5VEI | pdb_00005vei

Crystal structure of the SH3 domain of human sorbin and SH3 domain-containing protein 2

• PDB DOI: https://doi.org/10.2210/pdb5VEI/pdb
• Entry: 5VEI supersedes: 4IGZ

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


• Deposited: 2017-04-04 Released: 2017-08-02 
• Deposition Author(s): Liu, Y., Tempel, W., Huang, H., Gu, J., Liu, K., Sidhu, S.S., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.33 Å
• R-Value Free: 
  0.206 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.185 (Depositor) 
• R-Value Observed: 
  0.186 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the SH3 domain of human sorbin and SH3 domain-containing protein 2

Liu, Y., Tempel, W., Huang, H., Gu, J., Liu, K., Sidhu, S.S., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 12.31 kDa 
• Atom Count: 700 
• Modeled Residue Count: 80 
• Deposited Residue Count: 110 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sorbin and SH3 domain-containing protein 2	A	110	Homo sapiens	Mutation(s): 0  Gene Names: SORBS2
UniProt & NIH Common Fund Data Resources
Find proteins for O94875 (Homo sapiens) Explore O94875  Go to UniProtKB:  O94875
PHAROS:  O94875 GTEx:  ENSG00000154556

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
UNX	AA [auth A], B [auth A], BA [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], P [auth A], Q [auth A], R [auth A], S [auth A], T [auth A], U [auth A], V [auth A], W [auth A], X [auth A], Y [auth A], Z [auth A]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.33 Å
• R-Value Free:  0.206 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.185 (Depositor) 
• R-Value Observed: 0.186 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M35VEI

Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.202	α = 90
b = 27.494	β = 101.01
c = 58.831	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-08-02 
Deposition Author(s): Liu, Y., Tempel, W., Huang, H., Gu, J., Liu, K., Sidhu, S.S., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)
• This entry supersedes: 4IGZ

Revision History  

• Version 1.0: 2017-08-02
  Type: Initial release
  
• Version 1.1: 2023-10-04
  Changes: Data collection, Database references, Refinement description