Query 019677
Match_columns 337
No_of_seqs 224 out of 283
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 03:39:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019677.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019677hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01642 U2AF_lg U2 snRNP aux 99.5 1E-14 2.2E-19 145.7 6.9 69 222-290 175-254 (509)
2 KOG4849 mRNA cleavage factor I 99.3 1.4E-13 2.9E-18 135.3 -3.1 72 38-110 383-458 (498)
3 KOG0120 Splicing factor U2AF, 99.3 7.3E-12 1.6E-16 128.2 6.8 100 189-288 117-251 (500)
4 TIGR01622 SF-CC1 splicing fact 99.0 9.6E-11 2.1E-15 115.9 1.8 80 221-300 88-172 (457)
5 KOG0147 Transcriptional coacti 98.6 3.1E-08 6.8E-13 101.9 4.2 94 196-303 167-265 (549)
6 TIGR01642 U2AF_lg U2 snRNP aux 98.3 8.2E-07 1.8E-11 89.1 5.6 69 223-291 296-370 (509)
7 TIGR01622 SF-CC1 splicing fact 98.1 1E-06 2.2E-11 87.4 2.3 64 223-291 187-261 (457)
8 KOG0796 Spliceosome subunit [R 98.0 6.5E-07 1.4E-11 87.6 -1.8 32 43-76 191-234 (319)
9 KOG0147 Transcriptional coacti 96.9 0.0011 2.4E-08 69.0 5.2 53 224-280 280-338 (549)
10 KOG4676 Splicing factor, argin 96.6 0.0011 2.4E-08 67.1 2.4 16 156-171 353-368 (479)
11 PF08648 DUF1777: Protein of u 96.5 0.0041 8.8E-08 55.7 4.9 15 227-241 133-147 (180)
12 KOG4676 Splicing factor, argin 95.6 0.0075 1.6E-07 61.3 2.5 13 162-174 355-367 (479)
13 PF06495 Transformer: Fruit fl 95.2 0.017 3.7E-07 52.9 3.3 19 188-206 116-134 (182)
14 PLN03134 glycine-rich RNA-bind 94.9 0.005 1.1E-07 53.7 -1.1 71 222-292 34-110 (144)
15 KOG4368 Predicted RNA binding 94.2 0.1 2.2E-06 55.6 6.4 37 44-82 518-566 (757)
16 TIGR01659 sex-lethal sex-letha 93.2 0.02 4.4E-07 56.9 -0.7 68 219-291 104-182 (346)
17 PF00076 RRM_1: RNA recognitio 93.1 0.013 2.7E-07 42.5 -1.7 61 225-286 1-66 (70)
18 KOG3263 Nucleic acid binding p 92.8 0.029 6.4E-07 51.5 -0.1 6 164-169 84-89 (196)
19 TIGR01661 ELAV_HUD_SF ELAV/HuD 92.4 0.024 5.3E-07 54.2 -1.3 63 223-290 4-77 (352)
20 PF14259 RRM_6: RNA recognitio 92.3 0.011 2.4E-07 43.7 -3.0 52 225-280 1-57 (70)
21 KOG0108 mRNA cleavage and poly 92.3 0.04 8.6E-07 56.8 -0.0 69 223-291 19-93 (435)
22 TIGR01628 PABP-1234 polyadenyl 92.1 0.027 5.8E-07 58.1 -1.5 65 224-292 2-76 (562)
23 KOG0126 Predicted RNA-binding 91.9 0.018 3.9E-07 53.6 -2.6 70 225-294 38-113 (219)
24 TIGR01645 half-pint poly-U bin 91.4 0.06 1.3E-06 57.6 0.2 64 223-291 108-182 (612)
25 TIGR01661 ELAV_HUD_SF ELAV/HuD 91.4 0.042 9.1E-07 52.6 -0.9 66 220-286 267-338 (352)
26 TIGR01648 hnRNP-R-Q heterogene 91.2 0.083 1.8E-06 56.2 0.9 58 223-280 59-117 (578)
27 COG0724 RNA-binding proteins ( 90.6 0.063 1.4E-06 46.4 -0.5 72 222-294 115-193 (306)
28 KOG0120 Splicing factor U2AF, 90.6 0.18 3.9E-06 52.9 2.7 43 257-299 326-372 (500)
29 PLN03120 nucleic acid binding 90.1 0.1 2.2E-06 50.5 0.4 65 223-291 5-75 (260)
30 TIGR01649 hnRNP-L_PTB hnRNP-L/ 89.5 0.093 2E-06 53.8 -0.4 66 223-293 3-75 (481)
31 KOG0124 Polypyrimidine tract-b 89.0 0.11 2.4E-06 52.8 -0.3 121 186-310 46-209 (544)
32 KOG0796 Spliceosome subunit [R 88.5 0.21 4.5E-06 49.7 1.3 12 116-127 268-279 (319)
33 KOG4368 Predicted RNA binding 88.3 0.84 1.8E-05 48.9 5.6 15 155-169 645-659 (757)
34 KOG0131 Splicing factor 3b, su 85.5 0.2 4.2E-06 46.7 -0.7 72 217-292 4-85 (203)
35 KOG0107 Alternative splicing f 85.4 0.39 8.4E-06 44.6 1.1 65 222-290 10-79 (195)
36 TIGR01648 hnRNP-R-Q heterogene 84.7 0.53 1.2E-05 50.2 1.9 70 222-291 138-217 (578)
37 TIGR01659 sex-lethal sex-letha 83.5 0.26 5.7E-06 49.1 -0.9 59 222-280 193-253 (346)
38 KOG4454 RNA binding protein (R 83.1 0.27 5.8E-06 47.1 -0.9 72 217-292 4-83 (267)
39 PLN03121 nucleic acid binding 79.2 0.54 1.2E-05 45.2 -0.3 64 224-291 7-76 (243)
40 smart00362 RRM_2 RNA recogniti 77.9 0.85 1.8E-05 31.7 0.4 51 225-280 2-57 (72)
41 KOG4207 Predicted splicing fac 76.5 0.79 1.7E-05 43.7 -0.1 65 223-291 14-88 (256)
42 TIGR01645 half-pint poly-U bin 75.6 0.73 1.6E-05 49.5 -0.6 58 223-281 205-265 (612)
43 KOG0149 Predicted RNA-binding 74.9 0.7 1.5E-05 44.4 -0.9 54 224-279 14-71 (247)
44 KOG4246 Predicted DNA-binding 74.2 2.1 4.5E-05 47.8 2.3 16 159-174 347-362 (1194)
45 KOG1847 mRNA splicing factor [ 72.7 1.9 4.2E-05 46.8 1.6 6 145-150 783-788 (878)
46 KOG0117 Heterogeneous nuclear 72.0 2.6 5.6E-05 44.0 2.3 74 187-280 64-143 (506)
47 KOG0117 Heterogeneous nuclear 71.3 2 4.4E-05 44.8 1.4 88 222-313 164-261 (506)
48 PLN03213 repressor of silencin 69.6 0.92 2E-05 48.0 -1.5 65 223-291 11-83 (759)
49 TIGR01628 PABP-1234 polyadenyl 69.1 1.4 3E-05 45.7 -0.4 69 222-290 285-358 (562)
50 KOG2548 SWAP mRNA splicing reg 68.4 3.4 7.5E-05 43.9 2.3 7 249-255 556-562 (653)
51 cd00590 RRM RRM (RNA recogniti 67.4 1.3 2.8E-05 31.0 -0.7 51 225-280 2-58 (74)
52 KOG0113 U1 small nuclear ribon 66.5 10 0.00023 37.9 5.1 7 63-69 171-177 (335)
53 KOG0121 Nuclear cap-binding pr 65.1 1.1 2.3E-05 40.1 -1.8 57 220-280 34-96 (153)
54 KOG4208 Nucleolar RNA-binding 60.5 3.8 8.2E-05 38.9 0.8 50 225-278 52-108 (214)
55 smart00360 RRM RNA recognition 60.1 4.1 8.8E-05 28.0 0.7 49 227-280 1-56 (71)
56 KOG0148 Apoptosis-promoting RN 58.9 3.5 7.6E-05 40.8 0.3 60 216-279 158-217 (321)
57 KOG4209 Splicing factor RNPS1, 53.1 7.1 0.00015 37.1 1.3 65 221-289 100-173 (231)
58 KOG0132 RNA polymerase II C-te 52.0 17 0.00036 40.6 4.0 15 280-294 528-542 (894)
59 KOG0144 RNA-binding protein CU 51.0 4.9 0.00011 41.9 -0.1 89 213-301 22-120 (510)
60 KOG0125 Ataxin 2-binding prote 50.7 8.5 0.00018 39.0 1.5 52 220-276 94-150 (376)
61 TIGR01649 hnRNP-L_PTB hnRNP-L/ 50.1 6.6 0.00014 40.4 0.7 61 224-287 396-464 (481)
62 PF11671 Apis_Csd: Complementa 49.9 2.3 5E-05 37.7 -2.3 6 211-216 106-111 (146)
63 KOG4211 Splicing factor hnRNP- 46.9 6.4 0.00014 41.5 0.0 56 229-288 17-77 (510)
64 KOG0111 Cyclophilin-type pepti 46.0 4.6 0.0001 39.1 -1.1 69 217-289 5-83 (298)
65 KOG0122 Translation initiation 42.9 11 0.00025 36.7 1.0 57 225-282 192-251 (270)
66 KOG0105 Alternative splicing f 39.8 7.9 0.00017 36.6 -0.6 53 221-278 5-61 (241)
67 KOG0110 RNA-binding protein (R 39.2 17 0.00038 39.9 1.8 66 225-294 518-596 (725)
68 cd08788 CARD_NOD2_2_CARD15 Cas 37.2 16 0.00035 29.9 0.9 21 4-24 46-66 (81)
69 KOG1882 Transcriptional regula 36.1 45 0.00097 32.8 3.8 19 191-209 121-139 (293)
70 smart00361 RRM_1 RNA recogniti 35.3 18 0.00038 27.2 0.8 29 259-287 34-65 (70)
71 PF13893 RRM_5: RNA recognitio 35.2 24 0.00051 25.0 1.4 34 253-286 11-48 (56)
72 KOG4212 RNA-binding protein hn 29.2 20 0.00044 37.8 0.3 74 220-294 42-122 (608)
73 KOG0114 Predicted RNA-binding 26.5 31 0.00067 30.1 0.9 65 223-291 19-90 (124)
74 KOG0116 RasGAP SH3 binding pro 25.1 22 0.00047 36.9 -0.3 56 225-280 291-348 (419)
75 KOG0127 Nucleolar protein fibr 24.4 24 0.00052 38.1 -0.2 58 218-275 288-347 (678)
76 PF09197 Rap1-DNA-bind: Rap1, 21.7 38 0.00083 28.9 0.6 9 328-336 65-73 (105)
77 KOG4211 Splicing factor hnRNP- 21.3 33 0.00072 36.4 0.2 54 229-282 110-165 (510)
78 KOG2548 SWAP mRNA splicing reg 20.9 36 0.00078 36.6 0.3 7 51-57 345-351 (653)
79 KOG4849 mRNA cleavage factor I 20.5 24 0.00052 36.3 -1.0 67 225-291 83-158 (498)
No 1
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.53 E-value=1e-14 Score=145.68 Aligned_cols=69 Identities=19% Similarity=0.172 Sum_probs=51.6
Q ss_pred ccccCCcccccccccCCccc--hhhhh------hccCCceeEEecCCcccchhhhhhhHhh--HHHHhhhhcc-CCcccC
Q 019677 222 DETKGSGWERFEFDKDAPLD--DEEIE------AAEDDAALVKHIGQSFRFSAIEARREEQ--IKAAHDEAMF-GASAVP 290 (337)
Q Consensus 222 dr~L~VGnipf~~tEealld--N~~Le------aie~Dpvl~~qInqsk~fA~vEFKseet--valA~Dgi~f-G~ptvv 290 (337)
.+.|||||||+.++++.|.+ +.-+. ..++.+|+.++++.+++||||||.+.+. .+|++++++| |.++.|
T Consensus 175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al~l~g~~~~g~~l~v 254 (509)
T TIGR01642 175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKI 254 (509)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhhcCCCeEeeCceeEe
Confidence 45699999999999998888 32221 2247899999999999999999999544 5566777764 445544
No 2
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=99.29 E-value=1.4e-13 Score=135.32 Aligned_cols=72 Identities=18% Similarity=0.184 Sum_probs=62.9
Q ss_pred CCCCccccccccchhccCCCCCCCC----CCChhhHHHHHhhhcCCCCCCCCccccccCCcCCCccccccccccccC
Q 019677 38 DAVPAKHTSFLSNFVRASSPTTASH----PEKPSQLESIQNKLKKKPSEEKPAQSRVSTKDSDRDRDRDRERSHRDR 110 (337)
Q Consensus 38 ~~~~s~~~sfls~~~~a~~l~k~~~----~~~~~~l~s~~~~l~~~~~~~~~~~~r~~~r~r~r~rsR~r~~~~r~r 110 (337)
+|....|+++|++++|||.|||||+ ++|+++|++|++|||+|++++|.-.. .++|+|+|..||+|+.+.|+.
