4I1M | pdb_00004i1m

Crystal structure of the Legionella pneumophila GAP domain of LepB

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)
C	LepB_GAP_N	e4i1mC1	A: alpha bundles	X: LepB GAP domain N-terminal subdomain	H: LepB GAP domain N-terminal subdomain	T: LepB GAP domain N-terminal subdomain	F: LepB_GAP_N	ECOD (develop294)
C	LepB_GAP_C	e4i1mC2	A: alpha bundles	X: LepB GAP domain C-terminal subdomain	H: LepB GAP domain C-terminal subdomain	T: LepB GAP domain C-terminal subdomain	F: LepB_GAP_C	ECOD (develop294)
B	YonK	e4i1mB1	A: alpha bundles	X: DP domain	H: DP domain	T: DP domain	F: YonK	ECOD (develop294)
A	SH3_1	e4i1mA3	A: alpha bundles	X: Fusion glycoprotein F2	H: HTH	T: winged helix domain	F: SH3_1	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.20.120.1700	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (4.3.0)
C	1.25.40.830	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)
B	1.20.120.1700	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (4.3.0)
B	1.25.40.830	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)
A	1.20.120.1700	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (4.3.0)
A	1.25.40.830	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF18227	LepB GAP domain C-terminal subdomain (LepB_GAP_C)	LepB GAP domain C-terminal subdomain	This subdomain is found in the Rab1 GTPase-activating protein (GAP) domain of GAP LepB present in Legionella pneumophilia. LepB inactivates Rab1, a key regulator of the secretory vesicular trafficking machinery, by acting as a GTPase-activating prote ...	This subdomain is found in the Rab1 GTPase-activating protein (GAP) domain of GAP LepB present in Legionella pneumophilia. LepB inactivates Rab1, a key regulator of the secretory vesicular trafficking machinery, by acting as a GTPase-activating protein. LepB is also an antagonist of DrrA, which promotes Rab1. LepB acts by an atypical RabGAP mechanism that is reminiscent of classical GAPs. This is the C-terminal subdomain of the GAP domain and consists of an unusual fold [1].	Domain
A, B, C	PF18172	LepB GAP domain N-terminal subdomain (LepB_GAP_N)	LepB GAP domain N-terminal subdomain	This is a subdomain of a Rab GTPase-activating protein (GAP) effector from Legionella pneumophilia. This GAP modulates Rab enzymes that act as molecular switches in regulating vesicular transport in eukaryotic cells. This N-terminal subdomain belongs ...	This is a subdomain of a Rab GTPase-activating protein (GAP) effector from Legionella pneumophilia. This GAP modulates Rab enzymes that act as molecular switches in regulating vesicular transport in eukaryotic cells. This N-terminal subdomain belongs to the the GAP domain of the protein. The catalytic arginine finger (Arg444) is located within this sub-domain and it is the only arginine residue required for GAP activity [1].	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR041585	LepB GAP domain, N-terminal subdomain	Domain
A, B, C	IPR040484	LepB GAP domain, C-terminal subdomain	Domain
A, B, C	IPR040519	LepB, N-terminal	Domain

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.