Query 012649
Match_columns 459
No_of_seqs 288 out of 1109
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 04:52:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012649.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012649hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03202 protein argonaute; Pr 100.0 7.9E-43 1.7E-47 392.0 26.6 278 121-410 32-358 (900)
2 KOG1042 Germ-line stem cell di 100.0 4.3E-40 9.3E-45 340.7 13.0 244 127-414 87-341 (845)
3 KOG1041 Translation initiation 99.9 2.9E-25 6.3E-30 248.6 22.6 280 120-414 43-342 (876)
4 PF08699 DUF1785: Domain of un 99.6 2.2E-16 4.7E-21 116.9 2.7 52 281-333 1-52 (52)
5 PLN03202 protein argonaute; Pr 99.2 6.7E-12 1.4E-16 142.5 4.5 85 367-459 816-900 (900)
6 KOG1041 Translation initiation 98.4 1.3E-07 2.8E-12 107.3 4.5 87 366-459 790-876 (876)
7 cd04657 Piwi_ago-like Piwi_ago 97.9 5.5E-06 1.2E-10 87.4 2.6 46 366-411 381-426 (426)
8 KOG1924 RhoA GTPase effector D 97.7 0.0002 4.2E-09 78.0 9.6 31 117-150 620-650 (1102)
9 cd02825 PAZ PAZ domain, named 97.5 6.1E-05 1.3E-09 65.1 2.1 80 334-416 2-94 (115)
10 PF02170 PAZ: PAZ domain; Int 97.4 2.5E-05 5.5E-10 69.2 -0.6 80 334-416 1-91 (135)
11 cd02845 PAZ_piwi_like PAZ doma 97.3 8.3E-05 1.8E-09 64.5 1.4 77 334-416 2-88 (117)
12 cd02826 Piwi-like Piwi-like: P 97.3 0.00012 2.5E-09 76.6 2.4 42 367-408 351-392 (393)
13 KOG1924 RhoA GTPase effector D 97.2 0.00055 1.2E-08 74.6 6.7 21 384-406 966-986 (1102)
14 cd02846 PAZ_argonaute_like PAZ 97.2 0.00017 3.7E-09 61.9 2.2 80 334-415 2-95 (114)
15 cd04658 Piwi_piwi-like_Euk Piw 97.0 0.00034 7.5E-09 74.3 2.5 42 367-408 406-447 (448)
16 PF02171 Piwi: Piwi domain; I 96.2 0.0027 5.9E-08 63.6 2.6 45 367-411 257-301 (302)
17 KOG4849 mRNA cleavage factor I 95.0 0.1 2.2E-06 52.7 8.2 24 14-37 195-218 (498)
18 cd02844 PAZ_CAF_like PAZ domai 92.3 0.042 9.1E-07 48.9 0.2 56 356-416 26-91 (135)
19 cd02843 PAZ_dicer_like PAZ dom 89.4 0.093 2E-06 45.7 -0.4 55 359-416 39-103 (122)
20 KOG0132 RNA polymerase II C-te 88.7 1.1 2.3E-05 49.9 6.8 55 34-88 583-637 (894)
21 KOG2236 Uncharacterized conser 88.5 1.3 2.9E-05 46.5 7.1 15 74-88 456-470 (483)
22 KOG1042 Germ-line stem cell di 87.6 0.33 7.2E-06 52.9 2.2 42 367-408 786-827 (845)
23 PHA03247 large tegument protei 84.9 2 4.4E-05 53.6 7.0 17 15-33 2849-2865(3151)
24 KOG1923 Rac1 GTPase effector F 84.2 3 6.5E-05 46.5 7.4 12 232-243 511-522 (830)
25 PF12300 DUF3628: Protein of u 83.6 3.2 6.9E-05 37.5 6.1 6 14-19 64-69 (180)
26 KOG3973 Uncharacterized conser 81.0 1.4 3.1E-05 44.6 3.2 8 33-40 383-390 (465)
27 PHA03247 large tegument protei 80.9 5.5 0.00012 50.1 8.5 7 137-143 3004-3010(3151)
28 PRK15319 AIDA autotransporter- 79.2 3.2 6.8E-05 50.6 5.7 12 137-148 1782-1793(2039)
29 PTZ00146 fibrillarin; Provisio 74.7 5.1 0.00011 40.4 5.1 15 5-19 6-20 (293)
30 PF05518 Totivirus_coat: Totiv 71.5 22 0.00048 40.0 9.4 11 20-30 674-684 (759)
31 COG5178 PRP8 U5 snRNP spliceos 69.2 3.7 8.1E-05 47.7 2.9 6 284-289 282-287 (2365)
32 KOG1923 Rac1 GTPase effector F 68.0 15 0.00033 41.2 7.2 15 78-92 340-354 (830)
33 PRK15319 AIDA autotransporter- 67.7 9.1 0.0002 46.9 5.8 10 136-145 1765-1774(2039)
34 PF12764 Gly-rich_Ago1: Glycin 63.4 32 0.00068 29.0 6.6 14 100-113 78-91 (104)
35 PRK14959 DNA polymerase III su 61.1 25 0.00054 39.2 7.4 6 34-39 397-402 (624)
36 PF05750 Rubella_Capsid: Rubel 59.2 20 0.00043 33.4 5.3 10 73-82 99-108 (300)
37 KOG0105 Alternative splicing f 58.0 7.5 0.00016 36.4 2.3 11 9-19 86-96 (241)
38 PF12238 MSA-2c: Merozoite sur 57.6 28 0.00061 33.2 6.1 9 42-50 143-151 (205)
39 KOG1830 Wiskott Aldrich syndro 51.2 72 0.0016 33.6 8.2 11 90-100 370-380 (518)
40 cd04659 Piwi_piwi-like_ProArk 50.9 8.1 0.00017 40.5 1.5 41 368-408 360-401 (404)
41 KOG0119 Splicing factor 1/bran 49.3 61 0.0013 34.8 7.5 20 21-40 381-400 (554)
42 KOG2675 Adenylate cyclase-asso 42.8 13 0.00029 39.0 1.6 26 89-114 263-289 (480)
43 KOG0037 Ca2+-binding protein, 42.7 40 0.00087 32.4 4.6 16 89-104 55-70 (221)
44 PRK15313 autotransport protein 42.2 41 0.0009 38.9 5.4 9 140-148 700-708 (955)
45 COG5178 PRP8 U5 snRNP spliceos 40.4 24 0.00052 41.5 3.1 14 200-214 278-291 (2365)
46 KOG2675 Adenylate cyclase-asso 38.9 20 0.00043 37.8 2.1 16 97-112 259-274 (480)
47 KOG1785 Tyrosine kinase negati 36.0 80 0.0017 33.1 5.8 9 42-50 481-489 (563)
48 KOG3293 Small nuclear ribonucl 35.6 31 0.00068 29.9 2.4 8 23-30 110-117 (134)
49 KOG1984 Vesicle coat complex C 33.6 78 0.0017 36.4 5.7 12 280-291 461-474 (1007)
50 KOG2391 Vacuolar sorting prote 32.8 71 0.0015 32.7 4.8 8 48-55 146-153 (365)
51 PRK15313 autotransport protein 31.1 85 0.0018 36.5 5.6 11 137-147 681-691 (955)
52 KOG4761 Proteasome formation i 30.9 1.8E+02 0.004 28.5 7.0 10 47-56 227-236 (266)
53 PRK14950 DNA polymerase III su 30.1 97 0.0021 34.3 5.9 16 134-149 493-508 (585)
54 PHA03264 envelope glycoprotein 30.1 2.1E+02 0.0045 29.9 7.6 17 44-60 318-334 (416)
55 KOG0037 Ca2+-binding protein, 29.5 95 0.0021 29.9 4.8 31 243-276 140-170 (221)
56 PLN00034 mitogen-activated pro 29.4 1.4E+02 0.0031 29.9 6.6 6 126-131 82-87 (353)
57 TIGR01628 PABP-1234 polyadenyl 29.4 1.1E+02 0.0024 33.3 6.2 10 244-253 535-544 (562)
58 KOG1596 Fibrillarin and relate 28.7 54 0.0012 32.3 3.1 13 265-277 224-236 (317)
59 KOG3074 Transcriptional regula 28.2 40 0.00087 32.7 2.1 9 229-237 123-131 (263)
60 KOG0391 SNF2 family DNA-depend 28.0 1.9E+02 0.004 35.0 7.5 40 44-83 1730-1769(1958)
61 PHA03211 serine/threonine kina 27.9 70 0.0015 34.2 4.2 10 43-52 31-40 (461)
62 PRK14954 DNA polymerase III su 27.4 1.2E+02 0.0026 34.0 5.9 14 333-346 590-603 (620)
63 KOG1925 Rac1 GTPase effector F 26.5 88 0.0019 33.8 4.4 8 335-342 514-521 (817)
64 PF01213 CAP_N: Adenylate cycl 26.5 22 0.00047 36.2 0.0 26 89-114 261-287 (312)
65 PF01690 PLRV_ORF5: Potato lea 25.9 53 0.0012 35.1 2.7 9 156-164 100-108 (465)
66 PF11705 RNA_pol_3_Rpc31: DNA- 25.7 1.1E+02 0.0025 29.5 4.8 9 89-97 50-58 (233)
67 KOG3262 H/ACA small nucleolar 24.9 61 0.0013 30.4 2.6 10 154-163 101-110 (215)
68 PF05518 Totivirus_coat: Totiv 24.8 3.7E+02 0.008 30.7 9.0 7 44-50 684-690 (759)
69 COG3941 Mu-like prophage prote 24.6 94 0.002 34.1 4.3 21 30-50 429-449 (633)
70 KOG4849 mRNA cleavage factor I 23.0 3.1E+02 0.0068 28.3 7.3 13 7-19 192-204 (498)
71 PLN03138 Protein TOC75; Provis 23.0 60 0.0013 37.2 2.6 12 232-243 343-354 (796)
72 PRK10864 putative methyltransf 22.8 2.1E+02 0.0046 29.5 6.4 10 380-389 293-302 (346)
73 PF12300 DUF3628: Protein of u 22.8 3E+02 0.0064 25.2 6.4 6 12-17 65-70 (180)
74 PHA03356 tegument protein UL11 22.7 1.3E+02 0.0027 24.5 3.6 16 34-50 57-72 (93)
75 PF04834 Adeno_E3_14_5: Early 22.6 80 0.0017 26.5 2.6 10 30-39 47-56 (97)
76 PRK09010 single-stranded DNA-b 22.5 1.8E+02 0.0039 27.1 5.3 7 34-40 135-141 (177)
77 KOG3915 Transcription regulato 22.3 3.2E+02 0.007 29.3 7.5 10 335-344 503-512 (641)
78 PRK10263 DNA translocase FtsK; 21.5 1.6E+02 0.0034 35.8 5.6 15 151-165 913-927 (1355)
79 PF01690 PLRV_ORF5: Potato lea 21.4 78 0.0017 33.8 2.9 10 137-146 103-112 (465)
80 PF07462 MSP1_C: Merozoite sur 20.6 2.2E+02 0.0049 31.1 6.1 10 153-162 369-378 (574)
81 KOG1456 Heterogeneous nuclear 20.6 99 0.0021 32.2 3.3 17 124-141 110-126 (494)
82 KOG1984 Vesicle coat complex C 20.5 5E+02 0.011 30.3 8.9 9 138-146 272-280 (1007)
83 PF15359 CDV3: Carnitine defic 20.3 5.7E+02 0.012 22.6 7.7 10 89-98 115-124 (129)
No 1
>PLN03202 protein argonaute; Provisional
Probab=100.00 E-value=7.9e-43 Score=391.97 Aligned_cols=278 Identities=24% Similarity=0.404 Sum_probs=217.4
Q ss_pred cccCCCCCCCCCcceeEEEEeeEEEeeec-CCceeEEeEEEEecCCCCCCCCcccccHHHHHHHHHHHHhhCCCCCCCCc
Q 012649 121 TPIKRPDGGGTLAIRTVNIFVNHFPVNFT-PESTIRHYDIDVKPDIGPNHGRPVKLSKTVLAIVRNKLCEDYPDQFPLSM 199 (459)
Q Consensus 121 ~p~~RP~~Gt~~~G~~V~L~tN~F~l~~~-p~~~iy~YdV~i~p~~~~k~g~~~kl~r~i~~~i~~~Ll~~~~~~f~~~~ 199 (459)
.+++|||||+. |++|+|+||||+|++. +++.||||||+|+|+.+.. ...+++++.++. +++++....+.+..