T Consensus 383 dASaGDy~~AiETllTAI~lIKqSrv~~DdRCrvLissL~dcLhgiesksys~g~-kr~rsrert~srsre~srrh~ 458 (498)
T KOG4849|consen 383 DASAGDYKGAIETLLTAIQLIKQSRVGHDDRCRVLISSLEDCLHGIESKSYSLGN-KRHRSRERTTSRSREISRRHF 458 (498)
T ss_pred ccccccchhHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhhhhcccccccc-cccccccccchhhHHHHHHHh
Confidence 4444499999999999999999998 99999999999999999999998866 467888888899998776555
No 3
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.25 E-value=7.3e-12 Score=128.19 Aligned_cols=100 Identities=16% Similarity=0.185 Sum_probs=80.0
Q ss_pred CCcccccCCCCCCCh---HHHHHHHHhhhhcccc----------------------ccccccCCcccccccccCCccc--
Q 019677 189 VDYSRLIEGYDHMTP---AAIVKAKMKLQLAETA----------------------NKDETKGSGWERFEFDKDAPLD-- 241 (337)
Q Consensus 189 ~d~~~~i~GfE~~TP---AEkvkar~q~QL~~tA----------------------~adr~L~VGnipf~~tEealld-- 241 (337)
--|....+|||+.|| ..+..+.+++|.++.. .++..+|||++||++++++++.
T Consensus 117 ~~~~~~~~~fe~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~q~~r~~v~~~~~~~~e~~~~~f~ 196 (500)
T KOG0120|consen 117 SLWDVPPEGFETITPDGAKLYKNFNATGQVPGDLSNPKKSLKLPQLPTPPMDSQATRQARRLYVGNIPFTSNEESMMSFF 196 (500)
T ss_pred hhhcCCCCCCcccCchhhhhhhhccccCCCCCCccccccccccccCCCCccCcchhhhhhhhcccccCCccCcHhhhhhh
Confidence 357888999999999 4444456666666551 3446689999999999999888
Q ss_pred h-----hhhhhcc-CCceeEEecCCcccchhhhhhh--HhhHHHHhhhhccCCcc
Q 019677 242 D-----EEIEAAE-DDAALVKHIGQSFRFSAIEARR--EEQIKAAHDEAMFGASA 288 (337)
Q Consensus 242 N-----~~Leaie-~Dpvl~~qInqsk~fA~vEFKs--eetvalA~Dgi~fG~pt 288 (337)
| .+|++.+ +++|++|++|+.++|+++||++ +++.+|++++++|.+..
T Consensus 197 ~~~~~~~gl~~~~~g~~~~s~~~n~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~ 251 (500)
T KOG0120|consen 197 NSRMHASGLNQAPDGPSFVSVQLNLEKNFAFIEFRSISEATEAMALDGIIFEGRP 251 (500)
T ss_pred hhhhhhcccccCCCCCceeeeeecccccceeEEecCCCchhhhhcccchhhCCCC
Confidence 3 2566666 7999999999999999999999 77889999999986533
No 4
>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=99.01 E-value=9.6e-11 Score=115.92 Aligned_cols=80 Identities=10% Similarity=0.027 Sum_probs=51.1
Q ss_pred cccccCCcccccccccCCccchh-hh-hhccCCceeEEecCCcccchhhhhhhHhhHHHHh--h-hhccCCcccCCCCCC
Q 019677 221 KDETKGSGWERFEFDKDAPLDDE-EI-EAAEDDAALVKHIGQSFRFSAIEARREEQIKAAH--D-EAMFGASAVPPSVSS 295 (337)
Q Consensus 221 adr~L~VGnipf~~tEealldN~-~L-eaie~Dpvl~~qInqsk~fA~vEFKseetvalA~--D-gi~fG~ptvv~~t~~ 295 (337)
....|||+|||+.++++.|.+.. .+ .+....-+.....+.+++||||+|.+.+.+..|+ . ..++|.+++|+.+..
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~~ 167 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQA 167 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecch
Confidence 34569999999999988876621 11 1111111111235678999999999977665554 4 445778888887765
Q ss_pred CCCCC
Q 019677 296 DSEPE 300 (337)
Q Consensus 296 ~~~~~ 300 (337)
+.+..
T Consensus 168 ~~~~~ 172 (457)
T TIGR01622 168 EKNRA 172 (457)
T ss_pred hhhhh
Confidence 55443
No 5
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.59 E-value=3.1e-08 Score=101.87 Aligned_cols=94 Identities=13% Similarity=0.162 Sum_probs=63.2
Q ss_pred CCCCCCChHHHHH-HHHhhhhccccccccccCCcccccccccCCccchhhhhhccCCceeEEe-cCCcccchhhhhhhHh
Q 019677 196 EGYDHMTPAAIVK-AKMKLQLAETANKDETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKH-IGQSFRFSAIEARREE 273 (337)
Q Consensus 196 ~GfE~~TPAEkvk-ar~q~QL~~tA~adr~L~VGnipf~~tEealldN~~Leaie~Dpvl~~q-Inqsk~fA~vEFKsee 273 (337)
..-+.++|.|++. ..+++||+..+.... | ++|...-.. +. ++ -+|.++ ...+|+++||||.++.
T Consensus 167 ~~~~~l~~eERd~Rtvf~~qla~r~~pRd-L----~efFs~~gk-Vr--dV------riI~Dr~s~rskgi~Yvef~D~~ 232 (549)
T KOG0147|consen 167 EASRILSPEERDQRTVFCMQLARRNPPRD-L----EEFFSIVGK-VR--DV------RIIGDRNSRRSKGIAYVEFCDEQ 232 (549)
T ss_pred cccccCCchHHhHHHHHHHHHhhcCCchh-H----HHHHHhhcC-cc--ee------EeeccccchhhcceeEEEEeccc
Confidence 3446688888887 789999996654322 1 222111111 10 11 122222 5679999999999999
Q ss_pred hHHHHhh---hhccCCcccCCCCCCCCCCCCCC
Q 019677 274 QIKAAHD---EAMFGASAVPPSVSSDSEPEPDS 303 (337)
Q Consensus 274 tvalA~D---gi~fG~ptvv~~t~~~~~~~~~~ 303 (337)
+|.+|+. +.+||.|++|++++++++..++.
T Consensus 233 sVp~aiaLsGqrllg~pv~vq~sEaeknr~a~~ 265 (549)
T KOG0147|consen 233 SVPLAIALSGQRLLGVPVIVQLSEAEKNRAANA 265 (549)
T ss_pred chhhHhhhcCCcccCceeEecccHHHHHHHHhc
Confidence 9988864 77799999999999999985544
No 6
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.29 E-value=8.2e-07 Score=89.13 Aligned_cols=69 Identities=12% Similarity=-0.021 Sum_probs=41.4
Q ss_pred cccCCcccccccccCCccch-hhhhhccC-CceeEEecCCcccchhhhhhhHhhHHHHh---hhhccCC-cccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDD-EEIEAAED-DAALVKHIGQSFRFSAIEARREEQIKAAH---DEAMFGA-SAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN-~~Leaie~-Dpvl~~qInqsk~fA~vEFKseetvalA~---Dgi~fG~-ptvv~ 291 (337)
..|||||||+.++++.|.+. ..+-.+.. ..+....++.+++||||+|.+.+.+..|+ ++..|++ .+.|.
T Consensus 296 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~ 370 (509)
T TIGR01642 296 DRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQ 370 (509)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence 35889999998888876652 11111111 11111135778999999999977766555 4555553 44443
No 7
>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=98.13 E-value=1e-06 Score=87.43 Aligned_cols=64 Identities=17% Similarity=0.046 Sum_probs=41.7
Q ss_pred cccCCcccccccccCCccch-hhhhhccCCceeEEe------cCCcccchhhhhhhHhhHHHHh---hhhc-cCCcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVKH------IGQSFRFSAIEARREEQIKAAH---DEAM-FGASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~q------Inqsk~fA~vEFKseetvalA~---Dgi~-fG~ptvv~ 291 (337)
..|||+|||+.++++.|.+. ..+- +|..|. .++.++||||+|.+.+.+..|+ ++.. .|.++.|.
T Consensus 187 ~~l~v~nl~~~~te~~l~~~f~~~G-----~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~ 261 (457)
T TIGR01622 187 LKLYVGNLHFNITEQELRQIFEPFG-----DIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVG 261 (457)
T ss_pred CEEEEcCCCCCCCHHHHHHHHHhcC-----CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEE
Confidence 56899999999998876662 1111 122222 3478899999999977766664 4544 44455554
No 8
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=98.01 E-value=6.5e-07 Score=87.58 Aligned_cols=32 Identities=28% Similarity=0.195 Sum_probs=27.2
Q ss_pred cccccccchhccCCCCCCCC------------CCChhhHHHHHhhh
Q 019677 43 KHTSFLSNFVRASSPTTASH------------PEKPSQLESIQNKL 76 (337)
Q Consensus 43 ~~~sfls~~~~a~~l~k~~~------------~~~~~~l~s~~~~l 76 (337)
-||+||+.++++++| ++| +++..+|....++.
T Consensus 191 VCGa~L~~~D~d~Rl--aDHf~GKlHlGy~~iR~~l~eLk~~~~~~ 234 (319)
T KOG0796|consen 191 VCGAFLSVNDADRRL--ADHFGGKLHLGYVLIREKLAELKKEKAKR 234 (319)
T ss_pred hhhHHHhccchHHHH--HHhhcchHHHHHHHHHHHHHHHHHHHhHH
Confidence 799999999999999 999 77777777666665
No 9
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.92 E-value=0.0011 Score=69.03 Aligned_cols=53 Identities=25% Similarity=0.205 Sum_probs=36.9
Q ss_pred ccCCcccccccccCCccchh----hhhhccCCceeEEe--cCCcccchhhhhhhHhhHHHHhh
Q 019677 224 TKGSGWERFEFDKDAPLDDE----EIEAAEDDAALVKH--IGQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 224 ~L~VGnipf~~tEealldN~----~Leaie~Dpvl~~q--Inqsk~fA~vEFKseetvalA~D 280 (337)
+|||||+=|.++++.+.... .|+.+ .+.++ ++++|+|+|++|...+...-|+.
