Query psy12268
Match_columns 410
No_of_seqs 157 out of 1449
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 22:59:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12268.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12268hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01651 RT_G2_intron RT_G2_int 99.8 6.3E-21 1.4E-25 178.2 8.0 134 172-335 78-226 (226)
2 cd01650 RT_nLTR_like RT_nLTR: 99.8 4.5E-21 9.8E-26 178.9 6.4 121 172-335 90-220 (220)
3 cd03487 RT_Bac_retron_II RT_Ba 99.8 1.4E-19 3.1E-24 170.5 8.2 127 172-338 65-198 (214)
4 PF00078 RVT_1: Reverse transc 99.8 5E-21 1.1E-25 176.1 -2.4 138 172-335 72-214 (214)
5 cd01709 RT_like_1 RT_like_1: A 99.8 3.1E-18 6.8E-23 170.5 15.6 210 173-403 31-263 (346)
6 cd01646 RT_Bac_retron_I RT_Bac 99.8 5.4E-19 1.2E-23 159.0 5.3 139 172-337 4-146 (158)
7 cd01648 TERT TERT: Telomerase 99.7 5.1E-18 1.1E-22 146.3 4.5 98 220-336 13-119 (119)
8 cd00304 RT_like RT_like: Rever 99.4 4.3E-13 9.2E-18 110.1 4.9 83 227-335 12-98 (98)
9 KOG4768|consensus 99.4 2.4E-12 5.2E-17 134.6 10.2 200 173-383 369-644 (796)
10 cd03714 RT_DIRS1 RT_DIRS1: Rev 98.7 6.2E-09 1.3E-13 89.2 3.5 71 226-301 33-106 (119)
11 cd01645 RT_Rtv RT_Rtv: Reverse 98.7 6.1E-09 1.3E-13 98.4 2.6 72 225-301 127-202 (213)
12 KOG1005|consensus 98.5 3.9E-07 8.4E-12 99.3 10.2 97 194-300 607-710 (888)
13 cd03715 RT_ZFREV_like RT_ZFREV 98.5 6.6E-08 1.4E-12 90.9 3.0 73 224-301 122-198 (210)
14 cd01647 RT_LTR RT_LTR: Reverse 98.2 1.1E-06 2.4E-11 77.5 3.8 72 225-301 94-165 (177)
15 COG3344 Retron-type reverse tr 96.7 0.0031 6.6E-08 63.4 6.7 86 174-265 191-280 (328)
16 cd01699 RNA_dep_RNAP RNA_dep_R 96.5 0.0042 9.1E-08 60.2 5.4 115 177-302 109-239 (278)
17 cd01644 RT_pepA17 RT_pepA17: R 96.3 0.0027 5.8E-08 60.4 3.1 66 224-294 101-172 (213)
18 CHL00002 matK maturase K 91.5 1.4 3.1E-05 47.2 10.5 196 181-383 157-418 (504)
19 PF00680 RdRP_1: RNA dependent 89.0 0.74 1.6E-05 48.8 6.0 97 194-301 278-388 (491)
20 KOG4364|consensus 85.3 10 0.00022 41.8 11.8 7 341-347 608-614 (811)
21 PTZ00121 MAEBL; Provisional 83.5 41 0.00088 40.6 16.1 16 170-185 1768-1783(2084)
22 PF03431 RNA_replicase_B: RNA 81.8 5.2 0.00011 42.4 7.7 133 192-358 267-409 (542)
23 KOG1795|consensus 79.4 24 0.00051 41.9 12.2 220 171-401 975-1287(2321)
24 PF08388 GIIM: Group II intron 78.9 7.5 0.00016 30.4 6.2 52 355-409 14-65 (80)
25 PHA00028 rep RNA replicase, be 74.0 13 0.00028 40.0 7.9 143 184-358 267-416 (561)
26 PF05919 Mitovir_RNA_pol: Mito 72.4 5.6 0.00012 42.4 4.9 113 174-302 158-278 (498)
27 KOG4364|consensus 71.2 52 0.0011 36.5 11.8 8 296-303 499-506 (811)
28 PTZ00121 MAEBL; Provisional 69.7 1.2E+02 0.0026 37.0 14.8 13 372-384 1974-1986(2084)
29 COG5178 PRP8 U5 snRNP spliceos 64.5 42 0.00092 39.6 9.8 98 172-277 1010-1139(2365)
30 PF00978 RdRP_2: RNA dependent 50.6 27 0.00057 36.9 5.3 79 184-266 234-317 (440)
31 cd01415 SAICAR_synt_PurC bacte 50.6 25 0.00055 34.0 4.7 112 181-301 50-175 (230)
32 PF12921 ATP13: Mitochondrial 49.8 69 0.0015 27.9 6.9 47 180-236 5-51 (126)
33 PRK09362 phosphoribosylaminoim 48.1 16 0.00034 35.6 2.9 112 181-301 55-180 (238)
34 cd00476 SAICAR_synt 5-aminoimi 44.6 14 0.00029 35.8 1.8 111 182-301 50-175 (230)
35 TIGR00081 purC phosphoribosyla 43.8 25 0.00055 34.2 3.6 112 181-301 57-182 (237)
36 COG4770 Acetyl/propionyl-CoA c 42.0 20 0.00043 39.1 2.7 17 219-235 364-380 (645)
37 COG0152 PurC Phosphoribosylami 39.5 62 0.0014 31.7 5.5 112 181-301 55-180 (247)
38 PF11600 CAF-1_p150: Chromatin 38.6 3.5E+02 0.0075 25.6 11.8 6 199-204 181-186 (216)
39 PF07240 Turandot: Stress-indu 35.8 19 0.00042 29.5 1.2 42 191-242 27-69 (85)
40 PF04196 Bunya_RdRp: Bunyaviru 34.0 1.4E+02 0.003 34.0 7.8 129 193-324 491-641 (743)
41 PF13514 AAA_27: AAA domain 33.2 73 0.0016 37.6 5.8 115 177-308 960-1092(1111)
42 PF12165 DUF3594: Domain of un 33.0 2.3E+02 0.0049 25.2 7.3 78 293-372 31-118 (137)
43 cd01414 SAICAR_synt_Sc non-met 32.1 30 0.00066 34.4 2.1 72 223-301 122-197 (279)
44 KOG1144|consensus 31.5 1.7E+02 0.0036 33.5 7.7 12 328-339 537-548 (1064)
45 PF05919 Mitovir_RNA_pol: Mito 31.3 1.5E+02 0.0033 31.9 7.1 149 180-340 116-275 (498)
46 KOG1359|consensus 29.2 73 0.0016 32.4 4.2 99 252-354 301-410 (417)
47 PF00602 Flu_PB1: Influenza RN 29.0 18 0.0004 40.0 0.0 50 252-305 438-487 (740)
48 KOG0164|consensus 28.5 38 0.00082 38.0 2.2 99 224-347 842-941 (1001)
49 KOG0736|consensus 27.0 4.1E+02 0.009 30.6 9.8 202 185-401 683-902 (953)
50 cd01416 SAICAR_synt_Ade5 Ade5_ 25.1 1.1E+02 0.0024 30.1 4.6 111 182-301 57-188 (252)
51 KOG1144|consensus 25.0 3.1E+02 0.0066 31.5 8.3 7 98-104 226-232 (1064)
52 COG0282 ackA Acetate kinase [E 22.8 51 0.0011 34.4 1.8 115 178-300 243-357 (396)
53 PF00998 RdRP_3: Viral RNA dep 21.6 1.9E+02 0.004 31.2 5.8 45 250-300 295-339 (486)
54 COG1378 Predicted transcriptio 20.5 2.1E+02 0.0045 27.9 5.5 109 180-300 2-110 (247)
No 1
>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).
Probab=99.83 E-value=6.3e-21 Score=178.20 Aligned_cols=134 Identities=19% Similarity=0.283 Sum_probs=113.9
Q ss_pred HhhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc--
Q psy12268 172 EEEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF-- 249 (410)
Q Consensus 172 ~~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l-- 249 (410)
+.+||.|+|+.|+..|...|.++.++.||.+|+.... ...+..+....|||||+++||+||++|+++++..+
T Consensus 78 ~~~Fdsi~~~~l~~~l~~~~~~~~~~~~i~~~~~~~~------~~~~~~~~~~~GlpqG~~lSp~L~~~~l~~ld~~l~~ 151 (226)
T cd01651 78 KGFFDNIDHDLLLKILKRRIGDKRVLRLIRKWLKAGV------LEDGKLVETEKGTPQGGVISPLLANIYLHELDKFVEE 151 (226)
T ss_pred HHhcCCCCHHHHHHHHHHhcccHHHHHHHHHHHhceE------ccCCeEeCCCCCcCCCccHHHHHHHHHHHHHHHHHHH
Confidence 5689999999999999999999999999999864332 22345678899999999999999999999998754
Q ss_pred -------------CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceee
Q psy12268 250 -------------PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYD 316 (410)
Q Consensus 250 -------------~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~t 316 (410)
.++.+++||||++|++.+ ...++.+++.+..|+..+||.+|++||.++.++
T Consensus 152 ~~~~~~~~~~~~~~~~~~~rY~DD~~i~~~~-----~~~~~~~~~~i~~~~~~~gl~ln~~Kt~i~~~~----------- 215 (226)
T cd01651 152 KLKEYYDTSDPKFRRLRYVRYADDFVIGVRG-----PKEAEEIKELIREFLEELGLELNPEKTRITHFK----------- 215 (226)
T ss_pred hhhhcccccccccCceEEEEecCceEEecCC-----HHHHHHHHHHHHHHHHHcCCeechhhcceeecC-----------
Confidence 457899999999999843 344888899999999999999999999999985
Q ss_pred eCCccccccccccccceee
Q psy12268 317 INGQALARCEQVRDLGVTF 335 (410)
Q Consensus 317 i~g~~I~~ves~KYLGV~L 335 (410)
.+.+.|||+.|
T Consensus 216 --------~~~~~fLG~~~ 226 (226)
T cd01651 216 --------SEGFDFLGFTF 226 (226)
T ss_pred --------CCCCeeCCeEC
Confidence 33589999875
No 2
>cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT). This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities.
Probab=99.83 E-value=4.5e-21 Score=178.93 Aligned_cols=121 Identities=27% Similarity=0.445 Sum_probs=105.9
Q ss_pred HhhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC-
Q psy12268 172 EEEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP- 250 (410)
Q Consensus 172 ~~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~- 250 (410)
+.+||.|+|+.|+..| |||||++|||+||++|++++...+.
T Consensus 90 ~~aFdsi~~~~l~~~l--------------------------------------GipQG~~lSp~l~~l~~~~l~~~~~~ 131 (220)
T cd01650 90 EKAFDSVDHEFLLKAL--------------------------------------GVRQGDPLSPLLFNLALDDLLRLLNK 131 (220)
T ss_pred HhhcCcCCHHHHHHHh--------------------------------------CCccCCcccHHHHHHHHHHHHHHHHh
Confidence 5789999999999999 9999999999999999999987653
Q ss_pred ---------CcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCcc
Q psy12268 251 ---------GFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQA 321 (410)
Q Consensus 251 ---------~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~ 321 (410)
++.+++||||++|++.+.. ..++.+++.+..|+..+||.+|++||++++++........ +.+++..
T Consensus 132 ~~~~~~~~~~~~~~~yaDD~~i~~~~~~----~~~~~~~~~~~~~~~~~gl~in~~Kt~~~~~~~~~~~~~~-~~~~~~~ 206 (220)
T cd01650 132 EEEIKLGGPGITHLAYADDIVLFSEGKS----RKLQELLQRLQEWSKESGLKINPSKSKVMLIGNKKKRLKD-ITLNGTP 206 (220)
T ss_pred hccccCCCCccceEEeccceeeeccCCH----HHHHHHHHHHHHHHHHcCCEEChhheEEEEecCCCcchhh-hhhcCCc
Confidence 5789999999999985431 3788899999999999999999999999999876543323 7788889
Q ss_pred ccccccccccceee
Q psy12268 322 LARCEQVRDLGVTF 335 (410)
Q Consensus 322 I~~ves~KYLGV~L 335 (410)
+.....++|||++|
T Consensus 207 ~~~~~~~kyLG~~i 220 (220)
T cd01650 207 IEAVETFKYLGVTI 220 (220)
T ss_pred ccCCCCCeeccccC
Confidence 99999999999975
No 3
>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=99.79 E-value=1.4e-19 Score=170.49 Aligned_cols=127 Identities=13% Similarity=0.107 Sum_probs=105.9
Q ss_pred HhhhcCCCHHHHHHHHHhCCCC-hHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc-
Q psy12268 172 EEEKRKNEKAVRLTKLSAFGIS-GYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF- 249 (410)
Q Consensus 172 ~~~~~~vdH~~Ll~~L~~~G~p-~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l- 249 (410)
..+||.|+|+.|+..|...|.+ +.+..||..++.. ..|||||+|+||+||++|+++++..+
T Consensus 65 ~~fFdsI~~~~L~~~l~~~~~~~~~~~~~l~~~~~~-----------------~~GlpQG~~lSp~Lanl~l~~~d~~l~ 127 (214)
T cd03487 65 KDFFPSITFERVRGVFRSLGYFSPDVATILAKLCTY-----------------NGHLPQGAPTSPALSNLVFRKLDERLS 127 (214)
T ss_pred hhhcccCCHHHHHHHHHHcCCCCHHHHHHHHHHHhC-----------------CCCcCCCCcccHHHHHHHHHHHHHHHH
Confidence 4679999999999999999998 8888888887632 12999999999999999999998765
Q ss_pred -----CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccc
Q psy12268 250 -----PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALAR 324 (410)
Q Consensus 250 -----~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ 324 (410)
.++.+++||||++|++.+... ..+..++..+..|+..+||.+|++||.++..+.
T Consensus 128 ~~~~~~~~~~~RYaDD~~i~~~~~~~---~~~~~~~~~i~~~l~~~gL~ln~~Kt~i~~~~~------------------ 186 (214)
T cd03487 128 KLAKSNGLTYTRYADDITFSSNKKLK---EALDKLLEIIRSILSEEGFKINKSKTRISSKGS------------------ 186 (214)
T ss_pred HHHHHcCCeEEEEeccEEEEccccch---hHHHHHHHHHHHHHHHCCceeCCCceEEccCCC------------------
Confidence 367899999999998754311 367888999999999999999999999987643
Q ss_pred cccccccceeecCc
Q psy12268 325 CEQVRDLGVTFQKT 338 (410)
Q Consensus 325 ves~KYLGV~Ld~k 338 (410)
.+.+||+.+++.
T Consensus 187 --~~~~~G~~i~~~ 198 (214)
T cd03487 187 --RQIVTGLVVNNG 198 (214)
T ss_pred --CcEEEEEEEeCC
Confidence 267888888754
No 4
>PF00078 RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR000477 The use of an RNA template to produce DNA, for integration into the host genome and exploitation of a host cell, is a strategy employed in the replication of retroid elements, such as the retroviruses and bacterial retrons. The enzyme catalysing polymerisation is an RNA-directed DNA-polymerase, or reverse trancriptase (RT) (2.7.7.49 from EC). Reverse transcriptase occurs in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. Retroviral reverse transcriptase 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. The discovery of retroelements in the prokaryotes raises intriguing questions concerning their roles in bacteria and the origin and evolution of reverse transcriptases and whether the bacterial reverse transcriptases are older than eukaryotic reverse transcriptases [].; GO: 0003723 RNA binding, 0003964 RNA-directed DNA polymerase activity, 0006278 RNA-dependent DNA replication; PDB: 1MU2_B 3RWE_C 3DU6_B 3DU5_A 3KYL_A 2WOM_B 1DTQ_A 2OPS_A 3FFI_A 1VRU_B ....
