3TWI

Variable Lymphocyte Receptor Recognition of the Immunodominant Glycoprotein of Bacillus anthracis Spores

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product 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)
D	d3twid_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	automated matches	automated matches	marine lamprey (Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
E	d3twie1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	automated matches	automated matches	marine lamprey (Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
F	d3twif_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	automated matches	automated matches	marine lamprey (Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	L domain-like	8079005	3001010	SCOP2B (2022-06-29)
E	SCOP2 Family	Ngr ectodomain-like	8079004	4002278	SCOP2 (2022-06-29)
E	SCOP2 Superfamily	L domain-like	8079005	3001010	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	EUF07659	e3twiA1	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: EUF07659	ECOD (1.6)
B	EUF07659	e3twiB2	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: EUF07659	ECOD (1.6)
C	EUF07659	e3twiC2	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: EUF07659	ECOD (1.6)
D	LRR_8_1	e3twiD1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_8_1	ECOD (1.6)
E	LRR_8_1	e3twiE2	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_8_1	ECOD (1.6)
F	LRR_8_1	e3twiF1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_8_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
C	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
D, E, F	VLRB (Variable lymphocyte receptor B)	VLRB	Petromyzon marinus (sea lamprey)	VLRB*04	R-LIKE-DOMAIN LRRNT, R-LIKE-DOMAIN LRRV1, R-LIKE-DOMAIN LRRV2	RPI	VLRB	IMGT (202443-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF18573	BclA C-terminal domain (BclA_C)	BclA C-terminal domain	This is the C-terminal domain of BclA (Bacillus collagen-like protein of anthracis) which is expressed on spores of Bacillus species. Trimers of the C-terminal domain (CTD) form the tips of the spore's hair-like nap and are the immunodominant target ...	This is the C-terminal domain of BclA (Bacillus collagen-like protein of anthracis) which is expressed on spores of Bacillus species. Trimers of the C-terminal domain (CTD) form the tips of the spore's hair-like nap and are the immunodominant target of vertebrate antibodies and drive trimerization [1]. Structure analysis indicate the C-terminal region of the peptide folding into an all-beta structure with a jelly-fold topology, similar to the first human complement C1q, a member of the tumor necrosis factor (TNF)-like family. The C-terminal globular domain has been shown to be located on the exterior of the exosporium, and therefore is critical in determining the immunogenicity of the spore in a mammalian host [2].	Domain
D, E, F	PF13855	Leucine rich repeat (LRR_8)	Leucine rich repeat	-	Repeat
D, E, F	PF01462	Leucine rich repeat N-terminal domain (LRRNT)	Leucine rich repeat N-terminal domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	BclA protein	structural molecule activity extracellular matrix structural constituent extracellular matrix structural constituent conferring tensile strength	cellular component organization extracellular matrix organization cellular process cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization import into cell regulation of localization regulation of biological process regulation of cellular process regulation of cellular component organization transport regulation of transport biological regulation cellular component organization extracellular matrix organization cellular process cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization import into cell regulation of localization regulation of biological process regulation of cellular process regulation of cellular component organization transport regulation of transport biological regulation regulation of phagocytosis regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport localization phagocytosis endocytosis regulation of endocytosis	extracellular region extracellular space cellular anatomical entity
D, E, F	Variable lymphocyte receptor B	ganglioside GM1 binding amide binding binding ceramide binding organic acid binding sphingolipid binding glycolipid binding glycosphingolipid binding ion binding ganglioside binding anion binding lipid binding carboxylic acid binding carbohydrate derivative binding ganglioside GM1 binding amide binding binding ceramide binding organic acid binding sphingolipid binding glycolipid binding glycosphingolipid binding ion binding ganglioside binding anion binding lipid binding carboxylic acid binding carbohydrate derivative binding small molecule binding ganglioside GT1b binding	cellular response to stimulus positive regulation of cell communication regulation of cellular process small GTPase-mediated signal transduction positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction Rho protein signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction cellular response to stimulus positive regulation of cell communication regulation of cellular process small GTPase-mediated signal transduction positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction Rho protein signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction regulation of Rho protein signal transduction positive regulation of Rho protein signal transduction regulation of response to stimulus regulation of cell communication cellular process positive regulation of small GTPase mediated signal transduction positive regulation of signaling	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR008160	Collagen triple helix repeat	Repeat
A, B, C	IPR021201	Leader peptide, exosporium	Domain
A, B, C	IPR008983	Tumour necrosis factor-like domain superfamily	Homologous Superfamily
A, B, C	IPR050149	Collagen superfamily	Family
A, B, C	IPR041415	BclA, C-terminal domain	Domain
D, E, F	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
D, E, F	IPR000372	Leucine-rich repeat N-terminal domain	Domain
D, E, F	IPR001611	Leucine-rich repeat	Repeat
D, E, F	IPR050541	Leucine-rich repeat and transmembrane domain-containing protein	Family
D, E, F	IPR003591	Leucine-rich repeat, typical subtype	Repeat

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.