Query 039849
Match_columns 202
No_of_seqs 212 out of 1267
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 02:36:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039849.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039849hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13907 rnhA ribonuclease H; 99.9 5.7E-22 1.2E-26 145.2 12.4 110 90-202 1-110 (128)
2 PRK07238 bifunctional RNase H/ 99.7 2.7E-17 5.9E-22 140.7 13.6 112 90-202 2-115 (372)
3 PRK07708 hypothetical protein; 99.7 7.9E-17 1.7E-21 127.8 13.5 116 86-201 69-190 (219)
4 cd06222 RnaseH RNase H (RNase 99.7 3.2E-16 7E-21 112.2 13.3 110 92-202 1-111 (130)
5 COG0328 RnhA Ribonuclease HI [ 99.7 9.6E-16 2.1E-20 114.2 13.8 109 90-202 3-124 (154)
6 PF13456 RVT_3: Reverse transc 99.6 1.5E-15 3.2E-20 103.1 8.7 70 133-202 1-70 (87)
7 PRK08719 ribonuclease H; Revie 99.5 1.6E-12 3.4E-17 97.3 12.7 109 89-202 3-126 (147)
8 PRK06548 ribonuclease H; Provi 99.4 4.4E-12 9.5E-17 96.0 13.0 104 91-202 6-121 (161)
9 PRK00203 rnhA ribonuclease H; 99.4 5.2E-12 1.1E-16 94.9 12.3 107 90-202 3-121 (150)
10 PF00075 RNase_H: RNase H; In 99.4 4.6E-12 1E-16 92.6 11.0 104 90-202 3-111 (132)
11 KOG3752 Ribonuclease H [Replic 98.4 3.8E-06 8.3E-11 70.5 11.0 111 89-202 211-344 (371)
12 KOG1812 Predicted E3 ubiquitin 95.4 0.018 4E-07 49.7 4.0 90 103-192 16-110 (384)
13 COG0295 Cdd Cytidine deaminase 87.3 4.7 0.0001 29.6 7.4 56 106-162 26-81 (134)
14 COG0590 CumB Cytosine/adenosin 85.1 3 6.4E-05 31.3 5.6 56 104-159 26-82 (152)
15 TIGR01354 cyt_deam_tetra cytid 83.3 3.7 7.9E-05 29.7 5.3 57 105-162 20-76 (127)
16 cd01284 Riboflavin_deaminase-r 81.4 5.2 0.00011 28.4 5.4 41 104-147 17-57 (115)
17 cd01285 nucleoside_deaminase N 81.0 6.9 0.00015 27.3 5.9 57 104-160 15-72 (109)
18 cd01283 cytidine_deaminase Cyt 78.3 6.4 0.00014 27.5 5.1 45 104-148 16-60 (112)
19 cd00786 cytidine_deaminase-lik 76.6 13 0.00028 25.2 6.1 43 104-146 16-60 (96)
20 TIGR02571 ComEB ComE operon pr 72.8 14 0.00031 27.6 5.9 38 107-145 26-79 (151)
21 PF00383 dCMP_cyt_deam_1: Cyti 67.2 9.6 0.00021 25.8 3.7 44 104-147 22-66 (102)
22 PHA02588 cd deoxycytidylate de 60.6 38 0.00082 25.8 6.2 29 133-161 81-131 (168)
23 PRK12411 cytidine deaminase; P 59.2 35 0.00077 24.8 5.6 57 105-162 23-79 (132)
24 PRK10860 tRNA-specific adenosi 57.1 32 0.00069 26.3 5.3 87 106-193 33-153 (172)
25 PRK05578 cytidine deaminase; V 55.1 38 0.00083 24.6 5.2 55 107-162 25-79 (131)
26 COG3981 Predicted acetyltransf 54.8 65 0.0014 24.7 6.5 25 139-163 117-141 (174)
27 PRK06848 hypothetical protein; 53.7 37 0.00081 25.0 5.0 55 106-161 27-81 (139)
28 PF05830 NodZ: Nodulation prot 50.0 55 0.0012 27.6 5.8 76 95-174 156-235 (321)
29 cd01286 deoxycytidylate_deamin 49.9 52 0.0011 23.8 5.2 15 132-146 67-81 (131)
30 TIGR00326 eubact_ribD riboflav 43.7 33 0.00071 29.1 3.8 36 107-146 20-55 (344)
31 PRK08298 cytidine deaminase; V 43.2 82 0.0018 23.1 5.3 55 107-162 24-78 (136)
32 PF06754 PhnG: Phosphonate met 32.4 96 0.0021 23.0 4.3 18 130-147 83-100 (146)
33 PRK09027 cytidine deaminase; P 30.5 1.8E+02 0.0039 24.4 6.0 58 105-162 209-267 (295)
34 PF02569 Pantoate_ligase: Pant 28.7 1.2E+02 0.0026 25.2 4.7 69 110-201 175-243 (280)
35 KOG3139 N-acetyltransferase [G 28.1 69 0.0015 24.3 2.9 23 141-163 106-128 (165)
36 PF03259 Robl_LC7: Roadblock/L 28.0 1.6E+02 0.0035 18.9 4.6 51 107-163 15-74 (91)
37 PRK10786 ribD bifunctional dia 27.3 89 0.0019 26.9 3.9 35 108-146 27-61 (367)
38 COG0084 TatD Mg-dependent DNas 26.8 40 0.00086 27.6 1.6 46 144-189 188-234 (256)
39 PLN02807 diaminohydroxyphospho 26.6 92 0.002 27.0 3.8 35 108-146 56-90 (380)
40 PF07888 CALCOCO1: Calcium bin 24.3 1.3E+02 0.0029 27.4 4.5 49 81-130 56-111 (546)
41 PLN02182 cytidine deaminase 23.4 1.7E+02 0.0037 25.0 4.7 40 106-145 66-107 (339)
42 COG0117 RibD Pyrimidine deamin 23.3 1.2E+02 0.0025 22.7 3.3 33 108-144 30-62 (146)
43 PF11080 DUF2622: Protein of u 23.1 2.6E+02 0.0056 19.3 4.8 43 104-146 31-73 (96)
44 COG0450 AhpC Peroxiredoxin [Po 22.8 3.8E+02 0.0082 21.0 6.2 49 102-152 119-167 (194)
45 TIGR03293 PhnG_redo phosphonat 22.4 2.2E+02 0.0048 21.0 4.7 18 130-147 82-99 (144)
46 PRK11449 putative deoxyribonuc 22.1 59 0.0013 26.4 1.8 20 146-165 192-211 (258)
47 KOG0833 Cytidine deaminase [Nu 21.7 2.3E+02 0.0049 21.8 4.7 40 107-146 43-82 (173)
48 PF05854 MC1: Non-histone chro 21.5 69 0.0015 21.8 1.6 19 110-128 6-24 (93)
49 KOG1593 Asparaginase [Amino ac 21.3 3.9E+02 0.0085 22.2 6.2 42 81-122 180-224 (349)
50 TIGR00443 hisZ_biosyn_reg ATP 21.2 4.8E+02 0.01 21.6 8.5 64 107-172 92-161 (314)
51 KOG1018 Cytosine deaminase FCY 20.8 2.9E+02 0.0064 21.0 5.2 44 108-151 34-78 (169)
52 TIGR00228 ruvC crossover junct 20.8 3.7E+02 0.0081 20.2 7.3 60 100-160 5-65 (156)
53 PRK13191 putative peroxiredoxi 20.7 2.7E+02 0.0058 21.9 5.2 43 108-152 125-167 (215)
54 PLN02402 cytidine deaminase 20.2 2.3E+02 0.005 23.9 4.8 63 106-169 46-114 (303)
No 1
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.88 E-value=5.7e-22 Score=145.22 Aligned_cols=110 Identities=14% Similarity=0.055 Sum_probs=99.1
Q ss_pred ceEEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHH
Q 039849 90 WYEANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLA 169 (202)
Q Consensus 90 ~~K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l 169 (202)
++++|||||+.++++.+|+|+|+||..|.+...+ ..+..++++||+.|+++||+.+.++|+.+|+|+|||+.|++.+
T Consensus 1 ~~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~---~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~ 77 (128)
T PRK13907 1 MIEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSL---PLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAV 77 (128)
T ss_pred CEEEEEeeCCCCCCCccEEEEEEEECCeeEEEEe---cccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHH
Confidence 5789999999999999999999999998765432 2245799999999999999999999999999999999999999
Q ss_pred hcCCCCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 170 RNRKGCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 170 ~~~~~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
++.......+..++.+++.++..|+.+.++||+
T Consensus 78 ~~~~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~ 110 (128)
T PRK13907 78 EKEYAKNKMFAPLLEEALQYIKSFDLFFIKWIP 110 (128)
T ss_pred hHHHhcChhHHHHHHHHHHHHhcCCceEEEEcC
Confidence 997765567999999999999999999999984
No 2
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.74 E-value=2.7e-17 Score=140.67 Aligned_cols=112 Identities=16% Similarity=0.182 Sum_probs=98.7
Q ss_pred ceEEEecceeeecCCeeeEEEEEeCCCCc-EEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHH
Q 039849 90 WYEANVDAAIRHSNWIAGLGVVIRDSKGK-FVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDL 168 (202)
Q Consensus 90 ~~K~n~Das~~~~~~~~g~G~vird~~g~-~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~ 168 (202)
.+++|||||+.++++.+|+|+|++++.|. ++......+. ..+++.||+.||+.||+.+.++|.++|.|++||+.|++.
