Structural Classification of Proteins
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Superfamily: Nudix

link to SUPERFAMILY database - Superfamily

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a+b) [53931]
    Mainly antiparallel beta sheets (segregated alpha and beta regions)
  3. Fold: Nudix [55810]
    beta(2)-alpha-beta(3)-alpha; 3 layers: alpha/beta/alpha; mixed sheet
    contains beta-grasp motif
  4. Superfamily: Nudix [55811]
    link to SUPERFAMILY database - Superfamily

Families:

  1. MutT-like [55812] (20)
    1. Nucleoside triphosphate pyrophosphorylase (MutT) [55813]
      1. Escherichia coli [TaxId: 562] [55814] (6)
        1. 1pun picpic
          complexed with 8og, mo2
          1. chain a [95133] picpiclink
        2. 1pus picpic
          complexed with 8og, mo2
          1. chain a [95139] picpiclink
        3. 1ppx picpic
          complexed with 8og, mo2
          1. chain a [94981] picpiclink
        4. 1puq picpic
          complexed with 8og, mo2
          1. chain a [95138] picpiclink
        5. 1mut picpic
          1. chain a [40921] picpiclink
        6. 1tum picpic
          complexed with apc, con, mo2; mutant
          1. chain a [40922] picpiclink
    2. Coenzyme A pyrophosphatase [90022]
      1. Deinococcus radiodurans [TaxId: 1299] [90023] (2)
        1. 1nqz picpic
          complexed with mg
          1. chain a [86077] picpiclink
        2. 1nqy picpic
          1. chain a [86076] picpiclink
    3. ADP-ribose pyrophosphatase [64365]
      1. Escherichia coli [TaxId: 562] [64366] (5)
        1. 1g0s picpic
          CASP4
          1. chain a [60187] picpiclink
          2. chain b [60188] picpiclink
        2. 1khz picpic
          complexed with adv, cl, mg
          1. chain a [77414] picpiclink
          2. chain b [77415] picpiclink
        3. 1g9q picpic
          complexed with apr
          1. chain a [60401] picpiclink
          2. chain b [60402] picpiclink
        4. 1ga7 picpic
          complexed with gd3
          1. chain a [60412] picpiclink
          2. chain b [60413] picpiclink
        5. 1viq picpic
          structural genomics
          1. chain a [100766] picpiclink
          2. chain b [100767] picpiclink
          3. chain c [100768] picpiclink
      2. Mycobacterium tuberculosis [TaxId: 1773] [103200] (5)
        gene Rv1700
        1. 1mqe picpic
          complexed with apr, gd3
          1. chain a [91394] picpiclink
        2. 1mk1 picpic
          complexed with apr
          1. chain a [91306] picpiclink
        3. 1mqw picpic
          complexed with adv, mn
          1. chain a [91427] picpiclink
        4. 1mp2 picpic
          1. chain a [91383] picpiclink
        5. 1mr2 picpic
          complexed with a12, mn
          1. chain a [91428] picpiclink
      3. Thermus thermophilus [TaxId: 274] [118083] (11)
        SQ Q84CU3
        1. 1v8y picpic
          complexed with apr, zn; mutant
          1. chain a [113581] picpiclink
        2. 1v8w picpic
          complexed with so4, zn; mutant
          1. chain a [113580] picpiclink
        3. 1v8i picpic
          1. chain a [113572] picpiclink
        4. 1v8r picpic
          complexed with apr, zn
          1. region a:11-169 [119872] picpiclink
        5. 1v8n picpic
          complexed with zn
          1. chain a [113575] picpiclink
        6. 1v8u picpic
          complexed with mg, so4; mutant
          1. chain a [113578] picpiclink
        7. 1v8m picpic
          complexed with apr, gd
          1. chain a [113574] picpiclink
        8. 1v8v picpic
          complexed with apr, mg; mutant
          1. chain a [113579] picpiclink
        9. 1v8l picpic
          complexed with apr
          1. chain a [113573] picpiclink
        10. 1v8s picpic
          complexed with amp, mg
          1. chain a [113576] picpiclink
        11. 1v8t picpic
          complexed with r5p, zn
          1. chain a [113577] picpiclink
    4. ADP-ribose pyrophosphatase homologue YffH [103201]
      1. Escherichia coli [TaxId: 562] [103202] (1)
