Query psy10264
Match_columns 426
No_of_seqs 299 out of 1779
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 22:02:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10264.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10264hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK08719 ribonuclease H; Revie 99.9 4.6E-21 1E-25 170.0 12.0 121 185-337 3-146 (147)
2 PRK06548 ribonuclease H; Provi 99.9 6.2E-21 1.3E-25 171.0 12.6 125 185-338 4-142 (161)
3 PF00075 RNase_H: RNase H; In 99.8 1.5E-21 3.2E-26 169.0 7.3 117 185-336 2-131 (132)
4 COG0328 RnhA Ribonuclease HI [ 99.8 1.3E-20 2.9E-25 166.3 12.0 126 186-339 3-146 (154)
5 PRK00203 rnhA ribonuclease H; 99.8 4E-20 8.6E-25 164.8 10.5 124 186-340 3-144 (150)
6 cd06222 RnaseH RNase H (RNase 99.7 2.5E-17 5.3E-22 138.7 13.7 122 188-336 1-130 (130)
7 PRK13907 rnhA ribonuclease H; 99.7 7.1E-16 1.5E-20 133.5 10.6 119 187-337 2-126 (128)
8 KOG3752|consensus 99.6 1.2E-15 2.6E-20 150.1 10.9 125 186-337 212-364 (371)
9 PRK07708 hypothetical protein; 99.5 1.5E-13 3.3E-18 129.5 12.3 129 181-338 68-208 (219)
10 PRK07238 bifunctional RNase H/ 99.4 3E-12 6.4E-17 130.5 12.7 120 186-337 2-131 (372)
11 PF13456 RVT_3: Reverse transc 99.1 1.9E-10 4.2E-15 91.7 6.6 85 221-336 1-85 (87)
12 PF02022 Integrase_Zn: Integra 89.7 0.12 2.7E-06 35.3 0.5 38 356-407 3-40 (40)
13 PF05380 Peptidase_A17: Pao re 58.5 19 0.00041 32.1 5.0 55 185-241 80-146 (159)
14 PF00336 DNA_pol_viral_C: DNA 57.9 9.3 0.0002 35.7 2.8 44 188-235 96-139 (245)
15 KOG1812|consensus 43.6 68 0.0015 33.1 6.9 90 219-338 47-138 (384)
16 COG0296 GlgB 1,4-alpha-glucan 41.6 34 0.00073 37.6 4.4 35 294-328 213-247 (628)
No 1
>PRK08719 ribonuclease H; Reviewed
Probab=99.85 E-value=4.6e-21 Score=170.01 Aligned_cols=121 Identities=24% Similarity=0.347 Sum_probs=95.3
Q ss_pred CCceeeccCCCCCC-----cceEEEEEcce------eeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy10264 185 FDTLCFTDGSKTSD-----HTGAAYIIGDE------VCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEK 253 (426)
Q Consensus 185 ~~~~iytDgS~~~~-----~~G~g~v~~~~------~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~ 253 (426)
..+.||||||+..+ ..|+|+++... ..+..+....|+++||+.|+..||+.+.+
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~--------------- 67 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARD--------------- 67 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCC---------------
Confidence 46799999999753 35999987421 23445656689999999999999998742
Q ss_pred HHhhhhhhhhhhcccceEEEEecCHHHHHHH--------HccCCCC---HH-HHHHHHHHHHHHhcCCeEEEEEecCCCC
Q psy10264 254 CLEKIKDLIRTELILQNFIICSDSKSSLQAL--------QNVYHAS---PL-VCNIISTIQDIRELGTRVSFFWIPSHLG 321 (426)
Q Consensus 254 ~~~~~~~~~~~~~~~~~v~I~tDs~~al~~l--------~~~~~~s---~~-~~~i~~~~~~l~~~~~~v~~~WVPgH~g 321 (426)
...|+|||++|++++ ++++..+ ++ -.++++.+..|.. ...|+|.|||||+|
T Consensus 68 ----------------~~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g 130 (147)
T PRK08719 68 ----------------GDVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVTAHSG 130 (147)
T ss_pred ----------------CCEEEechHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEecCCCC
Confidence 137999999999999 5666544 22 2677888877765 56799999999999
Q ss_pred CccchHHhHHHhcccC
Q psy10264 322 IRENENVDHAARHCND 337 (426)
Q Consensus 322 i~gNe~AD~lAk~a~~ 337 (426)
++|||.||+||+.|++
T Consensus 131 ~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 131 IEGNEAADMLAQAAAE 146 (147)
T ss_pred ChhHHHHHHHHHHHhh
Confidence 9999999999999874
No 2
>PRK06548 ribonuclease H; Provisional
Probab=99.85 E-value=6.2e-21 Score=170.95 Aligned_cols=125 Identities=24% Similarity=0.352 Sum_probs=96.1
Q ss_pred CCceeeccCCCCC--CcceEEEEEcceeeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhh
Q psy10264 185 FDTLCFTDGSKTS--DHTGAAYIIGDEVCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKDLI 262 (426)
Q Consensus 185 ~~~~iytDgS~~~--~~~G~g~v~~~~~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (426)
..+.||||||+.+ +..|+|+++.+..........+|++.||+.|++.||+.+..
