2ZWK | pdb_00002zwk

Crystal structure of intimin-Tir90 complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
C	d2zwkc1	All beta proteins	Immunoglobulin-like beta-sandwich	Invasin/intimin cell-adhesion fragments	automated matches	automated matches	(Escherichia coli O157:H7 str. EDL933 ) [TaxId: 155864 ],	SCOPe (2.08)
C	d2zwkc2	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	automated matches	automated matches	(Escherichia coli O157:H7 str. EDL933 ) [TaxId: 155864 ],	SCOPe (2.08)
E	d2zwke1	All beta proteins	Immunoglobulin-like beta-sandwich	Invasin/intimin cell-adhesion fragments	automated matches	automated matches	(Escherichia coli O157:H7 str. EDL933 ) [TaxId: 155864 ],	SCOPe (2.08)
E	d2zwke2	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	automated matches	automated matches	(Escherichia coli O157:H7 str. EDL933 ) [TaxId: 155864 ],	SCOPe (2.08)
A	d2zwka1	All beta proteins	Immunoglobulin-like beta-sandwich	Invasin/intimin cell-adhesion fragments	automated matches	automated matches	(Escherichia coli O157:H7 str. EDL933 ) [TaxId: 155864 ],	SCOPe (2.08)
A	d2zwka2	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	automated matches	automated matches	(Escherichia coli O157:H7 str. EDL933 ) [TaxId: 155864 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Tir_receptor_M	e2zwkB1	A: alpha duplicates or obligate multimers	X: Translocated intimin receptor Tir extracellular domain (From Topology)	H: Translocated intimin receptor Tir extracellular domain (From Topology)	T: Translocated intimin receptor Tir extracellular domain	F: Tir_receptor_M	ECOD (1.6)
D	Tir_receptor_M	e2zwkD1	A: alpha duplicates or obligate multimers	X: Translocated intimin receptor Tir extracellular domain (From Topology)	H: Translocated intimin receptor Tir extracellular domain (From Topology)	T: Translocated intimin receptor Tir extracellular domain	F: Tir_receptor_M	ECOD (1.6)
F	Tir_receptor_M	e2zwkF1	A: alpha duplicates or obligate multimers	X: Translocated intimin receptor Tir extracellular domain (From Topology)	H: Translocated intimin receptor Tir extracellular domain (From Topology)	T: Translocated intimin receptor Tir extracellular domain	F: Tir_receptor_M	ECOD (1.6)
C	Big_2	e2zwkC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Big_2	ECOD (1.6)
C	Intimin_C	e2zwkC2	A: a+b complex topology	X: C-type lectin-like (From Homology)	H: C-type lectin-like	T: C-type lectin-like	F: Intimin_C	ECOD (1.6)
E	Big_2	e2zwkE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Big_2	ECOD (1.6)
E	Intimin_C	e2zwkE2	A: a+b complex topology	X: C-type lectin-like (From Homology)	H: C-type lectin-like	T: C-type lectin-like	F: Intimin_C	ECOD (1.6)
A	Big_2	e2zwkA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Big_2	ECOD (1.6)
A	Intimin_C	e2zwkA2	A: a+b complex topology	X: C-type lectin-like (From Homology)	H: C-type lectin-like	T: C-type lectin-like	F: Intimin_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	4.10.820.10	Few Secondary Structures	Irregular	Translocated Intimin Receptor	Chain T	CATH (4.2.0)
D	4.10.820.10	Few Secondary Structures	Irregular	Translocated Intimin Receptor	Chain T	CATH (4.2.0)
F	4.10.820.10	Few Secondary Structures	Irregular	Translocated Intimin Receptor	Chain T	CATH (4.2.0)
C	2.60.40.1080	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.2.0)
C	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.2.0)
E	2.60.40.1080	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.2.0)
E	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.2.0)
A	2.60.40.1080	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.2.0)
A	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F	PF03549	Translocated intimin receptor (Tir) intimin-binding domain (Tir_receptor_M)	Translocated intimin receptor (Tir) intimin-binding domain	Intimin and its translocated intimin receptor (Tir) are bacterial proteins that mediate adhesion between mammalian cells and attaching and effacing (A/E) pathogens. A unique and essential feature of A/E bacterial pathogens is the formation of actin-r ...	