Query psy7230
Match_columns 306
No_of_seqs 262 out of 1283
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 21:25:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7230.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7230hhsearch_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 2.8E-23 6E-28 176.6 12.5 127 68-196 4-144 (161)
2 PRK08719 ribonuclease H; Revie 99.9 1.2E-22 2.6E-27 170.8 13.0 121 68-193 3-146 (147)
3 PF00075 RNase_H: RNase H; In 99.9 3.3E-23 7.2E-28 169.6 9.2 117 68-192 2-131 (132)
4 COG0328 RnhA Ribonuclease HI [ 99.9 1.3E-22 2.8E-27 170.1 12.6 127 68-195 2-146 (154)
5 PRK00203 rnhA ribonuclease H; 99.9 3.5E-22 7.6E-27 168.6 11.6 125 69-196 3-144 (150)
6 cd06222 RnaseH RNase H (RNase 99.8 1.6E-18 3.6E-23 137.7 14.1 122 71-192 1-130 (130)
7 KOG3752|consensus 99.8 1.9E-18 4.2E-23 161.2 11.8 128 67-194 210-365 (371)
8 PRK13907 rnhA ribonuclease H; 99.7 4.5E-17 9.7E-22 133.5 12.7 122 69-194 1-127 (128)
9 PRK07708 hypothetical protein; 99.6 3.3E-14 7.1E-19 127.0 14.0 127 66-196 70-210 (219)
10 PRK07238 bifunctional RNase H/ 99.5 3E-13 6.5E-18 130.0 13.0 123 69-195 2-133 (372)
11 PF13456 RVT_3: Reverse transc 99.3 2E-11 4.4E-16 92.1 8.5 85 104-192 1-85 (87)
12 PF05380 Peptidase_A17: Pao re 89.2 1.6 3.4E-05 37.0 7.0 52 68-121 80-143 (159)
13 COG3341 Predicted double-stran 85.8 1.4 3E-05 39.3 4.7 169 24-197 16-204 (225)
14 PF00336 DNA_pol_viral_C: DNA 79.9 1.9 4.2E-05 38.1 3.3 90 67-175 92-183 (245)
15 KOG1812|consensus 39.6 75 0.0016 30.9 6.1 40 102-141 47-86 (384)
16 PRK10860 tRNA-specific adenosi 35.2 84 0.0018 27.0 5.1 51 82-132 34-88 (172)
17 cd01285 nucleoside_deaminase N 34.5 1.2E+02 0.0025 23.6 5.5 52 82-133 18-74 (109)
18 COG0296 GlgB 1,4-alpha-glucan 34.2 55 0.0012 34.0 4.4 36 150-185 213-248 (628)
19 COG5349 Uncharacterized protei 28.6 26 0.00057 28.4 0.8 28 274-301 23-51 (126)
20 cd01284 Riboflavin_deaminase-r 28.1 1.5E+02 0.0032 23.6 5.1 46 82-131 20-66 (115)
21 PF08309 LVIVD: LVIVD repeat; 24.7 46 0.00099 21.7 1.3 17 6-22 23-39 (42)
22 cd01286 deoxycytidylate_deamin 21.8 2.1E+02 0.0046 23.1 5.0 27 103-131 67-93 (131)
No 1
>PRK06548 ribonuclease H; Provisional
Probab=99.90 E-value=2.8e-23 Score=176.60 Aligned_cols=127 Identities=24% Similarity=0.281 Sum_probs=93.5
Q ss_pred CcEEEEEcCCCCCC--ccceEEEeCCeEEEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhc---
Q psy7230 68 NHTICYTDGSKTPT--TTGCAYSVGNVVRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSN--- 142 (306)
Q Consensus 68 ~~~~iyTDGS~~~~--g~G~av~~~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~--- 142 (306)
..+.||||||+.++ ..|+|++..+..........+||++|||+||+.||+.+.. ....|.|+|||++|+++|+.