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~ 80 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQ 80 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHH
Confidence 36899999999999999999999999765 5555555555 568899999999999999999999999999999999999
Q ss_pred HhcCCCC-cchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 169 ARNRKGC-KSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 169 l~~~~~~-~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
+++.... ...+..++.+++.++++|+.+.|+||+
T Consensus 81 i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~ 115 (372)
T PRK07238 81 MSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIP 115 (372)
T ss_pred hCCCCccCChHHHHHHHHHHHHHhcCCceEEEECC
Confidence 9988653 346899999999999999999999984
No 3
>PRK07708 hypothetical protein; Validated
Probab=99.73 E-value=7.9e-17 Score=127.77 Aligned_cols=116 Identities=16% Similarity=0.090 Sum_probs=97.4
Q ss_pred CCCCceEEEecceeeecCCeeeEEEEEeCCCCcEE--EeeeeecCccCCHHHHHHHHHHHHHHHHHHCCccc--EEEEec
Q 039849 86 PSSGWYEANVDAAIRHSNWIAGLGVVIRDSKGKFV--AVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLP--MIIELD 161 (202)
Q Consensus 86 P~~~~~K~n~Das~~~~~~~~g~G~vird~~g~~~--~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~--v~~esD 161 (202)
+..+.+++|||||+.++++.+|+|+|++++.|... ......+....++++||+.|++.||+.|.++|.++ |.|++|
T Consensus 69 ~ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~D 148 (219)
T PRK07708 69 EEPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGD 148 (219)
T ss_pred cCCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEec
Confidence 33457899999999999999999999999877643 33344566678999999999999999999999976 899999
Q ss_pred hHHHHHHHhcCCCCcc-hHHHHHHHHHHHhhcCCc-eEEEee
Q 039849 162 SKEVVDLARNRKGCKS-EVFWTVVAIQASLKSLNR-VQIQHV 201 (202)
Q Consensus 162 s~~vv~~l~~~~~~~s-~~~~ii~~i~~l~~~f~~-~~~~~V 201 (202)
|+.|++++++...... .+..+..+++.++++|.. +.+.||
T Consensus 149 SqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~V 190 (219)
T PRK07708 149 SQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPI 190 (219)
T ss_pred cHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEEC
Confidence 9999999999865433 478899999999998874 777887
No 4
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.
Probab=99.71 E-value=3.2e-16 Score=112.23 Aligned_cols=110 Identities=19% Similarity=0.130 Sum_probs=99.1
Q ss_pred EEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHHhc
Q 039849 92 EANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLARN 171 (202)
Q Consensus 92 K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l~~ 171 (202)
+|++|||+..+.+.+|+|+++++..|.......... ...++.+||+.|++.||+.+...+.+++.|++||..+++.+++
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~-~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~ 79 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLG-GNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTG 79 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccC-CCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhc
Confidence 589999999888899999999999998887766554 5779999999999999999999999999999999999999998
Q ss_pred CCC-CcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 172 RKG-CKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 172 ~~~-~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
... ....+..++.+++.++..+..++|.||+
T Consensus 80 ~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~ 111 (130)
T cd06222 80 WYEGKPVKNVDLWQRLLALLKRFHKVRFEWVP 111 (130)
T ss_pred cccCCChhhHHHHHHHHHHHhCCCeEEEEEcC
Confidence 865 4457899999999999889999999984
No 5
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.69 E-value=9.6e-16 Score=114.24 Aligned_cols=109 Identities=19% Similarity=0.068 Sum_probs=91.8
Q ss_pred ceEEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHH
Q 039849 90 WYEANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLA 169 (202)
Q Consensus 90 ~~K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l 169 (202)
.+.+++|||+.+++|.+|+|+|++...++.-... ... ..|++.+|+.|+++||+.+++.+...|.++|||+.|++.|
T Consensus 3 ~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~--~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i 79 (154)
T COG0328 3 KVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSG--GEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGI 79 (154)
T ss_pred ceEEEecCccCCCCCCceEEEEEEcCCceEEEee--eee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHH
Confidence 4789999999999999999999997666662222 222 6799999999999999999999999999999999999999
Q ss_pred hcCC-------------CCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 170 RNRK-------------GCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 170 ~~~~-------------~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
+ .. ..+-.-..+.+++..++..|+.+.+.||+
T Consensus 80 ~-~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVk 124 (154)
T COG0328 80 T-RWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVK 124 (154)
T ss_pred H-HHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEee
Confidence 8 22 11223467899999999999999999995
No 6
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.64 E-value=1.5e-15 Score=103.15 Aligned_cols=70 Identities=26% Similarity=0.290 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHHhcCCCCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 133 VAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLARNRKGCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 133 ~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~~~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
|++||++|++.||++|.++|+++|++||||+.+|+.+++....++++..++.+|+.+++.|++++|.||.
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~ 70 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIP 70 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEEC
Confidence 6899999999999999999999999999999999999999777779999999999999999999999984
No 7
>PRK08719 ribonuclease H; Reviewed
Probab=99.46 E-value=1.6e-12 Score=97.32 Aligned_cols=109 Identities=17% Similarity=0.094 Sum_probs=85.2
Q ss_pred CceEEEecceeeecCC---eeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHH
Q 039849 89 GWYEANVDAAIRHSNW---IAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEV 165 (202)
Q Consensus 89 ~~~K~n~Das~~~~~~---~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~v 165 (202)
..++++||||+..+++ .+|+|+++.+..|..+......+....|++.||+.|+.+||+.+.+. ..|.|||+.+
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yv 78 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYC 78 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHH
Confidence 3578999999987765 68999999998887654444445556799999999999999998764 3799999999
Q ss_pred HHHHh--------cCC----CCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 166 VDLAR--------NRK----GCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 166 v~~l~--------~~~----~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
++.++ +.. ..+-....+++.|..++. ...++|.||+
T Consensus 79 i~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~Vk 126 (147)
T PRK08719 79 VRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVT 126 (147)
T ss_pred HHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEec
Confidence 99995 221 122345778888888877 5779999985
No 8
>PRK06548 ribonuclease H; Provisional
Probab=99.43 E-value=4.4e-12 Score=95.97 Aligned_cols=104 Identities=15% Similarity=0.081 Sum_probs=81.8
Q ss_pred eEEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHHh
Q 039849 91 YEANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLAR 170 (202)
Q Consensus 91 ~K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l~ 170 (202)
+.++||||+.++++.+|+|+++.+. +. .. . .....|++.||+.|+++||+.+ ..+..+|.|.|||+.+++.++
T Consensus 6 ~~IytDGa~~gnpg~~G~g~~~~~~-~~-~~---g-~~~~~TNnraEl~Aii~aL~~~-~~~~~~v~I~TDS~yvi~~i~ 78 (161)
T PRK06548 6 IIAATDGSSLANPGPSGWAWYVDEN-TW-DS---G-GWDIATNNIAELTAVRELLIAT-RHTDRPILILSDSKYVINSLT 78 (161)
T ss_pred EEEEEeeccCCCCCceEEEEEEeCC-cE-Ec---c-CCCCCCHHHHHHHHHHHHHHhh-hcCCceEEEEeChHHHHHHHH
Confidence 8899999999999999999999753 21 11 1 1235799999999999999855 345568999999999999998
Q ss_pred c------------CCCCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 171 N------------RKGCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 171 ~------------~~~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
. ....+-.-..++++|..++.. ..++|.|||
T Consensus 79 ~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVk 121 (161)
T PRK06548 79 KWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVN 121 (161)
T ss_pred HHHHHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEe
Confidence 3 122233468899999999987 479999985
No 9
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.41 E-value=5.2e-12 Score=94.94 Aligned_cols=107 Identities=15% Similarity=0.028 Sum_probs=82.5
Q ss_pred ceEEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHH
Q 039849 90 WYEANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLA 169 (202)
Q Consensus 90 ~~K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l 169 (202)
.+.++||||+.++++.+|+|+|+...++..... ... ...|+..||+.|+..||+.+.+ ...|.|.|||..+++.|
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~--~~~-~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i 77 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELS--GGE-ALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGI 77 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCeeEEEe--cCC-CCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHH
Confidence 478999999999999999999998755443222 222 3568999999999999998865 35799999999999999
Q ss_pred hc--------C--C--CCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 170 RN--------R--K--GCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 170 ~~--------~--~--~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
++ . . ..+-....+++++..++.. ..+.|.||+
T Consensus 78 ~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~-~~v~~~wV~ 121 (150)
T PRK00203 78 TEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKR-HQIKWHWVK 121 (150)
T ss_pred HHHHHHHHHcCCcccCCCccccHHHHHHHHHHhcc-CceEEEEec
Confidence 85 1 1 1122356788999888876 678999985
No 10
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site. This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D ....
