Query 016889
Match_columns 381
No_of_seqs 164 out of 899
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 03:43:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016889.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016889hhsearch_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 2.7E-66 5.8E-71 512.8 27.2 368 2-380 20-425 (827)
2 KOG1134 Uncharacterized conser 100.0 1.8E-58 3.9E-63 471.1 27.6 359 7-380 8-372 (728)
3 PF13967 RSN1_TM: Late exocyto 100.0 1.4E-38 3E-43 270.9 13.0 156 5-168 1-157 (157)
4 PF02714 DUF221: Domain of unk 99.4 1.8E-13 4E-18 130.6 7.6 64 316-379 1-64 (325)
5 PF14703 DUF4463: Domain of un 99.3 4.6E-12 1E-16 96.3 6.7 71 227-297 1-85 (85)
6 TIGR01659 sex-lethal sex-letha 97.4 0.00076 1.6E-08 64.7 8.5 41 186-232 104-144 (346)
7 KOG0144 RNA-binding protein CU 96.8 0.0063 1.4E-07 58.1 8.7 138 187-336 32-188 (510)
8 TIGR01628 PABP-1234 polyadenyl 96.8 0.017 3.6E-07 59.5 12.4 171 191-372 2-201 (562)
9 PF00076 RRM_1: RNA recognitio 96.6 0.014 3.1E-07 41.4 7.7 33 192-230 1-33 (70)
10 PLN03120 nucleic acid binding 96.5 0.025 5.4E-07 51.4 10.0 35 189-229 4-38 (260)
11 PLN03134 glycine-rich RNA-bind 96.5 0.034 7.3E-07 46.4 10.2 38 187-230 32-69 (144)
12 TIGR01661 ELAV_HUD_SF ELAV/HuD 96.4 0.041 8.8E-07 52.9 11.5 101 189-371 3-111 (352)
13 TIGR01648 hnRNP-R-Q heterogene 96.2 0.038 8.2E-07 56.4 10.5 174 188-372 57-256 (578)
14 PF14259 RRM_6: RNA recognitio 96.0 0.034 7.4E-07 39.7 7.1 31 192-228 1-31 (70)
15 KOG0149 Predicted RNA-binding 95.5 0.047 1E-06 48.3 6.8 33 191-229 14-46 (247)
16 TIGR01661 ELAV_HUD_SF ELAV/HuD 95.4 0.075 1.6E-06 51.1 8.6 35 190-230 270-304 (352)
17 KOG0122 Translation initiation 94.6 0.18 3.9E-06 45.0 8.0 37 188-230 188-224 (270)
18 TIGR01628 PABP-1234 polyadenyl 94.2 0.68 1.5E-05 47.7 12.6 39 187-231 176-214 (562)
19 TIGR01622 SF-CC1 splicing fact 94.1 0.62 1.3E-05 46.5 11.8 38 187-230 87-124 (457)
20 KOG0125 Ataxin 2-binding prote 93.5 0.66 1.4E-05 43.2 9.6 91 188-362 95-197 (376)
21 TIGR01649 hnRNP-L_PTB hnRNP-L/ 93.4 0.15 3.2E-06 51.5 5.9 36 189-230 2-37 (481)
22 KOG0148 Apoptosis-promoting RN 93.3 0.21 4.6E-06 45.2 5.9 152 188-371 5-186 (321)
23 PF04059 RRM_2: RNA recognitio 93.1 0.21 4.6E-06 38.5 5.0 38 190-231 2-39 (97)
24 TIGR01642 U2AF_lg U2 snRNP aux 92.9 0.58 1.3E-05 47.4 9.5 37 189-231 295-331 (509)
25 TIGR01645 half-pint poly-U bin 92.7 0.9 2E-05 46.8 10.2 86 188-355 203-290 (612)
26 PLN03121 nucleic acid binding 92.6 0.21 4.5E-06 44.9 5.0 38 188-231 4-41 (243)
27 KOG0117 Heterogeneous nuclear 92.5 0.16 3.5E-06 49.0 4.3 166 188-370 82-280 (506)
28 TIGR01649 hnRNP-L_PTB hnRNP-L/ 91.1 3.7 8E-05 41.4 12.7 39 187-230 273-311 (481)
29 TIGR01622 SF-CC1 splicing fact 90.4 1.2 2.6E-05 44.5 8.5 37 187-229 184-220 (457)
30 KOG4206 Spliceosomal protein s 90.2 0.34 7.4E-06 42.7 3.7 46 310-355 49-96 (221)
31 TIGR01645 half-pint poly-U bin 90.0 1.3 2.7E-05 45.8 8.2 38 187-230 105-142 (612)
32 KOG0145 RNA-binding protein EL 89.0 5 0.00011 36.3 10.0 147 190-350 42-210 (360)
33 KOG4211 Splicing factor hnRNP- 88.9 0.95 2.1E-05 44.4 6.0 37 187-230 8-44 (510)
34 smart00362 RRM_2 RNA recogniti 88.6 0.89 1.9E-05 31.4 4.4 34 191-230 1-34 (72)
35 KOG0107 Alternative splicing f 87.1 0.51 1.1E-05 40.0 2.6 55 292-346 26-82 (195)
36 smart00361 RRM_1 RNA recogniti 86.6 1 2.2E-05 32.3 3.7 26 311-336 35-60 (70)
37 PF13893 RRM_5: RNA recognitio 86.1 1.2 2.7E-05 30.1 3.8 24 313-336 21-44 (56)
38 cd00590 RRM RRM (RNA recogniti 85.2 2 4.3E-05 29.8 4.7 33 191-229 1-33 (74)
39 TIGR01648 hnRNP-R-Q heterogene 81.1 2.3 5E-05 43.7 4.8 56 188-249 232-287 (578)
40 TIGR01659 sex-lethal sex-letha 78.3 3.6 7.8E-05 39.6 5.0 38 187-230 191-228 (346)
41 KOG0117 Heterogeneous nuclear 77.1 2.5 5.4E-05 41.1 3.4 54 190-251 260-313 (506)
42 smart00362 RRM_2 RNA recogniti 76.7 3.4 7.4E-05 28.3 3.4 25 311-335 37-61 (72)
43 smart00360 RRM RNA recognition 75.8 3.6 7.7E-05 28.1 3.3 24 311-334 36-59 (71)
44 cd00590 RRM RRM (RNA recogniti 73.8 4.9 0.00011 27.6 3.6 26 311-336 38-63 (74)
45 PF07292 NID: Nmi/IFP 35 domai 72.6 0.53 1.1E-05 35.5 -1.9 25 186-214 49-73 (88)
46 KOG0108 mRNA cleavage and poly 72.5 16 0.00035 36.2 7.9 35 190-230 19-53 (435)
47 smart00360 RRM RNA recognition 69.2 7.4 0.00016 26.4 3.6 32 194-231 1-32 (71)
48 COG0724 RNA-binding proteins ( 68.4 8.9 0.00019 34.3 4.9 37 189-231 115-151 (306)
49 KOG0114 Predicted RNA-binding 68.4 6.9 0.00015 30.4 3.3 27 311-337 55-81 (124)
50 PF14605 Nup35_RRM_2: Nup53/35 65.5 11 0.00024 25.3 3.7 32 190-228 2-33 (53)
51 PF02388 FemAB: FemAB family; 64.6 93 0.002 30.6 11.5 89 212-322 218-315 (406)
52 KOG0123 Polyadenylate-binding 61.8 7.9 0.00017 37.6 3.3 36 192-233 79-114 (369)
53 KOG0146 RNA-binding protein ET 61.5 17 0.00037 33.1 5.0 50 310-371 57-111 (371)
54 KOG4208 Nucleolar RNA-binding 59.9 9.5 0.00021 33.4 3.1 24 310-333 89-112 (214)
55 KOG0127 Nucleolar protein fibr 59.4 14 0.00031 37.0 4.6 35 190-230 293-327 (678)
56 PF11823 DUF3343: Protein of u 56.8 23 0.00049 25.5 4.3 36 314-352 2-37 (73)
57 KOG1548 Transcription elongati 56.7 25 0.00054 33.4 5.4 44 292-335 285-336 (382)
58 KOG1365 RNA-binding protein Fu 55.8 1.5E+02 0.0032 28.8 10.3 25 309-333 320-344 (508)
59 PF04059 RRM_2: RNA recognitio 55.4 13 0.00027 28.7 2.8 26 311-336 43-68 (97)
60 PF01102 Glycophorin_A: Glycop 55.1 12 0.00026 30.1 2.7 20 12-31 74-93 (122)
61 PF11608 Limkain-b1: Limkain b 54.6 29 0.00063 26.0 4.4 41 312-352 38-80 (90)
62 KOG0113 U1 small nuclear ribon 53.6 21 0.00046 33.1 4.3 37 188-230 100-136 (335)
63 KOG0226 RNA-binding proteins [ 53.3 19 0.00041 32.7 3.9 24 310-333 229-252 (290)
64 KOG4212 RNA-binding protein hn 53.3 21 0.00046 34.9 4.5 42 186-232 41-82 (608)
65 KOG0105 Alternative splicing f 50.5 29 0.00063 29.9 4.4 44 186-235 112-155 (241)
66 KOG0132 RNA polymerase II C-te 46.5 15 0.00032 38.6 2.4 41 186-232 418-458 (894)
67 TIGR01642 U2AF_lg U2 snRNP aux 46.3 37 0.0008 34.3 5.4 28 186-217 172-199 (509)
68 KOG0109 RNA-binding protein LA 46.1 22 0.00048 32.9 3.3 36 192-233 5-40 (346)
69 PLN03121 nucleic acid binding 44.9 35 0.00077 30.8 4.4 21 311-331 42-62 (243)
70 PF11945 WASH_WAHD: WAHD domai 44.8 1.1E+02 0.0024 28.7 7.8 40 285-324 44-83 (297)
71 KOG0131 Splicing factor 3b, su 44.4 21 0.00045 30.8 2.6 39 187-231 7-45 (203)
72 KOG0107 Alternative splicing f 44.3 37 0.00081 29.1 4.1 43 187-235 8-50 (195)
73 KOG1457 RNA binding protein (c 43.6 32 0.00069 30.6 3.7 22 313-334 77-98 (284)
74 KOG0105 Alternative splicing f 42.2 29 0.00064 29.9 3.2 26 188-217 5-30 (241)
75 PF02439 Adeno_E3_CR2: Adenovi 37.4 95 0.0021 19.4 4.1 29 3-31 5-33 (38)
76 KOG0144 RNA-binding protein CU 36.7 45 0.00098 32.7 3.9 28 310-337 73-100 (510)
77 PF14654 Epiglycanin_C: Mucin, 36.4 77 0.0017 24.2 4.3 39 4-42 19-62 (106)
78 KOG3048 Molecular chaperone Pr 36.2 49 0.0011 27.3 3.5 26 282-307 99-124 (153)
79 KOG0684 Cytochrome P450 [Secon 35.3 79 0.0017 31.5 5.4 50 15-89 12-61 (486)
80 KOG1855 Predicted RNA-binding 35.2 45 0.00097 32.6 3.6 38 187-230 229-266 (484)
81 KOG4205 RNA-binding protein mu 34.6 50 0.0011 31.2 3.9 41 189-235 97-137 (311)
82 KOG0113 U1 small nuclear ribon 33.2 73 0.0016 29.7 4.5 26 309-334 139-164 (335)
83 PLN03213 repressor of silencin 31.3 88 0.0019 31.3 5.0 39 187-231 8-46 (759)
84 PF15023 DUF4523: Protein of u 31.0 62 0.0013 26.8 3.3 30 312-341 124-153 (166)
85 PF07243 Phlebovirus_G1: Phleb 30.8 22 0.00048 35.8 0.9 49 5-67 418-466 (526)
86 KOG0718 Molecular chaperone (D 30.7 3.5E+02 0.0075 27.2 8.8 25 278-305 91-115 (546)
87 PF12273 RCR: Chitin synthesis 30.3 42 0.00092 27.2 2.4 10 19-28 14-23 (130)
88 KOG4207 Predicted splicing fac 29.7 64 0.0014 28.5 3.3 38 188-231 12-49 (256)
89 PF00322 Endothelin: Endotheli 29.6 18 0.00038 21.3 -0.0 6 351-356 23-28 (31)
90 KOG0131 Splicing factor 3b, su 28.3 57 0.0012 28.2 2.8 24 310-333 48-71 (203)
91 KOG0110 RNA-binding protein (R 28.1 1.2E+02 0.0026 31.8 5.4 62 311-372 558-636 (725)
92 KOG0114 Predicted RNA-binding 27.9 1.1E+02 0.0025 23.9 4.1 36 187-228 16-51 (124)
93 KOG0127 Nucleolar protein fibr 27.5 70 0.0015 32.4 3.6 36 190-231 6-41 (678)
94 KOG3152 TBP-binding protein, a 27.4 83 0.0018 28.7 3.8 36 190-231 75-110 (278)
95 PF15179 Myc_target_1: Myc tar 27.1 1.1E+02 0.0023 26.5 4.1 34 5-38 24-57 (197)
96 PF04423 Rad50_zn_hook: Rad50 27.0 2E+02 0.0042 19.2 5.3 30 275-305 22-51 (54)
97 KOG0145 RNA-binding protein EL 26.8 68 0.0015 29.3 3.1 70 290-360 55-133 (360)
98 KOG0129 Predicted RNA-binding 26.7 91 0.002 31.3 4.2 39 187-230 368-406 (520)
99 KOG0130 RNA-binding protein RB 26.7 1E+02 0.0022 25.4 3.8 37 189-231 72-108 (170)
100 cd04751 Commd3 COMM_Domain con 26.5 1.2E+02 0.0026 23.2 4.1 32 220-251 62-93 (95)
101 KOG0533 RRM motif-containing p 26.1 97 0.0021 28.2 4.1 39 187-231 81-119 (243)
102 KOG0120 Splicing factor U2AF, 25.6 1.3E+02 0.0028 30.5 5.1 28 311-338 452-479 (500)
103 PHA02673 ORF109 EEV glycoprote 25.3 51 0.0011 27.7 1.9 25 85-109 29-53 (161)
104 KOG4206 Spliceosomal protein s 24.7 87 0.0019 27.9 3.4 35 311-345 181-218 (221)
105 PF10309 DUF2414: Protein of u 24.0 2.6E+02 0.0056 19.6 5.7 41 188-233 4-53 (62)
106 KOG0121 Nuclear cap-binding pr 24.0 99 0.0021 25.2 3.3 38 187-230 34-71 (153)
107 KOG0148 Apoptosis-promoting RN 23.9 1.2E+02 0.0025 28.1 4.1 59 186-250 161-219 (321)
108 PRK06231 F0F1 ATP synthase sub 23.8 1.5E+02 0.0033 26.1 4.9 37 146-182 50-86 (205)
109 KOG1365 RNA-binding protein Fu 23.0 79 0.0017 30.6 2.9 24 309-332 202-225 (508)
110 PF05393 Hum_adeno_E3A: Human 21.9 1.2E+02 0.0025 22.8 3.0 17 28-45 58-74 (94)
111 PF08946 Osmo_CC: Osmosensory 21.7 1.3E+02 0.0027 19.6 2.8 19 288-306 16-34 (46)
112 COG0724 RNA-binding proteins ( 21.5 92 0.002 27.5 3.2 26 310-335 154-179 (306)
113 cd01324 cbb3_Oxidase_CcoQ Cyto 21.4 1.9E+02 0.0041 19.0 3.7 30 1-30 1-34 (48)
114 KOG4212 RNA-binding protein hn 21.0 1.3E+02 0.0029 29.6 4.0 27 309-335 82-108 (608)
