Query 004795
Match_columns 730
No_of_seqs 269 out of 955
Neff 8.0
Searched_HMMs 46136
Date Thu Mar 28 13:02:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004795.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004795hhsearch_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 3E-121 7E-126 1011.8 54.0 662 2-674 20-722 (827)
2 KOG1134 Uncharacterized conser 100.0 2E-119 4E-124 1035.7 61.8 686 6-706 7-708 (728)
3 PF02714 DUF221: Domain of unk 100.0 1.3E-66 2.9E-71 561.3 36.1 323 316-638 1-325 (325)
4 PF13967 RSN1_TM: Late exocyto 100.0 4.1E-34 8.9E-39 274.4 13.6 156 5-168 1-157 (157)
5 PF14703 DUF4463: Domain of un 99.1 1.3E-10 2.9E-15 99.5 6.9 71 227-297 1-85 (85)
6 PF04547 Anoctamin: Calcium-ac 99.0 2E-07 4.3E-12 105.4 28.1 262 356-638 109-397 (452)
7 KOG2513 Protein required for m 97.7 0.018 3.9E-07 64.7 26.8 249 358-637 260-555 (647)
8 TIGR01659 sex-lethal sex-letha 96.7 0.0036 7.8E-08 67.9 7.5 40 186-231 104-143 (346)
9 PLN03134 glycine-rich RNA-bind 95.9 0.052 1.1E-06 51.2 9.6 36 188-229 33-68 (144)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 95.5 0.087 1.9E-06 57.4 10.8 100 189-370 3-110 (352)
11 KOG0144 RNA-binding protein CU 95.4 0.048 1.1E-06 58.5 8.0 135 188-337 33-189 (510)
12 PLN03120 nucleic acid binding 95.2 0.12 2.7E-06 52.9 9.8 34 189-228 4-37 (260)
13 PF00076 RRM_1: RNA recognitio 95.1 0.075 1.6E-06 42.6 6.7 32 192-229 1-32 (70)
14 TIGR01628 PABP-1234 polyadenyl 94.9 0.069 1.5E-06 62.3 8.3 170 191-371 2-200 (562)
15 TIGR01648 hnRNP-R-Q heterogene 94.3 0.12 2.7E-06 59.5 8.1 39 188-232 57-95 (578)
16 TIGR01661 ELAV_HUD_SF ELAV/HuD 94.0 0.22 4.8E-06 54.2 9.3 36 189-230 269-304 (352)
17 KOG0122 Translation initiation 93.7 0.23 5E-06 49.7 7.6 37 188-230 188-224 (270)
18 PF04059 RRM_2: RNA recognitio 93.7 0.36 7.8E-06 42.1 7.9 26 311-336 43-68 (97)
19 KOG0149 Predicted RNA-binding 93.5 0.19 4.1E-06 50.1 6.6 33 191-229 14-46 (247)
20 KOG0125 Ataxin 2-binding prote 92.4 0.64 1.4E-05 48.6 8.8 37 188-230 95-131 (376)
21 TIGR01628 PABP-1234 polyadenyl 91.3 1.4 3E-05 51.5 11.5 39 187-231 176-214 (562)
22 TIGR01648 hnRNP-R-Q heterogene 91.1 0.92 2E-05 52.5 9.4 39 312-350 268-308 (578)
23 KOG0148 Apoptosis-promoting RN 91.0 0.44 9.6E-06 48.4 5.8 114 188-333 5-124 (321)
24 TIGR01645 half-pint poly-U bin 89.7 1.6 3.4E-05 50.8 9.6 86 188-355 203-290 (612)
25 TIGR01622 SF-CC1 splicing fact 89.1 2.7 5.9E-05 47.6 11.2 36 188-229 88-123 (457)
26 KOG0127 Nucleolar protein fibr 89.0 1.5 3.2E-05 48.9 8.3 33 190-228 293-325 (678)
27 KOG0145 RNA-binding protein EL 88.3 1.9 4.2E-05 43.5 7.8 147 189-349 40-209 (360)
28 TIGR01649 hnRNP-L_PTB hnRNP-L/ 87.0 0.49 1.1E-05 54.1 3.4 36 189-230 2-37 (481)
29 PF07810 TMC: TMC domain; Int 86.9 4.2 9.1E-05 36.4 8.4 54 551-609 47-105 (111)
30 KOG2514 Uncharacterized conser 86.1 5.7 0.00012 46.9 11.2 53 419-471 436-488 (861)
31 PLN03121 nucleic acid binding 86.0 1.2 2.6E-05 45.2 5.0 38 187-230 3-40 (243)
32 TIGR01642 U2AF_lg U2 snRNP aux 85.5 3.5 7.5E-05 47.4 9.4 36 188-229 294-329 (509)
33 KOG4211 Splicing factor hnRNP- 85.4 1.1 2.4E-05 49.3 4.8 37 187-230 8-44 (510)
34 TIGR01622 SF-CC1 splicing fact 84.7 4.1 9E-05 46.1 9.4 37 187-229 184-220 (457)
