Query psy11598
Match_columns 457
No_of_seqs 237 out of 562
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 22:44:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11598.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11598hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00075 RNase_H: RNase H; In 99.5 1.2E-13 2.5E-18 121.2 8.1 94 260-362 2-122 (132)
2 PRK08719 ribonuclease H; Revie 99.4 3.6E-13 7.8E-18 121.9 8.6 94 260-362 3-136 (147)
3 PRK06548 ribonuclease H; Provi 99.4 6.3E-13 1.4E-17 121.9 10.1 97 260-362 4-131 (161)
4 PRK00203 rnhA ribonuclease H; 99.4 5.4E-13 1.2E-17 121.0 8.8 94 261-362 3-131 (150)
5 COG0328 RnhA Ribonuclease HI [ 99.2 3.5E-11 7.5E-16 109.1 8.9 97 260-362 2-134 (154)
6 cd06222 RnaseH RNase H (RNase 99.1 2.7E-10 5.9E-15 96.4 9.8 95 263-362 1-121 (130)
7 KOG3752|consensus 99.0 1.8E-09 3.9E-14 109.2 9.2 101 259-364 210-356 (371)
8 PRK13907 rnhA ribonuclease H; 98.9 7.7E-09 1.7E-13 90.9 8.1 93 262-362 2-116 (128)
9 PRK07708 hypothetical protein; 98.3 3.6E-06 7.7E-11 81.3 9.5 100 258-362 70-197 (219)
10 PRK07238 bifunctional RNase H/ 98.3 3.3E-06 7.2E-11 87.5 9.9 94 261-362 2-121 (372)
11 PF13456 RVT_3: Reverse transc 97.3 0.00076 1.6E-08 54.1 6.6 60 296-362 1-76 (87)
12 PF13966 zf-RVT: zinc-binding 96.4 0.0014 3E-08 53.7 1.2 46 386-431 35-83 (86)
13 PF05380 Peptidase_A17: Pao re 85.2 2.8 6E-05 38.3 6.7 56 259-316 79-146 (159)
14 PF00336 DNA_pol_viral_C: DNA 39.3 22 0.00047 34.1 2.2 84 259-356 92-183 (245)
No 1
>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=99.47 E-value=1.2e-13 Score=121.16 Aligned_cols=94 Identities=29% Similarity=0.329 Sum_probs=69.2
Q ss_pred CceEEEecCCCCC--CceeeEEEe-CCcchhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHHH
Q psy11598 260 NKILCYTDGSKND--NFTGGAYIL-NETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQA 336 (457)
Q Consensus 260 ~~i~IyTDGSk~~--~~vG~a~v~-~~~~~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~a 336 (457)
..+.||||||... +..|+|++. .+....+.++ ..+++.||+.||.+||+.+ .. ..+.|+|||++++..
T Consensus 2 ~~~~iytDgS~~~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~~-------~~v~I~tDS~~v~~~ 72 (132)
T PF00075_consen 2 KAIIIYTDGSCRPNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL-EH-------RKVTIYTDSQYVLNA 72 (132)
T ss_dssp TSEEEEEEEEECTTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH-ST-------SEEEEEES-HHHHHH
T ss_pred CcEEEEEeCCccCCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh-hc-------ccccccccHHHHHHH
Confidence 5789999999653 335666655 3333334555 8999999999999999954 32 779999999999998
Q ss_pred hhc-----cCCCC--c--------------cceEEEeeccc--c-cchhh
Q psy11598 337 LKF-----NLNDS--F--------------KRWEEIWTQNA--V-LGRQL 362 (457)
Q Consensus 337 i~~-----~~~~s--~--------------q~i~l~WvPgH--I-~GNE~ 362 (457)
+.. ..... + ..|.|.||||| + .|||.