115 PRK11020 hypothetical protein; 21.0 4.3E+02 0.0092 20.9 6.7 20 286-305 33-52 (118)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=2.7e-66 Score=512.79 Aligned_cols=368 Identities=23% Similarity=0.379 Sum_probs=328.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHhcChhH
Q 016889 2 DFDSFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDT 81 (381)
Q Consensus 2 ~~~~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~f~Wi~~~~~~~~~~i~~~~GlDa 81 (381)
++++|+|++.++..++++.+.+|++||+| +++||+||+..++.+...+.+.++|+|||+.++++++|+.+++.+|+||
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 68899999999999999999999999998 6789999999876441111278999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhheeeeeeeeecCcccccCCCCCCCCCcCccccccccccccCccchHHHHHHHHHHHHHH
Q 016889 82 AVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVT 161 (381)
Q Consensus 82 ~~flrfl~~~~~lf~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~SisNv~~~s~~lw~h~~~~~l~~~~~ 161 (381)
|+||||++||+.+|+++|++++|||+|||++.+...+ |+ ..+.++++++|++|+++ ++++|+|++.+|++.+++
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 9999999999999999999999999999988854321 11 02457899999999987 799999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCC---------CCCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCc
Q 016889 162 YFLLWRGYKHVSELRADALMSPE---------VRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (381)
Q Consensus 162 ~~~l~~~~~~~~~~R~~~l~~~~---------~~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~ 232 (381)
+|.+++|++.|..+||++++++. ++.++|||+++++|.++++ +++|.++|+++.-|++.+..+|||.+
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 2458999999999999999 88899999999888999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhh----------cc----------------CCCCCCCCCccccccc--CCCCCccc
Q 016889 233 EANKIYEELEGYKKKLARAEAVYAES----------KS----------------AGKPEGTRPTIKTGFL--GLLGKRVD 284 (381)
Q Consensus 233 ~l~~l~~~r~~~~~~LE~~~~~~~~~----------k~----------------~~~~~~~rp~~r~~~~--~~~g~~vd 284 (381)
.+.++.++|++..+++|.++.++... |+ .+.|+++||+||.+-. ++.|||||
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 99999999999999999998876421 10 1245678999997754 67899999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHhhhccCcceEEEEeCCHHHHHHHHHHhhcCCCCCeE-EeeCCCCCCeeeCCCCCChhh
Q 016889 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLVDTWT-VSDAPESRELIWNNLNIKFFQ 363 (381)
Q Consensus 285 ai~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~~~~~-v~~AP~P~DIiW~NL~~~~~~ 363 (381)
+|||+++++.+++++|++.|+......+.++|||||+|+..||+|+|....+++.... ++.||+|+||+|+|+..++++
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 9999999999999999999998777778889999999999999999999999998776 999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhc
Q 016889 364 RQIRHFFCFYPRLRGFL 380 (381)
Q Consensus 364 r~~R~~~~~~~~~~~~~ 380 (381)
|..|++.+++++++.++
T Consensus 409 r~~k~~~~ni~~il~II 425 (827)
T COG5594 409 RLFKRISANILFILLII 425 (827)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999998776653
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.8e-58 Score=471.07 Aligned_cols=359 Identities=34% Similarity=0.571 Sum_probs=308.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCCCC--CCC--CCCCCCCc-ccchHHhhcCCHHHHHHhcChhH
Q 016889 7 LTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLD--PWE--GGSRTRNP-FTWIKEAMSSSEQDVINMSGLDT 81 (381)
Q Consensus 7 ~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~--p~~--~~~~~~~~-f~Wi~~~~~~~~~~i~~~~GlDa 81 (381)
..+-.++...+..++.+|.+++.++.+.++|.|++.+.... |.+ ..+.+++. |+|+.++++++|+++++++|+||
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 33344555556666677777777777899999988876632 221 11445566 99999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhheeeeeeeeecCcccccCCCCCCCCCcCccccccccccccCccchHHHHHHHHHHHHHH
Q 016889 82 AVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVT 161 (381)
Q Consensus 82 ~~flrfl~~~~~lf~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~SisNv~~~s~~lw~h~~~~~l~~~~~ 161 (381)
++||||+++++++|+++++++++||+|||+++++....+ ..+++++|++|++.+|+++|+|++++|++++++
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 999999999999999999999999999999999876321 127999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHH
Q 016889 162 YFLLWRGYKHVSELRADALMSPEVRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEEL 241 (381)
Q Consensus 162 ~~~l~~~~~~~~~~R~~~l~~~~~~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r 241 (381)
++++++||++++.+|+++++++...+.+.|+.+.++|+ ..+.+.....+++|+..+|+++.++++++|..++.++.+++
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 99999999999999999999998888899999999993 33345567777777778889999999999999999999999
Q ss_pred HHHHH-HHHHHHHHHHhhccCCCCCCCCCcccccccCCCCCcccHHHHHHHHHHHHhHHHHHHHHHhhhccCcceEEEEe
Q 016889 242 EGYKK-KLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFF 320 (381)
Q Consensus 242 ~~~~~-~LE~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~~vdai~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF 320 (381)
+++.+ .+.+...+...+ + ++||+++.++||++|++||||+||++++++++++|+++|+...+.++.+.|||+|
T Consensus 239 ~k~~~~~l~~~~~~~~~~-----~-~~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~~~~~~~~~~~~~~aFVtf 312 (728)
T KOG1134|consen 239 KKLRENKLYKEHKRLKSN-----P-KKRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEELRESLYEEKPLPAAFVTF 312 (728)
T ss_pred HHHhHHHHHHhhhhhccc-----c-ccCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEE
Confidence 99953 333333222211 2 2899999999999999999999999999999999999999987678999999999
Q ss_pred CCHHHHHHHHHHhhcCCCCCeEEeeCCCCCCeeeCCCCCChhhHHHHHHHHHHHHHhhhc
Q 016889 321 TSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRHFFCFYPRLRGFL 380 (381)
Q Consensus 321 ~s~~~A~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~~~~ 380 (381)
+|+.+|+.|+|..++.++..|.++.||+|+||.|+|+.++..+|+.|++++++++++.++
T Consensus 313 ~sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~li~ 372 (728)
T KOG1134|consen 313 KSRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFLLLF 372 (728)
T ss_pred EeeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999998887653
No 3
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=1.4e-38 Score=270.89 Aligned_cols=156 Identities=35% Similarity=0.619 Sum_probs=137.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCC-CCCCCCCCCCCCcccchHHhhcCCHHHHHHhcChhHHH
Q 016889 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKG-LDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAV 83 (381)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~-~~p~~~~~~~~~~f~Wi~~~~~~~~~~i~~~~GlDa~~ 83 (381)
+|++++++|++++++++++|++||++ ++++|+||...++ .++...+++++|+|+|+.++++++|+|++++||+||++
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 6889999999852 11111114568999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhheeeeeeeeecCcccccCCCCCCCCCcCccccccccccccCccchHHHHHHHHHHHHHHHH
Q 016889 84 YFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVTYF 163 (381)
Q Consensus 84 flrfl~~~~~lf~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~SisNv~~~s~~lw~h~~~~~l~~~~~~~ 163 (381)
|+||+|+++++|+++++++++||+|+|++|++...+. ...++++++|++|++++++++|+|++++|+++++++|
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 016889 164 LLWRG 168 (381)
Q Consensus 164 ~l~~~ 168 (381)
++++|
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=99.44 E-value=1.8e-13 Score=130.57 Aligned_cols=64 Identities=34% Similarity=0.468 Sum_probs=60.5
Q ss_pred EEEEeCCHHHHHHHHHHhhcCCCCCeEEeeCCCCCCeeeCCCCCChhhHHHHHHHHHHHHHhhh
Q 016889 316 ALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRHFFCFYPRLRGF 379 (381)
Q Consensus 316 aFVtF~s~~~A~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~~~ 379 (381)
|||||+++.+|+.|+|...+++|.+|.+++||||+||+|+||+.+..+|+.|++++++++++.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~APeP~DI~W~NL~~~~~~r~~R~~~~~~~~~~l~ 64 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAPEPDDIIWENLSISSKQRFLRRIIVNILLFLLI 64 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCCCcccccccccCCChHHHHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999999999999999999999999999999998765543
No 5
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.31 E-value=4.6e-12 Score=96.31 Aligned_cols=71 Identities=41% Similarity=0.701 Sum_probs=58.1
Q ss_pred EeecCchHHHHHHHHHHHHHHHHHHHHHHHhhccC---CCC----------CCCCCcccccccCCCC-CcccHHHHHHHH
Q 016889 227 VVTNNKEANKIYEELEGYKKKLARAEAVYAESKSA---GKP----------EGTRPTIKTGFLGLLG-KRVDAIEYYNEK 292 (381)
Q Consensus 227 i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~---~~~----------~~~rp~~r~~~~~~~g-~~vdai~~~~~~ 292 (381)
||||+++|.+|+++|++++++||.++++|.+...+ ..+ ...||.++.+++|++| ++||||+||+++
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 58999999999999999999999999998754320 000 1246677778899888 999999999999
Q ss_pred HHHHh
Q 016889 293 IKEII 297 (381)
Q Consensus 293 l~~l~ 297 (381)
+++|+
T Consensus 81 l~~Ln 85 (85)
T PF14703_consen 81 LKELN 85 (85)
T ss_pred HHHhC
Confidence 99875
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=97.36 E-value=0.00076 Score=64.70 Aligned_cols=41 Identities=15% Similarity=0.256 Sum_probs=35.0
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCc
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~ 232 (381)
.....+|+|.|||.+++ +++|+++|++. |.|.+|.++.|..
T Consensus 104 ~~~~~~LfVgnLp~~~t----e~~L~~lF~~~--G~V~~v~i~~d~~ 144 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMT----DRELYALFRTI--GPINTCRIMRDYK 144 (346)
T ss_pred CCCCcEEEEeCCCCCCC----HHHHHHHHHhc--CCEEEEEEEecCC
Confidence 35689999999999986 89999999987 5699999988753
No 7
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=96.81 E-value=0.0063 Score=58.07 Aligned_cols=138 Identities=15% Similarity=0.296 Sum_probs=75.7
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHH------HHHHHHHHHHHHHHHHHHHHhhcc
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKS 260 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~------l~~~r~~~~~~LE~~~~~~~~~k~ 260 (381)
.+.--++|-.||+... +.+|+++||++ |.|.+|.+.+|-..=.. .+..|+++.+.......+.. ...
