Structural Classification of Proteins

Superfamily: FMN-linked oxidoreductases

: 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: FMN-linked oxidoreductases [51395]
uperfamily

Families:

FMN-linked oxidoreductases [51396] (30)
1. Dihydroorotate dehydrogenase [51397]
  1. Lactococcus lactis, isozyme A [TaxId: 1358] [51398] (13)
    1. 1jub
      complexed with fmn, gol, mg; mutant
      1. chain a [90908]
      2. chain b [90909]
    2. 1jqx
      complexed with fmn, gol, mg, oro; mutant
      1. chain a [90902]
      2. chain b [90903]
    3. 1jrc
      complexed with fmn, oro; mutant
      1. chain a [90906]
      2. chain b [90907]
    4. 1jue
      complexed with acy, fmn, gol, mg
      1. chain a [90910]
      2. chain b [90911]
    5. 2dor
      complexed with fmn, oro
      1. chain a [28593]
      2. chain b [28594]
    6. 1dor
      complexed with fmn
      1. chain a [28595]
      2. chain b [28596]
    7. 1jrb
      complexed with fmn, oro; mutant
      1. chain a [90904]
      2. chain b [90905]
    8. 1jqv
      complexed with acy, fmn, mg, oro; mutant
      1. chain a [90900]
      2. chain b [90901]
    9. 2bx7
      automatically matched to d1dora_
      complexed with 34d, act, fmn, gol, mg
      1. region a:1-311 [129395]
    10. 2bx7
      automatically matched to d1dora_
      complexed with 34d, act, fmn, gol, mg
      1. region b:1-311 [129396]
    11. 1ovd
      complexed with fmn, gol, mg, oro; mutant
      1. chain a [93593]
      2. chain b [93594]
    12. 2bsl
      automatically matched to d1dora_
      complexed with act, dhb, fmn, gol, mg
      1. region a:1-311 [129095]
    13. 2bsl
      automatically matched to d1dora_
      complexed with act, dhb, fmn, gol, mg
      1. region b:1-311 [129096]
  2. Lactococcus lactis, isozyme B [TaxId: 1358] [51399] (3)
    PyrD subunit
    1. 1ep3
      complexed with fad, fes, fmn
      1. chain a [28597]
    2. 1ep1
      complexed with fad, fes, fmn
      1. chain a [28598]
    3. 1ep2
      complexed with fad, fes, fmn, oro
      1. chain a [28599]
  3. Escherichia coli [TaxId: 562] [82239] (1)
    1. 1f76
      complexed with fmn, fmt, mse, oro
      1. chain a [76160]
      2. chain b [76161]
      3. chain d [76162]
      4. chain e [76163]
  4. Human (Homo sapiens) [TaxId: 9606] [51400] (11)
    1. 1d3g
      complexed with act, bre, ddq, fmn, oro, so4
      1. chain a [28600]
    2. 1d3h
      complexed with a26, act, fmn, oro, so4
      1. chain a [28601]
    3. 2fpv
      automatically matched to d1d3ga_
      complexed with act, fmn, ilc, oro, so4
      1. region a:33-396 [133926]
    4. 2fqi
      automatically matched to d1d3ga_
      complexed with act, fmn, ilh, oro, so4
      1. region a:34-396 [133955]
    5. 2fpy
      automatically matched to d1d3ga_
      complexed with act, fmn, ilf, oro, so4
      1. region a:33-396 [133931]
    6. 2prl
      automatically matched to d1d3ga_
      complexed with act, ddq, fmn, oro, r2c, so4; mutant
      1. region a:30-396 [149801]
    7. 2b0m
      automatically matched to d1d3ga_
      complexed with 201, fmn, oro
      1. region a:33-396 [127644]
    8. 2bxv
      automatically matched to d1d3ga_
      complexed with 3ft, act, fmn, oro, so4
      1. region a:30-396 [129445]
    9. 2fpt
      automatically matched to d1d3ga_
      complexed with act, fmn, ilb, oro, so4
      1. region a:30-396 [133923]
    10. 2prh
      automatically matched to d1d3ga_
      complexed with 238, ddq, fmn, oro; mutant
      1. region a:30-396 [149800]
    11. 2prm
      automatically matched to d1d3ga_
      complexed with fmn, oro; mutant
      1. region a:30-396 [149802]
  5. Rat (Rattus norvegicus) [TaxId: 10116] [102039] (2)
