Query psy6829
Match_columns 369
No_of_seqs 266 out of 1824
Neff 8.1
Searched_HMMs 46136
Date Fri Aug 16 19:31:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6829.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6829hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0328 RnhA Ribonuclease HI [ 99.9 1.4E-22 3E-27 171.3 10.1 127 159-286 4-146 (154)
2 PRK06548 ribonuclease H; Provi 99.9 5.1E-22 1.1E-26 170.7 12.7 124 160-286 7-143 (161)
3 PF00075 RNase_H: RNase H; In 99.9 9.6E-22 2.1E-26 164.4 9.3 116 160-283 5-131 (132)
4 PRK08719 ribonuclease H; Revie 99.9 4.5E-21 9.8E-26 163.3 13.3 119 161-284 7-146 (147)
5 PRK00203 rnhA ribonuclease H; 99.8 8.6E-21 1.9E-25 162.7 12.0 125 160-287 5-144 (150)
6 cd06222 RnaseH RNase H (RNase 99.7 3.6E-17 7.8E-22 133.7 14.7 123 161-283 2-130 (130)
7 PRK13907 rnhA ribonuclease H; 99.7 1.6E-16 3.6E-21 132.5 12.4 120 161-285 4-127 (128)
8 KOG3752|consensus 99.7 7.4E-17 1.6E-21 152.1 9.9 125 160-284 214-364 (371)
9 PRK07708 hypothetical protein; 99.5 1.7E-13 3.7E-18 124.1 13.9 124 160-287 75-210 (219)
10 PRK07238 bifunctional RNase H/ 99.5 5.7E-13 1.2E-17 130.9 13.5 120 161-285 5-132 (372)
11 PF13456 RVT_3: Reverse transc 99.3 1.7E-11 3.8E-16 94.3 8.8 86 195-284 1-86 (87)
12 PF00336 DNA_pol_viral_C: DNA 64.8 7.7 0.00017 34.6 3.4 59 159-228 95-153 (245)
13 COG3341 Predicted double-stran 61.6 26 0.00056 31.6 6.2 118 163-286 70-202 (225)
14 KOG1812|consensus 58.9 35 0.00075 33.8 7.3 91 192-285 46-138 (384)
15 PF05380 Peptidase_A17: Pao re 58.2 45 0.00097 28.4 7.1 48 161-212 84-143 (159)
16 COG0296 GlgB 1,4-alpha-glucan 56.7 14 0.00031 38.8 4.3 73 201-275 165-247 (628)
17 cd01285 nucleoside_deaminase N 40.4 1.3E+02 0.0028 23.7 6.7 57 171-227 16-77 (109)
18 COG4566 TtrR Response regulato 39.8 1.9E+02 0.004 25.9 7.9 133 202-353 15-160 (202)
19 PRK10860 tRNA-specific adenosi 35.6 1.3E+02 0.0028 26.2 6.4 55 171-225 32-90 (172)
20 cd01284 Riboflavin_deaminase-r 34.4 1.5E+02 0.0032 23.9 6.2 48 171-222 18-66 (115)
21 COG0295 Cdd Cytidine deaminase 32.3 3E+02 0.0065 23.0 9.0 76 172-258 26-105 (134)
22 COG0590 CumB Cytosine/adenosin 30.1 1.5E+02 0.0033 25.1 5.8 56 171-226 27-87 (152)
23 smart00642 Aamy Alpha-amylase 24.9 1.8E+02 0.0038 25.0 5.4 70 200-269 18-97 (166)
24 cd01286 deoxycytidylate_deamin 24.2 2.8E+02 0.006 22.8 6.3 27 194-222 67-93 (131)
25 PRK10933 trehalose-6-phosphate 21.1 1.6E+02 0.0035 30.7 5.1 72 198-269 30-108 (551)
No 1
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.88 E-value=1.4e-22 Score=171.33 Aligned_cols=127 Identities=18% Similarity=0.098 Sum_probs=105.0
Q ss_pred CcccccccCCCCCCceEEEEE--eCCee--EEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcC
Q psy6829 159 PVVDLSLYGSKTIQNTSCAVY--AGGSA--KSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANK 234 (369)
Q Consensus 159 ~~i~td~s~~~~~~~~G~a~~--~~~~~--~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~ 234 (369)
..||+||++..++|..|+|++ .++.. .+..+. .+||++||+.|++.||+.+.+.+...|.|+|||++|+++|..+
T Consensus 4 v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~w 82 (154)
T COG0328 4 VEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGITRW 82 (154)
T ss_pred eEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHHH
Confidence 349999999999888888877 33322 344445 8999999999999999999988899999999999999999854
Q ss_pred CCC-----------cH-HHHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhhCCC
Q psy6829 235 NTS-----------IP-LIAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLDGAE 286 (369)
Q Consensus 235 ~~~-----------~~-~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~~ 286 (369)
... .| -..++++.+.++.++...|.+.|||||+|.++||.||+||+.|+...