T Consensus 32 ~~~vKlfVgqIprt~s----E~dlr~lFe~y--g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~kt-lpG 104 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTAS----EKDLRELFEKY--GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKT-LPG 104 (510)
T ss_pred chhhhheeccCCcccc----HHHHHHHHHHh--CceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccc-cCC
Confidence 3344578999999875 89999999998 78999999988532111 11233333222221111000 000
Q ss_pred CCC------CCCCCCc---ccccccCCCCCcccHHHHHHHHHHHHhHHH---HHHHHH-hhhccCcceEEEEeCCHHHHH
Q 016889 261 AGK------PEGTRPT---IKTGFLGLLGKRVDAIEYYNEKIKEIIPKL---EAEQKI-TLKEKQLGAALVFFTSRVAAA 327 (381)
Q Consensus 261 ~~~------~~~~rp~---~r~~~~~~~g~~vdai~~~~~~l~~l~~~i---~~~~~~-~~~~~~~~~aFVtF~s~~~A~ 327 (381)
..- .+++|-. -+.-|.|+..|+.. +++++++-.+. ++.+-- -......|+|||+|.+.++|.
T Consensus 105 ~~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~t-----e~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~ 179 (510)
T KOG0144|consen 105 MHHPVQVKYADGERERIVEERKLFVGMLSKQCT-----ENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAV 179 (510)
T ss_pred CCcceeecccchhhhccccchhhhhhhcccccc-----HHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHH
Confidence 000 0111111 12224444445543 34555555443 222110 012357899999999999999
Q ss_pred HHHHHhhcC
Q 016889 328 SAAQSLHAQ 336 (381)
Q Consensus 328 ~a~q~~~~~ 336 (381)
.|...+...
T Consensus 180 ~Aika~ng~ 188 (510)
T KOG0144|consen 180 AAIKALNGT 188 (510)
T ss_pred HHHHhhccc
Confidence 999887654
No 8
>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=96.76 E-value=0.017 Score=59.54 Aligned_cols=171 Identities=18% Similarity=0.219 Sum_probs=90.3
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHH------HHHHHHHHHHHHHHHHHHHHhhccCCC-
Q 016889 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKSAGK- 263 (381)
Q Consensus 191 TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~------l~~~r~~~~~~LE~~~~~~~~~k~~~~- 263 (381)
||.|.|||.+.. ++.|.++|+++ |.|.+|.+++|...-.. .+...+.+.+.++.........+.-+.
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 799999999986 89999999988 57999999998642111 124445555545433211000000000
Q ss_pred CCCCCCccc-cc----ccCCCCCcccHHHHHHHHHHHHhHHHHHHHH-Hh---hhccCcceEEEEeCCHHHHHHHHHHhh
Q 016889 264 PEGTRPTIK-TG----FLGLLGKRVDAIEYYNEKIKEIIPKLEAEQK-IT---LKEKQLGAALVFFTSRVAAASAAQSLH 334 (381)
Q Consensus 264 ~~~~rp~~r-~~----~~~~~g~~vdai~~~~~~l~~l~~~i~~~~~-~~---~~~~~~~~aFVtF~s~~~A~~a~q~~~ 334 (381)
.....|..+ .+ +.+=..+.++. +.|.++-++.-.... ++ ...+..|.|||.|.+..+|..|.+.+.
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 11001123331 222222222111100 00 122457899999999999999998764
Q ss_pred cCCC--CCeEE-----------eeCCCCCCeeeCCCCCChhhHHHHHHHHH
Q 016889 335 AQLV--DTWTV-----------SDAPESRELIWNNLNIKFFQRQIRHFFCF 372 (381)
Q Consensus 335 ~~~~--~~~~v-----------~~AP~P~DIiW~NL~~~~~~r~~R~~~~~ 372 (381)
...- ....+ ...+....|+-.||..+..+.-++.++.-
T Consensus 151 g~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~ 201 (562)
T TIGR01628 151 GMLLNDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAK 201 (562)
T ss_pred ccEecCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHh
Confidence 3211 11111 12334456888999988888888877643
No 9
>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=96.60 E-value=0.014 Score=41.44 Aligned_cols=33 Identities=21% Similarity=0.373 Sum_probs=26.5
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 192 vlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
|.|.|||.+.. ++.|+++|+++ |.|..+.+..+
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 89999999986 56777776653
No 10
>PLN03120 nucleic acid binding protein; Provisional
Probab=96.49 E-value=0.025 Score=51.38 Aligned_cols=35 Identities=9% Similarity=0.085 Sum_probs=30.0
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEee
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~ 229 (381)
.+||.|.|||...+ ++.|++||+.. |.|.+|.+..
T Consensus 4 ~rtVfVgNLs~~tT----E~dLrefFS~~--G~I~~V~I~~ 38 (260)
T PLN03120 4 VRTVKVSNVSLKAT----ERDIKEFFSFS--GDIEYVEMQS 38 (260)
T ss_pred CCEEEEeCCCCCCC----HHHHHHHHHhc--CCeEEEEEee
Confidence 58999999999875 89999999876 7888888753
No 11
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=96.49 E-value=0.034 Score=46.42 Aligned_cols=38 Identities=8% Similarity=0.092 Sum_probs=31.2
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
....+|+|.|||.+.+ ++.|+++|+++ |.|.++.++.|
T Consensus 32 ~~~~~lfVgnL~~~~t----e~~L~~~F~~~--G~I~~v~i~~d 69 (144)
T PLN03134 32 LMSTKLFIGGLSWGTD----DASLRDAFAHF--GDVVDAKVIVD 69 (144)
T ss_pred CCCCEEEEeCCCCCCC----HHHHHHHHhcC--CCeEEEEEEec
Confidence 3457899999999875 89999999986 67888887653
No 12
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=96.35 E-value=0.041 Score=52.93 Aligned_cols=101 Identities=23% Similarity=0.305 Sum_probs=75.0
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCC
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTR 268 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~~~~r 268 (381)
..+|+|.|||.++. +++|+++|+++ |.|.+|.+++|-..
T Consensus 3 ~~~l~V~nLp~~~~----e~~l~~~F~~~--G~i~~v~i~~d~~~----------------------------------- 41 (352)
T TIGR01661 3 KTNLIVNYLPQTMT----QEEIRSLFTSI--GEIESCKLVRDKVT----------------------------------- 41 (352)
T ss_pred CcEEEEeCCCCCCC----HHHHHHHHHcc--CCEEEEEEEEcCCC-----------------------------------
Confidence 57899999999986 89999999987 67999988864211
Q ss_pred CcccccccCCCCCcccHHHHHHHHHHHHhHHHHHHHHHhhhccCcceEEEEeCCHHHHHHHHHHhhcCCC--CCeEEeeC
Q 016889 269 PTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLV--DTWTVSDA 346 (381)
Q Consensus 269 p~~r~~~~~~~g~~vdai~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~A 346 (381)
.+..|.|||+|.+..+|..|...+....- ....++.|
T Consensus 42 -----------------------------------------g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 42 -----------------------------------------GQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred -----------------------------------------CccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence 12457999999999999999987654332 23445444
Q ss_pred C------CCCCeeeCCCCCChhhHHHHHHHH
Q 016889 347 P------ESRELIWNNLNIKFFQRQIRHFFC 371 (381)
Q Consensus 347 P------~P~DIiW~NL~~~~~~r~~R~~~~ 371 (381)
- ....|+-.||.....+.-++.++.
T Consensus 81 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~ 111 (352)
T TIGR01661 81 RPSSDSIKGANLYVSGLPKTMTQHELESIFS 111 (352)
T ss_pred cccccccccceEEECCccccCCHHHHHHHHh
Confidence 2 334688899988877777777654
No 13
>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=96.18 E-value=0.038 Score=56.43 Aligned_cols=174 Identities=19% Similarity=0.179 Sum_probs=87.6
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHH-----HHHHHHHHHHHHHHHHHHHHhhccCC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK-----IYEELEGYKKKLARAEAVYAESKSAG 262 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~-----l~~~r~~~~~~LE~~~~~~~~~k~~~ 262 (381)
...+|+|.|||.++. ++.|.+.|+++ |.|.++.+.+|.....+ -+...+.+.+.++......... .
T Consensus 57 ~~~~lFVgnLp~~~t----Ed~L~~~F~~~--G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~---G 127 (578)
T TIGR01648 57 RGCEVFVGKIPRDLY----EDELVPLFEKA--GPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRP---G 127 (578)
T ss_pred CCCEEEeCCCCCCCC----HHHHHHHHHhh--CCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecC---C
Confidence 458999999999885 89999999987 67999999988543221 1123333333333221000000 0
Q ss_pred CCCCCC---CcccccccCCCCCcccHHHHHHHHHHHHhHHHHHH---HHHhhhccCcceEEEEeCCHHHHHHHHHHhhcC
Q 016889 263 KPEGTR---PTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAE---QKITLKEKQLGAALVFFTSRVAAASAAQSLHAQ 336 (381)
Q Consensus 263 ~~~~~r---p~~r~~~~~~~g~~vdai~~~~~~l~~l~~~i~~~---~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~ 336 (381)
...+-. ...+. +++=..+.++ -+-+.+++.+..+-+.+. .....+.+..+.|||+|++..+|..|.+.+...
T Consensus 128 r~l~V~~S~~~~rL-FVgNLP~~~T-eeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~g 205 (578)
T TIGR01648 128 RLLGVCISVDNCRL-FVGGIPKNKK-REEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPG 205 (578)
T ss_pred ccccccccccCcee-EeecCCcchh-hHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhcc
Confidence 000000 00000 1100011111 111112222211111000 000012345789999999999999998776543
Q ss_pred CC----CCeEEeeCCC-----C------CCeeeCCCCCChhhHHHHHHHHH
Q 016889 337 LV----DTWTVSDAPE-----S------RELIWNNLNIKFFQRQIRHFFCF 372 (381)
Q Consensus 337 ~~----~~~~v~~AP~-----P------~DIiW~NL~~~~~~r~~R~~~~~ 372 (381)
+. ....|..|.. + .-|+=.||..+..+..++.++.-
T Consensus 206 ki~l~Gr~I~VdwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~ 256 (578)
T TIGR01648 206 RIQLWGHVIAVDWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSE 256 (578)
T ss_pred ceEecCceEEEEeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHh
Confidence 21 2233433321 1 22677888888888888877653
No 14
>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=96.05 E-value=0.034 Score=39.74 Aligned_cols=31 Identities=16% Similarity=0.439 Sum_probs=23.8
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEe
Q 016889 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (381)
Q Consensus 192 vlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~ 228 (381)
|+|+|||.... +++|.++|+.. |.|.++.+.
T Consensus 1 v~i~nlp~~~~----~~~l~~~f~~~--g~v~~v~~~ 31 (70)
T PF14259_consen 1 VYISNLPPSTT----EEDLRNFFSRF--GPVEKVRLI 31 (70)
T ss_dssp EEEESSTTT------HHHHHHHCTTS--SBEEEEEEE
T ss_pred CEEeCCCCCCC----HHHHHHHHHhc--CCcceEEEE
Confidence 68999999865 78899999876 457777766
No 15
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=95.49 E-value=0.047 Score=48.27 Aligned_cols=33 Identities=24% Similarity=0.416 Sum_probs=26.5
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEee
Q 016889 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (381)
Q Consensus 191 TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~ 229 (381)
-|+|-|+|=+.. ++.|++|||++ |+|.+..++-
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 389999998765 79999999988 6677766654
No 16
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=95.36 E-value=0.075 Score=51.09 Aligned_cols=35 Identities=9% Similarity=0.227 Sum_probs=29.7
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
++|+|.|||.+.. ++.|.++|+.+ |.|.++.+++|
T Consensus 270 ~~lfV~NL~~~~~----e~~L~~~F~~f--G~v~~v~i~~d 304 (352)
T TIGR01661 270 YCIFVYNLSPDTD----ETVLWQLFGPF--GAVQNVKIIRD 304 (352)
T ss_pred cEEEEeCCCCCCC----HHHHHHHHHhC--CCeEEEEEeEc
Confidence 5799999998864 89999999977 67999888864
No 17
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=94.65 E-value=0.18 Score=44.97 Aligned_cols=37 Identities=14% Similarity=0.345 Sum_probs=30.3
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
...||.|+|+|.+.+ +..|++.|..+ |.|.+|.+++|
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 467999999999987 78888888766 55888888864
No 18
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=94.22 E-value=0.68 Score=47.69 Aligned_cols=39 Identities=10% Similarity=0.230 Sum_probs=32.2
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
....+|.|.|||.+.. ++.|+++|+++ |.|.++.+.+|.