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v----~l~~d~~tG~skgfGfi~f~~~~~ar~a~e 338 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENV----QLTKDSETGRSKGFGFITFVNKEDARKALE 338 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceee----eeccccccccccCcceEEEecHHHHHHHHH
Confidence 38999999999998766521 12211 11222 89999999999999777666644
No 10
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.62 E-value=0.0011 Score=67.11 Aligned_cols=16 Identities=56% Similarity=0.771 Sum_probs=8.0
Q ss_pred hhhhhccCCCCCCCCC
Q 019677 156 ERERERGRRRSVSPPR 171 (337)
Q Consensus 156 ~r~r~r~rsr~~sp~~ 171 (337)
++.+.|++|+++||+.
T Consensus 353 errrRRSrSrsRspR~ 368 (479)
T KOG4676|consen 353 ERRRRRSRSRSRSPRT 368 (479)
T ss_pred hhhhhhccccccCCCC
Confidence 3344445555555544
No 11
>PF08648 DUF1777: Protein of unknown function (DUF1777); InterPro: IPR013957 This entry shows eukaryotic proteins of unknown function. Some of the proteins are putative nucleic acid binding proteins.
Probab=96.48 E-value=0.0041 Score=55.69 Aligned_cols=15 Identities=20% Similarity=0.322 Sum_probs=10.3
Q ss_pred CcccccccccCCccc
Q 019677 227 SGWERFEFDKDAPLD 241 (337)
Q Consensus 227 VGnipf~~tEealld 241 (337)
+|+.-|+.|+...|.
T Consensus 133 MGf~gF~TTKgK~v~ 147 (180)
T PF08648_consen 133 MGFGGFGTTKGKKVP 147 (180)
T ss_pred hcccccccCCCCccC
Confidence 555677777777666
No 12
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=95.58 E-value=0.0075 Score=61.26 Aligned_cols=13 Identities=54% Similarity=0.590 Sum_probs=5.6
Q ss_pred cCCCCCCCCCCCC
Q 019677 162 GRRRSVSPPREGR 174 (337)
Q Consensus 162 ~rsr~~sp~~~~~ 174 (337)
.+.|++|..+..+
T Consensus 355 rrRRSrSrsRspR 367 (479)
T KOG4676|consen 355 RRRRSRSRSRSPR 367 (479)
T ss_pred hhhhccccccCCC
Confidence 3444444444333
No 13
>PF06495 Transformer: Fruit fly transformer protein; InterPro: IPR010519 This family consists of transformer proteins from several Drosophila species and also from Ceratitis capitata (Mediterranean fruit fly). The transformer locus (tra) produces an RNA processing protein that alternatively splices the doublesex pre-mRNA in the sex determination hierarchy of Drosophila melanogaster [].; GO: 0006397 mRNA processing, 0046660 female sex differentiation, 0005634 nucleus
Probab=95.20 E-value=0.017 Score=52.88 Aligned_cols=19 Identities=5% Similarity=-0.178 Sum_probs=15.6
Q ss_pred CCCcccccCCCCCCChHHH
Q 019677 188 KVDYSRLIEGYDHMTPAAI 206 (337)
Q Consensus 188 ~~d~~~~i~GfE~~TPAEk 206 (337)
.++|.++..||+|+++...
T Consensus 116 ~~yv~VPp~gf~~~y~~~~ 134 (182)
T PF06495_consen 116 TKYVDVPPPGFEYAYGWPP 134 (182)
T ss_pred eeeccCCCcccccccCCCC
Confidence 3689999999999988543
No 14
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=94.87 E-value=0.005 Score=53.75 Aligned_cols=71 Identities=14% Similarity=0.046 Sum_probs=44.8
Q ss_pred ccccCCcccccccccCCccch-hhhhhcc-CCceeEEecCCcccchhhhhhhHhhHHHHhh---hhc-cCCcccCCC
Q 019677 222 DETKGSGWERFEFDKDAPLDD-EEIEAAE-DDAALVKHIGQSFRFSAIEARREEQIKAAHD---EAM-FGASAVPPS 292 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN-~~Leaie-~Dpvl~~qInqsk~fA~vEFKseetvalA~D---gi~-fG~ptvv~~ 292 (337)
...|||+|||+.++++.|.+. ..+-.+. ...+....+++.++||||+|.+.+.+..|++ +.. -|.++.|..
T Consensus 34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 346999999999998887662 1221111 1111122356789999999999888877764 343 455555543
No 15
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=94.21 E-value=0.1 Score=55.58 Aligned_cols=37 Identities=11% Similarity=-0.071 Sum_probs=22.5
Q ss_pred ccccccchhccCCCCCCCC-----CCChh-------hHHHHHhhhcCCCCC
Q 019677 44 HTSFLSNFVRASSPTTASH-----PEKPS-------QLESIQNKLKKKPSE 82 (337)
Q Consensus 44 ~~sfls~~~~a~~l~k~~~-----~~~~~-------~l~s~~~~l~~~~~~ 82 (337)
+...+.-|+.+++| -++ .+|.+ .+.-|.+|+--+-+.
T Consensus 518 ~dlpaglm~pl~Rl--ed~~yk~ldpkdirlp~p~p~sErl~~aveAfys~ 566 (757)
T KOG4368|consen 518 FDLPAGLMAPLVRL--EDHEYKPLDPKDIRLPPPMPPSERLLAAVEAFYSP 566 (757)
T ss_pred cccchhcccccccc--cccccccCCHhhccCCCCCChHHHHHHHHHHhhcc
Confidence 45556666666776 444 44444 467788888776543
No 16
>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=93.21 E-value=0.02 Score=56.89 Aligned_cols=68 Identities=10% Similarity=0.028 Sum_probs=45.5
Q ss_pred cccccccCCcccccccccCCccch-hhhhhccCCceeEE------ecCCcccchhhhhhhHhhHHHHh---hhhc-cCCc
Q 019677 219 ANKDETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK------HIGQSFRFSAIEARREEQIKAAH---DEAM-FGAS 287 (337)
Q Consensus 219 A~adr~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~------qInqsk~fA~vEFKseetvalA~---Dgi~-fG~p 287 (337)
......|+|+|||+.++++.|.+. ..+- +|+.| .+..+++||||+|.+++.+..|+ +++. ++-+
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G-----~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~ 178 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIG-----PINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKR 178 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----CEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCce
Confidence 344567999999999999987662 1111 12222 35678899999999977766665 4444 5566
Q ss_pred ccCC
Q 019677 288 AVPP 291 (337)
Q Consensus 288 tvv~ 291 (337)
+.|.
T Consensus 179 i~V~ 182 (346)
T TIGR01659 179 LKVS 182 (346)
T ss_pred eeee
Confidence 6554
No 17
>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=93.09 E-value=0.013 Score=42.48 Aligned_cols=61 Identities=13% Similarity=0.125 Sum_probs=38.8
Q ss_pred cCCcccccccccCCccch-hhhhhccCCceeEE-ecCCcccchhhhhhhHhhHHHHh---hhhccCC
Q 019677 225 KGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK-HIGQSFRFSAIEARREEQIKAAH---DEAMFGA 286 (337)
Q Consensus 225 L~VGnipf~~tEealldN-~~Leaie~Dpvl~~-qInqsk~fA~vEFKseetvalA~---Dgi~fG~ 286 (337)
|||+|+|..++++.|.+. .....+ ....+.. ..+...++|||+|.+.+.+..|+ ++..+++
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i-~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~ 66 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKI-ESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKING 66 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTE-EEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhc-ccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECc
Confidence 589999999999887772 112111 0111111 24578999999999977766664 4655554
No 18
>KOG3263 consensus Nucleic acid binding protein [General function prediction only]
Probab=92.85 E-value=0.029 Score=51.48 Aligned_cols=6 Identities=100% Similarity=1.376 Sum_probs=2.6
Q ss_pred CCCCCC
Q 019677 164 RRSVSP 169 (337)
Q Consensus 164 sr~~sp 169 (337)
+++.||
T Consensus 84 ~rs~Sp 89 (196)
T KOG3263|consen 84 RRSVSP 89 (196)
T ss_pred hcccCC
Confidence 334444
No 19
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=92.38 E-value=0.024 Score=54.21 Aligned_cols=63 Identities=11% Similarity=0.024 Sum_probs=42.2
Q ss_pred cccCCcccccccccCCccch-hhhhhccCCceeEE------ecCCcccchhhhhhhHhhHHHHh---hhhcc-CCcccC
Q 019677 223 ETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK------HIGQSFRFSAIEARREEQIKAAH---DEAMF-GASAVP 290 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~------qInqsk~fA~vEFKseetvalA~---Dgi~f-G~ptvv 290 (337)
..|||||||+.++++.|.+. ..+- +|..| ..+++++||||+|.+.+.+..|+ ++..+ |.++.|
T Consensus 4 ~~l~V~nLp~~~~e~~l~~~F~~~G-----~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v 77 (352)
T TIGR01661 4 TNLIVNYLPQTMTQEEIRSLFTSIG-----EIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKV 77 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHccC-----CEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEE
Confidence 35899999999999987762 1111 23222 24678899999999977776665 45554 445544
No 20
>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=92.34 E-value=0.011 Score=43.71 Aligned_cols=52 Identities=17% Similarity=0.020 Sum_probs=32.2
Q ss_pred cCCcccccccccCCccchhhhhhccCCceeEEec-----CCcccchhhhhhhHhhHHHHhh
Q 019677 225 KGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHI-----GQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 225 L~VGnipf~~tEealldN~~Leaie~Dpvl~~qI-----nqsk~fA~vEFKseetvalA~D 280 (337)
++|+|||+.++++.+++- +... + +|..+.+ ++.+++|||+|.+.+.+..|+.
T Consensus 1 v~i~nlp~~~~~~~l~~~--f~~~-g-~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~ 57 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNF--FSRF-G-PVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALE 57 (70)
T ss_dssp EEEESSTTT--HHHHHHH--CTTS-S-BEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHH
T ss_pred CEEeCCCCCCCHHHHHHH--HHhc-C-CcceEEEEeeeccccCCEEEEEeCCHHHHHHHHH
Confidence 578999999988876661 1111 1 2333332 3458999999999777666654
No 21
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=92.26 E-value=0.04 Score=56.75 Aligned_cols=69 Identities=16% Similarity=-0.008 Sum_probs=45.6
Q ss_pred cccCCcccccccccCCccchh--hhhhccCCceeEEecCCcccchhhhhhhHhhHHHHhh---hhccC-CcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDE--EIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAHD---EAMFG-ASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~--~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~D---gi~fG-~ptvv~ 291 (337)
..++||||||.++++.|.+.. .+-++..-.+....++..++|+|+||+..++...|.. ++-|+ -++-|.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~ 93 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVN 93 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEee
Confidence 567899999999999987731 1111111112222378999999999999888777754 56554 444444
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=92.08 E-value=0.027 Score=58.13 Aligned_cols=65 Identities=9% Similarity=-0.047 Sum_probs=45.2
Q ss_pred ccCCcccccccccCCccchhhhhhccCCceeEEe------cCCcccchhhhhhhHhhHHHHhh---hh-ccCCcccCCC
Q 019677 224 TKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKH------IGQSFRFSAIEARREEQIKAAHD---EA-MFGASAVPPS 292 (337)
Q Consensus 224 ~L~VGnipf~~tEealldN~~Leaie~Dpvl~~q------Inqsk~fA~vEFKseetvalA~D---gi-~fG~ptvv~~ 292 (337)
+|||||||+.++++.|.+.. ... -+|+.|. +.++++||||+|.+.+.+..|++ +. ++|-++.|.-
T Consensus 2 sl~VgnLp~~vte~~L~~~F--~~~--G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~ 76 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLF--KPF--GPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMW 76 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHH--Hhc--CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeec
Confidence 58999999999999877621 111 0233332 36788999999999888888875 33 5777776643
No 23
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=91.93 E-value=0.018 Score=53.58 Aligned_cols=70 Identities=19% Similarity=0.055 Sum_probs=48.2
Q ss_pred cCCcccccccccCCccchh-h-hhhccCCceeEEecCCcccchhhhhhhHhhHHHHhh---hhc-cCCcccCCCCC
Q 019677 225 KGSGWERFEFDKDAPLDDE-E-IEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAHD---EAM-FGASAVPPSVS 294 (337)
Q Consensus 225 L~VGnipf~~tEealldN~-~-Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~D---gi~-fG~ptvv~~t~ 294 (337)
+|||++||.+||..+|-+- + .+.++.+-+-...++.+++|||+-+.+..+..+|.| ||. .|-.+-|....