Probab=99.79 E-value=5e-21 Score=176.08 Aligned_cols=138 Identities=24% Similarity=0.431 Sum_probs=120.9
Q ss_pred HhhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc--
Q psy12268 172 EEEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF-- 249 (410)
Q Consensus 172 ~~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l-- 249 (410)
..+|+.|+|+.|...|..++.+..++.||.+++.++...+.+++.. ..+....|+|||+++||+||++|+++++..+
T Consensus 72 ~~~f~sI~~~~l~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~-~~~~~~~glpqG~~~S~~l~~~~l~~l~~~~~~ 150 (214)
T PF00078_consen 72 SKAFDSIPHHRLLRKLKRFGVPKKLIRLIQNLLSDRTAKVYLDGDL-SPYFQKRGLPQGSPLSPLLFNIYLDDLDRELQQ 150 (214)
T ss_dssp CCCGGGSBBHTTTGGGGEEEEECCSCHHHHHHHHHHHH-EECGCSS-SEEEEESBS-TTSTCHHHHHHHHHHHHHHHHHH
T ss_pred ccccccceeeeccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhccccccccccccc
Confidence 3589999999999999999999999999999999999999988876 8889999999999999999999999998754
Q ss_pred ---CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccccc
Q psy12268 250 ---PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALARCE 326 (410)
Q Consensus 250 ---~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ve 326 (410)
+++.+..||||++|++. +...++..++.+..|+..+||.+|++||.+++ +.+
T Consensus 151 ~~~~~~~~~rY~DD~~i~~~-----~~~~~~~~~~~i~~~~~~~gl~ln~~Kt~~~~--------------------~~~ 205 (214)
T PF00078_consen 151 ELNPDISYLRYADDILIISK-----SKEELQKILEKISQWLEELGLKLNPEKTKILH--------------------PSD 205 (214)
T ss_dssp HS-TTSEEEEETTEEEEEES-----SHHHHHHHHHHHHHHHHHTTSBCSSTTTSCS----------------------ES
T ss_pred cccccccceEeccccEEEEC-----CHHHHHHHHHHHHHHHHHCCCEEChHHEEEEe--------------------CCC
Confidence 45789999999999984 34668899999999999999999999999755 456
Q ss_pred cccccceee
Q psy12268 327 QVRDLGVTF 335 (410)
Q Consensus 327 s~KYLGV~L 335 (410)
.+.|||+.|
T Consensus 206 ~~~~lG~~i 214 (214)
T PF00078_consen 206 SVKFLGYVI 214 (214)
T ss_dssp SEEETTEEE
T ss_pred CEEEEeEEC
Confidence 799999876
No 5
>cd01709 RT_like_1 RT_like_1: A subfamily of reverse transcriptases (RTs). An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.
Probab=99.78 E-value=3.1e-18 Score=170.50 Aligned_cols=210 Identities=16% Similarity=0.143 Sum_probs=142.0
Q ss_pred hhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc---
Q psy12268 173 EEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF--- 249 (410)
Q Consensus 173 ~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l--- 249 (410)
.-.|.|||+.|+.+|..+|++..++.+|..||..+-..+ -+|..+......+|+|||++|||+|.|+|++.++..+
T Consensus 31 ~fFdsIpH~~Lm~vL~~~~~~~~wL~li~r~L~APl~~~-~dg~~~~~r~r~rGtPqGgviSplLaNiyL~~lD~~v~~~ 109 (346)
T cd01709 31 WFGPSLPHSTILAVLKFFGVPEKWLDFFKKFLEAPLRFV-ADGPDAPPRIRKRGTPMSHALSDVFGELVLFCLDFAVNQA 109 (346)
T ss_pred hhCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhCceeec-CCCCcccccccCCccCCCchhhHHHHHHHHHHHHHHHHhc
Confidence 347899999999999999999999999999996554433 1332345667789999999999999999999887643
Q ss_pred -CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccccccc
Q psy12268 250 -PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALARCEQV 328 (410)
Q Consensus 250 -~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ves~ 328 (410)
+++.++.||||++++++ ......++..+..++...||+||++||.++.+......... .....-|...+
T Consensus 110 ~~g~~l~RYaDD~vi~~~------~~~a~~aw~~i~~fl~~lGLelN~eKT~iV~~~~~~r~~~~----~~~~~LP~g~i 179 (346)
T cd01709 110 TDGGLLYRLHDDLWFWGQ------PETCAKAWKAIQEFAKVMGLELNKEKTGSVYLSDDTKTRDT----TIDATLPEGPV 179 (346)
T ss_pred CCCceEEEEcCeEEEEcC------HHHHHHHHHHHHHHHHHcCceeccccceEEEeccCCccCCC----cccccCCCCCc
Confidence 57899999999999852 14455566788899999999999999999988754321000 00111122333
Q ss_pred ccccee---------ecCcch-HHHHHHHHHHHHHhhhccCCCHHHHHHHHHhhc---------ccchhhhHHHhhhhHH
Q psy12268 329 RDLGVT---------FQKTLE-RQINDLIFIYKLVNNQIFCPDILTYSFTFSQEI---------GKQAEHNIIVLVEFAI 389 (410)
Q Consensus 329 KYLGV~---------Ld~kLs-~HI~~~ir~l~~l~R~~~~ls~~~k~~Lyks~V---------~P~L~Yg~~VW~~~~~ 389 (410)
+|-=.. ||..+- .||..+..++.. +-|.-.-+..|++|+ .|..+||- ..-.
T Consensus 180 ~wgfL~Ld~~~G~~~Idq~~Vd~hi~el~~QL~~------c~Sv~~wiq~WNsy~~~ff~~nFg~pa~cfGr----~Hvd 249 (346)
T cd01709 180 RWGFLKLDPKTGRWEIDQSQVDAHIDELRKQLDA------CKSVLSWIQAWNSYIGRFFSNNFGKPANCFGR----EHVD 249 (346)
T ss_pred eeeeEEecCCCCcEEeeHHHHHHHHHHHHHHhhc------CchHHHHHHHHHHHHHHHHHHhcCCcchhcCH----HHHH
Confidence 333233 444443 676666533321 223344455566555 44444442 2344
Q ss_pred HHHHHHHHHHHHHH
Q psy12268 390 ALVTILDQINRESF 403 (410)
Q Consensus 390 ~~i~~LdrvqR~~l 403 (410)
..++++.++|+..|
T Consensus 250 ~~l~t~~riq~~lf 263 (346)
T cd01709 250 AILATHERIQRRLF 263 (346)
T ss_pred HHHHHHHHHHHHhc
Confidence 57888888888865
No 6
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=99.76 E-value=5.4e-19 Score=159.04 Aligned_cols=139 Identities=16% Similarity=0.153 Sum_probs=111.9
Q ss_pred HhhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc--
Q psy12268 172 EEEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF-- 249 (410)
Q Consensus 172 ~~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l-- 249 (410)
...||+|+|+.|+..|...+.++.++.++..++... ++...+.......|||||+++||+|+++|+.++...+
T Consensus 4 ~~fF~sI~~~~l~~~l~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~GlpqG~~lS~~L~~~~l~~~d~~i~~ 78 (158)
T cd01646 4 SNFYDSIYTHSLPWALHGKIKAKQLLKLLRLLGNLL-----DLLLLSSQYGQTNGLPIGPLTSRFLANIYLNDVDHELKS 78 (158)
T ss_pred hhccCcchHHHHHHHHHhhhhhHhhhhhHHHHHHHH-----HHHHHhccCCCCceEccCcchHHHHHHHHHHHHHHHHHh
Confidence 357999999999999999999999998874444211 1122334567788999999999999999999988754
Q ss_pred --CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCcccccccc
Q psy12268 250 --PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALARCEQ 327 (410)
Q Consensus 250 --~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ves 327 (410)
.++.+++||||++|++. +...++.+++.+..|+..+||.||++||.++.+.... ..
T Consensus 79 ~~~~~~~~RY~DD~~i~~~-----~~~~~~~~~~~i~~~l~~~gL~ln~~Kt~~~~~~~~~-----------------~~ 136 (158)
T cd01646 79 KLKGVDYVRYVDDIRIFAD-----SKEEAEEILEELKEFLAELGLSLNLSKTEILPLPEGT-----------------AS 136 (158)
T ss_pred ccCCceEEEecCcEEEEcC-----CHHHHHHHHHHHHHHHHHCCCEEChhhceeeecCCCC-----------------cc
Confidence 56899999999999884 3456778899999999999999999999998886431 44
Q ss_pred ccccceeecC
Q psy12268 328 VRDLGVTFQK 337 (410)
Q Consensus 328 ~KYLGV~Ld~ 337 (410)
+.+||+.+..
T Consensus 137 ~~flg~~~~~ 146 (158)
T cd01646 137 KDFLGYRFSP 146 (158)
T ss_pred ccccceEeeh
Confidence 7788887764
No 7
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT). Telomerase is a ribonucleoprotein (RNP) that synthesizes telomeric DNA repeats. The telomerase RNA subunit provides the template for synthesis of these repeats. The catalytic subunit of RNP is known as telomerase reverse transcriptase (TERT). The reverse transcriptase (RT) domain is located in the C-terminal region of the TERT polypeptide. Single amino acid substitutions in this region lead to telomere shortening and senescence. Telomerase is an enzyme that, in certain cells, maintains the physical ends of chromosomes (telomeres) during replication. In somatic cells, replication of the lagging strand requires the continual presence of an RNA primer approximately 200 nucleotides upstream, which is complementary to the template strand. Since there is a region of DNA less than 200 base pairs from the end of the chromosome where this is not possible, the chromosome is continually shortened. However, a surplus of repetitive DNA at
Probab=99.71 E-value=5.1e-18 Score=146.34 Aligned_cols=98 Identities=19% Similarity=0.199 Sum_probs=79.2
Q ss_pred ccccCccccCCCcchhhhhhhhhhhhhhccC--------CcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhh-hhc
Q psy12268 220 PIHIPSGCIQGGHMSGLLFSLFINDIAEIFP--------GFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWC-SIN 290 (410)
Q Consensus 220 ~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~--------~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~-~~~ 290 (410)
.+....|||||++|||+||++|++.++..+. +..+++||||+++++.+ ...++.+++.+..|+ ..+
T Consensus 13 ~~~~~~GlpQG~~lSp~L~nl~l~~l~~~~~~~~~~~~~~~~~~rYaDD~li~~~~-----~~~~~~~~~~l~~~l~~~~ 87 (119)
T cd01648 13 YYRQKVGIPQGSPLSSLLCSLYYADLENKYLSFLDVIDKDSLLLRLVDDFLLITTS-----LDKAIKFLNLLLRGFINQY 87 (119)
T ss_pred hhhhcCcccCCcchHHHHHHHHHHHHHHHHHhhcccCCCCceEEEEeCcEEEEeCC-----HHHHHHHHHHHHHhhHHhh
Confidence 5778899999999999999999999887542 35689999999988743 366788899999997 999
Q ss_pred cccccccceeEEEeecCCCCccceeeeCCccccccccccccceeec
Q psy12268 291 KMELNIGKCMVMTYHRNKSPILASYDINGQALARCEQVRDLGVTFQ 336 (410)
Q Consensus 291 GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ves~KYLGV~Ld 336 (410)
||.+|++||++..... ...+...+.|||+.|+
T Consensus 88 gl~iN~~Kt~~~~~~~--------------~~~~~~~~~flG~~i~ 119 (119)
T cd01648 88 KTFVNFDKTQINFSFA--------------QLDSSDLIPWCGLLIN 119 (119)
T ss_pred CeEECcccceeecccc--------------ccCCCCccCceeEeeC
Confidence 9999999999875432 1123456999999875
No 8
>cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.
Probab=99.38 E-value=4.3e-13 Score=110.11 Aligned_cols=83 Identities=17% Similarity=0.204 Sum_probs=70.6
Q ss_pred ccCCCcchhhhhhhhhhhhhhcc----CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEE
Q psy12268 227 CIQGGHMSGLLFSLFINDIAEIF----PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVM 302 (410)
Q Consensus 227 VPQGs~LSPLLFnL~l~~L~~~l----~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim 302 (410)
+|||+++||+||+++++.+...+ .++.+..||||+++++.. . .++..+..+..++..+||.+|++||.++
T Consensus 12 lPqG~~~Sp~l~~~~~~~l~~~~~~~~~~~~~~~Y~DD~~i~~~~-----~-~~~~~~~~l~~~l~~~gl~ln~~Kt~~~ 85 (98)
T cd00304 12 LPQGSPLSPALANLYMEKLEAPILKQLLDITLIRYVDDLVVIAKS-----E-QQAVKKRELEEFLARLGLNLSDEKTQFT 85 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHHHHHhcCCceEEEeeCcEEEEeCc-----H-HHHHHHHHHHHHHHHcCcEEChheeEEe
Confidence 99999999999999999999874 578999999999998742 2 6777888999999999999999999985
Q ss_pred EeecCCCCccceeeeCCccccccccccccceee
Q psy12268 303 TYHRNKSPILASYDINGQALARCEQVRDLGVTF 335 (410)
Q Consensus 303 ~f~~~~~~~~~~~ti~g~~I~~ves~KYLGV~L 335 (410)
. ....+.|||+.+
T Consensus 86 ~--------------------~~~~~~flG~~~ 98 (98)
T cd00304 86 E--------------------KEKKFKFLGILV 98 (98)
T ss_pred c--------------------CCCCeeeeceeC
Confidence 1 345588998764
No 9
>KOG4768|consensus
Probab=99.36 E-value=2.4e-12 Score=134.58 Aligned_cols=200 Identities=11% Similarity=0.060 Sum_probs=133.8
Q ss_pred hhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC--
Q psy12268 173 EEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP-- 250 (410)
Q Consensus 173 ~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~-- 250 (410)
+-.|.|||+.|+..|+..--+..+++++..+|..-.+. .++ ......-|+||||++||+|+++|+..|+..+.
T Consensus 369 kcfdtIphd~LI~eL~~rIkdk~fidL~~kll~AGy~t--en~---ry~~~~lGtpqgsvvspil~nifL~~LDk~Lenk 443 (796)
T KOG4768|consen 369 KCFDTIPHDELIIELQKRIKDKGFIDLNYKLLRAGYTT--ENA---RYHVEFLGTPQGSVVSPILCNIFLRELDKRLENK 443 (796)
T ss_pred HHhccccHHHHHHHHHHHHhhhhHHHHHHHHHhcCccc--ccc---ceecccccccccccCCchhHHHHHHHHHHHHHHH
Confidence 35799999999999999978899999999988543222 221 12345679999999999999999998885421
Q ss_pred --------------------------------------------------C------cccccccchhhhhhhcCChhhhh
Q psy12268 251 --------------------------------------------------G------FNFWLFADDLKVALRVGGQREVD 274 (410)
Q Consensus 251 --------------------------------------------------~------i~~l~YADDivIis~s~s~~~~~ 274 (410)
+ .-++.||||++|.+.+ +..
T Consensus 444 ~~nefn~~~~~~~rhs~yr~L~~~iakaKl~s~~sKtirlrd~~qrn~~n~~~gfkr~~yVRyadd~ii~v~G----S~n 519 (796)
T KOG4768|consen 444 HRNEFNAGHLRSARHSKYRNLSDSIAKAKLTSGMSKTIRLRDGVQRNETNDTAGFKRLMYVRYADDIIIGVWG----SVN 519 (796)
T ss_pred HHhhhcccCcccccChhhhhHHHHHHHHHHhhhhhhhhhhhhcccccccCCccccceeeEEEecCCEEEEEec----cHH
Confidence 0 2459999999997643 234
Q ss_pred hHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccc--cccccccceeecCcch----HHHHHHHH
Q psy12268 275 SMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALAR--CEQVRDLGVTFQKTLE----RQINDLIF 348 (410)
Q Consensus 275 ~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~--ves~KYLGV~Ld~kLs----~HI~~~ir 348 (410)
+..+.+..|..|+.++||++|++||++.+.....++ ..+.+.-.|..+ ......-|+.+..... +-++.+++
T Consensus 520 d~K~ilr~In~f~sslGls~n~~kt~it~S~eg~~f--lg~nis~tP~r~~~~~~~gh~~i~~rn~~~i~inAPir~I~~ 597 (796)
T KOG4768|consen 520 DCKQILRDINNFLSSLGLSNNSSKTQITVSREGTHF--LGYNISTTPGRPAAGEGGGHWAIRIRNETPIKINAPIRKILR 597 (796)
T ss_pred HHHHHHHHHHHHHHhhCcccCcccceEEeeccceee--eeceeccCCCCccceeccccceEEeccCCceeecchHHHHHH
Confidence 455566777888889999999999998776443222 222222222222 2223333333333332 66666663
Q ss_pred HHH---HHh--hh------cc-CCCHHHHHHHHHhhcccchhhhHHH
Q psy12268 349 IYK---LVN--NQ------IF-CPDILTYSFTFSQEIGKQAEHNIIV 383 (410)
Q Consensus 349 ~l~---~l~--R~------~~-~ls~~~k~~Lyks~V~P~L~Yg~~V 383 (410)
.+. ... +. .| ...+.+.+..|.+++++++.|...+
T Consensus 598 KLr~~G~~s~~r~~Pr~V~rlt~~e~rtIin~~~ai~rg~lnYYr~a 644 (796)
T KOG4768|consen 598 KLRDRGYCSHGRPWPRHVGRLTNEEDRTIINWYAAIGRGILNYYRLA 644 (796)
T ss_pred HHHhcceeecCCcCceeeeeecccCHHHHHHHHHHHhhchhhhhhHh
Confidence 332 111 11 11 5678999999999999999998655
No 10
>cd03714 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons. Members of the subfamily include the Dictyostelium DIRS-1, Volvox carteri kangaroo, and Panagrellus redivivus PAT elements. These elements differ from LTR and conventional non-LTR retrotransposons. They contain split direct repeat (SDR) termini, and have been proposed to integrate via double-stranded closed-circle DNA intermediates assisted by an encoded recombinase which is similar to gamma-site-specific integrase.