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 3456799999999875 89999999987 678888888764
No 19
>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=94.08 E-value=0.62 Score=46.55 Aligned_cols=38 Identities=11% Similarity=0.223 Sum_probs=31.6
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
-..+||+|.|||..+. ++.|+++|+++ |.|.+|.++.|
T Consensus 87 ~~~~~l~V~nlp~~~~----~~~l~~~F~~~--G~v~~v~i~~d 124 (457)
T TIGR01622 87 RDDRTVFVLQLALKAR----ERDLYEFFSKV--GKVRDVQCIKD 124 (457)
T ss_pred cCCcEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEeec
Confidence 3478999999999876 88999999987 57888888753
No 20
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=93.53 E-value=0.66 Score=43.21 Aligned_cols=91 Identities=15% Similarity=0.163 Sum_probs=67.0
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGT 267 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~~~~ 267 (381)
..+-+.|+|||=.+| +.+|+..|+++ |+|.+|.|+.|.
T Consensus 95 ~pkRLhVSNIPFrFR----dpDL~aMF~kf--G~VldVEIIfNE------------------------------------ 132 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFR----DPDLRAMFEKF--GKVLDVEIIFNE------------------------------------ 132 (376)
T ss_pred CCceeEeecCCcccc----CccHHHHHHhh--CceeeEEEEecc------------------------------------
Confidence 346799999999999 57899999988 789999888632
Q ss_pred CCcccccccCCCCCcccHHHHHHHHHHHHhHHHHHHHHHhhhccCcceEEEEeCCHHHHHHHHHHhhcCCCC--------
Q 016889 268 RPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLVD-------- 339 (381)
Q Consensus 268 rp~~r~~~~~~~g~~vdai~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~~-------- 339 (381)
| ...|-+||||++..+|..|-+.++....-
T Consensus 133 R------------------------------------------GSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ 170 (376)
T KOG0125|consen 133 R------------------------------------------GSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNN 170 (376)
T ss_pred C------------------------------------------CCCccceEEecChhhHHHHHHHhhcceeeceEEEEec
Confidence 1 12467899999999999999988765321
Q ss_pred ----CeEEeeCCCCCCeeeCCCCCChh
Q 016889 340 ----TWTVSDAPESRELIWNNLNIKFF 362 (381)
Q Consensus 340 ----~~~v~~AP~P~DIiW~NL~~~~~ 362 (381)
-++-+--|.|.-.-|.++.....
T Consensus 171 ATarV~n~K~~v~p~~~g~~~~~a~~a 197 (376)
T KOG0125|consen 171 ATARVHNKKKKVLPYPNGWKLLPAVGA 197 (376)
T ss_pred cchhhccCCcccCCCccccccccchhh
Confidence 12223346666777888877643
No 21
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=93.38 E-value=0.15 Score=51.49 Aligned_cols=36 Identities=17% Similarity=0.162 Sum_probs=31.2
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
+++|.|.|||.+.. ++.|++.|+.+ |.|.++.++.+
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 89999999987 67999888764
No 22
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=93.29 E-value=0.21 Score=45.16 Aligned_cols=152 Identities=18% Similarity=0.284 Sum_probs=84.3
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHhhccCCCC-CC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKP-EG 266 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~-~~ 266 (381)
..||+.|-|+.+..+ ++-|...|+++ |+|.++.+.+| | .++... ..| ..
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 469999999999886 78889999988 56888888877 1 111000 011 12
Q ss_pred CCCcccccccCCCCCcccHHHHHHHHHHHHhH---HHHHHHH--HhhhccCcceEEEEeCCHHHHHHHHHHhhc------
Q 016889 267 TRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIP---KLEAEQK--ITLKEKQLGAALVFFTSRVAAASAAQSLHA------ 335 (381)
Q Consensus 267 ~rp~~r~~~~~~~g~~vdai~~~~~~l~~l~~---~i~~~~~--~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~------ 335 (381)
+.|+.+..+.-+.|.-+..|++ ++|++.-. +|.+.+- .....|..|++||+|-+..+|..|.|....
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 2343333222122322222322 33333322 2222211 112357899999999999999999876421
Q ss_pred --------CCC-------CCeE-E--eeCCCCCCeeeCCCCCChhhHHHHHHHH
Q 016889 336 --------QLV-------DTWT-V--SDAPESRELIWNNLNIKFFQRQIRHFFC 371 (381)
Q Consensus 336 --------~~~-------~~~~-v--~~AP~P~DIiW~NL~~~~~~r~~R~~~~ 371 (381)
.+| .... | +-+|.-.-|+=.|+.-.-.+-.+|+.++
T Consensus 133 ~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs 186 (321)
T KOG0148|consen 133 TIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFS 186 (321)
T ss_pred eeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcc
Confidence 112 1111 1 3456556666677766555666665543
No 23
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=93.15 E-value=0.21 Score=38.49 Aligned_cols=38 Identities=11% Similarity=0.206 Sum_probs=31.3
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
-|||++|||...+ .+.|.+.+++.++|+..-+.+..|.
T Consensus 2 TTvMirNIPn~~t----~~~L~~~l~~~~~g~yDF~YLPiDf 39 (97)
T PF04059_consen 2 TTVMIRNIPNKYT----QEMLIQILDEHFKGKYDFFYLPIDF 39 (97)
T ss_pred eeEEEecCCCCCC----HHHHHHHHHHhccCcceEEEeeeec
Confidence 4899999999997 7888888988888877666666664
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=92.92 E-value=0.58 Score=47.44 Aligned_cols=37 Identities=8% Similarity=0.205 Sum_probs=31.2
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
.++|+|.|||..+. ++.|+++|+.+ |.|..+.++.|.
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 89999999987 568888887763
No 25
>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=92.66 E-value=0.9 Score=46.80 Aligned_cols=86 Identities=9% Similarity=0.122 Sum_probs=62.7
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGT 267 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~~~~ 267 (381)
..++|.|.|||.++. ++.|+++|+.+ |.|.++.+.+|..
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 78999999976 6788888765321
Q ss_pred CCcccccccCCCCCcccHHHHHHHHHHHHhHHHHHHHHHhhhccCcceEEEEeCCHHHHHHHHHHhhcCCC--CCeEEee
Q 016889 268 RPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLV--DTWTVSD 345 (381)
Q Consensus 268 rp~~r~~~~~~~g~~vdai~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~ 345 (381)
..+..|.|||.|.+..+|..|...+....- ....|..
T Consensus 242 -----------------------------------------tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~k 280 (612)
T TIGR01645 242 -----------------------------------------GRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK 280 (612)
T ss_pred -----------------------------------------CCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEe
Confidence 013457999999999999999987765432 2355666
Q ss_pred CCCCCCeeeC
Q 016889 346 APESRELIWN 355 (381)
Q Consensus 346 AP~P~DIiW~ 355 (381)
|..|.+=.|.
T Consensus 281 Ai~pP~~~~~ 290 (612)
T TIGR01645 281 CVTPPDALLQ 290 (612)
T ss_pred cCCCccccCC
Confidence 6666555553
No 26
>PLN03121 nucleic acid binding protein; Provisional
Probab=92.64 E-value=0.21 Score=44.85 Aligned_cols=38 Identities=11% Similarity=0.239 Sum_probs=33.5
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
.-|||.|+||+...+ +++|++||+.. |+|.+|.+.+|-
T Consensus 4 ~g~TV~V~NLS~~tT----E~dLrefFS~~--G~I~~V~I~~D~ 41 (243)
T PLN03121 4 GGYTAEVTNLSPKAT----EKDVYDFFSHC--GAIEHVEIIRSG 41 (243)
T ss_pred CceEEEEecCCCCCC----HHHHHHHHHhc--CCeEEEEEecCC
Confidence 359999999999886 89999999976 789999999873
No 27
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=92.50 E-value=0.16 Score=48.96 Aligned_cols=166 Identities=22% Similarity=0.292 Sum_probs=86.1
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec-CchHHH-----HHHHHHHHHHHHHHHHHHHHhhccC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN-NKEANK-----IYEELEGYKKKLARAEAVYAESKSA 261 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d-~~~l~~-----l~~~r~~~~~~LE~~~~~~~~~k~~ 261 (381)
.-.-|+|-+||+++- +.+|.-.|+++ |+|-++.+..| .+.-.+ .+.-++.+++.++.+.+ ++
T Consensus 82 ~G~EVfvGkIPrD~~----EdeLvplfEki--G~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn-~E----- 149 (506)
T KOG0117|consen 82 RGCEVFVGKIPRDVF----EDELVPLFEKI--GKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNN-YE----- 149 (506)
T ss_pred CCceEEecCCCcccc----chhhHHHHHhc--cceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhC-cc-----
Confidence 346799999999886 78999999998 67888888777 222111 11122233333332211 10
Q ss_pred CCCCCCCCccccccc------C-CCC--CcccHHHHHHHHHHHHhHHHHH---HHHHhhhccCcceEEEEeCCHHHHHHH
Q 016889 262 GKPEGTRPTIKTGFL------G-LLG--KRVDAIEYYNEKIKEIIPKLEA---EQKITLKEKQLGAALVFFTSRVAAASA 329 (381)
Q Consensus 262 ~~~~~~rp~~r~~~~------~-~~g--~~vdai~~~~~~l~~l~~~i~~---~~~~~~~~~~~~~aFVtF~s~~~A~~a 329 (381)
-||-...++| . +.| .|-..-+-..+++++..+=+.. ..+-..+-+..|-|||.|.|-..|.++
T Consensus 150 -----ir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~a 224 (506)
T KOG0117|consen 150 -----IRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMA 224 (506)
T ss_pred -----ccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHH
Confidence 1222223322 1 122 2211111111222211111100 000001345789999999999999999
Q ss_pred HHHhhcCCCCCe----EEeeC-----CCCC------CeeeCCCCCChhhHHHHHHH
Q 016889 330 AQSLHAQLVDTW----TVSDA-----PESR------ELIWNNLNIKFFQRQIRHFF 370 (381)
Q Consensus 330 ~q~~~~~~~~~~----~v~~A-----P~P~------DIiW~NL~~~~~~r~~R~~~ 370 (381)
-|.+.+++..-| .|+.| |+++ =.+=.||..+-.+-.++..+
T Consensus 225 RrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F 280 (506)
T KOG0117|consen 225 RRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLF 280 (506)
T ss_pred HhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHH
Confidence 999988775444 24444 3332 13456666666665555544
No 28
>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=91.07 E-value=3.7 Score=41.44 Aligned_cols=39 Identities=13% Similarity=0.093 Sum_probs=30.1
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
+...+|+|.|||.+..+ ++.|.+.|+++ |.|.+|.+.+|
T Consensus 273 ~~~~~l~v~nL~~~~vt---~~~L~~lF~~y--G~V~~vki~~~ 311 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVN---CDRLFNLFCVY--GNVERVKFMKN 311 (481)
T ss_pred CCCCEEEEeCCCCCCCC---HHHHHHHHHhc--CCeEEEEEEeC
Confidence 35679999999974234 89999999977 67888777653
No 29
>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=90.43 E-value=1.2 Score=44.47 Aligned_cols=37 Identities=11% Similarity=0.159 Sum_probs=30.1
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEee
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~ 229 (381)
+..++|+|.|||..+. ++.|+++|+.+ |.|.+|.+.+
T Consensus 184 p~~~~l~v~nl~~~~t----e~~l~~~f~~~--G~i~~v~~~~ 220 (457)
T TIGR01622 184 PNFLKLYVGNLHFNIT----EQELRQIFEPF--GDIEDVQLHR 220 (457)
T ss_pred CCCCEEEEcCCCCCCC----HHHHHHHHHhc--CCeEEEEEEE
Confidence 4468999999999875 89999999876 5677777664
No 30
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=90.16 E-value=0.34 Score=42.70 Aligned_cols=46 Identities=24% Similarity=0.288 Sum_probs=35.0
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCCC--CCeEEeeCCCCCCeeeC
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSLHAQLV--DTWTVSDAPESRELIWN 355 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~AP~P~DIiW~ 355 (381)
.+-.|.|||+|++..+|..|...++.--- .-|.++.|-+++||+=.