T Consensus 73 l~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~ 122 (132)
T PF00075_consen 73 LNKWLHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNER 122 (132)
T ss_dssp HHTHHHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHH
T ss_pred HHHhccccccccccccccchhheeeccccceEEeeeeccCcCCCchhHHH
Confidence 877 22111 1 17999999999 8 69997
No 2
>PRK08719 ribonuclease H; Reviewed
Probab=99.43 E-value=3.6e-13 Score=121.95 Aligned_cols=94 Identities=20% Similarity=0.161 Sum_probs=70.4
Q ss_pred CceEEEecCCCCCCc-----eeeEEEe--CC-c---chhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEe
Q psy11598 260 NKILCYTDGSKNDNF-----TGGAYIL--NE-T---IEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICS 328 (457)
Q Consensus 260 ~~i~IyTDGSk~~~~-----vG~a~v~--~~-~---~~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~s 328 (457)
+.+.||||||+..++ .|+|++. ++ . .....+....|+..||+.|+..||+.+.+. ..|+|
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~---------~~i~t 73 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG---------DVIYS 73 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC---------CEEEe
Confidence 568999999997654 3777765 22 1 123335556899999999999999987542 36999
Q ss_pred ccHHHHHHh--------hccCCCCcc-------------------ceEEEeeccc--ccchhh
Q psy11598 329 DSKSSLQAL--------KFNLNDSFK-------------------RWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 329 DS~sal~ai--------~~~~~~s~q-------------------~i~l~WvPgH--I~GNE~ 362 (457)
||+.+++++ ++....++. .|+|.||||| ++|||.
T Consensus 74 DS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~~~i~~~~VkgH~g~~~Ne~ 136 (147)
T PRK08719 74 DSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRARKYVEVEKVTAHSGIEGNEA 136 (147)
T ss_pred chHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCCCcEEEEEecCCCCChhHHH
Confidence 999999999 344433221 7999999999 999997
No 3
>PRK06548 ribonuclease H; Provisional
Probab=99.43 E-value=6.3e-13 Score=121.89 Aligned_cols=97 Identities=27% Similarity=0.204 Sum_probs=71.9
Q ss_pred CceEEEecCCCCCC--ceeeEEEeCCcchhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHHHh
Q psy11598 260 NKILCYTDGSKNDN--FTGGAYILNETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQAL 337 (457)
Q Consensus 260 ~~i~IyTDGSk~~~--~vG~a~v~~~~~~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~ai 337 (457)
..+.||||||...+ ..|.|++..+......-....|+..||++|+..||+.+.. .. ..+.|+|||+.+++++
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~~~~~g~~~~~TNnraEl~Aii~aL~~~~~---~~---~~v~I~TDS~yvi~~i 77 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDENTWDSGGWDIATNNIAELTAVRELLIATRH---TD---RPILILSDSKYVINSL 77 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCCcEEccCCCCCCHHHHHHHHHHHHHHhhhc---CC---ceEEEEeChHHHHHHH
Confidence 45899999998864 3678877743211111114688999999999999986542 22 5699999999999999
Q ss_pred hc---------cCCCCcc------------------ceEEEeeccc--ccchhh
Q psy11598 338 KF---------NLNDSFK------------------RWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 338 ~~---------~~~~s~q------------------~i~l~WvPgH--I~GNE~ 362 (457)
.. .+..+|+ .|+|.||+|| ++|||.
T Consensus 78 ~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~~wVkgHsg~~gNe~ 131 (161)
T PRK06548 78 TKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVNAHTGHPLNEA 131 (161)
T ss_pred HHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEEEEEecCCCCHHHHH
Confidence 83 3333332 7999999999 999997
No 4
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.42 E-value=5.4e-13 Score=121.04 Aligned_cols=94 Identities=19% Similarity=0.120 Sum_probs=69.7
Q ss_pred ceEEEecCCCCCC-c-eeeEEEe--CCcc--hhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHH
Q psy11598 261 KILCYTDGSKNDN-F-TGGAYIL--NETI--EQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSL 334 (457)
Q Consensus 261 ~i~IyTDGSk~~~-~-vG~a~v~--~~~~--~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal 334 (457)
++.||||||...+ + .|+|+|. .+.. .... ....|+..|||+|+..||+.+.+ . ..+.|+|||+.++
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~~-~~~~TN~~aEL~Ai~~AL~~~~~----~---~~v~I~tDS~yvi 74 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELSGG-EALTTNNRMELMAAIEALEALKE----P---CEVTLYTDSQYVR 74 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCeeEEEecC-CCCCcHHHHHHHHHHHHHHHcCC----C---CeEEEEECHHHHH
Confidence 4889999999854 2 6777765 2222 1122 24678899999999999998753 2 5699999999999
Q ss_pred HHhhcc---------CCCCc------------------cceEEEeeccc--ccchhh
Q psy11598 335 QALKFN---------LNDSF------------------KRWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 335 ~ai~~~---------~~~s~------------------q~i~l~WvPgH--I~GNE~ 362 (457)
++|... ...++ ..|.|.||||| ++|||.
