PDB entry 2ywc

View 2ywc on RCSB PDB site
Description: Crystal structure of GMP synthetase from Thermus thermophilus in complex with XMP
Class: ligase
Keywords: GMP synthetase, XMP binding, ATP binding, Purine nucleotide biosynthetic pathway, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, LIGASE
Deposited on 2007-04-20, released 2007-10-23
The last revision prior to the SCOPe 2.08 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: 0.236
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: GMP synthase [glutamine-hydrolyzing]
    Species: Thermus thermophilus [TaxId:300852]
    Gene: GUAA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ywca1, d2ywca2, d2ywca3
  • Chain 'B':
    Compound: GMP synthase [glutamine-hydrolyzing]
    Species: Thermus thermophilus [TaxId:300852]
    Gene: GUAA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ywcb1, d2ywcb2, d2ywcb3
  • Chain 'C':
    Compound: GMP synthase [glutamine-hydrolyzing]
    Species: Thermus thermophilus [TaxId:300852]
    Gene: GUAA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ywcc1, d2ywcc2, d2ywcc3
  • Chain 'D':
    Compound: GMP synthase [glutamine-hydrolyzing]
    Species: Thermus thermophilus [TaxId:300852]
    Gene: GUAA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ywcd1, d2ywcd2, d2ywcd3
  • Heterogens: XMP, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >2ywcA (A:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviesagghgaakikshhnvgglpedlefellepfrllfkd
    evrelalllglpdtlrlrhpfpgpglavrvlgevteerleilrraddiftsllrewglye
    kvaqalavltpvrsvgvagderkygyvlalravttedfmtadwarlplefldeaarritr
    rvpeigrvvydltskppatiewe
    

    Sequence, based on observed residues (ATOM records): (download)
    >2ywcA (A:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviegglpedlefellepfrllfkdevrelalllglpdtlr
    lrhpfpgpglavrvlgevteerleilrraddiftsllrewglyekvaqalavltpvgyvl
    alravttedfmtadwarlplefldeaarritrrvpeigrvvydltskppatiewe
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >2ywcB (B:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviesagghgaakikshhnvgglpedlefellepfrllfkd
    evrelalllglpdtlrlrhpfpgpglavrvlgevteerleilrraddiftsllrewglye
    kvaqalavltpvrsvgvagderkygyvlalravttedfmtadwarlplefldeaarritr
    rvpeigrvvydltskppatiewe
    

    Sequence, based on observed residues (ATOM records): (download)
    >2ywcB (B:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviefellepfrllfkdevrelalllglpdtlrlrhpfpgp
    glavrvlgevteerleilrraddiftsllrewglyekvaqalavltpvgyvlalravtte
    dfmtadwarlplefldeaarritrrvpeigrvvydltskppatiewe
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >2ywcC (C:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviesagghgaakikshhnvgglpedlefellepfrllfkd
    evrelalllglpdtlrlrhpfpgpglavrvlgevteerleilrraddiftsllrewglye
    kvaqalavltpvrsvgvagderkygyvlalravttedfmtadwarlplefldeaarritr
    rvpeigrvvydltskppatiewe
    

    Sequence, based on observed residues (ATOM records): (download)
    >2ywcC (C:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviefellepfrllfkdevrelalllglpdtlrlrhpfpgp
    glavrvlgevteerleilrraddiftsllrewglyekvaqalavltpvgyvlalravtte
    dfmtadwarlplefldeaarritrrvpeigrvvydltskppatiewe
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >2ywcD (D:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdviesagghgaakikshhnvgglpedlefellepfrllfkd
    evrelalllglpdtlrlrhpfpgpglavrvlgevteerleilrraddiftsllrewglye
    kvaqalavltpvrsvgvagderkygyvlalravttedfmtadwarlplefldeaarritr
    rvpeigrvvydltskppatiewe
    

    Sequence, based on observed residues (ATOM records): (download)
    >2ywcD (D:)
    mvlvldfgsqytrliarrlrelrafslilpgdapleevlkhrpqalilsggprsvfdpda
    prpdprlfssglpllgicygmqllaqelggrveragraeygkalltrhegplfrglegev
    qvwmshqdavtapppgwrvvaeteenpvaaiaspdgraygvqfhpevahtpkgmqilenf
    lelagvkrdwtpehvleellrevreragkdrvllavsggvdsstlalllakagvdhlavf
    vdhgllrlgereevegalralgvnllvvdakerflkalkgvedpeekrkiigrefvaafs
    qvarergpfrflaqgtlypdvifellepfrllfkdevrelalllglpdtlrlrhpfpgpg
    lavrvlgevteerleilrraddiftsllrewglyekvaqalavltpvrgyvlalravtte
    dfmtadwarlplefldeaarritrrvpeigrvvydltskppatiewe