PDB entry 2z1m

View 2z1m on RCSB PDB site
Description: Crystal Structure of GDP-D-Mannose Dehydratase from Aquifex aeolicus VF5
Class: lyase
Keywords: SHORT-CHAIN DEHYDROGENASE/REDUCTASE, LYASE, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI
Deposited on 2007-05-09, released 2007-11-13
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: 2 Å
R-factor: 0.2
AEROSPACI score: 0.45 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: GDP-D-mannose dehydratase
    Species: Aquifex aeolicus [TaxId:224324]
    Gene: rfbD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2z1ma_
  • Chain 'B':
    Compound: GDP-D-mannose dehydratase
    Species: Aquifex aeolicus [TaxId:224324]
    Gene: rfbD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2z1mb_
  • Chain 'C':
    Compound: GDP-D-mannose dehydratase
    Species: Aquifex aeolicus [TaxId:224324]
    Gene: rfbD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2z1mc_
  • Chain 'D':
    Compound: GDP-D-mannose dehydratase
    Species: Aquifex aeolicus [TaxId:224324]
    Gene: rfbD
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d2z1md_
  • Heterogens: NDP, GDP, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >2z1mA (A:)
    msgkralitgirgqdgaylaklllekgyevygadrrsgefaswrlkelgiendvkiihmd
    llefsniirtiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdt
    kfyqastsemfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfn
    hesplrgiefvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpep
    ddyviatgethtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpae
    vdilvgnpekamkklgwkprttfdelveimmeadlkrvrdrevsv
    

    Sequence, based on observed residues (ATOM records): (download)
    >2z1mA (A:)
    gkralitgirgqdgaylaklllekgyevygadrrsgefaswrlkelgiendvkiihmdll
    efsniirtiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdtkf
    yqastsemfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfnhe
    splrgiefvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpepdd
    yviatgethtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpaevd
    ilvgnpekamkklgwkprttfdelveimmeadlkrvrd
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >2z1mB (B:)
    msgkralitgirgqdgaylaklllekgyevygadrrsgefaswrlkelgiendvkiihmd
    llefsniirtiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdt
    kfyqastsemfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfn
    hesplrgiefvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpep
    ddyviatgethtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpae
    vdilvgnpekamkklgwkprttfdelveimmeadlkrvrdrevsv
    

    Sequence, based on observed residues (ATOM records): (download)
    >2z1mB (B:)
    kralitgirgqdgaylaklllekgyevygadswrlkelgiendvkiihmdllefsniirt
    iekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdtkfyqastsem
    fgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfnhesplrgief
    vtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpepddyviatget
    htvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpdilvgnpekamk
    klgwkprttfdelveimmeadlkrvrdrevsv
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >2z1mC (C:)
    msgkralitgirgqdgaylaklllekgyevygadrrsgefaswrlkelgiendvkiihmd
    llefsniirtiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdt
    kfyqastsemfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfn
    hesplrgiefvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpep
    ddyviatgethtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpae
    vdilvgnpekamkklgwkprttfdelveimmeadlkrvrdrevsv
    

    Sequence, based on observed residues (ATOM records): (download)
    >2z1mC (C:)
    gkralitgirgqdgaylaklllekgyevygadswrlkelgiendvkiihmdllefsniir
    tiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdtkfyqastse
    mfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfnhesplrgie
    fvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpepddyviatge
    thtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpaevdilvgnpe
    kamkklgwkprttfdelveimmeadlkrvrdrevsv
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >2z1mD (D:)
    msgkralitgirgqdgaylaklllekgyevygadrrsgefaswrlkelgiendvkiihmd
    llefsniirtiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdt
    kfyqastsemfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfn
    hesplrgiefvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpep
    ddyviatgethtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpae
    vdilvgnpekamkklgwkprttfdelveimmeadlkrvrdrevsv
    

    Sequence, based on observed residues (ATOM records): (download)
    >2z1mD (D:)
    gkralitgirgqdgaylaklllekgyevygadrrsgefaswrlkelgiendvkiihmdll
    efsniirtiekvqpdevynlaaqsfvgvsfeqpiltaevdaigvlrilealrtvkpdtkf
    yqastsemfgkvqeipqtektpfyprspyavaklfghwitvnyreaynmfacsgilfnhe
    splrgiefvtrkityslarikyglqdklvlgnlnakrdwgyapeyveamwlmmqqpepdd
    yviatgethtvrefvekaakiagfdiewvgeginekgidrntgkvivevseeffrpaevd
    ilvgnpekamkklgwkprttfdelveimmeadlkrvrd