Query 036428
Match_columns 138
No_of_seqs 151 out of 1151
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 12:34:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036428.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036428hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10860 tRNA-specific adenosi 99.7 1.1E-16 2.4E-21 125.5 7.2 59 79-138 12-70 (172)
2 COG0590 CumB Cytosine/adenosin 99.6 8.4E-16 1.8E-20 118.1 6.3 62 76-138 4-66 (152)
3 TIGR02571 ComEB ComE operon pr 99.5 3.1E-14 6.8E-19 109.6 7.6 59 77-137 3-76 (151)
4 cd01286 deoxycytidylate_deamin 99.5 1.2E-13 2.7E-18 103.4 6.6 56 80-137 1-77 (131)
5 COG0117 RibD Pyrimidine deamin 99.5 2E-13 4.2E-18 105.7 7.3 58 77-138 3-61 (146)
6 KOG1018 Cytosine deaminase FCY 99.4 1.4E-13 2.9E-18 108.4 6.2 62 77-138 8-70 (169)
7 PF00383 dCMP_cyt_deam_1: Cyti 99.4 2.1E-13 4.6E-18 95.3 6.5 59 78-137 2-61 (102)
8 cd01285 nucleoside_deaminase N 99.4 1.3E-13 2.9E-18 99.3 5.5 54 84-138 1-55 (109)
9 PHA02588 cd deoxycytidylate de 99.4 3.3E-13 7.3E-18 105.4 7.3 57 79-137 2-90 (168)
10 PLN02807 diaminohydroxyphospho 99.4 1.7E-12 3.7E-17 112.5 7.7 58 77-138 29-87 (380)
11 cd01284 Riboflavin_deaminase-r 99.4 1.2E-12 2.6E-17 96.6 5.5 50 84-138 1-53 (115)
12 cd00786 cytidine_deaminase-lik 99.3 1.2E-12 2.6E-17 92.6 5.2 54 84-138 1-57 (96)
13 PRK10786 ribD bifunctional dia 99.3 3.7E-12 8E-17 109.3 7.0 56 79-138 2-58 (367)
14 TIGR00326 eubact_ribD riboflav 99.3 7.5E-12 1.6E-16 105.8 6.2 51 84-138 1-52 (344)
15 COG2131 ComEB Deoxycytidylate 98.8 1.4E-08 3E-13 80.1 7.0 57 78-136 7-85 (164)
16 cd01283 cytidine_deaminase Cyt 98.6 9.8E-08 2.1E-12 68.7 5.4 52 85-137 2-54 (112)
17 TIGR01354 cyt_deam_tetra cytid 98.4 6.8E-07 1.5E-11 66.7 6.1 54 83-137 3-57 (127)
18 KOG3127 Deoxycytidylate deamin 98.4 8.9E-07 1.9E-11 73.0 6.7 64 72-137 59-143 (230)
19 PRK06848 hypothetical protein; 97.3 0.0013 2.9E-08 50.2 7.1 58 77-136 4-62 (139)
20 PRK05578 cytidine deaminase; V 96.7 0.0077 1.7E-07 45.6 6.7 56 80-136 3-59 (131)
21 PRK12411 cytidine deaminase; P 96.2 0.025 5.3E-07 42.9 6.9 55 81-136 4-59 (132)
22 COG0295 Cdd Cytidine deaminase 95.8 0.037 8.1E-07 42.5 6.6 56 82-137 7-62 (134)
23 PRK08298 cytidine deaminase; V 95.1 0.1 2.2E-06 39.9 6.7 55 79-136 3-58 (136)
24 PLN02402 cytidine deaminase 94.7 0.11 2.5E-06 44.7 6.7 57 80-137 192-249 (303)
25 TIGR01355 cyt_deam_dimer cytid 94.5 0.14 3E-06 43.7 6.8 57 80-137 174-231 (283)
26 TIGR01355 cyt_deam_dimer cytid 94.3 0.15 3.3E-06 43.4 6.6 58 79-137 21-81 (283)
27 PRK09027 cytidine deaminase; P 94.0 0.18 3.9E-06 43.2 6.6 58 79-137 188-246 (295)
28 KOG0833 Cytidine deaminase [Nu 91.3 0.97 2.1E-05 36.3 6.8 56 81-137 22-78 (173)
29 PLN02402 cytidine deaminase 90.3 1.1 2.4E-05 38.6 6.8 57 80-137 25-84 (303)
30 PLN02182 cytidine deaminase 88.1 1.8 3.8E-05 38.0 6.6 46 91-137 56-104 (339)
31 PF08211 dCMP_cyt_deam_2: Cyti 87.8 1.6 3.4E-05 33.3 5.3 55 82-137 35-90 (124)
32 KOG2771 Subunit of tRNA-specif 85.0 1.4 3E-05 38.8 4.3 56 78-137 165-222 (344)
33 PRK09027 cytidine deaminase; P 84.8 4.2 9E-05 34.9 7.0 57 80-137 49-109 (295)
34 PF13540 RCC1_2: Regulator of 42.7 49 0.0011 18.5 3.3 20 102-121 9-28 (30)
35 COG1624 Uncharacterized conser 37.0 36 0.00078 28.6 3.0 28 104-131 174-207 (247)
36 COG4545 Glutaredoxin-related p 29.4 45 0.00097 23.9 2.0 15 101-115 63-77 (85)
37 PF13382 Adenine_deam_C: Adeni 28.1 1.3E+02 0.0029 23.7 4.7 31 79-116 73-103 (171)
38 TIGR00159 conserved hypothetic 28.0 56 0.0012 26.9 2.6 28 104-131 127-159 (211)
39 TIGR02373 photo_yellow photoac 25.2 80 0.0017 24.1 2.8 23 99-123 23-46 (124)
40 PF02457 DisA_N: DisA bacteria 22.1 57 0.0012 24.3 1.5 20 104-123 57-76 (122)
No 1
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=99.67 E-value=1.1e-16 Score=125.52 Aligned_cols=59 Identities=31% Similarity=0.451 Sum_probs=55.2
Q ss_pred hHHHHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 79 RDHEFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
+|++||++|+++|+++...++ .|||||||++|+||++|||+....+||+.|||++|||+
T Consensus 12 ~~~~~m~~A~~~A~~a~~~g~-~pvGAVIV~~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~ 70 (172)
T PRK10860 12 SHEYWMRHALTLAKRAWDERE-VPVGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMALRQ 70 (172)
T ss_pred cHHHHHHHHHHHHHHhhccCC-CCEEEEEEeCCEEEEEeeCCCCCCCCCccCHHHHHHHH
Confidence 478899999999999998876 99999999999999999999999999999999999973
No 2
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=99.61 E-value=8.4e-16 Score=118.12 Aligned_cols=62 Identities=39% Similarity=0.660 Sum_probs=57.2
Q ss_pred CchhHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 76 VQDRDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 76 ~~~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
