Query psy6532
Match_columns 277
No_of_seqs 210 out of 1583
Neff 8.1
Searched_HMMs 46136
Date Fri Aug 16 20:29:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6532.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6532hhsearch_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-24 3E-29 175.0 13.1 125 103-229 2-146 (154)
2 PRK06548 ribonuclease H; Provi 99.9 8.3E-24 1.8E-28 173.2 14.1 122 103-229 4-143 (161)
3 PRK08719 ribonuclease H; Revie 99.9 9.4E-24 2E-28 171.2 13.7 119 103-227 3-146 (147)
4 PF00075 RNase_H: RNase H; In 99.9 9.7E-24 2.1E-28 167.6 11.3 118 103-226 2-131 (132)
5 PRK00203 rnhA ribonuclease H; 99.9 2.6E-23 5.6E-28 169.6 12.9 122 104-229 3-143 (150)
6 cd06222 RnaseH RNase H (RNase 99.8 1.1E-18 2.4E-23 135.2 14.3 120 106-226 1-130 (130)
7 KOG3752|consensus 99.8 4.4E-19 9.6E-24 159.3 12.1 127 102-228 210-365 (371)
8 PRK13907 rnhA ribonuclease H; 99.8 2.1E-18 4.5E-23 136.8 12.9 118 105-228 2-127 (128)
9 PRK07708 hypothetical protein; 99.8 1.3E-17 2.7E-22 143.6 14.0 127 101-231 70-211 (219)
10 PRK07238 bifunctional RNase H/ 99.6 1E-14 2.2E-19 135.6 14.0 120 104-229 2-133 (372)
11 PF13456 RVT_3: Reverse transc 99.4 6.1E-12 1.3E-16 92.1 10.0 82 141-227 1-86 (87)
12 PF05380 Peptidase_A17: Pao re 82.2 8 0.00017 31.4 7.6 55 102-158 79-143 (159)
13 PF00336 DNA_pol_viral_C: DNA 69.7 6.3 0.00014 33.6 3.7 88 105-208 95-182 (245)
14 COG0295 Cdd Cytidine deaminase 62.9 61 0.0013 25.8 7.9 71 117-195 27-99 (134)
15 COG0296 GlgB 1,4-alpha-glucan 49.3 19 0.00041 36.1 3.6 32 188-219 217-248 (628)
16 PRK08298 cytidine deaminase; V 46.1 56 0.0012 26.0 5.3 53 117-170 24-78 (136)
17 cd01285 nucleoside_deaminase N 43.0 1.3E+02 0.0027 22.5 6.7 58 117-174 18-78 (109)
18 COG3341 Predicted double-stran 41.0 21 0.00045 30.7 2.2 92 138-229 105-202 (225)
19 COG0590 CumB Cytosine/adenosin 40.1 1.2E+02 0.0025 24.6 6.4 61 117-177 29-92 (152)
20 PF00383 dCMP_cyt_deam_1: Cyti 34.1 93 0.002 22.6 4.6 54 116-170 24-80 (102)
21 cd01284 Riboflavin_deaminase-r 32.9 2E+02 0.0044 21.9 6.4 50 117-171 20-69 (115)
22 TIGR01354 cyt_deam_tetra cytid 31.0 1.2E+02 0.0026 23.6 4.9 53 117-170 22-76 (127)
23 KOG1812|consensus 29.4 1.9E+02 0.0042 27.1 6.9 43 139-181 47-89 (384)
24 PRK05578 cytidine deaminase; V 27.0 1.4E+02 0.0031 23.4 4.7 53 117-170 25-79 (131)
25 PRK06848 hypothetical protein; 27.0 1.8E+02 0.004 23.1 5.4 54 116-170 27-82 (139)
26 COG4566 TtrR Response regulato 25.8 4.2E+02 0.009 22.6 10.0 75 148-229 15-98 (202)
27 PF05830 NodZ: Nodulation prot 25.5 2.4E+02 0.0053 25.8 6.4 66 117-182 167-235 (321)
28 PRK10860 tRNA-specific adenosi 23.7 2.2E+02 0.0048 23.5 5.5 57 117-174 34-93 (172)
No 1
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.92 E-value=1.4e-24 Score=175.04 Aligned_cols=125 Identities=27% Similarity=0.323 Sum_probs=99.2
Q ss_pred CCceeeecCCCCC--CCeeEEEEEcCCCeEE--eecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHh
Q psy6532 103 SNMKPTIDGSKNE--QGVGCALTIPEKDIVK--RFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIM 178 (277)
Q Consensus 103 ~~~~iytDGS~~~--~~~G~g~v~~~~~~~~--~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~ 178 (277)
..+.||||||+.. |..|+|+|+..+...+ +.... .+||++||+.|++.||+.+.+.+...|.|+|||++++++|+
T Consensus 2 ~~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~ 80 (154)
T COG0328 2 KKVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGIT 80 (154)
T ss_pred CceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHH
Confidence 4578999999884 4589998886544333 33444 88999999999999999999988999999999999999999
Q ss_pred ccCC---CCh-------------HHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhcCC
Q psy6532 179 NMFH---ENP-------------LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINND 229 (277)
Q Consensus 179 ~~~~---~~~-------------~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~~ 229 (277)
.+.. .++ +.+++.+++. ....|.++|||||+|.++||+||+||+.|++..
