Query 016993
Match_columns 379
No_of_seqs 162 out of 888
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 04:40:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016993.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016993hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5594 Uncharacterized integr 100.0 3.8E-67 8.3E-72 519.8 27.0 366 2-378 20-423 (827)
2 KOG1134 Uncharacterized conser 100.0 1.1E-57 2.4E-62 466.0 26.5 356 7-377 8-369 (728)
3 PF13967 RSN1_TM: Late exocyto 100.0 9.8E-39 2.1E-43 272.3 13.2 156 5-168 1-157 (157)
4 PF02714 DUF221: Domain of unk 99.4 3.4E-13 7.4E-18 128.9 6.8 62 316-377 1-62 (325)
5 PF14703 DUF4463: Domain of un 99.3 3.8E-12 8.2E-17 97.0 6.7 71 227-297 1-85 (85)
6 TIGR01659 sex-lethal sex-letha 97.2 0.0012 2.6E-08 63.4 8.4 40 187-232 105-144 (346)
7 TIGR01628 PABP-1234 polyadenyl 96.6 0.0092 2E-07 61.5 9.4 172 191-373 2-202 (562)
8 KOG0144 RNA-binding protein CU 96.5 0.0082 1.8E-07 57.4 7.0 135 187-336 32-188 (510)
9 TIGR01661 ELAV_HUD_SF ELAV/HuD 96.1 0.022 4.7E-07 54.9 8.2 37 189-231 3-39 (352)
10 TIGR01648 hnRNP-R-Q heterogene 96.0 0.049 1.1E-06 55.7 10.4 171 188-373 57-257 (578)
11 PLN03134 glycine-rich RNA-bind 95.9 0.1 2.2E-06 43.6 10.2 37 187-229 32-68 (144)
12 KOG0149 Predicted RNA-binding 94.9 0.086 1.9E-06 46.8 6.7 33 191-229 14-46 (247)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 94.3 0.19 4.1E-06 48.3 8.5 36 189-230 269-304 (352)
14 TIGR01628 PABP-1234 polyadenyl 94.1 0.73 1.6E-05 47.5 12.6 39 187-231 176-214 (562)
15 TIGR01622 SF-CC1 splicing fact 93.0 1.1 2.4E-05 44.7 11.5 36 188-229 88-123 (457)
16 TIGR01642 U2AF_lg U2 snRNP aux 92.3 0.38 8.3E-06 48.8 7.3 37 189-231 295-331 (509)
17 KOG0148 Apoptosis-promoting RN 91.8 0.37 8E-06 43.7 5.5 157 188-376 5-191 (321)
18 PLN03121 nucleic acid binding 91.8 0.28 6.1E-06 44.1 4.8 37 188-230 4-40 (243)
19 PF04059 RRM_2: RNA recognitio 91.4 0.45 9.8E-06 36.7 5.0 37 190-230 2-38 (97)
20 KOG0117 Heterogeneous nuclear 90.6 0.89 1.9E-05 44.1 7.1 66 309-374 204-284 (506)
21 TIGR01645 half-pint poly-U bin 90.4 2.1 4.6E-05 44.2 10.1 86 188-355 203-290 (612)
22 PF00076 RRM_1: RNA recognitio 90.3 0.52 1.1E-05 33.1 4.3 33 192-230 1-33 (70)
23 PLN03120 nucleic acid binding 90.3 0.49 1.1E-05 43.2 4.9 37 189-231 4-40 (260)
24 KOG4211 Splicing factor hnRNP- 89.1 0.83 1.8E-05 44.9 5.8 37 187-230 8-44 (510)
25 PF13893 RRM_5: RNA recognitio 89.1 0.73 1.6E-05 31.3 4.1 24 313-336 21-44 (56)
26 KOG4206 Spliceosomal protein s 88.4 0.54 1.2E-05 41.6 3.6 47 309-355 48-96 (221)
27 KOG0145 RNA-binding protein EL 87.3 7.1 0.00015 35.4 10.0 145 191-349 43-209 (360)
28 PF14259 RRM_6: RNA recognitio 87.2 0.96 2.1E-05 32.0 3.9 32 192-229 1-32 (70)
29 smart00362 RRM_2 RNA recogniti 87.2 1.2 2.5E-05 30.8 4.3 34 191-230 1-34 (72)
30 KOG0107 Alternative splicing f 87.0 0.55 1.2E-05 39.9 2.7 55 291-345 25-81 (195)
31 smart00361 RRM_1 RNA recogniti 86.0 1.1 2.4E-05 32.1 3.6 26 311-336 35-60 (70)
32 cd00590 RRM RRM (RNA recogniti 84.6 2 4.4E-05 29.7 4.6 33 191-229 1-33 (74)
33 PF14259 RRM_6: RNA recognitio 84.4 1.2 2.7E-05 31.4 3.3 24 311-334 37-60 (70)
34 PF00076 RRM_1: RNA recognitio 84.0 1.4 3E-05 30.8 3.4 26 310-335 36-61 (70)
35 TIGR01648 hnRNP-R-Q heterogene 80.0 2.5 5.4E-05 43.5 4.7 56 188-249 232-287 (578)
36 TIGR01659 sex-lethal sex-letha 79.5 5.3 0.00012 38.5 6.5 63 312-374 148-218 (346)
37 PF07292 NID: Nmi/IFP 35 domai 78.2 0.35 7.6E-06 36.6 -1.6 25 186-214 49-73 (88)
38 smart00362 RRM_2 RNA recogniti 76.8 3.5 7.5E-05 28.3 3.4 25 311-335 37-61 (72)
39 smart00360 RRM RNA recognition 76.0 3.6 7.8E-05 28.1 3.3 24 311-334 36-59 (71)
40 KOG0122 Translation initiation 75.4 3.7 8.1E-05 36.9 3.8 37 188-230 188-224 (270)
41 cd00590 RRM RRM (RNA recogniti 73.9 4.8 0.0001 27.7 3.6 26 311-336 38-63 (74)
42 KOG0117 Heterogeneous nuclear 72.5 3.4 7.4E-05 40.3 3.1 53 190-250 260-312 (506)
43 KOG0125 Ataxin 2-binding prote 68.1 15 0.00033 34.5 6.2 39 188-232 95-133 (376)
44 PF02388 FemAB: FemAB family; 66.5 81 0.0017 31.1 11.5 90 211-322 217-315 (406)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 65.3 9.5 0.00021 38.5 4.8 36 189-230 2-37 (481)
46 KOG0123 Polyadenylate-binding 64.9 7.9 0.00017 37.6 3.9 36 192-233 79-114 (369)
47 smart00360 RRM RNA recognition 64.8 9.4 0.0002 25.8 3.4 32 194-231 1-32 (71)
48 COG0724 RNA-binding proteins ( 63.8 12 0.00026 33.5 4.8 37 189-231 115-151 (306)
49 KOG0122 Translation initiation 62.6 11 0.00023 34.1 3.9 37 310-346 228-266 (270)
50 TIGR01622 SF-CC1 splicing fact 59.2 21 0.00045 35.6 6.0 39 187-231 184-222 (457)
51 PF01102 Glycophorin_A: Glycop 58.9 9.4 0.0002 30.8 2.7 20 12-31 74-93 (122)
52 KOG0114 Predicted RNA-binding 58.6 13 0.00028 29.0 3.3 27 311-337 55-81 (124)
53 PF11823 DUF3343: Protein of u 57.8 20 0.00042 25.9 4.1 36 314-352 2-37 (73)
54 PF14605 Nup35_RRM_2: Nup53/35 57.2 18 0.00038 24.4 3.5 33 189-228 1-33 (53)
55 KOG0226 RNA-binding proteins [ 56.8 15 0.00033 33.3 3.9 25 309-333 228-252 (290)
56 PLN03120 nucleic acid binding 55.6 22 0.00048 32.6 4.9 35 312-347 42-78 (260)
57 KOG0113 U1 small nuclear ribon 55.1 19 0.0004 33.5 4.3 37 188-230 100-136 (335)
58 KOG4208 Nucleolar RNA-binding 54.5 13 0.00029 32.6 3.1 24 310-333 89-112 (214)
59 KOG1548 Transcription elongati 54.1 32 0.0007 32.7 5.7 45 292-336 285-337 (382)
60 TIGR01649 hnRNP-L_PTB hnRNP-L/ 52.3 26 0.00056 35.4 5.3 40 187-231 273-312 (481)
61 PF11608 Limkain-b1: Limkain b 52.2 34 0.00073 25.7 4.4 41 312-352 38-80 (90)
62 KOG0132 RNA polymerase II C-te 49.9 10 0.00023 39.6 2.0 40 187-232 419-458 (894)
63 KOG1457 RNA binding protein (c 48.0 27 0.0006 31.1 4.0 21 314-334 78-98 (284)
64 PF04059 RRM_2: RNA recognitio 47.8 25 0.00053 27.2 3.3 26 311-336 43-68 (97)
65 TIGR01645 half-pint poly-U bin 47.7 28 0.00061 36.2 4.8 38 188-231 106-143 (612)
66 KOG0109 RNA-binding protein LA 47.5 20 0.00042 33.3 3.1 36 192-233 5-40 (346)
67 PLN03121 nucleic acid binding 46.7 33 0.00071 31.1 4.4 21 311-331 42-62 (243)
68 KOG0127 Nucleolar protein fibr 46.6 30 0.00065 34.9 4.5 35 190-230 293-327 (678)
69 KOG0146 RNA-binding protein ET 45.7 26 0.00057 32.0 3.6 48 310-369 57-109 (371)
70 KOG4212 RNA-binding protein hn 44.9 32 0.0007 33.7 4.3 41 186-231 41-81 (608)
71 TIGR01642 U2AF_lg U2 snRNP aux 44.9 37 0.00081 34.3 5.2 28 186-217 172-199 (509)
72 PF14654 Epiglycanin_C: Mucin, 44.1 50 0.0011 25.3 4.3 40 3-42 18-62 (106)
73 PF02439 Adeno_E3_CR2: Adenovi 42.4 72 0.0016 20.0 4.1 29 3-31 5-33 (38)
74 KOG0107 Alternative splicing f 40.2 47 0.001 28.6 4.1 43 187-235 8-50 (195)
75 KOG0125 Ataxin 2-binding prote 39.7 34 0.00075 32.3 3.5 53 310-362 133-197 (376)
76 KOG0110 RNA-binding protein (R 38.8 49 0.0011 34.5 4.8 63 311-373 558-637 (725)
77 PF11945 WASH_WAHD: WAHD domai 37.7 1.7E+02 0.0036 27.6 7.8 40 285-324 44-83 (297)
78 KOG0131 Splicing factor 3b, su 37.2 30 0.00065 29.9 2.5 39 187-231 7-45 (203)
79 KOG0105 Alternative splicing f 37.0 57 0.0012 28.3 4.2 40 186-231 112-151 (241)
80 KOG0105 Alternative splicing f 34.0 46 0.00099 28.9 3.1 26 188-217 5-30 (241)
81 KOG0120 Splicing factor U2AF, 33.8 71 0.0015 32.3 4.9 27 311-337 452-478 (500)
82 KOG1855 Predicted RNA-binding 32.5 51 0.0011 32.3 3.5 38 187-230 229-266 (484)
83 KOG0113 U1 small nuclear ribon 31.8 81 0.0017 29.5 4.5 26 309-334 139-164 (335)
84 KOG4205 RNA-binding protein mu 30.8 60 0.0013 30.7 3.8 41 189-235 97-137 (311)
85 cd04751 Commd3 COMM_Domain con 30.8 89 0.0019 23.9 4.1 31 221-251 63-93 (95)
86 cd01324 cbb3_Oxidase_CcoQ Cyto 30.6 1E+02 0.0022 20.4 3.7 30 1-30 1-34 (48)
87 KOG0108 mRNA cleavage and poly 30.0 55 0.0012 32.6 3.5 36 190-231 19-54 (435)
88 KOG0684 Cytochrome P450 [Secon 29.6 1.1E+02 0.0024 30.6 5.4 50 15-89 12-61 (486)
89 PF15023 DUF4523: Protein of u 29.3 68 0.0015 26.7 3.3 30 312-341 124-153 (166)
90 PF12273 RCR: Chitin synthesis 29.3 45 0.00098 27.0 2.4 8 21-28 16-23 (130)
91 KOG3048 Molecular chaperone Pr 28.8 76 0.0017 26.2 3.5 26 282-307 99-124 (153)
92 KOG0131 Splicing factor 3b, su 28.5 56 0.0012 28.3 2.8 25 310-334 48-72 (203)
93 KOG4207 Predicted splicing fac 27.0 73 0.0016 28.2 3.3 37 188-230 12-48 (256)
94 PF07243 Phlebovirus_G1: Phleb 26.7 29 0.00063 35.0 0.9 49 5-67 418-466 (526)
95 PHA02673 ORF109 EEV glycoprote 26.6 55 0.0012 27.5 2.4 26 85-110 29-54 (161)
96 KOG0718 Molecular chaperone (D 26.5 4.4E+02 0.0096 26.5 8.8 25 278-305 91-115 (546)
97 PF00322 Endothelin: Endotheli 26.3 22 0.00047 21.0 -0.0 6 351-356 23-28 (31)
98 KOG0144 RNA-binding protein CU 25.7 1.8E+02 0.004 28.7 6.0 28 310-337 73-100 (510)
99 PF13234 rRNA_proc-arch: rRNA- 25.3 78 0.0017 29.1 3.5 54 196-250 171-232 (268)
100 KOG0127 Nucleolar protein fibr 25.2 81 0.0018 32.0 3.6 36 190-231 6-41 (678)
101 KOG0129 Predicted RNA-binding 25.0 96 0.0021 31.2 4.1 39 187-230 368-406 (520)
102 PHA02681 ORF089 virion membran 24.9 1.2E+02 0.0025 22.5 3.5 32 6-41 3-34 (92)
103 PF15179 Myc_target_1: Myc tar 23.4 1.4E+02 0.003 25.9 4.2 34 5-38 24-57 (197)
104 PRK11020 hypothetical protein; 23.2 3.8E+02 0.0083 21.2 6.7 20 286-305 33-52 (118)
105 KOG3152 TBP-binding protein, a 23.0 1.1E+02 0.0024 28.0 3.7 36 190-231 75-110 (278)
106 KOG0145 RNA-binding protein EL 22.9 95 0.0021 28.4 3.3 71 290-361 55-134 (360)
107 PLN03213 repressor of silencin 22.8 1.5E+02 0.0032 29.9 4.8 38 187-230 8-45 (759)
108 KOG0153 Predicted RNA-binding 22.5 82 0.0018 30.0 2.9 25 311-335 262-286 (377)
109 PF10309 DUF2414: Protein of u 22.4 2.8E+02 0.0061 19.4 5.1 41 188-233 4-53 (62)
110 KOG1365 RNA-binding protein Fu 21.7 86 0.0019 30.4 2.9 25 309-333 320-344 (508)
111 PF06024 DUF912: Nucleopolyhed 21.4 45 0.00097 25.9 0.9 8 24-31 84-91 (101)
112 KOG0130 RNA-binding protein RB 21.3 1.4E+02 0.0031 24.6 3.7 37 188-230 71-107 (170)
113 KOG0114 Predicted RNA-binding 21.2 1.7E+02 0.0037 23.0 4.0 35 188-228 17-51 (124)
114 COG0724 RNA-binding proteins ( 21.1 95 0.0021 27.4 3.2 26 310-335 154-179 (306)
115 KOG4212 RNA-binding protein hn 20.5 1.3E+02 0.0029 29.6 4.0 26 309-334 82-107 (608)
116 KOG0533 RRM motif-containing p 20.3 1.4E+02 0.0031 27.1 4.0 39 187-231 81-119 (243)
117 PF15050 SCIMP: SCIMP protein 20.2 1.6E+02 0.0034 23.6 3.6 14 17-30 21-34 (133)
118 COG4064 MtrG Tetrahydromethano 20.0 2.1E+02 0.0045 20.5 3.8 24 5-28 51-74 (75)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=3.8e-67 Score=519.80 Aligned_cols=366 Identities=24% Similarity=0.382 Sum_probs=327.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHhcChhH
Q 016993 2 DFDSFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDT 81 (379)
Q Consensus 2 ~~~~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~~~Wi~~~~~~~~~~i~~~~GlDa 81 (379)
++++|+|++.++..++++++.+|++||+| +++||+||+..++.+...+++.++|+|||+.++++++|+.+++++|+||
T Consensus 20 s~~~~~t~l~f~~~~~~~~l~~f~iLR~r--~k~lY~pr~~~~~~~~~~P~~~~ss~~gWl~~L~~i~d~~~l~~aGlD~ 97 (827)
T COG5594 20 STSAVITQLVFAGLIFLVFLILFLILRKR--WKRLYAPRTNFDGQNECLPEPNPSSYWGWLEPLVKIPDEFLLQYAGLDG 97 (827)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHH--HhHhcCcceeecCCCcccCCCCccchHHHHHHHHhCCHHHHHHHcCcch
Confidence 67899999999999999999999999998 6789999998876541112278999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhheeeeeeeecccccccCCCCCCCCCccccccccccccccCccchHHHHHHHHHHHHHH
Q 016993 82 AVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVT 161 (379)
Q Consensus 82 ~~flrfl~~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~Si~Ni~~~s~~lw~h~~~~~l~~~~~ 161 (379)
|+||||+|||+++|+++|++++|||+|||++.++..+ |+ ..+.++++++|++|+.+ ++++|+|++.+|++.+++
