Fold: Cytidine deaminase-like

core: alpha-beta(2)-(alpha-beta)2; 3 layers (a/b/a); mixed beta-sheet of 4 strands, order 2134; strand 1 is antiparallel to the rest

Lineage:

1. Root: scop
2. Class: Alpha and beta proteins (a/b) [51349]
   Mainly parallel beta sheets (beta-alpha-beta units)
3. Fold: Cytidine deaminase-like [53926]
   core: alpha-beta(2)-(alpha-beta)2; 3 layers (a/b/a); mixed beta-sheet of 4 strands, order 2134; strand 1 is antiparallel to the rest

Superfamilies:

1. Cytidine deaminase-like [53927] (5)
   contains extra C-terminal strand 5, order 21345
   uperfamily
   1. Cytidine deaminase [53928] (7)
      strand 5 is antiparallel to strand 4
      1. mono-domain cytidine deaminase [75327]
         1. Bacillus subtilis [TaxId: 1423] [75328] (4)
            SQ P19079
            1. 1uwz
               complexed with thu, zn; mutant
               1. chain a [108081]
               2. chain b [108082]
            2. 1ux0
               complexed with thu, zn; mutant
               1. chain a [108083]
               2. chain b [108084]
            3. 1jtk
               complexed with thu, zn
               1. chain a [71862]
               2. chain b [71863]
            4. 1ux1
               complexed with thu, trs, zn; mutant
               1. chain a [108085]
               2. chain b [108086]
               3. chain c [108087]
               4. chain d [108088]
         2. Human (Homo sapiens) [TaxId: 9606] [102711] (1)
            1. 1mq0
               complexed with brd, zn; mutant
               1. chain a [91389]
               2. chain b [91390]
         3. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [110764] (1)
            SQ Q06549
            1. 1r5t
               complexed with zn
               1. chain a [104812]
               2. chain b [104813]
               3. chain c [104814]
               4. chain d [104815]
         4. Bacillus anthracis [TaxId: 1392] [142829] (2)
            SQ Q81LT6 1-124
            1. 2d30
               complexed with zn
               1. region a:1-124 [131190]
            2. 2d30
               automatically matched to 2D30 A:1-124
               complexed with zn
               1. region b:1-124 [131191]
         5. Mouse (Mus musculus) [TaxId: 10090] [142830] (12)
            SQ P56389 10-146
            1. 2fr5
               automatically matched to 1ZAB A:10-146
               complexed with so4, tyu, zn
               1. region a:11-146 [133965]
            2. 2fr5
               automatically matched to 1ZAB A:10-146
               complexed with so4, tyu, zn
               1. region b:11-144 [133966]
            3. 2fr5
               automatically matched to 1ZAB A:10-146
               complexed with so4, tyu, zn
               1. region c:10-143 [133967]
            4. 2fr5
               automatically matched to 1ZAB A:10-146
               complexed with so4, tyu, zn
               1. region d:11-146 [133968]
            5. 2fr6
               automatically matched to 1ZAB A:10-146
               complexed with ctn, nh3, so4, uri, zn
               1. region a:10-146 [133969]
            6. 2fr6
               automatically matched to 1ZAB A:10-146
               complexed with ctn, nh3, so4, uri, zn
               1. region b:10-144 [133970]
            7. 2fr6
               automatically matched to 1ZAB A:10-146
               complexed with ctn, nh3, so4, uri, zn
               1. region c:10-142 [133971]
            8. 2fr6
               automatically matched to 1ZAB A:10-146
               complexed with ctn, nh3, so4, uri, zn
               1. region d:10-146 [133972]
            9. 1zab
               complexed with so4, urd, zn
               1. region a:10-146 [124818]
            10. 1zab
                automatically matched to 1ZAB A:10-146
                complexed with so4, urd, zn
                1. region b:10-143 [124819]
            11. 1zab
                automatically matched to 1ZAB A:10-146
                complexed with so4, urd, zn
                1. region c:10-144 [124820]
            12. 1zab
                automatically matched to 1ZAB A:10-146
                complexed with so4, urd, zn