T Consensus 81 ~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~-~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 81 RWIVKWKKNGWKTADKKPVKNKDLWEELDELLK-RHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred HHHhhccccCccccccCccccHHHHHHHHHHHh-hCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 4421 111 2444444444 355899999999999999999999999998766
No 2
>PRK06548 ribonuclease H; Provisional
Probab=99.91 E-value=8.3e-24 Score=173.16 Aligned_cols=122 Identities=24% Similarity=0.293 Sum_probs=92.9
Q ss_pred CCceeeecCCCCC--CCeeEEEEEcCCCeEEeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhcc
Q psy6532 103 SNMKPTIDGSKNE--QGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNM 180 (277)
Q Consensus 103 ~~~~iytDGS~~~--~~~G~g~v~~~~~~~~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~ 180 (277)
..+.||||||+.+ +..|+|+++.+... . .+.....||+.|||.|++.||+.+.. ....|.|+|||++++++|+.|
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~~~-~-~g~~~~~TNnraEl~Aii~aL~~~~~-~~~~v~I~TDS~yvi~~i~~W 80 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDENTW-D-SGGWDIATNNIAELTAVRELLIATRH-TDRPILILSDSKYVINSLTKW 80 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCCcE-E-ccCCCCCCHHHHHHHHHHHHHHhhhc-CCceEEEEeChHHHHHHHHHH
Confidence 4589999999884 44889988764322 2 22234689999999999999986653 345799999999999999942
Q ss_pred ---------CCCC-------hHHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhcCC
Q psy6532 181 ---------FHEN-------PLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINND 229 (277)
Q Consensus 181 ---------~~~~-------~~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~~ 229 (277)
...+ .++++|.+++.+ ..|+|.|||||+|++|||.||+||++|+...
T Consensus 81 ~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~--~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~ 143 (161)
T PRK06548 81 VYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN--RNIRMSWVNAHTGHPLNEAADSLARQAANNF 143 (161)
T ss_pred HHHHHHCCCcccCCCccccHHHHHHHHHHHhc--CceEEEEEecCCCCHHHHHHHHHHHHHHHHh
Confidence 2111 244556565553 4799999999999999999999999999665
No 3
>PRK08719 ribonuclease H; Reviewed
Probab=99.91 E-value=9.4e-24 Score=171.16 Aligned_cols=119 Identities=28% Similarity=0.375 Sum_probs=89.6
Q ss_pred CCceeeecCCCCCC-----CeeEEEEEcC--CCeE--EeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHH
Q psy6532 103 SNMKPTIDGSKNEQ-----GVGCALTIPE--KDIV--KRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSC 173 (277)
Q Consensus 103 ~~~~iytDGS~~~~-----~~G~g~v~~~--~~~~--~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~a 173 (277)
..+++|||||+.++ ..|+|+++.+ +... ....+....||++||+.|+..||+.+.+. ..|+|||+++
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 46899999999743 2589987654 3332 34445556899999999999999998752 4899999999
Q ss_pred HHHHh--------ccCC-CC--h-----HHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhc
Q psy6532 174 LQAIM--------NMFH-EN--P-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAIN 227 (277)
Q Consensus 174 i~~l~--------~~~~-~~--~-----~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~ 227 (277)
+++++ +.+. .. + +.+.|.+++. ...|+|.|||||+|++|||.||+||++|++
T Consensus 79 i~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~--~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 79 VRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA--RKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred HHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC--CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 99994 3332 11 1 2344444433 467999999999999999999999999975
No 4
>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=99.90 E-value=9.7e-24 Score=167.58 Aligned_cols=118 Identities=31% Similarity=0.382 Sum_probs=93.5
Q ss_pred CCceeeecCCCCC--CCeeEEEEEcCCCeEEeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhc-
Q psy6532 103 SNMKPTIDGSKNE--QGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMN- 179 (277)
Q Consensus 103 ~~~~iytDGS~~~--~~~G~g~v~~~~~~~~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~- 179 (277)
..+.+|||||+.+ +..|+|++++.+ ......++ ..|++.||+.|+..||+.+ . ...+.|+|||+++++.+..
T Consensus 2 ~~~~iytDgS~~~~~~~~~~g~v~~~~-~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~--~~~v~I~tDS~~v~~~l~~~ 76 (132)
T PF00075_consen 2 KAIIIYTDGSCRPNPGKGGAGYVVWGG-RNFSFRLG-GQSNNRAELQAIIEALKAL-E--HRKVTIYTDSQYVLNALNKW 76 (132)
T ss_dssp TSEEEEEEEEECTTTTEEEEEEEEETT-EEEEEEEE-SECHHHHHHHHHHHHHHTH-S--TSEEEEEES-HHHHHHHHTH
T ss_pred CcEEEEEeCCccCCCCceEEEEEEECC-eEEEeccc-ccchhhhheehHHHHHHHh-h--cccccccccHHHHHHHHHHh
Confidence 4689999999764 336888866555 34444455 7899999999999999944 3 3899999999999998877
Q ss_pred ----cCCC---C-hHHHHHHHHHhcCCCCeEEEEecCCCCC-ccchHHHHHHHHhh
Q psy6532 180 ----MFHE---N-PLVKRVQEELSSTESPVEFLWCPSHVGI-AGNETADEEAKQAI 226 (277)
Q Consensus 180 ----~~~~---~-~~~~~i~~~l~~~~~~v~~~WvpgH~g~-~gNe~AD~lAk~a~ 226 (277)
.+.. . ++..+|.+++. .+..|.|.|||||+|+ .|||.||+|||+|+
T Consensus 77 ~~~~~~~~~~~~~~i~~~i~~~~~-~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 77 LHGNGWKKTSNGRPIKNEIWELLS-RGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HHHTTSBSCTSSSBHTHHHHHHHH-HSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccchhheeeccc-cceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 3321 2 46678888774 4889999999999999 69999999999987
No 5
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.90 E-value=2.6e-23 Score=169.57 Aligned_cols=122 Identities=22% Similarity=0.294 Sum_probs=93.5
Q ss_pred CceeeecCCCCC--CCeeEEEEEcCCCeE-EeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhcc
Q psy6532 104 NMKPTIDGSKNE--QGVGCALTIPEKDIV-KRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNM 180 (277)
Q Consensus 104 ~~~iytDGS~~~--~~~G~g~v~~~~~~~-~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~ 180 (277)
.+.||||||+.+ +..|+|+|+..++.. ...+.....||++|||.|+..||+.+.+ ...+.|+|||++++++|.++
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i~~w 80 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELSGGEALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGITEW 80 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCeeEEEecCCCCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHHHHH
Confidence 478999999874 348888887543322 2223334689999999999999998865 46799999999999999863
Q ss_pred C---------CC--C-----hHHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhcCC
Q psy6532 181 F---------HE--N-----PLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINND 229 (277)
Q Consensus 181 ~---------~~--~-----~~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~~ 229 (277)
. .. . .++++|.+++. ...|.|.|||||+|++||+.||+||++|+...
T Consensus 81 ~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~--~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~ 143 (150)
T PRK00203 81 IHGWKKNGWKTADKKPVKNVDLWQRLDAALK--RHQIKWHWVKGHAGHPENERCDELARAGAEEA 143 (150)
T ss_pred HHHHHHcCCcccCCCccccHHHHHHHHHHhc--cCceEEEEecCCCCCHHHHHHHHHHHHHHHHh
Confidence 1 11 1 13455655544 36899999999999999999999999998765
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=99.80 E-value=1.1e-18 Score=135.21 Aligned_cols=120 Identities=32% Similarity=0.391 Sum_probs=95.3
Q ss_pred eeeecCCCCCC--CeeEEEEEcCCC--eEEe-ecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhcc
Q psy6532 106 KPTIDGSKNEQ--GVGCALTIPEKD--IVKR-FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNM 180 (277)
Q Consensus 106 ~iytDGS~~~~--~~G~g~v~~~~~--~~~~-~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~ 180 (277)
.+|||||...+ ++|+|+++.+.. .... .......+++++|+.|+..||+.+...+..++.|++||+.+++.+++.
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~ 80 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGW 80 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhcc
Confidence 48999998754 689998875533 2222 222257899999999999999999988899999999999999999987
Q ss_pred CC-C----ChHHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhh
Q psy6532 181 FH-E----NPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAI 226 (277)
Q Consensus 181 ~~-~----~~~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~ 226 (277)
.. . ..+...+++++ +....++|.|||+|+|..+|+.||.|||.|+
T Consensus 81 ~~~~~~~~~~~~~~i~~~~-~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALL-KRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHH-hCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 64 1 12345555554 3577899999999999999999999999874
No 7
>KOG3752|consensus
Probab=99.80 E-value=4.4e-19 Score=159.26 Aligned_cols=127 Identities=21% Similarity=0.192 Sum_probs=102.1
Q ss_pred CCCceeeecCCCCC-----CCeeEEEEEcCCCeE-EeecCC-CCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHH
Q psy6532 102 NSNMKPTIDGSKNE-----QGVGCALTIPEKDIV-KRFGLN-KNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCL 174 (277)
Q Consensus 102 ~~~~~iytDGS~~~-----~~~G~g~v~~~~~~~-~~~~~~-~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai 174 (277)
...+++|||||+.. ..+|+|++..++... .+..+. ...|||.|||.|+..||+-+.+....+|+|.|||++++
T Consensus 210 ~~~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~i 289 (371)
T KOG3752|consen 210 IEIQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEYFI 289 (371)
T ss_pred ccceEEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHHHH
Confidence 34488999999874 248999998776554 556665 78899999999999999999998888999999999999
Q ss_pred HHHhccCC---CC--------h----------HHHHHHHHHhc-CCCCeEEEEecCCCCCccchHHHHHHHHhhcC
Q psy6532 175 QAIMNMFH---EN--------P----------LVKRVQEELSS-TESPVEFLWCPSHVGIAGNETADEEAKQAINN 228 (277)
Q Consensus 175 ~~l~~~~~---~~--------~----------~~~~i~~~l~~-~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~ 228 (277)
+.|+.|.. .+ + ...++.++++. .+..|.+.||+||.|+.|||+||.||+++...