T Consensus 38 Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 38 IYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred EEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 7899999999999888742 1 222222333334589999999999999888888876 665 44444444443
No 24
>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=91.44 E-value=0.06 Score=57.62 Aligned_cols=64 Identities=17% Similarity=0.087 Sum_probs=43.7
Q ss_pred cccCCcccccccccCCccchh-hhhhccCCceeEE------ecCCcccchhhhhhhHhhHHHHh---hhhcc-CCcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDE-EIEAAEDDAALVK------HIGQSFRFSAIEARREEQIKAAH---DEAMF-GASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~-~Leaie~Dpvl~~------qInqsk~fA~vEFKseetvalA~---Dgi~f-G~ptvv~ 291 (337)
..|||||||+.++++.|.+.- .+- +|..| .++++++||||+|.+.+....|+ ++..| |-++.|.
T Consensus 108 ~rLfVGnLp~~~tEe~Lr~lF~~fG-----~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~ 182 (612)
T TIGR01645 108 CRVYVGSISFELREDTIRRAFDPFG-----PIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG 182 (612)
T ss_pred CEEEEcCCCCCCCHHHHHHHHHccC-----CEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeec
Confidence 468999999999999876621 111 12222 25789999999999988877775 45554 4455554
No 25
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=91.42 E-value=0.042 Score=52.61 Aligned_cols=66 Identities=8% Similarity=-0.017 Sum_probs=40.8
Q ss_pred ccccccCCcccccccccCCccchh-hhhhccCCceeEE--ecCCcccchhhhhhhHhhHHHH---hhhhccCC
Q 019677 220 NKDETKGSGWERFEFDKDAPLDDE-EIEAAEDDAALVK--HIGQSFRFSAIEARREEQIKAA---HDEAMFGA 286 (337)
Q Consensus 220 ~adr~L~VGnipf~~tEealldN~-~Leaie~Dpvl~~--qInqsk~fA~vEFKseetvalA---~Dgi~fG~ 286 (337)
.+...|+|+|||+.++++.|.+.- .+-.+.. .-|.. +++.+++||||+|.+.+....| ++|..|++
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~-v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~g 338 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQN-VKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGN 338 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEE-EEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence 333459999999998888766621 1110111 11111 2778999999999995554444 56766654
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=91.16 E-value=0.083 Score=56.20 Aligned_cols=58 Identities=12% Similarity=-0.012 Sum_probs=39.4
Q ss_pred cccCCcccccccccCCccchh-hhhhccCCceeEEecCCcccchhhhhhhHhhHHHHhh
Q 019677 223 ETKGSGWERFEFDKDAPLDDE-EIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~-~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~D 280 (337)
-.|+|||||+.++++.|.+.. .+-.|..--++....+++++||||+|.+.+.+..|+.
T Consensus 59 ~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~ 117 (578)
T TIGR01648 59 CEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVK 117 (578)
T ss_pred CEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHH
Confidence 458999999999999987731 2211111011111357899999999999888877765
No 27
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=90.61 E-value=0.063 Score=46.39 Aligned_cols=72 Identities=17% Similarity=0.203 Sum_probs=49.1
Q ss_pred ccccCCcccccccccCCccch-hhhhhccCCceeEE--ecCCcccchhhhhhhHhhHHHHhh----hhccCCcccCCCCC
Q 019677 222 DETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK--HIGQSFRFSAIEARREEQIKAAHD----EAMFGASAVPPSVS 294 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~--qInqsk~fA~vEFKseetvalA~D----gi~fG~ptvv~~t~ 294 (337)
...|+|||||+.++++.|.+. ..+-.+ ....+.. .+..+++||||+|...+.+..|+. ..+.|-++.|+...
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~-~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPV-KRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCce-eEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 577999999999999987772 111111 0011111 367899999999999888777764 44467788777654
No 28
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=90.56 E-value=0.18 Score=52.90 Aligned_cols=43 Identities=16% Similarity=0.076 Sum_probs=29.5
Q ss_pred ecCCcccchhhhhhhHhh---HHHHhhhhccC-CcccCCCCCCCCCC
Q 019677 257 HIGQSFRFSAIEARREEQ---IKAAHDEAMFG-ASAVPPSVSSDSEP 299 (337)
Q Consensus 257 qInqsk~fA~vEFKseet---valA~Dgi~fG-~ptvv~~t~~~~~~ 299 (337)
.++.+|+|||.||.+... ...++.|+-+| .++||+-.......
T Consensus 326 ~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~ 372 (500)
T KOG0120|consen 326 ATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASN 372 (500)
T ss_pred ccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchh
Confidence 356899999999999333 44446677777 67788766644433
No 29
>PLN03120 nucleic acid binding protein; Provisional
Probab=90.05 E-value=0.1 Score=50.50 Aligned_cols=65 Identities=6% Similarity=-0.060 Sum_probs=40.3
Q ss_pred cccCCcccccccccCCccchhhhhhccCCceeEEecC---CcccchhhhhhhHhhHHHH--hhhhc-cCCcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHIG---QSFRFSAIEARREEQIKAA--HDEAM-FGASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~~Leaie~Dpvl~~qIn---qsk~fA~vEFKseetvalA--~Dgi~-fG~ptvv~ 291 (337)
..+||||||+.++++.|.+.-..- | .|..|.|. ...+||||+|.+++.+..| +++.. .|.++.|.
T Consensus 5 rtVfVgNLs~~tTE~dLrefFS~~---G-~I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt 75 (260)
T PLN03120 5 RTVKVSNVSLKATERDIKEFFSFS---G-DIEYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQSVTIT 75 (260)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhc---C-CeEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEE
Confidence 468999999999999877721110 0 12233321 2568999999997665555 45554 44455444
No 30
>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=89.48 E-value=0.093 Score=53.77 Aligned_cols=66 Identities=12% Similarity=-0.033 Sum_probs=47.4
Q ss_pred cccCCcccccccccCCccchh-hhhhccCCceeEEecCCcccchhhhhhhHhhHHHHhh-----hh-ccCCcccCCCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDE-EIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAHD-----EA-MFGASAVPPSV 293 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~-~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~D-----gi-~fG~ptvv~~t 293 (337)
+.++|+|||+.++++.|.+.. .. -+|..|.+-.+++||||||.+.+.+..|+. ++ +.|.++.|+-.
T Consensus 3 ~vv~V~nLp~~~te~~L~~~f~~f-----G~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 3 PVVHVRNLPQDVVEADLVEALIPF-----GPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred cEEEEcCCCCCCCHHHHHHHHHhc-----CCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 457899999999999877621 12 146666666789999999999888777764 33 35667777643
No 31
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=89.01 E-value=0.11 Score=52.85 Aligned_cols=121 Identities=18% Similarity=0.181 Sum_probs=75.2
Q ss_pred CCCCCcccccCCCCCCChHHHHHH-------------------------------HHhhhhccccccccccCCccccccc
Q 019677 186 NSKVDYSRLIEGYDHMTPAAIVKA-------------------------------KMKLQLAETANKDETKGSGWERFEF 234 (337)
Q Consensus 186 ~~~~d~~~~i~GfE~~TPAEkvka-------------------------------r~q~QL~~tA~adr~L~VGnipf~~ 234 (337)
+++.+--++--|+-.|++.++... ++++|-.++-...-+.|||.|-|.+
T Consensus 46 pG~~~A~k~~LGLpkLsseq~d~iqkAKKYAMeqSIK~vL~kQtiahqQQQl~~qr~q~qrqqALaiMcRvYVGSIsfEl 125 (544)
T KOG0124|consen 46 PGKKDAQKIGLGLPKLSSEQKDDIQKAKKYAMEQSIKQVLLKQTIAHQQQQLNQQRQQMQRQQALAIMCRVYVGSISFEL 125 (544)
T ss_pred CCchhHHhhccCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHheeeeeeEEEe
Confidence 355566666678888888743220 2223323333444568999999999
Q ss_pred ccCCccc---hhh-hhhcc--CCceeEEecCCcccchhhhhhhHhhHHHHhh---hhccCC-ccc--CCCCCCCCCCCCC
Q 019677 235 DKDAPLD---DEE-IEAAE--DDAALVKHIGQSFRFSAIEARREEQIKAAHD---EAMFGA-SAV--PPSVSSDSEPEPD 302 (337)
Q Consensus 235 tEealld---N~~-Leaie--~Dpvl~~qInqsk~fA~vEFKseetvalA~D---gi~fG~-ptv--v~~t~~~~~~~~~ 302 (337)
-|+++-. .-+ |.-|+ =||+ +.+-|+|||||+.-.|-..+|++ +.++|+ .+- .|+++.-.+|-..
T Consensus 126 ~EDtiR~AF~PFGPIKSInMSWDp~----T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQpiID 201 (544)
T KOG0124|consen 126 REDTIRRAFDPFGPIKSINMSWDPA----TGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIID 201 (544)
T ss_pred chHHHHhhccCCCCcceeecccccc----cccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCcccchHHH
Confidence 8887544 111 22233 3777 88999999999999989999986 666775 333 3466655555443
Q ss_pred CcccccCC
Q 019677 303 SSEKKSSD 310 (337)
Q Consensus 303 ~~~~~~~~ 310 (337)
-..+++++
T Consensus 202 ~vqeeAk~ 209 (544)
T KOG0124|consen 202 MVQEEAKK 209 (544)
T ss_pred HHHHHHHh
Confidence 33334333
No 32
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=88.49 E-value=0.21 Score=49.67 Aligned_cols=12 Identities=58% Similarity=1.002 Sum_probs=4.4
Q ss_pred CCccccccccCC
Q 019677 116 DRDRERSHRDRG 127 (337)
Q Consensus 116 ~r~r~r~~r~r~ 127 (337)
+|+++|++||++
T Consensus 268 ~rd~~rr~rd~~ 279 (319)
T KOG0796|consen 268 SRDRDRRSRDRS 279 (319)
T ss_pred cccccccCCccc
Confidence 333333333333
No 33
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=88.32 E-value=0.84 Score=48.91 Aligned_cols=15 Identities=47% Similarity=0.771 Sum_probs=5.9
Q ss_pred hhhhhhccCCCCCCC
Q 019677 155 RERERERGRRRSVSP 169 (337)
Q Consensus 155 r~r~r~r~rsr~~sp 169 (337)
++|+++|+||.++++
T Consensus 645 rSrs~SRsrS~srs~ 659 (757)
T KOG4368|consen 645 RSRSQSRSRSKSYSP 659 (757)
T ss_pred ccccCCcccccccCC
Confidence 333334444443333
No 34
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=85.54 E-value=0.2 Score=46.73 Aligned_cols=72 Identities=15% Similarity=0.082 Sum_probs=51.0
Q ss_pred cccccccccCCcccccccccCCccchhhhhhccCCceeEEe------cCCcccchhhhhhhHhhHHHHhh---hh-ccCC
Q 019677 217 ETANKDETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKH------IGQSFRFSAIEARREEQIKAAHD---EA-MFGA 286 (337)
Q Consensus 217 ~tA~adr~L~VGnipf~~tEealldN~~Leaie~Dpvl~~q------Inqsk~fA~vEFKseetvalA~D---gi-~fG~ 286 (337)
....++-.+|||||+..++++.|.+.. +.--||+.++ ++..++|+|+||.+++-+.-|.. .+ ++|-
T Consensus 4 ~~rnqd~tiyvgnld~kvs~~~l~EL~----iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgr 79 (203)
T KOG0131|consen 4 IERNQDATLYVGNLDEKVSEELLYELF----IQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGR 79 (203)
T ss_pred cccCCCceEEEecCCHHHHHHHHHHHH----HhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCc
Confidence 345677889999999988888766621 1122555555 45688999999999988887754 33 3888
Q ss_pred cccCCC
Q 019677 287 SAVPPS 292 (337)
Q Consensus 287 ptvv~~ 292 (337)
|+-|..