T Consensus 49 ~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~ 96 (221)
T KOG4206|consen 49 PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQ 96 (221)
T ss_pred CCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhc
Confidence 45699999999999999998876554321 24778889988888643
No 31
>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=90.02 E-value=1.3 Score=45.76 Aligned_cols=38 Identities=8% Similarity=0.054 Sum_probs=31.1
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
...++|+|.|||.+.+ ++.|+++|+++ |.|.+|.+.+|
T Consensus 105 ~~~~rLfVGnLp~~~t----Ee~Lr~lF~~f--G~I~sV~I~~D 142 (612)
T TIGR01645 105 AIMCRVYVGSISFELR----EDTIRRAFDPF--GPIKSINMSWD 142 (612)
T ss_pred cCCCEEEEcCCCCCCC----HHHHHHHHHcc--CCEEEEEEeec
Confidence 3457899999999886 89999999986 56888887653
No 32
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=88.97 E-value=5 Score=36.31 Aligned_cols=147 Identities=18% Similarity=0.221 Sum_probs=79.5
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHH---------HHHHHHHHHHHHHHHHHHhhcc
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIY---------EELEGYKKKLARAEAVYAESKS 260 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~---------~~r~~~~~~LE~~~~~~~~~k~ 260 (381)
--+.|.-+|...+ .++++..|..+ |+|+++.++||--.=..|- +.-++++.-|.-... .+|.
T Consensus 42 TNLIvNYLPQ~MT----qdE~rSLF~Si--GeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrL---Q~KT 112 (360)
T KOG0145|consen 42 TNLIVNYLPQNMT----QDELRSLFGSI--GEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRL---QNKT 112 (360)
T ss_pred ceeeeeecccccC----HHHHHHHhhcc--cceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceee---ccce
Confidence 3467788998876 78889988877 7899999999853222211 122222222211100 0110
Q ss_pred CCCCCCCCCcc---cccccCCCC-CcccHHHHHHHHHHHHhHHHHHHHH-Hh----hhccCcceEEEEeCCHHHHHHHHH
Q 016889 261 AGKPEGTRPTI---KTGFLGLLG-KRVDAIEYYNEKIKEIIPKLEAEQK-IT----LKEKQLGAALVFFTSRVAAASAAQ 331 (381)
Q Consensus 261 ~~~~~~~rp~~---r~~~~~~~g-~~vdai~~~~~~l~~l~~~i~~~~~-~~----~~~~~~~~aFVtF~s~~~A~~a~q 331 (381)
-+.+-.||.. |-.-+-..| +|- --.+|+|.+-...-..-. ++ ...-..|.+||-|+...+|..|..
T Consensus 113 -IKVSyARPSs~~Ik~aNLYvSGlPkt----MtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk 187 (360)
T KOG0145|consen 113 -IKVSYARPSSDSIKDANLYVSGLPKT----MTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIK 187 (360)
T ss_pred -EEEEeccCChhhhcccceEEecCCcc----chHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHH
Confidence 0011224431 110000011 111 123555555544433211 11 123468999999999999999999
Q ss_pred HhhcCCCCCe----EEeeCCCCC
Q 016889 332 SLHAQLVDTW----TVSDAPESR 350 (381)
Q Consensus 332 ~~~~~~~~~~----~v~~AP~P~ 350 (381)
.+..++|... .|..|-+|+
T Consensus 188 ~lNG~~P~g~tepItVKFannPs 210 (360)
T KOG0145|consen 188 GLNGQKPSGCTEPITVKFANNPS 210 (360)
T ss_pred hccCCCCCCCCCCeEEEecCCcc
Confidence 9988887543 467777773
No 33
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=88.95 E-value=0.95 Score=44.41 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=30.0
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
...+-|.+++||=+.+ +++|.+||+.. .|+++.+.++
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 4578899999998876 88999999865 5777777776
No 34
>smart00362 RRM_2 RNA recognition motif.
Probab=88.64 E-value=0.89 Score=31.45 Aligned_cols=34 Identities=15% Similarity=0.292 Sum_probs=27.2
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 191 TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
||.|+|||.... ++.|+++|++. |.|.++.+.++
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 589999999875 78999999877 46777776653
No 35
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=87.13 E-value=0.51 Score=40.03 Aligned_cols=55 Identities=16% Similarity=0.180 Sum_probs=37.4
Q ss_pred HHHHHhHHHHHHHHHhhhccCcceEEEEeCCHHHHHHHHHHhhcCCC--CCeEEeeC
Q 016889 292 KIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLV--DTWTVSDA 346 (381)
Q Consensus 292 ~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~A 346 (381)
+||..-.+.-.++.......|-|.|||+|+++.+|..|...|-..+. ..|.|++.
T Consensus 26 eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 26 ELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred HHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 34333333333444444457899999999999999999998876664 34667653
No 36
>smart00361 RRM_1 RNA recognition motif.
Probab=86.62 E-value=1 Score=32.27 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=22.3
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~ 336 (381)
.+.|.|||+|.+..+|..|.+.+...
T Consensus 35 ~~rG~~fV~f~~~~dA~~A~~~l~g~ 60 (70)
T smart00361 35 HKRGNVYITFERSEDAARAIVDLNGR 60 (70)
T ss_pred CCcEEEEEEECCHHHHHHHHHHhCCC
Confidence 45789999999999999999977654
No 37
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=86.14 E-value=1.2 Score=30.05 Aligned_cols=24 Identities=33% Similarity=0.343 Sum_probs=21.2
Q ss_pred cceEEEEeCCHHHHHHHHHHhhcC
Q 016889 313 LGAALVFFTSRVAAASAAQSLHAQ 336 (381)
Q Consensus 313 ~~~aFVtF~s~~~A~~a~q~~~~~ 336 (381)
.+.|||+|.+..+|..|.+.+...
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 599999999999999999987644
No 38
>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=85.20 E-value=2 Score=29.79 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=27.2
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEee
Q 016889 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (381)
Q Consensus 191 TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~ 229 (381)
+|+|+|+|.... ++.++++|+.. |.+.++.+..
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 89999999987 6787777765
No 39
>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=81.11 E-value=2.3 Score=43.67 Aligned_cols=56 Identities=18% Similarity=0.253 Sum_probs=41.0
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHH
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLA 249 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE 249 (381)
...+|+|.|||.+.. ++.|+++|+++-||+|++|.+.++..=+. ++.++.+.+.++
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 89999999998889999998877653222 234444444444
No 40
>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=78.27 E-value=3.6 Score=39.59 Aligned_cols=38 Identities=16% Similarity=0.320 Sum_probs=31.8
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
....+|.|.|||.++. +++|+++|+++ |.|.++.+.+|
T Consensus 191 ~~~~~lfV~nLp~~vt----ee~L~~~F~~f--G~V~~v~i~~d 228 (346)
T TIGR01659 191 IKDTNLYVTNLPRTIT----DDQLDTIFGKY--GQIVQKNILRD 228 (346)
T ss_pred cccceeEEeCCCCccc----HHHHHHHHHhc--CCEEEEEEeec
Confidence 3467899999999886 78999999877 67888888765
No 41
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=77.08 E-value=2.5 Score=41.12 Aligned_cols=54 Identities=17% Similarity=0.210 Sum_probs=43.3
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHHHH
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARA 251 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~~ 251 (381)
..+.|+|||.+++ ++.|++.|+++ |+|++|...+|+.=+. +.+|+.+++..+..
T Consensus 260 KvLYVRNL~~~tT----eE~lk~~F~~~--G~veRVkk~rDYaFVH--f~eR~davkAm~~~ 313 (506)
T KOG0117|consen 260 KVLYVRNLMESTT----EETLKKLFNEF--GKVERVKKPRDYAFVH--FAEREDAVKAMKET 313 (506)
T ss_pred eeeeeeccchhhh----HHHHHHHHHhc--cceEEeecccceeEEe--ecchHHHHHHHHHh
Confidence 5789999999876 89999999988 8999999999876544 56777777665543
No 42
>smart00362 RRM_2 RNA recognition motif.
Probab=76.72 E-value=3.4 Score=28.31 Aligned_cols=25 Identities=36% Similarity=0.393 Sum_probs=21.1
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhc
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHA 335 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~ 335 (381)
.+.+.|||+|.+..+|..|.+.+..
T Consensus 37 ~~~~~~~v~f~~~~~a~~a~~~~~~ 61 (72)
T smart00362 37 KSKGFAFVEFESEEDAEKAIEALNG 61 (72)
T ss_pred CCCceEEEEeCCHHHHHHHHHHhCC
Confidence 3579999999999999999886653
No 43
>smart00360 RRM RNA recognition motif.
Probab=75.81 E-value=3.6 Score=28.06 Aligned_cols=24 Identities=38% Similarity=0.397 Sum_probs=20.7
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhh
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLH 334 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~ 334 (381)
++.+.|||+|.+..+|..|.+.+.
T Consensus 36 ~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 36 KSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCceEEEEeCCHHHHHHHHHHcC
Confidence 457899999999999999987665
No 44
>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=73.81 E-value=4.9 Score=27.64 Aligned_cols=26 Identities=31% Similarity=0.370 Sum_probs=22.0
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~ 336 (381)
.+.+.|||+|++..+|+.|.+.+...
T Consensus 38 ~~~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 38 KSKGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCC
Confidence 35789999999999999999876554
No 45
>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=72.55 E-value=0.53 Score=35.52 Aligned_cols=25 Identities=24% Similarity=0.408 Sum_probs=18.8
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHH
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYF 214 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f 214 (381)
..+.+||+|+|||..+. ++.|++.+
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 47889999999999554 66665543
No 46
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=72.51 E-value=16 Score=36.16 Aligned_cols=35 Identities=23% Similarity=0.289 Sum_probs=29.2
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
++|.|.|||.+.. ++.|.+.|++. |.|.++.+++|
T Consensus 19 ~~v~vgnip~~~s----e~~l~~~~~~~--g~v~s~~~v~D 53 (435)
T KOG0108|consen 19 SSVFVGNIPYEGS----EEQLLSIFSGV--GPVLSFRLVYD 53 (435)
T ss_pred cceEecCCCCccc----HHHHHHHHhcc--Cccceeeeccc
Confidence 9999999999886 89999999877 45777777654
No 47
>smart00360 RRM RNA recognition motif.
Probab=69.18 E-value=7.4 Score=26.39 Aligned_cols=32 Identities=19% Similarity=0.307 Sum_probs=25.1
Q ss_pred EecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 194 VRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 194 V~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
|.|+|.... ++.|+++|++. |.|.++.+..+.
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 79999999977 568888877754
No 48
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=68.40 E-value=8.9 Score=34.32 Aligned_cols=37 Identities=22% Similarity=0.322 Sum_probs=31.4
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
.++|+|.|||.+.. ++.|.++|.++ |.+.++.+.+|-
T Consensus 115 ~~~l~v~nL~~~~~----~~~l~~~F~~~--g~~~~~~~~~d~ 151 (306)
T COG0724 115 NNTLFVGNLPYDVT----EEDLRELFKKF--GPVKRVRLVRDR 151 (306)
T ss_pred CceEEEeCCCCCCC----HHHHHHHHHhc--CceeEEEeeecc
Confidence 49999999998876 89999999988 457788888774
No 49
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=68.38 E-value=6.9 Score=30.42 Aligned_cols=27 Identities=22% Similarity=0.277 Sum_probs=22.8
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcCC
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQL 337 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~~ 337 (381)
...|+|||++++..+|..|+..+..-+
T Consensus 55 ~TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 55 ETRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred CcCceEEEEehHhhhHHHHHHHhcccc
Confidence 457999999999999999998775443
No 50
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=65.45 E-value=11 Score=25.33 Aligned_cols=32 Identities=19% Similarity=0.120 Sum_probs=24.4
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEe
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~ 228 (381)
++|.|+|.|.+. .+.+.+||.+. |+|.++.+.
T Consensus 2 ~wI~V~Gf~~~~-----~~~vl~~F~~f--GeI~~~~~~ 33 (53)
T PF14605_consen 2 TWISVSGFPPDL-----AEEVLEHFASF--GEIVDIYVP 33 (53)
T ss_pred cEEEEEeECchH-----HHHHHHHHHhc--CCEEEEEcC
Confidence 689999999876 56777899885 667766554
No 51
>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=64.62 E-value=93 Score=30.65 Aligned_cols=89 Identities=19% Similarity=0.443 Sum_probs=51.2
Q ss_pred HHHHhh---CCCceeEEEEee-cCc-hHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCcccccccCCCCCcccHH
Q 016889 212 SYFKAI---YPDTFYRSMVVT-NNK-EANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAI 286 (381)
Q Consensus 212 ~~f~~~---~p~~V~~v~i~~-d~~-~l~~l~~~r~~~~~~LE~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~~vdai 286 (381)
+||+.+ ||+. ....+++ |.. -+..+.++.+++..+++....++.++ | ++...+
T Consensus 218 ~Yf~~l~~~f~d~-a~~~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~----------~-----------k~~~k~ 275 (406)
T PF02388_consen 218 EYFENLYDAFGDK-AKFFLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKN----------P-----------KKKNKL 275 (406)
T ss_dssp HHHHHHHHHCCCC-EEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------T-----------HHHHHH
T ss_pred HHHHHHHHhcCCC-eEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC----------c-----------chhhHH
Confidence 455443 5666 4566665 775 45567778888888888887776532 1 111123
Q ss_pred HHHHHHHHHHhHHHHHHHHHhh---hc-cCcceEEEEeCC
Q 016889 287 EYYNEKIKEIIPKLEAEQKITL---KE-KQLGAALVFFTS 322 (381)
Q Consensus 287 ~~~~~~l~~l~~~i~~~~~~~~---~~-~~~~~aFVtF~s 322 (381)
.-++++++.+++++++.++-.. +. .-++.-||.+.+
T Consensus 276 ~~~~~q~~~~~k~~~~~~~~~~~~~~~~~la~~l~~~~g~ 315 (406)
T PF02388_consen 276 KELEEQLASLEKRIEEAEELIAEYGDEIPLAGALFIYYGD 315 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH-SEEEEEEEEEEEETT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEEEEEECC
Confidence 4456777777777777655321 11 124455666654
No 52
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=61.80 E-value=7.9 Score=37.60 Aligned_cols=36 Identities=14% Similarity=0.301 Sum_probs=30.9
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCch
Q 016889 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKE 233 (381)
Q Consensus 192 vlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~ 233 (381)
|.|.|+|+++. .+.|.+.|+.+ |.|.+|.++.|...
