2YKT

Crystal structure of the I-BAR domain of IRSp53 (BAIAP2) in complex with an EHEC derived Tir peptide

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
Pharos: Disease Associations
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2ykta_	All alpha proteins	BAR/IMD domain-like	BAR/IMD domain-like	IMD domain	BAP2/IRSp53 N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	BAR/IMD domain-like	8034054	3000528	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)
A	BAR_3	e2yktA1	A: alpha duplicates or obligate multimers	X: BAR/IMD domain-like	H: BAR/IMD domain-like (From Topology)	T: BAR/IMD domain-like	F: BAR_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1270.60	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08397	IRSp53/MIM homology domain (IMD)	IRSp53/MIM homology domain	-	Family
B	PF07489	Translocated intimin receptor (Tir) C-terminus (Tir_receptor_C)	Translocated intimin receptor (Tir) C-terminus	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 C-terminal domain which has been reported to bind uninfected host cells and beta-1 integrins although the role of intimin binding to integrins is unclear. This intimin C-terminal domain has also been shown to be sufficient for Tir recognition [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	BRAIN-SPECIFIC ANGIOGENESIS INHIBITOR 1-ASSOCIATED PROTEIN 2	cell adhesion molecule binding cadherin binding involved in cell-cell adhesion cadherin binding protein binding binding cell adhesion mediator activity cell-cell adhesion mediator activity transcription factor binding transcription coregulator binding proline-rich region binding identical protein binding PDZ domain binding protein domain specific binding scaffold protein binding cell adhesion molecule binding cadherin binding involved in cell-cell adhesion cadherin binding protein binding binding cell adhesion mediator activity cell-cell adhesion mediator activity transcription factor binding transcription coregulator binding proline-rich region binding identical protein binding PDZ domain binding protein domain specific binding scaffold protein binding protein-macromolecule adaptor activity cytoskeletal anchor activity molecular adaptor activity	cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication positive regulation of response to stimulus synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality positive regulation of cellular process trans-synaptic signaling regulation of biological process regulation of signaling cell surface receptor signaling pathway nervous system process biological regulation cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of trans-synaptic signaling regulation of response to stimulus anterograde trans-synaptic signaling regulation of cell communication cellular process excitatory postsynaptic potential regulation of membrane potential positive regulation of signaling membrane organization cellular component organization plasma membrane organization cellular component organization or biogenesis endomembrane system organization axonogenesis cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development developmental process plasma membrane bounded cell projection organization nervous system development axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development cellular response to acid chemical cellular response to nitrogen compound cellular response to amino acid stimulus response to organic substance response to organonitrogen compound response to endogenous stimulus cellular response to L-glutamate response to oxygen-containing compound response to nitrogen compound response to amino acid cellular response to oxygen-containing compound cellular response to endogenous stimulus response to acid chemical cellular response to chemical stimulus cellular response to organonitrogen compound response to chemical response to L-glutamate cellular response to organic substance organelle organization actin cytoskeleton organization actin filament organization actin filament-based process actin crosslink formation supramolecular fiber organization cytoskeleton organization positive regulation of dendritic spine morphogenesis positive regulation of nervous system development positive regulation of dendritic spine development regulation of cell differentiation regulation of neurogenesis regulation of cell morphogenesis regulation of cell development positive regulation of developmental process regulation of dendrite morphogenesis regulation of synapse structure or activity positive regulation of cell projection organization dendritic spine morphogenesis synapse organization dendritic spine development dendritic spine organization postsynapse organization regulation of cell projection organization positive regulation of cell development regulation of postsynapse organization positive regulation of cell morphogenesis regulation of dendrite development positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization regulation of developmental process regulation of dendritic spine development regulation of nervous system development dendrite development positive regulation of neuron projection development positive regulation of cell differentiation positive regulation of neurogenesis regulation of anatomical structure morphogenesis regulation of multicellular organismal development dendrite morphogenesis