1QYM | pdb_00001qym

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 (Depositor), 0.238 (DCC)
R-Value Work:
0.187 (Depositor), 0.186 (DCC)

Starting Models: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 1QYM

This is version 1.3 of the entry. See complete history.

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 Search on PubMed
DOI: https://doi.org/10.1002/prot.20028
Primary Citation Related Structures:
1QYM

Organizational Affiliation

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

Macromolecule Content

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

Macromolecules

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75832
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.233 (Depositor), 0.238 (DCC)
R-Value Work: 0.187 (Depositor), 0.186 (DCC)

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

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Entry History

Deposition Data

Released Date: 2003-11-18

Deposition Author(s):

Manjasetty, B.A.

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.