamase	DD-peptidase/beta-lactamase superfamily	CATH (4.3.0)
H	2.40.128.210	Mainly Beta	Beta Barrel	Lipocalin	Pab87 octamerisation domain	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	PF13969	Pab87 octamerisation domain (Pab87_oct)	Pab87 octamerisation domain	This domain was first characterised as the C-terminal domain of Pab87 serine protease from Pyrococcus abyssi [1]. The domain is reported to play a crucial role in Pab87 octamerisation and active site compartmentalisation. Its up-and-down 8-stranded b ...	This domain was first characterised as the C-terminal domain of Pab87 serine protease from Pyrococcus abyssi [1]. The domain is reported to play a crucial role in Pab87 octamerisation and active site compartmentalisation. Its up-and-down 8-stranded beta-barrel 3D structure is reminiscent of the one found in lipocalins.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF00144	Beta-lactamase (Beta-lactamase)	Beta-lactamase	This family appears to be distantly related to Pfam:PF00905 and PF00768 D-alanyl-D-alanine carboxypeptidase.	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001466	Beta-lactamase-related	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR012338	Beta-lactamase/transpeptidase-like	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR025879	Pab87 octamerisation domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR038164	Pab87 octamerisation domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.

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2QMI

Structure of the octameric penicillin-binding protein homologue from Pyrococcus abyssi

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage