Query psy7660
Match_columns 250
No_of_seqs 282 out of 1356
Neff 7.2
Searched_HMMs 46136
Date Sat Aug 17 00:10:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7660.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7660hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06548 ribonuclease H; Provi 99.9 6.7E-21 1.5E-25 157.3 12.6 115 2-118 14-141 (161)
2 PRK08719 ribonuclease H; Revie 99.8 3.3E-20 7.1E-25 151.3 12.1 106 8-118 23-146 (147)
3 PF00075 RNase_H: RNase H; In 99.8 1.6E-20 3.5E-25 148.5 8.3 102 8-117 19-131 (132)
4 COG0328 RnhA Ribonuclease HI [ 99.8 5.6E-20 1.2E-24 149.9 11.2 118 2-120 12-146 (154)
5 PRK00203 rnhA ribonuclease H; 99.8 4.1E-19 8.9E-24 145.1 12.1 110 8-120 19-143 (150)
6 cd06222 RnaseH RNase H (RNase 99.7 9.9E-17 2.2E-21 122.8 14.7 112 6-117 13-130 (130)
7 KOG3752|consensus 99.7 2.5E-16 5.4E-21 143.0 10.5 113 6-118 229-364 (371)
8 PRK13907 rnhA ribonuclease H; 99.6 3.9E-15 8.5E-20 118.0 11.1 113 2-118 10-126 (128)
9 PRK07708 hypothetical protein; 99.4 6.4E-12 1.4E-16 108.8 13.6 112 6-121 87-210 (219)
10 PF13456 RVT_3: Reverse transc 99.4 2.6E-12 5.5E-17 93.9 8.7 85 29-117 1-85 (87)
11 PRK07238 bifunctional RNase H/ 99.4 7E-12 1.5E-16 116.4 13.2 114 1-118 10-131 (372)
12 PF13966 zf-RVT: zinc-binding 81.9 0.69 1.5E-05 33.7 1.1 15 200-214 68-82 (86)
13 cd01285 nucleoside_deaminase N 73.7 18 0.00039 27.4 6.9 55 5-59 16-75 (109)
14 COG0296 GlgB 1,4-alpha-glucan 69.6 6.2 0.00013 39.5 4.3 34 76-109 214-247 (628)
15 PF00336 DNA_pol_viral_C: DNA 67.5 5.8 0.00013 34.2 3.1 78 8-100 104-183 (245)
16 cd01284 Riboflavin_deaminase-r 67.4 25 0.00054 27.2 6.5 49 5-57 18-67 (115)
17 COG0295 Cdd Cytidine deaminase 65.0 16 0.00035 29.3 5.1 52 6-58 26-81 (134)
18 KOG1812|consensus 63.0 24 0.00052 33.3 6.6 90 26-118 46-137 (384)
19 PRK10860 tRNA-specific adenosi 62.7 29 0.00062 28.9 6.4 53 6-58 33-89 (172)
20 COG4566 TtrR Response regulato 58.5 18 0.0004 30.9 4.5 94 36-139 15-121 (202)
21 COG0590 CumB Cytosine/adenosin 55.6 37 0.0008 27.6 5.8 53 6-58 28-85 (152)
22 cd01286 deoxycytidylate_deamin 54.6 50 0.0011 26.0 6.3 50 6-57 20-94 (131)
23 TIGR01354 cyt_deam_tetra cytid 54.5 33 0.00072 26.9 5.2 53 5-58 20-76 (127)
24 PRK06848 hypothetical protein; 51.8 36 0.00078 27.3 5.1 54 4-58 25-82 (139)
25 PRK02228 V-type ATP synthase s 50.3 1.1E+02 0.0023 23.0 7.5 45 72-119 52-96 (100)
26 PRK08298 cytidine deaminase; V 45.6 41 0.0009 26.9 4.5 51 7-58 24-78 (136)
27 PF00383 dCMP_cyt_deam_1: Cyti 44.9 93 0.002 22.6 6.1 52 4-56 22-78 (102)
28 PRK12411 cytidine deaminase; P 44.0 53 0.0012 26.1 4.9 53 5-58 23-79 (132)
29 PRK05578 cytidine deaminase; V 39.8 75 0.0016 25.2 5.1 52 6-58 24-79 (131)
30 COG0117 RibD Pyrimidine deamin 36.9 74 0.0016 25.9 4.7 41 4-44 26-66 (146)
31 PF13653 GDPD_2: Glycerophosph 30.9 24 0.00053 20.8 0.7 9 239-247 1-9 (30)
32 cd00786 cytidine_deaminase-lik 28.1 1.7E+02 0.0036 21.5 5.1 50 5-57 17-72 (96)
33 TIGR00326 eubact_ribD riboflav 28.0 1.1E+02 0.0024 28.1 4.9 39 6-44 19-57 (344)
34 cd01283 cytidine_deaminase Cyt 26.9 1.7E+02 0.0038 21.9 5.2 41 5-45 17-61 (112)
35 PF05380 Peptidase_A17: Pao re 26.8 2.7E+02 0.0058 22.4 6.6 21 25-45 122-142 (159)
36 PRK12568 glycogen branching en 26.6 80 0.0017 32.4 4.0 31 76-106 319-349 (730)
37 TIGR02571 ComEB ComE operon pr 25.6 3.1E+02 0.0068 22.1 6.7 37 6-42 25-80 (151)
38 COG3341 Predicted double-stran 23.6 79 0.0017 27.5 2.8 90 26-120 105-202 (225)
39 PHA02588 cd deoxycytidylate de 22.6 3.6E+02 0.0078 22.2 6.6 14 29-42 81-94 (168)
No 1
>PRK06548 ribonuclease H; Provisional
Probab=99.85 E-value=6.7e-21 Score=157.26 Aligned_cols=115 Identities=26% Similarity=0.262 Sum_probs=87.1
Q ss_pred CCCCCc-eEEEEEECCeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcC---------CC-
Q psy7660 2 SKTLQN-TSCAVYAGGTTKSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANK---------NT- 70 (250)
Q Consensus 2 S~~~~~-~G~g~v~~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~---------~~- 70 (250)
+..+++ .|+|+++.+.....+....+|++.|||.||+.||+.+.. ...+|.|+|||++|+++|+.+ ..