Probab=99.40 E-value=4.6e-12 Score=92.58 Aligned_cols=104 Identities=16% Similarity=0.011 Sum_probs=79.5
Q ss_pred ceEEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHH
Q 039849 90 WYEANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLA 169 (202)
Q Consensus 90 ~~K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l 169 (202)
-+.+++|||+.++++.+|+|+|+.+. . .....++ ..++..||+.|+.+||+ +. .. ++|.|.|||+.+++.+
T Consensus 3 ~~~iytDgS~~~~~~~~~~g~v~~~~--~---~~~~~~~-~~s~~~aEl~Ai~~AL~-~~-~~-~~v~I~tDS~~v~~~l 73 (132)
T PF00075_consen 3 AIIIYTDGSCRPNPGKGGAGYVVWGG--R---NFSFRLG-GQSNNRAELQAIIEALK-AL-EH-RKVTIYTDSQYVLNAL 73 (132)
T ss_dssp SEEEEEEEEECTTTTEEEEEEEEETT--E---EEEEEEE-SECHHHHHHHHHHHHHH-TH-ST-SEEEEEES-HHHHHHH
T ss_pred cEEEEEeCCccCCCCceEEEEEEECC--e---EEEeccc-ccchhhhheehHHHHHH-Hh-hc-ccccccccHHHHHHHH
Confidence 46899999999999999999977433 2 2223334 66999999999999999 55 22 9999999999999988
Q ss_pred hc-----CCCCcchHHHHHHHHHHHhhcCCceEEEeeC
Q 039849 170 RN-----RKGCKSEVFWTVVAIQASLKSLNRVQIQHVS 202 (202)
Q Consensus 170 ~~-----~~~~~s~~~~ii~~i~~l~~~f~~~~~~~V~ 202 (202)
+. .....+....+..++..++.....+.|.||+
T Consensus 74 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~ 111 (132)
T PF00075_consen 74 NKWLHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVP 111 (132)
T ss_dssp HTHHHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESS
T ss_pred HHhccccccccccccccchhheeeccccceEEeeeecc
Confidence 87 3332222225777888888878899999985
No 11
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=98.40 E-value=3.8e-06 Score=70.50 Aligned_cols=111 Identities=13% Similarity=-0.004 Sum_probs=80.1
Q ss_pred CceEEEecceeeec---CCeeeEEEEEeCCCCcEEEeeeeecC-ccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHH
Q 039849 89 GWYEANVDAAIRHS---NWIAGLGVVIRDSKGKFVAVAIQRAI-YKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKE 164 (202)
Q Consensus 89 ~~~K~n~Das~~~~---~~~~g~G~vird~~g~~~~~~~~~~~-~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~ 164 (202)
+...+++||++..+ ..++|+|+.+-+. .-...+ .++. +..+++.||+.|+.+||+-|++.+..+|+|.|||..
T Consensus 211 ~~~vvytDGS~~~ng~~~~~AGyGvywg~~--~e~N~s-~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~ 287 (371)
T KOG3752|consen 211 EIQVVYTDGSSSGNGRKSSRAGYGVYWGPG--HELNVS-GPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEY 287 (371)
T ss_pred cceEEEecCccccCCCCCCcceeEEeeCCC--Cccccc-ccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHH
Confidence 44779999999975 3558999887552 222222 2333 688999999999999999999999999999999999
Q ss_pred HHHHHhcC-------------CCC----cchHHHHHHHHHHHhhc--CCceEEEeeC
Q 039849 165 VVDLARNR-------------KGC----KSEVFWTVVAIQASLKS--LNRVQIQHVS 202 (202)
Q Consensus 165 vv~~l~~~-------------~~~----~s~~~~ii~~i~~l~~~--f~~~~~~~V~ 202 (202)
+++.|+.- ..+ .-.-...+.++-+|.+. ...+++.||+
T Consensus 288 ~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~ 344 (371)
T KOG3752|consen 288 FINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVG 344 (371)
T ss_pred HHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEec
Confidence 99999411 000 01234566666677666 3677888874
No 12
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.018 Score=49.69 Aligned_cols=90 Identities=16% Similarity=0.137 Sum_probs=64.0
Q ss_pred CCeeeEEEEEeCC-CCcEEEeeeeecC--ccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHHhcCCCCcc--
Q 039849 103 NWIAGLGVVIRDS-KGKFVAVAIQRAI--YKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLARNRKGCKS-- 177 (202)
Q Consensus 103 ~~~~g~G~vird~-~g~~~~~~~~~~~--~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~~~~~s-- 177 (202)
...+|.|+.+.|+ +............ ...++.+||+.|+..+|..+..+|+.++.+.+|.......+.++.....
T Consensus 16 ~~~~g~~vai~d~~d~~~~f~~k~~~~~~~~~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~~~~~~~ 95 (384)
T KOG1812|consen 16 ILLAGFGVAICDEHDDDLLFQMKASDHDSDSITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGREKPEQHR 95 (384)
T ss_pred hhcccCceeeeccccHHHHHHhhcCcccccccchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhhhHHHHH
Confidence 3568899999986 4444433333332 2368999999999999999999999999999998888887776654322
Q ss_pred hHHHHHHHHHHHhhc
Q 039849 178 EVFWTVVAIQASLKS 192 (202)
Q Consensus 178 ~~~~ii~~i~~l~~~ 192 (202)
.+..+..+...+...
T Consensus 96 ~~~~l~~~v~~~r~~ 110 (384)
T KOG1812|consen 96 KIVLLVELVQRIREQ 110 (384)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345555555444443
No 13
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=87.29 E-value=4.7 Score=29.56 Aligned_cols=56 Identities=20% Similarity=0.198 Sum_probs=43.6
Q ss_pred eeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEech
Q 039849 106 AGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDS 162 (202)
Q Consensus 106 ~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs 162 (202)
--+|+++|..+|++..+..--......-..||-.|+-.++.. -...+..|.+.+|.
T Consensus 26 F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~ 81 (134)
T COG0295 26 FKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT 81 (134)
T ss_pred CcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC
Confidence 347888888888877776654445667789999999999877 66677889998884
No 14
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=85.06 E-value=3 Score=31.27 Aligned_cols=56 Identities=18% Similarity=0.140 Sum_probs=38.5
Q ss_pred CeeeEEEEEeCCCCcEEEeeeeecC-ccCCHHHHHHHHHHHHHHHHHHCCcccEEEE
Q 039849 104 WIAGLGVVIRDSKGKFVAVAIQRAI-YKGNVAYVEAKAVTLGIQVTKKIKCLPMIIE 159 (202)
Q Consensus 104 ~~~g~G~vird~~g~~~~~~~~~~~-~~~~~~~AE~~al~~al~~a~~~~~~~v~~e 159 (202)
+...+|.||.+.+|.++..+..... .-....+||..|++.|-+......+....+.
