Query 030341
Match_columns 179
No_of_seqs 132 out of 264
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 12:16:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030341.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030341hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4206 Spliceosomal protein s 98.9 1.7E-09 3.8E-14 92.8 6.2 81 88-170 71-184 (221)
2 KOG0114 Predicted RNA-binding 98.4 2.8E-07 6E-12 73.0 4.4 58 121-179 7-64 (124)
3 PF00076 RRM_1: RNA recognitio 98.0 4.5E-06 9.7E-11 54.5 2.1 33 135-167 1-33 (70)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.8 3E-05 6.5E-10 66.0 4.5 48 132-179 269-318 (352)
5 KOG1457 RNA binding protein (c 97.6 8.8E-05 1.9E-09 65.5 5.1 43 124-166 26-68 (284)
6 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.6 7.1E-05 1.5E-09 68.5 4.3 48 132-179 394-443 (481)
7 KOG1457 RNA binding protein (c 97.5 3.7E-05 8.1E-10 67.8 1.6 44 131-179 209-252 (284)
8 smart00362 RRM_2 RNA recogniti 97.5 0.00013 2.9E-09 46.0 3.6 35 134-168 1-35 (72)
9 PLN03134 glycine-rich RNA-bind 97.4 0.00021 4.5E-09 56.5 4.5 37 132-168 34-70 (144)
10 COG0724 RNA-binding proteins ( 97.4 0.00021 4.5E-09 54.4 4.0 48 132-179 115-164 (306)
11 TIGR01659 sex-lethal sex-letha 97.4 0.0025 5.3E-08 57.3 11.1 49 131-179 106-156 (346)
12 PF14259 RRM_6: RNA recognitio 97.2 0.00051 1.1E-08 45.8 3.6 36 135-170 1-36 (70)
13 TIGR01642 U2AF_lg U2 snRNP aux 97.1 0.0005 1.1E-08 61.7 4.1 49 131-179 294-344 (509)
14 TIGR01659 sex-lethal sex-letha 96.9 0.001 2.2E-08 59.7 4.5 37 132-168 193-229 (346)
15 TIGR01622 SF-CC1 splicing fact 96.8 0.0012 2.7E-08 58.6 4.0 38 132-169 186-223 (457)
16 TIGR01622 SF-CC1 splicing fact 96.8 0.0013 2.8E-08 58.4 4.1 38 131-168 88-125 (457)
17 cd00590 RRM RRM (RNA recogniti 96.7 0.0027 5.9E-08 40.1 3.9 37 134-170 1-37 (74)
18 TIGR01628 PABP-1234 polyadenyl 96.6 0.003 6.5E-08 58.2 4.7 48 132-179 285-333 (562)
19 TIGR01649 hnRNP-L_PTB hnRNP-L/ 96.5 0.003 6.5E-08 58.0 4.2 46 131-179 274-320 (481)
20 TIGR01648 hnRNP-R-Q heterogene 96.4 0.007 1.5E-07 58.3 6.4 45 129-173 55-99 (578)
21 KOG0127 Nucleolar protein fibr 96.4 0.0031 6.8E-08 61.2 3.9 48 132-179 292-341 (678)
22 TIGR01628 PABP-1234 polyadenyl 96.3 0.0047 1E-07 56.9 4.2 47 132-178 88-135 (562)
23 TIGR01645 half-pint poly-U bin 96.2 0.0049 1.1E-07 59.8 4.3 48 132-179 204-253 (612)
24 TIGR01661 ELAV_HUD_SF ELAV/HuD 96.0 0.0094 2E-07 50.8 4.3 37 132-168 89-125 (352)
25 smart00360 RRM RNA recognition 95.6 0.012 2.7E-07 36.6 2.8 33 137-169 1-33 (71)
26 TIGR01648 hnRNP-R-Q heterogene 95.6 0.011 2.5E-07 56.9 3.7 34 132-165 233-268 (578)
27 TIGR01645 half-pint poly-U bin 95.2 0.027 5.9E-07 54.8 4.7 37 132-168 107-143 (612)
28 KOG0113 U1 small nuclear ribon 94.7 0.035 7.6E-07 50.7 3.8 50 130-179 99-150 (335)
29 KOG0117 Heterogeneous nuclear 94.5 0.022 4.7E-07 54.3 2.1 33 131-163 258-290 (506)
30 TIGR01642 U2AF_lg U2 snRNP aux 93.3 0.066 1.4E-06 48.2 2.8 26 131-156 174-199 (509)
31 KOG0116 RasGAP SH3 binding pro 92.4 0.11 2.5E-06 48.5 3.2 36 133-168 289-324 (419)
32 KOG0122 Translation initiation 91.5 0.28 6.1E-06 43.8 4.4 40 131-170 188-227 (270)
33 KOG0144 RNA-binding protein CU 90.9 0.091 2E-06 50.1 0.8 48 132-179 124-172 (510)
34 KOG0145 RNA-binding protein EL 90.8 0.094 2E-06 47.7 0.8 49 115-165 112-160 (360)
35 KOG0415 Predicted peptidyl pro 90.6 0.26 5.7E-06 46.4 3.5 40 131-170 238-277 (479)
36 KOG1855 Predicted RNA-binding 90.3 0.51 1.1E-05 45.0 5.2 43 121-166 223-265 (484)
37 KOG0144 RNA-binding protein CU 89.8 0.37 8E-06 46.1 3.8 40 132-171 34-73 (510)
38 KOG0132 RNA polymerase II C-te 89.0 0.31 6.8E-06 49.3 2.8 44 131-178 420-463 (894)
39 KOG0110 RNA-binding protein (R 88.7 0.24 5.1E-06 49.4 1.8 36 132-167 613-648 (725)
40 KOG0126 Predicted RNA-binding 88.5 0.19 4.2E-06 43.5 0.9 40 132-171 35-74 (219)
41 KOG1548 Transcription elongati 87.9 0.75 1.6E-05 42.9 4.4 49 130-178 132-188 (382)
42 KOG0108 mRNA cleavage and poly 87.5 0.65 1.4E-05 43.7 3.8 38 133-170 19-56 (435)
43 KOG0121 Nuclear cap-binding pr 87.0 0.63 1.4E-05 38.5 3.0 37 132-168 36-72 (153)
44 KOG0123 Polyadenylate-binding 86.7 0.57 1.2E-05 42.8 2.9 44 135-179 79-122 (369)
45 KOG0533 RRM motif-containing p 85.9 0.82 1.8E-05 40.1 3.3 41 132-172 83-123 (243)
46 KOG4660 Protein Mei2, essentia 85.4 0.58 1.2E-05 45.5 2.4 38 131-168 74-111 (549)
47 KOG0148 Apoptosis-promoting RN 85.3 1.3 2.8E-05 40.4 4.4 104 51-167 92-199 (321)
48 KOG4212 RNA-binding protein hn 83.5 2.6 5.7E-05 40.9 5.8 37 132-169 536-574 (608)
49 KOG0128 RNA-binding protein SA 83.2 0.69 1.5E-05 47.1 1.9 45 132-176 736-780 (881)
50 KOG0123 Polyadenylate-binding 82.9 1.5 3.3E-05 40.0 3.9 48 132-179 270-318 (369)
51 KOG0117 Heterogeneous nuclear 80.6 1.8 3.9E-05 41.6 3.6 37 131-167 163-200 (506)
52 KOG0130 RNA-binding protein RB 79.9 1.6 3.6E-05 36.5 2.7 35 132-166 72-106 (170)
53 KOG0153 Predicted RNA-binding 79.1 2.6 5.7E-05 39.3 4.1 39 131-169 227-265 (377)
54 PF08777 RRM_3: RNA binding mo 79.0 2 4.4E-05 32.6 2.8 35 133-170 2-36 (105)
55 KOG0125 Ataxin 2-binding prote 76.4 4.8 0.0001 37.6 4.9 49 130-178 94-142 (376)
56 KOG0110 RNA-binding protein (R 74.1 2.8 6.1E-05 42.0 3.0 34 132-166 385-418 (725)
