Query psy9180
Match_columns 491
No_of_seqs 284 out of 1593
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 21:00:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9180.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9180hhsearch_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 4.3E-20 9.4E-25 170.3 11.6 128 147-276 3-144 (161)
2 PRK08719 ribonuclease H; Revie 99.8 1.3E-19 2.7E-24 165.4 12.0 121 148-273 3-146 (147)
3 COG0328 RnhA Ribonuclease HI [ 99.8 1.9E-19 4.2E-24 163.7 11.6 128 148-275 2-146 (154)
4 PF00075 RNase_H: RNase H; In 99.8 1.1E-19 2.5E-24 161.1 6.5 121 148-272 2-131 (132)
5 PRK00203 rnhA ribonuclease H; 99.8 5.2E-19 1.1E-23 161.9 10.9 125 149-276 3-144 (150)
6 cd06222 RnaseH RNase H (RNase 99.7 2.3E-16 5E-21 135.7 12.4 122 151-272 1-130 (130)
7 KOG3752|consensus 99.6 4.6E-15 9.9E-20 150.2 10.9 127 147-273 210-364 (371)
8 PRK13907 rnhA ribonuclease H; 99.5 1.8E-14 3.8E-19 128.1 9.6 120 150-274 2-127 (128)
9 PRK07708 hypothetical protein; 99.4 1.9E-12 4.2E-17 125.5 13.1 129 145-277 69-211 (219)
10 PRK07238 bifunctional RNase H/ 99.2 3.5E-11 7.6E-16 125.8 11.1 123 149-276 2-134 (372)
11 PF13456 RVT_3: Reverse transc 99.0 1.6E-09 3.5E-14 88.6 8.3 84 184-272 1-85 (87)
12 PF13966 zf-RVT: zinc-binding 91.2 0.12 2.7E-06 42.5 1.8 27 349-375 53-83 (86)
13 PF05380 Peptidase_A17: Pao re 69.4 16 0.00034 33.6 6.8 53 147-201 79-143 (159)
14 TIGR02549 CRISPR_DxTHG CRISPR- 65.4 2 4.3E-05 27.6 -0.0 18 448-465 2-19 (26)
15 PF00336 DNA_pol_viral_C: DNA 56.6 12 0.00026 36.1 3.4 91 147-254 92-182 (245)
16 PRK12457 2-dehydro-3-deoxyphos 34.6 9.2 0.0002 38.6 -1.1 36 420-455 162-201 (281)
17 PF11886 DUF3406: Domain of un 34.1 15 0.00033 36.7 0.3 32 439-470 8-44 (273)
18 PRK05198 2-dehydro-3-deoxyphos 30.1 13 0.00028 37.3 -0.9 36 420-455 156-193 (264)
19 TIGR01362 KDO8P_synth 3-deoxy- 26.0 17 0.00037 36.4 -0.9 32 424-455 153-185 (258)
20 PLN03033 2-dehydro-3-deoxyphos 22.9 23 0.00049 36.0 -0.6 36 420-455 162-199 (290)
No 1
>PRK06548 ribonuclease H; Provisional
Probab=99.82 E-value=4.3e-20 Score=170.32 Aligned_cols=128 Identities=26% Similarity=0.255 Sum_probs=93.6
Q ss_pred CCceEEEecCCCCC--CCceeEeeeCCeeeEeecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhc--
Q psy9180 147 ANYTICYTDGSKTM--NTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN-- 222 (491)
Q Consensus 147 ~~~i~IyTDGS~~~--~~vG~g~v~~~~~~~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~-- 222 (491)
+..+.||||||+.. +..|+|++.............+|++.|||.|++.||+.+.. ....+.|+|||++|++++..