T Consensus 83 ~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 83 IVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred HhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 111 12 24578888888877777999999999999999999999999998775
No 2
>PRK06548 ribonuclease H; Provisional
Probab=99.88 E-value=5.1e-22 Score=170.68 Aligned_cols=124 Identities=22% Similarity=0.197 Sum_probs=97.0
Q ss_pred cccccccCCCCCCceEEEEEeCCe-eEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhc-----
Q psy6829 160 VVDLSLYGSKTIQNTSCAVYAGGS-AKSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIAN----- 233 (369)
Q Consensus 160 ~i~td~s~~~~~~~~G~a~~~~~~-~~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~----- 233 (369)
.|||||++..++|..|+|++..+. ..+.. ...+||+.|||.|++.||+.+.. ....+.|+|||++|++++..
T Consensus 7 ~IytDGa~~gnpg~~G~g~~~~~~~~~~g~-~~~~TNnraEl~Aii~aL~~~~~-~~~~v~I~TDS~yvi~~i~~W~~~W 84 (161)
T PRK06548 7 IAATDGSSLANPGPSGWAWYVDENTWDSGG-WDIATNNIAELTAVRELLIATRH-TDRPILILSDSKYVINSLTKWVYSW 84 (161)
T ss_pred EEEEeeccCCCCCceEEEEEEeCCcEEccC-CCCCCHHHHHHHHHHHHHHhhhc-CCceEEEEeChHHHHHHHHHHHHHH
Confidence 399999999988999999884322 22222 23689999999999999986643 34679999999999999994
Q ss_pred ----CCCCc--HH-HHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhhCCC
Q psy6829 234 ----KNTSI--PL-IAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLDGAE 286 (369)
Q Consensus 234 ----~~~~~--~~-~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~~ 286 (369)
+...+ ++ .+++++.+..+... ..|.|.|||||+|++|||.||+||++|+...
T Consensus 85 k~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~ 143 (161)
T PRK06548 85 KMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAANNF 143 (161)
T ss_pred HHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHHHh
Confidence 32222 33 36777777777654 4799999999999999999999999998764
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=99.86 E-value=9.6e-22 Score=164.43 Aligned_cols=116 Identities=26% Similarity=0.333 Sum_probs=88.5
Q ss_pred cccccccCCCCCCceEEEEE-eCCeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhc-----
Q psy6829 160 VVDLSLYGSKTIQNTSCAVY-AGGSAKSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIAN----- 233 (369)
Q Consensus 160 ~i~td~s~~~~~~~~G~a~~-~~~~~~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~----- 233 (369)
.||||||+..+++..|+|++ .++...+..++ ..+++.||+.||..||+.+ . ...+.|+|||++++..+..
T Consensus 5 ~iytDgS~~~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~--~~~v~I~tDS~~v~~~l~~~~~~~ 80 (132)
T PF00075_consen 5 IIYTDGSCRPNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL-E--HRKVTIYTDSQYVLNALNKWLHGN 80 (132)
T ss_dssp EEEEEEEECTTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH-S--TSEEEEEES-HHHHHHHHTHHHHT
T ss_pred EEEEeCCccCCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh-h--cccccccccHHHHHHHHHHhcccc
Confidence 38999998766555555554 44445555666 8999999999999999944 3 4999999999999998877
Q ss_pred CCCCc----HHHHHHHHHHHHHhhCCCeEEEEEecCCCCC-ccchHHhHHHhhhh
Q psy6829 234 KNTSI----PLIAHILNTWHTLKSCGKKVAFLWCPSHTGI-SGNEIVDRATRQLD 283 (369)
Q Consensus 234 ~~~~~----~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi-~gNe~AD~lAk~a~ 283 (369)
..... ++..+|++.+ ..+..|.|.|||||+|+ .|||.||+|||+|+
T Consensus 81 ~~~~~~~~~~i~~~i~~~~----~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 81 GWKKTSNGRPIKNEIWELL----SRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp TSBSCTSSSBHTHHHHHHH----HHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred ccccccccccchhheeecc----ccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 22211 3445555433 45789999999999999 69999999999986
No 4
>PRK08719 ribonuclease H; Reviewed
Probab=99.86 E-value=4.5e-21 Score=163.32 Aligned_cols=119 Identities=18% Similarity=0.208 Sum_probs=90.5
Q ss_pred ccccccCCCCCC---ceEEEEE--eC--Ce--eEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHh
Q psy6829 161 VDLSLYGSKTIQ---NTSCAVY--AG--GS--AKSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSI 231 (369)
Q Consensus 161 i~td~s~~~~~~---~~G~a~~--~~--~~--~~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l 231 (369)
|||||++..+++ ..|+|++ .. +. ..+..+....|+++||+.|+..||+.+.+. ..|+|||++|++++
T Consensus 7 iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yvi~~i 82 (147)
T PRK08719 7 IYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYCVRGF 82 (147)
T ss_pred EEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHHHHHH
Confidence 999999976544 3455554 33 22 244456566899999999999999998753 37999999999999
Q ss_pred h--------cCCCCc---HH-HHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhhC
Q psy6829 232 A--------NKNTSI---PL-IAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLDG 284 (369)
Q Consensus 232 ~--------~~~~~~---~~-~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~ 284 (369)
. +.+..+ ++ ..++++.+..+.+ ...|.|.|||||+|++|||.||+||++|+.