        1. 1viu picpic
          structural genomics
          1. chain a [100771] picpiclink
          2. chain b [100772] picpiclink
          3. chain c [100773] picpiclink
          4. chain d [100774] picpiclink
    5. ADP compounds hydrolase NudE [103203]
      1. Escherichia coli [TaxId: 562] [103204] (2)
        1. 1vhz picpic
          structural genomics
          complexed with apr
          1. chain a [100718] picpiclink
          2. chain b [100719] picpiclink
        2. 1vhg picpic
          structural genomics
          1. chain a [100672] picpiclink
          2. chain b [100673] picpiclink
    6. NUDT9 (mitochondrial ADP-ribose pyrophosphatase) [103205]
      1. Human (Homo sapiens) [TaxId: 9606] [103206] (2)
        1. 1q33 picpic
          complexed with glc, so4
          1. chain a [95657] picpiclink
        2. 1qvj picpic
          complexed with mg, rp5, so4, trs
          1. chain a [96431] picpiclink
    7. 7,8-dihydro-8-oxoguanine triphosphatase Hmth1 [103207]
      1. Human (Homo sapiens) [TaxId: 9606] [103208] (1)
        1. 1iry picpic
          1. chain a [90690] picpiclink
    8. Hypothetical protein DR1025 [103209]
      1. Deinococcus radiodurans [TaxId: 1299] [103210] (4)
        1. 1sjy picpic
          1. chain a [98900] picpiclink
        2. 1sz3 picpic
          complexed with gnp, mg
          1. chain a [99042] picpiclink
          2. chain b [99043] picpiclink
        3. 1su2 picpic
          complexed with atp, mg
          1. chain a [98991] picpiclink
          2. chain b [98992] picpiclink
        4. 1soi picpic
          complexed with sm
          1. chain a [98941] picpiclink
    9. Diadenosine tetraphosphate hydrolase (Ap4A hydrolase) [64367]
      1. Narrow-leaved blue lupine (Lupinus angustifolius) [TaxId: 3871] [64368] (2)
        1. 1jkn picpic
          complexed with atp
          1. chain a [66808] picpiclink
        2. 1f3y picpic
          mutant
          1. chain a [59635] picpiclink
      2. Caenorhabditis elegans [TaxId: 6239] [75526] (2)
        1. 1ktg picpic
          complexed with amp, mg, oh, po4
          1. chain a [72972] picpiclink
          2. chain b [72973] picpiclink
        2. 1kt9 picpic
          1. chain a [72959] picpiclink
      3. Human (Homo sapiens) [TaxId: 9606] [118084] (3)
        SQ P50583
        1. 1xsb picpic
          mutant
          1. chain a [115923] picpiclink
        2. 1xsa picpic
          mutant
          1. chain a [115922] picpiclink
        3. 1xsc picpic
          complexed with atp; mutant
          1. chain a [115924] picpiclink
    10. Hypothetical protein PAE3301 [75527]
      1. Archaeon Pyrobaculum aerophilum [TaxId: 13773] [75528] (3)
        1. 1k2e picpic
          complexed with acy, cry, ni, so4; mutant
          1. chain a [72010] picpiclink
          2. chain b [72011] picpiclink
        2. 1k26 picpic
          complexed with acy, cry, ir3, ni, so4; mutant
          1. chain a [72003] picpiclink
          2. chain b [72004] picpiclink
        3. 1jrk picpic
          structural genomics
          complexed with mpd; mutant
          1. chain a [71827] picpiclink
          2. chain b [71828] picpiclink
          3. chain c [71829] picpiclink
          4. chain d [71830] picpiclink
    11. Hypothetical protein EF1141 [143756]
      1. Enterococcus faecalis [TaxId: 1351] [143757] (1)
        SQ Q836H1 2-148
        1. 2azw picpic
          complexed with 1pe
          1. region a:2-148 [127615] picpiclink
    12. AP6A hydrolase Ndx1 [143758]
      1. Thermus thermophilus [TaxId: 274] [143759] (6)
        SQ Q75UV1 1-126
        1. 1vcd picpic
          automatically matched to 1VC8 A:1-126
          complexed with gol, so4
          1. region a:1-126 [119970] picpiclink
        2. 1vcd picpic
          automatically matched to 1VC8 A:1-126
          complexed with gol, so4
          1. region b:1-126 [119971] picpiclink
        3. 1vc8 picpic
          complexed with 5fa
          1. region a:1-126 [119966] picpiclink
        4. 1vc8 picpic