                1. region d:10-146 [124821]
      2. Two-domain cytidine deaminase [53929]
         duplication: consists of two similar domains; contains extra helices in the N-terminal domain
         1. Escherichia coli [TaxId: 562] [53930] (4)
            1. 1aln
               complexed with ctd, zn
               1. region a:1-150 [36020]
               2. region a:151-294 [36021]
            2. 1ctt
               complexed with dhz, zn
               1. region a:1-150 [36022]
               2. region a:151-294 [36023]
            3. 1ctu
               complexed with zeb, zn
               1. region a:1-150 [36024]
               2. region a:151-294 [36025]
            4. 1af2
               complexed with zn
               1. region a:1-150 [36026]
               2. region a:151-294 [36027]
      3. Blasticidin-S deaminase [142831]
         1. Aspergillus terreus [TaxId: 33178] [142832] (14)
            SQ P78986 2-126
            1. 2z3g
               automatically matched to d1wn5a1
               complexed with tre, zn
               1. region a:2-124 [153994]
            2. 2z3g
               automatically matched to d1wn5a1
               complexed with tre, zn
               1. region b:2-124 [153995]
            3. 2z3g
               automatically matched to d1wn5a1
               complexed with tre, zn
               1. region c:2-124 [153996]
            4. 2z3g
               automatically matched to d1wn5a1
               complexed with tre, zn
               1. region d:2-123 [153997]
            5. 2z3h
               automatically matched to d1wn5a1
               complexed with blo, zn
               1. region a:3-124 [153998]
            6. 2z3h
               automatically matched to d1wn5a1
               complexed with blo, zn
               1. region b:3-124 [153999]
            7. 2z3h
               automatically matched to d1wn5a1
               complexed with blo, zn
               1. region c:3-124 [154000]
            8. 2z3h
               automatically matched to d1wn5a1
               complexed with blo, zn
               1. region d:3-123 [154001]
            9. 1wn5
               complexed with cac, zn
               1. region a:2-126 [121082]
            10. 1wn5
                automatically matched to 1WN5 A:2-126
                complexed with cac, zn
                1. region b:2-126 [121083]
            11. 1wn5
                automatically matched to 1WN5 A:2-126
                complexed with cac, zn
                1. region c:2-126 [121084]
            12. 1wn5
                automatically matched to 1WN5 A:2-126
                complexed with cac, zn
                1. region d:2-126 [121085]
            13. 1wn6
                automatically matched to 1WN5 A:2-126
                complexed with ars, bst, zn
                1. region a:4-126 [121086]
            14. 1wn6
                automatically matched to 1WN5 A:2-126
                complexed with ars, bst, zn
                1. region b:3-126 [121087]
   2. Deoxycytidylate deaminase-like [89800] (10)
      strand 5 is parallel to strand 4
      1. Cytosine deaminase [89801]
         1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [89802] (8)
            1. 1p6o
               complexed with acy, ca, hpy, zn
               1. chain a [94185]
               2. chain b [94186]
            2. 1ox7
               complexed with ca, zn
               1. chain a [93669]
               2. chain b [93670]
            3. 1uaq
               complexed with duc, zn
               1. chain a [88386]
               2. chain b [88387]
            4. 1ysb
               complexed with ca, zn; mutant
               1. region a:3-158 [123966]
            5. 1ysb
               automatically matched to 1YSB A:3-158
               complexed with ca, zn; mutant
               1. region b:203-358 [123967]
            6. 1ysd
               complexed with ca, zn; mutant
               1. region a:3-158 [123968]
            7. 1ysd
               automatically matched to 1YSD A:3-158
               complexed with ca, zn; mutant
               1. region b:203-358 [123969]
            8. 1rb7
               complexed with zn
               1. chain a [97277]