T Consensus 83 ~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 83 NEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred HHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 4 333222 22 3567777777765 567999999999999999999999999875
No 5
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.85 E-value=8.6e-21 Score=162.72 Aligned_cols=125 Identities=15% Similarity=0.134 Sum_probs=93.9
Q ss_pred cccccccCCCCCCceEEEEE--eCCeeEEE-ecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcC--
Q psy6829 160 VVDLSLYGSKTIQNTSCAVY--AGGSAKSY-ILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANK-- 234 (369)
Q Consensus 160 ~i~td~s~~~~~~~~G~a~~--~~~~~~~~-~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~-- 234 (369)
.||||||+..+++..|+|++ .++....+ ......|++.|||.|+..||+.+.+ ...+.|+|||++++++|..+
T Consensus 5 ~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i~~w~~ 82 (150)
T PRK00203 5 EIYTDGACLGNPGPGGWGAILRYKGHEKELSGGEALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGITEWIH 82 (150)
T ss_pred EEEEEecccCCCCceEEEEEEEECCeeEEEecCCCCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHHHHHHH
Confidence 38999999877777777776 33333222 2234689999999999999998865 46799999999999999862
Q ss_pred -------CCCc--HH-HHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhhCCCC
Q psy6829 235 -------NTSI--PL-IAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLDGAEF 287 (369)
Q Consensus 235 -------~~~~--~~-~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~~~ 287 (369)
...+ ++ ..++++.+..+.. ...|.|.|||||+|++|||.||+|||+|+..+.
T Consensus 83 ~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~-~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~ 144 (150)
T PRK00203 83 GWKKNGWKTADKKPVKNVDLWQRLDAALK-RHQIKWHWVKGHAGHPENERCDELARAGAEEAT 144 (150)
T ss_pred HHHHcCCcccCCCccccHHHHHHHHHHhc-cCceEEEEecCCCCCHHHHHHHHHHHHHHHHhh
Confidence 1111 22 2345555555543 368999999999999999999999999987653
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=99.75 E-value=3.6e-17 Score=133.70 Aligned_cols=123 Identities=22% Similarity=0.198 Sum_probs=96.3
Q ss_pred ccccccCCCCCCceEEEEE--eCCe--eEE-EecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCC
Q psy6829 161 VDLSLYGSKTIQNTSCAVY--AGGS--AKS-YILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKN 235 (369)
Q Consensus 161 i~td~s~~~~~~~~G~a~~--~~~~--~~~-~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~ 235 (369)
+|+|||.....++.|+|++ +.+. ... .......+++.+|+.|+..||+.+...+..++.|++||+.++..+.+..
T Consensus 2 ~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~~ 81 (130)
T cd06222 2 IYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGWY 81 (130)
T ss_pred EEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhccc
Confidence 6899998877788888887 2221 111 1222578999999999999999998888999999999999999999876
Q ss_pred C-CcHHHHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhh
Q psy6829 236 T-SIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLD 283 (369)
Q Consensus 236 ~-~~~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~ 283 (369)
. .......++..+..+...+..+.|.|||+|+|+.+|+.||.|||+|.
T Consensus 82 ~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 82 EGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred cCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 4 22233444444445545678999999999999999999999999873
No 7
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.70 E-value=1.6e-16 Score=132.48 Aligned_cols=120 Identities=18% Similarity=0.101 Sum_probs=96.2
Q ss_pred ccccccCCCCCCceEEEEE--eCCee--EEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCCC
Q psy6829 161 VDLSLYGSKTIQNTSCAVY--AGGSA--KSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT 236 (369)
Q Consensus 161 i~td~s~~~~~~~~G~a~~--~~~~~--~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~~ 236 (369)
||+||++...++..|+|++ +.+.. ..+.. ...|+..||+.|++.||+.+...+..++.|+|||+.+++.+++...
T Consensus 4 iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~~-~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~~~ 82 (128)
T PRK13907 4 VYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPL-GTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKEYA 82 (128)
T ss_pred EEEeeCCCCCCCccEEEEEEEECCeeEEEEecc-cccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHHHh
Confidence 8999999988888888887 32222 22223 3679999999999999999999888899999999999999998665
Q ss_pred CcHHHHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhhCC
Q psy6829 237 SIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLDGA 285 (369)
Q Consensus 237 ~~~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~ 285 (369)
.......+++.+..+..+...+.|.|||. ++|+.||.||++|...
