Query psy8593
Match_columns 204
No_of_seqs 243 out of 1123
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 22:45:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8593.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8593hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06222 RnaseH RNase H (RNase 98.2 3E-06 6.5E-11 61.9 4.9 84 72-160 37-128 (130)
2 PF13456 RVT_3: Reverse transc 97.6 6.2E-05 1.3E-09 53.2 3.9 79 77-160 2-83 (87)
3 PF00075 RNase_H: RNase H; In 95.9 0.0079 1.7E-07 45.7 3.3 79 73-159 37-128 (132)
4 PRK13907 rnhA ribonuclease H; 95.9 0.0095 2.1E-07 45.9 3.8 82 74-162 39-125 (128)
5 PRK07708 hypothetical protein; 93.8 0.083 1.8E-06 45.4 4.2 86 74-163 116-207 (219)
6 PRK07238 bifunctional RNase H/ 92.3 0.14 3.1E-06 46.5 3.6 82 74-161 43-129 (372)
7 PRK06548 ribonuclease H; Provi 91.6 0.23 5E-06 40.7 3.8 81 75-161 41-139 (161)
8 PRK00203 rnhA ribonuclease H; 91.1 0.12 2.6E-06 41.2 1.6 81 75-162 42-140 (150)
9 COG0328 RnhA Ribonuclease HI [ 90.9 0.24 5.2E-06 40.6 3.2 84 74-162 41-143 (154)
10 PRK08719 ribonuclease H; Revie 83.0 1.3 2.7E-05 35.6 3.1 78 74-160 48-143 (147)
11 KOG3752|consensus 65.3 8 0.00017 35.9 3.8 82 78-161 258-362 (371)
12 PF00336 DNA_pol_viral_C: DNA 33.3 1E+02 0.0023 26.8 5.2 77 70-163 119-196 (245)
13 PF14918 MTBP_N: MDM2-binding 20.3 1E+02 0.0022 27.4 2.9 29 78-108 175-203 (271)
No 1
>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=98.17 E-value=3e-06 Score=61.95 Aligned_cols=84 Identities=18% Similarity=0.122 Sum_probs=65.0
Q ss_pred hcCChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhcccc---ccchhHHHHHHHHh-cCCceEEEeeCC--
Q psy8593 72 TSLAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKKDLY---KIQNNRLKRLKIKL-FPYQFELKYLPG-- 145 (204)
Q Consensus 72 ~~Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k~~~---k~~~~Rl~RW~~~L-~~yd~~I~y~~G-- 145 (204)
..++..+.|+.|+++|++... ...+ .++.|+||++.+...+++... ......+..+...+ ...++.|.|++|
T Consensus 37 ~~~s~~~aEl~al~~al~~~~-~~~~-~~i~i~~Ds~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~ 114 (130)
T cd06222 37 GNTTNNRAELLALIEALELAL-ELGG-KKVNIYTDSQYVINALTGWYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHS 114 (130)
T ss_pred CCCcHHHHHHHHHHHHHHHHH-hCCC-ceEEEEECHHHHHHHhhccccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCC
Confidence 468889999999999999976 4555 899999999999988875321 22223344444555 667899999999
Q ss_pred --CccccCCCCCccccc
Q psy8593 146 --KYMHIAELADYLSRN 160 (204)
Q Consensus 146 --k~n~vA~~~DaLSR~ 160 (204)
..|..| |.|+|.