T Consensus 14 ~~gnpg~~G~g~~~~~~~~~~g~~~~~TNnraEl~Aii~aL~~~~~-~~~~v~I~TDS~yvi~~i~~W~~~Wk~~gWk~s 92 (161)
T PRK06548 14 SLANPGPSGWAWYVDENTWDSGGWDIATNNIAELTAVRELLIATRH-TDRPILILSDSKYVINSLTKWVYSWKMRKWRKA 92 (161)
T ss_pred cCCCCCceEEEEEEeCCcEEccCCCCCCHHHHHHHHHHHHHHhhhc-CCceEEEEeChHHHHHHHHHHHHHHHHCCCccc
Confidence 444544 788888754322223335689999999999999986643 345799999999999999942 21
Q ss_pred -chHHH-HHHHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhc
Q psy7660 71 -TIPLI-AHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDG 118 (250)
Q Consensus 71 -~~~~~-~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~ 118 (250)
++++. +++++.+..+..+ ..|+|.|||||+|++|||.||+||++|+.
T Consensus 93 ~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~ 141 (161)
T PRK06548 93 DGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAAN 141 (161)
T ss_pred CCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence 44544 5666666666554 47999999999999999999999999985
No 2
>PRK08719 ribonuclease H; Reviewed
Probab=99.83 E-value=3.3e-20 Score=151.29 Aligned_cols=106 Identities=20% Similarity=0.233 Sum_probs=80.9
Q ss_pred eEEEEEE--CCe----eEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhh--------cCCC---
Q psy7660 8 TSCAVYA--GGT----TKSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIA--------NKNT--- 70 (250)
Q Consensus 8 ~G~g~v~--~~~----~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~--------~~~~--- 70 (250)
.|+|+++ ++. ..+..+....|+++|||.||..||+.+.+. ..|+|||++++++|+ +.+.
T Consensus 23 ~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~ 98 (147)
T PRK08719 23 GGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYCVRGFNEWLDTWKQKGWRKSD 98 (147)
T ss_pred cEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHHHHHHHHHHHHHHhCCcccCC
Confidence 4777765 322 234445566899999999999999998753 379999999999994 3332
Q ss_pred chHH-HHHHHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhc
Q psy7660 71 TIPL-IAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDG 118 (250)
Q Consensus 71 ~~~~-~~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~ 118 (250)
+.++ -.++++.+..|.+ ...|.|.|||||+|++|||.||+||++|++
T Consensus 99 g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 99 KKPVANRDLWQQVDELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred CcccccHHHHHHHHHHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 2233 2456667776755 567999999999999999999999999874
No 3
>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=99.83 E-value=1.6e-20 Score=148.52 Aligned_cols=102 Identities=29% Similarity=0.390 Sum_probs=79.2
Q ss_pred eEEEEEE-CCeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhc-----CCC---ch-HHHHH
Q psy7660 8 TSCAVYA-GGTTKSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIAN-----KNT---TI-PLIAH 77 (250)
Q Consensus 8 ~G~g~v~-~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~-----~~~---~~-~~~~~ 77 (250)
.|+|+++ .+...++.++ .++++.|||.||..||+ +.. ..++.|+|||+++++.|.. .+. .. ++..+
T Consensus 19 ~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~-~~~--~~~v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~ 94 (132)
T PF00075_consen 19 GGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALK-ALE--HRKVTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNE 94 (132)
T ss_dssp EEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHH-THS--TSEEEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHH
T ss_pred eEEEEEEECCeEEEeccc-ccchhhhheehHHHHHH-Hhh--cccccccccHHHHHHHHHHhccccccccccccccchhh
Confidence 4666654 3444555566 89999999999999999 443 3999999999999998888 332 12 46566
Q ss_pred HHHHHHHHHhCCCceEEEeccCCCCC-ccchHHhHHHHhhh
Q psy7660 78 ILNTWYSLKSCGKNVAFLWCPSHTGI-SGNEIVDRATRQLD 117 (250)
Q Consensus 78 i~~~~~~l~~~g~~V~~~WVPgH~gi-~gNe~AD~lAk~a~ 117 (250)
|++.+ .++..|.|+|||||+|+ .|||.||+|||+|+
T Consensus 95 i~~~~----~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 95 IWELL----SRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HHHHH----HHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred eeecc----ccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 66554 45889999999999999 69999999999986
No 4
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.82 E-value=5.6e-20 Score=149.94 Aligned_cols=118 Identities=18% Similarity=0.124 Sum_probs=93.7
Q ss_pred CCCCCc-eEEEEEEC--Cee--EEEecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCC------
Q psy7660 2 SKTLQN-TSCAVYAG--GTT--KSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT------ 70 (250)
Q Consensus 2 S~~~~~-~G~g~v~~--~~~--~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~------ 70 (250)
|..|+| .|+|+|.. +.. .+.+.. .+|+++||+.|++.||+.+.+.+...|.|+|||++++++|..+..
T Consensus 12 ~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~w~~~w~~~~ 90 (154)
T COG0328 12 CLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGITRWIVKWKKNG 90 (154)
T ss_pred cCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHHHHhhccccC
Confidence 445555 67777763 332 333334 899999999999999999998889999999999999999995411
Q ss_pred -----chHH-HHHHHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhccc
Q psy7660 71 -----TIPL-IAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDGAE 120 (250)
Q Consensus 71 -----~~~~-~~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~~~ 120 (250)
++++ ..++++.+.++..+...|.+.|||||+|.++||.||+||+.|+...
T Consensus 91 w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 91 WKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred ccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 1222 3467777777877777999999999999999999999999998754
No 5
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.80 E-value=4.1e-19 Score=145.11 Aligned_cols=110 Identities=17% Similarity=0.197 Sum_probs=81.1
Q ss_pred eEEEEEE--CCeeEEE-ecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcC--------C-C--chH
Q psy7660 8 TSCAVYA--GGTTKSY-ILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANK--------N-T--TIP 73 (250)
Q Consensus 8 ~G~g~v~--~~~~~~~-~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~--------~-~--~~~ 73 (250)
.|+|+|+ ++....+ +.....|++.|||.||..||+.+.+ ...+.|+|||++++++|..+ + . +++
T Consensus 19 ~g~g~v~~~~~~~~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i~~w~~~Wk~~~~~~~~g~~ 96 (150)
T PRK00203 19 GGWGAILRYKGHEKELSGGEALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKP 96 (150)
T ss_pred eEEEEEEEECCeeEEEecCCCCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHHHHHHHHHHHcCCcccCCCc
Confidence 6777775 3333222 2235788999999999999998865 46799999999999999962 1 1 233
Q ss_pred HH-HHHHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhccc
Q psy7660 74 LI-AHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDGAE 120 (250)
Q Consensus 74 ~~-~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~~~ 120 (250)
+. .++++.+.++.. ...|.|.|||||+|++||+.||+||++|+...
