2WQU | pdb_00002wqu

Internalin domain of Listeria monocytogenes InlB: triclinic crystal form

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d2wquf2	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
F	d2wquf1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Internalin LRR domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
E	d2wque2	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
E	d2wque1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Internalin LRR domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
D	d2wqud2	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
D	d2wqud1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Internalin LRR domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
C	d2wquc2	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
C	d2wquc1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Internalin LRR domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
B	d2wqub2	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
B	d2wqub1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Internalin LRR domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
A	d2wqua2	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
A	d2wqua1	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Internalin LRR domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	L domain-like	8036334	3001010	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	E set domains	8055069	3000070	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	L domain-like	8036334	3001010	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	E set domains	8055069	3000070	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	L domain-like	8036334	3001010	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	E set domains	8055069	3000070	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	L domain-like	8036334	3001010	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	E set domains	8055069	3000070	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	L domain-like	8036334	3001010	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	L domain-like	8036334	3001010	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	E set domains	8055069	3000070	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	ATP-synt_ab_N	e2wquF1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: ATP-synt_ab_N	ECOD (v294.1)
F	Cobalamin_bind	e2wquF2	A: a/b three-layered sandwiches	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (v294.1)
E	ATP-synt_ab_N	e2wquE1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: ATP-synt_ab_N	ECOD (v294.1)
E	Cobalamin_bind	e2wquE2	A: a/b three-layered sandwiches	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (v294.1)
D	ATP-synt_ab_N	e2wquD1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: ATP-synt_ab_N	ECOD (v294.1)
D	Cobalamin_bind	e2wquD2	A: a/b three-layered sandwiches	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (v294.1)
C	V-set	e2wquC3	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: V-set	ECOD (v294.1)
B	ATP-synt_ab_N	e2wquB1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: ATP-synt_ab_N	ECOD (v294.1)
B	Cobalamin_bind	e2wquB2	A: a/b three-layered sandwiches	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (v294.1)
A	ATP-synt_ab_N	e2wquA1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: ATP-synt_ab_N	ECOD (v294.1)
A	Cobalamin_bind	e2wquA2	A: a/b three-layered sandwiches	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
F	2.60.40.1220	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
E	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
E	2.60.40.1220	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
D	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
D	2.60.40.1220	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
C	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
B	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
B	2.60.40.1220	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
A	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
A	2.60.40.1220	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF12354	Bacterial adhesion/invasion protein N terminal (Internalin_N)	Bacterial adhesion/invasion protein N terminal	This domain family is found in bacteria, and is approximately 60 amino acids in length. The family is found in association with Pfam:PF00560, Pfam:PF08191, Pfam:PF09479. There are two completely conserved residues (I and F) that may be functionally i ...	This domain family is found in bacteria, and is approximately 60 amino acids in length. The family is found in association with Pfam:PF00560, Pfam:PF08191, Pfam:PF09479. There are two completely conserved residues (I and F) that may be functionally important. Internalin mediates bacterial adhesion and invasion of epithelial cells in the human intestine through specific interaction with its host cell receptor E-cadherin. This family is the N terminal of internalin, the cap domain of the protein. The cap domain is conserved between different internalin types. The cap domain does not interact with E cadherin, therefore its function is presumably structural: capping the hydrophobic core.	Domain
A, B, C, D, E A, B, C, D, E, F	PF12799	Leucine Rich repeats (2 copies) (LRR_4)	Leucine Rich repeats (2 copies)	-	Repeat
A, B, C, D, E A, B, C, D, E, F	PF08191	LRR adjacent (LRR_adjacent)	LRR adjacent	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	INTERNALIN B	binding lipid binding heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding	-	cellular anatomical structure extracellular region cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR025875	Leucine rich repeat 4	Repeat
A, B, C, D, E A, B, C, D, E, F	IPR025987	GW domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013378	Internalin B-like, B-repeat	Repeat
A, B, C, D, E A, B, C, D, E, F	IPR001611	Leucine-rich repeat	Repeat
A, B, C, D, E A, B, C, D, E, F	IPR038200	GW domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR012569	Internalin, Ig-like inter-repeat region	Domain
A, B, C, D, E A, B, C, D, E, F	IPR024634	Internalin, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR042229	Listeria-Bacteroides repeat domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A, B, C, D, E A, B, C, D, E, F	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR014755	Copper resistance protein CopC/internalin, immunoglobulin-like	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR050836	SDS22/Internalin LRR-containing	Family

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.