..++|..||++|+++|+++...|+ .|||||||+ +|+||+.|+|+..+.+||++|||+.|||+
T Consensus 4 ~~~~~~~~m~~al~~A~~a~~~ge-~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~ 66 (152)
T COG0590 4 LSEKDEDFMREALKEAKKAGDEGE-VPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRA 66 (152)
T ss_pred hhhhhHHHHHHHHHHHHHHHhcCC-CCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHH
Confidence 346789999999999999997665 999999999 99999999999999999999999999984
No 3
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=99.52 E-value=3.1e-14 Score=109.63 Aligned_cols=59 Identities=22% Similarity=0.222 Sum_probs=51.5
Q ss_pred chhHHHHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEEEecCcccCC---------------CCcchHHHHHhc
Q 036428 77 QDRDHEFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVSCHNMVLKHT---------------DPTAHAEVTAVR 137 (138)
Q Consensus 77 ~~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~G~N~~~~~~---------------DpTaHAE~~AIr 137 (138)
+.+|++||++|+++|+++.+ . +.|||||||+||+||++|||+..+.. +++.|||++||+
T Consensus 3 ~~~d~~fM~~A~~~A~rs~~-~-~~~VGAVIV~d~~IIs~GyN~~~~g~~~~~~~~~~~~~~~~~~~~HAE~nAI~ 76 (151)
T TIGR02571 3 IKWDQYFMAQSHLLALRSTC-T-RLSVGATIVRDKRIIAGGYNGSVAGGVHCIDEGCYVVDGHCVRTIHAEMNALL 76 (151)
T ss_pred CcHHHHHHHHHHHHHHhcCC-C-CCCEEEEEEECCEEEEEEECCCCCCCCccccccccccccccCCccCHHHHHHH
Confidence 46789999999999999854 3 48999999999999999999986543 588999999996
No 4
>cd01286 deoxycytidylate_deaminase Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the enzyme is allosterically regulated by the ratio of dCTP to dTTP not only in eukaryotic cells but also in T-even phage-infected Escherichia coli, with dCTP acting as an activator and dTTP as an inhibitor.
Probab=99.46 E-value=1.2e-13 Score=103.36 Aligned_cols=56 Identities=25% Similarity=0.258 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEEEecCcc---------------------cCCCCcchHHHHHhc
Q 036428 80 DHEFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVSCHNMVL---------------------KHTDPTAHAEVTAVR 137 (138)
Q Consensus 80 D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~G~N~~~---------------------~~~DpTaHAE~~AIr 137 (138)
|+.||++|+++|+++... +.|||||||++|+||++|||+.. ...+++.|||++||+
T Consensus 1 d~~~m~~A~~~A~~s~~~--~~~VGAViv~~~~iI~~G~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HAE~~Ai~ 77 (131)
T cd01286 1 DEYFMAIARLAALRSTCP--RRQVGAVIVKDKRIISTGYNGSPSGLPHCAEVGCERDDLPSGEDQKCCRTVHAEQNAIL 77 (131)
T ss_pred CHHHHHHHHHHHHHcCCC--CCCEEEEEEECCEEEEEeeCCCCCCCCCcccccccccccccccccccCCCCCHHHHHHH
Confidence 467999999999998763 49999999999999999999975 356799999999996
No 5
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=99.45 E-value=2e-13 Score=105.69 Aligned_cols=58 Identities=29% Similarity=0.375 Sum_probs=50.9
Q ss_pred chhHHHHHHHHHHHHHhcccCC-CCCcEEEEEEeCCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 77 QDRDHEFLSKAVEEAYKGVECG-DGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 77 ~~~D~~~Mr~AIelA~ka~~~g-~~~PVGAVIV~dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
.+.|+.||++|+++|+++.... +|++||||||+||+||++|++... +.+|||+.||++
T Consensus 3 ~~~~~~~M~~Al~lA~k~~g~T~pNP~VG~VIV~~~~Ivg~G~h~~a----G~pHAEv~Al~~ 61 (146)
T COG0117 3 SELDERYMERALELAEKGQGTTSPNPSVGCVIVKDGEIVGEGYHEKA----GGPHAEVCALRM 61 (146)
T ss_pred chHHHHHHHHHHHHHHhcCCcCCCCCceeEEEEECCEEEeeeecCCC----CCCcHHHHHHHH
Confidence 3568999999999999977654 689999999999999999999874 568999999974
No 6
>KOG1018 consensus Cytosine deaminase FCY1 and related enzymes [Nucleotide transport and metabolism]
Probab=99.45 E-value=1.4e-13 Score=108.36 Aligned_cols=62 Identities=52% Similarity=0.708 Sum_probs=58.0
Q ss_pred chhHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 77 QDRDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 77 ~~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
.+.|.+||+.|+++|+++.+.+.++|||||+|+ ||+|+++|+|++.+.+|+|+|||+.+|++
T Consensus 8 ~~~~~~~m~~a~eea~ka~d~~~~~pvg~vlV~~~g~v~a~g~n~~~~~~d~t~HaE~~~I~~ 70 (169)
T KOG1018|consen 8 SDHDIAFMVEAVEEAKKALDEGDEVPVGAVLVHMDGKVLASGGNMVNEKKDPTAHAEVIAIRE 70 (169)
T ss_pred ccccHHHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEecccceecccCCcchhhHHHHHhh
Confidence 456899999999999999999956999999999 99999999999999999999999999974
No 7
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=99.45 E-value=2.1e-13 Score=95.30 Aligned_cols=59 Identities=36% Similarity=0.563 Sum_probs=53.3
Q ss_pred hhHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 78 DRDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 78 ~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
++|++||++|+++|+++...+ +.|||||||+ +|++|+.|+|......+++.|||++||.
