Query 010210
Match_columns 515
No_of_seqs 199 out of 923
Neff 8.7
Searched_HMMs 46136
Date Thu Mar 28 22:20:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010210.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010210hhsearch_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 6E-94 1.3E-98 745.4 38.0 503 2-515 20-561 (827)
2 KOG1134 Uncharacterized conser 100.0 1.2E-85 2.7E-90 707.3 40.5 493 8-515 9-507 (728)
3 PF02714 DUF221: Domain of unk 100.0 1.7E-41 3.7E-46 342.4 20.4 200 316-515 1-201 (325)
4 PF13967 RSN1_TM: Late exocyto 100.0 2.2E-36 4.8E-41 271.2 13.6 156 5-168 1-157 (157)
5 PF14703 DUF4463: Domain of un 99.2 5.2E-11 1.1E-15 95.3 7.0 71 227-297 1-85 (85)
6 PF04547 Anoctamin: Calcium-ac 97.3 0.0034 7.5E-08 66.4 13.9 113 356-475 109-222 (452)
7 TIGR01659 sex-lethal sex-letha 97.1 0.0017 3.6E-08 65.8 8.3 41 186-232 104-144 (346)
8 PLN03134 glycine-rich RNA-bind 96.4 0.031 6.7E-07 49.2 9.7 38 187-230 32-69 (144)
9 KOG2513 Protein required for m 96.2 0.2 4.3E-06 53.1 16.0 110 358-477 260-373 (647)
10 KOG0144 RNA-binding protein CU 96.1 0.023 4.9E-07 57.1 8.1 145 187-346 32-203 (510)
11 TIGR01661 ELAV_HUD_SF ELAV/HuD 96.1 0.039 8.4E-07 56.2 10.4 101 189-371 3-111 (352)
12 PF00076 RRM_1: RNA recognitio 96.0 0.024 5.3E-07 42.5 6.2 33 192-230 1-33 (70)
13 TIGR01628 PABP-1234 polyadenyl 95.9 0.025 5.5E-07 61.6 8.5 171 191-372 2-201 (562)
14 KOG0149 Predicted RNA-binding 95.8 0.023 4.9E-07 52.8 6.4 33 191-229 14-46 (247)
15 TIGR01648 hnRNP-R-Q heterogene 95.5 0.058 1.3E-06 58.1 8.9 40 187-232 56-95 (578)
16 TIGR01661 ELAV_HUD_SF ELAV/HuD 95.1 0.11 2.5E-06 52.8 9.4 36 189-230 269-304 (352)
17 PF14259 RRM_6: RNA recognitio 95.0 0.067 1.5E-06 40.3 5.6 31 192-228 1-31 (70)
18 KOG0125 Ataxin 2-binding prote 93.9 0.22 4.8E-06 48.5 7.7 38 187-230 94-131 (376)
19 KOG0122 Translation initiation 93.6 0.29 6.3E-06 45.8 7.6 37 188-230 188-224 (270)
20 TIGR01628 PABP-1234 polyadenyl 93.4 0.77 1.7E-05 50.1 12.0 39 187-231 176-214 (562)
21 TIGR01645 half-pint poly-U bin 92.3 0.85 1.8E-05 49.5 10.0 87 188-356 203-291 (612)
22 TIGR01648 hnRNP-R-Q heterogene 91.9 0.89 1.9E-05 49.2 9.6 38 312-349 268-307 (578)
23 KOG0127 Nucleolar protein fibr 91.4 0.73 1.6E-05 48.0 7.9 33 190-228 293-325 (678)
24 KOG0117 Heterogeneous nuclear 91.2 1 2.2E-05 45.9 8.4 38 187-230 81-118 (506)
25 TIGR01622 SF-CC1 splicing fact 91.2 0.73 1.6E-05 48.8 8.2 37 187-229 87-123 (457)
26 PF04059 RRM_2: RNA recognitio 90.8 0.44 9.5E-06 38.7 4.6 38 190-231 2-39 (97)
27 KOG4211 Splicing factor hnRNP- 90.6 0.82 1.8E-05 47.1 7.3 37 187-230 8-44 (510)
28 PLN03121 nucleic acid binding 90.2 0.49 1.1E-05 44.7 5.0 38 187-230 3-40 (243)
29 TIGR01642 U2AF_lg U2 snRNP aux 89.9 1.6 3.6E-05 46.8 9.6 35 188-228 294-328 (509)
30 KOG0148 Apoptosis-promoting RN 89.6 0.6 1.3E-05 44.4 5.0 152 188-371 5-186 (321)
31 KOG2514 Uncharacterized conser 88.4 4.6 0.0001 44.7 11.3 47 424-470 441-487 (861)
32 TIGR01622 SF-CC1 splicing fact 88.3 2.6 5.6E-05 44.6 9.6 36 187-228 184-219 (457)
33 PLN03120 nucleic acid binding 88.1 0.74 1.6E-05 44.2 4.7 35 189-229 4-38 (260)
34 TIGR01645 half-pint poly-U bin 88.1 1.6 3.5E-05 47.4 7.8 38 187-230 105-142 (612)
35 KOG0145 RNA-binding protein EL 87.9 2.1 4.6E-05 40.4 7.4 146 190-349 42-209 (360)
36 TIGR01649 hnRNP-L_PTB hnRNP-L/ 87.3 6 0.00013 42.3 11.6 38 187-230 273-311 (481)
37 KOG1548 Transcription elongati 87.1 3.6 7.8E-05 40.7 8.7 45 292-336 285-337 (382)
38 KOG4206 Spliceosomal protein s 86.6 0.73 1.6E-05 42.8 3.6 45 311-355 50-96 (221)
39 PF13893 RRM_5: RNA recognitio 85.9 1.4 3.1E-05 31.4 4.2 24 313-336 21-44 (56)
40 KOG1457 RNA binding protein (c 85.2 3.9 8.4E-05 38.0 7.4 23 312-334 76-98 (284)
41 smart00362 RRM_2 RNA recogniti 85.1 1.4 3.1E-05 32.1 4.1 34 191-230 1-34 (72)
42 KOG4212 RNA-binding protein hn 82.5 6 0.00013 40.3 8.1 37 186-227 41-77 (608)
43 cd00590 RRM RRM (RNA recogniti 80.2 3 6.4E-05 30.5 4.2 33 191-229 1-33 (74)
44 KOG0108 mRNA cleavage and poly 78.4 7.8 0.00017 40.5 7.7 35 190-230 19-53 (435)
45 smart00361 RRM_1 RNA recogniti 78.0 3 6.5E-05 31.4 3.5 26 311-336 35-60 (70)
46 KOG0107 Alternative splicing f 74.9 3 6.6E-05 37.2 3.1 36 310-345 44-81 (195)
47 PF07292 NID: Nmi/IFP 35 domai 72.1 0.64 1.4E-05 36.9 -1.6 24 186-213 49-72 (88)
48 TIGR01659 sex-lethal sex-letha 69.7 6.3 0.00014 40.1 4.5 38 187-230 191-228 (346)
49 KOG1365 RNA-binding protein Fu 69.5 48 0.001 33.5 10.2 27 309-335 320-346 (508)
50 KOG0109 RNA-binding protein LA 69.1 4.5 9.8E-05 39.1 3.1 37 192-234 5-41 (346)
51 smart00360 RRM RNA recognition 67.9 7 0.00015 28.1 3.5 24 311-334 36-59 (71)
52 smart00362 RRM_2 RNA recogniti 66.0 8.1 0.00018 27.9 3.5 25 311-335 37-61 (72)
53 KOG0117 Heterogeneous nuclear 63.2 15 0.00032 37.8 5.5 82 288-369 95-184 (506)
54 KOG0146 RNA-binding protein ET 62.9 16 0.00035 34.9 5.4 51 311-373 58-113 (371)
55 smart00360 RRM RNA recognition 60.3 11 0.00023 27.0 3.2 32 194-231 1-32 (71)
56 cd00590 RRM RRM (RNA recogniti 58.6 13 0.00029 26.8 3.5 25 312-336 39-63 (74)
57 COG0724 RNA-binding proteins ( 57.8 15 0.00032 34.9 4.5 37 189-231 115-151 (306)
58 TIGR01649 hnRNP-L_PTB hnRNP-L/ 57.7 14 0.0003 39.5 4.6 36 189-230 2-37 (481)
59 KOG0123 Polyadenylate-binding 50.1 63 0.0014 33.2 7.7 33 192-230 79-111 (369)
60 KOG0132 RNA polymerase II C-te 49.8 12 0.00026 41.1 2.5 41 186-232 418-458 (894)
61 PF01102 Glycophorin_A: Glycop 49.4 15 0.00034 31.1 2.6 20 12-31 74-93 (122)
62 PLN03120 nucleic acid binding 48.0 36 0.00079 32.9 5.2 35 312-347 42-78 (260)
63 PF11823 DUF3343: Protein of u 47.9 32 0.0007 26.0 4.1 36 314-352 2-37 (73)
64 PF14605 Nup35_RRM_2: Nup53/35 47.6 28 0.0006 24.7 3.4 32 190-228 2-33 (53)
65 PF14257 DUF4349: Domain of un 47.2 2.7E+02 0.0059 26.8 14.9 26 282-307 160-185 (262)
66 KOG4208 Nucleolar RNA-binding 45.4 20 0.00044 33.0 2.9 24 311-334 90-113 (214)
67 KOG0113 U1 small nuclear ribon 44.7 30 0.00065 33.8 4.1 38 188-231 100-137 (335)
68 PF02388 FemAB: FemAB family; 43.7 2.1E+02 0.0046 29.8 10.7 84 218-323 227-316 (406)
69 PF11608 Limkain-b1: Limkain b 41.9 55 0.0012 25.8 4.4 41 312-352 38-80 (90)
70 TIGR01642 U2AF_lg U2 snRNP aux 41.4 44 0.00096 35.7 5.4 25 313-337 464-488 (509)
71 COG5438 Predicted multitransme 36.1 3.6E+02 0.0078 27.6 10.2 44 418-461 205-248 (385)
72 PF02439 Adeno_E3_CR2: Adenovi 35.1 1E+02 0.0022 20.2 4.1 30 3-32 5-34 (38)
73 PRK11020 hypothetical protein; 34.9 1.9E+02 0.0042 24.0 6.7 48 232-305 5-52 (118)
74 KOG0105 Alternative splicing f 34.9 63 0.0014 29.4 4.3 43 186-234 112-154 (241)
75 KOG0114 Predicted RNA-binding 34.3 37 0.0008 27.8 2.5 25 312-336 56-80 (124)
76 KOG0144 RNA-binding protein CU 33.8 39 0.00085 34.7 3.1 27 311-337 74-100 (510)
77 KOG0226 RNA-binding proteins [ 33.7 65 0.0014 30.8 4.4 26 310-335 229-254 (290)
78 PF04059 RRM_2: RNA recognitio 32.8 51 0.0011 26.7 3.2 26 311-336 43-68 (97)
79 KOG0105 Alternative splicing f 32.2 45 0.00097 30.3 2.9 32 188-225 5-36 (241)
80 KOG0718 Molecular chaperone (D 32.1 3.1E+02 0.0068 28.9 9.2 20 286-305 96-115 (546)
81 KOG1278 Endosomal membrane pro 31.6 3.4E+02 0.0073 29.4 9.5 47 380-427 443-500 (628)
82 KOG0107 Alternative splicing f 30.7 72 0.0016 28.8 3.9 42 187-234 8-49 (195)
83 PLN03121 nucleic acid binding 28.8 95 0.0021 29.7 4.6 21 311-331 42-62 (243)
84 KOG4050 Glutamate transporter 28.0 4.3E+02 0.0093 23.5 8.1 43 345-387 33-76 (188)
85 KOG0131 Splicing factor 3b, su 27.9 55 0.0012 29.7 2.7 40 186-231 6-45 (203)
86 PF13234 rRNA_proc-arch: rRNA- 26.7 2.6E+02 0.0056 27.1 7.6 53 196-249 171-231 (268)
87 KOG4207 Predicted splicing fac 26.6 79 0.0017 29.3 3.5 38 188-231 12-49 (256)
88 COG5570 Uncharacterized small 26.5 2.4E+02 0.0051 19.9 5.7 50 233-306 6-55 (57)
89 KOG2150 CCR4-NOT transcription 26.5 2E+02 0.0043 31.0 6.9 24 281-304 119-142 (575)
90 KOG4205 RNA-binding protein mu 26.0 64 0.0014 32.2 3.2 40 189-234 97-136 (311)
91 PF00322 Endothelin: Endotheli 25.8 27 0.00058 21.6 0.3 7 351-357 23-29 (31)
92 KOG4206 Spliceosomal protein s 25.1 85 0.0018 29.4 3.6 40 186-228 7-46 (221)
93 PLN03074 auxin influx permease 25.0 1.2E+02 0.0026 32.3 5.3 65 425-489 383-454 (473)
94 PF11945 WASH_WAHD: WAHD domai 24.1 2.2E+02 0.0047 28.3 6.5 39 285-323 44-82 (297)
95 KOG0684 Cytochrome P450 [Secon 23.7 1.6E+02 0.0035 31.0 5.6 49 16-89 13-61 (486)
96 PF02714 DUF221: Domain of unk 23.5 7.2E+02 0.016 24.5 10.5 35 362-397 51-85 (325)
97 PF09446 VMA21: VMA21-like dom 23.5 3E+02 0.0066 20.4 5.7 51 425-475 9-62 (66)
98 PF14654 Epiglycanin_C: Mucin, 22.6 1.6E+02 0.0034 23.8 4.1 38 6-43 21-63 (106)
99 PLN03213 repressor of silencin 22.4 1.3E+02 0.0028 31.6 4.5 39 187-231 8-46 (759)
100 KOG0533 RRM motif-containing p 22.3 1.1E+02 0.0025 29.2 4.0 39 187-231 81-119 (243)
101 PHA02673 ORF109 EEV glycoprote 21.9 89 0.0019 27.6 2.8 26 85-110 29-54 (161)
102 KOG0110 RNA-binding protein (R 21.8 1.4E+02 0.003 32.9 4.8 24 311-334 558-581 (725)
103 PF10309 DUF2414: Protein of u 21.6 3.2E+02 0.0069 20.2 5.3 41 188-233 4-53 (62)
104 KOG0145 RNA-binding protein EL 21.4 1.2E+02 0.0025 29.2 3.7 71 290-361 55-134 (360)
105 PRK15321 putative type III sec 21.2 1.5E+02 0.0032 23.9 3.7 45 280-324 13-66 (120)
106 KOG0131 Splicing factor 3b, su 20.8 90 0.002 28.4 2.7 24 311-334 49-72 (203)
