Query 041714
Match_columns 214
No_of_seqs 177 out of 749
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 09:54:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041714.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041714hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1855 Predicted RNA-binding 100.0 1.6E-38 3.4E-43 293.3 14.3 136 69-204 133-268 (484)
2 cd08032 LARP_7 La RNA-binding 100.0 1.1E-33 2.3E-38 211.4 7.1 80 74-153 3-82 (82)
3 cd08033 LARP_6 La RNA-binding 100.0 2.1E-33 4.7E-38 207.5 6.3 76 78-153 2-77 (77)
4 cd08035 LARP_4 La RNA-binding 100.0 3.2E-33 6.8E-38 205.4 5.6 75 77-153 1-75 (75)
5 cd08036 LARP_5 La RNA-binding 100.0 4.4E-33 9.5E-38 204.0 5.0 74 78-153 2-75 (75)
6 smart00715 LA Domain in the RN 100.0 2E-32 4.2E-37 203.7 6.6 80 74-154 1-80 (80)
7 cd08029 LA_like_fungal La-moti 100.0 1.5E-32 3.2E-37 202.6 5.8 75 78-153 2-76 (76)
8 cd08028 LARP_3 La RNA-binding 100.0 3.9E-32 8.4E-37 203.0 6.7 79 74-153 2-82 (82)
9 cd08031 LARP_4_5_like La RNA-b 100.0 6.5E-32 1.4E-36 198.7 5.9 75 77-153 1-75 (75)
10 cd08030 LA_like_plant La-motif 100.0 1E-31 2.2E-36 203.8 5.5 77 77-153 2-90 (90)
11 cd08037 LARP_1 La RNA-binding 100.0 6.4E-31 1.4E-35 192.4 5.5 72 78-153 2-73 (73)
12 cd08038 LARP_2 La RNA-binding 100.0 1E-30 2.2E-35 191.3 5.9 73 77-153 1-73 (73)
13 cd08034 LARP_1_2 La RNA-bindin 100.0 2.1E-30 4.5E-35 189.8 5.9 73 77-153 1-73 (73)
14 cd07323 LAM LA motif RNA-bindi 100.0 4.4E-30 9.6E-35 188.8 6.1 74 78-153 2-75 (75)
15 PF05383 La: La domain; Inter 99.9 6.8E-27 1.5E-31 165.7 3.8 60 80-139 1-61 (61)
16 KOG4213 RNA-binding protein La 99.9 5.3E-26 1.1E-30 191.0 5.1 137 73-213 10-153 (205)
17 KOG2591 c-Mpl binding protein, 99.9 6.8E-24 1.5E-28 201.4 14.8 115 73-199 93-207 (684)
18 COG5193 LHP1 La protein, small 99.6 1.2E-16 2.5E-21 147.7 -0.1 133 80-213 75-229 (438)
19 KOG2590 RNA-binding protein LA 99.0 1.1E-10 2.3E-15 110.6 1.1 64 75-145 299-362 (448)
20 COG5193 LHP1 La protein, small 99.0 2.4E-10 5.3E-15 106.2 2.2 61 77-139 271-331 (438)
21 PF00076 RRM_1: RNA recognitio 97.6 9.1E-05 2E-09 50.5 3.8 33 170-202 1-33 (70)
22 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.4 0.00027 5.9E-09 63.2 5.3 42 167-208 269-310 (352)
23 PLN03134 glycine-rich RNA-bind 97.4 0.00031 6.7E-09 57.1 5.1 42 167-208 34-75 (144)
24 TIGR01659 sex-lethal sex-letha 97.4 0.00069 1.5E-08 62.6 7.9 78 127-208 157-234 (346)
25 smart00362 RRM_2 RNA recogniti 97.3 0.00056 1.2E-08 45.4 4.9 35 169-203 1-35 (72)
26 TIGR01659 sex-lethal sex-letha 97.0 0.0012 2.6E-08 61.0 6.0 44 165-208 105-148 (346)
27 PF14259 RRM_6: RNA recognitio 97.0 0.00088 1.9E-08 46.4 3.9 35 170-204 1-35 (70)
28 TIGR01622 SF-CC1 splicing fact 96.9 0.002 4.3E-08 60.0 6.6 44 165-208 87-130 (457)
29 cd00590 RRM RRM (RNA recogniti 96.7 0.0036 7.8E-08 41.6 4.8 36 169-204 1-36 (74)
30 TIGR01645 half-pint poly-U bin 96.7 0.0085 1.8E-07 59.5 8.8 80 128-207 158-244 (612)
31 COG0724 RNA-binding proteins ( 96.5 0.0044 9.5E-08 50.5 5.1 42 167-208 115-156 (306)
32 TIGR01648 hnRNP-R-Q heterogene 96.5 0.011 2.4E-07 58.4 8.5 42 166-208 57-98 (578)
33 TIGR01661 ELAV_HUD_SF ELAV/HuD 96.4 0.016 3.4E-07 51.9 8.2 76 127-206 53-128 (352)
34 TIGR01628 PABP-1234 polyadenyl 96.4 0.014 3E-07 56.2 8.1 37 166-202 284-320 (562)
35 PF09421 FRQ: Frequency clock 96.3 0.0044 9.6E-08 63.9 4.7 51 104-154 472-523 (989)
36 TIGR01642 U2AF_lg U2 snRNP aux 96.3 0.022 4.8E-07 53.7 9.1 41 167-207 295-335 (509)
37 smart00360 RRM RNA recognition 96.3 0.0071 1.5E-07 39.7 4.1 33 172-204 1-33 (71)
38 TIGR01628 PABP-1234 polyadenyl 96.2 0.023 5E-07 54.7 8.6 38 166-203 177-214 (562)
39 TIGR01645 half-pint poly-U bin 96.2 0.0072 1.5E-07 60.0 5.1 42 167-208 107-148 (612)
40 TIGR01622 SF-CC1 splicing fact 96.1 0.0078 1.7E-07 56.1 5.1 41 167-207 186-226 (457)
41 KOG0113 U1 small nuclear ribon 96.1 0.01 2.3E-07 54.3 5.6 42 167-208 101-142 (335)
42 KOG0127 Nucleolar protein fibr 96.0 0.0081 1.8E-07 58.8 4.7 42 167-208 292-333 (678)
43 KOG0114 Predicted RNA-binding 95.7 0.019 4.2E-07 45.6 4.6 39 167-205 18-56 (124)
44 KOG0126 Predicted RNA-binding 95.4 0.0035 7.6E-08 54.0 -0.5 42 167-208 35-76 (219)
45 KOG0144 RNA-binding protein CU 95.4 0.022 4.7E-07 54.5 4.7 59 150-208 17-75 (510)
46 KOG0130 RNA-binding protein RB 95.4 0.019 4E-07 47.6 3.7 41 166-206 71-111 (170)
47 KOG0145 RNA-binding protein EL 95.1 0.022 4.7E-07 51.7 3.7 77 128-208 92-168 (360)
48 KOG0122 Translation initiation 94.8 0.035 7.5E-07 49.7 4.0 43 166-208 188-230 (270)
49 TIGR01648 hnRNP-R-Q heterogene 94.8 0.14 3.1E-06 50.7 8.6 36 167-202 233-270 (578)
50 TIGR01649 hnRNP-L_PTB hnRNP-L/ 94.3 0.064 1.4E-06 51.2 5.0 36 167-202 275-311 (481)
51 PF01885 PTS_2-RNA: RNA 2'-pho 94.3 0.1 2.2E-06 44.4 5.7 52 104-155 26-82 (186)
52 KOG0117 Heterogeneous nuclear 94.1 0.043 9.4E-07 52.6 3.3 131 71-202 132-294 (506)
53 KOG0108 mRNA cleavage and poly 93.7 0.072 1.6E-06 51.0 3.9 43 168-211 19-61 (435)
54 TIGR01649 hnRNP-L_PTB hnRNP-L/ 93.5 0.1 2.2E-06 49.9 4.7 37 167-203 96-132 (481)
55 KOG0116 RasGAP SH3 binding pro 92.7 0.096 2.1E-06 50.0 3.2 35 167-201 288-322 (419)
56 KOG0148 Apoptosis-promoting RN 92.1 0.19 4.2E-06 45.7 4.1 39 165-203 162-200 (321)
57 KOG0145 RNA-binding protein EL 91.8 0.23 4.9E-06 45.2 4.2 41 169-209 43-83 (360)
58 KOG0121 Nuclear cap-binding pr 90.7 0.29 6.3E-06 40.3 3.5 40 166-205 35-74 (153)
59 KOG4212 RNA-binding protein hn 90.4 0.23 5E-06 47.9 3.0 37 165-201 534-570 (608)
60 KOG1548 Transcription elongati 90.3 0.35 7.6E-06 45.3 4.1 28 168-195 135-162 (382)
61 KOG0132 RNA polymerase II C-te 90.3 0.4 8.8E-06 48.9 4.8 37 167-203 421-457 (894)
62 KOG0123 Polyadenylate-binding 90.0 0.98 2.1E-05 42.3 6.9 68 127-203 45-112 (369)
63 KOG0117 Heterogeneous nuclear 90.0 1.1 2.5E-05 43.2 7.2 44 165-208 81-124 (506)
64 TIGR01642 U2AF_lg U2 snRNP aux 89.6 0.88 1.9E-05 42.9 6.3 39 163-201 171-221 (509)
65 KOG2278 RNA:NAD 2'-phosphotran 89.6 0.58 1.3E-05 40.2 4.5 51 104-154 28-82 (207)
66 PF14605 Nup35_RRM_2: Nup53/35 89.5 0.52 1.1E-05 32.1 3.5 32 168-200 2-33 (53)
67 PF08777 RRM_3: RNA binding mo 89.2 0.44 9.5E-06 36.9 3.3 34 168-201 2-35 (105)
68 PRK00819 RNA 2'-phosphotransfe 88.6 0.87 1.9E-05 38.7 4.9 50 104-155 27-78 (179)
69 KOG0533 RRM motif-containing p 88.5 0.76 1.6E-05 41.0 4.7 41 167-208 83-123 (243)
70 KOG4205 RNA-binding protein mu 88.1 0.63 1.4E-05 42.8 4.0 42 167-208 97-138 (311)
71 KOG0153 Predicted RNA-binding 87.7 0.67 1.4E-05 43.4 4.0 39 163-201 224-262 (377)
72 KOG4660 Protein Mei2, essentia 87.3 0.57 1.2E-05 46.0 3.4 39 163-201 71-109 (549)
73 KOG0148 Apoptosis-promoting RN 87.1 0.52 1.1E-05 43.0 2.8 40 169-208 64-103 (321)
74 KOG0144 RNA-binding protein CU 87.0 0.28 6E-06 47.2 1.1 109 77-202 48-159 (510)
75 KOG0110 RNA-binding protein (R 86.0 1.7 3.8E-05 43.9 6.1 34 169-202 615-648 (725)
76 KOG0415 Predicted peptidyl pro 85.8 0.91 2E-05 43.0 3.8 43 168-210 240-282 (479)
77 KOG4207 Predicted splicing fac 85.7 0.99 2.1E-05 39.9 3.7 42 167-208 13-54 (256)
78 PF13893 RRM_5: RNA recognitio 83.9 1.1 2.5E-05 29.6 2.7 20 184-203 1-20 (56)
79 KOG2590 RNA-binding protein LA 83.1 0.92 2E-05 43.8 2.7 71 72-144 93-168 (448)
80 KOG4212 RNA-binding protein hn 82.4 1.7 3.6E-05 42.3 4.0 36 167-202 44-80 (608)
81 KOG0146 RNA-binding protein ET 79.1 2.5 5.4E-05 38.8 3.8 48 163-210 281-328 (371)
82 PTZ00315 2'-phosphotransferase 79.0 3.3 7.1E-05 41.3 5.0 52 104-155 399-456 (582)
83 KOG0124 Polypyrimidine tract-b 77.9 3.5 7.6E-05 39.3 4.5 44 167-211 210-253 (544)
84 KOG0147 Transcriptional coacti 77.0 1.4 3.1E-05 43.2 1.8 39 170-208 281-319 (549)
85 KOG0125 Ataxin 2-binding prote 76.9 2.6 5.6E-05 39.5 3.3 35 167-201 96-130 (376)
86 KOG0123 Polyadenylate-binding 70.9 4.6 9.9E-05 37.9 3.5 38 166-203 269-306 (369)
87 COG5175 MOT2 Transcriptional r 69.6 4.7 0.0001 38.1 3.2 42 168-209 115-162 (480)
88 smart00361 RRM_1 RNA recogniti 69.4 5.6 0.00012 27.7 2.9 25 181-205 2-31 (70)
89 KOG4208 Nucleolar RNA-binding 69.0 6 0.00013 34.7 3.6 41 168-208 50-91 (214)
90 KOG1190 Polypyrimidine tract-b 68.8 4.9 0.00011 38.7 3.2 35 167-201 28-62 (492)
91 KOG0127 Nucleolar protein fibr 67.6 6.7 0.00014 39.1 3.9 37 168-204 118-154 (678)
92 PF15513 DUF4651: Domain of un 67.3 6.6 0.00014 28.2 2.9 33 181-213 8-40 (62)
93 KOG4209 Splicing factor RNPS1, 64.9 4.7 0.0001 35.5 2.2 45 163-207 97-141 (231)
94 KOG0124 Polypyrimidine tract-b 64.2 4 8.6E-05 38.9 1.7 41 167-207 113-153 (544)
95 KOG0147 Transcriptional coacti 63.0 2.6 5.6E-05 41.5 0.2 46 165-211 177-222 (549)
96 PF05172 Nup35_RRM: Nup53/35/4 58.3 10 0.00023 29.2 2.8 32 166-198 5-36 (100)
97 KOG4210 Nuclear localization s 56.9 8.6 0.00019 34.9 2.5 41 168-208 185-226 (285)
98 PF08675 RNA_bind: RNA binding 56.6 8.3 0.00018 29.4 1.9 27 169-195 10-36 (87)
99 KOG3152 TBP-binding protein, a 56.1 15 0.00032 33.4 3.7 34 169-202 76-109 (278)
100 KOG0146 RNA-binding protein ET 47.2 17 0.00037 33.5 2.7 38 164-201 16-53 (371)
101 KOG4661 Hsp27-ERE-TATA-binding 46.3 19 0.00041 36.4 3.1 33 168-200 406-438 (940)
102 KOG0110 RNA-binding protein (R 45.1 19 0.0004 36.8 2.9 35 169-203 517-551 (725)
103 KOG4206 Spliceosomal protein s 42.7 45 0.00097 29.5 4.6 128 75-202 21-181 (221)
104 KOG4206 Spliceosomal protein s 42.1 20 0.00044 31.7 2.3 24 182-205 28-51 (221)
105 KOG0129 Predicted RNA-binding 40.6 36 0.00078 33.6 4.0 36 167-202 370-406 (520)
106 KOG0151 Predicted splicing reg 38.7 35 0.00076 35.2 3.7 64 145-208 142-215 (877)