T Consensus 32 ~~~~RPg~Gt~--G~~i~l~aN~f~v~~~~~~~~ly~Y~V~i~p~~~~~-~~~~~~~~~i~~----~~~~~~~~~~~~~~ 104 (900)
T PLN03202 32 LPMARRGFGSK--GQKIQLLTNHFKVSVNNPDGHFFHYSVSLTYEDGRP-VDGKGIGRKVID----KVQETYSSDLAGKD 104 (900)
T ss_pred ccCCCCCCCCC--CCEEEEEeeEEEEeccCCCCcEEEEEEEeccCCCCc-ccchhhhHHHHH----HHHHhhHHhhCCCc
Confidence 56689999998 9999999999999975 5788999999999754211 001144455444 34433322344557
Q ss_pred eEEcCCceEEeCccCCCc--eeEEEeccCC--------------------------CCceeEEEEEEEEeeeechHHHHH
Q 012649 200 TAYDGEKNIFSAIELPTG--KFNVEFPEGE--------------------------DMKYRTYVFTIKLVNELKLCKLKE 251 (459)
Q Consensus 200 ~ayDG~~~LyS~~~Lp~~--~~~V~l~~~~--------------------------~~~~~~~~V~Ik~~~~i~l~~L~~ 251 (459)
+||||+++|||+.+|+.+ ++.|++...+ ..+.+.|+|+|+++++|++++|.+
T Consensus 105 ~~~Dg~~~l~s~~~L~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~i~~~~L~~ 184 (900)
T PLN03202 105 FAYDGEKSLFTVGALPQNKLEFTVVLEDVSSNRNNGNGSPVGNGSPNGGDRKRSRRPYQSKTFKVEISFAAKIPMQAIAN 184 (900)
T ss_pred eeecCccceEECccCCCCCceEEEEecccccccccccccccccCCccccccccccccCCCceEEEEEEEccccCHHHHHH
Confidence 999999999999999854 4556553210 013578999999999999999999
Q ss_pred HhcCCCCCCChhhHHHHHHHHhcCCCC-cceecccccccCCCCCCCCCCCceEEeecceeeeeecccceEEEeeeeecee
Q 012649 252 YLTGSLFSIPRDILQGMDVVMKENPSR-RMISVGRSFHPVEPFPDDDLGYGLTASRGFQHGLKATSQGLALCLDYSVLAF 330 (459)
Q Consensus 252 ~l~g~~~~~~~~~iq~LnIIlr~~~~~-~~~~vGRsfF~~~~~~~~~l~~GlE~w~Gf~~SVR~~~ggL~LNvDvs~~~F 330 (459)
||.+.....+.++||+||||||+.++. +++.+||+||........+++.|+|+|+||++|||+++++|+||+|++|++|
T Consensus 185 ~l~~~~~~~~~~~iq~lnivlr~~~~~~~~~~~gr~ff~~~~~~~~~l~~gle~~~G~~~Svr~~~~~l~LnvDvs~~~F 264 (900)
T PLN03202 185 ALRGQESENSQDALRVLDIILRQHAAKQGCLLVRQSFFHNDPKNFVDLGGGVLGCRGFHSSFRTTQGGLSLNIDVSTTMI 264 (900)
T ss_pred HHcCCCCCCcHHHHHHHHHHHhhhhhhCCCceeccccCCCCCcccccCCCceEEeeeeeeEeeeccCceEEeeeeeeeee
Confidence 999988778899999999999999984 5899999999866434557899999999999999999999999999999999
Q ss_pred ecCccHHHHHHHHhccCCCCCccHHHHHHHHhccccccccchhhhhhhcc---------cccccCC----------Ccce
Q 012649 331 RKRLPVIDFLQEHINFDVNGFRDWRKVENALKGLKHGFTSDQLQKLIYNM---------CFTFARC----------TKPV 391 (459)
Q Consensus 331 ~~~~~lld~i~e~~~~~~~~~~~~~~l~k~LkGl~v~~t~d~~~~lt~~l---------~~~f~r~----------t~~v 391 (459)
+++++|+|+|.++.+.......++.+++++|+|++|.++|. +.+|++ ..+|... ++.|
T Consensus 265 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~lkGl~V~t~~~---~k~yrI~~i~~~~a~~~~F~~~~~~~~~~~~~~~~i 341 (900)
T PLN03202 265 VQPGPVVDFLIANQNVRDPFQIDWSKAKRMLKNLRVKVSPS---NQEYKITGLSEKPCKEQTFSLKQRNGNGNEVETVEI 341 (900)
T ss_pred ecCCcHHHHHHHhcCcCCccchhHHHHHHHhcCCEEEEecC---CceEEEeeccCCCCcceEEEcccCCcccccCCcceE
Confidence 99999999999986543221235778999999999998884 234432 2345422 3589
Q ss_pred ecchhhhhHHHHHHHhhhh
Q 012649 392 SLVPPVYYADLVAYRGRLY 410 (459)
Q Consensus 392 Sv~~p~Yya~~y~~r~r~~ 410 (459)
||. +||+.+|++++++.
T Consensus 342 Sv~--dYfk~~Yni~l~~p 358 (900)
T PLN03202 342 TVY--DYFVKHRGIELRYS 358 (900)
T ss_pred EHH--HHHHHHcCccccCC
Confidence 999 99999999999963
No 2
>KOG1042 consensus Germ-line stem cell division protein Hiwi/Piwi; negative developmental regulator [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.3e-40 Score=340.68 Aligned_cols=244 Identities=18% Similarity=0.277 Sum_probs=211.2
Q ss_pred CCCCCCcceeEEEEeeEEEeeecCCceeEEeEEEEecCCCCCCCCcccccHHHHHHHHHHHHhhCCCCCCCCceEEcCCc
Q 012649 127 DGGGTLAIRTVNIFVNHFPVNFTPESTIRHYDIDVKPDIGPNHGRPVKLSKTVLAIVRNKLCEDYPDQFPLSMTAYDGEK 206 (459)
Q Consensus 127 ~~Gt~~~G~~V~L~tN~F~l~~~p~~~iy~YdV~i~p~~~~k~g~~~kl~r~i~~~i~~~Ll~~~~~~f~~~~~ayDG~~ 206 (459)
..|++ |.+|+|.||||++...|+|.||||+|+|+|+++++ + ++.++|.+|.+.+ |..++|||.
T Consensus 87 KtGss--G~pv~l~tN~f~l~t~p~w~iyqYhVef~P~ves~-----r--------lR~~~L~~h~~li-g~~~~FDG~- 149 (845)
T KOG1042|consen 87 KTGSS--GIPVKLQTNFFRLMTRPDWSIYQYHVEFEPDVESR-----R--------LREALLYNHTDLI-GKGYAFDGT- 149 (845)
T ss_pred ccCCC--CceEEEEeceeeeccCCCcEEEEEEEeeccccccH-----H--------HHHHHHHHhHhhh-ccceeecce-
Confidence 47887 99999999999999999999999999999999875 3 4556777776666 678999995
Q ss_pred eEEeCccCCCceeEEEeccCCCCceeEEEEEEEEeeeechHHHHHHhcCCCCCCChhhHHHHHHHHhcCCC-Ccceeccc
Q 012649 207 NIFSAIELPTGKFNVEFPEGEDMKYRTYVFTIKLVNELKLCKLKEYLTGSLFSIPRDILQGMDVVMKENPS-RRMISVGR 285 (459)
Q Consensus 207 ~LyS~~~Lp~~~~~V~l~~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~~iq~LnIIlr~~~~-~~~~~vGR 285 (459)
+||..++|+++..++ .....++..++|+|++++++..+ ++++||+||+|||+.++ +++.+|||
T Consensus 150 iLfl~~k~eq~~tel---~~ks~~ge~i~I~ik~~~~~~~t-------------~p~~iqv~NlI~RR~~k~L~L~qigR 213 (845)
T KOG1042|consen 150 ILFLKEKFEQKQTEL---VSKSRDGELIKITIKLTNELPST-------------DPQCIQVFNLILRRSMKGLNLTQIGR 213 (845)
T ss_pred eehhhHHHhhhhhee---ecccCCCceEEEEEEEeccccCC-------------ChhHHHHHHHHHHHHHhhccHHHhhh
Confidence 899999998763222 23345788999999999998865 68999999999999999 89999999
Q ss_pred ccccCCCCCCCCC-CCceEEeecceeeeeecccceEEEeeeeeceeecCccHHHHHHHHhccCCCCCccHHHHHHHHhcc
Q 012649 286 SFHPVEPFPDDDL-GYGLTASRGFQHGLKATSQGLALCLDYSVLAFRKRLPVIDFLQEHINFDVNGFRDWRKVENALKGL 364 (459)
Q Consensus 286 sfF~~~~~~~~~l-~~GlE~w~Gf~~SVR~~~ggL~LNvDvs~~~F~~~~~lld~i~e~~~~~~~~~~~~~~l~k~LkGl 364 (459)
|||++.+ +++| ++.+++|+||-+|||.+|..++||+|++||+++ ..||+|+|.++.+.. .+..+++++++.|+
T Consensus 214 nyynp~~--~i~ip~~km~lwPGy~tSIrq~E~~illctei~hKvmR-~ETvy~~m~~~~~~~---~~~qe~~~~~~~gl 287 (845)
T KOG1042|consen 214 NYYDPRA--KIEIPEFKMSLWPGYETSIRQHENDILLCTEISHKVMR-TETVYDIMRSCQHNT---QRFQETVNKNVIGL 287 (845)
T ss_pred ccCCCCc--ccccccccceecCcchhHHHHhhhceeeehhhhhhHhh-hhHHHHHHHHHhhCH---HHHHHHHHHHhcce
Confidence 9999986 7888 899999999999999999999999999999999 579999999987542 23567999999999
Q ss_pred ccccccchhhhhhhc---------ccccccCCCcceecchhhhhHHHHHHHhhhhhhhh
Q 012649 365 KHGFTSDQLQKLIYN---------MCFTFARCTKPVSLVPPVYYADLVAYRGRLYHEAV 414 (459)
Q Consensus 365 ~v~~t~d~~~~lt~~---------l~~~f~r~t~~vSv~~p~Yya~~y~~r~r~~~~~~ 414 (459)
.|.+.| ++.||+ ..++|.+++++||++ +||+++|||+|++..|+.
T Consensus 288 ivLT~Y---NNktyriddvD~~~tP~stF~k~dgeIs~v--eYyk~qYni~I~dl~QPl 341 (845)
T KOG1042|consen 288 IVLTRY---NNKTYRIDDVDFSQTPLSTFKKDDGEISFV--EYYKKQYNIEITDLNQPL 341 (845)
T ss_pred EEEEec---CCceeeeeccccCcCccceeeecCceeeHh--HHHHHhcCeEEeeCCcce
Confidence 997777 566664 457899999999999 999999999999999986
No 3
>KOG1041 consensus Translation initiation factor 2C (eIF-2C) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=2.9e-25 Score=248.65 Aligned_cols=280 Identities=25% Similarity=0.418 Sum_probs=208.1
Q ss_pred ccccCCCCCCCCCcceeEEEEeeEEEeeec-CCce-eEEeEEEEecCCCCCCCCcccccHHHHHHHHHHHHhh-CCCCCC
Q 012649 120 YTPIKRPDGGGTLAIRTVNIFVNHFPVNFT-PEST-IRHYDIDVKPDIGPNHGRPVKLSKTVLAIVRNKLCED-YPDQFP 196 (459)
Q Consensus 120 ~~p~~RP~~Gt~~~G~~V~L~tN~F~l~~~-p~~~-iy~YdV~i~p~~~~k~g~~~kl~r~i~~~i~~~Ll~~-~~~~f~ 196 (459)
..++.||+.|+. |++|.|.+|||.++++ ++.. +++|+|++.++..++ ++++.+ ++..+... ....|.