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~~~~~g~~~~~TNnraEl~Aii~aL~~~~~------------------------ 59 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDENTWDSGGWDIATNNIAELTAVRELLIATRH------------------------ 59 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCCcEEccCCCCCCHHHHHHHHHHHHHHhhhc------------------------
Confidence 4589999999875 46889988854322112224679999999999999975532
Q ss_pred hhhcccceEEEEecCHHHHHHHHc--------cCCCC---HHH-HHHHHHHHHHHhcCCeEEEEEecCCCCCccchHHhH
Q psy10264 263 RTELILQNFIICSDSKSSLQALQN--------VYHAS---PLV-CNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDH 330 (426)
Q Consensus 263 ~~~~~~~~v~I~tDs~~al~~l~~--------~~~~s---~~~-~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~ 330 (426)
....+.|+|||++|++++.. .+..+ |+. +++++.+.++... ..|+|.|||||+|++|||.||+
T Consensus 60 ----~~~~v~I~TDS~yvi~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~ 134 (161)
T PRK06548 60 ----TDRPILILSDSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADS 134 (161)
T ss_pred ----CCceEEEEeChHHHHHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHH
Confidence 12569999999999999984 33332 443 7788888877665 4799999999999999999999
Q ss_pred HHhcccCC
Q psy10264 331 AARHCNDV 338 (426)
Q Consensus 331 lAk~a~~~ 338 (426)
||++|+..
T Consensus 135 LA~~aa~~ 142 (161)
T PRK06548 135 LARQAANN 142 (161)
T ss_pred HHHHHHHH
Confidence 99998854
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=99.85 E-value=1.5e-21 Score=169.02 Aligned_cols=117 Identities=30% Similarity=0.482 Sum_probs=89.5
Q ss_pred CCceeeccCCCCC--CcceEEEEEc-ceeeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhh
Q psy10264 185 FDTLCFTDGSKTS--DHTGAAYIIG-DEVCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKDL 261 (426)
Q Consensus 185 ~~~~iytDgS~~~--~~~G~g~v~~-~~~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (426)
..+.||||||... +..|+|+++. +...+..++ ..+++.||+.|+..||+.+ . .