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 68899999987 78999988887654
No 53
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=61.48 E-value=17 Score=33.13 Aligned_cols=50 Identities=26% Similarity=0.284 Sum_probs=38.4
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCCC-----CCeEEeeCCCCCCeeeCCCCCChhhHHHHHHHH
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSLHAQLV-----DTWTVSDAPESRELIWNNLNIKFFQRQIRHFFC 371 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~-----~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~ 371 (381)
....|+|||-|++..+|+.|...++.+.. ..+.|..|- +.++|.+||.--
T Consensus 57 g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~AD------------TdkER~lRRMQQ 111 (371)
T KOG0146|consen 57 GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFAD------------TDKERTLRRMQQ 111 (371)
T ss_pred CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEecc------------chHHHHHHHHHH
Confidence 35689999999999999999999987753 345666663 567788887643
No 54
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=59.89 E-value=9.5 Score=33.39 Aligned_cols=24 Identities=33% Similarity=0.350 Sum_probs=20.8
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHh
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSL 333 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~ 333 (381)
...-|+|||.|.|..-|.+|+.+.
T Consensus 89 GNSKgYAFVEFEs~eVA~IaAETM 112 (214)
T KOG4208|consen 89 GNSKGYAFVEFESEEVAKIAAETM 112 (214)
T ss_pred CCcCceEEEEeccHHHHHHHHHHh
Confidence 356789999999999999998764
No 55
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=59.44 E-value=14 Score=37.04 Aligned_cols=35 Identities=23% Similarity=0.376 Sum_probs=29.2
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
+||+|+|+|=+.+ ++.|.++|+++ |+|..+.+|.|
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 8999999998876 89999999988 56777666654
No 56
>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=56.77 E-value=23 Score=25.49 Aligned_cols=36 Identities=28% Similarity=0.288 Sum_probs=28.3
Q ss_pred ceEEEEeCCHHHHHHHHHHhhcCCCCCeEEeeCCCCCCe
Q 016889 314 GAALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESREL 352 (381)
Q Consensus 314 ~~aFVtF~s~~~A~~a~q~~~~~~~~~~~v~~AP~P~DI 352 (381)
...+|||.|..+|-.+-+.+...+- .+...|-|++|
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 4679999999999999888776643 46667888876
No 57
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=56.68 E-value=25 Score=33.36 Aligned_cols=44 Identities=16% Similarity=0.168 Sum_probs=35.5
Q ss_pred HHHHHhHHHHHHHHHhh--------hccCcceEEEEeCCHHHHHHHHHHhhc
Q 016889 292 KIKEIIPKLEAEQKITL--------KEKQLGAALVFFTSRVAAASAAQSLHA 335 (381)
Q Consensus 292 ~l~~l~~~i~~~~~~~~--------~~~~~~~aFVtF~s~~~A~~a~q~~~~ 335 (381)
-+..+++.+.++.++.+ ...|-|.|=|+|++...|..|+|+++.
T Consensus 285 l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~G 336 (382)
T KOG1548|consen 285 LLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDG 336 (382)
T ss_pred HHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcC
Confidence 36677777777777653 347899999999999999999998754
No 58
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=55.84 E-value=1.5e+02 Score=28.82 Aligned_cols=25 Identities=24% Similarity=0.279 Sum_probs=21.9
Q ss_pred hccCcceEEEEeCCHHHHHHHHHHh
Q 016889 309 KEKQLGAALVFFTSRVAAASAAQSL 333 (381)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~q~~ 333 (381)
+..++|-|||.|.+.+.|..|+|.-
T Consensus 320 qGrPSGeAFIqm~nae~a~aaaqk~ 344 (508)
T KOG1365|consen 320 QGRPSGEAFIQMRNAERARAAAQKC 344 (508)
T ss_pred CCCcChhhhhhhhhhHHHHHHHHHH
Confidence 3468999999999999999999863
No 59
>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=55.40 E-value=13 Score=28.71 Aligned_cols=26 Identities=35% Similarity=0.353 Sum_probs=22.4
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcC
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~ 336 (381)
...|.|||-|.++..|....+.....
T Consensus 43 ~N~GYAFVNf~~~~~~~~F~~~f~g~ 68 (97)
T PF04059_consen 43 CNLGYAFVNFTSPQAAIRFYKAFNGK 68 (97)
T ss_pred CceEEEEEEcCCHHHHHHHHHHHcCC
Confidence 45999999999999999998877654
No 60
>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=55.12 E-value=12 Score=30.13 Aligned_cols=20 Identities=10% Similarity=0.142 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHhcCC
Q 016889 12 TSFIIFVVLMCLFAWLSSKP 31 (381)
Q Consensus 12 ~~~~~~~~~l~lF~~lR~~~ 31 (381)
+..+++.+++++|++.|++.
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 34455666777788877663
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=54.63 E-value=29 Score=25.99 Aligned_cols=41 Identities=27% Similarity=0.327 Sum_probs=25.3
Q ss_pred CcceEEEEeCCHHHHHHHHHHhhcCCCC--CeEEeeCCCCCCe
Q 016889 312 QLGAALVFFTSRVAAASAAQSLHAQLVD--TWTVSDAPESREL 352 (381)
Q Consensus 312 ~~~~aFVtF~s~~~A~~a~q~~~~~~~~--~~~v~~AP~P~DI 352 (381)
..++|.|-|.++..|..|.+-+.....+ +..|...|.+.|.
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 4689999999999999999887766553 4557777777664
No 62
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=53.56 E-value=21 Score=33.13 Aligned_cols=37 Identities=14% Similarity=0.131 Sum_probs=32.2
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
.-+|++|.-|+-++. +.+|++.|+.+ |.|+++.+++|
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 358999999998764 89999999988 56999999998
No 63
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=53.31 E-value=19 Score=32.66 Aligned_cols=24 Identities=21% Similarity=0.253 Sum_probs=20.9
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHh
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSL 333 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~ 333 (381)
.+..|++||+|.++.++..|....
T Consensus 229 gKSkgygfVSf~~pad~~rAmrem 252 (290)
T KOG0226|consen 229 GKSKGYGFVSFRDPADYVRAMREM 252 (290)
T ss_pred cccccceeeeecCHHHHHHHHHhh
Confidence 567899999999999999987754
No 64
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=53.30 E-value=21 Score=34.86 Aligned_cols=42 Identities=5% Similarity=0.101 Sum_probs=34.8
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCc
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~ 232 (381)
...+|+|+|||||-+.+ =+.|++.+++.. |+|+.|.+..|-+
T Consensus 41 ~~r~R~vfItNIpyd~r----WqdLKdLvrekv-Gev~yveLl~D~~ 82 (608)
T KOG4212|consen 41 AARDRSVFITNIPYDYR----WQDLKDLVREKV-GEVEYVELLFDES 82 (608)
T ss_pred ccccceEEEecCcchhh----hHhHHHHHHHhc-CceEeeeeecccC
Confidence 45678999999999987 578999998885 7898888888753
No 65
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=50.48 E-value=29 Score=29.95 Aligned_cols=44 Identities=14% Similarity=0.180 Sum_probs=31.7
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHH
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEAN 235 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~ 235 (381)
+-+.|-|+|+++|++-. =+.|++++.+. |.|.-..+-+|-..+.
T Consensus 112 rrSe~RVvVsGLp~SgS----WQDLKDHmRea--GdvCfadv~rDg~GvV 155 (241)
T KOG0105|consen 112 RRSEYRVVVSGLPPSGS----WQDLKDHMREA--GDVCFADVQRDGVGVV 155 (241)
T ss_pred cccceeEEEecCCCCCc----hHHHHHHHHhh--CCeeeeeeecccceee
Confidence 35678999999999753 78999999987 4555555555554333
No 66
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=46.46 E-value=15 Score=38.55 Aligned_cols=41 Identities=7% Similarity=0.177 Sum_probs=34.4
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCc
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~ 232 (381)
...++|+.|-+||+..+ +.+|++-|+++ |+|.+|.+..+.+
T Consensus 418 sV~SrTLwvG~i~k~v~----e~dL~~~feef--GeiqSi~li~~R~ 458 (894)
T KOG0132|consen 418 SVCSRTLWVGGIPKNVT----EQDLANLFEEF--GEIQSIILIPPRG 458 (894)
T ss_pred eEeeeeeeeccccchhh----HHHHHHHHHhc--ccceeEeeccCCc
Confidence 36789999999999887 89999999988 6788887776553
No 67
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=46.30 E-value=37 Score=34.31 Aligned_cols=28 Identities=21% Similarity=0.291 Sum_probs=24.2
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhh
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAI 217 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~ 217 (381)
...+++|.|.|||..++ ++.|.++|++.
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 68
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=46.13 E-value=22 Score=32.87 Aligned_cols=36 Identities=17% Similarity=0.320 Sum_probs=31.0
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCch
Q 016889 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKE 233 (381)
Q Consensus 192 vlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~ 233 (381)
++|-|+|.+.. +.+|+..|+++ |+|.++-|+.|+.=
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 57889999875 78999999988 79999999998863
No 69
>PLN03121 nucleic acid binding protein; Provisional
Probab=44.94 E-value=35 Score=30.85 Aligned_cols=21 Identities=24% Similarity=0.161 Sum_probs=17.7
Q ss_pred cCcceEEEEeCCHHHHHHHHH
Q 016889 311 KQLGAALVFFTSRVAAASAAQ 331 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q 331 (381)
+..+.|||+|+++.+|..|..
T Consensus 42 et~gfAfVtF~d~~aaetAll 62 (243)
T PLN03121 42 EYACTAYVTFKDAYALETAVL 62 (243)
T ss_pred CcceEEEEEECCHHHHHHHHh
Confidence 345799999999999988874
No 70
>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=44.78 E-value=1.1e+02 Score=28.74 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHhhhccCcceEEEEeCCHH
Q 016889 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRV 324 (381)
Q Consensus 285 ai~~~~~~l~~l~~~i~~~~~~~~~~~~~~~aFVtF~s~~ 324 (381)
.++..+++++.+++.|+..|+++.+-+.+..|-+.|.+..
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 4667788888888888888888866677788888887653
No 71
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=44.37 E-value=21 Score=30.79 Aligned_cols=39 Identities=13% Similarity=0.138 Sum_probs=32.6
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
-++.||.|.|||..++ ++.|.+.|-+. |.|.++++.+|.
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 78888888777 458999988864
No 72
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=44.35 E-value=37 Score=29.08 Aligned_cols=43 Identities=16% Similarity=0.150 Sum_probs=35.5
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHH
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEAN 235 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~ 235 (381)
..+.-|.|-|||...+ +.+|+.-|..+ |.+.+||++++.....
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 3467899999999886 78999999877 5699999999876544
No 73
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=43.59 E-value=32 Score=30.65 Aligned_cols=22 Identities=32% Similarity=0.277 Sum_probs=19.1
Q ss_pred cceEEEEeCCHHHHHHHHHHhh
Q 016889 313 LGAALVFFTSRVAAASAAQSLH 334 (381)
Q Consensus 313 ~~~aFVtF~s~~~A~~a~q~~~ 334 (381)
.+.|||||.|...|..|...+.