T Consensus 3 ~~~~~IytDGa~~gnpg~~G~g~~~~~~~~~~g~~~~~TNnraEl~Aii~aL~~~~~-~~~~v~I~TDS~yvi~~i~~W~ 81 (161)
T PRK06548 3 NNEIIAATDGSSLANPGPSGWAWYVDENTWDSGGWDIATNNIAELTAVRELLIATRH-TDRPILILSDSKYVINSLTKWV 81 (161)
T ss_pred CCEEEEEEeeccCCCCCceEEEEEEeCCcEEccCCCCCCHHHHHHHHHHHHHHhhhc-CCceEEEEeChHHHHHHHHHHH
Confidence 34599999999884 45778876543222222234689999999999999987653 34579999999999999994
Q ss_pred -------ccCCC--CCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCCCCC
Q psy9180 223 -------VSFTN--PLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVNPTQ 276 (491)
Q Consensus 223 -------~~~~~--~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~ 276 (491)
++..+ |...+++.++| .+... ..|+|.|||||+|++|||.||+||++|+....
T Consensus 82 ~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~~ 144 (161)
T PRK06548 82 YSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAANNFS 144 (161)
T ss_pred HHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHHHhc
Confidence 22221 22235566777 33333 47999999999999999999999999886543
No 2
>PRK08719 ribonuclease H; Reviewed
Probab=99.81 E-value=1.3e-19 Score=165.39 Aligned_cols=121 Identities=24% Similarity=0.228 Sum_probs=88.8
Q ss_pred CceEEEecCCCCCCC-----ceeEeee--CC--e--eeEeecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHH
Q psy9180 148 NYTICYTDGSKTMNT-----TSCAFSI--DD--L--ISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSA 216 (491)
Q Consensus 148 ~~i~IyTDGS~~~~~-----vG~g~v~--~~--~--~~~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsa 216 (491)
..++||||||+.+++ .|+|++. .+ . ..+..+....|++.||+.|+..||+.+.+. ..|+|||++|
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 568999999997432 4788653 22 1 233345556899999999999999998753 3799999999
Q ss_pred HHHHh--------cccCCC---CCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCC
Q psy9180 217 LAALS--------NVSFTN---PLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVN 273 (491)
Q Consensus 217 l~aL~--------~~~~~~---~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~ 273 (491)
++++. +.+..+ |....++.+.| .+.. ...|+|.|||||+|++|||.||+||++|++
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 99984 332211 11123445566 3444 567999999999999999999999999875
No 3
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.80 E-value=1.9e-19 Score=163.68 Aligned_cols=128 Identities=20% Similarity=0.158 Sum_probs=97.6
Q ss_pred CceEEEecCCCCC--CCceeEeee--CCeeeEeec-CCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhc
Q psy9180 148 NYTICYTDGSKTM--NTTSCAFSI--DDLISSSQL-NPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN 222 (491)
Q Consensus 148 ~~i~IyTDGS~~~--~~vG~g~v~--~~~~~~~~l-~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~ 222 (491)
..+.||||||+.. |..|+|+|. ++....++. -..+|++.||+.|++.||+.+.+.+...|.|+|||++++++|..
T Consensus 2 ~~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~ 81 (154)
T COG0328 2 KKVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEGRTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGITR 81 (154)
T ss_pred CceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeeecccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHH
Confidence 3578999999983 446777663 332222222 23899999999999999999998888999999999999999995
Q ss_pred ccCCCC-----------CcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCCCC
Q psy9180 223 VSFTNP-----------LVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVNPT 275 (491)
Q Consensus 223 ~~~~~~-----------~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~ 275 (491)
+...++ ....++.+++ .+..+...|.+.|||||+|.++||.||+||+.|++..
T Consensus 82 w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 82 WIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred HHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 423221 1123345555 5556666999999999999999999999999998765
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=99.79 E-value=1.1e-19 Score=161.12 Aligned_cols=121 Identities=30% Similarity=0.294 Sum_probs=87.4
Q ss_pred CceEEEecCCCCC--CCceeEee-eCCeeeEeecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhccc
Q psy9180 148 NYTICYTDGSKTM--NTTSCAFS-IDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNVS 224 (491)
Q Consensus 148 ~~i~IyTDGS~~~--~~vG~g~v-~~~~~~~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~~~ 224 (491)
+.+.||||||..+ +..|+|++ ..+......++ ..+++.|||.||..||+.+ . .+.+.|+|||+++++.+..+.