T Consensus 98 y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~-gn----~~s~s~l~~Ls~~Nv~~-~n~~~aHvf~~~~f~~~v 171 (827)
T COG5594 98 YFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATN-GN----SDSESGLDKLSISNVSP-SNRLYAHVFLSWFFFGYV 171 (827)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhHEeeeeeeccccccc-CC----ccchhhhhHhhhhcccC-CCceeeeeehhHHHHHHH
Confidence 9999999999999999999999999999988855432 11 12468999999999987 689999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCC---------CCCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCc
Q 016993 162 YFLLWRGYKHVSELRADALMSPE---------VRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (379)
Q Consensus 162 ~~~l~~~~~~~~~~R~~~l~~~~---------~~~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~ 232 (379)
+|.+++|++.|..+||++++++. .+.++|||+++++|.++++ +++|.++|+++.-+++.+..+|||.+
T Consensus 172 lfii~~el~~y~~lr~a~~~~p~y~qs~~~~~~~~ssRTvlis~LP~~~~~---~e~L~~~~~kl~~~~i~~~~l~~~~~ 248 (827)
T COG5594 172 LFIIFRELRFYVVLRQAYLRSPLYQQSLLTLQNNLSSRTVLISGLPSELRS---DEELKELFDKLKVGEIDSDVLCRDLG 248 (827)
T ss_pred HHHHHHHHHHHHHHHHHHHccHHHHHHHHhhccCCCCceEEeecCChhhcC---chhHHHHHhhcCeeeeccchhhhhhH
Confidence 99999999999999999999876 2358999999999999999 88899999999888999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhh----------hc----------------CCCCCCCCCccccccc--cCCCcccc
Q 016993 233 EANKIYEELEGYKKKLARAEAVYAES----------KS----------------AGKPEGTRPTIKTGFL--GLLGKRVD 284 (379)
Q Consensus 233 ~l~~l~~~r~~~~~~LE~~~~~~~~~----------k~----------------~~~~~~~rp~~r~~~~--~~~g~~vd 284 (379)
.+.++.++|++..+++|.++.++... |+ ...|+++||.||.+.. |+.|||||
T Consensus 249 ~l~~l~k~R~ki~~klE~~~~~~~~~~~K~~~~~~~K~~~~L~~~~~k~~~~~~~y~~~~~Rp~~~i~k~~~~i~gKkVd 328 (827)
T COG5594 249 TLQELYKERDKILKKLEKALNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEILPEYVPDKKRPKHRIKKLNKGIFGKKVD 328 (827)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHhhccCCCCCCCcccccchhhhhhccccccchhhhhhhhhhhccceec
Confidence 99999999999999999998876422 11 1345678999987754 67899999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHhhcccCcceEEEEeCCHHHHHHHHHHhhcCCCCCeE-EeeCCCCCCeeeCCCCCChhH
Q 016993 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLVDTWT-VSDAPESRELIWNNLNIKFFQ 363 (379)
Q Consensus 285 ~i~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~~~-v~~AP~P~DI~W~Nl~~~~~~ 363 (379)
+||||++++.+++++|++.|+......+.++|||||+|+..||+|+|.+..+++.... ++.||+|+||+|+|+..++++
T Consensus 329 aI~y~s~~l~~l~~~i~~~r~~~~~~t~~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iapaPnDi~W~Nl~ls~~~ 408 (827)
T COG5594 329 AIDYYSAKLTKLDAEIENARKSLYENTPTKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAPAPNDIIWDNLRLSRKE 408 (827)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCccccCccccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecCCccccccccchHHHHH
Confidence 9999999999999999999999877778889999999999999999999999998776 999999999999999999999
Q ss_pred HHHHHHHHHhhhhcc
Q 016993 364 RQIRHGWNIVQDIQV 378 (379)
Q Consensus 364 r~~r~~~~~~~~i~~ 378 (379)
|..|++.++++.|.+
T Consensus 409 r~~k~~~~ni~~il~ 423 (827)
T COG5594 409 RLFKRISANILFILL 423 (827)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999988754
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.1e-57 Score=466.03 Aligned_cols=356 Identities=35% Similarity=0.565 Sum_probs=306.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCCCC--CCC--CCCCCCCc-ccchHHhhcCCHHHHHHhcChhH
Q 016993 7 LTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLD--PWE--GGSRTRNP-FTWIKEAMSSSEQDVINMSGLDT 81 (379)
Q Consensus 7 ~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~--p~~--~~~~~~~~-~~Wi~~~~~~~~~~i~~~~GlDa 81 (379)
..+-.++...+.+++.+|.+++.++.+.++|.|++.+.+.+ |.+ .++.+++. |+|+.++++.+|+++++++|+||
T Consensus 8 ~~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~~~~~~~~~~~~Wl~~~~k~~~~ei~~~~GlDa 87 (728)
T KOG1134|consen 8 GISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESKVEPVPSSVNFGWLPALLKIPDEEILEHAGLDA 87 (728)
T ss_pred cccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCccccCCCCCCcccccchHHHhcCCHHHHHHHhcchH
Confidence 33444555566667777777777777899999988876643 221 12445666 99999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhheeeeeeeecccccccCCCCCCCCCccccccccccccccCccchHHHHHHHHHHHHHH
Q 016993 82 AVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVT 161 (379)
Q Consensus 82 ~~flrfl~~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~Si~Ni~~~s~~lw~h~~~~~l~~~~~ 161 (379)
++||||+++++++|+++++++++||+|+|+++++..+.+ ..+++++|++|++++|+++|+|++++|++++++
T Consensus 88 ~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~~--------~~s~~~ls~snv~~~s~~lw~Hv~~~y~~~~~~ 159 (728)
T KOG1134|consen 88 YVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELGN--------EDSLDKLSISNVQPGSSLLWAHVFFTYLFTFFT 159 (728)
T ss_pred HHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCcccccc--------cchhhhhhheeccCCCCCEEEEeehhHHHHHHH
Confidence 999999999999999999999999999999999876421 127999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHHHHHHH
Q 016993 162 YFLLWRGYKHVSELRADALMSPEVRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEEL 241 (379)
Q Consensus 162 ~~~l~~~~~~~~~~R~~~l~~~~~~~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~r 241 (379)
++++++|+++++.+|+++++++...+.+.|+++.++|. ..+.+.....+++|+..+|+++.++.+++|..++.++.+++
T Consensus 160 ~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~-~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 238 (728)
T KOG1134|consen 160 LFILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPP-PDGVSVSVIVRHFFSLNHPVKVRSHQVVYNESKLSKLLSKL 238 (728)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccC-CCCCchhhHHhhhhhccCCceeehhHHHhhHHHHHHHHHHH
Confidence 99999999999999999999998888899999999992 22334466677777777889999999999999999999999
Q ss_pred HHHHH-HHHHHHHHHHhhhcCCCCCCCCCccccccccCCCccccHHHHHHHHHHHHhHHHHHHHHHhhcccCcceEEEEe
Q 016993 242 EGYKK-KLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFF 320 (379)
Q Consensus 242 ~~~~~-~LE~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~~vd~i~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF 320 (379)
++..+ .+.+...+...+ +. .||+++.++||++|++||+|+||++++++++++|+++|+...+.++.+.|||+|
T Consensus 239 ~k~~~~~l~~~~~~~~~~-----~~-~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~~~~~~~~~~~~~~aFVtf 312 (728)
T KOG1134|consen 239 KKLRENKLYKEHKRLKSN-----PK-KRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEELRESLYEEKPLPAAFVTF 312 (728)
T ss_pred HHHhHHHHHHhhhhhccc-----cc-cCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEE
Confidence 99953 333333222211 22 799999999999999999999999999999999999999987778999999999
Q ss_pred CCHHHHHHHHHHhhcCCCCCeEEeeCCCCCCeeeCCCCCChhHHHHHHHHHHhhhhc
Q 016993 321 TSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRHGWNIVQDIQ 377 (379)
Q Consensus 321 ~s~~~A~~a~Q~~~~~~~~~~~v~~AP~P~DI~W~Nl~~~~~~r~~r~~~~~~~~i~ 377 (379)
+|+.+|+.|+|..++.++..|.++.||+|+||.|+|+.++..+|+.|+++++++.++
T Consensus 313 ~sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~ 369 (728)
T KOG1134|consen 313 KSRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFL 369 (728)
T ss_pred EeeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999988764
No 3
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=9.8e-39 Score=272.29 Aligned_cols=156 Identities=35% Similarity=0.619 Sum_probs=137.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCC-CCCCCCCCCCCCcccchHHhhcCCHHHHHHhcChhHHH
Q 016993 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKG-LDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAV 83 (379)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~-~~p~~~~~~~~~~~~Wi~~~~~~~~~~i~~~~GlDa~~ 83 (379)
+|++++++|++++++++++|++||++ ++++|+||...++ .++...++.++|+|+|++++++++|+|++++||+||++
T Consensus 1 s~~~sl~~~~~i~~~~~~~F~~lR~~--~~~iY~pR~~~~~~~~~~~~~~~~~g~f~Wi~~~~~~~d~~i~~~~GlDa~~ 78 (157)
T PF13967_consen 1 SFLTSLAINLIIFLVLLLLFCILRKR--FPRIYQPRSYLPHPEPERPPPLPSRGFFGWIKPVFKISDDEILRHCGLDAYV 78 (157)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhc--cHHhcccccccCCcccccCCCCCCCCchHHHHHHHcCCHHHHHHHcCCCHHH
Confidence 58999999999999999999999998 6889999998752 11111114568999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhheeeeeeeecccccccCCCCCCCCCccccccccccccccCccchHHHHHHHHHHHHHHHH
Q 016993 84 YFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVTYF 163 (379)
Q Consensus 84 flrfl~~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~Si~Ni~~~s~~lw~h~~~~~l~~~~~~~ 163 (379)
|+||+|+++++|+++++++++||+|+|++|++..... .+.++++++|++|++++++++|+|++++|+++++++|
T Consensus 79 flrflr~~~~~f~~~~i~~~~vLlPi~~~~~~~~~~~------~~~~~l~~~tisnv~~~s~~lw~h~v~~~i~~~~~~~ 152 (157)
T PF13967_consen 79 FLRFLRMLIKIFLFLSILSLPVLLPINYTGGDDDGDS------DNESGLDRLTISNVPKGSSRLWAHVVFAYIFTFYVLY 152 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHheeeeEEeCCCCcccc------ccccccccccHHhhcCCCCeehHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999875311 1127999999999999999999999999999999999
Q ss_pred HHHHH
Q 016993 164 LLWRG 168 (379)
Q Consensus 164 ~l~~~ 168 (379)
++++|
T Consensus 153 ~l~~E 157 (157)
T PF13967_consen 153 LLWRE 157 (157)
T ss_pred hheeC
Confidence 99875
No 4
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=99.40 E-value=3.4e-13 Score=128.85 Aligned_cols=62 Identities=35% Similarity=0.459 Sum_probs=59.2
Q ss_pred EEEEeCCHHHHHHHHHHhhcCCCCCeEEeeCCCCCCeeeCCCCCChhHHHHHHHHHHhhhhc
Q 016993 316 ALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRHGWNIVQDIQ 377 (379)
Q Consensus 316 aFVtF~s~~~A~~a~Q~~~~~~~~~~~v~~AP~P~DI~W~Nl~~~~~~r~~r~~~~~~~~i~ 377 (379)
|||||+++.+|+.|+|...+++|.+|.+++||||+||+|+||+.+..+|..|+++++++.+.
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~APeP~DI~W~NL~~~~~~r~~R~~~~~~~~~~ 62 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAPEPDDIIWENLSISSKQRFLRRIIVNILLFL 62 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCCCcccccccccCCChHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999999999999987643
No 5
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.32 E-value=3.8e-12 Score=96.97 Aligned_cols=71 Identities=41% Similarity=0.701 Sum_probs=58.3
Q ss_pred EeecCchHHHHHHHHHHHHHHHHHHHHHHHhhhcC---CCC----------CCCCCccccccccCCC-ccccHHHHHHHH
Q 016993 227 VVTNNKEANKIYEELEGYKKKLARAEAVYAESKSA---GKP----------EGTRPTIKTGFLGLLG-KRVDAIEYYNEK 292 (379)
Q Consensus 227 i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~---~~~----------~~~rp~~r~~~~~~~g-~~vd~i~~~~~~ 292 (379)
||||+++|.+|+++|++++++||.++++|.+..++ ..+ ...||.++.+++|++| ++||||+||+++
T Consensus 1 i~rd~~~L~~Lv~~R~~~~~kLE~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~kVDaIdyy~~e 80 (85)
T PF14703_consen 1 ICRDWSKLEKLVEEREKAVRKLESAESKYLKNANKRPKKRPKKKKKSESSSNKKRPRHRTGFLGLFGGKKVDAIDYYREE 80 (85)
T ss_pred CcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCCccccCccccccccCCCCCCCcCCCCCCCcchHHHHHHHH
Confidence 58999999999999999999999999999765320 000 1246677778999888 999999999999
Q ss_pred HHHHh
Q 016993 293 IKEII 297 (379)
Q Consensus 293 l~~l~ 297 (379)
|++|+
T Consensus 81 l~~Ln 85 (85)
T PF14703_consen 81 LKELN 85 (85)
T ss_pred HHHhC
Confidence 99885
No 6
>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=97.24 E-value=0.0012 Score=63.41 Aligned_cols=40 Identities=15% Similarity=0.260 Sum_probs=34.2
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCc
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~ 232 (379)
....+|+|.+||.++. ++.|+++|++. +.|.+|.++.|..