          automatically matched to 1VC8 A:1-126
          complexed with 5fa
          1. region b:1-126 [119967] picpiclink
        5. 1vc9 picpic
          complexed with atp, mg; mutant
          1. region a:1-126 [119968] picpiclink
        6. 1vc9 picpic
          automatically matched to 1VC9 A:1-126
          complexed with atp, mg; mutant
          1. region b:1-126 [119969] picpiclink
    13. Hypothetical protein NE0184 [143760]
      1. Nitrosomonas europaea [TaxId: 915] [143761] (1)
        SQ Q82XR9 4-149
        1. 2b0v picpic
          complexed with cl, edo, na
          1. region a:4-149 [127650] picpiclink
    14. Hypothetical protein SP1235 (spr1115) [143762]
      1. Streptococcus pneumoniae [TaxId: 1313] [143763] (1)
        SQ Q97QH6 1-155
        1. 2b06 picpic
          complexed with mg
          1. region a:1-155 [127624] picpiclink
    15. U8 snorna-binding protein x29 [143764]
      nuclear decapping enzyme
      1. African clawed frog (Xenopus laevis) [TaxId: 8355] [143765] (12)
        SQ Q6TEC1 14-209
        1. 1u20 picpic
          complexed with gol
          1. region a:14-209 [119463] picpiclink
        2. 1u20 picpic
          automatically matched to 1U20 A:14-209
          complexed with gol
          1. region b:18-209 [119464] picpiclink
        3. 2a8t picpic
          automatically matched to 1U20 A:14-209
          complexed with adn, mgt, mn
          1. region a:18-209 [126418] picpiclink
        4. 2a8t picpic
          automatically matched to 1U20 A:14-209
          complexed with adn, mgt, mn
          1. region b:18-208 [126419] picpiclink
        5. 2a8s picpic
          automatically matched to 1U20 A:14-209
          complexed with gtp, mn, ycm
          1. region a:18-209 [126416] picpiclink
        6. 2a8s picpic
          automatically matched to 1U20 A:14-209
          complexed with gtp, mn, ycm
          1. region b:18-208 [126417] picpiclink
        7. 2a8q picpic
          automatically matched to 1U20 A:14-209
          complexed with mn, pop, ycm
          1. region a:18-209 [126412] picpiclink
        8. 2a8q picpic
          automatically matched to 1U20 A:14-209
          complexed with mn, pop, ycm
          1. region b:18-208 [126413] picpiclink
        9. 2a8r picpic
          automatically matched to 1U20 A:14-209
          complexed with mn, pop, ycm
          1. region a:20-209 [126414] picpiclink
        10. 2a8r picpic
          automatically matched to 1U20 A:14-209
          complexed with mn, pop, ycm
          1. region b:18-208 [126415] picpiclink
        11. 2a8p picpic
          automatically matched to 1U20 A:14-209
          complexed with mn, ycm
          1. region a:18-209 [126410] picpiclink
        12. 2a8p picpic
          automatically matched to 1U20 A:14-209
          complexed with mn, ycm
          1. region b:17-209 [126411] picpiclink
    16. Diphosphoinositol polyphosphate phosphohydrolase [143766]
      1. Human (Homo sapiens) [TaxId: 9606] [143767] (2)
        SQ O95989 8-142
        1. 2fvv picpic
          complexed with cl, ihp, so4
          1. region a:8-142 [134226] picpiclink
        2. 2q9p picpic
          automatically matched to d2fvva1
          complexed with cl, f, ihp, mg
          1. region a:10-141 [150155] picpiclink
  2. MutY C-terminal domain-like [103211] (2)
    1. Adenine glycosylase MutY, C-terminal domain [103212]
      1. Bacillus stearothermophilus [TaxId: 1422] [103213] (3)
        1. 1rrq picpicxref
          complexed with 8og, ca, fs4; mutant
          1. region a:234-360 [97799] picpiclink
        2. 1rrs picpicxref
          complexed with 8og, ca, fs4, hpd; mutant
          1. region a:234-360 [97801] picpiclink
        3. 1vrl picpicxref
          automatically matched to d1rrta2
          complexed with 8og, ade, ca, hpd, sf4; mutant
          1. region a:231-360 [120471] picpiclink
    2. A/G-specific adenine DNA glycosylase [143768]
      MutY homolog
      1. Human (Homo sapiens) [TaxId: 9606] [143769] (1)
        SQ Q9UIF7 356-497
        1. 1x51 picpic