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 5689999999763 33466654 33333344455 8999999999999999954 3 389999999999999887721
Q ss_pred C--CCCCc-ch-hHHHHH-HhhcCCCeEEEEEeeccCCC-CCChHHhHHhhCCC
Q psy9180 225 F--TNPLV-SK-VYSCWD-LLRSRNKVVHFLWCPSHCGI-RGNEAVDEAARNPV 272 (491)
Q Consensus 225 ~--~~~~~-~~-~~~~~I-~l~~~~~~V~~~WVPgH~gi-~gNE~AD~lAk~A~ 272 (491)
. .++.. .. .+..+| .+...+..|.|+|||||+|+ .|||.||+|||+|+
T Consensus 78 ~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 78 HGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred cccccccccccccchhheeeccccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 1 11111 11 244455 33355889999999999999 69999999999875
No 5
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.79 E-value=5.2e-19 Score=161.92 Aligned_cols=125 Identities=18% Similarity=0.165 Sum_probs=91.0
Q ss_pred ceEEEecCCCCC--CCceeEeee--CCeeeEe-ecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhcc
Q psy9180 149 YTICYTDGSKTM--NTTSCAFSI--DDLISSS-QLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV 223 (491)
Q Consensus 149 ~i~IyTDGS~~~--~~vG~g~v~--~~~~~~~-~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~~ 223 (491)
.+.||||||+.+ +..|+|++. .+....+ ......|++.|||.|+..||+.+.+ ...+.|+|||++++++|..+
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 488999999983 346777653 3322222 2235678999999999999998865 46899999999999999863
Q ss_pred cC---------C--CCCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCCCCC
Q psy9180 224 SF---------T--NPLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVNPTQ 276 (491)
Q Consensus 224 ~~---------~--~~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~ 276 (491)
.. . .|....++.++| .+. ....|.|.|||||+|++||+.||+|||+|+....
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 11 1 111223455666 332 3478999999999999999999999999886543
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=99.69 E-value=2.3e-16 Score=135.65 Aligned_cols=122 Identities=28% Similarity=0.296 Sum_probs=93.3
Q ss_pred EEEecCCCCCC--CceeEeeeCC--eeeE---eecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhcc
Q psy9180 151 ICYTDGSKTMN--TTSCAFSIDD--LISS---SQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV 223 (491)
Q Consensus 151 ~IyTDGS~~~~--~vG~g~v~~~--~~~~---~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~~ 223 (491)
.+|||||...+ +.|+|++..+ .... .......+++.||+.|+..||+.+......++.|++||+.++..+.+.
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 48999999854 6788876432 1111 112257899999999999999999888889999999999999999986
Q ss_pred cCCCCCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCC
Q psy9180 224 SFTNPLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPV 272 (491)
Q Consensus 224 ~~~~~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~ 272 (491)
....+.....+...+ .+......+.|.|||+|+|+.+|+.||.+||+|.
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 531111223344555 3335678999999999999999999999999874
No 7
>KOG3752|consensus
Probab=99.59 E-value=4.6e-15 Score=150.23 Aligned_cols=127 Identities=24% Similarity=0.199 Sum_probs=98.5
Q ss_pred CCceEEEecCCCCC-----CCceeEeeeCC---eeeEeecC-CCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHH
Q psy9180 147 ANYTICYTDGSKTM-----NTTSCAFSIDD---LISSSQLN-PVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSAL 217 (491)
Q Consensus 147 ~~~i~IyTDGS~~~-----~~vG~g~v~~~---~~~~~~l~-~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal 217 (491)
.+..++|||||+.. ..+|+|++.++ ...+..+. ..+++|.|||.|+..||+.+.+....+++|.|||+.++
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 44589999999884 24899998653 34566664 88999999999999999999987778999999999999
Q ss_pred HHHhcccCCCC---C---cchh----------HHHHH-Hh-hc-CCCeEEEEEeeccCCCCCChHHhHHhhCCCC
Q psy9180 218 AALSNVSFTNP---L---VSKV----------YSCWD-LL-RS-RNKVVHFLWCPSHCGIRGNEAVDEAARNPVN 273 (491)
Q Consensus 218 ~aL~~~~~~~~---~---~~~~----------~~~~I-~l-~~-~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~ 273 (491)
+.|+.+.+.+. + ..++ .+..+ .| +. ++.+|++.|||||.|+.|||.||.+|+++..