T Consensus 75 ~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~~~v~~~wV~~H~~~~~N~~ 131 (150)
T PRK00203 75 QGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKRHQIKWHWVKGHAGHPENER 131 (150)
T ss_pred HHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhccCceEEEEecCCCCCHHHHH
Confidence 999851 11222 17999999999 999997
No 5
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.23 E-value=3.5e-11 Score=109.06 Aligned_cols=97 Identities=18% Similarity=0.098 Sum_probs=72.9
Q ss_pred CceEEEecCCCCCC-c-eeeEEEeC--Ccc--hhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHH
Q psy11598 260 NKILCYTDGSKNDN-F-TGGAYILN--ETI--EQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSS 333 (457)
Q Consensus 260 ~~i~IyTDGSk~~~-~-vG~a~v~~--~~~--~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sa 333 (457)
..+.||||||+..+ | -|+|+|.. +.. ....+. .+|+..||+.|+..||+++.+. .. ..+.|+|||+.+
T Consensus 2 ~~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~--~~---~~v~l~tDS~yv 75 (154)
T COG0328 2 KKVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKEL--GA---CEVTLYTDSKYV 75 (154)
T ss_pred CceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhc--CC---ceEEEEecHHHH
Confidence 35799999999865 3 46666663 222 222223 8999999999999999999975 33 789999999999
Q ss_pred HHHhhccC--------CCCc-------------------c-ceEEEeeccc--ccchhh
Q psy11598 334 LQALKFNL--------NDSF-------------------K-RWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 334 l~ai~~~~--------~~s~-------------------q-~i~l~WvPgH--I~GNE~ 362 (457)
+++|.... ..+. - .|.+.||||| .++||.
T Consensus 76 ~~~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~Ner 134 (154)
T COG0328 76 VEGITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENER 134 (154)
T ss_pred HHHHHHHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHH
Confidence 99998331 1111 0 7899999999 999996
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=99.14 E-value=2.7e-10 Score=96.43 Aligned_cols=95 Identities=25% Similarity=0.286 Sum_probs=73.2
Q ss_pred EEEecCCCCCC--ceeeEEEeCCcc-----hhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHH
Q psy11598 263 LCYTDGSKNDN--FTGGAYILNETI-----EQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQ 335 (457)
Q Consensus 263 ~IyTDGSk~~~--~vG~a~v~~~~~-----~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~ 335 (457)
.+|||||...+ +.|+|++..+.. .........+++.||+.|++.||+++... .. .++.|++||+.+++
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~--~~---~~i~i~~Ds~~~~~ 75 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALEL--GG---KKVNIYTDSQYVIN 75 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhC--CC---ceEEEEECHHHHHH
Confidence 38999999865 578888773321 11122257899999999999999999854 34 88999999999999
Q ss_pred HhhccCCC-----------------CccceEEEeeccc--ccchhh
Q psy11598 336 ALKFNLND-----------------SFKRWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 336 ai~~~~~~-----------------s~q~i~l~WvPgH--I~GNE~ 362 (457)
.+.+.... .+..+++.|||+| +++|+.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ 121 (130)
T cd06222 76 ALTGWYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNER 121 (130)
T ss_pred HhhccccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHH
Confidence 99886541 1227999999999 788886
No 7
>KOG3752|consensus
Probab=98.97 E-value=1.8e-09 Score=109.15 Aligned_cols=101 Identities=23% Similarity=0.205 Sum_probs=80.6
Q ss_pred CCceEEEecCCCCCCc-----eeeEEEeCCc---chhhccC-cccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEec
Q psy11598 259 KNKILCYTDGSKNDNF-----TGGAYILNET---IEQFQLN-QIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSD 329 (457)
Q Consensus 259 ~~~i~IyTDGSk~~~~-----vG~a~v~~~~---~~~~~L~-~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sD 329 (457)