Probab=98.74 E-value=6.2e-09 Score=89.22 Aligned_cols=71 Identities=15% Similarity=0.253 Sum_probs=55.5
Q ss_pred cccCCCcchhhhhhhhhhhhhhccC--CcccccccchhhhhhhcCChhhhhhHHHHHHHHHh-hhhhccccccccceeE
Q psy12268 226 GCIQGGHMSGLLFSLFINDIAEIFP--GFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYH-WCSINKMELNIGKCMV 301 (410)
Q Consensus 226 GVPQGs~LSPLLFnL~l~~L~~~l~--~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~-w~~~~GLkIN~~KTei 301 (410)
=+|||...||.+|..+|+.+...+. +..+..|+||+.|++.+ .+.....+..+.. .+..+||.+|++||++
T Consensus 33 ~mp~Gl~~sp~~f~~~~~~i~~~~~~~~~~v~~Y~DDili~~~~-----~~~~~~~~~~l~~~~l~~~gl~ln~~K~~~ 106 (119)
T cd03714 33 ALPFGLSLAPRVFTKVVEALLAPLRLLGVRIFSYLDDLLIIASS-----IKTSEAVLRHLRATLLANLGFTLNLEKSKL 106 (119)
T ss_pred ecCCcccchHHHHHHHHHHHHHHhhcCCeEEEEEecCeEEEeCc-----HHHHHHHHHHHHHHHHHHcCCccChhhcEe
Confidence 3899999999999999999887643 45788999999998753 2333334444433 6889999999999996
No 11
>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs). RTs catalyze the conversion of single-stranded RNA into double-stranded viral DNA for integration into host chromosomes. Proteins in this subfamily contain long terminal repeats (LTRs) and are multifunctional enzymes with RNA-directed DNA polymerase, DNA directed DNA polymerase, and ribonuclease hybrid (RNase H) activities. The viral RNA genome enters the cytoplasm as part of a nucleoprotein complex, and the process of reverse transcription generates in the cytoplasm forming a linear DNA duplex via an intricate series of steps. This duplex DNA is colinear with its RNA template, but contains terminal duplications known as LTRs that are not present in viral RNA. It has been proposed that two specialized template switches, known as strand-transfer reactions or "jumps", are required to generate the LTRs.
Probab=98.70 E-value=6.1e-09 Score=98.37 Aligned_cols=72 Identities=15% Similarity=0.122 Sum_probs=61.3
Q ss_pred ccccCCCcchhhhhhhhhhhhhhccC----CcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhcccccccccee
Q psy12268 225 SGCIQGGHMSGLLFSLFINDIAEIFP----GFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCM 300 (410)
Q Consensus 225 ~GVPQGs~LSPLLFnL~l~~L~~~l~----~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTe 300 (410)
.++|||...||.+|+.+|+.+...+. ++.+..|+||++|++. +...+...+..+...+..+||.+|++||+
T Consensus 127 ~~lP~Gl~~SP~~f~~~m~~~l~~~~~~~~~~~~~~Y~DDili~s~-----~~~~~~~~l~~v~~~l~~~gl~ln~~K~~ 201 (213)
T cd01645 127 KVLPQGMKNSPTICQSFVAQALEPFRKQYPDIVIYHYMDDILIASD-----LEGQLREIYEELRQTLLRWGLTIPPEKVQ 201 (213)
T ss_pred EEeCCCCcChHHHHHHHHHHHHHHHHHHCCCeEEEEEcCCEEEEcC-----CHHHHHHHHHHHHHHHHHCCCEeCHHHEe
Confidence 57999999999999999998886543 4568899999999873 44667778888999999999999999998
Q ss_pred E
Q psy12268 301 V 301 (410)
Q Consensus 301 i 301 (410)
.
T Consensus 202 ~ 202 (213)
T cd01645 202 K 202 (213)
T ss_pred C
Confidence 3
No 12
>KOG1005|consensus
Probab=98.52 E-value=3.9e-07 Score=99.26 Aligned_cols=97 Identities=26% Similarity=0.334 Sum_probs=78.3
Q ss_pred hHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC------C-cccccccchhhhhhh
Q psy12268 194 GYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP------G-FNFWLFADDLKVALR 266 (410)
Q Consensus 194 ~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~------~-i~~l~YADDivIis~ 266 (410)
..+..||..+|. +..|.++| ..+....|||||++||.+|+.+|+++|.+.+- + +.++.|+||+.++++
T Consensus 607 s~l~~vi~~~l~--~~~vki~~---k~yvq~~GIpQGs~LSslLc~lyy~dle~~y~~~~~~~g~~vLlR~vDDFLfITt 681 (888)
T KOG1005|consen 607 SDLFSVIRNMLS--TNYVKIGG---KSYVQKKGIPQGSILSSLLCHLYYGDLEDKYFSFEKEDGSIVLLRYVDDFLFITT 681 (888)
T ss_pred hhHHHHHHHHHh--hheEEECC---eEEEEecCccCCCchhHHHHHHHHHhHHHHHhhcccCCCcEEEEEeecceEEEec
Confidence 456677777774 34555666 45778899999999999999999999997531 2 378999999999984
Q ss_pred cCChhhhhhHHHHHHHHHhhhhhcccccccccee
Q psy12268 267 VGGQREVDSMQSMLSRLYHWCSINKMELNIGKCM 300 (410)
Q Consensus 267 s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTe 300 (410)
+..++..++..+..-...++.-.|..||.
T Consensus 682 -----~~~~a~kfl~~l~~Gf~~yn~~tn~~K~~ 710 (888)
T KOG1005|consen 682 -----ENDQAKKFLKLLSRGFNKYNFFTNEPKTV 710 (888)
T ss_pred -----CHHHHHHHHHHHhccccccceeccCcccc
Confidence 44777788888888888999999999988
No 13
>cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs. Phylogenetic analysis suggests that ZFERV belongs to a distinct group of retroviruses.
Probab=98.49 E-value=6.6e-08 Score=90.85 Aligned_cols=73 Identities=18% Similarity=0.079 Sum_probs=62.3
Q ss_pred CccccCCCcchhhhhhhhhhhhhhcc----CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccce
Q psy12268 224 PSGCIQGGHMSGLLFSLFINDIAEIF----PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKC 299 (410)
Q Consensus 224 ~~GVPQGs~LSPLLFnL~l~~L~~~l----~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KT 299 (410)
-.-+|||...||.+|..+|+.+...+ .+..+..|.||++|++ .+.......++.+...+..+|+.+|++||
T Consensus 122 ~~~lp~Gl~~sp~~f~~~~~~~l~~~~~~~~~~~~~~Y~DDili~s-----~~~~e~~~~l~~v~~~l~~~gl~l~~~K~ 196 (210)
T cd03715 122 FTRLPQGFKNSPTLFHEALARDLAPFPLEHEGTILLQYVDDLLLAA-----DSEEDCLKGTDALLTHLGELGYKVSPKKA 196 (210)
T ss_pred EEEEeccccCcHHHHHHHHHHHHHHHHhhCCCeEEEEECCcEEEec-----CCHHHHHHHHHHHHHHHHHCCCCcCHHHe
Confidence 35689999999999999999887765 3567789999999988 34466777888999999999999999999
Q ss_pred eE
Q psy12268 300 MV 301 (410)
Q Consensus 300 ei 301 (410)
+.
T Consensus 197 ~~ 198 (210)
T cd03715 197 QI 198 (210)
T ss_pred eC
Confidence 95
No 14
>cd01647 RT_LTR RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template. RT catalyzes DNA replication from an RNA template, and is responsible for the replication of retroelements. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs are present in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and Caulimoviruses.
Probab=98.20 E-value=1.1e-06 Score=77.53 Aligned_cols=72 Identities=18% Similarity=0.156 Sum_probs=60.7
Q ss_pred ccccCCCcchhhhhhhhhhhhhhccCCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeE
Q psy12268 225 SGCIQGGHMSGLLFSLFINDIAEIFPGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 225 ~GVPQGs~LSPLLFnL~l~~L~~~l~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTei 301 (410)
..+|||...||.+|..++..+...+.+..+..|+||++|.+. +.......+..+...+..+|+.+|++||+.
T Consensus 94 ~~~p~G~~~s~~~~~~~~~~~l~~~~~~~~~~y~DDi~i~~~-----~~~~~~~~~~~~~~~l~~~~~~~~~~K~~~ 165 (177)
T cd01647 94 TRMPFGLKNAPATFQRLMNKILGDLLGDFVEVYLDDILVYSK-----TEEEHLEHLREVLERLREAGLKLNPEKCEF 165 (177)
T ss_pred EEecCCCccHHHHHHHHHHhhhccccccccEEEecCccccCC-----CHHHHHHHHHHHHHHHHHcCCEeCHHHcee
Confidence 569999999999999999998887777788899999999873 345555667777778889999999999984
No 15
>COG3344 Retron-type reverse transcriptase [DNA replication, recombination, and repair]
Probab=96.74 E-value=0.0031 Score=63.39 Aligned_cols=86 Identities=15% Similarity=0.132 Sum_probs=61.6
Q ss_pred hhcCCCHHHHHHHHHhCCCChHHHHHHHHHh-hcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccCCc
Q psy12268 174 EKRKNEKAVRLTKLSAFGISGYLLQWIRNFL-SGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFPGF 252 (410)
Q Consensus 174 ~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~L-s~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~~i 252 (410)
-.|.++|..|+..+...--+...+.++.-++ .+.... ....-....|+|||+++||+|.++.++.+...+...
T Consensus 191 ~fd~~~h~~ll~~~~~~i~~~~~~~~~~r~~~~~~~~~------~~~~~~~~~~~~q~~~vs~~l~n~~l~~~~~~~~~~ 264 (328)
T COG3344 191 CFDSINHKLLLYALDVTISDKLVLLLLGRILIAGYKTK------FNLKKSKEKGTPQGGLVSPILVNIKLSKLDNELRNR 264 (328)
T ss_pred HhcccCHHHHHHHhHhhhcchHHHHHHHHHHHccccee------ecccccccccCCCCCccCchhhhhhhhhhhHHHHHH
Confidence 4588999999999999855666665553433 222221 112223678999999999999999998888755432
Q ss_pred ---ccccccchhhhhh
Q psy12268 253 ---NFWLFADDLKVAL 265 (410)
Q Consensus 253 ---~~l~YADDivIis 265 (410)
.+..|+||..+..
T Consensus 265 ~~~~~~~y~~~~~i~~ 280 (328)
T COG3344 265 YLNLLRRYIDDGNIDK 280 (328)
T ss_pred HhhhhhhhcccccCCH
Confidence 4789999998865
No 16
>cd01699 RNA_dep_RNAP RNA_dep_RNAP: RNA-dependent RNA polymerase (RdRp) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage. RdRp catalyzes synthesis of the RNA strand complementary to a given RNA template. RdRps of many viruses are products of processing of polyproteins. Some RdRps consist of one polypeptide chain, and others are complexes of several subunits. The domain organization and the 3D structure of the catalytic center of a wide range of RdRps, including those with a low overall sequence homology, are conserved. The catalytic center is formed by several motifs containing a number of conserved amino acid residues. This subfamily represents the RNA-dependent RNA polymerases from all positive-strand RNA eukaryotic viruses with no DNA stage.
Probab=96.47 E-value=0.0042 Score=60.19 Aligned_cols=115 Identities=11% Similarity=0.149 Sum_probs=71.4
Q ss_pred CCCHHHHHHHHH---hCCCCh---HHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcch----hhhhhhhhhhhh
Q psy12268 177 KNEKAVRLTKLS---AFGISG---YLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMS----GLLFSLFINDIA 246 (410)
Q Consensus 177 ~vdH~~Ll~~L~---~~G~p~---~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LS----PLLFnL~l~~L~ 246 (410)
+++|..|...+. .+.-++ .+..++..++.. .+..++. ..+....|+|+|+++. +++-++++....
T Consensus 109 s~~~~~l~~~~~i~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~~--~~~~~~~G~pSG~~~T~~~Nsl~n~~~~~~a~ 183 (278)
T cd01699 109 SLSPQLLEAEHSIYNALYDDDDELERRNLLRSLTNN---SLHIGFN--EVYKVRGGRPSGDPLTSIGNSIINCILVRYAF 183 (278)
T ss_pred CCCHHHHHHHHHHHHHHHcCCchhHHHHHHHHHhcC---hhhhhCc--eEEEEcCCCCCCCCchhHHHHHHHHHHHHHHH
Confidence 567776665433 333333 467777777654 1112221 3566788999999885 444444444333
Q ss_pred hc------cCCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEE
Q psy12268 247 EI------FPGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVM 302 (410)
Q Consensus 247 ~~------l~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim 302 (410)
.. ...+.++.|.||.++.+... .....+..+..++..+||++++.++...
T Consensus 184 ~~~~~~~~~~~~~~~~~GDD~li~~~~~------~~~~~~~~~~~~~~~~G~~~~~~~~~~~ 239 (278)
T cd01699 184 RKLGGKSFFKNVRLLNYGDDCLLSVEKA------DDKFNLETLAEWLKEYGLTMTDEDKVES 239 (278)
T ss_pred HHHHHHHHhhceEEEEEcCCeEEEechh------HhhhCHHHHHHHHHHcCCEeCCcccCCC
Confidence 32 35678999999999977321 1122345677788889999999888764
No 17
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons. This subfamily represents the RT domain of a multifunctional enzyme. C-terminal to the RT domain is a domain homologous to aspartic proteinases (corresponding to Merops family A17) encoded by retrotransposons and retroviruses. RT catalyzes DNA replication from an RNA template and is responsible for the replication of retroelements.
Probab=96.34 E-value=0.0027 Score=60.41 Aligned_cols=66 Identities=17% Similarity=0.144 Sum_probs=53.7
Q ss_pred CccccCCCcchhhhhhhhhhhhhhccCCc------ccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccc
Q psy12268 224 PSGCIQGGHMSGLLFSLFINDIAEIFPGF------NFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMEL 294 (410)
Q Consensus 224 ~~GVPQGs~LSPLLFnL~l~~L~~~l~~i------~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkI 294 (410)
-.-+|+|..-||.+|..+|+.++..+++. ....|+||+++.+. +...+...+..+...+...|+.+
T Consensus 101 ~~~~pFG~~~AP~~~~~~~~~~~~~~~~~~~~~~i~~~~YvDDili~~~-----s~~e~~~~~~~v~~~L~~~Gf~l 172 (213)
T cd01644 101 MTVVPFGAASAPFLANRALKQHAEDHPHEAAAKIIKRNFYVDDILVSTD-----TLNEAVNVAKRLIALLKKGGFNL 172 (213)
T ss_pred EEEEccCCccchHHHHHHHHHHHhhcchhhHHHHHHHeeecccceecCC-----CHHHHHHHHHHHHHHHHhCCccc
Confidence 34599999999999999999999877652 46799999999873 44666777777888888899887
No 18
>CHL00002 matK maturase K
Probab=91.45 E-value=1.4 Score=47.17 Aligned_cols=196 Identities=9% Similarity=0.040 Sum_probs=102.1
Q ss_pred HHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccC-CCcchhhhhhhhhhhhhhcc----------
Q psy12268 181 AVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQ-GGHMSGLLFSLFINDIAEIF---------- 249 (410)
Q Consensus 181 ~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQ-Gs~LSPLLFnL~l~~L~~~l---------- 249 (410)
..|++.|+.+.-+...+++++.++..-.- |+...++.-.+. -... ---+.-+|||.|+.+....+
T Consensus 157 EiLvq~lr~wikD~~~LHlLR~fl~ey~n---~ns~~~~~k~~~-~f~k~n~rlf~fL~N~yv~E~Es~~~fl~kqs~~l 232 (504)
T CHL00002 157 EILVQTLRYWIKDASSLHLLRFFLHEYCN---WNSLITSKKSIS-FFSKENQRLFLFLYNSYVCEYESIFVFLRKQSSHL 232 (504)
T ss_pred HHHHHHHhcccccCcHHHHHHHHHhhccc---ccccccccccce-eeccCCCceeeehhhhHHHHhHHhhheeecccccc
Confidence 37889999888889999999988864332 222211100000 0011 12344556666655433210
Q ss_pred --------------------------------------CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhcc
Q psy12268 250 --------------------------------------PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINK 291 (410)
Q Consensus 250 --------------------------------------~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~G 291 (410)
|-+..+.||||.+|.+.|. ...+..+.. ..+.-|.....