107 KOG1365 RNA-binding protein Fu 20.3 94 0.002 31.5 3.0 24 309-332 202-225 (508)
108 PF04423 Rad50_zn_hook: Rad50 20.1 3.2E+02 0.0069 19.1 6.0 30 275-305 22-51 (54)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=6e-94 Score=745.39 Aligned_cols=503 Identities=25% Similarity=0.454 Sum_probs=462.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhCCCCCceeecccccCCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHHhChhH
Q 010210 2 DFDSFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDT 81 (515)
Q Consensus 2 ~~~~~~~~l~~~~~i~~~~~~~F~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~~~Wi~~~~~~~d~~i~~~~GlDa 81 (515)
++++++|++.+++.++++.+++|++||+| ++++|+||+..++.+...+.+.++|+|||+.++++++|+.+++++|+||
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 57899999999999999999999999987 5899999999886431212267899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhheeeeeeeCCcccccCCCCCCCCCCCcccccccCCccCCCcchHHHHHHHHHHHHHH
Q 010210 82 AVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVT 161 (515)
Q Consensus 82 ~~flrflk~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~Ti~Nv~~~s~~lw~h~i~~~l~~~~~ 161 (515)
|+||||+|||+++|++.|+++++||+|+|++.++..+.. ....++++++|++|+.+ ++++|+|++.+|++.+++
T Consensus 98 y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~gn-----~~s~s~l~~Ls~~Nv~~-~n~~~aHvf~~~~f~~~v 171 (827)
T COG5594 98 YFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATNGN-----SDSESGLDKLSISNVSP-SNRLYAHVFLSWFFFGYV 171 (827)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhHEeeeeeecccccccCC-----ccchhhhhHhhhhcccC-CCceeeeeehhHHHHHHH
Confidence 999999999999999999999999999999885543211 12468999999999976 789999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCC---------CCCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCch
Q 010210 162 YFLLWRGYKHVSELRADALMSPE---------VRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (515)
Q Consensus 162 ~~~l~~e~~~~~~~R~~~l~~~~---------~~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (515)
+|.+++|++.|..+||++++++. .+.++||++++++|.++++ +++|.++|+++.-|++.+..+|||.+
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 99999999999999999999875 3459999999999999999 88899999999888999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh----------cc------C----------CCCCCCCCccccCCC--CCCCcccc
Q 010210 233 EANKIYEELEGYKKKLARAEAVYAES----------KS------A----------GKPEGTRPTIKTGFL--GLLGKRVD 284 (515)
Q Consensus 233 ~l~~l~~~~~~~~~~Le~~~~~~~~~----------k~------~----------~~~~~~rp~~r~~~~--~~~g~kvd 284 (515)
.++++.++|++..+++|.+..++..+ |+ . ..|+++||+||.+-. +++|||||
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 99999999999999999998876432 10 0 135678999998755 67899999
Q ss_pred HHHHHHHHHHhHHHHHHHHHhhhhcccCCceEEEEeCCHHHHHHHHHHhccCCCCcee-eeeCCCCCcccccccccchHH
Q 010210 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLVDTWT-VSDAPESRELIWNNLNIKFFQ 363 (515)
Q Consensus 285 ~i~~~~~~i~~l~~~I~~~r~~~~~~~~~~~aFVtF~~~~~a~~a~q~~~~~~~~~~~-v~~AP~P~DIiW~NL~~~~~~ 363 (515)
+|||+++++.+++++|++.|+......++++|||||+|+..||+|+|.+.++++.... ++.||+|+||+|+|+..++++
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 9999999999999999999999877777889999999999999999999888887665 999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHhHHhhcCcchhhhc-hhhHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 010210 364 RQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLKKILPFLKPVIN-ITALKTVLEAYLPQIALIVFLALLPKLLLFLS 442 (515)
Q Consensus 364 r~~R~~~~~~~~~~l~if~~iPv~~i~~l~~l~~l~~~~~~l~~~~~-~~~~~~~i~~~lP~l~l~~~~~llp~i~~~ls 442 (515)
|..|++.++++.++++++|++|||+++.++|++++.+.+||++.+.+ .|+++++++|+||++++++++.++|+++++++
T Consensus 409 r~~k~~~~ni~~il~II~w~~pVa~v~~i~Nl~~l~~~~p~l~~il~~~~~l~~iltglLptv~~~~l~~ivP~fir~Ls 488 (827)
T COG5594 409 RLFKRISANILFILLIILWAFPVAFVGTISNLNTLSSLWPFLKFILKDPPFLAGILTGLLPTVALSLLMSIVPYFIRWLS 488 (827)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHhhhhHHHHHHHhccHHHHHHHHhhhhHHHHHHHHHHhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999865 56899999999999999999999999999999
Q ss_pred HhcCCCchhHHHHHHHHHHHHHHhhHHHHHHhhhhhHHHHHHHHHcChhHHHHHHHHhCCCCccchhhheecC
Q 010210 443 KTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGGTLFKTFKSIEKDPNSIVDVLANSLPGNATFFLTYVALQ 515 (515)
Q Consensus 443 ~~eg~~t~S~~~~s~~~k~f~f~~~n~flv~~l~~~~~~~l~~~~~~p~~i~~~l~~~lp~~s~fFi~yii~q 515 (515)
.+||..|+|+.|+.++.|||.|+|+|+|+|.+++|+..+.+.+++++|.+++.+||+++|++|+||++||++|
T Consensus 489 ~~qG~~S~se~E~~~~~k~~~f~fv~~FlV~Tl~s~fss~v~~~~ke~~s~~~llA~~lpk~SnFfi~~iilq 561 (827)
T COG5594 489 YMQGLVSYSEEEIYVQNKYFAFLFVNLFLVVTLASSFSSIVWSLLKEPTSIMTLLANNLPKASNFFISYIILQ 561 (827)
T ss_pred HhcCccchHHHHHHHHhhhhhheeeeehheeeehhHHHHHHHHHhcChHhHHHHHHhccHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999899999999999999999999999999999999987
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.2e-85 Score=707.31 Aligned_cols=493 Identities=37% Similarity=0.655 Sum_probs=443.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhCCCCCceeecccccCCCCC--CCCC--CCCCCCc-ccchHHhhcCCHHHHHHHhChhHH
Q 010210 8 TSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLD--PWEG--GSRTRNP-FTWIKEAMSSSEQDVINMSGLDTA 82 (515)
Q Consensus 8 ~~l~~~~~i~~~~~~~F~~lR~~~~~~~iY~pr~~~~~~~--p~~~--~~~~~~~-~~Wi~~~~~~~d~~i~~~~GlDa~ 82 (515)
.+-.++...+..++.+|.+++.++.+.++|.|++...+.+ |.+. .+.+++. |+|+.++++.+|+|++++||+||+
T Consensus 9 ~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~~~~~~~~~~~~Wl~~~~k~~~~ei~~~~GlDa~ 88 (728)
T KOG1134|consen 9 ISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESKVEPVPSSVNFGWLPALLKIPDEEILEHAGLDAY 88 (728)
T ss_pred ccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCccccCCCCCCcccccchHHHhcCCHHHHHHHhcchHH
Confidence 3334455556666677888887888999999988876531 2211 1446666 999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhheeeeeeeCCcccccCCCCCCCCCCCcccccccCCccCCCcchHHHHHHHHHHHHHHH
Q 010210 83 VYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVTY 162 (515)
Q Consensus 83 ~flrflk~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~Ti~Nv~~~s~~lw~h~i~~~l~~~~~~ 162 (515)
+||||+++++++|+++++++++|++|+|+++++..+. ..++++++|++|++.+|+++|+|++++|+++++++
T Consensus 89 ~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~--------~~~s~~~ls~snv~~~s~~lw~Hv~~~y~~~~~~~ 160 (728)
T KOG1134|consen 89 VFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELG--------NEDSLDKLSISNVQPGSSLLWAHVFFTYLFTFFTL 160 (728)
T ss_pred HHHHHHHHHHHHHHHHHHHhheEEeeEEEecCccccc--------ccchhhhhhheeccCCCCCEEEEeehhHHHHHHHH
Confidence 9999999999999999999999999999999988632 11279999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHHHHHHHH
Q 010210 163 FLLWRGYKHVSELRADALMSPEVRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELE 242 (515)
Q Consensus 163 ~~l~~e~~~~~~~R~~~l~~~~~~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~~~ 242 (515)
+++++||+++..+|+++++++..++.+.|+.++++|. ..+.+.....+++|+..+|+++.+++++||..++.++.++++
T Consensus 161 ~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~-~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~ 239 (728)
T KOG1134|consen 161 FILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPP-PDGVSVSVIVRHFFSLNHPVKVRSHQVVYNESKLSKLLSKLK 239 (728)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccC-CCCCchhhHHhhhhhccCCceeehhHHHhhHHHHHHHHHHHH
Confidence 9999999999999999999998889999999999992 223345677777888788899999999999999999999998
Q ss_pred HHH-HHHHHHHHHHhhhccCCCCCCCCCccccCCCCCCCccccHHHHHHHHHHhHHHHHHHHHhhhhcccCCceEEEEeC
Q 010210 243 GYK-KKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFT 321 (515)
Q Consensus 243 ~~~-~~Le~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~kvd~i~~~~~~i~~l~~~I~~~r~~~~~~~~~~~aFVtF~ 321 (515)
+.. .++.+...+.. ..+. +||++|.|+||++|+|||+||||++|+++++++|+++|+...+.++.+.|||||+
T Consensus 240 k~~~~~l~~~~~~~~-----~~~~-~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~~~~~~~~~~~~~~aFVtf~ 313 (728)
T KOG1134|consen 240 KLRENKLYKEHKRLK-----SNPK-KRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEELRESLYEEKPLPAAFVTFK 313 (728)
T ss_pred HHhHHHHHHhhhhhc-----cccc-cCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEE
Confidence 874 33333222221 1122 8999999999999999999999999999999999999999877788999999999
Q ss_pred CHHHHHHHHHHhccCCCCceeeeeCCCCCcccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHhHHhh
Q 010210 322 SRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLKKI 401 (515)
Q Consensus 322 ~~~~a~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~i~~l~~l~~l~~~ 401 (515)
++.+|+.|+|..++.++++|.++.||||+||.|+|+..+..+|+.|+++++++.+++++||++|++++++++|+++|++.
T Consensus 314 sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~li~f~~iPva~V~~l~nl~~l~~~ 393 (728)
T KOG1134|consen 314 SRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFLLLFFWIIPVAFVQALTNLEGLSKV 393 (728)
T ss_pred eeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcchhhhchhhHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhHHHHHHhhhhhHHH
Q 010210 402 LPFLKPVINITALKTVLEAYLPQIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGGTLFK 481 (515)
Q Consensus 402 ~~~l~~~~~~~~~~~~i~~~lP~l~l~~~~~llp~i~~~ls~~eg~~t~S~~~~s~~~k~f~f~~~n~flv~~l~~~~~~ 481 (515)
+||++.+.+.++++++++|+||++++.++++++|.++++++++||+.|+|+.|++.+.|||+|+++|+|++++++||.+.