.+..+||||||...+| +|+||+.++- .....+. ...++|.||+.|+..||+-+.+. .. .+++|.||
T Consensus 210 ~~~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~--~~---~kv~I~TD 284 (371)
T KOG3752|consen 210 IEIQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSK--NI---NKVVIRTD 284 (371)
T ss_pred ccceEEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhc--CC---CcEEEEec
Confidence 4458999999998754 8999998433 3455554 78999999999999999999886 44 69999999
Q ss_pred cHHHHHHhhccCCC-----------Cc------------------------cceEEEeeccc--ccchhhhh
Q psy11598 330 SKSSLQALKFNLND-----------SF------------------------KRWEEIWTQNA--VLGRQLRQ 364 (457)
Q Consensus 330 S~sal~ai~~~~~~-----------s~------------------------q~i~l~WvPgH--I~GNE~~~ 364 (457)
|.-.+.+|+..-+. ++ .+|++.||+|| |.|||.++
T Consensus 285 S~~~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad 356 (371)
T KOG3752|consen 285 SEYFINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMAD 356 (371)
T ss_pred hHHHHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHH
Confidence 99999999754311 11 17999999999 99999844
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=98.86 E-value=7.7e-09 Score=90.93 Aligned_cols=93 Identities=17% Similarity=0.148 Sum_probs=69.8
Q ss_pred eEEEecCCCCCC--ceeeEEEeCCcc----hhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHH
Q psy11598 262 ILCYTDGSKNDN--FTGGAYILNETI----EQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQ 335 (457)
Q Consensus 262 i~IyTDGSk~~~--~vG~a~v~~~~~----~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~ 335 (457)
+.||||||...+ ..|+|+|.++.. ..+. ....++..||+.|++.||+.+.+. .. ..+.|+|||+.++.
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~-~~~~tn~~AE~~All~aL~~a~~~--g~---~~v~i~sDS~~vi~ 75 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLP-LGTMSNHEAEYHALLAALKYCTEH--NY---NIVSFRTDSQLVER 75 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeEEEEec-ccccCCcHHHHHHHHHHHHHHHhC--CC---CEEEEEechHHHHH
Confidence 579999998754 478888874332 1111 235788999999999999999986 33 67999999999999
Q ss_pred HhhccCCCCc----------------cceEEEeecccccchhh
Q psy11598 336 ALKFNLNDSF----------------KRWEEIWTQNAVLGRQL 362 (457)
Q Consensus 336 ai~~~~~~s~----------------q~i~l~WvPgHI~GNE~ 362 (457)
.+.+...... ..+.+.|||.+ +|+.
T Consensus 76 ~~~~~~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~--~N~~ 116 (128)
T PRK13907 76 AVEKEYAKNKMFAPLLEEALQYIKSFDLFFIKWIPSS--QNKV 116 (128)
T ss_pred HHhHHHhcChhHHHHHHHHHHHHhcCCceEEEEcCch--hchh
Confidence 9987553221 16778999984 7775
No 9
>PRK07708 hypothetical protein; Validated
Probab=98.28 E-value=3.6e-06 Score=81.25 Aligned_cols=100 Identities=14% Similarity=0.057 Sum_probs=71.2
Q ss_pred CCCceEEEecCCCCC--CceeeEEEeC--Ccchh------hccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEE
Q psy11598 258 NKNKILCYTDGSKND--NFTGGAYILN--ETIEQ------FQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVIC 327 (457)
Q Consensus 258 ~~~~i~IyTDGSk~~--~~vG~a~v~~--~~~~~------~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~ 327 (457)
.++.+.+|+|||... ++.|+|+|.. +.... ..++...++..||+.|+..||+.+.+. .. ....+.|+
T Consensus 70 ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~--g~-~~~~V~I~ 146 (219)
T PRK07708 70 EPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEEL--GV-KHEPVTFR 146 (219)
T ss_pred CCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHc--CC-CcceEEEE
Confidence 356799999999753 4577777762 21111 234456899999999999999999886 22 11348999
Q ss_pred eccHHHHHHhhccCCCCc------------------cceEEEeecccccchhh
Q psy11598 328 SDSKSSLQALKFNLNDSF------------------KRWEEIWTQNAVLGRQL 362 (457)
Q Consensus 328 sDS~sal~ai~~~~~~s~------------------q~i~l~WvPgHI~GNE~ 362 (457)
+||+-++..+.+.+.... ..+.+.|||- +.|+.