35 TIGR01649 hnRNP-L_PTB hnRNP-L/ 83.7 9.6 0.00021 43.6 11.8 38 187-230 273-311 (481)
36 KOG0117 Heterogeneous nuclear 83.5 4 8.7E-05 44.5 7.9 38 309-346 204-245 (506)
37 TIGR01645 half-pint poly-U bin 83.4 3.3 7.1E-05 48.3 7.7 36 188-229 106-141 (612)
38 KOG4212 RNA-binding protein hn 82.2 5.9 0.00013 43.0 8.4 37 185-226 40-76 (608)
39 PF13893 RRM_5: RNA recognitio 81.6 2.2 4.8E-05 32.7 3.9 24 313-336 21-44 (56)
40 smart00362 RRM_2 RNA recogniti 79.3 3.1 6.8E-05 32.5 4.3 34 191-230 1-34 (72)
41 KOG0109 RNA-binding protein LA 78.9 1.7 3.7E-05 44.7 3.1 37 192-234 5-41 (346)
42 KOG4206 Spliceosomal protein s 78.6 2 4.3E-05 42.8 3.4 45 311-355 50-96 (221)
43 PF14259 RRM_6: RNA recognitio 74.8 3.5 7.5E-05 33.0 3.3 31 192-228 1-31 (70)
44 KOG0107 Alternative splicing f 73.8 2.9 6.2E-05 40.1 2.9 43 303-345 37-81 (195)
45 smart00361 RRM_1 RNA recogniti 71.1 5.2 0.00011 32.4 3.5 26 311-336 35-60 (70)
46 cd00590 RRM RRM (RNA recogniti 70.3 7.6 0.00016 30.4 4.4 33 191-229 1-33 (74)
47 KOG0117 Heterogeneous nuclear 65.2 12 0.00026 41.1 5.6 83 288-370 95-185 (506)
48 TIGR01659 sex-lethal sex-letha 64.9 16 0.00034 39.9 6.7 59 312-370 148-214 (346)
49 KOG1365 RNA-binding protein Fu 64.6 51 0.0011 35.6 9.9 27 309-335 320-346 (508)
50 KOG0108 mRNA cleavage and poly 64.4 20 0.00044 40.1 7.5 35 190-230 19-53 (435)
51 PF14259 RRM_6: RNA recognitio 64.4 6.3 0.00014 31.5 2.7 24 311-334 37-60 (70)
52 KOG0148 Apoptosis-promoting RN 60.8 17 0.00036 37.4 5.4 40 187-232 60-99 (321)
53 KOG0127 Nucleolar protein fibr 55.8 20 0.00044 40.3 5.5 35 190-230 6-40 (678)
54 smart00360 RRM RNA recognition 55.6 14 0.0003 28.4 3.3 24 311-334 36-59 (71)
55 KOG0146 RNA-binding protein ET 55.3 22 0.00049 36.3 5.2 51 310-372 57-112 (371)
56 smart00362 RRM_2 RNA recogniti 54.0 15 0.00033 28.3 3.4 25 311-335 37-61 (72)
57 PF07292 NID: Nmi/IFP 35 domai 53.8 1.9 4.1E-05 36.8 -2.1 23 186-212 49-71 (88)
58 cd00590 RRM RRM (RNA recogniti 48.0 22 0.00049 27.5 3.4 25 312-336 39-63 (74)
59 smart00360 RRM RNA recognition 47.1 23 0.00051 27.1 3.4 32 194-231 1-32 (71)
60 KOG0123 Polyadenylate-binding 44.6 63 0.0014 35.5 7.2 34 192-231 79-112 (369)
61 COG0724 RNA-binding proteins ( 43.4 32 0.0007 34.8 4.6 36 189-230 115-150 (306)
62 PF14605 Nup35_RRM_2: Nup53/35 41.6 37 0.0008 26.0 3.5 32 190-228 2-33 (53)
63 KOG1457 RNA binding protein (c 37.4 41 0.00089 33.7 3.9 24 312-335 76-99 (284)
64 PF14257 DUF4349: Domain of un 37.0 4.9E+02 0.011 26.9 15.1 25 282-306 160-184 (262)
65 PF11608 Limkain-b1: Limkain b 36.6 66 0.0014 27.3 4.4 41 312-352 38-80 (90)
66 KOG1548 Transcription elongati 35.6 66 0.0014 34.4 5.2 45 292-336 285-337 (382)
67 PF02388 FemAB: FemAB family; 33.9 3.4E+02 0.0074 30.2 11.1 83 218-322 227-315 (406)
68 PF09874 DUF2101: Predicted me 33.5 1.4E+02 0.003 29.7 6.7 98 573-680 50-153 (206)
69 PF15176 LRR19-TM: Leucine-ric 33.3 1.5E+02 0.0033 25.9 6.1 23 607-629 8-30 (102)
70 KOG0132 RNA polymerase II C-te 32.6 65 0.0014 38.1 5.0 62 289-351 434-499 (894)
71 TIGR01642 U2AF_lg U2 snRNP aux 32.4 64 0.0014 36.9 5.2 25 313-337 464-488 (509)
72 KOG0132 RNA polymerase II C-te 32.3 28 0.00061 40.9 2.1 39 187-231 419-457 (894)
73 KOG0226 RNA-binding proteins [ 31.9 62 0.0013 33.2 4.2 56 275-335 194-254 (290)