T Consensus 290 ~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~ 364 (371)
T KOG3752|consen 290 NSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGST 364 (371)
T ss_pred HHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhh
Confidence 99987655321 1 0111 12222 22 22 5789999999999999999999999999854
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.55 E-value=1.8e-14 Score=128.09 Aligned_cols=120 Identities=19% Similarity=0.136 Sum_probs=90.4
Q ss_pred eEEEecCCCCC--CCceeEeeeCCe--eeEee-cCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhccc
Q psy9180 150 TICYTDGSKTM--NTTSCAFSIDDL--ISSSQ-LNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNVS 224 (491)
Q Consensus 150 i~IyTDGS~~~--~~vG~g~v~~~~--~~~~~-l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~~~ 224 (491)
++||||||... +..|+|++..+. ....+ .....+++.||+.|++.||+.+...+..++.|+|||+.+++.+++..
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~~ 81 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKEY 81 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeEEEEecccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHHH
Confidence 67999999884 567888774322 11122 23467899999999999999999988889999999999999999855
Q ss_pred CCCCCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCCC
Q psy9180 225 FTNPLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVNP 274 (491)
Q Consensus 225 ~~~~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~ 274 (491)
.+.+ .-..+.+++ .+......+.|.|||. +.|+.||.+|++|...
T Consensus 82 ~~~~-~~~~l~~~~~~l~~~f~~~~~~~v~r----~~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 82 AKNK-MFAPLLEEALQYIKSFDLFFIKWIPS----SQNKVADELARKAILQ 127 (128)
T ss_pred hcCh-hHHHHHHHHHHHHhcCCceEEEEcCc----hhchhHHHHHHHHHhc
Confidence 3221 123445555 4455666788899996 5999999999998753
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.41 E-value=1.9e-12 Score=125.52 Aligned_cols=129 Identities=13% Similarity=0.075 Sum_probs=92.3
Q ss_pred cCCCceEEEecCCCC--CCCceeEeee--CCe--ee----EeecCCCccchHHHHHHHHHHHHHHHcCCCC--eEEEEcc
Q psy9180 145 KYANYTICYTDGSKT--MNTTSCAFSI--DDL--IS----SSQLNPVNSIFSAELIAIYLCLEAITVHPSD--QFLIVSD 212 (491)
Q Consensus 145 ~~~~~i~IyTDGS~~--~~~vG~g~v~--~~~--~~----~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~--~i~I~tD 212 (491)
..++.+++|+|||.. +++.|+|++. .+. .. ...+....|++.||+.|++.||+.+.+.+.+ .|.|++|
T Consensus 69 ~ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~D 148 (219)
T PRK07708 69 EEPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGD 148 (219)
T ss_pred cCCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEec
Confidence 356789999999986 3567888663 221 11 1234556899999999999999999987654 4899999
Q ss_pred cHHHHHHHhcccCCCCCcchhHHHHH--HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCCCCCC
Q psy9180 213 SRSALAALSNVSFTNPLVSKVYSCWD--LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVNPTQL 277 (491)
Q Consensus 213 Sqsal~aL~~~~~~~~~~~~~~~~~I--~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~~ 277 (491)
|+.+++.+.+.+.......+.+...+ .+..-...+.+.||| ...|+.||+||++|++...+
T Consensus 149 SqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~Vp----R~~N~~AD~LAk~Al~~~~~ 211 (219)
T PRK07708 149 SQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPIS----RKQNKEADQLATQALEGTVI 211 (219)
T ss_pred cHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECC----chhhhHHHHHHHHHHhcCCC
Confidence 99999999975421111113344444 333444567889997 57899999999999986654
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.24 E-value=3.5e-11 Score=125.82 Aligned_cols=123 Identities=17% Similarity=0.142 Sum_probs=90.2
Q ss_pred ceEEEecCCCCC--CCceeEeee--CCee---eEe-ecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHH
Q psy9180 149 YTICYTDGSKTM--NTTSCAFSI--DDLI---SSS-QLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL 220 (491)
Q Consensus 149 ~i~IyTDGS~~~--~~vG~g~v~--~~~~---~~~-~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL 220 (491)
.+.||||||... +..|+|++. .+.. ..+ .....+|++.||+.|++.||+.+.+.+.+.+.|++||+.+++.+
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 368999999984 357888763 2211 112 22236788999999999999999998888999999999999999
Q ss_pred hcccC-CCCCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCChHHhHHhhCCCCCCC
Q psy9180 221 SNVSF-TNPLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNEAVDEAARNPVNPTQ 276 (491)
Q Consensus 221 ~~~~~-~~~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE~AD~lAk~A~~~~~ 276 (491)
.+.+. +++. -..+..++ .+......+.+.|||. .+|+.||.||++|.....
