Structural Classification of Proteins

Superfamily: Cobalamin (vitamin B12)-dependent enzymes

: uperfamily

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: TIM beta/alpha-barrel [51350]
contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
the first seven superfamilies have similar phosphate-binding sites
Superfamily: Cobalamin (vitamin B12)-dependent enzymes [51703]
uperfamily

Families:

Methylmalonyl-CoA mutase, N-terminal (CoA-binding) domain [51704] (2)
the subunits are clearly related but only one (alpha) is active
1. Methylmalonyl-CoA mutase alpha subunit, domain 1 [88709]
  1. Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744] [88710] (8)
    1. 7req
      complexed with 2cp, b12, gol; mutant
      1. region a:4-560 [29616]
      2. region c:4-560 [29618]
    2. 1req
      complexed with b12, dca, gol; mutant
      1. region a:2-560 [29620]
      2. region c:2-560 [29622]
    3. 6req
      complexed with 3cp, b12, gol; mutant
      1. region a:2-560 [29624]
      2. region c:2-560 [29626]
    4. 4req
      complexed with 5ad, b12, gol, mca, sca; mutant
      1. region a:3-560 [29628]
      2. region c:3-560 [29630]
    5. 5req
      complexed with b12, gol, mcd, scd; mutant
      1. region a:4-560 [29632]
      2. region c:4-560 [29634]
    6. 1e1c
      complexed with b12, dca; mutant
      1. region a:2-560 [29636]
      2. region c:2-560 [29638]
    7. 2req
      complexed with b12, coa; mutant
      1. region a:4-560 [29640]
      2. region c:4-560 [29642]
    8. 3req
      complexed with aco; mutant
      1. region a:4-560 [29644]
2. Methylmalonyl-CoA mutase beta subunit, domain 1 [88711]
  the subunits are clearly related but only one (alpha) is active
  1. Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744] [88712] (8)
    1. 7req
      complexed with 2cp, b12, gol; mutant
      1. region b:16-475 [29617]
      2. region d:16-475 [29619]
    2. 1req
      complexed with b12, dca, gol; mutant
      1. region b:20-475 [29621]
      2. region d:17-475 [29623]
    3. 6req
      complexed with 3cp, b12, gol; mutant
      1. region b:20-475 [29625]
      2. region d:20-475 [29627]
    4. 4req
      complexed with 5ad, b12, gol, mca, sca; mutant
      1. region b:20-475 [29629]
      2. region d:20-475 [29631]
    5. 5req
      complexed with b12, gol, mcd, scd; mutant
      1. region b:20-475 [29633]
      2. region d:20-475 [29635]
    6. 1e1c
      complexed with b12, dca; mutant
      1. region b:20-475 [29637]
      2. region d:20-475 [29639]
    7. 2req
      complexed with b12, coa; mutant
      1. region b:17-475 [29641]
      2. region d:17-475 [29643]
    8. 3req
      complexed with aco; mutant
      1. region b:16-475 [29645]
Glutamate mutase, large subunit [51707] (1)
1. Glutamate mutase, large subunit [51708]
  1. Clostridium cochlearium [TaxId: 1494] [51709] (3)
    1. 1ccw
      complexed with cnc, tar; mutant
      1. chain b [29646]
      2. chain d [29647]
    2. 1i9c
      complexed with 3md, 5ad, b12, glu; mutant
      1. chain b [71137]
      2. chain d [71139]
    3. 1cb7
      complexed with cob, tar; mutant
      1. chain b [29648]
      2. chain d [29649]
Diol dehydratase, alpha subunit [51710] (2)
1. Diol dehydratase, alpha subunit [51711]
  1. Klebsiella oxytoca [TaxId: 571] [51712] (7)
    1. 1egv
      complexed with coy, k, pgo
      1. chain a [29652]
      2. chain l [29653]
    2. 1eex
      complexed with coy, k, pgo
      1. chain a [29650]
      2. chain l [29651]
    3. 1uc4
      complexed with cnc, k, nh4, pgq
      1. chain a [88450]
      2. chain l [88454]
    4. 1egm
      complexed with cnc, k, pgo
      1. chain a [29654]
      2. chain l [29655]
    5. 1iwb
      complexed with b12, k
      1. chain a [83750]
      2. chain l [83754]
    6. 1dio
      1. chain a [29656]
      2. chain l [29657]
    7. 1uc5
      complexed with cnc, k, nh4, pgr
      1. chain a [88456]
      2. chain l [88460]
  2. Klebsiella pneumoniae [TaxId: 573] [82278] (2)
    1. 1iwp
      complexed with b12, k, pgo
      1. chain a [76884]
      2. chain l [76888]
    2. 1mmf
      complexed with b12, k
      1. chain a [85018]
      2. chain l [85022]
D-lysine 5,6-aminomutase alpha subunit, KamD [117392] (1)
most similar to the glutamate mutase subunit; contains second cofactor, PLP
1. D-lysine 5,6-aminomutase alpha subunit, KamD [117393]
  1. Clostridium sticklandii [TaxId: 1511] [117394] (1)
    SQ Q9ZFE6
    1. 1xrs
      complexed with 5ad, b12, plp
      1. chain a [115883]