4AVM | pdb_00004avm

Crystal structure of the N-BAR domain of human bridging integrator 2.

• PDB DOI: https://doi.org/10.2210/pdb4AVM/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2012-05-28 Released: 2012-06-20 
• Deposition Author(s): Allerston, C.K., Krojer, T., Cooper, C.D.O., Vollmar, M., Arrowsmith, C.H., Edwards, A., Bountra, C., von Delft, F., Gileadi, O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free: 
  0.198 (Depositor), 0.203 (DCC) 
• R-Value Work: 
  0.163 (Depositor), 0.165 (DCC) 
• R-Value Observed: 
  0.165 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of the N-Bar Domain of Human Bridging Integrator 2.

Allerston, C.K., Krojer, T., Cooper, C.D.O., Vollmar, M., Arrowsmith, C.H., Edwards, A., Bountra, C., von Delft, F., Gileadi, O.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 28.66 kDa 
• Atom Count: 2,121 
• Modeled Residue Count: 230 
• Deposited Residue Count: 237 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BRIDGING INTEGRATOR 2	A	237	Homo sapiens	Mutation(s): 0  Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBW5 (Homo sapiens) Explore Q9UBW5  Go to UniProtKB:  Q9UBW5
PHAROS:  Q9UBW5 GTEx:  ENSG00000110934

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	E [auth A], F [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
EDO	B [auth A], C [auth A], D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free:  0.198 (Depositor), 0.203 (DCC) 
• R-Value Work:  0.163 (Depositor), 0.165 (DCC) 
• R-Value Observed: 0.165 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.886	α = 90
b = 81.248	β = 90
c = 150.384	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
autoPROC	data reduction
AP_SCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-06-20 
Deposition Author(s): Allerston, C.K., Krojer, T., Cooper, C.D.O., Vollmar, M., Arrowsmith, C.H., Edwards, A., Bountra, C., von Delft, F., Gileadi, O.

Revision History  

• Version 1.0: 2012-06-20
  Type: Initial release
  
• Version 1.1: 2012-09-05
  Changes: Atomic model, Database references, Other, Structure summary
• Version 1.2: 2012-12-05
  Changes: Database references, Structure summary
• Version 1.3: 2018-01-24
  Changes: Database references
• Version 1.4: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description