Structural Classification of Proteins
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Fold: IF3-like

beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a+b) [53931]
    Mainly antiparallel beta sheets (segregated alpha and beta regions)
  3. Fold: IF3-like [55199]
    beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest

Superfamilies:

  1. Translation initiation factor IF3, C-terminal domain [55200] (1)
    link to SUPERFAMILY database - Superfamily
    1. Translation initiation factor IF3, C-terminal domain [55201] (3)
      1. Translation initiation factor IF3, C-terminal domain [55202]
        1. Bacillus stearothermophilus [TaxId: 1422] [55203] (1)
          1. 1tig picpic
            1. chain a [39566] picpiclink
        2. Escherichia coli [TaxId: 562] [55204] (1)
          1. 2ife picpic
            1. chain a [39567] picpiclink
        3. Thermus thermophilus [TaxId: 274] [64306] (1)
          1. 1i96 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
            complexed to 30S ribosomal subunit; CA-atoms only
            complexed with mg, wo2, zn
            1. chain v [62057] picpiclink
  2. YhbY-like [75471] (1)
    link to SUPERFAMILY database - Superfamily
    1. YhbY-like [75472] (3)
      Pfam 01985
      1. hypothetical protein YhbY [75473]
        1. Escherichia coli [TaxId: 562] [75474] (1)
          1. 1ln4 picpic
            structural genomics
            mutant
            1. chain a [74043] picpiclink
      2. YhbY homologue HI1333 [82702]
        1. Haemophilus influenzae [TaxId: 727] [82703] (1)
          1. 1jo0 picpic
            structural genomics
            complexed with gol
            1. chain a [77140] picpiclink
            2. chain b [77141] picpiclink
      3. Hypothetical protein SAV1595 [111025]
        1. Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280] [111026] (1)
          SQ Q99TQ4
          1. 1rq8 picpic
            Structural genomics target
            1. chain a [105056] picpiclink
  3. SirA-like [64307] (1)
    link to SUPERFAMILY database - Superfamily
    1. SirA-like [88852] (4)
      predicted redox protein, regulator of disulfide bond formation
      1. SirA [64309]
        implicated in cell division
        1. Escherichia coli [TaxId: 562] [64310] (1)
          formerly hypothetical protein YhhP
          1. 1dcj picpic
            structural genomics
            1. chain a [59115] picpiclink
      2. Hypothetical protein Ta1170/Ta1414 [89971]
        1. Archaeon Thermoplasma acidophilum [TaxId: 2303] [89972] (1)
          1. 1pav picpic
            structural genomics
            1. chain a [88013] picpiclink
      3. hypothetical protein YedF (EC005) [75475]
        1. Escherichia coli [TaxId: 562] [75476] (1)
          1. 1je3 picpic
            structural genomics
            1. chain a [71637] picpiclink
      4. Hypothetical protein TM0983 [69751]
        1. Thermotoga maritima [TaxId: 2336] [69752] (1)
          1. 1jdq picpic
            structural genomics
            1. chain a [66559] picpiclink
  4. AlbA-like [82704] (2)
    link to SUPERFAMILY database - Superfamily
    1. DNA-binding protein AlbA [82705] (4)
      1. DNA-binding protein AlbA [82706]
        an archaeal chromatin protein modulated by acetylation, a Sir2 substrate
        1. Archaeon Sulfolobus solfataricus, Sso10b1 [TaxId: 2287] [82707] (4)
          gene SSO0962 (AlbA1)
          1. 2bky picpicxrefxref
            automatically matched to d1h0xa_
            complexed with mpd
            1. region a:9-97 [128715] picpiclink
          2. 2bky picpicxrefxref
            automatically matched to d1h0xa_
            complexed with mpd
            1. region b:9-97 [128716] picpiclink
          3. 1h0x picpic
            1. chain a [76451] picpiclink
            2. chain b [76452] picpiclink
          4. 1h0y picpic