          1. region a:8-149 [121702] picpiclink
  3. NADH pyrophosphatase [103214] (1)
    duplication: consists of two structurally similar domains separated by a rubredoxin-like zinc finger; the N-terminal domain has a rudiment Nudix fold, the C-terminal, probably catalytic, domain has the canonical fold
    1. NADH pyrophosphatase [103215]
      1. Escherichia coli [TaxId: 562] [103216] (1)
        1. 1vk6 picpicxref
          structural genomics
          complexed with mpd, zn
          1. region a:0-96 [111609] picpiclink
          2. region a:126-256 [100852] picpiclink
  4. IPP isomerase-like [64369] (4)
    1. Isopentenyl diphosphate isomerase [64370]
      1. Escherichia coli [TaxId: 562] [64371] (25)
        SQ Q46822
        1. 1hzt picpic
          1. chain a [61459] picpiclink
        2. 1ppv picpic
          complexed with bhi, mg, mn
          1. chain a [104282] picpiclink
          2. chain b [104283] picpiclink
        3. 1r67 picpic
          complexed with mg; mutant
          1. chain a [97147] picpiclink
        4. 1pvf picpic
          complexed with dpo, mg, mn
          1. chain a [104323] picpiclink
          2. chain b [104324] picpiclink
        5. 1x84 picpic
          automatically matched to d1nfsb_
          complexed with mg, mn, sbh
          1. region a:4-179 [121795] picpiclink
        6. 1x84 picpic
          automatically matched to d1nfsb_
          complexed with mg, mn, sbh
          1. region b:4-179 [121796] picpiclink
        7. 1nfz picpic
          complexed with eip, mg, mn
          1. chain a [85658] picpiclink
          2. chain b [85659] picpiclink
        8. 1x83 picpic
          complexed with mg, mn, sbh; mutant
          1. region a:4-179 [121793] picpiclink
        9. 1x83 picpic
          automatically matched to 1X83 A:4-179
          complexed with mg, mn, sbh; mutant
          1. region b:4-179 [121794] picpiclink
        10. 1q54 picpic
          complexed with bhi, mg, mn; mutant
          1. chain a [95860] picpiclink
          2. chain b [95861] picpiclink
        11. 2g74 picpic
          automatically matched to 1X83 A:4-179
          complexed with mg, mn; mutant
          1. region a:4-179 [134728] picpiclink
        12. 2g74 picpic
          automatically matched to 1X83 A:4-179
          complexed with mg, mn; mutant
          1. region b:4-179 [134729] picpiclink
        13. 1nfs picpic
          complexed with ded, mg, mn
          1. chain a [85640] picpiclink
          2. chain b [85641] picpiclink
        14. 2b2k picpic
          automatically matched to 1X83 A:4-179
          complexed with eip, mg, mn; mutant
          1. region a:4-179 [127708] picpiclink
        15. 2b2k picpic
          automatically matched to 1X83 A:4-179
          complexed with eip, mg, mn; mutant
          1. region b:4-179 [127709] picpiclink
        16. 1hx3 picpic
          complexed with imd, mn, so4; mutant
          1. chain a [61351] picpiclink
          2. chain b [61352] picpiclink
        17. 2g73 picpic
          automatically matched to 1X83 A:4-179
          complexed with eip, mg, mn; mutant
          1. region a:4-179 [134726] picpiclink
        18. 2g73 picpic
          automatically matched to 1X83 A:4-179
          complexed with eip, mg, mn; mutant
          1. region b:4-179 [134727] picpiclink
        19. 2vnq picpic
          automatically matched to d1nfsb_
          complexed with imd, mn, so4
          1. region a:4-179 [153341] picpiclink
        20. 2vnq picpic
          automatically matched to d1nfsb_
          complexed with imd, mn, so4
          1. region b:4-179 [153342] picpiclink
        21. 1ow2 picpic
          complexed with eip, mg, mn; mutant
          1. chain a [93626] picpiclink
          2. chain b [93627] picpiclink
        22. 2vnp picpic
          automatically matched to d1nfsb_
          complexed with ded, mg, mn
          1. region a:4-179 [153339] picpiclink
        23. 2vnp picpic
          automatically matched to d1nfsb_
          complexed with ded, mg, mn