T Consensus 43 ~~~~~rp~~~~~--g~~i~~~~n~f~~~~~~~~~~~~~~y~v~~~~~~~~~-----~~~~~~---~~~~~~~~~~~~~~~ 112 (876)
T KOG1041|consen 43 RFPMNRPGGGTK--GKKIMVLVNHFKVDLKFTEESLFVHYSVGIFNEHGRR-----KVQCLR---FFLDKVKNPELFELK 112 (876)
T ss_pred cccccCCCCCcc--ceEEEEeeeEEEeccccCCcceEEEeeeeecCCCCch-----HHHHHH---HHHHHHhcccccccc
Confidence 357789999966 9999999999998775 3444 999999999887665 444321 22222211 112245
Q ss_pred CCceEEcCCceEEeCccCCC--ceeEEEeccCCCCceeEEEEEEEEeeeechHHHHHHhcCCCCCCChhhHHHHHHHHhc
Q 012649 197 LSMTAYDGEKNIFSAIELPT--GKFNVEFPEGEDMKYRTYVFTIKLVNELKLCKLKEYLTGSLFSIPRDILQGMDVVMKE 274 (459)
Q Consensus 197 ~~~~ayDG~~~LyS~~~Lp~--~~~~V~l~~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~~iq~LnIIlr~ 274 (459)
...++|||+++|||...|++ .++.+......+ ...++++|+++.++.+..+..++.+.....+.+++|++++++++
T Consensus 113 ~~~~~YDg~~~lyt~~~~~~~~~~~~~~~~~~~~--~~~~~~~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~ 190 (876)
T KOG1041|consen 113 SGGPAYDGQKTLYTKLELPEGVVTLDFDVISPKE--WKKFKVSIKKVSEVVLTKLNGFIYTRGENAPRDANQTLDVVLRE 190 (876)
T ss_pred CCcccccCCceeEeccccccccceEEEEecCCCC--CcceEEEEEecccccccCccccccCccccCchhHHHHHHHHHHh
Confidence 55667999999999777873 333333322222 22299999999998888888888887767789999999999999
Q ss_pred CCCCc-ceecccccccCCCCCCCCCCCceEEeecceeeeeecccceEEEeeeeeceeecCccHHHHHHHHhccCCCC-Cc
Q 012649 275 NPSRR-MISVGRSFHPVEPFPDDDLGYGLTASRGFQHGLKATSQGLALCLDYSVLAFRKRLPVIDFLQEHINFDVNG-FR 352 (459)
Q Consensus 275 ~~~~~-~~~vGRsfF~~~~~~~~~l~~GlE~w~Gf~~SVR~~~ggL~LNvDvs~~~F~~~~~lld~i~e~~~~~~~~-~~ 352 (459)
.+... +..+|++||.....+...++.|.|+|.||++|+|+++++++||+|+++++|+++.+|+++++++++...+. ..
T Consensus 191 ~~s~~~~~~~~~sff~~~~~~~~~l~~g~e~~~Gf~~s~r~~~~~~~l~id~~~~~F~k~~~~~~~l~~~~~~~~~~~~~ 270 (876)
T KOG1041|consen 191 IATSQGLNNVGYSFFGNDTREPAKLGGGVEIWEGFHKSIRPTQGGLSLNIDVKTTAFYKGTPVIEFLKKILEIKTRAFHK 270 (876)
T ss_pred hhchhcccccchheecCCCCCccccCCCceeeeeeeeeeeeccCceEEeeeeeeeeeecCcchHHHHHhhhcCccccccc
Confidence 99965 99999999986322344589999999999999999999999999999999999999999999998775321 11
Q ss_pred cH-HHHHHHHhccccccccchhhhhhhc-----------ccccccCC-CcceecchhhhhHHHHHHHhhhhhhhh
Q 012649 353 DW-RKVENALKGLKHGFTSDQLQKLIYN-----------MCFTFARC-TKPVSLVPPVYYADLVAYRGRLYHEAV 414 (459)
Q Consensus 353 ~~-~~l~k~LkGl~v~~t~d~~~~lt~~-----------l~~~f~r~-t~~vSv~~p~Yya~~y~~r~r~~~~~~ 414 (459)
++ ..++++||||+|..+|.... ..|+ ++|..... ++.+||+ +||+++|+++++.-+.+.
T Consensus 271 ~~~~~~~~~lkgL~v~~~h~~~~-r~~~i~~l~~~~a~~~~F~l~~~~~~~~tV~--~Yf~~ky~~~Lkyp~LPc 342 (876)
T KOG1041|consen 271 DRPLDIKKALKGLKVYVTHGKRK-RKIKIMGLSKKPAKNTTFELKDKKGREITVA--DYFLEKYNITLKYPDLPC 342 (876)
T ss_pred ccchhHHHHhhCcEEEEecccCc-ceEEEecccCCcccCceeeccCCCceEEeHH--HHHHHhcCccccCCCCcc
Confidence 22 34999999999999983211 1122 22222221 4778999 999999999999776654
No 4
>PF08699 DUF1785: Domain of unknown function (DUF1785); InterPro: IPR014811 This region is found in argonaute [] proteins and often co-occurs with IPR003103 from INTERPRO and IPR003165 from INTERPRO. ; PDB: 1R6Z_P 3MJ0_A 4EI1_A 4F3T_A 4EI3_A 1R4K_A.
Probab=99.61 E-value=2.2e-16 Score=116.90 Aligned_cols=52 Identities=46% Similarity=0.580 Sum_probs=42.2
Q ss_pred eecccccccCCCCCCCCCCCceEEeecceeeeeecccceEEEeeeeeceeecC
Q 012649 281 ISVGRSFHPVEPFPDDDLGYGLTASRGFQHGLKATSQGLALCLDYSVLAFRKR 333 (459)
Q Consensus 281 ~~vGRsfF~~~~~~~~~l~~GlE~w~Gf~~SVR~~~ggL~LNvDvs~~~F~~~ 333 (459)
+.+||+||+++.. ..+|++|+|+|+|||+|||+++++|+||||+++++|+++
T Consensus 1 ~~vgrsFF~~~~~-~~~l~~Gle~~rG~~qSvRp~~~~l~lNvDvs~~aF~~p 52 (52)
T PF08699_consen 1 TAVGRSFFPPSGG-PVDLGGGLEAWRGFFQSVRPTQGGLLLNVDVSHTAFYKP 52 (52)
T ss_dssp EEETTEEEE-------EEETTEEEEEEEEEEEEEETTEEEEEEECCEECCC--
T ss_pred CccccccCCCCCC-CccCCCcEEEeEeEEeeeEEcCCCCEEEEeCceeeEECc
Confidence 4689999998753 368899999999999999999999999999999999974
No 5
>PLN03202 protein argonaute; Provisional
Probab=99.21 E-value=6.7e-12 Score=142.45 Aligned_cols=85 Identities=29% Similarity=0.491 Sum_probs=62.7
Q ss_pred ccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhhhhhhhhhcCCCCCCcccCCCCCCcCCCCCCchhhhhhh
Q 012649 367 GFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGRLYHEAVMEGQSPASVSSSSSSLTSTSLSSDASFDERFY 446 (459)
Q Consensus 367 ~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (459)
+++.|.+|+|||+|||+|.+++++||+++|+||||+.|.|+|+|++. +..++ ++++ ++++++ ........+.
T Consensus 816 ~~~~d~lq~lty~lc~~y~~~t~~VsvpaP~yYAhlla~r~r~~l~~--~~~~~-~~~~--~~~~~~---~~~~~~~~~~ 887 (900)
T PLN03202 816 GFSADDLQELVHSLSYVYQRSTTAISVVAPVCYAHLAAAQMGQFMKF--EDMSE-TSSS--HGGITS---AGAVPVPELP 887 (900)
T ss_pred CCCHHHHHHHHHHHhhhhcccCCceecchhHHHHHHHHHHhhhhccc--cCCcc-cccc--ccccCC---CCcccccccc
Confidence 56678899999999999999999999999999999999999999973 32211 1111 111111 1111123568
Q ss_pred hhhhhcccCceeC
Q 012649 447 KLHTDLENMMYFV 459 (459)
Q Consensus 447 ~vh~~~~~~M~~~ 459 (459)
.||++++++||||
T Consensus 888 ~~h~~~~~~Mfy~ 900 (900)
T PLN03202 888 RLHENVASSMFFC 900 (900)
T ss_pred ccchhhcCCeeeC
Confidence 8999999999997
No 6
>KOG1041 consensus Translation initiation factor 2C (eIF-2C) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=98.45 E-value=1.3e-07 Score=107.25 Aligned_cols=87 Identities=43% Similarity=0.586 Sum_probs=62.8
Q ss_pred cccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhhhhhhhhhcCCCCCCcccCCCCCCcCCCCCCchhhhhh
Q 012649 366 HGFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGRLYHEAVMEGQSPASVSSSSSSLTSTSLSSDASFDERF 445 (459)
Q Consensus 366 v~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 445 (459)
.+++.|++|+|||.|||+|.+|+++||+++|.|||++|+.|+|.+... -+..+. .+ . +..+. ...+....+.+
T Consensus 790 ~~~~~d~lq~lt~~Lc~~~qr~t~pvSiP~P~YyA~~~A~Rgr~~~~~-~~~~~~---~~-~-~~~s~-~~~~~~~~~~~ 862 (876)
T KOG1041|consen 790 IGFSKDELQKLTYALCFTHQRCTKPVSLPAPLYYAHEVAKRGRNNYKE-HLREKN---SS-A-IYQSI-VDLDALNSEEG 862 (876)
T ss_pred CCCCHHHHHHHHHHHhhheeeecCCCcCCchHHHHHHHHHHhhhhhhh-hccccC---CC-c-ccccc-cccchhhhhhH
Confidence 357888999999999999999999999999999999999999987211 111111 11 0 11111 12233334568
Q ss_pred hhhhhhcccCceeC
Q 012649 446 YKLHTDLENMMYFV 459 (459)
Q Consensus 446 ~~vh~~~~~~M~~~ 459 (459)
.++|.++.++|||+
T Consensus 863 ~~~~~~~~~~~f~a 876 (876)
T KOG1041|consen 863 YKEKAGLFGTRFNA 876 (876)
T ss_pred HHhhhcccceEEeC
Confidence 99999999999996
No 7
>cd04657 Piwi_ago-like Piwi_ago-like: PIWI domain, Argonaute-like subfamily. Argonaute is the central component of the RNA-induced silencing complex (RISC) and related complexes. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing.
Probab=97.89 E-value=5.5e-06 Score=87.40 Aligned_cols=46 Identities=59% Similarity=1.110 Sum_probs=43.2
Q ss_pred cccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhhhhh
Q 012649 366 HGFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGRLYH 411 (459)
Q Consensus 366 v~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r~~~ 411 (459)
.+++.|++|+|||+|||.|.+++++||+++|.||||++|.|+|+|+
T Consensus 381 ~~~~~d~lq~lt~~lc~~y~~~~~~vsip~p~~yA~~la~r~r~~~ 426 (426)
T cd04657 381 IGFTADELQTLTYNLCYTYARCTRSVSIPPPAYYAHLAAARARCYL 426 (426)
T ss_pred CCCCHHHHHHHHHHHhhcccccCCCcccchHHHHHHHHHHHHhhcC
Confidence 3577899999999999999999999999999999999999999985
No 8
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=97.65 E-value=0.0002 Score=77.96 Aligned_cols=31 Identities=19% Similarity=0.155 Sum_probs=23.2
Q ss_pred CCcccccCCCCCCCCCcceeEEEEeeEEEeeecC
Q 012649 117 AARYTPIKRPDGGGTLAIRTVNIFVNHFPVNFTP 150 (459)
Q Consensus 117 ~~~~~p~~RP~~Gt~~~G~~V~L~tN~F~l~~~p 150 (459)
.+...|++|..-+. =.+-.+.-|+|=+.++.
T Consensus 620 ~k~e~~Mrr~nW~k---I~p~d~s~~cFWvkv~E 650 (1102)
T KOG1924|consen 620 YKPEVPMRRFNWSK---IVPRDLSENCFWVKVNE 650 (1102)
T ss_pred CCCCCccccCCccc---cCccccCccceeeecch
Confidence 33457888998874 35778899999998864
No 9
>cd02825 PAZ PAZ domain, named PAZ after the proteins Piwi Argonaut and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the piwi and Dicer families. PAZ functions as a nucleic-acid binding domain, with a strong preference for single-stranded nucleic acids (RNA or DNA) or RNA duplexes with single-stranded 3' overhangs. It has been suggested that the PAZ domain provides a unique mode for the recognition of the two 3'-terminal nucleotides in single-stranded nucleic acids and buries the 3' OH group, and that it might recognize characteristic 3' overhangs in siRNAs within RISC (RNA-induced silencing) and other complexes. This parent model also contains structures of an archaeal PAZ domain.
Probab=97.46 E-value=6.1e-05 Score=65.09 Aligned_cols=80 Identities=16% Similarity=0.105 Sum_probs=58.1
Q ss_pred ccHHHHHHHHhccCCC----CCccHHHHHHHHhccccccccchhhhhhhcccc--------cc-cCCCcceecchhhhhH
Q 012649 334 LPVIDFLQEHINFDVN----GFRDWRKVENALKGLKHGFTSDQLQKLIYNMCF--------TF-ARCTKPVSLVPPVYYA 400 (459)
Q Consensus 334 ~~lld~i~e~~~~~~~----~~~~~~~l~k~LkGl~v~~t~d~~~~lt~~l~~--------~f-~r~t~~vSv~~p~Yya 400 (459)
++|+|+++++++.+.. ...++.++.++|+|++|..+|... +.+|.++. .| ...++.|||+ +||+
T Consensus 2 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~lkg~~V~~~h~~~-~r~y~i~~i~~~~a~~~f~~~~~~~isv~--dYf~ 78 (115)
T cd02825 2 DPVIETMCKFPKDREIDTPLLDSPREEFTKELKGLKVEDTHNPL-NRVYRPDGETRLKAPSQLKHSDGKEITFA--DYFK 78 (115)
T ss_pred ccHHHHHHHHhcccccccccchHHHHHHHHHcCCCEEEEecCCC-ceEEEEeeEECCCChhheecCCCCEEEHH--HHHH
Confidence 6899999999865321 123567899999999999888532 23343211 14 3456789999 9999
Q ss_pred HHHHHHhhhhhhhhhc
Q 012649 401 DLVAYRGRLYHEAVME 416 (459)
Q Consensus 401 ~~y~~r~r~~~~~~~~ 416 (459)
.+|++++++..++...