T Consensus 83 ~~~~~~~l~~~~~~l~~~f~~~~~~~v~r----~~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 83 KNKMFAPLLEEALQYIKSFDLFFIKWIPS----SQNKVADELARKAILQ 127 (128)
T ss_pred cChhHHHHHHHHHHHHhcCCceEEEEcCc----hhchhHHHHHHHHHhc
Confidence 44445566666666767777888999997 5999999999998753
No 8
>KOG3752|consensus
Probab=99.69 E-value=7.4e-17 Score=152.05 Aligned_cols=125 Identities=24% Similarity=0.189 Sum_probs=100.1
Q ss_pred cccccccCCCC---CCceEEEEEeCC---eeEEEecC-CCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhh
Q psy6829 160 VVDLSLYGSKT---IQNTSCAVYAGG---SAKSYILN-NINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIA 232 (369)
Q Consensus 160 ~i~td~s~~~~---~~~~G~a~~~~~---~~~~~~l~-~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~ 232 (369)
.|||||+++.+ ...+|+|||.++ ...++++. ...|++.|||.||..||+-+.+....+++|.|||++++++|+
T Consensus 214 vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~i~~l~ 293 (371)
T KOG3752|consen 214 VVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEYFINSLT 293 (371)
T ss_pred EEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHHHHHHHH
Confidence 39999998863 578999999542 34677774 789999999999999999999988889999999999999998
Q ss_pred cCCCC-----------cH------HHHHHHHHHHHHhhC--CCeEEEEEecCCCCCccchHHhHHHhhhhC
Q psy6829 233 NKNTS-----------IP------LIAHILNTWHTLKSC--GKKVAFLWCPSHTGISGNEIVDRATRQLDG 284 (369)
Q Consensus 233 ~~~~~-----------~~------~~~~i~~~~~~l~~~--~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~ 284 (369)
.|... ++ ..+..+..+++|.+. +..|.+.|||||.|+.|||+||.||++++.
T Consensus 294 ~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~ 364 (371)
T KOG3752|consen 294 LWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGST 364 (371)
T ss_pred HHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhh
Confidence 65321 11 123444555555443 589999999999999999999999998754
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.52 E-value=1.7e-13 Score=124.06 Aligned_cols=124 Identities=14% Similarity=0.024 Sum_probs=92.6
Q ss_pred cccccccCCCCCCceEEEEE--e--CCeeE----EEecCCCCchHHHHHHHHHHHHHHhhcCCCCc--EEEEeCcHHHHH
Q psy6829 160 VVDLSLYGSKTIQNTSCAVY--A--GGSAK----SYILNNINSIFTAELLALVFCLDSVKNRPDVN--TLIVCDSMSALT 229 (369)
Q Consensus 160 ~i~td~s~~~~~~~~G~a~~--~--~~~~~----~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~--i~I~tDS~~al~ 229 (369)
.+|+||+...++++.|+|++ . ++... ...++...|++.||+.|++.||+.+.+.+.++ |.|++||+.+++
T Consensus 75 ~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSqlVi~ 154 (219)
T PRK07708 75 LVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDSQVVLN 154 (219)
T ss_pred EEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHHHHH
Confidence 39999998776766777665 3 22221 12455568999999999999999999876554 899999999999
Q ss_pred HhhcCCC-CcHHHHHHHHHHHHHhhCC-CeEEEEEecCCCCCccchHHhHHHhhhhCCCC
Q psy6829 230 SIANKNT-SIPLIAHILNTWHTLKSCG-KKVAFLWCPSHTGISGNEIVDRATRQLDGAEF 287 (369)
Q Consensus 230 ~l~~~~~-~~~~~~~i~~~~~~l~~~~-~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~~~ 287 (369)
.+.+.+. .++..+.+.+.+..+.++. ..+.|.||| ...|+.||+||++|+....
T Consensus 155 qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~Vp----R~~N~~AD~LAk~Al~~~~ 210 (219)
T PRK07708 155 QLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPIS----RKQNKEADQLATQALEGTV 210 (219)
T ss_pred HhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECC----chhhhHHHHHHHHHHhcCC
Confidence 9998654 3444555555555554443 347888998 4689999999999998644
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.46 E-value=5.7e-13 Score=130.88 Aligned_cols=120 Identities=15% Similarity=0.151 Sum_probs=96.2
Q ss_pred ccccccCCCCCCceEEEEE--eC--Cee---EEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhc
Q psy6829 161 VDLSLYGSKTIQNTSCAVY--AG--GSA---KSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIAN 233 (369)
Q Consensus 161 i~td~s~~~~~~~~G~a~~--~~--~~~---~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~ 233 (369)
||+||++..+++..|+|++ +. +.. ....++ ..|++.||+.|++.||+.+.+.+..++.|++||+.+++.+.+
T Consensus 5 i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~i~~ 83 (372)
T PRK07238 5 VEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQMSG 83 (372)
T ss_pred EEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHHhCC
Confidence 8999999988887788877 32 211 223344 678889999999999999999888999999999999999988
Q ss_pred CCC-CcHHHHHHHHHHHHHhhCCCeEEEEEecCCCCCccchHHhHHHhhhhCC
Q psy6829 234 KNT-SIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEIVDRATRQLDGA 285 (369)
Q Consensus 234 ~~~-~~~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~ 285 (369)
... +++-...+.+.+..+.+++..+.|.|||. .+|+.||.||+.|...