T Consensus 97 v~n~dl~~~i~~l~~-~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~ 143 (150)
T PRK00203 97 VKNVDLWQRLDAALK-RHQIKWHWVKGHAGHPENERCDELARAGAEEA 143 (150)
T ss_pred cccHHHHHHHHHHhc-cCceEEEEecCCCCCHHHHHHHHHHHHHHHHh
Confidence 32 234444444433 37899999999999999999999999998643
No 6
>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=99.74 E-value=9.9e-17 Score=122.82 Aligned_cols=112 Identities=21% Similarity=0.216 Sum_probs=87.2
Q ss_pred CceEEEEEECC--eeEEEe---cCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCC-chHHHHHHH
Q psy7660 6 QNTSCAVYAGG--TTKSYI---LNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT-TIPLIAHIL 79 (250)
Q Consensus 6 ~~~G~g~v~~~--~~~~~~---l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~-~~~~~~~i~ 79 (250)
++.|+|++..+ ....+. .....+++.||+.|+..||+.+......++.|+|||+.+++.+.+... .......++
T Consensus 13 ~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~~~~~~~~~~~~~ 92 (130)
T cd06222 13 GPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGWYEGKPVKNVDLW 92 (130)
T ss_pred CceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhccccCCChhhHHHH
Confidence 36888888643 222221 225789999999999999999998888999999999999999998764 222233333
Q ss_pred HHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhh
Q psy7660 80 NTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLD 117 (250)
Q Consensus 80 ~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~ 117 (250)
..+..+...+..+.|.|||+|+++++|+.||.|||+|.
T Consensus 93 ~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 93 QRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred HHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 44444446788999999999999999999999999874
No 7
>KOG3752|consensus
Probab=99.67 E-value=2.5e-16 Score=143.02 Aligned_cols=113 Identities=23% Similarity=0.224 Sum_probs=90.3
Q ss_pred CceEEEEEECCe---eEEEecC-CCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCC-----------
Q psy7660 6 QNTSCAVYAGGT---TKSYILN-NINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT----------- 70 (250)
Q Consensus 6 ~~~G~g~v~~~~---~~~~~l~-~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~----------- 70 (250)
..+|+|||+++. ..+..+. ..+++|.|||.||..||+.+.+.+..+++|.|||++++++|+.|-+
T Consensus 229 ~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~i~~l~~wv~~~k~~~~k~~~ 308 (371)
T KOG3752|consen 229 SRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEYFINSLTLWVQGWKKNGWKTSN 308 (371)
T ss_pred CcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHHHHHHHHHHHhhhccCcccccc
Confidence 459999998653 6777775 8999999999999999999999888899999999999999987632
Q ss_pred chH-----H-HHHHHHHHHHHHh--CCCceEEEeccCCCCCccchHHhHHHHhhhc
Q psy7660 71 TIP-----L-IAHILNTWYSLKS--CGKNVAFLWCPSHTGISGNEIVDRATRQLDG 118 (250)
Q Consensus 71 ~~~-----~-~~~i~~~~~~l~~--~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~ 118 (250)
+++ + .......+++|.+ ++..|.+.|||||.||.|||+||.+|+++..
T Consensus 309 ~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~ 364 (371)
T KOG3752|consen 309 GSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGST 364 (371)
T ss_pred CCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhh
Confidence 122 1 1122233333433 4689999999999999999999999998853
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.62 E-value=3.9e-15 Score=118.02 Aligned_cols=113 Identities=17% Similarity=0.111 Sum_probs=86.1
Q ss_pred CCCCC-ceEEEEEECCe--eEEEe-cCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCCchHHHHH
Q psy7660 2 SKTLQ-NTSCAVYAGGT--TKSYI-LNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTTIPLIAH 77 (250)
Q Consensus 2 S~~~~-~~G~g~v~~~~--~~~~~-l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~~~~~~~~ 77 (250)
++.++ ..|+|+|+.+. ..... .....+++.||+.|++.||+.+.+.+..++.|+|||+.+++.+++.+....-...
T Consensus 10 ~~~~~g~~G~G~vi~~~~~~~~~~~~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~~~~~~~~~~ 89 (128)
T PRK13907 10 SKGNPGPSGAGVFIKGVQPAVQLSLPLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKEYAKNKMFAP 89 (128)
T ss_pred CCCCCCccEEEEEEEECCeeEEEEecccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHHHhcChhHHH
Confidence 34443 48888887442 22222 2356789999999999999999998888999999999999999986643223344
Q ss_pred HHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhc
Q psy7660 78 ILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDG 118 (250)
Q Consensus 78 i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~ 118 (250)
+++.+..+..+...+.|.|||++ +|+.||.||++|..
T Consensus 90 l~~~~~~l~~~f~~~~~~~v~r~----~N~~Ad~LA~~a~~ 126 (128)
T PRK13907 90 LLEEALQYIKSFDLFFIKWIPSS----QNKVADELARKAIL 126 (128)
T ss_pred HHHHHHHHHhcCCceEEEEcCch----hchhHHHHHHHHHh
Confidence 55555556667778889999994 89999999999875
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.39 E-value=6.4e-12 Score=108.83 Aligned_cols=112 Identities=13% Similarity=0.038 Sum_probs=81.3
Q ss_pred CceEEEEEEC--CeeEE------EecCCCCchHHHHHHHHHHHHHHhhcCCCCe--EEEEeccHHHHHhhhcCCC-chHH
Q psy7660 6 QNTSCAVYAG--GTTKS------YILNNINSIFTAELLAIVFCLDSVKNRPDVN--TLIVCDSMSALTSIANKNT-TIPL 74 (250)
Q Consensus 6 ~~~G~g~v~~--~~~~~------~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~--i~I~tDS~~al~ai~~~~~-~~~~ 74 (250)
++.|+|+++. +.... ..+....+++.||+.|+..||+.+.+.+.+. |.|++||+.+++.+.+.+. .++.