T Consensus 26 ge~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tly 82 (152)
T COG0590 26 GEVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLY 82 (152)
T ss_pred CCCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEE
Confidence 4567899999988988876654433 2334459999999999988865444433333
No 15
>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=83.26 E-value=3.7 Score=29.74 Aligned_cols=57 Identities=11% Similarity=0.050 Sum_probs=40.9
Q ss_pred eeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEech
Q 039849 105 IAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDS 162 (202)
Q Consensus 105 ~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs 162 (202)
...+|+++++.+|+++.+...-.........||..|+..+...-. ..+..|.+-++.
T Consensus 20 ~~~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g~-~~i~~i~vv~~~ 76 (127)
T TIGR01354 20 NFKVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAGY-RKFVAIAVADSA 76 (127)
T ss_pred CCeEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcCC-CCeEEEEEEeCC
Confidence 345888999999998886655444455677999999999886533 256777776654
No 16
>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=81.42 E-value=5.2 Score=28.44 Aligned_cols=41 Identities=22% Similarity=0.199 Sum_probs=31.2
Q ss_pred CeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHH
Q 039849 104 WIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQV 147 (202)
Q Consensus 104 ~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~ 147 (202)
+...+|.||.+.+|+++..+..... ...+||..|+..+.+.
T Consensus 17 ~~~pvGaviv~~~g~iv~~g~n~~~---~~~HAE~~ai~~a~~~ 57 (115)
T cd01284 17 PNPPVGCVIVDDDGEIVGEGYHRKA---GGPHAEVNALASAGEK 57 (115)
T ss_pred CCCCEEEEEEeCCCeEEEEecCCCC---CcccHHHHHHHHHhhc
Confidence 3456888888888999887655433 5789999999998764
No 17
>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=81.01 E-value=6.9 Score=27.27 Aligned_cols=57 Identities=19% Similarity=0.073 Sum_probs=37.0
Q ss_pred CeeeEEEEEeCCCCcEEEeeeeec-CccCCHHHHHHHHHHHHHHHHHHCCcccEEEEe
Q 039849 104 WIAGLGVVIRDSKGKFVAVAIQRA-IYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIEL 160 (202)
Q Consensus 104 ~~~g~G~vird~~g~~~~~~~~~~-~~~~~~~~AE~~al~~al~~a~~~~~~~v~~es 160 (202)
+...+|.+|.|.+|+++..+.... .......+||..|+..+.+......+....+.+
T Consensus 15 ~~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~ 72 (109)
T cd01285 15 GEVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYT 72 (109)
T ss_pred CCCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEE
Confidence 445688899988899887665433 223467899999999987653322234444433
No 18
>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=78.30 E-value=6.4 Score=27.51 Aligned_cols=45 Identities=11% Similarity=0.056 Sum_probs=34.1
Q ss_pred CeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHH
Q 039849 104 WIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVT 148 (202)
Q Consensus 104 ~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a 148 (202)
+...+|+++++.+|.++.+............+||..|+..+....
T Consensus 16 ~~~~vga~i~~~~g~i~~G~n~e~~~~~~~~hAE~~ai~~~~~~~ 60 (112)
T cd01283 16 SNFTVGAALLTKDGRIFTGVNVENASYGLTLCAERTAIGKAVSEG 60 (112)
T ss_pred CCCeEEEEEEECCCCEEEeEEeecCCCCCCcCHHHHHHHHHHHcC
Confidence 456788889888899887666555556678899999998887543
No 19
>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=76.59 E-value=13 Score=25.21 Aligned_cols=43 Identities=12% Similarity=-0.050 Sum_probs=28.2
Q ss_pred CeeeEEEEEeCC-CCcEEEeeeee-cCccCCHHHHHHHHHHHHHH
Q 039849 104 WIAGLGVVIRDS-KGKFVAVAIQR-AIYKGNVAYVEAKAVTLGIQ 146 (202)
Q Consensus 104 ~~~g~G~vird~-~g~~~~~~~~~-~~~~~~~~~AE~~al~~al~ 146 (202)
+...+|.++.+. +|.++..+... ........+||..|+..+..
T Consensus 16 ~~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~a~~ 60 (96)
T cd00786 16 SNFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFNAGS 60 (96)
T ss_pred CCCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHHHHH
Confidence 445677788775 57776655432 22244668999999988754
No 20
>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=72.84 E-value=14 Score=27.56 Aligned_cols=38 Identities=13% Similarity=0.113 Sum_probs=23.8
Q ss_pred eEEEEEeCCCCcEEEeeeeecCcc----------------CCHHHHHHHHHHHHH
Q 039849 107 GLGVVIRDSKGKFVAVAIQRAIYK----------------GNVAYVEAKAVTLGI 145 (202)
Q Consensus 107 g~G~vird~~g~~~~~~~~~~~~~----------------~~~~~AE~~al~~al 145 (202)
.+|.||.. +|+++..+....+.. ....+||..|++.+.
T Consensus 26 ~VGAVIV~-d~~IIs~GyN~~~~g~~~~~~~~~~~~~~~~~~~~HAE~nAI~~a~ 79 (151)
T TIGR02571 26 SVGATIVR-DKRIIAGGYNGSVAGGVHCIDEGCYVVDGHCVRTIHAEMNALLQCA 79 (151)
T ss_pred CEEEEEEE-CCEEEEEEECCCCCCCCccccccccccccccCCccCHHHHHHHHHH
Confidence 45666653 577777665443211 134699999998863
No 21
>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=67.19 E-value=9.6 Score=25.85 Aligned_cols=44 Identities=23% Similarity=0.181 Sum_probs=29.8
Q ss_pred CeeeEEEEEeCCCCcEEEeeeeec-CccCCHHHHHHHHHHHHHHH
Q 039849 104 WIAGLGVVIRDSKGKFVAVAIQRA-IYKGNVAYVEAKAVTLGIQV 147 (202)
Q Consensus 104 ~~~g~G~vird~~g~~~~~~~~~~-~~~~~~~~AE~~al~~al~~ 147 (202)
+...+|.++.+++|..+..+.... .......+||..|+..+-+.
T Consensus 22 ~~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~ 66 (102)
T PF00383_consen 22 GNFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN 66 (102)
T ss_dssp TSSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT
T ss_pred CCCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh
Confidence 456789999997777666554433 23334579999999888766
No 22
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=60.58 E-value=38 Score=25.75 Aligned_cols=29 Identities=7% Similarity=-0.002 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHH----------------------HHHHHCCcccEEEEec
Q 039849 133 VAYVEAKAVTLGI----------------------QVTKKIKCLPMIIELD 161 (202)
Q Consensus 133 ~~~AE~~al~~al----------------------~~a~~~~~~~v~~esD 161 (202)
..+||.-|++.+- ..+...|+++|++-.+
T Consensus 81 ~~HAE~nAi~~a~~~~~~~~g~tLYvTlePC~~Ca~aI~~~gI~rVvy~~~ 131 (168)
T PHA02588 81 EIHAELNAILFAARNGISIEGATMYVTASPCPDCAKAIAQSGIKKLVYCEK 131 (168)
T ss_pred CccHHHHHHHHHhhcCCCCCCcEEEEeCCCcHHHHHHHHHhCCCEEEEeec
Confidence 5699999998873 3445567788877654
No 23
>PRK12411 cytidine deaminase; Provisional
Probab=59.19 E-value=35 Score=24.84 Aligned_cols=57 Identities=14% Similarity=0.103 Sum_probs=39.7
Q ss_pred eeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEech
Q 039849 105 IAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDS 162 (202)
Q Consensus 105 ~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs 162 (202)
...+|++++..+|++..+..--.....-...||..|+..+...- ...+..|.+-+|.