T Consensus 105 ~~~~~LfVgnLp~~~t----e~~L~~lF~~~--G~V~~v~i~~d~~ 144 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMT----DRELYALFRTI--GPINTCRIMRDYK 144 (346)
T ss_pred CCCcEEEEeCCCCCCC----HHHHHHHHHhc--CCEEEEEEEecCC
Confidence 5679999999999986 79999999987 4699999988753
No 7
>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=96.63 E-value=0.0092 Score=61.45 Aligned_cols=172 Identities=17% Similarity=0.198 Sum_probs=91.7
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHH------HHHHHHHHHHHHHHHHHHHHhhhcCCC-
Q 016993 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKSAGK- 263 (379)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~------l~~~r~~~~~~LE~~~~~~~~~k~~~~- 263 (379)
+|.|.|||.++. ++.|.++|+++ |.|.+|.+++|...=.. .....+.+.+.++..-......+.-..
T Consensus 2 sl~VgnLp~~vt----e~~L~~~F~~~--G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~ 75 (562)
T TIGR01628 2 SLYVGDLDPDVT----EAKLYDLFKPF--GPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIM 75 (562)
T ss_pred eEEEeCCCCCCC----HHHHHHHHHhc--CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEee
Confidence 799999999886 89999999988 56999999997541111 134455555555543111010000000
Q ss_pred CCCCCCccc-cc----cccCCCccccHHHHHHHHHHHHhHHH---HHHHHHh-hcccCcceEEEEeCCHHHHHHHHHHhh
Q 016993 264 PEGTRPTIK-TG----FLGLLGKRVDAIEYYNEKIKEIIPKL---EAEQKIT-LKEKQLGAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 264 ~~~~rp~~r-~~----~~~~~g~~vd~i~~~~~~l~~l~~~i---~~~~~~~-~~~~~~~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
.....|..+ .+ +.+=.-+.++. ++|.++-++. ...+-.. .+.+..|.|||.|.+..+|..|.+.+.
T Consensus 76 ~s~~~~~~~~~~~~~vfV~nLp~~~~~-----~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~ln 150 (562)
T TIGR01628 76 WSQRDPSLRRSGVGNIFVKNLDKSVDN-----KALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVN 150 (562)
T ss_pred cccccccccccCCCceEEcCCCccCCH-----HHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhc
Confidence 000111111 11 11101122221 2222222221 1111000 123457899999999999999998764
Q ss_pred cCC--CCCeEE-----------eeCCCCCCeeeCCCCCChhHHHHHHHHHHh
Q 016993 335 AQL--VDTWTV-----------SDAPESRELIWNNLNIKFFQRQIRHGWNIV 373 (379)
Q Consensus 335 ~~~--~~~~~v-----------~~AP~P~DI~W~Nl~~~~~~r~~r~~~~~~ 373 (379)
... .....+ ...+....|.-.||..+..+.-++.++.-.
T Consensus 151 g~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~f 202 (562)
T TIGR01628 151 GMLLNDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAKF 202 (562)
T ss_pred ccEecCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHhc
Confidence 321 111111 123344568899999998888888877654
No 8
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=96.47 E-value=0.0082 Score=57.40 Aligned_cols=135 Identities=18% Similarity=0.351 Sum_probs=73.6
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHH------HHHHHHHHHHHHHHHHHHHHhhhc
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKS 260 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~------l~~~r~~~~~~LE~~~~~~~~~k~ 260 (379)
.+.--++|-.||+... +.+|+++||++ |.|.+|.+.+|-..=.. ....|+++.+....... .|.
T Consensus 32 ~~~vKlfVgqIprt~s----E~dlr~lFe~y--g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn----~kt 101 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTAS----EKDLRELFEKY--GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHN----QKT 101 (510)
T ss_pred chhhhheeccCCcccc----HHHHHHHHHHh--CceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhc----ccc
Confidence 3444578999999875 89999999998 68999999987432110 11223333222111111 110
Q ss_pred C-C-------C-CCCCCCc---cccccccCCCccccHHHHHHHHHHHHhHHH---HHHHHHh-hcccCcceEEEEeCCHH
Q 016993 261 A-G-------K-PEGTRPT---IKTGFLGLLGKRVDAIEYYNEKIKEIIPKL---EAEQKIT-LKEKQLGAALVFFTSRV 324 (379)
Q Consensus 261 ~-~-------~-~~~~rp~---~r~~~~~~~g~~vd~i~~~~~~l~~l~~~i---~~~~~~~-~~~~~~~~aFVtF~s~~ 324 (379)
- + + -+++|.. -+.-|.|+..|+.. +++++++-.+. ++.+-.- ......|+|||+|.+.+
T Consensus 102 lpG~~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~t-----e~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke 176 (510)
T KOG0144|consen 102 LPGMHHPVQVKYADGERERIVEERKLFVGMLSKQCT-----ENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKE 176 (510)
T ss_pred cCCCCcceeecccchhhhccccchhhhhhhcccccc-----HHHHHHHHHhhCccchhhheecccccccceeEEEEehHH
Confidence 0 0 0 0111111 11224455555543 24455554433 2221110 12357899999999999
Q ss_pred HHHHHHHHhhcC
Q 016993 325 AAASAAQSLHAQ 336 (379)
Q Consensus 325 ~A~~a~Q~~~~~ 336 (379)
+|..|...+...
T Consensus 177 ~A~~Aika~ng~ 188 (510)
T KOG0144|consen 177 MAVAAIKALNGT 188 (510)
T ss_pred HHHHHHHhhccc
Confidence 999999877654
No 9
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=96.11 E-value=0.022 Score=54.89 Aligned_cols=37 Identities=22% Similarity=0.381 Sum_probs=32.5
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
..+|+|.|||.++. ++.|+++|+++ |.|.+|.+++|-
T Consensus 3 ~~~l~V~nLp~~~~----e~~l~~~F~~~--G~i~~v~i~~d~ 39 (352)
T TIGR01661 3 KTNLIVNYLPQTMT----QEEIRSLFTSI--GEIESCKLVRDK 39 (352)
T ss_pred CcEEEEeCCCCCCC----HHHHHHHHHcc--CCEEEEEEEEcC
Confidence 57899999999886 89999999986 579999998874
No 10
>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=96.02 E-value=0.049 Score=55.69 Aligned_cols=171 Identities=19% Similarity=0.159 Sum_probs=88.2
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHH-----HHHHHHHHHHHHHHHHHHHHhhhcCC
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK-----IYEELEGYKKKLARAEAVYAESKSAG 262 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~-----l~~~r~~~~~~LE~~~~~~~~~k~~~ 262 (379)
...+|+|.|||.++. ++.|.+.|+++ |.|.++.+.+|.....+ -....+.+.+.++.......
T Consensus 57 ~~~~lFVgnLp~~~t----Ed~L~~~F~~~--G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i------ 124 (578)
T TIGR01648 57 RGCEVFVGKIPRDLY----EDELVPLFEKA--GPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEI------ 124 (578)
T ss_pred CCCEEEeCCCCCCCC----HHHHHHHHHhh--CCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCee------
Confidence 458999999999885 89999999987 57999999888543221 11233344333332110000
Q ss_pred CCCCCCCc-cc------cccccCCCccccHHHHHHHHHHHHhHHHHHH---HHHhhcccCcceEEEEeCCHHHHHHHHHH
Q 016993 263 KPEGTRPT-IK------TGFLGLLGKRVDAIEYYNEKIKEIIPKLEAE---QKITLKEKQLGAALVFFTSRVAAASAAQS 332 (379)
Q Consensus 263 ~~~~~rp~-~r------~~~~~~~g~~vd~i~~~~~~l~~l~~~i~~~---~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~ 332 (379)
..+ +.. +. .-|.+=.-+.++ -+-..+++.+..+-+.+. .....+.+..+.|||+|++..+|..|.+.
T Consensus 125 -~~G-r~l~V~~S~~~~rLFVgNLP~~~T-eeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~Airk 201 (578)
T TIGR01648 125 -RPG-RLLGVCISVDNCRLFVGGIPKNKK-REEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRK 201 (578)
T ss_pred -cCC-ccccccccccCceeEeecCCcchh-hHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHH
Confidence 000 100 00 001110011111 111112222221111000 00001234578999999999999999876
Q ss_pred hhcCC----CCCeEEeeCCC-----C------CCeeeCCCCCChhHHHHHHHHHHh
Q 016993 333 LHAQL----VDTWTVSDAPE-----S------RELIWNNLNIKFFQRQIRHGWNIV 373 (379)
Q Consensus 333 ~~~~~----~~~~~v~~AP~-----P------~DI~W~Nl~~~~~~r~~r~~~~~~ 373 (379)
+.... -....|..|.. + +-|.=.||..+..+..++..+.-.
T Consensus 202 L~~gki~l~Gr~I~VdwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f 257 (578)
T TIGR01648 202 LMPGRIQLWGHVIAVDWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEF 257 (578)
T ss_pred hhccceEecCceEEEEeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhc
Confidence 64322 12233433321 1 226778888888888888877644
No 11
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=95.90 E-value=0.1 Score=43.65 Aligned_cols=37 Identities=8% Similarity=0.074 Sum_probs=30.3
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEee
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~ 229 (379)
....+|+|.|||...+ ++.|+++|+++ |.|.++.++.
T Consensus 32 ~~~~~lfVgnL~~~~t----e~~L~~~F~~~--G~I~~v~i~~ 68 (144)
T PLN03134 32 LMSTKLFIGGLSWGTD----DASLRDAFAHF--GDVVDAKVIV 68 (144)
T ss_pred CCCCEEEEeCCCCCCC----HHHHHHHHhcC--CCeEEEEEEe
Confidence 3457899999999875 89999999986 5788887764
No 12
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=94.91 E-value=0.086 Score=46.78 Aligned_cols=33 Identities=24% Similarity=0.416 Sum_probs=25.9
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEee
Q 016993 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (379)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~ 229 (379)
-|+|-|+|=+.. ++.|++|||++ |+|+++.++-
T Consensus 14 KifVggL~w~T~----~~~l~~yFeqf--GeI~eavvit 46 (247)
T KOG0149|consen 14 KIFVGGLAWETH----KETLRRYFEQF--GEIVEAVVIT 46 (247)
T ss_pred EEEEcCcccccc----hHHHHHHHHHh--CceEEEEEEe
Confidence 489999998765 79999999987 5677666553
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=94.34 E-value=0.19 Score=48.29 Aligned_cols=36 Identities=8% Similarity=0.211 Sum_probs=29.6
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
.++|+|.|||.+.. ++.|+++|+.+ |.|.++.+++|
T Consensus 269 ~~~lfV~NL~~~~~----e~~L~~~F~~f--G~v~~v~i~~d 304 (352)
T TIGR01661 269 GYCIFVYNLSPDTD----ETVLWQLFGPF--GAVQNVKIIRD 304 (352)
T ss_pred CcEEEEeCCCCCCC----HHHHHHHHHhC--CCeEEEEEeEc
Confidence 35799999998764 89999999976 57888888853
No 14
>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=94.08 E-value=0.73 Score=47.46 Aligned_cols=39 Identities=10% Similarity=0.230 Sum_probs=31.7
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
....+|.|.|||.+.. ++.|+++|+++ |.|.++.+.+|-
T Consensus 176 ~~~~~l~V~nl~~~~t----ee~L~~~F~~f--G~i~~~~i~~~~ 214 (562)
T TIGR01628 176 KKFTNLYVKNLDPSVN----EDKLRELFAKF--GEITSAAVMKDG 214 (562)
T ss_pred cCCCeEEEeCCCCcCC----HHHHHHHHHhc--CCEEEEEEEECC
Confidence 3456899999999875 79999999986 568888887764
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=92.95 E-value=1.1 Score=44.70 Aligned_cols=36 Identities=11% Similarity=0.223 Sum_probs=30.2
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEee
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~ 229 (379)
..+||+|.|||..+. ++.|+++|++. |.|.+|.++.
T Consensus 88 ~~~~l~V~nlp~~~~----~~~l~~~F~~~--G~v~~v~i~~ 123 (457)
T TIGR01622 88 DDRTVFVLQLALKAR----ERDLYEFFSKV--GKVRDVQCIK 123 (457)
T ss_pred CCcEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEee
Confidence 468999999999876 78899999986 4788887764
No 16
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=92.34 E-value=0.38 Score=48.78 Aligned_cols=37 Identities=8% Similarity=0.205 Sum_probs=30.6
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
.++|+|.|||..+. ++.|+++|+.+ |.|..+.++.|.
T Consensus 295 ~~~l~v~nlp~~~~----~~~l~~~f~~~--G~i~~~~~~~~~ 331 (509)
T TIGR01642 295 KDRIYIGNLPLYLG----EDQIKELLESF--GDLKAFNLIKDI 331 (509)
T ss_pred CCEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEEecC
Confidence 47899999999875 79999999987 468888877663
No 17
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=91.78 E-value=0.37 Score=43.74 Aligned_cols=157 Identities=17% Similarity=0.281 Sum_probs=91.2
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCC-CC
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKP-EG 266 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~-~~ 266 (379)
..||+.|-|+.+.++ ++-|...|.++ |+|.++.+.+| | .++... ..| ..
T Consensus 5 ~prtlyvgnld~~vt----e~~i~~lf~qi--g~v~~~k~i~~------------------e---~~v~wa---~~p~nQ 54 (321)
T KOG0148|consen 5 EPRTLYVGNLDSTVT----EDFIATLFNQI--GSVTKTKVIFD------------------E---LKVNWA---TAPGNQ 54 (321)
T ss_pred CCceEEeeccChhhH----HHHHHHHHHhc--cccccceeehh------------------h---hccccc---cCcccC
Confidence 459999999999886 78888999988 56888888877 1 111100 011 12
Q ss_pred CCCccccccccCCCccccHHHHHHHHHHHHhH---HHHHHH--HHhhcccCcceEEEEeCCHHHHHHHHHHhhc------
Q 016993 267 TRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIP---KLEAEQ--KITLKEKQLGAALVFFTSRVAAASAAQSLHA------ 335 (379)
Q Consensus 267 ~rp~~r~~~~~~~g~~vd~i~~~~~~l~~l~~---~i~~~~--~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~------ 335 (379)
++|..+..+.-+.|.-+..|++ ++|++.-. +|.+.| +.....|.-|++||+|-+..+|..|.|..-.
