Query psy7630
Match_columns 160
No_of_seqs 101 out of 253
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 23:16:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7630.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7630hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK06548 ribonuclease H; Provi 99.8 5E-18 1.1E-22 134.8 11.9 107 43-155 5-124 (161)
2 PRK00203 rnhA ribonuclease H; 99.7 1.4E-17 3.1E-22 128.7 10.2 106 43-155 3-124 (150)
3 PF00075 RNase_H: RNase H; In 99.7 2E-17 4.3E-22 121.9 9.4 106 42-155 2-114 (132)
4 PRK13907 rnhA ribonuclease H; 99.7 8.7E-17 1.9E-21 120.1 10.3 109 43-155 1-113 (128)
5 COG0328 RnhA Ribonuclease HI [ 99.7 1E-16 2.2E-21 127.0 11.0 109 42-155 2-127 (154)
6 PRK08719 ribonuclease H; Revie 99.7 2.1E-16 4.6E-21 123.2 11.4 105 43-155 4-129 (147)
7 KOG3752|consensus 99.7 1.1E-16 2.4E-21 140.9 9.5 110 43-154 212-346 (371)
8 cd06222 RnaseH RNase H (RNase 99.5 2.9E-13 6.2E-18 94.8 11.8 106 45-153 1-112 (130)
9 PRK07708 hypothetical protein; 99.5 4.7E-13 1E-17 110.8 13.0 114 40-154 70-193 (219)
10 PRK07238 bifunctional RNase H/ 99.4 3.1E-12 6.7E-17 111.2 12.5 107 43-154 2-117 (372)
11 PF13456 RVT_3: Reverse transc 98.6 2.1E-07 4.6E-12 63.4 7.5 72 80-154 1-72 (87)
12 PF05380 Peptidase_A17: Pao re 92.1 0.47 1E-05 37.0 5.8 50 43-96 81-142 (159)
13 PF00336 DNA_pol_viral_C: DNA 87.1 1.2 2.7E-05 37.7 4.8 89 43-154 94-183 (245)
14 cd01285 nucleoside_deaminase N 28.8 2.1E+02 0.0045 20.5 5.6 34 78-113 43-76 (109)
15 COG4631 XdhB Xanthine dehydrog 28.6 22 0.00048 34.4 0.5 23 43-65 468-492 (781)
16 PF07057 TraI: DNA helicase Tr 24.7 24 0.00053 27.4 0.0 11 42-52 8-18 (126)
17 KOG1123|consensus 24.4 77 0.0017 30.8 3.1 50 90-139 530-584 (776)
18 COG0590 CumB Cytosine/adenosin 23.2 2.7E+02 0.0058 21.7 5.6 16 81-96 57-72 (152)
19 PF09365 DUF2461: Conserved hy 22.5 35 0.00075 28.1 0.5 14 81-94 131-144 (212)
20 COG1697 DNA topoisomerase VI, 22.4 1.3E+02 0.0028 27.3 4.1 35 23-65 218-252 (356)
21 COG3341 Predicted double-stran 21.4 3.2E+02 0.0068 23.3 6.0 45 77-122 105-153 (225)
No 1
>PRK06548 ribonuclease H; Provisional
Probab=99.77 E-value=5e-18 Score=134.84 Aligned_cols=107 Identities=20% Similarity=0.179 Sum_probs=75.9
Q ss_pred eEEEEeeCCCCCCCCC-eEEEEEEecccceeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhhcc-
Q psy7630 43 WLHIYTDGSLINPEDG-AGAGIFCELFSFYKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPMNS- 120 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~G-aG~gi~~~~~~~~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI~~- 120 (160)
.++||||||+. |++| .|+|+++........-...+|||+|||+||+.||+.+.+ ....+.|+|||+|++++|++
T Consensus 5 ~~~IytDGa~~-gnpg~~G~g~~~~~~~~~~g~~~~~TNnraEl~Aii~aL~~~~~---~~~~v~I~TDS~yvi~~i~~W 80 (161)
T PRK06548 5 EIIAATDGSSL-ANPGPSGWAWYVDENTWDSGGWDIATNNIAELTAVRELLIATRH---TDRPILILSDSKYVINSLTKW 80 (161)
T ss_pred EEEEEEeeccC-CCCCceEEEEEEeCCcEEccCCCCCCHHHHHHHHHHHHHHhhhc---CCceEEEEeChHHHHHHHHHH
Confidence 59999999994 5567 688888764322222223589999999999999986621 23469999999999999993
Q ss_pred --------CCCCCchh---hhhhhHHHHHHhhhccceeeccccCcc
Q psy7630 121 --------VHLNSCPA---LEASNDIVGTLCSVLNKIKTNCCPYSR 155 (160)
Q Consensus 121 --------~~~~~~~~---~~~~~~I~~~~~~~~~~~~~~~~p~~~ 155 (160)
|...+..+ .+.-++|..++.. .+|+|.||||..