    1. 1uum
      complexed with afi, bog, fmn, oro
      1. chain a [100010]
      2. chain b [100011]
    2. 1uuo
      complexed with brf, fmn, na, ni, oro
      1. chain a [100014]
  6. Trypanosoma brucei [TaxId: 5691] [141758] (4)
    SQ Q57U83 2-313
    1. 2b4g
      complexed with br, fmn, gol, oro
      1. region a:2-313 [127829]
    2. 2b4g
      automatically matched to 2B4G A:2-313
      complexed with br, fmn, gol, oro
      1. region b:2-313 [127830]
    3. 2b4g
      automatically matched to 2B4G A:2-313
      complexed with br, fmn, gol, oro
      1. region c:2-313 [127831]
    4. 2b4g
      automatically matched to 2B4G A:2-313
      complexed with br, fmn, gol, oro
      1. region d:2-313 [127832]
  7. Plasmodium falciparum [TaxId: 5833] [141759] (1)
    SQ Q08210 158-566
    homolog, mitochonrial
    1. 1tv5
      complexed with a26, fmn, n8e, oro, so4; mutant
      1. region a:158-566 [119347]
2. Old yellow enzyme (OYE) [51401]
  1. Lager yeast (Saccharomyces pastorianus) [TaxId: 27292] [51402] (5)
    1. 1oyb
      complexed with fmn, hba
      1. chain a [28602]
    2. 1oya
      complexed with fmn
      1. chain a [28604]
    3. 1oyc
      complexed with fmn
      1. chain a [28603]
    4. 1k03
      complexed with fmn, hba, mg; mutant
      1. chain a [63322]
    5. 1k02
      complexed with fmn, mg; mutant
      1. chain a [63321]
  2. Yeast (Candida albicans) [TaxId: 5476] [51403] (2)
    1. 1bwk
      complexed with fmn; mutant
      1. chain a [28605]
    2. 1bwl
      complexed with fmn; mutant
      1. chain a [28606]
3. 12-oxophytodienoate reductase (OPR, OYE homolog) [63896]
  1. Tomato (Lycopersicon esculentum), OPR1 [TaxId: 4081] [63897] (3)
    1. 1icp
      complexed with 2pe, cl, fmn, so4; mutant
      1. chain a [62270]
      2. chain b [62271]
    2. 1icq
      complexed with fmn, opd; mutant
      1. chain a [62272]
      2. chain b [62273]
    3. 1ics
      complexed with fmn; mutant
      1. chain a [62276]
      2. chain b [62277]
  2. Thale cress (Arabidopsis thaliana), OPR1 [TaxId: 3702] [102040] (2)
    At1G76680
    1. 1vji
      structural genomics
      complexed with fmn
      1. chain a [100813]
    2. 2q3r
      automatically matched to d1vjia_
      complexed with fmn
      1. region a:9-369 [139801]
  3. Thale cress (Arabidopsis thaliana), OPR3 [TaxId: 3702] [102041] (5)
    1. 1q45
      complexed with fmn
      1. chain a [95780]
      2. chain b [95781]
    2. 2q3o
      automatically matched to d1q45a_
      complexed with fmn
      1. region a:8-387 [139796]
    3. 2q3o
      automatically matched to d1q45a_
      complexed with fmn
      1. region b:9-385 [139797]
    4. 2g5w
      automatically matched to d1q45a_
      complexed with 8pg, fmn
      1. region a:8-387 [134682]
    5. 2g5w
      automatically matched to d1q45a_
      complexed with 8pg, fmn
      1. region b:9-385 [134683]
4. Glycolate oxidase [51404]
  1. Spinach (Spinacia oleracea) [TaxId: 3562] [51405] (4)
    1. 1gox
      complexed with fmn
      1. chain a [28607]
    2. 1al8
      complexed with dhp, fmn
      1. chain a [28608]
    3. 1al7
      complexed with cst, fmn
      1. chain a [28609]
    4. 1gyl
      complexed with fmn; mutant
      1. chain a [28610]
      2. chain b [28611]
5. Membrane-associated (S)-mandelate dehydrogenase [63898]
  1. Pseudomonas putida [TaxId: 303] [63899] (3)
    1. 1p4c
      complexed with fmn, mes, so4; mutant
      1. chain a [94100]
    2. 1p5b
      complexed with fmn, mes, so4; mutant
      1. chain a [94133]
    3. 1huv
      complexed with fmn, mes, so4; mutant
      1. chain a [61277]
6. Pentaerythritol tetranirate reductase [63900]
  1. Enterobacter cloacae [TaxId: 550] [63901] (15)