T Consensus 82 ~~~~~~~~~~-l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a~~~~~ 134 (372)
T PRK07238 82 SGRWKVKHPD-MKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEAMDAAA 134 (372)
T ss_pred CCCCccCChH-HHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHHHHhhc
Confidence 87542 1110 12234444 4555667899999995 799999999999976544
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=98.99 E-value=1.6e-09 Score=88.57 Aligned_cols=84 Identities=19% Similarity=0.090 Sum_probs=65.8
Q ss_pred chHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhcccCCCCCcchhHHHHH-HhhcCCCeEEEEEeeccCCCCCCh
Q psy9180 184 IFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNVSFTNPLVSKVYSCWD-LLRSRNKVVHFLWCPSHCGIRGNE 262 (491)
Q Consensus 184 v~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~~~~~~~~~~~~~~~~I-~l~~~~~~V~~~WVPgH~gi~gNE 262 (491)
+..||+.|+..||+.+.+.+.+++.|.|||+.++..+++...... ....+++.| .+......+.+.||| .++|.
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~~~i~----r~~N~ 75 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRS-ELRPLIQDIRSLLDRFWNVSVSHIP----REQNK 75 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---S-CCHHHHHHHHHHHCCCSCEEEEE------GGGSH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccc-cccccchhhhhhhccccceEEEEEC----hHHhH
Confidence 467999999999999999999999999999999999988643222 234566777 566668899999999 68999
Q ss_pred HHhHHhhCCC
Q psy9180 263 AVDEAARNPV 272 (491)
Q Consensus 263 ~AD~lAk~A~ 272 (491)
.||.|||.|.
T Consensus 76 ~A~~LA~~a~ 85 (87)
T PF13456_consen 76 VADALAKFAL 85 (87)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHh
Confidence 9999999874
No 12
>PF13966 zf-RVT: zinc-binding in reverse transcriptase
Probab=91.24 E-value=0.12 Score=42.50 Aligned_cols=27 Identities=19% Similarity=0.252 Sum_probs=19.5
Q ss_pred cccCCCCCCC--Ccc--cCcceeeecCCCCh
Q psy9180 349 ANIYNIPPIP--CLI--DHVIHSIHGIPTKS 375 (491)
Q Consensus 349 l~~~~~sp~c--CG~--eTv~H~L~~Cp~~~ 375 (491)
+.+...++.| |+. ||++|++++||.-.
T Consensus 53 ~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~ 83 (86)
T PF13966_consen 53 RRGIQVDPICPLCGNEEETIEHLFFHCPFAR 83 (86)
T ss_pred ccCCccCCccccCCCccccccceeccCcCcc
Confidence 3444455545 874 99999999999754
No 13
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=69.39 E-value=16 Score=33.59 Aligned_cols=53 Identities=17% Similarity=0.125 Sum_probs=34.2
Q ss_pred CCceEEEecCCCCCCCceeEeeeC---Cee--e-----Eeec--CCCccchHHHHHHHHHHHHHHHc
Q psy9180 147 ANYTICYTDGSKTMNTTSCAFSID---DLI--S-----SSQL--NPVNSIFSAELIAIYLCLEAITV 201 (491)
Q Consensus 147 ~~~i~IyTDGS~~~~~vG~g~v~~---~~~--~-----~~~l--~~~~sv~~AEl~AI~~AL~~~~~ 201 (491)
...+++|+|+|. .+.|+.++.. +.. . ..++ -...|+=.-||.|+..|.+++..