T Consensus 81 ~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~--~~v~~~wVkgHs 124 (161)
T PRK06548 81 VYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN--RNIRMSWVNAHT 124 (161)
T ss_pred HHHHHHCCCcccCCCccccHHHHHHHHHHHhc--CceEEEEEecCC
Confidence 43333321 3344566666644 479999999864
No 2
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.74 E-value=1.4e-17 Score=128.74 Aligned_cols=106 Identities=19% Similarity=0.149 Sum_probs=74.1
Q ss_pred eEEEEeeCCCCCCCCC-eEEEEEEecccc---eeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhh
Q psy7630 43 WLHIYTDGSLINPEDG-AGAGIFCELFSF---YKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPM 118 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~G-aG~gi~~~~~~~---~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI 118 (160)
.+.||||||+. +++| +|+|+++...+. .....+..||++|||.||+.||+.+.+ ...+.|+|||++++++|
T Consensus 3 ~v~iytDGs~~-~n~~~~g~g~v~~~~~~~~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~----~~~v~I~tDS~yvi~~i 77 (150)
T PRK00203 3 QVEIYTDGACL-GNPGPGGWGAILRYKGHEKELSGGEALTTNNRMELMAAIEALEALKE----PCEVTLYTDSQYVRQGI 77 (150)
T ss_pred eEEEEEEeccc-CCCCceEEEEEEEECCeeEEEecCCCCCcHHHHHHHHHHHHHHHcCC----CCeEEEEECHHHHHHHH
Confidence 58999999995 4445 678887754332 112234689999999999999998832 35799999999999999
Q ss_pred ccC---------CCCCchh---hhhhhHHHHHHhhhccceeeccccCcc
Q psy7630 119 NSV---------HLNSCPA---LEASNDIVGTLCSVLNKIKTNCCPYSR 155 (160)
Q Consensus 119 ~~~---------~~~~~~~---~~~~~~I~~~~~~~~~~~~~~~~p~~~ 155 (160)
+.| ....... .+.-+.|..++.. .+|.|.||||..
T Consensus 78 ~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~--~~v~~~wV~~H~ 124 (150)
T PRK00203 78 TEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKR--HQIKWHWVKGHA 124 (150)
T ss_pred HHHHHHHHHcCCcccCCCccccHHHHHHHHHHhcc--CceEEEEecCCC
Confidence 963 2222111 1233556655543 689999999864
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=99.73 E-value=2e-17 Score=121.92 Aligned_cols=106 Identities=28% Similarity=0.313 Sum_probs=74.5
Q ss_pred CeEEEEeeCCCCCCCCC-eEEEEEEecc-cceeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhhc
Q psy7630 42 DWLHIYTDGSLINPEDG-AGAGIFCELF-SFYKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPMN 119 (160)
Q Consensus 42 ~~i~IYTDGSk~ng~~G-aG~gi~~~~~-~~~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI~ 119 (160)
+.+.||||||+. +.+| .|+|+++... +.+.+++ .+|+++||+.||.+||+.+ . ..+++|+|||+++++.|+
T Consensus 2 ~~~~iytDgS~~-~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~----~~~v~I~tDS~~v~~~l~ 74 (132)
T PF00075_consen 2 KAIIIYTDGSCR-PNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL-E----HRKVTIYTDSQYVLNALN 74 (132)
T ss_dssp TSEEEEEEEEEC-TTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH-S----TSEEEEEES-HHHHHHHH
T ss_pred CcEEEEEeCCcc-CCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh-h----cccccccccHHHHHHHHH
Confidence 469999999984 3344 5667755322 2345566 7999999999999999944 2 268999999999999888
Q ss_pred cC-----CCCCchhhhhhhHHHHHHhhhccceeeccccCcc
Q psy7630 120 SV-----HLNSCPALEASNDIVGTLCSVLNKIKTNCCPYSR 155 (160)
Q Consensus 120 ~~-----~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~p~~~ 155 (160)
++ .........+.++|..++.. ..+|+|.||||..