T Consensus 84 ~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a~~~ 132 (372)
T PRK07238 84 RWKVKHPDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEAMDA 132 (372)
T ss_pred CCccCChHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHHHHh
Confidence 654 34444555566667777788999999996 6999999999998754
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.28 E-value=1.7e-11 Score=94.34 Aligned_cols=86 Identities=17% Similarity=0.131 Sum_probs=67.5
Q ss_pred hHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCCCCcHHHHHHHHHHHHHhhCCCeEEEEEecCCCCCccchH
Q psy6829 195 IFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTSIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGISGNEI 274 (369)
Q Consensus 195 ~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~~~~~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gNe~ 274 (369)
+..||+.|+..||+.+.+.+.+++.|.|||+.+++.|++..........+...+..+......+.|.||| .++|..
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~----r~~N~~ 76 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIP----REQNKV 76 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE------GGGSHH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEEC----hHHhHH
Confidence 4689999999999999999999999999999999999987543223445555556676778899999999 589999
Q ss_pred HhHHHhhhhC
Q psy6829 275 VDRATRQLDG 284 (369)
Q Consensus 275 AD~lAk~a~~ 284 (369)
||.|||.|..
T Consensus 77 A~~LA~~a~~ 86 (87)
T PF13456_consen 77 ADALAKFALS 86 (87)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHhh
Confidence 9999998864
No 12
>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=64.83 E-value=7.7 Score=34.58 Aligned_cols=59 Identities=17% Similarity=0.007 Sum_probs=36.4
Q ss_pred CcccccccCCCCCCceEEEEEeCCeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHH
Q psy6829 159 PVVDLSLYGSKTIQNTSCAVYAGGSAKSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSAL 228 (369)
Q Consensus 159 ~~i~td~s~~~~~~~~G~a~~~~~~~~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al 228 (369)
+.|++|+. ..|.|+++-.+.....|.. --.+++||+.|...|.-+.. .++ |.|||..|+
T Consensus 95 c~VfaDAT----pTgwgi~i~~~~~~~Tfs~--~l~IhtaELlaaClAr~~~~----~r~-l~tDnt~Vl 153 (245)
T PF00336_consen 95 CQVFADAT----PTGWGISITGQRMRGTFSK--PLPIHTAELLAACLARLMSG----ARC-LGTDNTVVL 153 (245)
T ss_pred CceeccCC----CCcceeeecCceeeeeecc--cccchHHHHHHHHHHHhccC----CcE-EeecCcEEE
Confidence 44888854 3344444222223344433 45789999999988876653 344 999998765
No 13
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=61.60 E-value=26 Score=31.63 Aligned_cols=118 Identities=15% Similarity=0.023 Sum_probs=74.8
Q ss_pred ccccCCCCCCceEEEEEeCCee-------EEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEE-E----eCcHHHHHH
Q psy6829 163 LSLYGSKTIQNTSCAVYAGGSA-------KSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLI-V----CDSMSALTS 230 (369)
Q Consensus 163 td~s~~~~~~~~G~a~~~~~~~-------~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I-~----tDS~~al~~ 230 (369)
.+|+...+++..++-++.+... .....+ ..++-.+|.+|++.+|+.+...+.++..| + .||++..+-
T Consensus 70 ~~G~y~~~p~t~~~k~yr~k~~~~~~~lt~~~~~~-~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k~ 148 (225)
T COG3341 70 AKGDYDAKPGTQEFKEYRGKCTIEYSWLTESSEFS-IKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGNDSWAYFKY 148 (225)
T ss_pred ccCCccccCCCcceeEEeccccccceeeeeecccc-cccCchHHHHHHhccccccccccCccceeeccCCcchhHHHHHH
Confidence 3555555677777777755332 111222 45677899999999999998865555544 7 799999988
Q ss_pred hhcCCCCc-HHHHHHHHHHHHHhhCC--CeEEEEEecCCCCCccchHHhHHHhhhhCCC
Q psy6829 231 IANKNTSI-PLIAHILNTWHTLKSCG--KKVAFLWCPSHTGISGNEIVDRATRQLDGAE 286 (369)
Q Consensus 231 l~~~~~~~-~~~~~i~~~~~~l~~~~--~~v~~~WvpgH~gi~gNe~AD~lAk~a~~~~ 286 (369)
+.+-.... .+. .. .+..+.+ ....+.|+--|.++.-+..++..+.......