T Consensus 394 ~Pflk~i~~~~~i~~vI~gfLP~l~l~~~~~~lP~~l~~ls~~eG~~s~S~~e~~a~~k~~~F~~~nvFl~~~l~~sa~~ 473 (728)
T KOG1134|consen 394 FPFLKPILEMKFISSVITGFLPTLALVIFLALLPPFLRYLSKLEGLISRSEEERSALNKYYIFLLVNVFLVVTLSGSALR 473 (728)
T ss_pred cchhhhhhhcchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHhHHHHHHhhhHHHhhhhHHHHH
Confidence 99999999889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcChhHHHHHHHHhCCCCccchhhheecC
Q 010210 482 TFKSIEKDPNSIVDVLANSLPGNATFFLTYVALQ 515 (515)
Q Consensus 482 ~l~~~~~~p~~i~~~l~~~lp~~s~fFi~yii~q 515 (515)
.+.+++++|.++++.+|.++|++|+||++|+++|
T Consensus 474 ~~~~~l~~p~~i~~~la~~lP~~a~Ff~~yii~~ 507 (728)
T KOG1134|consen 474 QLLSILSTPRLIPKLLAAALPKQASFFITYIITS 507 (728)
T ss_pred HHHHHhcCHhHHHHHHhhhChhhHHHHHHHHHHh
Confidence 9999999999999999999999999999999975
No 3
>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=100.00 E-value=1.7e-41 Score=342.43 Aligned_cols=200 Identities=40% Similarity=0.694 Sum_probs=193.7
Q ss_pred EEEEeCCHHHHHHHHHHhccCCCCceeeeeCCCCCcccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 010210 316 ALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTL 395 (515)
Q Consensus 316 aFVtF~~~~~a~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~i~~l~~l 395 (515)
|||||+++++|+.|+|..++++|++|++++||||+||+|+||+.+..+|..|++++++++++++++|++|++++++++|+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~APeP~DI~W~NL~~~~~~r~~R~~~~~~~~~~l~i~~~ipv~~v~~l~~l 80 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAPEPDDIIWENLSISSKQRFLRRIIVNILLFLLIIFWTIPVAFVSALSNL 80 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCCCcccccccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhHHhhcCcchhhhc-hhhHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhHHHHHHh
Q 010210 396 DNLKKILPFLKPVIN-ITALKTVLEAYLPQIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVT 474 (515)
Q Consensus 396 ~~l~~~~~~l~~~~~-~~~~~~~i~~~lP~l~l~~~~~llp~i~~~ls~~eg~~t~S~~~~s~~~k~f~f~~~n~flv~~ 474 (515)
+++.+..|++++..+ ++...++++|++|+++++++|.++|.++++++++|||.|+|+.|+++++|+|+||++|++++++
T Consensus 81 ~~l~~~~~~l~~~~~~~~~~~~~i~~~lp~l~l~~~~~llp~ii~~ls~~e~~~s~S~~~~sv~~k~f~f~~~n~~lv~~ 160 (325)
T PF02714_consen 81 DTLKKVIPFLQWIISFSPWLLSLIQGILPSLLLSIFNALLPIIIRFLSKFEGHKSRSEVERSVLRKLFFFLFFNVFLVPS 160 (325)
T ss_pred cchhccchhhHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999998854 5678899999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHHcChhHHHHHHHHhCCCCccchhhheecC
Q 010210 475 VGGTLFKTFKSIEKDPNSIVDVLANSLPGNATFFLTYVALQ 515 (515)
Q Consensus 475 l~~~~~~~l~~~~~~p~~i~~~l~~~lp~~s~fFi~yii~q 515 (515)
+++++++.+.+++++|+++.+.+|+++|++|+||+||+++|
T Consensus 161 l~~~~~~~~~~~~~~~~~i~~~l~~~lp~~s~ffi~~ii~~ 201 (325)
T PF02714_consen 161 LAGTILSALKNIINNPGSILQLLGNFLPNSSNFFINYIILQ 201 (325)
T ss_pred hhHHHHHHHHHHHhCcchHHHHHHHHhhhhhHHHHHHHHHh
Confidence 99999999999999999999999999999999999999875
No 4
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=2.2e-36 Score=271.24 Aligned_cols=156 Identities=35% Similarity=0.619 Sum_probs=137.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCCCCCceeecccccCCC-CCCCCCCCCCCCcccchHHhhcCCHHHHHHHhChhHHH
Q 010210 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKG-LDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAV 83 (515)
Q Consensus 5 ~~~~~l~~~~~i~~~~~~~F~~lR~~~~~~~iY~pr~~~~~-~~p~~~~~~~~~~~~Wi~~~~~~~d~~i~~~~GlDa~~ 83 (515)
+|++++++|++++++++++|+++|+| ++++|+||...++ +++..++.+++|+|+|++++++++|+|++++||+||++
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 58999999999999999999999987 5799999999862 11111114568999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhheeeeeeeCCcccccCCCCCCCCCCCcccccccCCccCCCcchHHHHHHHHHHHHHHHH
Q 010210 84 YFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVTYF 163 (515)
Q Consensus 84 flrflk~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~~~~~~l~~~Ti~Nv~~~s~~lw~h~i~~~l~~~~~~~ 163 (515)
|+||+|+++++|+++++++++||+|+|++|+...+.. ...++++++|++|++++++++|+|++++|+++++++|
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 9999999999999999999999999999998875311 1127999999999999999999999999999999999
Q ss_pred HHHHH
Q 010210 164 LLWRG 168 (515)
Q Consensus 164 ~l~~e 168 (515)
++++|
T Consensus 153 ~l~~E 157 (157)
T PF13967_consen 153 LLWRE 157 (157)
T ss_pred hheeC
Confidence 99875
No 5
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.18 E-value=5.2e-11 Score=95.27 Aligned_cols=71 Identities=39% Similarity=0.667 Sum_probs=58.7
Q ss_pred EecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccC---CC----------CCCCCCccccCCCCCCC-ccccHHHHHHHH
Q 010210 227 VVTNNKEANKIYEELEGYKKKLARAEAVYAESKSA---GK----------PEGTRPTIKTGFLGLLG-KRVDAIEYYNEK 292 (515)
Q Consensus 227 i~~d~~~l~~l~~~~~~~~~~Le~~~~~~~~~k~~---~~----------~~~~rp~~r~~~~~~~g-~kvd~i~~~~~~ 292 (515)
++||.++|++|+++|++++++||.++.+|.+...+ .. ....||.++.|++|++| ++||+|+||++|
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 58999999999999999999999999998764321 00 11346777889999988 999999999999
Q ss_pred HHhHH
Q 010210 293 IKEII 297 (515)
Q Consensus 293 i~~l~ 297 (515)
+++|+
T Consensus 81 l~~Ln 85 (85)
T PF14703_consen 81 LKELN 85 (85)
T ss_pred HHHhC
Confidence 99875
No 6
>PF04547 Anoctamin: Calcium-activated chloride channel; InterPro: IPR007632 This family contains the anoctamin/TMEM16 proteins which are thought to be calcium-dependent chloride channel [].
Probab=97.33 E-value=0.0034 Score=66.40 Aligned_cols=113 Identities=20% Similarity=0.210 Sum_probs=69.0
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHh-HHhhcCcchhhhchhhHHHHHHhhhhHHHHHHHHHHH
Q 010210 356 NLNIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDN-LKKILPFLKPVINITALKTVLEAYLPQIALIVFLALL 434 (515)
Q Consensus 356 NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~i~~l~~l~~-l~~~~~~l~~~~~~~~~~~~i~~~lP~l~l~~~~~ll 434 (515)
+...+.++|..|...+..++++++.. -++++.++..++. +.+..... ......+++.+++-++++.+++.+.
T Consensus 109 ~~~~p~~~r~~r~~~s~~ivl~~i~i---~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~vl~~v~i~il~~iy 181 (452)
T PF04547_consen 109 EPYYPPWKRILRYLVSVPIVLLFILI---VIGIVIGVFYLRIYLTEIYSGP----GKQFLASLIPTVLNAVVILILNFIY 181 (452)
T ss_pred ccCCcHHHHhhhhhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhccc----chhHHHHHHHHHHHHHHHHhhhhHH
Confidence 45677888888886665554444322 2222222222211 11111000 0112334444444445555667777
Q ss_pred HHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhHHHHHHhh
Q 010210 435 PKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTV 475 (515)
Q Consensus 435 p~i~~~ls~~eg~~t~S~~~~s~~~k~f~f~~~n~flv~~l 475 (515)
..+..++.++|.|.|.|+.|.+...|.|.|+++|.+.....
T Consensus 182 ~~~a~~Lt~~EnhrT~~~ye~sli~K~F~f~fvn~y~~Lfy 222 (452)
T PF04547_consen 182 RKLAKKLTDWENHRTESEYENSLIIKVFLFQFVNSYAPLFY 222 (452)
T ss_pred HHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78888999999999999999999999999999999875443
No 7
>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=97.10 E-value=0.0017 Score=65.79 Aligned_cols=41 Identities=15% Similarity=0.256 Sum_probs=35.2
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCch
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (515)
.....+|.|.|||.+++ +++|+++|+++ |.|.+|.++.|..
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 46789999999999987 79999999987 5699999988753
No 8
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=96.36 E-value=0.031 Score=49.19 Aligned_cols=38 Identities=8% Similarity=0.092 Sum_probs=30.9
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
-...+|.|.|||.+++ +++|+++|+++ |+|.++.++.|
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 3466899999999987 79999999986 67888877643
No 9
>KOG2513 consensus Protein required for meiotic chromosome segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=96.20 E-value=0.2 Score=53.14 Aligned_cols=110 Identities=22% Similarity=0.328 Sum_probs=75.9
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHhHHhhcCcchhhhchhhHHHHHHhhhhHHHHHHHHHHHHHH
Q 010210 358 NIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLKKILPFLKPVINITALKTVLEAYLPQIALIVFLALLPKL 437 (515)
Q Consensus 358 ~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~i~~l~~l~~l~~~~~~l~~~~~~~~~~~~i~~~lP~l~l~~~~~llp~i 437 (515)
..+.|+|.+|+.++.+-++++++....++.+...- ++. |.......| +.+ +-.++|.+++.++..++-.+
T Consensus 260 ~yp~w~~~~~~~~vsvPv~l~c~~i~l~f~l~~f~--ie~------~~~s~~~~~-~~s-ils~lP~iv~~~li~~~t~~ 329 (647)
T KOG2513|consen 260 YYPEWKRILRRYLVSVPVILLCLCILLSFMLYCFQ--IEV------WVLSDYGGP-LIS-ILSYLPTIVYAVLIPVLTRI 329 (647)
T ss_pred cccHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH--HHH------HHHHHcCCc-hHH-HHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999888887777666666555432 211 111112223 222 44577888877776665544
Q ss_pred H----HHHHHhcCCCchhHHHHHHHHHHHHHHhhHHHHHHhhhh
Q 010210 438 L----LFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGG 477 (515)
Q Consensus 438 ~----~~ls~~eg~~t~S~~~~s~~~k~f~f~~~n~flv~~l~~ 477 (515)
- .+|.++|-|.|+|..+.+...|.|.|+|+|.++--...+
T Consensus 330 Y~k~Ae~Lt~~EN~r~~s~y~~hli~K~~lf~f~nsy~sLFyi~ 373 (647)
T KOG2513|consen 330 YKKLAEFLTKLENHRLESAYQKHLIAKVFLFNFVNSYLSLFYIA 373 (647)
T ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4 455689999999999999999999999999998544443
No 10
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=96.09 E-value=0.023 Score=57.06 Aligned_cols=145 Identities=18% Similarity=0.292 Sum_probs=78.0
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHH------HHHHHHHHHHHHHHHHHHHhhhcc
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKS 260 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~------l~~~~~~~~~~Le~~~~~~~~~k~ 260 (515)
.+.--+.|-.||+... +.+|+++||++ |.|.+|++.+|-..=.. ....|+++.+ +...+...|.
T Consensus 32 ~~~vKlfVgqIprt~s----E~dlr~lFe~y--g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~----a~~Alhn~kt 101 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTAS----EKDLRELFEKY--GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADE----AINALHNQKT 101 (510)
T ss_pred chhhhheeccCCcccc----HHHHHHHHHHh--CceeEEEeecccccCcccceEEEEeccHHHHHH----HHHHhhcccc
Confidence 3444578899999987 79999999998 78999999987543211 1112222211 1111111110
Q ss_pred -CC----------CCCCCCC-ccccCCCCCCCccccHHHHHHHHHHhHHHH---HHHHHhhh-hcccCCceEEEEeCCHH
Q 010210 261 -AG----------KPEGTRP-TIKTGFLGLLGKRVDAIEYYNEKIKEIIPK---LEAEQKIT-LKEKQLGAALVFFTSRV 324 (515)
Q Consensus 261 -~~----------~~~~~rp-~~r~~~~~~~g~kvd~i~~~~~~i~~l~~~---I~~~r~~~-~~~~~~~~aFVtF~~~~ 324 (515)
+| +.+++|- -.+.-|.|+..|++. +++++++-.+ |++.+--. ......|+|||+|.+.+
T Consensus 102 lpG~~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~t-----e~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke 176 (510)
T KOG0144|consen 102 LPGMHHPVQVKYADGERERIVEERKLFVGMLSKQCT-----ENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKE 176 (510)
T ss_pred cCCCCcceeecccchhhhccccchhhhhhhcccccc-----HHHHHHHHHhhCccchhhheecccccccceeEEEEehHH
Confidence 00 1111221 111113444445543 2344444333 22221111 12356899999999999
Q ss_pred HHHHHHHHhccCCCC-----ceeeeeC
Q 010210 325 AAASAAQSLHAQLVD-----TWTVSDA 346 (515)
Q Consensus 325 ~a~~a~q~~~~~~~~-----~~~v~~A 346 (515)
.|..|...++....+ -+.|+.|
T Consensus 177 ~A~~Aika~ng~~tmeGcs~PLVVkFA 203 (510)
T KOG0144|consen 177 MAVAAIKALNGTQTMEGCSQPLVVKFA 203 (510)
T ss_pred HHHHHHHhhccceeeccCCCceEEEec
Confidence 999999988765332 2456655
No 11
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=96.09 E-value=0.039 Score=56.24 Aligned_cols=101 Identities=22% Similarity=0.261 Sum_probs=74.6
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCC
Q 010210 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTR 268 (515)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~~~~~~~~Le~~~~~~~~~k~~~~~~~~r 268 (515)
..+|+|.|||.+++ +++|+++|+++ |.|.++.+++|-..
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 56899999999987 79999999996 68888888755211
Q ss_pred CccccCCCCCCCccccHHHHHHHHHHhHHHHHHHHHhhhhcccCCceEEEEeCCHHHHHHHHHHhccCC--CCceeeeeC
Q 010210 269 PTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA 346 (515)
Q Consensus 269 p~~r~~~~~~~g~kvd~i~~~~~~i~~l~~~I~~~r~~~~~~~~~~~aFVtF~~~~~a~~a~q~~~~~~--~~~~~v~~A 346 (515)
.+..|+|||+|.+..+|..|...+.... ...+.++.|
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 1245899999999999999998765432 234555554
Q ss_pred C------CCCcccccccccchHHHHHHHHHH
Q 010210 347 P------ESRELIWNNLNIKFFQRQIRQYVV 371 (515)
Q Consensus 347 P------~P~DIiW~NL~~~~~~r~~R~~~~ 371 (515)
- ....|+-.||..+..+..++.++.