T Consensus 23 ~~~VgAa~~t~~G~i~~G~nvEn~s~~~s~CAE~~Ai~~av~~g-~~~i~~i~v~~~~ 79 (132)
T PRK12411 23 KFQVGAALLTQDGKVYRGCNVENASYGLCNCAERTALFKAVSEG-DKEFVAIAIVADT 79 (132)
T ss_pred CCceEEEEEeCCCCEEEEEEeecCCCCcCcCHHHHHHHHHHHCC-CCceEEEEEEeCC
Confidence 34588899999999888776444434446789999988886432 2356777776654
No 24
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=57.12 E-value=32 Score=26.29 Aligned_cols=87 Identities=14% Similarity=0.128 Sum_probs=49.4
Q ss_pred eeEEEEEeCCCCcEEEeeeeecC-ccCCHHHHHHHHHHHHHH------------------------HHHHCCcccEEEEe
Q 039849 106 AGLGVVIRDSKGKFVAVAIQRAI-YKGNVAYVEAKAVTLGIQ------------------------VTKKIKCLPMIIEL 160 (202)
Q Consensus 106 ~g~G~vird~~g~~~~~~~~~~~-~~~~~~~AE~~al~~al~------------------------~a~~~~~~~v~~es 160 (202)
..+|+||.+ +|+++..+..... ......+||..|+..|.+ .+...|+.+|++-+
T Consensus 33 ~pvGAVIV~-~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~TlEPC~MC~~aii~agI~rVvyg~ 111 (172)
T PRK10860 33 VPVGAVLVH-NNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTLEPCVMCAGAMVHSRIGRLVFGA 111 (172)
T ss_pred CCEEEEEEe-CCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEeeCCCcHHHHHHHHHhCCCEEEEee
Confidence 347777775 5888876654332 223357999999998754 33456788888755
Q ss_pred chHH------HHHHHhcCCC-CcchH--HHHHHHHHHHhhcC
Q 039849 161 DSKE------VVDLARNRKG-CKSEV--FWTVVAIQASLKSL 193 (202)
Q Consensus 161 Ds~~------vv~~l~~~~~-~~s~~--~~ii~~i~~l~~~f 193 (202)
.... .++.+..... ...++ +-+-+++..++..|
T Consensus 112 ~d~~~g~~g~~~~~l~~~~~~~~i~v~~gv~~~e~~~ll~~f 153 (172)
T PRK10860 112 RDAKTGAAGSLMDVLHHPGMNHRVEITEGVLADECAALLSDF 153 (172)
T ss_pred cCCCCCCCCcHHHHhhcccCCCCCEEEeCccHHHHHHHHHHH
Confidence 4322 2444443321 11111 33456676766654
No 25
>PRK05578 cytidine deaminase; Validated
Probab=55.10 E-value=38 Score=24.64 Aligned_cols=55 Identities=11% Similarity=0.071 Sum_probs=38.1
Q ss_pred eEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEech
Q 039849 107 GLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDS 162 (202)
Q Consensus 107 g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs 162 (202)
.+|.++++.+|++..+..--.........||..|+-.++..- ...+..+.+-+|.
T Consensus 25 ~Vgaa~~~~~G~i~~G~nvEna~~~~~~CAE~~Ai~~av~~G-~~~i~~i~vv~~~ 79 (131)
T PRK05578 25 PVGAALLTDDGRIYTGCNIENASYGLTNCAERTAIFKAISEG-GGRLVAIACVGET 79 (131)
T ss_pred ceEEEEEeCCCCEEEEEEeeCccccCCcCHHHHHHHHHHHcC-CCceEEEEEEecC
Confidence 588899999999887776433333356789999998887432 2356777776654
No 26
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=54.78 E-value=65 Score=24.71 Aligned_cols=25 Identities=8% Similarity=0.312 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHCCcccEEEEechH
Q 039849 139 KAVTLGIQVTKKIKCLPMIIELDSK 163 (202)
Q Consensus 139 ~al~~al~~a~~~~~~~v~~esDs~ 163 (202)
..|+.||+-|+++|+.+|.+-.|..
T Consensus 117 emLkl~L~~ar~lgi~~Vlvtcd~d 141 (174)
T COG3981 117 EMLKLALEKARELGIKKVLVTCDKD 141 (174)
T ss_pred HHHHHHHHHHHHcCCCeEEEEeCCC
Confidence 4699999999999999999998854
No 27
>PRK06848 hypothetical protein; Validated
Probab=53.66 E-value=37 Score=24.97 Aligned_cols=55 Identities=16% Similarity=0.132 Sum_probs=36.8
Q ss_pred eeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEec
Q 039849 106 AGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELD 161 (202)
Q Consensus 106 ~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esD 161 (202)
..+|+.++..+|++..+..--.........||-.|+..++..- ...+..|.+-++
T Consensus 27 f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g-~~~i~~i~~v~~ 81 (139)
T PRK06848 27 HHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEG-DHEIDTIVAVRH 81 (139)
T ss_pred CcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcC-CCceEEEEEEec
Confidence 4688889999999887776444334456789999998887442 123445544443
No 28
>PF05830 NodZ: Nodulation protein Z (NodZ); InterPro: IPR008716 The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3SIX_A 2HLH_A 2HHC_A 3SIW_A 2OCX_A.
Probab=50.02 E-value=55 Score=27.60 Aligned_cols=76 Identities=22% Similarity=0.268 Sum_probs=35.7
Q ss_pred ecceeeec-CCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHC---CcccEEEEechHHHHHHHh
Q 039849 95 VDAAIRHS-NWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKI---KCLPMIIELDSKEVVDLAR 170 (202)
Q Consensus 95 ~Das~~~~-~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~---~~~~v~~esDs~~vv~~l~ 170 (202)
+|+-+... .+..-+|+-||.-+|+-+..-..+. .+...+ +.-+..++.-++.. .-.+|.+-|||+.|++.+.
T Consensus 156 ID~iy~ehf~g~~~IGVHVRhGngeD~~~h~~~~---~D~e~~-L~~V~~ai~~ak~~~~~k~~~IFLATDSaeVid~fr 231 (321)
T PF05830_consen 156 IDAIYREHFAGYSVIGVHVRHGNGEDIMDHAPYW---ADEERA-LRQVCTAIDKAKALAPPKPVRIFLATDSAEVIDQFR 231 (321)
T ss_dssp HHHHHHHHTTTSEEEEEEE------------------HHHHHH-HHHHHHHHHHHHTS--SS-EEEEEEES-HHHHHHHH
T ss_pred HHHHHHHHcCCCceEEEEEeccCCcchhccCccc---cCchHH-HHHHHHHHHHHHhccCCCCeeEEEecCcHHHHHHHH
Confidence 45433332 5667899999977776433222111 111111 22233555555444 3467999999999999997
Q ss_pred cCCC
Q 039849 171 NRKG 174 (202)
Q Consensus 171 ~~~~ 174 (202)
+.-.
T Consensus 232 ~~FP 235 (321)
T PF05830_consen 232 KKFP 235 (321)
T ss_dssp HHST
T ss_pred HHCC
Confidence 6543
No 29
>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=49.91 E-value=52 Score=23.77 Aligned_cols=15 Identities=13% Similarity=0.142 Sum_probs=12.3
Q ss_pred CHHHHHHHHHHHHHH
Q 039849 132 NVAYVEAKAVTLGIQ 146 (202)
Q Consensus 132 ~~~~AE~~al~~al~ 146 (202)
...+||..||..+-+
T Consensus 67 ~~~HAE~~Ai~~a~~ 81 (131)
T cd01286 67 RTVHAEQNAILQAAR 81 (131)
T ss_pred CCCCHHHHHHHHHhH
Confidence 567999999998754
No 30
>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=43.72 E-value=33 Score=29.14 Aligned_cols=36 Identities=19% Similarity=0.222 Sum_probs=26.0
Q ss_pred eEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHH
Q 039849 107 GLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQ 146 (202)
Q Consensus 107 g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~ 146 (202)
-+|+||.+ +|+++..+..... ...|||..|+..|.+
T Consensus 20 ~vGaviv~-~~~ii~~g~n~~~---~~~HAE~~ai~~a~~ 55 (344)
T TIGR00326 20 LVGCVIVK-NGEIVGEGAHQKA---GEPHAEVHALRQAGE 55 (344)
T ss_pred CEEEEEEe-CCEEEEEeeCCCC---CCCCHHHHHHHHhcc
Confidence 36777777 7888877654432 356999999998644
No 31
>PRK08298 cytidine deaminase; Validated
Probab=43.19 E-value=82 Score=23.11 Aligned_cols=55 Identities=13% Similarity=0.169 Sum_probs=36.7
Q ss_pred eEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEech
Q 039849 107 GLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDS 162 (202)
Q Consensus 107 g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs 162 (202)
.+|..++..+|+++.+..--....+.-.-||..|+-.++..- ...+..|.+-+|.