T Consensus 75 ~~~~~~~~~~~~~~~~i~~~i~~~~~~-~~~v~~~~V~~H~ 114 (132)
T PF00075_consen 75 KWLHGNGWKKTSNGRPIKNEIWELLSR-GIKVRFRWVPGHS 114 (132)
T ss_dssp THHHHTTSBSCTSSSBHTHHHHHHHHH-SSEEEEEESSSSS
T ss_pred Hhccccccccccccccchhheeecccc-ceEEeeeeccCcC
Confidence 72 11111111355677777733 5689999999974
No 4
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.71 E-value=8.7e-17 Score=120.15 Aligned_cols=109 Identities=17% Similarity=0.178 Sum_probs=79.9
Q ss_pred eEEEEeeCCCCCCCCC-eEEEEEEecccc--eeec-CCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhh
Q psy7630 43 WLHIYTDGSLINPEDG-AGAGIFCELFSF--YKRL-GTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPM 118 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~G-aG~gi~~~~~~~--~~~L-~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI 118 (160)
+++||||||+ ++++| +|+|+++..... .+.. ...+||++||+.|++.||+.+.+. ...++.|+|||+++++.+
T Consensus 1 ~~~iy~DGa~-~~~~g~~G~G~vi~~~~~~~~~~~~~~~~tn~~AE~~All~aL~~a~~~--g~~~v~i~sDS~~vi~~~ 77 (128)
T PRK13907 1 MIEVYIDGAS-KGNPGPSGAGVFIKGVQPAVQLSLPLGTMSNHEAEYHALLAALKYCTEH--NYNIVSFRTDSQLVERAV 77 (128)
T ss_pred CEEEEEeeCC-CCCCCccEEEEEEEECCeeEEEEecccccCCcHHHHHHHHHHHHHHHhC--CCCEEEEEechHHHHHHH
Confidence 4789999999 56666 788998855432 1221 245899999999999999999643 345799999999999999
Q ss_pred ccCCCCCchhhhhhhHHHHHHhhhccceeeccccCcc
Q psy7630 119 NSVHLNSCPALEASNDIVGTLCSVLNKIKTNCCPYSR 155 (160)
Q Consensus 119 ~~~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~p~~~ 155 (160)
+++......-...-+++..++. ....+.+.|||.+.
T Consensus 78 ~~~~~~~~~~~~l~~~~~~l~~-~f~~~~~~~v~r~~ 113 (128)
T PRK13907 78 EKEYAKNKMFAPLLEEALQYIK-SFDLFFIKWIPSSQ 113 (128)
T ss_pred hHHHhcChhHHHHHHHHHHHHh-cCCceEEEEcCchh
Confidence 8865433333445666666664 45677789999863
No 5
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.71 E-value=1e-16 Score=126.96 Aligned_cols=109 Identities=18% Similarity=0.136 Sum_probs=75.4
Q ss_pred CeEEEEeeCCCCCCCCC-eEEEEEEeccc----ceeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHH
Q psy7630 42 DWLHIYTDGSLINPEDG-AGAGIFCELFS----FYKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIH 116 (160)
Q Consensus 42 ~~i~IYTDGSk~ng~~G-aG~gi~~~~~~----~~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~ 116 (160)
..++|||||||. |+|| .|+|+++.... .+..+. .+|||+||+.|+++||+++.+ .....+.|+|||+++++
T Consensus 2 ~~v~if~DGa~~-gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~--~~~~~v~l~tDS~yv~~ 77 (154)
T COG0328 2 KKVEIFTDGACL-GNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKE--LGACEVTLYTDSKYVVE 77 (154)
T ss_pred CceEEEecCccC-CCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHh--cCCceEEEEecHHHHHH
Confidence 368999999994 6677 67888775322 122333 799999999999999999953 34568999999999999
Q ss_pred hhccCCC----CCch--------hhhhhhHHHHHHhhhccceeeccccCcc
Q psy7630 117 PMNSVHL----NSCP--------ALEASNDIVGTLCSVLNKIKTNCCPYSR 155 (160)
Q Consensus 117 aI~~~~~----~~~~--------~~~~~~~I~~~~~~~~~~~~~~~~p~~~ 155 (160)
+|+.|.. .... ..+.-+++..++ +...+|...||||-.
