1QYM

X-ray structure of human gankyrin

• PDB DOI: https://doi.org/10.2210/pdb1QYM/pdb

• Classification: ONCOPROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-09-11 Released: 2003-11-18 
• Deposition Author(s): Manjasetty, B.A., Quedenau, C., Sievert, V., Buessow, K., Niesen, F., Delbrueck, H., Heinemann, U.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.233 
• R-Value Work: 0.187 

Starting Models: experimental

Literature

X-ray structure of human gankyrin, the product of a gene linked to hepatocellular carcinoma.

Manjasetty, B.A., Quedenau, C., Sievert, V., Buessow, K., Niesen, F., Delbrueck, H., Heinemann, U.

(2004) Proteins 55: 214-217

• PubMed: 14997555 
• DOI: https://doi.org/10.1002/prot.20028
• Primary Citation of Related Structures:  
  1QYM

---

Organizational Affiliation: 

Protein Structure Factory, c/o BESSY GmbH, Albert-Einstein-Strasse 15, 12489 Berlin, Germany.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.47 kDa 
• Atom Count: 1,733 
• Modelled Residue Count: 223 
• Deposited Residue Count: 227 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
26S proteasome non-ATPase regulatory subunit 10	A	227	Homo sapiens	Mutation(s): 0  Gene Names: PSMD10
UniProt & NIH Common Fund Data Resources
Find proteins for O75832 (Homo sapiens) Explore O75832  Go to UniProtKB:  O75832
PHAROS:  O75832 GTEx:  ENSG00000101843

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.233 
• R-Value Work: 0.187 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.373	α = 90
b = 116.373	β = 90
c = 74.399	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-11-18 
Deposition Author(s): Manjasetty, B.A., Quedenau, C., Sievert, V., Buessow, K., Niesen, F., Delbrueck, H., Heinemann, U.

Revision History  

• Version 1.0: 2003-11-18
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Refinement description, Version format compliance
• Version 1.3: 2023-08-23
  Changes: Data collection, Database references, Refinement description