T Consensus 149 ~k~~~~~k~~~~--~~---~e~~~~~~~v~h~~k~i~~~~~~~~~~~~~s~~~~~~k~~ 202 (225)
T COG3341 149 VKDKCETKVNLL--KD---REFFSIGKGVFHDEKDINIHIWIFESKKGNSHVYNTSKKE 202 (225)
T ss_pred HhhhhhhHHHHH--Hh---HHhhhccchhhhhhhhcccccccchhhhhhhhhhchhhhh
Confidence 87754221 111 00 1111222 3445678888999888888888877655543
No 14
>KOG1812|consensus
Probab=58.89 E-value=35 Score=33.82 Aligned_cols=91 Identities=15% Similarity=0.131 Sum_probs=55.8
Q ss_pred CCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCCCCcH--HHHHHHHHHHHHhhCCCeEEEEEecCCCCC
Q psy6829 192 INSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTSIP--LIAHILNTWHTLKSCGKKVAFLWCPSHTGI 269 (369)
Q Consensus 192 ~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~~~~~--~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi 269 (369)
..+...||+.|+..+|..+.+.+..++.+++|+.-....+.....+.. .+..+.+....++.+.....-+-+|.-
T Consensus 46 ~~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~~~~~~~~~~~l~~~v~~~r~~l~~~~~i~~~~~--- 122 (384)
T KOG1812|consen 46 SITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGREKPEQHRKIVLLVELVQRIREQLTSSEPILVPKN--- 122 (384)
T ss_pred ccchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhcccceecccc---
Confidence 378899999999999999999999999999997665554444433322 234444444444443322222233310
Q ss_pred ccchHHhHHHhhhhCC
Q psy6829 270 SGNEIVDRATRQLDGA 285 (369)
Q Consensus 270 ~gNe~AD~lAk~a~~~ 285 (369)
.....|=.||+++..+
T Consensus 123 ~d~~~~~~lA~e~i~s 138 (384)
T KOG1812|consen 123 ADIKFAYKLAREAIVS 138 (384)
T ss_pred hhhHHHHHHHHHhhcc
Confidence 1112366777777764
No 15
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=58.25 E-value=45 Score=28.44 Aligned_cols=48 Identities=19% Similarity=0.095 Sum_probs=31.0
Q ss_pred ccccccCCCCCCceEEEEEe-----CCeeE--E---Eec-C-CCCchHHHHHHHHHHHHHHhhc
Q psy6829 161 VDLSLYGSKTIQNTSCAVYA-----GGSAK--S---YIL-N-NINSIFTAELLALVFCLDSVKN 212 (369)
Q Consensus 161 i~td~s~~~~~~~~G~a~~~-----~~~~~--~---~~l-~-~~~t~~~AEl~Ai~~aL~~~~~ 212 (369)
+|.|+| ..+.|+++|. ++... . .+. + ...|+-.-||.|+..|.+++..
T Consensus 84 ~F~DAS----~~aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~ 143 (159)
T PF05380_consen 84 VFCDAS----ESAYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT 143 (159)
T ss_pred Eeeccc----ccceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 788876 4567777772 11111 1 112 1 2459999999999999998754
No 16
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=56.71 E-value=14 Score=38.79 Aligned_cols=73 Identities=12% Similarity=0.031 Sum_probs=45.2
Q ss_pred HHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCCC--------Cc--HHHHHHHHHHHHHhhCCCeEEEEEecCCCCCc
Q psy6829 201 LALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNT--------SI--PLIAHILNTWHTLKSCGKKVAFLWCPSHTGIS 270 (369)
Q Consensus 201 ~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~~--------~~--~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~ 270 (369)
.++.+=|.++.+.+.+.|.+.-=++-.-. .+|.- .+ +.-..+...++.+.+.|..|-+-|||+|.+..
T Consensus 165 e~a~~llpYl~elG~T~IELMPv~e~p~~--~sWGYq~~g~yAp~sryGtPedfk~fVD~aH~~GIgViLD~V~~HF~~d 242 (628)
T COG0296 165 ELAIELLPYLKELGITHIELMPVAEHPGD--RSWGYQGTGYYAPTSRYGTPEDFKALVDAAHQAGIGVILDWVPNHFPPD 242 (628)
T ss_pred HHHHHHhHHHHHhCCCEEEEcccccCCCC--CCCCCCcceeccccccCCCHHHHHHHHHHHHHcCCEEEEEecCCcCCCC
Confidence 44556677777777766664321110000 11110 11 12346667778888899999999999999999
Q ss_pred cchHH
Q psy6829 271 GNEIV 275 (369)
Q Consensus 271 gNe~A 275 (369)
||-.+
T Consensus 243 ~~~L~ 247 (628)
T COG0296 243 GNYLA 247 (628)
T ss_pred cchhh
Confidence 98755
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=40.44 E-value=1.3e+02 Score=23.72 Aligned_cols=57 Identities=7% Similarity=-0.059 Sum_probs=36.1
Q ss_pred CCceEEEEEeC-CeeEEEec----CCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHH
Q psy6829 171 IQNTSCAVYAG-GSAKSYIL----NNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSA 227 (369)
Q Consensus 171 ~~~~G~a~~~~-~~~~~~~l----~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~a 227 (369)
+..+|+.+++. +...+.+. ........||..||..+.+...........+|+.-+..
