Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 30.24 kDa 
• Atom Count: 1991 
• Residue Count: 238 
• Unique protein chains: 2

2YKT

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

• DOI: 10.2210/pdb2YKT/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Escherichia coli O157:H7 str. TW14359
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-05-30 Released: 2011-09-07 
• Deposition Author(s): de Groot, J.C., Schlueter, K., Carius, Y., Quedenau, C., Vingadassalom, D., Faix, J., Weiss, S.M., Reichelt, J., Standfuss-Gabisch, C., Lesser, C.F., Leong, J.M., Heinz, D.W., Buessow, K., Stradal, T.E.B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free: 0.276 
• R-Value Work: 0.233 
• R-Value Observed: 0.236 

Literature

Structural Basis for Complex Formation between Human Irsp53 and the Translocated Intimin Receptor Tir of Enterohemorrhagic E. Coli.

De Groot, J.C., Schluter, K., Carius, Y., Quedenau, C., Vingadassalom, D., Faix, J., Weiss, S.M., Reichelt, J., Standfuss-Gabisch, C., Lesser, C.F., Leong, J.M., Heinz, D.W., Bussow, K., Stradal, T.E.B.

(2011) Structure 19: 1294

• PubMed: 21893288 
• DOI: 10.1016/j.str.2011.06.015
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Actin assembly beneath enterohemorrhagic E. coli (EHEC) attached to its host cell is triggered by the intracellular interaction of its translocated effector proteins Tir and EspF(U) with human IRSp53 family proteins and N-WASP. Here, we report the structure of the N-terminal I-BAR domain of IRSp53 in complex with a Tir-derived peptide, in which the homodimeric I-BAR domain binds two Tir molecules aligned in parallel. This arrangement provides a protein scaffold linking the bacterium to the host cell's actin polymerization machinery. The structure uncovers a specific peptide-binding site on the I-BAR surface, conserved between IRSp53 and IRTKS. The Tir Asn-Pro-Tyr (NPY) motif, essential for pedestal formation, is specifically recognized by this binding site. The site was confirmed by mutagenesis and in vivo-binding assays. It is possible that IRSp53 utilizes the NPY-binding site for additional interactions with as yet unknown partners within the host cell.

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Organizational Affiliation: 

Division of Structural Biology, Helmholtz Centre for Infection Research, 38124 Braunschweig, Germany.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
BRAIN-SPECIFIC ANGIOGENESIS INHIBITOR 1-ASSOCIATED PROTEIN 2	A	253	Homo sapiens	Mutation(s): 0  Gene Names: BAIAP2
Find proteins for Q9UQB8 (Homo sapiens) Go to UniProtKB:  Q9UQB8
NIH Common Fund Data Resources
PHAROS  Q9UQB8 GTEx  ENSG00000175866

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
TRANSLOCATED INTIMIN RECEPTOR PROTEIN	B	13	Escherichia coli O157:H7 str. TW14359	Mutation(s): 0  Gene Names: tir, espE, ECSP_4676
Find proteins for C6UYL8 (Escherichia coli O157:H7 (strain TW14359 / EHEC)) Go to UniProtKB:  C6UYL8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free: 0.276 
• R-Value Work: 0.233 
• R-Value Observed: 0.236 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.354	α = 90
b = 187.362	β = 90
c = 36.806	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-05-30 
• Released Date: 2011-09-07 
Deposition Author(s): de Groot, J.C., Schlueter, K., Carius, Y., Quedenau, C., Vingadassalom, D., Faix, J., Weiss, S.M., Reichelt, J., Standfuss-Gabisch, C., Lesser, C.F., Leong, J.M., Heinz, D.W., Buessow, K., Stradal, T.E.B.

Revision History 

• Version 1.0: 2011-09-07
  Type: Initial release
  
• Version 1.1: 2011-10-26
  Changes: Database references
• Version 1.2: 2015-04-01
  Changes: Database references