            complexed with so4
            1. chain a [76453] picpiclink
        2. Archaeon Sulfolobus solfataricus, Sso10b2 [TaxId: 2287] [103058] (5)
          gene SSO6877 (AlbA2)
          1. 2bky picpicxrefxref
            automatically matched to d1udva_
            complexed with mpd
            1. region x:4-89 [128717] picpiclink
          2. 2bky picpicxrefxref
            automatically matched to d1udva_
            complexed with mpd
            1. region y:4-89 [128718] picpiclink
          3. 1udv picpic
            complexed with zn
            1. chain a [99224] picpiclink
            2. chain b [99225] picpiclink
          4. 2a2y picpic
            automatically matched to d1udva_
            1. region a:2-89 [126066] picpiclink
          5. 2a2y picpic
            automatically matched to d1udva_
            1. region b:2-89 [126067] picpiclink
        3. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [103059] (2)
          gene AF1956
          1. 1nfj picpic
            1. chain a [91866] picpiclink
          2. 1nfh picpic
            1. chain a [91864] picpiclink
            2. chain b [91865] picpiclink
        4. Archaeon Methanococcus jannaschii [TaxId: 2190] [103060] (1)
          1. 1nh9 picpic
            1. chain a [91878] picpiclink
    2. Hypothetical protein At2g34160 [111027] (1)
      1. Hypothetical protein At2g34160 [111028]
        1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [111029] (3)
          SQ O22969 19-117
          1. 1vm0 picpic
            Structural genomics target
            complexed with k, no3
            1. chain a [108873] picpiclink
            2. chain b [108874] picpiclink
          2. 2q3v picpic
            automatically matched to d1vm0b_
            complexed with k, no3; mutant
            1. region a:20-117 [139811] picpiclink
          3. 2q3v picpic
            automatically matched to d1vm0b_
            complexed with k, no3; mutant
            1. region b:20-117 [139812] picpiclink
  5. C-terminal domain of ProRS [64586] (1)
    contains a metal (zinc)-binding site
    link to SUPERFAMILY database - Superfamily
    1. C-terminal domain of ProRS [64587] (3)
      1. C-terminal domain of ProRS [64588]
        1. Thermus thermophilus [TaxId: 274] [64589] (4)
          1. 1hc7 picpicxrefxref
            complexed with zn
            1. region a:404-477 [60940] picpiclink
            2. region b:404-477 [60943] picpiclink
            3. region c:404-477 [60946] picpiclink
            4. region d:404-477 [60949] picpiclink
          2. 1h4t picpicxrefxref
            complexed with pro, zn
            1. region a:404-477 [60612] picpiclink
            2. region b:404-477 [60615] picpiclink
            3. region c:404-477 [60618] picpiclink
            4. region d:404-477 [60621] picpiclink
          3. 1h4s picpicxrefxref
            complexed with 5mu, psd, psu, so4, zn
            1. region a:404-477 [60606] picpiclink
            2. region b:404-477 [60609] picpiclink
          4. 1h4q picpicxrefxref
            complexed with 5mu, atp, pri, psu, so4, zn
            1. region a:404-477 [60600] picpiclink
            2. region b:404-477 [60603] picpiclink
        2. Arhaeon (Methanothermobacter thermautotrophicus) [TaxId: 145262] [89973] (4)
          1. 1nj1 picpicxrefxref
            complexed with 5ca, mg, zn
            1. region a:411-481 [85756] picpiclink
          2. 1nj5 picpicxrefxref
            complexed with mg, p5a, zn
            1. region a:411-481 [85763] picpiclink
          3. 1nj6 picpicxrefxref
            complexed with a5a, mg, zn
            1. region a:411-481 [85766] picpiclink
          4. 1nj2 picpicxrefxref
            complexed with mg, zn
            1. region a:411-481 [85759] picpiclink
        3. Archaeon (Methanocaldococcus jannaschii) [TaxId: 2190] [89974] (1)
          1. 1nj8 picpicxrefxref