107 KOG1995 Conserved Zn-finger pr 36.4 27 0.00058 32.9 2.3 29 167-195 66-94 (351)
108 PF04059 RRM_2: RNA recognitio 34.2 93 0.002 23.9 4.7 37 168-204 2-40 (97)
109 COG1859 KptA RNA:NAD 2'-phosph 32.2 65 0.0014 28.3 3.9 49 104-154 53-103 (211)
110 KOG4307 RNA binding protein RB 31.3 46 0.001 34.4 3.2 34 168-201 868-902 (944)
111 KOG0106 Alternative splicing f 30.9 23 0.0005 31.1 1.0 34 167-200 99-132 (216)
112 KOG0112 Large RNA-binding prot 29.5 27 0.00058 36.7 1.2 47 167-213 372-418 (975)
113 KOG0129 Predicted RNA-binding 27.2 47 0.001 32.8 2.4 35 167-201 259-293 (520)
114 KOG1457 RNA binding protein (c 26.1 75 0.0016 28.7 3.3 27 166-192 33-59 (284)
115 smart00027 EH Eps15 homology d 25.2 52 0.0011 24.1 1.9 36 100-137 16-51 (96)
116 KOG0105 Alternative splicing f 25.0 1.2E+02 0.0025 26.8 4.1 36 167-202 115-150 (241)
117 PF07292 NID: Nmi/IFP 35 domai 23.1 2E+02 0.0044 21.7 4.7 60 130-189 8-74 (88)
118 KOG4676 Splicing factor, argin 22.9 19 0.00042 34.6 -1.1 33 168-200 152-184 (479)
119 KOG0115 RNA-binding protein p5 20.6 96 0.0021 28.3 2.9 30 168-197 32-61 (275)
120 PHA02672 ORF110 EEV glycoprote 20.1 35 0.00076 28.7 0.0 44 74-128 29-72 (166)
No 1
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=100.00 E-value=1.6e-38 Score=293.30 Aligned_cols=136 Identities=49% Similarity=0.808 Sum_probs=130.8
Q ss_pred CCCCcHHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCC
Q 041714 69 PAVLTDDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNG 148 (214)
Q Consensus 69 ~~~~~~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg 148 (214)
.....+++..+|.+||||||||+||.+|.||+++|++|++|||||++|++|+|||+||.|+.+|+.||+.|..|+||+||
T Consensus 133 k~~lsedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDg 212 (484)
T KOG1855|consen 133 KLILSEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDG 212 (484)
T ss_pred cccccHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCC
Confidence 45677899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCc
Q 041714 149 KKVKRLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNV 204 (214)
Q Consensus 149 ~~VRR~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~ 204 (214)
+||||..|||+.+.++...|||++++||+|...|.|.+||+.+|.|++|||++|++
T Consensus 213 kKVrRisPlp~~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPga 268 (484)
T KOG1855|consen 213 KKVRRISPLPEFDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGA 268 (484)
T ss_pred ceeeecCCCCCccccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCC
Confidence 99999999999877778899999999999999999999999999999999999954
No 2
>cd08032 LARP_7 La RNA-binding domain of La-related protein 7. LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.
Probab=100.00 E-value=1.1e-33 Score=211.36 Aligned_cols=80 Identities=35% Similarity=0.685 Sum_probs=78.1
Q ss_pred HHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 74 DDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 74 ~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
.++.++|++||||||||+||++|+||+++|.++++|||||++|++|||||+|+.|.+.|++||+.|+.|||++||++|||
T Consensus 3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR 82 (82)
T cd08032 3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTRIRR 82 (82)
T ss_pred HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCCccCC
Confidence 57899999999999999999999999999988899999999999999999999999999999999999999999999998
No 3
>cd08033 LARP_6 La RNA-binding domain of La-related protein 6. This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=100.00 E-value=2.1e-33 Score=207.49 Aligned_cols=76 Identities=62% Similarity=0.971 Sum_probs=74.7
Q ss_pred HHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 78 QRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 78 ~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
++|++||||||||+||++|+||+++|.++++|||||++|++|||||+|+.|.+.|++||+.|+.|||++||++|||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~~VRR 77 (77)
T cd08033 2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGKKVRR 77 (77)
T ss_pred hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999998
No 4
>cd08035 LARP_4 La RNA-binding domain of La-related protein 4. This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.98 E-value=3.2e-33 Score=205.38 Aligned_cols=75 Identities=35% Similarity=0.636 Sum_probs=72.2
Q ss_pred HHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 77 KQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 77 ~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
+++|++||||||||+||++|+||+++| +++|||||++|++|||||+||.|+++|++||+.|+.||||+||++||.
T Consensus 1 ~e~i~~QvEyYFSd~NL~~D~fL~~~m--d~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~kVRp 75 (75)
T cd08035 1 RECLKKQLEFCFSRENLSKDLYLISQM--DSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGEKVRP 75 (75)
T ss_pred ChHHHhhHHhhcCHhhcccCHHHHHhh--CcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCCccCc
Confidence 368999999999999999999999998 789999999999999999999999999999999999999999999984
No 5
>cd08036 LARP_5 La RNA-binding domain of La-related protein 5. This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.97 E-value=4.4e-33 Score=204.04 Aligned_cols=74 Identities=31% Similarity=0.600 Sum_probs=71.7
Q ss_pred HHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 78 QRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 78 ~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
+.|++||||||||+||++|.||+++| +++|||||++|++|||||+||.|.++|++||++|+.||||+||++||.
T Consensus 2 e~i~kQvEyYFS~~NL~~D~fLr~~m--d~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~kVRp 75 (75)
T cd08036 2 ELLKKTLEFCLSRENLASDMYLISQM--DSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEKVRP 75 (75)
T ss_pred hhhhcceeeeechhhccccHHHHHHh--ccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCccCc
Confidence 67999999999999999999999999 779999999999999999999999999999999999999999999984
No 6
>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function.
Probab=99.97 E-value=2e-32 Score=203.66 Aligned_cols=80 Identities=58% Similarity=0.881 Sum_probs=77.0
Q ss_pred HHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 74 DDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 74 ~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
+++.++|++||||||||+||++|+||+++|.++ +|||||++|++|+|||+|+.|.+.|++||+.|+.|||++||++|||
T Consensus 1 ~~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~-~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~~VRR 79 (80)
T smart00715 1 EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKN-DGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVRR 79 (80)
T ss_pred ChHHHHHHHHHHHHcCHhhhhhCHHHHHHhccC-CCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCeeCc
Confidence 368899999999999999999999999999777 9999999999999999999999999999999999999999999999
Q ss_pred c
Q 041714 154 L 154 (214)
Q Consensus 154 ~ 154 (214)
+
T Consensus 80 ~ 80 (80)
T smart00715 80 R 80 (80)
T ss_pred C
Confidence 4
No 7
>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen. This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.97 E-value=1.5e-32 Score=202.58 Aligned_cols=75 Identities=51% Similarity=0.839 Sum_probs=72.7
Q ss_pred HHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 78 QRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 78 ~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
++|++||||||||+||++|+||+++|++++||||||++|++|+|||+|+.+ +.|++||+.|+.||||+||++|||
T Consensus 2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~~VRR 76 (76)
T cd08029 2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGENVRR 76 (76)
T ss_pred hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCCcccC
Confidence 689999999999999999999999999899999999999999999999876 999999999999999999999998
No 8
>cd08028 LARP_3 La RNA-binding domain of La-related protein 3. This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).
Probab=99.97 E-value=3.9e-32 Score=202.97 Aligned_cols=79 Identities=43% Similarity=0.826 Sum_probs=76.2
Q ss_pred HHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCC--ceeeecCCceE
Q 041714 74 DDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESS--LLVVSSNGKKV 151 (214)
Q Consensus 74 ~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~--~levsedg~~V 151 (214)
+++..+|++||||||||+||++|+||+++|.++ +|||||++|++|||||+|+.|.+.|++||+.|+ .|||++||++|
T Consensus 2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~-~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~V 80 (82)
T cd08028 2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKED-DGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKI 80 (82)
T ss_pred hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhcc-CCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCcc
Confidence 578999999999999999999999999999765 999999999999999999999999999999999 99999999999
Q ss_pred Ee
Q 041714 152 KR 153 (214)
Q Consensus 152 RR 153 (214)
||
T Consensus 81 RR 82 (82)
T cd08028 81 RR 82 (82)
T ss_pred CC
Confidence 98
No 9
>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5. This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.97 E-value=6.5e-32 Score=198.68 Aligned_cols=75 Identities=44% Similarity=0.738 Sum_probs=72.1
Q ss_pred HHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 77 KQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 77 ~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
+++|++||||||||+||++|+||+++| +++|||||++|++|+|||+|+.|.+.|++||+.|+.|||++||++||.