T Consensus 2 ~~~~~~m~~a~~~a~~s~~~~-~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~ 61 (102)
T PF00383_consen 2 EWDEEFMRIAIELAKRSRPCG-NFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIR 61 (102)
T ss_dssp CHHHHHHHHHHHHHHTHBTTT-SSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHhccccC-CCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhh
Confidence 579999999999999998555 4999999999 8999999999999889999999999986
No 8
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protei
Probab=99.44 E-value=1.3e-13 Score=99.33 Aligned_cols=54 Identities=44% Similarity=0.668 Sum_probs=49.9
Q ss_pred HHHHHHHHHhcccCCCCCcEEEEEEeC-CeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 84 LSKAVEEAYKGVECGDGGPFGAVVVRS-DEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 84 Mr~AIelA~ka~~~g~~~PVGAVIV~d-GeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
|++|+++|+++...++ .||||+||++ |+||++|+|+..+.+|++.|||++||++
T Consensus 1 m~~al~~a~~~~~~~~-~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~ 55 (109)
T cd01285 1 MRLAIELARKALAEGE-VPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRN 55 (109)
T ss_pred CHHHHHHHHHHHHcCC-CcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHH
Confidence 6899999999988775 9999999985 9999999999999999999999999974
No 9
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=99.43 E-value=3.3e-13 Score=105.42 Aligned_cols=57 Identities=19% Similarity=0.201 Sum_probs=49.5
Q ss_pred hHHHHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEEEecCcccC--------------------------------CC
Q 036428 79 RDHEFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVSCHNMVLKH--------------------------------TD 126 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~G~N~~~~~--------------------------------~D 126 (138)
.|++||++|+++|+++.. . +.|||||||+||+||++|||..... .+
T Consensus 2 ~d~~fM~~A~~~A~~s~~-~-~~~VGAVIV~~~~Iis~GyNg~p~g~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (168)
T PHA02588 2 KDSTYLQIAYLVSQESKC-V-SWKVGAVIEKNGRIISTGYNGTPAGGVNCCDHANEQGWLDDEGKLKKEHRPEHSAWSSK 79 (168)
T ss_pred CHHHHHHHHHHHHHhcCC-C-CCCEEEEEEECCEEEEEEeCCCCcCCcccccccccccccccccccccccccccccccCC
Confidence 478899999999999965 3 4899999999999999999987543 36
Q ss_pred CcchHHHHHhc
Q 036428 127 PTAHAEVTAVR 137 (138)
Q Consensus 127 pTaHAE~~AIr 137 (138)
++.|||++||+
T Consensus 80 ~~~HAE~nAi~ 90 (168)
T PHA02588 80 NEIHAELNAIL 90 (168)
T ss_pred CCccHHHHHHH
Confidence 78999999996
No 10
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=99.36 E-value=1.7e-12 Score=112.46 Aligned_cols=58 Identities=29% Similarity=0.429 Sum_probs=50.3
Q ss_pred chhHHHHHHHHHHHHHhcccCCC-CCcEEEEEEeCCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 77 QDRDHEFLSKAVEEAYKGVECGD-GGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 77 ~~~D~~~Mr~AIelA~ka~~~g~-~~PVGAVIV~dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
+.+|++||++|+++|+++...+. ++|||||||+||+||++|||+.. ++.|||++||++
T Consensus 29 ~~~d~~~M~~Al~lA~~~~~~~~~np~VGaViV~~g~Ii~~g~n~~~----g~~HAEi~Ai~~ 87 (380)
T PLN02807 29 GDDDSFYMRRCVELARKAIGCTSPNPMVGCVIVKDGRIVGEGFHPKA----GQPHAEVFALRD 87 (380)
T ss_pred CchHHHHHHHHHHHHHhhcccCCCCCCEEEEEEECCEEEEEEeCCCC----CCcCHHHHHHHH
Confidence 35688999999999999987663 57899999999999999999873 568999999974
No 11
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the biosynthesis of riboflavin.The ribG gene of Bacillus subtilis and the ribD gene of E. coli are bifunctional and contain this deaminase domain and a reductase domain which catalyzes the subsequent reduction of the ribosyl side chain.
Probab=99.35 E-value=1.2e-12 Score=96.64 Aligned_cols=50 Identities=32% Similarity=0.416 Sum_probs=44.3
Q ss_pred HHHHHHHHHhc--ccCCCCCcEEEEEEeC-CeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 84 LSKAVEEAYKG--VECGDGGPFGAVVVRS-DEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 84 Mr~AIelA~ka--~~~g~~~PVGAVIV~d-GeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
|++|+++|+++ ...++ .|||||||++ |+||++|+|+.. ++.|||++||++
T Consensus 1 m~~al~~A~~~~~~~~~~-~pvGaviv~~~g~iv~~g~n~~~----~~~HAE~~ai~~ 53 (115)
T cd01284 1 MRRALELAEKGRGLTSPN-PPVGCVIVDDDGEIVGEGYHRKA----GGPHAEVNALAS 53 (115)
T ss_pred CHHHHHHHHhcccccCCC-CCEEEEEEeCCCeEEEEecCCCC----CcccHHHHHHHH
Confidence 78999999999 55554 9999999985 999999999974 899999999974
No 12
>cd00786 cytidine_deaminase-like Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate.
