Query 041430
Match_columns 1197
No_of_seqs 314 out of 512
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:58:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041430.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041430hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0988 RNA-directed RNA polym 100.0 1E-187 2E-192 1691.0 63.9 1106 5-1194 3-1140(1145)
2 PF05183 RdRP: RNA dependent R 100.0 3E-124 7E-129 1143.2 19.9 544 421-1003 1-573 (579)
3 PLN03134 glycine-rich RNA-bind 98.5 5.2E-07 1.1E-11 92.7 11.4 83 10-116 32-114 (144)
4 PF14259 RRM_6: RNA recognitio 98.4 1.1E-06 2.3E-11 78.1 8.9 70 15-109 1-70 (70)
5 PLN03120 nucleic acid binding 98.4 1.3E-06 2.9E-11 96.6 9.9 77 10-114 2-78 (260)
6 PF00076 RRM_1: RNA recognitio 98.4 1.8E-06 3.9E-11 75.7 8.9 70 15-109 1-70 (70)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 98.1 7.6E-06 1.6E-10 94.9 10.1 77 12-112 3-79 (352)
8 smart00360 RRM RNA recognition 98.1 1E-05 2.2E-10 69.5 8.2 71 17-111 1-71 (71)
9 TIGR01659 sex-lethal sex-letha 98.1 8.6E-06 1.9E-10 95.0 10.1 81 8-112 103-183 (346)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 98.1 9.1E-06 2E-10 94.2 10.0 76 13-112 270-345 (352)
11 smart00362 RRM_2 RNA recogniti 98.1 1.7E-05 3.6E-10 68.4 9.0 72 14-111 1-72 (72)
12 TIGR01659 sex-lethal sex-letha 98.0 2.4E-05 5.2E-10 91.4 9.8 84 11-116 192-275 (346)
13 cd00590 RRM RRM (RNA recogniti 97.9 5.6E-05 1.2E-09 65.5 9.4 73 14-111 1-73 (74)
14 PLN03121 nucleic acid binding 97.9 3.5E-05 7.7E-10 84.4 9.8 74 11-112 4-77 (243)
15 KOG0117 Heterogeneous nuclear 97.9 2.7E-05 5.9E-10 90.2 8.7 80 10-112 81-160 (506)
16 TIGR01622 SF-CC1 splicing fact 97.9 4.5E-05 9.8E-10 91.8 10.2 80 9-113 86-165 (457)
17 TIGR01645 half-pint poly-U bin 97.8 5.8E-05 1.3E-09 93.3 9.5 78 11-112 203-280 (612)
18 TIGR01645 half-pint poly-U bin 97.7 0.0001 2.2E-09 91.2 9.9 78 11-112 106-183 (612)
19 TIGR01628 PABP-1234 polyadenyl 97.7 0.00014 3.1E-09 90.1 10.5 77 13-113 1-77 (562)
20 TIGR01648 hnRNP-R-Q heterogene 97.7 0.00013 2.7E-09 90.1 9.5 77 11-111 57-133 (578)
21 TIGR01622 SF-CC1 splicing fact 97.6 0.00022 4.7E-09 86.0 10.4 79 12-114 186-264 (457)
22 TIGR01628 PABP-1234 polyadenyl 97.6 0.0002 4.3E-09 88.8 10.2 80 11-115 284-363 (562)
23 TIGR01642 U2AF_lg U2 snRNP aux 97.5 0.00026 5.7E-09 86.4 10.1 79 12-114 295-373 (509)
24 COG0724 RNA-binding proteins ( 97.5 0.00031 6.7E-09 75.8 9.4 78 12-113 115-192 (306)
25 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.5 0.00024 5.2E-09 86.6 9.1 74 12-113 2-75 (481)
26 TIGR01642 U2AF_lg U2 snRNP aux 97.4 0.00031 6.7E-09 85.8 8.7 74 9-112 172-256 (509)
27 KOG4208 Nucleolar RNA-binding 97.4 0.00035 7.6E-09 74.5 6.9 77 13-112 50-126 (214)
28 KOG0149 Predicted RNA-binding 97.4 0.00056 1.2E-08 74.3 8.4 87 2-113 2-88 (247)
29 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.3 0.0014 3E-08 80.1 12.0 77 11-116 274-351 (481)
30 smart00361 RRM_1 RNA recogniti 97.2 0.0015 3.1E-08 58.9 7.8 65 26-111 2-70 (70)
31 KOG0148 Apoptosis-promoting RN 97.1 0.0015 3.2E-08 72.2 7.9 97 11-111 5-137 (321)
32 PLN03213 repressor of silencin 96.9 0.0033 7.1E-08 73.8 9.5 82 1-112 1-84 (759)
33 KOG0122 Translation initiation 96.7 0.0043 9.2E-08 67.9 7.9 77 11-111 188-264 (270)
34 KOG0117 Heterogeneous nuclear 96.7 0.0042 9.2E-08 72.6 7.7 78 4-113 250-328 (506)
35 TIGR01648 hnRNP-R-Q heterogene 96.6 0.0049 1.1E-07 76.4 8.8 81 12-112 138-218 (578)
36 KOG4212 RNA-binding protein hn 96.6 0.0058 1.3E-07 71.1 8.4 79 13-115 45-123 (608)
37 PF13893 RRM_5: RNA recognitio 96.6 0.0096 2.1E-07 50.9 7.5 54 29-111 1-54 (56)
38 KOG0105 Alternative splicing f 96.4 0.0054 1.2E-07 64.5 6.2 76 11-113 5-80 (241)
39 KOG0153 Predicted RNA-binding 96.4 0.0094 2E-07 68.1 8.2 82 2-112 218-299 (377)
40 KOG0127 Nucleolar protein fibr 96.1 0.023 5E-07 68.1 9.6 81 11-113 291-375 (678)
41 KOG0148 Apoptosis-promoting RN 96.1 0.02 4.4E-07 63.5 8.5 79 11-119 163-241 (321)
42 KOG0108 mRNA cleavage and poly 95.9 0.016 3.5E-07 69.6 7.5 82 13-118 19-100 (435)
43 KOG0131 Splicing factor 3b, su 95.8 0.014 3E-07 61.7 5.6 80 11-114 8-87 (203)
44 KOG0123 Polyadenylate-binding 95.7 0.024 5.3E-07 67.1 7.8 75 14-115 78-152 (369)
45 KOG0124 Polypyrimidine tract-b 95.3 0.039 8.4E-07 63.1 7.0 81 11-117 209-290 (544)
46 KOG0127 Nucleolar protein fibr 95.0 0.047 1E-06 65.5 6.9 77 12-112 5-81 (678)
47 KOG0107 Alternative splicing f 95.0 0.073 1.6E-06 56.1 7.5 74 11-116 9-85 (195)
48 KOG0111 Cyclophilin-type pepti 94.8 0.025 5.5E-07 60.9 3.8 78 10-111 8-85 (298)
49 KOG0144 RNA-binding protein CU 94.4 0.077 1.7E-06 62.3 6.8 81 10-112 32-113 (510)
50 KOG0116 RasGAP SH3 binding pro 94.3 0.084 1.8E-06 63.2 7.1 76 11-111 287-362 (419)
51 KOG4205 RNA-binding protein mu 94.1 0.074 1.6E-06 61.5 5.8 77 12-113 97-173 (311)
52 KOG0113 U1 small nuclear ribon 93.4 0.28 6.1E-06 55.5 8.5 78 11-112 100-177 (335)
53 PF04059 RRM_2: RNA recognitio 93.3 0.33 7.2E-06 47.1 7.8 66 12-98 1-67 (97)
54 KOG4206 Spliceosomal protein s 93.3 0.25 5.5E-06 54.0 7.8 80 14-120 11-94 (221)
55 KOG0125 Ataxin 2-binding prote 93.0 0.4 8.7E-06 54.9 9.1 84 4-113 88-171 (376)
56 KOG4207 Predicted splicing fac 92.9 0.22 4.8E-06 53.7 6.5 76 12-113 13-90 (256)
57 KOG0123 Polyadenylate-binding 92.9 0.15 3.3E-06 60.5 5.8 83 9-116 267-349 (369)
58 KOG0121 Nuclear cap-binding pr 92.8 0.35 7.6E-06 48.8 7.2 79 9-111 33-111 (153)
59 KOG4205 RNA-binding protein mu 92.3 0.13 2.8E-06 59.5 4.1 74 12-110 6-79 (311)
60 KOG0145 RNA-binding protein EL 92.0 0.49 1.1E-05 52.5 7.8 76 12-111 41-116 (360)
61 KOG4211 Splicing factor hnRNP- 91.5 0.41 8.9E-06 57.4 7.1 75 11-113 9-83 (510)
62 KOG0110 RNA-binding protein (R 91.5 0.46 1E-05 59.1 7.8 79 15-114 518-596 (725)
63 KOG0129 Predicted RNA-binding 91.1 0.45 9.7E-06 57.4 6.9 65 11-96 369-433 (520)
64 KOG0132 RNA polymerase II C-te 90.9 0.47 1E-05 59.5 7.0 72 10-111 419-490 (894)
65 KOG0109 RNA-binding protein LA 90.6 0.44 9.6E-06 53.8 5.8 69 15-117 5-74 (346)
66 KOG4211 Splicing factor hnRNP- 90.5 0.47 1E-05 56.9 6.3 80 11-115 102-181 (510)
67 KOG4209 Splicing factor RNPS1, 90.3 0.44 9.6E-06 53.1 5.6 81 7-112 96-176 (231)
68 KOG0144 RNA-binding protein CU 89.8 0.4 8.6E-06 56.6 4.9 84 5-111 115-201 (510)
69 PF14605 Nup35_RRM_2: Nup53/35 89.7 0.8 1.7E-05 39.5 5.5 52 13-93 2-53 (53)
70 KOG1457 RNA binding protein (c 88.8 1.8 4E-05 47.4 8.6 85 11-119 33-121 (284)
71 KOG0114 Predicted RNA-binding 87.1 2.6 5.6E-05 41.4 7.6 74 11-111 17-90 (124)
72 PF11608 Limkain-b1: Limkain b 86.5 1.9 4.2E-05 40.8 6.2 72 11-113 1-74 (90)
73 PF08777 RRM_3: RNA binding mo 86.4 1.4 3.1E-05 43.3 5.7 70 14-111 3-75 (105)
74 KOG0147 Transcriptional coacti 86.2 0.98 2.1E-05 55.0 5.3 74 15-112 281-354 (549)
75 KOG0147 Transcriptional coacti 86.0 0.42 9.1E-06 58.0 2.2 85 5-114 172-256 (549)
76 KOG0109 RNA-binding protein LA 84.1 1.1 2.3E-05 50.8 4.1 72 9-112 75-146 (346)
77 PF05172 Nup35_RRM: Nup53/35/4 82.9 4.9 0.00011 39.3 7.6 79 12-109 6-84 (100)
78 KOG0130 RNA-binding protein RB 82.9 2.4 5.2E-05 43.3 5.5 75 12-110 72-146 (170)
79 KOG1365 RNA-binding protein Fu 80.7 1.7 3.6E-05 50.9 4.0 73 13-111 162-238 (508)
80 KOG0145 RNA-binding protein EL 79.7 1.9 4E-05 48.2 3.8 63 11-95 126-188 (360)
81 KOG0124 Polypyrimidine tract-b 79.5 2.9 6.2E-05 48.5 5.4 75 14-112 115-189 (544)
82 KOG0533 RRM motif-containing p 78.0 6.5 0.00014 44.3 7.5 78 10-112 81-158 (243)
83 KOG0146 RNA-binding protein ET 77.8 4.4 9.6E-05 45.5 6.0 75 14-112 287-361 (371)
84 KOG0110 RNA-binding protein (R 76.4 4.2 9.2E-05 51.1 5.9 73 12-107 613-685 (725)
85 KOG0126 Predicted RNA-binding 74.5 0.88 1.9E-05 48.5 -0.4 76 12-111 35-110 (219)
86 smart00663 RPOLA_N RNA polymer 72.3 4.9 0.00011 46.6 4.9 52 809-872 198-252 (295)
87 KOG0131 Splicing factor 3b, su 71.6 6.5 0.00014 42.2 5.1 80 11-113 95-174 (203)
88 KOG4454 RNA binding protein (R 69.7 3.2 6.9E-05 45.6 2.5 81 10-116 7-87 (267)
89 KOG0226 RNA-binding proteins [ 69.3 7.2 0.00016 43.8 5.1 75 13-111 191-265 (290)
90 KOG4212 RNA-binding protein hn 65.6 12 0.00027 44.6 6.2 72 11-111 535-606 (608)
91 PF00623 RNA_pol_Rpb1_2: RNA p 65.0 5.8 0.00013 42.2 3.3 52 810-873 95-149 (166)
92 KOG1548 Transcription elongati 64.9 23 0.00051 41.5 8.1 77 11-112 133-217 (382)
93 KOG1457 RNA binding protein (c 64.8 6.9 0.00015 43.1 3.8 66 5-96 203-268 (284)
94 KOG4660 Protein Mei2, essentia 64.2 9.6 0.00021 46.9 5.2 80 5-114 68-147 (549)
95 KOG1190 Polypyrimidine tract-b 62.6 12 0.00026 44.5 5.4 72 12-111 414-486 (492)
96 KOG4210 Nuclear localization s 61.3 5.9 0.00013 45.7 2.7 77 11-112 183-260 (285)
97 KOG0120 Splicing factor U2AF, 57.8 7.7 0.00017 47.8 3.0 82 11-112 174-256 (500)
98 KOG1365 RNA-binding protein Fu 56.9 17 0.00037 42.9 5.4 83 11-117 279-363 (508)
99 PF10309 DUF2414: Protein of u 55.5 30 0.00066 31.1 5.5 56 11-95 4-61 (62)
100 KOG1996 mRNA splicing factor [ 55.5 30 0.00064 39.7 6.7 65 24-111 290-362 (378)
101 KOG4307 RNA binding protein RB 54.3 19 0.00042 45.3 5.5 60 13-94 868-927 (944)
102 CHL00018 rpoC1 RNA polymerase 50.3 15 0.00032 46.8 3.8 52 809-872 443-497 (663)
103 TIGR02387 rpoC1_cyan DNA-direc 48.0 16 0.00035 46.0 3.6 51 810-872 416-469 (619)
104 PRK02625 rpoC1 DNA-directed RN 45.8 25 0.00054 44.5 4.8 52 809-872 422-476 (627)
105 KOG0129 Predicted RNA-binding 42.4 69 0.0015 39.5 7.5 82 10-112 257-339 (520)
106 KOG1995 Conserved Zn-finger pr 37.8 47 0.001 39.2 5.1 91 10-117 64-155 (351)
107 KOG4660 Protein Mei2, essentia 36.9 36 0.00078 42.2 4.1 26 72-97 427-452 (549)
108 KOG0106 Alternative splicing f 36.0 29 0.00063 38.6 2.9 56 13-98 2-57 (216)
109 KOG4661 Hsp27-ERE-TATA-binding 35.1 75 0.0016 39.4 6.3 83 10-117 403-485 (940)
110 PRK14906 DNA-directed RNA poly 34.4 36 0.00077 46.8 3.8 53 809-873 492-547 (1460)
111 KOG1855 Predicted RNA-binding 33.0 53 0.0011 39.7 4.5 92 4-109 223-319 (484)
112 TIGR02390 RNA_pol_rpoA1 DNA-di 32.6 56 0.0012 43.5 5.2 53 809-873 407-462 (868)
113 cd01213 tensin Tensin Phosphot 31.9 1.8E+02 0.0039 30.4 7.6 87 415-540 47-134 (138)
114 TIGR02386 rpoC_TIGR DNA-direct 31.4 44 0.00096 45.3 4.0 52 810-873 397-451 (1140)
115 PRK09603 bifunctional DNA-dire 30.1 58 0.0013 47.7 4.9 53 809-873 1803-1858(2890)
116 PRK08566 DNA-directed RNA poly 28.4 54 0.0012 43.8 4.0 53 809-873 411-466 (882)
117 PRK00566 DNA-directed RNA poly 27.7 57 0.0012 44.4 4.0 52 810-873 405-459 (1156)
118 KOG4307 RNA binding protein RB 26.5 98 0.0021 39.5 5.4 72 13-116 3-77 (944)
119 KOG2202 U2 snRNP splicing fact 24.9 48 0.001 37.6 2.3 47 72-120 106-152 (260)
120 KOG0106 Alternative splicing f 24.4 74 0.0016 35.5 3.6 69 11-111 98-166 (216)
121 KOG0415 Predicted peptidyl pro 23.6 1.6E+02 0.0034 35.0 6.0 60 16-97 243-302 (479)
122 KOG4676 Splicing factor, argin 21.7 1.8E+02 0.004 34.9 6.2 77 14-112 9-85 (479)
123 PRK14844 bifunctional DNA-dire 21.5 75 0.0016 46.5 3.5 53 809-873 1847-1902(2836)
No 1
>KOG0988 consensus RNA-directed RNA polymerase QDE-1 required for posttranscriptional gene silencing and RNA interference [RNA processing and modification]
Probab=100.00 E-value=1e-187 Score=1690.97 Aligned_cols=1106 Identities=34% Similarity=0.485 Sum_probs=892.7
Q ss_pred cccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCC-CCCCccccccccccccCCCCCccceEEEEe
Q 041430 5 GREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSE-SYPDFYVTNTAEVRKTDDYEKVEPHAFVHF 83 (1197)
Q Consensus 5 ~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F 83 (1197)
+.+...++.++.++||+++.+|.++.+|+|..+|.+|+|.++.+||+|- +|++|.+.|...++....+ ...|+|+|+|
T Consensus 3 ~~~~~~~~~~~~~~~f~e~~~~~~~~~f~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~f~~i~l~~~~-~~~~~a~v~f 81 (1145)
T KOG0988|consen 3 SNAQLQVVEEQDCNGFPESNSAVELGDFLELLIGAITVYLLKMNTTKPYRPNRVYHGSDFTSIALDCSG-IETPLAKVYF 81 (1145)
T ss_pred cccceeeeeeeeccCcccchhHHHhhhHHHHHhcchHHHHHhcCCCCCCCCcccccccccccccccccc-chhhHHHHhh
Confidence 4455668999999999999999999999999999999999999999996 9999999999999998865 8899999999
Q ss_pred cChHHHHHHHHhccCCceeecCeeeeeecCCCCCccccCCCCCCCceeecCcEEEEeeeecC---CeEEEEEecCCCCee
Q 041430 84 AMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSR---DEFFVAWRGPASGTD 160 (1197)
Q Consensus 84 ~~~~~a~~a~~~a~~~~l~~~~~~lkv~~~~~~~~~~~~~~~~~~~~~~~~~~l~~G~~~~~---~~~~~~~~~~~~~v~ 160 (1197)
....+ ..+.+.++ ...+++....++..+||........+...+++.|+++... +...|-|.. .++
T Consensus 82 ~~~~~-~~~~e~~~--------~~~~l~~~a~~~~~l~~i~~~~~F~~~~~~t~~~~~~~~~~v~~~v~V~~~~---~~~ 149 (1145)
T KOG0988|consen 82 KHNQG-LNPWEVET--------SRRILSSLAVIRESLNQIVLEKVFDKPDGITKTFDCLESYKVNDQVTVRGSP---VRR 149 (1145)
T ss_pred ccCCC-CCccchhh--------hhhhccccccchHHHhhHHHhhccCcccceeeeecceEEEeecceEEEeccc---eee
Confidence 99987 33344433 1223332233566677776666667777889999999999 899998876 478
Q ss_pred EEecCCCCceeEeeeccchhhccCCccccccccceEEEEeeceeeeEEEEecCCceEEEEEeccCCeeeeeccCCCcccc
Q 041430 161 FLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVL 240 (1197)
Q Consensus 161 ~~v~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~k~~~~~~~i~~~~~~~~~~~~~l~~~l~~~P~i~~~~~~~~~~~~ 240 (1197)
+.++|+...|+++.- |.+.-...++...||++..-... +-....+... .....+++...|..+....+ .
T Consensus 150 ~~~~p~~~~~~~~v~----f~~~~~~~i~~~~~D~~~~s~~~-~~~~~~~~~~-G~~k~~~~~~~p~~~~~~~~-----~ 218 (1145)
T KOG0988|consen 150 IVESPVVEYCKLCVP----FEHSCRVLIETVSLDLDKPSIIR-YPKSRRYLDN-GGSKYFRFAFSPLLLALGDS-----E 218 (1145)
T ss_pred eeecccccccccccc----hhhcchhheeeEEeccCcchhcc-Ccchhhhhhc-CccceeecccccHHHhhccc-----e
Confidence 999999888884432 11112222223344444333222 1222222222 22347788888877755433 1
Q ss_pred cccCCCC-CCCCceeecCCCCCCCccceEEEEEEEecCCcccHHHHHHHHhcccceeecCCCCceeccCCCCCCCCCCcc
Q 041430 241 VPFDMLD-DDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPF 319 (1197)
Q Consensus 241 ~~~~~~~-~~~~w~R~td~~~~~~ig~~~~y~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 319 (1197)
.-|.... .+.+|+|+|||++..++|+|+++++++... +-..++|.+.++......+..+.+..++.++.+.. .+
T Consensus 219 ~Ef~k~~~~~~~~i~~~~~~~~~~v~~eta~~~eI~~~----i~~~lP~~r~~~~~~~~~~~s~~ir~~~~~~~~~~-~~ 293 (1145)
T KOG0988|consen 219 LEFKKDFLADLLYIRTTDLRSRTGVGIETASCDEIRVP----IWKDLPYNRYNGSTAEEFRLSVWIRLGSKYDVSSA-QL 293 (1145)
T ss_pred eeeecccccccceeeecceeccccccceeeccceecch----hhccCCcccccccchhhhhhhhheecccccccccc-ee
Confidence 1122222 488999999999999999999999999874 22223444443322111233455556666653222 22
Q ss_pred ccccccCCCcchHHHHHHHHHHcCCCCcc------cchHHHHHHHhcCCh---hHHHHHHHHHHcCCCCccchHHHHHHH
Q 041430 320 FCIHYEEGISFEIMFLVNAVMHKGIINQH------QLSDSFFDLLRGQSR---EVNVAALKHIYSYKWPVFDACKRLKLV 390 (1197)
Q Consensus 320 ~~~~~~~~l~f~v~fql~~Lv~~g~l~~~------~~~~~f~~~l~~~~~---~~~~~al~~l~~~~~~~~d~~~~l~~~ 390 (1197)
..+. ...+|.+.|.+|+|+++|-|..+ +...+|+.++..... .+..+.|++|+....+||||..+.+..