T Consensus 1 ~~~i~~QvEfYFSd~NL~~D~fL~~~m--~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR~ 75 (75)
T cd08031 1 KELLKRQLEYYFSRENLANDAYLLSQM--DSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEKVRP 75 (75)
T ss_pred ChHHHHHHHHHcCHhhhccCHHHHHHh--CCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCc
Confidence 368999999999999999999999998 689999999999999999999999999999999999999999999984
No 10
>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen. This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.97 E-value=1e-31 Score=203.80 Aligned_cols=77 Identities=39% Similarity=0.757 Sum_probs=73.8
Q ss_pred HHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCC------------HHHHHHHHhhCCceee
Q 041714 77 KQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRN------------HAWIVAALRESSLLVV 144 (214)
Q Consensus 77 ~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d------------~~~I~~ALk~S~~lev 144 (214)
+++|++||||||||+||++|+||+++|.++++|||||++|++|||||+|+.+ .+.|++||+.|+.|||
T Consensus 2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev 81 (90)
T cd08030 2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV 81 (90)
T ss_pred hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence 6899999999999999999999999999999999999999999999999853 6899999999999999
Q ss_pred ecCCceEEe
Q 041714 145 SSNGKKVKR 153 (214)
Q Consensus 145 sedg~~VRR 153 (214)
++||++|||
T Consensus 82 seD~~~VRR 90 (90)
T cd08030 82 SEDGKRVGR 90 (90)
T ss_pred cCCCCccCC
Confidence 999999998
No 11
>cd08037 LARP_1 La RNA-binding domain of La-related protein 1. This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=6.4e-31 Score=192.36 Aligned_cols=72 Identities=35% Similarity=0.707 Sum_probs=68.6
Q ss_pred HHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 78 QRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 78 ~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
++|++||||||||+||++|+||+++| +++|||||++|++|||||+|+.|.+.|++||+.|+.|||++| +|||
T Consensus 2 ~~I~~QvEyYFSd~NL~~D~fLr~~m--d~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~~vev~~~--~~r~ 73 (73)
T cd08037 2 DYIKRQIEYYFSVDNLERDFFLRRKM--DEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDM--KIRR 73 (73)
T ss_pred hHHHHHHHHhccHhhhccCHHHHHHh--ccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecc--hhcC
Confidence 68999999999999999999999999 789999999999999999999999999999999999999966 6775
No 12
>cd08038 LARP_2 La RNA-binding domain of La-related protein 2. This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=1e-30 Score=191.27 Aligned_cols=73 Identities=40% Similarity=0.701 Sum_probs=68.8
Q ss_pred HHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 77 KQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 77 ~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
+++|++||||||||+||++|+||+++| +++|||||++|++|||||+|+.|.+.|++||+.|+.||+++| +|||
T Consensus 1 ~e~I~~QvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~~ve~~~~--~~r~ 73 (73)
T cd08038 1 KEYIKRQIEYYFSTENLERDFFLRRKM--DLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQ--KIRR 73 (73)
T ss_pred ChHHHhhHHhhcchhhhccCHHHHHHh--CCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCC--cccC
Confidence 378999999999999999999999998 789999999999999999999999999999999999999976 5665
No 13
>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2. This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=2.1e-30 Score=189.82 Aligned_cols=73 Identities=38% Similarity=0.689 Sum_probs=69.4
Q ss_pred HHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 77 KQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 77 ~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
+++|++||||||||+||++|.||+++| +++|||||++|++|+|||+|+.|.+.|++||+.|+.|||++ .+|||
T Consensus 1 ~~~i~~QvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e--~kvR~ 73 (73)
T cd08034 1 KEYIKKQIEYYFSVDNLEKDFFLRRKM--DPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVD--EKVRC 73 (73)
T ss_pred ChHHHhhHHhhcCHhhhccCHHHHHHc--CCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEec--CeecC
Confidence 368999999999999999999999998 78999999999999999999999999999999999999998 57886
No 14
>cd07323 LAM LA motif RNA-binding domain. This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=4.4e-30 Score=188.79 Aligned_cols=74 Identities=50% Similarity=0.886 Sum_probs=72.3
Q ss_pred HHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEe
Q 041714 78 QRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKR 153 (214)
Q Consensus 78 ~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR 153 (214)
++|++||||||||+||++|+||+++| +++|||||++|++|+|||+|+.|.+.|++||+.|..|||++||++|||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~~--~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~~Vrr 75 (75)
T cd07323 2 EKIKKQVEYYFSDENLCKDRFLRSLM--DDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGTKVRR 75 (75)
T ss_pred hHHHhhhHhccCHhhhCcCHHHHHhc--CCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCCccCC
Confidence 68999999999999999999999999 889999999999999999999999999999999999999999999997
No 15
>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La. The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.
Probab=99.93 E-value=6.8e-27 Score=165.70 Aligned_cols=60 Identities=55% Similarity=0.880 Sum_probs=55.4
Q ss_pred HHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhc-CCHHHHHHHHhhC
Q 041714 80 IIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLT-RNHAWIVAALRES 139 (214)
Q Consensus 80 I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt-~d~~~I~~ALk~S 139 (214)
|++||||||||+||++|+||+++|.+++||||||++|++|+|||+|+ .|.+.|++||+.|
T Consensus 1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~~S 61 (61)
T PF05383_consen 1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALRDS 61 (61)
T ss_dssp HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHHTS
T ss_pred ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHHcC
Confidence 78999999999999999999999988889999999999999999999 8999999999987
No 16
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=99.92 E-value=5.3e-26 Score=190.96 Aligned_cols=137 Identities=32% Similarity=0.508 Sum_probs=120.1
Q ss_pred cHHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCC--ceeeecCCce
Q 041714 73 TDDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESS--LLVVSSNGKK 150 (214)
Q Consensus 73 ~~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~--~levsedg~~ 150 (214)
..++.++|++||||||+|.||+||+||+.++.+..+|||||.+++.|+|+.+|++|.+.|++||+.|. ++++|+|.++
T Consensus 10 ~a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~k 89 (205)
T KOG4213|consen 10 MAALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKTK 89 (205)
T ss_pred hhHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchhh
Confidence 46788999999999999999999999999997778999999999999999999999999999999885 7899999999
Q ss_pred EEecC--CCCCCc---cCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccccccccC
Q 041714 151 VKRLN--PLPVTE---VRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKKKQQ 213 (214)
Q Consensus 151 VRR~~--plp~~~---~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~Kgs~ 213 (214)
+||.. |||+.. ......|+||.+ +.+..+++|..|-+ |++.+|.||+...-...|||||
T Consensus 90 ~rr~~skplpEvt~e~~~~~~~r~v~~K--~td~ql~~l~qw~~--~k~~nv~mr~~~~k~~~fkGsv 153 (205)
T KOG4213|consen 90 IRRSPSKPLPEVTDEYKEGIKERTVYKK--ITDDQLDDLNQWAS--GKGHNVKMRRHGNKAHPFKGSV 153 (205)
T ss_pred hhcCcCCCCccccHHHHHHHHHhhhhcc--CCHHHHHHHHHHhc--ccceEeeccccCCCCCCCCCce
Confidence 99974 665432 123457999998 77878888887777 9999999998776667899997
No 17
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=99.91 E-value=6.8e-24 Score=201.35 Aligned_cols=115 Identities=36% Similarity=0.623 Sum_probs=106.0
Q ss_pred cHHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEE
Q 041714 73 TDDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVK 152 (214)
Q Consensus 73 ~~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VR 152 (214)
..++++.+++|||||||.+||..|.||..+| |+|.||||.+|++|+.|++||+|+++|+++||+|+.|+|++.|.+||
T Consensus 93 s~~~kq~lk~qlEy~fSreNlssD~YL~sQM--DSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgekVr 170 (684)
T KOG2591|consen 93 SRDLKQLLKKQLEYYFSRENLSSDRYLISQM--DSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEKVR 170 (684)
T ss_pred chhHHHHHHHHHHHhhccccccchhhhhhhc--ccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCccccc
Confidence 3399999999999999999999999999999 89999999999999999999999999999999999999999999999
Q ss_pred ecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEe
Q 041714 153 RLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICI 199 (214)
Q Consensus 153 R~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRm 199 (214)
. +.+.|.|+++.+|+.+.+|.|+.+|+.-..-+.|.+
T Consensus 171 p----------~~kRcIvilREIpettp~e~Vk~lf~~encPk~isc 207 (684)
T KOG2591|consen 171 P----------NHKRCIVILREIPETTPIEVVKALFKGENCPKVISC 207 (684)
T ss_pred c----------CcceeEEEEeecCCCChHHHHHHHhccCCCCCceee
Confidence 6 355788899999999999999999998665555554
No 18
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=99.59 E-value=1.2e-16 Score=147.75 Aligned_cols=133 Identities=28% Similarity=0.415 Sum_probs=114.1
Q ss_pred HHhchhhhcC-----CCCCCcChHHHHhhhcC--CCCceehHHHhchhhhhhhcCCHHHHHHHHhhC---CceeeecCCc
Q 041714 80 IIKQVEYYFS-----DENLPTDKYMMNLIRKN--KEGFVPISVIASFRKLKRLTRNHAWIVAALRES---SLLVVSSNGK 149 (214)
Q Consensus 80 I~kQvEyYFS-----d~NL~~D~fL~~~~~~~--~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S---~~levsedg~ 149 (214)
+..|+||||| |.|+++|+||+....++ .+|||||.++++|+||+.++...+.+..|++.| ..++++.+|.
T Consensus 75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks~~~rv~e~Sssgs 154 (438)
T COG5193 75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGS 154 (438)
T ss_pred cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcCcccceeeeccccc
Confidence 8899999999 99999999999987554 489999999999999999999999999999999 6899999999
Q ss_pred eEEecCCCCCCccC--CCCcceEEeeCCCCCCC--------HHHHHHHHhh--cCCeeEEEeeCCCcccccccccC
Q 041714 150 KVKRLNPLPVTEVR--DPKLFTVLVENLPEDHS--------VENMQRIFAE--AGKIKSICIRDPNVVEESKKKQQ 213 (214)
Q Consensus 150 ~VRR~~plp~~~~~--~~~~rTVyv~~~P~d~t--------~e~L~~~F~~--~G~V~~VRmrrp~~~~~~~Kgs~ 213 (214)
.++|..++--...+ +...|.+|+.+|+.+.+ .++++..|.. .|.+.+||+||+. -++.|.||+
T Consensus 155 n~~r~~k~~s~n~~s~~~~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~-~nkn~~gSv 229 (438)
T COG5193 155 NKNRTEKLISNNNKSTSQMQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDW-LNKNFRGSV 229 (438)
T ss_pred cccccchhhhhhhhhhhhHhhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhh-hhccccCcc
Confidence 99998776543222 34568999999988743 5689999998 7899999999864 467788885
No 19
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=98.99 E-value=1.1e-10 Score=110.57 Aligned_cols=64 Identities=36% Similarity=0.643 Sum_probs=58.5
Q ss_pred HHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeee
Q 041714 75 DLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVS 145 (214)
Q Consensus 75 ~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levs 145 (214)
...+.+.+|||||||.+||++|.|+++ |||+|.+|++|+||..|+.|+++|.+||+.+.+|++.
T Consensus 299 ~~~~~~~~~ie~~FSeE~~~~d~~n~~-------k~~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~ 362 (448)
T KOG2590|consen 299 NVIAFIQEPIEFYFSEENLQRDRFNRE-------KFVPLRVIAKFKRVADLSSDINLILAALRNSLIVEET 362 (448)
T ss_pred ccccccccccccccchHHHhhhhhhhc-------ccchhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhcc
Confidence 446788999999999999999998875 6788999999999999999999999999999988775
No 20
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=98.95 E-value=2.4e-10 Score=106.23 Aligned_cols=61 Identities=34% Similarity=0.641 Sum_probs=55.5
Q ss_pred HHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhC
Q 041714 77 KQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRES 139 (214)
Q Consensus 77 ~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S 139 (214)
...+.+|||||||-+||+.|.|||++++ .+||||++.|..|.|...+..|..+|..|||.+
T Consensus 271 I~a~k~QiEyYFseenl~~d~~lrkk~~--kaGf~plsfi~kf~Rn~Sf~gd~nLilaa~ke~ 331 (438)
T COG5193 271 IMAKKEQIEYYFSEENLKSDEFLRKKFK--KAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEV 331 (438)
T ss_pred hhhHHhhhHhhhhHHhhhhhhHHHhhhh--hcccccHhhhhhhhhccccCCchhhhHHHHHHH
Confidence 3456679999999999999999999994 569999999999999999999999999999876
No 21
>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=97.57 E-value=9.1e-05 Score=50.47 Aligned_cols=33 Identities=36% Similarity=0.578 Sum_probs=31.3
Q ss_pred EEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 170 VLVENLPEDHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 170 Vyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
|||.++|.+.+.++|+++|++||.|..+.+.+.
