Structural Classification of Proteins

Superfamily: Clavaminate synthase-like

: Iron and ketoglutarate-dependent enzymes; elaborated version of this common fold
uperfamily

Lineage:

Root: scop
Class: All beta proteins [48724]
Fold: Double-stranded beta-helix [51181]
one turn of helix is made by two pairs of antiparallel strands linked with short turns
has appearance of a sandwich of distinct architecture and jelly-roll topology
Superfamily: Clavaminate synthase-like [51197]
Iron and ketoglutarate-dependent enzymes; elaborated version of this common fold
uperfamily

Families:

Penicillin synthase-like [51198] (4)
common fold is rather distorted
1. Isopenicillin N synthase [51199]
  1. Emericella nidulans [TaxId: 162425] [51200] (29)
    SQ P05326
    1. 1odm
      complexed with asv, fe2, so4
      1. chain a [86875]
    2. 2ivi
      automatically matched to d1bk0__
      complexed with acw, fe2, so4
      1. region b:3-331 [137723]
    3. 2bjs
      automatically matched to d1bk0__
      complexed with acv, fe, mee, so4; mutant
      1. region a:3-322 [128632]
    4. 2bu9
      automatically matched to d1bk0__
      complexed with fe, hfv, so4
      1. region a:3-331 [129169]
    5. 2jb4
      automatically matched to d1bk0a_
      complexed with a14, fe, gol, so4
      1. region a:3-331 [147954]
    6. 1qje
      Ip1 - Fe complex
      complexed with acv, fe2, ip1, so4
      1. chain a [28117]
    7. 1w04
      automatically matched to d1bk0__
      complexed with fe2, hcg, no, so4
      1. region a:3-331 [120557]
    8. 1bk0
      complexed with acv, fe, so4
      1. chain a [28118]
    9. 1uzw
      complexed with cdh, fe2, so4
      1. chain a [108183]
    10. 1hb2
      complexed with fe2, scv, so4
      1. chain a [65749]
    11. 1obn
      complexed with asv, fe2, nmo, so4
      1. chain a [92763]
    12. 1qjf
      monocyclic sulfoxide - Fe complex
      complexed with acs, fe2, so4
      1. chain a [28119]
    13. 2vbb
      automatically matched to d1bk0a_
      complexed with fe2, gol, so4, vaz
      1. region a:3-331 [152905]
    14. 1w3v
      automatically matched to d1bk0__
      complexed with fe2, mdz
      1. region a:3-331 [120624]
    15. 2ivj
      automatically matched to d1bk0__
      complexed with bcv, fe2, so4
      1. region a:3-331 [137724]
    16. 1hb3
      complexed with fe2, scv, so4
      1. chain a [65750]
    17. 1w3x
      automatically matched to d1bk0__
      complexed with fe2, w2x
      1. region a:3-331 [120625]
    18. 1blz
      complexed with acv, fe, no
      1. chain a [28120]
    19. 1qiq
      complexed with acc, fe, so4
      1. chain a [28121]
    20. 1hb4
      complexed with fe2, scv, so4
      1. chain a [65751]
    21. 1odn
      complexed with apv, fe2, so4
      1. chain a [86876]
    22. 1hb1
      complexed with fe2, ocv, so4
      1. chain a [65748]
    23. 1w06
      automatically matched to d1bk0__
      complexed with fe2, no, so4, w05
      1. region a:3-331 [120559]
    24. 2vau
      automatically matched to d1bk0a_
      complexed with fe2, v20
      1. region a:3-331 [152843]
    25. 2vbd
      automatically matched to d1bk0a_
      complexed with fe2, v10
      1. region a:3-331 [152906]
    26. 1w03
      automatically matched to d1bk0__
      complexed with fe2, hcg, so4
      1. region a:3-331 [120556]
    27. 1oc1
      complexed with asv, fe2, so4
      1. chain a [92764]
    28. 1w05
      automatically matched to d1bk0__
      complexed with fe2, so4, w05
      1. region a:3-331 [120558]
    29. 1ips
      complexed with mn
      1. chain a [28122]
      2. chain b [28123]
2. Deacetoxycephalosporin C synthase [51201]
  1. Streptomyces clavuligerus [TaxId: 1901] [51202] (17)
    SQ P18548
    1. 1dcs
      complexed with so4
      1. chain a [28124]
    2. 1rxg
      complexed with akg, fe, so4
      1. chain a [28125]