T Consensus 79 ~kY~~~l~~p~~Pll~ 94 (115)
T cd02825 79 ERYNLTLTDLNQPLLI 94 (115)
T ss_pred HHcCCcccCCCCCEEE
Confidence 9999999998887654
No 10
>PF02170 PAZ: PAZ domain; InterPro: IPR003100 This domain is named after the proteins Piwi Argonaut and Zwille. It is also found in the CAF protein from Arabidopsis thaliana. The function of the domain is unknown but has been found in the middle region of a number of members of the Argonaute protein family, which also contain the Piwi domain (IPR003165 from INTERPRO) in their C-terminal region []. Several members of this family have been implicated in the development and maintenance of stem cells through the RNA-mediated gene-quelling mechanisms associated with the protein DICER. ; GO: 0005515 protein binding; PDB: 1R6Z_P 1T2R_A 1T2S_A 3MJ0_A 1VYN_A 3O3I_X 2L5C_A 3O6E_X 3O7V_X 2L5D_A ....
Probab=97.43 E-value=2.5e-05 Score=69.21 Aligned_cols=80 Identities=28% Similarity=0.319 Sum_probs=55.7
Q ss_pred ccHHHHHHHHhccCCCCCc-cHHHHHHHHhccccccccchhhhhhhc---------ccccccCC-CcceecchhhhhHHH
Q 012649 334 LPVIDFLQEHINFDVNGFR-DWRKVENALKGLKHGFTSDQLQKLIYN---------MCFTFARC-TKPVSLVPPVYYADL 402 (459)
Q Consensus 334 ~~lld~i~e~~~~~~~~~~-~~~~l~k~LkGl~v~~t~d~~~~lt~~---------l~~~f~r~-t~~vSv~~p~Yya~~ 402 (459)
++|+|+|.++.+.+..... ...+++++|+|++|.++|.... .+|. ...+|... ++.|||. +||+++
T Consensus 1 ~~vld~~~~~~~~~~~~~~~~~~~~~~~lkg~~V~~~~~~~~-r~~~I~~i~~~~~~~~~F~~~~g~~itv~--eYf~~~ 77 (135)
T PF02170_consen 1 QSVLDFLKEIQNFRQRNNIKFQKKLERALKGLKVTTTYNNNK-RTYKIKGISFDPAPESTFPDNDGKEITVA--EYFKEK 77 (135)
T ss_dssp HHHHHHHHHHCTCSSHHHHHHHHHHHHHHTTEEEEETTTTCC-EEEEEEEEEEEETTTSEEEETTSEEEEHH--HHHHHT
T ss_pred CcHHHHHHHHHhhhcccchHHHHHHHHHcCCcEEEEecCCCc-eEEEEeEEECCCCcceeeecCCCceEEhH--HHHHhh
Confidence 4799999999876442111 2245999999999998885411 2221 23457766 8899999 999999
Q ss_pred HHHHhhhhhhhhhc
Q 012649 403 VAYRGRLYHEAVME 416 (459)
Q Consensus 403 y~~r~r~~~~~~~~ 416 (459)
|+++|++..++...
T Consensus 78 Y~i~L~~p~~Pll~ 91 (135)
T PF02170_consen 78 YNIRLKYPDLPLLN 91 (135)
T ss_dssp CT---SSTTSEEEE
T ss_pred hhcccccCCCCeEE
Confidence 99999988887654
No 11
>cd02845 PAZ_piwi_like PAZ domain, Piwi_like subfamily. In multi-cellular organisms, the Piwi protein appears to be essential for the maintenance of germline stem cells. In the Drosophila male germline, Piwi was shown to be involved in the silencing of retrotransposons in the male gametes. The Piwi proteins share their domain architecture with other members of the argonaute family. The PAZ domain has been named after the proteins Piwi, Argonaut, and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the Piwi and Dicer families. PAZ functions as a nucleic acid binding domain, with a strong preference for single-stranded nucleic acids (RNA or DNA) or RNA duplexes with single-stranded 3' overhangs. It has been suggested that the PAZ domain provides a unique mode for the recognition of the two 3'-terminal nucleotides in single-stranded nucleic acids and buries the 3' OH group, and that it might
Probab=97.33 E-value=8.3e-05 Score=64.54 Aligned_cols=77 Identities=16% Similarity=0.183 Sum_probs=59.0
Q ss_pred ccHHHHHHHHhccCCCCCccHHHHHHHHhccccccccchhhhhhhcc---------cccccCCC-cceecchhhhhHHHH
Q 012649 334 LPVIDFLQEHINFDVNGFRDWRKVENALKGLKHGFTSDQLQKLIYNM---------CFTFARCT-KPVSLVPPVYYADLV 403 (459)
Q Consensus 334 ~~lld~i~e~~~~~~~~~~~~~~l~k~LkGl~v~~t~d~~~~lt~~l---------~~~f~r~t-~~vSv~~p~Yya~~y 403 (459)
.+|+|++.++++.... ...+++++++|+|++|..+|. +.+|.+ ..+|...+ ..+||+ +||+++|
T Consensus 2 ~~~~~~~~~~~~~~~~-~~~~~~~~~~l~g~~V~t~yn---~k~Y~I~~I~~~~~p~s~F~~~~~~~~S~~--~Yy~~kY 75 (117)
T cd02845 2 TTVLDRMHKLYRQETD-ERFREECEKELIGSIVLTRYN---NKTYRIDDIDFDKTPLSTFKKSDGTEITFV--EYYKKQY 75 (117)
T ss_pred eeHHHHHHHHHHhccc-HHHHHHHHHHcCCCEEEEeeC---CeEEEEeEecCCCCccccCcCCCCCeeeHH--HHHHHHc
Confidence 4789999998876421 135789999999999988883 444432 34576554 479999 9999999
Q ss_pred HHHhhhhhhhhhc
Q 012649 404 AYRGRLYHEAVME 416 (459)
Q Consensus 404 ~~r~r~~~~~~~~ 416 (459)
+++|++-.|+.+.
T Consensus 76 ~i~I~~~~qPLL~ 88 (117)
T cd02845 76 NIEITDLNQPLLV 88 (117)
T ss_pred CCccccCCCCcEE
Confidence 9999998888755
No 12
>cd02826 Piwi-like Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The central component of the RNA-induced silencing complex (RISC) and related complexes is Argonaute. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing. This domain is also found in closely related proteins, including the Piwi subfamily, where it is believed to perform a crucial role in germline cells, via a similar mechanism.
Probab=97.30 E-value=0.00012 Score=76.60 Aligned_cols=42 Identities=38% Similarity=0.758 Sum_probs=39.8
Q ss_pred ccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhh
Q 012649 367 GFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGR 408 (459)
Q Consensus 367 ~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r 408 (459)
+++.|.+|.+||.|||+|.+++++||+++|.||||++|.|+|
T Consensus 351 ~~~~d~lq~lty~lc~~y~~~~~~vslP~p~~yA~~~a~r~r 392 (393)
T cd02826 351 NWSLNELEILTYILCLTHQNVYSPISLPAPLYYAHKLAKRGR 392 (393)
T ss_pred CCCHHHHHHHHHHHhhcccccCCCcccChHHHHHHHHHHhhc
Confidence 467889999999999999999999999999999999999987
No 13
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=97.24 E-value=0.00055 Score=74.61 Aligned_cols=21 Identities=29% Similarity=0.515 Sum_probs=15.9
Q ss_pred ccCCCcceecchhhhhHHHHHHH
Q 012649 384 FARCTKPVSLVPPVYYADLVAYR 406 (459)
Q Consensus 384 f~r~t~~vSv~~p~Yya~~y~~r 406 (459)
|.-+.+.+|+- +||+|+-+++
T Consensus 966 yaFd~kkysmE--EFFaDi~tFr 986 (1102)
T KOG1924|consen 966 YAFDPKKYSME--EFFADIRTFR 986 (1102)
T ss_pred eecCcccCcHH--HHHHHHHHHH
Confidence 44455677888 9999998874
No 14
>cd02846 PAZ_argonaute_like PAZ domain, argonaute_like subfamily. Argonaute is part of the RNA-induced silencing complex (RISC), and is an endonuclease that plays a key role in the RNA interference pathway. The PAZ domain has been named after the proteins Piwi,Argonaut, and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the Piwi and Dicer families. PAZ functions as a nucleic acid binding domain, with a strong preference for single-stranded nucleic acids (RNA or DNA) or RNA duplexes with single-stranded 3' overhangs. It has been suggested that the PAZ domain provides a unique mode for the recognition of the two 3'-terminal nucleotides in single-stranded nucleic acids and buries the 3' OH group, and that it might recognize characteristic 3' overhangs in siRNAs within RISC (RNA-induced silencing) and other complexes.
Probab=97.22 E-value=0.00017 Score=61.92 Aligned_cols=80 Identities=31% Similarity=0.407 Sum_probs=57.2
Q ss_pred ccHHHHHHHHhccCCC---CCccHHHHHHHHhccccccccchhhhhhhc-------c--cccccCCC--cceecchhhhh
Q 012649 334 LPVIDFLQEHINFDVN---GFRDWRKVENALKGLKHGFTSDQLQKLIYN-------M--CFTFARCT--KPVSLVPPVYY 399 (459)
Q Consensus 334 ~~lld~i~e~~~~~~~---~~~~~~~l~k~LkGl~v~~t~d~~~~lt~~-------l--~~~f~r~t--~~vSv~~p~Yy 399 (459)
++|+|++.++++.... +..++.+++++|+|++|..+|......+|. . ..+|...+ +.|||. +||
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lkgl~v~~~~~~~~~r~~~i~~l~~~~~~~~~F~~~~~~~~isV~--dYf 79 (114)
T cd02846 2 QPVIEFLKEFLGFDTPLGLSDNDRRKLKKALKGLKVEVTHRGNTNRKYKIKGLSAEPASQQTFELKDGEKEISVA--DYF 79 (114)
T ss_pred ccHHHHHHHHhCcccccccchHHHHHHHHHhCCCEEEEEcCCCCCceEEEeeccCCCccceEEEcCCCCcEEEHH--HHH
Confidence 6899999999876431 124577899999999998888531112222 1 24466444 489999 999
Q ss_pred HHHHHHHhhhhhhhhh
Q 012649 400 ADLVAYRGRLYHEAVM 415 (459)
Q Consensus 400 a~~y~~r~r~~~~~~~ 415 (459)
+.+|+++++....+..
T Consensus 80 ~~~y~~~l~~p~lP~v 95 (114)
T cd02846 80 KEKYNIRLKYPNLPCL 95 (114)
T ss_pred HHHcCCcccCCCCCEE
Confidence 9999999998776643
No 15
>cd04658 Piwi_piwi-like_Euk Piwi_piwi-like_Euk: PIWI domain, Piwi-like subfamily found in eukaryotes. This domain is found in Piwi and closely related proteins, where it is believed to perform a crucial role in germline cells, via RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The mechanism in Piwi is believed to be similar to that in Argonaute, the central component of the RNA-induced silencing complex (RISC). The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing.
Probab=97.01 E-value=0.00034 Score=74.30 Aligned_cols=42 Identities=26% Similarity=0.577 Sum_probs=39.0
Q ss_pred ccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhh
Q 012649 367 GFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGR 408 (459)
Q Consensus 367 ~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r 408 (459)
.++.|++|++||+|||+|.+++++||+++|.||||++|.++.