Intimin and its translocated intimin receptor (Tir) are bacterial proteins that mediate adhesion between mammalian cells and attaching and effacing (A/E) pathogens. A unique and essential feature of A/E bacterial pathogens is the formation of actin-rich pedestals beneath the intimately adherent bacteria and localised destruction of the intestinal brush border. The bacterial outer membrane adhesin, intimin, is necessary for the production of the A/E lesion and diarrhoea. The A/E bacteria translocate their own receptor for intimin, Tir, into the membrane of mammalian cells using the type III secretion system. The translocated Tir triggers additional host signalling events and actin nucleation, which are essential for lesion formation [1]. This family represents the Tir intimin-binding domain (Tir IBD) which is needed to bind intimin and support the predicted topology for Tir, with both N- and C-terminal regions in the mammalian cell cytosol [2].	Domain
A, C, E	PF07979	Intimin C-type lectin domain (Intimin_C)	Intimin C-type lectin domain	This domain is found at the C-terminus of intimin. Its structure has been solved and shown to have a C-lectin type of structure [1]. Intimin is a bacterial adhesion molecule involved in intimate attachment of enteropathogenic and enterohemorrhagic Es ...	This domain is found at the C-terminus of intimin. Its structure has been solved and shown to have a C-lectin type of structure [1]. Intimin is a bacterial adhesion molecule involved in intimate attachment of enteropathogenic and enterohemorrhagic Escherichia coli to mammalian host cells. Intimin targets the translocated intimin receptor (Tir), which is exported by the bacteria and integrated into the host cell plasma membrane.	Domain
A, C, E	PF26182	NUP210 Ig-like domain 5 (Ig_NUP210_5th)	NUP210 Ig-like domain 5	This entry represents the fifth Ig-like domain in NUP210 proteins. NUP210 proteins are membrane glycoproteins that are integral components of the nuclear pore complex. These proteins are essential for the assembly and fusion of nuclear pores, maintai ...	This entry represents the fifth Ig-like domain in NUP210 proteins. NUP210 proteins are membrane glycoproteins that are integral components of the nuclear pore complex. These proteins are essential for the assembly and fusion of nuclear pores, maintaining proper nuclear pore spacing, and ensuring the structural integrity of the nuclear envelope. They are known to form dimers and potentially higher-order oligomers, which may contribute to their functional roles in the nuclear pore complex. NUP210 proteins are composed of multiple immunoglobulin-like (Ig-like) domains that form a ring around the NPC within the NE lumen [1-2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F	Putative translocated intimin receptor protein (Translocated intimin receptor Tir)	-	-	cellular anatomical structure membrane host cell plasma membrane host cellular component host cell part host cell membrane other organism part extracellular region
A, C, E	Intimin	-	cell adhesion cellular process	cell periphery cell outer membrane cellular anatomical structure external encapsulating structure membrane cell envelope outer membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F	IPR022638	Translocated intimin receptor	Family
B, D, F	IPR022639	Translocated intimin receptor, C-terminal	Domain
B, D, F	IPR037003	Translocated intimin receptor, central domain superfamily	Homologous Superfamily
B, D, F	IPR022633	Translocated intimin receptor, N-terminal	Domain
B, D, F	IPR003536	Translocated intimin receptor, central domain	Domain
A, C, E	IPR038177	Inverse autotransporter, beta-domain superfamily	Homologous Superfamily
A, C, E	IPR003535	Intimin/invasin bacterial adhesion mediator protein	Family
A, C, E	IPR003344	Big-1 (bacterial Ig-like domain 1) domain	Domain
A, C, E	IPR016187	C-type lectin fold	Homologous Superfamily
A, C, E	IPR013117	Intimin, C-terminal	Domain
A, C, E	IPR003343	Bacterial Ig-like domain, group 2	Domain
A, C, E	IPR051715	Intimin/Invasin domain-containing protein	Family
A, C, E	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, C, E	IPR016186	C-type lectin-like/link domain superfamily	Homologous Superfamily
A, C, E	IPR024519	Inverse autotransporter, beta-domain	Domain
A, C, E	IPR018392	LysM domain	Domain
A, C, E	IPR008964	Invasin/intimin cell-adhesion fragments	Homologous Superfamily

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.