T Consensus 290 ~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~~ 365 (371)
T KOG3752|consen 290 NSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGSTL 365 (371)
T ss_pred HHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhhh
Confidence 99986542 11 1 12344455554 57899999999999999999999999998544
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.79 E-value=2.1e-18 Score=136.80 Aligned_cols=118 Identities=25% Similarity=0.253 Sum_probs=92.9
Q ss_pred ceeeecCCCCC--CCeeEEEEEcCCCeE--EeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhcc
Q psy6532 105 MKPTIDGSKNE--QGVGCALTIPEKDIV--KRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNM 180 (277)
Q Consensus 105 ~~iytDGS~~~--~~~G~g~v~~~~~~~--~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~ 180 (277)
++||||||+.. +..|+|+|+.+.... ..+. ....||++||+.|++.||+.+.+.+..++.|+|||+.+++++++.
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~-~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~ 80 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLP-LGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKE 80 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeEEEEec-ccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHH
Confidence 57999999874 458999988654322 2222 245799999999999999999998888999999999999999986
Q ss_pred CCCC----hHHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhcC
Q psy6532 181 FHEN----PLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINN 228 (277)
Q Consensus 181 ~~~~----~~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~ 228 (277)
+..+ ++..+++.++. ....+.|.|||. +.|+.||.||++|...
T Consensus 81 ~~~~~~~~~l~~~~~~l~~-~f~~~~~~~v~r----~~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 81 YAKNKMFAPLLEEALQYIK-SFDLFFIKWIPS----SQNKVADELARKAILQ 127 (128)
T ss_pred HhcChhHHHHHHHHHHHHh-cCCceEEEEcCc----hhchhHHHHHHHHHhc
Confidence 6432 34556666554 355778899994 6999999999999753
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.76 E-value=1.3e-17 Score=143.55 Aligned_cols=127 Identities=19% Similarity=0.170 Sum_probs=100.2
Q ss_pred cCCCceeeecCCCC--CCCeeEEEEEcC--CCeEE----eecCCCCcchhHHHHHHHHHHHHHHhhhCCCc--eEEEeCC
Q psy6532 101 ENSNMKPTIDGSKN--EQGVGCALTIPE--KDIVK----RFGLNKNASIFHAELFALLQSLLTIKQLGTCK--ALIITDS 170 (277)
Q Consensus 101 e~~~~~iytDGS~~--~~~~G~g~v~~~--~~~~~----~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~--v~I~tDS 170 (277)
|++.+++|+|||+. ++++|+|+|+.. +.... ...++...||+.||+.|++.||+.+.+.+.+. |.|++||
T Consensus 70 ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DS 149 (219)
T PRK07708 70 EPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDS 149 (219)
T ss_pred CCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEecc
Confidence 47789999999986 356899988753 33322 12455568999999999999999999987654 8999999
Q ss_pred HHHHHHHhccCC-CCh----HHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhcCCcc
Q psy6532 171 LSCLQAIMNMFH-ENP----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINNDVI 231 (277)
Q Consensus 171 ~~ai~~l~~~~~-~~~----~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~~~~ 231 (277)
+.+++++++.+. .++ +...+.+++++....+.|.||| +..|+.||+||++|++..+.
T Consensus 150 qlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~Vp----R~~N~~AD~LAk~Al~~~~~ 211 (219)
T PRK07708 150 QVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPIS----RKQNKEADQLATQALEGTVI 211 (219)
T ss_pred HHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECC----chhhhHHHHHHHHHHhcCCC
Confidence 999999999774 332 4556666666666678899998 78999999999999987643
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.61 E-value=1e-14 Score=135.65 Aligned_cols=120 Identities=21% Similarity=0.311 Sum_probs=93.8
Q ss_pred CceeeecCCCCC--CCeeEEEEEcC--CC-eE--EeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHH
Q psy6532 104 NMKPTIDGSKNE--QGVGCALTIPE--KD-IV--KRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQA 176 (277)
Q Consensus 104 ~~~iytDGS~~~--~~~G~g~v~~~--~~-~~--~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~ 176 (277)
.+.||||||+.+ +.+|+|+++.+ +. .. ....++ ..||+.||+.|++.||+.+.+.+.+++.|++||+.+++.
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 468999999885 35899988754 33 22 222333 678999999999999999999988999999999999999
Q ss_pred HhccCC-CCh----HHHHHHHHHhcCCCCeEEEEecCCCCCccchHHHHHHHHhhcCC
Q psy6532 177 IMNMFH-ENP----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINND 229 (277)
Q Consensus 177 l~~~~~-~~~----~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD~lAk~a~~~~ 229 (277)
+++.+. .+. +..+++.+++ ....++|.||| +++|+.||.||+.|+...