57 KOG1190 Polypyrimidine tract-b 73.8 3.7 8E-05 39.4 3.6 38 131-168 27-64 (492)
58 KOG0127 Nucleolar protein fibr 73.5 2.7 5.9E-05 41.6 2.7 34 132-165 117-150 (678)
59 PF08675 RNA_bind: RNA binding 70.2 5.3 0.00012 30.5 3.1 35 129-165 6-40 (87)
60 KOG0145 RNA-binding protein EL 67.2 5.8 0.00012 36.5 3.2 36 135-170 44-79 (360)
61 KOG0109 RNA-binding protein LA 65.0 4.5 9.7E-05 37.4 2.1 35 132-166 78-112 (346)
62 KOG4211 Splicing factor hnRNP- 62.6 11 0.00023 36.7 4.2 49 131-179 102-152 (510)
63 KOG0129 Predicted RNA-binding 61.9 16 0.00035 35.7 5.2 29 131-159 258-286 (520)
64 KOG1190 Polypyrimidine tract-b 59.7 6.4 0.00014 37.8 2.2 29 128-159 412-440 (492)
65 KOG4307 RNA binding protein RB 57.2 53 0.0011 33.9 8.0 47 132-178 867-914 (944)
66 KOG0129 Predicted RNA-binding 56.9 8.2 0.00018 37.6 2.4 31 128-158 366-397 (520)
67 KOG1995 Conserved Zn-finger pr 52.2 52 0.0011 30.8 6.7 25 132-156 66-90 (351)
68 KOG0226 RNA-binding proteins [ 51.6 9.7 0.00021 34.6 1.9 46 130-175 188-234 (290)
69 KOG1365 RNA-binding protein Fu 51.5 39 0.00085 32.6 5.9 55 125-179 154-213 (508)
70 PF14893 PNMA: PNMA 50.5 8.3 0.00018 35.2 1.3 24 131-154 17-40 (331)
71 PHA03008 hypothetical protein; 49.4 15 0.00033 32.4 2.7 39 131-169 20-58 (234)
72 PF04059 RRM_2: RNA recognitio 45.6 19 0.0004 27.5 2.3 22 134-155 3-24 (97)
73 KOG0131 Splicing factor 3b, su 41.8 12 0.00027 32.4 0.9 29 132-160 96-124 (203)
74 KOG1365 RNA-binding protein Fu 41.3 54 0.0012 31.7 5.1 45 132-176 280-327 (508)
75 KOG4205 RNA-binding protein mu 40.9 34 0.00074 31.1 3.6 33 132-165 97-129 (311)
76 PF13046 DUF3906: Protein of u 38.5 34 0.00074 24.9 2.6 33 146-178 32-64 (64)
77 KOG0146 RNA-binding protein ET 35.2 44 0.00095 31.0 3.4 44 131-174 18-61 (371)
78 KOG0148 Apoptosis-promoting RN 33.0 48 0.001 30.6 3.3 37 132-168 62-98 (321)
79 smart00361 RRM_1 RNA recogniti 30.0 37 0.0008 23.0 1.6 24 146-169 2-31 (70)
80 KOG1456 Heterogeneous nuclear 29.6 87 0.0019 30.3 4.5 44 127-173 403-448 (494)
81 KOG0120 Splicing factor U2AF, 26.4 74 0.0016 31.0 3.5 46 130-175 287-333 (500)
82 KOG0112 Large RNA-binding prot 26.3 24 0.00053 36.7 0.3 35 131-165 371-405 (975)
83 KOG0147 Transcriptional coacti 26.2 48 0.001 32.7 2.2 32 135-166 281-312 (549)
84 KOG4208 Nucleolar RNA-binding 25.9 76 0.0016 27.9 3.2 44 132-175 49-94 (214)
85 PF11608 Limkain-b1: Limkain b 24.3 61 0.0013 25.0 2.1 27 132-158 2-32 (90)
86 KOG4212 RNA-binding protein hn 24.3 92 0.002 30.7 3.7 48 131-178 43-91 (608)
87 PF13893 RRM_5: RNA recognitio 22.4 59 0.0013 20.7 1.5 20 149-168 1-20 (56)
88 KOG0115 RNA-binding protein p5 22.2 91 0.002 28.4 3.0 39 132-170 31-70 (275)
89 KOG0151 Predicted splicing reg 20.8 85 0.0019 32.4 2.8 32 134-165 176-207 (877)
No 1
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.92 E-value=1.7e-09 Score=92.79 Aligned_cols=81 Identities=21% Similarity=0.337 Sum_probs=61.4
Q ss_pred CCCCCCCCCCcccc-cCCCCCCCCCCCCcccc----------------------------CCCCCC----CCCCCCCCCe
Q 030341 88 GMPSRPVDDPRIVG-IGGMDPGPSAKDRALGL----------------------------GGGRSE----VPLPPDASST 134 (179)
Q Consensus 88 g~~~~~~~d~~~~~-~~~~d~~~~~~~~~~~~----------------------------~~~~p~----~~lPpdpn~i 134 (179)
-|.|.++.|..|+. +..-++|...+-++.-. ...+|. ...|| |+|
T Consensus 71 ~l~gfpFygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~pp--n~i 148 (221)
T KOG4206|consen 71 ALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPP--NNI 148 (221)
T ss_pred HhcCCcccCchhheecccCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCC--ceE
Confidence 68999999999987 56667776654221100 011122 22455 999
Q ss_pred EEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 135 LFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
||++|||.+++.++|+.||.||+||||||+|+.++.
T Consensus 149 lf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~ 184 (221)
T KOG4206|consen 149 LFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSG 184 (221)
T ss_pred EEEecCCcchhHHHHHHHHhhCcccceeEeccCCCc
Confidence 999999999999999999999999999999998764
No 2
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.42 E-value=2.8e-07 Score=73.02 Aligned_cols=58 Identities=17% Similarity=0.507 Sum_probs=51.9
Q ss_pred CCCCCCCCCCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCCccccC
Q 030341 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIFLLF 179 (179)
Q Consensus 121 ~~p~~~lPpdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~~ 179 (179)
..+...+||..|.||||.|||.++|.++...||..|.-.++||+-....+ +|..|+|+
T Consensus 7 ~~~~~rlppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T-rGTAFVVY 64 (124)
T KOG0114|consen 7 KKQNIRLPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET-RGTAFVVY 64 (124)
T ss_pred ccCCCCCChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc-CceEEEEe
Confidence 35667889999999999999999999999999999999999999876665 89999874
No 3
>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=97.96 E-value=4.5e-06 Score=54.53 Aligned_cols=33 Identities=24% Similarity=0.576 Sum_probs=32.0
Q ss_pred EEecCCCCcccHHHHHhhcCCCCCcceEEeeec
Q 030341 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK 167 (179)
Q Consensus 135 LFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~ 167 (179)
|||.|||.+||+++|..+|++|.....+++...