T Consensus 24 ~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G-~~~~~~i~v~~~~ 78 (136)
T PRK08298 24 GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQ-KRVTHSICVAREN 78 (136)
T ss_pred ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCC-CceEEEEEEEcCC
Confidence 688889999999887776433434456789999998876442 1234555555443
No 32
>PF06754 PhnG: Phosphonate metabolism protein PhnG; InterPro: IPR009609 This family consists of several bacterial phosphonate metabolism protein PhnG sequences. In Escherichia coli, the phn operon encodes proteins responsible for the uptake and breakdown of phosphonates. The exact function of PhnG is unknown, however it is thought likely that along with six other proteins PhnG makes up the the C-P (carbon-phosphorus) lyase [].; GO: 0015716 phosphonate transport, 0019634 phosphonate metabolic process
Probab=32.43 E-value=96 Score=23.02 Aligned_cols=18 Identities=17% Similarity=-0.014 Sum_probs=15.0
Q ss_pred cCCHHHHHHHHHHHHHHH
Q 039849 130 KGNVAYVEAKAVTLGIQV 147 (202)
Q Consensus 130 ~~~~~~AE~~al~~al~~ 147 (202)
-.+...||+.|+..|+-.
T Consensus 83 G~d~~~A~~~Av~DAllq 100 (146)
T PF06754_consen 83 GRDKRHAELAAVIDALLQ 100 (146)
T ss_pred CCCHHHHHHHHHHHHHhC
Confidence 348999999999999844
No 33
>PRK09027 cytidine deaminase; Provisional
Probab=30.53 E-value=1.8e+02 Score=24.38 Aligned_cols=58 Identities=9% Similarity=-0.034 Sum_probs=38.8
Q ss_pred eeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHC-CcccEEEEech
Q 039849 105 IAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKI-KCLPMIIELDS 162 (202)
Q Consensus 105 ~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~-~~~~v~~esDs 162 (202)
..-.|+.+++.+|++..+..--.......+-||-.|+..++.--.+. .+..+.+-.+.
T Consensus 209 ~f~vGaAl~~~dG~i~~G~nvENAAynpslcaer~Al~~~v~~G~~~~~i~~i~lv~~~ 267 (295)
T PRK09027 209 QSYSGVALETKDGRIYTGRYAENAAFNPSLPPLQGALNLLNLSGEDFSDIQRAVLVEKA 267 (295)
T ss_pred CCceeEEEEeCCCCEEEEEEEEcCCCCCcccHHHHHHHHHHHcCCCccCEEEEEEEeCC
Confidence 34578889999999887766554445567778888888877432221 35666665554
No 34
>PF02569 Pantoate_ligase: Pantoate-beta-alanine ligase; InterPro: IPR003721 D-Pantothenate is synthesized via four enzymes from ketoisovalerate, which is an intermediate of branched-chain amino acid synthesis []. Pantoate-beta-alanine ligase, also know as pantothenate synthase, (6.3.2.1 from EC) catalyzes the formation of pantothenate from pantoate and alanine in the pantothenate biosynthesis pathway [].; GO: 0004592 pantoate-beta-alanine ligase activity, 0015940 pantothenate biosynthetic process; PDB: 3MUE_C 1V8F_B 1UFV_A 2X3F_B 1MOP_A 3COY_B 3IOC_A 1N2E_A 3IVX_A 1N2H_A ....
Probab=28.73 E-value=1.2e+02 Score=25.18 Aligned_cols=69 Identities=13% Similarity=0.102 Sum_probs=40.2
Q ss_pred EEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHHhcCCCCcchHHHHHHHHHHH
Q 039849 110 VVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLARNRKGCKSEVFWTVVAIQAS 189 (202)
Q Consensus 110 ~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~~~~~s~~~~ii~~i~~l 189 (202)
=.+|+++|--+.+...+ .+...-.++..+..+|+.+.+. +.++. .....++..++..
T Consensus 175 ptvRe~dGLAlSSRN~~---Ls~~eR~~A~~l~~~L~~a~~~-----------------~~~G~---~~~~~l~~~~~~~ 231 (280)
T PF02569_consen 175 PTVREPDGLALSSRNVY---LSPEEREAAPVLYRALKAAKEA-----------------IRAGE---RDASELIQAARKI 231 (280)
T ss_dssp ---B-TTS-B--GGGGG---S-HHHHHHTTHHHHHHHHHHHH-----------------HHTT-----BHHHHHHHHHHH
T ss_pred CCeECCCCCceeecccc---CCHHHHHHHHHHHHHHHHHHHh-----------------hhccc---chHHHHHHHHHHH
Confidence 35799999877665544 3456678888899999887542 33322 2355666677777
Q ss_pred hhcCCceEEEee
Q 039849 190 LKSLNRVQIQHV 201 (202)
Q Consensus 190 ~~~f~~~~~~~V 201 (202)
+...+.+.+.|+
T Consensus 232 l~~~~~~~~dY~ 243 (280)
T PF02569_consen 232 LESEPGIEVDYV 243 (280)
T ss_dssp HHTTTTEEEEEE
T ss_pred HhhCCCCCccEE
Confidence 777777777775
No 35
>KOG3139 consensus N-acetyltransferase [General function prediction only]
Probab=28.06 E-value=69 Score=24.34 Aligned_cols=23 Identities=13% Similarity=0.202 Sum_probs=20.3
Q ss_pred HHHHHHHHHHCCcccEEEEechH
Q 039849 141 VTLGIQVTKKIKCLPMIIELDSK 163 (202)
Q Consensus 141 l~~al~~a~~~~~~~v~~esDs~ 163 (202)
+..||+.+.+.|.+.|++||+-.
T Consensus 106 vr~aId~m~~~g~~eVvLeTe~~ 128 (165)
T KOG3139|consen 106 VRKAIDAMRSRGYSEVVLETEVT 128 (165)
T ss_pred HHHHHHHHHHCCCcEEEEecccc
Confidence 56789999999999999999853
No 36
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=28.00 E-value=1.6e+02 Score=18.85 Aligned_cols=51 Identities=20% Similarity=0.158 Sum_probs=28.8
Q ss_pred eEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHH-----HHHHHHHH-HHC---CcccEEEEechH
Q 039849 107 GLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKA-----VTLGIQVT-KKI---KCLPMIIELDSK 163 (202)
Q Consensus 107 g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~a-----l~~al~~a-~~~---~~~~v~~esDs~ 163 (202)
-.|+++-|.+|.++... ..+...+|..| ++.+.+.+ .++ .++.+.++++..
T Consensus 15 v~~~~l~~~dG~~i~~~------~~~~~~~~~~aa~~a~~~~~~~~~~~~l~~~~~~~v~i~~~~~ 74 (91)
T PF03259_consen 15 VRGAVLVDKDGLVIASS------GIDDDDAEKLAAMAASLLAAAEKLAKELGEGELEQVRIETEKG 74 (91)
T ss_dssp EEEEEEEETTSEEEEET------SSSHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEEEEEEEESSE
T ss_pred eeEEEEEcCCCCEEEEe------cCCcccHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEEEECCC
Confidence 45788889999998871 11233333333 33333322 223 468888888753
No 37
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=27.33 E-value=89 Score=26.88 Aligned_cols=35 Identities=20% Similarity=0.308 Sum_probs=23.1
Q ss_pred EEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHH
Q 039849 108 LGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQ 146 (202)
Q Consensus 108 ~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~ 146 (202)
+|+||.+ +|+++..+..... ...|||..|+..|-+
T Consensus 27 vGaviv~-~g~ii~~g~n~~~---g~~HAE~~ai~~a~~ 61 (367)
T PRK10786 27 VGCVIVK-DGEIVGEGYHQRA---GEPHAEVHALRMAGE 61 (367)
T ss_pred EEEEEEe-CCEEEEEEeCCCC---CCCCHHHHHHHHHhh
Confidence 5666664 5887776654322 237999999988744
No 38
>COG0084 TatD Mg-dependent DNase [DNA replication, recombination, and repair]
Probab=26.78 E-value=40 Score=27.58 Aligned_cols=46 Identities=11% Similarity=0.118 Sum_probs=29.6
Q ss_pred HHHHHHHCCcccEEEEechHHHHHH-HhcCCCCcchHHHHHHHHHHH
Q 039849 144 GIQVTKKIKCLPMIIELDSKEVVDL-ARNRKGCKSEVFWTVVAIQAS 189 (202)
Q Consensus 144 al~~a~~~~~~~v~~esDs~~vv~~-l~~~~~~~s~~~~ii~~i~~l 189 (202)
.-+.+..+-..++.+||||..+-.. ..++...+.....+++.+-.+
T Consensus 188 ~~ev~~~iPldrLL~ETDsPyl~P~p~rGkrNeP~~v~~v~~~iAel 234 (256)
T COG0084 188 LREVARELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVAEKLAEL 234 (256)
T ss_pred HHHHHHhCCHhHeEeccCCCCCCCcCCCCCCCCchHHHHHHHHHHHH
Confidence 3456678899999999999998655 444344444444444444433
No 39
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=26.56 E-value=92 Score=27.03 Aligned_cols=35 Identities=20% Similarity=0.212 Sum_probs=23.3
Q ss_pred EEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHH
Q 039849 108 LGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQ 146 (202)
Q Consensus 108 ~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~ 146 (202)
+|+||.+ +|+++..+..... ...|||..|+..|-+
T Consensus 56 VGaViV~-~g~Ii~~g~n~~~---g~~HAEi~Ai~~a~~ 90 (380)
T PLN02807 56 VGCVIVK-DGRIVGEGFHPKA---GQPHAEVFALRDAGD 90 (380)
T ss_pred EEEEEEE-CCEEEEEEeCCCC---CCcCHHHHHHHHhhh
Confidence 5666654 3888876654332 236999999988754
No 40
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=24.26 E-value=1.3e+02 Score=27.44 Aligned_cols=49 Identities=12% Similarity=0.166 Sum_probs=36.1
Q ss_pred CcccCCCCCc-------eEEEecceeeecCCeeeEEEEEeCCCCcEEEeeeeecCcc
Q 039849 81 QAWMPPSSGW-------YEANVDAAIRHSNWIAGLGVVIRDSKGKFVAVAIQRAIYK 130 (202)
Q Consensus 81 ~~W~~P~~~~-------~K~n~Das~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~ 130 (202)
--|.++|.+. ..+.|.|.+.|.++..-+=+|..|+.|.+++++.- +.+.
