3EHQ

Crystal Structure of Human Osteoclast Stimulating Factor

• PDB DOI: https://doi.org/10.2210/pdb3EHQ/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2008-09-14 Released: 2009-08-04 
• Deposition Author(s): Tong, S., Zhou, H., Gao, Y., Zhu, Z., Zhang, X., Teng, M., Niu, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.57 Å
• R-Value Free: 
  0.284 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.214 (Depositor) 

Literature

Crystal structure of human osteoclast stimulating factor

Tong, S., Zhou, H., Gao, Y., Zhu, Z., Zhang, X., Teng, M., Niu, L.

(2009) Proteins 75: 245-251

• PubMed: 19137598 
• DOI: https://doi.org/10.1002/prot.22333
• Primary Citation of Related Structures:  
  3EHQ, 3EHR

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Organizational Affiliation: 

Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230026, China.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 50.11 kDa 
• Atom Count: 2,923 
• Modelled Residue Count: 363 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Osteoclast-stimulating factor 1	A, B	222	Homo sapiens	Mutation(s): 1  Gene Names: OSTF1
UniProt & NIH Common Fund Data Resources
Find proteins for Q92882 (Homo sapiens) Explore Q92882  Go to UniProtKB:  Q92882
PHAROS:  Q92882 GTEx:  ENSG00000134996

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A], D [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.57 Å
• R-Value Free:  0.284 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.214 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.057	α = 90
b = 56.86	β = 90
c = 170.125	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
SOLVE	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-08-04 
Deposition Author(s): Tong, S., Zhou, H., Gao, Y., Zhu, Z., Zhang, X., Teng, M., Niu, L.

Revision History  

• Version 1.0: 2009-08-04
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.3: 2024-11-20
  Changes: Data collection, Structure summary