PDB entry 3vpd

View 3vpd on RCSB PDB site
Description: LysX from Thermus thermophilus complexed with AMP-PNP
Class: ligase
Keywords: ATP-dependenet amine/thiol ligase family, ATP-dependenet amine/thiol ligase, LIGASE
Deposited on 2012-02-29, released 2013-02-27
The last revision prior to the SCOPe 2.08 freeze date was dated 2013-07-31, with a file datestamp of 2013-07-26.
Experiment type: XRAY
Resolution: 1.95 Å
R-factor: 0.198
AEROSPACI score: 0.44 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Ribosomal protein S6 modification protein
    Species: Thermus thermophilus [TaxId:274]
    Gene: LysX, rimK
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3vpda1, d3vpda2
  • Chain 'B':
    Compound: Ribosomal protein S6 modification protein
    Species: Thermus thermophilus [TaxId:274]
    Gene: LysX, rimK
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3vpdb1, d3vpdb2
  • Heterogens: ANP, BUA, CIT, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3vpdA (A:)
    mlailydrirpdermlferaealglpykkvyvpalpmvlgerpealegvtvalercvsqs
    rglaaaryltalgipvvnrpevieacgdkwatsvalakaglpqpktalatdreealrlme
    afgypvvlkpvigswgrllakvtdraaaeallehkevlggfqhqlfyiqeyvekpgrdir
    vfvvgeraiaaiyrrsahwitntarggqaencplteeiarlsvgaaeavgggvvavdlfe
    sergllvnevnhtmefknsvhttgvdipgeilryawevarg
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >3vpdB (B:)
    mlailydrirpdermlferaealglpykkvyvpalpmvlgerpealegvtvalercvsqs
    rglaaaryltalgipvvnrpevieacgdkwatsvalakaglpqpktalatdreealrlme
    afgypvvlkpvigswgrllakvtdraaaeallehkevlggfqhqlfyiqeyvekpgrdir
    vfvvgeraiaaiyrrsahwitntarggqaencplteeiarlsvgaaeavgggvvavdlfe
    sergllvnevnhtmefknsvhttgvdipgeilryawevarg
    

    Sequence, based on observed residues (ATOM records): (download)
    >3vpdB (B:)
    mlailydrirpdermlferaealglpykkvyvpalpmvlgerpealegvtvalercvsqs
    rglaaaryltalgipvvnrpevieacgdkwatsvalakaglpqpktalatdreealrlme
    afgypvvlkpvigswgrllakvtdraaaeallehkevlggfqhqlfyiqeyvekpgrdir
    vfvvgeraiaaiyrqaencplteeiarlsvgaaeavgggvvavdlfesergllvnevnht
    mefknsvhttgvdipgeilryawevarg