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~~~~~g~~~~~TNnraEl~Aii~aL~~~~~-~~~~v~I~TDS~yvi~~i~~W~~ 82 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDENTWDSGGWDIATNNIAELTAVRELLIATRH-TDRPILILSDSKYVINSLTKWVY 82 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCCcEEccCCCCCCHHHHHHHHHHHHHHhhhc-CCceEEEEeChHHHHHHHHHHHH
Confidence 45999999999864 3788865433212222234689999999999999986653 44579999999999999994
Q ss_pred ------cccCCh--hH-HHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcCCCCC
Q psy7230 143 ------VRFTNP--LI-TKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTTGTT 196 (306)
Q Consensus 143 ------~~~~s~--~~-~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~ 196 (306)
++..++ .. ++++.++..+... ..|+|.|||||+|++|||.||+||++|+....
T Consensus 83 ~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~~ 144 (161)
T PRK06548 83 SWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAANNFS 144 (161)
T ss_pred HHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHHHhc
Confidence 333333 22 4455555444433 57999999999999999999999999986544
No 2
>PRK08719 ribonuclease H; Reviewed
Probab=99.89 E-value=1.2e-22 Score=170.79 Aligned_cols=121 Identities=20% Similarity=0.264 Sum_probs=89.5
Q ss_pred CcEEEEEcCCCCCCc-----cceEEE--eC--Ce--EEEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHH
Q psy7230 68 NHTICYTDGSKTPTT-----TGCAYS--VG--NV--VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSS 136 (306)
Q Consensus 68 ~~~~iyTDGS~~~~g-----~G~av~--~~--~~--~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sa 136 (306)
..++||||||+.+++ .|+|++ .. .. .....+....|+++||+.|++.||+.+.+. ..|+|||++|
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 468999999997553 477754 32 22 234446666899999999999999998763 4899999999
Q ss_pred HHHHhcc--------cc-CCh--h-HHHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcCC
Q psy7230 137 LAALSNV--------RF-TNP--L-ITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTT 193 (306)
Q Consensus 137 l~~l~~~--------~~-~s~--~-~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~ 193 (306)
+++|+.+ .. ..+ . -.+++.+++.+.. ...|+|.|||||+|++|||.||+||++|++
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 9998532 11 112 1 1334444444444 577999999999999999999999999875
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=99.89 E-value=3.3e-23 Score=169.63 Aligned_cols=117 Identities=32% Similarity=0.432 Sum_probs=87.1
Q ss_pred CcEEEEEcCCCCCC--ccceE-EEeCCeEEEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhcc-
Q psy7230 68 NHTICYTDGSKTPT--TTGCA-YSVGNVVRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSNV- 143 (306)
Q Consensus 68 ~~~~iyTDGS~~~~--g~G~a-v~~~~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~~- 143 (306)
..+.||||||+..+ ..|+| ++..+......++ ..|++.|||.||..||+.+ . ...++|+|||++++..|..+
T Consensus 2 ~~~~iytDgS~~~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~--~~~v~I~tDS~~v~~~l~~~~ 77 (132)
T PF00075_consen 2 KAIIIYTDGSCRPNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL-E--HRKVTIYTDSQYVLNALNKWL 77 (132)
T ss_dssp TSEEEEEEEEECTTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH-S--TSEEEEEES-HHHHHHHHTHH
T ss_pred CcEEEEEeCCccCCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh-h--cccccccccHHHHHHHHHHhc
Confidence 46899999998743 24555 3454544444555 8899999999999999944 3 48999999999999988772
Q ss_pred ----ccCC----hhHHHHHHHHHHHHhCCCceEEEecCCCCCC-ccchHHHHHHcCcC
Q psy7230 144 ----RFTN----PLITKVYSTWNYLKLCKKDITFMWCPSHCGI-KGNEIVDVAARNPT 192 (306)
Q Consensus 144 ----~~~s----~~~~~i~~~~~~l~~~~~~V~~~WVPgH~gi-~gNE~AD~lAk~A~ 192 (306)
.... ++..++. +.+ ..+..|.|.|||||+|+ .|||.||+|||+|+
T Consensus 78 ~~~~~~~~~~~~~i~~~i~---~~~-~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 78 HGNGWKKTSNGRPIKNEIW---ELL-SRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HHTTSBSCTSSSBHTHHHH---HHH-HHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred cccccccccccccchhhee---ecc-ccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 2111 2333333 344 45899999999999999 69999999999885