T Consensus 87 g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSqlVi~qi~g~wk~~~~~ 166 (219)
T PRK07708 87 KLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDSQVVLNQLAGEWPCYDEH 166 (219)
T ss_pred CCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHHHHHHhCCCceeCChh
Confidence 4577777752 22211 2345568999999999999999999876654 8999999999999999775 3333
Q ss_pred HHHHHHHHHHHHhC-CCceEEEeccCCCCCccchHHhHHHHhhhcccc
Q psy7660 75 IAHILNTWYSLKSC-GKNVAFLWCPSHTGISGNEIVDRATRQLDGAEI 121 (250)
Q Consensus 75 ~~~i~~~~~~l~~~-g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~~~~ 121 (250)
...+.+.+..+.++ ...+.|.|||. +.|+.||+||++|.+...
T Consensus 167 l~~y~~~i~~l~~~~~l~~~~~~VpR----~~N~~AD~LAk~Al~~~~ 210 (219)
T PRK07708 167 LNHWLDRIEQKLKQLKLTPVYEPISR----KQNKEADQLATQALEGTV 210 (219)
T ss_pred HHHHHHHHHHHHhhCCceEEEEECCc----hhhhHHHHHHHHHHhcCC
Confidence 34444444433333 34588899988 479999999999997443
No 10
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.38 E-value=2.6e-12 Score=93.93 Aligned_cols=85 Identities=18% Similarity=0.137 Sum_probs=66.4
Q ss_pred hHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCCchHHHHHHHHHHHHHHhCCCceEEEeccCCCCCccchH
Q psy7660 29 IFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTTIPLIAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEI 108 (250)
Q Consensus 29 ~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~~~~~~~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~ 108 (250)
+..||+.|+..||+.+.+.+.++|.|.|||+.+++.|++..........+...+..+......+.|.|||. ++|..
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r----~~N~~ 76 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPR----EQNKV 76 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--G----GGSHH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEECh----HHhHH
Confidence 46899999999999999999999999999999999999985421133344455555667788999999998 79999
Q ss_pred HhHHHHhhh
Q psy7660 109 VDRATRQLD 117 (250)
Q Consensus 109 AD~lAk~a~ 117 (250)
||.|||.|.
T Consensus 77 A~~LA~~a~ 85 (87)
T PF13456_consen 77 ADALAKFAL 85 (87)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 999999886
No 11
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.37 E-value=7e-12 Score=116.39 Aligned_cols=114 Identities=14% Similarity=0.109 Sum_probs=86.9
Q ss_pred CCCCCCc-eEEEEEECCe--e-E--EE-ecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCC-ch
Q psy7660 1 GSKTLQN-TSCAVYAGGT--T-K--SY-ILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT-TI 72 (250)
Q Consensus 1 gS~~~~~-~G~g~v~~~~--~-~--~~-~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~-~~ 72 (250)
||+.+++ .|+|+++.+. . . .+ ..-...+++.||+.|++.||+.+.+.+.+.|.|++||+.+++.+.+.+. .+
T Consensus 10 a~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~i~~~~~~~~ 89 (372)
T PRK07238 10 GSRGNPGPAGYGAVVWDADRGEVLAERAEAIGRATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQMSGRWKVKH 89 (372)
T ss_pred CCCCCCCceEEEEEEEeCCCCcEEEEeecccCCCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHHhCCCCccCC
Confidence 3444544 7888886432 1 1 22 1223678899999999999999999888999999999999999998764 33
Q ss_pred HHHHHHHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhc
Q psy7660 73 PLIAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDG 118 (250)
Q Consensus 73 ~~~~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~ 118 (250)
+-...+...+..|.++...+.|.|||+ ++|+.||.||++|..
T Consensus 90 ~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a~~ 131 (372)
T PRK07238 90 PDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEAMD 131 (372)
T ss_pred hHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHHHH
Confidence 333444555566667778999999998 689999999999974
No 12
>PF13966 zf-RVT: zinc-binding in reverse transcriptase
Probab=81.89 E-value=0.69 Score=33.71 Aligned_cols=15 Identities=13% Similarity=0.297 Sum_probs=13.0
Q ss_pred CCcccceeeecCccc
Q psy7660 200 NMFKQSYKYLMCPVI 214 (250)
Q Consensus 200 ~~etv~H~l~~Cp~~ 214 (250)
.+||++|+|+.||.-
T Consensus 68 ~~Et~~Hlf~~C~~a 82 (86)
T PF13966_consen 68 EEETIEHLFFHCPFA 82 (86)
T ss_pred ccccccceeccCcCc
Confidence 379999999999964
No 13
>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=73.71 E-value=18 Score=27.39 Aligned_cols=55 Identities=11% Similarity=-0.053 Sum_probs=37.3
Q ss_pred CCceEEEEEEC-CeeEEEecCC----CCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccH
Q psy7660 5 LQNTSCAVYAG-GTTKSYILNN----INSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSM 59 (250)
Q Consensus 5 ~~~~G~g~v~~-~~~~~~~l~~----~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~ 59 (250)
+..+|+.+|.+ +..++.+... ......||..||..+.+..........++|+.-+
T Consensus 16 ~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~E 75 (109)
T cd01285 16 EVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLE 75 (109)
T ss_pred CCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeCC
Confidence 45588888877 4444544432 3356789999999998875444456777887643
No 14
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=69.65 E-value=6.2 Score=39.51 Aligned_cols=34 Identities=21% Similarity=0.319 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhCCCceEEEeccCCCCCccchHH
Q psy7660 76 AHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIV 109 (250)
Q Consensus 76 ~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~A 109 (250)
..+...++.+.+.|..|-+-|||+|.+..||-.+
T Consensus 214 edfk~fVD~aH~~GIgViLD~V~~HF~~d~~~L~ 247 (628)
T COG0296 214 EDFKALVDAAHQAGIGVILDWVPNHFPPDGNYLA 247 (628)
T ss_pred HHHHHHHHHHHHcCCEEEEEecCCcCCCCcchhh
Confidence 3567778888899999999999999999888765
No 15
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein. The domain is always associated with IPR000201 from INTERPRO and .; GO: 0004523 ribonuclease H activity