T Consensus 406 ~~~~~~lq~lt~~lc~~y~~~~~~vs~P~p~~yA~~~a~~~g 447 (448)
T cd04658 406 GLKPDHLQRLTYKLCHLYYNWSGSIRVPAPCQYAHKLAFLVG 447 (448)
T ss_pred CCCHHHHHHHHHHhhhcccCCCCCCccCHHHHHHHHHHHHhc
Confidence 477889999999999999999999999999999999998764
No 16
>PF02171 Piwi: Piwi domain; InterPro: IPR003165 This domain is found in the stem cell self-renewal protein Piwi and its relatives in Drosophila melanogaster []. It has been found in the C-terminal of a number of proteins which also contain the PAZ domain (IPR003100 from INTERPRO) in their central region, for example the Argonaute proteins. Several of these proteins have been implicated in the development and maintenance of stem cells through the RNA-mediated gene-quelling mechanisms associated with the protein DICER. ; GO: 0005515 protein binding; PDB: 4F1N_B 3LUH_B 4EI1_A 3QX8_A 3LUC_C 3LUJ_B 3LUD_B 3QX9_A 3LUG_B 3LUK_B ....
Probab=96.22 E-value=0.0027 Score=63.62 Aligned_cols=45 Identities=40% Similarity=0.753 Sum_probs=38.2
Q ss_pred ccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhhhhh
Q 012649 367 GFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGRLYH 411 (459)
Q Consensus 367 ~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r~~~ 411 (459)
.++.+.++++||.|||.+.++.+++++++|.|||++++.|++.++
T Consensus 257 ~~~~~~l~~~t~~L~~~~~~~~~~~~lP~p~~yA~~~a~~~~~~~ 301 (302)
T PF02171_consen 257 NLSMDELQQLTYSLCHLYQNSTGPISLPAPLYYAHKLAKRGRNNL 301 (302)
T ss_dssp CSCHHHHHHHHHHHTTGGTTSSS--SS-HHHHHHHHHHHHHHHHC
T ss_pred cccHHHHHHHHHHHHHHhcccCCCCccCHHHHHHHHHHHHHHhhc
Confidence 356778899999999999999999999999999999999999865
No 17
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=94.97 E-value=0.1 Score=52.66 Aligned_cols=24 Identities=29% Similarity=0.374 Sum_probs=13.9
Q ss_pred CCCCCCCCCCccCCCCccccCCCC
Q 012649 14 GGRDGGSRGGRTGGGDFRHHQPRP 37 (459)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~ 37 (459)
+--||||-+||||-|-+-..=|||
T Consensus 195 ~R~~~~~~~G~~~~~~sG~~GPPP 218 (498)
T KOG4849|consen 195 IRIGAGGQTGRTGTSVSGRSGPPP 218 (498)
T ss_pred eeecCCCCCCCcCCCCCCCCCCCC
Confidence 344566777778766554444444
No 18
>cd02844 PAZ_CAF_like PAZ domain, CAF_like subfamily. CAF (for carpel factory) is a plant homolog of Dicer. CAF has been implicated in flower morphogenesis and in early Arabidopsis development and might function through posttranscriptional regulation of specific mRNA molecules. PAZ domains are named after the proteins Piwi, Argonaut, and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the Piwi and Dicer families. PAZ functions as a nucleic-acid binding domain, with a strong preference for single-stranded nucleic acids (RNA or DNA) or RNA duplexes with single-stranded 3' overhangs. It has been suggested that the PAZ domain provides a unique mode for the recognition of the two 3'-terminal nucleotides in single-stranded nucleic acids and buries the 3' OH group, and that it might recognize characteristic 3' overhangs in siRNAs within RISC (RNA-induced silencing) and other complexes.
Probab=92.29 E-value=0.042 Score=48.92 Aligned_cols=56 Identities=11% Similarity=0.059 Sum_probs=42.0
Q ss_pred HHHHHHhccccccccchhhhhhhc--------ccccccCCC--cceecchhhhhHHHHHHHhhhhhhhhhc
Q 012649 356 KVENALKGLKHGFTSDQLQKLIYN--------MCFTFARCT--KPVSLVPPVYYADLVAYRGRLYHEAVME 416 (459)
Q Consensus 356 ~l~k~LkGl~v~~t~d~~~~lt~~--------l~~~f~r~t--~~vSv~~p~Yya~~y~~r~r~~~~~~~~ 416 (459)
-..+.|+|+.|..+|. +.+|. ...+|...+ ..+||. +||+++|+++|++..|+.+.
T Consensus 26 ~~~~~l~g~~V~t~hn---~r~Y~I~~i~~~~p~s~F~~~~~~~~~Sy~--eYy~~kY~i~L~~~~QPLL~ 91 (135)
T cd02844 26 FCACDLKGSVVTAPHN---GRFYVISGILDLNANSSFPGKEGLGYATYA--EYFKEKYGIVLNHPNQPLLK 91 (135)
T ss_pred ccHHHhcCCEEEEcCC---CcEEEEEEEcCCCccCcccCCCCCceeeHH--HHHHHHhCceeccCCcceEE
Confidence 4677899999988884 34443 235575443 358999 99999999999998888654
No 19
>cd02843 PAZ_dicer_like PAZ domain, dicer_like subfamily. Dicer is an RNAse involved in cleaving dsRNA in the RNA interference pathway. It generates dsRNAs which are approximately 20 bp long (siRNAs), which in turn target hydrolysis of homologous RNAs. PAZ domains are named after the proteins Piwi Argonaut and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the piwi and Dicer families. PAZ functions as a nucleic-acid binding domain, with a strong preference for single-stranded nucleic acids (RNA or DNA) or RNA duplexes with single-stranded 3' overhangs. It has been suggested that the PAZ domain provides a unique mode for the recognition of the two 3'-terminal nucleotides in single-stranded nucleic acids and buries the 3' OH group, and that it might recognize characteristic 3' overhangs in siRNAs within RISC (RNA-induced silencing) and other complexes.
Probab=89.37 E-value=0.093 Score=45.69 Aligned_cols=55 Identities=5% Similarity=-0.008 Sum_probs=40.0
Q ss_pred HHHhccccccccchhhh-hhhc---------ccccccCCCcceecchhhhhHHHHHHHhhhhhhhhhc
Q 012649 359 NALKGLKHGFTSDQLQK-LIYN---------MCFTFARCTKPVSLVPPVYYADLVAYRGRLYHEAVME 416 (459)
Q Consensus 359 k~LkGl~v~~t~d~~~~-lt~~---------l~~~f~r~t~~vSv~~p~Yya~~y~~r~r~~~~~~~~ 416 (459)
..+.|..|...|....+ .+|. ..++|.... .+|++ +||+.+|+++|++..|+.++
T Consensus 39 ~~~~g~vV~t~YnN~d~pK~Y~V~dI~~dltP~S~F~~~~-~~Ty~--eYyk~KY~I~I~~~~QPLL~ 103 (122)
T cd02843 39 EDYQDAVVMPWYRNFDQPQYFYVAEICTDLRPLSKFPGPE-YETFE--EYYKKKYKLDIQNLNQPLLD 103 (122)
T ss_pred HHhCCCEEeecccCCCCCeEEEEEEEcCCCCCCCCCCCCC-CccHH--HHHHHhcCeEeccCCCCcEe
Confidence 45789888777732211 4442 235676554 79999 99999999999999999766
No 20
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=88.69 E-value=1.1 Score=49.93 Aligned_cols=55 Identities=35% Similarity=0.594 Sum_probs=24.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 012649 34 QPRPQQPQWRRSAPSPGHGSPSPPVRPWSGPMSPAVRAPSPQPRPQPPPDPSASP 88 (459)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 88 (459)
.+.|..|+++|++|.+...+|..|+-.|++|-.-++..|+|+-+|--+|.+++.+
T Consensus 583 ~~~~~~P~~~pg~P~~~~~Ppa~p~~~~~ppPgf~PnpPpP~~~Pg~np~~pPpg 637 (894)
T KOG0132|consen 583 RPRPQKPPPRPGAPIPSGEPPAFPGPMWHPPPGFVPNPPPPPLRPGYNPYPPPPG 637 (894)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCcc
Confidence 3444444455555555433333333344444444444444444444443333333
No 21
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.49 E-value=1.3 Score=46.51 Aligned_cols=15 Identities=40% Similarity=1.081 Sum_probs=6.4
Q ss_pred CCCCCCCCCCCCCCC
Q 012649 74 PQPRPQPPPDPSASP 88 (459)
Q Consensus 74 ~~~~~~~~~~~~~~~ 88 (459)
|.+++++||++++.|
T Consensus 456 P~~~~pppP~~pp~p 470 (483)
T KOG2236|consen 456 PHQQSPPPPPPPPPP 470 (483)
T ss_pred ccccCCCCCCCCCCC
Confidence 444444444444444
No 22
>KOG1042 consensus Germ-line stem cell division protein Hiwi/Piwi; negative developmental regulator [Cell cycle control, cell division, chromosome partitioning]
Probab=87.55 E-value=0.33 Score=52.85 Aligned_cols=42 Identities=21% Similarity=0.550 Sum_probs=36.1
Q ss_pred ccccchhhhhhhcccccccCCCcceecchhhhhHHHHHHHhh
Q 012649 367 GFTSDQLQKLIYNMCFTFARCTKPVSLVPPVYYADLVAYRGR 408 (459)
Q Consensus 367 ~~t~d~~~~lt~~l~~~f~r~t~~vSv~~p~Yya~~y~~r~r 408 (459)
++..|-+|.|||++||.|-.....|.|+||+-|||+.+.-.-
T Consensus 786 gL~PDkmQrLtfKlCHlYyNW~GtiRVPApCqYAHKLAfLv~ 827 (845)
T KOG1042|consen 786 GLSPDKMQRLTFKLCHLYYNWPGTIRVPAPCQYAHKLAFLVA 827 (845)
T ss_pred CCCHHHHHHHHHHHhheeecCCcceeccchhHHHHHHHHHHH
Confidence 455667899999999999999999999999999999876433
No 23
>PHA03247 large tegument protein UL36; Provisional
Probab=84.89 E-value=2 Score=53.63 Aligned_cols=17 Identities=29% Similarity=0.384 Sum_probs=7.4
Q ss_pred CCCCCCCCCccCCCCcccc
Q 012649 15 GRDGGSRGGRTGGGDFRHH 33 (459)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~ 33 (459)
...+|||- ..+|++++.
T Consensus 2849 ~~~~~g~~--~~~~~~~r~ 2865 (3151)
T PHA03247 2849 SLPLGGSV--APGGDVRRR 2865 (3151)
T ss_pred CCCCCCcc--CCCCccccC
Confidence 34455552 222555443
No 24
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=84.19 E-value=3 Score=46.51 Aligned_cols=12 Identities=0% Similarity=0.423 Sum_probs=6.1
Q ss_pred eEEEEEEEEeee
Q 012649 232 RTYVFTIKLVNE 243 (459)
Q Consensus 232 ~~~~V~Ik~~~~ 243 (459)
..|...++.+.+
T Consensus 511 dkFml~lskIEr 522 (830)
T KOG1923|consen 511 DKFMLSLSKIER 522 (830)
T ss_pred hhhhhhhhhhhh
Confidence 336555555443
No 25
>PF12300 DUF3628: Protein of unknown function (DUF3628); InterPro: IPR022077 Proteins in this entry are DEAD Box RhlB RNA Helicases found in Xanthomonadaceae bacteria.; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=83.63 E-value=3.2 Score=37.51 Aligned_cols=6 Identities=67% Similarity=1.409 Sum_probs=2.4
Q ss_pred CCCCCC
Q 012649 14 GGRDGG 19 (459)
Q Consensus 14 ~~~~~~ 19 (459)
||+.|.
T Consensus 64 G~RsG~ 69 (180)
T PF12300_consen 64 GGRSGS 69 (180)
T ss_pred CCCCCC
Confidence 344443
No 26
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=80.96 E-value=1.4 Score=44.61 Aligned_cols=8 Identities=38% Similarity=0.459 Sum_probs=5.2
Q ss_pred cCCCCCCC
Q 012649 33 HQPRPQQP 40 (459)
Q Consensus 33 ~~~~~~~~ 40 (459)
+|-+|++-
T Consensus 383 gyqqp~~~ 390 (465)
T KOG3973|consen 383 GYQQPQQQ 390 (465)
T ss_pred CCcCchhh
Confidence 37777764
No 27
>PHA03247 large tegument protein UL36; Provisional
Probab=80.92 E-value=5.5 Score=50.10 Aligned_cols=7 Identities=14% Similarity=0.330 Sum_probs=2.9
Q ss_pred EEEEeeE
Q 012649 137 VNIFVNH 143 (459)
Q Consensus 137 V~L~tN~ 143 (459)
+..|+--
T Consensus 3004 ~~~w~~~ 3010 (3151)
T PHA03247 3004 VSSWASS 3010 (3151)
T ss_pred cchhhhh
Confidence 3444433
No 28
>PRK15319 AIDA autotransporter-like protein ShdA; Provisional
Probab=79.21 E-value=3.2 Score=50.62 Aligned_cols=12 Identities=8% Similarity=0.105 Sum_probs=7.9
Q ss_pred EEEEeeEEEeee
Q 012649 137 VNIFVNHFPVNF 148 (459)
Q Consensus 137 V~L~tN~F~l~~ 148 (459)
+...+|++.|.+
T Consensus 1782 l~~Dsn~y~lQL 1793 (2039)
T PRK15319 1782 IDMDSNYSQFQL 1793 (2039)
T ss_pred eeeecceEEEEE
Confidence 456667776666
No 29
>PTZ00146 fibrillarin; Provisional
Probab=74.71 E-value=5.1 Score=40.36 Aligned_cols=15 Identities=60% Similarity=0.966 Sum_probs=7.2
Q ss_pred CCCCCCCCCCCCCCC
Q 012649 5 GYRGRGRGRGGRDGG 19 (459)
Q Consensus 5 ~~~~~~~~~~~~~~~ 19 (459)
+.+|||.++||.+||
T Consensus 6 ~~~~~~~~~~~~~~~ 20 (293)
T PTZ00146 6 FGGGRGGGRGGGGGG 20 (293)
T ss_pred CCCCCCCCCCCCCCC
Confidence 344555555544433
No 30
>PF05518 Totivirus_coat: Totivirus coat protein; InterPro: IPR008871 This family of proteins contain the coat proteins of the Totiviruses.