No 4
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.89 E-value=1.3e-22 Score=170.11 Aligned_cols=127 Identities=21% Similarity=0.232 Sum_probs=99.0
Q ss_pred CcEEEEEcCCCCCC--ccceEEE-e-CCeE--EEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHh
Q psy7230 68 NHTICYTDGSKTPT--TTGCAYS-V-GNVV--RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALS 141 (306)
Q Consensus 68 ~~~~iyTDGS~~~~--g~G~av~-~-~~~~--~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~ 141 (306)
..+.||||||+..+ -.|+|++ . ++.. .+..+. .+||++||++|++.||+.+.+.+...|.|+|||++|+++|+
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 35899999999864 3677743 2 3322 333344 88999999999999999999888999999999999999999
Q ss_pred ccccC-----------Chh-HHHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcCCCC
Q psy7230 142 NVRFT-----------NPL-ITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTTGT 195 (306)
Q Consensus 142 ~~~~~-----------s~~-~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~ 195 (306)
.+... .|. ..+.+.++..+......|.+.|||||+|.++||+||+||+.|++..
T Consensus 81 ~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 81 RWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred HHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 55211 121 2344555555656667999999999999999999999999998765
No 5
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.88 E-value=3.5e-22 Score=168.59 Aligned_cols=125 Identities=21% Similarity=0.241 Sum_probs=90.8
Q ss_pred cEEEEEcCCCCCC--ccceEEE--eCCeEE-EEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhcc
Q psy7230 69 HTICYTDGSKTPT--TTGCAYS--VGNVVR-STLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSNV 143 (306)
Q Consensus 69 ~~~iyTDGS~~~~--g~G~av~--~~~~~~-~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~~ 143 (306)
.+.||||||+..+ ..|+|++ .++... ........|+++|||+|++.||+.+.+ ...+.|+|||++++++|+.+
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 4899999999854 3677744 333322 222334679999999999999998865 46799999999999999863
Q ss_pred c---------cCC--hhH-HHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcCCCCC
Q psy7230 144 R---------FTN--PLI-TKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTTGTT 196 (306)
Q Consensus 144 ~---------~~s--~~~-~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~ 196 (306)
. ... ++. .+++..+..+. ....|.|.|||||+|++|||.||+|||+|+....
T Consensus 81 ~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~-~~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~ 144 (150)
T PRK00203 81 IHGWKKNGWKTADKKPVKNVDLWQRLDAAL-KRHQIKWHWVKGHAGHPENERCDELARAGAEEAT 144 (150)
T ss_pred HHHHHHcCCcccCCCccccHHHHHHHHHHh-ccCceEEEEecCCCCCHHHHHHHHHHHHHHHHhh
Confidence 2 111 221 22333333332 3478999999999999999999999999987653
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=1.6e-18 Score=137.73 Aligned_cols=122 Identities=27% Similarity=0.332 Sum_probs=92.9
Q ss_pred EEEEcCCCCCC--ccceEEEe--CCe-E--EEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhcc
Q psy7230 71 ICYTDGSKTPT--TTGCAYSV--GNV-V--RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSNV 143 (306)
Q Consensus 71 ~iyTDGS~~~~--g~G~av~~--~~~-~--~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~~ 143 (306)
.+|||||...+ ++|+|++. .+. . .........+++.+|+.|++.||+++......++.|++||+.++..+.+.
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 48999999865 57777543 221 1 11222257899999999999999999988899999999999999999987
Q ss_pred ccC-ChhHHHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcC
Q psy7230 144 RFT-NPLITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPT 192 (306)
Q Consensus 144 ~~~-s~~~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~ 192 (306)
... .......+..+..+......+.|.|||+|+|+.+|+.||.|||+|.