Probab=67.51 E-value=5.8 Score=34.22 Aligned_cols=78 Identities=23% Similarity=0.206 Sum_probs=46.5
Q ss_pred eEEEEEECCeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCC--chHHHHHHHHHHHHH
Q psy7660 8 TSCAVYAGGTTKSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT--TIPLIAHILNTWYSL 85 (250)
Q Consensus 8 ~G~g~v~~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~--~~~~~~~i~~~~~~l 85 (250)
+|.|+.+..+...+.....-.+++|||.|...|.-+.. .+ .|.|||-.|+. +..+ +..+......+ |
T Consensus 104 Tgwgi~i~~~~~~~Tfs~~l~IhtaELlaaClAr~~~~----~r-~l~tDnt~Vls---rkyts~PW~lac~A~wi---L 172 (245)
T PF00336_consen 104 TGWGISITGQRMRGTFSKPLPIHTAELLAACLARLMSG----AR-CLGTDNTVVLS---RKYTSFPWLLACAANWI---L 172 (245)
T ss_pred CcceeeecCceeeeeecccccchHHHHHHHHHHHhccC----Cc-EEeecCcEEEe---cccccCcHHHHHHHHHh---h
Confidence 46666666655545445556689999999988876542 23 49999977653 2233 22222111111 1
Q ss_pred HhCCCceEEEeccCC
Q psy7660 86 KSCGKNVAFLWCPSH 100 (250)
Q Consensus 86 ~~~g~~V~~~WVPgH 100 (250)
..+.|..||+-
T Consensus 173 ----rgts~~yVPS~ 183 (245)
T PF00336_consen 173 ----RGTSFYYVPSK 183 (245)
T ss_pred ----cCceEEEeccc
Confidence 24778899983
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=67.39 E-value=25 Score=27.23 Aligned_cols=49 Identities=10% Similarity=0.009 Sum_probs=32.6
Q ss_pred CCceEEEEEEC-CeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEec
Q psy7660 5 LQNTSCAVYAG-GTTKSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCD 57 (250)
Q Consensus 5 ~~~~G~g~v~~-~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tD 57 (250)
+..+|+.+|.+ +..++.+.........||..||..|.+. .....++|+-
T Consensus 18 ~~pvGaviv~~~g~iv~~g~n~~~~~~HAE~~ai~~a~~~----~l~g~tly~T 67 (115)
T cd01284 18 NPPVGCVIVDDDGEIVGEGYHRKAGGPHAEVNALASAGEK----LARGATLYVT 67 (115)
T ss_pred CCCEEEEEEeCCCeEEEEecCCCCCcccHHHHHHHHHhhc----CCCCeEEEEe
Confidence 44588888876 4555555544446778999999999874 2344555554
No 17
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=64.96 E-value=16 Score=29.32 Aligned_cols=52 Identities=17% Similarity=0.063 Sum_probs=37.2
Q ss_pred CceEEEEEECCeeEEEecC----CCCchHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 6 QNTSCAVYAGGTTKSYILN----NINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 6 ~~~G~g~v~~~~~~~~~l~----~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
-.||+++...+..+-++.. ....-.-||-.||..|+.. -......|.+++|+
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 3599999887765555442 2223346999999999977 34456788999998
No 18
>KOG1812|consensus
Probab=62.96 E-value=24 Score=33.26 Aligned_cols=90 Identities=14% Similarity=0.113 Sum_probs=55.9
Q ss_pred CCchHHHHHHHHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCCc-hH-HHHHHHHHHHHHHhCCCceEEEeccCCCCC
Q psy7660 26 INSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTT-IP-LIAHILNTWYSLKSCGKNVAFLWCPSHTGI 103 (250)
Q Consensus 26 ~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~~-~~-~~~~i~~~~~~l~~~g~~V~~~WVPgH~gi 103 (250)
..+...||+.|+..+|..+.+.+...+.+++|+.-..+.+.....+ +. .+..+......++.+.....-+-+|.-.
T Consensus 46 ~~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~~~~~~~~~~~l~~~v~~~r~~l~~~~~i~~~~~~-- 123 (384)
T KOG1812|consen 46 SITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGREKPEQHRKIVLLVELVQRIREQLTSSEPILVPKNA-- 123 (384)
T ss_pred ccchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhcccceecccch--
Confidence 3678899999999999999999999999999976666644444332 22 3334444444444443333333333211
Q ss_pred ccchHHhHHHHhhhc
Q psy7660 104 SGNEIVDRATRQLDG 118 (250)
Q Consensus 104 ~gNe~AD~lAk~a~~ 118 (250)
....|=.+|+++..
T Consensus 124 -d~~~~~~lA~e~i~ 137 (384)
T KOG1812|consen 124 -DIKFAYKLAREAIV 137 (384)
T ss_pred -hhHHHHHHHHHhhc
Confidence 11346677777774
No 19
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=62.65 E-value=29 Score=28.93 Aligned_cols=53 Identities=9% Similarity=-0.029 Sum_probs=33.0
Q ss_pred CceEEEEEECCeeEEEecC----CCCchHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 6 QNTSCAVYAGGTTKSYILN----NINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 6 ~~~G~g~v~~~~~~~~~l~----~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
..+|+.+|..+..++.+-. .......||+.||..|.+..........++|+--
T Consensus 33 ~pvGAVIV~~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~Tl 89 (172)
T PRK10860 33 VPVGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTL 89 (172)
T ss_pred CCEEEEEEeCCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEeeC
Confidence 4588877766655554432 1122457999999999876644444556666553
No 20
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=58.46 E-value=18 Score=30.88 Aligned_cols=94 Identities=15% Similarity=0.098 Sum_probs=58.4
Q ss_pred HHHHHHHHhhcCCCCeEEEEeccHHHHHhhhcCCCch-------H--HHHHHHHHHHHHHhCCCceEEEeccCCCCCccc
Q psy7660 36 AIVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTTI-------P--LIAHILNTWYSLKSCGKNVAFLWCPSHTGISGN 106 (250)
Q Consensus 36 AI~~AL~~~~~~~~~~i~I~tDS~~al~ai~~~~~~~-------~--~~~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gN 106 (250)
++..||.++.+...-.+.-|++.+.-+.......++. | --.+++ ..|...|...-+..+-||.+|+
T Consensus 15 ~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~~~~~pGclllDvrMPg~sGlelq---~~L~~~~~~~PVIfiTGhgDIp-- 89 (202)
T COG4566 15 SVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRPGCLLLDVRMPGMSGLELQ---DRLAERGIRLPVIFLTGHGDIP-- 89 (202)
T ss_pred HHHHHHHHHHHhCCceeeeecCHHHHHhhccCCCCCeEEEecCCCCCchHHHH---HHHHhcCCCCCEEEEeCCCChH--
Confidence 5677888888877788899999998888843333210 0 001233 3455678888888899998886
Q ss_pred hHHhHHHHhhhccccc----CCCChhhHhHHHHHHHH
Q psy7660 107 EIVDRATRQLDGAEIV----NLSSPADLIPVGKKYLL 139 (250)
Q Consensus 107 e~AD~lAk~a~~~~~~----~~~~~~~~k~~~~~~~~ 139 (250)
+|-+|.+.+.. .|++.+++...+.+.+.