          1. region b:4-179 [153340] picpiclink
        24. 1ppw picpic
          complexed with eip, mg, mn
          1. chain a [104284] picpiclink
          2. chain b [104285] picpiclink
        25. 1i9a picpic
          complexed with mn
          1. chain a [62082] picpiclink
          2. chain b [62083] picpiclink
    2. Hypothetical protein DR0079 [103217]
      1. Deinococcus radiodurans [TaxId: 1299] [103218] (1)
        1. 1q27 picpic
          structural genomics
          1. chain a [95621] picpiclink
      2. Deinococcus radiodurans str. R1 (Deinococcus radiodurans R1) [TaxId: 243230] [160692] (2)
        1. 2o5f picpic
          automatically matched to d1q27a_
          1. region a:7-168 [148596] picpiclink
        2. 2o5f picpic
          automatically matched to d1q27a_
          1. region b:7-168 [148597] picpiclink
    3. Hypothetical protein YfcD [143770]
      1. Escherichia coli [TaxId: 562] [143771] (3)
        SQ P65556 8-168
        1. 2fkb picpic
          complexed with act, gol, mg, so4
          1. region a:8-168 [133650] picpiclink
        2. 2fkb picpic
          automatically matched to 2FKB A:8-168
          complexed with act, gol, mg, so4
          1. region b:8-168 [133651] picpiclink
        3. 2fkb picpic
          automatically matched to 2FKB A:8-168
          complexed with act, gol, mg, so4
          1. region c:8-168 [133652] picpiclink
  5. GDP-mannose mannosyl hydrolase NudD [111132] (1)
    1. GDP-mannose mannosyl hydrolase NudD [111133]
      1. Escherichia coli [TaxId: 562] [111134] (5)
        SQ P32056
        1. 1rya picpic
          complexed with cl, gdp, mg, trs
          1. chain a [105122] picpiclink
          2. chain b [105123] picpiclink
        2. 2gt2 picpic
          automatically matched to d1ryaa_
          1. region a:3-160 [135619] picpiclink
        3. 2gt2 picpic
          automatically matched to d1ryaa_
          1. region b:5-160 [135620] picpiclink
        4. 2gt2 picpic
          automatically matched to d1ryaa_
          1. region c:3-160 [135621] picpiclink
        5. 2gt2 picpic
          automatically matched to d1ryaa_
          1. region d:4-160 [135622] picpiclink
  6. BT0354 N-terminal domain-like [143772] (2)
    accosiated with the C-terminal "winged helix" domain (scop_sf 46785)
    1. Hypothetical protein EF2700, N-terminal domain [143773]
      includes extra N-terminal alpha-hairpin, separated by a linker peptide
      1. Enterococcus faecalis [TaxId: 1351] [143774] (2)
        SQ Q830S2 3-204
        1. 2fml picpicxrefxref
          complexed with gol
          1. region a:3-204 [133779] picpiclink
        2. 2fml picpicxrefxref
          automatically matched to 2FML A:3-204
          complexed with gol
          1. region b:4-204 [133781] picpiclink
    2. Hypothetical protein BT0354, N-terminal domain [143775]
      1. Bacteroides thetaiotaomicron [TaxId: 818] [143776] (4)
        SQ Q8AAV8 3-149
        1. 2fb1 picpicxrefxrefxrefxref
          complexed with po4
          1. region a:3-149 [133226] picpiclink
        2. 2fb1 picpicxrefxrefxrefxref
          automatically matched to 2FB1 A:3-149
          complexed with po4
          1. region b:3-149 [133228] picpiclink
        3. 2fb1 picpicxrefxrefxrefxref
          automatically matched to 2FB1 A:3-149
          complexed with po4
          1. region c:3-149 [133230] picpiclink
        4. 2fb1 picpicxrefxrefxrefxref
          automatically matched to 2FB1 A:3-149
          complexed with po4
          1. region d:3-149 [133232] picpiclink
  7. mRNA decapping enzyme-like [143777] (1)
    part of Pfam 00293
    1. mRNA decapping enzyme Dcp2p catalytic domain [143778]
      1. Schizosaccharomyces pombe [TaxId: 4896] [143779] (1)
        SQ O13828 95-245
        1. 2a6t picpicxref
          1. region a:95-245 [126310] picpiclink
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MRC site Generated from scop database 1.75 with scopm 1.101 on Wed Jun 3 10:42:06 2009
Copyright © 1994-2009 The scop authors / scop@mrc-lmb.cam.ac.uk