Structural Classification of Proteins

Superfamily: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase

: uperfamily

Lineage:

Root: scop
Class: Alpha and beta proteins (a+b) [53931]
Mainly antiparallel beta sheets (segregated alpha and beta regions)
Fold: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase [54592]
beta-alpha-beta(3); 2 layers: alpha/beta
Superfamily: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase [54593]
uperfamily

Families:

Glyoxalase I (lactoylglutathione lyase) [54594] (3)
duplication: consists of two clear structural repeats each having this fold
1. Glyoxalase I (lactoylglutathione lyase) [54595]
  1. Human (Homo sapiens) [TaxId: 9606] [54596] (4)
    1. 1qip
      1. chain a [38470]
      2. chain b [38471]
      3. chain c [38472]
      4. chain d [38473]
    2. 1qin
      1. chain a [38474]
      2. chain b [38475]
    3. 1fro
      complexed with gsb, zn
      1. chain a [38480]
      2. chain b [38481]
      3. chain c [38482]
      4. chain d [38483]
    4. 1bh5
      complexed with gtx, zn; mutant
      1. chain a [38476]
      2. chain b [38477]
      3. chain c [38478]
      4. chain d [38479]
  2. Escherichia coli [TaxId: 562] [54597] (5)
    1. 1f9z
      complexed with ni
      1. chain a [38484]
      2. chain b [38485]
    2. 1fa8
      1. chain a [38486]
      2. chain b [38487]
    3. 1fa6
      complexed with co
      1. chain a [38490]
      2. chain b [38491]
    4. 1fa5
      complexed with zn
      1. chain a [38488]
      2. chain b [38489]
    5. 1fa7
      complexed with cd
      1. chain a [38492]
      2. chain b [38493]
  3. Leishmania major [TaxId: 5664] [143126] (6)
    SQ Q68RJ8 3-141
    Trypanothione-dependent glyoxalase i
    1. 2c21
      complexed with mpd, mrd, na, ni
      1. region a:3-141 [129649]
    2. 2c21
      automatically matched to 2C21 A:3-141
      complexed with mpd, mrd, na, ni
      1. region b:3-141 [129650]
    3. 2c21
      automatically matched to 2C21 A:3-141
      complexed with mpd, mrd, na, ni
      1. region c:3-141 [129651]
    4. 2c21
      automatically matched to 2C21 A:3-141
      complexed with mpd, mrd, na, ni
      1. region d:3-141 [129652]
    5. 2c21
      automatically matched to 2C21 A:3-141
      complexed with mpd, mrd, na, ni
      1. region e:3-141 [129653]
    6. 2c21
      automatically matched to 2C21 A:3-141
      complexed with mpd, mrd, na, ni
      1. region f:3-141 [129654]
Antibiotic resistance proteins [54598] (10)
duplication: consists of two clear structural repeats each having this fold
subunit fold and dimeric assembly are similar to those of glyoxalase
1. Bleomycin resistance protein, BRP [54599]
  Active as dimer
  1. Streptomyces verticillus [TaxId: 29309] [54600] (3)
    1. 1qto
      1. chain a [38494]
    2. 1jif
      complexed with blm, cl, cu
      1. chain a [66738]
      2. chain b [66739]
    3. 1jie
      complexed with blm
      1. chain a [66736]
      2. chain b [66737]
  2. Streptoalloteichus hindustanus [TaxId: 2017] [54601] (2)
    SQ P17493
    1. 1xrk
      complexed with blm, so4; mutant
      1. chain a [115881]
      2. chain b [115882]
    2. 1byl
      1. chain a [38495]
  3. Klebsiella pneumoniae [TaxId: 573] [64256] (4)
    the transposon tn5-encoding bleomycin-binding protein, BlmT
    1. 1ecs
      complexed with ca, pg4
      1. chain a [59407]
      2. chain b [59408]
    2. 1ewj
      complexed with blm
      1. chain a [59526]
      2. chain b [59527]
      3. chain c [59528]
      4. chain d [59529]
      5. chain e [59530]
      6. chain f [59531]
      7. chain g [59532]
      8. chain h [59533]
    3. 1mh6
      1. chain a [79116]
      2. chain b [79117]
    4. 1niq
      complexed with blm, cu
      1. chain b [91891]
      2. chain c [91892]
2. Mitomycin resistance protein D, MRD [75394]
  1. Streptomyces lavendulae [TaxId: 1914] [75395] (6)
    1. 1kll
      complexed with mc, mse; mutant
      1. chain a [72720]
