4Q35

Structure of a membrane protein

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
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	LptD C-terminal domain-like	8045955	4004780	SCOP2 (2022-06-29)
A	SCOP2 Family	LptA-like	8045266	4004381	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LptD-like barrel	8053497	3002195	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	OstA-like beta-folder	8053502	3002196	SCOP2 (2022-06-29)
B	SCOP2 Family	LptE-like	8045859	4004725	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	TolB N-terminal domain-like	8053486	3000482	SCOP2 (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	PF04453	e4q35A2	A: beta barrels	X: Outer membrane meander beta-barrels	H: LPS-assembly protein LptD (From Topology)	T: LPS-assembly protein LptD	F: PF04453	ECOD (1.6)
A	PF03968	e4q35A1	A: beta meanders	X: Periplasmic lipopolysaccharide transport protein LptA (YhbN) (From Topology)	H: Periplasmic lipopolysaccharide transport protein LptA (YhbN) (From Topology)	T: Periplasmic lipopolysaccharide transport protein LptA (YhbN)	F: PF03968	ECOD (1.6)
B	PF04390	e4q35B1	A: a/b three-layered sandwiches	X: TolB, N-terminal domain (From Topology)	H: TolB, N-terminal domain (From Topology)	T: TolB, N-terminal domain	F: PF04390	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.160.150	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain	Lipoprotein like domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03968	LptA/(LptD N-terminal domain) LPS transport protein (LptD_N)	LptA/(LptD N-terminal domain) LPS transport protein	This family of proteins are involved in lipopolysaccharide transport across the gram negative inner and outer membranes. The type examples for this family are E. coli LptA Swiss:P0ADV1 and the N-terminal domain of LptD Swiss:P31554.	Domain
A	PF04453	LPS transport system D (LptD)	LPS transport system D	-	Family
B	PF04390	Lipopolysaccharide-assembly (LptE)	Lipopolysaccharide-assembly	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	LPS-assembly protein LptD	-	membrane organization membrane biogenesis membrane assembly cellular component organization cellular component biogenesis cellular component assembly cellular process cellular component organization or biogenesis cell envelope organization Gram-negative-bacterium-type cell outer membrane assembly external encapsulating structure organization response to organic substance response to stimulus response to chemical membrane organization membrane biogenesis membrane assembly cellular component organization cellular component biogenesis cellular component assembly cellular process cellular component organization or biogenesis cell envelope organization Gram-negative-bacterium-type cell outer membrane assembly external encapsulating structure organization response to organic substance response to stimulus response to chemical localization transport lipopolysaccharide transport macromolecule localization organic substance transport lipid localization lipid transport carbohydrate derivative transport establishment of localization	cell periphery cell outer membrane external encapsulating structure membrane cell envelope outer membrane cellular anatomical entity
B	LPS-assembly lipoprotein LptE	-	membrane organization membrane biogenesis membrane assembly cellular component organization cellular component biogenesis cellular component assembly cellular process cellular component organization or biogenesis cell envelope organization Gram-negative-bacterium-type cell outer membrane assembly external encapsulating structure organization	cell periphery cell outer membrane external encapsulating structure membrane cell envelope outer membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR007543	LptD, C-terminal	Domain
A	IPR020889	LPS-assembly protein LptD	Family
A	IPR005653	Organic solvent tolerance-like, N-terminal	Domain
B	IPR007485	LPS-assembly lipoprotein LptE	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM				LPS assembly protein family (n=26, S=30)

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B	MemProtMD	Annotated as membrane protein by MemProtMD

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 R01GM133198.