               2. chain b [97278]
      2. Guanine deaminase GuaD [110765]
         1. Bacillus subtilis [TaxId: 1423] [110766] (2)
            SQ O34598
            1. 1wkq
               complexed with imd, zn
               1. chain a [109393]
               2. chain b [109394]
            2. 1tiy
               Structural genomics target
               complexed with zn
               1. chain a [107012]
               2. chain b [107013]
      3. Deoxycytidylate deaminase [117756]
         1. Bacteriophage T4 [TaxId: 10665] [117757] (1)
            SQ P16006
            1. 1vq2
               complexed with ddn, zn; mutant
               1. chain a [114004]
      4. Putative deaminase NE0047 [142833]
         1. Nitrosomonas europaea [TaxId: 915] [142834] (1)
            SQ Q82Y41 1-189
            1. 2g84
               complexed with bme, edo, na, zn
               1. region a:1-189 [134766]
      5. Cytidine and deoxycytidylate deaminase CodA [142835]
         1. Agrobacterium tumefaciens [TaxId: 358] [142836] (2)
            SQ Q8UHJ4 2-131
            1. 2a8n
               complexed with zn
               1. region a:2-131 [126408]
            2. 2a8n
               automatically matched to 2A8N A:2-131
               complexed with zn
               1. region b:4-131 [126409]
      6. Riboflavin biosynthesis protein RibD [142837]
         1. Bacillus subtilis [TaxId: 1423] [142838] (8)
            SQ P17618 1-145
            1. 2b3z
               complexed with zn
               1. region a:1-145 [127808]
            2. 2b3z
               automatically matched to 2B3Z A:1-145
               complexed with zn
               1. region b:1-145 [127810]
            3. 2b3z
               automatically matched to 2B3Z A:1-145
               complexed with zn
               1. region c:1-145 [127812]
            4. 2b3z
               automatically matched to 2B3Z A:1-145
               complexed with zn
               1. region d:1-145 [127814]
            5. 2d5n
               automatically matched to 2B3Z A:1-145
               complexed with ndp, zn
               1. region a:1-145 [131274]
            6. 2d5n
               automatically matched to 2B3Z A:1-145
               complexed with ndp, zn
               1. region b:1-145 [131276]
            7. 2d5n
               automatically matched to 2B3Z A:1-145
               complexed with ndp, zn
               1. region c:1-145 [131278]
            8. 2d5n
               automatically matched to 2B3Z A:1-145
               complexed with ndp, zn
               1. region d:1-145 [131280]
         2. Thermotoga maritima [TaxId: 2336] [142839] (1)
            SQ Q9X2E8 1-147
            1. 2hxv
               complexed with cl, gol, ndp, zn
               1. region a:1-147 [136860]
      7. tRNA adenosine deaminase TadA [142840]
         1. Staphylococcus aureus [TaxId: 1280] [142841] (4)
            SQ Q99W51 1-151
            1. 2b3j
               complexed with gol, pr5, zn
               1. region a:1-151 [127787]
            2. 2b3j
               automatically matched to 2B3J A:1-151
               complexed with gol, pr5, zn
               1. region b:1-151 [127788]
            3. 2b3j
               automatically matched to 2B3J A:1-151
               complexed with gol, pr5, zn
               1. region c:1-151 [127789]
            4. 2b3j
               automatically matched to 2B3J A:1-151
               complexed with gol, pr5, zn
               1. region d:3-151 [127790]
         2. Escherichia coli [TaxId: 562] [142842] (2)
            SQ P68398 13-168
            1. 1z3a
               complexed with zn
               1. region a:13-168 [124396]
            2. 1z3a
               automatically matched to 1Z3A A:13-168
               complexed with zn
               1. region b:13-168 [124397]
         3. Aquifex aeolicus [TaxId: 63363] [142843] (4)
            SQ O67050 1-151
            1. 1wwr
               complexed with zn
               1. region a:1-151 [121366]
            2. 1wwr
               automatically matched to 1WWR A:1-151
               complexed with zn
               1. region b:1-149 [121367]
            3. 1wwr