T Consensus 81 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~ 111 (352)
T TIGR01661 81 RPSSDSIKGANLYVSGLPKTMTQHELESIFS 111 (352)
T ss_pred cccccccccceEEECCccccCCHHHHHHHHh
Confidence 3 233577888888777777776654
No 12
>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=95.96 E-value=0.024 Score=42.45 Aligned_cols=33 Identities=21% Similarity=0.373 Sum_probs=26.0
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
|.|.|||.+++ +++|+++|+++ |.+..+.+..+
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 67999999987 79999999985 56666665543
No 13
>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=95.90 E-value=0.025 Score=61.62 Aligned_cols=171 Identities=18% Similarity=0.203 Sum_probs=87.2
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHH------HHHHHHHHHHHHHHHHHHHhhhccCC-C
Q 010210 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKSAG-K 263 (515)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~------l~~~~~~~~~~Le~~~~~~~~~k~~~-~ 263 (515)
||.|.|||.+++ +++|+++|+++ |.|.+|.+++|...-.. -....+.+.+.++..-......+.-. .
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 799999999987 79999999997 67999999988642100 12233333333332211000000000 0
Q ss_pred CCCCCCcccc-C----CCCCCCccccHHHHHHHHHHhHHHH---HHHHHhhh-hcccCCceEEEEeCCHHHHHHHHHHhc
Q 010210 264 PEGTRPTIKT-G----FLGLLGKRVDAIEYYNEKIKEIIPK---LEAEQKIT-LKEKQLGAALVFFTSRVAAASAAQSLH 334 (515)
Q Consensus 264 ~~~~rp~~r~-~----~~~~~g~kvd~i~~~~~~i~~l~~~---I~~~r~~~-~~~~~~~~aFVtF~~~~~a~~a~q~~~ 334 (515)
.....|..+. + +.+-..+.++. +.+.++-.+ |...+-.. ...+..|.|||.|.+.++|..|.+.+.
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 0001111111 1 11101122221 222222221 11110000 122457899999999999999998764
Q ss_pred cCC--CCceeee-----------eCCCCCcccccccccchHHHHHHHHHHH
Q 010210 335 AQL--VDTWTVS-----------DAPESRELIWNNLNIKFFQRQIRQYVVY 372 (515)
Q Consensus 335 ~~~--~~~~~v~-----------~AP~P~DIiW~NL~~~~~~r~~R~~~~~ 372 (515)
... .....+. ..+..+.|+-.||..+..+..++.++..
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 321 1111111 2234455888899888877777776643
No 14
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=95.83 E-value=0.023 Score=52.76 Aligned_cols=33 Identities=24% Similarity=0.416 Sum_probs=27.7
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEec
Q 010210 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (515)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (515)
-|.|-|+|-+.+ ++.|++|||++ |+|+++.++-
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 489999999887 79999999997 6787777663
No 15
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=95.47 E-value=0.058 Score=58.09 Aligned_cols=40 Identities=13% Similarity=0.232 Sum_probs=34.1
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCch
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (515)
....+|.|.|||.++. +++|++.|+++ |.|.++.+++|..
T Consensus 56 ~~~~~lFVgnLp~~~t----Ed~L~~~F~~~--G~I~~vrl~~D~s 95 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLY----EDELVPLFEKA--GPIYELRLMMDFS 95 (578)
T ss_pred CCCCEEEeCCCCCCCC----HHHHHHHHHhh--CCEEEEEEEECCC
Confidence 3468999999999987 79999999997 6899999988843
No 16
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=95.07 E-value=0.11 Score=52.80 Aligned_cols=36 Identities=8% Similarity=0.211 Sum_probs=30.1
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
.++|.|.|||.+.+ ++.|+++|+.+ |.|.++.+++|
T Consensus 269 ~~~lfV~NL~~~~~----e~~L~~~F~~f--G~v~~v~i~~d 304 (352)
T TIGR01661 269 GYCIFVYNLSPDTD----ETVLWQLFGPF--GAVQNVKIIRD 304 (352)
T ss_pred CcEEEEeCCCCCCC----HHHHHHHHHhC--CCeEEEEEeEc
Confidence 45799999999875 79999999986 67888888754
No 17
>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=94.95 E-value=0.067 Score=40.29 Aligned_cols=31 Identities=16% Similarity=0.439 Sum_probs=23.0
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEe
Q 010210 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (515)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (515)
|+|+|||.+.+ +++|.++|+.+ |.|.++.+.
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 68999999876 78899999876 457666655
No 18
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=93.95 E-value=0.22 Score=48.49 Aligned_cols=38 Identities=11% Similarity=0.177 Sum_probs=32.2
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
-..+-+-|+|||-..| +.+|+..|+++ |+|.+|.|+.|
T Consensus 94 ~~pkRLhVSNIPFrFR----dpDL~aMF~kf--G~VldVEIIfN 131 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFR----DPDLRAMFEKF--GKVLDVEIIFN 131 (376)
T ss_pred CCCceeEeecCCcccc----CccHHHHHHhh--CceeeEEEEec
Confidence 3467799999999999 47899999987 78999998855
No 19
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=93.62 E-value=0.29 Score=45.82 Aligned_cols=37 Identities=14% Similarity=0.345 Sum_probs=29.6
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
...||.|+|+|.+++ +.+|++.|..+ |.|.++.+++|
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 467999999999998 67888888765 56788887744
No 20
>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=93.42 E-value=0.77 Score=50.08 Aligned_cols=39 Identities=10% Similarity=0.230 Sum_probs=31.9
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
....+|.|+|+|.+.+ +++|+++|+++ |.|.++.+.+|.
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 4456899999999886 78999999987 678888877664
No 21
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=92.29 E-value=0.85 Score=49.52 Aligned_cols=87 Identities=9% Similarity=0.097 Sum_probs=64.4
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCC
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGT 267 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~~~~~~~~Le~~~~~~~~~k~~~~~~~~ 267 (515)
..++|.|.|||.++. +++|+++|+.+ |.|.++.+.+|-.
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 357999999999987 68899999986 6787777654321
Q ss_pred CCccccCCCCCCCccccHHHHHHHHHHhHHHHHHHHHhhhhcccCCceEEEEeCCHHHHHHHHHHhccCC--CCceeeee
Q 010210 268 RPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSD 345 (515)
Q Consensus 268 rp~~r~~~~~~~g~kvd~i~~~~~~i~~l~~~I~~~r~~~~~~~~~~~aFVtF~~~~~a~~a~q~~~~~~--~~~~~v~~ 345 (515)
..+..|.|||.|++..+|..|...+.... ...++|..
T Consensus 242 -----------------------------------------tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~k 280 (612)
T TIGR01645 242 -----------------------------------------GRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK 280 (612)
T ss_pred -----------------------------------------CCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEe
Confidence 01345899999999999999998876543 34567777
Q ss_pred CCCCCcccccc
Q 010210 346 APESRELIWNN 356 (515)
Q Consensus 346 AP~P~DIiW~N 356 (515)
|..|-|=.|..
T Consensus 281 Ai~pP~~~~~p 291 (612)
T TIGR01645 281 CVTPPDALLQP 291 (612)
T ss_pred cCCCccccCCC
Confidence 76666655643
No 22
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=91.89 E-value=0.89 Score=49.17 Aligned_cols=38 Identities=24% Similarity=0.156 Sum_probs=28.9
Q ss_pred CCceEEEEeCCHHHHHHHHHHhccCC--CCceeeeeCCCC
Q 010210 312 QLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDAPES 349 (515)
Q Consensus 312 ~~~~aFVtF~~~~~a~~a~q~~~~~~--~~~~~v~~AP~P 349 (515)
..+.|||.|++.++|..|.+.+.... ...++|+.|.+|
T Consensus 268 ~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~ 307 (578)
T TIGR01648 268 IRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPV 307 (578)
T ss_pred ecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence 45799999999999999998776543 345677777544
No 23
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=91.42 E-value=0.73 Score=48.00 Aligned_cols=33 Identities=24% Similarity=0.376 Sum_probs=28.2
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEe
Q 010210 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (515)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (515)
+||+|+|+|-+.+ ++.|.++|+++ |+|..+.+|
T Consensus 293 ~tVFvRNL~fD~t----EEel~~~fskF--G~v~ya~iV 325 (678)
T KOG0127|consen 293 KTVFVRNLPFDTT----EEELKEHFSKF--GEVKYAIIV 325 (678)
T ss_pred ceEEEecCCcccc----HHHHHHHHHhh--ccceeEEEE
Confidence 8999999999887 79999999997 567666665
No 24
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=91.20 E-value=1 Score=45.88 Aligned_cols=38 Identities=18% Similarity=0.386 Sum_probs=31.3
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
+.-.-|.|-.||+++. +++|.-.|++. |+|.++.+..|
T Consensus 81 ~~G~EVfvGkIPrD~~----EdeLvplfEki--G~I~elRLMmD 118 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVF----EDELVPLFEKI--GKIYELRLMMD 118 (506)
T ss_pred CCCceEEecCCCcccc----chhhHHHHHhc--cceeeEEEeec
Confidence 4556799999999987 68899999997 67877777666
No 25
>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=91.17 E-value=0.73 Score=48.78 Aligned_cols=37 Identities=11% Similarity=0.209 Sum_probs=31.0
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEec
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (515)
-..+||.|.|||.+++ +++|+++|+++ |.|.+|.++.
T Consensus 87 ~~~~~l~V~nlp~~~~----~~~l~~~F~~~--G~v~~v~i~~ 123 (457)
T TIGR01622 87 RDDRTVFVLQLALKAR----ERDLYEFFSKV--GKVRDVQCIK 123 (457)
T ss_pred cCCcEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEee
Confidence 3478999999999987 78899999986 5788887764
No 26
>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=90.79 E-value=0.44 Score=38.66 Aligned_cols=38 Identities=11% Similarity=0.206 Sum_probs=29.7
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
.|||++|||..++ .+.|.+.+++.++|+..=+.+..|.
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 4999999999998 6778888888777876656655554
No 27
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=90.62 E-value=0.82 Score=47.11 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=29.8
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
...+-|.+++||-+.+ .++|.+||+.. .|+++.+.++
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 4578899999999987 68899999865 5777666665
No 28
>PLN03121 nucleic acid binding protein; Provisional
Probab=90.22 E-value=0.49 Score=44.72 Aligned_cols=38 Identities=13% Similarity=0.302 Sum_probs=33.0
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
+.-|||.|+||+.+.+ +++|++||+.. |+|.++.+.+|
T Consensus 3 ~~g~TV~V~NLS~~tT----E~dLrefFS~~--G~I~~V~I~~D 40 (243)
T PLN03121 3 PGGYTAEVTNLSPKAT----EKDVYDFFSHC--GAIEHVEIIRS 40 (243)
T ss_pred CCceEEEEecCCCCCC----HHHHHHHHHhc--CCeEEEEEecC
Confidence 3469999999999987 79999999975 89999998855
No 29
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=89.89 E-value=1.6 Score=46.78 Aligned_cols=35 Identities=9% Similarity=0.223 Sum_probs=28.4
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEe
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (515)
+.++|.|.|||..++ +++|+++|+.+ |.|..+.++
T Consensus 294 ~~~~l~v~nlp~~~~----~~~l~~~f~~~--G~i~~~~~~ 328 (509)
T TIGR01642 294 SKDRIYIGNLPLYLG----EDQIKELLESF--GDLKAFNLI 328 (509)
T ss_pred CCCEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEE
Confidence 357999999999887 78999999987 567776665
No 30
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=89.61 E-value=0.6 Score=44.41 Aligned_cols=152 Identities=17% Similarity=0.264 Sum_probs=88.3
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCC-CC
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKP-EG 266 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~l~~~~~~~~~~Le~~~~~~~~~k~~~~~-~~ 266 (515)
..+|+.|-|+..+++ ++-|...|.++ |.|.+..+++| | .++... -.| ..
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 468999999999887 67888899887 67888888877 1 111000 011 12
Q ss_pred CCCccccCCCCCCCccccHHHHHHHHHHhHHH---HHHHHHh--hhhcccCCceEEEEeCCHHHHHHHHHHhcc------
Q 010210 267 TRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIP---KLEAEQK--ITLKEKQLGAALVFFTSRVAAASAAQSLHA------ 335 (515)
Q Consensus 267 ~rp~~r~~~~~~~g~kvd~i~~~~~~i~~l~~---~I~~~r~--~~~~~~~~~~aFVtF~~~~~a~~a~q~~~~------ 335 (515)
++|+.+..+.-..|.-+..|++ ++|++.-. +|.+.|- +....|..|++||+|-+..+|..|.|....
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 3444443322122333333332 23333222 1222211 111246789999999999999999886421
Q ss_pred --------CCCC-------ce---eeeeCCCCCcccccccccchHHHHHHHHHH
Q 010210 336 --------QLVD-------TW---TVSDAPESRELIWNNLNIKFFQRQIRQYVV 371 (515)
Q Consensus 336 --------~~~~-------~~---~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~ 371 (515)
.+|. .+ .-+.+|.-.-|+=.|+.-...+-.+|+.++
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 1221 11 123567777788888888777777777654
No 31
>KOG2514 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.37 E-value=4.6 Score=44.68 Aligned_cols=47 Identities=19% Similarity=0.255 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhHHH
Q 010210 424 QIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVF 470 (515)
Q Consensus 424 ~l~l~~~~~llp~i~~~ls~~eg~~t~S~~~~s~~~k~f~f~~~n~f 470 (515)
.+++.++|.+---+..++...|.+.|.|+.|-|+.-|.|+||++|..