T Consensus 90 -----maV~AmK~GAvDFLeKP~~~q~Lldav~~Al~ 121 (202)
T COG4566 90 -----MAVQAMKAGAVDFLEKPFSEQDLLDAVERALA 121 (202)
T ss_pred -----HHHHHHHcchhhHHhCCCchHHHHHHHHHHHH
Confidence 34455544432 34555555555544433
No 21
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=55.62 E-value=37 Score=27.61 Aligned_cols=53 Identities=11% Similarity=0.029 Sum_probs=32.9
Q ss_pred CceEEEEEECCe-eEEEec----CCCCchHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 6 QNTSCAVYAGGT-TKSYIL----NNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 6 ~~~G~g~v~~~~-~~~~~l----~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
..+|+.+|..+. .+..+- ....-.-.||+.||-.|-+.+........++|+--
T Consensus 28 ~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT~ 85 (152)
T COG0590 28 VPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVTL 85 (152)
T ss_pred CCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEec
Confidence 347777777444 333322 12222347999999999999876555666666653
No 22
>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=54.61 E-value=50 Score=26.00 Aligned_cols=50 Identities=12% Similarity=-0.014 Sum_probs=30.8
Q ss_pred CceEEEEEECCeeEEEecC-------------------------CCCchHHHHHHHHHHHHHHhhcCCCCeEEEEec
Q psy7660 6 QNTSCAVYAGGTTKSYILN-------------------------NINSIFTAELLAIVFCLDSVKNRPDVNTLIVCD 57 (250)
Q Consensus 6 ~~~G~g~v~~~~~~~~~l~-------------------------~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tD 57 (250)
..+|+.+|.++..++.+.. .......||..||..|.+. .......+||+-
T Consensus 20 ~~VGAViv~~~~iI~~G~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HAE~~Ai~~a~~~--~~~~~~~tLyvT 94 (131)
T cd01286 20 RQVGAVIVKDKRIISTGYNGSPSGLPHCAEVGCERDDLPSGEDQKCCRTVHAEQNAILQAARH--GVSLEGATLYVT 94 (131)
T ss_pred CCEEEEEEECCEEEEEeeCCCCCCCCCcccccccccccccccccccCCCCCHHHHHHHHHhHc--CCCcCCeEEEEe
Confidence 4589887776665544322 1124567999999998764 223345666653
No 23
>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=54.49 E-value=33 Score=26.93 Aligned_cols=53 Identities=17% Similarity=-0.041 Sum_probs=35.4
Q ss_pred CCceEEEEEECCeeEEEecCCCC----chHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 5 LQNTSCAVYAGGTTKSYILNNIN----SIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 5 ~~~~G~g~v~~~~~~~~~l~~~~----s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
+..+|++++..+..+..+..-+. -...||..||..|...-. .....+.|..|.
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 34589998877655444443222 234699999999987632 356788888876
No 24
>PRK06848 hypothetical protein; Validated
Probab=51.83 E-value=36 Score=27.34 Aligned_cols=54 Identities=11% Similarity=-0.023 Sum_probs=35.2
Q ss_pred CCCceEEEEEECCeeEEEecCCCC----chHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 4 TLQNTSCAVYAGGTTKSYILNNIN----SIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 4 ~~~~~G~g~v~~~~~~~~~l~~~~----s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
++..||+++...+..+..+..-+. ...-||-.||..|+..- ......|.+.+++
T Consensus 25 s~f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g-~~~i~~i~~v~~~ 82 (139)
T PRK06848 25 DWHHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEG-DHEIDTIVAVRHP 82 (139)
T ss_pred CCCcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcC-CCceEEEEEEecC
Confidence 356799999988876655543222 23469999999998652 2234566666655
No 25
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=50.33 E-value=1.1e+02 Score=23.02 Aligned_cols=45 Identities=4% Similarity=-0.081 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHHHHhCCCceEEEeccCCCCCccchHHhHHHHhhhcc
Q psy7660 72 IPLIAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDGA 119 (250)
Q Consensus 72 ~~~~~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gNe~AD~lAk~a~~~ 119 (250)
+.++..+.+.+..+..+...=.+.=|||+ .|++..++++++|.+.
T Consensus 52 e~~~~~i~e~i~~~~~~~~~P~ii~IP~~---~~~~~i~~~v~raIG~ 96 (100)
T PRK02228 52 DDDLEKLPRRLRRTLEESVEPTVVTLGGG---GGSGGLREKIKRAIGV 96 (100)
T ss_pred hhHhHhhHHHHHHHHhcCCCCEEEEECCC---ccchHHHHHHHHHhCc
Confidence 44555566666664444443334556985 4678899999998864
No 26
>PRK08298 cytidine deaminase; Validated
Probab=45.58 E-value=41 Score=26.94 Aligned_cols=51 Identities=12% Similarity=-0.015 Sum_probs=34.0
Q ss_pred ceEEEEEECCeeEEEecCC----CCchHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 7 NTSCAVYAGGTTKSYILNN----INSIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 7 ~~G~g~v~~~~~~~~~l~~----~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
.||+++...+..+-.+..- ...-.-||-.||..|+..- ......|.|.+|.