T Consensus 294 ~~l~--~~~~~git~~~e~l~~r~slv~dq~~~~~~~~~~f~~l~~~~~~~d~~v~~a~LekL~~~~~~cfd~~~~~k~i 371 (1145)
T KOG0988|consen 294 VPLN--DERDFGITHLYECLVSRGSLVKDQVLLEEAHLLEFLGLLRHKVLGDDNVLEAKLEKLLKLSTKCFDPYCQYKKI 371 (1145)
T ss_pred eecc--ccccccceeehhhhhcccchhhhhHHhhhhHHHHHHHHHhhhhccchhHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence 2222 24566777777777775554444 455778888876543 667788999999999999999999988
Q ss_pred HHHHhcCCCCCCCCCCCCCeEEEEEEEEcCCeeEecCCcccccchhhccCCCCCCcEEEEEEecCCcccccccccccccc
Q 041430 391 QEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIA 470 (1197)
Q Consensus 391 ~~~~~~~~~~~~~~~~~~~~~~v~rv~vTPtri~~~~P~~e~sNRvlR~f~~~~D~FLRV~F~DE~~~~l~~~~~~~~~~ 470 (1197)
+++...|.++.....+.++++.|+||+|||||+||.+||++++|||+|+|.+++++||||+|+||+++ +..+.++
T Consensus 372 ~~~~~~ng~~~~~~~~~~g~~~vrk~v~TPtrv~~~~PE~~~gNRVlR~f~~~~t~~lRvtF~De~~~-~~ir~~S---- 446 (1145)
T KOG0988|consen 372 AKLNPSNGKLVTTKEIMEGLRRVRKVVFTPTRVYLLAPEVEMGNRVLRKFDKDSTRFLRVTFRDEDNK-LKIRTLS---- 446 (1145)
T ss_pred HHHhcccCccccchhhhhcceeEEEEEEcCceeEecCchhhhcchhheeccccCceEEEEEEEccccc-cccccCC----
Confidence 87655666643333467899999999999999999999999999999999999999999999999986 4332222
Q ss_pred ccccccccccccchhhHHHHHHHHhhCCeEEeeEEEEEEEeecCCCCcCceEEEeCCCCCCHHHHHHHhCCCC-CCCHhH
Q 041430 471 PIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFT-DKNIAK 549 (1197)
Q Consensus 471 ~~~r~~~~~~~~~~~~i~~rv~~~L~~Gi~I~gR~y~FLa~S~SqlR~~s~wFfa~~~~lt~~~Ir~wmG~F~-~~~~aK 549 (1197)
...++.+|.||..+|++||.||+|.|+||||||||||+||.||++.+...++++||.|||+|. +.|++|
T Consensus 447 ----------~~~~t~l~~rv~~~L~~Gi~v~~r~y~FL~~s~sQlRdngy~m~~~s~~~~i~~iR~wmG~F~~i~nv~K 516 (1145)
T KOG0988|consen 447 ----------TGSRTKLDMRVNSYLTDGISVANRRYEFLAFSNSQLRDNGYFMARFSDKTKIEDIREWMGDFRDIDNVPK 516 (1145)
T ss_pred ----------cchhhHHHHHHHHHHhcccEEccceeEEEEecccccccCceEEeecCCCccHHHHHHHhcchhhccCHHH
Confidence 123689999999999999999999999999999999999999999998899999999999997 799999
Q ss_pred HHHHhhccCCCCccceee-CCCcccccCCCccCC----CcccccccccccHHHHHHHHHHcCCCCCCCCcEEEEeccCce
Q 041430 550 CAARMGQCFSSTYATVEV-PPTEVDPELPDIKRN----GYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCK 624 (1197)
Q Consensus 550 ~aARigq~FSsT~~tv~v-~~~~i~~~I~DI~~~----g~~FTDG~G~IS~~lA~~I~~~l~l~~~~~PSAfQiR~gG~K 624 (1197)
||||||||||+|+.|..+ +...+ ..+|||+++ +||||||||+||.++|++|++++++.. .+||||||||||+|
T Consensus 517 ~aARmGqCFs~Sr~T~~~~~~~~~-~~~~DI~~g~~g~~y~FSDGvG~iS~~~a~~vsq~~~~~~-~vPsaFQiR~~G~K 594 (1145)
T KOG0988|consen 517 LAARMGQCFSQSRGTGYVLERLDR-MCPPDIEGGKRGNNYCFSDGVGMISLQFAREVSQKRKFGK-AVPSAFQIRYGGYK 594 (1145)
T ss_pred HHhhcCcceecccccccccccccc-ccCCcccccccCCceeecCCcccccHHHHHHHHHHHcccc-cCChheeeeccCCc
Confidence 999999999999999877 55566 589999977 899999999999999999999999974 59999999999999
Q ss_pred eEEEecCCCCCCceeEecccccccccCCceEEEeeecCCccccccHHHHHHHhcCCCChHHHHHHHHHHHHHH--HHhhC
Q 041430 625 GVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKL--NQMLV 702 (1197)
Q Consensus 625 GvL~vdp~~~~g~~I~lR~Sm~KF~s~~~~LEI~~~S~~~p~~LNRQlI~iL~~lGVp~evF~~lq~~~l~~l--~~~l~ 702 (1197)
|||+|||... ..+.+|.||.||.|.+..++|+.|++++||+||||+|++|+.+||++++|+++|+..++.- ...+.
T Consensus 595 GVvav~Ps~~--~~~~~~~~~~~s~S~n~~~~v~~~~~f~~~~lnr~lI~Lls~~gv~n~~F~~il~~vle~~r~~~n~~ 672 (1145)
T KOG0988|consen 595 GVVAVDPSMD--KVLKLRDSMNKSQSFNSLLEVTPSSKFQPAFLNRQLITLLSYLGVLNKPFINILDQVLEKQRRITNRI 672 (1145)
T ss_pred ceEEeCccHh--hhhhhhhhhhhhhhhcceeeeeeccCCccccccHHHHHHHHhcCccchHHHHHHHHHHHHHHhhhhhh
Confidence 9999999864 3788999999999999999999999999999999999999999999999999999999843 33344
Q ss_pred CHHHHHHHHHHhh-ccccchHHHHHHCCCCCCCchHHHHHHHHHHHHHHHhhccceeeeccCceeEeeecCCCCCCCCCc
Q 041430 703 DSDVAFEVLTAAC-AEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQ 781 (1197)
Q Consensus 703 d~~~A~~~L~~~~-~~~~~~~~~ml~~Gf~~~~ePfl~~ll~~~~~~~L~~Lk~K~RI~Vp~s~~L~GV~DetG~L~~GE 781 (1197)
....+..+|.-.+ .+++++++.++..++.+.+|||+++||...+++.++.+|+|.||||+.||+||||+||||.||+||
T Consensus 673 e~~~~~~~l~~~~~m~~en~a~~~l~~~~~~D~EPflr~mL~~~~k~~~~~~kek~ripv~~Gr~lmGvvDETG~L~ygQ 752 (1145)
T KOG0988|consen 673 EELLDRAALNYGEQMDDENIAAMILKGFPRIDSEPFLRSMLSSLLKFTLQLLKEKIRIPVDLGRSLMGVVDETGILKYGQ 752 (1145)
T ss_pred hHHHHHHHhhhhhhccchHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHhcccccCcCCceeEeeeccccccccCe
Confidence 4444555554333 334555666666666677899999999999999999999999999999999999999999999999
Q ss_pred EEEEecCCccccccccCCCccccccceeEEeeeEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC
Q 041430 782 CFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS 861 (1197)
Q Consensus 782 Vfvq~s~~~~~~~~~~~g~~~~~~~~~~vi~G~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS 861 (1197)
||||++.+..+ +..++..|++|+|+|||||||||||||+++||++|+||||+|||||||||+||||+|||
T Consensus 753 VfVq~t~~~~~----------~~~~~~~vitG~VlvtKNPcLhpGDVRVl~AV~vp~L~h~~dvVvFPQkGpRphpdE~a 822 (1145)
T KOG0988|consen 753 VFVQYTKTIRN----------SDSGRKEVITGKVLVTKNPCLHPGDVRVLKAVYVPALEHMVDVVVFPQKGPRPHPDEMA 822 (1145)
T ss_pred EEEEEcccccc----------cccCCceEEEeeEEEecCCCCCCCceEEEEeeccHHHHhhcCEEEcCCCCCCCCccccc
Confidence 99999986321 12234589999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCeEEEeecCCcCCCCCCCCCCCCCChhhhcccCCCCChhHHHHHHHHhhccchhHhHHHHHHHHhccccCCCCC
Q 041430 862 GSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALD 941 (1197)
Q Consensus 862 GGDLDGD~y~ViWD~~Lvp~~~~~~~P~~Y~~~~~~~l~r~vt~~di~dffv~ym~~d~LG~Ian~Hl~~aD~~~~G~~d 941 (1197)
|||||||+|||||||+|+|+.++ +||+|++.+++.+.+.++.++|.+||++||++|+||+|||||+++||+ +|+.+
T Consensus 823 GsDLDGDeYfViWDqkLL~~~~~--epmd~~~~~sk~~~~~~~~~~m~effv~yL~~DslG~isnAhl~~aD~--~G~~~ 898 (1145)
T KOG0988|consen 823 GSDLDGDEYFVIWDQKLLPPRNE--EPMDSSSEKSKILDGRVPLDEMSEFFVEYLKEDSLGLISNAHLANADV--YGLFS 898 (1145)
T ss_pred cCCCCCceEEEEeChhhccCcCC--CccccCccccccccCCCCHHHHHHHHHHHHHHHHHHHHhhccccchhh--cchhh
Confidence 99999999999999999998743 999999999999999999999999999999999999999999999998 99999
Q ss_pred HHHHHHHHHHHhccCCCCCCCeeecCCCCCCCCCCCCCCCcccCCcccCChhcHHHHHhHhhhccccccccccccCCCCC
Q 041430 942 ENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDI 1021 (1197)
Q Consensus 942 ~~Cl~LA~L~S~AVDf~KTG~~v~~p~~l~pk~~PdFM~k~~~~~Y~S~kiLG~LYr~v~~~~~~~~~~~~~~~~~~~~~ 1021 (1197)
+.|+.||++||+||||||||+.+.||.+++|++|||||++.++++|.|++++|||||+++.+ ++.. ..++....+.++
T Consensus 899 ~~Cl~LA~k~~~AVDF~KsG~d~~~~~~ek~e~~PDfm~~~d~p~Y~S~~l~GkLfR~~~ai-d~~~-~~~e~~~~~~~i 976 (1145)
T KOG0988|consen 899 DVCLELAKKHSQAVDFPKSGADESMPEKEKPERYPDFMEKTDKPTYYSERLCGKLFREAKAI-DAPL-KGSEERSEQVEV 976 (1145)
T ss_pred HHHHHHHHhhcccccccccCCcccccchhchhhcchhhhCCCCceeecchhhhHHHHHHHhh-cchh-hcCccccCcccc
Confidence 99999999999999999999999999999999999999999999999999999999988553 2221 122222233348
Q ss_pred CCCCccCcCchhhHHHHHHHHHHHHHHHHHHHHHhcCCCchhhhhhc--ccccCCCcccchhHHHHHHHHHHHHHHHHHH
Q 041430 1022 HYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTG--HIWSMPKYNSRKQGELKERLKHSYSALRKEF 1099 (1197)
Q Consensus 1022 ~~D~~l~~~g~~~~l~~A~~~k~~Y~~~l~~lm~~y~i~tE~Ev~sG--~I~~~~~~~~~~~~d~~e~i~~~~~~L~~ef 1099 (1197)
+||++++++||++|++.|+++++.|+.+|++||.+|||.+|+||+|| .+..|+.+++.+..+ +++...+.+|++.|
T Consensus 977 ~yD~~l~v~gFe~yme~a~~~~~~y~~qL~slm~~ygi~~E~eI~sG~~~~ddms~~~t~~~~e--~~~~~l~~~~r~~~ 1054 (1145)
T KOG0988|consen 977 EYDEDLEVDGFEHYMERAKKQVASYNGQLRSLMDFYGISTEGEIFSGILDQDDMSFYNTERMIE--LKLERLVLKLREKF 1054 (1145)
T ss_pred cCCcccCcCCcHHHHHHHHHHHhhhhhHHHHHHHHhCccchhhhhccCccccchhhhcccccch--hhhHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999 666777776654443 57777888888888
Q ss_pred HHHHhccc------CCccccchhhhhHHHHHHHHHHHH-HhcchhhhhhhhhhhcccccCCcceeeecchHHHHHHHHHh
Q 041430 1100 RQVFEKMD------SDCELLSEDEKNALFERKASAWYQ-VTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKI 1172 (1197)
Q Consensus 1100 r~~f~~~~------~~~~~~~~~~~~~~~~~kAsA~Y~-Vty~~~~~~~~~~~~~~~~~~~~~~lSFpWi~~d~L~~I~~ 1172 (1197)
.++|.... +.++..+.+ +.+.+||+|||+ ++|+... ..+..+.+||||||+|+|++||.
T Consensus 1055 ~qef~~y~~~~e~l~~fe~~~~e---E~~~kKa~aWY~v~~ye~~~-----------~~~~~~~~SF~wia~Dvl~~iK~ 1120 (1145)
T KOG0988|consen 1055 FQEFGAYKLEIEKLSCFEDSPEE---EFIMKKASAWYRVYRYEMAQ-----------AMRETRKLSFAWIAYDVLARIKQ 1120 (1145)
T ss_pred HHHhhhhcchhhhccccccCchh---HHHHHHHHHHHHHHHhhhhc-----------ccccCcccchHHHHHHHHHHHHH
Confidence 88885221 223332222 226689999999 7776432 22445677999999999999999
Q ss_pred hcccccccCCCchHHHHHHHhh
Q 041430 1173 RCREMANIDTSKPVNYLARYVA 1194 (1197)
Q Consensus 1173 ~~~~~~~~~~~~~~~~~~~~~~ 1194 (1197)
. .. ..+...+|+.++.+-..
T Consensus 1121 ~-~~-~~~g~a~p~~tl~e~~~ 1140 (1145)
T KOG0988|consen 1121 T-FL-GAIGGANPVYTLEELHR 1140 (1145)
T ss_pred H-HH-HhhcccCchHHHHHhhH
Confidence 8 33 37889999999876544
No 2
>PF05183 RdRP: RNA dependent RNA polymerase; InterPro: IPR007855 This entry represents various eukaryotic RNA-dependent RNA polymerases (RDRP; 2.7.7.48 from EC), such as RCRP-1, RDRP-2 and RDRP-6. These enzymes are involved in the amplification of regulatory microRNAs during post-transcriptional gene silencing []; they are also required for transcriptional gene silencing. Double-stranded RNA has been shown to induce gene silencing in diverse eukaryotes and by a variety of pathways []. These enzymes also play a role in the RNA interference (RNAi) pathway, which is important for heterochromatin formation, accurate chromosome segregation, centromere cohesion and telomere function during mitosis and meiosis. RDRP enzymes are highly conserved in most eukaryotes, but are missing in archaea and bacteria. The core catalytic domain of RDRP enzymes is structurally similar to the beta' subunit of DNA-dependent RNA polymerases (DDRP), however the other domains of DDRP show no similarity to those of RDRP.; GO: 0003968 RNA-directed RNA polymerase activity; PDB: 2J7O_A 2J7N_A.
Probab=100.00 E-value=3.1e-124 Score=1143.15 Aligned_cols=544 Identities=49% Similarity=0.828 Sum_probs=386.7
Q ss_pred CeeEecCCcccccchhhccCCCCCCcEEEEEEecCCccccccccccccccccccccccccccchhhHHHHHHHHhhCCeE
Q 041430 421 TKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFY 500 (1197)
Q Consensus 421 tri~~~~P~~e~sNRvlR~f~~~~D~FLRV~F~DE~~~~l~~~~~~~~~~~~~r~~~~~~~~~~~~i~~rv~~~L~~Gi~ 500 (1197)
||++|.||++|.||||+|+|+ +|+||||+|+||++..+..+. ..++.|++++|++||.
T Consensus 1 ~r~~l~~p~~~~snr~~R~fg--~~~Flrv~f~d~~~~~~~~~~--------------------~~~~~~~~~~l~~gi~ 58 (579)
T PF05183_consen 1 TRIILEPPELEKSNRVLRRFG--SDRFLRVSFPDENSSSLRFSP--------------------RVLGRRIRKFLKNGIK 58 (579)
T ss_dssp --EEE---EEEE-BHHHHHH---GGGEEEEEEE-TT---SSS-T--------------------TSTTEEEEEEEEEE--
T ss_pred CeEEEECCEecCCCceeEEeC--CCCEEEEEEEcCCCCcccccc--------------------hhHHHHHHHHHhccce
Confidence 799999999999999999997 788999999999987654211 0155678889999999
Q ss_pred EeeEEEEEEEeecCCCCcCceEEEeCC----CCCCHHHHHHHhCCCC-CCCH-hHHHHHhhccCCCCccceeeCCCcccc
Q 041430 501 LCGRKFSFLAFSSSQLRDCSAWFFSED----GKTSVLDIKKWMGRFT-DKNI-AKCAARMGQCFSSTYATVEVPPTEVDP 574 (1197)
Q Consensus 501 I~gR~y~FLa~S~SqlR~~s~wFfa~~----~~lt~~~Ir~wmG~F~-~~~~-aK~aARigq~FSsT~~tv~v~~~~i~~ 574 (1197)
|+||+|+|||+|+||+|+++||||+++ ..+++++|++|||+|+ ++++ +||+||||||||+|.+++.+++.+| +
T Consensus 59 i~~~~y~fl~~S~sqlr~~~~~f~~~~~~~~~~~~~~~i~~~~g~~~~~~~~~~K~~aRl~l~fS~T~~~~~i~~~~~-~ 137 (579)
T PF05183_consen 59 IGGRHYRFLGFSNSQLRDHSCWFFAEDDGDRPPLTVEDIRNWMGDFSNIQSIPAKYAARLGLCFSSTVPTVVIPPDEI-E 137 (579)
T ss_dssp -----------------EEEEEEEEEE----B---HHHHHHHHH-GGGTSBH-HHHHHTTHHHHSB-EEEEE--GGGE-E
T ss_pred ECcEEEEEeecCCccccCCeEEEEecCCccCCcccHHHHHHhcccccccccHHHHHHHHHHHhccCccceEEecccce-E
Confidence 999999999999999999999999998 5689999999999998 4776 9999999999999999999999999 5
Q ss_pred cCCCc-cCCCcccccccccccHHHHHHHHHHcCCCCCCCCcEEEEeccCceeEEEecCCCCCCceeEeccccccc----c
Q 041430 575 ELPDI-KRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKF----Q 649 (1197)
Q Consensus 575 ~I~DI-~~~g~~FTDG~G~IS~~lA~~I~~~l~l~~~~~PSAfQiR~gG~KGvL~vdp~~~~g~~I~lR~Sm~KF----~ 649 (1197)
.+||| .+++|+||||||+||+++|++||+++++. ++|||||||+|||||||++||+. +|.+|+|||||.|| +
T Consensus 138 ~i~Di~~~~~~~ftDG~G~IS~~la~~I~~~l~~~--~~PsA~QiR~~G~KGml~vdp~~-~~~~I~lr~Sm~Kf~~~~~ 214 (579)
T PF05183_consen 138 VIPDITSRNGYVFTDGCGRISPDLARKIAEKLGLD--YVPSAFQIRIGGAKGMLVVDPTL-DGPWIQLRPSMIKFDEPWD 214 (579)
T ss_dssp -SS--TTSS--BSSTTEEEE-HHHHHHHHHHHT-S--S--SEEEEEETTEEEEEEE-TT------EEE-TTTB-S----S
T ss_pred EcCCcCCCCCccccCCchhhCHHHHHHHHHHcCCC--CCCeEEEEeccCceeEEEECCCC-CcceEEEehhhhhhccCcc
Confidence 99999 89999999999999999999999999977 58999999999999999999987 67899999999999 7
Q ss_pred cCCceEEEeeecC-CccccccHHHHHHHhcCCCChHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhhccccchHH--HHH
Q 041430 650 SHHTTLEICSWTR-FQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAA--IML 726 (1197)
Q Consensus 650 s~~~~LEI~~~S~-~~p~~LNRQlI~iL~~lGVp~evF~~lq~~~l~~l~~~l~d~~~A~~~L~~~~~~~~~~~~--~ml 726 (1197)
+.+++|||+++|+ +.+++||||+|++|+++|||+++|+++|+++++++.+++.++..|.+++...+........ .|+
T Consensus 215 ~~~~~lei~~~s~~~~~~~LN~q~I~iL~~~gv~~~~f~~l~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ll 294 (579)
T PF05183_consen 215 SEHRTLEIVKYSRPPRPAYLNRQLITILEDLGVPDEVFLELQDEALEELRNILTDPDAARDLLSNQSRDGDFRLIRRQLL 294 (579)
T ss_dssp GGGSEEEEEEE--------B-TTTHHHHHHTBSS-HHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHS--HHHHHHHTHHH
T ss_pred cccCeEEecccCCCCCcccccHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhcCCCcchhHHHHHHH
Confidence 8899999999998 8999999999999999999999999999999999999999999999999876655443333 799
Q ss_pred HCCCCCCCchHHHHHHHHHHHHHHHhhccceeeeccCceeEeeecCCCCCCCCCcEEEEecCCccccccccCCCcccccc
Q 041430 727 SAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETK 806 (1197)
Q Consensus 727 ~~Gf~~~~ePfl~~ll~~~~~~~L~~Lk~K~RI~Vp~s~~L~GV~DetG~L~~GEVfvq~s~~~~~~~~~~~g~~~~~~~ 806 (1197)
.+||++.++||++++++.+.++.|+++|+|+||+||+|++||||+||||+|+|||||||+|... ....
T Consensus 295 ~~g~~~~~~pfl~~~l~~~~~~~l~~~~~~~ri~v~~s~~l~gv~D~~g~L~~geV~~~~s~~~------------~~~~ 362 (579)
T PF05183_consen 295 DAGFDPLNDPFLRSLLKALIKKKLKELKKKARIPVPKSRYLMGVPDPTGVLKEGEVFVQFSSDE------------ETGS 362 (579)
T ss_dssp HTT--TTTBHHHHHHHHHHHHHHHHHHHHC--B--SSEEEEEEEE-TTS---TTEEEEEEEEEE------------EETT
T ss_pred HcCCCcccCHHHHHHHHHHHHHHHHhccceEEEEcCCCcEEEEeeCCcCCCCCCEEEEEecccc------------ccCC
Confidence 9999999999999999999999999999999999999999999999999999999999997211 1123
Q ss_pred ceeEEeeeEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccCCCCCCCCeEEEeecCCcCCCCC---
Q 041430 807 KLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSK--- 883 (1197)
Q Consensus 807 ~~~vi~G~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lSGGDLDGD~y~ViWD~~Lvp~~~--- 883 (1197)
...+++|+|+|+||||+||||||+|+||++|+|+||+||||||++|+||+|++|||||||||.|||||||+||.++.
T Consensus 363 ~~~~~~g~VlV~R~P~~~pgDir~~~av~~p~L~~l~~vIVF~~~G~r~~~~~lsGgDlDGD~~~V~wd~~lv~~~~~~~ 442 (579)
T PF05183_consen 363 QSQVLEGDVLVTRNPCLHPGDIRKVKAVDKPELRHLKDVIVFSTKGDRPLPSELSGGDLDGDEYFVCWDPRLVEPFKNPP 442 (579)
T ss_dssp EEEEEE-EEEEE-SS--SGGGEEEEEE---GGGTT--SEEEE-S-SSS-HHHHTTT--SSS-EEEEE--HHHHHTB----
T ss_pred CcceeeeeEEEecCCccCcCceeEEEeeccHHHcccCCEEEeCCCCCCCchHHhcCCCCCCceEEEEeCHhhhhhhhccC
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999954443
Q ss_pred --CCCCCCCCChhh-------hcccCCCCChhHHHHHHHH-hhccchhHhHHHHHHHHhccccCCCCCHHHHHHHHHHHh
Q 041430 884 --KSWPPMEYNAAE-------AKTLTRPVDQRDIIEFFAK-HMVNENLGTICNAHVVHADHSEYGALDENCILLAELAAT 953 (1197)
Q Consensus 884 --~~~~P~~Y~~~~-------~~~l~r~vt~~di~dffv~-ym~~d~LG~Ian~Hl~~aD~~~~G~~d~~Cl~LA~L~S~ 953 (1197)
+.++|+.|...+ +..+.++++.+++.+||++ ||.++.||.|+|+|+++||+.. |+.|+.|++||++||+
T Consensus 443 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~lG~~s~~h~~~~d~~~-g~~~~~~~~La~l~s~ 521 (579)
T PF05183_consen 443 PPKSEEPMNYESEKVSDSSGDPKPLSRPVTEEDIQDFFLEFYINNDNLGLISNAHLAIADQSS-GIDSPECLKLAQLHSQ 521 (579)
T ss_dssp -------TTTSEE---BHHHHTT-SSHHHHHHHHHHHHHHHHTS--HHHHHHHHHHHHHHHHT--SSSHHHHHHHHHHHH
T ss_pred cccCCCccccccccccccccCccccCccccHHHHHHHHHHhhcccCcHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHH
Confidence 245677654322 2344556778999999999 9999999999999999999866 9999999999999999
Q ss_pred ccCCCCCCCeeecCCC-CCCCCCCCCCCCcccCC-cccCChhcHHHHHhHhh
Q 041430 954 AVDFPKTGKIVTMPAH-LKPKLYPDFMGKEAYQS-YKSNKILGRLYRQSKDA 1003 (1197)
Q Consensus 954 AVDf~KTG~~v~~p~~-l~pk~~PdFM~k~~~~~-Y~S~kiLG~LYr~v~~~ 1003 (1197)
||||+|||+++.++.. ++++.+||||+++.++. |+|++|||+|||+|++.