Probab=71.45 E-value=22 Score=39.98 Aligned_cols=11 Identities=27% Similarity=0.163 Sum_probs=5.0
Q ss_pred CCCCccCCCCc
Q 012649 20 SRGGRTGGGDF 30 (459)
Q Consensus 20 ~~~~~~~~~~~ 30 (459)
.|..|.-+|.-
T Consensus 674 ~~~~~~~rg~P 684 (759)
T PF05518_consen 674 SDPPREARGAP 684 (759)
T ss_pred CCCcccccCCC
Confidence 44444444443
No 31
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=69.19 E-value=3.7 Score=47.68 Aligned_cols=6 Identities=50% Similarity=0.650 Sum_probs=2.5
Q ss_pred cccccc
Q 012649 284 GRSFHP 289 (459)
Q Consensus 284 GRsfF~ 289 (459)
|.+||.
T Consensus 282 ~~sfF~ 287 (2365)
T COG5178 282 GLSFFV 287 (2365)
T ss_pred Cceeee
Confidence 334443
No 32
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=67.99 E-value=15 Score=41.18 Aligned_cols=15 Identities=20% Similarity=0.538 Sum_probs=7.0
Q ss_pred CCCCCCCCCCCCccc
Q 012649 78 PQPPPDPSASPVVRP 92 (459)
Q Consensus 78 ~~~~~~~~~~~~~~~ 92 (459)
|++|++|++++..|+
T Consensus 340 ~espvpp~~~~~~~a 354 (830)
T KOG1923|consen 340 PESPVPPPQRLMIPA 354 (830)
T ss_pred CCCCCCCCcccccch
Confidence 344444555555444
No 33
>PRK15319 AIDA autotransporter-like protein ShdA; Provisional
Probab=67.70 E-value=9.1 Score=46.92 Aligned_cols=10 Identities=0% Similarity=-0.233 Sum_probs=4.4
Q ss_pred eEEEEeeEEE
Q 012649 136 TVNIFVNHFP 145 (459)
Q Consensus 136 ~V~L~tN~F~ 145 (459)
-..+...|+.
T Consensus 1765 W~Ri~GGh~~ 1774 (2039)
T PRK15319 1765 WARFKAGKAE 1774 (2039)
T ss_pred EEEEeccccc
Confidence 3444444443
No 34
>PF12764 Gly-rich_Ago1: Glycine-rich region of argonaut; InterPro: IPR024357 This domain is found in the N terminus of some argonaut proteins. Argonaut (AGO) proteins are involved in RNA-mediated post-transcriptional gene silencing [].
Probab=63.42 E-value=32 Score=29.00 Aligned_cols=14 Identities=7% Similarity=0.197 Sum_probs=8.5
Q ss_pred cccccccccCCCCC
Q 012649 100 LKISEPVASSSSSS 113 (459)
Q Consensus 100 ~~~~~~~~~l~~~~ 113 (459)
.+++.+|..|++..
T Consensus 78 ~qv~QQfqqLsi~~ 91 (104)
T PF12764_consen 78 VQVTQQFQQLSIQQ 91 (104)
T ss_pred HHHHHHHHHHhhcc
Confidence 33456677777765
No 35
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.15 E-value=25 Score=39.20 Aligned_cols=6 Identities=33% Similarity=0.672 Sum_probs=3.0
Q ss_pred CCCCCC
Q 012649 34 QPRPQQ 39 (459)
Q Consensus 34 ~~~~~~ 39 (459)
.|+|++
T Consensus 397 ~~~~~~ 402 (624)
T PRK14959 397 IPTPGT 402 (624)
T ss_pred CCCCcc
Confidence 455554
No 36
>PF05750 Rubella_Capsid: Rubella capsid protein; InterPro: IPR008819 Rubella virus is an enveloped positive-strand RNA virus of the family Togaviridae. Virions are composed of three structural proteins: a capsid and two membrane-spanning glycoproteins, E2 and E1. During virus assembly, the capsid interacts with genomic RNA to form nucleocapsids. It has been discovered that capsid phosphorylation serves to negatively regulate binding of viral genomic RNA. This may delay the initiation of nucleocapsid assembly until sufficient amounts of virus glycoproteins accumulate at the budding site and/or prevent non-specific binding to cellular RNA when levels of genomic RNA are low. It follows that at a late stage in replication, the capsid may undergo dephosphorylation before nucleocapsid assembly occurs []. This family is found together with IPR008820 from INTERPRO and IPR008821 from INTERPRO.; GO: 0016021 integral to membrane, 0019013 viral nucleocapsid
Probab=59.22 E-value=20 Score=33.38 Aligned_cols=10 Identities=50% Similarity=1.145 Sum_probs=5.1
Q ss_pred CCCCCCCCCC
Q 012649 73 SPQPRPQPPP 82 (459)
Q Consensus 73 ~~~~~~~~~~ 82 (459)
.|+++||||-
T Consensus 99 appqqpqppr 108 (300)
T PF05750_consen 99 APPQQPQPPR 108 (300)
T ss_pred CCcCCCCCcc
Confidence 3455555554
No 37
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=57.97 E-value=7.5 Score=36.38 Aligned_cols=11 Identities=36% Similarity=0.682 Sum_probs=4.3
Q ss_pred CCCCCCCCCCC
Q 012649 9 RGRGRGGRDGG 19 (459)
Q Consensus 9 ~~~~~~~~~~~ 19 (459)
.++++|+.+||
T Consensus 86 s~~~~G~y~gg 96 (241)
T KOG0105|consen 86 SSDRRGSYSGG 96 (241)
T ss_pred ccccccccCCC
Confidence 33444433333
No 38
>PF12238 MSA-2c: Merozoite surface antigen 2c; InterPro: IPR021060 This family of proteins are restricted to the apicomplexan Babesia bovis. Proteins in this entry are typically between 263 and 318 amino acids in length and plasma membrane glycoproteins. These antigens present on the merozoite surface (MSA) and are involved in the parasite invasion of the bovine erythrocyte. MSA-2c has been suggested as a possible antigen for a vaccine candidate [].
Probab=57.60 E-value=28 Score=33.16 Aligned_cols=9 Identities=22% Similarity=0.246 Sum_probs=3.8
Q ss_pred CCCCCCCCC
Q 012649 42 WRRSAPSPG 50 (459)
Q Consensus 42 ~~~~~~~~~ 50 (459)
.++.+++||
T Consensus 143 ss~~~sS~q 151 (205)
T PF12238_consen 143 SSPTPSSPQ 151 (205)
T ss_pred CCCCCCCCC
Confidence 344444444
No 39
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=51.24 E-value=72 Score=33.64 Aligned_cols=11 Identities=9% Similarity=0.280 Sum_probs=4.6
Q ss_pred ccchhhhhhcc
Q 012649 90 VRPVVAEIQKL 100 (459)
Q Consensus 90 ~~~~~~~~~~~ 100 (459)
.++++..+..+
T Consensus 370 ~~pl~~~~p~~ 380 (518)
T KOG1830|consen 370 NPPLCNPFPSI 380 (518)
T ss_pred CCCCCCCCccc
Confidence 34444444433
No 40
>cd04659 Piwi_piwi-like_ProArk Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The central component of the RNA-induced silencing complex (RISC) and related complexes is Argonaute. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing. This domain is also found in closely related proteins, including the Piwi subfamily, where it is believed to perform a crucial role in germline cells, via a similar mechanism.
Probab=50.86 E-value=8.1 Score=40.50 Aligned_cols=41 Identities=22% Similarity=0.047 Sum_probs=33.4
Q ss_pred cccchhhhhhhcccccccCC-CcceecchhhhhHHHHHHHhh
Q 012649 368 FTSDQLQKLIYNMCFTFARC-TKPVSLVPPVYYADLVAYRGR 408 (459)
Q Consensus 368 ~t~d~~~~lt~~l~~~f~r~-t~~vSv~~p~Yya~~y~~r~r 408 (459)
++.+.++.++|.||+.+-++ +..+++++|.|||++.+.-+.
T Consensus 360 ~~~~~l~~~~~~Lt~~~~n~~~~~~~lP~ti~YA~~~a~~~~ 401 (404)
T cd04659 360 TDLEQLASQILGLTKLNWNSFQFYSRLPVTIHYADRVAKLLK 401 (404)
T ss_pred CCHHHHHHHHHHHhhcCcCCCCCCCCcceEEeHHHHHHHHHh
Confidence 46677888999999886555 449999999999999887654
No 41
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=49.31 E-value=61 Score=34.80 Aligned_cols=20 Identities=25% Similarity=0.396 Sum_probs=11.4
Q ss_pred CCCccCCCCccccCCCCCCC
Q 012649 21 RGGRTGGGDFRHHQPRPQQP 40 (459)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~ 40 (459)
.||++-.+-++..|-||..+
T Consensus 381 s~g~~~ap~~P~P~aqPg~~ 400 (554)
T KOG0119|consen 381 SGGRPHAPNGPPPVAQPGTP 400 (554)
T ss_pred ccccccCCCCCCCCCCCCCC
Confidence 33455556666666665554
No 42
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=42.77 E-value=13 Score=39.00 Aligned_cols=26 Identities=8% Similarity=0.091 Sum_probs=15.6
Q ss_pred Cccchhhhhhc-cccccccccCCCCCC
Q 012649 89 VVRPVVAEIQK-LKISEPVASSSSSSS 114 (459)
Q Consensus 89 ~~~~~~~~~~~-~~~~~~~~~l~~~~~ 114 (459)
.+-++-+.... ..+++.|.+..-+.+
T Consensus 263 ~~~AlFaqlNqGe~iTsgLkkVt~dmk 289 (480)
T KOG2675|consen 263 GRGALFAQLNQGEGITSGLKKVTDDMK 289 (480)
T ss_pred cHHHHHHHHhccchhhhhhhhCChhhh
Confidence 45566666644 467777766655443
No 43
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=42.75 E-value=40 Score=32.39 Aligned_cols=16 Identities=6% Similarity=0.038 Sum_probs=9.4
Q ss_pred Cccchhhhhhcccccc
Q 012649 89 VVRPVVAEIQKLKISE 104 (459)
Q Consensus 89 ~~~~~~~~~~~~~~~~ 104 (459)
++|.++.-+++++-+.
T Consensus 55 ~~~~~~~~f~~vD~d~ 70 (221)
T KOG0037|consen 55 TFPQLAGWFQSVDRDR 70 (221)
T ss_pred ccHHHHHHHHhhCccc
Confidence 4556666666666554
No 44
>PRK15313 autotransport protein MisL; Provisional
Probab=42.19 E-value=41 Score=38.94 Aligned_cols=9 Identities=11% Similarity=0.419 Sum_probs=4.0
Q ss_pred EeeEEEeee
Q 012649 140 FVNHFPVNF 148 (459)
Q Consensus 140 ~tN~F~l~~ 148 (459)
.+|.|.|.+
T Consensus 700 q~n~y~lQL 708 (955)
T PRK15313 700 RINSYVLQL 708 (955)
T ss_pred eeeEEEEEe
Confidence 344444444
No 45
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=40.35 E-value=24 Score=41.53 Aligned_cols=14 Identities=29% Similarity=0.441 Sum_probs=6.8
Q ss_pred eEEcCCceEEeCccC
Q 012649 200 TAYDGEKNIFSAIEL 214 (459)
Q Consensus 200 ~ayDG~~~LyS~~~L 214 (459)
+.|||. +.|..+.|
T Consensus 278 Ylf~~~-sfF~akal 291 (2365)
T COG5178 278 YLFSGL-SFFVAKAL 291 (2365)
T ss_pred EEecCc-eeeehhhh
Confidence 344553 45555554
No 46
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=38.94 E-value=20 Score=37.80 Aligned_cols=16 Identities=13% Similarity=-0.093 Sum_probs=6.7
Q ss_pred hhccccccccccCCCC
Q 012649 97 IQKLKISEPVASSSSS 112 (459)
Q Consensus 97 ~~~~~~~~~~~~l~~~ 112 (459)
-++.....-++.|+-.