Probab=99.35 E-value=1.2e-12 Score=92.63 Aligned_cols=54 Identities=24% Similarity=0.165 Sum_probs=48.5
Q ss_pred HHHHHHHHHhcc-cCCCCCcEEEEEEeC--CeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 84 LSKAVEEAYKGV-ECGDGGPFGAVVVRS--DEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 84 Mr~AIelA~ka~-~~g~~~PVGAVIV~d--GeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
|++|+++|+++. ..+ +.||||+||++ |+++++|+|...+.+|++.|||++||++
T Consensus 1 m~~a~~~a~~a~~~~~-~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~ 57 (96)
T cd00786 1 MTEALKAADLGYAKES-NFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFN 57 (96)
T ss_pred CHHHHHHHHhccCCCC-CCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHH
Confidence 789999999994 445 59999999975 9999999999999999999999999973
No 13
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=99.31 E-value=3.7e-12 Score=109.34 Aligned_cols=56 Identities=27% Similarity=0.344 Sum_probs=48.2
Q ss_pred hHHHHHHHHHHHHHhcccCC-CCCcEEEEEEeCCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 79 RDHEFLSKAVEEAYKGVECG-DGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g-~~~PVGAVIV~dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
.|++||++|+++|+++...+ +++|||||||+||+||++|||+.. ++.|||++||++
T Consensus 2 ~d~~~m~~A~~~A~~~~~~~~~~~~vGaviv~~g~ii~~g~n~~~----g~~HAE~~ai~~ 58 (367)
T PRK10786 2 QDEFYMARALKLAQRGRFTTHPNPNVGCVIVKDGEIVGEGYHQRA----GEPHAEVHALRM 58 (367)
T ss_pred CHHHHHHHHHHHHHhcCcCCCCCCCEEEEEEeCCEEEEEEeCCCC----CCCCHHHHHHHH
Confidence 36889999999999997543 459999999999999999999863 468999999974
No 14
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD. This model describes the ribD protein as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region captured in the model dCMP_cyt_deam and shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins believed related to riboflavin biosynthesis contain only this C-terminal domain and are not found as full-length matches to this model.
Probab=99.26 E-value=7.5e-12 Score=105.77 Aligned_cols=51 Identities=29% Similarity=0.393 Sum_probs=45.8
Q ss_pred HHHHHHHHHhcccCC-CCCcEEEEEEeCCeEEEEEecCcccCCCCcchHHHHHhcC
Q 036428 84 LSKAVEEAYKGVECG-DGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVRE 138 (138)
Q Consensus 84 Mr~AIelA~ka~~~g-~~~PVGAVIV~dGeIIa~G~N~~~~~~DpTaHAE~~AIr~ 138 (138)
|++|+++|+++...+ +++|||||||+||+||++|||+. .++.|||++||++
T Consensus 1 m~~a~~~a~~~~~~~~~~~~vGaviv~~~~ii~~g~n~~----~~~~HAE~~ai~~ 52 (344)
T TIGR00326 1 MNRALDLAKKGQGTTHPNPLVGCVIVKNGEIVGEGAHQK----AGEPHAEVHALRQ 52 (344)
T ss_pred CHHHHHHHHhcCCCCCCCCCEEEEEEeCCEEEEEeeCCC----CCCCCHHHHHHHH
Confidence 889999999998765 35899999999999999999986 4789999999974
No 15
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=98.80 E-value=1.4e-08 Score=80.08 Aligned_cols=57 Identities=26% Similarity=0.260 Sum_probs=48.6
Q ss_pred hhHHHHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEEEecCcccCCC----------------------CcchHHHHH
Q 036428 78 DRDHEFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVSCHNMVLKHTD----------------------PTAHAEVTA 135 (138)
Q Consensus 78 ~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~G~N~~~~~~D----------------------pTaHAE~~A 135 (138)
.+|++||+.|...|.++.+.. .-||||||+|++||+.|||......+ -+-|||++|
T Consensus 7 ~wdeyfm~~A~l~a~Rstc~r--~~VGAvIvkd~rIiatGYNG~p~g~~~c~~~g~~~~~~~~~~~~~~~~r~vHAE~NA 84 (164)
T COG2131 7 MWDEYFMAIAELVALRSTCPR--RQVGAVIVKDGRIIATGYNGAPSGEDHCIDRGCLRDKVVFVTTCGHCCRTLHAEQNA 84 (164)
T ss_pred HHHHHHHHHHHHHHHHccCcc--cceeEEEEeCCeEEEeecCCCCcccCCcCccCceecccccccchhHHHHHHHHHHHH
Confidence 589999999999999988753 77999999999999999998866432 156999999
Q ss_pred h
Q 036428 136 V 136 (138)
Q Consensus 136 I 136 (138)
|
T Consensus 85 i 85 (164)
T COG2131 85 I 85 (164)
T ss_pred H
Confidence 7
No 16
>cd01283 cytidine_deaminase Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.
Probab=98.59 E-value=9.8e-08 Score=68.66 Aligned_cols=52 Identities=19% Similarity=0.064 Sum_probs=44.1
Q ss_pred HHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 85 SKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 85 r~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
++|++.++++.....+.||||+++. +|+|+ .|+|......+++.|||+.||+
T Consensus 2 ~~a~~~~~~a~~~~~~~~vga~i~~~~g~i~-~G~n~e~~~~~~~~hAE~~ai~ 54 (112)
T cd01283 2 EAALAAAEFAYAPYSNFTVGAALLTKDGRIF-TGVNVENASYGLTLCAERTAIG 54 (112)
T ss_pred HHHHHHHHhCcCCCCCCeEEEEEEECCCCEE-EeEEeecCCCCCCcCHHHHHHH
Confidence 4678888888555446999999996 68887 8999998889999999999986
No 17
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric. This small, homotetrameric zinc metalloprotein is found in humans and most bacteria. A related, homodimeric form with a much larger subunit is found in E. coli and in Arabidopsis. Both types may act on deoxycytidine as well as cytidine.