    3. 1rxf
      complexed with fe
      1. chain a [28126]
    4. 1uo9
      complexed with fe2, sin
      1. chain a [99684]
    5. 1unb
      complexed with akg, fe2, pn1
      1. chain a [99673]
    6. 1hjg
      complexed with fe2, kiv; mutant
      1. chain a [61082]
    7. 2jb8
      automatically matched to d1dcsa_
      complexed with fe, hkv
      1. region a:1-308 [147961]
    8. 1uof
      complexed with fe2, pnn
      1. chain a [99688]
    9. 1hjf
      complexed with coi, fe2; mutant
      1. chain a [61081]
    10. 1uob
      complexed with akg, fe2, pnn
      1. chain a [99685]
    11. 1uog
      complexed with fe2, p1c
      1. chain a [99689]
    12. 1e5h
      complexed with co2, fe2, sin; mutant
      1. chain a [59269]
    13. 1w28
      1. chain a [114098]
    14. 1e5i
      complexed with akg, fe2; mutant
      1. chain a [59270]
    15. 1w2a
      complexed with edo, fe
      1. chain x [114099]
    16. 1w2n
      complexed with fe, pn1
      1. chain a [114100]
    17. 1w2o
      complexed with fe, p1c
      1. chain a [114101]
3. Anthocyanidin synthase [69346]
  1. Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702] [69347] (4)
    1. 1gp6
      complexed with dh2, fe2, mes, que, sin
      1. chain a [65441]
    2. 1gp4
      complexed with 2og, mes
      1. chain a [65439]
    3. 1gp5
      complexed with 2og, dh2, dqh, fe, mes
      1. chain a [65440]
    4. 2brt
      automatically matched to d1gp6a_
      complexed with akg, fe2, nar
      1. region a:2-349 [129018]
4. 1-aminocyclopropane-1-carboxylate oxidase 1 [141621]
  1. Petunia hybrida [TaxId: 4102] [141622] (2)
    SQ Q08506 2-308
    1. 1w9y
      complexed with so4
      1. region a:2-308 [120801]
    2. 1wa6
      automatically matched to 1W9Y A:2-308
      complexed with fe2, po4, so4
      1. region x:2-307 [120808]
Clavaminate synthase [51203] (1)
1. Clavaminate synthase [51204]
  1. Streptomyces clavuligerus [TaxId: 1901] [51205] (5)
    1. 1ds1
      complexed with akg, fe2, pgo, so4
      1. chain a [28127]
    2. 1dry
      complexed with aag, akg, fe2, gol, so4
      1. chain a [28128]
    3. 1gvg
      complexed with akg, fe, nmo, pcx, so4
      1. chain a [76352]
    4. 1ds0
      complexed with act, so4
      1. chain a [28129]
    5. 1drt
      complexed with akg, fe2, pcv
      1. chain a [28130]
Gab protein (hypothetical protein YgaT) [63855] (1)
1. Gab protein (hypothetical protein YgaT) [63856]
  unknown function
  1. Escherichia coli [TaxId: 562] [63857] (1)
    1. 1jr7
      complexed with fe2
      1. chain a [63255]
YhcH-like [89413] (1)
1. Hypothetical protein HI0227 [89414]
  1. Haemophilus influenzae [TaxId: 727] [89415] (5)
    1. 1s4c
      automatically matched to d1jopa_
      complexed with act, cu
      1. region a:1-143 [118860]
    2. 1s4c
      automatically matched to d1jopa_
      complexed with act, cu
      1. region b:1-143 [118861]
    3. 1s4c
      automatically matched to d1jopa_
      complexed with act, cu
      1. region c:1-143 [118862]
    4. 1s4c
      automatically matched to d1jopa_
      complexed with act, cu
      1. region d:1-143 [118863]
    5. 1jop
      structural genomics
      complexed with hg
      1. chain a [84187]
      2. chain b [84188]
      3. chain c [84189]
      4. chain d [84190]
Type II Proline 3-hydroxylase (proline oxidase) [63858] (1)
1. Type II Proline 3-hydroxylase (proline oxidase) [63859]
  1. Streptomyces sp. [TaxId: 1931] [63860] (2)
    1. 1e5r
      apo form
      1. chain a [59276]
      2. chain b [59277]
    2. 1e5s
      iron form
      complexed with fe2, so4
      1. chain a [59278]
      2. chain b [59279]
TauD/TfdA-like [75038] (2)
1. Taurine/alpha-ketoglutarate dioxygenase TauD [75039]
  1. Escherichia coli [TaxId: 562] [75040] (4)
    1. 1otj
      complexed with cl, tau
      1. chain a [93517]