74 KOG0718 Molecular chaperone (D 30.4 3E+02 0.0066 30.9 9.4 33 568-600 372-404 (546)
75 PF02654 CobS: Cobalamin-5-pho 29.9 5.7E+02 0.012 26.0 11.2 124 542-669 86-214 (235)
76 KOG4208 Nucleolar RNA-binding 28.5 55 0.0012 32.5 3.1 24 311-334 90-113 (214)
77 PF11874 DUF3394: Domain of un 28.3 66 0.0014 31.6 3.6 60 622-681 8-67 (183)
78 PF14362 DUF4407: Domain of un 28.1 2.6E+02 0.0057 29.6 8.7 58 580-638 46-106 (301)
79 PF01102 Glycophorin_A: Glycop 28.0 49 0.0011 30.2 2.6 19 14-32 76-94 (122)
80 KOG2150 CCR4-NOT transcription 27.9 1.6E+02 0.0034 33.9 6.9 23 281-303 119-141 (575)
81 KOG0113 U1 small nuclear ribon 27.0 81 0.0018 33.1 4.1 37 188-230 100-136 (335)
82 PF02714 DUF221: Domain of unk 26.7 7.9E+02 0.017 26.1 18.3 29 559-587 242-270 (325)
83 PF11823 DUF3343: Protein of u 25.9 99 0.0021 25.2 3.9 36 314-352 2-37 (73)
84 KOG0144 RNA-binding protein CU 25.6 67 0.0015 35.3 3.4 27 311-337 74-100 (510)
85 PF06570 DUF1129: Protein of u 24.8 6.1E+02 0.013 25.2 10.1 21 648-668 182-202 (206)
86 PF02439 Adeno_E3_CR2: Adenovi 23.9 1.7E+02 0.0036 20.9 3.9 30 3-32 5-34 (38)
87 KOG0107 Alternative splicing f 22.9 1.1E+02 0.0025 29.6 4.0 40 188-233 9-48 (195)
88 PRK11020 hypothetical protein; 22.2 3.6E+02 0.0077 24.2 6.6 48 232-305 5-52 (118)
89 KOG3142 Prenylated rab accepto 21.7 1E+02 0.0022 30.4 3.5 57 544-600 52-109 (187)
90 KOG0105 Alternative splicing f 21.6 89 0.0019 30.5 3.0 32 188-225 5-36 (241)
91 PLN03121 nucleic acid binding 21.0 1.5E+02 0.0032 30.5 4.6 21 311-331 42-62 (243)
92 PF04109 APG9: Autophagy prote 21.0 2.4E+02 0.0052 31.1 6.6 37 568-604 121-158 (370)
93 KOG4050 Glutamate transporter 20.9 4.2E+02 0.0092 25.3 7.2 43 344-386 32-75 (188)
94 PF10309 DUF2414: Protein of u 20.1 3.3E+02 0.0071 21.7 5.5 40 189-233 5-53 (62)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=3e-121 Score=1011.81 Aligned_cols=662 Identities=27% Similarity=0.477 Sum_probs=610.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhccCCCCCeeeccccccCCCCCCCCCCCCCCcccchHHhhcCCHHHHHHhhCchh
Q 004795 2 DFDSFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDT 81 (730)
Q Consensus 2 ~~~~~~~sl~~~~~i~~~~~~~F~~lR~~~~~~~vY~pr~~~~~~~p~~~~~~~~~~~~Wi~~~~~~~~~~i~~~~GlDa 81 (730)
+++++.|++.++..++++++.+|++||+| ++++|+||+..++.+...+++.++|+|||+.++++++|+.+++++|+||
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 57899999999999999999999999988 5799999999876431112267899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhheeeeeeecCcccccCCCCCCCCCcCcccccccccccCCCcchhhHHHHHHHHHHHH
Q 004795 82 AVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVT 161 (730)
Q Consensus 82 ~~flrflk~~~~if~~~~~~~~~iLlPvn~~~~~~~~~~~~~~~~~~~~~l~~ls~~Ni~~~s~~lw~h~i~~~i~~~~~ 161 (730)
|+||||+|||++++++.|+++++||+|||++.++..+ |+ ....++++++|++|+.+ ++++|+|++.+|++.+++
T Consensus 98 y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~-gn----~~s~s~l~~Ls~~Nv~~-~n~~~aHvf~~~~f~~~v 171 (827)
T COG5594 98 YFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATN-GN----SDSESGLDKLSISNVSP-SNRLYAHVFLSWFFFGYV 171 (827)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhHEeeeeeeccccccc-CC----ccchhhhhHhhhhcccC-CCceeeeeehhHHHHHHH