T Consensus 441 ~~~i~~L~~iy~~~a~~lt~~e~prTe~~~ensl~~KiflfqfvN~y 487 (861)
T KOG2514|consen 441 LVVIMILNAIYSNLASRLTNLENPRTESEFENSLILKIFLFQFVNYY 487 (861)
T ss_pred HHHHHHHHHHhhhHHHHHhhhcCccchhhhcchhHHHHHHHHHHHhc
Confidence 34455566666677788899999999999999999999999999975
No 32
>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=88.28 E-value=2.6 Score=44.59 Aligned_cols=36 Identities=11% Similarity=0.165 Sum_probs=29.2
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEe
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (515)
+...||.|.|||.+++ +++|+++|+.+ |.|.++.+.
T Consensus 184 p~~~~l~v~nl~~~~t----e~~l~~~f~~~--G~i~~v~~~ 219 (457)
T TIGR01622 184 PNFLKLYVGNLHFNIT----EQELRQIFEPF--GDIEDVQLH 219 (457)
T ss_pred CCCCEEEEcCCCCCCC----HHHHHHHHHhc--CCeEEEEEE
Confidence 4578999999999887 78899999876 567776655
No 33
>PLN03120 nucleic acid binding protein; Provisional
Probab=88.10 E-value=0.74 Score=44.18 Aligned_cols=35 Identities=9% Similarity=0.085 Sum_probs=30.9
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEec
Q 010210 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (515)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (515)
.+||.|.|||.+.+ +++|+++|+.+ |+|.++.+..
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 58999999999976 79999999876 7999998864
No 34
>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=88.07 E-value=1.6 Score=47.41 Aligned_cols=38 Identities=8% Similarity=0.054 Sum_probs=31.0
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
...++|.|.|||.+.+ ++.|+++|+++ |.|.++.+.+|
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 3467999999999887 79999999986 67888876643
No 35
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=87.91 E-value=2.1 Score=40.43 Aligned_cols=146 Identities=18% Similarity=0.250 Sum_probs=75.3
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHHHHH-------H--HHHHHHHHHHHHHHHHHhhhcc
Q 010210 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKI-------Y--EELEGYKKKLARAEAVYAESKS 260 (515)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~l-------~--~~~~~~~~~Le~~~~~~~~~k~ 260 (515)
.-+.|.-+|..++ .++++..|..+ |+|+++.++||--.=+.| . ++.++++.-|..... ..|.
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 3466778899887 68899999876 789999999875221111 1 122222222221111 0000
Q ss_pred CCCCCCCCCcc---ccCCCCCCC-ccccHHHHHHHHHHhHHHHHHH---HHhhh--hcccCCceEEEEeCCHHHHHHHHH
Q 010210 261 AGKPEGTRPTI---KTGFLGLLG-KRVDAIEYYNEKIKEIIPKLEA---EQKIT--LKEKQLGAALVFFTSRVAAASAAQ 331 (515)
Q Consensus 261 ~~~~~~~rp~~---r~~~~~~~g-~kvd~i~~~~~~i~~l~~~I~~---~r~~~--~~~~~~~~aFVtF~~~~~a~~a~q 331 (515)
-+-+-.||.. |-.-+=..| .|. --++|++.+-.+.-+ -|--. ...-..|.+||.|+.+..|..|..
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 0001123321 100000011 111 012344444333221 11111 123457899999999999999999
Q ss_pred HhccCCCCc----eeeeeCCCC
Q 010210 332 SLHAQLVDT----WTVSDAPES 349 (515)
Q Consensus 332 ~~~~~~~~~----~~v~~AP~P 349 (515)
.+..++|.. ..|+.|-.|
T Consensus 188 ~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 188 GLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred hccCCCCCCCCCCeEEEecCCc
Confidence 998887753 456666666
No 36
>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=87.34 E-value=6 Score=42.26 Aligned_cols=38 Identities=13% Similarity=0.103 Sum_probs=30.6
Q ss_pred CccceEEEecCCCC-CCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDL-PKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~-~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
+...+|+|.|||.+ ++ ++.|++.|+++ |.|.++.+.+|
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 45679999999974 54 79999999986 68888877654
No 37
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=87.13 E-value=3.6 Score=40.67 Aligned_cols=45 Identities=16% Similarity=0.175 Sum_probs=36.5
Q ss_pred HHHhHHHHHHHHHhhhh--------cccCCceEEEEeCCHHHHHHHHHHhccC
Q 010210 292 KIKEIIPKLEAEQKITL--------KEKQLGAALVFFTSRVAAASAAQSLHAQ 336 (515)
Q Consensus 292 ~i~~l~~~I~~~r~~~~--------~~~~~~~aFVtF~~~~~a~~a~q~~~~~ 336 (515)
-+.++++.+.++.++.+ ..+|-|.+=|+|++...|..|+|+++..
T Consensus 285 l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 285 LLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred HHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCe
Confidence 36778888888877764 2468899999999999999999998653
No 38
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=86.63 E-value=0.73 Score=42.79 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=31.9
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhccCC--CCceeeeeCCCCCccccc
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDAPESRELIWN 355 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~~~~--~~~~~v~~AP~P~DIiW~ 355 (515)
+..|.|||+|++..+|..|...+..-. ...|+++.|=+++||+=.
T Consensus 50 KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~ 96 (221)
T KOG4206|consen 50 KMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQ 96 (221)
T ss_pred CccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhc
Confidence 568999999999998888877554321 124556777777777655
No 39
>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=85.87 E-value=1.4 Score=31.36 Aligned_cols=24 Identities=33% Similarity=0.343 Sum_probs=21.2
Q ss_pred CceEEEEeCCHHHHHHHHHHhccC
Q 010210 313 LGAALVFFTSRVAAASAAQSLHAQ 336 (515)
Q Consensus 313 ~~~aFVtF~~~~~a~~a~q~~~~~ 336 (515)
.+.|||+|.+..+|..|.+.++..
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 40
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=85.17 E-value=3.9 Score=37.99 Aligned_cols=23 Identities=30% Similarity=0.231 Sum_probs=19.7
Q ss_pred CCceEEEEeCCHHHHHHHHHHhc
Q 010210 312 QLGAALVFFTSRVAAASAAQSLH 334 (515)
Q Consensus 312 ~~~~aFVtF~~~~~a~~a~q~~~ 334 (515)
..+.|||||.|...|..|...+.
T Consensus 76 ~~pvaFatF~s~q~A~aamnaLN 98 (284)
T KOG1457|consen 76 CKPVAFATFTSHQFALAAMNALN 98 (284)
T ss_pred ccceEEEEecchHHHHHHHHHhc
Confidence 45899999999999999887764
No 41
>smart00362 RRM_2 RNA recognition motif.
Probab=85.07 E-value=1.4 Score=32.12 Aligned_cols=34 Identities=15% Similarity=0.292 Sum_probs=26.7
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
||.|+|+|.+.. +++|+++|+++ |.+.++.+.++
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 689999999886 68999999986 56666666544
No 42
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=82.49 E-value=6 Score=40.31 Aligned_cols=37 Identities=5% Similarity=0.084 Sum_probs=27.4
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEE
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMV 227 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i 227 (515)
...+|+|.|+|||-+++- +.|++.+++.. |+|+-|.+
T Consensus 41 ~~r~R~vfItNIpyd~rW----qdLKdLvrekv-Gev~yveL 77 (608)
T KOG4212|consen 41 AARDRSVFITNIPYDYRW----QDLKDLVREKV-GEVEYVEL 77 (608)
T ss_pred ccccceEEEecCcchhhh----HhHHHHHHHhc-CceEeeee
Confidence 456789999999999985 77888877653 55555543
No 43
>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=80.16 E-value=3 Score=30.54 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=26.8
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEec
Q 010210 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (515)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (515)
+|.|+|+|.... +++++++|+.. |.+.++.+..
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 588999999876 79999999986 6777776654
No 44
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=78.39 E-value=7.8 Score=40.46 Aligned_cols=35 Identities=23% Similarity=0.289 Sum_probs=29.6
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
++|.|.|||.+.. +++|.+.|++. |.|.++.++||
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 9999999999987 79999999976 56777777655
No 45
>smart00361 RRM_1 RNA recognition motif.
Probab=78.02 E-value=3 Score=31.38 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=22.1
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhccC
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~~~ 336 (515)
...|.|||+|++..+|..|.+.++..
T Consensus 35 ~~rG~~fV~f~~~~dA~~A~~~l~g~ 60 (70)
T smart00361 35 HKRGNVYITFERSEDAARAIVDLNGR 60 (70)
T ss_pred CCcEEEEEEECCHHHHHHHHHHhCCC
Confidence 34689999999999999999977654
No 46
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=74.93 E-value=3 Score=37.25 Aligned_cols=36 Identities=22% Similarity=0.123 Sum_probs=29.0
Q ss_pred ccCCceEEEEeCCHHHHHHHHHHhccCC--CCceeeee
Q 010210 310 EKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSD 345 (515)
Q Consensus 310 ~~~~~~aFVtF~~~~~a~~a~q~~~~~~--~~~~~v~~ 345 (515)
..+.|.|||.|++..+|.-|...|..++ ...++|++
T Consensus 44 rnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~ 81 (195)
T KOG0107|consen 44 RNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVEL 81 (195)
T ss_pred ecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEe
Confidence 3678999999999999999999887665 34566665
No 47
>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=72.09 E-value=0.64 Score=36.91 Aligned_cols=24 Identities=25% Similarity=0.397 Sum_probs=18.3
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHH
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSY 213 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~ 213 (515)
.++.+||+|+|||..+. ++.+++.
T Consensus 49 ~vs~rtVlvsgip~~l~----ee~l~D~ 72 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLD----EEELRDK 72 (88)
T ss_pred cccCCEEEEeCCCCCCC----hhhheee
Confidence 57899999999999555 4555553
No 48
>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=69.66 E-value=6.3 Score=40.07 Aligned_cols=38 Identities=16% Similarity=0.320 Sum_probs=31.7
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
..+.+|.|.|||.+++ +++|+++|+++ |.|.++.+.+|
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 4577899999999987 78999999887 67888887755
No 49
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=69.50 E-value=48 Score=33.49 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=22.9
Q ss_pred cccCCceEEEEeCCHHHHHHHHHHhcc
Q 010210 309 KEKQLGAALVFFTSRVAAASAAQSLHA 335 (515)
Q Consensus 309 ~~~~~~~aFVtF~~~~~a~~a~q~~~~ 335 (515)
+..++|-|||.|++.++|..|+|..|.
T Consensus 320 qGrPSGeAFIqm~nae~a~aaaqk~hk 346 (508)
T KOG1365|consen 320 QGRPSGEAFIQMRNAERARAAAQKCHK 346 (508)
T ss_pred CCCcChhhhhhhhhhHHHHHHHHHHHH
Confidence 347899999999999999999986543
No 50
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=69.11 E-value=4.5 Score=39.06 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=31.2
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHH
Q 010210 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEA 234 (515)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l 234 (515)
+.|-|+|.+.. .++|+..||++ |+|.++-|+.|.+=+
T Consensus 5 LFIGNLp~~~~----~~elr~lFe~y--gkVlECDIvKNYgFV 41 (346)
T KOG0109|consen 5 LFIGNLPREAT----EQELRSLFEQY--GKVLECDIVKNYGFV 41 (346)
T ss_pred hhccCCCcccc----hHHHHHHHHhh--CceEeeeeecccceE
Confidence 56789999887 68999999997 799999999887644
No 51
>smart00360 RRM RNA recognition motif.
Probab=67.89 E-value=7 Score=28.07 Aligned_cols=24 Identities=38% Similarity=0.397 Sum_probs=20.8
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhc
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLH 334 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~ 334 (515)
++.+.|||+|++..+|..|.+.++
T Consensus 36 ~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 36 KSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCceEEEEeCCHHHHHHHHHHcC
Confidence 457899999999999999988665
No 52
>smart00362 RRM_2 RNA recognition motif.
Probab=66.01 E-value=8.1 Score=27.89 Aligned_cols=25 Identities=36% Similarity=0.393 Sum_probs=21.0
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhcc
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLHA 335 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~~ 335 (515)
.+.+.|||+|++..+|..|.+.++.
T Consensus 37 ~~~~~~~v~f~~~~~a~~a~~~~~~ 61 (72)
T smart00362 37 KSKGFAFVEFESEEDAEKAIEALNG 61 (72)
T ss_pred CCCceEEEEeCCHHHHHHHHHHhCC
Confidence 3569999999999999999887653
No 53
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=63.20 E-value=15 Score=37.83 Aligned_cols=82 Identities=15% Similarity=0.168 Sum_probs=49.2
Q ss_pred HHHHHHHhHHHHHHH---HHhhh--hcccCCceEEEEeCCHHHHHHHHHHhccCC--C-CceeeeeCCCCCccccccccc
Q 010210 288 YYNEKIKEIIPKLEA---EQKIT--LKEKQLGAALVFFTSRVAAASAAQSLHAQL--V-DTWTVSDAPESRELIWNNLNI 359 (515)
Q Consensus 288 ~~~~~i~~l~~~I~~---~r~~~--~~~~~~~~aFVtF~~~~~a~~a~q~~~~~~--~-~~~~v~~AP~P~DIiW~NL~~ 359 (515)
-++++|.-+-++|-+ .|-.. ......|+|||||.+...|+.|...+.+.. + ..+.|...-.-.-..=.|+-.
