PDB entry 4pab

View 4pab on RCSB PDB site
Description: crystal structure of the precursor form of rat dmgdh complexed with tetrahydrofolate
Deposited on 2014-04-07, released 2014-06-18
The last revision was dated 2019-12-25, with a file datestamp of 2019-12-20.
Experiment type: XRAY
Resolution: 1.85 Å
R-factor: N/A
AEROSPACI score: 0.35 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Dimethylglycine dehydrogenase
    Species: Rattus norvegicus [TaxId:10116]
    Gene: Dmgdh
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q5RKL4 (Start-858)
      • engineered mutation (205)
      • engineered mutation (268)
      • engineered mutation (403)
      • engineered mutation (510)
      • engineered mutation (747)
      • engineered mutation (775)
      • expression tag (859-861)
  • Chain 'B':
    Compound: Dimethylglycine dehydrogenase
    Species: Rattus norvegicus [TaxId:10116]
    Gene: Dmgdh
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q5RKL4 (Start-858)
      • engineered mutation (205)
      • engineered mutation (268)
      • engineered mutation (403)
      • engineered mutation (510)
      • engineered mutation (747)
      • engineered mutation (775)
      • expression tag (859-862)
  • Heterogens: FAD, THG, SCN, HOH

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >4pabA (A:)
    maslrlgalrlrglalrssqgrpssaglregqesppsppewkdraetviigggcvgvsla
    yhlakagmrdvvllekseltagstwhaaglttyfhpginlkkihydsiklyerleeetgq
    vvgfhqpgsirlattpervdefkyqmtrtnwhateqyiiepekihelfpllnmdkilagl
    ynpgdghidpysltmalatgarkygvllkypapvtslkprpdgtwdvetpqgsvranriv
    naagfwarevgkmigldhplipvqhqyvvtstipevkalkrelpvlrdlegsyylrqerd
    gllfgpyesqekmklqaswvahgvppgfgkelfesdldritehveaamemvpvlkkadii
    nivngpityspdilpmvgphqgvrnywvaigfgygiihaggvgkylsdwilhgeppfdli
    eldpnrygkwtttqyteakaresygfnnivgypkeerfagrptqrvsglykileskcsmg
    fhagweqphwfykpgqdtqyrpsfrrtnwfrpvgseykqvmqrvgvidlspfgkfnikgq
    dstqlldhlcanvipkvgftnishmltprgrvyaeltvshqspgefllitgsgselhdlr
    wieeaavrggydveirnitdelgvlgvagpyarrvlqkltsedlsddvfkflqtkslkis
    dipvtairisytgelgwelyhrredsaalyerimnagqeegidnfgtyalnalrlekafr
    awgsemncdtnpleagldyfiklnkpadftgkqalkqikakglkrrlvcltlatddvdpe
    gnesvwykgkvignttsgsysysiqkslafayvpvelsevgqqvevellgknypatiiqe
    plvlteptrtrlqkdgrksaalehhhhhh
    