               automatically matched to 1WWR A:1-151
               complexed with zn
               1. region c:1-151 [121368]
            4. 1wwr
               automatically matched to 1WWR A:1-151
               complexed with zn
               1. region d:1-151 [121369]
   3. Hypothetical protein TM1506 [110651] (1)
      strand 5 is parallel to strand 4
      1. Hypothetical protein TM1506 [110652]
         1. Thermotoga maritima [TaxId: 2336] [110653] (1)
            SQ Q9X1J4
            1. 1vk9
               Structural genomics target
               complexed with unl, zn
               1. chain a [108640]
   4. AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC [64198] (3)
      duplication: consists of two domains of this fold with extra secondary structures within and in between the two core motifs
      1. AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC [64199]
         1. Chicken (Gallus gallus) [TaxId: 9031] [64200] (4)
            SQ P31335
            1. 1g8m
               complexed with g, k; mutant
               1. region a:201-593 [60372]
               2. region b:201-593 [60374]
            2. 1thz
               complexed with 326, k
               1. region a:201-593 [106922]
               2. region b:201-593 [106924]
            3. 1m9n
               complexed with amz, k, xmp
               1. region a:201-593 [78871]
               2. region b:201-593 [78873]
            4. 1oz0
               complexed with k, ms1, po4
               1. region a:201-593 [93777]
               2. region b:201-593 [93779]
         2. Human (Homo sapiens) [TaxId: 9606] [102716] (3)
            1. 1pkx
               complexed with k, xmp
               1. region a:201-592 [94839]
               2. region b:201-592 [94841]
               3. region c:201-592 [94843]
               4. region d:201-592 [94845]
            2. 1p4r
               complexed with 354, amz, k, xmp
               1. region a:201-592 [94114]
               2. region b:201-592 [94116]
            3. 1pl0
               complexed with ac4, bw2, k, xmp
               1. region a:201-592 [94847]
               2. region b:201-592 [94849]
               3. region c:201-592 [94851]
               4. region d:201-592 [94853]
         3. Thermotoga maritima [TaxId: 2336] [142844] (2)
            SQ Q9X0X6 158-452
            1. 1zcz
               complexed with k, pg4; mutant
               1. region a:158-452 [124924]
            2. 1zcz
               automatically matched to 1ZCZ A:158-452
               complexed with k, pg4; mutant
               1. region b:158-452 [124926]
   5. FdhD/NarQ [159821] (1)
      Pfam 02634; contains extra N-terminal beta-hairpin arm, involved in dimerization, and an alpha+beta subdomain of beta-grasp fold (scop_cf 54235)
      1. Uncharacterized protein DP1777 [159822]
         Related to formate dehydrogenase accessory protein FdhD
         1. Desulfotalea psychrophila [TaxId: 84980] [159823] (4)
            SQ Q6AMB9 7-257
            1. 2pw9
               complexed with so4
               1. region a:7-257 [149896]
            2. 2pw9
               automatically matched to 2PW9 A:7-257
               complexed with so4
               1. region b:7-257 [149897]
            3. 2pw9
               automatically matched to 2PW9 A:7-257
               complexed with so4
               1. region c:7-257 [149898]
            4. 2pw9
               automatically matched to 2PW9 A:7-257
               complexed with so4
               1. region d:7-257 [149899]
2. JAB1/MPN domain [102712] (1)
   uperfamily
   1. JAB1/MPN domain [102713] (1)
      Pfam 01398; synonyms Mov34, PAD-1;
      1. Hypothetical protein AF2198 [102714]
         1. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [102715] (2)
            1. 1oi0
               complexed with 144, zn
               1. chain a [93045]
               2. chain b [93046]
               3. chain c [93047]
               4. chain d [93048]
            2. 1r5x
               structural genomics
               complexed with zn
               1. chain a [97132]
               2. chain b [97133]

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