T Consensus 55 sk~t~~~hfhvfvgdls~eI~~--e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R 132 (321)
T KOG0148|consen 55 SKPTSNQHFHVFVGDLSPEIDN--EKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRR 132 (321)
T ss_pred CCCccccceeEEehhcchhcch--HHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccc
Confidence 2344433322122322222332 33333322 222221 1112457899999999999999999875321
Q ss_pred --------CCC-------CCeE-E--eeCCCCCCeeeCCCCCChhHHHHHHHHHHhhhh
Q 016993 336 --------QLV-------DTWT-V--SDAPESRELIWNNLNIKFFQRQIRHGWNIVQDI 376 (379)
Q Consensus 336 --------~~~-------~~~~-v--~~AP~P~DI~W~Nl~~~~~~r~~r~~~~~~~~i 376 (379)
.+| .... | +-+|.---|+=.|+.-...+-.+|+.++-...|
T Consensus 133 ~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I 191 (321)
T KOG0148|consen 133 TIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPI 191 (321)
T ss_pred eeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcc
Confidence 122 2222 1 456777778888887777788888777655444
No 18
>PLN03121 nucleic acid binding protein; Provisional
Probab=91.77 E-value=0.28 Score=44.10 Aligned_cols=37 Identities=11% Similarity=0.241 Sum_probs=32.8
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
.-|||.|+||+...+ ++.|++||+.. |.|.+|.+.+|
T Consensus 4 ~g~TV~V~NLS~~tT----E~dLrefFS~~--G~I~~V~I~~D 40 (243)
T PLN03121 4 GGYTAEVTNLSPKAT----EKDVYDFFSHC--GAIEHVEIIRS 40 (243)
T ss_pred CceEEEEecCCCCCC----HHHHHHHHHhc--CCeEEEEEecC
Confidence 459999999999886 89999999875 78999999987
No 19
>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=91.40 E-value=0.45 Score=36.74 Aligned_cols=37 Identities=11% Similarity=0.239 Sum_probs=28.7
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
-|||++|||...+ .+.|.+.+++.++|+..=+.+.-|
T Consensus 2 TTvMirNIPn~~t----~~~L~~~l~~~~~g~yDF~YLPiD 38 (97)
T PF04059_consen 2 TTVMIRNIPNKYT----QEMLIQILDEHFKGKYDFFYLPID 38 (97)
T ss_pred eeEEEecCCCCCC----HHHHHHHHHHhccCcceEEEeeee
Confidence 4899999999997 688888888888886654444444
No 20
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=90.57 E-value=0.89 Score=44.14 Aligned_cols=66 Identities=30% Similarity=0.322 Sum_probs=47.3
Q ss_pred cccCcceEEEEeCCHHHHHHHHHHhhcCCCCCe----EEeeC-----CCCC------CeeeCCCCCChhHHHHHHHHHHh
Q 016993 309 KEKQLGAALVFFTSRVAAASAAQSLHAQLVDTW----TVSDA-----PESR------ELIWNNLNIKFFQRQIRHGWNIV 373 (379)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~~----~v~~A-----P~P~------DI~W~Nl~~~~~~r~~r~~~~~~ 373 (379)
+-+..|.|||.+.|-..|.++-|.+.+++-.-| .|..| |+++ =.+=.||-.+..+-.++..+...
T Consensus 204 k~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~ 283 (506)
T KOG0117|consen 204 KTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEF 283 (506)
T ss_pred cccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhc
Confidence 346799999999999999999999887765444 23333 4333 13567888888888887777654
Q ss_pred h
Q 016993 374 Q 374 (379)
Q Consensus 374 ~ 374 (379)
.
T Consensus 284 G 284 (506)
T KOG0117|consen 284 G 284 (506)
T ss_pred c
Confidence 3
No 21
>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=90.37 E-value=2.1 Score=44.22 Aligned_cols=86 Identities=9% Similarity=0.102 Sum_probs=61.6
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCC
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGT 267 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~~~~ 267 (379)
..++|.|.|||.++. ++.|+++|+.+ |.|.++.+.+|-.
T Consensus 203 ~~~rLfVgnLp~~vt----eedLk~lFs~F--G~I~svrl~~D~~----------------------------------- 241 (612)
T TIGR01645 203 KFNRIYVASVHPDLS----ETDIKSVFEAF--GEIVKCQLARAPT----------------------------------- 241 (612)
T ss_pred ccceEEeecCCCCCC----HHHHHHHHhhc--CCeeEEEEEecCC-----------------------------------
Confidence 347899999999886 78899999975 5677777654210
Q ss_pred CCccccccccCCCccccHHHHHHHHHHHHhHHHHHHHHHhhcccCcceEEEEeCCHHHHHHHHHHhhcCC--CCCeEEee
Q 016993 268 RPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSD 345 (379)
Q Consensus 268 rp~~r~~~~~~~g~~vd~i~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~ 345 (379)
..+..|.|||.|.+..+|..|.+.+.... -....|..
T Consensus 242 -----------------------------------------tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~k 280 (612)
T TIGR01645 242 -----------------------------------------GRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK 280 (612)
T ss_pred -----------------------------------------CCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEe
Confidence 11345799999999999999998776442 23455666
Q ss_pred CCCCCCeeeC
Q 016993 346 APESRELIWN 355 (379)
Q Consensus 346 AP~P~DI~W~ 355 (379)
|..|.+=.|.
T Consensus 281 Ai~pP~~~~~ 290 (612)
T TIGR01645 281 CVTPPDALLQ 290 (612)
T ss_pred cCCCccccCC
Confidence 6666555553
No 22
>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=90.31 E-value=0.52 Score=33.12 Aligned_cols=33 Identities=21% Similarity=0.373 Sum_probs=27.8
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 192 VlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
|.|.|||.+.. ++.|+++|+++ |.+..+.+..+
T Consensus 1 l~v~nlp~~~t----~~~l~~~f~~~--g~i~~~~~~~~ 33 (70)
T PF00076_consen 1 LYVGNLPPDVT----EEELRDFFSQF--GKIESIKVMRN 33 (70)
T ss_dssp EEEESETTTSS----HHHHHHHHHTT--STEEEEEEEEE
T ss_pred cEEcCCCCcCC----HHHHHHHHHHh--hhccccccccc
Confidence 68999999886 89999999985 56788888765
No 23
>PLN03120 nucleic acid binding protein; Provisional
Probab=90.31 E-value=0.49 Score=43.20 Aligned_cols=37 Identities=11% Similarity=0.123 Sum_probs=32.2
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
.+||.|.|||...+ ++.|++||+.. |.|.+|.+..|-
T Consensus 4 ~rtVfVgNLs~~tT----E~dLrefFS~~--G~I~~V~I~~d~ 40 (260)
T PLN03120 4 VRTVKVSNVSLKAT----ERDIKEFFSFS--GDIEYVEMQSEN 40 (260)
T ss_pred CCEEEEeCCCCCCC----HHHHHHHHHhc--CCeEEEEEeecC
Confidence 58999999999875 89999999876 689999998764
No 24
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=89.15 E-value=0.83 Score=44.87 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=29.3
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
...+-|.+++||=+.+ .++|.+||+.. .|+++.+.++
T Consensus 8 ~~~~~vr~rGLPwsat----~~ei~~Ff~~~---~I~~~~~~r~ 44 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSAT----EKEILDFFSNC---GIENLEIPRR 44 (510)
T ss_pred CcceEEEecCCCcccc----HHHHHHHHhcC---ceeEEEEecc
Confidence 4578899999998765 78899999865 5777777765
No 25
>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=89.12 E-value=0.73 Score=31.25 Aligned_cols=24 Identities=33% Similarity=0.343 Sum_probs=21.2
Q ss_pred cceEEEEeCCHHHHHHHHHHhhcC
Q 016993 313 LGAALVFFTSRVAAASAAQSLHAQ 336 (379)
Q Consensus 313 ~~~aFVtF~s~~~A~~a~Q~~~~~ 336 (379)
.+.|||+|.+..+|..|.+.+...
T Consensus 21 ~~~a~V~f~~~~~A~~a~~~l~~~ 44 (56)
T PF13893_consen 21 RGFAFVEFASVEDAQKAIEQLNGR 44 (56)
T ss_dssp TTEEEEEESSHHHHHHHHHHHTTS
T ss_pred CCEEEEEECCHHHHHHHHHHhCCC
Confidence 599999999999999999977544
No 26
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=88.37 E-value=0.54 Score=41.57 Aligned_cols=47 Identities=23% Similarity=0.258 Sum_probs=35.1
Q ss_pred cccCcceEEEEeCCHHHHHHHHHHhhcCC--CCCeEEeeCCCCCCeeeC
Q 016993 309 KEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDAPESRELIWN 355 (379)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~AP~P~DI~W~ 355 (379)
..+-.|.|||+|++..+|..|...+.... ..-|.++.|-+++||+=.
T Consensus 48 t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~ 96 (221)
T KOG4206|consen 48 TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQ 96 (221)
T ss_pred CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhc
Confidence 34679999999999999999887655431 124668888888888643
No 27
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=87.35 E-value=7.1 Score=35.42 Aligned_cols=145 Identities=19% Similarity=0.230 Sum_probs=76.2
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHHH-------H--HHHHHHHHHHHHHHHHHHhhhcC
Q 016993 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKI-------Y--EELEGYKKKLARAEAVYAESKSA 261 (379)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~l-------~--~~r~~~~~~LE~~~~~~~~~k~~ 261 (379)
-+.|.-+|...+ .++++..|..+ |+|+++.++||--.=..| . +.-++++.-|..... .+|.
T Consensus 43 NLIvNYLPQ~MT----qdE~rSLF~Si--GeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrL---Q~KT- 112 (360)
T KOG0145|consen 43 NLIVNYLPQNMT----QDELRSLFGSI--GEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRL---QNKT- 112 (360)
T ss_pred eeeeeecccccC----HHHHHHHhhcc--cceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceee---ccce-
Confidence 367778898876 68899988876 789999999984221111 1 222222222221110 0110
Q ss_pred CCCCCCCCcc---ccccccCCC-ccccHHHHHHHHHHHHhHHHHHHHH-Hh----hcccCcceEEEEeCCHHHHHHHHHH
Q 016993 262 GKPEGTRPTI---KTGFLGLLG-KRVDAIEYYNEKIKEIIPKLEAEQK-IT----LKEKQLGAALVFFTSRVAAASAAQS 332 (379)
Q Consensus 262 ~~~~~~rp~~---r~~~~~~~g-~~vd~i~~~~~~l~~l~~~i~~~~~-~~----~~~~~~~~aFVtF~s~~~A~~a~Q~ 332 (379)
-+.+-.||.. |-.-+=..| +|.= -.+|+|.+-...-..-. ++ ...-..|.+||-|+...+|.+|...
T Consensus 113 IKVSyARPSs~~Ik~aNLYvSGlPktM----tqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~ 188 (360)
T KOG0145|consen 113 IKVSYARPSSDSIKDANLYVSGLPKTM----TQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKG 188 (360)
T ss_pred EEEEeccCChhhhcccceEEecCCccc----hHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHh
Confidence 0001123321 100000001 1110 13455555544322211 11 1234689999999999999999999
Q ss_pred hhcCCCCCe----EEeeCCCC
Q 016993 333 LHAQLVDTW----TVSDAPES 349 (379)
Q Consensus 333 ~~~~~~~~~----~v~~AP~P 349 (379)
+...+|... .|..|-.|
T Consensus 189 lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 189 LNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred ccCCCCCCCCCCeEEEecCCc
Confidence 888777543 35666666
No 28
>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=87.22 E-value=0.96 Score=32.05 Aligned_cols=32 Identities=16% Similarity=0.426 Sum_probs=25.3
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEee
Q 016993 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (379)
Q Consensus 192 VlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~ 229 (379)
|+|+|||.... +++|.++|+.. |.|.++.+.+
T Consensus 1 v~i~nlp~~~~----~~~l~~~f~~~--g~v~~v~~~~ 32 (70)
T PF14259_consen 1 VYISNLPPSTT----EEDLRNFFSRF--GPVEKVRLIK 32 (70)
T ss_dssp EEEESSTTT------HHHHHHHCTTS--SBEEEEEEEE
T ss_pred CEEeCCCCCCC----HHHHHHHHHhc--CCcceEEEEe
Confidence 68999999865 78999999886 4688888874
No 29
>smart00362 RRM_2 RNA recognition motif.
Probab=87.18 E-value=1.2 Score=30.84 Aligned_cols=34 Identities=15% Similarity=0.292 Sum_probs=26.8
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
||.|+|||.... ++.|+++|++. |.+.++.+.++
T Consensus 1 ~v~i~~l~~~~~----~~~l~~~~~~~--g~v~~~~~~~~ 34 (72)
T smart00362 1 TLFVGNLPPDVT----EEDLKELFSKF--GPIESVKIPKD 34 (72)
T ss_pred CEEEcCCCCcCC----HHHHHHHHHhc--CCEEEEEEecC
Confidence 689999999875 78999999876 45777766654
No 30
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=86.99 E-value=0.55 Score=39.95 Aligned_cols=55 Identities=16% Similarity=0.175 Sum_probs=37.3
Q ss_pred HHHHHHhHHHHHHHHHhhcccCcceEEEEeCCHHHHHHHHHHhhcCCC--CCeEEee
Q 016993 291 EKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLV--DTWTVSD 345 (379)
Q Consensus 291 ~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~--~~~~v~~ 345 (379)
.+||..-.+.-.++.......+-|.|||+|+++.+|..|...|-..+. ..|.|++
T Consensus 25 ~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~ 81 (195)
T KOG0107|consen 25 RELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVEL 81 (195)
T ss_pred HHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEe
Confidence 344443333333444444457899999999999999999998877663 3466665
No 31
>smart00361 RRM_1 RNA recognition motif.
Probab=86.04 E-value=1.1 Score=32.12 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=22.3
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~~ 336 (379)
.+.|.|||+|.+..+|..|.+.+...
T Consensus 35 ~~rG~~fV~f~~~~dA~~A~~~l~g~ 60 (70)
T smart00361 35 HKRGNVYITFERSEDAARAIVDLNGR 60 (70)
T ss_pred CCcEEEEEEECCHHHHHHHHHHhCCC
Confidence 35789999999999999999977654
No 32
>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=84.64 E-value=2 Score=29.73 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=27.0
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEee
Q 016993 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (379)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~ 229 (379)
+|+|+|+|.... ++.++++|+.. |.+.++.+.+
T Consensus 1 ~i~i~~l~~~~~----~~~i~~~~~~~--g~i~~~~~~~ 33 (74)
T cd00590 1 TLFVGNLPPDVT----EEDLRELFSKF--GKVESVRIVR 33 (74)
T ss_pred CEEEeCCCCccC----HHHHHHHHHhc--CCEEEEEEee
Confidence 588999999865 79999999986 6677777765
No 33
>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=84.37 E-value=1.2 Score=31.45 Aligned_cols=24 Identities=33% Similarity=0.340 Sum_probs=21.4
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhh
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
.+.+.|||+|.|+.+|..|.+...