T Consensus 233 rs~s~~~fler~~fy~Kie~~~~~~~~~f~~~l~~~kdp~ihYVRYaddfIIg~kGs-k~~a~KwK~--~l~~F~q~~f~ 309 (504)
T CHL00002 233 RSTSSGVFLERIHFYGKIEHLVEVFRNDFQKTLWLFKDPFIHYVRYQGKSILASKGT-PLLMNKWKY--YLVNFWQCHFH 309 (504)
T ss_pred cccccccchhcccceeeehhhhhhhcccccccceeeccceEEEEEECCcEEEEECCC-HHHHHHHHH--HHHHHHHHhce
Confidence 1247899999998866443 223333332 33344566778
Q ss_pred ccccccceeEEEeecCCC-CccceeeeCCccccccccccccceeecCcch-----HHHHHHHHH---------HH-HHhh
Q psy12268 292 MELNIGKCMVMTYHRNKS-PILASYDINGQALARCEQVRDLGVTFQKTLE-----RQINDLIFI---------YK-LVNN 355 (410)
Q Consensus 292 LkIN~~KTeim~f~~~~~-~~~~~~ti~g~~I~~ves~KYLGV~Ld~kLs-----~HI~~~ir~---------l~-~l~R 355 (410)
+.++|+||.+..++.... .....+.+...+......+-.-|..++.... .-+..++.. .| .+.+
T Consensus 310 l~~s~eKi~I~~ls~~s~~FLGY~~sv~~~~~~vRsqml~n~f~~~~~~kk~~~~VPi~~lI~~L~k~kfcni~G~PisK 389 (504)
T CHL00002 310 LWSQPGRIHINQLSNHSFDFLGYLSSVRLNPSVVRSQMLENSFLIDNAIKKFDTIVPIIPLIGSLAKAKFCNVLGHPISK 389 (504)
T ss_pred eeecCCceeeccccCCcceeeeEEeeeeeccceeEechhhcceeeeccCCeEEeccCcHHHHHHHHHcCcccCCCCCcCC
Confidence 999999999888664321 1111112211111111111111222222211 122222211 11 2344
Q ss_pred hcc-CCCHHHHHHHHHhhcccchhhhHHH
Q psy12268 356 QIF-CPDILTYSFTFSQEIGKQAEHNIIV 383 (410)
Q Consensus 356 ~~~-~ls~~~k~~Lyks~V~P~L~Yg~~V 383 (410)
..| .++....+.-|.++++....|.+.+
T Consensus 390 ~~w~~lsD~dII~rf~~i~Rgl~~YYSgs 418 (504)
T CHL00002 390 PVWTDLSDSDIIDRFGRICRNLSHYYSGS 418 (504)
T ss_pred ccccCCCHHHHHHHHHHHHhhhheecccc
Confidence 445 6788889999999999999997654
No 19
>PF00680 RdRP_1: RNA dependent RNA polymerase; InterPro: IPR001205 RNA-directed RNA polymerase (RdRp) (2.7.7.48 from EC) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage [, ]. It catalyses synthesis of the RNA strand complementary to a given RNA template, but the precise molecular mechanism remains unclear. The postulated RNA replication process is a two-step mechanism. First, the initiation step of RNA synthesis begins at or near the 3' end of the RNA template by means of a primer-independent (de novo) mechanism. The de novo initiation consists in the addition of a nucleotide tri-phosphate (NTP) to the 3'-OH of the first initiating NTP. During the following so-called elongation phase, this nucleotidyl transfer reaction is repeated with subsequent NTPs to generate the complementary RNA product []. All the RNA-directed RNA polymerases, and many DNA-directed polymerases, employ a fold whose organisation has been likened to the shape of a right hand with three subdomains termed fingers, palm and thumb []. Only the catalytic palm subdomain, composed of a four-stranded antiparallel beta-sheet with two alpha-helices, is well conserved among all of these enzymes. In RdRp, the palm subdomain comprises three well conserved motifs (A, B and C). Motif A (D-x(4,5)-D) and motif C (GDD) are spatially juxtaposed; the Asp residues of these motifs are implied in the binding of Mg2+ and/or Mn2+. The Asn residue of motif B is involved in selection of ribonucleoside triphosphates over dNTPs and thus determines whether RNA is synthesised rather than DNA []. The domain organisation [] and the 3D structure of the catalytic centre of a wide range of RdPp's, even those with a low overall sequence homology, are conserved. The catalytic centre is formed by several motifs containing a number of conserved amino acid residues. There are 4 superfamilies of viruses that cover all RNA containing viruses with no DNA stage: Viruses containing positive-strand RNA or double-strand RNA, except retroviruses and Birnaviridae: viral RNA-directed RNA polymerases including all positive-strand RNA viruses with no DNA stage, double-strand RNA viruses, and the Cystoviridae, Reoviridae, Hypoviridae, Partitiviridae, Totiviridae families. Mononegavirales (negative-strand RNA viruses with non-segmented genomes). Negative-strand RNA viruses with segmented genomes, i.e. Orthomyxoviruses (including influenza A, B, and C viruses, Thogotoviruses, and the infectious salmon anemia virus), Arenaviruses, Bunyaviruses, Hantaviruses, Nairoviruses, Phleboviruses, Tenuiviruses and Tospoviruses. Birnaviridae family of dsRNA viruses. The RNA-directed RNA polymerases in the first of the above superfamilies can be divided into the following three subgroups: All positive-strand RNA eukaryotic viruses with no DNA stage. All RNA-containing bacteriophages -there are two families of RNA-containing bacteriophages: Leviviridae (positive ssRNA phages) and Cystoviridae (dsRNA phages). Reoviridae family of dsRNA viruses. This entry represents RNA-directed RNA polymerase found in many positive strand RNA eukaryotic viruses viruses. It is part of the genome polyprotein that contains other polypeptides such as coat proteins VP1 to VP4, core proteins P2A to P2C and P3A, genome-linked protein VPG and picornain 3C (3.4.22.28 from EC). Structural studies indicate that these proteins form the "right hand" structure found in all oligonucleotide polymerases, containing thumb, finger and palm domains, and also the additional bridging finger and thumb domains unique to RNA-directed RNA polymerases [, ].; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3SFU_C 3NAH_A 3UR0_C 3UPF_C 3SFG_A 3NAI_C 3QID_B 3UQS_A 3OLB_M 3OLA_M ....
Probab=88.97 E-value=0.74 Score=48.79 Aligned_cols=97 Identities=13% Similarity=0.172 Sum_probs=57.4
Q ss_pred hHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhh-----ccC--------Ccccccccch
Q psy12268 194 GYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAE-----IFP--------GFNFWLFADD 260 (410)
Q Consensus 194 ~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~-----~l~--------~i~~l~YADD 260 (410)
..+..++..++..+. +.++| ..+.+..|+|-|+++-.++=+|+..-+.. ..+ .+.++.|-||
T Consensus 278 ~~~~~~l~~~~~~~~--~~~~g---~~y~~~~G~PSG~~~Tsi~NSi~N~i~~~~a~~~~~~~~~~~~~~~~~~i~YGDD 352 (491)
T PF00680_consen 278 SRLRRNLIQSICNPI--HLCGG---KVYRVNGGNPSGSPLTSIINSIVNNIYIRYAWRKLYPDPPREFFENVKLIVYGDD 352 (491)
T ss_dssp HHHHHHHHHHHHEEE--EEETT---EEEEEESSS-TTSTTHHHHHHHHHHHHHHHHHHHHSTSCHGGGHHHSEEEEETTE
T ss_pred hHHHHHHHHhcCCee--eeccc---ceeeeccccccccccchhccccccceeechhhhhccccccccccceeeeeeeccc
Confidence 444455555554432 23445 45789999999999865543332221111 111 2567999999
Q ss_pred hhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccc-cceeE
Q psy12268 261 LKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNI-GKCMV 301 (410)
Q Consensus 261 ivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~-~KTei 301 (410)
.++.+.. ..... .+..|..++..+|+++.+ +||..
T Consensus 353 ~l~sv~~----~~~~~--n~~~i~~~~~~~G~~~T~~dK~~~ 388 (491)
T PF00680_consen 353 NLISVPP----EIDPW--NGETISEFLAELGLTYTDADKTGE 388 (491)
T ss_dssp EEEEESS----HHHHH--HHHHHHHHHHTTTEEEEESSTSSS
T ss_pred cchhhhc----ccccc--hhHHHHHHHHhcccccccccccCC
Confidence 9986631 11111 356677778889999885 88875
No 20
>KOG4364|consensus
Probab=85.33 E-value=10 Score=41.78 Aligned_cols=7 Identities=14% Similarity=0.501 Sum_probs=2.9
Q ss_pred HHHHHHH
Q psy12268 341 RQINDLI 347 (410)
Q Consensus 341 ~HI~~~i 347 (410)
.|+..+.
T Consensus 608 ~~~~A~~ 614 (811)
T KOG4364|consen 608 KHLQALT 614 (811)
T ss_pred HHHHHHH
Confidence 4444443
No 21
>PTZ00121 MAEBL; Provisional
Probab=83.52 E-value=41 Score=40.61 Aligned_cols=16 Identities=50% Similarity=0.484 Sum_probs=7.1
Q ss_pred hhHhhhcCCCHHHHHH
Q psy12268 170 KKEEEKRKNEKAVRLT 185 (410)
Q Consensus 170 ~~~~~~~~vdH~~Ll~ 185 (410)
+++++.++=-+..|-.
T Consensus 1768 kkae~~RKQQEAaLed 1783 (2084)
T PTZ00121 1768 KKAEEIRKEKEAVIEE 1783 (2084)
T ss_pred hhHHHHHHHHHHHHHH
Confidence 3344444444444444
No 22
>PF03431 RNA_replicase_B: RNA replicase, beta-chain ; InterPro: IPR005093 RNA-directed RNA polymerase (RdRp) (2.7.7.48 from EC) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage [, ]. It catalyses synthesis of the RNA strand complementary to a given RNA template, but the precise molecular mechanism remains unclear. The postulated RNA replication process is a two-step mechanism. First, the initiation step of RNA synthesis begins at or near the 3' end of the RNA template by means of a primer-independent (de novo) mechanism. The de novo initiation consists in the addition of a nucleotide tri-phosphate (NTP) to the 3'-OH of the first initiating NTP. During the following so-called elongation phase, this nucleotidyl transfer reaction is repeated with subsequent NTPs to generate the complementary RNA product []. All the RNA-directed RNA polymerases, and many DNA-directed polymerases, employ a fold whose organisation has been likened to the shape of a right hand with three subdomains termed fingers, palm and thumb []. Only the catalytic palm subdomain, composed of a four-stranded antiparallel beta-sheet with two alpha-helices, is well conserved among all of these enzymes. In RdRp, the palm subdomain comprises three well conserved motifs (A, B and C). Motif A (D-x(4,5)-D) and motif C (GDD) are spatially juxtaposed; the Asp residues of these motifs are implied in the binding of Mg2+ and/or Mn2+. The Asn residue of motif B is involved in selection of ribonucleoside triphosphates over dNTPs and thus determines whether RNA is synthesised rather than DNA []. The domain organisation [] and the 3D structure of the catalytic centre of a wide range of RdPp's, even those with a low overall sequence homology, are conserved. The catalytic centre is formed by several motifs containing a number of conserved amino acid residues. There are 4 superfamilies of viruses that cover all RNA containing viruses with no DNA stage: Viruses containing positive-strand RNA or double-strand RNA, except retroviruses and Birnaviridae: viral RNA-directed RNA polymerases including all positive-strand RNA viruses with no DNA stage, double-strand RNA viruses, and the Cystoviridae, Reoviridae, Hypoviridae, Partitiviridae, Totiviridae families. Mononegavirales (negative-strand RNA viruses with non-segmented genomes). Negative-strand RNA viruses with segmented genomes, i.e. Orthomyxoviruses (including influenza A, B, and C viruses, Thogotoviruses, and the infectious salmon anemia virus), Arenaviruses, Bunyaviruses, Hantaviruses, Nairoviruses, Phleboviruses, Tenuiviruses and Tospoviruses. Birnaviridae family of dsRNA viruses. The RNA-directed RNA polymerases in the first of the above superfamilies can be divided into the following three subgroups: All positive-strand RNA eukaryotic viruses with no DNA stage. All RNA-containing bacteriophages -there are two families of RNA-containing bacteriophages: Leviviridae (positive ssRNA phages) and Cystoviridae (dsRNA phages). Reoviridae family of dsRNA viruses. This is a family of Leviviridae RNA replicases.; GO: 0003968 RNA-directed RNA polymerase activity, 0019079 viral genome replication; PDB: 3MMP_G 3AVU_A 3AVW_A 3AGQ_A 3AGP_A 3AVT_A 3AVY_A 3AVX_A 3AVV_A.
Probab=81.78 E-value=5.2 Score=42.37 Aligned_cols=133 Identities=13% Similarity=0.061 Sum_probs=61.1
Q ss_pred CChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcc-----hhhhhhhhhhh-hhhccCCcccccccchhhhhh
Q psy12268 192 ISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHM-----SGLLFSLFIND-IAEIFPGFNFWLFADDLKVAL 265 (410)
Q Consensus 192 ~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~L-----SPLLFnL~l~~-L~~~l~~i~~l~YADDivIis 265 (410)
+|+.+..++.++= +....++|.. +....=--+|.-. |-|++.|+-.. +........+..|.||++|-+
T Consensus 267 lPp~~~~~l~~lR---s~~~~l~g~~---~~~ek~ssMGNGfTFELeSlif~ai~rs~~~~~~~~~~~v~iYGDDIIvp~ 340 (542)
T PF03431_consen 267 LPPHWYRYLTDLR---SPYGSLDGKV---IRWEKISSMGNGFTFELESLIFWAIARSVCELLFGDTGTVRIYGDDIIVPS 340 (542)
T ss_dssp S-HHHHHHHHHHS----SEEE-TS-E---EE-SBS--TTSTTHHHHHHHHHHHHHHHHHHHCT--GGG-EEETTEEEEEG
T ss_pred CCHHHHHHHHHhc---cccceECCEE---EehhhhhccCCceeEeHHHHHHHHHHHHHHHHHcCCCCeeEEecCcEEech
Confidence 7788777776654 3444456643 3333333355433 33444444333 222223467889999998854
Q ss_pred hcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccccccccccceeecCcch----H
Q psy12268 266 RVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALARCEQVRDLGVTFQKTLE----R 341 (410)
Q Consensus 266 ~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ves~KYLGV~Ld~kLs----~ 341 (410)
. +...+......+|+..|..||-.-. .--+.....-|.|+.+.+-.- .