T Consensus 80 pIrv~k 85 (203)
T KOG0131|consen 80 PIRVNK 85 (203)
T ss_pred eeEEEe
Confidence 886653
No 35
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=85.37 E-value=0.39 Score=44.56 Aligned_cols=65 Identities=11% Similarity=-0.053 Sum_probs=41.3
Q ss_pred ccccCCcccccccccCCccchhhhhhccCCceeEEecC-CcccchhhhhhhH---hhHHHHhhhhc-cCCcccC
Q 019677 222 DETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHIG-QSFRFSAIEARRE---EQIKAAHDEAM-FGASAVP 290 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN~~Leaie~Dpvl~~qIn-qsk~fA~vEFKse---etvalA~Dgi~-fG~ptvv 290 (337)
+..+|||||++.+++..|-. .+.+. -|+-.++|. ..-+||||||.+. +.+.-+|||.. .|.-+-|
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~--~F~~y--G~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rV 79 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELER--AFSKY--GPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRV 79 (195)
T ss_pred CceEEeccCCCCcchHHHHH--HHHhc--CcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEE
Confidence 45689999999988876422 11111 155555654 5678999999983 33445577665 4555533
No 36
>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=84.68 E-value=0.53 Score=50.22 Aligned_cols=70 Identities=10% Similarity=0.085 Sum_probs=44.1
Q ss_pred ccccCCcccccccccCCccch-hhhhhccCCceeEE---ecCCcccchhhhhhhHhhHHHHhhhh------ccCCcccCC
Q 019677 222 DETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK---HIGQSFRFSAIEARREEQIKAAHDEA------MFGASAVPP 291 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~---qInqsk~fA~vEFKseetvalA~Dgi------~fG~ptvv~ 291 (337)
...|+|+|||+.++++.|++. ..+.....+.++.. ...+.++|+||+|.+.+..++|+... ++|..+.|.
T Consensus 138 ~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~Vd 217 (578)
T TIGR01648 138 NCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVD 217 (578)
T ss_pred CceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEE
Confidence 456999999999999887772 11111111112111 12457899999999988888887643 345555554
No 37
>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=83.49 E-value=0.26 Score=49.08 Aligned_cols=59 Identities=12% Similarity=-0.035 Sum_probs=37.0
Q ss_pred ccccCCcccccccccCCccch-hhhhhccCCcee-EEecCCcccchhhhhhhHhhHHHHhh
Q 019677 222 DETKGSGWERFEFDKDAPLDD-EEIEAAEDDAAL-VKHIGQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN-~~Leaie~Dpvl-~~qInqsk~fA~vEFKseetvalA~D 280 (337)
...|+|+|||+.++++.|.+. ...-.+..-.|+ ....+..++|+||+|.+.+.+..|+.
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~ 253 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAIS 253 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHH
Confidence 345899999999999876662 111111000011 11256778999999999777666654
No 38
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=83.15 E-value=0.27 Score=47.13 Aligned_cols=72 Identities=13% Similarity=-0.039 Sum_probs=49.5
Q ss_pred cccccccccCCcccccccccCCccchhhhhhccCCceeEEecC----CcccchhhhhhhHhhHHHHhh---hhc-cCCcc
Q 019677 217 ETANKDETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHIG----QSFRFSAIEARREEQIKAAHD---EAM-FGASA 288 (337)
Q Consensus 217 ~tA~adr~L~VGnipf~~tEealldN~~Leaie~Dpvl~~qIn----qsk~fA~vEFKseetvalA~D---gi~-fG~pt 288 (337)
+++..|+.|+|+|+.-+++++.|.+ .-| ..-||+-+-|. +.-.||||+|+.|-+|.+|.. |+- |+-++
T Consensus 4 aaae~drtl~v~n~~~~v~eelL~E-lfi---qaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~ 79 (267)
T KOG4454|consen 4 AAAEMDRTLLVQNMYSGVSEELLSE-LFI---QAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEE 79 (267)
T ss_pred CCcchhhHHHHHhhhhhhhHHHHHH-Hhh---ccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchh
Confidence 4567888999999988888775433 112 23366666553 334499999999999988864 443 67666
Q ss_pred cCCC
Q 019677 289 VPPS 292 (337)
Q Consensus 289 vv~~ 292 (337)
-++.
T Consensus 80 q~~~ 83 (267)
T KOG4454|consen 80 QRTL 83 (267)
T ss_pred hccc
Confidence 6653
No 39
>PLN03121 nucleic acid binding protein; Provisional
Probab=79.19 E-value=0.54 Score=45.24 Aligned_cols=64 Identities=11% Similarity=-0.095 Sum_probs=40.5
Q ss_pred ccCCcccccccccCCccchhhhhhccCCceeEEec---CCcccchhhhhhhHhhHHHHh--hhhc-cCCcccCC
Q 019677 224 TKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHI---GQSFRFSAIEARREEQIKAAH--DEAM-FGASAVPP 291 (337)
Q Consensus 224 ~L~VGnipf~~tEealldN~~Leaie~Dpvl~~qI---nqsk~fA~vEFKseetvalA~--Dgi~-fG~ptvv~ 291 (337)
.++|+||.+..++..|-+.-..- . .|..|+| +..++|+||+|++++.+..|+ .|.. .+.++.|.
T Consensus 7 TV~V~NLS~~tTE~dLrefFS~~-G---~I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It 76 (243)
T PLN03121 7 TAEVTNLSPKATEKDVYDFFSHC-G---AIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGATIVDQRVCIT 76 (243)
T ss_pred EEEEecCCCCCCHHHHHHHHHhc-C---CeEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEE
Confidence 46899999999998866621110 0 1222222 456789999999977776664 4544 55566444
No 40
>smart00362 RRM_2 RNA recognition motif.
Probab=77.85 E-value=0.85 Score=31.74 Aligned_cols=51 Identities=18% Similarity=0.109 Sum_probs=31.9
Q ss_pred cCCcccccccccCCccch-hhhhhccCCceeEEec----CCcccchhhhhhhHhhHHHHhh
Q 019677 225 KGSGWERFEFDKDAPLDD-EEIEAAEDDAALVKHI----GQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 225 L~VGnipf~~tEealldN-~~Leaie~Dpvl~~qI----nqsk~fA~vEFKseetvalA~D 280 (337)
++|+|+|...+.+.+.+. ... .++..+.+ +...++++++|.+.+....|+.
T Consensus 2 v~i~~l~~~~~~~~l~~~~~~~-----g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~ 57 (72)
T smart00362 2 LFVGNLPPDVTEEDLKELFSKF-----GPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIE 57 (72)
T ss_pred EEEcCCCCcCCHHHHHHHHHhc-----CCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHH
Confidence 578899988887765551 111 12333333 3346999999999766665543
No 41
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=76.53 E-value=0.79 Score=43.74 Aligned_cols=65 Identities=15% Similarity=-0.011 Sum_probs=40.8
Q ss_pred cccCCcccccccccCCccchh---h--h-hhccCCceeEEecCCcccchhhhhhh---HhhHHHHhhhhcc-CCcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDE---E--I-EAAEDDAALVKHIGQSFRFSAIEARR---EEQIKAAHDEAMF-GASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~---~--L-eaie~Dpvl~~qInqsk~fA~vEFKs---eetvalA~Dgi~f-G~ptvv~ 291 (337)
-.|.|-||.|-.+.+.|--+. + . .-|+-|+. +.++.+||||-|+. .+.+..|+||+++ |--+-||
T Consensus 14 ~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~----Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq 88 (256)
T KOG4207|consen 14 TSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRY----TRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQ 88 (256)
T ss_pred eeEEecceeccCCHHHHHHHHHHhCcccceecccccc----cccccceeEEEeeecchHHHHHHhhcceeeccceeeeh
Confidence 446677888776666554421 1 1 12555665 88999999999988 3334556788874 4344444
No 42
>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=75.58 E-value=0.73 Score=49.54 Aligned_cols=58 Identities=9% Similarity=-0.068 Sum_probs=37.9
Q ss_pred cccCCcccccccccCCccch-hhhhhccCCceeEE--ecCCcccchhhhhhhHhhHHHHhhh
Q 019677 223 ETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK--HIGQSFRFSAIEARREEQIKAAHDE 281 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~--qInqsk~fA~vEFKseetvalA~Dg 281 (337)
..||||||++.++++.|.+. ..+-.+ ....|.. ..+..++|+||+|.+.+....|+..
T Consensus 205 ~rLfVgnLp~~vteedLk~lFs~FG~I-~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~a 265 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIKSVFEAFGEI-VKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIAS 265 (612)
T ss_pred ceEEeecCCCCCCHHHHHHHHhhcCCe-eEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHH
Confidence 56999999999998876552 111100 0111111 1457899999999998887777653
No 43
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=74.86 E-value=0.7 Score=44.44 Aligned_cols=54 Identities=20% Similarity=0.194 Sum_probs=38.3
Q ss_pred ccCCcccccccccCCccc-hhhh-hhccCCceeEE--ecCCcccchhhhhhhHhhHHHHh
Q 019677 224 TKGSGWERFEFDKDAPLD-DEEI-EAAEDDAALVK--HIGQSFRFSAIEARREEQIKAAH 279 (337)
Q Consensus 224 ~L~VGnipf~~tEealld-N~~L-eaie~Dpvl~~--qInqsk~fA~vEFKseetvalA~ 279 (337)
+++||+++.....+.|.. =+++ +.+ ++||.+ +++++|+++||.|++.+...-|+
T Consensus 14 KifVggL~w~T~~~~l~~yFeqfGeI~--eavvitd~~t~rskGyGfVTf~d~~aa~rAc 71 (247)
T KOG0149|consen 14 KIFVGGLAWETHKETLRRYFEQFGEIV--EAVVITDKNTGRSKGYGFVTFRDAEAATRAC 71 (247)
T ss_pred EEEEcCcccccchHHHHHHHHHhCceE--EEEEEeccCCccccceeeEEeecHHHHHHHh
Confidence 468999999888888776 2332 112 345555 48899999999999977665554
No 44
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=74.16 E-value=2.1 Score=47.75 Aligned_cols=16 Identities=44% Similarity=0.636 Sum_probs=7.0
Q ss_pred hhccCCCCCCCCCCCC
Q 019677 159 RERGRRRSVSPPREGR 174 (337)
Q Consensus 159 r~r~rsr~~sp~~~~~ 174 (337)
++++|-+.+.|+|..|
T Consensus 347 rs~rRErer~prRr~R 362 (1194)
T KOG4246|consen 347 RSRRRERERIPRRRER 362 (1194)
T ss_pred cccchhhhcchHhhhh
Confidence 3333444455555333
No 45
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=72.68 E-value=1.9 Score=46.77 Aligned_cols=6 Identities=33% Similarity=0.767 Sum_probs=2.3
Q ss_pred CCcccc
Q 019677 145 DGNRER 150 (337)
Q Consensus 145 ~~~r~r 150 (337)
+++|++
T Consensus 783 ~sSrd~ 788 (878)
T KOG1847|consen 783 DSSRDE 788 (878)
T ss_pred ccccCc
Confidence 333333
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=72.02 E-value=2.6 Score=44.02 Aligned_cols=74 Identities=16% Similarity=0.099 Sum_probs=52.8
Q ss_pred CCCCcccccCCCCCCChHHHHHHHHhhhhccccccccccCCcccccccccCCccchhh----h-h-hccCCceeEEecCC
Q 019677 187 SKVDYSRLIEGYDHMTPAAIVKAKMKLQLAETANKDETKGSGWERFEFDKDAPLDDEE----I-E-AAEDDAALVKHIGQ 260 (337)
Q Consensus 187 ~~~d~~~~i~GfE~~TPAEkvkar~q~QL~~tA~adr~L~VGnipf~~tEealldN~~----L-e-aie~Dpvl~~qInq 260 (337)
++..|+-+++|+|...| ...--+|||.||-++.|+.|+..++ | + -+-.||+ .+.