T Consensus 37 ~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 37 QSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp SEEEEEEEEESSHHHHHHHHHHHT
T ss_pred ccCCEEEEEeCCHHHHHHHHHHCC
Confidence 358999999999999999999764
No 34
>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=83.97 E-value=1.4 Score=30.83 Aligned_cols=26 Identities=35% Similarity=0.353 Sum_probs=22.5
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhc
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLHA 335 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~~ 335 (379)
.+..+.|||+|.+..+|..|.+.+..
T Consensus 36 ~~~~~~a~V~F~~~~~a~~a~~~l~g 61 (70)
T PF00076_consen 36 GKSKGYAFVEFESEEDAEKALEELNG 61 (70)
T ss_dssp SSEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred ccccceEEEEEcCHHHHHHHHHHcCC
Confidence 35689999999999999999987654
No 35
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=80.01 E-value=2.5 Score=43.49 Aligned_cols=56 Identities=18% Similarity=0.253 Sum_probs=40.9
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHHHHHHHHHHHHHHH
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLA 249 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~r~~~~~~LE 249 (379)
..++|+|.|||.+.. ++.|+++|+++-||+|++|.+.++..=+. .+.++.+.+.++
T Consensus 232 ~~k~LfVgNL~~~~t----ee~L~~~F~~f~~G~I~rV~~~rgfAFVe--F~s~e~A~kAi~ 287 (578)
T TIGR01648 232 KVKILYVRNLMTTTT----EEIIEKSFSEFKPGKVERVKKIRDYAFVH--FEDREDAVKAMD 287 (578)
T ss_pred cccEEEEeCCCCCCC----HHHHHHHHHhcCCCceEEEEeecCeEEEE--eCCHHHHHHHHH
Confidence 357899999999875 89999999998788999998877653222 334445544444
No 36
>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=79.49 E-value=5.3 Score=38.49 Aligned_cols=63 Identities=22% Similarity=0.178 Sum_probs=45.4
Q ss_pred CcceEEEEeCCHHHHHHHHHHhhcCC--CCCeEEeeC------CCCCCeeeCCCCCChhHHHHHHHHHHhh
Q 016993 312 QLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA------PESRELIWNNLNIKFFQRQIRHGWNIVQ 374 (379)
Q Consensus 312 ~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~A------P~P~DI~W~Nl~~~~~~r~~r~~~~~~~ 374 (379)
..+.|||+|.+..+|..|.+.+.... ...+.+..| .....|.-.||.....+.-+|.++....
T Consensus 148 srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG 218 (346)
T TIGR01659 148 SFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYG 218 (346)
T ss_pred cCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHHHhcC
Confidence 45899999999999999998765432 233445443 2234589999999888888888876543
No 37
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=78.20 E-value=0.35 Score=36.57 Aligned_cols=25 Identities=24% Similarity=0.408 Sum_probs=18.7
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHH
Q 016993 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYF 214 (379)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~L~~~f 214 (379)
.++.+||+|+|||..+. ++.|++..
T Consensus 49 ~vs~rtVlvsgip~~l~----ee~l~D~L 73 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLD----EEELRDKL 73 (88)
T ss_pred cccCCEEEEeCCCCCCC----hhhheeeE
Confidence 47889999999999553 56665543
No 38
>smart00362 RRM_2 RNA recognition motif.
Probab=76.82 E-value=3.5 Score=28.32 Aligned_cols=25 Identities=36% Similarity=0.393 Sum_probs=21.1
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhc
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHA 335 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~ 335 (379)
++.+.|||+|++..+|..|.+.+..
T Consensus 37 ~~~~~~~v~f~~~~~a~~a~~~~~~ 61 (72)
T smart00362 37 KSKGFAFVEFESEEDAEKAIEALNG 61 (72)
T ss_pred CCCceEEEEeCCHHHHHHHHHHhCC
Confidence 3578999999999999999886553
No 39
>smart00360 RRM RNA recognition motif.
Probab=75.96 E-value=3.6 Score=28.07 Aligned_cols=24 Identities=38% Similarity=0.397 Sum_probs=20.7
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhh
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
++.+.|||+|.+..+|..|.+.+.
T Consensus 36 ~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 36 KSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCceEEEEeCCHHHHHHHHHHcC
Confidence 457899999999999999987655
No 40
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=75.36 E-value=3.7 Score=36.88 Aligned_cols=37 Identities=14% Similarity=0.345 Sum_probs=30.5
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
...||.|+|+|.+.+ +..|++.|..+ |.|.++.+++|
T Consensus 188 D~~tvRvtNLsed~~----E~dL~eLf~~f--g~i~rvylard 224 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMR----EDDLEELFRPF--GPITRVYLARD 224 (270)
T ss_pred ccceeEEecCccccC----hhHHHHHhhcc--CccceeEEEEc
Confidence 457999999999987 68888888766 56889999874
No 41
>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=73.91 E-value=4.8 Score=27.73 Aligned_cols=26 Identities=31% Similarity=0.370 Sum_probs=21.9
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~~ 336 (379)
.+.+.|||+|++..+|+.|.+.+...
T Consensus 38 ~~~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 38 KSKGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCC
Confidence 35789999999999999999876544
No 42
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=72.49 E-value=3.4 Score=40.27 Aligned_cols=53 Identities=17% Similarity=0.211 Sum_probs=42.8
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHHHHHHHHHHHHHHHHH
Q 016993 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLAR 250 (379)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~r~~~~~~LE~ 250 (379)
..+.|+|||.+++ ++.|++.|+++ |+|++|...+|+.=++ ..+|+.+++..+.
T Consensus 260 KvLYVRNL~~~tT----eE~lk~~F~~~--G~veRVkk~rDYaFVH--f~eR~davkAm~~ 312 (506)
T KOG0117|consen 260 KVLYVRNLMESTT----EETLKKLFNEF--GKVERVKKPRDYAFVH--FAEREDAVKAMKE 312 (506)
T ss_pred eeeeeeccchhhh----HHHHHHHHHhc--cceEEeecccceeEEe--ecchHHHHHHHHH
Confidence 5689999999876 89999999988 8999999998876544 5677777766654
No 43
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=68.14 E-value=15 Score=34.52 Aligned_cols=39 Identities=10% Similarity=0.209 Sum_probs=32.8
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCc
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~ 232 (379)
..+-+-|+|||=..| +-+|+..|+++ |.|.+|.|+.|.+
T Consensus 95 ~pkRLhVSNIPFrFR----dpDL~aMF~kf--G~VldVEIIfNER 133 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFR----DPDLRAMFEKF--GKVLDVEIIFNER 133 (376)
T ss_pred CCceeEeecCCcccc----CccHHHHHHhh--CceeeEEEEeccC
Confidence 346699999999999 47899999987 6899999998753
No 44
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=66.52 E-value=81 Score=31.12 Aligned_cols=90 Identities=19% Similarity=0.424 Sum_probs=51.5
Q ss_pred HHHHHhh---CCCcceEEEEee-cCc-hHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCCccccccccCCCccccH
Q 016993 211 DSYFKAI---YPDTFYRSMVVT-NNK-EANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDA 285 (379)
Q Consensus 211 ~~~f~~~---~p~~v~~v~i~~-d~~-~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~~vd~ 285 (379)
.+||+.+ ||+. ....+++ |.+ -+..+.++.+++..+++....++.++ | ++...
T Consensus 217 ~~Yf~~l~~~f~d~-a~~~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~----------~-----------k~~~k 274 (406)
T PF02388_consen 217 LEYFENLYDAFGDK-AKFFLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKN----------P-----------KKKNK 274 (406)
T ss_dssp HHHHHHHHHHCCCC-EEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------T-----------HHHHH
T ss_pred HHHHHHHHHhcCCC-eEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC----------c-----------chhhH
Confidence 3555543 5666 4566665 775 45567777888888888877766532 1 11122
Q ss_pred HHHHHHHHHHHhHHHHHHHHHhh---cc-cCcceEEEEeCC
Q 016993 286 IEYYNEKIKEIIPKLEAEQKITL---KE-KQLGAALVFFTS 322 (379)
Q Consensus 286 i~~~~~~l~~l~~~i~~~~~~~~---~~-~~~~~aFVtF~s 322 (379)
++-++++++.+++++++.++... +. .-++.-||.+.+
T Consensus 275 ~~~~~~q~~~~~k~~~~~~~~~~~~~~~~~la~~l~~~~g~ 315 (406)
T PF02388_consen 275 LKELEEQLASLEKRIEEAEELIAEYGDEIPLAGALFIYYGD 315 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH-SEEEEEEEEEEEETT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEEEEEECC
Confidence 44466777777777777655321 12 224445555554
No 45
>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=65.27 E-value=9.5 Score=38.52 Aligned_cols=36 Identities=17% Similarity=0.162 Sum_probs=30.8
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
++||.|.|||.+.. ++.|++.|+.+ |.|.++.++.+
T Consensus 2 s~vv~V~nLp~~~t----e~~L~~~f~~f--G~V~~v~i~~~ 37 (481)
T TIGR01649 2 SPVVHVRNLPQDVV----EADLVEALIPF--GPVSYVMMLPG 37 (481)
T ss_pred ccEEEEcCCCCCCC----HHHHHHHHHhc--CCeeEEEEECC
Confidence 68999999999875 79999999986 57888887753
No 46
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=64.89 E-value=7.9 Score=37.64 Aligned_cols=36 Identities=14% Similarity=0.301 Sum_probs=30.3
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCch
Q 016993 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKE 233 (379)
Q Consensus 192 VlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~ 233 (379)
|.|.|+|+++. ...|.+.|+.+ |.|.+|.+..|...
T Consensus 79 ~~i~nl~~~~~----~~~~~d~f~~~--g~ilS~kv~~~~~g 114 (369)
T KOG0123|consen 79 VFIKNLDESID----NKSLYDTFSEF--GNILSCKVATDENG 114 (369)
T ss_pred eeecCCCcccC----cHHHHHHHHhh--cCeeEEEEEEcCCC
Confidence 99999999986 58899999877 67999988877654
No 47
>smart00360 RRM RNA recognition motif.
Probab=64.76 E-value=9.4 Score=25.83 Aligned_cols=32 Identities=19% Similarity=0.307 Sum_probs=24.6
Q ss_pred EecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 194 VRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 194 V~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
|.|+|.+.. ++.|+++|++. |.|.++.+..+-
T Consensus 1 i~~l~~~~~----~~~l~~~f~~~--g~v~~~~i~~~~ 32 (71)
T smart00360 1 VGNLPPDVT----EEELRELFSKF--GKIESVRLVRDK 32 (71)
T ss_pred CCCCCcccC----HHHHHHHHHhh--CCEeEEEEEeCC
Confidence 468888775 78999999876 467788777653
No 48
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=63.79 E-value=12 Score=33.50 Aligned_cols=37 Identities=22% Similarity=0.285 Sum_probs=30.8
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
.++|.|.|||.++. ++.|.++|.++. .+.++.+.+|-
T Consensus 115 ~~~l~v~nL~~~~~----~~~l~~~F~~~g--~~~~~~~~~d~ 151 (306)
T COG0724 115 NNTLFVGNLPYDVT----EEDLRELFKKFG--PVKRVRLVRDR 151 (306)
T ss_pred CceEEEeCCCCCCC----HHHHHHHHHhcC--ceeEEEeeecc
Confidence 49999999998876 899999999884 56777777763
No 49
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=62.60 E-value=11 Score=34.10 Aligned_cols=37 Identities=32% Similarity=0.219 Sum_probs=27.6
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCCCCCeE--EeeC
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLHAQLVDTWT--VSDA 346 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~~~--v~~A 346 (379)
..+-|.|||+|.+..+|+.|...+....-.++. |+.+
T Consensus 228 G~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 228 GLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred CcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 346889999999999999999887665544433 4443
No 50
>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=59.17 E-value=21 Score=35.59 Aligned_cols=39 Identities=10% Similarity=0.162 Sum_probs=31.8
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
+..++|+|.|||..+. ++.|+++|+.+ |.|.+|.+.+|-
T Consensus 184 p~~~~l~v~nl~~~~t----e~~l~~~f~~~--G~i~~v~~~~d~ 222 (457)
T TIGR01622 184 PNFLKLYVGNLHFNIT----EQELRQIFEPF--GDIEDVQLHRDP 222 (457)
T ss_pred CCCCEEEEcCCCCCCC----HHHHHHHHHhc--CCeEEEEEEEcC
Confidence 4468999999999876 78999999876 568888877654
No 51
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=58.94 E-value=9.4 Score=30.78 Aligned_cols=20 Identities=10% Similarity=0.142 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHhcCC
Q 016993 12 TSFIIFVVLMCLFAWLSSKP 31 (379)
Q Consensus 12 ~~~~~~~~~l~lF~~lR~~~ 31 (379)
+.++++++++++|++.|+|.
T Consensus 74 ~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 74 MAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 44556666777788877663
No 52
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=58.59 E-value=13 Score=29.01 Aligned_cols=27 Identities=22% Similarity=0.277 Sum_probs=22.8
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcCC
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHAQL 337 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~~~ 337 (379)
...|+|||++++..+|..|+..+..-+
T Consensus 55 ~TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 55 ETRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred CcCceEEEEehHhhhHHHHHHHhcccc
Confidence 457999999999999999998776543
No 53
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=57.85 E-value=20 Score=25.87 Aligned_cols=36 Identities=28% Similarity=0.288 Sum_probs=27.6
Q ss_pred ceEEEEeCCHHHHHHHHHHhhcCCCCCeEEeeCCCCCCe
Q 016993 314 GAALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESREL 352 (379)
Q Consensus 314 ~~aFVtF~s~~~A~~a~Q~~~~~~~~~~~v~~AP~P~DI 352 (379)
...+|||.|..+|-.+-+.+...+- .+...|-|++|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi---~~~liP~P~~i 37 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI---PVRLIPTPREI 37 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC---cEEEeCCChhc
Confidence 4678999999999999887776533 45566777776
No 54
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=57.22 E-value=18 Score=24.44 Aligned_cols=33 Identities=18% Similarity=0.118 Sum_probs=23.9
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEe
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~ 228 (379)
.++|-|+|.|.+. .+.+.++|.+. |+|.++.+.