Confidence 9999999999999999999999999999998855432 11 12357899999999986 689999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCC---------CCCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCch
Q 004795 162 YFLLWRGYKHVSELRADALMSPE---------VRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (730)
Q Consensus 162 ~~~l~~e~~~~~~~R~~~l~s~~---------~~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (730)
+|.+++|++.+..+||++++++. .+.++|||+++++|.++++ ++++.++|+++.-+++.+..+|||.+
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 99999999999999999998875 2348999999999999998 88899999999888999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh----------cc----------------CCCCCCCCCccccccc--CCCCcccc
Q 004795 233 EANKIYEELEGYKKKLARAEAVYAES----------KS----------------AGKPEGTRPTIKTGFL--GLLGKRVD 284 (730)
Q Consensus 233 ~l~~L~~~r~~~~~~Le~~~~~~~~~----------k~----------------~~~~~~~rP~~r~~~~--~~~g~kvD 284 (730)
.++++.++|++..+++|.+..++... |+ ...|+++||+||.+.. +++|||||
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 99999999999999999988765321 11 0135678999998755 78999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccCCceEEEEecCHHHHHHHHhhhccCCCCcee-eecCCCCCCeeeCCcCCchHH
Q 004795 285 AIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQLVDTWT-VSDAPESRELIWNNLNIKFFQ 363 (730)
Q Consensus 285 ai~~~~~~l~~l~~~I~~~r~~~~~~~~~~~AFVtF~s~~~a~~a~q~~~~~~~~~~~-v~~AP~P~DIiW~NL~~~~~~ 363 (730)
+|||+++++++++++|++.|+......++++|||||+|+..||+|+|.+..+++.... ++.||+|+||+|+|+..++++
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 9999999999999999999998877777889999999999999999999888887665 999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHhhhcccchhhhc-chhHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 004795 364 RQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLKKILPFLKPVIN-ITALKTVLEAYLPQIALIVFLALLPKLLLFLS 442 (730)
Q Consensus 364 r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~~~~l~~~~p~l~~i~~-~~~~~~~i~g~lP~lil~i~~~llp~il~~ls 442 (730)
|..|++.++++.++++++|++|||+|+.++|++++++.+||++.+.+ .|++.++++|+||++++++++.++|+++++|+
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 99999999999999999999999999999999999999999999975 46899999999999999999999999999999
Q ss_pred hccCCcchhHHHHHHHhHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCcchHHHHHHHhCCcchhHHHHHHHHHHhhhhhH
Q 004795 443 KTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGGTLFKTFKSIEKDPNSIVDVLANSLPGNATFFLTYVALQFFVGYGL 522 (730)
Q Consensus 443 ~~eg~~T~S~~e~s~~~k~f~f~~~n~flv~~l~~~~~~~l~~~~~~p~~i~~~l~~~lp~~s~ffi~yii~~~~~~~~~ 522 (730)
.+||..|+|+.|+.++.|||.|+|+|.|+|+++++++.+.+.++.++|.+++.++|+++|++|+||++|+++||+++.++
T Consensus 489 ~~qG~~S~se~E~~~~~k~~~f~fv~~FlV~Tl~s~fss~v~~~~ke~~s~~~llA~~lpk~SnFfi~~iilqgl~~~~~ 568 (827)
T COG5594 489 YMQGLVSYSEEEIYVQNKYFAFLFVNLFLVVTLASSFSSIVWSLLKEPTSIMTLLANNLPKASNFFISYIILQGLSGFPG 568 (827)
T ss_pred HhcCccchHHHHHHHHhhhhhheeeeehheeeehhHHHHHHHHHhcChHhHHHHHHhccHHHHHHHHHHHHHhcccccch
Confidence 99999999999999999999999999999999999888888899999999999999999999999999999999999999
Q ss_pred HhhhHHHHHHHHHHhhhcCCCHHHH-HHhcCCCCCCCcccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhh
Q 004795 523 ELSRIVPLIIYHLKRKYLCKTEAEL-KEAWFPGDLGYGTRVPSDMLIVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQA 601 (730)