T Consensus 79 ~~~L~~F~DAS~--~aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~ 143 (159)
T PF05380_consen 79 SVELHVFCDASE--SAYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT 143 (159)
T ss_pred ceeeeEeecccc--cceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 356899999995 4455554421 111 1 1122 13459999999999999998753
No 14
>TIGR02549 CRISPR_DxTHG CRISPR-associated DxTHG motif protein. This model describes a short region highly conserved between two otherwise substantially different CRISPR-associated (cas) proteins, TIGR02221 and TIGR01987. This region includes the motif [VIL]-D-x-[ST]-H-[GS].
Probab=65.37 E-value=2 Score=27.57 Aligned_cols=18 Identities=33% Similarity=0.717 Sum_probs=14.9
Q ss_pred cccCCCcccccchhhhcc
Q psy9180 448 ILTDPTHRYRYLPILTEL 465 (491)
Q Consensus 448 ~~~~~~~~~~~~~~~~~~ 465 (491)
|+-|-||-+||+|+++-+
T Consensus 2 vilDiTHGfr~~P~la~~ 19 (26)
T TIGR02549 2 IILDVTHGFNFMPLLAYE 19 (26)
T ss_pred EEEEecCcccchHHHHHH
Confidence 456889999999998753
No 15
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein. The domain is always associated with IPR000201 from INTERPRO and .; GO: 0004523 ribonuclease H activity
Probab=56.56 E-value=12 Score=36.08 Aligned_cols=91 Identities=20% Similarity=0.256 Sum_probs=50.2
Q ss_pred CCceEEEecCCCCCCCceeEeeeCCeeeEeecCCCccchHHHHHHHHHHHHHHHcCCCCeEEEEcccHHHHHHHhcccCC
Q psy9180 147 ANYTICYTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNVSFT 226 (491)
Q Consensus 147 ~~~i~IyTDGS~~~~~vG~g~v~~~~~~~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDSqsal~aL~~~~~~ 226 (491)
+.--.||+|+.-. |+|+........+.....--|.+|||.|.-.|.-+.. .++ |.|||..|+. +...+
T Consensus 92 ~~lc~VfaDATpT----gwgi~i~~~~~~~Tfs~~l~IhtaELlaaClAr~~~~----~r~-l~tDnt~Vls---rkyts 159 (245)
T PF00336_consen 92 PGLCQVFADATPT----GWGISITGQRMRGTFSKPLPIHTAELLAACLARLMSG----ARC-LGTDNTVVLS---RKYTS 159 (245)
T ss_pred CCCCceeccCCCC----cceeeecCceeeeeecccccchHHHHHHHHHHHhccC----CcE-EeecCcEEEe---ccccc
Confidence 3445788998764 4443333222222233345688999999987766552 234 9999987652 22222
Q ss_pred CCCcchhHHHHHHhhcCCCeEEEEEeec
Q psy9180 227 NPLVSKVYSCWDLLRSRNKVVHFLWCPS 254 (491)
Q Consensus 227 ~~~~~~~~~~~I~l~~~~~~V~~~WVPg 254 (491)
-|+--.-..++| | ..++|..||+
T Consensus 160 ~PW~lac~A~wi-L----rgts~~yVPS 182 (245)
T PF00336_consen 160 FPWLLACAANWI-L----RGTSFYYVPS 182 (245)
T ss_pred CcHHHHHHHHHh-h----cCceEEEecc
Confidence 232112222332 2 2377888996
No 16
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=34.55 E-value=9.2 Score=38.63 Aligned_cols=36 Identities=22% Similarity=0.303 Sum_probs=27.9
Q ss_pred cccC-CCchhhhHHhhhhccccccccc---cccccCCCcc
Q psy9180 420 ILTD-PTHRSYTQVLLLTEFVPIMTEF---VPILTDPTHR 455 (491)
Q Consensus 420 ~~~~-~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~ 455 (491)
||+. |.+..|.|..+=---||+|.++ +|+..||||-
T Consensus 162 ilcERG~~fgy~~~~~D~~~ip~mk~~~t~lPVi~DpSHs 201 (281)
T PRK12457 162 ILCERGSSFGYDNLVVDMLGFRQMKRTTGDLPVIFDVTHS 201 (281)
T ss_pred EEEeCCCCCCCCCcccchHHHHHHHhhCCCCCEEEeCCcc
Confidence 3444 6666788776666678999997 8999999994
No 17
>PF11886 DUF3406: Domain of unknown function (DUF3406); InterPro: IPR024283 This C-terminal domain is found in chloroplast protein import component Toc86/159 [] and homologue Toc90 [], and in some uncharacterised proteins.