    2. 1kmz
      1. chain a [72759]
    3. 2a4x
      automatically matched to d1kmza_
      complexed with blm
      1. region a:3-129 [126166]
    4. 2a4x
      automatically matched to d1kmza_
      complexed with blm
      1. region b:203-329 [126167]
    5. 2a4w
      automatically matched to d1kmza_
      complexed with blm, cu
      1. region a:3-129 [126164]
    6. 2a4w
      automatically matched to d1kmza_
      complexed with blm, cu
      1. region b:203-329 [126165]
3. Fosfomycin resistance protein A (FosA) [82630]
  1. Pseudomonas aeruginosa [TaxId: 287] [82631] (5)
    1. 1nki
      complexed with k, mn, ppf
      1. chain a [91941]
      2. chain b [91942]
    2. 1lqp
      complexed with fcn, k, mn
      1. chain a [78151]
      2. chain b [78152]
    3. 1lqk
      complexed with k, mn, po4
      1. chain a [78139]
      2. chain b [78140]
    4. 1lqo
      complexed with mn, po4, tl
      1. chain a [78149]
      2. chain b [78150]
    5. 1nnr
      complexed with mn, so4
      1. chain a [92010]
      2. chain b [92011]
  2. Serratia marcescens [TaxId: 615] [102871] (1)
    gene from transposon tn2921
    1. 1npb
      complexed with gol, so4
      1. chain a [92026]
      2. chain b [92027]
      3. chain c [92028]
      4. chain d [92029]
      5. chain e [92030]
      6. chain f [92031]
4. Fosfomycin resistance protein FosX [102872]
  1. Mesorhizobium loti [TaxId: 381] [102873] (1)
    1. 1r9c
      complexed with mn
      1. chain a [97255]
      2. chain b [97256]
5. Hypothetical protein BC3580 [117870]
  1. Bacillus cereus [TaxId: 1396] [117871] (1)
    SQ Q81AI8
    1. 1xqa
      Structural genomics target
      complexed with mg, p6g
      1. chain a [115837]
      2. chain b [115838]
6. Hypotheical protein SP0731 [143127]
  1. Streptococcus pneumoniae [TaxId: 1313] [143128] (2)
    SQ Q97RR3 1-115
    1. 2i7r
      1. region a:1-115 [137102]
    2. 2i7r
      automatically matched to 2I7R A:1-115
      1. region b:1-115 [137103]
7. Uncharacterized protein Atu1953 [160145]
  1. Agrobacterium tumefaciens [TaxId: 358] [160146] (2)
    SQ Q8UE11 2-115
    1. 2pjs
      segment-swapped dimer with an unusual middle-strand swap
      complexed with zn
      1. region a:3-113 [149573]
    2. 2pjs
      automatically matched to 2PJS A:3-113
      complexed with zn
      1. region b:3-113 [149574]
Methylmalonyl-CoA epimerase [64257] (1)
Different association of repeats but a similar dimeric structure to the glyoxalase dimer
1. Methylmalonyl-CoA epimerase [64258]
  1. Propionibacterium shermanii [TaxId: 1752] [64259] (2)
    1. 1jc4
      complexed with so4
      1. chain a [62863]
      2. chain b [62864]
      3. chain c [62865]
      4. chain d [62866]
    2. 1jc5
      complexed with so4
      1. chain a [62867]
      2. chain b [62868]
      3. chain c [62869]
      4. chain d [62870]
      5. chain e [62871]
      6. chain f [62872]
Hypothetical protein YecM (EC4020) [75396] (1)
Similar subunit fold is to methylmalonyl-CoA epimerase
1. Hypothetical protein YecM (EC4020) [75397]
  1. Escherichia coli [TaxId: 562] [75398] (1)
    1. 1k4n
      structural genomics
      complexed with mse
      1. chain a [72059]
Extradiol dioxygenases [54602] (10)
duplication: consists of 2 similar domains with 2 repeats in each
Similar to the Methylmalonyl-CoA epimerase dimer
1. 2,3-Dihydroxybiphenyl dioxygenase (DHBD, BPHC enzyme) [54603]
  1. Pseudomonas sp. [TaxId: 306] [54604] (10)
    1. 1kw3
      complexed with fe2, mpd
      1. region b:1-132 [77549]
      2. region b:133-288 [77550]
    2. 1kw6
      complexed with bpy, fe2, mpd
      1. region b:1-132 [77551]
      2. region b:133-288 [77552]
    3. 1kw9
      complexed with bpy, fe2
      1. region b:1-132 [77555]
      2. region b:133-288 [77556]
    4. 1kw8
      complexed with bpy, fe2, no
      1. region b:1-132 [77553]
      2. region b:133-288 [77554]
    5. 1kwb
      mutant
      1. region b:1-132 [77557]
