Structural Classification of Proteins

Superfamily: Phosphoenolpyruvate/pyruvate domain

: 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: Phosphoenolpyruvate/pyruvate domain [51621]
uperfamily

Families:

Pyruvate kinase [51622] (6)
1. Pyruvate kinase, N-terminal domain [51623]
  this domain is interrupted by an all-beta domain
  C-terminal domain is alpha/beta
  1. Cat (Felis catus) [TaxId: 9685] [51624] (1)
    1. 1pkm
      1. region a:12-115,a:218-395 [29254]
  2. Rabbit (Oryctolagus cuniculus) [TaxId: 9986] [51625] (14)
    1. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region a:12-115,a:218-395 [134619]
    2. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region b:12-115,b:218-395 [134622]
    3. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region c:12-115,c:218-395 [134625]
    4. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region d:12-115,d:218-395 [134628]
    5. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region e:12-115,e:218-395 [134631]
    6. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region f:12-115,f:218-395 [134634]
    7. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region g:12-115,g:218-395 [134637]
    8. 2g50
      automatically matched to d1a49a2
      complexed with ala, edo, ete, gol, k, mn, na, pyr
      1. region h:12-115,h:218-395 [134640]
    9. 1a49
      complexed with atp, k, mg, oxl
      1. region a:12-115,a:218-395 [29255]
      2. region b:612-715,b:818-995 [29256]
      3. region c:1212-1315,c:1418-1595 [29257]
      4. region d:1812-1915,d:2018-2195 [29258]
      5. region e:3012-3115,e:3218-3395 [29259]
      6. region f:3612-3715,f:3818-3995 [29260]
      7. region g:4212-4315,g:4418-4595 [29261]
      8. region h:4812-4915,h:5018-5195 [29262]
    10. 1a5u
      complexed with atp, mg, na, oxl
      1. region a:12-115,a:218-395 [29263]
      2. region b:612-715,b:818-995 [29264]
      3. region c:1212-1315,c:1418-1595 [29265]
      4. region d:1812-1915,d:2018-2195 [29266]
      5. region e:3012-3115,e:3218-3395 [29267]
      6. region f:3612-3715,f:3818-3995 [29268]
      7. region g:4212-4315,g:4418-4595 [29269]
      8. region h:4812-4915,h:5018-5195 [29270]
    11. 1f3x
      complexed with k, mn, pyr; mutant
      1. region a:12-115,a:218-395 [64959]
      2. region b:12-115,b:218-395 [64962]
      3. region c:12-115,c:218-395 [64965]
      4. region d:12-115,d:218-395 [64968]
      5. region e:12-115,e:218-395 [64971]
      6. region f:12-115,f:218-395 [64974]
      7. region g:12-115,g:218-395 [64977]
      8. region h:12-115,h:218-395 [64980]
    12. 1f3w
      complexed with k, mn, pyr
      1. region a:12-115,a:218-395 [64935]
      2. region b:12-115,b:218-395 [64938]
      3. region c:12-115,c:218-395 [64941]
      4. region d:12-115,d:218-395 [64944]
      5. region e:12-115,e:218-395 [64947]
      6. region f:12-115,f:218-395 [64950]
      7. region g:12-115,g:218-395 [64953]
      8. region h:12-115,h:218-395 [64956]
    13. 1aqf
      complexed with k, mg, pep
      1. region a:12-115,a:218-395 [29272]
      2. region b:12-115,b:218-395 [29273]
      3. region c:12-115,c:218-395 [29274]
      4. region d:12-115,d:218-395 [29275]
      5. region e:12-115,e:218-395 [29276]
      6. region f:12-115,f:218-395 [29277]
      7. region g:12-115,g:218-395 [29278]
      8. region h:12-115,h:218-395 [29279]
    14. 1pkn