T Consensus 522 ~vD~~KtG~~~~~~~~~~~~~~~P~~~~~~~~~~~y~S~~ilg~ly~~v~~~ 573 (579)
T PF05183_consen 522 AVDAPKTGVPVKLPRWPLKPPEYPDFMEKEDKKSYYKSTSILGQLYREVKEI 573 (579)
T ss_dssp HTTHHHHTEE--HHHHHSS-----GGGSS-----SSS--SHHHHHHHTTH--
T ss_pred HhCccccCCCccccchhhcCCCCChhhccccccccCCCccHHHHHHHHHHhh
Confidence 9999999999999887 89999999999877665 79999999999999984
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=98.54 E-value=5.2e-07 Score=92.68 Aligned_cols=83 Identities=20% Similarity=0.326 Sum_probs=71.6
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
...++|+|+|+|..+++++|+++|+. .|.|..|+|..+ ..+.++++||||+|++.|+|
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~-~G~I~~v~i~~d---------------------~~tg~~kGfaFV~F~~~e~A 89 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAH-FGDVVDAKVIVD---------------------RETGRSRGFGFVNFNDEGAA 89 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhc-CCCeEEEEEEec---------------------CCCCCcceEEEEEECCHHHH
Confidence 46788999999999999999999998 899999999886 44578999999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCCCC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
+.|+.... ...++|+.|+|..+.+.
T Consensus 90 ~~Al~~ln--g~~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 90 TAAISEMD--GKELNGRHIRVNPANDR 114 (144)
T ss_pred HHHHHHcC--CCEECCEEEEEEeCCcC
Confidence 99998653 23789999999965433
No 4
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=98.42 E-value=1.1e-06 Score=78.13 Aligned_cols=70 Identities=23% Similarity=0.354 Sum_probs=61.0
Q ss_pred EEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHH
Q 041430 15 VSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVD 94 (1197)
Q Consensus 15 i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~ 94 (1197)
|+|+|+|.+++.++|.++|+.. |.|..+++... .+ +..+++|||+|.+++.|..|+.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~-g~v~~v~~~~~---------------------~~-~~~~~~a~v~f~~~~~a~~al~ 57 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRF-GPVEKVRLIKN---------------------KD-GQSRGFAFVEFSSEEDAKRALE 57 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTS-SBEEEEEEEES---------------------TT-SSEEEEEEEEESSHHHHHHHHH
T ss_pred CEEeCCCCCCCHHHHHHHHHhc-CCcceEEEEee---------------------ec-cccCCEEEEEeCCHHHHHHHHH
Confidence 6899999999999999999995 99999999985 33 6789999999999999999999
Q ss_pred hccCCceeecCeeee
Q 041430 95 AAGRTELFLNGRALK 109 (1197)
Q Consensus 95 ~a~~~~l~~~~~~lk 109 (1197)
..+ ...++|+.|+
T Consensus 58 ~~~--~~~~~g~~l~ 70 (70)
T PF14259_consen 58 LLN--GKEIDGRKLR 70 (70)
T ss_dssp HHT--TEEETTEEEE
T ss_pred HCC--CcEECCEEcC
Confidence 985 4789999885
No 5
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.37 E-value=1.3e-06 Score=96.65 Aligned_cols=77 Identities=10% Similarity=0.202 Sum_probs=68.0
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
++.+||+|+|+|..++.++|++||+. +|.|..|+|-.+ ...+++|||+|.++++|
T Consensus 2 ~~~rtVfVgNLs~~tTE~dLrefFS~-~G~I~~V~I~~d------------------------~~~~GfAFVtF~d~eaA 56 (260)
T PLN03120 2 MQVRTVKVSNVSLKATERDIKEFFSF-SGDIEYVEMQSE------------------------NERSQIAYVTFKDPQGA 56 (260)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHh-cCCeEEEEEeec------------------------CCCCCEEEEEeCcHHHH
Confidence 46789999999999999999999977 899999999765 23578999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~ 114 (1197)
..|+.+.+. .|+|+.|+|.+..
T Consensus 57 e~AllLnG~---~l~gr~V~Vt~a~ 78 (260)
T PLN03120 57 ETALLLSGA---TIVDQSVTITPAE 78 (260)
T ss_pred HHHHHhcCC---eeCCceEEEEecc
Confidence 999988765 7899999999543
No 6
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=98.37 E-value=1.8e-06 Score=75.73 Aligned_cols=70 Identities=20% Similarity=0.347 Sum_probs=61.3
Q ss_pred EEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHH
Q 041430 15 VSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVD 94 (1197)
Q Consensus 15 i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~ 94 (1197)
|+|+|+|..++.++|+++|+. .|.|-.|.+..+ ..++.+++|||+|.+.++|..|++
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~-~g~i~~~~~~~~----------------------~~~~~~~~a~V~F~~~~~a~~a~~ 57 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQ-FGKIESIKVMRN----------------------SSGKSKGYAFVEFESEEDAEKALE 57 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHT-TSTEEEEEEEEE----------------------TTSSEEEEEEEEESSHHHHHHHHH
T ss_pred cEEcCCCCcCCHHHHHHHHHH-hhhccccccccc----------------------ccccccceEEEEEcCHHHHHHHHH
Confidence 689999999999999999999 999988888873 146789999999999999999999
Q ss_pred hccCCceeecCeeee
Q 041430 95 AAGRTELFLNGRALK 109 (1197)
Q Consensus 95 ~a~~~~l~~~~~~lk 109 (1197)
... ...++|+.||
T Consensus 58 ~l~--g~~~~~~~ir 70 (70)
T PF00076_consen 58 ELN--GKKINGRKIR 70 (70)
T ss_dssp HHT--TEEETTEEEE
T ss_pred HcC--CCEECccCcC
Confidence 554 3588888875
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=98.14 E-value=7.6e-06 Score=94.87 Aligned_cols=77 Identities=18% Similarity=0.325 Sum_probs=68.8
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.++|.|+|+|..++.+||+++|+. +|.|..|+|..+ ...+++++||||+|.+++.|..
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~-~G~i~~v~i~~d---------------------~~~g~s~g~afV~f~~~~~A~~ 60 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTS-IGEIESCKLVRD---------------------KVTGQSLGYGFVNYVRPEDAEK 60 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHc-cCCEEEEEEEEc---------------------CCCCccceEEEEEECcHHHHHH
Confidence 579999999999999999999999 999999999886 3347899999999999999999
Q ss_pred HHHhccCCceeecCeeeeeec
Q 041430 92 AVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
|+.... ...++|+.|+|..
T Consensus 61 Ai~~l~--g~~l~g~~i~v~~ 79 (352)
T TIGR01661 61 AVNSLN--GLRLQNKTIKVSY 79 (352)
T ss_pred HHhhcc--cEEECCeeEEEEe
Confidence 998654 4688999999973
No 8
>smart00360 RRM RNA recognition motif.
Probab=98.13 E-value=1e-05 Score=69.52 Aligned_cols=71 Identities=30% Similarity=0.410 Sum_probs=60.0
Q ss_pred EeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHHhc
Q 041430 17 FGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAA 96 (1197)
Q Consensus 17 v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~a 96 (1197)
|+|+|..++.++|+++|+. .|.|..|.+... +..++++++|||+|.+.++|..|+...
T Consensus 1 i~~l~~~~~~~~l~~~f~~-~g~v~~~~i~~~---------------------~~~~~~~~~a~v~f~~~~~a~~a~~~~ 58 (71)
T smart00360 1 VGNLPPDVTEEELRELFSK-FGKIESVRLVRD---------------------KDTGKSKGFAFVEFESEEDAEKALEAL 58 (71)
T ss_pred CCCCCcccCHHHHHHHHHh-hCCEeEEEEEeC---------------------CCCCCCCceEEEEeCCHHHHHHHHHHc
Confidence 5899999999999999986 899999988865 224678899999999999999999876
Q ss_pred cCCceeecCeeeeee
Q 041430 97 GRTELFLNGRALKVS 111 (1197)
Q Consensus 97 ~~~~l~~~~~~lkv~ 111 (1197)
. ...++|+.|+|+
T Consensus 59 ~--~~~~~~~~~~v~ 71 (71)
T smart00360 59 N--GKELDGRPLKVK 71 (71)
T ss_pred C--CCeeCCcEEEeC
Confidence 5 346789988874
No 9
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=98.13 E-value=8.6e-06 Score=95.04 Aligned_cols=81 Identities=19% Similarity=0.239 Sum_probs=70.0
Q ss_pred ccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChH
Q 041430 8 KLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPT 87 (1197)
Q Consensus 8 ~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~ 87 (1197)
.+...++|.|+|+|.+++.++|+++|+. +|.|..|+|..+ ..++++++||||+|++++
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~-~G~V~~v~i~~d---------------------~~tg~srGyaFVeF~~~e 160 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRT-IGPINTCRIMRD---------------------YKTGYSFGYAFVDFGSEA 160 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHh-cCCEEEEEEEec---------------------CCCCccCcEEEEEEccHH
Confidence 4457789999999999999999999997 899999999876 446789999999999999
Q ss_pred HHHHHHHhccCCceeecCeeeeeec
Q 041430 88 YVTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 88 ~a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
+|..|+..-. ...+.++.|+|+.
T Consensus 161 ~A~~Ai~~Ln--G~~l~gr~i~V~~ 183 (346)
T TIGR01659 161 DSQRAIKNLN--GITVRNKRLKVSY 183 (346)
T ss_pred HHHHHHHHcC--CCccCCceeeeec
Confidence 9999997542 3467889999984
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=98.11 E-value=9.1e-06 Score=94.21 Aligned_cols=76 Identities=14% Similarity=0.132 Sum_probs=68.2
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
.+|.|+|+|..++.++|+++|+. .|.|.+|+|..+ +.++.+++||||+|.+.++|..|
T Consensus 270 ~~lfV~NL~~~~~e~~L~~~F~~-fG~v~~v~i~~d---------------------~~t~~skG~aFV~F~~~~~A~~A 327 (352)
T TIGR01661 270 YCIFVYNLSPDTDETVLWQLFGP-FGAVQNVKIIRD---------------------LTTNQCKGYGFVSMTNYDEAAMA 327 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHh-CCCeEEEEEeEc---------------------CCCCCccceEEEEECCHHHHHHH
Confidence 36999999999999999999987 899999999987 45688999999999999999999
Q ss_pred HHhccCCceeecCeeeeeec
Q 041430 93 VDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 93 ~~~a~~~~l~~~~~~lkv~~ 112 (1197)
+.... ...|+|+.|+|+-
T Consensus 328 i~~ln--G~~~~gr~i~V~~ 345 (352)
T TIGR01661 328 ILSLN--GYTLGNRVLQVSF 345 (352)
T ss_pred HHHhC--CCEECCeEEEEEE
Confidence 98764 3578999999984
No 11
>smart00362 RRM_2 RNA recognition motif.
Probab=98.10 E-value=1.7e-05 Score=68.45 Aligned_cols=72 Identities=22% Similarity=0.373 Sum_probs=61.5
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
+|+|+|+|...+.++|.++|+. .|.|..+++... + +.++++|||+|.++++|..|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~-~g~v~~~~~~~~---------------------~--~~~~~~~~v~f~~~~~a~~a~ 56 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSK-FGPIESVKIPKD---------------------T--GKSKGFAFVEFESEEDAEKAI 56 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHh-cCCEEEEEEecC---------------------C--CCCCceEEEEeCCHHHHHHHH
Confidence 5899999999999999999986 898988888875 1 467899999999999999998
Q ss_pred HhccCCceeecCeeeeee
Q 041430 94 DAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 94 ~~a~~~~l~~~~~~lkv~ 111 (1197)
.... ...++|+.++|+
T Consensus 57 ~~~~--~~~~~~~~i~v~ 72 (72)
T smart00362 57 EALN--GTKLGGRPLRVE 72 (72)
T ss_pred HHhC--CcEECCEEEeeC
Confidence 8654 356788888874
No 12
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=97.97 E-value=2.4e-05 Score=91.37 Aligned_cols=84 Identities=17% Similarity=0.159 Sum_probs=69.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
..++|+|+|+|..++.++|+++|+. +|.|..|+|..+ ..+.+++++|||+|++.|.|.
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~-fG~V~~v~i~~d---------------------~~tg~~kG~aFV~F~~~e~A~ 249 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGK-YGQIVQKNILRD---------------------KLTGTPRGVAFVRFNKREEAQ 249 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHh-cCCEEEEEEeec---------------------CCCCccceEEEEEECCHHHHH
Confidence 4578999999999999999999976 899999999876 345788999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecCCCC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
.|+..-....+--++++|+|..+.+.
T Consensus 250 ~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 250 EAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred HHHHHhCCCccCCCceeEEEEECCcc
Confidence 99998765333335689999965543
No 13
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=97.94 E-value=5.6e-05 Score=65.51 Aligned_cols=73 Identities=25% Similarity=0.327 Sum_probs=62.2
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
+|.|+|+|..+++++|+++|+.. |.+..+.+..+ + ..+..++|+|+|.++++|..|+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~-g~i~~~~~~~~---------------------~-~~~~~~~~~v~f~s~~~a~~a~ 57 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKF-GKVESVRIVRD---------------------K-DTKSKGFAFVEFEDEEDAEKAL 57 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhc-CCEEEEEEeeC---------------------C-CCCcceEEEEEECCHHHHHHHH
Confidence 58899999999999999999995 99988888875 2 1267899999999999999999
Q ss_pred HhccCCceeecCeeeeee
Q 041430 94 DAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 94 ~~a~~~~l~~~~~~lkv~ 111 (1197)
+.... ..++|+.++|+
T Consensus 58 ~~~~~--~~~~~~~~~v~ 73 (74)
T cd00590 58 EALNG--KELGGRPLRVE 73 (74)
T ss_pred HHhCC--CeECCeEEEEe
Confidence 98654 35889988876
No 14
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.94 E-value=3.5e-05 Score=84.43 Aligned_cols=74 Identities=11% Similarity=0.159 Sum_probs=66.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
...||+|+|++..++.++|.+||.. +|.|..|+|-.+ .+..++|||+|.++++|.
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~-~G~I~~V~I~~D------------------------~et~gfAfVtF~d~~aae 58 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSH-CGAIEHVEIIRS------------------------GEYACTAYVTFKDAYALE 58 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHh-cCCeEEEEEecC------------------------CCcceEEEEEECCHHHHH
Confidence 3469999999999999999999998 999999999876 345579999999999999
Q ss_pred HHHHhccCCceeecCeeeeeec
Q 041430 91 RAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
.|+.|.|. .|+++++.|.+
T Consensus 59 tAllLnGa---~l~d~~I~It~ 77 (243)
T PLN03121 59 TAVLLSGA---TIVDQRVCITR 77 (243)
T ss_pred HHHhcCCC---eeCCceEEEEe
Confidence 99999987 77999999984
No 15
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=97.91 E-value=2.7e-05 Score=90.19 Aligned_cols=80 Identities=24% Similarity=0.287 Sum_probs=70.8
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
....-|.||+||.++..+||+.++|+ +|.+|-+||+-+ +..+.+|+||||.|.+-+.|
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEk-iG~I~elRLMmD---------------------~~sG~nRGYAFVtf~~Ke~A 138 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEK-IGKIYELRLMMD---------------------PFSGDNRGYAFVTFCTKEEA 138 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHh-ccceeeEEEeec---------------------ccCCCCcceEEEEeecHHHH
Confidence 46678999999999999999999999 999999999997 45689999999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeec
Q 041430 90 TRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
+.|+..-.+- =+-.|+.|+|+.
T Consensus 139 q~Aik~lnn~-Eir~GK~igvc~ 160 (506)
T KOG0117|consen 139 QEAIKELNNY-EIRPGKLLGVCV 160 (506)
T ss_pred HHHHHHhhCc-cccCCCEeEEEE
Confidence 9999987652 245888898883
No 16
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=97.87 E-value=4.5e-05 Score=91.84 Aligned_cols=80 Identities=20% Similarity=0.254 Sum_probs=70.0
Q ss_pred cccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 9 LLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 9 ~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
+.-.+||+|+|+|..++.++|++||+. +|.|..|+|..+ ..++++++||||+|.+.++
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~-~G~v~~v~i~~d---------------------~~~~~skg~afVeF~~~e~ 143 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSK-VGKVRDVQCIKD---------------------RNSRRSKGVAYVEFYDVES 143 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHh-cCCeeEEEEeec---------------------CCCCCcceEEEEEECCHHH
Confidence 445789999999999999999999988 899999999876 3457899999999999999
Q ss_pred HHHHHHhccCCceeecCeeeeeecC
Q 041430 89 VTRAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
|..|+.+.+. .+.|++|.|...
T Consensus 144 A~~Al~l~g~---~~~g~~i~v~~~ 165 (457)
T TIGR01622 144 VIKALALTGQ---MLLGRPIIVQSS 165 (457)
T ss_pred HHHHHHhCCC---EECCeeeEEeec
Confidence 9999987654 788999998743
No 17
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=97.80 E-value=5.8e-05 Score=93.26 Aligned_cols=78 Identities=13% Similarity=0.238 Sum_probs=69.7
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
..++|+|+|+|..++.++|+++|+. .|.|..|+|..+ ..++++++||||+|.+.++|.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~-FG~I~svrl~~D---------------------~~tgksKGfGFVeFe~~e~A~ 260 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEA-FGEIVKCQLARA---------------------PTGRGHKGYGFIEYNNLQSQS 260 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhh-cCCeeEEEEEec---------------------CCCCCcCCeEEEEECCHHHHH
Confidence 3478999999999999999999997 899999999986 345789999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeec
Q 041430 91 RAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
.|+.... .+-++|+.|+|..
T Consensus 261 kAI~amN--g~elgGr~LrV~k 280 (612)
T TIGR01645 261 EAIASMN--LFDLGGQYLRVGK 280 (612)
T ss_pred HHHHHhC--CCeeCCeEEEEEe
Confidence 9999875 4678999999983
No 18
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=97.72 E-value=0.0001 Score=91.19 Aligned_cols=78 Identities=18% Similarity=0.307 Sum_probs=69.0
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
...+|+|||+|..++.++|.++|+. +|.|..|+|..+ +.++++++||||+|.++++|.
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~-fG~I~sV~I~~D---------------------~~TgkskGfAFVeF~s~e~A~ 163 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDP-FGPIKSINMSWD---------------------PATGKHKGFAFVEYEVPEAAQ 163 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHc-cCCEEEEEEeec---------------------CCCCCcCCeEEEEeCcHHHHH
Confidence 4468999999999999999999998 999999999876 446789999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeec
Q 041430 91 RAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
.|+.... ...++|+.|+|..
T Consensus 164 ~Ai~~ln--G~~i~GR~IkV~r 183 (612)
T TIGR01645 164 LALEQMN--GQMLGGRNIKVGR 183 (612)
T ss_pred HHHHhcC--CeEEecceeeecc
Confidence 9998653 4588999999983
No 19
>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=97.68 E-value=0.00014 Score=90.08 Aligned_cols=77 Identities=21% Similarity=0.336 Sum_probs=67.1
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
++|+|+|+|.+++.++|.++|.. +|.|..|+|..+ ..++++.+||||.|.+.+.|..|
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~-~G~v~~v~v~~d---------------------~~t~~s~G~afV~F~~~~~A~~A 58 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKP-FGPVLSVRVCRD---------------------SVTRRSLGYGYVNFQNPADAERA 58 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHh-cCCEEEEEEEec---------------------CCCCCcceEEEEEECCHHHHHHH
Confidence 47999999999999999999987 799999999876 44578999999999999999999
Q ss_pred HHhccCCceeecCeeeeeecC
Q 041430 93 VDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 93 ~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
++..+. -.++|++++|...
T Consensus 59 l~~ln~--~~i~gk~i~i~~s 77 (562)
T TIGR01628 59 LETMNF--KRLGGKPIRIMWS 77 (562)
T ss_pred HHHhCC--CEECCeeEEeecc
Confidence 987653 3578999999743
No 20
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=97.66 E-value=0.00013 Score=90.09 Aligned_cols=77 Identities=26% Similarity=0.279 Sum_probs=65.2
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
..++|.|+|+|.+++.++|.++|+. +|.|+.|+|..+ ..+++++||||+|++.|+|.
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~-~G~I~~vrl~~D----------------------~sG~sRGfaFV~F~~~e~A~ 113 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEK-AGPIYELRLMMD----------------------FSGQNRGYAFVTFCGKEEAK 113 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHh-hCCEEEEEEEEC----------------------CCCCccceEEEEeCCHHHHH
Confidence 5689999999999999999999998 899999999875 24789999999999999999
Q ss_pred HHHHhccCCceeecCeeeeee
Q 041430 91 RAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
.|+..... ..+.+++.|+|.
T Consensus 114 ~Ai~~lng-~~i~~Gr~l~V~ 133 (578)
T TIGR01648 114 EAVKLLNN-YEIRPGRLLGVC 133 (578)
T ss_pred HHHHHcCC-CeecCCcccccc
Confidence 99998753 234456666654
No 21
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=97.61 E-value=0.00022 Score=85.96 Aligned_cols=79 Identities=19% Similarity=0.316 Sum_probs=69.2
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.++|+|+|+|..++.++|+++|+. .|.|..|+|..+ +..++++++|||+|.+.++|..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~-~G~i~~v~~~~d---------------------~~~g~~~g~afV~f~~~e~A~~ 243 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEP-FGDIEDVQLHRD---------------------PETGRSKGFGFIQFHDAEEAKE 243 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHh-cCCeEEEEEEEc---------------------CCCCccceEEEEEECCHHHHHH
Confidence 589999999999999999999986 899999999876 3456899999999999999999
Q ss_pred HHHhccCCceeecCeeeeeecCC
Q 041430 92 AVDAAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~~~ 114 (1197)
|+.... ...++|+.|+|..+.
T Consensus 244 A~~~l~--g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 244 ALEVMN--GFELAGRPIKVGYAQ 264 (457)
T ss_pred HHHhcC--CcEECCEEEEEEEcc
Confidence 998654 367899999999654
No 22
>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=97.60 E-value=0.0002 Score=88.84 Aligned_cols=80 Identities=20% Similarity=0.305 Sum_probs=70.0
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
..++|+|+|+|..++.++|+++|+. .|.|..|+|..+ ..+.++++|||.|.+.++|.
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~-~G~i~~~~i~~d----------------------~~g~~~g~gfV~f~~~~~A~ 340 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSE-CGEITSAKVMLD----------------------EKGVSRGFGFVCFSNPEEAN 340 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHh-cCCeEEEEEEEC----------------------CCCCcCCeEEEEeCCHHHHH
Confidence 5678999999999999999999997 899999999985 24689999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecCCC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLGPE 115 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~~~ 115 (1197)
.|+..... ..++|++|+|..+..
T Consensus 341 ~A~~~~~g--~~~~gk~l~V~~a~~ 363 (562)
T TIGR01628 341 RAVTEMHG--RMLGGKPLYVALAQR 363 (562)
T ss_pred HHHHHhcC--CeeCCceeEEEeccC
Confidence 99987643 589999999986443
No 23
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.55 E-value=0.00026 Score=86.38 Aligned_cols=79 Identities=15% Similarity=0.149 Sum_probs=67.8
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.++|+|+|+|..++.++|+++|+. +|.|..+.|... ...+++++||||+|.++++|..
T Consensus 295 ~~~l~v~nlp~~~~~~~l~~~f~~-~G~i~~~~~~~~---------------------~~~g~~~g~afv~f~~~~~a~~ 352 (509)
T TIGR01642 295 KDRIYIGNLPLYLGEDQIKELLES-FGDLKAFNLIKD---------------------IATGLSKGYAFCEYKDPSVTDV 352 (509)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHh-cCCeeEEEEEec---------------------CCCCCcCeEEEEEECCHHHHHH
Confidence 468999999999999999999998 899999998765 3357899999999999999999
Q ss_pred HHHhccCCceeecCeeeeeecCC
Q 041430 92 AVDAAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~~~ 114 (1197)
|+..-. ...++|+.|+|..+.
T Consensus 353 A~~~l~--g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 353 AIAALN--GKDTGDNKLHVQRAC 373 (509)
T ss_pred HHHHcC--CCEECCeEEEEEECc
Confidence 998653 347899999998543
No 24
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=97.53 E-value=0.00031 Score=75.78 Aligned_cols=78 Identities=24% Similarity=0.367 Sum_probs=71.1
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
..+|.|+|+|..++.++|.++|.. .|.|.++++..+ ...++++++|||+|.+++.|..
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~-~g~~~~~~~~~d---------------------~~~~~~~g~~~v~f~~~~~~~~ 172 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKK-FGPVKRVRLVRD---------------------RETGKSRGFAFVEFESEESAEK 172 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHh-cCceeEEEeeec---------------------cccCccCceEEEEecCHHHHHH
Confidence 589999999999999999999998 999999999886 3468999999999999999999
Q ss_pred HHHhccCCceeecCeeeeeecC
Q 041430 92 AVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
|+.... ...|.|+.|+|...