      2. region b:133-288 [77558]
    6. 1kwc
      complexed with bpy; mutant
      1. region b:1-132 [77559]
      2. region b:133-288 [77560]
    7. 1eiq
      complexed with fe
      1. region a:1-132 [38498]
      2. region a:133-289 [38499]
    8. 1eil
      complexed with of3, so4
      1. region a:1-132 [38502]
      2. region a:133-289 [38503]
    9. 1eir
      complexed with bpy, fe
      1. region a:1-132 [38500]
      2. region a:133-289 [38501]
    10. 1dhy
      complexed with fe
      1. region a:1-132 [38504]
      2. region a:133-288 [38505]
  2. Burkholderia cepacia, formerly Pseudomonas cepacia [TaxId: 292] [54605] (6)
    1. 1lkd
      complexed with bp6, fe2, p6g
      1. region a:2-132 [78059]
      2. region a:133-288 [78060]
    2. 1lgt
      complexed with bp3, fe2
      1. region a:2-132 [77956]
      2. region a:133-288 [77957]
    3. 1han
      CASP1
      complexed with fe, tbu; mutant
      1. region a:2-132 [38506]
      2. region a:133-289 [38507]
    4. 1knd
      complexed with caq, fe2, tbu
      1. region a:2-132 [72772]
      2. region a:133-289 [72773]
    5. 1knf
      complexed with fe2, mbd, tbu
      1. region a:2-132 [72775]
      2. region a:133-289 [72776]
    6. 1kmy
      complexed with bpy, fe2, tbu
      1. region a:2-132 [68697]
      2. region a:133-289 [68698]
2. Catechol 2,3-dioxygenase (metapyrocatechase) [54606]
  1. Pseudomonas putida, mt2 [TaxId: 303] [54607] (1)
    1. 1mpy
      complexed with acn, fe2
      1. region a:1-145 [38508]
      2. region a:146-307 [38509]
      3. region b:1-145 [38510]
      4. region b:146-307 [38511]
      5. region c:1-145 [38512]
      6. region c:146-307 [38513]
      7. region d:1-145 [38514]
      8. region d:146-307 [38515]
3. Homoprotocatechuate 2,3-dioxygenase [89886]
  1. Arthrobacter globiformis [TaxId: 1665] [89887] (3)
    1. 1f1u
      complexed with mw2
      1. region a:2-147 [83200]
      2. region a:148-323 [83201]
      3. region b:3-147 [83202]
      4. region b:148-323 [83203]
    2. 1f1r
      complexed with mw3
      1. region a:3-147 [83196]
      2. region a:148-323 [83197]
      3. region b:3-147 [83198]
      4. region b:148-323 [83199]
    3. 1f1v
      complexed with dhy, mw1
      1. region a:4-147 [83204]
      2. region a:148-323 [83205]
      3. region b:4-147 [83206]
      4. region b:148-323 [83207]
  2. Brevibacterium fuscum [TaxId: 47914] [89888] (43)
    1. 1f1x
      complexed with fel
      1. region a:4-147 [83208]
      2. region a:148-322 [83209]
      3. region b:4-147 [83210]
      4. region b:148-322 [83211]
      5. region c:4-147 [83212]
      6. region c:148-322 [83213]
      7. region d:4-147 [83214]
      8. region d:148-322 [83215]
    2. 3eck
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region a:4-147 [158108]
    3. 3eck
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region a:148-322 [158109]
    4. 3eck
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region b:4-147 [158110]
    5. 3eck
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region b:148-322 [158111]
    6. 3eck
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region c:4-147 [158112]
    7. 3eck
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region c:148-322 [158113]
    8. 3eck
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region d:4-147 [158114]
    9. 3eck
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, xxg; mutant
      1. region d:148-322 [158115]
    10. 3ecj
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol; mutant
      1. region a:4-147 [158100]
    11. 3ecj
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol; mutant
      1. region a:148-322 [158101]
    12. 3ecj
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol; mutant
      1. region b:4-147 [158102]
    13. 3ecj
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol; mutant
      1. region b:148-322 [158103]
    14. 3ecj
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol; mutant