T Consensus 341 ~------------~~~~l~~~l~y~gF~~N~~KTF~~G----------------~FRESCG~h~f~g~DVtPfYik~pi~ 392 (542)
T PF03431_consen 341 E------------CAPDLIEVLSYVGFKPNLKKTFWTG----------------PFRESCGAHYFDGVDVTPFYIKRPID 392 (542)
T ss_dssp G------------GHHHHHHHHHHCT--B-CCC-BSSS----------------SEEEETTEEEETTEE-------S---
T ss_pred h------------hhHHHHHHHHHhCcccCcccccccc----------------cchhhhhhhhcCCccccceEeccccc
Confidence 1 1223334455789999999987421 111122334566766665543 4
Q ss_pred HHHHHHHHHHHHhhhcc
Q psy12268 342 QINDLIFIYKLVNNQIF 358 (410)
Q Consensus 342 HI~~~ir~l~~l~R~~~ 358 (410)
.+..++..+..+.+|.-
T Consensus 393 ~l~dlililN~l~rW~~ 409 (542)
T PF03431_consen 393 NLPDLILILNRLRRWGT 409 (542)
T ss_dssp SHHHHHHHHHHHHHHHE
T ss_pred CHHHHHHHHHhhccccc
Confidence 45555667777777654
No 23
>KOG1795|consensus
Probab=79.38 E-value=24 Score=41.87 Aligned_cols=220 Identities=13% Similarity=0.069 Sum_probs=112.9
Q ss_pred hHhhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEe-eCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc
Q psy12268 171 KEEEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVR-VGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF 249 (410)
Q Consensus 171 ~~~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~-~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l 249 (410)
=|+-+.+||-..|-..|.- -+++.+.++| +...-+|. +.+ -...-.-|+-.|-.+|.++|.+|--.|+-++
T Consensus 975 ~e~i~ekiD~tLLnrLlrL-v~D~niAdYi----takNNvvi~yKD---M~htN~yG~IrGLqfsSFi~qfYglvlDLlv 1046 (2321)
T KOG1795|consen 975 FEKIFEKIDLTLLNRLLRL-VLDPNIADYI----TAKNNVVINYKD---MSHTNSYGLIRGLQFASFIVQFYGLVLDLLV 1046 (2321)
T ss_pred HHHHHHHHHHHHHHHHHHH-HhCchHHHHH----hhccceEEEeec---cccccchhheehhhHHHHHHHHHHHHHHHHH
Confidence 4666778887766555554 4777766555 43443333 322 1234466888888899888777654433221
Q ss_pred CC-------------------------------cccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccc
Q psy12268 250 PG-------------------------------FNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGK 298 (410)
Q Consensus 250 ~~-------------------------------i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~K 298 (410)
-| --+..|.||+.|++.....+...-++..+..-.+=-......-|-.|
T Consensus 1047 LG~~ra~e~agp~~~pn~f~~f~d~~~e~~hpIrlY~RyiD~iyi~Frf~~~E~~dLiq~yl~E~pdpn~en~v~ynnkk 1126 (2321)
T KOG1795|consen 1047 LGLTRASEIAGPPQMPNEFLTFQDVATETAHPIRLYCRYIDRIYIMFRFTAEEARDLIQRYLTEHPDPNNENIVGYNNKK 1126 (2321)
T ss_pred hcchhhhhccCCCCCcchhhhhhhhhhhccCceeeeeeecceEEEEEEechhhHHHHHHHHhhcCCCcchhhhccccccC
Confidence 00 14678999999988665433333344333222111111111112222
Q ss_pred ee----------------------------------------EEEeecCCCCccceeeeCCcccccccc-------cccc
Q psy12268 299 CM----------------------------------------VMTYHRNKSPILASYDINGQALARCEQ-------VRDL 331 (410)
Q Consensus 299 Te----------------------------------------im~f~~~~~~~~~~~ti~g~~I~~ves-------~KYL 331 (410)
|. +-+++ ...++..|++.|..+..... +.-=
T Consensus 1127 cWprdarmrl~k~dvNlGRavfwei~~R~p~s~tt~~we~sf~svys--k~nPnllFsM~GfevrIlpk~r~~~e~s~~d 1204 (2321)
T KOG1795|consen 1127 CWPRDARMRLMKHDVNLGRAVFWEIKNRLPRSITTLEWENSFVSVYS--KDNPNLLFSMCGFEVRILPKIRMIEEESSKD 1204 (2321)
T ss_pred CCcchhHHhhhhccccchhHHHHHHHhhccchhhhhhhccceeeEEe--cCCCceeeeecceEEEEcchhhhhhhhhccc
Confidence 21 11111 12345567777765443322 1122
Q ss_pred ceeecCcc-----------h---HHHHHHHHHHHHHhhhccCCCHHHHHHHHHhhcccchhhhHHHhhhhHHHHHHHHHH
Q psy12268 332 GVTFQKTL-----------E---RQINDLIFIYKLVNNQIFCPDILTYSFTFSQEIGKQAEHNIIVLVEFAIALVTILDQ 397 (410)
Q Consensus 332 GV~Ld~kL-----------s---~HI~~~ir~l~~l~R~~~~ls~~~k~~Lyks~V~P~L~Yg~~VW~~~~~~~i~~Ldr 397 (410)
|||=-.+. . .++...-+.++.|.-.+......-.+.-+++-+++.++|.-.+.. .++..+..|..
T Consensus 1205 gvW~L~ne~tk~rta~a~l~V~ee~i~~F~nrir~IlmsSGStTFtKia~kWNTali~l~TYfREaiv-~T~~LldlLvk 1283 (2321)
T KOG1795|consen 1205 GVWNLQNERTKERTAQAFLRVDEEGIKMFENRIRQILMSSGSTTFTKIANKWNTALIGLMTYFREAIV-NTQELLDLLVK 1283 (2321)
T ss_pred ceeecccccccchhhheeeEecHHHHHHHHHHHHHHhhccCchhHHHHHHHHhHHHHHHHHHHHHHHh-CcHHHHHHHHH
Confidence 33322111 0 222222223333332222333444566799999999999988765 56667777777
Q ss_pred HHHH
Q psy12268 398 INRE 401 (410)
Q Consensus 398 vqR~ 401 (410)
..+.
T Consensus 1284 ~E~k 1287 (2321)
T KOG1795|consen 1284 CENK 1287 (2321)
T ss_pred HHHH
Confidence 7766
No 24
>PF08388 GIIM: Group II intron, maturase-specific domain; InterPro: IPR013597 This region is found mainly in various bacterial and archaeal species, but a few members of this family are expressed by fungal and chlamydomonal species. It has been implicated in the binding of intron RNA during reverse transcription and splicing [].
Probab=78.92 E-value=7.5 Score=30.43 Aligned_cols=52 Identities=12% Similarity=-0.021 Sum_probs=42.1
Q ss_pred hhccCCCHHHHHHHHHhhcccchhhhHHHhhhhHHHHHHHHHHHHHHHHHHHHhc
Q psy12268 355 NQIFCPDILTYSFTFSQEIGKQAEHNIIVLVEFAIALVTILDQINRESFQRFRLR 409 (410)
Q Consensus 355 R~~~~ls~~~k~~Lyks~V~P~L~Yg~~VW~~~~~~~i~~LdrvqR~~l~R~aLR 409 (410)
+...+.++...+.-++++|+++..|...+ .+...+..||...+..|.+|+.|
T Consensus 14 ~~~~~~~~~~~i~~LN~~lrGW~nYy~~~---~~~~~f~~ld~~v~~~l~~w~~r 65 (80)
T PF08388_consen 14 RRNRGKSLEELIKKLNPILRGWANYYRIG---NSSKTFSKLDHYVWRRLRRWLRR 65 (80)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHhhcch---hHHHHHHHHHHHHHHHHHHHHHH
Confidence 44457899999999999999999999776 34556888988888888888764
No 25
>PHA00028 rep RNA replicase, beta subunit
Probab=74.02 E-value=13 Score=39.97 Aligned_cols=143 Identities=14% Similarity=-0.004 Sum_probs=73.5
Q ss_pred HHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCc--c-hhhhhhhhhhhhhhccCCcccccccch
Q psy12268 184 LTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGH--M-SGLLFSLFINDIAEIFPGFNFWLFADD 260 (410)
Q Consensus 184 l~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~--L-SPLLFnL~l~~L~~~l~~i~~l~YADD 260 (410)
...|-..-+||.+..++.++=+. ...++|..-.+-.+. -+--|-+ | |-|++.|+=..+........+..|.||
T Consensus 267 Sl~LV~lllPp~~~~~L~dlRS~---~g~ldG~~i~~ek~S-SMGNGfTFELeSLIf~Aiars~~~~~~~~~ti~VYGDD 342 (561)
T PHA00028 267 SLKLVWLLLPPHWYSVLTDLRSS---YGMLDGRLIEWEKFS-SMGNGFTFELESLIFAAIARSFCLLFGGPGTISVYGDD 342 (561)
T ss_pred HHHHHHHHcCHHHHHHHHHhcCc---cceeCCEEeehhhhc-cccCceeeeHHHHHHHHHHHHHHHhcCCCCeeEEecCc
Confidence 33344444899888887765433 333466443322221 1122221 1 333333332222222345678899999
Q ss_pred hhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccccccccccceeecCcch
Q psy12268 261 LKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALARCEQVRDLGVTFQKTLE 340 (410)
Q Consensus 261 ivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ves~KYLGV~Ld~kLs 340 (410)
++|=+. +...|.......|+..|..||-.-.. . =+.....-|.|+.+.+=.-
T Consensus 343 IIvps~------------~a~~li~vlsyvgF~pN~kKTF~~G~-F---------------RESCGaH~f~GvDVtPFYi 394 (561)
T PHA00028 343 IIVPTE------------VAPPLINVLSYVGFMPNLKKTFWTGP-F---------------RESCGAHYFAGVDVTPFYI 394 (561)
T ss_pred eEeehh------------hhHHHHHHHHHhceecCCccccccCc-c---------------hhhhhhhhcCCCCccceEe
Confidence 998542 12334444567899999999976321 0 0112223444554444332
Q ss_pred ----HHHHHHHHHHHHHhhhcc
Q psy12268 341 ----RQINDLIFIYKLVNNQIF 358 (410)
Q Consensus 341 ----~HI~~~ir~l~~l~R~~~ 358 (410)
.....++..+..|.+|.-
T Consensus 395 k~pi~~l~dlililN~l~~W~t 416 (561)
T PHA00028 395 KRPLDNLPDLILILNSLRRWGT 416 (561)
T ss_pred cccccCHHHHHHHHHHhhcccc
Confidence 345555666677766654
No 26
>PF05919 Mitovir_RNA_pol: Mitovirus RNA-dependent RNA polymerase; InterPro: IPR008686 This family consists of several Mitovirus RNA-dependent RNA polymerase proteins. The family also contains fragment matches in the mitochondria of Arabidopsis thaliana [].
Probab=72.39 E-value=5.6 Score=42.39 Aligned_cols=113 Identities=16% Similarity=0.173 Sum_probs=69.6
Q ss_pred hhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhc----c
Q psy12268 174 EKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEI----F 249 (410)
Q Consensus 174 ~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~----l 249 (410)
|-|-.|=.+....|... ++..+-...+++|.++.+ +. ...+.+.-.+|=|.|---|=-+|.+.=+-+... .
T Consensus 158 ATDR~Pi~lQ~~il~~l-~~~~~a~~W~~llv~r~~-~~---~~~~~v~y~vGQPmGa~SSW~~~altHH~iV~~aA~~~ 232 (498)
T PF05919_consen 158 ATDRFPIVLQERILSYL-FGDSFASSWRSLLVGRPY-LK---PNGDEVRYSVGQPMGAYSSWAMFALTHHLIVQYAAERV 232 (498)
T ss_pred ccccccHHHHHHHHHHH-hCchHHHHHHHHHcCCcc-cc---CCCCeEEEecCCcchhccccHHHHhhHHHHHHHHHHHh
Confidence 55777777777777776 555666666888878777 22 223456667888888655544555544433321 1
Q ss_pred -C---CcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEE
Q psy12268 250 -P---GFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVM 302 (410)
Q Consensus 250 -~---~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim 302 (410)
+ -..+....||++|.-. .-+...+ .-+..+|+.||..||.+-
T Consensus 233 ~~~~~f~~Y~iLGDDivi~~~-------~vA~~Y~----~~m~~Lgv~is~~Ks~vS 278 (498)
T PF05919_consen 233 GGGSRFTDYIILGDDIVIAND-------KVAKQYL----SIMTDLGVEISLSKSHVS 278 (498)
T ss_pred hccCCCCceEEEcCcEEEcCH-------HHHHHHH----HHHHHcCceeccCccccc
Confidence 1 2346667799998531 1111122 223468999999999874
No 27
>KOG4364|consensus
Probab=71.19 E-value=52 Score=36.53 Aligned_cols=8 Identities=25% Similarity=0.222 Sum_probs=3.8
Q ss_pred ccceeEEE
Q psy12268 296 IGKCMVMT 303 (410)
Q Consensus 296 ~~KTeim~ 303 (410)
+.||.+|.
T Consensus 499 rKKS~~Vs 506 (811)
T KOG4364|consen 499 RKKSQVVS 506 (811)
T ss_pred cccccccc
Confidence 34555443
No 28
>PTZ00121 MAEBL; Provisional
Probab=69.66 E-value=1.2e+02 Score=36.97 Aligned_cols=13 Identities=0% Similarity=-0.105 Sum_probs=6.6
Q ss_pred hcccchhhhHHHh
Q psy12268 372 EIGKQAEHNIIVL 384 (410)
Q Consensus 372 ~V~P~L~Yg~~VW 384 (410)
++.++..||+-.|
T Consensus 1974 LCCSISdYCLkYF 1986 (2084)
T PTZ00121 1974 LCCSISDFCLKYF 1986 (2084)
T ss_pred hhhhHHHHHHHHc
Confidence 3455555554444
No 29
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=64.54 E-value=42 Score=39.62 Aligned_cols=98 Identities=15% Similarity=0.191 Sum_probs=58.7
Q ss_pred HhhhcCCCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEE-eeCCccCCccccCccccCCCcchhhhhhhhhhhhhhcc-
Q psy12268 172 EEEKRKNEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIV-RVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIF- 249 (410)
Q Consensus 172 ~~~~~~vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V-~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l- 249 (410)
++-..+||...|-..| .+-+++.+..+|.+ ..-+| .+.+ . ...-.-|+-.|-.+|.++|.+|--.++-++
T Consensus 1010 ~~i~ekvD~tLLnrLl-~Lv~DpnlAdYi~a----kNNvvv~yKD-M--shtN~yGlirGLqfsSFi~qfYglvvDLlvL 1081 (2365)
T COG5178 1010 EGIMEKVDNTLLNRLL-KLVLDPNLADYIIA----KNNVVVVYKD-M--SHTNHYGLIRGLQFSSFIYQFYGLVVDLLVL 1081 (2365)
T ss_pred HHHHHHHHHHHHHHHH-HHHhCchHHHHHhh----ccceEEEeec-c--ccccchhhhhhhhHHHHHHHHHHHHHHHHHh
Confidence 4455677776555444 44588888776644 33333 3322 1 234456888999999998887655443221
Q ss_pred --------------CC----------------cccccccchhhhhhhcCChhhhhhHH
Q psy12268 250 --------------PG----------------FNFWLFADDLKVALRVGGQREVDSMQ 277 (410)
Q Consensus 250 --------------~~----------------i~~l~YADDivIis~s~s~~~~~~Lq 277 (410)
|+ --+..|.||+.|++.....+...-++
T Consensus 1082 G~~rat~iagpa~~pn~Fm~fKs~~~e~shpIrlYtRy~D~iYi~Frf~~~E~~~L~~ 1139 (2365)
T COG5178 1082 GLQRATEIAGPADAPNVFMDFKSRATETSHPIRLYTRYMDDIYIVFRFQRKEEDSLLE 1139 (2365)
T ss_pred cchhhhhccCCCCCchhhhhhhhhcccccCceeeeehhcceEEEEEEeccchhHHHHH
Confidence 10 14678999999988765444333333
No 30
>PF00978 RdRP_2: RNA dependent RNA polymerase; InterPro: IPR001788 This entry represents RNA dependent RNA polymerases found in several types of viruses [], especially those with a tripartite genome (RNA1, RNA2 and RNA3) and an encapsidated subgenomic RNA (RNA4) from which the coat protein is expressed, such as Cucumber mosaic virus (strain NT9) (CMV). This entry contains the following proteins: Viral RNA-directed RNA polymerase 2A (protein 2A) []. Putative RNA dependent RNA polymerase from Tobacco mosaic virus []. Non structural polyprotein from Togavirus []. ; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=50.64 E-value=27 Score=36.91 Aligned_cols=79 Identities=11% Similarity=-0.032 Sum_probs=38.9
Q ss_pred HHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhh----hccCCcccccc-c
Q psy12268 184 LTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIA----EIFPGFNFWLF-A 258 (410)
Q Consensus 184 l~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~----~~l~~i~~l~Y-A 258 (410)
+..+..+|+|+.++.|...+....... ++..+-.+.+..-=.-|++ ..+|+|..++.+. -.+++..+++| .