T Consensus 81 i~~~~~~~~~~l~~~~~~i~~l~~-~f~~~~i~~v~----r~~N~~AD~LA~~a~~~~ 133 (372)
T PRK07238 81 MSGRWKVKHPDMKPLAAQARELAS-QFGRVTYTWIP----RARNAHADRLANEAMDAA 133 (372)
T ss_pred hCCCCccCChHHHHHHHHHHHHHh-cCCceEEEECC----chhhhHHHHHHHHHHHhh
Confidence 998764 333 3445556554 44679999999 589999999999997544
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.36 E-value=6.1e-12 Score=92.10 Aligned_cols=82 Identities=29% Similarity=0.310 Sum_probs=66.5
Q ss_pred hhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhccCCC----ChHHHHHHHHHhcCCCCeEEEEecCCCCCccch
Q psy6532 141 IFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHE----NPLVKRVQEELSSTESPVEFLWCPSHVGIAGNE 216 (277)
Q Consensus 141 ~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~~~~----~~~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe 216 (277)
+.+||+.|+..||+++.+.+..++.|+|||+.+++.+++.... ..++.+|+.+++. ...+.|.||| +++|.
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~i~----r~~N~ 75 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDR-FWNVSVSHIP----REQNK 75 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCC-CSCEEEEE------GGGSH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhcc-ccceEEEEEC----hHHhH
Confidence 4689999999999999999999999999999999999987532 2356677776664 7789999999 99999
Q ss_pred HHHHHHHHhhc
Q psy6532 217 TADEEAKQAIN 227 (277)
Q Consensus 217 ~AD~lAk~a~~ 227 (277)
.||.|||.|.+
T Consensus 76 ~A~~LA~~a~~ 86 (87)
T PF13456_consen 76 VADALAKFALS 86 (87)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhh
Confidence 99999999874
No 12
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=82.18 E-value=8 Score=31.42 Aligned_cols=55 Identities=16% Similarity=0.186 Sum_probs=35.0
Q ss_pred CCCceeeecCCCCCCCeeEEEEEcC---CCeEE----e-ecCC--CCcchhHHHHHHHHHHHHHHhh
Q psy6532 102 NSNMKPTIDGSKNEQGVGCALTIPE---KDIVK----R-FGLN--KNASIFHAELFALLQSLLTIKQ 158 (277)
Q Consensus 102 ~~~~~iytDGS~~~~~~G~g~v~~~---~~~~~----~-~~~~--~~~t~~~aEl~Ai~~aL~~a~~ 158 (277)
...+++|+|+|.. +.|+.+++.. +.... + .++. ...|+-+-||.|+..|.+.+..
T Consensus 79 ~~~L~~F~DAS~~--aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~ 143 (159)
T PF05380_consen 79 SVELHVFCDASES--AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT 143 (159)
T ss_pred ceeeeEeeccccc--ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 4568999999943 3455444322 22221 1 1222 2458999999999999998864
No 13
>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=69.69 E-value=6.3 Score=33.56 Aligned_cols=88 Identities=19% Similarity=0.241 Sum_probs=50.5
Q ss_pred ceeeecCCCCCCCeeEEEEEcCCCeEEeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhccCCCC
Q psy6532 105 MKPTIDGSKNEQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHEN 184 (277)
Q Consensus 105 ~~iytDGS~~~~~~G~g~v~~~~~~~~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~~~~~ 184 (277)
-++|+|+.- +|+|+.+..+.....+.. .-.+..+|+.|...|--+.. .++ |.|||..|+ ++....-
T Consensus 95 c~VfaDATp----Tgwgi~i~~~~~~~Tfs~--~l~IhtaELlaaClAr~~~~----~r~-l~tDnt~Vl---srkyts~ 160 (245)
T PF00336_consen 95 CQVFADATP----TGWGISITGQRMRGTFSK--PLPIHTAELLAACLARLMSG----ARC-LGTDNTVVL---SRKYTSF 160 (245)
T ss_pred CceeccCCC----CcceeeecCceeeeeecc--cccchHHHHHHHHHHHhccC----CcE-EeecCcEEE---ecccccC
Confidence 367888764 567766544444444432 34688999999977765553 344 999998776 2222222
Q ss_pred hHHHHHHHHHhcCCCCeEEEEecC
Q psy6532 185 PLVKRVQEELSSTESPVEFLWCPS 208 (277)
Q Consensus 185 ~~~~~i~~~l~~~~~~v~~~Wvpg 208 (277)
++.-.+.. +..-..+.|..||+
T Consensus 161 PW~lac~A--~wiLrgts~~yVPS 182 (245)
T PF00336_consen 161 PWLLACAA--NWILRGTSFYYVPS 182 (245)
T ss_pred cHHHHHHH--HHhhcCceEEEecc
Confidence 22211111 11123577889995
No 14
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=62.85 E-value=61 Score=25.76 Aligned_cols=71 Identities=15% Similarity=0.156 Sum_probs=47.1
Q ss_pred CeeEEEEEcCCCeEEeecCC--CCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhccCCCChHHHHHHHHH
Q psy6532 117 GVGCALTIPEKDIVKRFGLN--KNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENPLVKRVQEEL 194 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~~~--~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~~~~~~~~~~i~~~l 194 (277)
.+|+++...+|+......+. ...--..||-.||..|+.. -......+.+++|+ .....+-+.-+++...+
T Consensus 27 ~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~-------~~~~sPCG~CRQ~i~Ef 98 (134)
T COG0295 27 KVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT-------GKPVSPCGACRQVLAEF 98 (134)
T ss_pred cEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC-------CCCcCCcHHHHHHHHHh
Confidence 48999887788776555443 2334568999999999987 44456789999998 22333444555555444
Q ss_pred h
Q psy6532 195 S 195 (277)
Q Consensus 195 ~ 195 (277)
.