T Consensus 78 ~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~-~~~~~v~~~WVkgH~ 127 (154)
T COG0328 78 GITRWIVKWKKNGWKTADKKPVKNKDLWEELDELL-KRHELVFWEWVKGHA 127 (154)
T ss_pred HHHHHHhhccccCccccccCccccHHHHHHHHHHH-hhCCeEEEEEeeCCC
Confidence 9986511 1111 112233333333 233388999999864
No 6
>PRK08719 ribonuclease H; Reviewed
Probab=99.69 E-value=2.1e-16 Score=123.20 Aligned_cols=105 Identities=18% Similarity=0.126 Sum_probs=70.7
Q ss_pred eEEEEeeCCCC-CCCC-C-eEEEEEEeccc------ceeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHH
Q psy7630 43 WLHIYTDGSLI-NPED-G-AGAGIFCELFS------FYKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKA 113 (160)
Q Consensus 43 ~i~IYTDGSk~-ng~~-G-aG~gi~~~~~~------~~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqs 113 (160)
.+.||||||+. |+.+ + +|+|+++...+ ....+...+||++||+.||+.||+.+.+ ...|+|||++
T Consensus 4 ~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~------~~~i~tDS~y 77 (147)
T PRK08719 4 SYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARD------GDVIYSDSDY 77 (147)
T ss_pred eEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCC------CCEEEechHH
Confidence 58999999996 3321 1 57888764322 2333555689999999999999999842 2379999999
Q ss_pred HHHhhcc---------CCCCCchh---hhhhhHHHHHHhhhccceeeccccCcc
Q psy7630 114 AIHPMNS---------VHLNSCPA---LEASNDIVGTLCSVLNKIKTNCCPYSR 155 (160)
Q Consensus 114 aI~aI~~---------~~~~~~~~---~~~~~~I~~~~~~~~~~~~~~~~p~~~ 155 (160)
++++|++ |..+...+ .+.-+.|..+.+ .++|+|.||||..
T Consensus 78 vi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~--~~~i~~~~VkgH~ 129 (147)
T PRK08719 78 CVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA--RKYVEVEKVTAHS 129 (147)
T ss_pred HHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC--CCcEEEEEecCCC
Confidence 9999853 32222211 122334444443 4689999999953
No 7
>KOG3752|consensus
Probab=99.68 E-value=1.1e-16 Score=140.93 Aligned_cols=110 Identities=21% Similarity=0.188 Sum_probs=89.9
Q ss_pred eEEEEeeCCCC-CCCCC--eEEEEEEec---ccceeecC-CCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHH
Q psy7630 43 WLHIYTDGSLI-NPEDG--AGAGIFCEL---FSFYKRLG-TFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAI 115 (160)
Q Consensus 43 ~i~IYTDGSk~-ng~~G--aG~gi~~~~---~~~~~~L~-~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI 115 (160)
...+|||||++ ||..| +|+|||++. .|.+.++. +.+|||+|||.||.+||+-++++ ...+++|.|||++++
T Consensus 212 ~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~--~~~kv~I~TDS~~~i 289 (371)
T KOG3752|consen 212 IQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSK--NINKVVIRTDSEYFI 289 (371)
T ss_pred ceEEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhc--CCCcEEEEechHHHH
Confidence 48999999997 88887 999999964 55788987 88999999999999999999653 345899999999999
Q ss_pred HhhccCCC------------CC-----chhhhhhhHHHHHHhh-hccceeeccccCc
Q psy7630 116 HPMNSVHL------------NS-----CPALEASNDIVGTLCS-VLNKIKTNCCPYS 154 (160)
Q Consensus 116 ~aI~~~~~------------~~-----~~~~~~~~~I~~~~~~-~~~~~~~~~~p~~ 154 (160)
++|+.|-. .. .....--+.+-.+++. +-.+++++||||-
T Consensus 290 ~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh 346 (371)
T KOG3752|consen 290 NSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGH 346 (371)
T ss_pred HHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCc
Confidence 99987621 11 2245566777788866 4579999999995
No 8
>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=99.52 E-value=2.9e-13 Score=94.75 Aligned_cols=106 Identities=25% Similarity=0.221 Sum_probs=75.1
Q ss_pred EEEeeCCCCCCCCCeEEEEEEecccc-----eeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhhc
Q psy7630 45 HIYTDGSLINPEDGAGAGIFCELFSF-----YKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPMN 119 (160)
