GenePage for the ydcJ gene of Escherichia coli K-12

Primary Gene Name: ydcJ
EcoGene Accession Number: EG13753
K-12 Gene Accession Number: ECK1417
MG1655 Gene Identifier: b1423
Gene Name Mnemonic: Systematic nomenclature
Alternate Gene Symbols: None
Description: Putative metalloenzyme
  # bp Upstream # bp Downstream
MW: 51042.64 ---------447 aa Pre-Run BlastP UniProt
Pre-Run BlastP NR+Env
Left End: 1495288
Left Intergenic Region

Name: ydcI_ydcJ

Length: 216 bp gap

Orientation: Divergent

Left_end: 1495072

Right_end: 1495287

Centisome: 32.21

Genomic Address
Clockwise
Minute or Centisome (%) = 32.21
Right End: 1496631
Right Intergenic Region

Name: ydcJ_opgD

Length: 224 bp gap

Orientation: Codirectional+

Left_end: 1496632

Right_end: 1496855

Centisome: 32.24

Although the PDB structure 2RJB (containing zinc) is from Shigella flexneri (all Shigella are actually E. coli strains) it only differs from the K-12 protein sequence by one residue (S193L). YdcJ belongs to COG5383 and to the DUF1338 superfamily. Structural neighboring using VAST and DALI show that YdcJ is also a member of the SCOP Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase superfamily, indicating that the NCBI DUF1338 superfamily c102226 should be added to the NCBI Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily cl00411. The closest structure neighbor to YdcJ (DALI Z score = 22.5) is the uncharacterized Ralstonia eutropha protein JMP134 (PDB:3IUZ), which is not a DUF1338 member. YdcJ has two COG5383 domains, a full length domain at the N-terminus and a truncated domain at the C-terminus.

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BamHI EcoRI HindIII