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 542 1222333333333335688999999999999999999999999874
No 7
>KOG3752|consensus
Probab=99.77 E-value=1.9e-18 Score=161.23 Aligned_cols=128 Identities=24% Similarity=0.251 Sum_probs=100.0
Q ss_pred CCcEEEEEcCCCCCCc-----cceEEEeCC---eEEEEcCC-CCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHH
Q psy7230 67 TNHTICYTDGSKTPTT-----TGCAYSVGN---VVRSTLLN-PVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSL 137 (306)
Q Consensus 67 ~~~~~iyTDGS~~~~g-----~G~av~~~~---~~~~~~l~-~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal 137 (306)
.+.+++|||||+..+| +|+||+.++ ...+.++. ..+++|+|||.||..||+.+.+....+++|.|||.+++
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 3448999999998653 899998765 35667775 88999999999999999999988888999999999999
Q ss_pred HHHhccccC-----------Chh------HHHHHHHHHHH-Hh-CCCceEEEecCCCCCCccchHHHHHHcCcCCC
Q psy7230 138 AALSNVRFT-----------NPL------ITKVYSTWNYL-KL-CKKDITFMWCPSHCGIKGNEIVDVAARNPTTG 194 (306)
Q Consensus 138 ~~l~~~~~~-----------s~~------~~~i~~~~~~l-~~-~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~ 194 (306)
++|+.|... ++. ....+..++.| +. .+..|.+.|||||.|+.|||+||.||++++.+
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 999876321 110 01111222333 33 47999999999999999999999999998654
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.73 E-value=4.5e-17 Score=133.50 Aligned_cols=122 Identities=18% Similarity=0.129 Sum_probs=90.3
Q ss_pred cEEEEEcCCCCCC--ccceEEEe--CCeE-EEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhcc
Q psy7230 69 HTICYTDGSKTPT--TTGCAYSV--GNVV-RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSNV 143 (306)
Q Consensus 69 ~~~iyTDGS~~~~--g~G~av~~--~~~~-~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~~ 143 (306)
.+.||||||+..+ ..|+|++- .+.. .........|++.||+.|++.||+.+.+.+...+.|+|||+.+++.+++.
T Consensus 1 ~~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~ 80 (128)
T PRK13907 1 MIEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKE 80 (128)
T ss_pred CEEEEEeeCCCCCCCccEEEEEEEECCeeEEEEecccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHH
Confidence 3789999999854 47778542 2221 11122346799999999999999999998888999999999999999986
Q ss_pred ccCChhHHHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcCCC
Q psy7230 144 RFTNPLITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTTG 194 (306)
Q Consensus 144 ~~~s~~~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~ 194 (306)
.....-....+..+..+......+.|.|||++ +|+.||.||+.|...
T Consensus 81 ~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~----~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 81 YAKNKMFAPLLEEALQYIKSFDLFFIKWIPSS----QNKVADELARKAILQ 127 (128)
T ss_pred HhcChhHHHHHHHHHHHHhcCCceEEEEcCch----hchhHHHHHHHHHhc
Confidence 53332233344444444456678888999994 799999999998753
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.58 E-value=3.3e-14 Score=126.99 Aligned_cols=127 Identities=16% Similarity=0.126 Sum_probs=91.3
Q ss_pred CCCcEEEEEcCCCCC--CccceEEE--eC--CeEE----EEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCe--EEEEeCh
Q psy7230 66 YTNHTICYTDGSKTP--TTTGCAYS--VG--NVVR----STLLNPVNSIFSAELIAIFLCLEAILDSPSGE--FLVVTDS 133 (306)
Q Consensus 66 ~~~~~~iyTDGS~~~--~g~G~av~--~~--~~~~----~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~--i~I~sDS 133 (306)
.++.+++|+|||+.. +++|+|++ .. +... ...+....|++.||+.|++.||+.+.+.+.+. |.|++||
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 445799999999864 45677743 32 2221 12456668999999999999999999876654 8999999
Q ss_pred HHHHHHHhcccc-CChhHHHHHHHHH-HHHhCCCceEEEecCCCCCCccchHHHHHHcCcCCCCC
Q psy7230 134 RSSLAALSNVRF-TNPLITKVYSTWN-YLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTTGTT 196 (306)
Q Consensus 134 ~sal~~l~~~~~-~s~~~~~i~~~~~-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~ 196 (306)
+.+++.+++... .++.....+..+. .+......+.|.|||.. .|+.||+||+.|++...