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~ 33 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN 33 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc
Confidence 799999999999999999999999999999875
No 22
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.37 E-value=0.00027 Score=63.23 Aligned_cols=42 Identities=17% Similarity=0.286 Sum_probs=38.5
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.++|+|.+||.+++.++|.++|++||.|.+|+|.++..++++
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~s 310 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQC 310 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCc
Confidence 347999999999999999999999999999999998877765
No 23
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.37 E-value=0.00031 Score=57.13 Aligned_cols=42 Identities=12% Similarity=0.114 Sum_probs=37.8
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.++|||.+||.+++.++|+++|++||.|..|+|.++..++++
T Consensus 34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~ 75 (144)
T PLN03134 34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRS 75 (144)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCc
Confidence 468999999999999999999999999999999888766543
No 24
>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=97.36 E-value=0.00069 Score=62.62 Aligned_cols=78 Identities=21% Similarity=0.206 Sum_probs=54.3
Q ss_pred CCHHHHHHHHhhCCceeeecCCceEEecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccc
Q 041714 127 RNHAWIVAALRESSLLVVSSNGKKVKRLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVE 206 (214)
Q Consensus 127 ~d~~~I~~ALk~S~~levsedg~~VRR~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~ 206 (214)
.+.+...+||+.-.-.++. ++.|+-....+. ......++|||.+||.+++.++|+++|++||.|..++|.++..++
T Consensus 157 ~~~e~A~~Ai~~LnG~~l~--gr~i~V~~a~p~--~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg 232 (346)
T TIGR01659 157 GSEADSQRAIKNLNGITVR--NKRLKVSYARPG--GESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTG 232 (346)
T ss_pred ccHHHHHHHHHHcCCCccC--Cceeeeeccccc--ccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCC
Confidence 4667777788754444453 333332211111 122345689999999999999999999999999999999887766
Q ss_pred cc
Q 041714 207 ES 208 (214)
Q Consensus 207 ~~ 208 (214)
++
T Consensus 233 ~~ 234 (346)
T TIGR01659 233 TP 234 (346)
T ss_pred cc
Confidence 54
No 25
>smart00362 RRM_2 RNA recognition motif.
Probab=97.30 E-value=0.00056 Score=45.36 Aligned_cols=35 Identities=34% Similarity=0.605 Sum_probs=32.6
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
||++.++|.+.+.++|+++|..||.|..+++.+..
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~ 35 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT 35 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC
Confidence 58999999999999999999999999999998765
No 26
>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=97.04 E-value=0.0012 Score=61.00 Aligned_cols=44 Identities=20% Similarity=0.243 Sum_probs=39.9
Q ss_pred CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 165 PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 165 ~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
...++|||.+||.+++.++|+++|+.||.|+.|+|.++..++++
T Consensus 105 ~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~s 148 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYS 148 (346)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCcc
Confidence 44689999999999999999999999999999999988777665
No 27
>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=97.03 E-value=0.00088 Score=46.36 Aligned_cols=35 Identities=20% Similarity=0.460 Sum_probs=30.3
Q ss_pred EEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCc
Q 041714 170 VLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNV 204 (214)
Q Consensus 170 Vyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~ 204 (214)
|||+|+|.+++.++|.++|+.||.|..|+|.+.+.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~ 35 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD 35 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec
Confidence 78999999999999999999999999999987643
No 28
>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=96.94 E-value=0.002 Score=60.03 Aligned_cols=44 Identities=18% Similarity=0.217 Sum_probs=39.3
Q ss_pred CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 165 PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 165 ~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
...+||||.+||.+++.++|+++|++||.|..|+|.++..++++
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~s 130 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRS 130 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCc
Confidence 34689999999999999999999999999999999988766543
No 29
>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=96.72 E-value=0.0036 Score=41.57 Aligned_cols=36 Identities=33% Similarity=0.579 Sum_probs=32.8
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCc
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNV 204 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~ 204 (214)
+|++.++|.+.+.++|+++|..+|.|..+.+.+...
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~ 36 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD 36 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC
Confidence 588999999999999999999999999999987543
No 30
>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=96.66 E-value=0.0085 Score=59.51 Aligned_cols=80 Identities=16% Similarity=0.176 Sum_probs=54.8
Q ss_pred CHHHHHHHHhhCCceeeecCCceEEecCCCCCCc-------cCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEee
Q 041714 128 NHAWIVAALRESSLLVVSSNGKKVKRLNPLPVTE-------VRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIR 200 (214)
Q Consensus 128 d~~~I~~ALk~S~~levsedg~~VRR~~plp~~~-------~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmr 200 (214)
+.+....|++.-.-..+..-..+|+|....+... ......++|||.++|.+++.++|+++|+.||.|.+++|.
T Consensus 158 s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~ 237 (612)
T TIGR01645 158 VPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLA 237 (612)
T ss_pred cHHHHHHHHHhcCCeEEecceeeecccccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEE
Confidence 5677778887655555542223454433222110 011234789999999999999999999999999999998
Q ss_pred CCCcccc
Q 041714 201 DPNVVEE 207 (214)
Q Consensus 201 rp~~~~~ 207 (214)
++..+++
T Consensus 238 ~D~~tgk 244 (612)
T TIGR01645 238 RAPTGRG 244 (612)
T ss_pred ecCCCCC
Confidence 8766543
No 31
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=96.54 E-value=0.0044 Score=50.45 Aligned_cols=42 Identities=26% Similarity=0.401 Sum_probs=37.8
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.++|||.+||.+.+.++|.++|..||.|..|+|.+++.++++
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~ 156 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKS 156 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCcc
Confidence 489999999999999999999999999999999988755544
No 32
>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=96.51 E-value=0.011 Score=58.37 Aligned_cols=42 Identities=19% Similarity=0.322 Sum_probs=37.8
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
..++|+|.+||.+++.++|.++|++||.|..|+|.++ .++++
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~s 98 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQN 98 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCc
Confidence 4689999999999999999999999999999999887 55544
No 33
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=96.39 E-value=0.016 Score=51.87 Aligned_cols=76 Identities=21% Similarity=0.189 Sum_probs=52.2
Q ss_pred CCHHHHHHHHhhCCceeeecCCceEEecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccc
Q 041714 127 RNHAWIVAALRESSLLVVSSNGKKVKRLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVE 206 (214)
Q Consensus 127 ~d~~~I~~ALk~S~~levsedg~~VRR~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~ 206 (214)
.+.+....||..-.-..+..-..+|+...|-. .....++|||.++|.+.+.++|+++|+.||.|..+++.++..++
T Consensus 53 ~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~----~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~ 128 (352)
T TIGR01661 53 VRPEDAEKAVNSLNGLRLQNKTIKVSYARPSS----DSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTG 128 (352)
T ss_pred CcHHHHHHHHhhcccEEECCeeEEEEeecccc----cccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCC
Confidence 35566777877655455532222333222211 12345689999999999999999999999999999998776544
No 34
>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=96.36 E-value=0.014 Score=56.25 Aligned_cols=37 Identities=24% Similarity=0.378 Sum_probs=34.3
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
..++|||.+++.+++.++|+++|+.||.|..|++.++
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d 320 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD 320 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC
Confidence 3568999999999999999999999999999999876
No 35
>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []. This protein has been shown to interact with itself via a coiled-coil [].
Probab=96.32 E-value=0.0044 Score=63.86 Aligned_cols=51 Identities=18% Similarity=0.425 Sum_probs=46.5
Q ss_pred hcCCCCceehHHHhchhhhhhhcCCHHHHHHHHh-hCCceeeecCCceEEec
Q 041714 104 RKNKEGFVPISVIASFRKLKRLTRNHAWIVAALR-ESSLLVVSSNGKKVKRL 154 (214)
Q Consensus 104 ~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk-~S~~levsedg~~VRR~ 154 (214)
..|.+|||-|.+|++.-.+--|..+.+.|+.|+. .|+.|||+.||.|||=+
T Consensus 472 ~pDaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIRWR 523 (989)
T PF09421_consen 472 HPDAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIRWR 523 (989)
T ss_pred CcccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeeeec
Confidence 3478999999999999999999999999999998 58999999999999954
No 36
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.31 E-value=0.022 Score=53.68 Aligned_cols=41 Identities=12% Similarity=0.187 Sum_probs=36.9
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEE 207 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~ 207 (214)
.++|||.+||..++.++|+++|+.||.|..++|.+...++.
T Consensus 295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~ 335 (509)
T TIGR01642 295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGL 335 (509)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCC
Confidence 47899999999999999999999999999999987766654
No 37
>smart00360 RRM RNA recognition motif.
Probab=96.28 E-value=0.0071 Score=39.65 Aligned_cols=33 Identities=33% Similarity=0.552 Sum_probs=29.4
Q ss_pred eeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCc
Q 041714 172 VENLPEDHSVENMQRIFAEAGKIKSICIRDPNV 204 (214)
Q Consensus 172 v~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~ 204 (214)
|.++|.+.+.++|+++|..||.|..+++.+...
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~ 33 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKD 33 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCC
Confidence 468899999999999999999999999987654
No 38
>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=96.18 E-value=0.023 Score=54.70 Aligned_cols=38 Identities=24% Similarity=0.428 Sum_probs=34.7
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
..++|||+++|.+++.++|+++|+.||.|.++++.+..
