6SLI

Structure of the RagAB peptide transporter

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	SusD_RagB	e6sliA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: SusD_RagB	ECOD (1.6)
D [auth C]	SusD_RagB	e6sliC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: SusD_RagB	ECOD (1.6)
G [auth F]	SusD_RagB	e6sliF1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: SusD_RagB	ECOD (1.6)
J [auth I]	SusD_RagB	e6sliI1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: SusD_RagB	ECOD (1.6)
B	UNK_F_TYPE	e6sliB1	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Ligand-gated protein channel	F: UNK_F_TYPE	ECOD (1.6)
B	Plug	e6sliB2	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: TonB-dependent receptor plug domain (From Topology)	T: TonB-dependent receptor plug domain	F: Plug	ECOD (1.6)
E [auth D]	UNK_F_TYPE	e6sliD1	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Ligand-gated protein channel	F: UNK_F_TYPE	ECOD (1.6)
E [auth D]	Plug	e6sliD2	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: TonB-dependent receptor plug domain (From Topology)	T: TonB-dependent receptor plug domain	F: Plug	ECOD (1.6)
H [auth G]	UNK_F_TYPE	e6sliG1	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Ligand-gated protein channel	F: UNK_F_TYPE	ECOD (1.6)
H [auth G]	Plug	e6sliG2	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: TonB-dependent receptor plug domain (From Topology)	T: TonB-dependent receptor plug domain	F: Plug	ECOD (1.6)
K [auth J]	UNK_F_TYPE	e6sliJ1	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Ligand-gated protein channel	F: UNK_F_TYPE	ECOD (1.6)
K [auth J]	Plug	e6sliJ2	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: TonB-dependent receptor plug domain (From Topology)	T: TonB-dependent receptor plug domain	F: Plug	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth C], G [auth F], J [auth I]	PF07980	SusD family (SusD_RagB)	SusD family	-	Repeat
A, D [auth C], G [auth F], J [auth I]	PF14322	Starch-binding associating with outer membrane (SusD-like_3)	Starch-binding associating with outer membrane	-	Repeat
B, E [auth D], H [auth G], K [auth J]	PF00593	TonB dependent receptor-like, beta-barrel (TonB_dep_Rec_b-barrel)	TonB dependent receptor-like, beta-barrel	This entry represents the beta-barrel domain of TonB-dependent receptors, such as BtuB, CirA, FatA, FcuT, FecA, FepA, among others [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth C], G [auth F], J [auth I]	Lipoprotein RagB	-	-	membrane cellular anatomical entity
B, E [auth D], H [auth G], K [auth J]	RagA protein	-	-	cell periphery cell outer membrane external encapsulating structure membrane cell envelope outer membrane cellular anatomical entity
C [auth P], I [auth H]	ALA-SER-THR-THR-GLY-GLY-ASN-SER-GLN-ARG-GLY-SER-GLY	-	-	-
F [auth E], L [auth K]	ASTTGGNSQRGGG	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth C], G [auth F], J [auth I]	IPR012944	RagB/SusD domain	Domain
A, D [auth C], G [auth F], J [auth I]	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
A, D [auth C], G [auth F], J [auth I]	IPR033985	SusD-like, N-terminal	Domain
B, E [auth D], H [auth G], K [auth J]	IPR039426	TonB-dependent receptor-like	Family
B, E [auth D], H [auth G], K [auth J]	IPR037066	TonB-dependent receptor, plug domain superfamily	Homologous Superfamily
B, E [auth D], H [auth G], K [auth J]	IPR023997	TonB-dependent outer membrane protein SusC/RagA, conserved site	Conserved Site
B, E [auth D], H [auth G], K [auth J]	IPR036942	TonB-dependent receptor-like, beta-barrel domain superfamily	Homologous Superfamily
B, E [auth D], H [auth G], K [auth J]	IPR023996	TonB-dependent outer membrane protein, SusC/RagA	Family
B, E [auth D], H [auth G], K [auth J]	IPR000531	TonB-dependent receptor-like, beta-barrel	Domain
B, E [auth D], H [auth G], K [auth J]	IPR012910	TonB-dependent receptor, plug domain	Domain
B, E [auth D], H [auth G], K [auth J]	IPR008969	Carboxypeptidase-like, regulatory domain superfamily	Homologous Superfamily

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, D [auth C], E [auth D], G [auth F] A, B, D [auth C], E [auth D], G [auth F], H [auth G], J [auth I], K [auth J]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, D [auth C], E [auth D], G [auth F] A, B, D [auth C], E [auth D], G [auth F], H [auth G], J [auth I], K [auth J]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, D [auth C], E [auth D], G [auth F] A, B, D [auth C], E [auth D], G [auth F], H [auth G], J [auth I], K [auth J]	mpstruc	TRANSMEMBRANE PROTEINS: BETA-BARREL	Polysaccharide Utilization Proteins	RagAB peptide transporter

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.