T Consensus 173 a~~~~~--~~~~~~~~~~v~~~ 192 (306)
T COG0724 173 AIEELN--GKELEGRPLRVQKA 192 (306)
T ss_pred HHHHcC--CCeECCceeEeecc
Confidence 999986 46999999999953
No 25
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=97.51 E-value=0.00024 Score=86.64 Aligned_cols=74 Identities=19% Similarity=0.249 Sum_probs=65.0
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
+++|.|+|+|..++.+||.++|+. .|.|-.|.+..+ +++|||+|.+.|+|..
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~-fG~V~~v~i~~~---------------------------k~~afVef~~~e~A~~ 53 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIP-FGPVSYVMMLPG---------------------------KRQALVEFEDEESAKA 53 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHh-cCCeeEEEEECC---------------------------CCEEEEEeCchHHHHH
Confidence 579999999999999999999998 999999988743 3699999999999999
Q ss_pred HHHhccCCceeecCeeeeeecC
Q 041430 92 AVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
|+.....+...++|++|+|..+
T Consensus 54 Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 54 CVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred HHHHhhcCCceEcCeEEEEEec
Confidence 9987644467899999999854
No 26
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.44 E-value=0.00031 Score=85.78 Aligned_cols=74 Identities=18% Similarity=0.254 Sum_probs=57.6
Q ss_pred cccccEEEEeCCCccccHHHHHHHHHhcc---c--------cEEEEEEeecCCCCCCCCCccccccccccccCCCCCccc
Q 041430 9 LLVDAQVSFGGFDRNVKAAELVKYLENEV---G--------GVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEP 77 (1197)
Q Consensus 9 ~~~~~~i~v~gf~~~~~a~~l~~~le~~~---G--------~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (1197)
+.-.++|+|||+|..++.++|++||.+.. | .|..+.+ .+.++
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~---------------------------~~~kg 224 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI---------------------------NKEKN 224 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE---------------------------CCCCC
Confidence 34568999999999999999999999852 1 1222211 24578
Q ss_pred eEEEEecChHHHHHHHHhccCCceeecCeeeeeec
Q 041430 78 HAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 78 ~a~V~F~~~~~a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
||||+|.++|.|+.|+.+- .+.|+|.+|+|..
T Consensus 225 ~afVeF~~~e~A~~Al~l~---g~~~~g~~l~v~r 256 (509)
T TIGR01642 225 FAFLEFRTVEEATFAMALD---SIIYSNVFLKIRR 256 (509)
T ss_pred EEEEEeCCHHHHhhhhcCC---CeEeeCceeEecC
Confidence 9999999999999999643 4688899999983
No 27
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=97.37 E-value=0.00035 Score=74.55 Aligned_cols=77 Identities=19% Similarity=0.239 Sum_probs=68.6
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
.-+++.-+|..+-..++..||-+..|.|.|.|+.-. .++++|.+||||+|+++|-|..|
T Consensus 50 g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRn---------------------krTGNSKgYAFVEFEs~eVA~Ia 108 (214)
T KOG4208|consen 50 GVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRN---------------------KRTGNSKGYAFVEFESEEVAKIA 108 (214)
T ss_pred cceeecccccchhHHHHhhhhhhcCCeeEEEEeecc---------------------cccCCcCceEEEEeccHHHHHHH
Confidence 346788899999999999999998899999999655 67899999999999999999999
Q ss_pred HHhccCCceeecCeeeeeec
Q 041430 93 VDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 93 ~~~a~~~~l~~~~~~lkv~~ 112 (1197)
...+. .++|.++.|+++.
T Consensus 109 AETMN--NYLl~e~lL~c~v 126 (214)
T KOG4208|consen 109 AETMN--NYLLMEHLLECHV 126 (214)
T ss_pred HHHhh--hhhhhhheeeeEE
Confidence 99986 5788999999984
No 28
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=97.36 E-value=0.00056 Score=74.33 Aligned_cols=87 Identities=18% Similarity=0.268 Sum_probs=67.7
Q ss_pred CCccccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEE
Q 041430 2 EPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFV 81 (1197)
Q Consensus 2 ~~~~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V 81 (1197)
+-.+.-.+...|.|.|||.+=.+..++|.+|||+ .|++--.-|-++ ..+++|++|+||
T Consensus 2 ~~~~~~~DT~~TKifVggL~w~T~~~~l~~yFeq-fGeI~eavvitd---------------------~~t~rskGyGfV 59 (247)
T KOG0149|consen 2 SHNNPFGDTTFTKIFVGGLAWETHKETLRRYFEQ-FGEIVEAVVITD---------------------KNTGRSKGYGFV 59 (247)
T ss_pred CCCCCCCCceEEEEEEcCcccccchHHHHHHHHH-hCceEEEEEEec---------------------cCCccccceeeE
Confidence 3344556778899999999999999999999999 897555555555 447899999999
Q ss_pred EecChHHHHHHHHhccCCceeecCeeeeeecC
Q 041430 82 HFAMPTYVTRAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 82 ~F~~~~~a~~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
.|.++|||++|..-.. -+++|+--.+-++
T Consensus 60 Tf~d~~aa~rAc~dp~---piIdGR~aNcnlA 88 (247)
T KOG0149|consen 60 TFRDAEAATRACKDPN---PIIDGRKANCNLA 88 (247)
T ss_pred EeecHHHHHHHhcCCC---Ccccccccccchh
Confidence 9999999999976543 3666665554443
No 29
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=97.30 E-value=0.0014 Score=80.10 Aligned_cols=77 Identities=18% Similarity=0.265 Sum_probs=64.7
Q ss_pred cccEEEEeCCCc-cccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 11 VDAQVSFGGFDR-NVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 11 ~~~~i~v~gf~~-~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
-.++|+|+|+|. .++.++|.+.|+. .|.|.+|+|..+ .+++|||||.+.++|
T Consensus 274 ~~~~l~v~nL~~~~vt~~~L~~lF~~-yG~V~~vki~~~--------------------------~~g~afV~f~~~~~A 326 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNCDRLFNLFCV-YGNVERVKFMKN--------------------------KKETALIEMADPYQA 326 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHh-cCCeEEEEEEeC--------------------------CCCEEEEEECCHHHH
Confidence 457999999997 7999999999997 899999998764 358999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCCCC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
..|+..... ..+.|+.|+|+.+-..
T Consensus 327 ~~Ai~~lng--~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 327 QLALTHLNG--VKLFGKPLRVCPSKQQ 351 (481)
T ss_pred HHHHHHhCC--CEECCceEEEEEcccc
Confidence 999975543 3668999999964333
No 30
>smart00361 RRM_1 RNA recognition motif.
Probab=97.18 E-value=0.0015 Score=58.85 Aligned_cols=65 Identities=14% Similarity=0.261 Sum_probs=48.3
Q ss_pred HHHHHHHHHhc---cccEEEEE-EeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHHhccCCce
Q 041430 26 AAELVKYLENE---VGGVWRCR-LKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTEL 101 (1197)
Q Consensus 26 a~~l~~~le~~---~G~v~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~a~~~~l 101 (1197)
.++|.++|+.. .|.|.++. +..+ ++ ..+++++++|||+|.+++.|..|+..-.. -
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~--~~-----------------~~~~~~rG~~fV~f~~~~dA~~A~~~l~g--~ 60 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYID--NV-----------------GYENHKRGNVYITFERSEDAARAIVDLNG--R 60 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeC--CC-----------------CCCCCCcEEEEEEECCHHHHHHHHHHhCC--C
Confidence 46888999843 47888775 5443 00 11378999999999999999999997543 3
Q ss_pred eecCeeeeee
Q 041430 102 FLNGRALKVS 111 (1197)
Q Consensus 102 ~~~~~~lkv~ 111 (1197)
.++|+.|+++
T Consensus 61 ~~~gr~l~~~ 70 (70)
T smart00361 61 YFDGRTVKAE 70 (70)
T ss_pred EECCEEEEeC
Confidence 8899998874
No 31
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.06 E-value=0.0015 Score=72.17 Aligned_cols=97 Identities=19% Similarity=0.343 Sum_probs=75.6
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEE-----eecCC--C-----CCC---CCCc-----------------
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRL-----KTSCT--P-----SES---YPDF----------------- 58 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l-----~~~~~--~-----~~~---~~~~----------------- 58 (1197)
.-+|++|||.|++||.+=|...|.. +|.|..|.+ |.-|+ | |.+ +|-|
T Consensus 5 ~prtlyvgnld~~vte~~i~~lf~q-ig~v~~~k~i~~e~~v~wa~~p~nQsk~t~~~hfhvfvgdls~eI~~e~lr~aF 83 (321)
T KOG0148|consen 5 EPRTLYVGNLDSTVTEDFIATLFNQ-IGSVTKTKVIFDELKVNWATAPGNQSKPTSNQHFHVFVGDLSPEIDNEKLREAF 83 (321)
T ss_pred CCceEEeeccChhhHHHHHHHHHHh-ccccccceeehhhhccccccCcccCCCCccccceeEEehhcchhcchHHHHHHh
Confidence 4589999999999998877777765 999988875 33343 2 111 1212
Q ss_pred ----cccccccccccCCCCCccceEEEEecChHHHHHHHHhccCCceeecCeeeeee
Q 041430 59 ----YVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 59 ----~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
||+|...|..++ +.||.+|+||-|-.-+.|+.|+..++- =|||++.++--
T Consensus 84 ~pFGevS~akvirD~~-T~KsKGYgFVSf~~k~dAEnAI~~MnG--qWlG~R~IRTN 137 (321)
T KOG0148|consen 84 APFGEVSDAKVIRDMN-TGKSKGYGFVSFPNKEDAENAIQQMNG--QWLGRRTIRTN 137 (321)
T ss_pred ccccccccceEeeccc-CCcccceeEEeccchHHHHHHHHHhCC--eeeccceeecc
Confidence 888888887777 789999999999999999999998763 39999998854
No 32
>PLN03213 repressor of silencing 3; Provisional
Probab=96.92 E-value=0.0033 Score=73.80 Aligned_cols=82 Identities=17% Similarity=0.298 Sum_probs=65.5
Q ss_pred CCCccccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEE
Q 041430 1 MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAF 80 (1197)
Q Consensus 1 ~~~~~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 80 (1197)
||.|.+++ -..+|+|||++-.|+.+||..-|.. .|.|.+|.|-.. .+ |+|||
T Consensus 1 meeees~~--~gMRIYVGNLSydVTEDDLravFSe-FGsVkdVEIpRE-----------------------TG--RGFAF 52 (759)
T PLN03213 1 MEEKSSGG--GGVRLHVGGLGESVGRDDLLKIFSP-MGTVDAVEFVRT-----------------------KG--RSFAY 52 (759)
T ss_pred CcccccCC--cceEEEEeCCCCCCCHHHHHHHHHh-cCCeeEEEEecc-----------------------cC--CceEE
Confidence 55555443 4578999999999999999999998 699999999732 23 99999
Q ss_pred EEecCh--HHHHHHHHhccCCceeecCeeeeeec
Q 041430 81 VHFAMP--TYVTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 81 V~F~~~--~~a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
|.|.+. +++..|++.-..+ -+.|+.|||..
T Consensus 53 VEMssdddaEeeKAISaLNGA--EWKGR~LKVNK 84 (759)
T PLN03213 53 IDFSPSSTNSLTKLFSTYNGC--VWKGGRLRLEK 84 (759)
T ss_pred EEecCCcHHHHHHHHHHhcCC--eecCceeEEee
Confidence 999988 6778888765432 67889999983
No 33
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=96.72 E-value=0.0043 Score=67.90 Aligned_cols=77 Identities=18% Similarity=0.251 Sum_probs=62.3
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
-..||+|+|.+.+.+..||.+.|-. .|.|.||-|.-+ ..++.+++||||+|.+-|-|.
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~-fg~i~rvylard---------------------K~TG~~kGFAFVtF~sRddA~ 245 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRP-FGPITRVYLARD---------------------KETGLSKGFAFVTFESRDDAA 245 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhc-cCccceeEEEEc---------------------cccCcccceEEEEEecHHHHH
Confidence 4578999999999999999776654 899999998877 568999999999999999999
Q ss_pred HHHHhccCCceeecCeeeeee
Q 041430 91 RAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
.|++--. ..=+++--|+|-
T Consensus 246 rAI~~Ln--G~gyd~LILrvE 264 (270)
T KOG0122|consen 246 RAIADLN--GYGYDNLILRVE 264 (270)
T ss_pred HHHHHcc--CcccceEEEEEE
Confidence 9988532 234555556654
No 34
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=96.65 E-value=0.0042 Score=72.63 Aligned_cols=78 Identities=24% Similarity=0.276 Sum_probs=63.9
Q ss_pred ccccccc-cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEE
Q 041430 4 EGREKLL-VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVH 82 (1197)
Q Consensus 4 ~~~~~~~-~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~ 82 (1197)
|+++-.| -++-++|-|++.++|.+-|++-|+++ |.|.|+ |+ .|-|||||
T Consensus 250 e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~-G~veRV--kk---------------------------~rDYaFVH 299 (506)
T KOG0117|consen 250 EPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEF-GKVERV--KK---------------------------PRDYAFVH 299 (506)
T ss_pred CCChhhhhheeeeeeeccchhhhHHHHHHHHHhc-cceEEe--ec---------------------------ccceeEEe
Confidence 3444433 56788999999999999999999997 887764 32 35699999
Q ss_pred ecChHHHHHHHHhccCCceeecCeeeeeecC
Q 041430 83 FAMPTYVTRAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 83 F~~~~~a~~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
|+.-++|-.|+..... --++|++|-|.++
T Consensus 300 f~eR~davkAm~~~ng--keldG~~iEvtLA 328 (506)
T KOG0117|consen 300 FAEREDAVKAMKETNG--KELDGSPIEVTLA 328 (506)
T ss_pred ecchHHHHHHHHHhcC--ceecCceEEEEec
Confidence 9999999999998864 4789999999963
No 35
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=96.64 E-value=0.0049 Score=76.43 Aligned_cols=81 Identities=21% Similarity=0.253 Sum_probs=63.9
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.++|.|+|+|.+++.++|.+.|+...+.+..+.+..+ + .+..++++||||+|.+.++|..
T Consensus 138 ~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~---~-----------------~~kgKnRGFAFVeF~s~edAa~ 197 (578)
T TIGR01648 138 NCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHS---A-----------------ADKKKNRGFAFVEYESHRAAAM 197 (578)
T ss_pred CceeEeecCCcchhhHHHHHHhhcccCCceEEEEecc---c-----------------cccCccCceEEEEcCCHHHHHH
Confidence 4789999999999999999999997644444444332 1 1235789999999999999999
Q ss_pred HHHhccCCceeecCeeeeeec
Q 041430 92 AVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
|+..-..+++.+.|+.|+|..
T Consensus 198 AirkL~~gki~l~Gr~I~Vdw 218 (578)
T TIGR01648 198 ARRKLMPGRIQLWGHVIAVDW 218 (578)
T ss_pred HHHHhhccceEecCceEEEEe
Confidence 998655556788899999874
No 36
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=96.61 E-value=0.0058 Score=71.06 Aligned_cols=79 Identities=23% Similarity=0.269 Sum_probs=70.9
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
+.|+|+|||-++.-.+||+.+-+++|+|.-|+|.-+ ..+|+|+-|.|+|.++|+++.|
T Consensus 45 R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D----------------------~~GK~rGcavVEFk~~E~~qKa 102 (608)
T KOG4212|consen 45 RSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD----------------------ESGKARGCAVVEFKDPENVQKA 102 (608)
T ss_pred ceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc----------------------cCCCcCCceEEEeeCHHHHHHH
Confidence 459999999999999999999999999999999985 4589999999999999999999
Q ss_pred HHhccCCceeecCeeeeeecCCC
Q 041430 93 VDAAGRTELFLNGRALKVSLGPE 115 (1197)
Q Consensus 93 ~~~a~~~~l~~~~~~lkv~~~~~ 115 (1197)
+..-. +.-++|++|+|...++
T Consensus 103 ~E~ln--k~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 103 LEKLN--KYEVNGRELVVKEDHD 123 (608)
T ss_pred HHHhh--hccccCceEEEeccCc
Confidence 99875 5678999999994333
No 37
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=96.56 E-value=0.0096 Score=50.86 Aligned_cols=54 Identities=33% Similarity=0.444 Sum_probs=42.7
Q ss_pred HHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHHhccCCceeecCeee
Q 041430 29 LVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRAL 108 (1197)
Q Consensus 29 l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~a~~~~l~~~~~~l 108 (1197)
|.++|+. .|.|..+.+... + +++|||+|.+.++|..|+..-.. -.++|+.|
T Consensus 1 L~~~f~~-fG~V~~i~~~~~-------------------------~-~~~a~V~f~~~~~A~~a~~~l~~--~~~~g~~l 51 (56)
T PF13893_consen 1 LYKLFSK-FGEVKKIKIFKK-------------------------K-RGFAFVEFASVEDAQKAIEQLNG--RQFNGRPL 51 (56)
T ss_dssp HHHHHTT-TS-EEEEEEETT-------------------------S-TTEEEEEESSHHHHHHHHHHHTT--SEETTEEE
T ss_pred ChHHhCC-cccEEEEEEEeC-------------------------C-CCEEEEEECCHHHHHHHHHHhCC--CEECCcEE
Confidence 5667777 799998888653 1 79999999999999999985532 36899999
Q ss_pred eee
Q 041430 109 KVS 111 (1197)
Q Consensus 109 kv~ 111 (1197)
+|+
T Consensus 52 ~V~ 54 (56)
T PF13893_consen 52 KVS 54 (56)
T ss_dssp EEE
T ss_pred EEE
Confidence 987
No 38
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=96.44 E-value=0.0054 Score=64.50 Aligned_cols=76 Identities=21% Similarity=0.344 Sum_probs=65.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
...+|+|||.|.++-.+|+.+.|-. .|.|.-++||.. -...|||||+|+++..|.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyK-yg~i~~ieLK~r------------------------~g~ppfafVeFEd~RDAe 59 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYK-YGRIREIELKNR------------------------PGPPPFAFVEFEDPRDAE 59 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhh-hcceEEEEeccC------------------------CCCCCeeEEEecCccchh
Confidence 3578999999999999999998876 799999999986 457899999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
-|+-. ++.+=|+|.-|+|..+
T Consensus 60 DAiyg--RdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 60 DAIYG--RDGYDYDGCRLRVEFP 80 (241)
T ss_pred hhhhc--ccccccCcceEEEEec
Confidence 88764 5567899999999853
No 39
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.39 E-value=0.0094 Score=68.05 Aligned_cols=82 Identities=18% Similarity=0.244 Sum_probs=71.0
Q ss_pred CCccccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEE
Q 041430 2 EPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFV 81 (1197)
Q Consensus 2 ~~~~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V 81 (1197)
+.+....+.+.+|++|+|.-..++..+|.+.|.. .|.+--+++... ++-|||
T Consensus 218 ~~lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyq-yGeirsi~~~~~---------------------------~~CAFv 269 (377)
T KOG0153|consen 218 GTLEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQ-YGEIRSIRILPR---------------------------KGCAFV 269 (377)
T ss_pred cccCCCcccceeEEEecccccchhHHHHHHHHhh-cCCeeeEEeecc---------------------------ccccee
Confidence 3445566778999999999889999999999998 898888888864 338999
Q ss_pred EecChHHHHHHHHhccCCceeecCeeeeeec
Q 041430 82 HFAMPTYVTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 82 ~F~~~~~a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
+|++-+||+.|+..+-. .|+++|+.|++.=
T Consensus 270 ~ftTR~aAE~Aae~~~n-~lvI~G~Rl~i~W 299 (377)
T KOG0153|consen 270 TFTTREAAEKAAEKSFN-KLVINGFRLKIKW 299 (377)
T ss_pred eehhhHHHHHHHHhhcc-eeeecceEEEEEe
Confidence 99999999999998866 8999999999873
No 40
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=96.09 E-value=0.023 Score=68.07 Aligned_cols=81 Identities=23% Similarity=0.306 Sum_probs=71.5
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
...||-|-|.|-.++.++|+.-|-. .|.|--..|-.. +.+++|.+-|||||-++.+|.
T Consensus 291 ~~~tVFvRNL~fD~tEEel~~~fsk-FG~v~ya~iV~~---------------------k~T~~skGtAFv~Fkt~~~~~ 348 (678)
T KOG0127|consen 291 EGKTVFVRNLPFDTTEEELKEHFSK-FGEVKYAIIVKD---------------------KDTGHSKGTAFVKFKTQIAAQ 348 (678)
T ss_pred ccceEEEecCCccccHHHHHHHHHh-hccceeEEEEec---------------------cCCCCcccceEEEeccHHHHH
Confidence 4589999999999999999999976 998877777765 557999999999999999999
Q ss_pred HHHHhc----cCCceeecCeeeeeecC
Q 041430 91 RAVDAA----GRTELFLNGRALKVSLG 113 (1197)
Q Consensus 91 ~a~~~a----~~~~l~~~~~~lkv~~~ 113 (1197)
.++.+| +-+.++|.|+.|+|.++
T Consensus 349 ~ci~~Aspa~e~g~~ll~GR~Lkv~~A 375 (678)
T KOG0127|consen 349 NCIEAASPASEDGSVLLDGRLLKVTLA 375 (678)
T ss_pred HHHHhcCccCCCceEEEeccEEeeeec
Confidence 999998 66669999999999853
No 41
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.08 E-value=0.02 Score=63.53 Aligned_cols=79 Identities=18% Similarity=0.241 Sum_probs=66.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
-.+|||||||+..++.+++.+-|-. .|.+--+|+... .+||||.|.+-|+|.
T Consensus 163 ~NtsVY~G~I~~~lte~~mr~~Fs~-fG~I~EVRvFk~---------------------------qGYaFVrF~tkEaAa 214 (321)
T KOG0148|consen 163 DNTSVYVGNIASGLTEDLMRQTFSP-FGPIQEVRVFKD---------------------------QGYAFVRFETKEAAA 214 (321)
T ss_pred CCceEEeCCcCccccHHHHHHhccc-CCcceEEEEecc---------------------------cceEEEEecchhhHH
Confidence 4589999999999998888888866 899999999864 579999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecCCCCCcc
Q 041430 91 RAVDAAGRTELFLNGRALKVSLGPENPFR 119 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~~~~~~~ 119 (1197)
+|+-..... =++|+.+|-+=+-+.+..
T Consensus 215 hAIv~mNnt--ei~G~~VkCsWGKe~~~~ 241 (321)
T KOG0148|consen 215 HAIVQMNNT--EIGGQLVRCSWGKEGDDG 241 (321)
T ss_pred HHHHHhcCc--eeCceEEEEeccccCCCC
Confidence 999988654 679999998876666543
No 42
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=95.93 E-value=0.016 Score=69.58 Aligned_cols=82 Identities=22% Similarity=0.286 Sum_probs=71.7
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
..|+|||+|-.++.++|.+.+.. +|.|.-.|+.-+ +.+++.++|||++|.+.|.|..|
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~-~g~v~s~~~v~D---------------------~~tG~~~G~~f~~~~~~~~~~~a 76 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSG-VGPVLSFRLVYD---------------------RETGKPKGFGFCEFTDEETAERA 76 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhc-cCccceeeeccc---------------------ccCCCcCceeeEecCchhhHHHH
Confidence 68999999999999999999996 899999999987 56789999999999999999999
Q ss_pred HHhccCCceeecCeeeeeecCCCCCc
Q 041430 93 VDAAGRTELFLNGRALKVSLGPENPF 118 (1197)
Q Consensus 93 ~~~a~~~~l~~~~~~lkv~~~~~~~~ 118 (1197)
+..=. ..=++|+.|+|.-+..++.
T Consensus 77 ~~~lN--g~~~~gr~l~v~~~~~~~~ 100 (435)
T KOG0108|consen 77 IRNLN--GAEFNGRKLRVNYASNRKN 100 (435)
T ss_pred HHhcC--CcccCCceEEeecccccch
Confidence 87643 3368999999997666663
No 43
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=95.84 E-value=0.014 Score=61.66 Aligned_cols=80 Identities=20% Similarity=0.258 Sum_probs=65.5
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
-..||+|||+|..++.+-|.+.|-+ +|.|-.+++=.+ .-+..-.+||||+|-+.|.|.