T Consensus 115 ~~~~n~~a---d~la~~ 128 (130)
T cd06222 115 GIEGNERA---DALAKE 128 (130)
T ss_pred CCcchHHH---HHHHHh
Confidence 999999 999874
No 2
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=97.65 E-value=6.2e-05 Score=53.20 Aligned_cols=79 Identities=15% Similarity=0.155 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhccc--cccchhHHHHHHHHhcCC-ceEEEeeCCCccccCCC
Q psy8593 77 PRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKKDL--YKIQNNRLKRLKIKLFPY-QFELKYLPGKYMHIAEL 153 (204)
Q Consensus 77 ~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k~~--~k~~~~Rl~RW~~~L~~y-d~~I~y~~Gk~n~vA~~ 153 (204)
.+-|++|+.+|++.-... |.+++++.||++.+...+++.. .......+..+...+..| ++.+.|++...|..|
T Consensus 2 ~~aE~~al~~al~~a~~~--g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r~~N~~A-- 77 (87)
T PF13456_consen 2 LEAEALALLEALQLAWEL--GIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPREQNKVA-- 77 (87)
T ss_dssp HHHHHHHHHHHHHHHHCC--T-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--GGGSHHH--
T ss_pred cHHHHHHHHHHHHHHHHC--CCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEEChHHhHHH--
Confidence 578999999999997543 4368999999999998886431 123334455566667776 489999999999999
Q ss_pred CCccccc
Q psy8593 154 ADYLSRN 160 (204)
Q Consensus 154 ~DaLSR~ 160 (204)
|.|+|.
T Consensus 78 -~~LA~~ 83 (87)
T PF13456_consen 78 -DALAKF 83 (87)
T ss_dssp -HHHHHH
T ss_pred -HHHHHH
Confidence 999874
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=95.93 E-value=0.0079 Score=45.73 Aligned_cols=79 Identities=22% Similarity=0.256 Sum_probs=51.5
Q ss_pred cCChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhc-----cccccchh-HHHH--HHHHhcCCceEEEeeC
Q psy8593 73 SLAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKK-----DLYKIQNN-RLKR--LKIKLFPYQFELKYLP 144 (204)
Q Consensus 73 ~Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k-----~~~k~~~~-Rl~R--W~~~L~~yd~~I~y~~ 144 (204)
..+..+-|+.||+.||+.+ .. .+++|+||.+.+...+++ ........ .+.. |......-.+.|+|+|
T Consensus 37 ~~s~~~aEl~Ai~~AL~~~----~~-~~v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~ 111 (132)
T PF00075_consen 37 GQSNNRAELQAIIEALKAL----EH-RKVTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVP 111 (132)
T ss_dssp SECHHHHHHHHHHHHHHTH----ST-SEEEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESS
T ss_pred ccchhhhheehHHHHHHHh----hc-ccccccccHHHHHHHHHHhccccccccccccccchhheeeccccceEEeeeecc
Confidence 5677899999999999954 34 789999999999774432 11111112 1222 2222455679999999
Q ss_pred CCccc-----cCCCCCcccc
Q psy8593 145 GKYMH-----IAELADYLSR 159 (204)
Q Consensus 145 Gk~n~-----vA~~~DaLSR 159 (204)
|..+. .| |-|.|
T Consensus 112 ~H~~~~~~N~~a---D~lAk 128 (132)
T PF00075_consen 112 GHSGVPQGNERA---DRLAK 128 (132)
T ss_dssp SSSSSHHHHHHH---HHHHH
T ss_pred CcCCCchhHHHH---HHHHH
Confidence 98655 45 77765
No 4
>PRK13907 rnhA ribonuclease H; Provisional
Probab=95.92 E-value=0.0095 Score=45.86 Aligned_cols=82 Identities=16% Similarity=0.177 Sum_probs=57.7
Q ss_pred CChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhccccccchhHHHH----HHHHhcCCceE-EEeeCCCcc
Q psy8593 74 LAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKKDLYKIQNNRLKR----LKIKLFPYQFE-LKYLPGKYM 148 (204)
Q Consensus 74 Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k~~~k~~~~Rl~R----W~~~L~~yd~~-I~y~~Gk~n 148 (204)
++..+-|+.|++.||+.....=. .++.++||.+-+...+++...+. ..+.. -...+..|+.. +.|+|+..|
T Consensus 39 ~tn~~AE~~All~aL~~a~~~g~--~~v~i~sDS~~vi~~~~~~~~~~--~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N 114 (128)
T PRK13907 39 MSNHEAEYHALLAALKYCTEHNY--NIVSFRTDSQLVERAVEKEYAKN--KMFAPLLEEALQYIKSFDLFFIKWIPSSQN 114 (128)
T ss_pred cCCcHHHHHHHHHHHHHHHhCCC--CEEEEEechHHHHHHHhHHHhcC--hhHHHHHHHHHHHHhcCCceEEEEcCchhc
Confidence 56678899999999998654322 47999999999988776422111 12222 22335777644 599999999
Q ss_pred ccCCCCCcccccCc
Q psy8593 149 HIAELADYLSRNLL 162 (204)
Q Consensus 149 ~vA~~~DaLSR~~~ 162 (204)
..| |.|+|.-.