      2. chain b [93518]
      3. chain c [93519]
      4. chain d [93520]
    2. 1os7
      complexed with akg, fe2, tau
      1. chain a [93477]
      2. chain b [93478]
      3. chain c [93479]
      4. chain d [93480]
    3. 1gy9
      complexed with akg, fe, tau
      1. chain a [70742]
      2. chain b [70743]
    4. 1gqw
      complexed with akg, fe2, tau
      1. chain a [70377]
      2. chain b [70378]
2. Putative alkylsulfatase AtsK [101989]
  1. Pseudomonas putida [TaxId: 303] [101990] (6)
    SQ Q9WWU5
    1. 1oih
      complexed with na
      1. chain a [93051]
      2. chain b [93052]
      3. chain c [93053]
      4. chain d [93054]
    2. 1oij
      complexed with akg, na
      1. chain a [93059]
      2. chain b [93060]
      3. chain c [93061]
      4. chain d [93062]
    3. 1oik
      complexed with akg, c26, fe2
      1. chain a [93063]
      2. chain d [93064]
    4. 1vz5
      complexed with sin
      1. chain a [114036]
      2. chain b [114037]
      3. chain c [114038]
      4. chain d [114039]
    5. 1oii
      complexed with akg, fe2
      1. chain a [93055]
      2. chain b [93056]
      3. chain c [93057]
      4. chain d [93058]
    6. 1vz4
      complexed with fe2, sin
      1. chain a [114034]
      2. chain d [114035]
gamma-Butyrobetaine hydroxylase [89416] (2)
Pfam 03322
1. Carbapenem synthase, CarC [89417]
  1. Erwinia carotovora [TaxId: 554] [89418] (2)
    1. 1nx4
      complexed with 2og, fe, mse
      1. chain a [86371]
      2. chain b [86372]
      3. chain c [86373]
    2. 1nx8
      complexed with 2og, fe, n7p
      1. chain a [86374]
      2. chain b [86375]
      3. chain c [86376]
2. Clavaminate synthase-like protein At3g21360 [117321]
  1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [117322] (3)
    SQ Q9LIG0
    1. 1y0z
      Structural genomics target
      complexed with fe2, so4
      1. chain a [116317]
      2. chain b [116318]
    2. 2q4a
      automatically matched to d1y0zb_
      complexed with fe, so4
      1. region a:4-330 [139839]
    3. 2q4a
      automatically matched to d1y0zb_
      complexed with fe, so4
      1. region b:4-330 [139840]
Hypoxia-inducible factor HIF ihhibitor (FIH1) [82194] (1)
1. Hypoxia-inducible factor HIF ihhibitor (FIH1) [82195]
  1. Human (Homo sapiens) [TaxId: 9606] [82196] (10)
    1. 1h2k
      complex with HIF-1 alpha fragment peptide
      complexed with fe2, oga, so4
      1. chain a [76572]
    2. 1h2l
      complex with HIF-1 alpha fragment peptide
      complexed with akg, fe2, so4
      1. chain a [76574]
    3. 1mze
      complexed with fe2, tar
      1. chain a [79694]
    4. 1h2m
      complex with HIF-1 alpha fragment peptide
      complexed with oga, so4, zn
      1. chain a [76576]
    5. 1mzf
      complexed with akg, fe2
      1. chain a [79695]
    6. 2cgo
      automatically matched to d1mzea_
      complexed with fe, fmr, so4
      1. region a:13-349 [130427]
    7. 2cgn
      automatically matched to d1mzea_
      complexed with fe, sin, so4
      1. region a:13-349 [130426]
    8. 1h2n
      complexed with akg, fe2, so4
      1. chain a [76577]
    9. 1yci
      automatically matched to d1mzea_
      complexed with fe2, ndf, so4
      1. region a:14-349 [122965]
    10. 1iz3
      complexed with mse, so4
      1. chain a [83831]
PhyH-like [141623] (2)
Pfam 05721
1. Syringomycin biosynthesis enzyme 2, SyrB2 [141624]
  1. Pseudomonas syringae pv. syringae [TaxId: 321] [141625] (6)
    SQ Q9RBY6 3-310
    1. 2fct
      complexed with akg, cl, dsu, fe2
      1. region a:3-310 [133282]
    2. 2fct
      automatically matched to 2FCT A:3-310
      complexed with akg, cl, dsu, fe2
      1. region b:4-310 [133283]
    3. 2fcu
      automatically matched to 2FCT A:3-310
      complexed with akg, dsu
      1. region a:3-310 [133284]
    4. 2fcu
      automatically matched to 2FCT A:3-310