T Consensus 147 ~DSqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR--~~N~~ 197 (219)
T PRK07708 147 GDSQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISR--KQNKE 197 (219)
T ss_pred eccHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCc--hhhhH
Confidence 999999999987653321 0477889986 57775
No 10
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=98.28 E-value=3.3e-06 Score=87.51 Aligned_cols=94 Identities=16% Similarity=0.128 Sum_probs=70.4
Q ss_pred ceEEEecCCCCCC--ceeeEEEeCCc--c-----hhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccH
Q psy11598 261 KILCYTDGSKNDN--FTGGAYILNET--I-----EQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSK 331 (457)
Q Consensus 261 ~i~IyTDGSk~~~--~vG~a~v~~~~--~-----~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~ 331 (457)
.+.||||||...+ ..|+|++..+. . ....++ .+++..||+.|++.||+.+.+. .. ..+.|++||+
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~--g~---~~v~i~~DS~ 75 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAEL--GA---TEVEVRMDSK 75 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhC--CC---CeEEEEeCcH
Confidence 3689999998865 37888877322 1 112233 6777899999999999999886 34 7899999999
Q ss_pred HHHHHhhccCCCCc-----------------cceEEEeecccccchhh
Q psy11598 332 SSLQALKFNLNDSF-----------------KRWEEIWTQNAVLGRQL 362 (457)
Q Consensus 332 sal~ai~~~~~~s~-----------------q~i~l~WvPgHI~GNE~ 362 (457)
.++..+.+...... ..|++.|||. ++|+.
T Consensus 76 lvi~~i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r--~~N~~ 121 (372)
T PRK07238 76 LVVEQMSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPR--ARNAH 121 (372)
T ss_pred HHHHHhCCCCccCChHHHHHHHHHHHHHhcCCceEEEECCc--hhhhH
Confidence 99999987543111 1799999998 58875
No 11
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=97.29 E-value=0.00076 Score=54.13 Aligned_cols=60 Identities=13% Similarity=0.038 Sum_probs=44.7
Q ss_pred hhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHHHhhccCCCC-c---------------cceEEEeecccccc
Q psy11598 296 IYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQALKFNLNDS-F---------------KRWEEIWTQNAVLG 359 (457)
Q Consensus 296 vy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~ai~~~~~~s-~---------------q~i~l~WvPgHI~G 359 (457)
+..||+.|+..||+++.+. .. +++.|.|||+.+++.|.+..... . ..+.+.|||- ++
T Consensus 1 ~~~aE~~al~~al~~a~~~--g~---~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r--~~ 73 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWEL--GI---RKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPR--EQ 73 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCC--T----SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--G--GG
T ss_pred CcHHHHHHHHHHHHHHHHC--CC---CEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEECh--HH
Confidence 3579999999999999886 33 88999999999999998874322 1 1799999996 67
Q ss_pred hhh
Q psy11598 360 RQL 362 (457)
Q Consensus 360 NE~ 362 (457)
|..