      1. region c:4-147 [158104]
    15. 3ecj
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol; mutant
      1. region c:148-322 [158105]
    16. 3ecj
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol; mutant
      1. region d:4-147 [158106]
    17. 3ecj
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol; mutant
      1. region d:148-322 [158107]
    18. 3bza
      automatically matched to d1f1xa1
      complexed with ca, cl, gol, mn
      1. region a:4-147 [155744]
    19. 3bza
      automatically matched to d1f1xa2
      complexed with ca, cl, gol, mn
      1. region a:148-322 [155745]
    20. 3bza
      automatically matched to d1f1xa1
      complexed with ca, cl, gol, mn
      1. region b:4-147 [155746]
    21. 3bza
      automatically matched to d1f1xa2
      complexed with ca, cl, gol, mn
      1. region b:148-322 [155747]
    22. 3bza
      automatically matched to d1f1xa1
      complexed with ca, cl, gol, mn
      1. region c:4-147 [155748]
    23. 3bza
      automatically matched to d1f1xa2
      complexed with ca, cl, gol, mn
      1. region c:148-322 [155749]
    24. 3bza
      automatically matched to d1f1xa1
      complexed with ca, cl, gol, mn
      1. region d:4-147 [155750]
    25. 3bza
      automatically matched to d1f1xa2
      complexed with ca, cl, gol, mn
      1. region d:148-322 [155751]
    26. 2ig9
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol
      1. region a:4-147 [137352]
    27. 2ig9
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol
      1. region a:148-322 [137353]
    28. 2ig9
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol
      1. region b:4-147 [137354]
    29. 2ig9
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol
      1. region b:148-322 [137355]
    30. 2ig9
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol
      1. region c:4-147 [137356]
    31. 2ig9
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol
      1. region c:148-322 [137357]
    32. 2ig9
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol
      1. region d:4-147 [137358]
    33. 2ig9
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol
      1. region d:148-322 [137359]
    34. 2iga
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region a:4-147 [137360]
    35. 2iga
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region a:148-322 [137361]
    36. 2iga
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region b:4-147 [137362]
    37. 2iga
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region b:148-322 [137363]
    38. 2iga
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region c:4-147 [137364]
    39. 2iga
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region c:148-322 [137365]
    40. 2iga
      automatically matched to d1f1xa1
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region d:4-147 [137366]
    41. 2iga
      automatically matched to d1f1xa2
      complexed with ca, cl, fe2, gol, oxy, xx2, xx3, xxp
      1. region d:148-322 [137367]
    42. 1q0c
      complexed with dhy, fe
      1. region a:4-147 [88343]
      2. region a:148-322 [88344]
      3. region b:4-147 [88345]
      4. region b:148-322 [88346]
      5. region c:4-147 [88347]
      6. region c:148-322 [88348]
      7. region d:4-147 [88349]
      8. region d:148-322 [88350]
    43. 1q0o
      full length protein
      complexed with of3
      1. region a:4-147 [88351]
      2. region a:148-359 [88352]
      3. region b:4-147 [88353]
      4. region b:148-359 [88354]
4. 4-hydroxyphenylpyruvate dioxygenase, HppD [54608]
  1. Pseudomonas fluorescens [TaxId: 294] [54609] (1)
    1. 1cjx
      complexed with act, emc, fe2
      1. region a:4-153 [38516]
      2. region a:154-356 [38517]
      3. region b:4-153 [38518]
      4. region b:154-356 [38519]
      5. region c:4-153 [38520]
      6. region c:154-356 [38521]
      7. region d:4-153 [38522]
      8. region d:154-356 [38523]