T Consensus 56 f~Wa~~p~~~~~~s~~~~~V~F~ayyLPk~~~e~YqfcYv~~~g~V~G~S~p-Fqf~ 111 (546)
T PF07888_consen 56 FVWAPVPENYVEGSAVNCQVQFQAYYLPKDDDEFYQFCYVDQKGEVRGASTP-FQFR 111 (546)
T ss_pred EEeeccCccccCCCccceEEEECcccCCCCCCCeEEEEEECCCccEEEecCC-cccC
Confidence 3588877643 25678899998877777899999999998776654 4433
No 41
>PLN02182 cytidine deaminase
Probab=23.38 E-value=1.7e+02 Score=25.02 Aligned_cols=40 Identities=20% Similarity=-0.104 Sum_probs=28.9
Q ss_pred eeEEEEEeCCCCcEEEeeeeecCccCC--HHHHHHHHHHHHH
Q 039849 106 AGLGVVIRDSKGKFVAVAIQRAIYKGN--VAYVEAKAVTLGI 145 (202)
Q Consensus 106 ~g~G~vird~~g~~~~~~~~~~~~~~~--~~~AE~~al~~al 145 (202)
.-+|.+++..+|++..+..--..+.+- ...||-.|+-.+.
T Consensus 66 F~VGAa~l~~sG~iy~GvNVEnas~pl~~tICAEr~AI~~A~ 107 (339)
T PLN02182 66 YKVGAVGRASSGRVYLGVNVDFPGLPLHHSIHAEQFLVTNLA 107 (339)
T ss_pred CeeeEEEEeCCCCEEEEEEeecCCCccCCccCHHHHHHHHHH
Confidence 347888888999988877644443322 5699999988875
No 42
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=23.32 E-value=1.2e+02 Score=22.68 Aligned_cols=33 Identities=18% Similarity=0.233 Sum_probs=21.5
Q ss_pred EEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHH
Q 039849 108 LGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLG 144 (202)
Q Consensus 108 ~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~a 144 (202)
+|+||.+.. +++..+...- .-..+||..||..|
T Consensus 30 VG~VIV~~~-~Ivg~G~h~~---aG~pHAEv~Al~~a 62 (146)
T COG0117 30 VGCVIVKDG-EIVGEGYHEK---AGGPHAEVCALRMA 62 (146)
T ss_pred eeEEEEECC-EEEeeeecCC---CCCCcHHHHHHHHc
Confidence 566666544 6666654332 34568999999886
No 43
>PF11080 DUF2622: Protein of unknown function (DUF2622); InterPro: IPR022597 This family is conserved in the Enterobacteriaceae family. The function is not known.
Probab=23.12 E-value=2.6e+02 Score=19.26 Aligned_cols=43 Identities=14% Similarity=0.156 Sum_probs=30.2
Q ss_pred CeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHH
Q 039849 104 WIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQ 146 (202)
Q Consensus 104 ~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~ 146 (202)
.++|.--.+.|++|..-.-++..+..++.-...|..++..+|-
T Consensus 31 t~~GF~~tl~D~~G~~HeLgtntfgl~S~l~~~eV~~la~~la 73 (96)
T PF11080_consen 31 TRAGFSTTLTDEDGNPHELGTNTFGLISALSAEEVAQLARGLA 73 (96)
T ss_pred HhcCceeEEecCCCCEeecCCCeEEEEecCCHHHHHHHHHHHh
Confidence 3467777899999998877777766555555556666666664
No 44
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=22.81 E-value=3.8e+02 Score=21.02 Aligned_cols=49 Identities=18% Similarity=0.069 Sum_probs=37.1
Q ss_pred cCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCC
Q 039849 102 SNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIK 152 (202)
Q Consensus 102 ~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~ 152 (202)
..+.+--|.+|-|++|.+........+ ..-+.-|.+.++.||++...+|
T Consensus 119 ~~g~a~R~~FIIDp~g~ir~~~v~~~~--iGRn~dEilR~idAlq~~~~hg 167 (194)
T COG0450 119 EEGLALRGTFIIDPDGVIRHILVNPLT--IGRNVDEILRVIDALQFVAKHG 167 (194)
T ss_pred CCCcceeEEEEECCCCeEEEEEEecCC--CCcCHHHHHHHHHHHHHHHHhC
Confidence 445566799999999998776654443 2345789999999999987765
No 45
>TIGR03293 PhnG_redo phosphonate C-P lyase system protein PhnG. PhnH is a component of the C-P lyase system (GenProp0232) for the catabolism of phosphonate compounds. The specific function of this component is unknown. This model is based on Pfam model pfam06754.2, and has been broadened to include sequences missed by that model which are clearly true positive hits based on genome context.
Probab=22.36 E-value=2.2e+02 Score=21.03 Aligned_cols=18 Identities=17% Similarity=-0.058 Sum_probs=14.8
Q ss_pred cCCHHHHHHHHHHHHHHH
Q 039849 130 KGNVAYVEAKAVTLGIQV 147 (202)
Q Consensus 130 ~~~~~~AE~~al~~al~~ 147 (202)
-.+...||+.|+..|+-.
T Consensus 82 Gr~~~~A~~~Ai~DAllq 99 (144)
T TIGR03293 82 GRDKRHAELLAVLDALLQ 99 (144)
T ss_pred cCCHHHHHHHHHHHHHhc
Confidence 348899999999999843
No 46
>PRK11449 putative deoxyribonuclease YjjV; Provisional
Probab=22.08 E-value=59 Score=26.39 Aligned_cols=20 Identities=20% Similarity=0.444 Sum_probs=16.3
Q ss_pred HHHHHCCcccEEEEechHHH
Q 039849 146 QVTKKIKCLPMIIELDSKEV 165 (202)
Q Consensus 146 ~~a~~~~~~~v~~esDs~~v 165 (202)
+.+......++.+|||+..+
T Consensus 192 ~~~~~ipldriL~ETD~P~l 211 (258)
T PRK11449 192 DVIAKLPLASLLLETDAPDM 211 (258)
T ss_pred HHHHhCChhhEEEecCCCCC
Confidence 44567899999999999864
No 47
>KOG0833 consensus Cytidine deaminase [Nucleotide transport and metabolism]
Probab=21.66 E-value=2.3e+02 Score=21.77 Aligned_cols=40 Identities=15% Similarity=0.005 Sum_probs=27.9
Q ss_pred eEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHH
Q 039849 107 GLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQ 146 (202)
Q Consensus 107 g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~ 146 (202)
-+|+++|.+.|++..+..--.-.......||-.|+..++.
T Consensus 43 kVGA~~r~ssGrif~G~NVEn~~~~~sIcAEr~ai~~l~l 82 (173)
T KOG0833|consen 43 KVGAAGRASSGRIFLGVNVENASYHHSICAERFAIANLAL 82 (173)
T ss_pred ceEEEEEecCCcEEEeeeecccCCCCcccHHHHHHHHHHH
Confidence 4678888888887766654444455667899888777653
No 48
>PF05854 MC1: Non-histone chromosomal protein MC1; InterPro: IPR008674 This family consists of archaeal chromosomal protein MC1 sequences which protect DNA against thermal denaturation [].; GO: 0042262 DNA protection; PDB: 1T23_A 2KHL_A.
