PDB entry 6p3j

View 6p3j on RCSB PDB site
Description: Crystal structure of LigU
Class: isomerase
Keywords: Lignin degradation, protocatechuate 4, 5-cleavage pathway, PrpF superfamily, (4E)-oxalomesaconate isomerase mechanism, ISOMERASE
Deposited on 2019-05-23, released 2019-07-31
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-08-28, with a file datestamp of 2019-08-23.
Experiment type: XRAY
Resolution: 2.02 Å
R-factor: N/A
AEROSPACI score: 0.3 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: (4E)-oxalomesaconate Delta-isomerase
    Species: Novosphingobium sp. (strain KA1) [TaxId:164608]
    Gene: ligU, ORF100
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q0KJL4 (Start-356)
      • expression tag (357-359)
    Domains in SCOPe 2.08: d6p3ja1, d6p3ja2, d6p3ja3
  • Chain 'B':
    Compound: (4E)-oxalomesaconate Delta-isomerase
    Species: Novosphingobium sp. (strain KA1) [TaxId:164608]
    Gene: ligU, ORF100
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q0KJL4 (Start-356)
      • expression tag (357-360)
    Domains in SCOPe 2.08: d6p3jb1, d6p3jb2, d6p3jb3
  • Heterogens: CL, CA, NA, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >6p3jA (A:)
    mprrdrnmdsapcmwmrggtskggyflradlpadtaardafllavmgspdprqidgmgga
    dpltskvavvskserpgidvdylflqvfvdqaivtdaqncgnilagvgpfaierglvaas
    gdetrvaifmentgqvavatvrtpggsvtyagdaaidgvpgthapiptefrdtagsscga
    llpsgnavdvvnglpvtlidngmpcvvmkaadvgitgyedrdsldanaelkakieairla
    vgelmnlgdvteksvpkmmlvapprdggavcvrsfiphrahatigvlgavsvataclipg
    spaaevavvpegarktlsiehptgemscvlevddagnvvsaallrtarklmdgvvfvleh
    hhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >6p3jA (A:)
    mdsapcmwmrggtskggyflradlpadtaardafllavmgspdprqidgmggadpltskv
    avvskserpgidvdylflqvfvdqaivtdaqncgnilagvgpfaierglvaasgdetrva
    ifmentgqvavatvrtpggsvtyagdaaidgvpgthapiptefrdtagsscgallpsgna
    vdvvnglpvtlidngmpcvvmkaadvgitgyedrdsldanaelkakieairlavgelmnl
    gdvteksvpkmmlvapprdggavcvrsfiphrahatigvlgavsvataclipgspaaeva
    vvpegarktlsiehptgemscvlevddagnvvsaallrtarklmdgvvfvleh
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >6p3jB (B:)
    mprrdrnmdsapcmwmrggtskggyflradlpadtaardafllavmgspdprqidgmgga
    dpltskvavvskserpgidvdylflqvfvdqaivtdaqncgnilagvgpfaierglvaas
    gdetrvaifmentgqvavatvrtpggsvtyagdaaidgvpgthapiptefrdtagsscga
    llpsgnavdvvnglpvtlidngmpcvvmkaadvgitgyedrdsldanaelkakieairla
    vgelmnlgdvteksvpkmmlvapprdggavcvrsfiphrahatigvlgavsvataclipg
    spaaevavvpegarktlsiehptgemscvlevddagnvvsaallrtarklmdgvvfvleh
    hhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >6p3jB (B:)
    prrdrnmdsapcmwmrggtskggyflradlpadtaardafllavmgspdprqidgmggad
    pltskvavvskserpgidvdylflqvfvdqaivtdaqncgnilagvgpfaierglvaasg
    detrvaifmentgqvavatvrtpggsvtyagdaaidgvpgthapiptefrdtagsscgal
    lpsgnavdvvnglpvtlidngmpcvvmkaadvgitgyedrdsldanaelkakieairlav
    gelmnlgdvteksvpkmmlvapprdggavcvrsfiphrahatigvlgavsvatacspaae
    vavvpegarktlsiehptgemscvlevnvvsaallrtarklmdgvvfvlehh