T Consensus 2 ~~~~iytDgS~~~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~--~-------------------- 57 (132)
T PF00075_consen 2 KAIIIYTDGSCRPNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL-E--H-------------------- 57 (132)
T ss_dssp TSEEEEEEEEECTTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH-S--T--------------------
T ss_pred CcEEEEEeCCccCCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh-h--c--------------------
Confidence 3689999999663 4568888664 333444455 8899999999999999943 2 1
Q ss_pred hhhhcccceEEEEecCHHHHHHHHc-----cCCCC----HHHHHHHHHHHHHHhcCCeEEEEEecCCCCC-ccchHHhHH
Q psy10264 262 IRTELILQNFIICSDSKSSLQALQN-----VYHAS----PLVCNIISTIQDIRELGTRVSFFWIPSHLGI-RENENVDHA 331 (426)
Q Consensus 262 ~~~~~~~~~v~I~tDs~~al~~l~~-----~~~~s----~~~~~i~~~~~~l~~~~~~v~~~WVPgH~gi-~gNe~AD~l 331 (426)
..++|+|||++++..|.. .+... ++..+|++.+ ..+..|.|+|||||+|+ .|||.||+|
T Consensus 58 -------~~v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~----~~~~~v~~~~V~~H~~~~~~N~~aD~l 126 (132)
T PF00075_consen 58 -------RKVTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELL----SRGIKVRFRWVPGHSGVPQGNERADRL 126 (132)
T ss_dssp -------SEEEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHH----HHSSEEEEEESSSSSSSHHHHHHHHHH
T ss_pred -------ccccccccHHHHHHHHHHhccccccccccccccchhheeecc----ccceEEeeeeccCcCCCchhHHHHHHH
Confidence 779999999999998877 44322 3455554444 66899999999999999 699999999
Q ss_pred Hhccc
Q psy10264 332 ARHCN 336 (426)
Q Consensus 332 Ak~a~ 336 (426)
||+|+
T Consensus 127 Ak~a~ 131 (132)
T PF00075_consen 127 AKEAA 131 (132)
T ss_dssp HHHHH
T ss_pred HHHhc
Confidence 99986
No 4
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.84 E-value=1.3e-20 Score=166.29 Aligned_cols=126 Identities=24% Similarity=0.304 Sum_probs=102.2
Q ss_pred CceeeccCCCCC--CcceEEEEEc--c-e-eeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhh
Q psy10264 186 DTLCFTDGSKTS--DHTGAAYIIG--D-E-VCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIK 259 (426)
Q Consensus 186 ~~~iytDgS~~~--~~~G~g~v~~--~-~-~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (426)
.+.||||||+.. |..|+|+|+. + + ..+.... .+|++.||+.|++.||+.+.....
T Consensus 3 ~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~------------------ 63 (154)
T COG0328 3 KVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGA------------------ 63 (154)
T ss_pred ceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCC------------------
Confidence 578999999875 4689999984 2 2 2444555 889999999999999999987443
Q ss_pred hhhhhhcccceEEEEecCHHHHHHHHcc--------CCCC---H-HHHHHHHHHHHHHhcCCeEEEEEecCCCCCccchH
Q psy10264 260 DLIRTELILQNFIICSDSKSSLQALQNV--------YHAS---P-LVCNIISTIQDIRELGTRVSFFWIPSHLGIRENEN 327 (426)
Q Consensus 260 ~~~~~~~~~~~v~I~tDs~~al~~l~~~--------~~~s---~-~~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~ 327 (426)
..|.|+|||++|++.|... +..+ | ...++++.+.++......|.+.|||||.|.++||.
T Consensus 64 ---------~~v~l~tDS~yv~~~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~Ner 134 (154)
T COG0328 64 ---------CEVTLYTDSKYVVEGITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENER 134 (154)
T ss_pred ---------ceEEEEecHHHHHHHHHHHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHH
Confidence 7899999999999999832 1111 2 24678888888888888999999999999999999
Q ss_pred HhHHHhcccCCC
Q psy10264 328 VDHAARHCNDVP 339 (426)
Q Consensus 328 AD~lAk~a~~~~ 339 (426)
||+||+.|++..
T Consensus 135 aD~LA~~~~~~~ 146 (154)
T COG0328 135 ADQLAREAARAA 146 (154)
T ss_pred HHHHHHHHHHhh
Confidence 999999998653
No 5
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.82 E-value=4e-20 Score=164.82 Aligned_cols=124 Identities=20% Similarity=0.295 Sum_probs=93.4
Q ss_pred CceeeccCCCCC--CcceEEEEEc--cee--eeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhh
Q psy10264 186 DTLCFTDGSKTS--DHTGAAYIIG--DEV--CSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIK 259 (426)
Q Consensus 186 ~~~iytDgS~~~--~~~G~g~v~~--~~~--~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (426)
.+.||||||+.. +..|+|+|+. +.. .+... ...|++.|||.|+..||+.+..