            1. region a:394-455 [85770] picpiclink
            2. region b:394-455 [85773] picpiclink
            3. region c:394-455 [85776] picpiclink
            4. region d:394-455 [85779] picpiclink
  6. R3H domain [82708] (1)
    possibly lacks the N-terminal strand of the common fold
    link to SUPERFAMILY database - Superfamily
    1. R3H domain [82709] (3)
      Pfam 01424; predicted nucleic acid-binding domain
      1. SmuBP-2 [82710]
        1. Human (Homo sapiens) [TaxId: 9606] [82711] (1)
          1. 1msz picpic
            1. chain a [79428] picpiclink
      2. Poly(A)-specific ribonuclease PARN [111030]
        1. Mouse (Mus musculus) [TaxId: 10090] [111031] (1)
          SQ Q8VDG3 162-248; structure of an RNA-binding domain (430-516) is also known: 1WHV
          1. 1ug8 picpic
            Structural genomics target
            1. chain a [107825] picpiclink
      3. R3H domain protein KIAA1002 [118015]
        1. Human (Homo sapiens) [TaxId: 9606] [118016] (1)
          SQ Q9Y2K5 133-343
          1. 1whr picpic
            Structural genomics target
            1. chain a [114650] picpiclink
  7. EPT/RTPC-like [55205] (2)
    link to SUPERFAMILY database - Superfamily
    1. RNA 3'-terminal phosphate cyclase, RPTC [55206] (1)
      duplication: 3 repeats of this fold are packed together around the pseudo threefold axis
      1. RNA 3'-terminal phosphate cyclase, RPTC [55207]
        also contains an insert alpha+beta domain of the thioredoxin-like topology
        1. Escherichia coli [TaxId: 562] [55208] (2)
          1. 1qmh picpicxref
            CASP3
            1. region a:5-184,a:280-338 [39568] picpiclink
            2. region b:5-184,b:280-339 [39569] picpiclink
          2. 1qmi picpicxref
            1. region a:5-184,a:280-339 [39570] picpiclink
            2. region b:5-184,b:280-339 [39571] picpiclink
            3. region c:5-184,c:280-339 [39572] picpiclink
            4. region d:5-184,d:280-339 [39573] picpiclink
    2. Enolpyruvate transferase, EPT [55209] (4)
      duplication: 6 repeats of this fold are organized in two RPTC-like domains
      1. UDP-N-acetylglucosamine enolpyruvyl transferase (EPT, MurA, MurZ) [55210]
        1. Escherichia coli [TaxId: 562] [55211] (2)
          1. 1uae picpic
            complexed with fcn, ud1
            1. chain a [39574] picpiclink
          2. 1a2n picpic
            complexed with tet; mutant
            1. chain a [39575] picpiclink
        2. Enterobacter cloacae [TaxId: 550] [55212] (11)
          SQ P33038
          1. 1ejd picpic
            complexed with asi, hai, po4
            1. chain a [39576] picpiclink
            2. chain b [39577] picpiclink
          2. 1eyn picpic
            complexed with 2an, asi, gol
            1. chain a [39578] picpiclink
          3. 1ejc picpic
            complexed with asi, gol, po4
            1. chain a [39579] picpiclink
          4. 1dlg picpic
            complexed with amc, asi, po4; mutant
            1. chain a [39580] picpiclink
            2. chain b [39581] picpiclink
          5. 1ryw picpic
            complexed with asi, epu, gol, po4; mutant
            1. chain a [111967] picpiclink
            2. chain b [111968] picpiclink
            3. chain c [111969] picpiclink
            4. chain d [111970] picpiclink
            5. chain e [111971] picpiclink
            6. chain f [111972] picpiclink
            7. chain g [111973] picpiclink
            8. chain h [111974] picpiclink
          6. 1naw picpic
            complexed with hai
            1. chain a [39582] picpiclink
            2. chain b [39583] picpiclink
          7. 1ybg picpic
            automatically matched to d1ejca_
            complexed with asi, tav
            1. region a:1-419 [122887] picpiclink
          8. 1ybg picpic
            automatically matched to d1ejca_