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iq-agpVv~i~iPkD---------------------rv~~~~qGygF~Ef~~eedad 65 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQ-AGPVVNLHIPKD---------------------RVTQKHQGYGFAEFRTEEDAD 65 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHh-cCceeeeecchh---------------------hhcccccceeEEEEechhhhH
Confidence 4579999999999999999999887 899887776543 113457799999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecCC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~~ 114 (1197)
.|+..-. -.-|-|++|||+-.+
T Consensus 66 YAikiln--~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 66 YAIKILN--MVKLYGRPIRVNKAS 87 (203)
T ss_pred HHHHHHH--HHHhcCceeEEEecc
Confidence 9999875 235779999999655
No 44
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.69 E-value=0.024 Score=67.07 Aligned_cols=75 Identities=20% Similarity=0.379 Sum_probs=64.3
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
.|.|-|+|..++-++|.++|.. +|.|--|.|.++ ...|.++ ||||+++++|..|+
T Consensus 78 ~~~i~nl~~~~~~~~~~d~f~~-~g~ilS~kv~~~-----------------------~~g~kg~-FV~f~~e~~a~~ai 132 (369)
T KOG0123|consen 78 LVFIKNLDESIDNKSLYDTFSE-FGNILSCKVATD-----------------------ENGSKGY-FVQFESEESAKKAI 132 (369)
T ss_pred eeeecCCCcccCcHHHHHHHHh-hcCeeEEEEEEc-----------------------CCCceee-EEEeCCHHHHHHHH
Confidence 3999999999999999999988 999999999997 2349999 99999999999999
Q ss_pred HhccCCceeecCeeeeeecCCC
Q 041430 94 DAAGRTELFLNGRALKVSLGPE 115 (1197)
Q Consensus 94 ~~a~~~~l~~~~~~lkv~~~~~ 115 (1197)
+.-. ..+++++.+-|.+...
T Consensus 133 ~~~n--g~ll~~kki~vg~~~~ 152 (369)
T KOG0123|consen 133 EKLN--GMLLNGKKIYVGLFER 152 (369)
T ss_pred HHhc--CcccCCCeeEEeeccc
Confidence 9764 4577788888764333
No 45
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=95.26 E-value=0.039 Score=63.14 Aligned_cols=81 Identities=16% Similarity=0.315 Sum_probs=69.2
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
....|||.-+-.+.+..|+|.-||. .|.+-.|.|... +...+-++|+|++|.+..|-.
T Consensus 209 ~fnRiYVaSvHpDLSe~DiKSVFEA-FG~I~~C~LAr~---------------------pt~~~HkGyGfiEy~n~qs~~ 266 (544)
T KOG0124|consen 209 KFNRIYVASVHPDLSETDIKSVFEA-FGEIVKCQLARA---------------------PTGRGHKGYGFIEYNNLQSQS 266 (544)
T ss_pred hhheEEeeecCCCccHHHHHHHHHh-hcceeeEEeecc---------------------CCCCCccceeeEEeccccchH
Confidence 3568999999999999999999998 999999999876 445677899999999999999
Q ss_pred HHHHhccCCcee-ecCeeeeeecCCCCC
Q 041430 91 RAVDAAGRTELF-LNGRALKVSLGPENP 117 (1197)
Q Consensus 91 ~a~~~a~~~~l~-~~~~~lkv~~~~~~~ 117 (1197)
.|+.-. .|+ +||+||+|- ..-+|
T Consensus 267 eAiasM---NlFDLGGQyLRVG-k~vTP 290 (544)
T KOG0124|consen 267 EAIASM---NLFDLGGQYLRVG-KCVTP 290 (544)
T ss_pred HHhhhc---chhhcccceEecc-cccCC
Confidence 998766 455 899999997 45554
No 46
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=94.98 E-value=0.047 Score=65.51 Aligned_cols=77 Identities=22% Similarity=0.306 Sum_probs=68.2
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
..|+-|+++|.+++.++|.+||-. +|.|-.|=+-|. ..+...|+|+||.|+..|.+.+
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~-vGPik~~~vVt~---------------------~gs~~~RGfgfVtFam~ED~qr 62 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSY-VGPIKHAVVVTN---------------------KGSSEKRGFGFVTFAMEEDVQR 62 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhc-ccCcceeEEecC---------------------CCcccccCccceeeehHhHHHH
Confidence 389999999999999999999966 999999999986 3356889999999999999999
Q ss_pred HHHhccCCceeecCeeeeeec
Q 041430 92 AVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
|+..+.++ -|+|+-|.|-+
T Consensus 63 A~~e~~~~--kf~Gr~l~v~~ 81 (678)
T KOG0127|consen 63 ALAETEQS--KFEGRILNVDP 81 (678)
T ss_pred HHHHhhcC--cccceeccccc
Confidence 99998754 58999998874
No 47
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=94.97 E-value=0.073 Score=56.06 Aligned_cols=74 Identities=24% Similarity=0.370 Sum_probs=54.7
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccc---cEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVG---GVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPT 87 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G---~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~ 87 (1197)
..+.|||||.+..++..||..-|-. .| .||+.+ ...+||||+|+++.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~-yG~lrsvWvAr-----------------------------nPPGfAFVEFed~R 58 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSK-YGPLRSVWVAR-----------------------------NPPGFAFVEFEDPR 58 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHh-cCcceeEEEee-----------------------------cCCCceEEeccCcc
Confidence 5789999999999999999665544 56 366543 36789999999999
Q ss_pred HHHHHHHhccCCceeecCeeeeeecCCCC
Q 041430 88 YVTRAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 88 ~a~~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
.|.-|...-.-. -+-|.-++|.+....
T Consensus 59 DA~DAvr~LDG~--~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 59 DAEDAVRYLDGK--DICGSRIRVELSTGR 85 (195)
T ss_pred cHHHHHhhcCCc--cccCceEEEEeecCC
Confidence 888888754321 456677888753333
No 48
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=94.81 E-value=0.025 Score=60.94 Aligned_cols=78 Identities=22% Similarity=0.339 Sum_probs=58.2
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
+-.+|+||||+...|+.+-|..-|-- .|.|..+.+-.+ .-+.+-|+||||+|..+|.|
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIP-FGDI~dIqiPlD---------------------yesqkHRgFgFVefe~aEDA 65 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIP-FGDIKDIQIPLD---------------------YESQKHRGFGFVEFEEAEDA 65 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhcccc-ccchhhcccccc---------------------hhcccccceeEEEeeccchh
Confidence 45689999999988888777655433 455554444332 22467899999999999999
Q ss_pred HHHHHhccCCceeecCeeeeee
Q 041430 90 TRAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
..|++-...++|+ |+.|+|-
T Consensus 66 aaAiDNMnesEL~--GrtirVN 85 (298)
T KOG0111|consen 66 AAAIDNMNESELF--GRTIRVN 85 (298)
T ss_pred HHHhhcCchhhhc--ceeEEEe
Confidence 9999998877665 6777776
No 49
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=94.43 E-value=0.077 Score=62.28 Aligned_cols=81 Identities=16% Similarity=0.210 Sum_probs=66.3
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.-.-...||-||++.+++||..+||. -|.|+-|-|-.+ ..++.+++..||-|.+.+.|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~-yg~V~einl~kD---------------------k~t~~s~gcCFv~~~trk~a 89 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEK-YGNVYEINLIKD---------------------KSTGQSKGCCFVKYYTRKEA 89 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHH-hCceeEEEeecc---------------------cccCcccceEEEEeccHHHH
Confidence 34455789999999999999999999 799999999887 34678999999999999999
Q ss_pred HHHHHhccCCc-eeecCeeeeeec
Q 041430 90 TRAVDAAGRTE-LFLNGRALKVSL 112 (1197)
Q Consensus 90 ~~a~~~a~~~~-l~~~~~~lkv~~ 112 (1197)
..|+++--+.+ |-=..++++|..
T Consensus 90 ~~a~~Alhn~ktlpG~~~pvqvk~ 113 (510)
T KOG0144|consen 90 DEAINALHNQKTLPGMHHPVQVKY 113 (510)
T ss_pred HHHHHHhhcccccCCCCcceeecc
Confidence 99999875433 223467777773
No 50
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=94.33 E-value=0.084 Score=63.23 Aligned_cols=76 Identities=21% Similarity=0.268 Sum_probs=66.4
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
...+|+|.|+|.+++.++|+++|-. .|.|...+|... .+..+...||||.|.+.+++.
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~-FG~Ik~~~I~vr---------------------~~~~~~~~fgFV~f~~~~~~~ 344 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQ-FGPIKEGGIQVR---------------------SPGGKNPCFGFVEFENAAAVQ 344 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhh-cccccccceEEe---------------------ccCCCcCceEEEEEeecchhh
Confidence 4556999999999999999999988 999999999886 112334499999999999999
Q ss_pred HHHHhccCCceeecCeeeeee
Q 041430 91 RAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
.|+.++ .+.+|++-|.|-
T Consensus 345 ~~i~As---p~~ig~~kl~Ve 362 (419)
T KOG0116|consen 345 NAIEAS---PLEIGGRKLNVE 362 (419)
T ss_pred hhhhcC---ccccCCeeEEEE
Confidence 999999 789999999998
No 51
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=94.12 E-value=0.074 Score=61.49 Aligned_cols=77 Identities=17% Similarity=0.270 Sum_probs=67.2
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
+..|-|||+|.+++.+++++|||. .|.|....+..+ +...++|+|+||+|.+.+++..
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~-~g~v~~~~~~~d---------------------~~~~~~rgFgfv~~~~e~sVdk 154 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQ-FGKVADVVIMYD---------------------KTTSRPRGFGFVTFDSEDSVDK 154 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhc-cceeEeeEEeec---------------------ccccccccceeeEeccccccce
Confidence 568999999999999999999999 789999999987 5567899999999999999998
Q ss_pred HHHhccCCceeecCeeeeeecC
Q 041430 92 AVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
++..--. -|+++.+.|.-+
T Consensus 155 v~~~~f~---~~~gk~vevkrA 173 (311)
T KOG4205|consen 155 VTLQKFH---DFNGKKVEVKRA 173 (311)
T ss_pred eccccee---eecCceeeEeec
Confidence 8887543 688888888743
No 52
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=93.42 E-value=0.28 Score=55.51 Aligned_cols=78 Identities=18% Similarity=0.245 Sum_probs=68.4
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
--.|+-|+-+.-.++...|+..||. -|.+-+++|-.+ .-+++|++||||.|....+-.
T Consensus 100 Py~TLFv~RLnydT~EskLrreF~~-YG~IkrirlV~d---------------------~vTgkskGYAFIeye~erdm~ 157 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTSESKLRREFEK-YGPIKRIRLVRD---------------------KVTGKSKGYAFIEYEHERDMK 157 (335)
T ss_pred ccceeeeeeccccccHHHHHHHHHh-cCcceeEEEeee---------------------cccCCccceEEEEeccHHHHH
Confidence 3468999999999999999999998 799999999987 347899999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeec
Q 041430 91 RAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
.|-..|. .+.++|+-+-|-.
T Consensus 158 ~AYK~ad--G~~Idgrri~VDv 177 (335)
T KOG0113|consen 158 AAYKDAD--GIKIDGRRILVDV 177 (335)
T ss_pred HHHHhcc--CceecCcEEEEEe
Confidence 9988886 5688888888773
No 53
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=93.32 E-value=0.33 Score=47.07 Aligned_cols=66 Identities=17% Similarity=0.083 Sum_probs=49.4
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccc-cEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVG-GVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G-~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
.|||.+-|||...+.++|.+.|++.+. .-.=.=|-. -.++.-..|||||-|+++++|.
T Consensus 1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPi---------------------Df~~~~N~GYAFVNf~~~~~~~ 59 (97)
T PF04059_consen 1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPI---------------------DFKNKCNLGYAFVNFTSPQAAI 59 (97)
T ss_pred CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeee---------------------eccCCCceEEEEEEcCCHHHHH
Confidence 389999999999999999999999762 211111111 1235678899999999999999
Q ss_pred HHHHhccC
Q 041430 91 RAVDAAGR 98 (1197)
Q Consensus 91 ~a~~~a~~ 98 (1197)
.-......
T Consensus 60 ~F~~~f~g 67 (97)
T PF04059_consen 60 RFYKAFNG 67 (97)
T ss_pred HHHHHHcC
Confidence 88777653
No 54
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=93.30 E-value=0.25 Score=54.02 Aligned_cols=80 Identities=19% Similarity=0.250 Sum_probs=63.2
Q ss_pred EEEEeCCCccccHHHHHHHHHhc---ccc-EEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENE---VGG-VWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~---~G~-v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
|+||-|....+..+||+.=|... .|. +....++| .+.|+-|||.|-+.++|
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt-------------------------~KmRGQA~VvFk~~~~A 65 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT-------------------------PKMRGQAFVVFKETEAA 65 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC-------------------------CCccCceEEEecChhHH
Confidence 99999999999999999954443 454 44444444 58999999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCCCCCccc
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGPENPFRL 120 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~~~~~~~ 120 (1197)
..|+.+-. ...|-|+++++--+-.+..++
T Consensus 66 s~A~r~l~--gfpFygK~mriqyA~s~sdii 94 (221)
T KOG4206|consen 66 SAALRALQ--GFPFYGKPMRIQYAKSDSDII 94 (221)
T ss_pred HHHHHHhc--CCcccCchhheecccCccchh
Confidence 99999553 578889999998666555445
No 55
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=93.04 E-value=0.4 Score=54.89 Aligned_cols=84 Identities=14% Similarity=0.184 Sum_probs=68.7
Q ss_pred ccccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEe
Q 041430 4 EGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHF 83 (1197)
Q Consensus 4 ~~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F 83 (1197)
+.++..---+.++|+|||=..-.-||+.-||. +|.|--++|-.- -.+|.+|+||.|
T Consensus 88 t~s~s~~~pkRLhVSNIPFrFRdpDL~aMF~k-fG~VldVEIIfN-----------------------ERGSKGFGFVTm 143 (376)
T KOG0125|consen 88 TNSSSKDTPKRLHVSNIPFRFRDPDLRAMFEK-FGKVLDVEIIFN-----------------------ERGSKGFGFVTM 143 (376)
T ss_pred CcCCCCCCCceeEeecCCccccCccHHHHHHh-hCceeeEEEEec-----------------------cCCCCccceEEe
Confidence 33444456678999999999999999999998 999999999885 368999999999
Q ss_pred cChHHHHHHHHhccCCceeecCeeeeeecC
Q 041430 84 AMPTYVTRAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 84 ~~~~~a~~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
++++.|.+|-..-- +=.+.|+-+-|..+
T Consensus 144 en~~dadRARa~LH--gt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 144 ENPADADRARAELH--GTVVEGRKIEVNNA 171 (376)
T ss_pred cChhhHHHHHHHhh--cceeeceEEEEecc
Confidence 99999999866432 22778888888843
No 56
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=92.90 E-value=0.22 Score=53.68 Aligned_cols=76 Identities=24% Similarity=0.312 Sum_probs=60.9
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhc--cccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENE--VGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~--~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.+++.|-|+---+++++|..-||.+ +|.|+.=+= .-+..+++||||.|-.-..|
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrd------------------------r~Tr~sRgFaFVrf~~k~da 68 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRD------------------------RYTRQSRGFAFVRFHDKRDA 68 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccc------------------------cccccccceeEEEeeecchH
Confidence 4678899999999999999999984 244543221 33688999999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
+.|+++.. .-++.|+-|+|..+
T Consensus 69 edA~damD--G~~ldgRelrVq~a 90 (256)
T KOG4207|consen 69 EDALDAMD--GAVLDGRELRVQMA 90 (256)
T ss_pred HHHHHhhc--ceeeccceeeehhh
Confidence 99999875 34899999998843
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=92.89 E-value=0.15 Score=60.53 Aligned_cols=83 Identities=18% Similarity=0.336 Sum_probs=71.0
Q ss_pred cccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 9 LLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 9 ~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
..-...++|.|.+..++.+.|.+.|.. .|+++.++|... .++++.+++||.|.+++.
T Consensus 267 ~~~~~nl~vknld~~~~~e~L~~~f~~-~GeI~s~kv~~~----------------------~~g~skG~gfV~fs~~ee 323 (369)
T KOG0123|consen 267 SLQGANLYVKNLDETLSDEKLRKIFSS-FGEITSAKVMVD----------------------ENGKSKGFGFVEFSSPEE 323 (369)
T ss_pred cccccccccccCccccchhHHHHHHhc-ccceeeEEEEec----------------------cCCCccceEEEEcCCHHH
Confidence 445678999999999999999999988 999999999985 358899999999999999
Q ss_pred HHHHHHhccCCceeecCeeeeeecCCCC
Q 041430 89 VTRAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
|..|+.-... =.+++++|.|.++...
T Consensus 324 A~~A~~~~n~--~~i~~k~l~vav~qr~ 349 (369)
T KOG0123|consen 324 AKKAMTEMNG--RLIGGKPLYVAVAQRK 349 (369)
T ss_pred HHHHHHhhCh--hhhcCCchhhhHHhhh
Confidence 9999887653 3788999999876533
No 58
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=92.75 E-value=0.35 Score=48.78 Aligned_cols=79 Identities=13% Similarity=0.164 Sum_probs=60.8
Q ss_pred cccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 9 LLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 9 ~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
.+-+.||+|||+.-.++.+++-+.|-. ||.|-|+-.=.+ ......-+|.||.|-+.+.
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~-cG~irriiMGLd---------------------r~kktpCGFCFVeyy~~~d 90 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSK-CGDIRRIIMGLD---------------------RFKKTPCGFCFVEYYSRDD 90 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHh-ccchheeEeccc---------------------cCCcCccceEEEEEecchh
Confidence 346789999999999999999998866 999998866554 2234455999999999999
Q ss_pred HHHHHHhccCCceeecCeeeeee
Q 041430 89 VTRAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
|..|+.--+. -.+..+++++-
T Consensus 91 A~~Alryisg--trLddr~ir~D 111 (153)
T KOG0121|consen 91 AEDALRYISG--TRLDDRPIRID 111 (153)
T ss_pred HHHHHHHhcc--Ccccccceeee
Confidence 9999986442 24555665554
No 59
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=92.27 E-value=0.13 Score=59.51 Aligned_cols=74 Identities=23% Similarity=0.419 Sum_probs=61.8
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
..++-|||++-.++.+.|++|| ...|+|+-|-++-+ +...++|+|+||+|++++....
T Consensus 6 ~~KlfiGgisw~ttee~Lr~yf-~~~Gev~d~~vm~d---------------------~~t~rsrgFgfv~f~~~~~v~~ 63 (311)
T KOG4205|consen 6 SGKLFIGGLSWETTEESLREYF-SQFGEVTDCVVMRD---------------------PSTGRSRGFGFVTFATPEGVDA 63 (311)
T ss_pred CcceeecCcCccccHHHHHHHh-cccCceeeEEEecc---------------------CCCCCcccccceecCCCcchhe
Confidence 3567899999999999999999 55899999999987 4457899999999999999998
Q ss_pred HHHhccCCceeecCeeeee
Q 041430 92 AVDAAGRTELFLNGRALKV 110 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv 110 (1197)
++..- .+-+.|+.+-+
T Consensus 64 vl~~~---~h~~dgr~ve~ 79 (311)
T KOG4205|consen 64 VLNAR---THKLDGRSVEP 79 (311)
T ss_pred eeccc---ccccCCccccc
Confidence 88875 34566665543
No 60
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=91.97 E-value=0.49 Score=52.53 Aligned_cols=76 Identities=20% Similarity=0.338 Sum_probs=66.7
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.+-+-|.=.|+..|.+|++..|-+ +|++-.|.|--+ .-.+.|-+|+||.+.+++.|..
T Consensus 41 kTNLIvNYLPQ~MTqdE~rSLF~S-iGeiEScKLvRD---------------------KitGqSLGYGFVNYv~p~DAe~ 98 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELRSLFGS-IGEIESCKLVRD---------------------KITGQSLGYGFVNYVRPKDAEK 98 (360)
T ss_pred cceeeeeecccccCHHHHHHHhhc-ccceeeeeeeec---------------------cccccccccceeeecChHHHHH
Confidence 345567889999999999999988 999999999876 2268899999999999999999
Q ss_pred HHHhccCCceeecCeeeeee
Q 041430 92 AVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~ 111 (1197)
|++.-. .|.+-++-+|||
T Consensus 99 AintlN--GLrLQ~KTIKVS 116 (360)
T KOG0145|consen 99 AINTLN--GLRLQNKTIKVS 116 (360)
T ss_pred HHhhhc--ceeeccceEEEE
Confidence 999763 799999999999
No 61
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=91.52 E-value=0.41 Score=57.40 Aligned_cols=75 Identities=16% Similarity=0.233 Sum_probs=61.5
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
-..-|++-|.|=+.|++||.+||++.. |.. +++. ..+++..+-|+|+|++.|.+.
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~--I~~--~~~~---------------------r~~Gr~sGeA~Ve~~seedv~ 63 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG--IEN--LEIP---------------------RRNGRPSGEAYVEFTSEEDVE 63 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc--eeE--EEEe---------------------ccCCCcCcceEEEeechHHHH
Confidence 456789999999999999999999933 333 4443 446889999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
.|+..- +--.+.+|+-|-.+
T Consensus 64 ~Alkkd---R~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 64 KALKKD---RESMGHRYIEVFTA 83 (510)
T ss_pred HHHHhh---HHHhCCceEEEEcc
Confidence 999876 34789999999843
No 62
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=91.51 E-value=0.46 Score=59.12 Aligned_cols=79 Identities=16% Similarity=0.259 Sum_probs=64.2
Q ss_pred EEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHH
Q 041430 15 VSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVD 94 (1197)
Q Consensus 15 i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~ 94 (1197)
++|.|.+-..+.+++.+-|.. .|.|--|+|... ++. .+--.|.+||||+|.++|+|+.|+.
T Consensus 518 lfvkNlnf~Tt~e~l~~~F~k-~G~VlS~~I~kk---kd~---------------~~k~lSmGfgFVEF~~~e~A~~a~k 578 (725)
T KOG0110|consen 518 LFVKNLNFDTTLEDLEDLFSK-QGTVLSIEISKK---KDP---------------ANKYLSMGFGFVEFAKPESAQAALK 578 (725)
T ss_pred hhhhcCCcccchhHHHHHHHh-cCeEEEEEEecc---ccc---------------cccccccceeEEEecCHHHHHHHHH
Confidence 889999999999999999998 999999999885 110 0012588999999999999999999
Q ss_pred hccCCceeecCeeeeeecCC
Q 041430 95 AAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 95 ~a~~~~l~~~~~~lkv~~~~ 114 (1197)
+.+- =.+.|+.|.++..+
T Consensus 579 ~lqg--tvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 579 ALQG--TVLDGHKLELKISE 596 (725)
T ss_pred HhcC--ceecCceEEEEecc
Confidence 8541 28899999988544
No 63
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=91.09 E-value=0.45 Score=57.43 Aligned_cols=65 Identities=25% Similarity=0.310 Sum_probs=59.5
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
-.+||-|||.|.-++|.||...+|...|.|-=.-|.|+ ++++=..+-|.|.|.+-.|=.
T Consensus 369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD---------------------~k~KYPkGaGRVtFsnqqsYi 427 (520)
T KOG0129|consen 369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTD---------------------PKLKYPKGAGRVTFSNQQAYI 427 (520)
T ss_pred ccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccC---------------------cccCCCCCcceeeecccHHHH
Confidence 46899999999999999999999999999999999998 566667889999999999999
Q ss_pred HHHHhc
Q 041430 91 RAVDAA 96 (1197)
Q Consensus 91 ~a~~~a 96 (1197)
.|+.++
T Consensus 428 ~AIsar 433 (520)
T KOG0129|consen 428 KAISAR 433 (520)
T ss_pred HHHhhh
Confidence 999985
No 64
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=90.88 E-value=0.47 Score=59.48 Aligned_cols=72 Identities=17% Similarity=0.315 Sum_probs=60.8
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.|.||+-|||+|+.++..||++-||+ +|.|-.+-+- ..|+||||--.+-.+|
T Consensus 419 V~SrTLwvG~i~k~v~e~dL~~~fee-fGeiqSi~li---------------------------~~R~cAfI~M~~RqdA 470 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVTEQDLANLFEE-FGEIQSIILI---------------------------PPRGCAFIKMVRRQDA 470 (894)
T ss_pred EeeeeeeeccccchhhHHHHHHHHHh-cccceeEeec---------------------------cCCceeEEEEeehhHH
Confidence 48999999999999999999999999 9988776554 5789999999999999
Q ss_pred HHHHHhccCCceeecCeeeeee
Q 041430 90 TRAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
..|+.+.. +.=++++.+|+.
