1OOT | pdb_00001oot

Crystal structure of the SH3 domain from a S. cerevisiae hypothetical 40.4 kDa protein at 1.39 A resolution

• PDB DOI: https://doi.org/10.2210/pdb1OOT/pdb

• Classification: STRUCTURAL GENOMICS
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-03-04 Released: 2004-04-06 
• Deposition Author(s): Kursula, P., Lehmann, F., Song, Y.H., Wilmanns, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free: 
  0.170 (Depositor), 0.167 (DCC) 
• R-Value Work: 
  0.132 (Depositor), 0.135 (DCC) 
• R-Value Observed: 
  0.134 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the SH3 domain from a S. cerevisiae hypothetical 40.4 kDa protein at 1.39 A resolution

Kursula, P., Lehmann, F., Song, Y.H., Wilmanns, M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 6.69 kDa 
• Atom Count: 578 
• Modeled Residue Count: 58 
• Deposited Residue Count: 60 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical 40.4 kDa protein in PES4-HIS2 intergenic region	A	60	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: YFR024C
UniProt
Find proteins for P43603 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P43603  Go to UniProtKB:  P43603

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	B [auth A], C [auth A], D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free:  0.170 (Depositor), 0.167 (DCC) 
• R-Value Work:  0.132 (Depositor), 0.135 (DCC) 
• R-Value Observed: 0.134 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.93	α = 90
b = 39.93	β = 90
c = 69.49	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-04-06 
Deposition Author(s): Kursula, P., Lehmann, F., Song, Y.H., Wilmanns, M.

Revision History  

• Version 1.0: 2004-04-06
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-16
  Changes: Data collection, Database references, Derived calculations, Refinement description