Probab=98.41 E-value=6.8e-07 Score=66.72 Aligned_cols=54 Identities=17% Similarity=0.076 Sum_probs=47.2
Q ss_pred HHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 83 FLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 83 ~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
..+.|.+.+++++....+.||||+++. ||+|+. |.|......+++.|||+.||+
T Consensus 3 l~~~a~~a~~~ay~PyS~~~vgAa~~~~~G~i~~-G~n~e~~~~~~s~~AE~~Ai~ 57 (127)
T TIGR01354 3 LFKAAQEARKNAYAPYSNFKVGAALLTKDGRIFT-GVNVENASYPLTICAERSAIG 57 (127)
T ss_pred HHHHHHHHHHhcCCCcCCCeEEEEEEeCCCCEEE-EEeecccCCCCCcCHHHHHHH
Confidence 567888899999876556999999996 789888 999998889999999999986
No 18
>KOG3127 consensus Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=98.38 E-value=8.9e-07 Score=73.01 Aligned_cols=64 Identities=20% Similarity=0.211 Sum_probs=51.6
Q ss_pred ccccCchhHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCC--------------------Ccch
Q 036428 72 HQEAVQDRDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTD--------------------PTAH 130 (138)
Q Consensus 72 ~~~~~~~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~D--------------------pTaH 130 (138)
.+....+||.+||+.|...|+++.+. +..|||+||. ++.||+.|||......+ -+-|
T Consensus 59 k~~~~lswd~yFM~iA~LsA~RSkDp--ntqVGaCiv~~~n~iVg~GYNgfP~gc~~~vfp~~~~~~~~~~~~k~~yv~H 136 (230)
T KOG3127|consen 59 KRNGYLSWDDYFMAIAFLSAKRSKDP--NTQVGACIVDRENRIVGTGYNGFPRGCSDDVFPWCKAALSTNLDLKYCYVVH 136 (230)
T ss_pred ccccCccHHHHHHHHHHHHHHhccCc--ccceeeEEEcCCCEEEEeccCCCcCCCCCCCCcccccccccCCCcceEEEee
Confidence 34556889999999999999998764 4889977775 89999999998765421 2579
Q ss_pred HHHHHhc
Q 036428 131 AEVTAVR 137 (138)
Q Consensus 131 AE~~AIr 137 (138)
||.+||-
T Consensus 137 AE~NAi~ 143 (230)
T KOG3127|consen 137 AEENAIL 143 (230)
T ss_pred hHHHHHH
Confidence 9999984
No 19
>PRK06848 hypothetical protein; Validated
Probab=97.25 E-value=0.0013 Score=50.21 Aligned_cols=58 Identities=19% Similarity=0.139 Sum_probs=47.9
Q ss_pred chhHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHh
Q 036428 77 QDRDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAV 136 (138)
Q Consensus 77 ~~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AI 136 (138)
++.++++++.|.+..++++.. .+.+|||++.. ||+|. .|.|-.......+-|||..||
T Consensus 4 ~~~~~~L~~~A~~a~~~ay~p-s~f~VgAa~l~~~G~i~-~G~NvEnas~~~tiCAEr~Ai 62 (139)
T PRK06848 4 NSEDYELIKAAEKVIEKRYRN-DWHHVGAALRTKTGRIY-AAVHLEAYVGRITVCAEAIAI 62 (139)
T ss_pred CHHHHHHHHHHHHHHHhccCC-CCCcEEEEEEeCCCCEE-EEEEeecCCCCcccCHHHHHH
Confidence 345678999999999999876 56999999996 77754 899987767778999999987
No 20
>PRK05578 cytidine deaminase; Validated
Probab=96.67 E-value=0.0077 Score=45.57 Aligned_cols=56 Identities=23% Similarity=0.191 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHh
Q 036428 80 DHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAV 136 (138)
Q Consensus 80 D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AI 136 (138)
.++++++|.+..++++....+.+|||++.. +|+ +-.|.|-......++-|||..||
T Consensus 3 ~~~L~~~a~~~~~~ay~PyS~f~Vgaa~~~~~G~-i~~G~nvEna~~~~~~CAE~~Ai 59 (131)
T PRK05578 3 WKELIEAAIEASEKAYAPYSKFPVGAALLTDDGR-IYTGCNIENASYGLTNCAERTAI 59 (131)
T ss_pred HHHHHHHHHHHHHhcCCCcCCCceEEEEEeCCCC-EEEEEEeeCccccCCcCHHHHHH
Confidence 346788899998888876556899999996 666 66799977666678999999987
No 21
>PRK12411 cytidine deaminase; Provisional
Probab=96.16 E-value=0.025 Score=42.87 Aligned_cols=55 Identities=18% Similarity=0.114 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHh
Q 036428 81 HEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAV 136 (138)
Q Consensus 81 ~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AI 136 (138)
+.+.++|.+.+++++..-.+.+|||++.. ||+|+ .|.|-......++-|||..||
T Consensus 4 ~~L~~~a~~~~~~ay~pyS~~~VgAa~~t~~G~i~-~G~nvEn~s~~~s~CAE~~Ai 59 (132)
T PRK12411 4 KQLIQEAIEARKQAYVPYSKFQVGAALLTQDGKVY-RGCNVENASYGLCNCAERTAL 59 (132)
T ss_pred HHHHHHHHHHHHhcCCCccCCceEEEEEeCCCCEE-EEEEeecCCCCcCcCHHHHHH
Confidence 46788899999988876445899999985 77755 899977666778999999987
No 22
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=95.82 E-value=0.037 Score=42.53 Aligned_cols=56 Identities=21% Similarity=0.086 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 82 EFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 82 ~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
..+..+.+.+..++..-.+.||||++..++.-+-.|.|-....-.-|.|||..||-
T Consensus 7 ~l~~~a~~a~~~ay~PYS~F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~ 62 (134)
T COG0295 7 ELFALAPEAAANAYAPYSKFKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIF 62 (134)
T ss_pred HHHHHHHHHHHhccCcccCCcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHH
Confidence 45666777777777655569999999964434678999888888889999999983
No 23
>PRK08298 cytidine deaminase; Validated
Probab=95.06 E-value=0.1 Score=39.89 Aligned_cols=55 Identities=9% Similarity=-0.003 Sum_probs=43.7
Q ss_pred hHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHh
Q 036428 79 RDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAV 136 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AI 136 (138)
.++++++.|.+..++++... . +|||.|.. ||+|+ .|.|-...+...+.-||..||
T Consensus 3 ~~~~L~~~A~~a~~~aY~PY-S-~VgAAllt~dG~i~-tG~NvEnas~~~t~CAEr~Ai 58 (136)
T PRK08298 3 IEQALYDVAKQLIEQRYPNG-W-GGAAAMRVEDGTIL-TSVAPEVINASTELCMETGAI 58 (136)
T ss_pred HHHHHHHHHHHHHHhccCCC-C-ceeEEEEeCCCCEE-EEEeecCCCCCcchhHHHHHH
Confidence 35678899999888887644 3 99999985 77755 899977666668899999987