      complexed with k p, mn, pyr
      1. region a:12-115,a:218-395 [29271]
  3. Human (Homo sapiens) [TaxId: 9606] [82273] (4)
    1. 1liu
      complexed with fbp, k, mn, pga
      1. region a:57-159,a:262-439 [77971]
      2. region b:57-159,b:262-439 [77974]
      3. region c:57-159,c:262-439 [77977]
      4. region d:57-159,d:262-439 [77980]
    2. 1liw
      complexed with fbp, k, mn, pga; mutant
      1. region a:57-159,a:262-439 [77983]
      2. region b:57-159,b:262-439 [77986]
      3. region c:57-159,c:262-439 [77989]
      4. region d:57-159,d:262-439 [77992]
    3. 1liy
      complexed with fbp, k, mn, pga; mutant
      1. region a:64-159,a:262-439 [78007]
      2. region b:57-159,b:262-439 [78010]
      3. region c:58-159,c:262-439 [78013]
      4. region d:62-159,d:262-439 [78016]
    4. 1lix
      complexed with fbp, k, mn, pga; mutant
      1. region a:57-159,a:262-439 [77995]
      2. region b:57-159,b:262-439 [77998]
      3. region c:57-159,c:262-439 [78001]
      4. region d:57-159,d:262-439 [78004]
  4. Leishmania mexicana [TaxId: 5665] [51626] (8)
    1. 1pkl
      complexed with so4
      1. region a:1-87,a:187-357 [29280]
      2. region b:1-87,b:187-357 [29281]
      3. region c:1-87,c:187-357 [29282]
      4. region d:1-87,d:187-357 [29283]
      5. region e:1-87,e:187-357 [29284]
      6. region f:1-87,f:187-357 [29285]
      7. region g:1-87,g:187-357 [29286]
      8. region h:1-87,h:187-357 [29287]
    2. 3e0w
      automatically matched to d1pkla2
      mutant
      1. region a:7-87,a:187-357 [157967]
    3. 3e0v
      automatically matched to d1pkla2
      complexed with gol, so4; mutant
      1. region a:1-87,a:187-357 [157949]
    4. 3e0v
      automatically matched to d1pkla2
      complexed with gol, so4; mutant
      1. region b:1-87,b:187-357 [157952]
    5. 3e0v
      automatically matched to d1pkla2
      complexed with gol, so4; mutant
      1. region c:1-87,c:187-357 [157955]
    6. 3e0v
      automatically matched to d1pkla2
      complexed with gol, so4; mutant
      1. region d:1-87,d:187-357 [157958]
    7. 3e0v
      automatically matched to d1pkla2
      complexed with gol, so4; mutant
      1. region e:1-87,e:187-357 [157961]
    8. 3e0v
      automatically matched to d1pkla2
      complexed with gol, so4; mutant
      1. region f:1-87,f:187-357 [157964]
  5. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [51627] (2)
    1. 1a3x
      complexed with k, mn, pga
      1. region a:1-87,a:189-366 [29290]
      2. region b:1-87,b:189-366 [29291]
    2. 1a3w
      complexed with fbp, k, mn, pga
      1. region a:2-87,a:189-366 [29288]
      2. region b:2-87,b:189-366 [29289]
  6. Escherichia coli [TaxId: 562] [51628] (3)
    1. 1e0t
      complexed with so4; mutant
      1. region a:1-69,a:168-344 [29292]
      2. region b:1-69,b:168-344 [29293]
      3. region c:1-69,c:168-344 [29294]
      4. region d:1-69,d:168-344 [29295]
    2. 1pky
      1. region a:1-69,a:168-344 [29296]
      2. region b:1-69,b:168-344 [29297]
      3. region c:1-69,c:168-344 [29298]
      4. region d:1-69,d:168-344 [29299]
    3. 1e0u
      complexed with so4; mutant
      1. region a:1-69,a:168-344 [29300]
      2. region b:1-69,b:168-344 [29301]
      3. region c:1-69,c:168-344 [29302]
      4. region d:1-69,d:168-344 [29303]
Pyruvate phosphate dikinase, C-terminal domain [51629] (3)