  2. Streptomyces avermitilis [TaxId: 33903] [110876] (1)
    SQ Q53586
    1. 1t47
      complexed with fe2, ntd
      1. region a:16-178 [106398]
      2. region a:179-377 [106399]
      3. region b:16-178 [106400]
      4. region b:179-377 [106401]
  3. Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702] [110877] (4)
    SQ P93836 33-428 ! SQ P93836 63-459
    1. 1tfz
      complexed with 869, fe
      1. region a:15-180 [106886]
      2. region a:181-408 [106887]
    2. 1sqd
      complexed with fe
      1. region a:14-180 [105906]
      2. region a:181-410 [105907]
    3. 1tg5
      complexed with 645, fe2
      1. region a:14-180 [106890]
      2. region a:181-410 [106891]
    4. 1sp9
      complexed with fe2
      1. chain a [105876]
  4. Human (Homo sapiens) [TaxId: 9606] [110878] (1)
    SQ P32755
    1. 1sqi
      complexed with 869, fe
      1. region a:8-156 [105914]
      2. region a:157-366 [105915]
      3. region b:8-156 [105916]
      4. region b:157-366 [105917]
  5. Corn (Zea mays) [TaxId: 4577] [110879] (1)
    SQ O48604 29-423 # 85% sequence identity
    1. 1sp8
      complexed with fe2
      1. region a:36-207 [105868]
      2. region a:208-431 [105869]
      3. region b:36-207 [105870]
      4. region b:208-431 [105871]
      5. region c:37-207 [105872]
      6. region c:208-431 [105873]
      7. region d:36-207 [105874]
      8. region d:208-431 [105875]
Hypothetical protein BC1747 [110880] (1)
subunit fold and dimeric assembly are similar to those of glyoxalase
1. Hypothetical protein BC1747 [110881]
  1. Bacillus cereus (strain ATCC 14579 / DSM 31) [TaxId: 226900] [110882] (1)
    SQ Q81F54
    1. 1ss4
      complexed with act, cit, fmt, gtt, mg, na
      1. chain a [105976]
      2. chain b [105977]
3-demethylubiquinone-9 3-methyltransferase [110883] (4)
Pfam 06983; both variants of dimeric assembly are observed in the family (domain swapping)
1. Hypothetical protein PA1358 [110884]
  1. Pseudomonas aeruginosa [TaxId: 287] [110885] (1)
    SQ Q9I3Y6
    1. 1u7i
      Structural genomics target
      1. chain a [107724]
      2. chain b [107725]
2. Hypothetical protein PA2721 [110886]
  1. Pseudomonas aeruginosa [TaxId: 287] [110887] (1)
    SQ Q9I0C1
    1. 1u69
      Structural genomics target
      1. chain a [107699]
      2. chain b [107700]
      3. chain c [107701]
      4. chain d [107702]
3. Hypothetical protein MW1090 [117872]
  1. Staphylococcus aureus [TaxId: 1280] [117873] (1)
    SQ Q8NX24
    1. 1tsj
      Structural genomics target
      1. chain a [112620]
4. Hypothetical protein PA1353 [117874]
  Family assignment by BLAST; HMM assignment is the Glyoxalase family (Pfam 00903)
  1. Pseudomonas aeruginosa [TaxId: 287] [117875] (1)
    SQ Q9I3Z1
    1. 1u6l
      Structural genomics target
      1. chain a [113067]
      2. chain b [113068]
Hypothetical protein YycE [110888] (1)
subunit fold and dimeric assembly are similar to those of glyoxalase
1. Hypothetical protein YycE [110889]
  1. Bacillus subtilis [TaxId: 1423] [110890] (1)
    SQ P37479
    1. 1twu
      1. chain a [107413]
Hypothetical protein At5g48480 [117876] (1)
subunit fold and dimeric assembly are similar to those of glyoxalase
1. Hypothetical protein At5g48480 [117877]
  1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [117878] (3)
    SQ Q9LV66 20-154
    1. 1xy7
      1. chain a [116215]
      2. chain b [116216]
    2. 2q48
      automatically matched to d1xy7a_
      1. region a:20-154 [139829]
    3. 2q48
      automatically matched to d1xy7a_
      1. region b:22-154 [139830]
BC1024-like [143129] (1)
duplication: consists of 2 similar domains with 2 repeats in each; similar to the glyoxalase dimer
1. Hypothetical protein BC1024 [143130]
  1. Bacillus cereus [TaxId: 1396] [143131] (2)
    SQ Q81H03 1-144! SQ Q81H03 145-314
    1. 1zsw
      complexed with bme, zn
      1. region a:1-144 [125620]
    2. 1zsw
      complexed with bme, zn
      1. region a:145-314 [125621]