T Consensus 471 ~kalqkl~--n~kv~~k~Iki~ 490 (894)
T KOG0132|consen 471 EKALQKLS--NVKVADKTIKIA 490 (894)
T ss_pred HHHHHHHh--cccccceeeEEe
Confidence 99999875 344566666554
No 65
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=90.56 E-value=0.44 Score=53.80 Aligned_cols=69 Identities=23% Similarity=0.379 Sum_probs=60.7
Q ss_pred EEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHH
Q 041430 15 VSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVD 94 (1197)
Q Consensus 15 i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~ 94 (1197)
.-|||.|..+++.+|+..||. .|.|.-|.|-.- |||||-++..+|.-|+.
T Consensus 5 LFIGNLp~~~~~~elr~lFe~-ygkVlECDIvKN-----------------------------YgFVHiEdktaaedair 54 (346)
T KOG0109|consen 5 LFIGNLPREATEQELRSLFEQ-YGKVLECDIVKN-----------------------------YGFVHIEDKTAAEDAIR 54 (346)
T ss_pred hhccCCCcccchHHHHHHHHh-hCceEeeeeecc-----------------------------cceEEeecccccHHHHh
Confidence 458999999999999999998 899999998753 78999999999999998
Q ss_pred -hccCCceeecCeeeeeecCCCCC
Q 041430 95 -AAGRTELFLNGRALKVSLGPENP 117 (1197)
Q Consensus 95 -~a~~~~l~~~~~~lkv~~~~~~~ 117 (1197)
|- ++-|+|..++|. ++++.
T Consensus 55 NLh---gYtLhg~nInVe-aSksK 74 (346)
T KOG0109|consen 55 NLH---GYTLHGVNINVE-ASKSK 74 (346)
T ss_pred hcc---cceecceEEEEE-ecccc
Confidence 54 568999999998 67776
No 66
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=90.50 E-value=0.47 Score=56.92 Aligned_cols=80 Identities=18% Similarity=0.164 Sum_probs=58.9
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
..-.|++-|.|=.+|.+|+.+||+-.- .|..-=+.+. ..-.++.+=|||||++.|+|+
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~-Iv~~gi~l~~---------------------d~rgR~tGEAfVqF~sqe~ae 159 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLE-IVPDGILLPM---------------------DQRGRPTGEAFVQFESQESAE 159 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCc-ccccceeeec---------------------cCCCCcccceEEEecCHHHHH
Confidence 456799999999999999999997621 2333111221 224668899999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecCCC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLGPE 115 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~~~ 115 (1197)
.|+..=.+ .+|.+|+-|-.++.
T Consensus 160 ~Al~rhre---~iGhRYIEvF~Ss~ 181 (510)
T KOG4211|consen 160 IALGRHRE---NIGHRYIEVFRSSR 181 (510)
T ss_pred HHHHHHHH---hhccceEEeehhHH
Confidence 99987644 78888888764443
No 67
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=90.28 E-value=0.44 Score=53.14 Aligned_cols=81 Identities=23% Similarity=0.286 Sum_probs=67.4
Q ss_pred cccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecCh
Q 041430 7 EKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMP 86 (1197)
Q Consensus 7 ~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~ 86 (1197)
.++..++.|.||+.+-.++..++..=+|. ||.+-+..+.++ ...++++++|+|.|.+.
T Consensus 96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~-Cg~i~~~ti~~d---------------------~~~~~~k~~~yvef~~~ 153 (231)
T KOG4209|consen 96 QKEVDAPSVWVGNVDFLVTLTKIELHFES-CGGINRVTVPKD---------------------KFRGHPKGFAYVEFSSY 153 (231)
T ss_pred hhccCCceEEEeccccccccchhhheeec-cCCccceeeecc---------------------ccCCCcceeEEEecccH
Confidence 34557889999999999999997777777 999999999987 34567899999999999
Q ss_pred HHHHHHHHhccCCceeecCeeeeeec
Q 041430 87 TYVTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 87 ~~a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
+++..|+.+-+. -+.|..++|+.
T Consensus 154 ~~~~~ay~l~gs---~i~~~~i~vt~ 176 (231)
T KOG4209|consen 154 ELVEEAYKLDGS---EIPGPAIEVTL 176 (231)
T ss_pred hhhHHHhhcCCc---ccccccceeee
Confidence 999999996543 56677777774
No 68
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=89.81 E-value=0.4 Score=56.59 Aligned_cols=84 Identities=17% Similarity=0.249 Sum_probs=68.3
Q ss_pred ccccccc--ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEE
Q 041430 5 GREKLLV--DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVH 82 (1197)
Q Consensus 5 ~~~~~~~--~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~ 82 (1197)
+.|+|.. .+.+.||=+++.++..||.+-|-+ .|.+--|+|.-+ .++.||+.|||.
T Consensus 115 d~E~er~~~e~KLFvg~lsK~~te~evr~iFs~-fG~Ied~~ilrd----------------------~~~~sRGcaFV~ 171 (510)
T KOG0144|consen 115 DGERERIVEERKLFVGMLSKQCTENEVREIFSR-FGHIEDCYILRD----------------------PDGLSRGCAFVK 171 (510)
T ss_pred chhhhccccchhhhhhhccccccHHHHHHHHHh-hCccchhhheec----------------------ccccccceeEEE
Confidence 4455554 567789999999999999999977 899999999875 468999999999
Q ss_pred ecChHHHHHHHHhccCCceeec-Ceeeeee
Q 041430 83 FAMPTYVTRAVDAAGRTELFLN-GRALKVS 111 (1197)
Q Consensus 83 F~~~~~a~~a~~~a~~~~l~~~-~~~lkv~ 111 (1197)
|++-|-|..|+.+.....=.-| +.||-|.
T Consensus 172 fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 172 FSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred EehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 9999999999998764332333 6788777
No 69
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=89.69 E-value=0.8 Score=39.46 Aligned_cols=52 Identities=12% Similarity=0.287 Sum_probs=42.0
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
++|.|+||+.... ++|..+|.+ +|.+..+.+- ...+.++|+|.+..+|..|
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~-fGeI~~~~~~---------------------------~~~~~~~l~y~~~~~ae~A 52 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFAS-FGEIVDIYVP---------------------------ESTNWMYLKYKSRKDAEKA 52 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHh-cCCEEEEEcC---------------------------CCCcEEEEEECCHHHHHhh
Confidence 6899999997765 556668886 9999886654 2457899999999999998
Q ss_pred H
Q 041430 93 V 93 (1197)
Q Consensus 93 ~ 93 (1197)
+
T Consensus 53 l 53 (53)
T PF14605_consen 53 L 53 (53)
T ss_pred C
Confidence 5
No 70
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=88.76 E-value=1.8 Score=47.39 Aligned_cols=85 Identities=22% Similarity=0.328 Sum_probs=63.2
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCc-cceEEEEecChHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKV-EPHAFVHFAMPTYV 89 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~V~F~~~~~a 89 (1197)
.++|+-|+|.|.+|+++||-..|-.--|.- -|-||-+ .+.+++ .|.|||.|.+...|
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYE-gslLK~T---------------------sk~~~~~~pvaFatF~s~q~A 90 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYE-GSLLKYT---------------------SKGDQVCKPVAFATFTSHQFA 90 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCcc-ceeeeec---------------------cCCCccccceEEEEecchHHH
Confidence 589999999999999999999998877742 2445543 222223 39999999999999
Q ss_pred HHHHHhccCCceeec---CeeeeeecCCCCCcc
Q 041430 90 TRAVDAAGRTELFLN---GRALKVSLGPENPFR 119 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~---~~~lkv~~~~~~~~~ 119 (1197)
..|+++-+ .+.|+ ++.|.+.++-.|+-+
T Consensus 91 ~aamnaLN--GvrFDpE~~stLhiElAKSNtK~ 121 (284)
T KOG1457|consen 91 LAAMNALN--GVRFDPETGSTLHIELAKSNTKR 121 (284)
T ss_pred HHHHHHhc--CeeeccccCceeEeeehhcCccc
Confidence 99999864 45664 677777766666533
No 71
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=87.14 E-value=2.6 Score=41.38 Aligned_cols=74 Identities=16% Similarity=0.228 Sum_probs=63.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
|.+-++|-|.|-++|++|.-+.|-. -|.|--+||-.. ...++-|||-.++-..|+
T Consensus 17 vnriLyirNLp~~ITseemydlFGk-yg~IrQIRiG~~------------------------k~TrGTAFVVYedi~dAk 71 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGK-YGTIRQIRIGNT------------------------KETRGTAFVVYEDIFDAK 71 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhc-ccceEEEEecCc------------------------cCcCceEEEEehHhhhHH
Confidence 7788999999999999999998876 789999999764 678899999999999999
Q ss_pred HHHHhccCCceeecCeeeeee
Q 041430 91 RAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
.|.+--. ..-+.+.||.|-
T Consensus 72 ~A~dhls--g~n~~~ryl~vl 90 (124)
T KOG0114|consen 72 KACDHLS--GYNVDNRYLVVL 90 (124)
T ss_pred HHHHHhc--ccccCCceEEEE
Confidence 9998542 236788888886
No 72
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=86.47 E-value=1.9 Score=40.81 Aligned_cols=72 Identities=14% Similarity=0.171 Sum_probs=45.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccc--cEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVG--GVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G--~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
|.+.++|+|.|....+..++..|-+... .+-.+.| +.+-|+|.|.++|+
T Consensus 1 ~~s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v-----------------------------~~~tAilrF~~~~~ 51 (90)
T PF11608_consen 1 CHSLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV-----------------------------SGGTAILRFPNQEF 51 (90)
T ss_dssp SSEEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------------------------------TT-EEEEESSHHH
T ss_pred CccEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE-----------------------------eCCEEEEEeCCHHH
Confidence 4578899999999999999988876543 1333333 22569999999999
Q ss_pred HHHHHHhccCCceeecCeeeeeecC
Q 041430 89 VTRAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
|.+|...... +.+||++ +.|+-.
T Consensus 52 A~RA~KRmeg-EdVfG~k-I~v~~~ 74 (90)
T PF11608_consen 52 AERAQKRMEG-EDVFGNK-ISVSFS 74 (90)
T ss_dssp HHHHHHHHTT---SSSS---EEESS
T ss_pred HHHHHHhhcc-cccccce-EEEEEc
Confidence 9999998753 7788765 445533
No 73
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=86.42 E-value=1.4 Score=43.27 Aligned_cols=70 Identities=14% Similarity=0.382 Sum_probs=43.2
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
.|.+.|.+..++-++|++.|.. .|.|-=+. |.+-..-|+|.|.++++|+.|+
T Consensus 3 il~~~g~~~~~~re~iK~~f~~-~g~V~yVD---------------------------~~~G~~~g~VRf~~~~~A~~a~ 54 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQ-FGEVAYVD---------------------------FSRGDTEGYVRFKTPEAAQKAL 54 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-S-S--EEEEE-----------------------------TT-SEEEEEESS---HHHHH
T ss_pred EEEEecCCCCcCHHHHHHHHHh-cCCcceEE---------------------------ecCCCCEEEEEECCcchHHHHH
Confidence 5789999999999999999998 66443222 3456678999999999999999
Q ss_pred HhccCC---ceeecCeeeeee
Q 041430 94 DAAGRT---ELFLNGRALKVS 111 (1197)
Q Consensus 94 ~~a~~~---~l~~~~~~lkv~ 111 (1197)
..+... .|.+++..++++
T Consensus 55 ~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 55 EKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp HHHHHTTTS-B-TTSSSEEEE
T ss_pred HHHHhccCCceEEcCceEEEE
Confidence 987654 566776666655
No 74
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=86.20 E-value=0.98 Score=54.95 Aligned_cols=74 Identities=20% Similarity=0.331 Sum_probs=64.0
Q ss_pred EEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHH
Q 041430 15 VSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVD 94 (1197)
Q Consensus 15 i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~ 94 (1197)
++|||.--+.++++|..-||. .|.|-.+-+-.+ ..++.+.+|+|+||..+|.|+.|+.
T Consensus 281 l~vgnLHfNite~~lr~ifep-fg~Ie~v~l~~d---------------------~~tG~skgfGfi~f~~~~~ar~a~e 338 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEP-FGKIENVQLTKD---------------------SETGRSKGFGFITFVNKEDARKALE 338 (549)
T ss_pred hhhcccccCchHHHHhhhccC-cccceeeeeccc---------------------cccccccCcceEEEecHHHHHHHHH
Confidence 789999999999999999998 887777777665 4478999999999999999999976
Q ss_pred hccCCceeecCeeeeeec
Q 041430 95 AAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 95 ~a~~~~l~~~~~~lkv~~ 112 (1197)
.-. .|.+-|.++||+.
T Consensus 339 ~ln--gfelAGr~ikV~~ 354 (549)
T KOG0147|consen 339 QLN--GFELAGRLIKVSV 354 (549)
T ss_pred Hhc--cceecCceEEEEE
Confidence 543 3889999999994
No 75
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=86.01 E-value=0.42 Score=57.96 Aligned_cols=85 Identities=20% Similarity=0.199 Sum_probs=75.2
Q ss_pred cccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEec
Q 041430 5 GREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFA 84 (1197)
Q Consensus 5 ~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~ 84 (1197)
-.++|...+||-+.=.....+..+|-+||.. +|.|--++|-++ ....++.+.|-|.|.
T Consensus 172 l~~eERd~Rtvf~~qla~r~~pRdL~efFs~-~gkVrdVriI~D---------------------r~s~rskgi~Yvef~ 229 (549)
T KOG0147|consen 172 LSPEERDQRTVFCMQLARRNPPRDLEEFFSI-VGKVRDVRIIGD---------------------RNSRRSKGIAYVEFC 229 (549)
T ss_pred CCchHHhHHHHHHHHHhhcCCchhHHHHHHh-hcCcceeEeecc---------------------ccchhhcceeEEEEe
Confidence 3456778888888888889999999999987 999999999988 557789999999999
Q ss_pred ChHHHHHHHHhccCCceeecCeeeeeecCC
Q 041430 85 MPTYVTRAVDAAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 85 ~~~~a~~a~~~a~~~~l~~~~~~lkv~~~~ 114 (1197)
+.++...|+.+.|+ .+.|.||.|.+..
T Consensus 230 D~~sVp~aiaLsGq---rllg~pv~vq~sE 256 (549)
T KOG0147|consen 230 DEQSVPLAIALSGQ---RLLGVPVIVQLSE 256 (549)
T ss_pred cccchhhHhhhcCC---cccCceeEecccH
Confidence 99999999999998 8999999998543
No 76
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=84.14 E-value=1.1 Score=50.82 Aligned_cols=72 Identities=22% Similarity=0.356 Sum_probs=60.1
Q ss_pred cccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 9 LLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 9 ~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
.-.++++.|||+..+.++.||..-||. -|.|--|.|-. .||||||...|.
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~-ygpviecdivk-----------------------------dy~fvh~d~~ed 124 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEK-YGPVIECDIVK-----------------------------DYAFVHFDRAED 124 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcc-cCCceeeeeec-----------------------------ceeEEEEeeccc
Confidence 346889999999999999999999998 78888887654 589999999999
Q ss_pred HHHHHHhccCCceeecCeeeeeec
Q 041430 89 VTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
|..|+.--.. -.|.|++++|.+
T Consensus 125 a~~air~l~~--~~~~gk~m~vq~ 146 (346)
T KOG0109|consen 125 AVEAIRGLDN--TEFQGKRMHVQL 146 (346)
T ss_pred hHHHHhcccc--cccccceeeeee
Confidence 9998853322 278999999985
No 77
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=82.91 E-value=4.9 Score=39.32 Aligned_cols=79 Identities=13% Similarity=0.223 Sum_probs=46.3
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.+-|.|.|||.. .+..|.++|++ +|.+-...=-++ + ...+... ..-.......++|.++.+|.+
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~-~G~Ile~~~~~~-----~--------~~~~~~~-~~~~~~NWi~I~Y~~~~~A~r 69 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSS-FGTILEHFEVLR-----S--------SSGINPY-PIPSGGNWIHITYDNPLSAQR 69 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHC-CS-EECEEGGG------------------------E-CCTTEEEEEESSHHHHHH
T ss_pred CeEEEEEccCHH-HHHHHHHHHHh-cceEEEeecccc-----c--------ccccccc-cCCCCCCEEEEECCCHHHHHH
Confidence 456899999999 77889999988 897644430011 0 0000000 011234568899999999999
Q ss_pred HHHhccCCceeecCeeee
Q 041430 92 AVDAAGRTELFLNGRALK 109 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lk 109 (1197)
||..-|. +++|..+-
T Consensus 70 AL~~NG~---i~~g~~mv 84 (100)
T PF05172_consen 70 ALQKNGT---IFSGSLMV 84 (100)
T ss_dssp HHTTTTE---EETTCEEE
T ss_pred HHHhCCe---EEcCcEEE
Confidence 9988664 77776554
No 78
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=82.87 E-value=2.4 Score=43.29 Aligned_cols=75 Identities=16% Similarity=0.177 Sum_probs=64.2
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.=.|-|+|+-..++.+++.+-|-. .|.|--+.|..+ .+++-+.+||-|++++.+.|+.
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~d-yGeiKNihLNLD---------------------RRtGy~KGYaLvEYet~keAq~ 129 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFAD-YGEIKNIHLNLD---------------------RRTGYVKGYALVEYETLKEAQA 129 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhh-cccccceeeccc---------------------cccccccceeeeehHhHHHHHH
Confidence 346789999999999999998877 799999999998 7788899999999999999999
Q ss_pred HHHhccCCceeecCeeeee
Q 041430 92 AVDAAGRTELFLNGRALKV 110 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv 110 (1197)
|+++.+ .+-|-|+.++|
T Consensus 130 A~~~~N--g~~ll~q~v~V 146 (170)
T KOG0130|consen 130 AIDALN--GAELLGQNVSV 146 (170)
T ss_pred HHHhcc--chhhhCCceeE
Confidence 999875 33455677765
No 79
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=80.70 E-value=1.7 Score=50.87 Aligned_cols=73 Identities=16% Similarity=0.155 Sum_probs=53.6
Q ss_pred cEEEEeCCCccccHHHHHHHHH---hccc-cEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLE---NEVG-GVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le---~~~G-~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
-.|++-|.|-+.++.||.+||- -..| .+-.+=++- ..+++.+-|||.|+.+|.
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-----------------------pdgrpTGdAFvlfa~ee~ 218 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-----------------------PDGRPTGDAFVLFACEED 218 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-----------------------CCCCcccceEEEecCHHH
Confidence 4678899999999999999994 3333 333333332 247899999999999999
Q ss_pred HHHHHHhccCCceeecCeeeeee
Q 041430 89 VTRAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
|..|+..-.+ .+|.+|+.+-
T Consensus 219 aq~aL~khrq---~iGqRYIElF 238 (508)
T KOG1365|consen 219 AQFALRKHRQ---NIGQRYIELF 238 (508)
T ss_pred HHHHHHHHHH---HHhHHHHHHH
Confidence 9999986544 5566665543
No 80
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=79.71 E-value=1.9 Score=48.16 Aligned_cols=63 Identities=16% Similarity=0.253 Sum_probs=53.3
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
-..-+||+|+|++.+.+||...|-. .|.+---||..+ .-++.||+-+||.|.--+.|+
T Consensus 126 k~aNLYvSGlPktMtqkelE~iFs~-fGrIItSRiL~d---------------------qvtg~srGVgFiRFDKr~EAe 183 (360)
T KOG0145|consen 126 KDANLYVSGLPKTMTQKELEQIFSP-FGRIITSRILVD---------------------QVTGLSRGVGFIRFDKRIEAE 183 (360)
T ss_pred cccceEEecCCccchHHHHHHHHHH-hhhhhhhhhhhh---------------------cccceecceeEEEecchhHHH
Confidence 3456899999999999999988876 787777778776 346889999999999999999
Q ss_pred HHHHh
Q 041430 91 RAVDA 95 (1197)
Q Consensus 91 ~a~~~ 95 (1197)
.|+..
T Consensus 184 ~AIk~ 188 (360)
T KOG0145|consen 184 EAIKG 188 (360)
T ss_pred HHHHh
Confidence 98875
No 81
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=79.49 E-value=2.9 Score=48.54 Aligned_cols=75 Identities=21% Similarity=0.382 Sum_probs=55.2
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
.||||-|.-....+-+..-|.- .|.+.. |.-||.|- +.+-.+||||+++-||+|.+|+
T Consensus 115 RvYVGSIsfEl~EDtiR~AF~P-FGPIKS--InMSWDp~-------------------T~kHKgFAFVEYEvPEaAqLAl 172 (544)
T KOG0124|consen 115 RVYVGSISFELREDTIRRAFDP-FGPIKS--INMSWDPA-------------------TGKHKGFAFVEYEVPEAAQLAL 172 (544)
T ss_pred heeeeeeEEEechHHHHhhccC-CCCcce--eecccccc-------------------cccccceEEEEEeCcHHHHHHH
Confidence 4777777777776666666554 555543 33445443 4577899999999999999999
Q ss_pred HhccCCceeecCeeeeeec
Q 041430 94 DAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 94 ~~a~~~~l~~~~~~lkv~~ 112 (1197)
.-.+ .-.+||+.+||-.
T Consensus 173 EqMN--g~mlGGRNiKVgr 189 (544)
T KOG0124|consen 173 EQMN--GQMLGGRNIKVGR 189 (544)
T ss_pred HHhc--cccccCccccccC
Confidence 9875 3589999999984
No 82
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=77.95 E-value=6.5 Score=44.30 Aligned_cols=78 Identities=21% Similarity=0.216 Sum_probs=63.5
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.-.++|.|.|.|..|+.+||++.|++.. .+.++-|-- ++.+.|-+-|-|.|...+.|
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~-~~~r~~vhy----------------------~~~G~s~Gta~v~~~r~~DA 137 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFG-ELKRVAVHY----------------------DRAGRSLGTADVSFNRRDDA 137 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhc-cceEEeecc----------------------CCCCCCCccceeeecchHhH
Confidence 3457899999999999999999999954 555555543 56788999999999999888
Q ss_pred HHHHHhccCCceeecCeeeeeec
Q 041430 90 TRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
..|+..=. ..-++|+++++..
T Consensus 138 ~~avk~~~--gv~ldG~~mk~~~ 158 (243)
T KOG0533|consen 138 ERAVKKYN--GVALDGRPMKIEI 158 (243)
T ss_pred HHHHHHhc--CcccCCceeeeEE
Confidence 88887643 2678999999884
No 83
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=77.76 E-value=4.4 Score=45.46 Aligned_cols=75 Identities=19% Similarity=0.267 Sum_probs=62.7
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
.+-|+-.|......||..-|-- .|.|-.-.+..+ +-++.|..|+||-|.++.||..|+
T Consensus 287 NlFIYHLPQEFgDaEliQmF~P-FGhivSaKVFvD---------------------RATNQSKCFGFVSfDNp~SaQaAI 344 (371)
T KOG0146|consen 287 NLFIYHLPQEFGDAELIQMFLP-FGHIVSAKVFVD---------------------RATNQSKCFGFVSFDNPASAQAAI 344 (371)
T ss_pred eEEEEeCchhhccHHHHHHhcc-ccceeeeeeeeh---------------------hccccccceeeEecCCchhHHHHH
Confidence 4678889999999888877765 687777777776 456789999999999999999999
Q ss_pred HhccCCceeecCeeeeeec
Q 041430 94 DAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 94 ~~a~~~~l~~~~~~lkv~~ 112 (1197)
.+.+ ..-+|=+.|||.+
T Consensus 345 qAMN--GFQIGMKRLKVQL 361 (371)
T KOG0146|consen 345 QAMN--GFQIGMKRLKVQL 361 (371)
T ss_pred HHhc--chhhhhhhhhhhh
Confidence 9985 5678999999984
No 84
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=76.37 E-value=4.2 Score=51.05 Aligned_cols=73 Identities=21% Similarity=0.249 Sum_probs=59.6
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.+-|-|-|+|--++-+||.+-|.. .|.+.-|||... -.+...|+||||.|.++.-|..