positive regulation of dendrite morphogenesis regulation of synapse organization cell junction organization regulation of dendritic spine morphogenesis neuron projection organization regulation of plasma membrane bounded cell projection organization regulation of cytoskeleton organization regulation of actin filament-based process regulation of organelle organization regulation of actin cytoskeleton organization protein localization localization cellular localization protein localization to synapse cellular macromolecule localization macromolecule localization protein localization to cell junction regulation of cell shape response to peptide hormone insulin receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway response to hormone enzyme-linked receptor protein signaling pathway cellular response to hormone stimulus cellular response to peptide hormone stimulus response to insulin cellular response to insulin stimulus positive regulation of organelle organization regulation of cellular component size cellular component biogenesis regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly cellular component assembly positive regulation of protein polymerization protein-containing complex assembly regulation of actin filament polymerization protein polymerization actin polymerization or depolymerization regulation of actin filament organization actin filament polymerization protein-containing complex organization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization regulation of actin polymerization or depolymerization positive regulation of supramolecular fiber organization regulation of cellular component biogenesis regulation of protein polymerization regulation of actin filament length regulation of supramolecular fiber organization positive regulation of actin filament polymerization regulation of anatomical structure size regulation of synaptic plasticity cellular response to growth factor stimulus cellular response to epidermal growth factor stimulus response to epidermal growth factor response to growth factor regulation of modification of postsynaptic actin cytoskeleton regulation of modification of synaptic structure modification of postsynaptic actin cytoskeleton regulation of modification of postsynaptic structure modification of synaptic structure modification of postsynaptic structure actin filament bundle organization actin filament bundle assembly	cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle neuron projection neuron projection branch point intracellular anatomical structure cytoplasm cytosol intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle secretory granule secretory vesicle synapse cell junction glutamatergic synapse cell-cell junction adherens junction anchoring junction somatodendritic compartment dendrite dendritic tree dendritic shaft ruffle cell body neuronal cell body postsynaptic density, intracellular component postsynaptic specialization postsynaptic specialization, intracellular component postsynaptic density postsynapse neuron to neuron synapse intracellular non-membrane-bounded organelle asymmetric synapse non-membrane-bounded organelle actin-based cell projection filopodium polymeric cytoskeletal fiber cytoskeleton supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton cell periphery membrane plasma membrane plasma membrane region synaptic membrane cytosolic region presynapse presynaptic cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen neuron projection cytoplasm neuron spine cytoplasmic region plasma membrane bounded cell projection cytoplasm dendritic spine dendrite cytoplasm dendritic spine cytoplasm neuron projection terminus excitatory synapse Schaffer collateral - CA1 synapse postsynaptic cytosol
B	TRANSLOCATED INTIMIN RECEPTOR PROTEIN	-	-	membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR001452	SH3 domain	Domain
A	IPR027681	I-BAR domain containing protein IRSp53/IRTKS/Pinkbar	Family
A	IPR013606	IMD/I-BAR domain	Domain
A	IPR027267	AH/BAR domain superfamily	Homologous Superfamily
A	IPR035594	IRSp53, SH3 domain	Domain
A	IPR030128	I-BAR domain containing protein IRSp53, Inverse-Bin/Amphiphysin/Rvs domain	Domain
B	IPR022638	Translocated intimin receptor	Family
B	IPR022639	Translocated intimin receptor, C-terminal	Domain
B	IPR037003	Translocated intimin receptor, central domain superfamily	Homologous Superfamily
B	IPR022633	Translocated intimin receptor, N-terminal	Domain
B	IPR003536	Translocated intimin receptor, central domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9UQB8	astrocytic tumor atypical teratoid rhabdoid tumor glioblastoma malignant glioma osteosarcoma pilocytic astrocytoma atopic eczema endogenous depression large cell medulloblastoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor attention deficit hyperactivity disorder, inattentive type esophageal adenocarcinoma malignant ependymoma astrocytic tumor atypical teratoid rhabdoid tumor glioblastoma malignant glioma osteosarcoma pilocytic astrocytoma atopic eczema endogenous depression large cell medulloblastoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor attention deficit hyperactivity disorder, inattentive type esophageal adenocarcinoma malignant ependymoma oligodendroglioma Pick disease psoriasis

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	NH2	RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.