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 799999999999999999999999999999996
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.77 E-value=3e-05 Score=66.00 Aligned_cols=48 Identities=19% Similarity=0.380 Sum_probs=39.0
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc-CCCC-CCccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHV-SMIFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r-~~~~-gg~~~~~ 179 (179)
.++|||.|||.++|+++|.++|++|...++||++..+ .+++ |=.||.|
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F 318 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSM 318 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEE
Confidence 4579999999999999999999999999999999765 3333 3345544
No 5
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.61 E-value=8.8e-05 Score=65.46 Aligned_cols=43 Identities=42% Similarity=0.658 Sum_probs=36.8
Q ss_pred CCCCCCCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeee
Q 030341 124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166 (179)
Q Consensus 124 ~~~lPpdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp 166 (179)
...-.+++-+||||.+||.|+..+||..||+.|+||...-|--
T Consensus 26 ~~~~~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~ 68 (284)
T KOG1457|consen 26 LLADEPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKY 68 (284)
T ss_pred cccccccccceeeeccCCcccCHHHHHHHhccCCCccceeeee
Confidence 3444456789999999999999999999999999999877654
No 6
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=97.58 E-value=7.1e-05 Score=68.53 Aligned_cols=48 Identities=21% Similarity=0.345 Sum_probs=41.6
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCC--cceEEeeeccCCCCCCccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVG--YKEVRLVSKESRHVSMIFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpG--FkEVRLVp~r~~~~gg~~~~~ 179 (179)
+++|||.|||.++|+++|..||++|.. .+.|++.+.+.++++-.+|.|
T Consensus 394 s~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~~~~~~gfVeF 443 (481)
T TIGR01649 394 SATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDNERSKMGLLEW 443 (481)
T ss_pred CcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCCCcceeEEEEc
Confidence 889999999999999999999999988 899999987766556666554
No 7
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.52 E-value=3.7e-05 Score=67.76 Aligned_cols=44 Identities=23% Similarity=0.532 Sum_probs=38.4
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCCccccC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIFLLF 179 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~~ 179 (179)
+|.||||-||..+||+++|..||+.|+||.-+|+-. +||.|+-|
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~-----~~g~~vaf 252 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA-----RGGMPVAF 252 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec-----CCCcceEe
Confidence 589999999999999999999999999999998864 45666544
No 8
>smart00362 RRM_2 RNA recognition motif.
Probab=97.50 E-value=0.00013 Score=45.95 Aligned_cols=35 Identities=29% Similarity=0.566 Sum_probs=32.7
Q ss_pred eEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 134 iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
+|+|.|||.+++.++|..+|++|...+++++...+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~ 35 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT 35 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC
Confidence 48999999999999999999999999999999766
No 9
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.42 E-value=0.00021 Score=56.50 Aligned_cols=37 Identities=19% Similarity=0.376 Sum_probs=34.4
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
+..|||.|||.++|+++|..+|.+|.-.++|+++..+
T Consensus 34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~ 70 (144)
T PLN03134 34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDR 70 (144)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecC
Confidence 6789999999999999999999999999999998654
No 10
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=97.38 E-value=0.00021 Score=54.35 Aligned_cols=48 Identities=33% Similarity=0.605 Sum_probs=41.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc--CCCCCCccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHVSMIFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r--~~~~gg~~~~~ 179 (179)
+++|||.|||.++|+++|..+|.+|.-...|+++-.+ .+.+|-.+|.|
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f 164 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEF 164 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEe
Confidence 6899999999999999999999999999999998875 45556666654
No 11
>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=97.35 E-value=0.0025 Score=57.27 Aligned_cols=49 Identities=24% Similarity=0.411 Sum_probs=39.7
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccC-C-CCCCccccC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES-R-HVSMIFLLF 179 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~-~-~~gg~~~~~ 179 (179)
...+|||.|||.++|+++|.++|.+|.-.++|+|+.... + .+|-.||.|
T Consensus 106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF 156 (346)
T TIGR01659 106 SGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDF 156 (346)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEE
Confidence 378999999999999999999999999999999986532 2 234455544
No 12
>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=97.16 E-value=0.00051 Score=45.81 Aligned_cols=36 Identities=19% Similarity=0.529 Sum_probs=30.0
Q ss_pred EEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 135 LFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
|||.|||.++|+++|.++|..|.-..+|++...+.+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~ 36 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDG 36 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTS
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeecc
Confidence 799999999999999999999966889999987543
No 13
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.11 E-value=0.0005 Score=61.72 Aligned_cols=49 Identities=12% Similarity=0.314 Sum_probs=39.3
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccC-C-CCCCccccC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES-R-HVSMIFLLF 179 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~-~-~~gg~~~~~ 179 (179)
..++|||.|||.++|+++|.+||.+|..++.|+++.... + ..|-.||.|
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f 344 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEY 344 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEE
Confidence 467999999999999999999999999999999997542 2 234444433
No 14
>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=96.94 E-value=0.001 Score=59.73 Aligned_cols=37 Identities=16% Similarity=0.394 Sum_probs=34.3
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
+.+|||.|||.++|+++|.++|.+|...++|+++..+
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~ 229 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDK 229 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecC
Confidence 5679999999999999999999999999999999754
No 15
>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=96.83 E-value=0.0012 Score=58.56 Aligned_cols=38 Identities=26% Similarity=0.447 Sum_probs=35.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES 169 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~ 169 (179)
+.+|||.|||.++|+++|..+|.+|...+.|+++....
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~ 223 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPE 223 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC
Confidence 68999999999999999999999999999999997554
No 16
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=96.82 E-value=0.0013 Score=58.40 Aligned_cols=38 Identities=18% Similarity=0.321 Sum_probs=35.2
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
..++|||.|||.++|+++|..+|.+|...++|+|+..+
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~ 125 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDR 125 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecC
Confidence 37899999999999999999999999999999999743
No 17
>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=96.70 E-value=0.0027 Score=40.08 Aligned_cols=37 Identities=32% Similarity=0.611 Sum_probs=33.0
Q ss_pred eEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 134 iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
+|+|.|||.++++++|..+|++|.....+.+...+.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~ 37 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT 37 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC
Confidence 4899999999999999999999988999999876654
No 18
>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=96.56 E-value=0.003 Score=58.18 Aligned_cols=48 Identities=15% Similarity=0.294 Sum_probs=40.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCC-CCccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHV-SMIFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~-gg~~~~~ 179 (179)
...|||.|||.++|+++|.++|++|...++|+++....+++ |-.||+|
T Consensus 285 ~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f 333 (562)
T TIGR01628 285 GVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCF 333 (562)
T ss_pred CCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEe
Confidence 56799999999999999999999999999999998754443 4456655
No 19
>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=96.48 E-value=0.003 Score=57.95 Aligned_cols=46 Identities=15% Similarity=0.312 Sum_probs=38.1
Q ss_pred CCCeEEecCCCC-cccHHHHHhhcCCCCCcceEEeeeccCCCCCCccccC
Q 030341 131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIFLLF 179 (179)
Q Consensus 131 pn~iLFVqNLP~-d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~~ 179 (179)
++++|||.|||. .+|+++|.+||.+|...++|+++..+ +|-.+|.|
T Consensus 274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~---~g~afV~f 320 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK---KETALIEM 320 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC---CCEEEEEE
Confidence 388999999997 69999999999999999999998742 34555443
No 20
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=96.42 E-value=0.007 Score=58.30 Aligned_cols=45 Identities=24% Similarity=0.330 Sum_probs=38.8
Q ss_pred CCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCC
Q 030341 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVS 173 (179)
Q Consensus 129 pdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~g 173 (179)
|+....|||.|||.++|+++|..+|.+|.-..+|||+-..++++.