T Consensus 64 gqrk~ggPpP~weg~~p----------------~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~----sG~ 123 (506)
T KOG0117|consen 64 GQRKYGGPPPGWEGPPP----------------PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPF----SGD 123 (506)
T ss_pred cccccCCCCCcccCCCC----------------CCCceEEecCCCccccchhhHHHHHhccceeeEEEeeccc----CCC
Confidence 44567777777776665 1122378999999999999888432 1 1 1346777 899
Q ss_pred cccchhhhhhhHhhHHHHhh
Q 019677 261 SFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 261 sk~fA~vEFKseetvalA~D 280 (337)
++++|||.|++.+..+.|.+
T Consensus 124 nRGYAFVtf~~Ke~Aq~Aik 143 (506)
T KOG0117|consen 124 NRGYAFVTFCTKEEAQEAIK 143 (506)
T ss_pred CcceEEEEeecHHHHHHHHH
Confidence 99999999999777776654
No 47
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=71.29 E-value=2 Score=44.76 Aligned_cols=88 Identities=16% Similarity=0.157 Sum_probs=52.0
Q ss_pred ccccCCcccccccccCCccch-hhhhhccCCceeEE---ecCCcccchhhhhhhHhhHHHHhhhhc------cCCcccCC
Q 019677 222 DETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK---HIGQSFRFSAIEARREEQIKAAHDEAM------FGASAVPP 291 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~---qInqsk~fA~vEFKseetvalA~Dgi~------fG~ptvv~ 291 (337)
.-+|+|||||..-+++.+++. +.+...-.|-+|-. +..+..+|||||+-+-.+.++|-..++ +|..+.|.
T Consensus 164 n~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVd 243 (506)
T KOG0117|consen 164 NCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVD 243 (506)
T ss_pred cceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceee
Confidence 346999999999999998882 22211001212111 234677899999999888888866544 44444443
Q ss_pred CCCCCCCCCCCCcccccCCccc
Q 019677 292 SVSSDSEPEPDSSEKKSSDGDI 313 (337)
Q Consensus 292 ~t~~~~~~~~~~~~~~~~~~~~ 313 (337)
=- +|+.+-+++...++.+
T Consensus 244 WA----ep~~e~ded~ms~VKv 261 (506)
T KOG0117|consen 244 WA----EPEEEPDEDTMSKVKV 261 (506)
T ss_pred cc----CcccCCChhhhhheee
Confidence 22 2444434444455544
No 48
>PLN03213 repressor of silencing 3; Provisional
Probab=69.59 E-value=0.92 Score=47.98 Aligned_cols=65 Identities=9% Similarity=-0.004 Sum_probs=40.1
Q ss_pred cccCCcccccccccCCccchhhhhhccCCceeEEec--CCcccchhhhhhhH--hhHHHH---hhhhc-cCCcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHI--GQSFRFSAIEARRE--EQIKAA---HDEAM-FGASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~~Leaie~Dpvl~~qI--nqsk~fA~vEFKse--etvalA---~Dgi~-fG~ptvv~ 291 (337)
-+||||||.+.++++.|... +.... .|..|+| ..-++||||+|..+ .....| |++.- +|..+-|+
T Consensus 11 MRIYVGNLSydVTEDDLrav--FSeFG--sVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLLKI--FSPMG--TVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE 83 (759)
T ss_pred eEEEEeCCCCCCCHHHHHHH--HHhcC--CeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence 46899999999999876662 11000 0222221 12289999999975 344444 45555 77777665
No 49
>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=69.11 E-value=1.4 Score=45.67 Aligned_cols=69 Identities=12% Similarity=-0.017 Sum_probs=41.4
Q ss_pred ccccCCcccccccccCCccchh-hhhhccCCceeEEecCCcccchhhhhhhHhhHHHHh---hhhccCC-cccC
Q 019677 222 DETKGSGWERFEFDKDAPLDDE-EIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAH---DEAMFGA-SAVP 290 (337)
Q Consensus 222 dr~L~VGnipf~~tEealldN~-~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~---Dgi~fG~-ptvv 290 (337)
...|||+|+++.++++.|.+.. ..-.|..=-++....+.+++|+||+|.+.+.+..|+ .+.+|++ ++.|
T Consensus 285 ~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V 358 (562)
T TIGR01628 285 GVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYV 358 (562)
T ss_pred CCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEE
Confidence 3458999999999988766621 111010001111135688999999999966665554 4555543 4433
No 50
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=68.37 E-value=3.4 Score=43.93 Aligned_cols=7 Identities=14% Similarity=0.240 Sum_probs=3.4
Q ss_pred cCCceeE
Q 019677 249 EDDAALV 255 (337)
Q Consensus 249 e~Dpvl~ 255 (337)
.+.|+|.
T Consensus 556 ~~r~klt 562 (653)
T KOG2548|consen 556 NSRPKLT 562 (653)
T ss_pred CCCCccc
Confidence 3455554
No 51
>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=67.42 E-value=1.3 Score=30.98 Aligned_cols=51 Identities=16% Similarity=0.047 Sum_probs=31.7
Q ss_pred cCCcccccccccCCccch-hhhhhccCCceeEEecC-----CcccchhhhhhhHhhHHHHhh
Q 019677 225 KGSGWERFEFDKDAPLDD-EEIEAAEDDAALVKHIG-----QSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 225 L~VGnipf~~tEealldN-~~Leaie~Dpvl~~qIn-----qsk~fA~vEFKseetvalA~D 280 (337)
++++++|+..+++.+.+. ..+ .++..+.+. ..+++++++|.+.+....|++
T Consensus 2 i~i~~l~~~~~~~~i~~~~~~~-----g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~ 58 (74)
T cd00590 2 LFVGNLPPDVTEEDLRELFSKF-----GKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALE 58 (74)
T ss_pred EEEeCCCCccCHHHHHHHHHhc-----CCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHH
Confidence 567889988777665441 121 123333332 347899999999777666654
No 52
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=66.53 E-value=10 Score=37.90 Aligned_cols=7 Identities=0% Similarity=-0.149 Sum_probs=2.9
Q ss_pred CCChhhH
Q 019677 63 PEKPSQL 69 (337)
Q Consensus 63 ~~~~~~l 69 (337)
.+|++.+
T Consensus 171 rri~VDv 177 (335)
T KOG0113|consen 171 RRILVDV 177 (335)
T ss_pred cEEEEEe
Confidence 4444443
No 53
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=65.15 E-value=1.1 Score=40.06 Aligned_cols=57 Identities=16% Similarity=0.005 Sum_probs=36.5
Q ss_pred ccccccCCcccccccccCCccch---hh-hh-hcc-CCceeEEecCCcccchhhhhhhHhhHHHHhh
Q 019677 220 NKDETKGSGWERFEFDKDAPLDD---EE-IE-AAE-DDAALVKHIGQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 220 ~adr~L~VGnipf~~tEealldN---~~-Le-aie-~Dpvl~~qInqsk~fA~vEFKseetvalA~D 280 (337)
.+.-.+|||||.|..+|+++.+. ++ |- +|- -|-+ .-..=+|+||||-..+....|+.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~----kktpCGFCFVeyy~~~dA~~Alr 96 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRF----KKTPCGFCFVEYYSRDDAEDALR 96 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccC----CcCccceEEEEEecchhHHHHHH
Confidence 44455899999999999998772 21 21 011 1211 33445899999999666666654
No 54
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=60.47 E-value=3.8 Score=38.85 Aligned_cols=50 Identities=20% Similarity=0.135 Sum_probs=30.9
Q ss_pred cCCcccccccccCCccch-hhhhhccCCceeE------EecCCcccchhhhhhhHhhHHHH
Q 019677 225 KGSGWERFEFDKDAPLDD-EEIEAAEDDAALV------KHIGQSFRFSAIEARREEQIKAA 278 (337)
Q Consensus 225 L~VGnipf~~tEealldN-~~Leaie~Dpvl~------~qInqsk~fA~vEFKseetvalA 278 (337)
+|++-+|+++.+..++.- .+. +.++.- .-++.+|+||||||-+++-...|
T Consensus 52 ~~~~~~p~g~~e~~~~~~~~q~----~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~Ia 108 (214)
T KOG4208|consen 52 VYVDHIPHGFFETEILNYFRQF----GGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIA 108 (214)
T ss_pred eeecccccchhHHHHhhhhhhc----CCeeEEEEeecccccCCcCceEEEEeccHHHHHHH
Confidence 456667777776665541 111 112222 23789999999999997665444
No 55
>smart00360 RRM RNA recognition motif.
Probab=60.12 E-value=4.1 Score=28.03 Aligned_cols=49 Identities=16% Similarity=0.125 Sum_probs=28.7
Q ss_pred CcccccccccCCccch-hhhhhccCCceeEEe------cCCcccchhhhhhhHhhHHHHhh
Q 019677 227 SGWERFEFDKDAPLDD-EEIEAAEDDAALVKH------IGQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 227 VGnipf~~tEealldN-~~Leaie~Dpvl~~q------Inqsk~fA~vEFKseetvalA~D 280 (337)
|+|+|..++++.+... .... ++..+. ....+++|||+|.+.+.+..|+.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g-----~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~ 56 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFG-----KIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALE 56 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhC-----CEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHH
Confidence 4577777777665541 1111 222222 23457899999999777666654
No 56
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=58.87 E-value=3.5 Score=40.75 Aligned_cols=60 Identities=7% Similarity=-0.025 Sum_probs=40.0
Q ss_pred ccccccccccCCcccccccccCCccchhhhhhccCCceeEEecCCcccchhhhhhhHhhHHHHh
Q 019677 216 AETANKDETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAH 279 (337)
Q Consensus 216 ~~tA~adr~L~VGnipf~~tEealldN~~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~ 279 (337)
-++....-..|||||+.+++++.|-. .+. +=-|+.-+.|-++++||||-|.+.|..+-|+
T Consensus 158 NQssp~NtsVY~G~I~~~lte~~mr~--~Fs--~fG~I~EVRvFk~qGYaFVrF~tkEaAahAI 217 (321)
T KOG0148|consen 158 NQSSPDNTSVYVGNIASGLTEDLMRQ--TFS--PFGPIQEVRVFKDQGYAFVRFETKEAAAHAI 217 (321)
T ss_pred ccCCCCCceEEeCCcCccccHHHHHH--hcc--cCCcceEEEEecccceEEEEecchhhHHHHH
Confidence 33444445678999888777665433 111 1125666678999999999999988766554
No 57
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=53.14 E-value=7.1 Score=37.14 Aligned_cols=65 Identities=17% Similarity=0.080 Sum_probs=40.8
Q ss_pred cccccCCcccccccccCCccc---hhh-hh--hccCCceeEEecCCcccchhhhhhhHhhHHHHh--hh-hccCCccc
Q 019677 221 KDETKGSGWERFEFDKDAPLD---DEE-IE--AAEDDAALVKHIGQSFRFSAIEARREEQIKAAH--DE-AMFGASAV 289 (337)
Q Consensus 221 adr~L~VGnipf~~tEealld---N~~-Le--aie~Dpvl~~qInqsk~fA~vEFKseetvalA~--Dg-i~fG~ptv 289 (337)
....+++||+-|.++.+.+.. +|+ ++ .++-|-+ .++.|+|+|+||.+.+.+.-|+ ++ -+.|.++.