Probab=34.11 E-value=15 Score=36.72 Aligned_cols=32 Identities=38% Similarity=0.668 Sum_probs=18.5
Q ss_pred ccccccccccc---cCCCcccccchhhhc-c-cceeE
Q psy9180 439 VPIMTEFVPIL---TDPTHRYRYLPILTE-L-VPILT 470 (491)
Q Consensus 439 ~~~~~~~~~~~---~~~~~~~~~~~~~~~-~-~~~~~ 470 (491)
||+---.+|-- .||+||||||---.. | -|+|-
T Consensus 8 vp~pD~~lP~SFDsD~p~hRYR~Le~~~q~lvRPVld 44 (273)
T PF11886_consen 8 VPMPDMALPPSFDSDNPAHRYRCLEPTSQWLVRPVLD 44 (273)
T ss_pred ecCCcccCCCCcCCCCCceeeEeecCccceeEeeccc
Confidence 44444444443 469999999965333 2 25553
No 18
>PRK05198 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=30.07 E-value=13 Score=37.28 Aligned_cols=36 Identities=33% Similarity=0.526 Sum_probs=25.8
Q ss_pred cccC-CCchhhhHHhhhhccccccccc-cccccCCCcc
Q psy9180 420 ILTD-PTHRSYTQVLLLTEFVPIMTEF-VPILTDPTHR 455 (491)
Q Consensus 420 ~~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 455 (491)
||++ |..+.|++-.+=---||+|.++ +|++.||||-
T Consensus 156 ilcERG~tf~y~r~~~D~~~vp~~k~~~lPVi~DpSHs 193 (264)
T PRK05198 156 ILCERGTSFGYNNLVVDMRGLPIMRETGAPVIFDATHS 193 (264)
T ss_pred EEEeCCCCcCCCCeeechhhhHHHhhCCCCEEEeCCcc
Confidence 3444 4445666655555568999988 9999999994
No 19
>TIGR01362 KDO8P_synth 3-deoxy-8-phosphooctulonate synthase. In Gram-negative bacteria, this is the first step in the biosynthesis of 3-deoxy-D-manno-octulosonate, part of the oligosaccharide core of lipopolysaccharide.
Probab=26.03 E-value=17 Score=36.36 Aligned_cols=32 Identities=31% Similarity=0.553 Sum_probs=23.2
Q ss_pred CCchhhhHHhhhhccccccccc-cccccCCCcc
Q psy9180 424 PTHRSYTQVLLLTEFVPIMTEF-VPILTDPTHR 455 (491)
Q Consensus 424 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 455 (491)
|....|++-.+=---||+|.++ .|++.||||-
T Consensus 153 G~tf~y~r~~~D~~~ip~~k~~~~PVi~DpSHs 185 (258)
T TIGR01362 153 GTSFGYNNLVVDMRSLPIMRELGCPVIFDATHS 185 (258)
T ss_pred CCCcCCCCcccchhhhHHHHhcCCCEEEeCCcc
Confidence 4434566654444568999988 9999999994
No 20
>PLN03033 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=22.87 E-value=23 Score=35.95 Aligned_cols=36 Identities=22% Similarity=0.378 Sum_probs=26.7
Q ss_pred cccC-CCchhhhHHhhhhccccccccc-cccccCCCcc
Q psy9180 420 ILTD-PTHRSYTQVLLLTEFVPIMTEF-VPILTDPTHR 455 (491)
Q Consensus 420 ~~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 455 (491)
||+. |....|++-.+=---||+|.++ +|++.||||-
T Consensus 162 iLcERG~tFgy~~lv~D~r~ip~mk~~~lPVI~DpSHs 199 (290)
T PLN03033 162 MVCERGTMFGYNDLIVDPRNLEWMREANCPVVADITHS 199 (290)
T ss_pred EEEeCCCCcCCCCcccchhhhHHHHhcCCCEEEeCCcc
Confidence 3444 5555677666666678999987 7999999994
Done!