T Consensus 115 ~~A---d~LA~~a~ 125 (128)
T PRK13907 115 KVA---DELARKAI 125 (128)
T ss_pred hhH---HHHHHHHH
Confidence 999 99988543
No 5
>PRK07708 hypothetical protein; Validated
Probab=93.82 E-value=0.083 Score=45.36 Aligned_cols=86 Identities=17% Similarity=0.091 Sum_probs=60.7
Q ss_pred CChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhccccccchhHHHHHHH----HhcCCc--eEEEeeCCCc
Q psy8593 74 LAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKKDLYKIQNNRLKRLKI----KLFPYQ--FELKYLPGKY 147 (204)
Q Consensus 74 Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k~~~k~~~~Rl~RW~~----~L~~yd--~~I~y~~Gk~ 147 (204)
.+..+-|..|++.|++.-...=....+++|++|.+-+...+++. .+..++.+..|.. .+.+|. +.+.|++.+.
T Consensus 116 ~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSqlVi~qi~g~-wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~~ 194 (219)
T PRK07708 116 YDNNEAEYAALYYAMQELEELGVKHEPVTFRGDSQVVLNQLAGE-WPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRKQ 194 (219)
T ss_pred ccCcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHHHHHHhCCC-ceeCChhHHHHHHHHHHHHhhCCceEEEEECCchh
Confidence 35567799999999998755433212489999999998777643 2333445666643 345665 5678999999
Q ss_pred cccCCCCCcccccCcc
Q psy8593 148 MHIAELADYLSRNLLV 163 (204)
Q Consensus 148 n~vA~~~DaLSR~~~~ 163 (204)
|..| |.|++..+.
T Consensus 195 N~~A---D~LAk~Al~ 207 (219)
T PRK07708 195 NKEA---DQLATQALE 207 (219)
T ss_pred hhHH---HHHHHHHHh
Confidence 9999 999876544
No 6
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=92.32 E-value=0.14 Score=46.48 Aligned_cols=82 Identities=13% Similarity=0.150 Sum_probs=58.5
Q ss_pred CChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhccccccchhHHHHHH----HHhcCC-ceEEEeeCCCcc
Q psy8593 74 LAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKKDLYKIQNNRLKRLK----IKLFPY-QFELKYLPGKYM 148 (204)
Q Consensus 74 Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k~~~k~~~~Rl~RW~----~~L~~y-d~~I~y~~Gk~n 148 (204)
.+..+-|+.|+++||+..... -. +.++|+||.+.+...+++. .+..+..+.... ..++.| .+.|.|+++..|
T Consensus 43 ~tnn~AE~~All~gL~~a~~~-g~-~~v~i~~DS~lvi~~i~~~-~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r~~N 119 (372)
T PRK07238 43 ATNNVAEYRGLIAGLEAAAEL-GA-TEVEVRMDSKLVVEQMSGR-WKVKHPDMKPLAAQARELASQFGRVTYTWIPRARN 119 (372)
T ss_pred CCchHHHHHHHHHHHHHHHhC-CC-CeEEEEeCcHHHHHHhCCC-CccCChHHHHHHHHHHHHHhcCCceEEEECCchhh
Confidence 444578999999999987544 23 6899999999988777642 122233444332 334665 488999999999
Q ss_pred ccCCCCCcccccC
Q psy8593 149 HIAELADYLSRNL 161 (204)
Q Consensus 149 ~vA~~~DaLSR~~ 161 (204)
..| |.|.+..