Q Consensus 45 ~IYTDGSk~ng~~GaG~gi~~~~~~~-----~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI~ 119 (160)
.+|||||......++|+|+++...+. ........|++.||+.|++.||+++.. ....++.|+|||+.+++.++
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~--~~~~~i~i~~Ds~~~~~~~~ 78 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALE--LGGKKVNIYTDSQYVINALT 78 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHh--CCCceEEEEECHHHHHHHhh
Confidence 38999999433234888888855431 112225689999999999999999853 34568999999999999999
Q ss_pred cCCC-CCchhhhhhhHHHHHHhhhccceeeccccC
Q psy7630 120 SVHL-NSCPALEASNDIVGTLCSVLNKIKTNCCPY 153 (160)
Q Consensus 120 ~~~~-~~~~~~~~~~~I~~~~~~~~~~~~~~~~p~ 153 (160)
++.. .........+.|..++ ....+++++|||+
T Consensus 79 ~~~~~~~~~~~~~~~~i~~~~-~~~~~~~i~~v~~ 112 (130)
T cd06222 79 GWYEGKPVKNVDLWQRLLALL-KRFHKVRFEWVPG 112 (130)
T ss_pred ccccCCChhhHHHHHHHHHHH-hCCCeEEEEEcCC
Confidence 8754 2222333444555544 3456899999998
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.49 E-value=4.7e-13 Score=110.81 Aligned_cols=114 Identities=16% Similarity=0.089 Sum_probs=78.7
Q ss_pred CCCeEEEEeeCCCCCCCCC-eEEEEEEecc--cce------eecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcC
Q psy7630 40 SDDWLHIYTDGSLINPEDG-AGAGIFCELF--SFY------KRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSD 110 (160)
Q Consensus 40 ~~~~i~IYTDGSk~ng~~G-aG~gi~~~~~--~~~------~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SD 110 (160)
+.+.+++|+|||. ++++| +|+|+++... +.. ..++..+|||+||+.|++.||+.+.+.......+.|++|
T Consensus 70 ep~~~~vY~DGs~-~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~D 148 (219)
T PRK07708 70 EPHEILVYFDGGF-DKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGD 148 (219)
T ss_pred CCCcEEEEEeecc-CCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEec
Confidence 3457999999998 55555 7888877432 222 245556899999999999999999754222234899999
Q ss_pred cHHHHHhhcc-CCCCCchhhhhhhHHHHHHhhhccceeeccccCc
Q psy7630 111 SKAAIHPMNS-VHLNSCPALEASNDIVGTLCSVLNKIKTNCCPYS 154 (160)
Q Consensus 111 SqsaI~aI~~-~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~p~~ 154 (160)
|+.+++.++. |..+.+....-...+..+++...-++.+.|||-.
T Consensus 149 SqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~ 193 (219)
T PRK07708 149 SQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRK 193 (219)
T ss_pred cHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCch
Confidence 9999999976 4444444334445555555544335777899863
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.41 E-value=3.1e-12 Score=111.20 Aligned_cols=107 Identities=16% Similarity=0.070 Sum_probs=75.4
Q ss_pred eEEEEeeCCCCCCCCC-eEEEEEEeccc-c------eeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHH
Q psy7630 43 WLHIYTDGSLINPEDG-AGAGIFCELFS-F------YKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAA 114 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~G-aG~gi~~~~~~-~------~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsa 114 (160)
.++||||||+. +++| +|+|+++...+ . ...+ +.+||++||+.|++.||+++.+. ...++.|++||+++
T Consensus 2 ~~~i~~DGa~~-~n~g~aG~G~vi~~~~~~~~~~~~~~~~-~~~tnn~AE~~All~gL~~a~~~--g~~~v~i~~DS~lv 77 (372)
T PRK07238 2 KVVVEADGGSR-GNPGPAGYGAVVWDADRGEVLAERAEAI-GRATNNVAEYRGLIAGLEAAAEL--GATEVEVRMDSKLV 77 (372)
T ss_pred eEEEEecCCCC-CCCCceEEEEEEEeCCCCcEEEEeeccc-CCCCchHHHHHHHHHHHHHHHhC--CCCeEEEEeCcHHH
Confidence 47899999994 5556 78888775432 1 1223 36899999999999999999643 34579999999999
Q ss_pred HHhhccCCCCCch-hhhhhhHHHHHHhhhccceeeccccCc
Q psy7630 115 IHPMNSVHLNSCP-ALEASNDIVGTLCSVLNKIKTNCCPYS 154 (160)
Q Consensus 115 I~aI~~~~~~~~~-~~~~~~~I~~~~~~~~~~~~~~~~p~~ 154 (160)
++.|++......+ -...-++|..++ ...+.+.+.|||..