No 24
>PLN02402 cytidine deaminase
Probab=94.67 E-value=0.11 Score=44.68 Aligned_cols=57 Identities=18% Similarity=0.169 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 80 DHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 80 D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
++.+++.|++.+++++..-.+.||||.|+. ||+| -.|.|-....-+++.+||..||-
T Consensus 192 ~~~L~~~A~~a~~~sYaPYS~f~VGaal~~~dG~i-~~G~nvENAay~~slcAer~Ai~ 249 (303)
T PLN02402 192 SDDLKNEALEAANKSHAPYSNCPSGVALMDCEGKV-YRGSYMESAAYNPSMGPVQAALV 249 (303)
T ss_pred HHHHHHHHHHHHHcccCCccCCceeEEEEeCCCCE-EEEEEEEcCCCCCcccHHHHHHH
Confidence 467899999999999987667999999996 7785 47999888888999999999973
No 25
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=94.50 E-value=0.14 Score=43.72 Aligned_cols=57 Identities=12% Similarity=0.101 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 80 DHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 80 D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
.+.+++.|++.+++++..-.+.||||.|.. ||+| -.|.|-....-+++-.||..||-
T Consensus 174 ~~~l~~~A~~a~~~sYaPYS~f~vgaal~~~~g~i-~~G~nvENAay~~slcaer~Ai~ 231 (283)
T TIGR01355 174 ISHLKQQALKAANRSYAPYSKSPSGVALLDKEGKV-YRGWYIESAAFNPSLGPVQAALV 231 (283)
T ss_pred HHHHHHHHHHHHHhccCCCcCCceeEEEEeCCCCE-EEEEEeecCCCCCcccHHHHHHH
Confidence 345899999999999987667999999997 6664 58999998889999999999983
No 26
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=94.28 E-value=0.15 Score=43.41 Aligned_cols=58 Identities=16% Similarity=-0.100 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCc--ccCCCCcchHHHHHhc
Q 036428 79 RDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMV--LKHTDPTAHAEVTAVR 137 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~--~~~~DpTaHAE~~AIr 137 (138)
.++.++++|.+.+++|+..-.+.+|||++.. +|+ |-.|.|-. ...-..+-|||..||-
T Consensus 21 ~~~~L~~~a~~a~~~AyaPYS~F~VGAall~~~G~-iy~GvNvE~~nas~~~tiCAEr~Ai~ 81 (283)
T TIGR01355 21 DPKLLPKLIPKAASYARAPISKFNVGAVGRGSSGR-FYLGVNVEFPGLPLHHSIHAEQFLIS 81 (283)
T ss_pred hHHHHHHHHHHHHhcCcCCccCCeeeEEEEeCCCC-EEEEEEeccCCCCCCccccHHHHHHH
Confidence 4557888888888888876667999999986 677 55789965 2223457899999873
No 27
>PRK09027 cytidine deaminase; Provisional
Probab=94.05 E-value=0.18 Score=43.17 Aligned_cols=58 Identities=9% Similarity=0.048 Sum_probs=49.1
Q ss_pred hHHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 79 RDHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
.++.+.++|++.+.+++..-.+.|+|+.|.. ||+|. .|.|-....-+|+-.||..||-
T Consensus 188 ~~~~L~~~A~~aa~~SYaPYS~f~vGaAl~~~dG~i~-~G~nvENAAynpslcaer~Al~ 246 (295)
T PRK09027 188 TGDPLIQAALDAANRSHAPYSQSYSGVALETKDGRIY-TGRYAENAAFNPSLPPLQGALN 246 (295)
T ss_pred CHHHHHHHHHHHHHhccCCccCCceeEEEEeCCCCEE-EEEEEEcCCCCCcccHHHHHHH
Confidence 4456889999999999987667999999986 77754 7999888888999999999873
No 28
>KOG0833 consensus Cytidine deaminase [Nucleotide transport and metabolism]
Probab=91.26 E-value=0.97 Score=36.31 Aligned_cols=56 Identities=18% Similarity=-0.010 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 81 HEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 81 ~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
++..+.+.+.-+.|+..-.+.||||++.. +|+ |-.|.|-....-.++-|||..||-
T Consensus 22 ~~L~~l~~~A~~~AyaPyS~fkVGA~~r~ssGr-if~G~NVEn~~~~~sIcAEr~ai~ 78 (173)
T KOG0833|consen 22 QELLKLARKAMKLAYAPYSKFKVGAAGRASSGR-IFLGVNVENASYHHSICAERFAIA 78 (173)
T ss_pred HHHHHHHHHHHHhccCCccCCceEEEEEecCCc-EEEeeeecccCCCCcccHHHHHHH
Confidence 33333333333333433335899999996 666 567999777767789999998874
No 29
>PLN02402 cytidine deaminase
Probab=90.26 E-value=1.1 Score=38.65 Aligned_cols=57 Identities=16% Similarity=-0.026 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCC--cchHHHHHhc
Q 036428 80 DHEFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDP--TAHAEVTAVR 137 (138)
Q Consensus 80 D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~Dp--TaHAE~~AIr 137 (138)
++-.+.++-+..+.++..-.+.+|||++.. +|+ |-.|.|-....-.. +-|||..||-
T Consensus 25 ~~ll~~l~~~A~~~AyaPYS~F~VGAa~l~~~G~-i~~GvNVEnasy~l~~tiCAEr~Ai~ 84 (303)
T PLN02402 25 LQLLPSLVKSAQSLARPPISKYHVGAVGLGSSGR-IFLGVNLEFPGLPLHHSVHAEQFLIT 84 (303)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCeeeEEEEeCCCC-EEEEEeeecCCCCCCCcccHHHHHHH
Confidence 344444444444555544346899999986 676 56789966544333 7899999873
No 30
>PLN02182 cytidine deaminase
Probab=88.08 E-value=1.8 Score=38.03 Aligned_cols=46 Identities=22% Similarity=-0.018 Sum_probs=32.4
Q ss_pred HHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCC--cchHHHHHhc
Q 036428 91 AYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDP--TAHAEVTAVR 137 (138)
Q Consensus 91 A~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~Dp--TaHAE~~AIr 137 (138)
++.|+..-.+.+|||++.. +|+ |-.|.|.....-.. +-|||..||-
T Consensus 56 ~~~AyaPyS~F~VGAa~l~~sG~-iy~GvNVEnas~pl~~tICAEr~AI~ 104 (339)
T PLN02182 56 MCLARAPISKYKVGAVGRASSGR-VYLGVNVDFPGLPLHHSIHAEQFLVT 104 (339)
T ss_pred HhcCcCCccCCeeeEEEEeCCCC-EEEEEEeecCCCccCCccCHHHHHHH
Confidence 4444444346899999986 777 56799977554333 8899999873
No 31
>PF08211 dCMP_cyt_deam_2: Cytidine and deoxycytidylate deaminase zinc-binding region ; InterPro: IPR013171 This region contains the zinc-binding domain of cytidine and deoxycytidylate deaminase. Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion.; GO: 0004126 cytidine deaminase activity, 0008270 zinc ion binding; PDB: 1CTU_A 1AF2_A 1ALN_A 1CTT_A 4EG2_C.