T Consensus 1 ~~wI~V~Gf~~~~-----~~~vl~~F~~f--GeI~~~~~~ 33 (53)
T PF14605_consen 1 STWISVSGFPPDL-----AEEVLEHFASF--GEIVDIYVP 33 (53)
T ss_pred CcEEEEEeECchH-----HHHHHHHHHhc--CCEEEEEcC
Confidence 3689999999876 56677799875 556665544
No 55
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=56.84 E-value=15 Score=33.29 Aligned_cols=25 Identities=20% Similarity=0.244 Sum_probs=21.2
Q ss_pred cccCcceEEEEeCCHHHHHHHHHHh
Q 016993 309 KEKQLGAALVFFTSRVAAASAAQSL 333 (379)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~Q~~ 333 (379)
..+..|++||+|.+..++..|....
T Consensus 228 TgKSkgygfVSf~~pad~~rAmrem 252 (290)
T KOG0226|consen 228 TGKSKGYGFVSFRDPADYVRAMREM 252 (290)
T ss_pred ccccccceeeeecCHHHHHHHHHhh
Confidence 3577899999999999999987653
No 56
>PLN03120 nucleic acid binding protein; Provisional
Probab=55.61 E-value=22 Score=32.62 Aligned_cols=35 Identities=23% Similarity=0.207 Sum_probs=24.5
Q ss_pred CcceEEEEeCCHHHHHHHHHHhhcC--CCCCeEEeeCC
Q 016993 312 QLGAALVFFTSRVAAASAAQSLHAQ--LVDTWTVSDAP 347 (379)
Q Consensus 312 ~~~~aFVtF~s~~~A~~a~Q~~~~~--~~~~~~v~~AP 347 (379)
..+.|||+|+++.+|..|.. +... ......|.+|+
T Consensus 42 ~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 42 RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 56899999999999999995 3322 22344565554
No 57
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=55.12 E-value=19 Score=33.53 Aligned_cols=37 Identities=14% Similarity=0.131 Sum_probs=31.9
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
.-+|++|.-|+-++. +.+|++.|+.+ |.|.++++++|
T Consensus 100 Py~TLFv~RLnydT~----EskLrreF~~Y--G~IkrirlV~d 136 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTS----ESKLRREFEKY--GPIKRIRLVRD 136 (335)
T ss_pred ccceeeeeecccccc----HHHHHHHHHhc--CcceeEEEeee
Confidence 348999999998764 89999999987 56999999998
No 58
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=54.48 E-value=13 Score=32.61 Aligned_cols=24 Identities=33% Similarity=0.350 Sum_probs=20.7
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHh
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSL 333 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~ 333 (379)
...-|+|||.|.|..-|.+|+.+.
T Consensus 89 GNSKgYAFVEFEs~eVA~IaAETM 112 (214)
T KOG4208|consen 89 GNSKGYAFVEFESEEVAKIAAETM 112 (214)
T ss_pred CCcCceEEEEeccHHHHHHHHHHh
Confidence 356789999999999999998764
No 59
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=54.12 E-value=32 Score=32.67 Aligned_cols=45 Identities=16% Similarity=0.175 Sum_probs=35.9
Q ss_pred HHHHHhHHHHHHHHHhh--------cccCcceEEEEeCCHHHHHHHHHHhhcC
Q 016993 292 KIKEIIPKLEAEQKITL--------KEKQLGAALVFFTSRVAAASAAQSLHAQ 336 (379)
Q Consensus 292 ~l~~l~~~i~~~~~~~~--------~~~~~~~aFVtF~s~~~A~~a~Q~~~~~ 336 (379)
-+.++.+.+.++.++++ ...|-|.|=|+|++...|..|+|.+...
T Consensus 285 l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 285 LLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred HHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCe
Confidence 36677777777777654 3468999999999999999999987653
No 60
>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=52.34 E-value=26 Score=35.40 Aligned_cols=40 Identities=13% Similarity=0.097 Sum_probs=31.9
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
+...+|+|.|||.+..+ ++.|.+.|+++ |.|.+|.+.++-
T Consensus 273 ~~~~~l~v~nL~~~~vt---~~~L~~lF~~y--G~V~~vki~~~~ 312 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVN---CDRLFNLFCVY--GNVERVKFMKNK 312 (481)
T ss_pred CCCCEEEEeCCCCCCCC---HHHHHHHHHhc--CCeEEEEEEeCC
Confidence 35679999999974234 89999999976 679999888763
No 61
>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=52.23 E-value=34 Score=25.74 Aligned_cols=41 Identities=27% Similarity=0.327 Sum_probs=25.1
Q ss_pred CcceEEEEeCCHHHHHHHHHHhhcCCCC--CeEEeeCCCCCCe
Q 016993 312 QLGAALVFFTSRVAAASAAQSLHAQLVD--TWTVSDAPESREL 352 (379)
Q Consensus 312 ~~~~aFVtF~s~~~A~~a~Q~~~~~~~~--~~~v~~AP~P~DI 352 (379)
..++|.|-|.++..|..|.+-+...+.+ +..|...|.+.|.
T Consensus 38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~r~~ 80 (90)
T PF11608_consen 38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKNREF 80 (90)
T ss_dssp -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S---
T ss_pred eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCcccc
Confidence 4789999999999999999887765543 4457777777664
No 62
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=49.92 E-value=10 Score=39.64 Aligned_cols=40 Identities=8% Similarity=0.183 Sum_probs=33.4
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCc
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~ 232 (379)
..++|+.|-+||+.++ +..|++.|+++ |+|.+|.+..+.+
T Consensus 419 V~SrTLwvG~i~k~v~----e~dL~~~feef--GeiqSi~li~~R~ 458 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVT----EQDLANLFEEF--GEIQSIILIPPRG 458 (894)
T ss_pred Eeeeeeeeccccchhh----HHHHHHHHHhc--ccceeEeeccCCc
Confidence 5689999999999887 79999999987 6788887766553
No 63
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=47.96 E-value=27 Score=31.11 Aligned_cols=21 Identities=33% Similarity=0.324 Sum_probs=18.7
Q ss_pred ceEEEEeCCHHHHHHHHHHhh
Q 016993 314 GAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 314 ~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
+.|||||.|...|..|...+.
T Consensus 78 pvaFatF~s~q~A~aamnaLN 98 (284)
T KOG1457|consen 78 PVAFATFTSHQFALAAMNALN 98 (284)
T ss_pred ceEEEEecchHHHHHHHHHhc
Confidence 799999999999999987764
No 64
>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=47.83 E-value=25 Score=27.17 Aligned_cols=26 Identities=35% Similarity=0.353 Sum_probs=22.3
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~~ 336 (379)
-..|.|||-|.++.+|....+.....
T Consensus 43 ~N~GYAFVNf~~~~~~~~F~~~f~g~ 68 (97)
T PF04059_consen 43 CNLGYAFVNFTSPQAAIRFYKAFNGK 68 (97)
T ss_pred CceEEEEEEcCCHHHHHHHHHHHcCC
Confidence 46999999999999999999876643
No 65
>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=47.67 E-value=28 Score=36.16 Aligned_cols=38 Identities=8% Similarity=0.044 Sum_probs=32.1
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
..++|.|.|||.+.. ++.|+++|+++ |.|.+|.+.+|-
T Consensus 106 ~~~rLfVGnLp~~~t----Ee~Lr~lF~~f--G~I~sV~I~~D~ 143 (612)
T TIGR01645 106 IMCRVYVGSISFELR----EDTIRRAFDPF--GPIKSINMSWDP 143 (612)
T ss_pred CCCEEEEcCCCCCCC----HHHHHHHHHcc--CCEEEEEEeecC
Confidence 457899999999876 79999999986 579999988763
No 66
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=47.49 E-value=20 Score=33.30 Aligned_cols=36 Identities=17% Similarity=0.320 Sum_probs=30.7
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCch
Q 016993 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKE 233 (379)
Q Consensus 192 VlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~ 233 (379)
++|-|+|++.. +.+|+..||++ |+|.++.|+.|+.=
T Consensus 5 LFIGNLp~~~~----~~elr~lFe~y--gkVlECDIvKNYgF 40 (346)
T KOG0109|consen 5 LFIGNLPREAT----EQELRSLFEQY--GKVLECDIVKNYGF 40 (346)
T ss_pred hhccCCCcccc----hHHHHHHHHhh--CceEeeeeecccce
Confidence 57889999876 78999999987 78999999998763
No 67
>PLN03121 nucleic acid binding protein; Provisional
Probab=46.69 E-value=33 Score=31.12 Aligned_cols=21 Identities=24% Similarity=0.161 Sum_probs=17.6
Q ss_pred cCcceEEEEeCCHHHHHHHHH
Q 016993 311 KQLGAALVFFTSRVAAASAAQ 331 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q 331 (379)
+..+.|||+|+++.+|..|.-
T Consensus 42 et~gfAfVtF~d~~aaetAll 62 (243)
T PLN03121 42 EYACTAYVTFKDAYALETAVL 62 (243)
T ss_pred CcceEEEEEECCHHHHHHHHh
Confidence 345799999999999988874
No 68
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=46.59 E-value=30 Score=34.93 Aligned_cols=35 Identities=23% Similarity=0.376 Sum_probs=28.5
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
+||+|+|+|=+.. ++.|.++|+++ |+|..+.+|.+
T Consensus 293 ~tVFvRNL~fD~t----EEel~~~fskF--G~v~ya~iV~~ 327 (678)
T KOG0127|consen 293 KTVFVRNLPFDTT----EEELKEHFSKF--GEVKYAIIVKD 327 (678)
T ss_pred ceEEEecCCcccc----HHHHHHHHHhh--ccceeEEEEec
Confidence 8999999998775 89999999987 55666666643
No 69
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=45.71 E-value=26 Score=32.03 Aligned_cols=48 Identities=27% Similarity=0.295 Sum_probs=36.5
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCCC-----CCeEEeeCCCCCCeeeCCCCCChhHHHHHHH
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLHAQLV-----DTWTVSDAPESRELIWNNLNIKFFQRQIRHG 369 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~-----~~~~v~~AP~P~DI~W~Nl~~~~~~r~~r~~ 369 (379)
....|+|||-|++..+|+.|...++.+.. ..+.|..|- +.++|.+|+.
T Consensus 57 g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~AD------------TdkER~lRRM 109 (371)
T KOG0146|consen 57 GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFAD------------TDKERTLRRM 109 (371)
T ss_pred CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEecc------------chHHHHHHHH
Confidence 34689999999999999999999987753 355566653 4567777764
No 70
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=44.93 E-value=32 Score=33.71 Aligned_cols=41 Identities=5% Similarity=0.102 Sum_probs=33.1
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
...+|+|+|||||-+.+ =+.|++.+++.. |+|+-|.+..|-
T Consensus 41 ~~r~R~vfItNIpyd~r----WqdLKdLvrekv-Gev~yveLl~D~ 81 (608)
T KOG4212|consen 41 AARDRSVFITNIPYDYR----WQDLKDLVREKV-GEVEYVELLFDE 81 (608)
T ss_pred ccccceEEEecCcchhh----hHhHHHHHHHhc-CceEeeeeeccc
Confidence 35678999999999987 477899998874 678888877764
No 71
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=44.92 E-value=37 Score=34.27 Aligned_cols=28 Identities=21% Similarity=0.291 Sum_probs=24.1
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhh
Q 016993 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAI 217 (379)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~ 217 (379)
...++||.|.|||..+. ++.|.++|++.
T Consensus 172 ~~~~r~lyVgnLp~~~t----~~~l~~~F~~~ 199 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFV----EEAVVDFFNDL 199 (509)
T ss_pred CccccEEEEeCCCCCCC----HHHHHHHHHHH
Confidence 35689999999999876 78999999875
No 72
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=44.14 E-value=50 Score=25.30 Aligned_cols=40 Identities=25% Similarity=0.415 Sum_probs=20.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhcCC--CCc---eeeecccc
Q 016993 3 FDSFLTSLGTSFIIFVVLMCLFAWLSSKP--GNT---VVYYPNRI 42 (379)
Q Consensus 3 ~~~~~~~l~~~~~~~~~~l~lF~~lR~~~--~~~---~iY~pr~~ 42 (379)
++-||.+|+.-++.-.++.-+|.++|+.. +|. .||+|.-.
T Consensus 18 WeIfLItLasVvvavGl~aGLfFcvR~~lslrn~~~ta~Y~PHg~ 62 (106)
T PF14654_consen 18 WEIFLITLASVVVAVGLFAGLFFCVRNSLSLRNTFDTAVYRPHGP 62 (106)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccceEccCCc
Confidence 34466666544443333444444557642 232 68888753
No 73
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=42.42 E-value=72 Score=19.97 Aligned_cols=29 Identities=14% Similarity=0.211 Sum_probs=19.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 016993 3 FDSFLTSLGTSFIIFVVLMCLFAWLSSKP 31 (379)
Q Consensus 3 ~~~~~~~l~~~~~~~~~~l~lF~~lR~~~ 31 (379)
+=+..+++..-+++-+++++.|.+.|||+
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 34556666666666666777777888774
No 74
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=40.16 E-value=47 Score=28.59 Aligned_cols=43 Identities=16% Similarity=0.150 Sum_probs=34.8
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHH
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEAN 235 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~ 235 (379)
..+.-|.|-|||...+ +.+|+.-|..+ |.+.+||++++.....
T Consensus 8 ~~~~kVYVGnL~~~a~----k~eLE~~F~~y--G~lrsvWvArnPPGfA 50 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRAT----KRELERAFSKY--GPLRSVWVARNPPGFA 50 (195)
T ss_pred CCCceEEeccCCCCcc----hHHHHHHHHhc--CcceeEEEeecCCCce
Confidence 3467899999999876 78999999877 5689999999865543
No 75
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=39.70 E-value=34 Score=32.27 Aligned_cols=53 Identities=17% Similarity=0.110 Sum_probs=37.2
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCCCC--Ce----------EEeeCCCCCCeeeCCCCCChh
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLHAQLVD--TW----------TVSDAPESRELIWNNLNIKFF 362 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~~--~~----------~v~~AP~P~DI~W~Nl~~~~~ 362 (379)
...-|.+||||++..+|..|-+.++..... +. .-.--|.|.-.-|.++.....
T Consensus 133 RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n~K~~v~p~~~g~~~~~a~~a 197 (376)
T KOG0125|consen 133 RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHNKKKKVLPYPNGWKLLPAVGA 197 (376)
T ss_pred CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhccCCcccCCCccccccccchhh
Confidence 346889999999999999999988765321 11 122236666677888877654
No 76
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=38.85 E-value=49 Score=34.48 Aligned_cols=63 Identities=14% Similarity=0.236 Sum_probs=41.3
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC--CCCCeEEeeCC-------------CCC--CeeeCCCCCChhHHHHHHHHHHh
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHAQ--LVDTWTVSDAP-------------ESR--ELIWNNLNIKFFQRQIRHGWNIV 373 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~~--~~~~~~v~~AP-------------~P~--DI~W~Nl~~~~~~r~~r~~~~~~ 373 (379)
...|.|||.|.+..+|+.|.+.++.. +.+...+..++ .+. .|+=.|+.---..|-+|.++...