T Consensus 150 qlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~----~N~~AD~LAk~Al~~~~ 210 (219)
T PRK07708 150 QVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRK----QNKEADQLATQALEGTV 210 (219)
T ss_pred HHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCch----hhhHHHHHHHHHHhcCC
Confidence 999999998642 3333333333332 33334556888999884 59999999999998654
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.48 E-value=3e-13 Score=130.03 Aligned_cols=123 Identities=18% Similarity=0.156 Sum_probs=91.7
Q ss_pred cEEEEEcCCCCCC--ccceEEE--eC--C-eE-EEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHH
Q psy7230 69 HTICYTDGSKTPT--TTGCAYS--VG--N-VV-RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAAL 140 (306)
Q Consensus 69 ~~~iyTDGS~~~~--g~G~av~--~~--~-~~-~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l 140 (306)
.+.||||||+..+ ..|+|++ +. + .. ........+|++.||+.|++.||+.+.+.+...+.|++||+.+++.+
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~i 81 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIGRATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQM 81 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccCCCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHHh
Confidence 3789999999965 4677743 32 2 11 22222336789999999999999999998889999999999999999
Q ss_pred hcccc-CChhHHHHHHHHHHHHhCCCceEEEecCCCCCCccchHHHHHHcCcCCCC
Q psy7230 141 SNVRF-TNPLITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVDVAARNPTTGT 195 (306)
Q Consensus 141 ~~~~~-~s~~~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~ 195 (306)
++... +++-......++..+......|.|.|||+ .+|+.||.||+.|+...
T Consensus 82 ~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a~~~~ 133 (372)
T PRK07238 82 SGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEAMDAA 133 (372)
T ss_pred CCCCccCChHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHHHHhh
Confidence 87542 33323334444445556678899999998 67999999999986543
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.27 E-value=2e-11 Score=92.14 Aligned_cols=85 Identities=15% Similarity=0.158 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhccccCChhHHHHHHHHHHHHhCCCceEEEecCCCCCCccchH
Q psy7230 104 IFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSNVRFTNPLITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEI 183 (306)
Q Consensus 104 ~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~~~~~s~~~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~ 183 (306)
+..||+.|++.||+++.+.+..+|.|+|||+.+++.|++..........+...+..+......+.|.|||. ++|..
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 46899999999999999999999999999999999999874322233344444455556689999999998 78999
Q ss_pred HHHHHcCcC
Q psy7230 184 VDVAARNPT 192 (306)
Q Consensus 184 AD~lAk~A~ 192 (306)
||.|||.|.
T Consensus 77 A~~LA~~a~ 85 (87)
T PF13456_consen 77 ADALAKFAL 85 (87)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 999999875
No 12
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=89.16 E-value=1.6 Score=36.96 Aligned_cols=52 Identities=17% Similarity=0.166 Sum_probs=33.6
Q ss_pred CcEEEEEcCCCCCCccceEEEe---C--CeE-----EEEcC--CCCCcHHHHHHHHHHHHHHHHHh
Q psy7230 68 NHTICYTDGSKTPTTTGCAYSV---G--NVV-----RSTLL--NPVNSIFSAELIAIFLCLEAILD 121 (306)
Q Consensus 68 ~~~~iyTDGS~~~~g~G~av~~---~--~~~-----~~~~l--~~~~s~~~AEl~AI~~AL~~~~~ 121 (306)
..+++|+|+|. .+.|++++- . ... ...++ -...|+-+-||.|+..|.+++..