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~~~-~~~TN~~aEL~Ai~~AL~~~~~--------------------- 60 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELSGGE-ALTTNNRMELMAAIEALEALKE--------------------- 60 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCeeEEEecCC-CCCcHHHHHHHHHHHHHHHcCC---------------------
Confidence 478999999874 4688888884 221 22223 4678999999999999997632
Q ss_pred hhhhhhcccceEEEEecCHHHHHHHHc--------cCCCC---HH-HHHHHHHHHHHHhcCCeEEEEEecCCCCCccchH
Q psy10264 260 DLIRTELILQNFIICSDSKSSLQALQN--------VYHAS---PL-VCNIISTIQDIRELGTRVSFFWIPSHLGIRENEN 327 (426)
Q Consensus 260 ~~~~~~~~~~~v~I~tDs~~al~~l~~--------~~~~s---~~-~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~ 327 (426)
...+.|+|||+++++.|.. .+..+ ++ -.++++.+.++.. ...|.|.|||||+|++|||.
T Consensus 61 --------~~~v~I~tDS~yvi~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~-~~~v~~~wV~~H~~~~~N~~ 131 (150)
T PRK00203 61 --------PCEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALK-RHQIKWHWVKGHAGHPENER 131 (150)
T ss_pred --------CCeEEEEECHHHHHHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhc-cCceEEEEecCCCCCHHHHH
Confidence 2569999999999999985 22221 33 2456666666544 37899999999999999999
Q ss_pred HhHHHhcccCCCC
Q psy10264 328 VDHAARHCNDVPI 340 (426)
Q Consensus 328 AD~lAk~a~~~~~ 340 (426)
||+|||+|+..+.
T Consensus 132 AD~lA~~a~~~~~ 144 (150)
T PRK00203 132 CDELARAGAEEAT 144 (150)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999986543
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=99.75 E-value=2.5e-17 Score=138.70 Aligned_cols=122 Identities=26% Similarity=0.344 Sum_probs=96.1
Q ss_pred eeeccCCCCCC--cceEEEEEccee-----eeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhh
Q psy10264 188 LCFTDGSKTSD--HTGAAYIIGDEV-----CSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKD 260 (426)
Q Consensus 188 ~iytDgS~~~~--~~G~g~v~~~~~-----~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (426)
.+|||||...+ .+|+|+++.+.. .........+++.||+.|+..||+.+....
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~~-------------------- 60 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALELG-------------------- 60 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhCC--------------------
Confidence 48999998765 789999985421 111222578999999999999999987433
Q ss_pred hhhhhcccceEEEEecCHHHHHHHHccCCC-CHHHHHHHHHHHHHHhcCCeEEEEEecCCCCCccchHHhHHHhccc
Q psy10264 261 LIRTELILQNFIICSDSKSSLQALQNVYHA-SPLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDHAARHCN 336 (426)
Q Consensus 261 ~~~~~~~~~~v~I~tDs~~al~~l~~~~~~-s~~~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~lAk~a~ 336 (426)
..++.|++||+.++..+.+.... .+....++..+.++...+..+.|.|||+|+|+.+|+.||.|||.|.
T Consensus 61 -------~~~i~i~~Ds~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 61 -------GKKVNIYTDSQYVINALTGWYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred -------CceEEEEECHHHHHHHhhccccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 38899999999999999987652 2334555555666556789999999999999999999999999873
No 7
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.65 E-value=7.1e-16 Score=133.53 Aligned_cols=119 Identities=20% Similarity=0.204 Sum_probs=96.3
Q ss_pred ceeeccCCCCC--CcceEEEEEccee----eeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhh
Q psy10264 187 TLCFTDGSKTS--DHTGAAYIIGDEV----CSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKD 260 (426)
Q Consensus 187 ~~iytDgS~~~--~~~G~g~v~~~~~----~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (426)
+.||||||... +..|+|+|+.+.. .+... ...++..||+.|++.||+.+.....