Q Consensus 523 ~Ll~~~~l~~~~~~~~~~~~T~re~-~~~~~~~~f~~~~~y~~~l~~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~l 601 (730)
+|+|+++|+...+++++.++|||++ ++...++.|+||..||+.+.+++|+++||+++|+|+.||++||++.|++|||++
T Consensus 569 ~LLqi~~Ll~~~vl~kf~~~TpR~k~nr~~~~~~f~~G~v~P~~~~l~~I~icYSiisPlILlf~~v~F~~~ylaykY~l 648 (827)
T COG5594 569 TLLQIVPLLLSLVLGKFKDSTPRQKWNRLETPPSFQFGTVLPQPILLFTITICYSIISPLILLFGAVYFILNYLAYKYNL 648 (827)
T ss_pred HHHHHHHHHHHHhhhhhcCCChHHHHhhccCCCccccccccchhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999997 556678999999999999999999999999999999999999999999999999
Q ss_pred eeeecCCcCCccccHHHHHHHHHHHHHHHHHHHHHHHhhcccc-cchhhHHHHHHHHHHHHHHHhhcccccccc
Q 004795 602 LKVYVPAYESYGRMWPHMFLRLVAALLLYQITMLGYFGSKKFI-YVGFLIPLPILSLIFVYICQKRFYKSFSDT 674 (730)
Q Consensus 602 lyvy~~~~es~G~~~~~~~~~~~~~l~i~q~~~~g~f~l~~~~-~~~~~i~l~~~t~~f~~~~~~~~~~~~~~~ 674 (730)
+|+++.++||||++||.+++|+++|+++||+||+|+|++.+++ .+.+++|++.+|++||.+|++.|.|+.++.
T Consensus 649 ~Yv~~~~~es~G~~w~~al~qiivGl~l~qv~l~glf~~~k~~~ls~~~~p~~~~Tvi~~~~~~~~f~pl~~~i 722 (827)
T COG5594 649 IYVSNHSPESGGGYWPRALFQIIVGLYLFQVCLLGLFSLAKGWGLSVLLFPLIVFTVIFHYYFKKMFDPLSKYI 722 (827)
T ss_pred hhccCCCcccCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCcceeEeehHHHHHHHHHHHHHHHHhhcccccce
Confidence 9999999999999999999999999999999999999999885 455999999999999999999999776443
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.7e-119 Score=1035.69 Aligned_cols=686 Identities=37% Similarity=0.650 Sum_probs=627.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCCCeeeccccccCCCC--CCC--CCCCCCCc-ccchHHhhcCCHHHHHHhhCch
Q 004795 6 FLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKGLD--PWE--GGSRTRNP-FTWIKEAMSSSEQDVINMSGLD 80 (730)
Q Consensus 6 ~~~sl~~~~~i~~~~~~~F~~lR~~~~~~~vY~pr~~~~~~~--p~~--~~~~~~~~-~~Wi~~~~~~~~~~i~~~~GlD 80 (730)
+..+-.++...+..++.+|.+++.+++|.++|.|++.+.+.+ |.+ ..+.+++. ++|+++++|++|+|++++||+|
T Consensus 7 ~~~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~~~~~~~~~~~~Wl~~~~k~~~~ei~~~~GlD 86 (728)
T KOG1134|consen 7 IGISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESKVEPVPSSVNFGWLPALLKIPDEEILEHAGLD 86 (728)
T ss_pred ccccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCccccCCCCCCcccccchHHHhcCCHHHHHHHhcch
Confidence 344445555666677788888888999999999999887632 221 11445666 9999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhheeeeeeecCcccccCCCCCCCCCcCcccccccccccCCCcchhhHHHHHHHHHHH
Q 004795 81 TAVYFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFV 160 (730)
Q Consensus 81 a~~flrflk~~~~if~~~~~~~~~iLlPvn~~~~~~~~~~~~~~~~~~~~~l~~ls~~Ni~~~s~~lw~h~i~~~i~~~~ 160 (730)
|++||||+++++++|+++++++++||+|||+++++.++. ..+++|++|++|++.+|+++|+|++++|+++++
T Consensus 87 a~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~--------~~~s~~~ls~snv~~~s~~lw~Hv~~~y~~~~~ 158 (728)
T KOG1134|consen 87 AYVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELG--------NEDSLDKLSISNVQPGSSLLWAHVFFTYLFTFF 158 (728)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCccccc--------ccchhhhhhheeccCCCCCEEEEeehhHHHHHH
Confidence 999999999999999999999999999999999988632 112799999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHHHHHH
Q 004795 161 TYFLLWRGYKHVSELRADALMSPEVRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEE 240 (730)
Q Consensus 161 ~~~~l~~e~~~~~~~R~~~l~s~~~~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~L~~~ 240 (730)
+|+++++||++++.+|+++++++..++++.|++++|+|. ..+.+.....+++|+..+|+++.++.+++|..++.++.++
T Consensus 159 ~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~-~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 237 (728)
T KOG1134|consen 159 TLFILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPP-PDGVSVSVIVRHFFSLNHPVKVRSHQVVYNESKLSKLLSK 237 (728)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccC-CCCCchhhHHhhhhhccCCceeehhHHHhhHHHHHHHHHH
Confidence 999999999999999999999999889999999999993 3334667788888888899999999999999999999999
Q ss_pred HHHHH-HHHHHHHHHHhhhccCCCCCCCCCcccccccCCCCccccHHHHHHHHHHHHHHHHHHHHHhhhcccCCceEEEE
Q 004795 241 LEGYK-KKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVF 319 (730)
Q Consensus 241 r~~~~-~~Le~~~~~~~~~k~~~~~~~~rP~~r~~~~~~~g~kvDai~~~~~~l~~l~~~I~~~r~~~~~~~~~~~AFVt 319 (730)
+++.. +++.....+.. ..+. +||++|.++||++|+||||||||++|+++++++|+++|+...++++.+.||||
T Consensus 238 ~~k~~~~~l~~~~~~~~-----~~~~-~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~~~~~~~~~~~~~~aFVt 311 (728)
T KOG1134|consen 238 LKKLRENKLYKEHKRLK-----SNPK-KRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEELRESLYEEKPLPAAFVT 311 (728)
T ss_pred HHHHhHHHHHHhhhhhc-----cccc-cCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEE
Confidence 99884 33333322221 1122 79999999999999999999999999999999999999998777889999999
Q ss_pred ecCHHHHHHHHhhhccCCCCceeeecCCCCCCeeeCCcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHh
Q 004795 320 FTSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLK 399 (730)
Q Consensus 320 F~s~~~a~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~~~~l~ 399 (730)
|+|+.+|+.|+|..++.++.+|.++.||||+||.|+|+..+..+|+.|+++++++.+++++||++|+++|++++|+++|+
T Consensus 312 f~sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~li~f~~iPva~V~~l~nl~~l~ 391 (728)
T KOG1134|consen 312 FKSRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFLLLFFWIIPVAFVQALTNLEGLS 391 (728)
T ss_pred EEeeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccchhhhcchhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhccCCcchhHHHHHHHhHHHHHHHHHHHHHHhhhhhH
Q 004795 400 KILPFLKPVINITALKTVLEAYLPQIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGGTL 479 (730)
Q Consensus 400 ~~~p~l~~i~~~~~~~~~i~g~lP~lil~i~~~llp~il~~ls~~eg~~T~S~~e~s~~~k~f~f~~~n~flv~~l~~~~ 479 (730)
+.+||++++.+.++++++++|+||++++.+++.++|.++++++++|||.|+|++|++.+.|+|+|+++|+|++++++|++
T Consensus 392 ~~~Pflk~i~~~~~i~~vI~gfLP~l~l~~~~~~lP~~l~~ls~~eG~~s~S~~e~~a~~k~~~F~~~nvFl~~~l~~sa 471 (728)
T KOG1134|consen 392 KVFPFLKPILEMKFISSVITGFLPTLALVIFLALLPPFLRYLSKLEGLISRSEEERSALNKYYIFLLVNVFLVVTLSGSA 471 (728)
T ss_pred hccchhhhhhhcchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHhHHHHHHhhhHHHhhhhHHH
Confidence 99999999998899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCcchHHHHHHHhCCcchhHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHhhhcCCCHHHHHHhcCC-CCCCC