T Consensus 177 ~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~ 214 (562)
T TIGR01628 177 KFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDG 214 (562)
T ss_pred CCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECC
Confidence 45789999999999999999999999999999998763
No 39
>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=96.17 E-value=0.0072 Score=60.01 Aligned_cols=42 Identities=21% Similarity=0.280 Sum_probs=38.9
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.|+|||.++|.+.+.++|+++|++||.|..|+|.++..++++
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~Tgks 148 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKH 148 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCc
Confidence 579999999999999999999999999999999988877765
No 40
>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=96.15 E-value=0.0078 Score=56.06 Aligned_cols=41 Identities=17% Similarity=0.328 Sum_probs=37.1
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEE 207 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~ 207 (214)
.++|||.+||.+++.++|+++|+.||.|..|+|.++..+++
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~ 226 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGR 226 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCc
Confidence 57999999999999999999999999999999998766543
No 41
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=96.13 E-value=0.01 Score=54.27 Aligned_cols=42 Identities=31% Similarity=0.370 Sum_probs=40.2
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
-||++|--|+.+++...|+..|+.||.|+.|+|.++..|+++
T Consensus 101 y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgks 142 (335)
T KOG0113|consen 101 YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKS 142 (335)
T ss_pred cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCc
Confidence 589999999999999999999999999999999999999876
No 42
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=96.04 E-value=0.0081 Score=58.80 Aligned_cols=42 Identities=31% Similarity=0.361 Sum_probs=39.3
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.+||+|+++|-|++.|+|.+.|++||.|.+++|+.+..|+.+
T Consensus 292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~s 333 (678)
T KOG0127|consen 292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHS 333 (678)
T ss_pred cceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCc
Confidence 489999999999999999999999999999999999888765
No 43
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.68 E-value=0.019 Score=45.55 Aligned_cols=39 Identities=26% Similarity=0.382 Sum_probs=34.2
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVV 205 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~ 205 (214)
-|.+||+++|.+.|-|++=++|++||.|.+||+=-...|
T Consensus 18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T 56 (124)
T KOG0114|consen 18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET 56 (124)
T ss_pred heeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc
Confidence 468999999999999999999999999999999554333
No 44
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.38 E-value=0.0035 Score=54.00 Aligned_cols=42 Identities=17% Similarity=0.268 Sum_probs=39.6
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
..-|||-|||.+.|..+|...|++||+|..|-+.|+..||+|
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKS 76 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKS 76 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcc
Confidence 357999999999999999999999999999999999999987
No 45
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=95.38 E-value=0.022 Score=54.50 Aligned_cols=59 Identities=17% Similarity=0.300 Sum_probs=45.4
Q ss_pred eEEecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 150 KVKRLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 150 ~VRR~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.++-...++-.+..|.+.--++|-.+|..++..+|+++|++||.|..|-+.|++.++.+
T Consensus 17 ~~~~~~~~~~~d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s 75 (510)
T KOG0144|consen 17 SLADNGSLDHTDNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQS 75 (510)
T ss_pred chhhcCCCCCCCCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcc
Confidence 33333334333334455556789999999999999999999999999999999999854
No 46
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=95.38 E-value=0.019 Score=47.59 Aligned_cols=41 Identities=22% Similarity=0.374 Sum_probs=37.1
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccc
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVE 206 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~ 206 (214)
....|+|.++.++++.++|...|..||+|++|.+.-++.||
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtG 111 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTG 111 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccc
Confidence 35678899999999999999999999999999998888775
No 47
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=95.13 E-value=0.022 Score=51.66 Aligned_cols=77 Identities=21% Similarity=0.194 Sum_probs=52.3
Q ss_pred CHHHHHHHHhhCCceeeecCCceEEecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccc
Q 041714 128 NHAWIVAALRESSLLVVSSNGKKVKRLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEE 207 (214)
Q Consensus 128 d~~~I~~ALk~S~~levsedg~~VRR~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~ 207 (214)
+.+...+|+..-.-|.+. .+.|+=...-|.. ...+..-+||.|+|..+|+.+|+.+|++||.|-.-||..+..++-
T Consensus 92 ~p~DAe~AintlNGLrLQ--~KTIKVSyARPSs--~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~ 167 (360)
T KOG0145|consen 92 RPKDAEKAINTLNGLRLQ--NKTIKVSYARPSS--DSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGL 167 (360)
T ss_pred ChHHHHHHHhhhcceeec--cceEEEEeccCCh--hhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccce
Confidence 345555666655556664 2334332222322 123345799999999999999999999999999888888777654
Q ss_pred c
Q 041714 208 S 208 (214)
Q Consensus 208 ~ 208 (214)
+
T Consensus 168 s 168 (360)
T KOG0145|consen 168 S 168 (360)
T ss_pred e
Confidence 3
No 48
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=94.81 E-value=0.035 Score=49.68 Aligned_cols=43 Identities=26% Similarity=0.334 Sum_probs=40.0
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
+.+||-|.+++++++.++|+++|.+||.|..|-+-|++.||.+
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~ 230 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLS 230 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcc
Confidence 4578999999999999999999999999999999999999765
No 49
>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=94.77 E-value=0.14 Score=50.65 Aligned_cols=36 Identities=22% Similarity=0.299 Sum_probs=33.1
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhc--CCeeEEEeeCC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEA--GKIKSICIRDP 202 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~--G~V~~VRmrrp 202 (214)
.++|||.+|+.+++.++|+++|++| |.|+.|++.+.
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rg 270 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRD 270 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecC
Confidence 5789999999999999999999999 99999987653
No 50
>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=94.35 E-value=0.064 Score=51.19 Aligned_cols=36 Identities=11% Similarity=0.241 Sum_probs=32.7
Q ss_pred cceEEeeCCCC-CCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 167 LFTVLVENLPE-DHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 167 ~rTVyv~~~P~-d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
.++|||.+||. .++.++|.++|+.||.|..|++.+.
T Consensus 275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~ 311 (481)
T TIGR01649 275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN 311 (481)
T ss_pred CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence 46999999997 6999999999999999999998764
No 51
>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate. Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.
Probab=94.33 E-value=0.1 Score=44.43 Aligned_cols=52 Identities=12% Similarity=0.180 Sum_probs=35.1
Q ss_pred hcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCC--ceeee---cCCceEEecC
Q 041714 104 RKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESS--LLVVS---SNGKKVKRLN 155 (214)
Q Consensus 104 ~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~--~levs---edg~~VRR~~ 155 (214)
..|++|||+|+.|+...+++....+.+.|.+.+++++ -.++. .++.+||-.+
T Consensus 26 ~~d~~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA~q 82 (186)
T PF01885_consen 26 VMDPDGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRANQ 82 (186)
T ss_dssp ---TT--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEESS
T ss_pred ccCCCCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEECC
Confidence 4588999999999999999988778999999998875 46777 6678998764
No 52
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=94.13 E-value=0.043 Score=52.63 Aligned_cols=131 Identities=24% Similarity=0.274 Sum_probs=80.6
Q ss_pred CCcHHHHHHHHhchhhh-----------cCCCC-----------CCcChHHHHhhhcCCCCceehHHHhch-hhhhhhc-
Q 041714 71 VLTDDLKQRIIKQVEYY-----------FSDEN-----------LPTDKYMMNLIRKNKEGFVPISVIASF-RKLKRLT- 126 (214)
Q Consensus 71 ~~~~~l~~~I~kQvEyY-----------FSd~N-----------L~~D~fL~~~~~~~~eG~VpI~~i~sF-~Rmk~lt- 126 (214)
.++.+..++.++++.=| -|-+| ..+|.+|.. |++-.+|-|.|.+..+= +|+|+-.
T Consensus 132 f~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee-~~kVteGVvdVivy~~p~dk~KNRGF 210 (506)
T KOG0117|consen 132 FCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEE-MKKVTEGVVDVIVYPSPDDKTKNRGF 210 (506)
T ss_pred eecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHH-HHhhCCCeeEEEEecCccccccccce
Confidence 47778888888888766 33333 334555544 45567888887777654 4444321
Q ss_pred -----CCHHHHHHHHh--hCCceeeecCCceEEecCCCCCCccC-CCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEE
Q 041714 127 -----RNHAWIVAALR--ESSLLVVSSNGKKVKRLNPLPVTEVR-DPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSIC 198 (214)
Q Consensus 127 -----~d~~~I~~ALk--~S~~levsedg~~VRR~~plp~~~~~-~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VR 198 (214)
.|...-..|=+ .+..+++-...-.|-=..|..+.+.. -.+-..+||+||++++|.|.|++.|++||+|..|.
T Consensus 211 aFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVk 290 (506)
T KOG0117|consen 211 AFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVK 290 (506)
T ss_pred EEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEee
Confidence 12222222222 13455665444455444444332211 12345789999999999999999999999999998
Q ss_pred eeCC
Q 041714 199 IRDP 202 (214)
Q Consensus 199 mrrp 202 (214)
..|+
T Consensus 291 k~rD 294 (506)
T KOG0117|consen 291 KPRD 294 (506)
T ss_pred cccc
Confidence 7775
No 53
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=93.69 E-value=0.072 Score=51.04 Aligned_cols=43 Identities=26% Similarity=0.328 Sum_probs=39.6
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccccccc
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKKK 211 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~Kg 211 (214)
++|+|.++|-+++.+.|..+|+..|.|.++|+..++.+|+ +||
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~-~~G 61 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGK-PKG 61 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCC-cCc
Confidence 8999999999999999999999999999999999988865 444
No 54
>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=93.53 E-value=0.1 Score=49.87 Aligned_cols=37 Identities=27% Similarity=0.350 Sum_probs=33.1
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
..+|+|.+++...+.+.|.++|+.||.|..|.|.+..
T Consensus 96 ~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~ 132 (481)
T TIGR01649 96 VLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKN 132 (481)
T ss_pred eEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecC
Confidence 4579999999999999999999999999999986643
No 55
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=92.73 E-value=0.096 Score=49.98 Aligned_cols=35 Identities=29% Similarity=0.469 Sum_probs=31.5
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
..+|||+++|.+++..+|+++|+.||.|+..+|..
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~v 322 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQV 322 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEE
Confidence 35799999999999999999999999999877754
No 56
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=92.09 E-value=0.19 Score=45.72 Aligned_cols=39 Identities=21% Similarity=0.343 Sum_probs=35.1
Q ss_pred CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 165 PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 165 ~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
++-||||+-+++.-.+.+.++..|+.||.|.-||+-+..
T Consensus 162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q 200 (321)
T KOG0148|consen 162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ 200 (321)
T ss_pred CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc
Confidence 456999999999988999999999999999999987653
No 57
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=91.76 E-value=0.23 Score=45.23 Aligned_cols=41 Identities=20% Similarity=0.453 Sum_probs=37.1
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccccc
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESK 209 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~ 209 (214)
-++|-=+|..+|+|+++.+|+..|+|.++.+.|++.+|.|.
T Consensus 43 NLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSL 83 (360)
T KOG0145|consen 43 NLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSL 83 (360)
T ss_pred eeeeeecccccCHHHHHHHhhcccceeeeeeeecccccccc
Confidence 46778889999999999999999999999999999888763
No 58
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=90.69 E-value=0.29 Score=40.26 Aligned_cols=40 Identities=28% Similarity=0.332 Sum_probs=35.1
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcc
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVV 205 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~ 205 (214)
+.+||||.|+.--++.|.|=++|+.+|.|..|-|=-++.+
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~k 74 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFK 74 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCC
Confidence 4689999999999999999999999999999998665543
No 59
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=90.37 E-value=0.23 Score=47.92 Aligned_cols=37 Identities=24% Similarity=0.385 Sum_probs=33.9
Q ss_pred CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 165 PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 165 ~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
.+.|+|+|+++|-+.||+-|+.-|.+||.|.++-|.-
T Consensus 534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime 570 (608)
T KOG4212|consen 534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME 570 (608)
T ss_pred ccccEEEEecCCccccHHHHHHHHHhccceehhhhhc
Confidence 4679999999999999999999999999999988743
No 60
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=90.33 E-value=0.35 Score=45.26 Aligned_cols=28 Identities=29% Similarity=0.512 Sum_probs=25.9
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCee
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIK 195 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~ 195 (214)
..|||.|||.|.|++++.++|++||-|.
T Consensus 135 t~VYVsgLP~DiT~dE~~~~~sKcGiI~ 162 (382)
T KOG1548|consen 135 TSVYVSGLPLDITVDEFAEVMSKCGIIM 162 (382)
T ss_pred ceEEecCCCCcccHHHHHHHHHhcceEe
Confidence 4599999999999999999999999874
No 61
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=90.28 E-value=0.4 Score=48.91 Aligned_cols=37 Identities=27% Similarity=0.511 Sum_probs=34.0
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
.||++|.+++..+++++|..+|+.||.|.+|-|.-++
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R 457 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR 457 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC
Confidence 4799999999999999999999999999999887664
No 62
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=90.02 E-value=0.98 Score=42.32 Aligned_cols=68 Identities=26% Similarity=0.326 Sum_probs=49.8
Q ss_pred CCHHHHHHHHhhCCceeeecCCceEEecCCCCCCccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 127 RNHAWIVAALRESSLLVVSSNGKKVKRLNPLPVTEVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 127 ~d~~~I~~ALk~S~~levsedg~~VRR~~plp~~~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
.+......||..-..=.+. |+.||-.- ..+++ ..|+|++++++.+...|..+|+.||+|.++++-..+
T Consensus 45 ~~~~da~~A~~~~n~~~~~--~~~~rim~-----s~rd~--~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~ 112 (369)
T KOG0123|consen 45 QQPADAERALDTMNFDVLK--GKPIRIMW-----SQRDP--SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE 112 (369)
T ss_pred CCHHHHHHHHHHcCCcccC--CcEEEeeh-----hccCC--ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC
Confidence 3566777788776544443 66666421 12233 249999999999999999999999999999987654
No 63
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=89.96 E-value=1.1 Score=43.24 Aligned_cols=44 Identities=20% Similarity=0.363 Sum_probs=40.1
Q ss_pred CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 165 PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 165 ~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
...|-|||-.+|.|...++|.-+|++.|+|--+||.++..+|.+
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~n 124 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDN 124 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCC
Confidence 44688999999999999999999999999999999998887765
No 64
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=89.64 E-value=0.88 Score=42.93 Aligned_cols=39 Identities=15% Similarity=0.284 Sum_probs=31.4
Q ss_pred CCCCcceEEeeCCCCCCCHHHHHHHHhhc------------CCeeEEEeeC
Q 041714 163 RDPKLFTVLVENLPEDHSVENMQRIFAEA------------GKIKSICIRD 201 (214)
Q Consensus 163 ~~~~~rTVyv~~~P~d~t~e~L~~~F~~~------------G~V~~VRmrr 201 (214)
.....|+|||.+||.+++.++|.++|..+ +.|..+.+.+
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~ 221 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK 221 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC
Confidence 34557999999999999999999999975 3566666654
No 65
>KOG2278 consensus RNA:NAD 2'-phosphotransferase TPT1 [Translation, ribosomal structure and biogenesis]
Probab=89.63 E-value=0.58 Score=40.22 Aligned_cols=51 Identities=12% Similarity=0.240 Sum_probs=40.0
Q ss_pred hcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCc----eeeecCCceEEec
Q 041714 104 RKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSL----LVVSSNGKKVKRL 154 (214)
Q Consensus 104 ~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~----levsedg~~VRR~ 154 (214)
.+++|||||+..|++.|+.+-.....++|.++++.-.. ++.-+++..||-.