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~~-~~~tn~~AE~~All~aL~~a~~~g~------------------- 61 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPL-GTMSNHEAEYHALLAALKYCTEHNY------------------- 61 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeEEEEecc-cccCCcHHHHHHHHHHHHHHHhCCC-------------------
Confidence 57999999875 4799999995422 22222 3578999999999999999987644
Q ss_pred hhhhhcccceEEEEecCHHHHHHHHccCCCCHHHHHHHHHHHHHHhcCCeEEEEEecCCCCCccchHHhHHHhcccC
Q psy10264 261 LIRTELILQNFIICSDSKSSLQALQNVYHASPLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDHAARHCND 337 (426)
Q Consensus 261 ~~~~~~~~~~v~I~tDs~~al~~l~~~~~~s~~~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~lAk~a~~ 337 (426)
..+.|+|||+.++..+++.+...+....+++.+..|......+.|.|||. ++|+.||.||+.|..
T Consensus 62 --------~~v~i~sDS~~vi~~~~~~~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r----~~N~~Ad~LA~~a~~ 126 (128)
T PRK13907 62 --------NIVSFRTDSQLVERAVEKEYAKNKMFAPLLEEALQYIKSFDLFFIKWIPS----SQNKVADELARKAIL 126 (128)
T ss_pred --------CEEEEEechHHHHHHHhHHHhcChhHHHHHHHHHHHHhcCCceEEEEcCc----hhchhHHHHHHHHHh
Confidence 67999999999999999977655556677777777777888899999997 489999999999874
No 8
>KOG3752|consensus
Probab=99.63 E-value=1.2e-15 Score=150.14 Aligned_cols=125 Identities=22% Similarity=0.264 Sum_probs=96.4
Q ss_pred CceeeccCCCCCC-----cceEEEEEcc---eeeeccCC-CccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy10264 186 DTLCFTDGSKTSD-----HTGAAYIIGD---EVCSMKLN-PVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLE 256 (426)
Q Consensus 186 ~~~iytDgS~~~~-----~~G~g~v~~~---~~~~~~l~-~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~ 256 (426)
..++|||||+..+ .+|+|+++++ ...+..+. ..++++.||+.|+..||+.|.+...
T Consensus 212 ~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~--------------- 276 (371)
T KOG3752|consen 212 IQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSKNI--------------- 276 (371)
T ss_pred ceEEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhcCC---------------
Confidence 4799999998752 5899999964 33556654 6889999999999999999977543
Q ss_pred hhhhhhhhhcccceEEEEecCHHHHHHHHcc--------CCCC---H----H--HHHHHHHHHHHHh--cCCeEEEEEec
Q psy10264 257 KIKDLIRTELILQNFIICSDSKSSLQALQNV--------YHAS---P----L--VCNIISTIQDIRE--LGTRVSFFWIP 317 (426)
Q Consensus 257 ~~~~~~~~~~~~~~v~I~tDs~~al~~l~~~--------~~~s---~----~--~~~i~~~~~~l~~--~~~~v~~~WVP 317 (426)
.+++|.|||+.+++.|+.. +..+ + + -+..+..+.+|.. .+..|.+.|||
T Consensus 277 ------------~kv~I~TDS~~~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~ 344 (371)
T KOG3752|consen 277 ------------NKVVIRTDSEYFINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVG 344 (371)
T ss_pred ------------CcEEEEechHHHHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEec
Confidence 6999999999999998742 1111 2 1 1334444444433 36899999999
Q ss_pred CCCCCccchHHhHHHhcccC
Q psy10264 318 SHLGIRENENVDHAARHCND 337 (426)
Q Consensus 318 gH~gi~gNe~AD~lAk~a~~ 337 (426)
||.||.|||+||.||+++..
T Consensus 345 Gh~gi~gne~Ad~lARkgs~ 364 (371)
T KOG3752|consen 345 GHSGILGNEMADALARKGST 364 (371)
T ss_pred CcCCcchHHHHHHHHhhhhh
Confidence 99999999999999998853
No 9
>PRK07708 hypothetical protein; Validated
Probab=99.50 E-value=1.5e-13 Score=129.49 Aligned_cols=129 Identities=14% Similarity=0.156 Sum_probs=96.6
Q ss_pred hhCCCCceeeccCCCCC--CcceEEEEEcce----ee----eccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy10264 181 DQHKFDTLCFTDGSKTS--DHTGAAYIIGDE----VC----SMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVA 250 (426)
Q Consensus 181 ~~~~~~~~iytDgS~~~--~~~G~g~v~~~~----~~----~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~ 250 (426)
...+..+.+|+|||... +.+|+|+++.+. .. ...++...+++.||+.|++.||+.+.....