T Consensus 55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sR 99 (578)
T TIGR01648 55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNR 99 (578)
T ss_pred CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCcc
Confidence 445678999999999999999999999999999999876655544
No 21
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=96.39 E-value=0.0031 Score=61.21 Aligned_cols=48 Identities=29% Similarity=0.464 Sum_probs=39.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC-CC-CCccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR-HV-SMIFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~-~~-gg~~~~~ 179 (179)
-+|+||.|||.+||+++|...|++|.-.+-+++|.-..+ |+ |..|+-|
T Consensus 292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~F 341 (678)
T KOG0127|consen 292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKF 341 (678)
T ss_pred cceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEe
Confidence 389999999999999999999999999999999965443 33 4455433
No 22
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=96.27 E-value=0.0047 Score=56.90 Aligned_cols=47 Identities=15% Similarity=0.295 Sum_probs=38.9
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCC-CCcccc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHV-SMIFLL 178 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~-gg~~~~ 178 (179)
...|||.|||.++|+++|..+|+.|....+|+++..+.+++ |-.+|-
T Consensus 88 ~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~ 135 (562)
T TIGR01628 88 VGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVH 135 (562)
T ss_pred CCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEE
Confidence 55799999999999999999999999999999998765533 334443
No 23
>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=96.24 E-value=0.0049 Score=59.84 Aligned_cols=48 Identities=17% Similarity=0.356 Sum_probs=40.3
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC--CCCCccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR--HVSMIFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~--~~gg~~~~~ 179 (179)
.+.|||.|||.++++++|..+|+.|...++||++..+.+ ++|-.||-|
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeF 253 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEY 253 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEE
Confidence 578999999999999999999999999999999986543 345556544
No 24
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=95.96 E-value=0.0094 Score=50.83 Aligned_cols=37 Identities=32% Similarity=0.640 Sum_probs=34.1
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
+..|||.|||.++|+++|..+|++|.....++++..+
T Consensus 89 ~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~ 125 (352)
T TIGR01661 89 GANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDN 125 (352)
T ss_pred cceEEECCccccCCHHHHHHHHhccCCEEEEEEEecC
Confidence 5689999999999999999999999999999998754
No 25
>smart00360 RRM RNA recognition motif.
Probab=95.64 E-value=0.012 Score=36.57 Aligned_cols=33 Identities=33% Similarity=0.576 Sum_probs=29.6
Q ss_pred ecCCCCcccHHHHHhhcCCCCCcceEEeeeccC
Q 030341 137 VEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES 169 (179)
Q Consensus 137 VqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~ 169 (179)
|.|||.++++++|..+|++|...++|++...+.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~ 33 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKD 33 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCC
Confidence 579999999999999999999999999887654
No 26
>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=95.61 E-value=0.011 Score=56.91 Aligned_cols=34 Identities=18% Similarity=0.319 Sum_probs=30.4
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCC--CCcceEEee
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLV 165 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qF--pGFkEVRLV 165 (179)
+++|||.|||.++|+++|..+|.+| .-.++|+++
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~ 268 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI 268 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee
Confidence 6899999999999999999999999 667777665
No 27
>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=95.17 E-value=0.027 Score=54.76 Aligned_cols=37 Identities=14% Similarity=0.300 Sum_probs=34.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
...|||.|||.++|+++|..+|.+|...++|+++..+
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~ 143 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDP 143 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecC
Confidence 5689999999999999999999999999999998653
No 28
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=94.69 E-value=0.035 Score=50.67 Aligned_cols=50 Identities=28% Similarity=0.392 Sum_probs=42.1
Q ss_pred CCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeec-cCCCCCC-ccccC
Q 030341 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK-ESRHVSM-IFLLF 179 (179)
Q Consensus 130 dpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~-r~~~~gg-~~~~~ 179 (179)
||=+||||.-|+.++++..|...|..|.-.|.||||-- .++++.| .||+|
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIey 150 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEY 150 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEe
Confidence 56889999999999999999999999999999999965 5555554 45543
No 29
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=94.48 E-value=0.022 Score=54.27 Aligned_cols=33 Identities=18% Similarity=0.373 Sum_probs=27.9
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEE
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR 163 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVR 163 (179)
.-++|||.||+.++|++.|..+|++|.-...|.
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVk 290 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVK 290 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceEEee
Confidence 368999999999999999999999995444443
No 30
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=93.31 E-value=0.066 Score=48.23 Aligned_cols=26 Identities=23% Similarity=0.575 Sum_probs=23.8
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPF 156 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qF 156 (179)
..++|||.|||.++|+++|..+|.+|
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~ 199 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDL 199 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHH
Confidence 36799999999999999999999975
No 31
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=92.41 E-value=0.11 Score=48.52 Aligned_cols=36 Identities=28% Similarity=0.504 Sum_probs=32.4
Q ss_pred CeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 133 ~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
..|||.|||.++|..+|++.|.+|.-.++.|+--..
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~ 324 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRS 324 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccceEEec
Confidence 349999999999999999999999999999986544
No 32
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=91.53 E-value=0.28 Score=43.83 Aligned_cols=40 Identities=25% Similarity=0.419 Sum_probs=35.9
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
.+++|=|.||+.++++.+|++||.+|..+..|-|+--+.+
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~T 227 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKET 227 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEcccc
Confidence 4789999999999999999999999999999999865443
No 33
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=90.91 E-value=0.091 Score=50.13 Aligned_cols=48 Identities=25% Similarity=0.417 Sum_probs=40.4
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCC-ccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSM-IFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg-~~~~~ 179 (179)
++.|||.-|+..|||.|+++||.+|.-.++|++.-..-+.+.| .||.|
T Consensus 124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~f 172 (510)
T KOG0144|consen 124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKF 172 (510)
T ss_pred chhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEE
Confidence 6679999999999999999999999999999999866655544 45443
No 34
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=90.81 E-value=0.094 Score=47.71 Aligned_cols=49 Identities=29% Similarity=0.519 Sum_probs=36.8
Q ss_pred ccccCCCCCCCCCCCCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEee
Q 030341 115 ALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165 (179)
Q Consensus 115 ~~~~~~~~p~~~lPpdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLV 165 (179)
.|-++=.+|-...=.|+| |||.+||...|+.||+.||++|.-....|+.
T Consensus 112 TIKVSyARPSs~~Ik~aN--LYvSGlPktMtqkelE~iFs~fGrIItSRiL 160 (360)
T KOG0145|consen 112 TIKVSYARPSSDSIKDAN--LYVSGLPKTMTQKELEQIFSPFGRIITSRIL 160 (360)
T ss_pred eEEEEeccCChhhhcccc--eEEecCCccchHHHHHHHHHHhhhhhhhhhh
Confidence 333333455544445566 9999999999999999999999877777654
No 35
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=90.55 E-value=0.26 Score=46.40 Aligned_cols=40 Identities=18% Similarity=0.267 Sum_probs=36.4
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
|.|+|||=.|.+-+|.+.|+.||+.|.-.+.+-+|--+.+
T Consensus 238 PeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~kt 277 (479)
T KOG0415|consen 238 PENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKT 277 (479)
T ss_pred CcceEEEEecCCcccccchhhHHhhcccceeeeEEecccc
Confidence 3899999999999999999999999999999999876654
No 36
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=90.27 E-value=0.51 Score=45.04 Aligned_cols=43 Identities=33% Similarity=0.463 Sum_probs=36.4
Q ss_pred CCCCCCCCCCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeee
Q 030341 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166 (179)
Q Consensus 121 ~~p~~~lPpdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp 166 (179)
..++++|| ++||.++|||.+-.-+-|..||..+.-.|.||+..
T Consensus 223 ~~~~eel~---srtivaenLP~Dh~~enl~kiFg~~G~IksIRIck 265 (484)
T KOG1855|consen 223 EFDEEELP---SRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICK 265 (484)
T ss_pred Cccccccc---cceEEEecCCcchHHHHHHHHhhcccceeeeeecC
Confidence 33445555 89999999999888899999999999999999874
No 37
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=89.75 E-value=0.37 Score=46.13 Aligned_cols=40 Identities=23% Similarity=0.486 Sum_probs=36.9
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRH 171 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~ 171 (179)
.-.|||--+|..+||.+|..||.+|.---||-|+.-++++
T Consensus 34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~ 73 (510)
T KOG0144|consen 34 AVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTG 73 (510)
T ss_pred hhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccC
Confidence 4469999999999999999999999999999999988875
No 38
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=88.97 E-value=0.31 Score=49.27 Aligned_cols=44 Identities=25% Similarity=0.561 Sum_probs=38.8
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCCcccc
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIFLL 178 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~ 178 (179)
-+.||||.+||..+++.+|..+|..|.-...|-|++.| |..|||
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R----~cAfI~ 463 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR----GCAFIK 463 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC----ceeEEE
Confidence 57899999999999999999999999999999999854 456654
No 39
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.74 E-value=0.24 Score=49.37 Aligned_cols=36 Identities=33% Similarity=0.624 Sum_probs=33.0
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeec
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK 167 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~ 167 (179)
..-|+|+|||...|.++++.||..|.-++.|||-.+
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK 648 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKK 648 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchh
Confidence 456999999999999999999999999999998655
No 40
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.48 E-value=0.19 Score=43.50 Aligned_cols=40 Identities=15% Similarity=0.458 Sum_probs=35.9
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRH 171 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~ 171 (179)
+--+||.|||.+.|+-.|--+|+||.-.++|.||--+.+.