T Consensus 28 ~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk~ndKqRF~l~d~~~el~IrAn 82 (207)
T KOG2278|consen 28 NMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVKRNDKQRFSLIDEAGELLIRAN 82 (207)
T ss_pred cccCCCceEHHHHhccchhcccCCcHHHHHHHHhccccceEEeecCCCcEEEEec
Confidence 44789999999999999999998889999999986542 3333445667764
No 66
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=89.51 E-value=0.52 Score=32.09 Aligned_cols=32 Identities=28% Similarity=0.391 Sum_probs=27.1
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEee
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIR 200 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmr 200 (214)
++|.|.||+.+ ..+.|...|..||+|..+++.
T Consensus 2 ~wI~V~Gf~~~-~~~~vl~~F~~fGeI~~~~~~ 33 (53)
T PF14605_consen 2 TWISVSGFPPD-LAEEVLEHFASFGEIVDIYVP 33 (53)
T ss_pred cEEEEEeECch-HHHHHHHHHHhcCCEEEEEcC
Confidence 58899999875 457788899999999998876
No 67
>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=89.22 E-value=0.44 Score=36.90 Aligned_cols=34 Identities=18% Similarity=0.297 Sum_probs=22.2
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
+.|.+.|++.+.+.++|++.|+.||.|.+|-+.+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~ 35 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSR 35 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--T
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecC
Confidence 5678999999999999999999999999998765
No 68
>PRK00819 RNA 2'-phosphotransferase; Reviewed
Probab=88.57 E-value=0.87 Score=38.71 Aligned_cols=50 Identities=14% Similarity=0.213 Sum_probs=38.4
Q ss_pred hcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCc--eeeecCCceEEecC
Q 041714 104 RKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSL--LVVSSNGKKVKRLN 155 (214)
Q Consensus 104 ~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~--levsedg~~VRR~~ 155 (214)
..|++|||+|+.|+...+.+....+.+.|.+.+++++. .+++ +.+||-.+
T Consensus 27 ~ld~~G~v~v~~Ll~~~~~~~~~~t~~~l~~vV~~d~K~Rf~l~--~~~IRA~q 78 (179)
T PRK00819 27 TLDEEGWVDIDALIEALAKAYKWVTRELLEAVVESDDKGRFEIS--GDRIRARQ 78 (179)
T ss_pred ccCCCCCEEHHHHHHHHHHccCCCCHHHHHHHHHcCCCcceEec--CceEEecc
Confidence 45899999999999887754334578889999988764 6675 67888764
No 69
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=88.49 E-value=0.76 Score=40.97 Aligned_cols=41 Identities=27% Similarity=0.377 Sum_probs=34.7
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
...|+|.++|..++.++|+++|..||.++.+-+- +...+++
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vh-y~~~G~s 123 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVH-YDRAGRS 123 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeec-cCCCCCC
Confidence 3579999999999999999999999999988874 5555554
No 70
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=88.06 E-value=0.63 Score=42.83 Aligned_cols=42 Identities=21% Similarity=0.396 Sum_probs=35.7
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
-+.|.|.++|.+.+.+++++.|.+||.|.-+-+..++.+.++
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~ 138 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRP 138 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeeccccccc
Confidence 347889999999999999999999999998888777666443
No 71
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=87.70 E-value=0.67 Score=43.43 Aligned_cols=39 Identities=23% Similarity=0.374 Sum_probs=34.8
Q ss_pred CCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 163 RDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 163 ~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
+|..+.|+||.++-...+..+|+..|-+||.|.+|++..
T Consensus 224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~ 262 (377)
T KOG0153|consen 224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP 262 (377)
T ss_pred cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec
Confidence 456688999999988889999999999999999999764
No 72
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=87.29 E-value=0.57 Score=46.03 Aligned_cols=39 Identities=33% Similarity=0.430 Sum_probs=35.4
Q ss_pred CCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 163 RDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 163 ~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
++...+|++|-++|..++-++|+.+|+.||+|+-||+-+
T Consensus 71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~ 109 (549)
T KOG4660|consen 71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP 109 (549)
T ss_pred ccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc
Confidence 456689999999999999999999999999999998754
No 73
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=87.12 E-value=0.52 Score=43.03 Aligned_cols=40 Identities=20% Similarity=0.279 Sum_probs=36.8
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
-|.|..|..+.+-|.|++-|.+||+|...|+.|+-.|++|
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~Ks 103 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKS 103 (321)
T ss_pred eEEehhcchhcchHHHHHHhccccccccceEeecccCCcc
Confidence 4778999999999999999999999999999999988876
No 74
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=86.96 E-value=0.28 Score=47.18 Aligned_cols=109 Identities=19% Similarity=0.197 Sum_probs=64.6
Q ss_pred HHHHHhchhhhcC--CCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCceeeecCCceEEec
Q 041714 77 KQRIIKQVEYYFS--DENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSLLVVSSNGKKVKRL 154 (214)
Q Consensus 77 ~~~I~kQvEyYFS--d~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~levsedg~~VRR~ 154 (214)
...|+.-.|-|=. .-||.|||--.. ..|+.-| +|...| +-.....||..-..|.=--.-..||-.
T Consensus 48 E~dlr~lFe~yg~V~einl~kDk~t~~-----s~gcCFv----~~~trk----~a~~a~~Alhn~ktlpG~~~pvqvk~A 114 (510)
T KOG0144|consen 48 EKDLRELFEKYGNVYEINLIKDKSTGQ-----SKGCCFV----KYYTRK----EADEAINALHNQKTLPGMHHPVQVKYA 114 (510)
T ss_pred HHHHHHHHHHhCceeEEEeecccccCc-----ccceEEE----EeccHH----HHHHHHHHhhcccccCCCCcceeeccc
Confidence 3445555555522 358899975442 3565532 333322 345566677665443211111123321
Q ss_pred CCCCCCccCC-CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 155 NPLPVTEVRD-PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 155 ~plp~~~~~~-~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
. .|.++ ...+-++|..++...+.++|+++|++||.|..++|.|+
T Consensus 115 d----~E~er~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd 159 (510)
T KOG0144|consen 115 D----GERERIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRD 159 (510)
T ss_pred c----hhhhccccchhhhhhhccccccHHHHHHHHHhhCccchhhheec
Confidence 1 11111 23567899999999999999999999999999999885
No 75
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=86.02 E-value=1.7 Score=43.89 Aligned_cols=34 Identities=24% Similarity=0.561 Sum_probs=31.9
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
-|+|+++|-.++..+|+.+|..||++++||++.-
T Consensus 615 KIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK 648 (725)
T KOG0110|consen 615 KILVRNIPFEATKREVRKLFTAFGQLKSVRLPKK 648 (725)
T ss_pred eeeeeccchHHHHHHHHHHHhcccceeeeccchh
Confidence 4899999999999999999999999999999764
No 76
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=85.81 E-value=0.91 Score=42.95 Aligned_cols=43 Identities=23% Similarity=0.234 Sum_probs=36.8
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccccc
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKK 210 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~K 210 (214)
..++|..+..-++-|+|+-||+.||+|.+..+.|++.||.|..
T Consensus 240 NVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLq 282 (479)
T KOG0415|consen 240 NVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQ 282 (479)
T ss_pred ceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhh
Confidence 4567777877778899999999999999999999999987743
No 77
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=85.65 E-value=0.99 Score=39.91 Aligned_cols=42 Identities=21% Similarity=0.445 Sum_probs=38.1
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
..++-|-||-.-++.++|...|++||.|--|-|.++.-|+++
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~s 54 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQS 54 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccc
Confidence 458889999999999999999999999999999999888765
No 78
>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=83.94 E-value=1.1 Score=29.59 Aligned_cols=20 Identities=25% Similarity=0.509 Sum_probs=16.6
Q ss_pred HHHHHhhcCCeeEEEeeCCC
Q 041714 184 MQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 184 L~~~F~~~G~V~~VRmrrp~ 203 (214)
|.++|++||+|..|++.+..
T Consensus 1 L~~~f~~fG~V~~i~~~~~~ 20 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK 20 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS
T ss_pred ChHHhCCcccEEEEEEEeCC
Confidence 57899999999999998764
No 79
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=83.12 E-value=0.92 Score=43.79 Aligned_cols=71 Identities=24% Similarity=0.211 Sum_probs=59.2
Q ss_pred CcHHHHHHHH--hchhhhcCCCCCCcChHHHHhhhcCCCC---ceehHHHhchhhhhhhcCCHHHHHHHHhhCCceee
Q 041714 72 LTDDLKQRII--KQVEYYFSDENLPTDKYMMNLIRKNKEG---FVPISVIASFRKLKRLTRNHAWIVAALRESSLLVV 144 (214)
Q Consensus 72 ~~~~l~~~I~--kQvEyYFSd~NL~~D~fL~~~~~~~~eG---~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~lev 144 (214)
+...+++.+. ++++|||+-.++.+|.|+...+ +..| +.+++.+.+|.+...++++...+..+++.|.....