T Consensus 68 ~~ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~--------- 138 (219)
T PRK07708 68 EEEPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGV--------- 138 (219)
T ss_pred ccCCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCC---------
Confidence 44467899999999864 579999998531 11 124555689999999999999999987644
Q ss_pred HHHHHhhhhhhhhhhcccceEEEEecCHHHHHHHHccCCCC-HHHHHHHHHHHHHHhc-CCeEEEEEecCCCCCccchHH
Q psy10264 251 IEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHAS-PLVCNIISTIQDIREL-GTRVSFFWIPSHLGIRENENV 328 (426)
Q Consensus 251 ~~~~~~~~~~~~~~~~~~~~v~I~tDs~~al~~l~~~~~~s-~~~~~i~~~~~~l~~~-~~~v~~~WVPgH~gi~gNe~A 328 (426)
....|.|++||+.++..+.+.+... +..+...+.+.++... ...+.|.||| ...|+.|
T Consensus 139 ----------------~~~~V~I~~DSqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~Vp----R~~N~~A 198 (219)
T PRK07708 139 ----------------KHEPVTFRGDSQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPIS----RKQNKEA 198 (219)
T ss_pred ----------------CcceEEEEeccHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECC----chhhhHH
Confidence 1134899999999999999987654 4455555555544333 4468889998 4679999
Q ss_pred hHHHhcccCC
Q psy10264 329 DHAARHCNDV 338 (426)
Q Consensus 329 D~lAk~a~~~ 338 (426)
|+||+.|.+.
T Consensus 199 D~LAk~Al~~ 208 (219)
T PRK07708 199 DQLATQALEG 208 (219)
T ss_pred HHHHHHHHhc
Confidence 9999999864
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.38 E-value=3e-12 Score=130.49 Aligned_cols=120 Identities=18% Similarity=0.259 Sum_probs=95.8
Q ss_pred CceeeccCCCCCC--cceEEEEEccee-------eeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy10264 186 DTLCFTDGSKTSD--HTGAAYIIGDEV-------CSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLE 256 (426)
Q Consensus 186 ~~~iytDgS~~~~--~~G~g~v~~~~~-------~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~ 256 (426)
.+.||||||...+ .+|+|+++.+.. .+..++ .++++.||+.|++.||+.+.+...
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~g~--------------- 65 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAELGA--------------- 65 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhCCC---------------
Confidence 3689999998864 689999995421 122344 678899999999999999987644
Q ss_pred hhhhhhhhhcccceEEEEecCHHHHHHHHccCCC-CHHHHHHHHHHHHHHhcCCeEEEEEecCCCCCccchHHhHHHhcc
Q psy10264 257 KIKDLIRTELILQNFIICSDSKSSLQALQNVYHA-SPLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDHAARHC 335 (426)
Q Consensus 257 ~~~~~~~~~~~~~~v~I~tDs~~al~~l~~~~~~-s~~~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~lAk~a 335 (426)
..+.|++||+.++..+.+.+.. ++-...+++.+.+|......+.|.|||. .+|+.||.||+.|
T Consensus 66 ------------~~v~i~~DS~lvi~~i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a 129 (372)
T PRK07238 66 ------------TEVEVRMDSKLVVEQMSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEA 129 (372)
T ss_pred ------------CeEEEEeCcHHHHHHhCCCCccCChHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHH
Confidence 6899999999999999987753 3445556666777778888999999996 6899999999998
Q ss_pred cC
Q psy10264 336 ND 337 (426)
Q Consensus 336 ~~ 337 (426)
..
T Consensus 130 ~~ 131 (372)
T PRK07238 130 MD 131 (372)
T ss_pred HH
Confidence 63
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.09 E-value=1.9e-10 Score=91.66 Aligned_cols=85 Identities=22% Similarity=0.211 Sum_probs=67.1
Q ss_pred hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhhcccceEEEEecCHHHHHHHHccCCCCHHHHHHHHH
Q psy10264 221 IFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHASPLVCNIIST 300 (426)
Q Consensus 221 v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~I~tDs~~al~~l~~~~~~s~~~~~i~~~ 300 (426)
+..||+.|+..||+.+.+.+. .++.|.|||+.++..|++..........++..