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aF 637 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAF 637 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHhcc
Confidence 35799999999999999999986632 22233344443 222 56666666666667777766543
No 77
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=37.68 E-value=1.7e+02 Score=27.61 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHhhcccCcceEEEEeCCHH
Q 016993 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRV 324 (379)
Q Consensus 285 ~i~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~ 324 (379)
.++..+++++.+++.|+..++++.+-+.+..|-+.|.+..
T Consensus 44 Rv~~~~~~l~~i~~Ri~~~qaKi~~l~gs~kAi~vfs~ak 83 (297)
T PF11945_consen 44 RVERNRERLQAIQQRIEVAQAKIEKLQGSKKAITVFSPAK 83 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccEEEeCccc
Confidence 3666778888888888888888876677788888887753
No 78
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=37.25 E-value=30 Score=29.90 Aligned_cols=39 Identities=13% Similarity=0.138 Sum_probs=31.8
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
-++.||.|.|||..++ ++-|-+.|-+. |.|.++++.+|.
T Consensus 7 nqd~tiyvgnld~kvs----~~~l~EL~iqa--gpVv~i~iPkDr 45 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVS----EELLYELFIQA--GPVVNLHIPKDR 45 (203)
T ss_pred CCCceEEEecCCHHHH----HHHHHHHHHhc--Cceeeeecchhh
Confidence 5689999999999886 68888888766 558899988764
No 79
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=37.05 E-value=57 Score=28.29 Aligned_cols=40 Identities=15% Similarity=0.236 Sum_probs=28.2
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
+-+.|-|+|+++|++-. =+.|++++.+. |.|--..+-+|-
T Consensus 112 rrSe~RVvVsGLp~SgS----WQDLKDHmRea--GdvCfadv~rDg 151 (241)
T KOG0105|consen 112 RRSEYRVVVSGLPPSGS----WQDLKDHMREA--GDVCFADVQRDG 151 (241)
T ss_pred cccceeEEEecCCCCCc----hHHHHHHHHhh--CCeeeeeeeccc
Confidence 45678999999998753 68899999987 334333344443
No 80
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=33.96 E-value=46 Score=28.85 Aligned_cols=26 Identities=15% Similarity=0.345 Sum_probs=22.3
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhh
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAI 217 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~ 217 (379)
.+++|.|-|+|.+++ +.++++.|-++
T Consensus 5 ~~~~iyvGNLP~diR----ekeieDlFyKy 30 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIR----EKEIEDLFYKY 30 (241)
T ss_pred ccceEEecCCCcchh----hccHHHHHhhh
Confidence 478999999999998 57788888776
No 81
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=33.83 E-value=71 Score=32.30 Aligned_cols=27 Identities=19% Similarity=0.230 Sum_probs=23.6
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcCC
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHAQL 337 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~~~ 337 (379)
..+|+.||.|.|..+++.|.+.+...+
T Consensus 452 ~G~GkVFVefas~ed~qrA~~~L~GrK 478 (500)
T KOG0120|consen 452 PGTGKVFVEFADTEDSQRAMEELTGRK 478 (500)
T ss_pred CCcccEEEEecChHHHHHHHHHccCce
Confidence 359999999999999999999887653
No 82
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=32.48 E-value=51 Score=32.32 Aligned_cols=38 Identities=11% Similarity=0.159 Sum_probs=30.1
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
..+|||++.|+|.+-. -+.|.+.|... |+|..|.||.-
T Consensus 229 l~srtivaenLP~Dh~----~enl~kiFg~~--G~IksIRIckP 266 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHS----YENLSKIFGTV--GSIKSIRICKP 266 (484)
T ss_pred cccceEEEecCCcchH----HHHHHHHhhcc--cceeeeeecCC
Confidence 4789999999998654 47777777654 68999999875
No 83
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=31.77 E-value=81 Score=29.50 Aligned_cols=26 Identities=15% Similarity=0.167 Sum_probs=22.5
Q ss_pred cccCcceEEEEeCCHHHHHHHHHHhh
Q 016993 309 KEKQLGAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
+.++-|+|||.|+...+-+.|.....
T Consensus 139 TgkskGYAFIeye~erdm~~AYK~ad 164 (335)
T KOG0113|consen 139 TGKSKGYAFIEYEHERDMKAAYKDAD 164 (335)
T ss_pred cCCccceEEEEeccHHHHHHHHHhcc
Confidence 46789999999999999999987543
No 84
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=30.84 E-value=60 Score=30.75 Aligned_cols=41 Identities=15% Similarity=0.328 Sum_probs=33.1
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecCchHH
Q 016993 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEAN 235 (379)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~~~l~ 235 (379)
...|.|.+||.++. ++.+++||++. +.|.++.+.+|..+..
T Consensus 97 tkkiFvGG~~~~~~----e~~~r~yfe~~--g~v~~~~~~~d~~~~~ 137 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTT----EEDFKDYFEQF--GKVADVVIMYDKTTSR 137 (311)
T ss_pred eeEEEecCcCCCCc----hHHHhhhhhcc--ceeEeeEEeecccccc
Confidence 45799999999886 79999999987 4788888888765533
No 85
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=30.80 E-value=89 Score=23.87 Aligned_cols=31 Identities=13% Similarity=0.112 Sum_probs=27.4
Q ss_pred cceEEEEeecCchHHHHHHHHHHHHHHHHHH
Q 016993 221 TFYRSMVVTNNKEANKIYEELEGYKKKLARA 251 (379)
Q Consensus 221 ~v~~v~i~~d~~~l~~l~~~r~~~~~~LE~~ 251 (379)
+-..+.+.-|..+|..|+.+.+.+++.+|++
T Consensus 63 ~~~~i~f~c~~e~L~~Li~~Lk~A~~~~e~~ 93 (95)
T cd04751 63 NKPDINFTCTLEQLQDLVNKLKDAAKNIERA 93 (95)
T ss_pred CcceEEEEeCHHHHHHHHHHHHHHHHHHHHh
Confidence 3457889999999999999999999999975
No 86
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=30.58 E-value=1e+02 Score=20.37 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=16.6
Q ss_pred CchhHHHHHHHHHHHH----HHHHHHHHHHHhcC
Q 016993 1 MDFDSFLTSLGTSFII----FVVLMCLFAWLSSK 30 (379)
Q Consensus 1 ~~~~~~~~~l~~~~~~----~~~~l~lF~~lR~~ 30 (379)
|+..+.+.+++.+.++ .++..+++..+|++
T Consensus 1 Md~~~~lr~~a~~~~l~~~~~~Figiv~wa~~p~ 34 (48)
T cd01324 1 MDIGETLRGLADSWGLLYLALFFLGVVVWAFRPG 34 (48)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 5555555566655555 55555555555544
No 87
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=29.99 E-value=55 Score=32.58 Aligned_cols=36 Identities=22% Similarity=0.284 Sum_probs=31.2
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
++|.|.|||-+.. ++.|.+.|.+. |.|.++.+++|-
T Consensus 19 ~~v~vgnip~~~s----e~~l~~~~~~~--g~v~s~~~v~D~ 54 (435)
T KOG0108|consen 19 SSVFVGNIPYEGS----EEQLLSIFSGV--GPVLSFRLVYDR 54 (435)
T ss_pred cceEecCCCCccc----HHHHHHHHhcc--Cccceeeecccc
Confidence 9999999999886 79999999976 568888888873
No 88
>KOG0684 consensus Cytochrome P450 [Secondary metabolites biosynthesis, transport and catabolism]
Probab=29.63 E-value=1.1e+02 Score=30.57 Aligned_cols=50 Identities=16% Similarity=0.313 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHhcCCCCceeeecccccCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHhcChhHHHHHHHHH
Q 016993 15 IIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAVYFVFMS 89 (379)
Q Consensus 15 ~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~~~Wi~~~~~~~~~~i~~~~GlDa~~flrfl~ 89 (379)
++.+.++++|+.+|++ ++| ++| |.-.|+.-|+...+. .|-|.+.|++=.+
T Consensus 12 lvi~~~l~~~~~~~~r-------~~~----~~P-----Pli~gwiP~lG~a~~---------fgk~P~eFl~~~~ 61 (486)
T KOG0684|consen 12 LVIALLLLLFLLLQRR-------TSR----KEP-----PLIKGWIPWLGSALA---------FGKDPLEFLRECR 61 (486)
T ss_pred HHHHHHHHHHHHHhcc-------cCC----CCC-----cccccCcchhhHHHH---------hccCHHHHHHHHH
Confidence 3344566667777765 222 233 356888888888775 7888888777554
No 89
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=29.31 E-value=68 Score=26.67 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=25.9
Q ss_pred CcceEEEEeCCHHHHHHHHHHhhcCCCCCe
Q 016993 312 QLGAALVFFTSRVAAASAAQSLHAQLVDTW 341 (379)
Q Consensus 312 ~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~~ 341 (379)
+--+|-|+|++..+|=.|..+.++..|+.+
T Consensus 124 GrqsavVvF~d~~SAC~Av~Af~s~~pgtm 153 (166)
T PF15023_consen 124 GRQSAVVVFKDITSACKAVSAFQSRAPGTM 153 (166)
T ss_pred CCceEEEEehhhHHHHHHHHhhcCCCCCce
Confidence 355899999999999999999998888754
No 90
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=29.25 E-value=45 Score=27.04 Aligned_cols=8 Identities=25% Similarity=0.368 Sum_probs=2.9
Q ss_pred HHHHHHHh
Q 016993 21 MCLFAWLS 28 (379)
Q Consensus 21 l~lF~~lR 28 (379)
+++|++.+
T Consensus 16 ~~~~~~~~ 23 (130)
T PF12273_consen 16 LFLFYCHN 23 (130)
T ss_pred HHHHHHHH
Confidence 33333333
No 91
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=28.83 E-value=76 Score=26.24 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=21.6
Q ss_pred cccHHHHHHHHHHHHhHHHHHHHHHh
Q 016993 282 RVDAIEYYNEKIKEIIPKLEAEQKIT 307 (379)
Q Consensus 282 ~vd~i~~~~~~l~~l~~~i~~~~~~~ 307 (379)
.-|+.+||+++++.|.+++++.+..+
T Consensus 99 ~e~akdyfkRKve~l~kq~e~i~~i~ 124 (153)
T KOG3048|consen 99 AEDAKDYFKRKVEYLTKQIEQIEGIL 124 (153)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34689999999999999998876654
No 92
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=28.49 E-value=56 Score=28.28 Aligned_cols=25 Identities=24% Similarity=0.279 Sum_probs=22.0
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhh
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
.+..|.||+.|.++++|..|.+.+.
T Consensus 48 ~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 48 QKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred ccccceeEEEEechhhhHHHHHHHH
Confidence 4678999999999999999998753
No 93
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=27.02 E-value=73 Score=28.20 Aligned_cols=37 Identities=8% Similarity=0.086 Sum_probs=29.9
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
...++.|.||--.+. .+.|..-|+++ |.|-+|.|.+|
T Consensus 12 gm~SLkVdNLTyRTs----pd~LrrvFekY--G~vgDVyIPrd 48 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTS----PDDLRRVFEKY--GRVGDVYIPRD 48 (256)
T ss_pred cceeEEecceeccCC----HHHHHHHHHHh--Ccccceecccc
Confidence 468899999876543 89999999998 67888887776
No 94
>PF07243 Phlebovirus_G1: Phlebovirus glycoprotein G1; InterPro: IPR010826 This domain is found in several Phlebovirus glycoprotein G1 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].; GO: 0016021 integral to membrane, 0019012 virion
Probab=26.66 E-value=29 Score=35.01 Aligned_cols=49 Identities=27% Similarity=0.538 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCCCCCCCCCCCCCCcccchHHhhc
Q 016993 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMS 67 (379)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~~~Wi~~~~~ 67 (379)
+++++++++.++..++.++|.++.+- +|.-+.. | +.-++||.|+.-+++
T Consensus 418 TaLSAlvVStliss~iylil~IL~K~-----L~~~kli-----P----kkL~sPf~Wl~LLik 466 (526)
T PF07243_consen 418 TALSALVVSTLISSLIYLILSILSKV-----LYFFKLI-----P----KKLRSPFMWLSLLIK 466 (526)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHh-----H----HHHhCHHHHHHHHHH
Confidence 67888899888888888888888654 4444442 1 234678899976664
No 95
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=26.63 E-value=55 Score=27.53 Aligned_cols=26 Identities=19% Similarity=0.332 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHhhheeeeee
Q 016993 85 FVFMSTVLGIFALSGIILLPALLPVA 110 (379)
Q Consensus 85 lrfl~~~~~~f~~~~~~~~~iLlPin 110 (379)
-|++++++++..+++++++.+|.-+=
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v~L 54 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVVIL 54 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999998887776543
No 96
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=26.52 E-value=4.4e+02 Score=26.52 Aligned_cols=25 Identities=16% Similarity=0.292 Sum_probs=15.0
Q ss_pred CCCccccHHHHHHHHHHHHhHHHHHHHH
Q 016993 278 LLGKRVDAIEYYNEKIKEIIPKLEAEQK 305 (379)
Q Consensus 278 ~~g~~vd~i~~~~~~l~~l~~~i~~~~~ 305 (379)
..+++-|.| ++|++++.++-++.+.
T Consensus 91 ~r~~tpeEI---reE~Erl~r~~de~~l 115 (546)
T KOG0718|consen 91 FRGKTPEEI---REEYERLQRERDERRL 115 (546)
T ss_pred cCCCCHHHH---HHHHHHHHHHHHHHHH
Confidence 345555544 6788887765555443
No 97
>PF00322 Endothelin: Endothelin family; InterPro: IPR001928 Endothelins (ET's) are the most potent vasoconstrictors known [, , ]. They stimulate cardiac contraction, regulate release of vasoactive substances, and stimulate mitogenesis in blood vessels in primary culture. They also stimulate contraction in almost all other smooth muscles (e.g., uterus, bronchus, vas deferensa and stomach) and stimulate secretion in several tissues (e.g., kidney, liver and adrenals). Endothelin receptors have also been found in the brain, e.g. cerebral cortex, cerebellum and glial cells. Endothelins have been implicated in a variety of pathophysiological conditions associated with stress, including hypertension, myocardial infarction, subarachnoid haemorrhage and renal failure. Endothelins are synthesised by proteolysis of large preproendothelins, which are cleaved to 'big endothelins' before being processed to the mature peptide. Sarafotoxins (SRTX) and bibrotoxin (BTX) are cardiotoxins from the venom of snakes of the Atractaspis family, structurally and functionally [, ] similar to endothelin. As shown in the following schematic representation, these peptides which are 21 residues long contain two intramolecular disulphide bonds. +-------------+ | | CxCxxxxxxxCxxxCxxxxxx | | +-------+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0019229 regulation of vasoconstriction, 0005576 extracellular region; PDB: 1V6R_A 1T7H_A 1EDP_A 1EDN_A 3CMH_A 6CMH_A 1SRB_A 2LDF_A.