T Consensus 259 ~~k~~~~AlFaqlNqG 274 (480)
T KOG2675|consen 259 ANKGGRGALFAQLNQG 274 (480)
T ss_pred cccccHHHHHHHHhcc
Confidence 3444444444444443
No 47
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=35.97 E-value=80 Score=33.05 Aligned_cols=9 Identities=22% Similarity=0.087 Sum_probs=3.9
Q ss_pred CCCCCCCCC
Q 012649 42 WRRSAPSPG 50 (459)
Q Consensus 42 ~~~~~~~~~ 50 (459)
+-..||+|+
T Consensus 481 pls~PPlPP 489 (563)
T KOG1785|consen 481 PLSLPPLPP 489 (563)
T ss_pred CCCCCCCCC
Confidence 334444444
No 48
>KOG3293 consensus Small nuclear ribonucleoprotein (snRNP) [RNA processing and modification]
Probab=35.62 E-value=31 Score=29.92 Aligned_cols=8 Identities=50% Similarity=0.800 Sum_probs=4.0
Q ss_pred CccCCCCc
Q 012649 23 GRTGGGDF 30 (459)
Q Consensus 23 ~~~~~~~~ 30 (459)
.+||+|++
T Consensus 110 ~~rg~~~g 117 (134)
T KOG3293|consen 110 NRRGGGRG 117 (134)
T ss_pred CcCCCCCC
Confidence 34555554
No 49
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.65 E-value=78 Score=36.41 Aligned_cols=12 Identities=8% Similarity=0.542 Sum_probs=6.0
Q ss_pred ceecccc--cccCC
Q 012649 280 MISVGRS--FHPVE 291 (459)
Q Consensus 280 ~~~vGRs--fF~~~ 291 (459)
++.+-+. ||+.+
T Consensus 461 ivtfd~tvhFfnl~ 474 (1007)
T KOG1984|consen 461 IVTFDKTVHFFNLS 474 (1007)
T ss_pred EEEecceeEeeccC
Confidence 4444443 66654
No 50
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.77 E-value=71 Score=32.74 Aligned_cols=8 Identities=25% Similarity=0.389 Sum_probs=3.1
Q ss_pred CCCCCCCC
Q 012649 48 SPGHGSPS 55 (459)
Q Consensus 48 ~~~~~~~~ 55 (459)
.|+.|.|+
T Consensus 146 ~~~~p~p~ 153 (365)
T KOG2391|consen 146 LPSPPPPY 153 (365)
T ss_pred CCCCCCCC
Confidence 33333444
No 51
>PRK15313 autotransport protein MisL; Provisional
Probab=31.09 E-value=85 Score=36.52 Aligned_cols=11 Identities=18% Similarity=0.075 Sum_probs=4.9
Q ss_pred EEEEeeEEEee
Q 012649 137 VNIFVNHFPVN 147 (459)
Q Consensus 137 V~L~tN~F~l~ 147 (459)
+.+.-.|.++.
T Consensus 681 lR~~Ggh~r~~ 691 (955)
T PRK15313 681 MRNVGAHTRFN 691 (955)
T ss_pred EEeeccccccc
Confidence 34444444443
No 52
>KOG4761 consensus Proteasome formation inhibitor PI31 [Posttranslational modification, protein turnover, chaperones]
Probab=30.94 E-value=1.8e+02 Score=28.47 Aligned_cols=10 Identities=30% Similarity=0.564 Sum_probs=3.9
Q ss_pred CCCCCCCCCC
Q 012649 47 PSPGHGSPSP 56 (459)
Q Consensus 47 ~~~~~~~~~~ 56 (459)
+.|+.++|+.
T Consensus 227 ~~PG~vPpga 236 (266)
T KOG4761|consen 227 LPPGAVPPGA 236 (266)
T ss_pred CCCCCCCCCC
Confidence 3333344433
No 53
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.14 E-value=97 Score=34.28 Aligned_cols=16 Identities=25% Similarity=0.523 Sum_probs=11.3
Q ss_pred ceeEEEEeeEEEeeec
Q 012649 134 IRTVNIFVNHFPVNFT 149 (459)
Q Consensus 134 G~~V~L~tN~F~l~~~ 149 (459)
++++-+.-|.+.|.+.
T Consensus 493 a~p~~~~~~~l~l~~~ 508 (585)
T PRK14950 493 VRPVSVEKNTLTLSFK 508 (585)
T ss_pred CeeeeecCCEEEEecC
Confidence 4577777887777663
No 54
>PHA03264 envelope glycoprotein D; Provisional
Probab=30.11 E-value=2.1e+02 Score=29.91 Aligned_cols=17 Identities=29% Similarity=0.646 Sum_probs=8.0
Q ss_pred CCCCCCCCCCCCCCCCC
Q 012649 44 RSAPSPGHGSPSPPVRP 60 (459)
Q Consensus 44 ~~~~~~~~~~~~~~~~~ 60 (459)
.+.+.+.+|.|.+++.+
T Consensus 318 ~g~~~~~~p~~~~~~~~ 334 (416)
T PHA03264 318 GGEPKPGPPRPAPDADR 334 (416)
T ss_pred CCCCCCCCCCCCCCcCC
Confidence 44444444555554444
No 55
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=29.49 E-value=95 Score=29.90 Aligned_cols=31 Identities=13% Similarity=0.192 Sum_probs=14.3
Q ss_pred eechHHHHHHhcCCCCCCChhhHHHHHHHHhcCC
Q 012649 243 ELKLCKLKEYLTGSLFSIPRDILQGMDVVMKENP 276 (459)
Q Consensus 243 ~i~l~~L~~~l~g~~~~~~~~~iq~LnIIlr~~~ 276 (459)
.|+.++|.+.|....... --|++|+|+++..
T Consensus 140 ~I~~sEL~~Al~~~Gy~L---spq~~~~lv~kyd 170 (221)
T KOG0037|consen 140 TIDSSELRQALTQLGYRL---SPQFYNLLVRKYD 170 (221)
T ss_pred cccHHHHHHHHHHcCcCC---CHHHHHHHHHHhc
Confidence 345555555554433211 2345555665433
No 56
>PLN00034 mitogen-activated protein kinase kinase; Provisional
Probab=29.38 E-value=1.4e+02 Score=29.95 Aligned_cols=6 Identities=17% Similarity=0.219 Sum_probs=2.8
Q ss_pred CCCCCC
Q 012649 126 PDGGGT 131 (459)
Q Consensus 126 P~~Gt~ 131 (459)
-|.|+.
T Consensus 82 lg~G~~ 87 (353)
T PLN00034 82 IGSGAG 87 (353)
T ss_pred ccCCCC
Confidence 455543
No 57
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=29.38 E-value=1.1e+02 Score=33.33 Aligned_cols=10 Identities=20% Similarity=0.265 Sum_probs=4.2
Q ss_pred echHHHHHHh
Q 012649 244 LKLCKLKEYL 253 (459)
Q Consensus 244 i~l~~L~~~l 253 (459)
++-.+|...|
T Consensus 535 ~~~~~~~~~~ 544 (562)
T TIGR01628 535 MDNSELLHLL 544 (562)
T ss_pred CCHHHHHHHh
Confidence 3334444444
No 58
>KOG1596 consensus Fibrillarin and related nucleolar RNA-binding proteins [RNA processing and modification]
Probab=28.70 E-value=54 Score=32.34 Aligned_cols=13 Identities=15% Similarity=0.317 Sum_probs=6.7
Q ss_pred HHHHHHHHhcCCC
Q 012649 265 LQGMDVVMKENPS 277 (459)
Q Consensus 265 iq~LnIIlr~~~~ 277 (459)
+-+.||||...+.
T Consensus 224 VgmVDvIFaDvaq 236 (317)
T KOG1596|consen 224 VGMVDVIFADVAQ 236 (317)
T ss_pred eeeEEEEeccCCC
Confidence 3355555555544
No 59
>KOG3074 consensus Transcriptional regulator of the PUR family, single-stranded-DNA-binding [Transcription]
Probab=28.23 E-value=40 Score=32.67 Aligned_cols=9 Identities=11% Similarity=0.028 Sum_probs=4.1
Q ss_pred CceeEEEEE
Q 012649 229 MKYRTYVFT 237 (459)
Q Consensus 229 ~~~~~~~V~ 237 (459)
.+.+..+|.
T Consensus 123 ~RGRFLRI~ 131 (263)
T KOG3074|consen 123 QRGRFLRIS 131 (263)
T ss_pred cccceEEee
Confidence 344444444
No 60
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=28.01 E-value=1.9e+02 Score=35.01 Aligned_cols=40 Identities=28% Similarity=0.453 Sum_probs=25.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 012649 44 RSAPSPGHGSPSPPVRPWSGPMSPAVRAPSPQPRPQPPPD 83 (459)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~ 83 (459)
+.+|++..++|-+-+.+-+.+.++.+++-++.++||+-..
T Consensus 1730 ~~app~s~~~~~lt~lp~g~~lp~~p~av~~~p~Pq~qa~ 1769 (1958)
T KOG0391|consen 1730 QKAPPQSPPPPLLTPLPAGSQLPAGPPAVQPQPQPQPQAQ 1769 (1958)
T ss_pred cCCCCCCCCCCcCccccCCCCCCCCCccCCCCCCCCccCC
Confidence 5555555555544555677778888877777776665444
No 61
>PHA03211 serine/threonine kinase US3; Provisional
Probab=27.92 E-value=70 Score=34.20 Aligned_cols=10 Identities=10% Similarity=-0.190 Sum_probs=3.9
Q ss_pred CCCCCCCCCC
Q 012649 43 RRSAPSPGHG 52 (459)
Q Consensus 43 ~~~~~~~~~~ 52 (459)
.+-||.+.++
T Consensus 31 ~~~~~~~~~~ 40 (461)
T PHA03211 31 CVFPPETFYN 40 (461)
T ss_pred CCCCCCCCCC
Confidence 3444433333
No 62
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.39 E-value=1.2e+02 Score=33.96 Aligned_cols=14 Identities=7% Similarity=0.166 Sum_probs=7.6
Q ss_pred CccHHHHHHHHhcc
Q 012649 333 RLPVIDFLQEHINF 346 (459)
Q Consensus 333 ~~~lld~i~e~~~~ 346 (459)
..|..++++++...
T Consensus 590 ~~t~~~~~q~l~~~ 603 (620)
T PRK14954 590 EKSIFTLFRELSET 603 (620)
T ss_pred cCCHHHHHHHHHhh
Confidence 44555666665443
No 63
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=26.47 E-value=88 Score=33.78 Aligned_cols=8 Identities=13% Similarity=0.297 Sum_probs=3.2
Q ss_pred cHHHHHHH
Q 012649 335 PVIDFLQE 342 (459)
Q Consensus 335 ~lld~i~e 342 (459)
+|+..+++
T Consensus 514 sLlhHlc~ 521 (817)
T KOG1925|consen 514 SLLHHLCS 521 (817)
T ss_pred HHHHHHHH
Confidence 44443333
No 64
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=26.47 E-value=22 Score=36.21 Aligned_cols=26 Identities=12% Similarity=0.180 Sum_probs=0.0
Q ss_pred Cccchhhhhhc-cccccccccCCCCCC
Q 012649 89 VVRPVVAEIQK-LKISEPVASSSSSSS 114 (459)
Q Consensus 89 ~~~~~~~~~~~-~~~~~~~~~l~~~~~ 114 (459)
.+.+|-+++.. ..+++.|.+..-+..