T Consensus 80 ~~L~~F~DAS~--~aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~ 143 (159)
T PF05380_consen 80 VELHVFCDASE--SAYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT 143 (159)
T ss_pred eeeeEeecccc--cceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 46899999994 455555431 1 111 11112 13459999999999999998864
No 13
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=85.83 E-value=1.4 Score=39.26 Aligned_cols=169 Identities=12% Similarity=-0.008 Sum_probs=100.4
Q ss_pred CCCCCCCCCCCCCcccccCC-CCCCCCChHHHHHHHHHH-Hh--h--cCCCcEEEEEcCCCCC--CccceEEEeCCeE--
Q psy7230 24 VRFIPPWSNSSPPVDLSLCD-GKKCDSAPVVFQSLFRDV-IN--S--KYTNHTICYTDGSKTP--TTTGCAYSVGNVV-- 93 (306)
Q Consensus 24 ~~~~ppW~~~~~~i~~~l~~-~~k~~t~~~~~~~~f~~~-~~--~--~~~~~~~iyTDGS~~~--~g~G~av~~~~~~-- 93 (306)
+++|-.|.+|.-+|.....+ +++..+ -+.+..|.+- ++ + .....+.-+.+|+... +..++-++.+...
T Consensus 16 tGIyktW~Ec~~qVkGy~ga~YKsf~s--~EeA~a~~~g~i~~~tp~~~~e~~i~~~~G~y~~~p~t~~~k~yr~k~~~~ 93 (225)
T COG3341 16 TGIYKTWDECEKQVKGYPGAKYKSFKS--YEEAEAYCEGNIESVTPYLDFEYIISWAKGDYDAKPGTQEFKEYRGKCTIE 93 (225)
T ss_pred cceeccHHHHHHHhcCCCccccccccc--HHHHHHHhccCccccCcccchhccceeccCCccccCCCcceeEEecccccc
Confidence 57899999998889887766 444332 2223333331 11 1 2244566677776553 2233334433221
Q ss_pred -----EEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEE-E----eChHHHHHHHhccccCChhHHHHHHHHHHHHhC
Q psy7230 94 -----RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLV-V----TDSRSSLAALSNVRFTNPLITKVYSTWNYLKLC 163 (306)
Q Consensus 94 -----~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I-~----sDS~sal~~l~~~~~~s~~~~~i~~~~~~l~~~ 163 (306)
..... ...++..+|.+|++.+|+.+...+.++.+| + .||++.+.-+.+-.... .......-..+.-.
T Consensus 94 ~~~lt~~~~~-~~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k~~k~~~~~k--~~~~~~~e~~~~~~ 170 (225)
T COG3341 94 YSWLTESSEF-SIKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGNDSWAYFKYVKDKCETK--VNLLKDREFFSIGK 170 (225)
T ss_pred ceeeeeeccc-ccccCchHHHHHHhccccccccccCccceeeccCCcchhHHHHHHHhhhhhhH--HHHHHhHHhhhccc
Confidence 11112 234677899999999999998766666655 7 79999988887643111 00011000011112
Q ss_pred CCceEEEecCCCCCCccchHHHHHHcCcCCCCCC
Q psy7230 164 KKDITFMWCPSHCGIKGNEIVDVAARNPTTGTTP 197 (306)
Q Consensus 164 ~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~~ 197 (306)
+....+.|+--|.++.-+..++.++.........
T Consensus 171 ~v~h~~k~i~~~~~~~~~~~~~s~~~~~~k~~~~ 204 (225)
T COG3341 171 GVFHDEKDINIHIWIFESKKGNSHVYNTSKKELS 204 (225)
T ss_pred hhhhhhhhcccccccchhhhhhhhhhchhhhhcc
Confidence 3566778899999999999999888877766543
No 14
>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=79.95 E-value=1.9 Score=38.06 Aligned_cols=90 Identities=21% Similarity=0.211 Sum_probs=52.8
Q ss_pred CCcEEEEEcCCCCCCccceEEEeCC--eEEEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHhccc
Q psy7230 67 TNHTICYTDGSKTPTTTGCAYSVGN--VVRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALSNVR 144 (306)
Q Consensus 67 ~~~~~iyTDGS~~~~g~G~av~~~~--~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~~~~ 144 (306)
..--.||+|+.-. |+|+..+. ....|.. .-.+.+|||+|...|.-+... ++ |.|||..|+ .+..