T Consensus 74 N~~ 76 (87)
T PF13456_consen 74 NKV 76 (87)
T ss_dssp SHH
T ss_pred hHH
Confidence 764
No 12
>PF13966 zf-RVT: zinc-binding in reverse transcriptase
Probab=96.36 E-value=0.0014 Score=53.70 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=34.4
Q ss_pred hhhcccCCccc-c--cccccCCCCCCcccccccccccccchhhcccchH
Q psy11598 386 LCRLRIGHCLA-T--HKHLLERKDPPACEFCRQTPVYLNHWLTECHALA 431 (457)
Q Consensus 386 l~qlRtGH~~l-~--h~~~~~~~~~~~C~~Cg~~~eTv~Hil~~Cp~~~ 431 (457)
+.-.+.-|.++ + -+++.+...++.|..|+++.||++|+|++||...
T Consensus 35 ~f~W~~~~~rL~t~~~l~~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~ 83 (86)
T PF13966_consen 35 FFLWRALHNRLPTKDNLQRRGIQVDPICPLCGNEEETIEHLFFHCPFAR 83 (86)
T ss_pred EEeeeeccccchhhhhhhccCCccCCccccCCCccccccceeccCcCcc
Confidence 44445556665 3 3556667788999999778999999999999653
No 13
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=85.16 E-value=2.8 Score=38.29 Aligned_cols=56 Identities=18% Similarity=0.183 Sum_probs=37.9
Q ss_pred CCceEEEecCCCCCCceeeEEEeCC---cc-------hhhccC--cccchhHHHHHHHHHHHHHHHHhhh
Q psy11598 259 KNKILCYTDGSKNDNFTGGAYILNE---TI-------EQFQLN--QIASIYTAELMAIDLCLNAILTYVQ 316 (457)
Q Consensus 259 ~~~i~IyTDGSk~~~~vG~a~v~~~---~~-------~~~~L~--~~~svy~AEl~AI~~AL~~~~~~~~ 316 (457)
...+++|+||| +.+.|++++.+. .. ...++. ...||-.-||.|+..|.+++....+
T Consensus 79 ~~~L~~F~DAS--~~aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~~~~ 146 (159)
T PF05380_consen 79 SVELHVFCDAS--ESAYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANTVKK 146 (159)
T ss_pred ceeeeEeeccc--ccceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 34689999999 455667666522 11 011221 2459999999999999999877633
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=39.27 E-value=22 Score=34.14 Aligned_cols=84 Identities=14% Similarity=0.014 Sum_probs=48.0
Q ss_pred CCceEEEecCCCCCCceeeEEEeCCcchhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHHHhh
Q psy11598 259 KNKILCYTDGSKNDNFTGGAYILNETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQALK 338 (457)
Q Consensus 259 ~~~i~IyTDGSk~~~~vG~a~v~~~~~~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~ai~ 338 (457)
..--+||+|+.-..+|+.++ .......|. .--.|++||+.|.-.|.-+.. .+ .|.|||.-++..=-
T Consensus 92 ~~lc~VfaDATpTgwgi~i~--~~~~~~Tfs--~~l~IhtaELlaaClAr~~~~---------~r-~l~tDnt~Vlsrky 157 (245)
T PF00336_consen 92 PGLCQVFADATPTGWGISIT--GQRMRGTFS--KPLPIHTAELLAACLARLMSG---------AR-CLGTDNTVVLSRKY 157 (245)
T ss_pred CCCCceeccCCCCcceeeec--Cceeeeeec--ccccchHHHHHHHHHHHhccC---------Cc-EEeecCcEEEeccc
Confidence 34458999998776654322 111122233 456799999999876654432 22 48999987662211
Q ss_pred ccC--------CCCccceEEEeeccc
Q psy11598 339 FNL--------NDSFKRWEEIWTQNA 356 (457)
Q Consensus 339 ~~~--------~~s~q~i~l~WvPgH 356 (457)
... +.--..++|..||+-
T Consensus 158 ts~PW~lac~A~wiLrgts~~yVPS~ 183 (245)
T PF00336_consen 158 TSFPWLLACAANWILRGTSFYYVPSK 183 (245)
T ss_pred ccCcHHHHHHHHHhhcCceEEEeccc
Confidence 000 000126889999984
Done!