T Consensus 234 ~~i~~~lG~p~~li~~w~~~~~~~~~~---~~~~G~~~~i~~qR~SGe~-~T~l~NT~~nma~~~~~y~~~~~~~~~f~G 309 (440)
T PF00978_consen 234 REIYKRLGVPEELIDLWFDSHEYSRIK---DSKLGISFAIMYQRRSGEA-NTFLGNTIVNMAVLASRYDLDKVEAICFSG 309 (440)
T ss_pred HHHHHHCCCCHHHHHHHHhheEEEEEE---ccCCceeeEeeeeeccCCc-hhhHHHHHHHHHHHHHeeccCCceEEEEeC
Confidence 455678899999999766554333322 2222212222211223333 3345554444333 22455555555 4
Q ss_pred chhhhhhh
Q psy12268 259 DDLKVALR 266 (410)
Q Consensus 259 DDivIis~ 266 (410)
||..|++.
T Consensus 310 DDsli~~~ 317 (440)
T PF00978_consen 310 DDSLIFSP 317 (440)
T ss_pred CchhccCC
Confidence 77777654
No 31
>cd01415 SAICAR_synt_PurC bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase. A subfamily of SAICAR synthetases represented by the Thermotoga maritima (Tm) enzyme and E. coli PurC. SAICAR synthetase catalyzes the seventh step of the de novo biosynthesis of purine nucleotides (also reported as eighth step). It converts 5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP, and L-aspartate into 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR), ADP, and phosphate.
Probab=50.60 E-value=25 Score=34.00 Aligned_cols=112 Identities=16% Similarity=0.122 Sum_probs=63.9
Q ss_pred HHHHHHHHhCCCChHHHHHHHHHhhcceEEE----------eeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC
Q psy12268 181 AVRLTKLSAFGISGYLLQWIRNFLSGWIQIV----------RVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP 250 (410)
Q Consensus 181 ~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V----------~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~ 250 (410)
.+++..|...|+|.+++.. +..+.+.| .+.+..++++.-.-|+++|..|.|-+|.+++-.=..
T Consensus 50 ~~~F~~L~~~gI~tH~i~~----~~~~~~~v~k~~miPlEvIvR~~a~GS~~~ry~~~eg~~l~~Pive~~~K~d~~--- 122 (230)
T cd01415 50 ALIFKYLEENGIKTHFIEK----LSDREQLVKKVEIIPLEVVVRNIAAGSLVKRLGIEEGTVLDPPIVEFYYKNDEL--- 122 (230)
T ss_pred HHHHHHHHhCCCCCeeecc----cCCCEEEEEEcccccEEEEEecccccccHhhcCCCCCCcCCCCEEEEEecCCCC---
Confidence 3677888888999998864 44444443 345555565655667899998888776665532111
Q ss_pred CcccccccchhhhhhhcCChhhhhhHH----HHHHHHHhhhhhccccccccceeE
Q psy12268 251 GFNFWLFADDLKVALRVGGQREVDSMQ----SMLSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 251 ~i~~l~YADDivIis~s~s~~~~~~Lq----~~Ld~L~~w~~~~GLkIN~~KTei 301 (410)
+-..+.. |+++. ....+.++...+. ..-+.+..++...||.+=.-|-+.
T Consensus 123 ~Dp~i~~-~~~~~-~~~~~~~e~~~i~~~~l~v~~~l~~~~~~~gl~LvD~K~EF 175 (230)
T cd01415 123 GDPLINE-DHILA-LGLATEEELKEIKELALKINEVLSEFFAEIGIILVDFKLEF 175 (230)
T ss_pred CCCCCCH-HHHHH-hCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeEEe
Confidence 1111211 22221 1112223333333 234566788888898877666553
No 32
>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase. The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].
Probab=49.83 E-value=69 Score=27.88 Aligned_cols=47 Identities=11% Similarity=0.017 Sum_probs=29.8
Q ss_pred HHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhh
Q psy12268 180 KAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGL 236 (410)
Q Consensus 180 H~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPL 236 (410)
|..++.+|...|--..+-.+|.+.+ -|.++|...+.. ++.|+||-|.
T Consensus 5 ~~~ii~al~r~g~~~~i~~~i~~~W-----gI~~~~~~~~~~-----~~~~spl~Pt 51 (126)
T PF12921_consen 5 LCNIIYALGRSGQLDSIKSYIKSVW-----GIDVNGKKKEGD-----YPPSSPLYPT 51 (126)
T ss_pred HHHHHHHHhhcCCHHHHHHHHHHhc-----CCCCCCccccCc-----cCCCCCCCCC
Confidence 5567777777777777766666555 344444332211 8999999884
No 33
>PRK09362 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed
Probab=48.12 E-value=16 Score=35.60 Aligned_cols=112 Identities=18% Similarity=0.130 Sum_probs=63.9
Q ss_pred HHHHHHHHhCCCChHHHHHHHHHhhcceEEE----------eeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC
Q psy12268 181 AVRLTKLSAFGISGYLLQWIRNFLSGWIQIV----------RVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP 250 (410)
Q Consensus 181 ~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V----------~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~ 250 (410)
.+++..|...|+|.+++.. +..+.+.| .+.|..++++.-.-|++.|..|+|-+|.+++-.=...-|
T Consensus 55 ~~~F~~L~~~GI~tH~i~~----~~~~~~lv~k~~~iPiEvIvR~~a~GS~~~ryg~~eg~~l~~Pive~~~K~d~~~Dp 130 (238)
T PRK09362 55 SFIFKKLEEAGIPTHFIEK----LSDREQLVKKVEIIPLEVVVRNVAAGSLVKRLGIEEGTVLPPPIVEFYYKNDALGDP 130 (238)
T ss_pred HHHHHHHHhCCCCceEecc----cCCCeEEEEEcceeeEEEEEeeeeceehhhhcCCccCCcCCCCeEEEEecCCCCCCC
Confidence 3678889999999988864 44444433 345555565655668899999988777666542211011
Q ss_pred CcccccccchhhhhhhcCChhhhhhHH----HHHHHHHhhhhhccccccccceeE
Q psy12268 251 GFNFWLFADDLKVALRVGGQREVDSMQ----SMLSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 251 ~i~~l~YADDivIis~s~s~~~~~~Lq----~~Ld~L~~w~~~~GLkIN~~KTei 301 (410)
.+ .+|-++.....+.++...+. ..-+.+..++...|+.+-.-|-+.
T Consensus 131 ---~i--~~~~~~~~~~~t~~e~~~i~~~al~i~~~l~~~~~~~Gl~LvD~K~EF 180 (238)
T PRK09362 131 ---MI--NEDHILALGWATPEELAEIKELALKINDVLKGLFAGAGIRLVDFKLEF 180 (238)
T ss_pred ---CC--CHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEe
Confidence 11 11112111112223333222 335566788888898877666553
No 34
>cd00476 SAICAR_synt 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase. SAICAR synthetase (the PurC gene product) catalyzes the seventh step of the de novo biosynthesis of purine nucleotides (also reported as eighth step). It converts 5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP, and L-aspartate into 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR), ADP, and phosphate.
Probab=44.57 E-value=14 Score=35.83 Aligned_cols=111 Identities=22% Similarity=0.174 Sum_probs=60.1
Q ss_pred HHHHHHHhCCCChHHHHHHHHHhhcceEEE----------eeCCccCCccccCc-cccCCCcchhhhhhhhhhhhhhccC
Q psy12268 182 VRLTKLSAFGISGYLLQWIRNFLSGWIQIV----------RVGTSTSEPIHIPS-GCIQGGHMSGLLFSLFINDIAEIFP 250 (410)
Q Consensus 182 ~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V----------~~~g~~S~~~~i~~-GVPQGs~LSPLLFnL~l~~L~~~l~ 250 (410)
+++..|...|+|.+++.. ++.+.+.| .+.|..++++.-.- |++.|..|.|-+|.+++-.=...-|
T Consensus 50 ~~F~~L~~~gI~tH~i~~----~~~~~~~v~k~~miPlEvIvR~~a~GS~~rry~g~~eg~~l~~Pive~~~K~d~~~Dp 125 (230)
T cd00476 50 FIFKYLSEAGIPTHFVER----LGPRTLLVDKLKXIPLEVVVRNRATGSFVKRYGGFKEGREFPPPLVEFFYKDDAEHDP 125 (230)
T ss_pred HHHHHHHhCCCCCeeeee----cCCCEEEEEecCcccEEEEEeeeeccchhhhcCCCCCCCcCCCCEEEeeccCccCCCC
Confidence 567778888999988864 44554443 23344444343333 8899999988777776532111011
Q ss_pred CcccccccchhhhhhhcCChhhhhhHH----HHHHHHHhhhhhccccccccceeE
Q psy12268 251 GFNFWLFADDLKVALRVGGQREVDSMQ----SMLSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 251 ~i~~l~YADDivIis~s~s~~~~~~Lq----~~Ld~L~~w~~~~GLkIN~~KTei 301 (410)
. -.+|-++.....+..+...+. ..-+.+..|+...||.+=.-|-+.
T Consensus 126 ---~--i~~~~~~~~~~~~~~e~~~i~~~al~v~~~l~~~~~~~gl~LvD~K~EF 175 (230)
T cd00476 126 ---I--VSEDQLERLGFIGKVDVERXKELAVKINTVLKKLFSPAGLELWDFKLEF 175 (230)
T ss_pred ---C--CCHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeEEe
Confidence 1 111222211111223333332 234556788888888876666553
No 35
>TIGR00081 purC phosphoribosylaminoimidazole-succinocarboxamide synthase. Check length. Longer versions may be multifunctional enzymes.
Probab=43.82 E-value=25 Score=34.16 Aligned_cols=112 Identities=15% Similarity=0.124 Sum_probs=63.2
Q ss_pred HHHHHHHHhCCCChHHHHHHHHHhhcceEE----------EeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC
Q psy12268 181 AVRLTKLSAFGISGYLLQWIRNFLSGWIQI----------VRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP 250 (410)
Q Consensus 181 ~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~----------V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~ 250 (410)
.+++..|...|+|.+++. .++++.+. |.+.|..++++.-.-|+|.|..++|-|.-+++-+=...-|
T Consensus 57 ~~~F~~L~~~GI~tH~i~----~~~~~~~lv~k~~~iPlEvIvR~~a~GS~~rr~~~~eG~~~~~pl~E~~~k~d~~~Dp 132 (237)
T TIGR00081 57 AFIFEKLEEAGIPTHYID----LIEDREMLVKKLDIIPLEVIVRNIAAGSLLKRLGIPEGLELEQPLVEFIFKPDEVGDP 132 (237)
T ss_pred HHHHHHHHhCCCCcceec----ccCCCEEEEEEcceecEEEEEeccccccceeccCCCCCCcCCCCccceEEcccccCCC
Confidence 367888899999988886 44444443 3456666666666678999988877665555444110001
Q ss_pred CcccccccchhhhhhhcCChhhhhhHHH----HHHHHHhhhhhccccccccceeE
Q psy12268 251 GFNFWLFADDLKVALRVGGQREVDSMQS----MLSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 251 ~i~~l~YADDivIis~s~s~~~~~~Lq~----~Ld~L~~w~~~~GLkIN~~KTei 301 (410)
. -.+|..+.....+.++...+.. .-..+..++...||.+-.-|-+.
T Consensus 133 ~-----i~~~~~~~~~~~~~~e~~~i~~~a~~v~~~l~~~~~~~gl~LvD~K~EF 182 (237)
T TIGR00081 133 M-----LNESYAEALGLATEEELERIKELALKVNEVLKKYFDEKGIILVDFKLEF 182 (237)
T ss_pred C-----CCHhHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeEEe
Confidence 0 1111112122222333333333 34455777888898887766553
No 36
>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
Probab=41.95 E-value=20 Score=39.11 Aligned_cols=17 Identities=24% Similarity=0.438 Sum_probs=14.9
Q ss_pred CccccCccccCCCcchh
Q psy12268 219 EPIHIPSGCIQGGHMSG 235 (410)
Q Consensus 219 ~~~~i~~GVPQGs~LSP 235 (410)
..+.+.+||.+|+.+||
T Consensus 364 ~~vRvDsGV~~G~~Is~ 380 (645)
T COG4770 364 PGVRVDSGVREGDEISP 380 (645)
T ss_pred CceecccCcccCCcccc
Confidence 34788999999999998
No 37
>COG0152 PurC Phosphoribosylaminoimidazolesuccinocarboxamide (SAICAR) synthase [Nucleotide transport and metabolism]
Probab=39.52 E-value=62 Score=31.72 Aligned_cols=112 Identities=17% Similarity=0.141 Sum_probs=65.0
Q ss_pred HHHHHHHHhCCCChHHHHHHHHHhhcceEE----------EeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccC
Q psy12268 181 AVRLTKLSAFGISGYLLQWIRNFLSGWIQI----------VRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFP 250 (410)
Q Consensus 181 ~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~----------V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~ 250 (410)
++++..|...|+|.+++..+ +++.+. |.+.|..+.++.-.-|++.|-++++-|+-++..+-. +
T Consensus 55 ~~~F~~L~~~gi~tH~i~~~----~~~~~lvkk~~iiPlEvVvRn~~aGS~~kr~~~~eg~~~~~~l~e~~~k~d~--l- 127 (247)
T COG0152 55 AFIFEKLEEAGIPTHFIELL----SDREQLVKKLEIIPLEVVVRNYAAGSLLKRYGIEEGTVLGIPLVEFLYKNDE--L- 127 (247)
T ss_pred HHHHHHHHHcCCCcceeecc----CCCeEEEEEeeEEeEEEEEeceecchhHHHhccccceECCCCCccccccchh--c-
Confidence 47888999999999998877 444333 334455555555555555666665555444332211 1
Q ss_pred CcccccccchhhhhhhcCChhhhhhHHHH----HHHHHhhhhhccccccccceeE
Q psy12268 251 GFNFWLFADDLKVALRVGGQREVDSMQSM----LSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 251 ~i~~l~YADDivIis~s~s~~~~~~Lq~~----Ld~L~~w~~~~GLkIN~~KTei 301 (410)
.-.++-|+.+.+....+.+....+... -+.+..+....|+.+-..|-+.
T Consensus 128 --~dPiv~d~~i~~~~~~~~ee~~~i~~~alkin~~l~~~~~~~GiilvD~KlEF 180 (247)
T COG0152 128 --PDPIVTDEHISALGIATPEEIEEIKELALKINEVLKDLFAKRGIILVDFKLEF 180 (247)
T ss_pred --CCCccchhhcchhccCCHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEeeeEEe
Confidence 112223666555544444444444443 4455778888888887777664
No 38
>PF11600 CAF-1_p150: Chromatin assembly factor 1 complex p150 subunit, N-terminal; InterPro: IPR021644 P150 is a polypeptide subunit of CAF-1, which functions in depositing newly synthesised and acetylated histones H3/H4 into chromatin during DNA replication and repair [].P150 is the HP1 interaction site of CAF-1 and lies within the N-terminal region of the protein [].
Probab=38.57 E-value=3.5e+02 Score=25.60 Aligned_cols=6 Identities=33% Similarity=0.673 Sum_probs=2.8
Q ss_pred HHHHHh
Q psy12268 199 WIRNFL 204 (410)
Q Consensus 199 lI~s~L 204 (410)
-|.+||
T Consensus 181 ~~~~FF 186 (216)
T PF11600_consen 181 RITSFF 186 (216)
T ss_pred HHHHHh
Confidence 344455
No 39
>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].
Probab=35.77 E-value=19 Score=29.51 Aligned_cols=42 Identities=17% Similarity=0.232 Sum_probs=26.3
Q ss_pred CCChHHHHHHHHHhhcceEEEeeCCccCCccccCcccc-CCCcchhhhhhhhh
Q psy12268 191 GISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCI-QGGHMSGLLFSLFI 242 (410)
Q Consensus 191 G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVP-QGs~LSPLLFnL~l 242 (410)
++++....-|.+++..-+-..+ +--||| ||+.+++++..+..