T Consensus 120 ~~A---D~LA~~a 129 (372)
T PRK07238 120 AHA---DRLANEA 129 (372)
T ss_pred hHH---HHHHHHH
Confidence 999 9998754
No 7
>PRK06548 ribonuclease H; Provisional
Probab=91.60 E-value=0.23 Score=40.75 Aligned_cols=81 Identities=15% Similarity=0.123 Sum_probs=51.5
Q ss_pred ChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhc-------cccc----c--chhHHHHHH-HHhcCCceEE
Q psy8593 75 AIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKK-------DLYK----I--QNNRLKRLK-IKLFPYQFEL 140 (204)
Q Consensus 75 s~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k-------~~~k----~--~~~Rl~RW~-~~L~~yd~~I 140 (204)
+.-+-|+.|++.|++.... .+ .++.|+||-+-+..-+++ .-.+ . .|.-+-+.+ ..++...++|
T Consensus 41 TNnraEl~Aii~aL~~~~~--~~-~~v~I~TDS~yvi~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~ 117 (161)
T PRK06548 41 TNNIAELTAVRELLIATRH--TD-RPILILSDSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRM 117 (161)
T ss_pred CHHHHHHHHHHHHHHhhhc--CC-ceEEEEeChHHHHHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEE
Confidence 3456799999999975432 23 679999999888666542 0011 1 122222222 2345668999
Q ss_pred EeeCCCc----cccCCCCCcccccC
Q psy8593 141 KYLPGKY----MHIAELADYLSRNL 161 (204)
Q Consensus 141 ~y~~Gk~----n~vA~~~DaLSR~~ 161 (204)
.+++|.. |-.| |.|.|..
T Consensus 118 ~wVkgHsg~~gNe~a---D~LA~~a 139 (161)
T PRK06548 118 SWVNAHTGHPLNEAA---DSLARQA 139 (161)
T ss_pred EEEecCCCCHHHHHH---HHHHHHH
Confidence 9999865 7677 9988753
No 8
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=91.12 E-value=0.12 Score=41.19 Aligned_cols=81 Identities=21% Similarity=0.137 Sum_probs=48.9
Q ss_pred ChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhc-------ccccc------chhHH-HHHHHHhcCCceEE
Q psy8593 75 AIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKK-------DLYKI------QNNRL-KRLKIKLFPYQFEL 140 (204)
Q Consensus 75 s~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k-------~~~k~------~~~Rl-~RW~~~L~~yd~~I 140 (204)
+...-|+.|++.||+... .. ..+.|+||.+.+..-+++ ...+. .|..+ .+-...+..-.+.+
T Consensus 42 TN~~aEL~Ai~~AL~~~~---~~-~~v~I~tDS~yvi~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~~~v~~ 117 (150)
T PRK00203 42 TNNRMELMAAIEALEALK---EP-CEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKRHQIKW 117 (150)
T ss_pred cHHHHHHHHHHHHHHHcC---CC-CeEEEEECHHHHHHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhccCceEE
Confidence 345689999999998653 24 679999998655433321 00011 11111 12222345567899
Q ss_pred EeeCCCc----cccCCCCCcccccCc
Q psy8593 141 KYLPGKY----MHIAELADYLSRNLL 162 (204)
Q Consensus 141 ~y~~Gk~----n~vA~~~DaLSR~~~ 162 (204)
.++||.. |-.| |.|.|...