    SQ P71278
    1. 1vyr
      complexed with fmn, tnf
      1. chain a [108906]
    2. 2abb
      complexed with fmn, ipr, scn; mutant
      1. region a:4-364 [126517]
    3. 2aba
      automatically matched to d1gvra_
      complexed with fmn, ipr, str
      1. region a:3-364 [126516]
    4. 1vyp
      complexed with fmn, tnf; mutant
      1. chain x [108905]
    5. 1gvo
      complexed with dnf, fmn
      1. chain a [76357]
    6. 1gvs
      complexed with fmn, tnf
      1. chain a [83340]
    7. 1gvr
      complexed with fmn, tnl
      1. chain a [83339]
    8. 1h61
      complexed with fmn, pdn
      1. chain a [60657]
    9. 1h50
      complexed with act, fmn
      1. chain a [60631]
    10. 1h51
      complexed with fmn, scn
      1. chain a [90619]
    11. 1h63
      complexed with fmn
      1. chain a [60659]
    12. 1h60
      complexed with fmn, str
      1. chain a [60656]
    13. 1vys
      complexed with fmn, tnf; mutant
      1. chain x [108907]
    14. 1h62
      complexed with anb, fmn
      1. chain a [60658]
    15. 1gvq
      complexed with cyh, fmn
      1. chain a [76358]
7. Morphinone reductase [75053]
  1. Pseudomonas putida [TaxId: 303] [75054] (1)
    1. 1gwj
      complexed with fmn
      1. chain a [70671]
8. Trimethylamine dehydrogenase, N-terminal domain [51406]
  two other domains are alpha/beta Rossmann-like fold and beta/beta/alpha fold
  1. Methylophilus methylotrophus, w3a1 [TaxId: 17] [51407] (5)
    1. 1djq
      1. region a:1-340 [28614]
      2. region b:1-340 [28615]
    2. 1djn
      1. region a:1-340 [28612]
      2. region b:1-340 [28613]
    3. 1o94
      complexed with adp, amp, fmn, sf4
      1. region a:1-340 [81200]
      2. region b:1-340 [81203]
    4. 2tmd
      complexed with adp, fmn, fs4
      1. region a:1-340 [28616]
      2. region b:1-340 [28617]
    5. 1o95
      complexed with adp, amp, fmn, fs4
      1. region a:1-340 [81210]
      2. region b:1-340 [81213]
9. 2,4-dienoyl-CoA reductase, N-terminal domain [102042]
  1. Escherichia coli [TaxId: 562] [102043] (1)
    1. 1ps9
      complexed with cl, fad, fmn, fs4, mde, nap
      1. region a:1-330 [95076]
10. Flavocytochrome b2, C-terminal domain [51408]
  1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [51409] (16)
    SQ P00175
    N-terminal domain homologous to cytochrome b5
    1. 1kbi
      complexed with fmn, hem, mpd, po4, pyr
      1. region a:98-511 [72277]
    2. 1kbi
      complexed with fmn, hem, mpd, po4, pyr
      1. chain b [72279]
    3. 1kbj
      complexed with egl, fmn
      1. chain a [72280]
      2. chain b [72281]
    4. 1ltd
      complexed with fmn, hem, so3
      1. region a:98-511 [28618]
    5. 1ltd
      complexed with fmn, hem, so3
      1. chain b [28619]
    6. 1qcw
      complexed with fns; mutant
      1. chain a [28622]
      2. chain b [28623]
    7. 1fcb
      complexed with fmn, hem, pyr
      1. chain b [28621]
    8. 1fcb
      complexed with fmn, hem, pyr
      1. region a:98-511 [28620]
    9. 1lco
      complexed with fmn, hem, ppy; mutant
      1. region a:98-511 [28624]
    10. 1lco
      complexed with fmn, hem, ppy; mutant
      1. chain b [28625]
    11. 1ldc
      complexed with fmn, hem, pyr; mutant
      1. chain b [28627]
    12. 1ldc
      complexed with fmn, hem, pyr; mutant
      1. region a:98-511 [28626]
    13. 1szg
      complexed with fns; mutant
      1. chain a [106155]
      2. chain b [106156]
    14. 1szf
      complexed with fmn, pyr; mutant
      1. chain a [106153]
      2. chain b [106154]
    15. 1sze
      complexed with 173, fmn; mutant
      1. chain a [106151]
      2. chain b [106152]
    16. 2oz0
      automatically matched to d1fcba1