T Consensus 93 ps~~l~e~~~~~k~~s~~~~~~~~~~~~~~~~k~--~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~sa~~~~ 168 (448)
T KOG2590|consen 93 PSPPLKEYSKSDKKKSWPASKPFTPRDSFKGSKP--TNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGSASSNP 168 (448)
T ss_pred ccccccccccccccccCcccCCCCccccccCCCc--cccCCCccCCCccccccccccCcccccccccCcCCCCCcCCc
Confidence 4445555554 4999999999999999999988 4456 88999999999999999999999999998655443
No 80
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=82.42 E-value=1.7 Score=42.26 Aligned_cols=36 Identities=14% Similarity=0.289 Sum_probs=33.0
Q ss_pred cceEEeeCCCCCCCHHHHHHHHh-hcCCeeEEEeeCC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFA-EAGKIKSICIRDP 202 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~-~~G~V~~VRmrrp 202 (214)
-|+|||.++|.|+-|++|+.+|. +.|+|.+|.+.-+
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D 80 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD 80 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc
Confidence 58999999999999999999999 5889999999755
No 81
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=79.08 E-value=2.5 Score=38.81 Aligned_cols=48 Identities=19% Similarity=0.295 Sum_probs=42.5
Q ss_pred CCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccccc
Q 041714 163 RDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKK 210 (214)
Q Consensus 163 ~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~K 210 (214)
+.++.|-++|-.+|.+..-.+|...|-.||.|.+..+--++.|+.|.+
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKC 328 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKC 328 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccc
Confidence 456789999999999999999999999999999988888888887754
No 82
>PTZ00315 2'-phosphotransferase; Provisional
Probab=79.00 E-value=3.3 Score=41.31 Aligned_cols=52 Identities=12% Similarity=0.180 Sum_probs=41.5
Q ss_pred hcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCC--ceeee---cCC-ceEEecC
Q 041714 104 RKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESS--LLVVS---SNG-KKVKRLN 155 (214)
Q Consensus 104 ~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~--~levs---edg-~~VRR~~ 155 (214)
..|++|||.|+.|+.-.+.+...-+.+.|.+.+++++ -.+++ ++| .+||-.+
T Consensus 399 ~ld~~Gwv~vd~LL~~~~~~~~~~t~e~i~~VV~~ndK~RF~l~~~~~~~~~~IRA~Q 456 (582)
T PTZ00315 399 PITSNGYVLLDDILRQPPMRNDPVSVQDVARVVRDSDKQRFKLAYGAADGRLYIRANQ 456 (582)
T ss_pred CcCCCCCEEHHHHHHHHHhcCCCCCHHHHHHHHHcCCCCceEEeccCCCCceEEEecc
Confidence 4588999999999998888766668899999999876 47887 456 4788754
No 83
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=77.88 E-value=3.5 Score=39.32 Aligned_cols=44 Identities=16% Similarity=0.258 Sum_probs=37.0
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccccccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKKK 211 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~Kg 211 (214)
-.-|||-.+..|.+.++|+..|+.||+|++..+-|.. +++--||
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~p-t~~~HkG 253 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAP-TGRGHKG 253 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccC-CCCCccc
Confidence 4579999999999999999999999999999998754 4444444
No 84
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=76.98 E-value=1.4 Score=43.23 Aligned_cols=39 Identities=23% Similarity=0.331 Sum_probs=36.1
Q ss_pred EEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 170 VLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 170 Vyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
+||.++.-..+.+.|+.+|++||.|.+|.+.++.++|++
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~s 319 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRS 319 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccc
Confidence 899999999999999999999999999999988777764
No 85
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=76.92 E-value=2.6 Score=39.48 Aligned_cols=35 Identities=20% Similarity=0.257 Sum_probs=31.8
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
.+-++|.++|-..-..+|+..|.+||+|..|.|.-
T Consensus 96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIf 130 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIF 130 (376)
T ss_pred CceeEeecCCccccCccHHHHHHhhCceeeEEEEe
Confidence 46799999999888889999999999999999874
No 86
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=70.92 E-value=4.6 Score=37.88 Aligned_cols=38 Identities=29% Similarity=0.356 Sum_probs=33.9
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
....+|++++....+.+.|+++|+.||+|.+++|...+
T Consensus 269 ~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~ 306 (369)
T KOG0123|consen 269 QGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDE 306 (369)
T ss_pred cccccccccCccccchhHHHHHHhcccceeeEEEEecc
Confidence 34689999999999999999999999999999987653
No 87
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=69.60 E-value=4.7 Score=38.13 Aligned_cols=42 Identities=26% Similarity=0.351 Sum_probs=32.1
Q ss_pred ceEEeeCCCCCCCHHHH------HHHHhhcCCeeEEEeeCCCcccccc
Q 041714 168 FTVLVENLPEDHSVENM------QRIFAEAGKIKSICIRDPNVVEESK 209 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L------~~~F~~~G~V~~VRmrrp~~~~~~~ 209 (214)
..|||-|+|..+.-|++ .++|++||+|+.|-+.+.-.+..+.
T Consensus 115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst 162 (480)
T COG5175 115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNST 162 (480)
T ss_pred ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccc
Confidence 46899999987765552 5899999999999998755444444
No 88
>smart00361 RRM_1 RNA recognition motif.
Probab=69.45 E-value=5.6 Score=27.72 Aligned_cols=25 Identities=32% Similarity=0.335 Sum_probs=19.0
Q ss_pred HHHHHHHHh----hcCCeeEEE-eeCCCcc
Q 041714 181 VENMQRIFA----EAGKIKSIC-IRDPNVV 205 (214)
Q Consensus 181 ~e~L~~~F~----~~G~V~~VR-mrrp~~~ 205 (214)
.++|+++|+ .||.|..|. +..++.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~ 31 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVG 31 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCC
Confidence 367888888 999999985 6555544
No 89
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=69.01 E-value=6 Score=34.71 Aligned_cols=41 Identities=15% Similarity=0.243 Sum_probs=35.3
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhc-CCeeEEEeeCCCccccc
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEA-GKIKSICIRDPNVVEES 208 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~-G~V~~VRmrrp~~~~~~ 208 (214)
--+|+..+|.-....++..+|.++ |.|..+||-|-+.||.|
T Consensus 50 g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNS 91 (214)
T KOG4208|consen 50 GVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNS 91 (214)
T ss_pred cceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCc
Confidence 357888888888888999999998 79999999888999876
No 90
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=68.78 E-value=4.9 Score=38.72 Aligned_cols=35 Identities=20% Similarity=0.235 Sum_probs=32.6
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
.+.|.++++|.|.+.++|-+++.+||+|+++.|.+
T Consensus 28 SkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lk 62 (492)
T KOG1190|consen 28 SKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLK 62 (492)
T ss_pred cceeEeccCCccccHHHHHHhcccccceeeeeeec
Confidence 46889999999999999999999999999999876
No 91
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=67.61 E-value=6.7 Score=39.11 Aligned_cols=37 Identities=22% Similarity=0.471 Sum_probs=32.5
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCc
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNV 204 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~ 204 (214)
.-++|+++|-.....+|+.+|+.||.|.-|-|++-..
T Consensus 118 ~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d 154 (678)
T KOG0127|consen 118 WRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD 154 (678)
T ss_pred ceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC
Confidence 4577899999998889999999999999999987543
No 92
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=67.31 E-value=6.6 Score=28.15 Aligned_cols=33 Identities=12% Similarity=0.262 Sum_probs=25.1
Q ss_pred HHHHHHHHhhcCCeeEEEeeCCCcccccccccC
Q 041714 181 VENMQRIFAEAGKIKSICIRDPNVVEESKKKQQ 213 (214)
Q Consensus 181 ~e~L~~~F~~~G~V~~VRmrrp~~~~~~~Kgs~ 213 (214)
.++|+++|+..|.|..+-+--.-+......|.+
T Consensus 8 ~~~iR~~fs~lG~I~vLYvn~~eS~~~~~~GGv 40 (62)
T PF15513_consen 8 TAEIRQFFSQLGEIAVLYVNPYESDEDRLTGGV 40 (62)
T ss_pred HHHHHHHHHhcCcEEEEEEcccccCCCeEeccE
Confidence 468999999999999888766555566666554
No 93
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=64.91 E-value=4.7 Score=35.53 Aligned_cols=45 Identities=13% Similarity=0.192 Sum_probs=39.3
Q ss_pred CCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccc
Q 041714 163 RDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEE 207 (214)
Q Consensus 163 ~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~ 207 (214)
+....++||+.++--..+.++++..|+.||.|+.|.|..++..+.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~ 141 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGH 141 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCC
Confidence 345678999999999999999999999999999999998887764
No 94
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=64.18 E-value=4 Score=38.95 Aligned_cols=41 Identities=22% Similarity=0.289 Sum_probs=35.6
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccc
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEE 207 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~ 207 (214)
.|-|||-.+.-+.-.+.|+.-|.+||.|++|-|--+..|++
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~k 153 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGK 153 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeeccccccccc
Confidence 47799998888888899999999999999999987776654
No 95
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=63.02 E-value=2.6 Score=41.52 Aligned_cols=46 Identities=17% Similarity=0.275 Sum_probs=39.5
Q ss_pred CCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccccccc
Q 041714 165 PKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKKK 211 (214)
Q Consensus 165 ~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~Kg 211 (214)
...|||.+.-++...+.-+|.+||+.+|+|--|||..++.+++ .||
T Consensus 177 Rd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~r-skg 222 (549)
T KOG0147|consen 177 RDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRR-SKG 222 (549)
T ss_pred HhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchh-hcc
Confidence 3468998888888888889999999999999999999988866 555
No 96
>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=58.25 E-value=10 Score=29.24 Aligned_cols=32 Identities=22% Similarity=0.202 Sum_probs=22.4
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEE
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAGKIKSIC 198 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VR 198 (214)
..+.|.|-|||+. ....|.+.|++||.|....
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~ 36 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHF 36 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEE
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEee
Confidence 3568999999997 5567888999999987664
No 97
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=56.94 E-value=8.6 Score=34.86 Aligned_cols=41 Identities=20% Similarity=0.312 Sum_probs=36.1
Q ss_pred ceEE-eeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 168 FTVL-VENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 168 rTVy-v~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
.+++ +.+++..++.++|...|..+|.|..||++..+.++.+
T Consensus 185 ~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~ 226 (285)
T KOG4210|consen 185 DTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDS 226 (285)
T ss_pred ccceeecccccccchHHHhhhccCcCcceeeccCCCCCccch
Confidence 4677 9999999999999999999999999999987776544
No 98
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=56.59 E-value=8.3 Score=29.39 Aligned_cols=27 Identities=19% Similarity=0.450 Sum_probs=19.3
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCee
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIK 195 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~ 195 (214)
-|+--.||.++...+|.++|+.||.|.
T Consensus 10 HVFhltFPkeWK~~DI~qlFspfG~I~ 36 (87)
T PF08675_consen 10 HVFHLTFPKEWKTSDIYQLFSPFGQIY 36 (87)
T ss_dssp CEEEEE--TT--HHHHHHHCCCCCCEE
T ss_pred eEEEEeCchHhhhhhHHHHhccCCcEE
Confidence 355555999999999999999999985
No 99
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=56.07 E-value=15 Score=33.43 Aligned_cols=34 Identities=15% Similarity=0.381 Sum_probs=31.0
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
.||+.++|..+....|++||+.||.|-.|-+-..
T Consensus 76 VvylS~IPp~m~~~rlReil~~yGeVGRvylqpE 109 (278)
T KOG3152|consen 76 VVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPE 109 (278)
T ss_pred EEEeccCCCccCHHHHHHHHHhccccceEEecch
Confidence 5899999999999999999999999999887543
No 100
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=47.20 E-value=17 Score=33.53 Aligned_cols=38 Identities=18% Similarity=0.301 Sum_probs=32.0
Q ss_pred CCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 164 DPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 164 ~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
..+.|-++|.-+...-+.|+|+++|..||.|..+.+.|
T Consensus 16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlr 53 (371)
T KOG0146|consen 16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLR 53 (371)
T ss_pred CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEec
Confidence 33456788888888889999999999999999988775
No 101
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=46.30 E-value=19 Score=36.38 Aligned_cols=33 Identities=15% Similarity=0.328 Sum_probs=27.8
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEee
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIR 200 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmr 200 (214)
|-++|.+|...+---+|+++|++||+|.-..+.
T Consensus 406 RNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVV 438 (940)
T KOG4661|consen 406 RNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVV 438 (940)
T ss_pred cceeeeccccchhhhHHHHHHHHhcceeceeee
Confidence 568899998877778999999999999866554
No 102
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=45.06 E-value=19 Score=36.80 Aligned_cols=35 Identities=29% Similarity=0.539 Sum_probs=31.8
Q ss_pred eEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCC
Q 041714 169 TVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPN 203 (214)
Q Consensus 169 TVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~ 203 (214)
.+|+++++-+++.++++..|...|.|.+++|..-.
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkk 551 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKK 551 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccc
Confidence 39999999999999999999999999999887643
No 103
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=42.69 E-value=45 Score=29.54 Aligned_cols=128 Identities=19% Similarity=0.250 Sum_probs=76.2
Q ss_pred HHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhch-hhhhhhcC-----CHHHHHHHHhhCCcee-----
Q 041714 75 DLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASF-RKLKRLTR-----NHAWIVAALRESSLLV----- 143 (214)
Q Consensus 75 ~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF-~Rmk~lt~-----d~~~I~~ALk~S~~le----- 143 (214)
--++.++++|.--||.--=.=|.-..+..++..+-||-.+.+.+= +=+++|.. ..--|..|...|..++
T Consensus 21 I~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~ 100 (221)
T KOG4206|consen 21 IKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGT 100 (221)
T ss_pred ccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCce
Confidence 336778889988888777555555555556677888876654433 33444432 1122444555554332
Q ss_pred eecCCce-----EEec-CCCCCC----------------ccCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 144 VSSNGKK-----VKRL-NPLPVT----------------EVRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 144 vsedg~~-----VRR~-~plp~~----------------~~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
+.+.+++ .++. .|...+ +.......+..+.++|.+++.+.++.+|.+|+--+.|||..