T Consensus 99 ~ 99 (134)
T COG0295 99 C 99 (134)
T ss_pred c
Confidence 4
No 15
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=49.31 E-value=19 Score=36.06 Aligned_cols=32 Identities=25% Similarity=0.338 Sum_probs=25.5
Q ss_pred HHHHHHHhcCCCCeEEEEecCCCCCccchHHH
Q psy6532 188 KRVQEELSSTESPVEFLWCPSHVGIAGNETAD 219 (277)
Q Consensus 188 ~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~AD 219 (277)
+.+.+..++.|+.|-+-|||+|.+-.||-++-
T Consensus 217 k~fVD~aH~~GIgViLD~V~~HF~~d~~~L~~ 248 (628)
T COG0296 217 KALVDAAHQAGIGVILDWVPNHFPPDGNYLAR 248 (628)
T ss_pred HHHHHHHHHcCCEEEEEecCCcCCCCcchhhh
Confidence 34445567899999999999999998887653
No 16
>PRK08298 cytidine deaminase; Validated
Probab=46.05 E-value=56 Score=25.99 Aligned_cols=53 Identities=13% Similarity=0.097 Sum_probs=37.2
Q ss_pred CeeEEEEEcCCCeEEeecCCC--CcchhHHHHHHHHHHHHHHhhhCCCceEEEeCC
Q psy6532 117 GVGCALTIPEKDIVKRFGLNK--NASIFHAELFALLQSLLTIKQLGTCKALIITDS 170 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~~~~--~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS 170 (277)
.+|+++...+|++.....+.. ...-..||-.||..|+..-. .....+.|.+|.
T Consensus 24 ~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G~-~~~~~i~v~~~~ 78 (136)
T PRK08298 24 GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQK-RVTHSICVAREN 78 (136)
T ss_pred ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCCC-ceEEEEEEEcCC
Confidence 799999988888876665532 33456899999998875532 234566777776
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=42.95 E-value=1.3e+02 Score=22.53 Aligned_cols=58 Identities=14% Similarity=0.150 Sum_probs=36.1
Q ss_pred CeeEEEEEcCCCeEEeec---CCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHH
Q psy6532 117 GVGCALTIPEKDIVKRFG---LNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCL 174 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~---~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai 174 (277)
.+|+.+|..+++...... .........||+.||..+.+..........++|+.-+...
T Consensus 18 ~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~EPC~ 78 (109)
T cd01285 18 PFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPCP 78 (109)
T ss_pred cEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeCCChH
Confidence 467766655555543221 1123356789999999988775443456788888766544
No 18
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=41.03 E-value=21 Score=30.71 Aligned_cols=92 Identities=14% Similarity=0.031 Sum_probs=61.4
Q ss_pred CcchhHHHHHHHHHHHHHHhhhCCCceEE-E----eCCHHHHHHHhccCC-CChHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy6532 138 NASIFHAELFALLQSLLTIKQLGTCKALI-I----TDSLSCLQAIMNMFH-ENPLVKRVQEELSSTESPVEFLWCPSHVG 211 (277)
Q Consensus 138 ~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I-~----tDS~~ai~~l~~~~~-~~~~~~~i~~~l~~~~~~v~~~WvpgH~g 211 (277)
..++..+|.+|+..+|+.+...+.+..+| | .||++..+-..+-.. ...+.........-.+....+.|+--|.+
T Consensus 105 ~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k~~k~~~~~k~~~~~~~e~~~~~~~v~h~~k~i~~~~~ 184 (225)
T COG3341 105 IKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGNDSWAYFKYVKDKCETKVNLLKDREFFSIGKGVFHDEKDINIHIW 184 (225)
T ss_pred cccCchHHHHHHhccccccccccCccceeeccCCcchhHHHHHHHhhhhhhHHHHHHhHHhhhccchhhhhhhhcccccc
Confidence 35778999999999999988776655555 7 799988876655432 11111110000111124556778889999
Q ss_pred CccchHHHHHHHHhhcCC
Q psy6532 212 IAGNETADEEAKQAINND 229 (277)
Q Consensus 212 ~~gNe~AD~lAk~a~~~~ 229 (277)
+..+..++.++.-.....
T Consensus 185 ~~~~~~~~s~~~~~~k~~ 202 (225)
T COG3341 185 IFESKKGNSHVYNTSKKE 202 (225)
T ss_pred cchhhhhhhhhhchhhhh
Confidence 999999999988776665
No 19
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=40.09 E-value=1.2e+02 Score=24.56 Aligned_cols=61 Identities=18% Similarity=0.217 Sum_probs=37.8
Q ss_pred CeeEEEEEcCCCeEEeec-C--CCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHH
Q psy6532 117 GVGCALTIPEKDIVKRFG-L--NKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAI 177 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~-~--~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l 177 (277)
.+|+.+|..+++...... . ...--...||+.||..|.+..........++|+=-+...++.