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~a-FGqlksvRlPKK---------------------~~k~a~rGF~Fv~f~t~~ea~n 670 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTA-FGQLKSVRLPKK---------------------IGKGAHRGFGFVDFLTPREAKN 670 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhc-ccceeeeccchh---------------------hcchhhccceeeeccCcHHHHH
Confidence 466789999999999999999987 899999999764 2346679999999999999999
Q ss_pred HHHhccCCceeecCee
Q 041430 92 AVDAAGRTELFLNGRA 107 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~ 107 (1197)
|+++-+..+ +||.+.
T Consensus 671 A~~al~STH-lyGRrL 685 (725)
T KOG0110|consen 671 AFDALGSTH-LYGRRL 685 (725)
T ss_pred HHHhhcccc-eechhh
Confidence 998766333 445443
No 85
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=74.52 E-value=0.88 Score=48.48 Aligned_cols=76 Identities=18% Similarity=0.300 Sum_probs=61.4
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
.+-|+|||+|-.+|..||.--|-+ .|.+--+-|--+ .++++|.+|||.-+++..|-.+
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSq-yGe~vdinLiRD---------------------k~TGKSKGFaFLcYEDQRSTIL 92 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQ-YGEIVDINLIRD---------------------KKTGKSKGFAFLCYEDQRSTIL 92 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeec-cCceEEEEEEec---------------------CCCCcccceEEEEecCccceEE
Confidence 467999999999999998877655 676555555554 4589999999999999999888
Q ss_pred HHHhccCCceeecCeeeeee
Q 041430 92 AVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 92 a~~~a~~~~l~~~~~~lkv~ 111 (1197)
|++--. ..-++|+.|+|-
T Consensus 93 AVDN~N--Giki~gRtirVD 110 (219)
T KOG0126|consen 93 AVDNLN--GIKILGRTIRVD 110 (219)
T ss_pred EEeccC--CceecceeEEee
Confidence 887653 467889999987
No 86
>smart00663 RPOLA_N RNA polymerase I subunit A N-terminus.
Probab=72.30 E-value=4.9 Score=46.56 Aligned_cols=52 Identities=29% Similarity=0.342 Sum_probs=37.9
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEE
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFV 872 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 872 (1197)
.+..| .|++-|.|+||..-|+-+++.-.|. +-=|=+|..|+ +.|+|||+-.+
T Consensus 198 ~l~dgd~Vl~NRqPsLHr~si~a~~v~v~~~------------~tir~n~~~c~~fNADFDGDeMni 252 (295)
T smart00663 198 HVIDGDVVLFNRQPTLHRMSIQAHRVRVLEG------------KTIRLNPLVCSPYNADFDGDEMNL 252 (295)
T ss_pred ehhcCCEEEEecCCccccccceeEEEEEecC------------ceEEecCccCCcccCCcCCCEEEE
Confidence 45677 5999999999999999998876554 22222344444 48999999865
No 87
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=71.56 E-value=6.5 Score=42.22 Aligned_cols=80 Identities=21% Similarity=0.312 Sum_probs=59.3
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
|...+.|+|.+..+..+-|-+- ++..|..- + ||+ |-+-+.+++++++|||-|++.|++.
T Consensus 95 vganlfvgNLd~~vDe~~L~dt-FsafG~l~------~--~P~------------i~rd~~tg~~~~~g~i~~~sfeasd 153 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDT-FSAFGVLI------S--PPK------------IMRDPDTGNPKGFGFINYASFEASD 153 (203)
T ss_pred ccccccccccCcchhHHHHHHH-HHhccccc------c--CCc------------ccccccCCCCCCCeEEechhHHHHH
Confidence 6677889999997777766664 45577421 1 333 3334567899999999999999999
Q ss_pred HHHHhccCCceeecCeeeeeecC
Q 041430 91 RAVDAAGRTELFLNGRALKVSLG 113 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~~~ 113 (1197)
.|+..+... ++++++..|+-.
T Consensus 154 ~ai~s~ngq--~l~nr~itv~ya 174 (203)
T KOG0131|consen 154 AAIGSMNGQ--YLCNRPITVSYA 174 (203)
T ss_pred HHHHHhccc--hhcCCceEEEEE
Confidence 999988642 778888887743
No 88
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=69.68 E-value=3.2 Score=45.55 Aligned_cols=81 Identities=16% Similarity=0.160 Sum_probs=60.8
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.+.+|+.|+||-..|+.+=|.+.|-. .|.|+++-|-.. + ..-.+||+|.|.+.-+.
T Consensus 7 e~drtl~v~n~~~~v~eelL~Elfiq-aGPV~kv~ip~~----------------------~-d~~~kFa~v~f~~E~sv 62 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQ-AGPVYKVGIPSG----------------------Q-DQEQKFAYVFFPNENSV 62 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhc-cCceEEEeCCCC----------------------c-cCCCceeeeecccccch
Confidence 35689999999999998877777765 899998877653 1 12234999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCCCC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
..|+++... .-+-+..+++.+-..+
T Consensus 63 ~~a~~L~ng--~~l~~~e~q~~~r~G~ 87 (267)
T KOG4454|consen 63 QLAGQLENG--DDLEEDEEQRTLRCGN 87 (267)
T ss_pred hhhhhhccc--chhccchhhcccccCC
Confidence 999999753 4455667776643333
No 89
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=69.28 E-value=7.2 Score=43.81 Aligned_cols=75 Identities=21% Similarity=0.384 Sum_probs=57.9
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
-.|.||-....|+.+-|..-|-. ||+|.. +++.+..++++|.+|+||-|-+++.+..|
T Consensus 191 fRIfcgdlgNevnd~vl~raf~K-------------------fpsf~~---akviRdkRTgKSkgygfVSf~~pad~~rA 248 (290)
T KOG0226|consen 191 FRIFCGDLGNEVNDDVLARAFKK-------------------FPSFQK---AKVIRDKRTGKSKGYGFVSFRDPADYVRA 248 (290)
T ss_pred ceeecccccccccHHHHHHHHHh-------------------ccchhh---ccccccccccccccceeeeecCHHHHHHH
Confidence 45667777777777766665544 566644 55666677899999999999999999999
Q ss_pred HHhccCCceeecCeeeeee
Q 041430 93 VDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 93 ~~~a~~~~l~~~~~~lkv~ 111 (1197)
+.-+.-+ +.|++++|++
T Consensus 249 mrem~gk--yVgsrpiklR 265 (290)
T KOG0226|consen 249 MREMNGK--YVGSRPIKLR 265 (290)
T ss_pred HHhhccc--ccccchhHhh
Confidence 9987533 8899999887
No 90
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=65.55 E-value=12 Score=44.64 Aligned_cols=72 Identities=21% Similarity=0.237 Sum_probs=60.4
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
...||.|-|.|-+.|-+.|+|=|.+ +|.|--..|.. .+++++ -|.|+++|.|+
T Consensus 535 Ka~qIiirNlP~dfTWqmlrDKfre-~G~v~yadime------------------------~GkskG--VVrF~s~edAE 587 (608)
T KOG4212|consen 535 KACQIIIRNLPFDFTWQMLRDKFRE-IGHVLYADIME------------------------NGKSKG--VVRFFSPEDAE 587 (608)
T ss_pred cccEEEEecCCccccHHHHHHHHHh-ccceehhhhhc------------------------cCCccc--eEEecCHHHHH
Confidence 4568999999999999999999977 99988777754 256666 89999999999
Q ss_pred HHHHhccCCceeecCeeeeee
Q 041430 91 RAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
+|..+... ..+.|+.++|.
T Consensus 588 ra~a~Mng--s~l~Gr~I~V~ 606 (608)
T KOG4212|consen 588 RACALMNG--SRLDGRNIKVT 606 (608)
T ss_pred HHHHHhcc--CcccCceeeee
Confidence 99998763 47788888886
No 91
>PF00623 RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; InterPro: IPR000722 RNA polymerases catalyse the DNA dependent polymerisation of RNA from DNA, using the four ribonucleoside triphosphates as substrates. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Eukaryotic RNA polymerase I is essentially used to transcribe ribosomal RNA units, polymerase II is used for mRNA precursors, and III is used to transcribe 5S and tRNA genes. Each class of RNA polymerase is assembled from nine to fourteen different polypeptides. Members of the family include the largest subunit from eukaryotes; the gamma subunit from Cyanobacteria; the beta' subunit from bacteria; the A' subunit from archaea; and the B'' subunit from chloroplast RNA polymerases.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_M 2PMZ_Q 3HKZ_I 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N ....
Probab=65.02 E-value=5.8 Score=42.23 Aligned_cols=52 Identities=27% Similarity=0.350 Sum_probs=33.8
Q ss_pred EEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 810 VIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 810 vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
+..| .|++-|.|.||..-++-++++-.+. +-=|=+|..|+ +.|+|||+-.|.
T Consensus 95 l~~gd~vl~nRqPtLh~~s~~a~~~~~~~~------------~t~~~~~~~c~~~NADFDGDem~i~ 149 (166)
T PF00623_consen 95 LCDGDIVLLNRQPTLHRMSIMAHKVRVLPG------------KTIRINPLVCSPFNADFDGDEMNIH 149 (166)
T ss_dssp HTTT-EEEEEESS-SSGGGEEEEEEEEESS------------SSEEEEGGGHHHHT--TSS-EEEEE
T ss_pred hhcCceeEEeccchhccceeeeeeeeeecc------------cEEEeeccchhhhhccCCcceEEEE
Confidence 3456 4999999999999999998865444 22223455544 689999998764
No 92
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=64.88 E-value=23 Score=41.45 Aligned_cols=77 Identities=18% Similarity=0.294 Sum_probs=60.6
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccE--------EEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEE
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGV--------WRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVH 82 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v--------~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~ 82 (1197)
+.+.|||+|.|.++|.+|+.+++-. ||-+ .+|.|-.. +.++-.+-|-.-
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sK-cGiI~~d~~t~epk~KlYrd----------------------~~G~lKGDaLc~ 189 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSK-CGIIMRDPQTGEPKVKLYRD----------------------NQGKLKGDALCC 189 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHh-cceEeccCCCCCeeEEEEec----------------------CCCCccCceEEE
Confidence 4555999999999999999998865 8843 34444442 347788899999
Q ss_pred ecChHHHHHHHHhccCCceeecCeeeeeec
Q 041430 83 FAMPTYVTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 83 F~~~~~a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
|--.||..+|+.+-... -|+|+-|+|..
T Consensus 190 y~K~ESVeLA~~ilDe~--~~rg~~~rVer 217 (382)
T KOG1548|consen 190 YIKRESVELAIKILDED--ELRGKKLRVER 217 (382)
T ss_pred eecccHHHHHHHHhCcc--cccCcEEEEeh
Confidence 99999999999987654 55699999984
No 93
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=64.78 E-value=6.9 Score=43.14 Aligned_cols=66 Identities=18% Similarity=0.203 Sum_probs=52.2
Q ss_pred cccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEec
Q 041430 5 GREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFA 84 (1197)
Q Consensus 5 ~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~ 84 (1197)
++.....-.|+.|.|....++.++|+..|-..-| -++++|.. .+..+.|||.|.
T Consensus 203 ~~~~~~acstlfianl~~~~~ed~l~~~~~~~~g-f~~l~~~~-------------------------~~g~~vaf~~~~ 256 (284)
T KOG1457|consen 203 GGSGARACSTLFIANLGPNCTEDELKQLLSRYPG-FHILKIRA-------------------------RGGMPVAFADFE 256 (284)
T ss_pred ccccchhhhhHhhhccCCCCCHHHHHHHHHhCCC-ceEEEEec-------------------------CCCcceEeecHH
Confidence 3334445567889999999999999999999887 34555554 356789999999
Q ss_pred ChHHHHHHHHhc
Q 041430 85 MPTYVTRAVDAA 96 (1197)
Q Consensus 85 ~~~~a~~a~~~a 96 (1197)
..|-|+.|++--
T Consensus 257 ~~~~at~am~~l 268 (284)
T KOG1457|consen 257 EIEQATDAMNHL 268 (284)
T ss_pred HHHHHHHHHHHh
Confidence 999999999854
No 94
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=64.19 E-value=9.6 Score=46.88 Aligned_cols=80 Identities=21% Similarity=0.244 Sum_probs=63.2
Q ss_pred cccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEec
Q 041430 5 GREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFA 84 (1197)
Q Consensus 5 ~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~ 84 (1197)
-+++++-..|+.|.|.|.+|+.++|..-|+. .|+|--+| - +-..++|.||||=
T Consensus 68 p~~~~~~~~~L~v~nl~~~Vsn~~L~~~f~~-yGeir~ir--~------------------------t~~~~~~~~v~Fy 120 (549)
T KOG4660|consen 68 PSEKDMNQGTLVVFNLPRSVSNDTLLRIFGA-YGEIREIR--E------------------------TPNKRGIVFVEFY 120 (549)
T ss_pred CCcccCccceEEEEecCCcCCHHHHHHHHHh-hcchhhhh--c------------------------ccccCceEEEEEe
Confidence 3678899999999999999999999999998 67665422 1 2467899999999
Q ss_pred ChHHHHHHHHhccCCceeecCeeeeeecCC
Q 041430 85 MPTYVTRAVDAAGRTELFLNGRALKVSLGP 114 (1197)
Q Consensus 85 ~~~~a~~a~~~a~~~~l~~~~~~lkv~~~~ 114 (1197)
+-..|+.|+.+-.+ .-+.|+.+| +++.
T Consensus 121 DvR~A~~Alk~l~~--~~~~~~~~k-~~~~ 147 (549)
T KOG4660|consen 121 DVRDAERALKALNR--REIAGKRIK-RPGG 147 (549)
T ss_pred ehHhHHHHHHHHHH--HHhhhhhhc-CCCc
Confidence 99999999987643 356777777 4333
No 95
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=62.58 E-value=12 Score=44.53 Aligned_cols=72 Identities=17% Similarity=0.237 Sum_probs=57.2
Q ss_pred ccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHH
Q 041430 12 DAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTR 91 (1197)
Q Consensus 12 ~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~ 91 (1197)
..|+.++|+|.+++.++|+.-+-+.-|.|....- +.+.+.+|-+|+.+.|.|..
T Consensus 414 satlHlsnip~svsee~lk~~f~~~g~~vkafkf--------------------------f~kd~kmal~q~~sveeA~~ 467 (492)
T KOG1190|consen 414 SATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKF--------------------------FQKDRKMALPQLESVEEAIQ 467 (492)
T ss_pred hhheeeccCCcccchhHHHHhhhcCCceEEeeee--------------------------cCCCcceeecccCChhHhhh
Confidence 4699999999999999999999997767765443 35788999999999999999
Q ss_pred HHHhccCCceeec-Ceeeeee
Q 041430 92 AVDAAGRTELFLN-GRALKVS 111 (1197)
Q Consensus 92 a~~~a~~~~l~~~-~~~lkv~ 111 (1197)
|+-.--+ -.+| +.-|+||
T Consensus 468 ali~~hn--h~lgen~hlRvS 486 (492)
T KOG1190|consen 468 ALIDLHN--HYLGENHHLRVS 486 (492)
T ss_pred hcccccc--ccCCCCceEEEE
Confidence 9877532 2344 3477877
No 96
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=61.28 E-value=5.9 Score=45.68 Aligned_cols=77 Identities=19% Similarity=0.310 Sum_probs=62.6
Q ss_pred cccEEE-EeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 11 VDAQVS-FGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 11 ~~~~i~-v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
...++. |+|++-.++.++|++++-. +|.+.+.|+-+. +......++|+|.|.+...+
T Consensus 183 ~s~~~~~~~~~~f~~~~d~~~~~~~~-~~~i~~~r~~~~---------------------~~s~~~kg~a~~~~~~~~~~ 240 (285)
T KOG4210|consen 183 PSDTIFFVGELDFSLTRDDLKEHFVS-SGEITSVRLPTD---------------------EESGDSKGFAYVDFSAGNSK 240 (285)
T ss_pred ccccceeecccccccchHHHhhhccC-cCcceeeccCCC---------------------CCccchhhhhhhhhhhchhH
Confidence 445666 9999999999999955544 789999999887 55678999999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeec
Q 041430 90 TRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
..++..+.. -+++.++.+.-
T Consensus 241 ~~~~~~~~~---~~~~~~~~~~~ 260 (285)
T KOG4210|consen 241 KLALNDQTR---SIGGRPLRLEE 260 (285)
T ss_pred HHHhhcccC---cccCccccccc
Confidence 999987333 66777887763
No 97
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=57.82 E-value=7.7 Score=47.79 Aligned_cols=82 Identities=17% Similarity=0.320 Sum_probs=61.9
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCC-CCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPS-ESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
-..+.+|+|||..++.++...|+.+.+ ..+.+-+. ++ +++=. ..-.....+||++|.+.+-|
T Consensus 174 q~~r~~v~~~~~~~~e~~~~~f~~~~~---~~~gl~~~--~~g~~~~s------------~~~n~~~nfa~ie~~s~~~a 236 (500)
T KOG0120|consen 174 QARRLYVGNIPFTSNEESMMSFFNSRM---HASGLNQA--PDGPSFVS------------VQLNLEKNFAFIEFRSISEA 236 (500)
T ss_pred hhhhhcccccCCccCcHhhhhhhhhhh---hhcccccC--CCCCceee------------eeecccccceeEEecCCCch
Confidence 356789999999999999999999853 34445444 11 11101 11256889999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeec
Q 041430 90 TRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
+.++.+-+. +|.|.++|++.
T Consensus 237 t~~~~~~~~---~f~g~~~~~~r 256 (500)
T KOG0120|consen 237 TEAMALDGI---IFEGRPLKIRR 256 (500)
T ss_pred hhhhcccch---hhCCCCceecc
Confidence 999988754 89999999984
No 98
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=56.89 E-value=17 Score=42.88 Aligned_cols=83 Identities=10% Similarity=0.175 Sum_probs=59.7
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEE--EEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWR--CRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
...-|++-|.|-.++-+++.+||-...-.+.- +..-. +..++..+-|||||.++|+
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~----------------------N~qGrPSGeAFIqm~nae~ 336 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVL----------------------NGQGRPSGEAFIQMRNAER 336 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEE----------------------cCCCCcChhhhhhhhhhHH
Confidence 45678999999999999999999885532211 22222 2347788999999999999
Q ss_pred HHHHHHhccCCceeecCeeeeeecCCCCC
Q 041430 89 VTRAVDAAGRTELFLNGRALKVSLGPENP 117 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~~~~~~~ 117 (1197)
|..|+....++ +-.++|+.|-+.+...
T Consensus 337 a~aaaqk~hk~--~mk~RYiEvfp~S~ee 363 (508)
T KOG1365|consen 337 ARAAAQKCHKK--LMKSRYIEVFPCSVEE 363 (508)
T ss_pred HHHHHHHHHHh--hcccceEEEeeccHHH
Confidence 99888766542 2268888887655443
No 99
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=55.51 E-value=30 Score=31.11 Aligned_cols=56 Identities=20% Similarity=0.266 Sum_probs=41.8
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccc--cEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVG--GVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G--~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
.-..|.|.|.+. .+.+|++.|+..+++ ...+++-- --.-+-|-|.+++.
T Consensus 4 rpeavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWI----------------------------dDtScNvvf~d~~~ 54 (62)
T PF10309_consen 4 RPEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWI----------------------------DDTSCNVVFKDEET 54 (62)
T ss_pred eeceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEe----------------------------cCCcEEEEECCHHH
Confidence 345789999976 899999999999953 23333322 22347899999999
Q ss_pred HHHHHHh
Q 041430 89 VTRAVDA 95 (1197)
Q Consensus 89 a~~a~~~ 95 (1197)
|.+|+.+
T Consensus 55 A~~AL~~ 61 (62)
T PF10309_consen 55 AARALVA 61 (62)
T ss_pred HHHHHHc
Confidence 9999864
No 100
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=55.47 E-value=30 Score=39.75 Aligned_cols=65 Identities=31% Similarity=0.408 Sum_probs=45.2
Q ss_pred ccHHHHHHHHHhcc-------ccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHH-h
Q 041430 24 VKAAELVKYLENEV-------GGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVD-A 95 (1197)
Q Consensus 24 ~~a~~l~~~le~~~-------G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~-~ 95 (1197)
|.+.++.+=||..+ |.|.+|-|... |+| +....+ --||||+..++|..|+- +
T Consensus 290 Vg~gevd~elede~keEceKyg~V~~viifei-------p~~-----------p~deav--RiFveF~r~e~aiKA~Vdl 349 (378)
T KOG1996|consen 290 VGAGEVDEELEDETKEECEKYGKVGNVIIFEI-------PSQ-----------PEDEAV--RIFVEFERVESAIKAVVDL 349 (378)
T ss_pred cCcccccHHHHHHHHHHHHhhcceeeEEEEec-------CCC-----------ccchhh--eeeeeeccHHHHHHHHHhc
Confidence 45566666666544 57999998876 222 112333 36999999999999875 5
Q ss_pred ccCCceeecCeeeeee
Q 041430 96 AGRTELFLNGRALKVS 111 (1197)
Q Consensus 96 a~~~~l~~~~~~lkv~ 111 (1197)
-|+ +|||+.+++-
T Consensus 350 nGR---yFGGr~v~A~ 362 (378)
T KOG1996|consen 350 NGR---YFGGRVVSAC 362 (378)
T ss_pred CCc---eecceeeehe
Confidence 555 9999998865
No 101
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=54.32 E-value=19 Score=45.32 Aligned_cols=60 Identities=15% Similarity=0.160 Sum_probs=46.4
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
+-|+|-|||-+|+-+|+.+||-.+-= .--..+.+.++-++.++-+.|-|++.+.|+.|
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~----------------------~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A 925 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEP----------------------DPNSIRIRRNDDGVPTGECMVAFESQEEARRA 925 (944)
T ss_pred eEEEecCCCccccHHHHHHHhccccc----------------------CCCceeEeecCCCCcccceeEeecCHHHHHhh
Confidence 47899999999999999999977531 11122333355688899999999999999988
Q ss_pred HH
Q 041430 93 VD 94 (1197)
Q Consensus 93 ~~ 94 (1197)
..
T Consensus 926 ~~ 927 (944)
T KOG4307|consen 926 SM 927 (944)
T ss_pred hh
Confidence 54
No 102
>CHL00018 rpoC1 RNA polymerase beta' subunit
Probab=50.34 E-value=15 Score=46.80 Aligned_cols=52 Identities=25% Similarity=0.377 Sum_probs=36.5
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEE
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFV 872 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 872 (1197)
.++.| .|+.-|.|.||.--||-+++|=.+. +-=|=||..|+ ..|+|||+-.|
T Consensus 443 ~v~~gd~VLlNRqPTLHR~sIqAf~~~L~~g------------ktIrLhplvC~~fNADFDGDqMnv 497 (663)
T CHL00018 443 EVMQGHPVLLNRAPTLHRLGIQAFQPILVEG------------RAICLHPLVCKGFNADFDGDQMAV 497 (663)
T ss_pred ehhcCceeeecCCCcccccccceeeEEecCC------------CeEEeCcccCCcccCCccCcEEEE
Confidence 35667 6899999999999999988865443 11122344443 47999999865
No 103
>TIGR02387 rpoC1_cyan DNA-directed RNA polymerase, gamma subunit. The RNA polymerase gamma subunit, encoded by the rpoC1 gene, is found in cyanobacteria and corresponds to the N-terminal region the beta' subunit, encoded by rpoC, in other bacteria. The equivalent subunit in plastids and chloroplasts is designated beta', while the product of the rpoC2 gene is designated beta''.