T Consensus 16 ~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~EPC 77 (109)
T cd01285 16 EVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPC 77 (109)
T ss_pred CCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeCCCh
Confidence 56788888855 43333222 12345677999999999887544345667777765443
No 18
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=39.84 E-value=1.9e+02 Score=25.86 Aligned_cols=133 Identities=13% Similarity=0.043 Sum_probs=74.9
Q ss_pred HHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCCCC--------cH-HHHHHHHHHHHHhhCCCeEEEEEecCCCCCccc
Q psy6829 202 ALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTS--------IP-LIAHILNTWHTLKSCGKKVAFLWCPSHTGISGN 272 (369)
Q Consensus 202 Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~~~--------~~-~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi~gN 272 (369)
++..||.++....+-.+..|++.+.-+.......+. .+ .-.++. ..|...|...-+..+-||.+|+
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 567788888887778889999999888774222211 01 123444 4555677888888899998876
Q ss_pred hHHhHHHhhhhCCCCC----CCCChHHHHHHHHHHHHHHHHHHhhccccCccccccCCCCCCCCCCCCCcchhhhhhhhc
Q psy6829 273 EIVDRATRQLDGAEFV----NLSSPADLISVGKKYIHEKWQKSWSDLTNNKLKCVKPTIGPWNVSDCNNRYEEVVLTRVR 348 (369)
Q Consensus 273 e~AD~lAk~a~~~~~~----~~~~~~~~~~~~k~~~~~~w~~~W~~~~~~~~~~i~p~~~~~~~~~~l~R~~~~~l~qlR 348 (369)
+|.+|.+.+.. .++...++...+++.+...-.+.=...... .+ ...+..|+++|.-+|.++-
T Consensus 90 -----maV~AmK~GAvDFLeKP~~~q~Lldav~~Al~~~~~~~~~~~~~~---~~------~~~l~tLT~RERqVl~~vV 155 (202)
T COG4566 90 -----MAVQAMKAGAVDFLEKPFSEQDLLDAVERALARDASRRAEADRQA---AI------RARLATLTPRERQVLDLVV 155 (202)
T ss_pred -----HHHHHHHcchhhHHhCCCchHHHHHHHHHHHHHHHHHHHhHHHHH---HH------HHHHHhcCHHHHHHHHHHH
Confidence 34444444332 234444555555544432211111110000 00 0124456778888888877
Q ss_pred cCccc
Q psy6829 349 IGHTR 353 (369)
Q Consensus 349 tGh~~ 353 (369)
-|+.+
T Consensus 156 ~G~~N 160 (202)
T COG4566 156 RGLMN 160 (202)
T ss_pred cCccc
Confidence 77653
No 19
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=35.57 E-value=1.3e+02 Score=26.18 Aligned_cols=55 Identities=9% Similarity=-0.048 Sum_probs=31.9
Q ss_pred CCceEEEEEeCCeeEEEe----cCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcH
Q psy6829 171 IQNTSCAVYAGGSAKSYI----LNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSM 225 (369)
Q Consensus 171 ~~~~G~a~~~~~~~~~~~----l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~ 225 (369)
+..+|+.++.++...+.+ .+.......||+.||..|.+.+.........+|+--.
T Consensus 32 ~~pvGAVIV~~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~TlE 90 (172)
T PRK10860 32 EVPVGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTLE 90 (172)
T ss_pred CCCEEEEEEeCCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEeeCC
Confidence 457888888554443322 1222234569999999988765443334556665433
No 20
>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=34.42 E-value=1.5e+02 Score=23.91 Aligned_cols=48 Identities=13% Similarity=0.020 Sum_probs=29.1
Q ss_pred CCceEEEEEeC-CeeEEEecCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEe
Q psy6829 171 IQNTSCAVYAG-GSAKSYILNNINSIFTAELLALVFCLDSVKNRPDVNTLIVC 222 (369)
Q Consensus 171 ~~~~G~a~~~~-~~~~~~~l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~t 222 (369)
+..+|+.+++. +...+...........||..||..|.+. ......+|+
T Consensus 18 ~~pvGaviv~~~g~iv~~g~n~~~~~~HAE~~ai~~a~~~----~l~g~tly~ 66 (115)
T cd01284 18 NPPVGCVIVDDDGEIVGEGYHRKAGGPHAEVNALASAGEK----LARGATLYV 66 (115)
T ss_pred CCCEEEEEEeCCCeEEEEecCCCCCcccHHHHHHHHHhhc----CCCCeEEEE
Confidence 55788888854 4433333222225567999999998874 233445554
No 21
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=32.31 E-value=3e+02 Score=22.99 Aligned_cols=76 Identities=12% Similarity=0.077 Sum_probs=44.5
Q ss_pred CceEEEEE--eCCeeEEEecC--CCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHHHHHHhhcCCCCcHHHHHHHHH
Q psy6829 172 QNTSCAVY--AGGSAKSYILN--NINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMSALTSIANKNTSIPLIAHILNT 247 (369)
Q Consensus 172 ~~~G~a~~--~~~~~~~~~l~--~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~al~~l~~~~~~~~~~~~i~~~ 247 (369)
=.||+++. +|.......+. ...--.-||-.||..|+.. -......+.+++|+ ..+..+-+.-++..