    Sequence, based on observed residues (ATOM records):
    >4pabA (A:)
    ewkdraetviigggcvgvslayhlakagmrdvvllekseltagstwhaaglttyfhpgin
    lkkihydsiklyerleeetgqvvgfhqpgsirlattpervdefkyqmtrtnwhateqyii
    epekihelfpllnmdkilaglynpgdghidpysltmalatgarkygvllkypapvtslkp
    rpdgtwdvetpqgsvranrivnaagfwarevgkmigldhplipvqhqyvvtstipevkal
    krelpvlrdlegsyylrqerdgllfgpyesqekmklqaswvahgvppgfgkelfesdldr
    itehveaamemvpvlkkadiinivngpityspdilpmvgphqgvrnywvaigfgygiiha
    ggvgkylsdwilhgeppfdlieldpnrygkwtttqyteakaresygfnnivgypkeerfa
    grptqrvsglykileskcsmgfhagweqphwfykpgqdtqyrpsfrrtnwfrpvgseykq
    vmqrvgvidlspfgkfnikgqdstqlldhlcanvipkvgftnishmltprgrvyaeltvs
    hqspgefllitgsgselhdlrwieeaavrggydveirnitdelgvlgvagpyarrvlqkl
    tsedlsddvfkflqtkslkisdipvtairisytgelgwelyhrredsaalyerimnagqe
    egidnfgtyalnalrlekafrawgsemncdtnpleagldyfiklnkpadftgkqalkqik
    akglkrrlvcltlatddvdpegnesvwykgkvignttsgsysysiqkslafayvpvelse
    vgqqvevellgknypatiiqeplvlteptrtrlqkdgrksaal
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >4pabB (B:)
    maslrlgalrlrglalrssqgrpssaglregqesppsppewkdraetviigggcvgvsla
    yhlakagmrdvvllekseltagstwhaaglttyfhpginlkkihydsiklyerleeetgq
    vvgfhqpgsirlattpervdefkyqmtrtnwhateqyiiepekihelfpllnmdkilagl
    ynpgdghidpysltmalatgarkygvllkypapvtslkprpdgtwdvetpqgsvranriv
    naagfwarevgkmigldhplipvqhqyvvtstipevkalkrelpvlrdlegsyylrqerd
    gllfgpyesqekmklqaswvahgvppgfgkelfesdldritehveaamemvpvlkkadii
    nivngpityspdilpmvgphqgvrnywvaigfgygiihaggvgkylsdwilhgeppfdli
    eldpnrygkwtttqyteakaresygfnnivgypkeerfagrptqrvsglykileskcsmg
    fhagweqphwfykpgqdtqyrpsfrrtnwfrpvgseykqvmqrvgvidlspfgkfnikgq
    dstqlldhlcanvipkvgftnishmltprgrvyaeltvshqspgefllitgsgselhdlr
    wieeaavrggydveirnitdelgvlgvagpyarrvlqkltsedlsddvfkflqtkslkis
    dipvtairisytgelgwelyhrredsaalyerimnagqeegidnfgtyalnalrlekafr
    awgsemncdtnpleagldyfiklnkpadftgkqalkqikakglkrrlvcltlatddvdpe
    gnesvwykgkvignttsgsysysiqkslafayvpvelsevgqqvevellgknypatiiqe
    plvlteptrtrlqkdgrksaalehhhhhh
    

    Sequence, based on observed residues (ATOM records):
    >4pabB (B:)
    ewkdraetviigggcvgvslayhlakagmrdvvllekseltagstwhaaglttyfhpgin
    lkkihydsiklyerleeetgqvvgfhqpgsirlattpervdefkyqmtrtnwhateqyii
    epekihelfpllnmdkilaglynpgdghidpysltmalatgarkygvllkypapvtslkp
    rpdgtwdvetpqgsvranrivnaagfwarevgkmigldhplipvqhqyvvtstipevkal
    krelpvlrdlegsyylrqerdgllfgpyesqekmklqaswvahgvppgfgkelfesdldr
    itehveaamemvpvlkkadiinivngpityspdilpmvgphqgvrnywvaigfgygiiha
    ggvgkylsdwilhgeppfdlieldpnrygkwtttqyteakaresygfnnivgypkeerfa
    grptqrvsglykileskcsmgfhagweqphwfykpgqdtqyrpsfrrtnwfrpvgseykq
    vmqrvgvidlspfgkfnikgqdstqlldhlcanvipkvgftnishmltprgrvyaeltvs
    hqspgefllitgsgselhdlrwieeaavrggydveirnitdelgvlgvagpyarrvlqkl
    tsedlsddvfkflqtkslkisdipvtairisytgelgwelyhrredsaalyerimnagqe
    egidnfgtyalnalrlekafrawgsemncdtnpleagldyfiklnkpadftgkqalkqik
    akglkrrlvcltlatddvdpegnesvwykgkvignttsgsysysiqkslafayvpvelse
    vgqqvevellgknypatiiqeplvlteptrtrlqkdgrksaale