T Consensus 78 i~~i~~~~~~~~~~l~~~~~~i~~l~-~~f~~~~i~~v~r~ 117 (372)
T PRK07238 78 VEQMSGRWKVKHPDMKPLAAQARELA-SQFGRVTYTWIPRA 117 (372)
T ss_pred HHHhCCCCccCChHHHHHHHHHHHHH-hcCCceEEEECCch
Confidence 9999864321222 222233455544 44578999999974
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=98.61 E-value=2.1e-07 Score=63.38 Aligned_cols=72 Identities=17% Similarity=0.163 Sum_probs=54.2
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhhccCCCCCchhhhhhhHHHHHHhhhccceeeccccCc
Q psy7630 80 NFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPMNSVHLNSCPALEASNDIVGTLCSVLNKIKTNCCPYS 154 (160)
Q Consensus 80 n~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI~~~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~p~~ 154 (160)
+..||+.|++.||+++.+ ....++.|.|||+.+++.|++.......-....++|..++.. .+.+++.|+|-.
T Consensus 1 ~~~aE~~al~~al~~a~~--~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~i~r~ 72 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWE--LGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDR-FWNVSVSHIPRE 72 (87)
T ss_dssp HHHHHHHHHHHHHHHHHC--CT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCC-CSCEEEEE--GG
T ss_pred CcHHHHHHHHHHHHHHHH--CCCCEEEEEecCccccccccccccccccccccchhhhhhhcc-ccceEEEEEChH
Confidence 468999999999999953 345789999999999999988743333555778888888877 788999999965
No 12
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=92.07 E-value=0.47 Score=37.00 Aligned_cols=50 Identities=22% Similarity=0.215 Sum_probs=33.9
Q ss_pred eEEEEeeCCCCCCCCCeEEEEEEeccc---ce-------eecC--CCcchHHHHHHHHHHHHHHHH
Q psy7630 43 WLHIYTDGSLINPEDGAGAGIFCELFS---FY-------KRLG--TFTTNFDGEIAAIKIALLQIL 96 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~GaG~gi~~~~~~---~~-------~~L~--~~~Sn~~AEl~AI~~AL~~i~ 96 (160)
.+++|+|+|. . +-|+.+|..... .. -|+. ...|+=+-||+|+..|.+++.
T Consensus 81 ~L~~F~DAS~-~---aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~ 142 (159)
T PF05380_consen 81 ELHVFCDASE-S---AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLAN 142 (159)
T ss_pred eeeEeecccc-c---ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHH
Confidence 5899999998 2 245556664311 11 1222 245999999999999999873
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=87.08 E-value=1.2 Score=37.67 Aligned_cols=89 Identities=17% Similarity=0.085 Sum_probs=53.0
Q ss_pred eEEEEeeCCCCCCCCCeEEEEEEecccceeecCCCcchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHhhccCC
Q psy7630 43 WLHIYTDGSLINPEDGAGAGIFCELFSFYKRLGTFTTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKAAIHPMNSVH 122 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~GaG~gi~~~~~~~~~~L~~~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqsaI~aI~~~~ 122 (160)
--.||+|+.- .|.|+.+......+....--.++.||+.|...|--++ ..++ |.|||-.++..= .