T Consensus 92 ~~lc~VfaDATpT----gwgi~i~~~~~~~Tfs~--~l~IhtaELlaaClAr~~~~~----r~-l~tDnt~Vl---srky 157 (245)
T PF00336_consen 92 PGLCQVFADATPT----GWGISITGQRMRGTFSK--PLPIHTAELLAACLARLMSGA----RC-LGTDNTVVL---SRKY 157 (245)
T ss_pred CCCCceeccCCCC----cceeeecCceeeeeecc--cccchHHHHHHHHHHHhccCC----cE-EeecCcEEE---eccc
Confidence 3345889998753 33432222 2333332 346899999999888776543 44 899998765 2333
Q ss_pred cCChhHHHHHHHHHHHHhCCCceEEEecCCC
Q psy7230 145 FTNPLITKVYSTWNYLKLCKKDITFMWCPSH 175 (306)
Q Consensus 145 ~~s~~~~~i~~~~~~l~~~~~~V~~~WVPgH 175 (306)
..-|+....... .+| ..+.|..||+-
T Consensus 158 ts~PW~lac~A~-wiL----rgts~~yVPS~ 183 (245)
T PF00336_consen 158 TSFPWLLACAAN-WIL----RGTSFYYVPSK 183 (245)
T ss_pred ccCcHHHHHHHH-Hhh----cCceEEEeccc
Confidence 333553333221 223 45778889983
No 15
>KOG1812|consensus
Probab=39.58 E-value=75 Score=30.95 Aligned_cols=40 Identities=18% Similarity=0.196 Sum_probs=34.0
Q ss_pred CcHHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHHh
Q psy7230 102 NSIFSAELIAIFLCLEAILDSPSGEFLVVTDSRSSLAALS 141 (306)
Q Consensus 102 ~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS~sal~~l~ 141 (306)
.+...||++|+..+|..+.+.+...+.+++|+.-....+.
T Consensus 47 ~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~ 86 (384)
T KOG1812|consen 47 ITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVA 86 (384)
T ss_pred cchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHh
Confidence 6789999999999999999999999999999655555433
No 16
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=35.20 E-value=84 Score=26.97 Aligned_cols=51 Identities=12% Similarity=0.001 Sum_probs=29.3
Q ss_pred ccceEEEeCCeEEEEc----CCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeC
Q psy7230 82 TTGCAYSVGNVVRSTL----LNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTD 132 (306)
Q Consensus 82 g~G~av~~~~~~~~~~----l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sD 132 (306)
.+|+.++..+...... .........||+.||..|.+.+........++|+-
T Consensus 34 pvGAVIV~~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~T 88 (172)
T PRK10860 34 PVGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVT 88 (172)
T ss_pred CEEEEEEeCCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEee
Confidence 4777777655433222 11122346799999999887654433345566643
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=34.52 E-value=1.2e+02 Score=23.60 Aligned_cols=52 Identities=13% Similarity=-0.039 Sum_probs=31.8
Q ss_pred ccceEEEeC-CeEEEEcC----CCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEeCh
Q psy7230 82 TTGCAYSVG-NVVRSTLL----NPVNSIFSAELIAIFLCLEAILDSPSGEFLVVTDS 133 (306)
Q Consensus 82 g~G~av~~~-~~~~~~~l----~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~sDS 133 (306)
.+|+.+++. +....... ........||..||..+.+..........++|+.-
T Consensus 18 ~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~ 74 (109)
T cd01285 18 PFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTL 74 (109)
T ss_pred cEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeC
Confidence 467667755 33322222 12345678999999998887544345567777653
No 18
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=34.24 E-value=55 Score=34.04 Aligned_cols=36 Identities=14% Similarity=0.226 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHhCCCceEEEecCCCCCCccchHHH
Q psy7230 150 ITKVYSTWNYLKLCKKDITFMWCPSHCGIKGNEIVD 185 (306)
Q Consensus 150 ~~~i~~~~~~l~~~~~~V~~~WVPgH~gi~gNE~AD 185 (306)
.......++...+.|..|-+-|||+|-+..||-++-
T Consensus 213 Pedfk~fVD~aH~~GIgViLD~V~~HF~~d~~~L~~ 248 (628)
T COG0296 213 PEDFKALVDAAHQAGIGVILDWVPNHFPPDGNYLAR 248 (628)
T ss_pred HHHHHHHHHHHHHcCCEEEEEecCCcCCCCcchhhh
Confidence 444555567778899999999999999998887663
No 19
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.57 E-value=26 Score=28.39 Aligned_cols=28 Identities=14% Similarity=0.097 Sum_probs=23.3
Q ss_pred ccCccchhhhhhccccCCCCC-CCCCCCc
Q psy7230 274 RASIASNRKKARYRILCSPSF-VSGTPPT 301 (306)
Q Consensus 274 ~~~~~~n~~l~r~~~~~~~~c-~~g~~~~ 301 (306)
.=|.|-+++|+|==+.-.|.| +||++..