T Consensus 1 ~~~aE~~al~~al~~a~~~g~---------------------------~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~ 53 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGI---------------------------RKIIVESDSQLVVDAINGRSSSRSELRPLIQD 53 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT----------------------------SCEEEEES-HHHHHHHTTSS---SCCHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHCCC---------------------------CEEEEEecCccccccccccccccccccccchh
Confidence 468999999999999988765 89999999999999999875443234566666
Q ss_pred HHHHHhcCCeEEEEEecCCCCCccchHHhHHHhccc
Q psy10264 301 IQDIRELGTRVSFFWIPSHLGIRENENVDHAARHCN 336 (426)
Q Consensus 301 ~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~lAk~a~ 336 (426)
+..+......+.|.||| ..+|..||.|||.|.
T Consensus 54 i~~~~~~~~~~~~~~i~----r~~N~~A~~LA~~a~ 85 (87)
T PF13456_consen 54 IRSLLDRFWNVSVSHIP----REQNKVADALAKFAL 85 (87)
T ss_dssp HHHHHCCCSCEEEEE------GGGSHHHHHHHHHHH
T ss_pred hhhhhccccceEEEEEC----hHHhHHHHHHHHHHh
Confidence 77777888999999999 689999999999885
No 12
>PF02022 Integrase_Zn: Integrase Zinc binding domain The structure of the N-terminal zinc binding domain.; InterPro: IPR003308 Retroviral integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains: an N-terminal zinc binding domain, a central catalytic core and a C-terminal DNA-binding domain [, ]. Often found as part of the POL polyprotein.; GO: 0008270 zinc ion binding; PDB: 1E0E_A 3F9K_F 1E27_C 1K6Y_B 1WJD_A 1WJB_A 1WJF_A 1WJE_B 3HPG_B 3HPH_C ....
Probab=89.71 E-value=0.12 Score=35.33 Aligned_cols=38 Identities=11% Similarity=0.195 Sum_probs=29.7
Q ss_pred HHHHHHHHhhccCCCCccccccccccccccCCChhhhhhHHHHHhhhhccCC
Q psy10264 356 IQLNEWNHSWRDNSTTGQKLTMLRDTAMTFRLPKYAFRMTIKYNLRKFNKMN 407 (426)
Q Consensus 356 ~~~~~w~~~W~~~~~~~~kl~~ik~~~~~~~Lp~~~~~~~~~~~~~~~~~~~ 407 (426)
.....|+..|+... .+|.||+-+.+ .|+..|+.|+.+|
T Consensus 3 e~H~k~H~n~~~L~-------------~~f~ip~~vAk-~IV~~C~~Cq~~g 40 (40)
T PF02022_consen 3 EEHEKYHSNAKALR-------------HKFGIPRLVAK-QIVNQCPKCQQKG 40 (40)
T ss_dssp HHHHHHHH-HHHHH-------------HHHT--HHHHH-HHHHHSCCHHSTS
T ss_pred hHHHHHccCHHHHH-------------HHHccCHHHHH-HHHHHCHHHhhCc
Confidence 45688999999876 57999999998 8999999999875
No 13
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=58.50 E-value=19 Score=32.09 Aligned_cols=55 Identities=18% Similarity=0.213 Sum_probs=33.7
Q ss_pred CCceeeccCCCCCCcceEEEEEc---cee------ee-ccCC--CccchhHHHHHHHHHHHHHHHHhHH
Q psy10264 185 FDTLCFTDGSKTSDHTGAAYIIG---DEV------CS-MKLN--PVCSIFTAELVAIEKCLEKIKDLIR 241 (426)
Q Consensus 185 ~~~~iytDgS~~~~~~G~g~v~~---~~~------~~-~~l~--~~~~v~~AEl~Ai~~aL~~~~~~~~ 241 (426)
..+.+|+|+|.. +.|+.+++. +.. .+ .+.. ...|+-.-||.|+..|.+.+.....