T Consensus 77 ~pvaFatF~s~q~A~aamnaLN 98 (284)
T KOG1457|consen 77 KPVAFATFTSHQFALAAMNALN 98 (284)
T ss_pred cceEEEEecchHHHHHHHHHhc
Confidence 4899999999999999987654
No 74
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=42.18 E-value=29 Score=29.93 Aligned_cols=26 Identities=15% Similarity=0.345 Sum_probs=22.9
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhh
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAI 217 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~ 217 (381)
.+++|.|-|+|.+++ +.++++.|-++
T Consensus 5 ~~~~iyvGNLP~diR----ekeieDlFyKy 30 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIR----EKEIEDLFYKY 30 (241)
T ss_pred ccceEEecCCCcchh----hccHHHHHhhh
Confidence 478999999999998 67888989887
No 75
>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=37.44 E-value=95 Score=19.38 Aligned_cols=29 Identities=14% Similarity=0.211 Sum_probs=19.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 016889 3 FDSFLTSLGTSFIIFVVLMCLFAWLSSKP 31 (381)
Q Consensus 3 ~~~~~~~l~~~~~~~~~~l~lF~~lR~~~ 31 (381)
+=+...++.+.+++-.++++.|.+-+||+
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 34556666666666666777777888774
No 76
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=36.66 E-value=45 Score=32.66 Aligned_cols=28 Identities=29% Similarity=0.385 Sum_probs=24.2
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhcCC
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSLHAQL 337 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~ 337 (381)
....|++||+|.+.++|..|...++..+
T Consensus 73 ~~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 73 GQSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred CcccceEEEEeccHHHHHHHHHHhhccc
Confidence 3578999999999999999998887654
No 77
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=36.43 E-value=77 Score=24.24 Aligned_cols=39 Identities=26% Similarity=0.395 Sum_probs=20.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcCC--CCc---eeeecccc
Q 016889 4 DSFLTSLGTSFIIFVVLMCLFAWLSSKP--GNT---VVYYPNRI 42 (381)
Q Consensus 4 ~~~~~~l~~~~~~~~~~l~lF~~lR~~~--~~~---~iY~pr~~ 42 (381)
+-||.+|+.-++...++.-+|.++|+.. +|. .||+|--.
T Consensus 19 eIfLItLasVvvavGl~aGLfFcvR~~lslrn~~~ta~Y~PHg~ 62 (106)
T PF14654_consen 19 EIFLITLASVVVAVGLFAGLFFCVRNSLSLRNTFDTAVYRPHGP 62 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccceEccCCc
Confidence 4456665544444444444555557642 222 57777643
No 78
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=36.17 E-value=49 Score=27.28 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=22.1
Q ss_pred cccHHHHHHHHHHHHhHHHHHHHHHh
Q 016889 282 RVDAIEYYNEKIKEIIPKLEAEQKIT 307 (381)
Q Consensus 282 ~vdai~~~~~~l~~l~~~i~~~~~~~ 307 (381)
.-||.+||+.+++.+++++++.+..+
T Consensus 99 ~e~akdyfkRKve~l~kq~e~i~~i~ 124 (153)
T KOG3048|consen 99 AEDAKDYFKRKVEYLTKQIEQIEGIL 124 (153)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44789999999999999999877654
No 79
>KOG0684 consensus Cytochrome P450 [Secondary metabolites biosynthesis, transport and catabolism]
Probab=35.35 E-value=79 Score=31.51 Aligned_cols=50 Identities=18% Similarity=0.361 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHhcCCCCceeeecccccCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHhcChhHHHHHHHHH
Q 016889 15 IIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAVYFVFMS 89 (381)
Q Consensus 15 ~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~f~Wi~~~~~~~~~~i~~~~GlDa~~flrfl~ 89 (381)
++.++++++|+.+|++ .+| ++|| ...|+.-|+..++. .|-|.+.|++=.+
T Consensus 12 lvi~~~l~~~~~~~~r-------~~~----~~PP-----li~gwiP~lG~a~~---------fgk~P~eFl~~~~ 61 (486)
T KOG0684|consen 12 LVIALLLLLFLLLQRR-------TSR----KEPP-----LIKGWIPWLGSALA---------FGKDPLEFLRECR 61 (486)
T ss_pred HHHHHHHHHHHHHhcc-------cCC----CCCc-----ccccCcchhhHHHH---------hccCHHHHHHHHH
Confidence 3445566667777765 222 2333 46888899998875 7888888877554
No 80
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=35.19 E-value=45 Score=32.64 Aligned_cols=38 Identities=11% Similarity=0.159 Sum_probs=30.4
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
...|||++.|+|.+-. -+.|.+.|... |+|..|.||.-
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 5789999999998764 57777777655 78999999875
No 81
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=34.60 E-value=50 Score=31.22 Aligned_cols=41 Identities=15% Similarity=0.328 Sum_probs=33.6
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHH
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEAN 235 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~ 235 (381)
-..|.|.+||.++. ++.+++||++. |.|.++.+.+|..+..
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 35799999999886 89999999987 4788888888875533
No 82
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=33.25 E-value=73 Score=29.73 Aligned_cols=26 Identities=15% Similarity=0.167 Sum_probs=22.3
Q ss_pred hccCcceEEEEeCCHHHHHHHHHHhh
Q 016889 309 KEKQLGAALVFFTSRVAAASAAQSLH 334 (381)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~q~~~ 334 (381)
..++.|+|||.|+...+-+.|.+...
T Consensus 139 TgkskGYAFIeye~erdm~~AYK~ad 164 (335)
T KOG0113|consen 139 TGKSKGYAFIEYEHERDMKAAYKDAD 164 (335)
T ss_pred cCCccceEEEEeccHHHHHHHHHhcc
Confidence 45789999999999999999987543
No 83
>PLN03213 repressor of silencing 3; Provisional
Probab=31.31 E-value=88 Score=31.28 Aligned_cols=39 Identities=13% Similarity=0.111 Sum_probs=33.6
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
..-.+|+|-||+.+.. ++.|...|.++ |.|.+|.++++.
T Consensus 8 ~~gMRIYVGNLSydVT----EDDLravFSeF--GsVkdVEIpRET 46 (759)
T PLN03213 8 GGGVRLHVGGLGESVG----RDDLLKIFSPM--GTVDAVEFVRTK 46 (759)
T ss_pred CcceEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEeccc
Confidence 4568899999999987 89999999988 789999988754
No 84
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=30.99 E-value=62 Score=26.83 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=25.7
Q ss_pred CcceEEEEeCCHHHHHHHHHHhhcCCCCCe
Q 016889 312 QLGAALVFFTSRVAAASAAQSLHAQLVDTW 341 (381)
Q Consensus 312 ~~~~aFVtF~s~~~A~~a~q~~~~~~~~~~ 341 (381)
.--+|.|+|++..+|-.|..+.++..|..+
T Consensus 124 GrqsavVvF~d~~SAC~Av~Af~s~~pgtm 153 (166)
T PF15023_consen 124 GRQSAVVVFKDITSACKAVSAFQSRAPGTM 153 (166)
T ss_pred CCceEEEEehhhHHHHHHHHhhcCCCCCce
Confidence 355899999999999999999998888654
No 85
>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=30.85 E-value=22 Score=35.76 Aligned_cols=49 Identities=27% Similarity=0.538 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeecccccCCCCCCCCCCCCCCcccchHHhhc
Q 016889 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMS 67 (381)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~f~Wi~~~~~ 67 (381)
++++++++++++..++.++|.++.+- +|.-+.. | +.-++||.|+.-+.+
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 56788888888888888888888654 4444443 1 235677888876654
No 86
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=30.70 E-value=3.5e+02 Score=27.19 Aligned_cols=25 Identities=16% Similarity=0.292 Sum_probs=15.1
Q ss_pred CCCCcccHHHHHHHHHHHHhHHHHHHHH
Q 016889 278 LLGKRVDAIEYYNEKIKEIIPKLEAEQK 305 (381)
Q Consensus 278 ~~g~~vdai~~~~~~l~~l~~~i~~~~~ 305 (381)
..+++-|.| ++|++++..+-++.+.
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 345555554 7888888765555443
No 87
>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=30.34 E-value=42 Score=27.17 Aligned_cols=10 Identities=20% Similarity=0.421 Sum_probs=3.8
Q ss_pred HHHHHHHHHh
Q 016889 19 VLMCLFAWLS 28 (381)
Q Consensus 19 ~~l~lF~~lR 28 (381)
+++++|++.+
T Consensus 14 l~~~~~~~~~ 23 (130)
T PF12273_consen 14 LFLFLFYCHN 23 (130)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 88
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=29.66 E-value=64 Score=28.49 Aligned_cols=38 Identities=8% Similarity=0.086 Sum_probs=31.1
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
...++.|.||--.+. .+.|..-|+++ |.|-+|.|.+|-
T Consensus 12 gm~SLkVdNLTyRTs----pd~LrrvFekY--G~vgDVyIPrdr 49 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTS----PDDLRRVFEKY--GRVGDVYIPRDR 49 (256)
T ss_pred cceeEEecceeccCC----HHHHHHHHHHh--Ccccceeccccc
Confidence 468899999876543 89999999998 788888888874
No 89
>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=29.62 E-value=18 Score=21.34 Aligned_cols=6 Identities=50% Similarity=1.403 Sum_probs=2.5
Q ss_pred CeeeCC
Q 016889 351 ELIWNN 356 (381)
Q Consensus 351 DIiW~N 356 (381)
||||.|
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 90
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=28.33 E-value=57 Score=28.19 Aligned_cols=24 Identities=25% Similarity=0.274 Sum_probs=21.5
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHh
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSL 333 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~ 333 (381)
.+..|.||+.|.++++|..|+|.+
T Consensus 48 ~~~qGygF~Ef~~eedadYAikil 71 (203)
T KOG0131|consen 48 QKHQGYGFAEFRTEEDADYAIKIL 71 (203)
T ss_pred ccccceeEEEEechhhhHHHHHHH
Confidence 367899999999999999999875
No 91
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=28.13 E-value=1.2e+02 Score=31.79 Aligned_cols=62 Identities=16% Similarity=0.294 Sum_probs=41.8
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcCC--CCCeEEeeCC-------------CC--CCeeeCCCCCChhhHHHHHHHHH
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDAP-------------ES--RELIWNNLNIKFFQRQIRHFFCF 372 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~AP-------------~P--~DIiW~NL~~~~~~r~~R~~~~~ 372 (381)
...|.|||.|.++.+|+.|.+.++... -+...+..++ .+ .-|+=.|+.--...|-+|.++..
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~a 636 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTA 636 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHhc
Confidence 357999999999999999999866321 1223333333 22 26677777777777777777654
No 92
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=27.90 E-value=1.1e+02 Score=23.89 Aligned_cols=36 Identities=17% Similarity=0.170 Sum_probs=26.5
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEe
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~ 228 (381)
.-.+-+.|+|+|.+++ .++.-+.|.++ |.|..+.+.
T Consensus 16 evnriLyirNLp~~IT----seemydlFGky--g~IrQIRiG 51 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKIT----SEEMYDLFGKY--GTIRQIRIG 51 (124)
T ss_pred hhheeEEEecCCcccc----HHHHHHHhhcc--cceEEEEec
Confidence 3468899999999997 56677788777 456655544
No 93
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=27.48 E-value=70 Score=32.42 Aligned_cols=36 Identities=31% Similarity=0.493 Sum_probs=29.0
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
-|++|+++|.+.+ .+.|.++|+...| |..+.++.|.
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 6899999998855 6666666554
No 94
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=27.36 E-value=83 Score=28.68 Aligned_cols=36 Identities=8% Similarity=0.133 Sum_probs=29.8
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 190 ~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
=.|.+++||+... ...|+++|.++ |.|-+|.+..+.