1. Pyruvate phosphate dikinase, C-terminal domain [51630]
  1. Clostridium symbiosum [TaxId: 1512] [51631] (7)
    1. 1kbl
      complexed with nh4, so4
      1. region a:510-873 [68384]
    2. 1kc7
      complexed with mg, ppr, so4
      1. region a:510-873 [68423]
    3. 1dik
      complexed with so4
      1. region a:510-874 [29304]
    4. 1ggo
      complexed with so4; mutant
      1. region a:510-874 [29305]
    5. 2dik
      complexed with so4; mutant
      1. region a:510-874 [29306]
    6. 2r82
      automatically matched to d1dika1
      complexed with so4; mutant
      1. region a:510-873 [151667]
    7. 1jde
      complexed with so4; mutant
      1. region a:510-874 [66546]
  2. Trypanosoma brucei [TaxId: 5691] [75089] (1)
    1. 1h6z
      1. region a:538-903 [70906]
  3. Maize (Zea mays) [TaxId: 4577] [141848] (2)
    SQ P11155 592-947
    1. 1vbg
      complexed with mg, so4
      1. region a:521-876 [119951]
    2. 1vbh
      automatically matched to 1VBG A:521-876
      complexed with mg, pep, so4
      1. region a:521-876 [119954]
Phosphoenolpyruvate carboxylase [51632] (1)
1. Phosphoenolpyruvate carboxylase [51633]
  the common fold is decorated with many additional helices
  1. Escherichia coli [TaxId: 562] [51634] (4)
    1. 1jqn
      complexed with asp, dco, mn
      1. chain a [77159]
    2. 1qb4
      complexed with asp, mn
      1. chain a [74640]
    3. 1fiy
      1. chain a [29307]
    4. 1jqo
      complexed with so4
      1. chain a [77160]
      2. chain b [77161]
Phosphoenolpyruvate mutase/Isocitrate lyase-like [88704] (6)
forms a swapped dimer
1. Phosphoenolpyruvate mutase [51636]
  1. Blue mussel (Mytilus edulis) [TaxId: 6550] [51637] (6)
    1. 1s2w
      complexed with so4
      1. chain a [98407]
    2. 1s2t
      1. chain a [98399]
      2. chain b [98400]
    3. 1pym
      complexed with mg, oxl; mutant
      1. chain a [29308]
      2. chain b [29309]
    4. 1s2u
      complexed with peg; mutant
      1. chain a [98401]
      2. chain b [98402]
    5. 1s2v
      complexed with mg
      1. chain a [98403]
      2. chain b [98404]
      3. chain c [98405]
      4. chain d [98406]
    6. 1m1b
      complexed with mg, spv; mutant
      1. chain a [74367]
      2. chain b [74368]
2. 2-methylisocitrate lyase [89499]
  1. Escherichia coli [TaxId: 562] [89500] (2)
    1. 1mum
      complexed with mg
      1. chain a [85108]
      2. chain b [85109]
    2. 1oqf
      1. chain a [93415]
      2. chain b [93416]
  2. Salmonella typhimurium [TaxId: 90371] [102099] (2)
    1. 1ujq
      1. chain a [99463]
      2. chain b [99464]
      3. chain c [99465]
      4. chain d [99466]
    2. 1o5q
      complexed with mg, pyr
      1. chain a [92514]
      2. chain b [92515]
      3. chain c [92516]
      4. chain d [92517]
3. Isocitrate lyase [51642]
  elaborated with additional subdomains
  1. Aspergillus nidulans [TaxId: 162425] [51643] (1)
    1. 1dqu
      1. chain a [29314]
  2. Mycobacterium tuberculosis [TaxId: 1773] [51644] (3)
    1. 1f61
      complexed with mg
      1. chain a [29319]
      2. chain b [29320]
    2. 1f8m
      complexed with mg, pyr
      1. chain a [29315]
      2. chain b [29316]
      3. chain c [29317]
      4. chain d [29318]
    3. 1f8i
      complexed with glv, mg, sin; mutant
      1. chain a [29321]
      2. chain b [29322]
      3. chain c [29323]
      4. chain d [29324]
  3. Escherichia coli [TaxId: 562] [63923] (1)