Probab=87.79 E-value=1.6 Score=33.26 Aligned_cols=55 Identities=13% Similarity=0.122 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhcccCCCCCcEEEEEEe-CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 82 EFLSKAVEEAYKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 82 ~~Mr~AIelA~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
...++|++.|+++...-...|.|++|.. +|+ |-.|.+-...--+|+-.+.-.||-
T Consensus 35 ~l~~~A~~Aa~~syaPYS~~~sGvAL~~~~G~-i~~G~y~EnAAfNPSl~PlQ~AL~ 90 (124)
T PF08211_consen 35 PLVQAALEAANRSYAPYSKCPSGVALLTSDGR-IYTGRYAENAAFNPSLPPLQAALV 90 (124)
T ss_dssp HHHHHHHHHHCT-B-TTT---EEEEEEETTS--EEEEE-B--TTSTT-B-HHHHHHH
T ss_pred HHHHHHHHHHHhccCCccCCceeEEEEeCCCC-EEEEEEEeecccCCChHHHHHHHH
Confidence 3788899999999886556899999995 666 456777777778899999888863
No 32
>KOG2771 consensus Subunit of tRNA-specific adenosine-34 deaminase [RNA processing and modification]
Probab=85.00 E-value=1.4 Score=38.75 Aligned_cols=56 Identities=20% Similarity=0.224 Sum_probs=44.7
Q ss_pred hhHHHHHHHHHHHHHhcccCCCCCcEEEEEEe--CCeEEEEEecCcccCCCCcchHHHHHhc
Q 036428 78 DRDHEFLSKAVEEAYKGVECGDGGPFGAVVVR--SDEVVVSCHNMVLKHTDPTAHAEVTAVR 137 (138)
Q Consensus 78 ~~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~--dGeIIa~G~N~~~~~~DpTaHAE~~AIr 137 (138)
.....+|+.+|++|..+... .|+|++|++ -..|++.|..++... +|..|.=|++++
T Consensus 165 ~~~~ri~e~~I~~a~~~~~~---~~~~a~I~~p~~~~Via~~~~~~~~~-~P~eh~~mv~v~ 222 (344)
T KOG2771|consen 165 GEIARIGELLIAMATDGHAS---RPVSAAIVDPVMDRVIAAGTGEVCAY-NPIEHCVMVLVH 222 (344)
T ss_pred HHHHHHHHHHHHHHhhhccc---cCccceecCCccceEEecCCCccccc-CcHHHHHHHHHH
Confidence 34567899999999988764 889999997 567888887777654 799999998874
No 33
>PRK09027 cytidine deaminase; Provisional
Probab=84.77 E-value=4.2 Score=34.95 Aligned_cols=57 Identities=23% Similarity=0.116 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHH-HhcccCCCCCcEEEEEEe-CCeEEEEEecCccc--CCCCcchHHHHHhc
Q 036428 80 DHEFLSKAVEEA-YKGVECGDGGPFGAVVVR-SDEVVVSCHNMVLK--HTDPTAHAEVTAVR 137 (138)
Q Consensus 80 D~~~Mr~AIelA-~ka~~~g~~~PVGAVIV~-dGeIIa~G~N~~~~--~~DpTaHAE~~AIr 137 (138)
+.+.+-..+..| ..|+..-.+.+|||++.. +|+ +-.|.|.... .-..+-|||..||-
T Consensus 49 ~~~l~~~ll~~a~~~AyaPyS~F~VGAa~~~~sG~-iy~GvNvE~~~~s~~~tiCAEr~Ai~ 109 (295)
T PRK09027 49 DDALALALLPLAAACAVTPISHFNVGAIARGVSGN-FYFGANMEFAGAALQQTVHAEQSAIS 109 (295)
T ss_pred HHHHHHHHHHHHHHhccCCCCCCcEEEEEEeCCCC-EEEEEeeccCCCCCCCCcCHHHHHHH
Confidence 334443333333 334443346999999986 677 4589996643 22458899999873
No 34
>PF13540 RCC1_2: Regulator of chromosome condensation (RCC1) repeat; PDB: 3QI0_D 1JTD_B 3QHY_B.
Probab=42.75 E-value=49 Score=18.45 Aligned_cols=20 Identities=15% Similarity=0.002 Sum_probs=13.9
Q ss_pred cEEEEEEeCCeEEEEEecCc
Q 036428 102 PFGAVVVRSDEVVVSCHNMV 121 (138)
Q Consensus 102 PVGAVIV~dGeIIa~G~N~~ 121 (138)
-..++|..||++.+.|.|..
T Consensus 9 ~ht~al~~~g~v~~wG~n~~ 28 (30)
T PF13540_consen 9 YHTCALTSDGEVYCWGDNNY 28 (30)
T ss_dssp SEEEEEE-TTEEEEEE--TT
T ss_pred CEEEEEEcCCCEEEEcCCcC
Confidence 35778888999999999964
No 35
>COG1624 Uncharacterized conserved protein [Function unknown]
Probab=36.99 E-value=36 Score=28.56 Aligned_cols=28 Identities=29% Similarity=0.523 Sum_probs=20.5
Q ss_pred EEEEEeCCeEEEEEecCcccCCC------CcchH
Q 036428 104 GAVVVRSDEVVVSCHNMVLKHTD------PTAHA 131 (138)
Q Consensus 104 GAVIV~dGeIIa~G~N~~~~~~D------pTaHA 131 (138)
||+|+++++|++.|.=-..+.++ +|+|-
T Consensus 174 GAvII~~~kIvaAg~yLpls~~~~i~k~lGtRHr 207 (247)
T COG1624 174 GAVIIRDNKIVAAGRYLPLSEKSLISKGLGTRHR 207 (247)
T ss_pred ceEEEeCCEEEEEEEEeccCCCCCcCccccHHHH
Confidence 99999998999988654444433 56774
No 36
>COG4545 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=29.42 E-value=45 Score=23.95 Aligned_cols=15 Identities=20% Similarity=0.211 Sum_probs=11.3
Q ss_pred CcEEEEEEeCCeEEE
Q 036428 101 GPFGAVVVRSDEVVV 115 (138)
Q Consensus 101 ~PVGAVIV~dGeIIa 115 (138)
.-+-|+++.||++|.