      complexed with fmn, hem, pyr; mutant
      1. region a:98-510 [149083]
11. Dihydropyrimidine dehydrogenase, domain 4 [51410]
  1. Pig (Sus scrofa) [TaxId: 9823] [51411] (5)
    1. 1gte
      complexed with fad, fmn, fs4, iur
      1. region a:533-844 [70441]
      2. region b:533-844 [70446]
      3. region c:533-844 [70451]
      4. region d:533-844 [70456]
    2. 1h7w
      complexed with fad, fmn, fs4
      1. region a:533-844 [28628]
      2. region b:533-844 [28629]
      3. region c:533-844 [28630]
      4. region d:533-844 [28631]
    3. 1h7x
      complexed with fad, fmn, fs4, ndp, urf; mutant
      1. region a:533-844 [28632]
      2. region b:533-844 [28633]
      3. region c:533-844 [28634]
      4. region d:533-844 [28635]
    4. 1gth
      complexed with fad, fmn, fs4, idh, iur, ndp, ura
      1. region a:533-844 [70484]
      2. region b:533-844 [70489]
      3. region c:533-844 [70494]
      4. region d:533-844 [70499]
    5. 1gt8
      complexed with fad, fmn, fs4, ndp, uaa
      1. region a:533-844 [70419]
      2. region b:533-844 [70424]
      3. region c:533-844 [70429]
      4. region d:533-844 [70434]
12. Alpha subunit of glutamate synthase, central and FMN domains [69381]
  Central domain (residues 423-780) may be a rudiment form of the FMN domain
  1. Azospirillum brasilense [TaxId: 192] [69382] (7)
    1. 1ea0
      complexed with 2og, f3s, fmn
      1. region a:423-1193 [64855]
      2. region b:423-1193 [64858]
    2. 2vdc
      automatically matched to d1ea0a2
      complexed with akg, f3s, fad, fmn, sf4
      1. region a:423-1193 [152974]
    3. 2vdc
      automatically matched to d1ea0a2
      complexed with akg, f3s, fad, fmn, sf4
      1. region b:423-1193 [152977]
    4. 2vdc
      automatically matched to d1ea0a2
      complexed with akg, f3s, fad, fmn, sf4
      1. region c:423-1193 [152980]
    5. 2vdc
      automatically matched to d1ea0a2
      complexed with akg, f3s, fad, fmn, sf4
      1. region d:423-1193 [152983]
    6. 2vdc
      automatically matched to d1ea0a2
      complexed with akg, f3s, fad, fmn, sf4
      1. region e:423-1193 [152986]
    7. 2vdc
      automatically matched to d1ea0a2
      complexed with akg, f3s, fad, fmn, sf4
      1. region f:423-1193 [152989]
  2. Synechocystis sp. [TaxId: 1143] [75055] (5)
    1. 1ofd
      complexed with 2og, f3s, fmn
      1. region a:431-1239 [86936]
      2. region b:431-1239 [86939]
    2. 1ofe
      complexed with 2og, f3s, fmn, onl
      1. region a:431-1239 [86942]
      2. region b:431-1239 [86945]
    3. 1llw
      complexed with 2og, f3s, fmn
      1. region a:439-1239 [74018]
    4. 1lm1
      complexed with act, f3s, fmn
      1. region a:439-1239 [74024]
    5. 1llz
      complexed with f3s, fmn
      1. region a:439-1239 [74021]
13. Isopentenyl-diphosphate delta-isomerase [89454]
  1. Bacillus subtilis [TaxId: 1423] [89455] (2)
    1. 1p0k
      complexed with po4
      1. chain a [87648]
      2. chain b [87649]
    2. 1p0n
      complexed with fmn
      1. chain a [87651]
      2. chain b [87652]
  2. Thermus thermophilus [TaxId: 274] [141760] (6)
    SQ Q53W52 23-332
    1. 1vcf
      complexed with cd, fmn
      1. region a:23-332 [119974]
    2. 1vcf
      automatically matched to 1VCF A:23-332
      complexed with cd, fmn
      1. region b:23-332 [119975]
    3. 1vcg
      automatically matched to 1VCF A:23-332
      complexed with fmn
      1. region a:23-332 [119976]
    4. 1vcg
      automatically matched to 1VCF A:23-332
      complexed with fmn
      1. region b:23-332 [119977]
    5. 1vcg
      automatically matched to 1VCF A:23-332
      complexed with fmn
      1. region c:23-332 [119978]
    6. 1vcg