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TG 74 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTG 74 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCC
Confidence 6689999999999999999999999999999999655543
No 41
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=87.93 E-value=0.75 Score=42.90 Aligned_cols=49 Identities=20% Similarity=0.271 Sum_probs=38.7
Q ss_pred CCCCeEEecCCCCcccHHHHHhhcCCCCCcc--------eEEeeeccCCCCCCcccc
Q 030341 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYK--------EVRLVSKESRHVSMIFLL 178 (179)
Q Consensus 130 dpn~iLFVqNLP~d~T~~eL~~LF~qFpGFk--------EVRLVp~r~~~~gg~~~~ 178 (179)
..|.-+||+|||.++|-+|+..+|..+.... .|.|-.-+.++.+|+-||
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc 188 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALC 188 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEE
Confidence 3465699999999999999999999665543 367777777788888776
No 42
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=87.49 E-value=0.65 Score=43.73 Aligned_cols=38 Identities=26% Similarity=0.373 Sum_probs=34.6
Q ss_pred CeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 133 ~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
..+||.|+|.++|+++|..||........+|+|--+.+
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~t 56 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRET 56 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccC
Confidence 68999999999999999999999999999999965444
No 43
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=87.02 E-value=0.63 Score=38.55 Aligned_cols=37 Identities=14% Similarity=0.224 Sum_probs=31.5
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
++||||.||..-+|+++|.+||+...-.+.|=|--.|
T Consensus 36 S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr 72 (153)
T KOG0121|consen 36 SCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDR 72 (153)
T ss_pred cceEEEeeeeeeecHHHHHHHHHhccchheeEecccc
Confidence 8999999999999999999999988777766654333
No 44
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=86.75 E-value=0.57 Score=42.78 Aligned_cols=44 Identities=16% Similarity=0.354 Sum_probs=39.8
Q ss_pred EEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCCccccC
Q 030341 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIFLLF 179 (179)
Q Consensus 135 LFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~~ 179 (179)
+||.||+++++.+.|..+|+.|.--..|+++..+.+ .+|.|+.|
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g-~kg~FV~f 122 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG-SKGYFVQF 122 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC-ceeeEEEe
Confidence 999999999999999999999999999999998887 44448776
No 45
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=85.88 E-value=0.82 Score=40.13 Aligned_cols=41 Identities=20% Similarity=0.283 Sum_probs=31.7
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHV 172 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~ 172 (179)
...|.|.|||..++.+.|.+||..|..++.|=+=..+.+++
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s 123 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRS 123 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCC
Confidence 46799999999999999999999988555554444444433
No 46
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=85.42 E-value=0.58 Score=45.49 Aligned_cols=38 Identities=26% Similarity=0.407 Sum_probs=34.3
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
+..+|+|-|||.++|.++|..||..|.-.||||.-+.+
T Consensus 74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~ 111 (549)
T KOG4660|consen 74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK 111 (549)
T ss_pred ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc
Confidence 57899999999999999999999999999998876644
No 47
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=85.35 E-value=1.3 Score=40.43 Aligned_cols=104 Identities=14% Similarity=0.212 Sum_probs=63.8
Q ss_pred cccccCCcccchhHHHHHhhcCCccccCC-CCCCCCCCCCCCCCCCCCcccc---cCCCCCCCCCCCCccccCCCCCCCC
Q 030341 51 LRGMRDTDSLGASYDRYLRSAQISSYSGG-QSARHMSGGMPSRPVDDPRIVG---IGGMDPGPSAKDRALGLGGGRSEVP 126 (179)
Q Consensus 51 ~~~~rdt~~ig~aydryl~~~q~~s~~~g-~~~r~~~gg~~~~~~~d~~~~~---~~~~d~~~~~~~~~~~~~~~~p~~~ 126 (179)
-++|||+.|--+-=+ + .-||--- +|-+.+. .|+|.=|.-+.++- .... .+.+. ..+-|. .+-...
T Consensus 92 akvirD~~T~KsKGY-----g-FVSf~~k~dAEnAI~-~MnGqWlG~R~IRTNWATRKp-~e~n~--~~ltfd-eV~NQs 160 (321)
T KOG0148|consen 92 AKVIRDMNTGKSKGY-----G-FVSFPNKEDAENAIQ-QMNGQWLGRRTIRTNWATRKP-SEMNG--KPLTFD-EVYNQS 160 (321)
T ss_pred ceEeecccCCcccce-----e-EEeccchHHHHHHHH-HhCCeeeccceeeccccccCc-cccCC--CCccHH-HHhccC
Confidence 467777765432100 1 1233222 3335554 67777777666654 2222 22222 223333 222344
Q ss_pred CCCCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeec
Q 030341 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK 167 (179)
Q Consensus 127 lPpdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~ 167 (179)
.|. |.+.||-|++..+|+++|...|.+|.-..|||+-+-
T Consensus 161 sp~--NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~ 199 (321)
T KOG0148|consen 161 SPD--NTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD 199 (321)
T ss_pred CCC--CceEEeCCcCccccHHHHHHhcccCCcceEEEEecc
Confidence 455 889999999999999999999999999999998764
No 48
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=83.46 E-value=2.6 Score=40.88 Aligned_cols=37 Identities=19% Similarity=0.409 Sum_probs=27.9
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCC--cceEEeeeccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVG--YKEVRLVSKES 169 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpG--FkEVRLVp~r~ 169 (179)
..++||.|||.+||=.+|..-|+.|.- |.+| |-++++
T Consensus 536 a~qIiirNlP~dfTWqmlrDKfre~G~v~yadi-me~Gks 574 (608)
T KOG4212|consen 536 ACQIIIRNLPFDFTWQMLRDKFREIGHVLYADI-MENGKS 574 (608)
T ss_pred ccEEEEecCCccccHHHHHHHHHhccceehhhh-hccCCc
Confidence 557999999999999999999997643 4444 334433
No 49
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=83.25 E-value=0.69 Score=47.07 Aligned_cols=45 Identities=13% Similarity=0.143 Sum_probs=42.1
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCCcc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIF 176 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~ 176 (179)
+..|||.|+|..||+++|..||..+..-+.+|+|..+.++|+|.-
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a 780 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKA 780 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccce
Confidence 788999999999999999999999999999999999998888753
No 50
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=82.90 E-value=1.5 Score=40.03 Aligned_cols=48 Identities=21% Similarity=0.355 Sum_probs=42.0
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCC-ccccC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSM-IFLLF 179 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg-~~~~~ 179 (179)
...|+|+||...++.+.|..+|..|.-...+++.--..++.+| .+++|
T Consensus 270 ~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~~g~skG~gfV~f 318 (369)
T KOG0123|consen 270 GANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDENGKSKGFGFVEF 318 (369)
T ss_pred ccccccccCccccchhHHHHHHhcccceeeEEEEeccCCCccceEEEEc
Confidence 6679999999999999999999999999999999877777766 55554
No 51
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=80.60 E-value=1.8 Score=41.64 Aligned_cols=37 Identities=19% Similarity=0.345 Sum_probs=31.1
Q ss_pred CCCeEEecCCCCcccHHHHHhhcC-CCCCcceEEeeec
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFR-PFVGYKEVRLVSK 167 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~-qFpGFkEVRLVp~ 167 (179)
+|+-|||-|+|.+.+++|+-.-|. .-+|...|-|.+.