Probab=26.33 E-value=22 Score=21.05 Aligned_cols=6 Identities=50% Similarity=1.403 Sum_probs=2.3
Q ss_pred CeeeCC
Q 016993 351 ELIWNN 356 (379)
Q Consensus 351 DI~W~N 356 (379)
||||.|
T Consensus 23 diIW~n 28 (31)
T PF00322_consen 23 DIIWVN 28 (31)
T ss_dssp TTT-S-
T ss_pred cEEEec
Confidence 566655
No 98
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=25.72 E-value=1.8e+02 Score=28.69 Aligned_cols=28 Identities=29% Similarity=0.385 Sum_probs=24.0
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCC
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLHAQL 337 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~~~~ 337 (379)
....|++||+|.+.++|-.|...++..+
T Consensus 73 ~~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 73 GQSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred CcccceEEEEeccHHHHHHHHHHhhccc
Confidence 3568999999999999999998887653
No 99
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=25.28 E-value=78 Score=29.12 Aligned_cols=54 Identities=20% Similarity=0.358 Sum_probs=24.3
Q ss_pred cCCCCCCCCChHHH----HHHHHHhhCCCcceEEEEee----cCchHHHHHHHHHHHHHHHHH
Q 016993 196 DLPDLPKGQSRKEQ----VDSYFKAIYPDTFYRSMVVT----NNKEANKIYEELEGYKKKLAR 250 (379)
Q Consensus 196 ~IP~~~~~~~~~~~----L~~~f~~~~p~~v~~v~i~~----d~~~l~~l~~~r~~~~~~LE~ 250 (379)
.+|+++++.+..+. |.+..+. ||+++--...+- +-.++.++.++++.+..+|+.
T Consensus 171 ~lp~dl~~~~~r~~~~~~l~el~~r-~~~giP~LDPi~DmkI~d~~~~e~~~k~~~Le~rl~~ 232 (268)
T PF13234_consen 171 KLPKDLRPQEARKQVLKSLQELLKR-FPDGIPLLDPIKDMKIKDPEFVELVKKIEALEKRLSS 232 (268)
T ss_dssp ---TTTTSCCCHHHHHHHHHHHHHH-SSS--TCHHCHHHH----HHHHHHHHHHHHHHHHHHH
T ss_pred eCcccccchHHHHHHHHHHHHHHHh-CCCCCCccChHHhCCCCcHHHHHHHHHHHHHHHHHHh
Confidence 48888886433333 3333333 676532222222 223566666666666665554
No 100
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=25.17 E-value=81 Score=32.03 Aligned_cols=36 Identities=31% Similarity=0.493 Sum_probs=28.7
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
-|++|+++|-+.+ .+.|.++|.+..| |..+.++.|.
T Consensus 6 ~TlfV~~lp~~~~----~~qL~e~FS~vGP--ik~~~vVt~~ 41 (678)
T KOG0127|consen 6 ATLFVSRLPFSST----GEQLEEFFSYVGP--IKHAVVVTNK 41 (678)
T ss_pred ceEEEecCCCccc----hhHHHHhhhcccC--cceeEEecCC
Confidence 7999999999887 5889999998754 6666666554
No 101
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=25.04 E-value=96 Score=31.20 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=30.5
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
-..+||+|-++|+-++ .++|...|+.+|+| |.-|-|=.|
T Consensus 368 DprrTVFVGgvprpl~----A~eLA~imd~lyGg-V~yaGIDtD 406 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLT----AEELAMIMEDLFGG-VLYVGIDTD 406 (520)
T ss_pred CccceEEecCCCCcch----HHHHHHHHHHhcCc-eEEEEeccC
Confidence 3469999999999887 79999999999954 555544443
No 102
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=24.88 E-value=1.2e+02 Score=22.55 Aligned_cols=32 Identities=22% Similarity=0.237 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeeccc
Q 016993 6 FLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNR 41 (379)
Q Consensus 6 ~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~ 41 (379)
++-++.+.+++.++|++++...|+- .+=+|+.
T Consensus 3 l~Da~~~~V~V~IVclliya~YRR~----~i~~p~~ 34 (92)
T PHA02681 3 LLDALLTVIVISIVCYIVIMMYRRS----CVSAPAV 34 (92)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhc----cCCCCCC
Confidence 4556677888889999999999864 2445653
No 103
>PF15179 Myc_target_1: Myc target protein 1
Probab=23.38 E-value=1.4e+02 Score=25.87 Aligned_cols=34 Identities=21% Similarity=0.471 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeee
Q 016993 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYY 38 (379)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~ 38 (379)
+|-.++++.++||+++.++|..|-+|.--.+|.+
T Consensus 24 aF~vSm~iGLviG~li~~LltwlSRRRASa~Isr 57 (197)
T PF15179_consen 24 AFCVSMAIGLVIGALIWALLTWLSRRRASARISR 57 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 4566667777777777666666644422234543
No 104
>PRK11020 hypothetical protein; Provisional
Probab=23.18 E-value=3.8e+02 Score=21.23 Aligned_cols=20 Identities=0% Similarity=0.120 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHhHHHHHHHH
Q 016993 286 IEYYNEKIKEIIPKLEAEQK 305 (379)
Q Consensus 286 i~~~~~~l~~l~~~i~~~~~ 305 (379)
|.-+++|++.++.+|+..+.
T Consensus 33 i~qf~~E~~~l~k~I~~lk~ 52 (118)
T PRK11020 33 YAQFEKEKATLEAEIARLKE 52 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44556777777777766543
No 105
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=22.98 E-value=1.1e+02 Score=27.97 Aligned_cols=36 Identities=8% Similarity=0.133 Sum_probs=29.5
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
=.|.+++||++.. ...|+++|.++ |.|-+|.+..+.
T Consensus 75 GVvylS~IPp~m~----~~rlReil~~y--GeVGRvylqpE~ 110 (278)
T KOG3152|consen 75 GVVYLSNIPPYMD----PVRLREILSQY--GEVGRVYLQPED 110 (278)
T ss_pred eEEEeccCCCccC----HHHHHHHHHhc--cccceEEecchh
Confidence 3689999999986 79999999854 788888887643
No 106
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=22.94 E-value=95 Score=28.42 Aligned_cols=71 Identities=20% Similarity=0.224 Sum_probs=47.8
Q ss_pred HHHHHHHhHHHHHH------HHHhhcccCcceEEEEeCCHHHHHHHHHHhhcCC--CCCeEEeeC-CCCCCeeeCCCCCC
Q 016993 290 NEKIKEIIPKLEAE------QKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA-PESRELIWNNLNIK 360 (379)
Q Consensus 290 ~~~l~~l~~~i~~~------~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~A-P~P~DI~W~Nl~~~ 360 (379)
++|++.|-..|-+. |+++ .....|++||-+-++.+|..|...+..-+ .....|..| |..+-|.=.||.++
T Consensus 55 qdE~rSLF~SiGeiEScKLvRDKi-tGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~Ik~aNLYvS 133 (360)
T KOG0145|consen 55 QDELRSLFGSIGEIESCKLVRDKI-TGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDSIKDANLYVS 133 (360)
T ss_pred HHHHHHHhhcccceeeeeeeeccc-cccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhhhcccceEEe
Confidence 46677766655432 3333 34679999999999999999998775432 234557665 66666667788766
Q ss_pred h
Q 016993 361 F 361 (379)
Q Consensus 361 ~ 361 (379)
.
T Consensus 134 G 134 (360)
T KOG0145|consen 134 G 134 (360)
T ss_pred c
Confidence 4
No 107
>PLN03213 repressor of silencing 3; Provisional
Probab=22.78 E-value=1.5e+02 Score=29.86 Aligned_cols=38 Identities=13% Similarity=0.107 Sum_probs=32.6
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
.+-.+|.|-||+.++. ++.|++.|.++ |.|.+|.++++
T Consensus 8 ~~gMRIYVGNLSydVT----EDDLravFSeF--GsVkdVEIpRE 45 (759)
T PLN03213 8 GGGVRLHVGGLGESVG----RDDLLKIFSPM--GTVDAVEFVRT 45 (759)
T ss_pred CcceEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEecc
Confidence 4568899999999887 79999999987 78999988865
No 108
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=22.48 E-value=82 Score=30.05 Aligned_cols=25 Identities=40% Similarity=0.458 Sum_probs=20.3
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhc
Q 016993 311 KQLGAALVFFTSRVAAASAAQSLHA 335 (379)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~Q~~~~ 335 (379)
...+.|||+|.+..+|..|+....+
T Consensus 262 ~~~~CAFv~ftTR~aAE~Aae~~~n 286 (377)
T KOG0153|consen 262 PRKGCAFVTFTTREAAEKAAEKSFN 286 (377)
T ss_pred cccccceeeehhhHHHHHHHHhhcc
Confidence 3467999999999999999875433
No 109
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=22.44 E-value=2.8e+02 Score=19.42 Aligned_cols=41 Identities=22% Similarity=0.335 Sum_probs=29.2
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhh----CCCcce-----EEEEeecCch
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAI----YPDTFY-----RSMVVTNNKE 233 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~----~p~~v~-----~v~i~~d~~~ 233 (379)
...+|.|+|+.. + + .+.++.||.++ .|..|+ ++.+++....
T Consensus 4 rpeavhirGvd~-l-s---T~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~~ 53 (62)
T PF10309_consen 4 RPEAVHIRGVDE-L-S---TDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDEE 53 (62)
T ss_pred eeceEEEEcCCC-C-C---HHHHHHHHHHhcccCCCceEEEecCCcEEEEECCHH
Confidence 346889999865 3 3 78899999999 444553 6778875543
No 110
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=21.70 E-value=86 Score=30.36 Aligned_cols=25 Identities=24% Similarity=0.279 Sum_probs=21.8
Q ss_pred cccCcceEEEEeCCHHHHHHHHHHh
Q 016993 309 KEKQLGAALVFFTSRVAAASAAQSL 333 (379)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~Q~~ 333 (379)
+..++|-|||.|.+.+.|..|+|.-
T Consensus 320 qGrPSGeAFIqm~nae~a~aaaqk~ 344 (508)
T KOG1365|consen 320 QGRPSGEAFIQMRNAERARAAAQKC 344 (508)
T ss_pred CCCcChhhhhhhhhhHHHHHHHHHH
Confidence 3468999999999999999999864
No 111
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=21.37 E-value=45 Score=25.88 Aligned_cols=8 Identities=25% Similarity=0.493 Sum_probs=5.3
Q ss_pred HHHHhcCC
Q 016993 24 FAWLSSKP 31 (379)
Q Consensus 24 F~~lR~~~ 31 (379)
|.+||.|.
T Consensus 84 FVILRer~ 91 (101)
T PF06024_consen 84 FVILRERQ 91 (101)
T ss_pred EEEEeccc
Confidence 66777664
No 112
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=21.30 E-value=1.4e+02 Score=24.57 Aligned_cols=37 Identities=8% Similarity=0.206 Sum_probs=28.7
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeec
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d 230 (379)
.-+.|+|++|-++.+ ++.+.+.|..+ |.|.++++.-|
T Consensus 71 EGwIi~VtgvHeEat----Eedi~d~F~dy--GeiKNihLNLD 107 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEAT----EEDIHDKFADY--GEIKNIHLNLD 107 (170)
T ss_pred eeEEEEEeccCcchh----HHHHHHHHhhc--ccccceeeccc
Confidence 346789999998876 78888888876 56888887654
No 113
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=21.25 E-value=1.7e+02 Score=22.97 Aligned_cols=35 Identities=17% Similarity=0.179 Sum_probs=25.2
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEe
Q 016993 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (379)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~ 228 (379)
-.+-+.|+|+|.++. .++.-+.|.++ |.|..+.+.
T Consensus 17 vnriLyirNLp~~IT----seemydlFGky--g~IrQIRiG 51 (124)
T KOG0114|consen 17 VNRILYIRNLPFKIT----SEEMYDLFGKY--GTIRQIRIG 51 (124)
T ss_pred hheeEEEecCCcccc----HHHHHHHhhcc--cceEEEEec
Confidence 458899999999997 46677778776 345555443
No 114
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=21.06 E-value=95 Score=27.42 Aligned_cols=26 Identities=35% Similarity=0.373 Sum_probs=23.0
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhc
Q 016993 310 EKQLGAALVFFTSRVAAASAAQSLHA 335 (379)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~Q~~~~ 335 (379)
....|.|||.|.+..+|..|.+.+..
T Consensus 154 ~~~~g~~~v~f~~~~~~~~a~~~~~~ 179 (306)
T COG0724 154 GKSRGFAFVEFESEESAEKAIEELNG 179 (306)
T ss_pred CccCceEEEEecCHHHHHHHHHHcCC
Confidence 46789999999999999999998763
No 115
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=20.46 E-value=1.3e+02 Score=29.63 Aligned_cols=26 Identities=27% Similarity=0.304 Sum_probs=22.7
Q ss_pred cccCcceEEEEeCCHHHHHHHHHHhh
Q 016993 309 KEKQLGAALVFFTSRVAAASAAQSLH 334 (379)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~Q~~~ 334 (379)
+-|+.++|.|.|++++.++.|+..+.
T Consensus 82 ~GK~rGcavVEFk~~E~~qKa~E~ln 107 (608)
T KOG4212|consen 82 SGKARGCAVVEFKDPENVQKALEKLN 107 (608)
T ss_pred CCCcCCceEEEeeCHHHHHHHHHHhh
Confidence 35789999999999999999987754
No 116
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=20.33 E-value=1.4e+02 Score=27.15 Aligned_cols=39 Identities=18% Similarity=0.154 Sum_probs=30.7
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCcceEEEEeecC
Q 016993 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (379)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~L~~~f~~~~p~~v~~v~i~~d~ 231 (379)
....+|.|.|+|..+. ++.|++.|++.. ++..+.+-||-
T Consensus 81 ~~~~~v~v~NL~~~V~----~~Dl~eLF~~~~--~~~r~~vhy~~ 119 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVI----DADLKELFAEFG--ELKRVAVHYDR 119 (243)
T ss_pred CCcceeeeecCCcCcc----hHHHHHHHHHhc--cceEEeeccCC
Confidence 4457899999999886 688999998873 56777777764
No 117
>PF15050 SCIMP: SCIMP protein
Probab=20.16 E-value=1.6e+02 Score=23.59 Aligned_cols=14 Identities=14% Similarity=0.147 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHhcC
Q 016993 17 FVVLMCLFAWLSSK 30 (379)
Q Consensus 17 ~~~~l~lF~~lR~~ 30 (379)
.++.+++||++|..
T Consensus 21 ~~lglIlyCvcR~~ 34 (133)
T PF15050_consen 21 VVLGLILYCVCRWQ 34 (133)
T ss_pred HHHHHHHHHHHHHH
Confidence 44567789999854
No 118
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=20.03 E-value=2.1e+02 Score=20.50 Aligned_cols=24 Identities=17% Similarity=0.213 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 016993 5 SFLTSLGTSFIIFVVLMCLFAWLS 28 (379)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR 28 (379)
+++..+++.++++.+..+++..+|
T Consensus 51 GILYGlVIGlil~~i~~~l~~~~~ 74 (75)
T COG4064 51 GILYGLVIGLILCMIYILLGVAFR 74 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 577888888999999888888876
Done!