5F8Q

Blood group antigen binding adhesin BabA of Helicobacter pylori strain S831 in complex with Nanobody Nb-ER19

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Protein Family Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth C]	d5f8qc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
B [auth C]	d5f8qc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
D	d5f8qd1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
D	d5f8qd2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF18304	e5f8qA1	A: alpha bundles	X: SabA N-terminal extracellular adhesion domain (From Topology)	H: SabA N-terminal extracellular adhesion domain (From Topology)	T: SabA N-terminal extracellular adhesion domain	F: PF18304	ECOD (1.6)
C [auth B]	PF18304	e5f8qB1	A: alpha bundles	X: SabA N-terminal extracellular adhesion domain (From Topology)	H: SabA N-terminal extracellular adhesion domain (From Topology)	T: SabA N-terminal extracellular adhesion domain	F: PF18304	ECOD (1.6)
B [auth C]	PF07686	e5f8qC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D	PF07686	e5f8qD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth C], D	Heavy Chain	IGHV1	-	adhesin binding fucosylated histo-blood group antigen,adhesin,adhesin binding fucosylated histo-blood group antigen	SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	PF18304	SabA N-terminal extracellular adhesion domain (SabA_adhesion)	SabA N-terminal extracellular adhesion domain	This is the N-terminal extracellular adhesion domain of Sialic acid binding adhesin (SabA) present in Helicobacter pylori. The N-terminal domain of SabA functions as a sugar-binding adhesion domain with conserved disulfide bonds. Notably, these amino ...	This is the N-terminal extracellular adhesion domain of Sialic acid binding adhesin (SabA) present in Helicobacter pylori. The N-terminal domain of SabA functions as a sugar-binding adhesion domain with conserved disulfide bonds. Notably, these amino acid residues are not only conserved among SabA orthologs but also between SabA and BabA [1].	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR040838	SabA, N-terminal extracellular adhesion domain	Domain
A, C [auth B]	IPR002718	Outer membrane protein, Helicobacter	Family
A, C [auth B]	IPR040838	SabA, N-terminal extracellular adhesion domain	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 R01GM133198.