T Consensus 261 ~~~AlFaeLN~G~~iT~gLkKV~~~~~ 287 (312)
T PF01213_consen 261 GMSALFAELNQGEDITKGLKKVTKDMM 287 (312)
T ss_dssp ---------------------------
T ss_pred cHHHHHHHHhccCccccCCcccCcchh
Confidence 56666677744 468888877766664
No 65
>PF01690 PLRV_ORF5: Potato leaf roll virus readthrough protein; InterPro: IPR002929 This family consists mainly of the Potato leafroll virus (PLrV) read through protein otherwise known as the minor capsid protein. This is generated via a readthrough of open reading frame 3, the coat protein, allowing transcription of open reading frame 5 to give an extended coat protein with a large C-terminal addition or read through domain []. The read through protein is essential for the circulative aphid transmission of PLrV [] and Beet western yellows virus []. The N-terminal region of the luteovirus readthrough domain determines virus binding to Buchnera GroEL and is essential for virus persistence in the aphid [].; GO: 0019028 viral capsid
Probab=25.89 E-value=53 Score=35.05 Aligned_cols=9 Identities=0% Similarity=0.512 Sum_probs=5.6
Q ss_pred EeEEEEecC
Q 012649 156 HYDIDVKPD 164 (459)
Q Consensus 156 ~YdV~i~p~ 164 (459)
.|+|.|+-+
T Consensus 100 ~~sV~isce 108 (465)
T PF01690_consen 100 KWSVEISCE 108 (465)
T ss_pred eEEEEEEec
Confidence 466677654
No 66
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=25.71 E-value=1.1e+02 Score=29.47 Aligned_cols=9 Identities=33% Similarity=0.021 Sum_probs=3.8
Q ss_pred Cccchhhhh
Q 012649 89 VVRPVVAEI 97 (459)
Q Consensus 89 ~~~~~~~~~ 97 (459)
...-+|+..
T Consensus 50 ~E~~~v~~~ 58 (233)
T PF11705_consen 50 EERYLVALK 58 (233)
T ss_pred HHHHHHHHH
Confidence 344444443
No 67
>KOG3262 consensus H/ACA small nucleolar RNP component GAR1 [Translation, ribosomal structure and biogenesis]
Probab=24.87 E-value=61 Score=30.36 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=4.5
Q ss_pred eEEeEEEEec
Q 012649 154 IRHYDIDVKP 163 (459)
Q Consensus 154 iy~YdV~i~p 163 (459)
|-.+.|+|++
T Consensus 101 i~d~~fsIK~ 110 (215)
T KOG3262|consen 101 INDVHFSIKP 110 (215)
T ss_pred ccccEEEEec
Confidence 3444444444
No 68
>PF05518 Totivirus_coat: Totivirus coat protein; InterPro: IPR008871 This family of proteins contain the coat proteins of the Totiviruses.
Probab=24.78 E-value=3.7e+02 Score=30.70 Aligned_cols=7 Identities=29% Similarity=0.558 Sum_probs=2.7
Q ss_pred CCCCCCC
Q 012649 44 RSAPSPG 50 (459)
Q Consensus 44 ~~~~~~~ 50 (459)
|-.|.++
T Consensus 684 P~~~~~~ 690 (759)
T PF05518_consen 684 PLRPTPH 690 (759)
T ss_pred CCCcccc
Confidence 3333333
No 69
>COG3941 Mu-like prophage protein [General function prediction only]
Probab=24.60 E-value=94 Score=34.10 Aligned_cols=21 Identities=29% Similarity=0.476 Sum_probs=16.7
Q ss_pred ccccCCCCCCCCCCCCCCCCC
Q 012649 30 FRHHQPRPQQPQWRRSAPSPG 50 (459)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~ 50 (459)
++..||-|-.++-|.+|+.|.
T Consensus 429 ~~~gr~~~k~t~~r~~p~rp~ 449 (633)
T COG3941 429 FVTGRPVPKGTSTRESPRRPA 449 (633)
T ss_pred eeecCCcCCCCcccCCCCCCC
Confidence 378899999998887776665
No 70
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=23.03 E-value=3.1e+02 Score=28.34 Aligned_cols=13 Identities=31% Similarity=0.307 Sum_probs=7.0
Q ss_pred CCCCCCCCCCCCC
Q 012649 7 RGRGRGRGGRDGG 19 (459)
Q Consensus 7 ~~~~~~~~~~~~~ 19 (459)
.|++|=++|+.||
T Consensus 192 ~G~~R~~~~~~~G 204 (498)
T KOG4849|consen 192 MGTIRIGAGGQTG 204 (498)
T ss_pred ccceeecCCCCCC
Confidence 3555655555554
No 71
>PLN03138 Protein TOC75; Provisional
Probab=22.98 E-value=60 Score=37.18 Aligned_cols=12 Identities=8% Similarity=0.141 Sum_probs=5.4
Q ss_pred eEEEEEEEEeee
Q 012649 232 RTYVFTIKLVNE 243 (459)
Q Consensus 232 ~~~~V~Ik~~~~ 243 (459)
....|.|++..+
T Consensus 343 ~i~~I~V~~~dr 354 (796)
T PLN03138 343 DITKVVIQFQDK 354 (796)
T ss_pred cEEEEEEEeccc
Confidence 344455544333
No 72
>PRK10864 putative methyltransferase; Provisional
Probab=22.77 E-value=2.1e+02 Score=29.54 Aligned_cols=10 Identities=10% Similarity=0.198 Sum_probs=4.8
Q ss_pred ccccccCCCc
Q 012649 380 MCFTFARCTK 389 (459)
Q Consensus 380 l~~~f~r~t~ 389 (459)
.+..|...+.
T Consensus 293 ~aLV~GnE~~ 302 (346)
T PRK10864 293 MVLVLGQEYD 302 (346)
T ss_pred eEEEECCCCC
Confidence 4445555443
No 73
>PF12300 DUF3628: Protein of unknown function (DUF3628); InterPro: IPR022077 Proteins in this entry are DEAD Box RhlB RNA Helicases found in Xanthomonadaceae bacteria.; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=22.75 E-value=3e+02 Score=25.21 Aligned_cols=6 Identities=50% Similarity=1.010 Sum_probs=2.9
Q ss_pred CCCCCC
Q 012649 12 GRGGRD 17 (459)
Q Consensus 12 ~~~~~~ 17 (459)
++.|.+
T Consensus 65 ~RsG~~ 70 (180)
T PF12300_consen 65 GRSGSG 70 (180)
T ss_pred CCCCCC
Confidence 555443
No 74
>PHA03356 tegument protein UL11; Provisional
Probab=22.65 E-value=1.3e+02 Score=24.52 Aligned_cols=16 Identities=38% Similarity=0.432 Sum_probs=9.0
Q ss_pred CCCCCCCCCCCCCCCCC
Q 012649 34 QPRPQQPQWRRSAPSPG 50 (459)
Q Consensus 34 ~~~~~~~~~~~~~~~~~ 50 (459)
+||++| |+|++.|+.-
T Consensus 57 qpp~~q-~~r~~~ppsr 72 (93)
T PHA03356 57 QPPGRQ-PPRPSGPPSR 72 (93)
T ss_pred cCCCCC-CCCCCCCCCc
Confidence 455556 4666666554
No 75
>PF04834 Adeno_E3_14_5: Early E3 14.5 kDa protein; InterPro: IPR008131 The E3B 14.5 kDa was first identified in human adenovirus type 5. It is an integral membrane protein oriented with its C terminus in the cytoplasm. It functions to down-regulate the epidermal growth factor receptor and prevent tumour necrosis factor cytolysis. It achieves this through the interaction with E3 10.4 kDa protein [, ]. ; GO: 0009966 regulation of signal transduction, 0016021 integral to membrane
Probab=22.58 E-value=80 Score=26.45 Aligned_cols=10 Identities=20% Similarity=0.235 Sum_probs=5.2
Q ss_pred ccccCCCCCC
Q 012649 30 FRHHQPRPQQ 39 (459)
Q Consensus 30 ~~~~~~~~~~ 39 (459)
+.++|=.+..
T Consensus 47 f~~gWn~~~~ 56 (97)
T PF04834_consen 47 FDFGWNHPFA 56 (97)
T ss_pred eeccccCccc
Confidence 3455655554
No 76
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=22.45 E-value=1.8e+02 Score=27.06 Aligned_cols=7 Identities=57% Similarity=0.847 Sum_probs=3.9
Q ss_pred CCCCCCC
Q 012649 34 QPRPQQP 40 (459)
Q Consensus 34 ~~~~~~~ 40 (459)
|.+|++|
T Consensus 135 ~~~~~~~ 141 (177)
T PRK09010 135 WGQPQQP 141 (177)
T ss_pred CCCCCCC
Confidence 5555553
No 77
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=22.32 E-value=3.2e+02 Score=29.31 Aligned_cols=10 Identities=10% Similarity=0.242 Sum_probs=4.3
Q ss_pred cHHHHHHHHh
Q 012649 335 PVIDFLQEHI 344 (459)
Q Consensus 335 ~lld~i~e~~ 344 (459)
+|+.-|+.++
T Consensus 503 Tll~niq~ll 512 (641)
T KOG3915|consen 503 TLLTNIQGLL 512 (641)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 78
>PRK10263 DNA translocase FtsK; Provisional
Probab=21.49 E-value=1.6e+02 Score=35.84 Aligned_cols=15 Identities=13% Similarity=0.645 Sum_probs=10.8
Q ss_pred CceeEEeEEEEecCC
Q 012649 151 ESTIRHYDIDVKPDI 165 (459)
Q Consensus 151 ~~~iy~YdV~i~p~~ 165 (459)
.-.|.+|.|+..+-+
T Consensus 913 GP~vtr~ev~l~pGv 927 (1355)
T PRK10263 913 GPVITRFELNLAPGV 927 (1355)
T ss_pred CCEEEEEEEEeCCCC
Confidence 457889988876643
No 79
>PF01690 PLRV_ORF5: Potato leaf roll virus readthrough protein; InterPro: IPR002929 This family consists mainly of the Potato leafroll virus (PLrV) read through protein otherwise known as the minor capsid protein. This is generated via a readthrough of open reading frame 3, the coat protein, allowing transcription of open reading frame 5 to give an extended coat protein with a large C-terminal addition or read through domain []. The read through protein is essential for the circulative aphid transmission of PLrV [] and Beet western yellows virus []. The N-terminal region of the luteovirus readthrough domain determines virus binding to Buchnera GroEL and is essential for virus persistence in the aphid [].; GO: 0019028 viral capsid
Probab=21.38 E-value=78 Score=33.84 Aligned_cols=10 Identities=20% Similarity=0.335 Sum_probs=4.6
Q ss_pred EEEEeeEEEe
Q 012649 137 VNIFVNHFPV 146 (459)
Q Consensus 137 V~L~tN~F~l 146 (459)
|.|.|.=|..
T Consensus 103 V~isceG~q~ 112 (465)
T PF01690_consen 103 VEISCEGYQA 112 (465)
T ss_pred EEEEecceec
Confidence 4455544443
No 80
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=20.64 E-value=2.2e+02 Score=31.06 Aligned_cols=10 Identities=20% Similarity=0.371 Sum_probs=5.9
Q ss_pred eeEEeEEEEe
Q 012649 153 TIRHYDIDVK 162 (459)
Q Consensus 153 ~iy~YdV~i~ 162 (459)
.+..|+|-+.
T Consensus 369 ~~nEyevvYi 378 (574)
T PF07462_consen 369 GINEYEVVYI 378 (574)
T ss_pred cCCccceEEe
Confidence 4566666653
No 81
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=20.63 E-value=99 Score=32.16 Aligned_cols=17 Identities=24% Similarity=0.442 Sum_probs=9.7
Q ss_pred CCCCCCCCCcceeEEEEe
Q 012649 124 KRPDGGGTLAIRTVNIFV 141 (459)
Q Consensus 124 ~RP~~Gt~~~G~~V~L~t 141 (459)
.|||.-++ .+.+|-|.|
T Consensus 110 ~R~g~es~-~pN~VLl~T 126 (494)
T KOG1456|consen 110 ERPGDESA-TPNKVLLFT 126 (494)
T ss_pred ccCCCCCC-CCCeEEEEE
Confidence 57776543 355665554
No 82
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.53 E-value=5e+02 Score=30.26 Aligned_cols=9 Identities=11% Similarity=0.109 Sum_probs=4.1
Q ss_pred EEEeeEEEe
Q 012649 138 NIFVNHFPV 146 (459)
Q Consensus 138 ~L~tN~F~l 146 (459)
-+.||||-.
T Consensus 272 l~TTd~~~~ 280 (1007)
T KOG1984|consen 272 LVTTDFFIQ 280 (1007)
T ss_pred CcccceEEe
Confidence 344455443
No 83
>PF15359 CDV3: Carnitine deficiency-associated protein 3
Probab=20.32 E-value=5.7e+02 Score=22.57 Aligned_cols=10 Identities=0% Similarity=0.006 Sum_probs=5.5
Q ss_pred Cccchhhhhh
Q 012649 89 VVRPVVAEIQ 98 (459)
Q Consensus 89 ~~~~~~~~~~ 98 (459)
-||+|.++.+
T Consensus 115 ~FPSL~stak 124 (129)
T PF15359_consen 115 QFPSLQSTAK 124 (129)
T ss_pred cccchHHHhh
Confidence 4566655554
Done!