T Consensus 100 d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~----~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~ 173 (231)
T KOG4209|consen 100 DAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKF----RGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIE 173 (231)
T ss_pred CCceEEEeccccccccchhhheeeccCCccceeeecccc----CCCcceeEEEecccHhhhHHHhhcCCcccccccce
Confidence 345678999999888766332 332 22 2233333 6679999999999977766555 43 33444443
No 58
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=52.05 E-value=17 Score=40.58 Aligned_cols=15 Identities=27% Similarity=0.510 Sum_probs=10.0
Q ss_pred hhhccCCcccCCCCC
Q 019677 280 DEAMFGASAVPPSVS 294 (337)
Q Consensus 280 Dgi~fG~ptvv~~t~ 294 (337)
.+++|++-++++...
T Consensus 528 egam~d~~t~~p~~k 542 (894)
T KOG0132|consen 528 EGAMLDGTTGPPEWK 542 (894)
T ss_pred hhceecCccCCcccc
Confidence 477788777666544
No 59
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=51.03 E-value=4.9 Score=41.92 Aligned_cols=89 Identities=19% Similarity=0.035 Sum_probs=53.9
Q ss_pred hhhcccccccc---ccCCcccccccccCCccch--hhhhhccCCceeEEecCCcccchhhhhhhHhh----HHHHhhhhc
Q 019677 213 LQLAETANKDE---TKGSGWERFEFDKDAPLDD--EEIEAAEDDAALVKHIGQSFRFSAIEARREEQ----IKAAHDEAM 283 (337)
Q Consensus 213 ~QL~~tA~adr---~L~VGnipf~~tEealldN--~~Leaie~Dpvl~~qInqsk~fA~vEFKseet----valA~Dgi~ 283 (337)
.-+..+...|. .||||-||-..+|..+... +=.++.+.+-+-.+-++++++.+||-|.+.+. +.+-|..+.
T Consensus 22 ~~~~~~d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~kt 101 (510)
T KOG0144|consen 22 GSLDHTDNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKT 101 (510)
T ss_pred CCCCCCCCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccc
Confidence 33444444443 3799999999998887762 11122222222223388999999999998322 334456554
Q ss_pred -cCCcccCCCCCCCCCCCC
Q 019677 284 -FGASAVPPSVSSDSEPEP 301 (337)
Q Consensus 284 -fG~ptvv~~t~~~~~~~~ 301 (337)
.|+...|+.-.+|.|.|.
T Consensus 102 lpG~~~pvqvk~Ad~E~er 120 (510)
T KOG0144|consen 102 LPGMHHPVQVKYADGERER 120 (510)
T ss_pred cCCCCcceeecccchhhhc
Confidence 676666666666666555
No 60
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=50.74 E-value=8.5 Score=38.99 Aligned_cols=52 Identities=12% Similarity=0.028 Sum_probs=34.4
Q ss_pred ccccccCCcccccccccCCccch-hhhhhccCCceeEEe----cCCcccchhhhhhhHhhHH
Q 019677 220 NKDETKGSGWERFEFDKDAPLDD-EEIEAAEDDAALVKH----IGQSFRFSAIEARREEQIK 276 (337)
Q Consensus 220 ~adr~L~VGnipf~~tEealldN-~~Leaie~Dpvl~~q----Inqsk~fA~vEFKseetva 276 (337)
-.+++|+|.||||.+-+-.|... ..+ -+|+.|. =.-+|+|+||.|...+...
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kf-----G~VldVEIIfNERGSKGFGFVTmen~~dad 150 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKF-----GKVLDVEIIFNERGSKGFGFVTMENPADAD 150 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhh-----CceeeEEEEeccCCCCccceEEecChhhHH
Confidence 34467999999999977654441 111 1344444 3469999999999855543
No 61
>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=50.10 E-value=6.6 Score=40.38 Aligned_cols=61 Identities=7% Similarity=-0.064 Sum_probs=36.3
Q ss_pred ccCCcccccccccCCccchhhhhhccCC-ceeEEec----CCcccchhhhhhhHhhHHHHh---hhhccCCc
Q 019677 224 TKGSGWERFEFDKDAPLDDEEIEAAEDD-AALVKHI----GQSFRFSAIEARREEQIKAAH---DEAMFGAS 287 (337)
Q Consensus 224 ~L~VGnipf~~tEealldN~~Leaie~D-pvl~~qI----nqsk~fA~vEFKseetvalA~---Dgi~fG~p 287 (337)
.|+|+|+|+.++++.|.+.- ... +. .+..+-+ +..+++|||+|.+.+.+..|+ ++..++.+
T Consensus 396 ~L~v~NLp~~~tee~L~~lF--~~~-G~~~i~~ik~~~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~ 464 (481)
T TIGR01649 396 TLHLSNIPLSVSEEDLKELF--AEN-GVHKVKKFKFFPKDNERSKMGLLEWESVEDAVEALIALNHHQLNEP 464 (481)
T ss_pred EEEEecCCCCCCHHHHHHHH--Hhc-CCccceEEEEecCCCCcceeEEEEcCCHHHHHHHHHHhcCCccCCC
Confidence 47899999999988766521 111 11 1212222 223689999999977665554 45555543
No 62
>PF11671 Apis_Csd: Complementary sex determiner protein; InterPro: IPR021007 Sex determination proteins are found in eukaryotes. Proteins in this family are typically between 168 and 410 amino acids in length. It plays a role in the gender determination of around 20% of all animals. In the honeybee, the mechanism of sex determination depends on the complementary sex determiner (csd) gene which produces an SR-type protein. Males are homozygous while females are homozygous for the csd gene. Heterozygosity generates an active protein which initiates female development []. This entry represents the C-terminal end of the sex determination protein.
Probab=49.89 E-value=2.3 Score=37.75 Aligned_cols=6 Identities=33% Similarity=0.434 Sum_probs=3.1
Q ss_pred Hhhhhc
Q 019677 211 MKLQLA 216 (337)
Q Consensus 211 ~q~QL~ 216 (337)
|+.||+
T Consensus 106 ~~~qvp 111 (146)
T PF11671_consen 106 MQEQVP 111 (146)
T ss_pred ccccCC
Confidence 445555
No 63
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=46.93 E-value=6.4 Score=41.47 Aligned_cols=56 Identities=20% Similarity=0.195 Sum_probs=44.0
Q ss_pred ccccccccCCccc---hhhhhhccCCceeEEecCCcccchhhhhhhHhhHHHHh--hhhccCCcc
Q 019677 229 WERFEFDKDAPLD---DEEIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAH--DEAMFGASA 288 (337)
Q Consensus 229 nipf~~tEealld---N~~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~--Dgi~fG~pt 288 (337)
.||+.+|+..+++ |+.|+- -++++...+.-+-|||||.+++-+..|+ |-..||..-
T Consensus 17 GLPwsat~~ei~~Ff~~~~I~~----~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RY 77 (510)
T KOG4211|consen 17 GLPWSATEKEILDFFSNCGIEN----LEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRY 77 (510)
T ss_pred CCCccccHHHHHHHHhcCceeE----EEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCce
Confidence 5999999999888 677752 3555556889999999999998887776 577788655
No 64
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=45.99 E-value=4.6 Score=39.05 Aligned_cols=69 Identities=22% Similarity=0.154 Sum_probs=44.1
Q ss_pred cccccccccCCcccccccccCCccc---hh-hhh--hccCCceeEEecCCcccchhhhhhhHhhHHHHhh----hhccCC
Q 019677 217 ETANKDETKGSGWERFEFDKDAPLD---DE-EIE--AAEDDAALVKHIGQSFRFSAIEARREEQIKAAHD----EAMFGA 286 (337)
Q Consensus 217 ~tA~adr~L~VGnipf~~tEealld---N~-~Le--aie~Dpvl~~qInqsk~fA~vEFKseetvalA~D----gi~fG~ 286 (337)
+.+++-+.||||.+.-.+++..|.. .- +|. .+|-|- ...+-.+|+||||-..|..++|+| .-+||-
T Consensus 5 ~~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDy----esqkHRgFgFVefe~aEDAaaAiDNMnesEL~Gr 80 (298)
T KOG0111|consen 5 QMANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDY----ESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGR 80 (298)
T ss_pred cccccceeEEeccchHHHHHHHHHhccccccchhhcccccch----hcccccceeEEEeeccchhHHHhhcCchhhhcce
Confidence 3456667899998876666655444 00 111 112221 155678999999999888999987 455775
Q ss_pred ccc
Q 019677 287 SAV 289 (337)
Q Consensus 287 ptv 289 (337)
.+-
T Consensus 81 tir 83 (298)
T KOG0111|consen 81 TIR 83 (298)
T ss_pred eEE
Confidence 553
No 65
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=42.88 E-value=11 Score=36.68 Aligned_cols=57 Identities=11% Similarity=0.031 Sum_probs=33.3
Q ss_pred cCCcccccccccCCccch-hhhhhccCCceeEE--ecCCcccchhhhhhhHhhHHHHhhhh
Q 019677 225 KGSGWERFEFDKDAPLDD-EEIEAAEDDAALVK--HIGQSFRFSAIEARREEQIKAAHDEA 282 (337)
Q Consensus 225 L~VGnipf~~tEealldN-~~Leaie~Dpvl~~--qInqsk~fA~vEFKseetvalA~Dgi 282 (337)
+.|.|++-..++..|++. .-+-.+ .-..|+. .++.+++||||-|.+.+-.+-|++..
T Consensus 192 vRvtNLsed~~E~dL~eLf~~fg~i-~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~L 251 (270)
T KOG0122|consen 192 VRVTNLSEDMREDDLEELFRPFGPI-TRVYLARDKETGLSKGFAFVTFESRDDAARAIADL 251 (270)
T ss_pred eEEecCccccChhHHHHHhhccCcc-ceeEEEEccccCcccceEEEEEecHHHHHHHHHHc
Confidence 345566666666655441 111111 1123333 38899999999999977777776533
No 66
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=39.83 E-value=7.9 Score=36.64 Aligned_cols=53 Identities=9% Similarity=-0.101 Sum_probs=30.6
Q ss_pred cccccCCcccccccccCCccchh-hhhhccCCceeEE---ecCCcccchhhhhhhHhhHHHH
Q 019677 221 KDETKGSGWERFEFDKDAPLDDE-EIEAAEDDAALVK---HIGQSFRFSAIEARREEQIKAA 278 (337)
Q Consensus 221 adr~L~VGnipf~~tEealldN~-~Leaie~Dpvl~~---qInqsk~fA~vEFKseetvalA 278 (337)
.+..+||||+|..+-+-.+-+.- .. -+|..+ +-..--.||||||.+......|
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKy-----g~i~~ieLK~r~g~ppfafVeFEd~RDAeDA 61 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKY-----GRIREIELKNRPGPPPFAFVEFEDPRDAEDA 61 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhh-----cceEEEEeccCCCCCCeeEEEecCccchhhh
Confidence 45679999999988776654421 00 011111 1123346899999985444444
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=39.23 E-value=17 Score=39.86 Aligned_cols=66 Identities=15% Similarity=-0.024 Sum_probs=42.1
Q ss_pred cCCcccccccccCCccchhhhhhccCCceeEEe---------cCCcccchhhhhhhHhhHHHHhh----hhccCCcccCC
Q 019677 225 KGSGWERFEFDKDAPLDDEEIEAAEDDAALVKH---------IGQSFRFSAIEARREEQIKAAHD----EAMFGASAVPP 291 (337)
Q Consensus 225 L~VGnipf~~tEealldN~~Leaie~Dpvl~~q---------Inqsk~fA~vEFKseetvalA~D----gi~fG~ptvv~ 291 (337)
|||.|++|..+.+.+...... ..-|+++. .-.+.+|+||||...++...|+. -.+=|.++.|.