T Consensus 95 ~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK 174 (506)
T KOG0117|consen 95 VFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPK 174 (506)
T ss_pred ccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCc
Confidence 456777777776644 33222 134568999999999999999999886642 2 223333333344455555555
Q ss_pred chHHHHHHHH
Q 010210 360 KFFQRQIRQY 369 (515)
Q Consensus 360 ~~~~r~~R~~ 369 (515)
++.+--++.-
T Consensus 175 ~k~keeIlee 184 (506)
T KOG0117|consen 175 TKKKEEILEE 184 (506)
T ss_pred cccHHHHHHH
Confidence 5544444433
No 54
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=62.90 E-value=16 Score=34.85 Aligned_cols=51 Identities=25% Similarity=0.270 Sum_probs=40.2
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhccCCC-----CceeeeeCCCCCcccccccccchHHHHHHHHHHHH
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLHAQLV-----DTWTVSDAPESRELIWNNLNIKFFQRQIRQYVVYV 373 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~~~~~-----~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~ 373 (515)
...|+|||-|++..+|++|...+|.++- ..+.|+.| -+.++|.+||.--..
T Consensus 58 ~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~A------------DTdkER~lRRMQQma 113 (371)
T KOG0146|consen 58 NSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFA------------DTDKERTLRRMQQMA 113 (371)
T ss_pred CCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEec------------cchHHHHHHHHHHHH
Confidence 4579999999999999999999998753 35667665 467889888876443
No 55
>smart00360 RRM RNA recognition motif.
Probab=60.31 E-value=11 Score=27.05 Aligned_cols=32 Identities=19% Similarity=0.307 Sum_probs=24.8
Q ss_pred EecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 194 VRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 194 V~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
|.|+|.+.. +++|+++|+++ |.|.++.+..+-
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 468898876 78999999986 567777777653
No 56
>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=58.63 E-value=13 Score=26.84 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=21.4
Q ss_pred CCceEEEEeCCHHHHHHHHHHhccC
Q 010210 312 QLGAALVFFTSRVAAASAAQSLHAQ 336 (515)
Q Consensus 312 ~~~~aFVtF~~~~~a~~a~q~~~~~ 336 (515)
+.+.|||+|++..+|+.|.+.++..
T Consensus 39 ~~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 39 SKGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred cceEEEEEECCHHHHHHHHHHhCCC
Confidence 4789999999999999999876544
No 57
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=57.76 E-value=15 Score=34.93 Aligned_cols=37 Identities=22% Similarity=0.322 Sum_probs=30.7
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
.+||.|.|||.+++ +++|.++|+++ |.+.++.+.+|-
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 49999999999887 79999999997 566677777664
No 58
>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=57.71 E-value=14 Score=39.48 Aligned_cols=36 Identities=17% Similarity=0.162 Sum_probs=31.1
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
++||.|.|||.+.+ +++|++.|+.+ |.|.++.++.+
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 68999999999987 79999999986 68888887754
No 59
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=50.08 E-value=63 Score=33.19 Aligned_cols=33 Identities=15% Similarity=0.319 Sum_probs=27.8
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecC
Q 010210 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (515)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (515)
|.|.|+|++++ .+.|.+.|+.+ |.|.++.+..|
T Consensus 79 ~~i~nl~~~~~----~~~~~d~f~~~--g~ilS~kv~~~ 111 (369)
T KOG0123|consen 79 VFIKNLDESID----NKSLYDTFSEF--GNILSCKVATD 111 (369)
T ss_pred eeecCCCcccC----cHHHHHHHHhh--cCeeEEEEEEc
Confidence 99999999988 48899999987 78888877643
No 60
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=49.84 E-value=12 Score=41.11 Aligned_cols=41 Identities=7% Similarity=0.177 Sum_probs=34.4
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCch
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (515)
.+.++|+.|-+||+.++ +++|++.||++ |+|.++.+..+.+
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 46789999999999998 79999999997 6888887765543
No 61
>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=49.36 E-value=15 Score=31.05 Aligned_cols=20 Identities=10% Similarity=0.142 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHhhCCC
Q 010210 12 TSFIIFVVLMCLFAWLSSKP 31 (515)
Q Consensus 12 ~~~~i~~~~~~~F~~lR~~~ 31 (515)
+.++++.+++++||+.|+|.
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 44556677778888888764
No 62
>PLN03120 nucleic acid binding protein; Provisional
Probab=48.02 E-value=36 Score=32.85 Aligned_cols=35 Identities=23% Similarity=0.207 Sum_probs=24.9
Q ss_pred CCceEEEEeCCHHHHHHHHHHhccC--CCCceeeeeCC
Q 010210 312 QLGAALVFFTSRVAAASAAQSLHAQ--LVDTWTVSDAP 347 (515)
Q Consensus 312 ~~~~aFVtF~~~~~a~~a~q~~~~~--~~~~~~v~~AP 347 (515)
..+.|||+|+++.+|..|.. +... .....+|.+|+
T Consensus 42 ~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 42 RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 56899999999999999985 4332 23345566553
No 63
>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=47.87 E-value=32 Score=26.03 Aligned_cols=36 Identities=28% Similarity=0.242 Sum_probs=27.6
Q ss_pred ceEEEEeCCHHHHHHHHHHhccCCCCceeeeeCCCCCcc
Q 010210 314 GAALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESREL 352 (515)
Q Consensus 314 ~~aFVtF~~~~~a~~a~q~~~~~~~~~~~v~~AP~P~DI 352 (515)
....|||.|..+|-.+-+.+...+ ..++..|-|++|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~g---i~~~liP~P~~i 37 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNG---IPVRLIPTPREI 37 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCC---CcEEEeCCChhc
Confidence 468999999999988887765543 456677888877
No 64
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=47.62 E-value=28 Score=24.68 Aligned_cols=32 Identities=19% Similarity=0.120 Sum_probs=23.9
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEe
Q 010210 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (515)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (515)
++|-|+|.|.+. .+.+.+||++. |+|.++.+.
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 689999999865 56677899985 667665544
No 65
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=47.17 E-value=2.7e+02 Score=26.83 Aligned_cols=26 Identities=8% Similarity=0.144 Sum_probs=18.4
Q ss_pred cccHHHHHHHHHHhHHHHHHHHHhhh
Q 010210 282 RVDAIEYYNEKIKEIIPKLEAEQKIT 307 (515)
Q Consensus 282 kvd~i~~~~~~i~~l~~~I~~~r~~~ 307 (515)
+++.+-..+++|.+++.+|+..+.+.
T Consensus 160 ~~~d~l~ie~~L~~v~~eIe~~~~~~ 185 (262)
T PF14257_consen 160 TVEDLLEIERELSRVRSEIEQLEGQL 185 (262)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55556567788888888888766543
No 66
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=45.38 E-value=20 Score=33.02 Aligned_cols=24 Identities=33% Similarity=0.378 Sum_probs=20.8
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhc
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLH 334 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~ 334 (515)
..-|+|||.|++..-|.+|+.+..
T Consensus 90 NSKgYAFVEFEs~eVA~IaAETMN 113 (214)
T KOG4208|consen 90 NSKGYAFVEFESEEVAKIAAETMN 113 (214)
T ss_pred CcCceEEEEeccHHHHHHHHHHhh
Confidence 346899999999999999998754
No 67
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=44.75 E-value=30 Score=33.78 Aligned_cols=38 Identities=13% Similarity=0.134 Sum_probs=32.9
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
.-+|++|..|+-++. +..|++.|+.+ |.|.++.+|+|.
T Consensus 100 Py~TLFv~RLnydT~----EskLrreF~~Y--G~IkrirlV~d~ 137 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTS----ESKLRREFEKY--GPIKRIRLVRDK 137 (335)
T ss_pred ccceeeeeecccccc----HHHHHHHHHhc--CcceeEEEeeec
Confidence 457999999998876 79999999998 679999999983
No 68
>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=43.71 E-value=2.1e+02 Score=29.76 Aligned_cols=84 Identities=19% Similarity=0.401 Sum_probs=45.8
Q ss_pred CCCCcceEEEe-cCchHH-HHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCccccCCCCCCCccccHHHHHHHHHHh
Q 010210 218 YPDTFYRSMVV-TNNKEA-NKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKE 295 (515)
Q Consensus 218 ~p~~v~~v~i~-~d~~~l-~~l~~~~~~~~~~Le~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~kvd~i~~~~~~i~~ 295 (515)
+|+. ....++ +|.++. ..+.++.+++..+++....++++. | ++...+.-++++++.
T Consensus 227 f~d~-a~~~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~----------~-----------k~~~k~~~~~~q~~~ 284 (406)
T PF02388_consen 227 FGDK-AKFFLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKN----------P-----------KKKNKLKELEEQLAS 284 (406)
T ss_dssp CCCC-EEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------T-----------HHHHHHHHHHHHHHH
T ss_pred cCCC-eEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC----------c-----------chhhHHHHHHHHHHH
Confidence 4666 344454 477554 566677777777777777665532 1 111234445666666
Q ss_pred HHHHHHHHHhhh---hcc-cCCceEEEEeCCH
Q 010210 296 IIPKLEAEQKIT---LKE-KQLGAALVFFTSR 323 (515)
Q Consensus 296 l~~~I~~~r~~~---~~~-~~~~~aFVtF~~~ 323 (515)
++++|++.++-. .+. +-.+.-||.+.+.
T Consensus 285 ~~k~~~~~~~~~~~~~~~~~la~~l~~~~g~~ 316 (406)
T PF02388_consen 285 LEKRIEEAEELIAEYGDEIPLAGALFIYYGDE 316 (406)
T ss_dssp HHHHHHHHHHHHHHH-SEEEEEEEEEEEETTE
T ss_pred HHHHHHHHHHHHHhcCCcceEEEEEEEEECCE
Confidence 776666655432 112 2245556666543
No 69
>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=41.93 E-value=55 Score=25.82 Aligned_cols=41 Identities=27% Similarity=0.382 Sum_probs=24.5
Q ss_pred CCceEEEEeCCHHHHHHHHHHhccCCC--CceeeeeCCCCCcc
Q 010210 312 QLGAALVFFTSRVAAASAAQSLHAQLV--DTWTVSDAPESREL 352 (515)
Q Consensus 312 ~~~~aFVtF~~~~~a~~a~q~~~~~~~--~~~~v~~AP~P~DI 352 (515)
..++|.+-|.++..|..|..-+...+. ....|...|.+.|.
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 468999999999999998886665543 35667777777664
No 70
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=41.37 E-value=44 Score=35.74 Aligned_cols=25 Identities=12% Similarity=0.288 Sum_probs=22.1
Q ss_pred CceEEEEeCCHHHHHHHHHHhccCC
Q 010210 313 LGAALVFFTSRVAAASAAQSLHAQL 337 (515)
Q Consensus 313 ~~~aFVtF~~~~~a~~a~q~~~~~~ 337 (515)
.|.|||+|.+..+|..|.+.++...
T Consensus 464 ~G~~fV~F~~~e~A~~A~~~lnGr~ 488 (509)
T TIGR01642 464 VGKVFLEYADVRSAEKAMEGMNGRK 488 (509)
T ss_pred cceEEEEECCHHHHHHHHHHcCCCE
Confidence 4789999999999999999987654
No 71
>COG5438 Predicted multitransmembrane protein [Function unknown]
Probab=36.05 E-value=3.6e+02 Score=27.57 Aligned_cols=44 Identities=14% Similarity=0.195 Sum_probs=33.0
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 010210 418 LEAYLPQIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKY 461 (515)
Q Consensus 418 i~~~lP~l~l~~~~~llp~i~~~ls~~eg~~t~S~~~~s~~~k~ 461 (515)
+..+..+++-.++..++-++..++++.+|..+....+.+...+.
T Consensus 205 l~A~~~Ti~~~~ls~il~~~~i~~~~l~G~~~E~~~~l~~~~~~ 248 (385)
T COG5438 205 LAAFIGTILGTLLSIILAYISIYMTNLSGFGDEDLDELTYLSKN 248 (385)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCCcchhhhHHHhcCCcc
Confidence 33444555556667778888999999999998888887777666
No 72
>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=35.08 E-value=1e+02 Score=20.24 Aligned_cols=30 Identities=13% Similarity=0.193 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Q 010210 3 FDSFLTSLGTSFIIFVVLMCLFAWLSSKPG 32 (515)
Q Consensus 3 ~~~~~~~l~~~~~i~~~~~~~F~~lR~~~~ 32 (515)
+-+..++....+++-++++..|...|||++
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~~ 34 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKKHR 34 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 445666677777777777777778887753
No 73
>PRK11020 hypothetical protein; Provisional
Probab=34.91 E-value=1.9e+02 Score=24.01 Aligned_cols=48 Identities=15% Similarity=0.315 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCccccCCCCCCCccccHHHHHHHHHHhHHHHHHHHHh
Q 010210 232 KEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQK 305 (515)
Q Consensus 232 ~~l~~l~~~~~~~~~~Le~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~kvd~i~~~~~~i~~l~~~I~~~r~ 305 (515)
.++..|.++.+.+.+++..+... | ..+-|..++++++.++.+|+..+.