T Consensus 29 PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT~EPC~MCa 92 (152)
T COG0590 29 PVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVTLEPCPMCA 92 (152)
T ss_pred CEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEecCCHHHHH
Confidence 366666654555554322 1 111123489999999999998765566777777666554443
No 20
>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=34.12 E-value=93 Score=22.58 Aligned_cols=54 Identities=15% Similarity=0.166 Sum_probs=30.4
Q ss_pred CCeeEEEEEcCCCeEEe-ecC--CCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCC
Q psy6532 116 QGVGCALTIPEKDIVKR-FGL--NKNASIFHAELFALLQSLLTIKQLGTCKALIITDS 170 (277)
Q Consensus 116 ~~~G~g~v~~~~~~~~~-~~~--~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS 170 (277)
..+|+.++.++++.... ... ........||..||..+.+. ........++|+-.
T Consensus 24 ~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~-~~~~~~~~~lyvt~ 80 (102)
T PF00383_consen 24 FPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN-GGSSLKGCTLYVTL 80 (102)
T ss_dssp SSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT-TSSGETTEEEEEEE
T ss_pred CCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh-ccccccCcccccCC
Confidence 35788777665554432 221 11223458999999888877 22223456777733
No 21
>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=32.93 E-value=2e+02 Score=21.93 Aligned_cols=50 Identities=24% Similarity=0.166 Sum_probs=29.2
Q ss_pred CeeEEEEEcCCCeEEeecCCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCH
Q psy6532 117 GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSL 171 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~ 171 (277)
.+|+-+|..+++..... .........||+.||..|.+. .....++|+--+
T Consensus 20 pvGaviv~~~g~iv~~g-~n~~~~~~HAE~~ai~~a~~~----~l~g~tly~TlE 69 (115)
T cd01284 20 PVGCVIVDDDGEIVGEG-YHRKAGGPHAEVNALASAGEK----LARGATLYVTLE 69 (115)
T ss_pred CEEEEEEeCCCeEEEEe-cCCCCCcccHHHHHHHHHhhc----CCCCeEEEEeCC
Confidence 47776664445544322 211225678999999988764 334566665443
No 22
>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=31.02 E-value=1.2e+02 Score=23.60 Aligned_cols=53 Identities=15% Similarity=0.106 Sum_probs=36.0
Q ss_pred CeeEEEEEcCCCeEEeecCCC--CcchhHHHHHHHHHHHHHHhhhCCCceEEEeCC
Q psy6532 117 GVGCALTIPEKDIVKRFGLNK--NASIFHAELFALLQSLLTIKQLGTCKALIITDS 170 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~~~~--~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS 170 (277)
.+|++++..+|+......... ..-...||..||..|...-.. ....+.|.+|.
T Consensus 22 ~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g~~-~i~~i~vv~~~ 76 (127)
T TIGR01354 22 KVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAGYR-KFVAIAVADSA 76 (127)
T ss_pred eEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcCCC-CeEEEEEEeCC
Confidence 478888777787776554332 223457999999998866332 56788888876
No 23
>KOG1812|consensus
Probab=29.44 E-value=1.9e+02 Score=27.14 Aligned_cols=43 Identities=23% Similarity=0.241 Sum_probs=35.9
Q ss_pred cchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHHHHHhccC
Q psy6532 139 ASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMF 181 (277)
Q Consensus 139 ~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~~ 181 (277)
.+...||++|+..+|..+...+..++.+++|+......+....
T Consensus 47 ~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~ 89 (384)
T KOG1812|consen 47 ITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGRE 89 (384)
T ss_pred cchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhh
Confidence 6788999999999999999999999999999766555444433
No 24
>PRK05578 cytidine deaminase; Validated
Probab=27.02 E-value=1.4e+02 Score=23.44 Aligned_cols=53 Identities=15% Similarity=0.093 Sum_probs=37.6
Q ss_pred CeeEEEEEcCCCeEEeecCCC--CcchhHHHHHHHHHHHHHHhhhCCCceEEEeCC
Q psy6532 117 GVGCALTIPEKDIVKRFGLNK--NASIFHAELFALLQSLLTIKQLGTCKALIITDS 170 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~~~~--~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS 170 (277)
.+|+++...+|+......+.. ..-...||-.||..|+..-. .....+.|.+|+
T Consensus 25 ~Vgaa~~~~~G~i~~G~nvEna~~~~~~CAE~~Ai~~av~~G~-~~i~~i~vv~~~ 79 (131)
