4U65 | pdb_00004u65

Structure of the periplasmic output domain of the Legionella pneumophila LapD ortholog CdgS9 in complex with Pseudomonas fluorescens LapG

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2 Family	LapD output domain-like	8045601	4004560	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Sensory domain-like	8053817	3001802	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Sensory domain-like	8053817	3001802	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sensory domain-like	8053817	3001802	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sensory domain-like	8053817	3001802	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)
F	Acetyltransf_9	e4u65F1	A: a/b three-layered sandwiches	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Acetyltransf_9	ECOD (v294.1)
E	Viral_helicase1	e4u65E1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (v294.1)
D	Viral_helicase1	e4u65D1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (v294.1)
C	Viral_helicase1	e4u65C1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (v294.1)
B	Viral_helicase1	e4u65B1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (v294.1)
A	Viral_helicase1	e4u65A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.10.620.30	Alpha Beta	Roll	C8orf32 fold		CATH (4.3.0)
E	3.10.620.30	Alpha Beta	Roll	C8orf32 fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF16448	LapD/MoxY periplasmic domain (LapD_MoxY_N)	LapD/MoxY periplasmic domain	This domain is the N-terminal periplasmic domain of the LapD and MoxY receptor proteins [1-2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F	Putative cystine protease	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	-
A, B, C, D	Two component histidine kinase, GGDEF domain protein/EAL domain protein	kinase activity transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity cyclic-guanylate-specific phosphodiesterase activity hydrolase activity	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cellular process signal transduction cell communication	cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
E, F	IPR010319	Transglutaminase-like cysteine peptidase, predicted	Family
A, B, C, D	IPR000160	GGDEF domain	Domain
A, B, C, D	IPR050706	Cyclic-di-GMP_PDE-like	Unknown
A, B, C, D	IPR003660	HAMP domain	Domain
A, B, C, D	IPR032244	LapD/MoxY, periplasmic domain	Domain
A, B, C, D	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B, C, D	IPR042461	LapD/MoxY periplasmic domain, C-terminal	Homologous Superfamily
A, B, C, D	IPR001633	EAL domain	Domain
A, B, C, D	IPR035919	EAL domain superfamily	Homologous Superfamily
A, B, C, D	IPR029787	Nucleotide cyclase	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.