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 7999999887766555432 2223469999999988542 2234567777776
No 27
>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=44.86 E-value=93 Score=22.63 Aligned_cols=52 Identities=13% Similarity=0.010 Sum_probs=32.1
Q ss_pred CCCceEEEEEE-CCeeEEEecCC----CCchHHHHHHHHHHHHHHhhcCCCCeEEEEe
Q psy7660 4 TLQNTSCAVYA-GGTTKSYILNN----INSIFTAELLAIVFCLDSVKNRPDVNTLIVC 56 (250)
Q Consensus 4 ~~~~~G~g~v~-~~~~~~~~l~~----~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~t 56 (250)
.+..+|+.++. ++..+..+... ....-.||..||..+-+. ........++|+
T Consensus 22 ~~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~-~~~~~~~~~lyv 78 (102)
T PF00383_consen 22 GNFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN-GGSSLKGCTLYV 78 (102)
T ss_dssp TSSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT-TSSGETTEEEEE
T ss_pred CCCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh-ccccccCccccc
Confidence 34558998888 45555555432 223458999999999987 222234466666
No 28
>PRK12411 cytidine deaminase; Provisional
Probab=43.97 E-value=53 Score=26.10 Aligned_cols=53 Identities=19% Similarity=0.042 Sum_probs=35.5
Q ss_pred CCceEEEEEECCeeEEEecCCCCch----HHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 5 LQNTSCAVYAGGTTKSYILNNINSI----FTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 5 ~~~~G~g~v~~~~~~~~~l~~~~s~----~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
+-.||+++...+..+-.+..-+... --||..||..|+..- ......|.|.+|.
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 3459999988877665554322223 369999999987542 2345778888876
No 29
>PRK05578 cytidine deaminase; Validated
Probab=39.83 E-value=75 Score=25.21 Aligned_cols=52 Identities=17% Similarity=-0.050 Sum_probs=35.3
Q ss_pred CceEEEEEECCeeEEEecCCCC----chHHHHHHHHHHHHHHhhcCCCCeEEEEecc
Q psy7660 6 QNTSCAVYAGGTTKSYILNNIN----SIFTAELLAIVFCLDSVKNRPDVNTLIVCDS 58 (250)
Q Consensus 6 ~~~G~g~v~~~~~~~~~l~~~~----s~~~AEl~AI~~AL~~~~~~~~~~i~I~tDS 58 (250)
-.||+++...+..+-.+..-+. -..-||-.||..|+..- ......+.|.+|+
T Consensus 24 f~Vgaa~~~~~G~i~~G~nvEna~~~~~~CAE~~Ai~~av~~G-~~~i~~i~vv~~~ 79 (131)
T PRK05578 24 FPVGAALLTDDGRIYTGCNIENASYGLTNCAERTAIFKAISEG-GGRLVAIACVGET 79 (131)
T ss_pred CceEEEEEeCCCCEEEEEEeeCccccCCcCHHHHHHHHHHHcC-CCceEEEEEEecC
Confidence 4599999987766555443222 23469999999998542 2345788888887
No 30
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=36.93 E-value=74 Score=25.91 Aligned_cols=41 Identities=12% Similarity=0.096 Sum_probs=30.8
Q ss_pred CCCceEEEEEECCeeEEEecCCCCchHHHHHHHHHHHHHHh
Q psy7660 4 TLQNTSCAVYAGGTTKSYILNNINSIFTAELLAIVFCLDSV 44 (250)
Q Consensus 4 ~~~~~G~g~v~~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~ 44 (250)
.|..||+-+|.++..+..+.....-.-.||..|+..|=+.+
T Consensus 26 pNP~VG~VIV~~~~Ivg~G~h~~aG~pHAEv~Al~~ag~~a 66 (146)
T COG0117 26 PNPSVGCVIVKDGEIVGEGYHEKAGGPHAEVCALRMAGEAA 66 (146)
T ss_pred CCCceeEEEEECCEEEeeeecCCCCCCcHHHHHHHHcCccc
Confidence 56779999998887777666555556689999999884433
No 31
>PF13653 GDPD_2: Glycerophosphoryl diester phosphodiesterase family; PDB: 3RLG_A 2F9R_B 1XX1_A 3RLH_A.
Probab=30.90 E-value=24 Score=20.77 Aligned_cols=9 Identities=44% Similarity=0.899 Sum_probs=5.9
Q ss_pred eeeeeeccc
Q psy7660 239 RVRVWTLDN 247 (250)
Q Consensus 239 ~~~~~~~~~ 247 (250)
+||.||.|+
T Consensus 1 kV~~WT~d~ 9 (30)
T PF13653_consen 1 KVYFWTPDK 9 (30)
T ss_dssp EEEEET--S
T ss_pred CeEEecCCC
Confidence 689999875
No 32
>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=28.09 E-value=1.7e+02 Score=21.45 Aligned_cols=50 Identities=10% Similarity=-0.061 Sum_probs=29.7
Q ss_pred CCceEEEEEEC--CeeEEEecC----CCCchHHHHHHHHHHHHHHhhcCCCCeEEEEec
Q psy7660 5 LQNTSCAVYAG--GTTKSYILN----NINSIFTAELLAIVFCLDSVKNRPDVNTLIVCD 57 (250)
Q Consensus 5 ~~~~G~g~v~~--~~~~~~~l~----~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~tD 57 (250)
+..+|+.++.. +..+..+.. .......||..||..|.... .....+||+-
T Consensus 17 ~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~a~~~~---~~~~~tly~t 72 (96)
T cd00786 17 NFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFNAGSEG---DTKGQMLYVA 72 (96)
T ss_pred CCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHHHHHcC---CCCceEEEEE
Confidence 44589888865 444433332 23345679999999887543 1345555653
No 33
>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=28.05 E-value=1.1e+02 Score=28.12 Aligned_cols=39 Identities=13% Similarity=0.057 Sum_probs=27.5
Q ss_pred CceEEEEEECCeeEEEecCCCCchHHHHHHHHHHHHHHh
Q psy7660 6 QNTSCAVYAGGTTKSYILNNINSIFTAELLAIVFCLDSV 44 (250)
Q Consensus 6 ~~~G~g~v~~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~ 44 (250)
..+|+-+|..+..++.+.........||..||..|.+.+
T Consensus 19 ~~vGaviv~~~~ii~~g~n~~~~~~HAE~~ai~~a~~~~ 57 (344)
T TIGR00326 19 PLVGCVIVKNGEIVGEGAHQKAGEPHAEVHALRQAGENA 57 (344)
T ss_pred CCEEEEEEeCCEEEEEeeCCCCCCCCHHHHHHHHhcccc
Confidence 359998777556666555444445689999999987643
No 34
>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=26.92 E-value=1.7e+02 Score=21.86 Aligned_cols=41 Identities=15% Similarity=-0.063 Sum_probs=25.9
Q ss_pred CCceEEEEEECCeeEEEecC----CCCchHHHHHHHHHHHHHHhh
Q psy7660 5 LQNTSCAVYAGGTTKSYILN----NINSIFTAELLAIVFCLDSVK 45 (250)
Q Consensus 5 ~~~~G~g~v~~~~~~~~~l~----~~~s~~~AEl~AI~~AL~~~~ 45 (250)
+-.+|+.++..+..+..+.. .......||..||..+.....