T Consensus 5 ~Eiq~L~drLD~~~~Klaaa~~r-------------------------g-d~~~i~qf~~E~~~l~k~I~~lk~ 52 (118)
T PRK11020 5 NEIKRLSDRLDAIRHKLAAASLR-------------------------G-DAEKYAQFEKEKATLEAEIARLKE 52 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc-------------------------C-CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666677777777777665431 1 123355667777778887776554
No 74
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=34.87 E-value=63 Score=29.35 Aligned_cols=43 Identities=14% Similarity=0.201 Sum_probs=31.8
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHH
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEA 234 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l 234 (515)
+-+.|-|+|+++|.+-. =++|++|+.+. |.|.-..+.+|-..+
T Consensus 112 rrSe~RVvVsGLp~SgS----WQDLKDHmRea--GdvCfadv~rDg~Gv 154 (241)
T KOG0105|consen 112 RRSEYRVVVSGLPPSGS----WQDLKDHMREA--GDVCFADVQRDGVGV 154 (241)
T ss_pred cccceeEEEecCCCCCc----hHHHHHHHHhh--CCeeeeeeeccccee
Confidence 35788999999999875 58899999986 556555555555333
No 75
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=34.34 E-value=37 Score=27.83 Aligned_cols=25 Identities=24% Similarity=0.323 Sum_probs=21.3
Q ss_pred CCceEEEEeCCHHHHHHHHHHhccC
Q 010210 312 QLGAALVFFTSRVAAASAAQSLHAQ 336 (515)
Q Consensus 312 ~~~~aFVtF~~~~~a~~a~q~~~~~ 336 (515)
..|+|||.+++..+|..|+.-+..-
T Consensus 56 TrGTAFVVYedi~dAk~A~dhlsg~ 80 (124)
T KOG0114|consen 56 TRGTAFVVYEDIFDAKKACDHLSGY 80 (124)
T ss_pred cCceEEEEehHhhhHHHHHHHhccc
Confidence 4799999999999999999876543
No 76
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=33.77 E-value=39 Score=34.70 Aligned_cols=27 Identities=30% Similarity=0.409 Sum_probs=23.7
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhccCC
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLHAQL 337 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~~~~ 337 (515)
...|++||+|.++++|..|...+|..+
T Consensus 74 ~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 74 QSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred cccceEEEEeccHHHHHHHHHHhhccc
Confidence 468999999999999999999888754
No 77
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=33.74 E-value=65 Score=30.85 Aligned_cols=26 Identities=19% Similarity=0.256 Sum_probs=21.7
Q ss_pred ccCCceEEEEeCCHHHHHHHHHHhcc
Q 010210 310 EKQLGAALVFFTSRVAAASAAQSLHA 335 (515)
Q Consensus 310 ~~~~~~aFVtF~~~~~a~~a~q~~~~ 335 (515)
.+..|++||+|.+..++..|......
T Consensus 229 gKSkgygfVSf~~pad~~rAmrem~g 254 (290)
T KOG0226|consen 229 GKSKGYGFVSFRDPADYVRAMREMNG 254 (290)
T ss_pred cccccceeeeecCHHHHHHHHHhhcc
Confidence 46789999999999999988876543
No 78
>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=32.81 E-value=51 Score=26.73 Aligned_cols=26 Identities=35% Similarity=0.353 Sum_probs=22.1
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhccC
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~~~ 336 (515)
...|+|||-|.+..+|....+..+..
T Consensus 43 ~N~GYAFVNf~~~~~~~~F~~~f~g~ 68 (97)
T PF04059_consen 43 CNLGYAFVNFTSPQAAIRFYKAFNGK 68 (97)
T ss_pred CceEEEEEEcCCHHHHHHHHHHHcCC
Confidence 35899999999999999988877644
No 79
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=32.21 E-value=45 Score=30.25 Aligned_cols=32 Identities=13% Similarity=0.257 Sum_probs=25.6
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceE
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRS 225 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v 225 (515)
.+++|.|-|+|.+++ +.++++.|-++ |.|.++
T Consensus 5 ~~~~iyvGNLP~diR----ekeieDlFyKy--g~i~~i 36 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIR----EKEIEDLFYKY--GRIREI 36 (241)
T ss_pred ccceEEecCCCcchh----hccHHHHHhhh--cceEEE
Confidence 578999999999999 57889999887 445444
No 80
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=32.09 E-value=3.1e+02 Score=28.87 Aligned_cols=20 Identities=10% Similarity=0.087 Sum_probs=12.4
Q ss_pred HHHHHHHHHhHHHHHHHHHh
Q 010210 286 IEYYNEKIKEIIPKLEAEQK 305 (515)
Q Consensus 286 i~~~~~~i~~l~~~I~~~r~ 305 (515)
-|..++|++++..+-++.+.
T Consensus 96 peEIreE~Erl~r~~de~~l 115 (546)
T KOG0718|consen 96 PEEIREEYERLQRERDERRL 115 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44566788777666555443
No 81
>KOG1278 consensus Endosomal membrane proteins, EMP70 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.65 E-value=3.4e+02 Score=29.38 Aligned_cols=47 Identities=11% Similarity=0.157 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhhch-----------HhHHhhcCcchhhhchhhHHHHHHhhhhHHHH
Q 010210 380 MFYMIPIGLISALTTL-----------DNLKKILPFLKPVINITALKTVLEAYLPQIAL 427 (515)
Q Consensus 380 if~~iPv~~i~~l~~l-----------~~l~~~~~~l~~~~~~~~~~~~i~~~lP~l~l 427 (515)
+..++|.+++++.--- +++-+.+|.-.|. -+|....++.|.+|-..+
T Consensus 443 F~isVPLsf~G~y~g~kk~~~e~PvrTNqIpRqIP~q~~y-~~~~~~ili~GilPFg~i 500 (628)
T KOG1278|consen 443 FGISVPLSFVGGYFGFKKPAIEHPVRTNQIPRQIPEQPWY-LNPIPSILIAGILPFGAI 500 (628)
T ss_pred HHhhhhHHHhhHHhhccCCCCCCCcccCCCcccCCCCccc-cchhhHHHhhcccchHHH
Confidence 3446899999876321 1111122222221 134566778888885544
No 82
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=30.68 E-value=72 Score=28.80 Aligned_cols=42 Identities=17% Similarity=0.156 Sum_probs=34.5
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHH
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEA 234 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l 234 (515)
..+.-|.|-|||...+ +.+|+.-|..+ |.+.+||++++....
T Consensus 8 ~~~~kVYVGnL~~~a~----k~eLE~~F~~y--G~lrsvWvArnPPGf 49 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRAT----KRELERAFSKY--GPLRSVWVARNPPGF 49 (195)
T ss_pred CCCceEEeccCCCCcc----hHHHHHHHHhc--CcceeEEEeecCCCc
Confidence 3467799999999887 78999999887 578899999876543
No 83
>PLN03121 nucleic acid binding protein; Provisional
Probab=28.79 E-value=95 Score=29.66 Aligned_cols=21 Identities=24% Similarity=0.161 Sum_probs=17.4
Q ss_pred cCCceEEEEeCCHHHHHHHHH
Q 010210 311 KQLGAALVFFTSRVAAASAAQ 331 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q 331 (515)
...+.|||+|+++.+|..|..
T Consensus 42 et~gfAfVtF~d~~aaetAll 62 (243)
T PLN03121 42 EYACTAYVTFKDAYALETAVL 62 (243)
T ss_pred CcceEEEEEECCHHHHHHHHh
Confidence 345799999999999988774
No 84
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=28.02 E-value=4.3e+02 Score=23.51 Aligned_cols=43 Identities=21% Similarity=0.345 Sum_probs=27.4
Q ss_pred eCCCCCcc-cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010210 345 DAPESREL-IWNNLNIKFFQRQIRQYVVYVIVALTIMFYMIPIG 387 (515)
Q Consensus 345 ~AP~P~DI-iW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~ 387 (515)
.+|+|+|. -|.|--++.--.+--..++.+++.+.+..|.-|--
T Consensus 33 a~Pd~~D~~kW~nRVisNLLYyQTNYfv~~it~~~l~~f~sp~~ 76 (188)
T KOG4050|consen 33 ARPDFNDFKKWNNRVISNLLYYQTNYFVTFITLFLLHGFISPQD 76 (188)
T ss_pred cCCCCccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHcCHHH
Confidence 67999996 48777666555444555565555555555555554
No 85
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=27.85 E-value=55 Score=29.74 Aligned_cols=40 Identities=15% Similarity=0.174 Sum_probs=32.7
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
+-++.||.|.|||..++ ++.|.+.|-+. |.|.++++.+|.
T Consensus 6 rnqd~tiyvgnld~kvs----~~~l~EL~iqa--gpVv~i~iPkDr 45 (203)
T KOG0131|consen 6 RNQDATLYVGNLDEKVS----EELLYELFIQA--GPVVNLHIPKDR 45 (203)
T ss_pred cCCCceEEEecCCHHHH----HHHHHHHHHhc--Cceeeeecchhh
Confidence 45789999999999887 68888888776 568888887764
No 86
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=26.74 E-value=2.6e+02 Score=27.09 Aligned_cols=53 Identities=21% Similarity=0.366 Sum_probs=22.5
Q ss_pred cCCCCCCCCChHHH----HHHHHHHhCCCCcceEEEec----CchHHHHHHHHHHHHHHHHH
Q 010210 196 DLPDLPKGQSRKEQ----VDSYFKAIYPDTFYRSMVVT----NNKEANKIYEELEGYKKKLA 249 (515)
Q Consensus 196 ~IP~~~~~~~~~~~----l~~~f~~~~p~~v~~v~i~~----d~~~l~~l~~~~~~~~~~Le 249 (515)
.+|+++++.+..+. |.+..+. +|+++--...+- +-.++.++.++++.+..+++
T Consensus 171 ~lp~dl~~~~~r~~~~~~l~el~~r-~~~giP~LDPi~DmkI~d~~~~e~~~k~~~Le~rl~ 231 (268)
T PF13234_consen 171 KLPKDLRPQEARKQVLKSLQELLKR-FPDGIPLLDPIKDMKIKDPEFVELVKKIEALEKRLS 231 (268)
T ss_dssp ---TTTTSCCCHHHHHHHHHHHHHH-SSS--TCHHCHHHH----HHHHHHHHHHHHHHHHHH
T ss_pred eCcccccchHHHHHHHHHHHHHHHh-CCCCCCccChHHhCCCCcHHHHHHHHHHHHHHHHHH
Confidence 48888887433333 4444443 677643222222 22345555555555444444
No 87
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=26.62 E-value=79 Score=29.32 Aligned_cols=38 Identities=8% Similarity=0.086 Sum_probs=31.3
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
..+++.|.||--... .+.|...||++ |.|-+|.|.+|-
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 468999999987665 78899999998 788888887764
No 88
>COG5570 Uncharacterized small protein [Function unknown]
Probab=26.48 E-value=2.4e+02 Score=19.94 Aligned_cols=50 Identities=10% Similarity=0.124 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCccccCCCCCCCccccHHHHHHHHHHhHHHHHHHHHhh
Q 010210 233 EANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKI 306 (515)
Q Consensus 233 ~l~~l~~~~~~~~~~Le~~~~~~~~~k~~~~~~~~rp~~r~~~~~~~g~kvd~i~~~~~~i~~l~~~I~~~r~~ 306 (515)
.|..|.+++..+.+++..+.+ +|. ...-+|.-++.+--.+.++|+..+.+
T Consensus 6 hl~eL~kkHg~le~ei~ea~n--------------~Ps----------~dd~~i~eLKRrKL~lKeeIEkLka~ 55 (57)
T COG5570 6 HLAELEKKHGNLEREIQEAMN--------------SPS----------SDDLAIRELKRRKLRLKEEIEKLKAQ 55 (57)
T ss_pred HHHHHHHhhchHHHHHHHHhc--------------CCC----------cchHHHHHHHHHHHHHHHHHHHHhcc
Confidence 456666777766666665532 342 11223444544444577778776653
No 89
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=26.46 E-value=2e+02 Score=31.02 Aligned_cols=24 Identities=13% Similarity=0.436 Sum_probs=19.3
Q ss_pred ccccHHHHHHHHHHhHHHHHHHHH
Q 010210 281 KRVDAIEYYNEKIKEIIPKLEAEQ 304 (515)
Q Consensus 281 ~kvd~i~~~~~~i~~l~~~I~~~r 304 (515)
+|-|..+|+...|++|+.|++..+
T Consensus 119 ek~d~~~wi~~~ideLe~q~d~~e 142 (575)
T KOG2150|consen 119 EKRDTMDWISNQIDELERQVDSFE 142 (575)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455788999999999999887644
No 90
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=26.04 E-value=64 Score=32.19 Aligned_cols=40 Identities=15% Similarity=0.334 Sum_probs=33.5
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCchHH
Q 010210 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEA 234 (515)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l 234 (515)
-..|.|.+||.++. ++.+++||++. +.|.++.+.+|....
T Consensus 97 tkkiFvGG~~~~~~----e~~~r~yfe~~--g~v~~~~~~~d~~~~ 136 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTT----EEDFKDYFEQF--GKVADVVIMYDKTTS 136 (311)
T ss_pred eeEEEecCcCCCCc----hHHHhhhhhcc--ceeEeeEEeeccccc
Confidence 45899999999987 79999999986 578888888887654
No 91
>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=25.79 E-value=27 Score=21.65 Aligned_cols=7 Identities=43% Similarity=1.142 Sum_probs=2.8
Q ss_pred ccccccc
Q 010210 351 ELIWNNL 357 (515)
Q Consensus 351 DIiW~NL 357 (515)
||||.|-
T Consensus 23 diIW~nt 29 (31)
T PF00322_consen 23 DIIWVNT 29 (31)
T ss_dssp TTT-S--
T ss_pred cEEEecC
Confidence 6777663
No 92
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=25.11 E-value=85 Score=29.43 Aligned_cols=40 Identities=13% Similarity=0.204 Sum_probs=29.0
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEe
Q 010210 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (515)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (515)
.+.. |+.|+|++..+..+..++.|...|+++ |+|.+|...