T Consensus 101 ~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~ 180 (221)
T KOG4206|consen 101 FVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIP 180 (221)
T ss_pred eccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEecc
Confidence 2221111 1110 111111 01122346788999999999999999999999999999876
Q ss_pred C
Q 041714 202 P 202 (214)
Q Consensus 202 p 202 (214)
.
T Consensus 181 ~ 181 (221)
T KOG4206|consen 181 P 181 (221)
T ss_pred C
Confidence 4
No 104
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=42.09 E-value=20 Score=31.69 Aligned_cols=24 Identities=21% Similarity=0.312 Sum_probs=18.9
Q ss_pred HHHHHHHhhcCCeeEEEeeCCCcc
Q 041714 182 ENMQRIFAEAGKIKSICIRDPNVV 205 (214)
Q Consensus 182 e~L~~~F~~~G~V~~VRmrrp~~~ 205 (214)
..|..+|++||+|..|++.+....
T Consensus 28 rsL~~LFsqfG~ildI~a~kt~Km 51 (221)
T KOG4206|consen 28 RSLYLLFSQFGKILDISAFKTPKM 51 (221)
T ss_pred HHHHHHHHhhCCeEEEEecCCCCc
Confidence 345569999999999998876544
No 105
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=40.57 E-value=36 Score=33.58 Aligned_cols=36 Identities=25% Similarity=0.290 Sum_probs=32.9
Q ss_pred cceEEeeCCCCCCCHHHHHHHHh-hcCCeeEEEeeCC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFA-EAGKIKSICIRDP 202 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~-~~G~V~~VRmrrp 202 (214)
.|||.|-++|.-.+-++|-.||+ .||-|.+|-|=-+
T Consensus 370 rrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD 406 (520)
T KOG0129|consen 370 RRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTD 406 (520)
T ss_pred cceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccC
Confidence 48999999999999999999999 7999999998654
No 106
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=38.68 E-value=35 Score=35.20 Aligned_cols=64 Identities=28% Similarity=0.365 Sum_probs=47.5
Q ss_pred ecCCceEEecCCCCCCc----------cCCCCcceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCccccc
Q 041714 145 SSNGKKVKRLNPLPVTE----------VRDPKLFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEES 208 (214)
Q Consensus 145 sedg~~VRR~~plp~~~----------~~~~~~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~ 208 (214)
..|....+|..|+|..- .-++.-.-+|+.+++...+.+.|-..|+.||.|.+|+|.-|+.-.++
T Consensus 142 ~~d~~~s~r~~~~p~~~~~s~~~gsfDdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk 215 (877)
T KOG0151|consen 142 QSDSAVSSRFDPLPSRFDPSGRPGSFDDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEK 215 (877)
T ss_pred ccCcchhhccCCCccccCCCCCCCcCCCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhh
Confidence 34555667776666431 11333456999999999999999999999999999999888765443
No 107
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=36.38 E-value=27 Score=32.89 Aligned_cols=29 Identities=24% Similarity=0.314 Sum_probs=26.8
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCee
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIK 195 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~ 195 (214)
.-||+|.++|..++.+.|.++|.++|.|+
T Consensus 66 ~~ti~v~g~~d~~~~~~~~~~f~qcg~ik 94 (351)
T KOG1995|consen 66 NETIFVWGCPDSVCENDNADFFLQCGVIK 94 (351)
T ss_pred cccceeeccCccchHHHHHHHHhhcceec
Confidence 45999999999999999999999999886
No 108
>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=34.17 E-value=93 Score=23.85 Aligned_cols=37 Identities=24% Similarity=0.326 Sum_probs=28.0
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhh--cCCeeEEEeeCCCc
Q 041714 168 FTVLVENLPEDHSVENMQRIFAE--AGKIKSICIRDPNV 204 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~--~G~V~~VRmrrp~~ 204 (214)
.||.++++|...+++.|.+++.. .|..-.+-|+-+..
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~ 40 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFK 40 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeecc
Confidence 48999999999999999888875 45555566655443
No 109
>COG1859 KptA RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]
Probab=32.17 E-value=65 Score=28.31 Aligned_cols=49 Identities=12% Similarity=0.154 Sum_probs=36.1
Q ss_pred hcCCCCceehHHHhchhhhhhhcCCHHHHHHHHhhCCc--eeeecCCceEEec
Q 041714 104 RKNKEGFVPISVIASFRKLKRLTRNHAWIVAALRESSL--LVVSSNGKKVKRL 154 (214)
Q Consensus 104 ~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk~S~~--levsedg~~VRR~ 154 (214)
+.|.+||+.|+.++.-.|-+----+.+.|..+++.++. .++++ .+||-+
T Consensus 53 ~lD~~Gwa~i~~l~~~~~k~~~~~~~~~l~~iV~~d~K~Rf~l~~--~~IRA~ 103 (211)
T COG1859 53 RLDEEGWADIDELLEGLRKAGRWLTRELLLAVVATDDKGRFELKE--GKIRAR 103 (211)
T ss_pred eeccccchhHHHHHHHHHhhccCCCHHHHHHHHhcCCCceeEecc--cceeec
Confidence 55889999999998876654333478888888887764 77875 577764
No 110
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=31.35 E-value=46 Score=34.39 Aligned_cols=34 Identities=26% Similarity=0.357 Sum_probs=27.7
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCe-eEEEeeC
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKI-KSICIRD 201 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V-~~VRmrr 201 (214)
|.|-+.++|-++++++|-+||..|-.+ .+|++|+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~ 902 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRR 902 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEee
Confidence 345689999999999999999999854 4687775
No 111
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=30.95 E-value=23 Score=31.13 Aligned_cols=34 Identities=26% Similarity=0.422 Sum_probs=29.8
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEee
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIR 200 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmr 200 (214)
.+.+.+++++.+.++++|+..|..+|++.+..++
T Consensus 99 ~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~ 132 (216)
T KOG0106|consen 99 HFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR 132 (216)
T ss_pred cceeeeccchhhhhHHHHhhhhcccCCCchhhhh
Confidence 4678899999999999999999999999776553
No 112
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=29.51 E-value=27 Score=36.72 Aligned_cols=47 Identities=23% Similarity=0.376 Sum_probs=39.9
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCCCcccccccccC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDPNVVEESKKKQQ 213 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp~~~~~~~Kgs~ 213 (214)
-+|+.+.+++.+.+..+|+..|..+|+|..|.|-+|+---.+.+|.+
T Consensus 372 trTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~ 418 (975)
T KOG0112|consen 372 TRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFV 418 (975)
T ss_pred hhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhh
Confidence 47888999999999999999999999999999999966556666543
No 113
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=27.18 E-value=47 Score=32.79 Aligned_cols=35 Identities=23% Similarity=0.241 Sum_probs=29.7
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRD 201 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrr 201 (214)
.|-|.+-++|.+.+.+.|.+.|..||.+..=.-++
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k 293 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGK 293 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccceEeecCCC
Confidence 46799999999999999999999999987644433
No 114
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=26.14 E-value=75 Score=28.67 Aligned_cols=27 Identities=22% Similarity=0.375 Sum_probs=24.0
Q ss_pred CcceEEeeCCCCCCCHHHHHHHHhhcC
Q 041714 166 KLFTVLVENLPEDHSVENMQRIFAEAG 192 (214)
Q Consensus 166 ~~rTVyv~~~P~d~t~e~L~~~F~~~G 192 (214)
..||++|.|+|.|+..-+|-.+|..|-
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~ 59 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFH 59 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCC
Confidence 369999999999999999999998753
No 115
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=25.18 E-value=52 Score=24.11 Aligned_cols=36 Identities=11% Similarity=0.062 Sum_probs=21.6
Q ss_pred HHhhhcCCCCceehHHHhchhhhhhhcCCHHHHHHHHh
Q 041714 100 MNLIRKNKEGFVPISVIASFRKLKRLTRNHAWIVAALR 137 (214)
Q Consensus 100 ~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d~~~I~~ALk 137 (214)
...+..+.+|+|....+..+=|- +.-..+.+.+.++
T Consensus 16 F~~~D~d~~G~Is~~el~~~l~~--~~~~~~ev~~i~~ 51 (96)
T smart00027 16 FRSLDKNQDGTVTGAQAKPILLK--SGLPQTLLAKIWN 51 (96)
T ss_pred HHHhCCCCCCeEeHHHHHHHHHH--cCCCHHHHHHHHH
Confidence 34455678899998887776332 3234444555554
No 116
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=24.97 E-value=1.2e+02 Score=26.80 Aligned_cols=36 Identities=22% Similarity=0.353 Sum_probs=30.4
Q ss_pred cceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEeeCC
Q 041714 167 LFTVLVENLPEDHSVENMQRIFAEAGKIKSICIRDP 202 (214)
Q Consensus 167 ~rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmrrp 202 (214)
..-|+|.+||...+|++|+....+.|.|-+..+-|+
T Consensus 115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD 150 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD 150 (241)
T ss_pred ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc
Confidence 346889999999999999999999998887766554
No 117
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=23.07 E-value=2e+02 Score=21.71 Aligned_cols=60 Identities=15% Similarity=0.211 Sum_probs=34.6
Q ss_pred HHHHHHHhhCCceeeecCCceEE-ecCCCCCCcc------CCCCcceEEeeCCCCCCCHHHHHHHHh
Q 041714 130 AWIVAALRESSLLVVSSNGKKVK-RLNPLPVTEV------RDPKLFTVLVENLPEDHSVENMQRIFA 189 (214)
Q Consensus 130 ~~I~~ALk~S~~levsedg~~VR-R~~plp~~~~------~~~~~rTVyv~~~P~d~t~e~L~~~F~ 189 (214)
+.|++-|-.-....|.-++..++ +..|+..... ...+.|||.+.|+|.....|+|+....
T Consensus 8 ~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~~k~qv~~~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 8 EGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHLQKFQVFSGVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred HHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCceEEEEEEcccCCEEEEeCCCCCCChhhheeeEE
Confidence 34555554444433333333332 3344443321 245679999999999888888876544
No 118
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=22.90 E-value=19 Score=34.63 Aligned_cols=33 Identities=15% Similarity=0.107 Sum_probs=30.8
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEEEee
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSICIR 200 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~VRmr 200 (214)
||+||.+|+.++...++-+.|..+|.|.+-++.
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a 184 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTA 184 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhh
Confidence 899999999999999999999999999988765
No 119
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=20.62 E-value=96 Score=28.27 Aligned_cols=30 Identities=23% Similarity=0.300 Sum_probs=27.1
Q ss_pred ceEEeeCCCCCCCHHHHHHHHhhcCCeeEE
Q 041714 168 FTVLVENLPEDHSVENMQRIFAEAGKIKSI 197 (214)
Q Consensus 168 rTVyv~~~P~d~t~e~L~~~F~~~G~V~~V 197 (214)
..+||+++..-++.|.++.-|+.||.|..-
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~a 61 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERA 61 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchh
Confidence 478999999999999999999999988763
No 120
>PHA02672 ORF110 EEV glycoprotein; Provisional
Probab=20.09 E-value=35 Score=28.70 Aligned_cols=44 Identities=18% Similarity=0.267 Sum_probs=29.1
Q ss_pred HHHHHHHHhchhhhcCCCCCCcChHHHHhhhcCCCCceehHHHhchhhhhhhcCC
Q 041714 74 DDLKQRIIKQVEYYFSDENLPTDKYMMNLIRKNKEGFVPISVIASFRKLKRLTRN 128 (214)
Q Consensus 74 ~~l~~~I~kQvEyYFSd~NL~~D~fL~~~~~~~~eG~VpI~~i~sF~Rmk~lt~d 128 (214)
..+...|-.-|.| +|.||.+.. .+||||++.++=.+-=-+++.+
T Consensus 29 lTivssIGailkY--------k~~f~~~AC---~~GWvp~dd~CyLnT~~q~s~~ 72 (166)
T PHA02672 29 LSLFTSLGAIIKY--------TDFFLKEAC---ENGWVPIKDLCVLNTHVITNVT 72 (166)
T ss_pred HHHHhhhhhhhhh--------hhhhhhhhh---hcCCeeccCEEEEecceeeccc
Confidence 3444455555554 577888876 4899999998877654455443
Done!