T Consensus 94 lc~VfaDATp------Tgwgi~i~~~~~~~Tfs~~l~IhtaELlaaClAr~~~------~~r~-l~tDnt~Vlsrk---y 157 (245)
T PF00336_consen 94 LCQVFADATP------TGWGISITGQRMRGTFSKPLPIHTAELLAACLARLMS------GARC-LGTDNTVVLSRK---Y 157 (245)
T ss_pred CCceeccCCC------CcceeeecCceeeeeecccccchHHHHHHHHHHHhcc------CCcE-EeecCcEEEecc---c
Confidence 4689999987 2333333222222333334569999999998887766 2344 999999887432 2
Q ss_pred CCCchhhh-hhhHHHHHHhhhccceeeccccCc
Q psy7630 123 LNSCPALE-ASNDIVGTLCSVLNKIKTNCCPYS 154 (160)
Q Consensus 123 ~~~~~~~~-~~~~I~~~~~~~~~~~~~~~~p~~ 154 (160)
.+=+|-+. +++. .+..+.|-+||-.
T Consensus 158 ts~PW~lac~A~w-------iLrgts~~yVPS~ 183 (245)
T PF00336_consen 158 TSFPWLLACAANW-------ILRGTSFYYVPSK 183 (245)
T ss_pred ccCcHHHHHHHHH-------hhcCceEEEeccc
Confidence 22244222 2233 3456778888753
No 14
>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=28.79 E-value=2.1e+02 Score=20.52 Aligned_cols=34 Identities=15% Similarity=0.159 Sum_probs=22.5
Q ss_pred cchHHHHHHHHHHHHHHHHhhcCCCCcEEEEcCcHH
Q psy7630 78 TTNFDGEIAAIKIALLQILNRTNQFERAVILSDSKA 113 (160)
Q Consensus 78 ~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~SDSqs 113 (160)
.....||+.||.+|.+... .......++|+--+=
T Consensus 43 ~~~~HAE~~ai~~~~~~~~--~~~~~~~~ly~t~EP 76 (109)
T cd01285 43 DPTAHAEIVAIRNAARRLG--SYLLSGCTLYTTLEP 76 (109)
T ss_pred CCcccHHHHHHHHHHHHhC--CCccCCeEEEEeCCC
Confidence 4567899999999887652 112345777775443
No 15
>COG4631 XdhB Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]
Probab=28.60 E-value=22 Score=34.36 Aligned_cols=23 Identities=39% Similarity=0.833 Sum_probs=15.4
Q ss_pred eEEEEeeCCCCCCCCC--eEEEEEE
Q psy7630 43 WLHIYTDGSLINPEDG--AGAGIFC 65 (160)
Q Consensus 43 ~i~IYTDGSk~ng~~G--aG~gi~~ 65 (160)
-+|||||||-.-+..| .|-|.+.
T Consensus 468 LVHvY~DGSi~lNHGGTEMGQGL~t 492 (781)
T COG4631 468 LVHVYTDGSIHLNHGGTEMGQGLYT 492 (781)
T ss_pred EEEEeccCeEEEcCCCcccccchhH
Confidence 4899999999522333 6666654
No 16
>PF07057 TraI: DNA helicase TraI; InterPro: IPR009767 This entry represents a conserved region approximately 130 residues long within the bacterial DNA helicase TraI. TraI is a bifunctional protein that catalyses the unwinding of duplex DNA as well as acts as a sequence-specific DNA trans-esterase, providing the site- and strand-specific nick required to initiate DNA transfer [].; GO: 0003677 DNA binding, 0003678 DNA helicase activity, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0000746 conjugation; PDB: 3FLD_B.
Probab=24.75 E-value=24 Score=27.43 Aligned_cols=11 Identities=27% Similarity=0.561 Sum_probs=0.0
Q ss_pred CeEEEEeeCCC
Q psy7630 42 DWLHIYTDGSL 52 (160)
Q Consensus 42 ~~i~IYTDGSk 52 (160)
+|+.||||+=.
