PDB entry 2dxe

View 2dxe on RCSB PDB site
Description: Crystal structure of nucleoside diphosphate kinase in complex with GDP
Class: transferase
Keywords: nucleoside binding, kinase, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, TRANSFERASE
Deposited on 2006-08-25, released 2007-02-25
The last revision prior to the SCOPe 2.03 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 1.7 Å
R-factor: 0.168
AEROSPACI score: 0.57 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Nucleoside diphosphate kinase
    Species: Pyrococcus horikoshii [TaxId:70601]
    Gene: ndk
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2dxea_
  • Chain 'B':
    Compound: Nucleoside diphosphate kinase
    Species: Pyrococcus horikoshii [TaxId:70601]
    Gene: ndk
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2dxeb_
  • Heterogens: MG, CL, GDP, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2dxeA (A:)
mfqmsetertlviikpdavvrgligeiisrfekkglkivgmkmiwidrelaekhyeehre
kpffkalidyitktpvvvmvlegryavevvrkmagatdpkdaapgtirgdfglevsdaic
nvihasdskesaereislffkpeelfeypraadwfykkgi

    Sequence, based on observed residues (ATOM records): (download) 
    >2dxeA (A:)
etertlviikpdavvrgligeiisrfekkglkivgmkmiwidrelaekhyeehrekpffk
alidyitktpvvvmvlegryavevvrkmagatdpkdaapgtirgdfglevsdaicnviha
sdskesaereislffkpeelfeypraadwfykkg

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2dxeB (B:)
mfqmsetertlviikpdavvrgligeiisrfekkglkivgmkmiwidrelaekhyeehre
kpffkalidyitktpvvvmvlegryavevvrkmagatdpkdaapgtirgdfglevsdaic
nvihasdskesaereislffkpeelfeypraadwfykkgi

    Sequence, based on observed residues (ATOM records): (download) 
    >2dxeB (B:)
setertlviikpdavvrgligeiisrfekkglkivgmkmiwidrelaekhyeehrekpff
kalidyitktpvvvmvlegryavevvrkmagatdpkdaapgtirgdfglevsdaicnvih
asdskesaereislffkpeelfeypraadwfykkgi