T PRK05578 25 PVGAALLTDDGRIYTGCNIENASYGLTNCAERTAIFKAISEGG-GRLVAIACVGET 79 (131)
T ss_pred ceEEEEEeCCCCEEEEEEeeCccccCCcCHHHHHHHHHHHcCC-CceEEEEEEecC
Confidence 489999888888877665542 22346799999999875432 245778888877
No 25
>PRK06848 hypothetical protein; Validated
Probab=26.95 E-value=1.8e+02 Score=23.07 Aligned_cols=54 Identities=17% Similarity=0.116 Sum_probs=36.0
Q ss_pred CCeeEEEEEcCCCeEEeecCCC--CcchhHHHHHHHHHHHHHHhhhCCCceEEEeCC
Q psy6532 116 QGVGCALTIPEKDIVKRFGLNK--NASIFHAELFALLQSLLTIKQLGTCKALIITDS 170 (277)
Q Consensus 116 ~~~G~g~v~~~~~~~~~~~~~~--~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS 170 (277)
-.+|+++...+|+...+..+.. ......||-.||..|+..-. .....+.+.+++
T Consensus 27 f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g~-~~i~~i~~v~~~ 82 (139)
T PRK06848 27 HHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEGD-HEIDTIVAVRHP 82 (139)
T ss_pred CcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcCC-CceEEEEEEecC
Confidence 4699999888888876655432 33456899999999885522 233456555554
No 26
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=25.84 E-value=4.2e+02 Score=22.57 Aligned_cols=75 Identities=13% Similarity=0.059 Sum_probs=54.3
Q ss_pred HHHHHHHHHhhhCCCceEEEeCCHHHHHHHhccCCC--------Ch-HHHHHHHHHhcCCCCeEEEEecCCCCCccchHH
Q psy6532 148 ALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHE--------NP-LVKRVQEELSSTESPVEFLWCPSHVGIAGNETA 218 (277)
Q Consensus 148 Ai~~aL~~a~~~~~~~v~I~tDS~~ai~~l~~~~~~--------~~-~~~~i~~~l~~~~~~v~~~WvpgH~g~~gNe~A 218 (277)
++..||.++.+...-.+..|++.+.-+.......+. .+ -..++++.|...+...-+..+-||-+++
T Consensus 15 ~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~~~~~pGclllDvrMPg~sGlelq~~L~~~~~~~PVIfiTGhgDIp----- 89 (202)
T COG4566 15 SVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRPGCLLLDVRMPGMSGLELQDRLAERGIRLPVIFLTGHGDIP----- 89 (202)
T ss_pred HHHHHHHHHHHhCCceeeeecCHHHHHhhccCCCCCeEEEecCCCCCchHHHHHHHHhcCCCCCEEEEeCCCChH-----
Confidence 567788888887777899999999888773222210 01 2346777788788888888999998876
Q ss_pred HHHHHHhhcCC
Q psy6532 219 DEEAKQAINND 229 (277)
Q Consensus 219 D~lAk~a~~~~ 229 (277)
+|-+|.+.+
T Consensus 90 --maV~AmK~G 98 (202)
T COG4566 90 --MAVQAMKAG 98 (202)
T ss_pred --HHHHHHHcc
Confidence 677777766
No 27
>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=25.47 E-value=2.4e+02 Score=25.76 Aligned_cols=66 Identities=11% Similarity=0.021 Sum_probs=29.6
Q ss_pred CeeEEEEEcCCCeEEeecCCCCcchhHHHHHHHHHHHHHHhhh---CCCceEEEeCCHHHHHHHhccCC
Q psy6532 117 GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQL---GTCKALIITDSLSCLQAIMNMFH 182 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~~~~~~~t~~~aEl~Ai~~aL~~a~~~---~~~~v~I~tDS~~ai~~l~~~~~ 182 (277)
..-.|+.+..|+..-...-.++.+....=+.-+..+++.++.. ...+|-+.|||+.++..+.....
T Consensus 167 ~~~IGVHVRhGngeD~~~h~~~~~D~e~~L~~V~~ai~~ak~~~~~k~~~IFLATDSaeVid~fr~~FP 235 (321)
T PF05830_consen 167 YSVIGVHVRHGNGEDIMDHAPYWADEERALRQVCTAIDKAKALAPPKPVRIFLATDSAEVIDQFRKKFP 235 (321)
T ss_dssp SEEEEEEE---------------HHHHHHHHHHHHHHHHHHTS--SS-EEEEEEES-HHHHHHHHHHST
T ss_pred CceEEEEEeccCCcchhccCccccCchHHHHHHHHHHHHHHhccCCCCeeEEEecCcHHHHHHHHHHCC
Confidence 3456666655443211111122222222233444555555443 24568889999999988876554
No 28
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=23.72 E-value=2.2e+02 Score=23.45 Aligned_cols=57 Identities=21% Similarity=0.325 Sum_probs=32.1
Q ss_pred CeeEEEEEcCCCeEEee-c--CCCCcchhHHHHHHHHHHHHHHhhhCCCceEEEeCCHHHH
Q psy6532 117 GVGCALTIPEKDIVKRF-G--LNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCL 174 (277)
Q Consensus 117 ~~G~g~v~~~~~~~~~~-~--~~~~~t~~~aEl~Ai~~aL~~a~~~~~~~v~I~tDS~~ai 174 (277)
.+|+-+| .+++..... . .+.......||+.||..|.+..........++|+--+...
T Consensus 34 pvGAVIV-~~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~TlEPC~ 93 (172)
T PRK10860 34 PVGAVLV-HNNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTLEPCV 93 (172)
T ss_pred CEEEEEE-eCCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEeeCCCcH
Confidence 4776555 345443322 1 1111224689999999887765443445677776655443
Done!