T Consensus 163 an~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~ 200 (506)
T KOG0117|consen 163 ANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPS 200 (506)
T ss_pred ecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecC
Confidence 588999999999999998666665 5699999988764
No 52
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=79.89 E-value=1.6 Score=36.50 Aligned_cols=35 Identities=17% Similarity=0.376 Sum_probs=32.4
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeee
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp 166 (179)
--||||.++-.++|++++...|..|.-.|++.|--
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNL 106 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNL 106 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeecc
Confidence 56999999999999999999999999999998854
No 53
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=79.14 E-value=2.6 Score=39.34 Aligned_cols=39 Identities=15% Similarity=0.468 Sum_probs=35.9
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES 169 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~ 169 (179)
...+|||.+|-..+++.+|..-|-||.+.+.||+++.+.
T Consensus 227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~ 265 (377)
T KOG0153|consen 227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKG 265 (377)
T ss_pred ceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccc
Confidence 378999999999999999999999999999999998654
No 54
>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=79.01 E-value=2 Score=32.59 Aligned_cols=35 Identities=29% Similarity=0.355 Sum_probs=22.3
Q ss_pred CeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 133 ~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
-||.|.++..+|+.+.|..+|++|. +|..|-...+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g---~V~yVD~~~G 36 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFG---EVAYVDFSRG 36 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS-----EEEEE--TT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcC---CcceEEecCC
Confidence 3899999999999999999999977 8888876654
No 55
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=76.42 E-value=4.8 Score=37.60 Aligned_cols=49 Identities=18% Similarity=0.316 Sum_probs=43.1
Q ss_pred CCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCCcccc
Q 030341 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSMIFLL 178 (179)
Q Consensus 130 dpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~ 178 (179)
+--|-|.|.|+|...-+-+|...|.+|.-..+|-+|=.+-+-+|=.|+-
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVT 142 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVT 142 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEE
Confidence 4457899999999999999999999999999999999888877767654
No 56
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=74.13 E-value=2.8 Score=42.03 Aligned_cols=34 Identities=24% Similarity=0.421 Sum_probs=32.1
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeee
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp 166 (179)
+.++||.|||.+++.++|+.+|..|+...+| |.|
T Consensus 385 ~~vil~kNlpa~t~~~elt~~F~~fG~i~rv-llp 418 (725)
T KOG0110|consen 385 DTVILVKNLPAGTLSEELTEAFLRFGEIGRV-LLP 418 (725)
T ss_pred cceeeeccCccccccHHHHHHhhccccccee-ecC
Confidence 6799999999999999999999999999999 777
No 57
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=73.79 E-value=3.7 Score=39.38 Aligned_cols=38 Identities=16% Similarity=0.304 Sum_probs=33.0
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
++++|-+.|||.+||++||-.|+.+|.--..+-+..++
T Consensus 27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGk 64 (492)
T KOG1190|consen 27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGK 64 (492)
T ss_pred CcceeEeccCCccccHHHHHHhcccccceeeeeeeccc
Confidence 48999999999999999999999999887777666543
No 58
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=73.49 E-value=2.7 Score=41.55 Aligned_cols=34 Identities=21% Similarity=0.471 Sum_probs=30.9
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEee
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLV 165 (179)
.--|.|.|||..|.+..|..+|++|.-+.||-+=
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP 150 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIP 150 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcc
Confidence 4579999999999999999999999999998764
No 59
>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=70.22 E-value=5.3 Score=30.54 Aligned_cols=35 Identities=17% Similarity=0.458 Sum_probs=23.5
Q ss_pred CCCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEee
Q 030341 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165 (179)
Q Consensus 129 pdpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLV 165 (179)
|...++++|. .|.++...+|.+||++|.+ ..|-.|
T Consensus 6 P~RdHVFhlt-FPkeWK~~DI~qlFspfG~-I~VsWi 40 (87)
T PF08675_consen 6 PSRDHVFHLT-FPKEWKTSDIYQLFSPFGQ-IYVSWI 40 (87)
T ss_dssp -SGCCEEEEE---TT--HHHHHHHCCCCCC-EEEEEE
T ss_pred CCcceEEEEe-CchHhhhhhHHHHhccCCc-EEEEEE
Confidence 4468899998 9999999999999999854 344433
No 60
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=67.19 E-value=5.8 Score=36.45 Aligned_cols=36 Identities=22% Similarity=0.391 Sum_probs=32.5
Q ss_pred EEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC
Q 030341 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR 170 (179)
Q Consensus 135 LFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~ 170 (179)
|.|--||++.|++||..||........|+||--+.+
T Consensus 44 LIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKit 79 (360)
T KOG0145|consen 44 LIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKIT 79 (360)
T ss_pred eeeeecccccCHHHHHHHhhcccceeeeeeeecccc
Confidence 778889999999999999999999999999976654
No 61
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=64.98 E-value=4.5 Score=37.36 Aligned_cols=35 Identities=23% Similarity=0.424 Sum_probs=32.3
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeee
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp 166 (179)
+-.|+|-||-+.||..||...|..|.--.|+-+|.
T Consensus 78 stkl~vgNis~tctn~ElRa~fe~ygpviecdivk 112 (346)
T KOG0109|consen 78 STKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK 112 (346)
T ss_pred ccccccCCCCccccCHHHhhhhcccCCceeeeeec
Confidence 56899999999999999999999999988888875
No 62
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=62.63 E-value=11 Score=36.70 Aligned_cols=49 Identities=18% Similarity=0.393 Sum_probs=33.7
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcc-eEEee-eccCCCCCCccccC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK-EVRLV-SKESRHVSMIFLLF 179 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFk-EVRLV-p~r~~~~gg~~~~~ 179 (179)
...++=+.+||..||+++|.+.|...+=-. +|=|+ -.+.+..|.++++|
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF 152 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQF 152 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEe
Confidence 367999999999999999999998642111 23232 33555556667766
No 63
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=61.88 E-value=16 Score=35.66 Aligned_cols=29 Identities=31% Similarity=0.481 Sum_probs=25.2
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCc
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGY 159 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGF 159 (179)
-++-+||.+||.++++++|...|.+|.-.
T Consensus 258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~ 286 (520)
T KOG0129|consen 258 YSRKVFVGGLPWDITEAQINASFGQFGSV 286 (520)
T ss_pred cccceeecCCCccccHHHHHhhcccccce
Confidence 35679999999999999999999988543
No 64
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=59.74 E-value=6.4 Score=37.82 Aligned_cols=29 Identities=31% Similarity=0.673 Sum_probs=25.7
Q ss_pred CCCCCCeEEecCCCCcccHHHHHhhcCCCCCc
Q 030341 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGY 159 (179)
Q Consensus 128 Ppdpn~iLFVqNLP~d~T~~eL~~LF~qFpGF 159 (179)
|| +.+|-+.|+|.+|++++|.++|.. +||
T Consensus 412 Pp--satlHlsnip~svsee~lk~~f~~-~g~ 440 (492)
T KOG1190|consen 412 PP--SATLHLSNIPPSVSEEDLKNLFQE-PGG 440 (492)
T ss_pred Cc--hhheeeccCCcccchhHHHHhhhc-CCc
Confidence 55 889999999999999999999985 554
No 65
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=57.19 E-value=53 Score=33.93 Aligned_cols=47 Identities=11% Similarity=0.256 Sum_probs=36.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCC-CCcceEEeeeccCCCCCCcccc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHVSMIFLL 178 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qF-pGFkEVRLVp~r~~~~gg~~~~ 178 (179)
+.+|-|+|.|.++|-+++-+.|.-| +-=-.||+--.+.+.+-|+-+|
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mv 914 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMV 914 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeE
Confidence 4599999999999999999999877 3334567666677777776554
No 66
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=56.94 E-value=8.2 Score=37.59 Aligned_cols=31 Identities=42% Similarity=0.674 Sum_probs=26.6
Q ss_pred CCCCCCeEEecCCCCcccHHHHHhhcCC-CCC
Q 030341 128 PPDASSTLFVEGLPSDCSRREVAHIFRP-FVG 158 (179)
Q Consensus 128 Ppdpn~iLFVqNLP~d~T~~eL~~LF~q-FpG 158 (179)
|=|+.+|+||.+||--.|.+||.+||.+ |.|
T Consensus 366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyGg 397 (520)
T KOG0129|consen 366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFGG 397 (520)
T ss_pred ccCccceEEecCCCCcchHHHHHHHHHHhcCc
Confidence 3367999999999999999999999984 444
No 67
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=52.23 E-value=52 Score=30.78 Aligned_cols=25 Identities=28% Similarity=0.469 Sum_probs=23.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPF 156 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qF 156 (179)
|.++||++||..+|+.+|...|.|.