T Consensus 27 ~L~~~~r~~~d~~i~~y~~~~~----------lVDGvPaQGG~~~~i~~~~i~ 69 (85)
T PF07240_consen 27 PLTPQDRQRIDRFIRRYKEENN----------LVDGVPAQGGFWGKIVKKIIS 69 (85)
T ss_pred CCCHHHHHHHHHHHHHHHHHhh----------cccCcCCCCCchHHHHHHHHH
Confidence 4566666666666643332221 334787 99999998876644
No 40
>PF04196 Bunya_RdRp: Bunyavirus RNA dependent RNA polymerase; InterPro: IPR007322 The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encoded by the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.; GO: 0003968 RNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0019079 viral genome replication
Probab=33.99 E-value=1.4e+02 Score=33.98 Aligned_cols=129 Identities=13% Similarity=0.208 Sum_probs=67.9
Q ss_pred ChHHHHHHHHHhhcceEEE--eeCCccCCccccCccccCCC--cchhhhhhhhhh---hhh-hccCC------ccccccc
Q psy12268 193 SGYLLQWIRNFLSGWIQIV--RVGTSTSEPIHIPSGCIQGG--HMSGLLFSLFIN---DIA-EIFPG------FNFWLFA 258 (410)
Q Consensus 193 p~~li~lI~s~Ls~rs~~V--~~~g~~S~~~~i~~GVPQGs--~LSPLLFnL~l~---~L~-~~l~~------i~~l~YA 258 (410)
...+.++|...+.+..... ...|.++..+.+.+|.-||- -.|.++-.+++. .+. ..+|. +....--
T Consensus 491 ~~~~~~~l~~~~~~~~~~~~~~~~g~~~n~~~v~~nwlQGnLn~tSSl~h~~~~~~~~~~~~~~~~~~~~~~~~~~m~hS 570 (743)
T PF04196_consen 491 DDKFRNLLDKMYHGEEDVPEWMTKGRTTNYIEVRTNWLQGNLNYTSSLLHSCAMEFYKEFWKEVFPELDGFCFVNSMVHS 570 (743)
T ss_pred hHHHHHHHHHhhcCCcccHHHHhCCCCCceEEEecccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhCcceEEeeeecc
Confidence 5556666666666554333 24455666889999999995 335554443332 222 22221 2333444
Q ss_pred chhhhhhhcC---Chh----hh-hhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCccccc
Q psy12268 259 DDLKVALRVG---GQR----EV-DSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALAR 324 (410)
Q Consensus 259 DDivIis~s~---s~~----~~-~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ 324 (410)
||........ +.. .. .....+...+......+|+++|+.||-+..+-. .....|.++|.++.+
T Consensus 571 DDs~~~i~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~~~~~I~~s~KkT~~T~~~~---EF~S~f~f~g~~~~~ 641 (743)
T PF04196_consen 571 DDSSMSISIPEPVDDKQSDFNSVEFAAAIFRLIELLFKYLCIYASPKKTYNTPFVK---EFNSEFIFHGEVVSP 641 (743)
T ss_pred CCCceEEEEeeccCChhHHHHHHHHHHHHHHHHHHhccccccccccccccccCcee---eeeeeeEecCccccH
Confidence 5544433221 010 01 112223344444455667889999998755432 234456688888776
No 41
>PF13514 AAA_27: AAA domain
Probab=33.19 E-value=73 Score=37.63 Aligned_cols=115 Identities=12% Similarity=0.128 Sum_probs=60.6
Q ss_pred CCCHHHHHHHHHhC--CCChHHHHHHHHHhh----cceEEEeeCCccCCccccCcccc-CCCcchhh------hhhhhhh
Q psy12268 177 KNEKAVRLTKLSAF--GISGYLLQWIRNFLS----GWIQIVRVGTSTSEPIHIPSGCI-QGGHMSGL------LFSLFIN 243 (410)
Q Consensus 177 ~vdH~~Ll~~L~~~--G~p~~li~lI~s~Ls----~rs~~V~~~g~~S~~~~i~~GVP-QGs~LSPL------LFnL~l~ 243 (410)
.+=+.+|-..+..+ ..-|.++.-...||. |+-..|.++...+. ++-.++. .|.++++- -.-||+.
T Consensus 960 ~la~~lL~~a~~~~r~~~~p~vl~~As~~f~~LT~G~Y~~l~~d~d~~~--~~l~~~~~~G~~~~~~~LS~GT~dQLYLA 1037 (1111)
T PF13514_consen 960 RLAAELLEEAIERYREERQPPVLARASEYFSRLTGGRYSRLRVDEDGDK--PVLVVVRADGERVPVEELSRGTRDQLYLA 1037 (1111)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhCCCCceeeeccccCc--ccceEEecCCeEeeHHHhCHHHHHHHHHH
Confidence 44566677766665 233444444444443 45445666553322 2223333 44444331 1222221
Q ss_pred ----hhhhc-cCCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEeecCC
Q psy12268 244 ----DIAEI-FPGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNK 308 (410)
Q Consensus 244 ----~L~~~-l~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~ 308 (410)
-+... -.+..+.+.+||+.|.+ +...+..++..|...+ ..++||+|+...
T Consensus 1038 LRLA~~e~~~~~~~~lP~IlDD~fvnf------Dd~R~~~~l~~L~~ls---------~~~QVI~FTch~ 1092 (1111)
T PF13514_consen 1038 LRLALAELLAEQGEPLPFILDDIFVNF------DDERARAALELLAELS---------RRRQVIYFTCHE 1092 (1111)
T ss_pred HHHHHHHHHHhCCCCCcEEeeCCcccc------CHHHHHHHHHHHHHhc---------cCCeEEEEeccH
Confidence 11111 13566778889999976 4466666777766554 357999998754
No 42
>PF12165 DUF3594: Domain of unknown function (DUF3594); InterPro: IPR021998 This presumed domain is functionally uncharacterised.This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00628 from PFAM.
Probab=32.98 E-value=2.3e+02 Score=25.21 Aligned_cols=78 Identities=13% Similarity=0.069 Sum_probs=42.8
Q ss_pred cccccceeEEEeecCCCCccceeeeCCccccccccccccceeecCcch--HHHHHHH--------HHHHHHhhhccCCCH
Q psy12268 293 ELNIGKCMVMTYHRNKSPILASYDINGQALARCEQVRDLGVTFQKTLE--RQINDLI--------FIYKLVNNQIFCPDI 362 (410)
Q Consensus 293 kIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~ves~KYLGV~Ld~kLs--~HI~~~i--------r~l~~l~R~~~~ls~ 362 (410)
.-+|+|-.+..++..+.. ..+.+--..+++.-.---||+.|-.+.. .++-+++ -.+.+......+++.
T Consensus 31 ~CDP~kenLCLYG~p~~~--WeV~lP~eevPpeLPEPaLGINfaRDgM~r~dWLslVAvHsDsWLlsvAfy~gar~~~~~ 108 (137)
T PF12165_consen 31 QCDPEKENLCLYGHPDGT--WEVNLPAEEVPPELPEPALGINFARDGMQRKDWLSLVAVHSDSWLLSVAFYFGARFGFDK 108 (137)
T ss_pred hcCccccceEEecCCCCC--eEEeCChHhCCCCCCCcccCcccccCCccHHHHHHHHHHhccHHHHHHHHHHHHhhccCh
Confidence 447899888888764322 2233333445544333449999998765 5555555 111111112224666
Q ss_pred HHHHHHHHhh
Q psy12268 363 LTYSFTFSQE 372 (410)
Q Consensus 363 ~~k~~Lyks~ 372 (410)
..+.+||.++
T Consensus 109 ~~R~rLF~mI 118 (137)
T PF12165_consen 109 NERKRLFSMI 118 (137)
T ss_pred HHHHHHHHHH
Confidence 7777776654
No 43
>cd01414 SAICAR_synt_Sc non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase. Eukaryotic, bacterial, and archaeal group of SAICAR synthetases represented by the Saccharomyces cerevisiae (Sc) enzyme, mostly absent in metazoans. SAICAR synthetase catalyzes the seventh step of the de novo biosynthesis of purine nucleotides (also reported as eighth step). It converts 5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP, and L-aspartate into 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR), ADP, and phosphate.
Probab=32.05 E-value=30 Score=34.43 Aligned_cols=72 Identities=13% Similarity=0.172 Sum_probs=40.4
Q ss_pred cCccccCCCcchhhhhhhhhhhhhhccCCcccccccchhhhhhhcCChhhhhhHH----HHHHHHHhhhhhccccccccc
Q psy12268 223 IPSGCIQGGHMSGLLFSLFINDIAEIFPGFNFWLFADDLKVALRVGGQREVDSMQ----SMLSRLYHWCSINKMELNIGK 298 (410)
Q Consensus 223 i~~GVPQGs~LSPLLFnL~l~~L~~~l~~i~~l~YADDivIis~s~s~~~~~~Lq----~~Ld~L~~w~~~~GLkIN~~K 298 (410)
+..|++.|..|.+-||..++-.-.. +-..+.+ |+++.++ +.++...|. ..-+.+..++...||.+-..|
T Consensus 122 lp~g~~eg~~L~~Pi~e~~tK~d~~---~D~~Is~-~~~~~~~---~~~~~~~i~~~al~i~~~l~~~~~~~GiiLvD~K 194 (279)
T cd01414 122 LPEGLREAQKLPEPIFTPSTKAEEG---HDENISF-EEAVEII---GAELADELRELALALYERAAEYAAKRGLILADTK 194 (279)
T ss_pred CCCCccccCcCCCCEEecccccccC---CCCCCCH-HHHHHhc---CHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEee
Confidence 3348899999988887776643221 1112222 2222221 123333332 335566888899999988877
Q ss_pred eeE
Q psy12268 299 CMV 301 (410)
Q Consensus 299 Tei 301 (410)
-+.
T Consensus 195 ~EF 197 (279)
T cd01414 195 FEF 197 (279)
T ss_pred eEe
Confidence 764
No 44
>KOG1144|consensus
Probab=31.54 E-value=1.7e+02 Score=33.53 Aligned_cols=12 Identities=17% Similarity=0.149 Sum_probs=5.8
Q ss_pred ccccceeecCcc
Q psy12268 328 VRDLGVTFQKTL 339 (410)
Q Consensus 328 ~KYLGV~Ld~kL 339 (410)
++.-|+.+-...
T Consensus 537 ~kvPg~lvIdtp 548 (1064)
T KOG1144|consen 537 LKVPGLLVIDTP 548 (1064)
T ss_pred cCCCeeEEecCC
Confidence 455565444443
No 45
>PF05919 Mitovir_RNA_pol: Mitovirus RNA-dependent RNA polymerase; InterPro: IPR008686 This family consists of several Mitovirus RNA-dependent RNA polymerase proteins. The family also contains fragment matches in the mitochondria of Arabidopsis thaliana [].
Probab=31.32 E-value=1.5e+02 Score=31.94 Aligned_cols=149 Identities=10% Similarity=0.018 Sum_probs=68.4
Q ss_pred HHHHHHHHHhCCCCh-----HHHHHHHHHhhcc-eEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccCCcc
Q psy12268 180 KAVRLTKLSAFGISG-----YLLQWIRNFLSGW-IQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFPGFN 253 (410)
Q Consensus 180 H~~Ll~~L~~~G~p~-----~li~lI~s~Ls~r-s~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~~i~ 253 (410)
|+.|+..|+..-.++ ...+++....... .++..+.. .++.+|+ +-|..+|+-|.=.-+.+...+.+-+..
T Consensus 116 H~~lf~~Lr~ip~DgTF~Q~~~~~~~~~~~~~~~~~S~DLsa-ATDR~Pi---~lQ~~il~~l~~~~~a~~W~~llv~r~ 191 (498)
T PF05919_consen 116 HDWLFSILRRIPQDGTFDQEPPFDRLVDSMKEKYFYSFDLSA-ATDRFPI---VLQERILSYLFGDSFASSWRSLLVGRP 191 (498)
T ss_pred HHHHHHHHhcCCCCCCcCCCCchhhHhhcccCCceEEEeecc-ccccccH---HHHHHHHHHHhCchHHHHHHHHHcCCc
Confidence 788888888763322 2234444443322 33333322 2334443 235555553322222222223333445
Q ss_pred cccccchhhhhhhcCChhhhh---hHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCcccccc--ccc
Q psy12268 254 FWLFADDLKVALRVGGQREVD---SMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALARC--EQV 328 (410)
Q Consensus 254 ~l~YADDivIis~s~s~~~~~---~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~~v--es~ 328 (410)
++.+.+|.+-|..|.+..... .+.-..-.+..||+..- .....=+.++.++. .+.|.+..|... .-+
T Consensus 192 ~~~~~~~~v~y~vGQPmGa~SSW~~~altHH~iV~~aA~~~-~~~~~f~~Y~iLGD-------Divi~~~~vA~~Y~~~m 263 (498)
T PF05919_consen 192 YLKPNGDEVRYSVGQPMGAYSSWAMFALTHHLIVQYAAERV-GGGSRFTDYIILGD-------DIVIANDKVAKQYLSIM 263 (498)
T ss_pred cccCCCCeEEEecCCcchhccccHHHHhhHHHHHHHHHHHh-hccCCCCceEEEcC-------cEEEcCHHHHHHHHHHH
Confidence 567788888888777665431 11112333455554321 11111222222221 233443333322 446
Q ss_pred cccceeecCcch
Q psy12268 329 RDLGVTFQKTLE 340 (410)
Q Consensus 329 KYLGV~Ld~kLs 340 (410)
.-|||.|+..-+
T Consensus 264 ~~Lgv~is~~Ks 275 (498)
T PF05919_consen 264 TDLGVEISLSKS 275 (498)
T ss_pred HHcCceeccCcc
Confidence 679999886654
No 46
>KOG1359|consensus
Probab=29.24 E-value=73 Score=32.39 Aligned_cols=99 Identities=13% Similarity=0.111 Sum_probs=55.6
Q ss_pred cccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEe--ecCCC-------CccceeeeCCccc
Q psy12268 252 FNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTY--HRNKS-------PILASYDINGQAL 322 (410)
Q Consensus 252 i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f--~~~~~-------~~~~~~ti~g~~I 322 (410)
+.+.+-|-|+++.++ ..+..++.....+..+.+..|++|+-.-.-++.+ +...- -....+.+-|...
T Consensus 301 V~~a~ka~dllm~s~----~~i~~~~a~~qrfr~~me~aGftIsg~~hPI~pv~lGda~lA~~~ad~lLk~Gi~Vigfs~ 376 (417)
T KOG1359|consen 301 VGMAAKAYDLLMVSS----KEIQSRQANTQRFREFMEAAGFTISGASHPICPVMLGDARLASKMADELLKRGIYVIGFSY 376 (417)
T ss_pred hhhhHHHHHHHHhhH----HHHHHHHHHHHHHHHHHHhcCceecCCCCCccceecccHHHHHHHHHHHHhcCceEEeecC
Confidence 345566777777663 4557888888899999999999987533222221 11100 0012233334444
Q ss_pred ccccc-ccccceeecCcch-HHHHHHHHHHHHHh
Q psy12268 323 ARCEQ-VRDLGVTFQKTLE-RQINDLIFIYKLVN 354 (410)
Q Consensus 323 ~~ves-~KYLGV~Ld~kLs-~HI~~~ir~l~~l~ 354 (410)
|.++. ---+-|.|+..-+ .||+..+.++....
T Consensus 377 PvVP~gkariRVqiSAaHt~edid~~i~Af~~vg 410 (417)
T KOG1359|consen 377 PVVPKGKARIRVQISAAHTEEDIDRLIEAFSEVG 410 (417)
T ss_pred CcCCCCceEEEEEEehhcCHHHHHHHHHHHHHHH
Confidence 44432 2235577776666 88888775544433
No 47
>PF00602 Flu_PB1: Influenza RNA-dependent RNA polymerase subunit PB1; InterPro: IPR001407 Influenza RNA-dependent RNA polymerase is composed of three subunits; P1 (or PB1), P2 (or PA), and P3 (or PB2). There are two separate domains in the influenza virus PB1 protein involved in the interaction with the PB2 and PA subunits [, ]. PB1 has two GTP binding sites.; GO: 0003968 RNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3CM8_B 2ZTT_A 3A1G_C 2ZNL_B 1WBZ_P.