T Consensus 118 ~wV~~H~~~~~N~~A---D~lA~~a~ 140 (150)
T PRK00203 118 HWVKGHAGHPENERC---DELARAGA 140 (150)
T ss_pred EEecCCCCCHHHHHH---HHHHHHHH
Confidence 9999765 6677 98887543
No 9
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=90.94 E-value=0.24 Score=40.56 Aligned_cols=84 Identities=18% Similarity=0.140 Sum_probs=55.2
Q ss_pred CChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhhccc--ccc-----------chhH-HHHHHHHhcCC-ce
Q psy8593 74 LAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINKKDL--YKI-----------QNNR-LKRLKIKLFPY-QF 138 (204)
Q Consensus 74 Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~k~~--~k~-----------~~~R-l~RW~~~L~~y-d~ 138 (204)
-+--+-|+.|++.||+..+. .|...++|+||.+-+..-++.=+ .+. .|.. ..+-...+..+ .+
T Consensus 41 tTNNraEl~A~i~AL~~l~~--~~~~~v~l~tDS~yv~~~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v 118 (154)
T COG0328 41 TTNNRAELRALIEALEALKE--LGACEVTLYTDSKYVVEGITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELV 118 (154)
T ss_pred ccChHHHHHHHHHHHHHHHh--cCCceEEEEecHHHHHHHHHHHHhhccccCccccccCccccHHHHHHHHHHHhhCCeE
Confidence 34457899999999999887 34488999999987754433100 000 0111 33334556778 88
Q ss_pred EEEeeCC----CccccCCCCCcccccCc
Q psy8593 139 ELKYLPG----KYMHIAELADYLSRNLL 162 (204)
Q Consensus 139 ~I~y~~G----k~n~vA~~~DaLSR~~~ 162 (204)
.++.++| ..|-.| |.|.|.-.
T Consensus 119 ~~~WVkgH~g~~~Nera---D~LA~~~~ 143 (154)
T COG0328 119 FWEWVKGHAGHPENERA---DQLAREAA 143 (154)
T ss_pred EEEEeeCCCCChHHHHH---HHHHHHHH
Confidence 9999995 456677 88877543
No 10
>PRK08719 ribonuclease H; Reviewed
Probab=82.96 E-value=1.3 Score=35.59 Aligned_cols=78 Identities=14% Similarity=0.034 Sum_probs=48.1
Q ss_pred CChhHHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhh-------ccccc------cchhHHHHHHHHh-cCCceE
Q psy8593 74 LAIPRDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINK-------KDLYK------IQNNRLKRLKIKL-FPYQFE 139 (204)
Q Consensus 74 Ys~~EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~-------k~~~k------~~~~Rl~RW~~~L-~~yd~~ 139 (204)
-+..+-|+.|++.||+... ....|+||.+-...-++ +.-.+ ..|.-+-+.+..| +.-+++
T Consensus 48 ~Tnn~aEl~A~~~aL~~~~------~~~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~~~i~ 121 (147)
T PRK08719 48 TDNAELELLALIEALEYAR------DGDVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRARKYVE 121 (147)
T ss_pred ccHHHHHHHHHHHHHHHcC------CCCEEEechHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCCCcEE
Confidence 3556789999999998753 23489999966544331 10011 1122233334433 445688
Q ss_pred EEeeCC----CccccCCCCCccccc
Q psy8593 140 LKYLPG----KYMHIAELADYLSRN 160 (204)
Q Consensus 140 I~y~~G----k~n~vA~~~DaLSR~ 160 (204)
++|+|| ..|..| |.|.|.
T Consensus 122 ~~~VkgH~g~~~Ne~a---D~lA~~ 143 (147)
T PRK08719 122 VEKVTAHSGIEGNEAA---DMLAQA 143 (147)
T ss_pred EEEecCCCCChhHHHH---HHHHHH
Confidence 999999 457777 888764
No 11
>KOG3752|consensus
Probab=65.26 E-value=8 Score=35.95 Aligned_cols=82 Identities=20% Similarity=0.165 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCccceecccCCcchhHhhh-------c-cc-----cc-----cch-hHHHHHHHHhcC---
Q psy8593 78 RDELAGFRSEATEFCYYVYGHRNIVVQTDHQPLLAINK-------K-DL-----YK-----IQN-NRLKRLKIKLFP--- 135 (204)
Q Consensus 78 EkEllAIv~al~kfr~yL~G~~~f~V~TDHk~L~~l~~-------k-~~-----~k-----~~~-~Rl~RW~~~L~~--- 135 (204)
.-|+.||..||++-+.-.. .+++|.||..-+...++ + +. .. ..+ .-....-..+++
T Consensus 258 rAEl~Av~~ALkka~~~~~--~kv~I~TDS~~~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~ 335 (371)
T KOG3752|consen 258 RAELIAAIEALKKARSKNI--NKVVIRTDSEYFINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISN 335 (371)
T ss_pred HHHHHHHHHHHHHHHhcCC--CcEEEEechHHHHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhcc
Confidence 5799999999999654332 48999999987754432 0 00 01 000 011122233444
Q ss_pred CceEEEeeCCCccc-cCCCCCcccccC
Q psy8593 136 YQFELKYLPGKYMH-IAELADYLSRNL 161 (204)
Q Consensus 136 yd~~I~y~~Gk~n~-vA~~~DaLSR~~ 161 (204)
-.+.+.|.+|...+ ..++||.|+|..