T Consensus 66 ~~ti~v~g~~d~~~~~~~~~~f~qc 90 (351)
T KOG1995|consen 66 NETIFVWGCPDSVCENDNADFFLQC 90 (351)
T ss_pred cccceeeccCccchHHHHHHHHhhc
Confidence 7899999999999999999999874
No 68
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=51.65 E-value=9.7 Score=34.58 Aligned_cols=46 Identities=13% Similarity=0.342 Sum_probs=38.1
Q ss_pred CCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeee-ccCCCCCCc
Q 030341 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHVSMI 175 (179)
Q Consensus 130 dpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp-~r~~~~gg~ 175 (179)
+...-||+..|-.+++.+.|...|+.||.|...+.|. +|.++.+|.
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgy 234 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGY 234 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccc
Confidence 3456799999999999999999999999999999884 455555543
No 69
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=51.48 E-value=39 Score=32.59 Aligned_cols=55 Identities=25% Similarity=0.408 Sum_probs=38.8
Q ss_pred CCCCCCCCCeEEecCCCCcccHHHHHhhcCC---C-CCcceEEeeeccCCCC-CCccccC
Q 030341 125 VPLPPDASSTLFVEGLPSDCSRREVAHIFRP---F-VGYKEVRLVSKESRHV-SMIFLLF 179 (179)
Q Consensus 125 ~~lPpdpn~iLFVqNLP~d~T~~eL~~LF~q---F-pGFkEVRLVp~r~~~~-gg~~~~~ 179 (179)
..++...--|+=+.+||.+||+.++-..|.+ . .|-..|=+|..-.+++ |..|++|
T Consensus 154 ~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlf 213 (508)
T KOG1365|consen 154 PFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLF 213 (508)
T ss_pred CCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEe
Confidence 4444444568889999999999999999963 2 3667788887745555 4445544
No 70
>PF14893 PNMA: PNMA
Probab=50.46 E-value=8.3 Score=35.24 Aligned_cols=24 Identities=29% Similarity=0.704 Sum_probs=20.3
Q ss_pred CCCeEEecCCCCcccHHHHHhhcC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFR 154 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~ 154 (179)
+.+-|+|-++|.+|++.|+++..+
T Consensus 17 ~~r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 17 PQRALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred hhhhheeecCCCCCCHHHHHHHHH
Confidence 478899999999999998886533
No 71
>PHA03008 hypothetical protein; Provisional
Probab=49.38 E-value=15 Score=32.36 Aligned_cols=39 Identities=13% Similarity=0.278 Sum_probs=35.3
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES 169 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~ 169 (179)
-+-++||.|+-.--....+...|..|..|+||-+||+..
T Consensus 20 ~~d~~~~snit~~h~~n~i~~ff~~~d~~~~~ifvpg~~ 58 (234)
T PHA03008 20 ICDIAFISNITHIHDHNIIKIFFDKFDDFDEIIFVPGDI 58 (234)
T ss_pred cccEEEEecccccccccHHHHHHhhccccceEEEccCCc
Confidence 378999999998878889999999999999999999764
No 72
>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=45.56 E-value=19 Score=27.49 Aligned_cols=22 Identities=14% Similarity=0.454 Sum_probs=19.7
Q ss_pred eEEecCCCCcccHHHHHhhcCC
Q 030341 134 TLFVEGLPSDCSRREVAHIFRP 155 (179)
Q Consensus 134 iLFVqNLP~d~T~~eL~~LF~q 155 (179)
||-|.|+|...|.++|.+++..
T Consensus 3 TvMirNIPn~~t~~~L~~~l~~ 24 (97)
T PF04059_consen 3 TVMIRNIPNKYTQEMLIQILDE 24 (97)
T ss_pred eEEEecCCCCCCHHHHHHHHHH
Confidence 7999999999999998888764
No 73
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=41.77 E-value=12 Score=32.45 Aligned_cols=29 Identities=21% Similarity=0.323 Sum_probs=24.6
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYK 160 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFk 160 (179)
+.-|||+||-+++.+..|..+|+-|.=..
T Consensus 96 ganlfvgNLd~~vDe~~L~dtFsafG~l~ 124 (203)
T KOG0131|consen 96 GANLFVGNLDPEVDEKLLYDTFSAFGVLI 124 (203)
T ss_pred cccccccccCcchhHHHHHHHHHhccccc
Confidence 45599999999999999999999775443
No 74
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=41.35 E-value=54 Score=31.68 Aligned_cols=45 Identities=16% Similarity=0.307 Sum_probs=37.8
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCC---CCcceEEeeeccCCCCCCcc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPF---VGYKEVRLVSKESRHVSMIF 176 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qF---pGFkEVRLVp~r~~~~gg~~ 176 (179)
..+|=+.+||.+.|.+.+-..|..| .-|..|.||-...++|.|+-
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeA 327 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEA 327 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhh
Confidence 6799999999999999999888876 46788999987777776654
No 75
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=40.86 E-value=34 Score=31.06 Aligned_cols=33 Identities=24% Similarity=0.490 Sum_probs=27.2
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEee
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLV 165 (179)
.+.+||-+||.++++++|..-|.+|- ..+.-++
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g-~v~~~~~ 129 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFG-KVADVVI 129 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccc-eeEeeEE
Confidence 66899999999999999999999976 4443333
No 76
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=38.45 E-value=34 Score=24.87 Aligned_cols=33 Identities=24% Similarity=0.317 Sum_probs=28.4
Q ss_pred HHHHHhhcCCCCCcceEEeeeccCCCCCCcccc
Q 030341 146 RREVAHIFRPFVGYKEVRLVSKESRHVSMIFLL 178 (179)
Q Consensus 146 ~~eL~~LF~qFpGFkEVRLVp~r~~~~gg~~~~ 178 (179)
+.+|+.-|-+-|..+|+-|+.++.=++|+.+++
T Consensus 32 e~eler~fl~~P~v~e~~l~EKKri~~G~gyVi 64 (64)
T PF13046_consen 32 EVELERHFLPLPEVKEVALYEKKRIRKGAGYVI 64 (64)
T ss_pred HHHhhhhccCCCCceEEEEEEEEeeeCCceeEC
Confidence 457888898999999999999888889988854
No 77
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=35.23 E-value=44 Score=31.01 Aligned_cols=44 Identities=23% Similarity=0.345 Sum_probs=38.1
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCCCCCC
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHVSM 174 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~~~gg 174 (179)
..+.|||.=|...-+|+++..||.+|.-..||-+.-+--+.++|
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKG 61 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKG 61 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCC
Confidence 36789999999999999999999999999999988766655554
No 78
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=32.98 E-value=48 Score=30.55 Aligned_cols=37 Identities=16% Similarity=0.383 Sum_probs=33.9
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeecc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r 168 (179)
+.-.||+.|-.+++-+.|.+-|.+|.-..|.|+|.--
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~ 98 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDM 98 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecc
Confidence 5668999999999999999999999999999999643
No 79
>smart00361 RRM_1 RNA recognition motif.