Probab=29.02 E-value=18 Score=40.04 Aligned_cols=50 Identities=12% Similarity=0.290 Sum_probs=0.0
Q ss_pred cccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEEee
Q psy12268 252 FNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMTYH 305 (410)
Q Consensus 252 i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~ 305 (410)
+..+.-.||+++++.+.+. +.+...++.+..-|.-.|+.+++.|| ++...
T Consensus 438 ~~~lqSSDDF~~~~~~~~~---e~~~~~i~~f~~~~KLvGINmS~kKs-yi~~~ 487 (740)
T PF00602_consen 438 WDGLQSSDDFILFFNAKTH---EDIMEQIERFYRTCKLVGINMSQKKS-YISPT 487 (740)
T ss_dssp ------------------------------------------------------
T ss_pred cccccccCceEEEEecCCH---HHHHHHHHHHHHHhHHheeccccccc-ccccc
Confidence 3557788999999876544 55666777788889999999999999 55443
No 48
>KOG0164|consensus
Probab=28.48 E-value=38 Score=38.02 Aligned_cols=99 Identities=13% Similarity=0.186 Sum_probs=58.8
Q ss_pred CccccCCCcchhhhhhhhhhhhhhccCCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhccccccccceeEEE
Q psy12268 224 PSGCIQGGHMSGLLFSLFINDIAEIFPGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCMVMT 303 (410)
Q Consensus 224 ~~GVPQGs~LSPLLFnL~l~~L~~~l~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~ 303 (410)
..-+.+|.+.+|+||..++-.+.+--..-...++..|-.++-. ++... ..+........-.|+.+++.+-.+++
T Consensus 842 ~~~l~~~e~fg~Vlfs~~V~K~NrfnK~~~R~lllTd~~v~kl----d~~K~--k~mK~~I~l~nltgiSVss~~D~Lfv 915 (1001)
T KOG0164|consen 842 LQQLKGSETFGPVLFSSHVKKVNRFNKPRSRALLLTDRHVYKL----DPKKQ--KVMKQTIPLANLTGISVSSGSDQLFV 915 (1001)
T ss_pred HHHhhccCCccceeehhhHHHhcccCCccceeEEeecCeEEEe----cchHh--hHhhcccchhhccceeeecCCCceEE
Confidence 3445677889999999999888874433333334444444321 11111 22232333445668888888888877
Q ss_pred eecCCCCccceeeeCCccccccccccccceeecCcch-HHHHHHH
Q psy12268 304 YHRNKSPILASYDINGQALARCEQVRDLGVTFQKTLE-RQINDLI 347 (410)
Q Consensus 304 f~~~~~~~~~~~ti~g~~I~~ves~KYLGV~Ld~kLs-~HI~~~i 347 (410)
|.... .+.|++.++..+. .||-.++
T Consensus 916 lH~~~-------------------~~Dlv~~~~~~~~e~rVgElv 941 (1001)
T KOG0164|consen 916 LHVSD-------------------NKDLVVCLDSVLQEDRVGELV 941 (1001)
T ss_pred EEecC-------------------CcchhhhhhhhhhHHHHHHHH
Confidence 75433 3556666666666 7777776
No 49
>KOG0736|consensus
Probab=26.97 E-value=4.1e+02 Score=30.64 Aligned_cols=202 Identities=10% Similarity=0.083 Sum_probs=114.4
Q ss_pred HHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccC------CCcchhhhhhhhhhhhhhcc--------C
Q psy12268 185 TKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQ------GGHMSGLLFSLFINDIAEIF--------P 250 (410)
Q Consensus 185 ~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQ------Gs~LSPLLFnL~l~~L~~~l--------~ 250 (410)
..|.+.++|-...+++.+-|..|+-.+.++--.+.---+...|.. =|+=+|=|-|+|+..--... .
T Consensus 683 eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR~VFerAR~ 762 (953)
T KOG0736|consen 683 EILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVREVFERARS 762 (953)
T ss_pred HHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHHHHHHHhhc
Confidence 456777888888999999998888877776544443333333443 44558999999997644322 2
Q ss_pred CcccccccchhhhhhhcCChh-hh-hhHHHHHHHHHhhhhhccccccccceeEEEeecCCCCccceeeeCCcccc--ccc
Q psy12268 251 GFNFWLFADDLKVALRVGGQR-EV-DSMQSMLSRLYHWCSINKMELNIGKCMVMTYHRNKSPILASYDINGQALA--RCE 326 (410)
Q Consensus 251 ~i~~l~YADDivIis~s~s~~-~~-~~Lq~~Ld~L~~w~~~~GLkIN~~KTeim~f~~~~~~~~~~~ti~g~~I~--~ve 326 (410)
...|+.|-|.+--+++.+... +. .-|.+.+.++..-+. ||.=++.+ -+++++..+.++. ++..-+. ..+
T Consensus 763 A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELD--gls~~~s~-~VFViGATNRPDL----LDpALLRPGRFD 835 (953)
T KOG0736|consen 763 AAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELD--GLSDSSSQ-DVFVIGATNRPDL----LDPALLRPGRFD 835 (953)
T ss_pred cCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhh--cccCCCCC-ceEEEecCCCccc----cChhhcCCCccc
Confidence 357999999888887765332 22 334444444433222 34433222 2344444333322 1222222 347
Q ss_pred cccccceeecCcchHHHHHHHHHHHHHhhhccCCCHHHHHHHHHhhcccchhhhHHHhhhhHHHHHHHHHHHHHH
Q psy12268 327 QVRDLGVTFQKTLERQINDLIFIYKLVNNQIFCPDILTYSFTFSQEIGKQAEHNIIVLVEFAIALVTILDQINRE 401 (410)
Q Consensus 327 s~KYLGV~Ld~kLs~HI~~~ir~l~~l~R~~~~ls~~~k~~Lyks~V~P~L~Yg~~VW~~~~~~~i~~LdrvqR~ 401 (410)
.+-|+|+.=| ..+..+++..+.|... ++.+.-+.-+-..+-|. .-|+..|+.++.+.+..+-+..+.
T Consensus 836 KLvyvG~~~d------~esk~~vL~AlTrkFk-LdedVdL~eiAk~cp~~-~TGADlYsLCSdA~l~AikR~i~~ 902 (953)
T KOG0736|consen 836 KLVYVGPNED------AESKLRVLEALTRKFK-LDEDVDLVEIAKKCPPN-MTGADLYSLCSDAMLAAIKRTIHD 902 (953)
T ss_pred eeEEecCCcc------HHHHHHHHHHHHHHcc-CCCCcCHHHHHhhCCcC-CchhHHHHHHHHHHHHHHHHHHHH
Confidence 7889998754 4555567777777554 22222222222333333 345577776777766666665543
No 50
>cd01416 SAICAR_synt_Ade5 Ade5_like 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase. Eukaryotic group of SAICAR synthetases represented by the Drosophila melanogaster, N-terminal, SAICAR synthetase domain of bifunctional Ade5. The Ade5 gene product (CAIR-SAICARs) catalyzes the sixth and seventh steps of the de novo biosynthesis of purine nucleotides (also reported as seventh and eighth steps). SAICAR synthetase converts 5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP, and L-aspartate into 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR), ADP, and phosphate.
Probab=25.11 E-value=1.1e+02 Score=30.06 Aligned_cols=111 Identities=18% Similarity=0.120 Sum_probs=58.0
Q ss_pred HHHHHHHhCCCChHHHHHHHHHhhcceEEE----------eeCCccCCccccC-ccccCCCcchhhhhhhhhhhhhhccC
Q psy12268 182 VRLTKLSAFGISGYLLQWIRNFLSGWIQIV----------RVGTSTSEPIHIP-SGCIQGGHMSGLLFSLFINDIAEIFP 250 (410)
Q Consensus 182 ~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V----------~~~g~~S~~~~i~-~GVPQGs~LSPLLFnL~l~~L~~~l~ 250 (410)
+++..|...|+|.+++.. ++.+.+.| .+.+..++.+--. .|++.|..|.|-||.+++-.=..
T Consensus 57 ~~F~~L~~~GI~tHfi~~----~~~~~~lvkk~~~iPlEvIvR~~a~GS~~kry~g~~eg~~l~~PivE~~~K~d~~--- 129 (252)
T cd01416 57 NVFELLQEAGIKTHFVKQ----CSPTAFIARKCEMIPIEWVCRRIATGSFLKRNPGVKEGYRFSPPKLEFFYKDDAN--- 129 (252)
T ss_pred HHHHHHHhCCCCceeecc----cCCCeEEEEEeeeeeEEEEEEeeeecchHhhcCCCCCcccCCCCeeeEEeeCCCC---
Confidence 677888888999888764 34444333 2334433333222 37899998887776666532111
Q ss_pred Ccccccccchhhhhhhc------CChhhhhhHH----HHHHHHHhhhhhccccccccceeE
Q psy12268 251 GFNFWLFADDLKVALRV------GGQREVDSMQ----SMLSRLYHWCSINKMELNIGKCMV 301 (410)
Q Consensus 251 ~i~~l~YADDivIis~s------~s~~~~~~Lq----~~Ld~L~~w~~~~GLkIN~~KTei 301 (410)
+...+.+ |-++.... .+.++...+. ..-+.+..++...|+.+-.-|-+.
T Consensus 130 ~Dp~I~~--~~~~~~~~~~~~~~~t~~e~~~i~~~al~i~~~l~~~~~~~Gi~LvD~K~EF 188 (252)
T cd01416 130 HDPQWSE--EQLLEAKLNCGGLKIGKKEVDIMTKSTIAIFEILEKAWATQDCTLVDMKIEF 188 (252)
T ss_pred CCCCCCH--HHHHHcCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeEEe
Confidence 1111111 11111111 2223333332 234556777778888877666553
No 51
>KOG1144|consensus
Probab=24.99 E-value=3.1e+02 Score=31.53 Aligned_cols=7 Identities=43% Similarity=0.733 Sum_probs=2.8
Q ss_pred hHHHHHH
Q psy12268 98 KKEAEEE 104 (410)
Q Consensus 98 ~~~~~~~ 104 (410)
.+|+||+
T Consensus 226 ~qe~eE~ 232 (1064)
T KOG1144|consen 226 RQEEEER 232 (1064)
T ss_pred HHHHHHH
Confidence 3344443
No 52
>COG0282 ackA Acetate kinase [Energy production and conversion]
Probab=22.79 E-value=51 Score=34.39 Aligned_cols=115 Identities=16% Similarity=0.150 Sum_probs=74.8
Q ss_pred CCHHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccCCcccccc
Q psy12268 178 NEKAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFPGFNFWLF 257 (410)
Q Consensus 178 vdH~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~~i~~l~Y 257 (410)
+|-..+...++..|....- |..+|...+--.=+.|..|+...+....-+|.. .-+-+.+|++.+...+-..-..+-
T Consensus 243 iDP~ii~~l~~~~~~s~~~---i~~~LNkkSGllGlSg~ssD~R~l~~~~~~g~~-A~lA~~~f~~Ri~kyIg~y~a~L~ 318 (396)
T COG0282 243 IDPGIILYLMEQEGMSAEE---IDTLLNKKSGLLGLSGLSSDMRDLEEAAAEGNE-AKLALDMFVYRIAKYIGSYAAALG 318 (396)
T ss_pred CChHHHHHHHHhcCCCHHH---HHHHHhhhccccccccccchHHHHHHHhccCch-HHHHHHHHHHHHHHHHHHHHHHhC
Confidence 5566666666666655443 344566666666778888888888888888866 777889999988876543222222
Q ss_pred cchhhhhhhcCChhhhhhHHHHHHHHHhhhhhcccccccccee
Q psy12268 258 ADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCM 300 (410)
Q Consensus 258 ADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTe 300 (410)
--|.+||..+-..+++ .+. ..+...+.-+|+.+++++-.
T Consensus 319 glDaiVFTaGIGENs~-~iR---~~v~~~L~~lGi~lD~e~N~ 357 (396)
T COG0282 319 GLDALVFTAGIGENSA-LVR---ELVCEGLAFLGIELDPEKNL 357 (396)
T ss_pred CCCEEEEeCccccCcH-HHH---HHHHhhhhhcCeEECHHHhc
Confidence 4466666655433332 222 33455566779999998887
No 53
>PF00998 RdRP_3: Viral RNA dependent RNA polymerase; InterPro: IPR002166 The RNA dependent RNA polymerase is also known as non-structural protein NS5B. NS5B is a 65 kDa protein that resembles other viral RNA polymerases. Hepatitis C virus (HCV) replication is thought to occur in membrane bound replication complexes. These complexes transcribe the positive strand and the resulting minus strand is used as a template for the synthesis of genomic RNA. There are two viral proteins involved in the reaction, NS3 and NS5B [, , ].; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0005524 ATP binding, 0006351 transcription, DNA-dependent, 0019079 viral genome replication; PDB: 2XYM_A 3I5K_D 4AEX_A 4E7A_A 2XXD_A 4E78_A 4AEP_A 4E76_A 1S4F_D 1S48_A ....
Probab=21.63 E-value=1.9e+02 Score=31.24 Aligned_cols=45 Identities=11% Similarity=0.041 Sum_probs=31.7
Q ss_pred CCcccccccchhhhhhhcCChhhhhhHHHHHHHHHhhhhhcccccccccee
Q psy12268 250 PGFNFWLFADDLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCM 300 (410)
Q Consensus 250 ~~i~~l~YADDivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTe 300 (410)
.++.++.--||.+||+.. ..++.+...|..|...+|.+..+++.+
T Consensus 295 ~~~~l~~~GDD~vvi~E~------~~~~~~~~~l~~~~~~~Gf~~~~e~p~ 339 (486)
T PF00998_consen 295 KDCSLLNCGDDCVVICES------AGVDEDEAALTEAFTRYGFPMKVEKPV 339 (486)
T ss_dssp EEEEEEEETTEEEEEEEH------CHHHHHHHHHHHHHHHTT-BSSSCEEB
T ss_pred CCccEeecCCceEEEecc------cchHHHHHHHHHHHHhcCCCCCCCCcc
Confidence 357788899999999854 334445557788888889777666544
No 54
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=20.51 E-value=2.1e+02 Score=27.87 Aligned_cols=109 Identities=19% Similarity=0.122 Sum_probs=62.6
Q ss_pred HHHHHHHHHhCCCChHHHHHHHHHhhcceEEEeeCCccCCccccCccccCCCcchhhhhhhhhhhhhhccCCcccccccc
Q psy12268 180 KAVRLTKLSAFGISGYLLQWIRNFLSGWIQIVRVGTSTSEPIHIPSGCIQGGHMSGLLFSLFINDIAEIFPGFNFWLFAD 259 (410)
Q Consensus 180 H~~Ll~~L~~~G~p~~li~lI~s~Ls~rs~~V~~~g~~S~~~~i~~GVPQGs~LSPLLFnL~l~~L~~~l~~i~~l~YAD 259 (410)
+..++..|+.+||..+-......++. .+..+...+.-..||||+-+..-| =.|---.+...++|-...-.|.
T Consensus 2 ~~~~~~~L~~lGlt~yEa~vY~aLl~-------~g~~tA~eis~~sgvP~~kvY~vl-~sLe~kG~v~~~~g~P~~y~av 73 (247)
T COG1378 2 MEELEENLQKLGLTEYEAKVYLALLC-------LGEATAKEISEASGVPRPKVYDVL-RSLEKKGLVEVIEGRPKKYRAV 73 (247)
T ss_pred chHHHHHHHHcCCCHHHHHHHHHHHH-------hCCccHHHHHHHcCCCchhHHHHH-HHHHHCCCEEeeCCCCceEEeC
Confidence 35688999999999999888888774 233334466778999998764421 1111112222334444444455
Q ss_pred hhhhhhhcCChhhhhhHHHHHHHHHhhhhhcccccccccee
Q psy12268 260 DLKVALRVGGQREVDSMQSMLSRLYHWCSINKMELNIGKCM 300 (410)
Q Consensus 260 DivIis~s~s~~~~~~Lq~~Ld~L~~w~~~~GLkIN~~KTe 300 (410)
|.-.+.. .-...++..++.+..+.......+...-+.
T Consensus 74 ~p~~~i~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (247)
T COG1378 74 PPEELIE----RIKEELQELLRELESELEELERELARRESP 110 (247)
T ss_pred CHHHHHH----HHHHHHHHHHHHHHHHHHHhhhccccccCc
Confidence 5544431 223566666666666665555444433333
Done!