T Consensus 7 ~pn~-TlYInnLnekI~~~elkrsL~~LFsqf--G~ildI~a~ 46 (221)
T KOG4206|consen 7 NPNG-TLYINNLNEKIKKDELKRSLYLLFSQF--GKILDISAF 46 (221)
T ss_pred CCCc-eEeehhccccccHHHHHHHHHHHHHhh--CCeEEEEec
Confidence 3444 999999999988655566666688887 677666543
No 93
>PLN03074 auxin influx permease; Provisional
Probab=24.98 E-value=1.2e+02 Score=32.30 Aligned_cols=65 Identities=15% Similarity=0.184 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCchhHHHHH--HHHHHHHHHhhHHHHHHh--h---hhhHHHHHHHHHcC
Q 010210 425 IALIVFLALLPKLLLFLSKTEGIPAVSHAVRA--ASGKYFYFTVLNVFIGVT--V---GGTLFKTFKSIEKD 489 (515)
Q Consensus 425 l~l~~~~~llp~i~~~ls~~eg~~t~S~~~~s--~~~k~f~f~~~n~flv~~--l---~~~~~~~l~~~~~~ 489 (515)
+..+.+..++|.++.....++....+...|+- ...+..+-.+.|++++.. + +.+.+..+.+++++
T Consensus 383 ~~~s~l~~i~P~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~iiv~~~~~g~~~G~~asi~~ii~~ 454 (473)
T PLN03074 383 LLVSFTVYIIPSLAHMLTYRSASARQNAAEKPPFFLPSWTGMYVVNAFVVVWVLVVGFGFGGWASMTNFVRQ 454 (473)
T ss_pred HHHHHHHHHHHHHHHHHHhcchhhhhhcccCCcccCCccceehhhhhHHHHhhhhHhhccchHHHHHHHHHh
Confidence 44556677889888887544321111111110 011222234677666532 1 23456677777654
No 94
>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=24.09 E-value=2.2e+02 Score=28.27 Aligned_cols=39 Identities=21% Similarity=0.280 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhHHHHHHHHHhhhhcccCCceEEEEeCCH
Q 010210 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSR 323 (515)
Q Consensus 285 ~i~~~~~~i~~l~~~I~~~r~~~~~~~~~~~aFVtF~~~ 323 (515)
.++..+++++.+++.|+..|+++.+-+.+..|-+.|.+.
T Consensus 44 Rv~~~~~~l~~i~~Ri~~~qaKi~~l~gs~kAi~vfs~a 82 (297)
T PF11945_consen 44 RVERNRERLQAIQQRIEVAQAKIEKLQGSKKAITVFSPA 82 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccEEEeCcc
Confidence 355666777777777777777776666677788888765
No 95
>KOG0684 consensus Cytochrome P450 [Secondary metabolites biosynthesis, transport and catabolism]
Probab=23.74 E-value=1.6e+02 Score=30.95 Aligned_cols=49 Identities=18% Similarity=0.360 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhCCCCCceeecccccCCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHHhChhHHHHHHHHH
Q 010210 16 IFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAVYFVFMS 89 (515)
Q Consensus 16 i~~~~~~~F~~lR~~~~~~~iY~pr~~~~~~~p~~~~~~~~~~~~Wi~~~~~~~d~~i~~~~GlDa~~flrflk 89 (515)
+.++++++|+.+|+| .+| +++|. ..|+.-|+..++. .|-|.+.|++=.+
T Consensus 13 vi~~~l~~~~~~~~r-------~~~----~~PPl-----i~gwiP~lG~a~~---------fgk~P~eFl~~~~ 61 (486)
T KOG0684|consen 13 VIALLLLLFLLLQRR-------TSR----KEPPL-----IKGWIPWLGSALA---------FGKDPLEFLRECR 61 (486)
T ss_pred HHHHHHHHHHHHhcc-------cCC----CCCcc-----cccCcchhhHHHH---------hccCHHHHHHHHH
Confidence 334456677777765 122 23343 5677777777665 6888888877544
No 96
>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=23.50 E-value=7.2e+02 Score=24.53 Aligned_cols=35 Identities=17% Similarity=0.316 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHh
Q 010210 362 FQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDN 397 (515)
Q Consensus 362 ~~r~~R~~~~~~~~~~l~if~~iPv~~i~~l~~l~~ 397 (515)
.++..-..+..++++ +...-+.-++.++.+.+++.
T Consensus 51 ~R~~~~~~~~~~l~i-~~~ipv~~v~~l~~l~~l~~ 85 (325)
T PF02714_consen 51 LRRIIVNILLFLLII-FWTIPVAFVSALSNLDTLKK 85 (325)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHcccchhc
Confidence 334444444433333 33333334566666665544
No 97
>PF09446 VMA21: VMA21-like domain; InterPro: IPR019013 The vacuolar ATPase assembly integral membrane protein VMA21 is required for the assembly of the integral membrane sector (V0 component) of the vacuolar ATPase (V-ATPase) in the endoplasmic reticulum []. This entry represents a putative short domain found in VMA21-like proteins, and which appears to contain two potential transmembrane helices.
Probab=23.49 E-value=3e+02 Score=20.42 Aligned_cols=51 Identities=20% Similarity=0.183 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHHH---hcCCCchhHHHHHHHHHHHHHHhhHHHHHHhh
Q 010210 425 IALIVFLALLPKLLLFLSK---TEGIPAVSHAVRAASGKYFYFTVLNVFIGVTV 475 (515)
Q Consensus 425 l~l~~~~~llp~i~~~ls~---~eg~~t~S~~~~s~~~k~f~f~~~n~flv~~l 475 (515)
+.-++.+..+|....+..+ ++|....|+.+..+..-.-.-..+|+.++.-+
T Consensus 9 l~fs~~M~~lPl~~ff~~~~~~~~~~~~~~~~~~~~~sgi~Avi~vnvVl~~Yi 62 (66)
T PF09446_consen 9 LFFSVLMFTLPLGTFFGFKYFLFDGFFGLSPSDNTIYSGIAAVIVVNVVLASYI 62 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccCCcchhhHHHHHHHHHHHHHHHHHHH
Confidence 3456677889999988886 47777788888888888888888888776543
No 98
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=22.59 E-value=1.6e+02 Score=23.76 Aligned_cols=38 Identities=26% Similarity=0.371 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhCC--CCC---ceeecccccC
Q 010210 6 FLTSLGTSFIIFVVLMCLFAWLSSK--PGN---TVVYYPNRIL 43 (515)
Q Consensus 6 ~~~~l~~~~~i~~~~~~~F~~lR~~--~~~---~~iY~pr~~~ 43 (515)
|+.+|+.-.+-..+...+|..+|+- .+| ..+|.|.-.-
T Consensus 21 fLItLasVvvavGl~aGLfFcvR~~lslrn~~~ta~Y~PHg~n 63 (106)
T PF14654_consen 21 FLITLASVVVAVGLFAGLFFCVRNSLSLRNTFDTAVYRPHGPN 63 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccccccccccceEccCCcc
Confidence 4444443333333333344444653 223 3788887443
No 99
>PLN03213 repressor of silencing 3; Provisional
Probab=22.38 E-value=1.3e+02 Score=31.64 Aligned_cols=39 Identities=13% Similarity=0.111 Sum_probs=33.6
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
.+-.+|.|-||+.+++ ++.|++.|.++ |.|.+|.++++.
T Consensus 8 ~~gMRIYVGNLSydVT----EDDLravFSeF--GsVkdVEIpRET 46 (759)
T PLN03213 8 GGGVRLHVGGLGESVG----RDDLLKIFSPM--GTVDAVEFVRTK 46 (759)
T ss_pred CcceEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEeccc
Confidence 4568999999999998 69999999997 789999988753
No 100
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=22.32 E-value=1.1e+02 Score=29.24 Aligned_cols=39 Identities=18% Similarity=0.154 Sum_probs=30.9
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCcceEEEecCc
Q 010210 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (515)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (515)
....+|.|.|+|..+. +++|++.|++.. ++..|.+-||-
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 4567899999999987 588999999873 66677776653
No 101
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=21.90 E-value=89 Score=27.63 Aligned_cols=26 Identities=19% Similarity=0.332 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhheeeee
Q 010210 85 FVFMSTVLGIFALSGIILLPALLPVA 110 (515)
Q Consensus 85 lrflk~~~~~f~~~~~~~~~iLlPin 110 (515)
-|++++++++..+++++++.++.-+=
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v~L 54 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVVIL 54 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999998887766543
No 102
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=21.80 E-value=1.4e+02 Score=32.91 Aligned_cols=24 Identities=25% Similarity=0.355 Sum_probs=21.3
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhc
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLH 334 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~ 334 (515)
..+|.|||.|.+..+|+.|.+.++
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lq 581 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQ 581 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhc
Confidence 357999999999999999998865
No 103
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=21.59 E-value=3.2e+02 Score=20.18 Aligned_cols=41 Identities=22% Similarity=0.332 Sum_probs=29.2
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHh----CCCCcc-----eEEEecCchH
Q 010210 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAI----YPDTFY-----RSMVVTNNKE 233 (515)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~----~p~~v~-----~v~i~~d~~~ 233 (515)
...+|.|+|+.. +. .++++.||.++ .|.+|+ ++++++...+
T Consensus 4 rpeavhirGvd~-ls----T~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~~ 53 (62)
T PF10309_consen 4 RPEAVHIRGVDE-LS----TDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDEE 53 (62)
T ss_pred eeceEEEEcCCC-CC----HHHHHHHHHHhcccCCCceEEEecCCcEEEEECCHH
Confidence 345799999854 33 68899999998 455553 5778876654
No 104
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=21.44 E-value=1.2e+02 Score=29.20 Aligned_cols=71 Identities=20% Similarity=0.225 Sum_probs=49.4
Q ss_pred HHHHHhHHHHHHHHH------hhhhcccCCceEEEEeCCHHHHHHHHHHhccCC--CCceeeeeC-CCCCcccccccccc
Q 010210 290 NEKIKEIIPKLEAEQ------KITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA-PESRELIWNNLNIK 360 (515)
Q Consensus 290 ~~~i~~l~~~I~~~r------~~~~~~~~~~~aFVtF~~~~~a~~a~q~~~~~~--~~~~~v~~A-P~P~DIiW~NL~~~ 360 (515)
++|++.|-..|-+.+ .+. ..+..|++||-+-++++|..|..++..-+ ....+|..| |.-+-|-=.||.++
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 567777776665432 222 34578999999999999999998875432 345677776 44444667789887
Q ss_pred h
Q 010210 361 F 361 (515)
Q Consensus 361 ~ 361 (515)
.
T Consensus 134 G 134 (360)
T KOG0145|consen 134 G 134 (360)
T ss_pred c
Confidence 4
No 105
>PRK15321 putative type III secretion system effector protein OrgC; Provisional
Probab=21.24 E-value=1.5e+02 Score=23.88 Aligned_cols=45 Identities=16% Similarity=0.226 Sum_probs=25.1
Q ss_pred CccccHHHHHHHHHH---------hHHHHHHHHHhhhhcccCCceEEEEeCCHH
Q 010210 280 GKRVDAIEYYNEKIK---------EIIPKLEAEQKITLKEKQLGAALVFFTSRV 324 (515)
Q Consensus 280 g~kvd~i~~~~~~i~---------~l~~~I~~~r~~~~~~~~~~~aFVtF~~~~ 324 (515)
|..||-.+.+-+.+. .+.+.|.++-......+....|||||+.+.
T Consensus 13 g~~vdlydAF~Q~l~~LP~la~S~~~KD~I~q~m~~F~dp~~G~pAF~s~~QQ~ 66 (120)
T PRK15321 13 GGDVDLYDAFYQRLLALPESASSETLKDSIYQEMNAFKDPNSGDSAFVSFEQQT 66 (120)
T ss_pred CCcchHHHHHHHHHHhCCcccCcHHHHHHHHHHHHHhCCCCCCCcccccHHHHH
Confidence 566665543333332 334455555444433345778999997654
No 106
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=20.81 E-value=90 Score=28.38 Aligned_cols=24 Identities=25% Similarity=0.267 Sum_probs=21.6
Q ss_pred cCCceEEEEeCCHHHHHHHHHHhc
Q 010210 311 KQLGAALVFFTSRVAAASAAQSLH 334 (515)
Q Consensus 311 ~~~~~aFVtF~~~~~a~~a~q~~~ 334 (515)
...|.||+.|.++++|..|.+.+.
T Consensus 49 ~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 49 KHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred cccceeEEEEechhhhHHHHHHHH
Confidence 578999999999999999999764
No 107
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=20.33 E-value=94 Score=31.53 Aligned_cols=24 Identities=25% Similarity=0.350 Sum_probs=21.2
Q ss_pred cccCCceEEEEeCCHHHHHHHHHH
Q 010210 309 KEKQLGAALVFFTSRVAAASAAQS 332 (515)
Q Consensus 309 ~~~~~~~aFVtF~~~~~a~~a~q~ 332 (515)
+.+++|.|||.|..+.+|+.|.|.
T Consensus 202 dgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 202 DGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred CCCcccceEEEecCHHHHHHHHHH
Confidence 457899999999999999998875
No 108
>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=20.10 E-value=3.2e+02 Score=19.13 Aligned_cols=30 Identities=23% Similarity=0.262 Sum_probs=15.1
Q ss_pred CCCCCCccccHHHHHHHHHHhHHHHHHHHHh
Q 010210 275 FLGLLGKRVDAIEYYNEKIKEIIPKLEAEQK 305 (515)
Q Consensus 275 ~~~~~g~kvd~i~~~~~~i~~l~~~I~~~r~ 305 (515)
.|.+||+..|.-+. .+-+++++.+++...+
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 57788888875443 4445556666655544
Done!