Q 004795 480 FKTFKSIEKDPNSIVDVLANSLPGNATFFLTYVALQFFVGYGLELSRIVPLIIYHLKRKYLCKTEAELKEAWFP-GDLGY 558 (730)
Q Consensus 480 ~~~l~~~~~~p~~i~~~l~~~lp~~s~ffi~yii~~~~~~~~~~Ll~~~~l~~~~~~~~~~~~T~re~~~~~~~-~~f~~ 558 (730)
++.+..++++|.+++..+|.++|++++||++|++++|++|.+++++|+.||+++++++.+..+|||++++.+++ +.+++
T Consensus 472 ~~~~~~~l~~p~~i~~~la~~lP~~a~Ff~~yii~~g~~g~~~ellrl~~Li~~~i~~~~~~~t~~~~~e~~~p~~~~~~ 551 (728)
T KOG1134|consen 472 LRQLLSILSTPRLIPKLLAAALPKQASFFITYIITSGWAGFAGELLRLVPLIIYLLKKLFLKSTPRDREERYEPLSSFYF 551 (728)
T ss_pred HHHHHHHhcCHhHHHHHHhhhChhhHHHHHHHHHHhccchhhHHHhcchhHHHHHHHHHHcccchhhhhhhcCCccccch
Confidence 99999999899999999999999999999999999999999999999999999999999999999999999988 88999
Q ss_pred cccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhheeeecCCcCCccccHHHHHHHHHHHHHHHHHHHHHHH
Q 004795 559 GTRVPSDMLIVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQALKVYVPAYESYGRMWPHMFLRLVAALLLYQITMLGYF 638 (730)
Q Consensus 559 ~~~y~~~l~~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~llyvy~~~~es~G~~~~~~~~~~~~~l~i~q~~~~g~f 638 (730)
|..||+.+++++||++||+++|+|+|||++||+++|+|||||++|||.++|||||++||.+++++++|+++||++|+|+|
T Consensus 552 g~~yP~~~~~f~i~i~YsviaPlILpF~lvyF~l~y~vyr~ql~yvy~~~yes~g~~wp~ih~~ii~~l~l~ql~l~gl~ 631 (728)
T KOG1134|consen 552 GTIYPRILLIFTIGICYSVIAPLILPFGLVYFCLAYLVYRYQLIYVYNQKYESGGRFWPDIHRRIIFGLILFQLILFGLF 631 (728)
T ss_pred hhhccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhhheeecccccccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccc-cchhhHHHHHHHHHHHHHHHhhccccccccchHHHhhhcccC----CC----ccccccccCCCCCCCCCC
Q 004795 639 GSKKFI-YVGFLIPLPILSLIFVYICQKRFYKSFSDTALEVASRELKET----PS----MEHIFRSYIPLSLNSEKL 706 (730)
Q Consensus 639 ~l~~~~-~~~~~i~l~~~t~~f~~~~~~~~~~~~~~~pl~~~~~~~~~~----~~----~~~~~~~y~~p~l~~~~~ 706 (730)
++|+.+ .+.+++|++++|+++|.+|+.+|.|.+.++|++++..+|..+ ++ .+...++|.||++.+..+
T Consensus 632 ~~k~~~~~s~~~~~l~~lTi~~~~~c~~rf~p~f~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~ 708 (728)
T KOG1134|consen 632 SLKKGAVASVLLFPLIVLTILFHIYCKGRFLPLFIAYPIEEAEVDDTLDEEREPNMENLYNYLKSAYVLPVFLSGSD 708 (728)
T ss_pred HhccccccchHHHHHHHHHHHHHHHHhhhccccccccchhhhhhccCCccccCCChhhccccccccccCcccccccc
Confidence 999985 455999999999999999999999999999999999776432 22 245889999999987663
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=1.3e-66 Score=561.31 Aligned_cols=323 Identities=42% Similarity=0.742 Sum_probs=313.9
Q ss_pred EEEEecCHHHHHHHHhhhccCCCCceeeecCCCCCCeeeCCcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhch
Q 004795 316 ALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESRELIWNNLNIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTL 395 (730)
Q Consensus 316 AFVtF~s~~~a~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~~ 395 (730)
|||||+++++|+.|+|..++++|.+|++++||||+||+|+||+.+..+|..|++++++++++++++|++|++++++++|+
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 hhHhhhcccchhhh-cchhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhccCCcchhHHHHHHHhHHHHHHHHHHHHHHh
Q 004795 396 DNLKKILPFLKPVI-NITALKTVLEAYLPQIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVT 474 (730)
Q Consensus 396 ~~l~~~~p~l~~i~-~~~~~~~~i~g~lP~lil~i~~~llp~il~~ls~~eg~~T~S~~e~s~~~k~f~f~~~n~flv~~ 474 (730)