      automatically matched to 1VCF A:23-332
      complexed with fmn
      1. region d:23-332 [119979]
  3. Thermus thermophilus HB8 [TaxId: 300852] [159377] (4)
    1. 3dh7
      automatically matched to d1vcfa1
      complexed with fmn, pop
      1. region a:23-332 [157721]
    2. 3dh7
      automatically matched to d1vcfa1
      complexed with fmn, pop
      1. region b:23-332 [157722]
    3. 3dh7
      automatically matched to d1vcfa1
      complexed with fmn, pop
      1. region c:23-332 [157723]
    4. 3dh7
      automatically matched to d1vcfa1
      complexed with fmn, pop
      1. region d:23-332 [157724]
14. Putative flavin oxidoreducatase TM0096 [102044]
  Dihydrouridine synthase (Dus) homologue; contains extra C-terminal alpha-helical domain
  1. Thermotoga maritima [TaxId: 2336] [102045] (1)
    1. 1vhn
      structural genomics
      complexed with fmn, so4
      1. chain a [100693]
15. PcrB protein homolog YerE [102046]
  provisional classification; it is not known whether this protein binds FMN or not
  1. Bacillus subtilis [TaxId: 1423] [102047] (1)
    1. 1viz
      structural genomics
      complexed with na
      1. chain a [100784]
      2. chain b [100785]
16. Hydroxyacid oxidase [141761]
  1. Rat (Rattus norvegicus) [TaxId: 10116] [141762] (8)
    SQ Q07523 1-349
    1. 1tb3
      complexed with acy, fmn
      1. region a:1-349 [119205]
    2. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region b:1-349 [119206]
    3. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region c:1-349 [119207]
    4. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region d:1-349 [119208]
    5. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region e:1-349 [119209]
    6. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region f:1-349 [119210]
    7. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region g:1-349 [119211]
    8. 1tb3
      automatically matched to 1TB3 A:1-349
      complexed with acy, fmn
      1. region h:1-349 [119212]
17. NADPH dehydrogenase NamA [141763]
  OYE homolog
  1. Bacillus subtilis [TaxId: 1423] [141764] (8)
    SQ P54550 1-337
    probable NADH-dependent flavin oxidoreductase YqjM
    1. 1z41
      complexed with fmn, so4
      1. region a:2-338 [124421]
    2. 1z41
      automatically matched to 1Z41 A:2-338
      complexed with fmn, so4
      1. region b:2-338 [124422]
    3. 1z44
      automatically matched to 1Z41 A:2-338
      complexed with fmn, npo, so4
      1. region a:2-338 [124425]
    4. 1z44
      automatically matched to 1Z41 A:2-338
      complexed with fmn, npo, so4
      1. region b:2-338 [124426]
    5. 1z48
      automatically matched to 1Z41 A:2-338
      complexed with fmn
      1. region a:2-338 [124429]
    6. 1z48
      automatically matched to 1Z41 A:2-338
      complexed with fmn
      1. region b:2-338 [124430]
    7. 1z42
      automatically matched to 1Z41 A:2-338
      complexed with fmn, hba, so4
      1. region a:2-338 [124423]
    8. 1z42
      automatically matched to 1Z41 A:2-338
      complexed with fmn, hba, so4
      1. region b:2-338 [124424]
18. (S)-3-O-geranylgeranylglyceryl phosphate synthase [141765]
  1. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [141766] (4)
    SQ O29844 1-231
    PcrB homolog AF0403
    1. 2f6u
      complexed with cit
      1. region a:1001-1231 [133061]
    2. 2f6u
      automatically matched to 2F6U A:1001-1231
      complexed with cit
      1. region b:2001-2231 [133062]
    3. 2f6x
      automatically matched to 2F6U A:1001-1231
      complexed with 1gp, mpd
      1. region a:1001-1231 [133065]
    4. 2f6x
      automatically matched to 2F6U A:1001-1231
      complexed with 1gp, mpd
      1. region b:2001-2231 [133066]