T Consensus 80 ~~L~~F~DAS~~--aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~~~~ 146 (159)
T PF05380_consen 80 VELHVFCDASES--AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANTVKK 146 (159)
T ss_pred eeeeEeeccccc--ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 467999999953 233333331 111 00 0111 2459999999999999999876543
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=57.87 E-value=9.3 Score=35.65 Aligned_cols=44 Identities=25% Similarity=0.169 Sum_probs=27.9
Q ss_pred eeeccCCCCCCcceEEEEEcceeeeccCCCccchhHHHHHHHHHHHHH
Q psy10264 188 LCFTDGSKTSDHTGAAYIIGDEVCSMKLNPVCSIFTAELVAIEKCLEK 235 (426)
Q Consensus 188 ~iytDgS~~~~~~G~g~v~~~~~~~~~l~~~~~v~~AEl~Ai~~aL~~ 235 (426)
.||+|+.- +|+|+.+......+.....-.+..||+.|...|.-+
T Consensus 96 ~VfaDATp----Tgwgi~i~~~~~~~Tfs~~l~IhtaELlaaClAr~~ 139 (245)
T PF00336_consen 96 QVFADATP----TGWGISITGQRMRGTFSKPLPIHTAELLAACLARLM 139 (245)
T ss_pred ceeccCCC----CcceeeecCceeeeeecccccchHHHHHHHHHHHhc
Confidence 79999864 456665643322222223457899999999777544
No 15
>KOG1812|consensus
Probab=43.64 E-value=68 Score=33.07 Aligned_cols=90 Identities=18% Similarity=0.199 Sum_probs=53.5
Q ss_pred cchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhhcccceEEEEecCHHHHHHHHccCCCCH--HHHH
Q psy10264 219 CSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHASP--LVCN 296 (426)
Q Consensus 219 ~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~I~tDs~~al~~l~~~~~~s~--~~~~ 296 (426)
.+...||++|+..+|..+.+... ..+.+++|+.-....+........ .+..
T Consensus 47 ~~~~~ae~~al~~~l~ea~~~~~---------------------------~~~~~~~d~~~~~~~v~~~~~~~~~~~~~~ 99 (384)
T KOG1812|consen 47 ITPLEAELMALKRGLTEALELGL---------------------------NHIVIYCDDELIYESVAGREKPEQHRKIVL 99 (384)
T ss_pred cchhhHHHHHHhhccHHHHhhcc---------------------------ccceEecccHHHHHHHhhhhhHHHHHHHHH
Confidence 67899999999999999987654 778999996555554433333221 2444
Q ss_pred HHHHHHHHHhcCCeEEEEEecCCCCCccchHHhHHHhcccCC
Q psy10264 297 IISTIQDIRELGTRVSFFWIPSHLGIRENENVDHAARHCNDV 338 (426)
Q Consensus 297 i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~lAk~a~~~ 338 (426)
+.+..+.++.......-.-+|--. -.+.|=.+|+++..+
T Consensus 100 l~~~v~~~r~~l~~~~~i~~~~~~---d~~~~~~lA~e~i~s 138 (384)
T KOG1812|consen 100 LVELVQRIREQLTSSEPILVPKNA---DIKFAYKLAREAIVS 138 (384)
T ss_pred HHHHHHHHHHHhhcccceecccch---hhHHHHHHHHHhhcc
Confidence 555555554443333333333111 113366777777653
No 16
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=41.57 E-value=34 Score=37.56 Aligned_cols=35 Identities=17% Similarity=0.296 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCCCCccchHH
Q psy10264 294 VCNIISTIQDIRELGTRVSFFWIPSHLGIRENENV 328 (426)
Q Consensus 294 ~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~A 328 (426)
-.++...+..+.+.|..|-+-|||+|.+..||-.+
T Consensus 213 Pedfk~fVD~aH~~GIgViLD~V~~HF~~d~~~L~ 247 (628)
T COG0296 213 PEDFKALVDAAHQAGIGVILDWVPNHFPPDGNYLA 247 (628)
T ss_pred HHHHHHHHHHHHHcCCEEEEEecCCcCCCCcchhh
Confidence 36677778888899999999999999999888765
Done!