Probab=21.53 E-value=69 Score=21.78 Aligned_cols=19 Identities=21% Similarity=0.288 Sum_probs=15.3
Q ss_pred EEEeCCCCcEEEeeeeecC
Q 039849 110 VVIRDSKGKFVAVAIQRAI 128 (202)
Q Consensus 110 ~vird~~g~~~~~~~~~~~ 128 (202)
+++||.+|.-+..+++..+
T Consensus 6 F~Lr~~~G~E~gvFtG~~P 24 (93)
T PF05854_consen 6 FALRDEDGNEIGVFTGAQP 24 (93)
T ss_dssp EEEETTTTSEEEEEEESSC
T ss_pred EEEEcCCCccccEEeCCCH
Confidence 7899999998887776544
No 49
>KOG1593 consensus Asparaginase [Amino acid transport and metabolism]
Probab=21.31 E-value=3.9e+02 Score=22.22 Aligned_cols=42 Identities=17% Similarity=0.254 Sum_probs=25.2
Q ss_pred CcccCCCCCceEEEecceee---ecCCeeeEEEEEeCCCCcEEEe
Q 039849 81 QAWMPPSSGWYEANVDAAIR---HSNWIAGLGVVIRDSKGKFVAV 122 (202)
Q Consensus 81 ~~W~~P~~~~~K~n~Das~~---~~~~~~g~G~vird~~g~~~~~ 122 (202)
-..+||+.-.++.+++-+-. +..+.--+|++++|..|.+-.+
T Consensus 180 GPYkp~~~~~~~~~~~~s~e~~vg~~nHDTIgM~vid~eghi~aG 224 (349)
T KOG1593|consen 180 GPYKPNKLMRWDSLVNQSDEYLVGPTNHDTIGMVVIDTEGHIAAG 224 (349)
T ss_pred CCCCCCcccccccccccccccccCCCCCCeeeEEEEeccCceeec
Confidence 34455444334444443333 3455677999999999987544
No 50
>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit. Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.
Probab=21.15 E-value=4.8e+02 Score=21.61 Aligned_cols=64 Identities=19% Similarity=0.195 Sum_probs=41.2
Q ss_pred eEEEEEeCCCC------cEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCCcccEEEEechHHHHHHHhcC
Q 039849 107 GLGVVIRDSKG------KFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIKCLPMIIELDSKEVVDLARNR 172 (202)
Q Consensus 107 g~G~vird~~g------~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~ 172 (202)
-.|-|.|.+.. ++.-.+...+. .+...||+..+..+++...++|+.++.++--...+++.+-..
T Consensus 92 y~g~VfR~~~~~~gr~re~~Q~g~Eiig--~~~~~adaEvi~l~~~~l~~lg~~~~~i~l~~~~il~~il~~ 161 (314)
T TIGR00443 92 YAGNVFRTNESGAGRSREFTQAGVELIG--AGGPAADAEVIALLIEALKALGLKDFKIELGHVGLVRALLEE 161 (314)
T ss_pred EeceEeecCCCcCCCcccccccceEEeC--CCCchhHHHHHHHHHHHHHHcCCCCeEEEeCcHHHHHHHHHH
Confidence 44666665331 23333333333 344578888888899999999998888876666666666544
No 51
>KOG1018 consensus Cytosine deaminase FCY1 and related enzymes [Nucleotide transport and metabolism]
Probab=20.82 E-value=2.9e+02 Score=21.02 Aligned_cols=44 Identities=23% Similarity=0.185 Sum_probs=25.5
Q ss_pred EEEEEeCCCCcEEEeeeee-cCccCCHHHHHHHHHHHHHHHHHHC
Q 039849 108 LGVVIRDSKGKFVAVAIQR-AIYKGNVAYVEAKAVTLGIQVTKKI 151 (202)
Q Consensus 108 ~G~vird~~g~~~~~~~~~-~~~~~~~~~AE~~al~~al~~a~~~ 151 (202)
+|+|+.+.+|.++..+... ........+||..++..=......+
T Consensus 34 vg~vlV~~~g~v~a~g~n~~~~~~d~t~HaE~~~I~~~~~~~~~~ 78 (169)
T KOG1018|consen 34 VGAVLVHMDGKVLASGGNMVNEKKDPTAHAEVIAIREEEVMCKSL 78 (169)
T ss_pred eEEEEEeCCCeEEecccceecccCCcchhhHHHHHhhHHHHhhhc
Confidence 5556665556665554433 3334456679999999843333333
No 52
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=20.77 E-value=3.7e+02 Score=20.18 Aligned_cols=60 Identities=13% Similarity=0.058 Sum_probs=34.4
Q ss_pred eecCCeeeEEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHH-HCCcccEEEEe
Q 039849 100 RHSNWIAGLGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTK-KIKCLPMIIEL 160 (202)
Q Consensus 100 ~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~-~~~~~~v~~es 160 (202)
+|.....|+|++=.. .+++.....+.+.....++..-+..+..+|+... +...+.+.+|.
T Consensus 5 DPGl~~tG~gvi~~~-~~~~~~v~~G~I~t~~~~~~~RL~~I~~~l~~~i~~y~P~~~aiE~ 65 (156)
T TIGR00228 5 DPGSRVTGYGVIRQV-GRQLSYLGSGCIRTKVDDLPSRLKLIYAGVTEIITQFQPNYFAIEQ 65 (156)
T ss_pred CcccccccEEEEEec-CCeEEEEEeeEEECCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEeH
Confidence 455567888877543 3443333333333223466666677888888776 45666666663
No 53
>PRK13191 putative peroxiredoxin; Provisional
Probab=20.70 E-value=2.7e+02 Score=21.89 Aligned_cols=43 Identities=19% Similarity=0.083 Sum_probs=32.3
Q ss_pred EEEEEeCCCCcEEEeeeeecCccCCHHHHHHHHHHHHHHHHHHCC
Q 039849 108 LGVVIRDSKGKFVAVAIQRAIYKGNVAYVEAKAVTLGIQVTKKIK 152 (202)
Q Consensus 108 ~G~vird~~g~~~~~~~~~~~~~~~~~~AE~~al~~al~~a~~~~ 152 (202)
=+.+|-|.+|.+.......+. + ..+..|++.++.||+.....|
T Consensus 125 r~tfIID~~G~Ir~~~~~~~~-~-gr~~~eilr~l~alq~~~~~~ 167 (215)
T PRK13191 125 RAVFIVDDKGTVRLILYYPME-I-GRNIDEILRAIRALQLVDKAG 167 (215)
T ss_pred EEEEEECCCCEEEEEEecCCC-C-CCCHHHHHHHHHHhhhhhhcC
Confidence 367889999998876655443 2 347899999999999876654
No 54
>PLN02402 cytidine deaminase
Probab=20.17 E-value=2.3e+02 Score=23.86 Aligned_cols=63 Identities=10% Similarity=-0.128 Sum_probs=37.7
Q ss_pred eeEEEEEeCCCCcEEEeeeeecCccCC--HHHHHHHHHHHHHHHHHHCCcccEEEE----echHHHHHHH
Q 039849 106 AGLGVVIRDSKGKFVAVAIQRAIYKGN--VAYVEAKAVTLGIQVTKKIKCLPMIIE----LDSKEVVDLA 169 (202)
Q Consensus 106 ~g~G~vird~~g~~~~~~~~~~~~~~~--~~~AE~~al~~al~~a~~~~~~~v~~e----sDs~~vv~~l 169 (202)
.-+|.+++..+|++..+..--....+. ...||..|+-.++..- +..+..|.+- +.|..++.-+
T Consensus 46 F~VGAa~l~~~G~i~~GvNVEnasy~l~~tiCAEr~Ai~~av~~G-~~~i~~iaV~~sPCG~CRQ~l~Ef 114 (303)
T PLN02402 46 YHVGAVGLGSSGRIFLGVNLEFPGLPLHHSVHAEQFLITNLTLNA-EPHLKYVAVSAAPCGHCRQFFQEI 114 (303)
T ss_pred CeeeEEEEeCCCCEEEEEeeecCCCCCCCcccHHHHHHHHHHHcC-CCceEEEEEEeCCCcccHHHHHHh
Confidence 347888888889888776643332222 5689999998876432 1234444442 2444454444
Done!