T Consensus 336 ~~vq~~~V~Gh~gi~gne~Ad~lARkg 362 (371)
T KOG3752|consen 336 KKVQQEYVGGHSGILGNEMADALARKG 362 (371)
T ss_pred CceEEEEecCcCCcchHHHHHHHHhhh
Confidence 78899999986421 223339999865
No 12
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein. The domain is always associated with IPR000201 from INTERPRO and .; GO: 0004523 ribonuclease H activity
Probab=33.35 E-value=1e+02 Score=26.78 Aligned_cols=77 Identities=22% Similarity=0.188 Sum_probs=45.5
Q ss_pred hhhcCChhHHHHHHHHHHHHHHHHhhcCc-cceecccCCcchhHhhhccccccchhHHHHHHHHhcCCceEEEeeCCCcc
Q psy8593 70 FSTSLAIPRDELAGFRSEATEFCYYVYGH-RNIVVQTDHQPLLAINKKDLYKIQNNRLKRLKIKLFPYQFELKYLPGKYM 148 (204)
Q Consensus 70 ~~~~Ys~~EkEllAIv~al~kfr~yL~G~-~~f~V~TDHk~L~~l~~k~~~k~~~~Rl~RW~~~L~~yd~~I~y~~Gk~n 148 (204)
|+.-..+.-.|+||..+|--.-..=+.|+ +.|.+.--..++-|++. -.++|++. ...+.|.|.+-|
T Consensus 119 fs~~l~IhtaELlaaClAr~~~~~r~l~tDnt~Vlsrkyts~PW~la---------c~A~wiLr----gts~~yVPS~~N 185 (245)
T PF00336_consen 119 FSKPLPIHTAELLAACLARLMSGARCLGTDNTVVLSRKYTSFPWLLA---------CAANWILR----GTSFYYVPSKYN 185 (245)
T ss_pred ecccccchHHHHHHHHHHHhccCCcEEeecCcEEEecccccCcHHHH---------HHHHHhhc----CceEEEeccccC
Confidence 34445666789999887765443333342 23333333334444432 45667653 455679999999
Q ss_pred ccCCCCCcccccCcc
Q psy8593 149 HIAELADYLSRNLLV 163 (204)
Q Consensus 149 ~vA~~~DaLSR~~~~ 163 (204)
. | |.-||....
T Consensus 186 P-A---D~PsR~~~~ 196 (245)
T PF00336_consen 186 P-A---DDPSRGKLG 196 (245)
T ss_pred c-C---CCCCCCccc
Confidence 7 7 998886644
No 13
>PF14918 MTBP_N: MDM2-binding
Probab=20.32 E-value=1e+02 Score=27.43 Aligned_cols=29 Identities=10% Similarity=0.095 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHhhcCccceecccCCc
Q psy8593 78 RDELAGFRSEATEFCYYVYGHRNIVVQTDHQ 108 (204)
Q Consensus 78 EkEllAIv~al~kfr~yL~G~~~f~V~TDHk 108 (204)
=|.||-++-|++|.+.|--. +++|.|.|.
T Consensus 175 lkDcLp~iGALKhl~eWhsA--kiti~t~~~ 203 (271)
T PF14918_consen 175 LKDCLPLIGALKHLREWHSA--KITIATSHC 203 (271)
T ss_pred HHHHHHHHHHHHHHHHhhhc--eEEEecccc
Confidence 48999999999999988644 899999995
Done!