T Consensus 23 rCP~CGeGrLF~gFLK~~p~C~aCG~dyg 51 (126)
T COG5349 23 RCPRCGEGRLFRGFLKVVPACEACGLDYG 51 (126)
T ss_pred CCCCCCCchhhhhhcccCchhhhcccccc
Confidence 567899999999888889999 4997764
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=28.05 E-value=1.5e+02 Score=23.62 Aligned_cols=46 Identities=13% Similarity=-0.007 Sum_probs=27.2
Q ss_pred ccceEEEeC-CeEEEEcCCCCCcHHHHHHHHHHHHHHHHHhCCCCeEEEEe
Q psy7230 82 TTGCAYSVG-NVVRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGEFLVVT 131 (306)
Q Consensus 82 g~G~av~~~-~~~~~~~l~~~~s~~~AEl~AI~~AL~~~~~~~~~~i~I~s 131 (306)
.+|+.++.. +...............||..||..|.+. .....++|+
T Consensus 20 pvGaviv~~~g~iv~~g~n~~~~~~HAE~~ai~~a~~~----~l~g~tly~ 66 (115)
T cd01284 20 PVGCVIVDDDGEIVGEGYHRKAGGPHAEVNALASAGEK----LARGATLYV 66 (115)
T ss_pred CEEEEEEeCCCeEEEEecCCCCCcccHHHHHHHHHhhc----CCCCeEEEE
Confidence 477777755 4433323222225678999999998774 233455554
No 21
>PF08309 LVIVD: LVIVD repeat; InterPro: IPR013211 This repeat is found in bacterial and archaeal cell surface proteins, many of which are hypothetical. The secondary structure corresponding to this repeat is predicted to comprise 4 beta-strands, which may associate to form a beta-propeller. The repeat copy number varies from 2-14. This repeat is sometimes found with the PKD domain IPR000601 from INTERPRO.
Probab=24.72 E-value=46 Score=21.66 Aligned_cols=17 Identities=24% Similarity=0.599 Sum_probs=13.1
Q ss_pred eEEEecCCCCCcccccc
Q psy7230 6 KVLLDFPNPTQTSVIAP 22 (306)
Q Consensus 6 ~~~~~~~n~~~~e~i~p 22 (306)
-+++|.|||..+..+.-
T Consensus 23 l~IvDISnPs~P~~v~~ 39 (42)
T PF08309_consen 23 LVIVDISNPSNPVLVGS 39 (42)
T ss_pred EEEEECCCCCCCEEEEE
Confidence 46899999998865543
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=21.80 E-value=2.1e+02 Score=23.12 Aligned_cols=27 Identities=15% Similarity=-0.006 Sum_probs=17.7
Q ss_pred cHHHHHHHHHHHHHHHHHhCCCCeEEEEe
Q psy7230 103 SIFSAELIAIFLCLEAILDSPSGEFLVVT 131 (306)
Q Consensus 103 s~~~AEl~AI~~AL~~~~~~~~~~i~I~s 131 (306)
....||..||..|.+. .......+||+
T Consensus 67 ~~~HAE~~Ai~~a~~~--~~~~~~~tLyv 93 (131)
T cd01286 67 RTVHAEQNAILQAARH--GVSLEGATLYV 93 (131)
T ss_pred CCCCHHHHHHHHHhHc--CCCcCCeEEEE
Confidence 3567999999988764 22334566664
Done!