Probab=29.99 E-value=37 Score=22.97 Aligned_cols=24 Identities=8% Similarity=0.178 Sum_probs=17.8
Q ss_pred HHHHHhhcC----CCCCcceEE--eeeccC
Q 030341 146 RREVAHIFR----PFVGYKEVR--LVSKES 169 (179)
Q Consensus 146 ~~eL~~LF~----qFpGFkEVR--LVp~r~ 169 (179)
+++|..+|+ +|..++.|. +++...
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~ 31 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVG 31 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCC
Confidence 467888888 999999997 444433
No 80
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=29.61 E-value=87 Score=30.27 Aligned_cols=44 Identities=20% Similarity=0.271 Sum_probs=37.2
Q ss_pred CCCCCCCeEEecCCCCcccHHHHHhhcCC--CCCcceEEeeeccCCCCC
Q 030341 127 LPPDASSTLFVEGLPSDCSRREVAHIFRP--FVGYKEVRLVSKESRHVS 173 (179)
Q Consensus 127 lPpdpn~iLFVqNLP~d~T~~eL~~LF~q--FpGFkEVRLVp~r~~~~g 173 (179)
.|| ++||-.=|.|..+|++.|-.||.. -+ +..|++-|.++-++-
T Consensus 403 q~P--s~vLHffNaP~~vtEe~l~~i~nek~v~-~~svkvFp~kserSs 448 (494)
T KOG1456|consen 403 QPP--SNVLHFFNAPLGVTEEQLIGICNEKDVP-PTSVKVFPLKSERSS 448 (494)
T ss_pred cCC--cceeEEecCCCccCHHHHHHHhhhcCCC-cceEEeecccccccc
Confidence 355 999999999999999999999984 34 899999998876553
No 81
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=26.35 E-value=74 Score=30.99 Aligned_cols=46 Identities=26% Similarity=0.436 Sum_probs=36.6
Q ss_pred CCCCeEEecCCCCcccHHHHHhhcCCCCCcceEEeeeccCC-CCCCc
Q 030341 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR-HVSMI 175 (179)
Q Consensus 130 dpn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp~r~~-~~gg~ 175 (179)
+-.+-+||.+||-..++.++.+|...|..|+.-+||..... .+++-
T Consensus 287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~ 333 (500)
T KOG0120|consen 287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGF 333 (500)
T ss_pred cccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccce
Confidence 34566899999999999999999888888888899877663 44443
No 82
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=26.29 E-value=24 Score=36.72 Aligned_cols=35 Identities=29% Similarity=0.343 Sum_probs=31.8
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcceEEee
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLV 165 (179)
+|.|||+.||+..+++.+|..+|..+.-..+|++-
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiK 405 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIK 405 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccccccc
Confidence 69999999999999999999999998777887763
No 83
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=26.20 E-value=48 Score=32.72 Aligned_cols=32 Identities=28% Similarity=0.467 Sum_probs=28.9
Q ss_pred EEecCCCCcccHHHHHhhcCCCCCcceEEeee
Q 030341 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166 (179)
Q Consensus 135 LFVqNLP~d~T~~eL~~LF~qFpGFkEVRLVp 166 (179)
|+|.||=.++|+++|..||.+|.-...|-|.-
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~ 312 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTK 312 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeecc
Confidence 99999999999999999999998887777654
No 84
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=25.86 E-value=76 Score=27.89 Aligned_cols=44 Identities=20% Similarity=0.354 Sum_probs=35.5
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCCC-CcceEEe-eeccCCCCCCc
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRL-VSKESRHVSMI 175 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qFp-GFkEVRL-Vp~r~~~~gg~ 175 (179)
.-+++|..+|..+-+.++...|+||. -.+.+|| -.+|.++++|-
T Consensus 49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgY 94 (214)
T KOG4208|consen 49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGY 94 (214)
T ss_pred ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCce
Confidence 56899999999999999999999994 4667777 56676666653
No 85
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=24.29 E-value=61 Score=25.03 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=16.6
Q ss_pred CCeEEecCCCCcccHH----HHHhhcCCCCC
Q 030341 132 SSTLFVEGLPSDCSRR----EVAHIFRPFVG 158 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~----eL~~LF~qFpG 158 (179)
..+|+|.|||.++... -|..|+..+.|
T Consensus 2 ~s~L~V~NLP~~~d~~~I~~RL~qLsdNCGG 32 (90)
T PF11608_consen 2 HSLLYVSNLPTNKDPSSIKNRLRQLSDNCGG 32 (90)
T ss_dssp SEEEEEES--TTS-HHHHHHHHHHHHHTTT-
T ss_pred ccEEEEecCCCCCCHHHHHHHHHHHhhccCC
Confidence 3589999999988765 46667766555
No 86
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=24.25 E-value=92 Score=30.71 Aligned_cols=48 Identities=23% Similarity=0.367 Sum_probs=36.2
Q ss_pred CCCeEEecCCCCcccHHHHHhhcCCCCCcce-EEeeeccCCCCCCcccc
Q 030341 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHVSMIFLL 178 (179)
Q Consensus 131 pn~iLFVqNLP~d~T~~eL~~LF~qFpGFkE-VRLVp~r~~~~gg~~~~ 178 (179)
.++..||.|+|.++.=..|..||+.-.|=.+ |.|.--+++|+.+--+|
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavV 91 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVV 91 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEE
Confidence 3667999999999999999999997666433 55666677777665543
No 87
>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=22.39 E-value=59 Score=20.65 Aligned_cols=20 Identities=20% Similarity=0.478 Sum_probs=16.0
Q ss_pred HHhhcCCCCCcceEEeeecc
Q 030341 149 VAHIFRPFVGYKEVRLVSKE 168 (179)
Q Consensus 149 L~~LF~qFpGFkEVRLVp~r 168 (179)
|..+|++|.-.++|++.+.+
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 56899999999999987765
No 88
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=22.16 E-value=91 Score=28.36 Aligned_cols=39 Identities=23% Similarity=0.308 Sum_probs=31.0
Q ss_pred CCeEEecCCCCcccHHHHHhhcCCC-CCcceEEeeeccCC
Q 030341 132 SSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESR 170 (179)
Q Consensus 132 n~iLFVqNLP~d~T~~eL~~LF~qF-pGFkEVRLVp~r~~ 170 (179)
+.+|+|.||+.-++.+.|..-|++| |-=++|=.|-.+.+
T Consensus 31 ~a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k 70 (275)
T KOG0115|consen 31 HAELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGK 70 (275)
T ss_pred cceEEEEecchhhhhHHHHHhhhhcCccchheeeeccccc
Confidence 6799999999999999999999988 44455555555554
No 89
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=20.81 E-value=85 Score=32.41 Aligned_cols=32 Identities=19% Similarity=0.335 Sum_probs=29.5
Q ss_pred eEEecCCCCcccHHHHHhhcCCCCCcceEEee
Q 030341 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165 (179)
Q Consensus 134 iLFVqNLP~d~T~~eL~~LF~qFpGFkEVRLV 165 (179)
-|+|.||++.+++.+|-..|..|.-+-.|++.
T Consensus 176 Nlyv~Nlnpsv~E~~ll~tfGrfgPlasvKim 207 (877)
T KOG0151|consen 176 NLYVGNLNPSVDENFLLRTFGRFGPLASVKIM 207 (877)
T ss_pred ceeeecCCccccHHHHHHHhcccCcccceeee
Confidence 39999999999999999999999988888876
Done!