T Consensus 518 lfvkNlnf~Tt~e~l~~~F~k----~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk 593 (725)
T KOG0110|consen 518 LFVKNLNFDTTLEDLEDLFSK----QGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELK 593 (725)
T ss_pred hhhhcCCcccchhHHHHHHHh----cCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEE
Confidence 889999998888776661100 11233333 33466999999999887766653 23356666666
Q ss_pred CCC
Q 019677 292 SVS 294 (337)
Q Consensus 292 ~t~ 294 (337)
-+.
T Consensus 594 ~S~ 596 (725)
T KOG0110|consen 594 ISE 596 (725)
T ss_pred ecc
Confidence 554
No 68
>cd08788 CARD_NOD2_2_CARD15 Caspase activation and recruitment domain of NOD2, repeat 2. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 2. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=37.15 E-value=16 Score=29.92 Aligned_cols=21 Identities=38% Similarity=0.566 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhcCCCccccc
Q 019677 4 EKAAAYYDELTRKGGGAARFK 24 (337)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~k 24 (337)
++|.++.|....||+||++|-
T Consensus 46 qqARrLLD~V~~KG~~A~~~l 66 (81)
T cd08788 46 QQARRLLDLVKAKGEGAAKFL 66 (81)
T ss_pred HHHHHHHHHHHHHhHHHHHHH
Confidence 689999999999999999873
No 69
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=36.12 E-value=45 Score=32.81 Aligned_cols=19 Identities=11% Similarity=-0.022 Sum_probs=11.1
Q ss_pred cccccCCCCCCChHHHHHH
Q 019677 191 YSRLIEGYDHMTPAAIVKA 209 (337)
Q Consensus 191 ~~~~i~GfE~~TPAEkvka 209 (337)
|++.....++..|..+.+.
T Consensus 121 ~~k~~~~~k~~~~~dke~p 139 (293)
T KOG1882|consen 121 GGKEGIALKEVEPQDKEKP 139 (293)
T ss_pred cCCccccccccCchhccCC
Confidence 5555555666666655553
No 70
>smart00361 RRM_1 RNA recognition motif.
Probab=35.28 E-value=18 Score=27.22 Aligned_cols=29 Identities=17% Similarity=0.106 Sum_probs=21.8
Q ss_pred CCcccchhhhhhhHhhHHHHh---hhhccCCc
Q 019677 259 GQSFRFSAIEARREEQIKAAH---DEAMFGAS 287 (337)
Q Consensus 259 nqsk~fA~vEFKseetvalA~---Dgi~fG~p 287 (337)
+.+++|+||+|.+.+....|+ ++..|++-
T Consensus 34 ~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr 65 (70)
T smart00361 34 NHKRGNVYITFERSEDAARAIVDLNGRYFDGR 65 (70)
T ss_pred CCCcEEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence 678999999999977776664 46555543
No 71
>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=35.16 E-value=24 Score=25.00 Aligned_cols=34 Identities=18% Similarity=0.111 Sum_probs=22.5
Q ss_pred eeEEecCCcc-cchhhhhhhHhhHHHHh---hhhccCC
Q 019677 253 ALVKHIGQSF-RFSAIEARREEQIKAAH---DEAMFGA 286 (337)
Q Consensus 253 vl~~qInqsk-~fA~vEFKseetvalA~---Dgi~fG~ 286 (337)
|..+.+...+ ++|||+|.+.+....|. .+..|++
T Consensus 11 V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g 48 (56)
T PF13893_consen 11 VKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNG 48 (56)
T ss_dssp EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETT
T ss_pred EEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 4555555555 99999999976655554 4555543
No 72
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=29.23 E-value=20 Score=37.77 Aligned_cols=74 Identities=15% Similarity=0.087 Sum_probs=47.1
Q ss_pred ccccccCCcccccccccCCccc-h--hhhhhccCCceeEEecCCcccchhhhhhhHhhHHHHhhhhc----cCCcccCCC
Q 019677 220 NKDETKGSGWERFEFDKDAPLD-D--EEIEAAEDDAALVKHIGQSFRFSAIEARREEQIKAAHDEAM----FGASAVPPS 292 (337)
Q Consensus 220 ~adr~L~VGnipf~~tEealld-N--~~Leaie~Dpvl~~qInqsk~fA~vEFKseetvalA~Dgi~----fG~ptvv~~ 292 (337)
+-++..|+.||||..--..|.+ . +..++ +==-.+.....++++-|.||||.+|.+.-|++... -|-++||+.
T Consensus 42 ~r~R~vfItNIpyd~rWqdLKdLvrekvGev-~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 42 ARDRSVFITNIPYDYRWQDLKDLVREKVGEV-EYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE 120 (608)
T ss_pred cccceEEEecCcchhhhHhHHHHHHHhcCce-EeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence 3445578999999887666555 1 11110 00001111257889999999999999998887443 467778775
Q ss_pred CC
Q 019677 293 VS 294 (337)
Q Consensus 293 t~ 294 (337)
..
T Consensus 121 d~ 122 (608)
T KOG4212|consen 121 DH 122 (608)
T ss_pred cC
Confidence 54
No 73
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=26.50 E-value=31 Score=30.06 Aligned_cols=65 Identities=9% Similarity=-0.200 Sum_probs=42.1
Q ss_pred cccCCcccccccccCCccchhhhhhccCCceeEEe---cCCcccchhhhhhhHhhHHHHhh---hhc-cCCcccCC
Q 019677 223 ETKGSGWERFEFDKDAPLDDEEIEAAEDDAALVKH---IGQSFRFSAIEARREEQIKAAHD---EAM-FGASAVPP 291 (337)
Q Consensus 223 r~L~VGnipf~~tEealldN~~Leaie~Dpvl~~q---Inqsk~fA~vEFKseetvalA~D---gi~-fG~ptvv~ 291 (337)
+-|||-|+||.++.+.+.+.-+- =-++..+. ...+++.|||++.+..-..-|.| |-. .+..++|-
T Consensus 19 riLyirNLp~~ITseemydlFGk----yg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vl 90 (124)
T KOG0114|consen 19 RILYIRNLPFKITSEEMYDLFGK----YGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVL 90 (124)
T ss_pred eeEEEecCCccccHHHHHHHhhc----ccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEE
Confidence 45899999999999998884321 01233333 34688899999998666666655 222 34555554
No 74
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=25.13 E-value=22 Score=36.91 Aligned_cols=56 Identities=9% Similarity=0.014 Sum_probs=35.7
Q ss_pred cCCcccccccccCCccch-hhhhhccCCceeEEec-CCcccchhhhhhhHhhHHHHhh
Q 019677 225 KGSGWERFEFDKDAPLDD-EEIEAAEDDAALVKHI-GQSFRFSAIEARREEQIKAAHD 280 (337)
Q Consensus 225 L~VGnipf~~tEealldN-~~Leaie~Dpvl~~qI-nqsk~fA~vEFKseetvalA~D 280 (337)
+||.|||++.+.+.|-+. ..+-.|.-+-|.+... +....|+||+|.+.+.+..|+.
T Consensus 291 i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~ 348 (419)
T KOG0116|consen 291 IFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIE 348 (419)
T ss_pred eEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhh
Confidence 789999999988763331 2222333333333332 3444999999999777776665
No 75
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=24.38 E-value=24 Score=38.13 Aligned_cols=58 Identities=9% Similarity=0.003 Sum_probs=38.6
Q ss_pred ccccccccCCcccccccccCCccch-hhhhhcc-CCceeEEecCCcccchhhhhhhHhhH
Q 019677 218 TANKDETKGSGWERFEFDKDAPLDD-EEIEAAE-DDAALVKHIGQSFRFSAIEARREEQI 275 (337)
Q Consensus 218 tA~adr~L~VGnipf~~tEealldN-~~Leaie-~Dpvl~~qInqsk~fA~vEFKseetv 275 (337)
...-...++|-|+||.++++.|.+- ..+-.+. --+|+-..+..+++-|||.|+.....
T Consensus 288 n~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~ 347 (678)
T KOG0127|consen 288 NITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAA 347 (678)
T ss_pred cccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHH
Confidence 3344456788899999999986662 1221111 22455556999999999999995443
No 76
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=21.67 E-value=38 Score=28.91 Aligned_cols=9 Identities=78% Similarity=1.623 Sum_probs=7.9
Q ss_pred CchhHhhhh
Q 019677 328 GSWRDRFRK 336 (337)
Q Consensus 328 ~sw~~r~~~ 336 (337)
-|||||.||
T Consensus 65 ~sWRDR~RK 73 (105)
T PF09197_consen 65 NSWRDRYRK 73 (105)
T ss_dssp HHHHHHHHH
T ss_pred hHHHHHHHH
Confidence 499999998
No 77
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=21.30 E-value=33 Score=36.36 Aligned_cols=54 Identities=13% Similarity=0.093 Sum_probs=37.3
Q ss_pred ccccccccCCccc-hhhhhhccCCceeEE-ecCCcccchhhhhhhHhhHHHHhhhh
Q 019677 229 WERFEFDKDAPLD-DEEIEAAEDDAALVK-HIGQSFRFSAIEARREEQIKAAHDEA 282 (337)
Q Consensus 229 nipf~~tEealld-N~~Leaie~Dpvl~~-qInqsk~fA~vEFKseetvalA~Dgi 282 (337)
.|||.|+++.+++ -.+|+..+.--++++ +-...-+-|||+|.+.+.++.|+...
T Consensus 110 GLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rh 165 (510)
T KOG4211|consen 110 GLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRH 165 (510)
T ss_pred CCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHH
Confidence 5899999998777 445543332122233 34567788999999999998888643
No 78
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=20.88 E-value=36 Score=36.62 Aligned_cols=7 Identities=29% Similarity=0.387 Sum_probs=2.7
Q ss_pred hhccCCC
Q 019677 51 FVRASSP 57 (337)
Q Consensus 51 ~~~a~~l 57 (337)
|+.+..+
T Consensus 345 vs~p~~p 351 (653)
T KOG2548|consen 345 VSPPRSP 351 (653)
T ss_pred CCCCCCC
Confidence 3333333
No 79
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=20.54 E-value=24 Score=36.28 Aligned_cols=67 Identities=12% Similarity=0.070 Sum_probs=44.3
Q ss_pred cCCcccccccccCCccc-h--hhhhhc-cCCceeEEecCCcccchhhhhhhHhhHHHHhh----hhccC-CcccCC
Q 019677 225 KGSGWERFEFDKDAPLD-D--EEIEAA-EDDAALVKHIGQSFRFSAIEARREEQIKAAHD----EAMFG-ASAVPP 291 (337)
Q Consensus 225 L~VGnipf~~tEealld-N--~~Leai-e~Dpvl~~qInqsk~fA~vEFKseetvalA~D----gi~fG-~ptvv~ 291 (337)
+||||+-...+.+.|++ . .+++.+ +..=|-+.-.+|+|+||.|..-+++.+.--++ ..+.| .|+|.+
T Consensus 83 ~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~ 158 (498)
T KOG4849|consen 83 CYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLS 158 (498)
T ss_pred EEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeec
Confidence 79999998888877777 2 233322 22223333357999999999999888765555 44455 466655
Done!