T Consensus 26 F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~-------~~~~sPCG~CRQ~i-- 95 (134)
T COG0295 26 FKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT-------GKPVSPCGACRQVL-- 95 (134)
T ss_pred CcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC-------CCCcCCcHHHHHHH--
Confidence 45788877 23333222221 1223345999999999987 34456788999998 33444555666655
Q ss_pred HHHHhhCCCeE
Q psy6829 248 WHTLKSCGKKV 258 (369)
Q Consensus 248 ~~~l~~~~~~v 258 (369)
.++......|
T Consensus 96 -~Ef~~~d~~i 105 (134)
T COG0295 96 -AEFCGDDTLI 105 (134)
T ss_pred -HHhcCCCceE
Confidence 4554443333
No 22
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=30.13 E-value=1.5e+02 Score=25.12 Aligned_cols=56 Identities=11% Similarity=0.032 Sum_probs=33.3
Q ss_pred CCceEEEEEe-CCeeEEEe----cCCCCchHHHHHHHHHHHHHHhhcCCCCcEEEEeCcHH
Q psy6829 171 IQNTSCAVYA-GGSAKSYI----LNNINSIFTAELLALVFCLDSVKNRPDVNTLIVCDSMS 226 (369)
Q Consensus 171 ~~~~G~a~~~-~~~~~~~~----l~~~~t~~~AEl~Ai~~aL~~~~~~~~~~i~I~tDS~~ 226 (369)
+..+|+.+++ .+...... .....-.-.||+.||..|.+.+.........+|+=-..
T Consensus 27 e~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT~EP 87 (152)
T COG0590 27 EVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVTLEP 87 (152)
T ss_pred CCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEecCC
Confidence 5668888886 33332221 12222233699999999999986544455555554333
No 23
>smart00642 Aamy Alpha-amylase domain.
Probab=24.93 E-value=1.8e+02 Score=25.01 Aligned_cols=70 Identities=13% Similarity=0.038 Sum_probs=42.1
Q ss_pred HHHHHHHHHHhhcCCCCcEEEEe----------CcHHHHHHhhcCCCCcHHHHHHHHHHHHHhhCCCeEEEEEecCCCCC
Q psy6829 200 LLALVFCLDSVKNRPDVNTLIVC----------DSMSALTSIANKNTSIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGI 269 (369)
Q Consensus 200 l~Ai~~aL~~~~~~~~~~i~I~t----------DS~~al~~l~~~~~~~~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi 269 (369)
+.+|..-|.++.+.+...|.+-- +.-+...........-+...++.+.++++.+.|..|-+-.|+.|++.
T Consensus 18 ~~gi~~~l~yl~~lG~~~I~l~Pi~~~~~~~~~~~gY~~~d~~~i~~~~Gt~~d~~~lv~~~h~~Gi~vilD~V~NH~~~ 97 (166)
T smart00642 18 LQGIIEKLDYLKDLGVTAIWLSPIFESPQGYPSYHGYDISDYKQIDPRFGTMEDFKELVDAAHARGIKVILDVVINHTSD 97 (166)
T ss_pred HHHHHHHHHHHHHCCCCEEEECcceeCCCCCCCCCCcCccccCCCCcccCCHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Confidence 56666667777666555554321 11111111111111112456778888889999999999999999987
No 24
>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=24.23 E-value=2.8e+02 Score=22.78 Aligned_cols=27 Identities=11% Similarity=-0.023 Sum_probs=17.1
Q ss_pred chHHHHHHHHHHHHHHhhcCCCCcEEEEe
Q psy6829 194 SIFTAELLALVFCLDSVKNRPDVNTLIVC 222 (369)
Q Consensus 194 t~~~AEl~Ai~~aL~~~~~~~~~~i~I~t 222 (369)
....||..||..|.+. ........+|+
T Consensus 67 ~~~HAE~~Ai~~a~~~--~~~~~~~tLyv 93 (131)
T cd01286 67 RTVHAEQNAILQAARH--GVSLEGATLYV 93 (131)
T ss_pred CCCCHHHHHHHHHhHc--CCCcCCeEEEE
Confidence 3456999999988764 22234555555
No 25
>PRK10933 trehalose-6-phosphate hydrolase; Provisional
Probab=21.09 E-value=1.6e+02 Score=30.67 Aligned_cols=72 Identities=13% Similarity=0.062 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHhhcCCCCcEEEEe-------CcHHHHHHhhcCCCCcHHHHHHHHHHHHHhhCCCeEEEEEecCCCCC
Q psy6829 198 AELLALVFCLDSVKNRPDVNTLIVC-------DSMSALTSIANKNTSIPLIAHILNTWHTLKSCGKKVAFLWCPSHTGI 269 (369)
Q Consensus 198 AEl~Ai~~aL~~~~~~~~~~i~I~t-------DS~~al~~l~~~~~~~~~~~~i~~~~~~l~~~~~~v~~~WvpgH~gi 269 (369)
+.+.+|...|.++.+.+...|.+-- |+-+.+.-....-..-+...++...++.+.+.|..|.+-.|+.|++.
T Consensus 30 Gdl~gi~~~ldyl~~lGv~~i~l~P~~~~~~~~~gY~~~d~~~id~~~Gt~~d~~~lv~~~h~~gi~vilD~V~NH~s~ 108 (551)
T PRK10933 30 GDLRGVTQRLDYLQKLGVDAIWLTPFYVSPQVDNGYDVANYTAIDPTYGTLDDFDELVAQAKSRGIRIILDMVFNHTST 108 (551)
T ss_pred cCHHHHHHhhHHHHhCCCCEEEECCCCCCCCCCCCCCcccCCCcCcccCCHHHHHHHHHHHHHCCCEEEEEECCCCccC
Confidence 4589999999999988777665521 21111111000001112346777888888899999999999999875
Done!