T Consensus 63 iGIPall~~d~~vVl 77 (85)
T COG4545 63 IGIPALLTDDGKVVL 77 (85)
T ss_pred ccceEEEeCCCcEEE
Confidence 445689999998664
No 37
>PF13382 Adenine_deam_C: Adenine deaminase C-terminal domain; PDB: 3T8L_B 3T81_A 3NQB_A.
Probab=28.12 E-value=1.3e+02 Score=23.70 Aligned_cols=31 Identities=29% Similarity=0.378 Sum_probs=22.3
Q ss_pred hHHHHHHHHHHHHHhcccCCCCCcEEEEEEeCCeEEEE
Q 036428 79 RDHEFLSKAVEEAYKGVECGDGGPFGAVVVRSDEVVVS 116 (138)
Q Consensus 79 ~D~~~Mr~AIelA~ka~~~g~~~PVGAVIV~dGeIIa~ 116 (138)
.+.+-|.+|+..-.+- +. |.|+|++|+|+++
T Consensus 73 ~~~~dm~~A~n~l~~~---gG----G~vvv~~g~v~a~ 103 (171)
T PF13382_consen 73 TNDEDMALAANRLIEM---GG----GIVVVDDGEVLAE 103 (171)
T ss_dssp SSHHHHHHHHHHHHHT---TS----EEEEEETTEEEEE
T ss_pred CCHHHHHHHHHHHHHh---CC----CEEEEECCEEEEE
Confidence 4555677777766553 33 8889999999986
No 38
>TIGR00159 conserved hypothetical protein TIGR00159. These proteins have no detectable global or local homology to any protein of known function. Members are restricted to the bacteria and found broadly in lineages other than the Proteobacteria.
Probab=27.98 E-value=56 Score=26.95 Aligned_cols=28 Identities=29% Similarity=0.477 Sum_probs=20.1
Q ss_pred EEEEEeCCeEEEEEecCcccC-----CCCcchH
Q 036428 104 GAVVVRSDEVVVSCHNMVLKH-----TDPTAHA 131 (138)
Q Consensus 104 GAVIV~dGeIIa~G~N~~~~~-----~DpTaHA 131 (138)
||||+++|+|++.|.--.... .=+|+|.
T Consensus 127 GAvII~~~rI~aA~~~Lpls~~~~~~~lGtRHR 159 (211)
T TIGR00159 127 GAVIIRDNKIVAAGSYLPLSEQSISKSLGTRHR 159 (211)
T ss_pred cEEEEECCEEEEEEEEecCCCCCCCCccChHHH
Confidence 999999999999886544332 2256674
No 39
>TIGR02373 photo_yellow photoactive yellow protein. Members of this family are photoactive yellow protein, a cytosolic, 14-kDa light-sensing protein which has a 4-hydroxycinnamyl (p-coumaric acid) chromophore covalently linked to a Cys residue. The enzyme 4-coumarate--CoA ligase as described by TIGR02372 is required for its biosynthesis. The modified Cys is in a PAS (pfam00989) domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.
Probab=25.16 E-value=80 Score=24.09 Aligned_cols=23 Identities=30% Similarity=0.406 Sum_probs=18.7
Q ss_pred CCCcEEEEEEe-CCeEEEEEecCccc
Q 036428 99 DGGPFGAVVVR-SDEVVVSCHNMVLK 123 (138)
Q Consensus 99 ~~~PVGAVIV~-dGeIIa~G~N~~~~ 123 (138)
+.-|||++-++ +|.|+. ||+...
T Consensus 23 D~lpFGvI~lD~~G~V~~--YN~aE~ 46 (124)
T TIGR02373 23 DALPFGAIQLDGSGVILR--YNAAEG 46 (124)
T ss_pred hcCCcceEEECCCCEEEE--Eecchh
Confidence 35899999997 899998 887643
No 40
>PF02457 DisA_N: DisA bacterial checkpoint controller nucleotide-binding; InterPro: IPR003390 The DisA protein is a bacterial checkpoint protein that dimerises into an octameric complex. The protein consists of three distinct domains. This domain is the first and is a globular, nucleotide-binding region; the next 146-289 residues constitute the DisA-linker family, IPR018906 from INTERPRO that consists of an elongated bundle of three alpha helices (alpha-6, alpha-10, and alpha-11), one side of which carries an additional three helices (alpha7-9), which thus forms a spine like-linker between domains 1 and 3. The C-terminal residues, of domain 3, are represented by family HHH, IPR000445 from INTERPRO the specific DNA-binding domain. The octameric complex thus has structurally linked nucleotide-binding and DNA-binding HhH domains and the nucleotide-binding domains are bound to a cyclic di-adenosine phosphate such that DisA is a specific di-adenylate cyclase. The di-adenylate cyclase activity is strongly suppressed by binding to branched DNA, but not to duplex or single-stranded DNA, suggesting a role for DisA as a monitor of the presence of stalled replication forks or recombination intermediates via DNA structure-modulated c-di-AMP synthesis.; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 2FB5_A.
Probab=22.09 E-value=57 Score=24.25 Aligned_cols=20 Identities=25% Similarity=0.441 Sum_probs=16.3
Q ss_pred EEEEEeCCeEEEEEecCccc
Q 036428 104 GAVVVRSDEVVVSCHNMVLK 123 (138)
Q Consensus 104 GAVIV~dGeIIa~G~N~~~~ 123 (138)
||||+++|+|++.|.+-...
T Consensus 57 GAviI~~~~i~aag~~l~ls 76 (122)
T PF02457_consen 57 GAVIIDGGRIVAAGAILPLS 76 (122)
T ss_dssp SEEEEETTCCEEEEEEEEE-
T ss_pred ceEEEECCeEEEEEEEeecC
Confidence 99999999999998875443
Done!