    1. 1igw
      complexed with hg, mo3, pyr; mutant
      1. chain a [62370]
      2. chain b [62371]
      3. chain c [62372]
      4. chain d [62373]
HpcH/HpaI aldolase [51638] (4)
forms a swapped dimer; contains a PK-type metal-binding site
1. 2-dehydro-3-deoxy-galactarate aldolase [51639]
  1. Escherichia coli [TaxId: 562] [51640] (2)
    1. 1dxe
      complexed with mg, po4
      1. chain a [29310]
      2. chain b [29311]
    2. 1dxf
      complexed with mg, pyr
      1. chain a [29312]
      2. chain b [29313]
2. Macrophomate synthase [89501]
  Intermolecular Diels-Alderase
  1. Macrophoma commelinae [TaxId: 108330] [89502] (1)
    1. 1izc
      complexed with mg, pyr; mutant
      1. chain a [83838]
3. Citrate lyase, beta subunit [110375]
  non-swapped trimer
  1. Deinococcus radiodurans [TaxId: 1299] [110376] (1)
    SQ Q9RUZ0 4-234
    1. 1sgj
      complexed with mg, oaa
      1. chain a [105535]
  2. Mycobacterium tuberculosis [TaxId: 1773] [117388] (2)
    SQ O06162
    1. 1u5h
      complexed with fmt; mutant
      1. chain a [113037]
    2. 1u5v
      complexed with atp, fmt; mutant
      1. chain a [113054]
Ketopantoate hydroxymethyltransferase PanB [89503] (3)
1. Ketopantoate hydroxymethyltransferase PanB [89504]
  dodecameric enzyme; a C-terminal helix exchange is observed in the M. tuberculosis enzyme but not in the E. coli enzyme
  1. Mycobacterium tuberculosis [TaxId: 1773] [89505] (1)
    1. 1oy0
      complexed with mg
      1. chain a [87543]
      2. chain b [87544]
      3. chain c [87545]
      4. chain d [87546]
      5. chain e [87547]
  2. Escherichia coli [TaxId: 562] [89506] (1)
    1. 1m3u
      complexed with kpl, mg
      1. chain a [84784]
      2. chain b [84785]
      3. chain c [84786]
      4. chain d [84787]
      5. chain e [84788]
      6. chain f [84789]
      7. chain g [84790]
      8. chain h [84791]
      9. chain i [84792]
      10. chain j [84793]
  3. Neisseria meningitidis [TaxId: 487] [102100] (2)
    1. 1o66
      structural genomics
      complexed with gol
      1. chain a [92547]
      2. chain b [92548]
      3. chain c [92549]
      4. chain d [92550]
      5. chain e [92551]
    2. 1o68
      structural genomics
      complexed with kiv, na
      1. chain a [92555]
      2. chain b [92556]
      3. chain c [92557]
      4. chain d [92558]
      5. chain e [92559]
Mll9387-like [159416] (1)
Pfam 09370; TIM-barrel signal transduction protein; forms a swapped dimer similar to the Phosphoenolpyruvate mutase/Isocitrate lyase-like and HpcH/HpaI aldolase families
1. Uncharacterized protein Mll9387 [159417]
  1. Mesorhizobium loti [TaxId: 381] [159418] (6)
    SQ Q981G2 8-284
    1. 2p10
      complexed with act, cl, gol
      1. region a:8-204 [149144]
    2. 2p10
      automatically matched to 2P10 A:8-204
      complexed with act, cl, gol
      1. region b:9-204 [149145]
    3. 2p10
      automatically matched to 2P10 A:8-204
      complexed with act, cl, gol
      1. region c:9-204 [149146]
    4. 2p10
      automatically matched to 2P10 A:8-204
      complexed with act, cl, gol
      1. region d:9-204 [149147]
    5. 2p10
      automatically matched to 2P10 A:8-204
      complexed with act, cl, gol
      1. region e:9-204 [149148]
    6. 2p10
      automatically matched to 2P10 A:8-204
      complexed with act, cl, gol
      1. region f:9-204 [149149]