T Consensus 17 ~~~vga~i~~~~g~i~~G~n~e~~~~~~~~hAE~~ai~~~~~~~~ 61 (112)
T cd01283 17 NFTVGAALLTKDGRIFTGVNVENASYGLTLCAERTAIGKAVSEGL 61 (112)
T ss_pred CCeEEEEEEECCCCEEEeEEeecCCCCCCcCHHHHHHHHHHHcCC
Confidence 44588888876544333332 222445799999999887544
No 35
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=26.79 E-value=2.7e+02 Score=22.41 Aligned_cols=21 Identities=24% Similarity=0.218 Sum_probs=18.2
Q ss_pred CCCchHHHHHHHHHHHHHHhh
Q psy7660 25 NINSIFTAELLAIVFCLDSVK 45 (250)
Q Consensus 25 ~~~s~~~AEl~AI~~AL~~~~ 45 (250)
...|+-+-||.|+..|.+.+.
T Consensus 122 k~~tIPRlEL~a~~l~~~l~~ 142 (159)
T PF05380_consen 122 KTVTIPRLELLAALLGVRLAN 142 (159)
T ss_pred CCCcHHHHHHHHHHHHHHHHH
Confidence 345999999999999999875
No 36
>PRK12568 glycogen branching enzyme; Provisional
Probab=26.64 E-value=80 Score=32.42 Aligned_cols=31 Identities=13% Similarity=0.147 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHhCCCceEEEeccCCCCCccc
Q psy7660 76 AHILNTWYSLKSCGKNVAFLWCPSHTGISGN 106 (250)
Q Consensus 76 ~~i~~~~~~l~~~g~~V~~~WVPgH~gi~gN 106 (250)
.++...++.+.+.|..|-+-|||.|++-.++
T Consensus 319 ~dfk~lV~~~H~~Gi~VIlD~V~nH~~~d~~ 349 (730)
T PRK12568 319 DGFAQFVDACHRAGIGVILDWVSAHFPDDAH 349 (730)
T ss_pred HHHHHHHHHHHHCCCEEEEEeccccCCcccc
Confidence 5677888889999999999999999986544
No 37
>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=25.59 E-value=3.1e+02 Score=22.15 Aligned_cols=37 Identities=14% Similarity=0.080 Sum_probs=23.1
Q ss_pred CceEEEEEECCeeEEEecC---CC----------------CchHHHHHHHHHHHHH
Q psy7660 6 QNTSCAVYAGGTTKSYILN---NI----------------NSIFTAELLAIVFCLD 42 (250)
Q Consensus 6 ~~~G~g~v~~~~~~~~~l~---~~----------------~s~~~AEl~AI~~AL~ 42 (250)
..+|+.++..+..++.+.. .. .....||..||..|.+
T Consensus 25 ~~VGAVIV~d~~IIs~GyN~~~~g~~~~~~~~~~~~~~~~~~~~HAE~nAI~~a~~ 80 (151)
T TIGR02571 25 LSVGATIVRDKRIIAGGYNGSVAGGVHCIDEGCYVVDGHCVRTIHAEMNALLQCAK 80 (151)
T ss_pred CCEEEEEEECCEEEEEEECCCCCCCCccccccccccccccCCccCHHHHHHHHHHh
Confidence 3588877755555554432 11 1235799999998865
No 38
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=23.55 E-value=79 Score=27.53 Aligned_cols=90 Identities=17% Similarity=0.069 Sum_probs=58.7
Q ss_pred CCchHHHHHHHHHHHHHHhhcCCCCeEEE-E----eccHHHHHhhhcCCC-chHHHHHHHHHHHHHHhCC--CceEEEec
Q psy7660 26 INSIFTAELLAIVFCLDSVKNRPDVNTLI-V----CDSMSALTSIANKNT-TIPLIAHILNTWYSLKSCG--KNVAFLWC 97 (250)
Q Consensus 26 ~~s~~~AEl~AI~~AL~~~~~~~~~~i~I-~----tDS~~al~ai~~~~~-~~~~~~~i~~~~~~l~~~g--~~V~~~WV 97 (250)
..++-.+|.+|++.+|+.+...+.++..| + .||++..+-+.+-.. .-.+... .+....| ....+.|+
T Consensus 105 ~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k~~k~~~~~k~~~~~~-----~e~~~~~~~v~h~~k~i 179 (225)
T COG3341 105 IKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGNDSWAYFKYVKDKCETKVNLLKD-----REFFSIGKGVFHDEKDI 179 (225)
T ss_pred cccCchHHHHHHhccccccccccCccceeeccCCcchhHHHHHHHhhhhhhHHHHHHh-----HHhhhccchhhhhhhhc
Confidence 34466899999999999987755554444 7 799999888766432 1111100 1111122 44567888
Q ss_pred cCCCCCccchHHhHHHHhhhccc
Q psy7660 98 PSHTGISGNEIVDRATRQLDGAE 120 (250)
Q Consensus 98 PgH~gi~gNe~AD~lAk~a~~~~ 120 (250)
--|..+.-+..++..+.......
T Consensus 180 ~~~~~~~~~~~~~s~~~~~~k~~ 202 (225)
T COG3341 180 NIHIWIFESKKGNSHVYNTSKKE 202 (225)
T ss_pred ccccccchhhhhhhhhhchhhhh
Confidence 88998888888888887666543
No 39
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=22.61 E-value=3.6e+02 Score=22.20 Aligned_cols=14 Identities=43% Similarity=0.458 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHH
Q psy7660 29 IFTAELLAIVFCLD 42 (250)
Q Consensus 29 ~~~AEl~AI~~AL~ 42 (250)
...||..||..|-+
T Consensus 81 ~~HAE~nAi~~a~~ 94 (168)
T PHA02588 81 EIHAELNAILFAAR 94 (168)
T ss_pred CccHHHHHHHHHhh
Confidence 45799999998865
Done!