T Consensus 8 eHVQvYTDn~~ 18 (126)
T PF07057_consen 8 EHVQVYTDNLE 18 (126)
T ss_dssp -----------
T ss_pred heeeeEeCCHH
Confidence 59999999854
No 17
>KOG1123|consensus
Probab=24.36 E-value=77 Score=30.77 Aligned_cols=50 Identities=10% Similarity=0.147 Sum_probs=33.2
Q ss_pred HHHHHHHhhc-CCCCcEEEEcCcHHHHHh----hccCCCCCchhhhhhhHHHHHH
Q psy7630 90 IALLQILNRT-NQFERAVILSDSKAAIHP----MNSVHLNSCPALEASNDIVGTL 139 (160)
Q Consensus 90 ~AL~~i~~~~-~~~~~i~I~SDSqsaI~a----I~~~~~~~~~~~~~~~~I~~~~ 139 (160)
.|++.+++.+ .+..++++|||+-+|++. |+++.+=.+..+..+-.|+.-+
T Consensus 530 raCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~KpfIYG~Tsq~ERm~ILqnF 584 (776)
T KOG1123|consen 530 RACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGKPFIYGPTSQNERMKILQNF 584 (776)
T ss_pred HHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCCceEECCCchhHHHHHHHhc
Confidence 3566665433 346789999999999986 4666555555555666665544
No 18
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=23.20 E-value=2.7e+02 Score=21.66 Aligned_cols=16 Identities=31% Similarity=0.212 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHH
Q psy7630 81 FDGEIAAIKIALLQIL 96 (160)
Q Consensus 81 ~~AEl~AI~~AL~~i~ 96 (160)
-.||+.||..|.+.+.
T Consensus 57 aHAEi~air~a~~~~~ 72 (152)
T COG0590 57 AHAEILAIRAAAETLG 72 (152)
T ss_pred ccHHHHHHHHHHHhhC
Confidence 3899999999999883
No 19
>PF09365 DUF2461: Conserved hypothetical protein (DUF2461); InterPro: IPR012808 Members of this family are widely (though sparsely) distributed bacterial proteins, about 230 residues in length and in fungal proteins, which are around 400 residues in length. All members have a motif RxxRDxRFxxx[DN]KxxY. The function of this protein family is unknown.
Probab=22.46 E-value=35 Score=28.13 Aligned_cols=14 Identities=21% Similarity=-0.166 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHH
Q psy7630 81 FDGEIAAIKIALLQ 94 (160)
Q Consensus 81 ~~AEl~AI~~AL~~ 94 (160)
+..|+.+|+.+++.
T Consensus 131 ~~~~~~~il~~~~~ 144 (212)
T PF09365_consen 131 NPEEFRKILEAPEF 144 (212)
T ss_pred ChHHHHHHHhChhh
Confidence 34445555554443
No 20
>COG1697 DNA topoisomerase VI, subunit A [DNA replication, recombination, and repair]
Probab=22.38 E-value=1.3e+02 Score=27.26 Aligned_cols=35 Identities=26% Similarity=0.281 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHhhccCCCCCeEEEEeeCCCCCCCCCeEEEEEE
Q psy7630 23 PLIAKTMALETINTRYPSDDWLHIYTDGSLINPEDGAGAGIFC 65 (160)
Q Consensus 23 p~~~~~~~~e~~~~~~~~~~~i~IYTDGSk~ng~~GaG~gi~~ 65 (160)
|..+..+++..+++.+.- .+-|+|||-- -|+-||+
T Consensus 218 P~raTRrflkrL~eel~l--pv~vftDgDP------yG~~Iy~ 252 (356)
T COG1697 218 PDRATRRFLKRLNEELDL--PVYVFTDGDP------YGWYIYS 252 (356)
T ss_pred ccHHHHHHHHHHHHHhCC--CEEEEecCCC------CEEEEEE
Confidence 667899999999998854 6999999965 2555555
No 21
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=21.43 E-value=3.2e+02 Score=23.34 Aligned_cols=45 Identities=18% Similarity=0.096 Sum_probs=33.6
Q ss_pred CcchHHHHHHHHHHHHHHHHhhcCCCCcEEEE----cCcHHHHHhhccCC
Q psy7630 77 FTTNFDGEIAAIKIALLQILNRTNQFERAVIL----SDSKAAIHPMNSVH 122 (160)
Q Consensus 77 ~~Sn~~AEl~AI~~AL~~i~~~~~~~~~i~I~----SDSqsaI~aI~~~~ 122 (160)
.-+|..+|.+|++.+|+.+....+ ...++++ .||++..+-+.+-.
T Consensus 105 ~~~n~s~d~la~ly~~~~~~~~~n-rk~~i~y~~~~~ds~a~~k~~k~~~ 153 (225)
T COG3341 105 IKSNDSGDVLAKLYGLRYEVPLDN-RKSVINYLTPGNDSWAYFKYVKDKC 153 (225)
T ss_pred cccCchHHHHHHhccccccccccC-ccceeeccCCcchhHHHHHHHhhhh
Confidence 367999999999999998854322 2234447 79999998887653
Done!