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 4689999999986 78999999855 788898888743
No 95
>PF15179 Myc_target_1: Myc target protein 1
Probab=27.12 E-value=1.1e+02 Score=26.48 Aligned_cols=34 Identities=21% Similarity=0.471 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCceeee
Q 016889 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYY 38 (381)
Q Consensus 5 ~~~~~l~~~~~~~~~~l~lF~~lR~~~~~~~iY~ 38 (381)
+|-.++++.++|+.++.++|..|-+|+--.+|.+
T Consensus 24 aF~vSm~iGLviG~li~~LltwlSRRRASa~Isr 57 (197)
T PF15179_consen 24 AFCVSMAIGLVIGALIWALLTWLSRRRASARISR 57 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 4666777777777777777777755432334543
No 96
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=26.96 E-value=2e+02 Score=19.15 Aligned_cols=30 Identities=23% Similarity=0.262 Sum_probs=15.2
Q ss_pred ccCCCCCcccHHHHHHHHHHHHhHHHHHHHH
Q 016889 275 FLGLLGKRVDAIEYYNEKIKEIIPKLEAEQK 305 (381)
Q Consensus 275 ~~~~~g~~vdai~~~~~~l~~l~~~i~~~~~ 305 (381)
.|.+||...|.-+. .+-+++++.+++...+
T Consensus 22 ~CPlC~r~l~~e~~-~~li~~~~~~i~~~~~ 51 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR-QELIKKYKSEIEELPE 51 (54)
T ss_dssp E-TTT--EE-HHHH-HHHHHHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHH-HHHHHHHHHHHHhhhh
Confidence 46788888876444 4445556666655544
No 97
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=26.77 E-value=68 Score=29.27 Aligned_cols=70 Identities=20% Similarity=0.252 Sum_probs=47.5
Q ss_pred HHHHHHHhHHHHHH------HHHhhhccCcceEEEEeCCHHHHHHHHHHhhcCC--CCCeEEeeC-CCCCCeeeCCCCCC
Q 016889 290 NEKIKEIIPKLEAE------QKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA-PESRELIWNNLNIK 360 (381)
Q Consensus 290 ~~~l~~l~~~i~~~------~~~~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~A-P~P~DIiW~NL~~~ 360 (381)
++|++.|-..|-+. |+++ .....|++||-+-++.+|..|..++..-+ ....+|..| |.-+.|.=.||.++
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 46677766655442 3333 34679999999999999999998875433 334667666 55555666787665
No 98
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=26.73 E-value=91 Score=31.30 Aligned_cols=39 Identities=15% Similarity=0.216 Sum_probs=31.5
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
-..+||+|-++|.-++ .++|...|+.+| |.|.-|-|=.|
T Consensus 368 DprrTVFVGgvprpl~----A~eLA~imd~ly-GgV~yaGIDtD 406 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLT----AEELAMIMEDLF-GGVLYVGIDTD 406 (520)
T ss_pred CccceEEecCCCCcch----HHHHHHHHHHhc-CceEEEEeccC
Confidence 3469999999999987 899999999999 45666655544
No 99
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=26.69 E-value=1e+02 Score=25.35 Aligned_cols=37 Identities=8% Similarity=0.194 Sum_probs=29.8
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 189 ~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
-+.|+|++|-++.+ ++.+.+-|..+ |.|.++++.-|-
T Consensus 72 GwIi~VtgvHeEat----Eedi~d~F~dy--GeiKNihLNLDR 108 (170)
T KOG0130|consen 72 GWIIFVTGVHEEAT----EEDIHDKFADY--GEIKNIHLNLDR 108 (170)
T ss_pred eEEEEEeccCcchh----HHHHHHHHhhc--ccccceeecccc
Confidence 46789999999876 78899999887 678888877553
No 100
>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=26.50 E-value=1.2e+02 Score=23.15 Aligned_cols=32 Identities=13% Similarity=0.137 Sum_probs=27.6
Q ss_pred CceeEEEEeecCchHHHHHHHHHHHHHHHHHH
Q 016889 220 DTFYRSMVVTNNKEANKIYEELEGYKKKLARA 251 (381)
Q Consensus 220 ~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~~ 251 (381)
++-..+.+.-|..+|..|..+.+.+++.+|++
T Consensus 62 ~~~~~i~f~c~~e~L~~Li~~Lk~A~~~~e~~ 93 (95)
T cd04751 62 ENKPDINFTCTLEQLQDLVNKLKDAAKNIERA 93 (95)
T ss_pred CCcceEEEEeCHHHHHHHHHHHHHHHHHHHHh
Confidence 33457889999999999999999999999975
No 101
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=26.13 E-value=97 Score=28.20 Aligned_cols=39 Identities=18% Similarity=0.154 Sum_probs=31.7
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecC
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~ 231 (381)
....+|.|.|+|.... +++|++.|++.. .+..|.+-||-
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 689999999884 67777777765
No 102
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=25.58 E-value=1.3e+02 Score=30.47 Aligned_cols=28 Identities=18% Similarity=0.223 Sum_probs=24.0
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcCCC
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQLV 338 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~~~ 338 (381)
..+|+.||.|.|..+++.|.+.+...+-
T Consensus 452 ~G~GkVFVefas~ed~qrA~~~L~GrKF 479 (500)
T KOG0120|consen 452 PGTGKVFVEFADTEDSQRAMEELTGRKF 479 (500)
T ss_pred CCcccEEEEecChHHHHHHHHHccCcee
Confidence 3599999999999999999998876543
No 103
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=25.35 E-value=51 Score=27.67 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHhheeeeee
Q 016889 85 FVFMSTVLGIFALSGIILLPALLPV 109 (381)
Q Consensus 85 lrfl~~~~~lf~~~~~~~~~iLlPi 109 (381)
-|++++++++..++|++++.+|.-+
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v~ 53 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVVI 53 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999888888776544
No 104
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=24.74 E-value=87 Score=27.90 Aligned_cols=35 Identities=29% Similarity=0.264 Sum_probs=26.0
Q ss_pred cCcceEEEEeCCHHHHHHHHHHhhcCC---CCCeEEee
Q 016889 311 KQLGAALVFFTSRVAAASAAQSLHAQL---VDTWTVSD 345 (381)
Q Consensus 311 ~~~~~aFVtF~s~~~A~~a~q~~~~~~---~~~~~v~~ 345 (381)
...+.|||.|.+...|..|.|.++..+ .+.|.+..
T Consensus 181 ~~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~ 218 (221)
T KOG4206|consen 181 PRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITF 218 (221)
T ss_pred CCCceeEEecchhhhhHHHhhhhccceeccCceEEecc
Confidence 358899999999999999988876543 23455443
No 105
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=24.02 E-value=2.6e+02 Score=19.56 Aligned_cols=41 Identities=22% Similarity=0.335 Sum_probs=29.6
Q ss_pred CcceEEEecCCCCCCCCChHHHHHHHHHhh----CCCcee-----EEEEeecCch
Q 016889 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAI----YPDTFY-----RSMVVTNNKE 233 (381)
Q Consensus 188 ~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~----~p~~V~-----~v~i~~d~~~ 233 (381)
...+|.|+|+.. + + .+.++.||.++ .|..|+ ++.+++....
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 356889999865 3 3 78999999999 455564 6777775543
No 106
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=24.00 E-value=99 Score=25.19 Aligned_cols=38 Identities=18% Similarity=0.232 Sum_probs=30.0
Q ss_pred CCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeec
Q 016889 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (381)
Q Consensus 187 ~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d 230 (381)
-++.||.|.||+-..+ ++.|-+.|..- |.|.+|.+.-|
T Consensus 34 r~S~tvyVgNlSfytt----EEqiyELFs~c--G~irriiMGLd 71 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTT----EEQIYELFSKC--GDIRRIIMGLD 71 (153)
T ss_pred hhcceEEEeeeeeeec----HHHHHHHHHhc--cchheeEeccc
Confidence 4579999999998765 89999999877 56777766544
No 107
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=23.91 E-value=1.2e+02 Score=28.07 Aligned_cols=59 Identities=14% Similarity=0.177 Sum_probs=39.3
Q ss_pred CCCcceEEEecCCCCCCCCChHHHHHHHHHhhCCCceeEEEEeecCchHHHHHHHHHHHHHHHHH
Q 016889 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLAR 250 (381)
Q Consensus 186 ~~~~~TvlV~~IP~~~~~~~~~~~L~~~f~~~~p~~V~~v~i~~d~~~l~~l~~~r~~~~~~LE~ 250 (381)
++...||.|-||+.-+. ++.+++.|..+ |.|.+|.+-.|-.=----++.+|.+.+.++.
T Consensus 161 sp~NtsVY~G~I~~~lt----e~~mr~~Fs~f--G~I~EVRvFk~qGYaFVrF~tkEaAahAIv~ 219 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLT----EDLMRQTFSPF--GPIQEVRVFKDQGYAFVRFETKEAAAHAIVQ 219 (321)
T ss_pred CCCCceEEeCCcCcccc----HHHHHHhcccC--CcceEEEEecccceEEEEecchhhHHHHHHH
Confidence 47889999999999665 88999999877 5677777665432100013345555555554
No 108
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=23.75 E-value=1.5e+02 Score=26.09 Aligned_cols=37 Identities=19% Similarity=0.351 Sum_probs=26.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 016889 146 RLWAFLVATYWVSFVTYFLLWRGYKHVSELRADALMS 182 (381)
Q Consensus 146 ~lw~h~~~~~l~~~~~~~~l~~~~~~~~~~R~~~l~~ 182 (381)
.+..+++...++.++..+++|.....+++-|+.....
T Consensus 50 ~~i~qlInFlIlv~lL~k~l~kPi~~~L~~R~~~I~~ 86 (205)
T PRK06231 50 VFIAHLIAFSILLLLGIFLFWKPTQRFLNKRKELIEA 86 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555666677788888889999999877643
No 109
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=23.00 E-value=79 Score=30.56 Aligned_cols=24 Identities=25% Similarity=0.350 Sum_probs=21.1
Q ss_pred hccCcceEEEEeCCHHHHHHHHHH
Q 016889 309 KEKQLGAALVFFTSRVAAASAAQS 332 (381)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~q~ 332 (381)
+.+++|-|||.|..+.+|+.|.|.
T Consensus 202 dgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 202 DGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred CCCcccceEEEecCHHHHHHHHHH
Confidence 457899999999999999999764
No 110
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=21.90 E-value=1.2e+02 Score=22.84 Aligned_cols=17 Identities=18% Similarity=0.247 Sum_probs=10.9
Q ss_pred hcCCCCceeeecccccCC
Q 016889 28 SSKPGNTVVYYPNRILKG 45 (381)
Q Consensus 28 R~~~~~~~iY~pr~~~~~ 45 (381)
|+|. -++||.|-..+.+
T Consensus 58 Rkrs-RrPIYrPvI~~~P 74 (94)
T PF05393_consen 58 RKRS-RRPIYRPVIGLEP 74 (94)
T ss_pred hhhc-cCCccccccccCC
Confidence 3443 4789999876543
No 111
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.66 E-value=1.3e+02 Score=19.59 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=13.8
Q ss_pred HHHHHHHHHhHHHHHHHHH
Q 016889 288 YYNEKIKEIIPKLEAEQKI 306 (381)
Q Consensus 288 ~~~~~l~~l~~~i~~~~~~ 306 (381)
..+++++.++++|.+++++
T Consensus 16 ~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 16 NIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hHHHhHHHHHHHHHHHHHH
Confidence 3467888888888877654
No 112
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=21.53 E-value=92 Score=27.51 Aligned_cols=26 Identities=35% Similarity=0.373 Sum_probs=23.0
Q ss_pred ccCcceEEEEeCCHHHHHHHHHHhhc
Q 016889 310 EKQLGAALVFFTSRVAAASAAQSLHA 335 (381)
Q Consensus 310 ~~~~~~aFVtF~s~~~A~~a~q~~~~ 335 (381)
....|.|||.|.++.+|..|.+.+..
T Consensus 154 ~~~~g~~~v~f~~~~~~~~a~~~~~~ 179 (306)
T COG0724 154 GKSRGFAFVEFESEESAEKAIEELNG 179 (306)
T ss_pred CccCceEEEEecCHHHHHHHHHHcCC
Confidence 46789999999999999999998763
No 113
>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=21.40 E-value=1.9e+02 Score=19.04 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=14.3
Q ss_pred CchhHHHHHHHHHHHH----HHHHHHHHHHHhcC
Q 016889 1 MDFDSFLTSLGTSFII----FVVLMCLFAWLSSK 30 (381)
Q Consensus 1 ~~~~~~~~~l~~~~~~----~~~~l~lF~~lR~~ 30 (381)
|+..+.+.+++.+.++ .+++-+++..+|++
T Consensus 1 Md~~~~lr~~a~~~~l~~~~~~Figiv~wa~~p~ 34 (48)
T cd01324 1 MDIGETLRGLADSWGLLYLALFFLGVVVWAFRPG 34 (48)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4444445555555554 44444444445443
No 114
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=21.03 E-value=1.3e+02 Score=29.62 Aligned_cols=27 Identities=26% Similarity=0.288 Sum_probs=23.2
Q ss_pred hccCcceEEEEeCCHHHHHHHHHHhhc
Q 016889 309 KEKQLGAALVFFTSRVAAASAAQSLHA 335 (381)
Q Consensus 309 ~~~~~~~aFVtF~s~~~A~~a~q~~~~ 335 (381)
+.|+.++|.|.|++++.++.|+..+..
T Consensus 82 ~GK~rGcavVEFk~~E~~qKa~E~lnk 108 (608)
T KOG4212|consen 82 SGKARGCAVVEFKDPENVQKALEKLNK 108 (608)
T ss_pred CCCcCCceEEEeeCHHHHHHHHHHhhh
Confidence 357899999999999999999987643
No 115
>PRK11020 hypothetical protein; Provisional
Probab=21.03 E-value=4.3e+02 Score=20.94 Aligned_cols=20 Identities=0% Similarity=0.120 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHhHHHHHHHH
Q 016889 286 IEYYNEKIKEIIPKLEAEQK 305 (381)
Q Consensus 286 i~~~~~~l~~l~~~i~~~~~ 305 (381)
|.-+++|++.++.+|+..+.
T Consensus 33 i~qf~~E~~~l~k~I~~lk~ 52 (118)
T PRK11020 33 YAQFEKEKATLEAEIARLKE 52 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55567777888887776554
Done!