            complexed with asi, tav
            1. region b:1-419 [122888] picpiclink
          9. 1ybg picpic
            automatically matched to d1ejca_
            complexed with asi, tav
            1. region c:1-419 [122889] picpiclink
          10. 1ybg picpic
            automatically matched to d1ejca_
            complexed with asi, tav
            1. region d:1-419 [122890] picpiclink
          11. 1q3g picpic
            complexed with asi, egl, uda; mutant
            1. chain a [95672] picpiclink
            2. chain b [95673] picpiclink
            3. chain c [95674] picpiclink
            4. chain d [95675] picpiclink
            5. chain e [95676] picpiclink
            6. chain f [95677] picpiclink
            7. chain g [95678] picpiclink
            8. chain h [95679] picpiclink
            9. chain i [95680] picpiclink
            10. chain j [95681] picpiclink
            11. chain k [95682] picpiclink
            12. chain l [95683] picpiclink
            13. chain w [95684] picpiclink
            14. chain x [95685] picpiclink
            15. chain y [95686] picpiclink
            16. chain z [95687] picpiclink
      2. 5-enol-pyruvyl shikimate-3-phosphate (EPSP) synthase [55213]
        1. Escherichia coli [TaxId: 562] [55214] (12)
          SQ P07638
          1. 1g6s picpic
            complexed with fmt, gpj, s3p
            1. chain a [39584] picpiclink
          2. 2aa9 picpic
            automatically matched to d1g6sa_
            complexed with fmt, skm
            1. region a:1-427 [126469] picpiclink
          3. 1x8r picpic
            automatically matched to d1g6sa_
            complexed with fmt, sc1
            1. region a:1-427 [121805] picpiclink
          4. 2aay picpic
            automatically matched to d1g6sa_
            complexed with fmt, gpj, skm
            1. region a:1-427 [126500] picpiclink
          5. 1g6t picpic
            complexed with fmt, po4, s3p
            1. chain a [39585] picpiclink
          6. 1q36 picpic
            complexed with fmt, skp; mutant
            1. chain a [95662] picpiclink
          7. 2pq9 picpic
            automatically matched to d1g6sa_
            complexed with fmt, gg9
            1. region a:1-427 [149787] picpiclink
          8. 1mi4 picpic
            complexed with fmt, s3p; mutant
            1. chain a [79141] picpiclink
          9. 1x8t picpic
            automatically matched to d1g6sa_
            complexed with fmt, rc1
            1. region a:1-427 [121806] picpiclink
          10. 1eps picpic
            CA-atoms only
            1. chain a [39586] picpiclink
          11. 1p88 picpic
            isolated N-terminal domain
            1. chain a [111631] picpiclink
          12. 1p89 picpic
            isolated N-terminal domain
            1. chain a [111632] picpiclink
        2. Streptococcus pneumoniae [TaxId: 1313] [103061] (3)
          1. 1rf6 picpic
            complexed with gpj, s3p
            1. chain a [97366] picpiclink
            2. chain b [97367] picpiclink
            3. chain c [97368] picpiclink
            4. chain d [97369] picpiclink
          2. 1rf4 picpic
            complexed with spq
            1. chain a [97358] picpiclink
            2. chain b [97359] picpiclink
            3. chain c [97360] picpiclink
            4. chain d [97361] picpiclink
          3. 1rf5 picpic
            1. chain a [97362] picpiclink
            2. chain b [97363] picpiclink
            3. chain c [97364] picpiclink
            4. chain d [97365] picpiclink
  8. SMR domain-like [160443] (1)
    1. Smr domain [160444] (1)
      Pfam 01713
      1. Nedd4-binding protein 2 [160445]
        1. Human (Homo sapiens) [TaxId: 9606] [160446] (1)
          SQ Q86UW6 1688-1770
          1. 2d9i picpic
            1. region a:8-90 [146475] 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