      complexed with akg, dsu
      1. region b:3-310 [133285]
    5. 2fcv
      automatically matched to 2FCT A:3-310
      complexed with akg, br, dsu, fe2
      1. region a:3-310 [133286]
    6. 2fcv
      automatically matched to 2FCT A:3-310
      complexed with akg, br, dsu, fe2
      1. region b:4-310 [133287]
2. Phytanoyl-CoA dioxygenase, PhyH [141626]
  1. Human (Homo sapiens) [TaxId: 9606] [141627] (1)
    SQ O14832 43-338
    1. 2a1x
      complexed with akg, fe2
      1. region a:43-338 [126022]
AlkB-like [141628] (2)
1. Alkylated DNA repair protein AlkB [141629]
  1. Escherichia coli [TaxId: 562] [141630] (7)
    SQ P05050 15-214
    1. 2fdi
      automatically matched to 2FD8 A:15-214
      complexed with akg, fe2, ma7, sin
      1. region a:15-214 [133311]
    2. 2fdj
      automatically matched to 2FD8 A:15-214
      complexed with fe2, sin
      1. region a:15-214 [133312]
    3. 2fdh
      automatically matched to 2FD8 A:15-214
      complexed with akg, ma7, mn
      1. region a:15-214 [133310]
    4. 2fdk
      automatically matched to 2FD8 A:15-214
      complexed with akg, fe2, ma7, sin
      1. region a:16-214 [133313]
    5. 2fdf
      automatically matched to 2FD8 A:15-214
      complexed with akg, co, ma7
      1. region a:15-214 [133308]
    6. 2fdg
      automatically matched to 2FD8 A:15-214
      complexed with fe2, ma7, sin
      1. region a:15-214 [133309]
    7. 2fd8
      complexed with akg, fe2, ma7
      1. region a:15-214 [133296]
2. AlkB homolog 3 [141631]
  Prostate cancer antigen 1, DEPC-1
  1. Human (Homo sapiens) [TaxId: 9606] [141632] (1)
    SQ Q96Q83 70-279
    1. 2iuw
      complexed with akg, bme, fe, led
      1. region a:70-279 [137709]
Asparaginyl hydroxylase-like [141633] (1)
Pfam 08007
1. Putative asparaginyl hydroxylase YxbC [141634]
  1. Bacillus subtilis [TaxId: 1423] [141635] (4)
    SQ P46327 8-326
    1. 1vrb
      complexed with fe
      1. region a:8-326 [120450]
    2. 1vrb
      automatically matched to 1VRB A:8-326
      complexed with fe
      1. region b:8-326 [120451]
    3. 1vrb
      automatically matched to 1VRB A:8-326
      complexed with fe
      1. region c:8-326 [120452]
    4. 1vrb
      automatically matched to 1VRB A:8-326
      complexed with fe
      1. region d:8-326 [120453]
YbiU-like [141636] (1)
Pfam 07350; DUF1479
1. Hypothetical protein YbiU [141637]
  1. Salmonella typhimurium [TaxId: 90371] [141638] (1)
    SQ Q8ZQM7 3-419
    1. 2csg
      complexed with cit, fe, ict, sin
      1. region a:3-419 [130768]
TehB-like [159307] (2)
Pfam 09313; DUF1971
1. Uncharacterized protein YeaR [159308]
  1. Escherichia coli [TaxId: 562] [159309] (4)
    SQ P64488 1-109
    1. 3bb6
      complexed with zn
      1. region a:1-109 [155045]
    2. 3bb6
      automatically matched to 3BB6 A:1-109
      complexed with zn
      1. region b:1-109 [155046]
    3. 3bb6
      automatically matched to 3BB6 A:1-109
      complexed with zn
      1. region c:1-109 [155047]
    4. 3bb6
      automatically matched to 3BB6 A:1-109
      complexed with zn
      1. region d:1-103 [155048]
2. Tellurite resistance protein B, TehB [159310]
  1. Vibrio fischeri [TaxId: 668] [159311] (8)
    SQ Q5E3X2 5-100
    1. 3dl3
      1. region a:5-100 [157762]
    2. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region b:5-99 [157763]
    3. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region d:5-99 [157764]
    4. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region e:5-100 [157765]
    5. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region f:5-100 [157766]
    6. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region g:6-99 [157767]
    7. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region h:5-99 [157768]
    8. 3dl3
      automatically matched to 3DL3 A:5-100
      1. region i:5-100 [157769]