Probab=48.03 E-value=16 Score=46.04 Aligned_cols=51 Identities=29% Similarity=0.410 Sum_probs=36.0
Q ss_pred EEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEE
Q 041430 810 VIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFV 872 (1197)
Q Consensus 810 vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 872 (1197)
++.| .|+.-|.|.||.--||-++++-.+. +-=|=||..|+ ..|+|||+-.|
T Consensus 416 v~~gd~VLlNRqPTLHR~sIqAf~~~l~~~------------ktirlhplvC~~fNADFDGDeMnv 469 (619)
T TIGR02387 416 VITGHPVMLNRAPTLHRLGIQAFEPILVDG------------RAIQLHPLVCPAFNADFDGDQMAV 469 (619)
T ss_pred HhcCCEEEecCCCccchhcceeeeeEEecC------------CeEEECcccCCcccCCCCCceeee
Confidence 5566 5999999999999999988764432 11233444444 47999999864
No 104
>PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional
Probab=45.81 E-value=25 Score=44.51 Aligned_cols=52 Identities=29% Similarity=0.422 Sum_probs=36.7
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEE
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFV 872 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 872 (1197)
.++.| .|+.-|.|.||.--||-++++-.+. +-=|=||..|+ ..|+|||+-.|
T Consensus 422 ~v~~gd~VLlNRqPTLHR~sIqAf~~~l~~~------------ktirlhplvC~~fNADFDGDeMnv 476 (627)
T PRK02625 422 EVIEGHPVLLNRAPTLHRLGIQAFEPILVEG------------RAIQLHPLVCPAFNADFDGDQMAV 476 (627)
T ss_pred EeecCcEEEecCCCccccccceeEeeEEcCC------------CeEEeccccCCcccCCcCCCeEEE
Confidence 35667 5999999999999999998865443 11122344443 47999999864
No 105
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=42.41 E-value=69 Score=39.53 Aligned_cols=82 Identities=18% Similarity=0.165 Sum_probs=59.1
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCC-CCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTP-SESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY 88 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~ 88 (1197)
...+.|-|||+|-..+.++|...|-. +|.+ +.+|.. +++ ....+ -.++.+|+|.=|++..+
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~-FGs~-----~VdWP~k~~~-----------~~~~p-pkGs~~YvflvFe~E~s 318 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQ-FGSV-----KVDWPGKANS-----------RGRAP-PKGSYGYVFLVFEDERS 318 (520)
T ss_pred ccccceeecCCCccccHHHHHhhccc-ccce-----EeecCCCccc-----------cccCC-CCCcccEEEEEecchHH
Confidence 46788999999999999999999876 7764 445542 111 01111 12344799999999999
Q ss_pred HHHHHHhccCCceeecCeeeeeec
Q 041430 89 VTRAVDAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 89 a~~a~~~a~~~~l~~~~~~lkv~~ 112 (1197)
...-+++..+ --+..|+||+.
T Consensus 319 V~~Ll~aC~~---~~~~~yf~vss 339 (520)
T KOG0129|consen 319 VQSLLSACSE---GEGNYYFKVSS 339 (520)
T ss_pred HHHHHHHHhh---cccceEEEEec
Confidence 9988888754 45678899994
No 106
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=37.81 E-value=47 Score=39.20 Aligned_cols=91 Identities=18% Similarity=0.230 Sum_probs=63.9
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.-..||.|-|.|.++++.++.+||-+ ||.+-+=+ .|. .|+.. |-.-..+.++..-|.|.|+++-+|
T Consensus 64 s~~~ti~v~g~~d~~~~~~~~~~f~q-cg~ikrnK-~t~--kPki~----------~y~dkeT~~~KGeatvS~~D~~~a 129 (351)
T KOG1995|consen 64 SDNETIFVWGCPDSVCENDNADFFLQ-CGVIKRNK-RTG--KPKIK----------IYTDKETGAPKGEATVSYEDPPAA 129 (351)
T ss_pred cccccceeeccCccchHHHHHHHHhh-cceeccCC-CCC--Ccchh----------ccccccccCcCCceeeeecChhhh
Confidence 35678999999999999999999987 66432211 111 34431 111124677888899999999999
Q ss_pred HHHHHh-ccCCceeecCeeeeeecCCCCC
Q 041430 90 TRAVDA-AGRTELFLNGRALKVSLGPENP 117 (1197)
Q Consensus 90 ~~a~~~-a~~~~l~~~~~~lkv~~~~~~~ 117 (1197)
+.|+.- |++ -|.+..+||+++...+
T Consensus 130 kaai~~~agk---df~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 130 KAAIEWFAGK---DFCGNTIKVSLAERRT 155 (351)
T ss_pred hhhhhhhccc---cccCCCchhhhhhhcc
Confidence 999874 554 5667999999765544
No 107
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=36.94 E-value=36 Score=42.19 Aligned_cols=26 Identities=19% Similarity=0.178 Sum_probs=22.0
Q ss_pred CCCccceEEEEecChHHHHHHHHhcc
Q 041430 72 YEKVEPHAFVHFAMPTYVTRAVDAAG 97 (1197)
Q Consensus 72 ~~~~~~~a~V~F~~~~~a~~a~~~a~ 97 (1197)
+..-.+||||+|++++++..+-.+-.
T Consensus 427 nkcNvGYAFINm~sp~ai~~F~kAFn 452 (549)
T KOG4660|consen 427 NKCNVGYAFINMTSPEAIIRFYKAFN 452 (549)
T ss_pred cccccceeEEeecCHHHHHHHHHHHc
Confidence 45677999999999999999887753
No 108
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=35.95 E-value=29 Score=38.57 Aligned_cols=56 Identities=18% Similarity=0.338 Sum_probs=45.3
Q ss_pred cEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRA 92 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a 92 (1197)
..|+||+||..+..++|-.||-. -|.+..+.+|. +|+||+|.++..|.-|
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~-yg~~~d~~mk~-----------------------------gf~fv~fed~rda~Da 51 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKG-YGKIPDADMKN-----------------------------GFGFVEFEDPRDADDA 51 (216)
T ss_pred CceeecccCCccchhHHHHHHhh-ccccccceeec-----------------------------ccceeccCchhhhhcc
Confidence 35899999999999999999987 46666666653 4679999999998888
Q ss_pred HHhccC
Q 041430 93 VDAAGR 98 (1197)
Q Consensus 93 ~~~a~~ 98 (1197)
+.-...
T Consensus 52 v~~l~~ 57 (216)
T KOG0106|consen 52 VHDLDG 57 (216)
T ss_pred cchhcC
Confidence 876654
No 109
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=35.15 E-value=75 Score=39.43 Aligned_cols=83 Identities=19% Similarity=0.299 Sum_probs=65.9
Q ss_pred ccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 10 LVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 10 ~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
.+.+.+-|+|+..++-|.|||..|-. .|.|--..+-|. -+.-..|.|+||...+++.|
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSK-yGKVvGAKVVTN---------------------aRsPGaRCYGfVTMSts~eA 460 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSK-YGKVVGAKVVTN---------------------ARSPGARCYGFVTMSTSAEA 460 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHH-hcceeceeeeec---------------------CCCCCcceeEEEEecchHHH
Confidence 47788999999999999999999866 788777777775 23346889999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCCCCC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGPENP 117 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~~~~ 117 (1197)
+..++---+. -|.|+.+.|- ..+|-
T Consensus 461 tkCI~hLHrT--ELHGrmISVE-kaKNE 485 (940)
T KOG4661|consen 461 TKCIEHLHRT--ELHGRMISVE-KAKNE 485 (940)
T ss_pred HHHHHHhhhh--hhcceeeeee-ecccC
Confidence 9988765433 4688888887 45554
No 110
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=34.40 E-value=36 Score=46.84 Aligned_cols=53 Identities=30% Similarity=0.393 Sum_probs=37.4
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
.++.| .|+.-|.|.||.--||=++++=.|. +-=|=||.-|+ ..|+|||+..|-
T Consensus 492 ~vi~gd~VLlNRqPTLHRlsIqAf~~~L~~g------------ktIrLhplvC~~fNADFDGDqMnvH 547 (1460)
T PRK14906 492 EVIQDHPVLLNRAPTLHRLGIQAFEPVLVEG------------KAIKLHPLVCTAFNADFDGDQMAVH 547 (1460)
T ss_pred eeeccceeEeccCcccchhccceeeEEecCC------------ceEEecccccCccccCCcCceeeee
Confidence 35667 6999999999999999988765543 11222333333 479999998764
No 111
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=32.96 E-value=53 Score=39.66 Aligned_cols=92 Identities=17% Similarity=0.183 Sum_probs=65.1
Q ss_pred ccccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCC---CCCCCCccccccccccccCCCCC--ccce
Q 041430 4 EGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTP---SESYPDFYVTNTAEVRKTDDYEK--VEPH 78 (1197)
Q Consensus 4 ~~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~--~~~~ 78 (1197)
+-++.|+-.+||-+.|.|.+-+-+.|.+-|-- +|.|-.+||-. | |.+ .. ..+++|-- -+-|
T Consensus 223 ~~~~eel~srtivaenLP~Dh~~enl~kiFg~-~G~IksIRIck---Pgaip~d--------~r--~~~~~~~~~~tk~~ 288 (484)
T KOG1855|consen 223 EFDEEELPSRTIVAENLPLDHSYENLSKIFGT-VGSIKSIRICK---PGAIPED--------VR--GFPKKYFELQTKEC 288 (484)
T ss_pred CccccccccceEEEecCCcchHHHHHHHHhhc-ccceeeeeecC---CCCCCcc--------cc--cCCccchhhhhhhh
Confidence 44567789999999999999999888887754 89999999875 5 443 11 11122222 3689
Q ss_pred EEEEecChHHHHHHHHhccCCceeecCeeee
Q 041430 79 AFVHFAMPTYVTRAVDAAGRTELFLNGRALK 109 (1197)
Q Consensus 79 a~V~F~~~~~a~~a~~~a~~~~l~~~~~~lk 109 (1197)
|+|+|...++|..|..+.+.-.-|-.|-..|
T Consensus 289 AlvEye~~~~A~KA~e~~~~e~~wr~glkvk 319 (484)
T KOG1855|consen 289 ALVEYEEVEAARKARELLNPEQNWRMGLKVK 319 (484)
T ss_pred hhhhhhhhHHHHHHHHhhchhhhhhhcchhh
Confidence 9999999999999999875322344443333
No 112
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein.
Probab=32.56 E-value=56 Score=43.55 Aligned_cols=53 Identities=25% Similarity=0.331 Sum_probs=38.0
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
.++.| .|++-|.|+||.--|+=.++.-.|. +-=|=+|+.|+ ..|+|||+-.+-
T Consensus 407 hl~dgd~vl~NRqPsLHr~si~a~~~~v~~~------------~t~r~n~~~c~~~NADFDGDeMn~h 462 (868)
T TIGR02390 407 HLIDGDIVLFNRQPSLHRMSMMGHKVKVLPG------------KTFRLNLAVCPPYNADFDGDEMNLH 462 (868)
T ss_pred ehhcCccceeccCCccccccceeEEEEEecC------------ceEeeccccCCccccCcccceeeEe
Confidence 45677 4899999999999999888865553 11233344443 479999998754
No 113
>cd01213 tensin Tensin Phosphotyrosine-binding (PTB) domain. Tensin Phosphotyrosine-binding (PTB) domain. Tensin is a a focal adhesion protein, which contains a C-terminal SH2 domain followed by a PTB domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=31.87 E-value=1.8e+02 Score=30.36 Aligned_cols=87 Identities=17% Similarity=0.130 Sum_probs=53.6
Q ss_pred EEEEcCCeeEecCCcccccchhhccCCCCCCcEEEEEEecCCccccccccccccccccccccccccccchhhHHHHHHHH
Q 041430 415 RLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSI 494 (1197)
Q Consensus 415 rv~vTPtri~~~~P~~e~sNRvlR~f~~~~D~FLRV~F~DE~~~~l~~~~~~~~~~~~~r~~~~~~~~~~~~i~~rv~~~ 494 (1197)
++.|+.-.|.+..|.-.. -..|+|+.+ .|+|+.-+.+. ++|
T Consensus 47 h~kVS~qGItLtDn~rk~--ffrrhypl~-----~Vs~ca~dp~n--------------------------------~~~ 87 (138)
T cd01213 47 HFKVSSQGITLTDNTRKK--FFRRHYKVD-----SVIFCAIDPEE--------------------------------RMW 87 (138)
T ss_pred EEEEEcCCeeeeccccce--eehhhCCcC-----eEEEEeeCCcc--------------------------------ccc
Confidence 667778888877664322 123456632 57887655431 112
Q ss_pred hhCCeEEeeEEEEEEEeecCCCCcCceEEEeCC-CCCCHHHHHHHhC
Q 041430 495 LSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSED-GKTSVLDIKKWMG 540 (1197)
Q Consensus 495 L~~Gi~I~gR~y~FLa~S~SqlR~~s~wFfa~~-~~lt~~~Ir~wmG 540 (1197)
+..|-....|.|-|.+=......++.|+-|++- ..-.+..|.+..+
T Consensus 88 ~~~~~~~~kriFgFVar~~~~~~~~~ChvF~e~~~~qpa~~iv~~~~ 134 (138)
T cd01213 88 ENEGAIAKARIFAFVARIPHSSTDNACHVFAELEPEQPASAIVNFAN 134 (138)
T ss_pred cccccccccEEEEEEEecCCCCCCeeEEEeccCCCCCCHHHHHHHHH
Confidence 222222367888888876555678999999973 4457888876643
No 114
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form. Bacteria have a single DNA-directed RNA polymerase, with required subunits that include alpha, beta, and beta-prime. This model describes the predominant architecture of the beta-prime subunit in most bacteria. This model excludes from among the bacterial mostly sequences from the cyanobacteria, where RpoC is replaced by two tandem genes homologous to it but also encoding an additional domain.
Probab=31.40 E-value=44 Score=45.34 Aligned_cols=52 Identities=35% Similarity=0.408 Sum_probs=36.9
Q ss_pred EEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 810 VIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 810 vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
++.| .|+.-|.|.||.--||=++++=.|. +-=|=||..|+ +.|+|||+-.|-
T Consensus 397 vi~~d~VLlNRqPTLHRlsIqAf~~~l~~g------------ktirlhplvC~~fNADFDGDeMnvH 451 (1140)
T TIGR02386 397 VIKEHPVLLNRAPTLHRLGIQAFEPVLVEG------------KAIRLHPLVCTAFNADFDGDQMAVH 451 (1140)
T ss_pred ccCCcEEEecCCCcccccccceeEEEEecC------------ceEEEcccccCcccCCCCcceeEee
Confidence 4455 6999999999999999988865543 22233344444 479999998764
No 115
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=30.06 E-value=58 Score=47.68 Aligned_cols=53 Identities=26% Similarity=0.369 Sum_probs=38.6
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
.++.| .|+.-|.|.||.--||-++++-.|. +-=|=||..|+ +.|+|||+-.|-
T Consensus 1803 ~vi~gd~VLlNRqPTLHR~sIqAf~~~l~~g------------ktIrLhplvC~~fNADFDGDqMnvH 1858 (2890)
T PRK09603 1803 EITEGYPVLLNRAPTLHKQSIQAFHPKLIDG------------KAIQLHPLVCSAFNADFDGDQMAVH 1858 (2890)
T ss_pred eeecCCeEEecCCCccccccceeeeEEEecC------------ceEEeccccCCcccCCCCCceeEEe
Confidence 47788 5899999999999999998765443 22233445554 479999998764
No 116
>PRK08566 DNA-directed RNA polymerase subunit A'; Validated
Probab=28.42 E-value=54 Score=43.79 Aligned_cols=53 Identities=25% Similarity=0.340 Sum_probs=38.1
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
.++.| .|++-|.|+||.--|+=.+++-.|. + ==|=+|..|+ +.|+|||+-.+-
T Consensus 411 hl~dgd~vl~NRqPsLHr~si~a~~~~v~~~-~-----------t~r~n~~~c~~~NADFDGDeMn~h 466 (882)
T PRK08566 411 HLIDGDIVLFNRQPSLHRMSIMAHRVRVLPG-K-----------TFRLNLAVCPPYNADFDGDEMNLH 466 (882)
T ss_pred hhhcCceeeecCCCcccccccceeEEEEecC-c-----------eEeeccccCCCccCCccCcEEEEe
Confidence 45677 4899999999999999998876554 1 1133444444 489999998753
No 117
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=27.67 E-value=57 Score=44.42 Aligned_cols=52 Identities=33% Similarity=0.386 Sum_probs=36.8
Q ss_pred EEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 810 VIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 810 vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
++.| .|+.-|.|.||.--||=++++-.|. +-=|=||..|+ ..|+|||+-.|-
T Consensus 405 vi~gd~VLlNRqPTLHR~sIqAf~~~l~~g------------ktirLhplvC~~fNADFDGDqMnvH 459 (1156)
T PRK00566 405 VIKEHPVLLNRAPTLHRLGIQAFEPVLIEG------------KAIQLHPLVCTAFNADFDGDQMAVH 459 (1156)
T ss_pred ecCCCEEEecCCCcccccccceeEEEEecC------------ceEEECccccCccccccccceeEEe
Confidence 4566 6999999999999999998865553 11122333333 479999998754
No 118
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=26.54 E-value=98 Score=39.54 Aligned_cols=72 Identities=17% Similarity=0.307 Sum_probs=55.0
Q ss_pred cEEEEeCCCccccHHHHHHHHHhcc---ccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHH
Q 041430 13 AQVSFGGFDRNVKAAELVKYLENEV---GGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYV 89 (1197)
Q Consensus 13 ~~i~v~gf~~~~~a~~l~~~le~~~---G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a 89 (1197)
-.|++-|.|-++.|.|+..||-... |.|..+ ++-.+-|||-|++-|.|
T Consensus 3 VIIRLqnLP~tAga~DIR~FFSGL~IPdGgVHII-----------------------------GGe~GeaFI~FsTDeDA 53 (944)
T KOG4307|consen 3 VIIRLQNLPMTAGASDIRTFFSGLKIPDGGVHII-----------------------------GGEEGEAFIGFSTDEDA 53 (944)
T ss_pred eEEEecCCcccccchHHHHhhcccccCCCceEEe-----------------------------cccccceEEEecccchh
Confidence 4689999999999999999997654 344432 46778999999999999
Q ss_pred HHHHHhccCCceeecCeeeeeecCCCC
Q 041430 90 TRAVDAAGRTELFLNGRALKVSLGPEN 116 (1197)
Q Consensus 90 ~~a~~~a~~~~l~~~~~~lkv~~~~~~ 116 (1197)
+.|+..- ++-+.|.-+++-++++.
T Consensus 54 RlaM~kd---r~~i~g~~VrLlLSSks 77 (944)
T KOG4307|consen 54 RLAMTKD---RLMIHGAEVRLLLSSKS 77 (944)
T ss_pred hhhhhhc---ccceecceEEEEeccHH
Confidence 9999876 44666666555555554
No 119
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=24.91 E-value=48 Score=37.58 Aligned_cols=47 Identities=21% Similarity=0.387 Sum_probs=39.3
Q ss_pred CCCccceEEEEecChHHHHHHHHhccCCceeecCeeeeeecCCCCCccc
Q 041430 72 YEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRL 120 (1197)
Q Consensus 72 ~~~~~~~a~V~F~~~~~a~~a~~~a~~~~l~~~~~~lkv~~~~~~~~~~ 120 (1197)
-.+.++.+-|+|...|+|..|++.-+. =||+|+|+-+-+.|.++++-
T Consensus 106 ~~hl~GNVYV~f~~Ee~ae~a~~~lnn--Rw~~G~pi~ae~~pvT~~re 152 (260)
T KOG2202|consen 106 GDHLVGNVYVKFRSEEDAEAALEDLNN--RWYNGRPIHAELSPVTDFRE 152 (260)
T ss_pred chhhhhhhhhhcccHHHHHHHHHHHcC--ccccCCcceeeecCcCchhh
Confidence 357889999999999999999987542 39999999999888888543
No 120
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=24.38 E-value=74 Score=35.49 Aligned_cols=69 Identities=22% Similarity=0.253 Sum_probs=51.0
Q ss_pred cccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHH
Q 041430 11 VDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVT 90 (1197)
Q Consensus 11 ~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~ 90 (1197)
--..+.|-++...++..+|++.|+. .|.+.- +.-.+..|||+|++.++|+
T Consensus 98 s~~r~~~~~~~~r~~~qdl~d~~~~-~g~~~~-----------------------------~~~~~~~~~v~Fs~~~da~ 147 (216)
T KOG0106|consen 98 THFRLIVRNLSLRVSWQDLKDHFRP-AGEVTY-----------------------------VDARRNFAFVEFSEQEDAK 147 (216)
T ss_pred ccceeeeccchhhhhHHHHhhhhcc-cCCCch-----------------------------hhhhccccceeehhhhhhh
Confidence 3445678888888889999999988 454310 1125689999999999999
Q ss_pred HHHHhccCCceeecCeeeeee
Q 041430 91 RAVDAAGRTELFLNGRALKVS 111 (1197)
Q Consensus 91 ~a~~~a~~~~l~~~~~~lkv~ 111 (1197)
.|+++-. ..-+.++.|.+.
T Consensus 148 ra~~~l~--~~~~~~~~l~~~ 166 (216)
T KOG0106|consen 148 RALEKLD--GKKLNGRRISVE 166 (216)
T ss_pred hcchhcc--chhhcCceeeec
Confidence 9999875 345667777763
No 121
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=23.55 E-value=1.6e+02 Score=34.97 Aligned_cols=60 Identities=12% Similarity=0.122 Sum_probs=43.0
Q ss_pred EEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHHHh
Q 041430 16 SFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDA 95 (1197)
Q Consensus 16 ~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~ 95 (1197)
-|--.-..++.+||---|- -.|.+--|.+--+ .+++.|-.||||+|.+.|+...|-=.
T Consensus 243 FVCKLNPVTtDeDLeiIFS-rFG~i~sceVIRD---------------------~ktgdsLqyaFiEFen~escE~AyFK 300 (479)
T KOG0415|consen 243 FVCKLNPVTTDEDLEIIFS-RFGKIVSCEVIRD---------------------RKTGDSLQYAFIEFENKESCEQAYFK 300 (479)
T ss_pred EEEecCCcccccchhhHHh-hcccceeeeEEec---------------------ccccchhheeeeeecchhhHHHHHhh
Confidence 3444444445555554444 4788888888776 56788999999999999999988766
Q ss_pred cc
Q 041430 96 AG 97 (1197)
Q Consensus 96 a~ 97 (1197)
+.
T Consensus 301 Md 302 (479)
T KOG0415|consen 301 MD 302 (479)
T ss_pred hc
Confidence 54
No 122
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=21.72 E-value=1.8e+02 Score=34.92 Aligned_cols=77 Identities=18% Similarity=0.230 Sum_probs=58.4
Q ss_pred EEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHHHHHHH
Q 041430 14 QVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAV 93 (1197)
Q Consensus 14 ~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~ 93 (1197)
-|+|.|++..++-+++...|-. +|.+--++|... +-++ .-......+||-|.++.++.-|-
T Consensus 9 vIqvanispsat~dqm~tlFg~-lGkI~elrlyp~--~~d~----------------~~pv~sRtcyVkf~d~~sv~vaQ 69 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGN-LGKIPELRLYPN--VDDS----------------KIPVISRTCYVKFLDSQSVTVAQ 69 (479)
T ss_pred eeeecccCchhhHHHHHHHHhh-ccccccccccCC--CCCc----------------cCcceeeeEEEeccCCcceeHHh
Confidence 7999999999999999888766 787777776653 1111 01234578999999999999999
Q ss_pred HhccCCceeecCeeeeeec
Q 041430 94 DAAGRTELFLNGRALKVSL 112 (1197)
Q Consensus 94 ~~a~~~~l~~~~~~lkv~~ 112 (1197)
.|..- +|=+..|-|.+
T Consensus 70 hLtnt---vfvdraliv~p 85 (479)
T KOG4676|consen 70 HLTNT---VFVDRALIVRP 85 (479)
T ss_pred hhccc---eeeeeeEEEEe
Confidence 99743 66678888884
No 123
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=21.45 E-value=75 Score=46.52 Aligned_cols=53 Identities=30% Similarity=0.387 Sum_probs=37.4
Q ss_pred eEEee-eEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC--CCCCCCCeEEEe
Q 041430 809 QVIKG-FVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS--GSDLDGDLYFVT 873 (1197)
Q Consensus 809 ~vi~G-~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 873 (1197)
.++.| .|+.-|.|.||.--||=++++=.|. +-=|=||..|+ ..|+|||+-.|-
T Consensus 1847 ~vi~gd~VLlNRqPTLHR~sIqAf~~~l~~g------------ktirlhp~vC~~fNADFDGDeMnvH 1902 (2836)
T PRK14844 1847 EVIKEHPVLLNRAPTLHRLGIQAFEPILIEG------------KAIQLHPLVCTAFNADFDGDQMAVH 1902 (2836)
T ss_pred EEecCCEEEecCCCccccccccceeeEeecC------------ceEEecccCCCcccCCCCCceeeee
Confidence 35667 6999999999999998887754443 22233444444 479999998754
Done!