+++++..|+++++. .++...++++|++|+++++++|.++|.++++++++|||.|+|+.|+++++|+|+||++|++++++
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 99999999999985 45678899999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHhcCcchHHHHHHHhCCcchhHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHhhhcCCCHHHHHHhc-CC
Q 004795 475 VGGTLFKTFKSIEKDPNSIVDVLANSLPGNATFFLTYVALQFFVGYGLELSRIVPLIIYHLKRKYLCKTEAELKEAW-FP 553 (730)
Q Consensus 475 l~~~~~~~l~~~~~~p~~i~~~l~~~lp~~s~ffi~yii~~~~~~~~~~Ll~~~~l~~~~~~~~~~~~T~re~~~~~-~~ 553 (730)
+++++++.+.++.++|+++.+.+|+++|++++||++|++++++.+.+++|+|+.+++++.+++++..+||||+++.+ ++
T Consensus 161 l~~~~~~~~~~~~~~~~~i~~~l~~~lp~~s~ffi~~ii~~~~~~~~~~Ll~~~~l~~~~~~~~~~~~t~r~~~~~~~~~ 240 (325)
T PF02714_consen 161 LAGTILSALKNIINNPGSILQLLGNFLPNSSNFFINYIILQAFIGSPLELLRPPPLIIYYIRRKFFSKTPRELNELYTEP 240 (325)
T ss_pred hhHHHHHHHHHHHhCcchHHHHHHHHhhhhhHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhcCCC
Confidence 99999999999999999999999999999999999999999999999999999999988888777779999999988 99
Q ss_pred CCCCCcccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhheeeecCCcCCccccHHHHHHHHHHHHHHHHHH
Q 004795 554 GDLGYGTRVPSDMLIVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQALKVYVPAYESYGRMWPHMFLRLVAALLLYQIT 633 (730)
Q Consensus 554 ~~f~~~~~y~~~l~~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~llyvy~~~~es~G~~~~~~~~~~~~~l~i~q~~ 633 (730)
++|+||..||+.+++++|+++||+++|+++|+|++||++.|++||||++|||++++||||++||.+++++++|++++|++
T Consensus 241 ~~f~~~~~ya~~l~v~~i~l~ys~i~Plil~~~~~yf~l~y~v~ky~llyvy~~~~es~G~~~~~~~~~~~~~l~i~q~~ 320 (325)
T PF02714_consen 241 PPFDYGYQYAQMLLVFFIGLFYSPIAPLILPFGLVYFLLKYFVDKYNLLYVYRPKYESGGRLWPTAFNRLLFGLVIFQFT 320 (325)
T ss_pred CCCcchHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhheeeeccCCCCCCchHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHH
Q 004795 634 MLGYF 638 (730)
Q Consensus 634 ~~g~f 638 (730)
|+|+|
T Consensus 321 ~~g~f 325 (325)
T PF02714_consen 321 MIGLF 325 (325)
T ss_pred HHHhC
Confidence 99986
No 4
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=4.1e-34 Score=274.40 Aligned_cols=156 Identities=35% Similarity=0.619 Sum_probs=137.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCCCCCeeeccccccCC-CCCCCCCCCCCCcccchHHhhcCCHHHHHHhhCchhHH
Q 004795 5 SFLTSLGTSFIIFVVLMCLFAWLSSKPGNTVVYYPNRILKG-LDPWEGGSRTRNPFTWIKEAMSSSEQDVINMSGLDTAV 83 (730)
Q Consensus 5 ~~~~sl~~~~~i~~~~~~~F~~lR~~~~~~~vY~pr~~~~~-~~p~~~~~~~~~~~~Wi~~~~~~~~~~i~~~~GlDa~~ 83 (730)
+|++++++|++++++++++|+++|+| ++++|+||...++ +.+...++.++|+|+|++++++++|+|++++||+||++
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 5899999998753 11111114558999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhheeeeeeecCcccccCCCCCCCCCcCcccccccccccCCCcchhhHHHHHHHHHHHHHH
Q 004795 84 YFVFMSTVLGIFALSGIILLPALLPVAATDDSIQAAGKNTTSIGTFNDLDKLSMGNITAKSSRLWAFLVATYWVSFVTYF 163 (730)
Q Consensus 84 flrflk~~~~if~~~~~~~~~iLlPvn~~~~~~~~~~~~~~~~~~~~~l~~ls~~Ni~~~s~~lw~h~i~~~i~~~~~~~ 163 (730)
|+||+|+++++|+++++++++||+|+|++|++..+.. ...++++++|++|++++++++|+|++++|++++++++
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 9999999999999999999999999999998875221 1127999999999999999999999999999999999
Q ss_pred HHHHH
Q 004795 164 LLWRG 168 (730)
Q Consensus 164 ~l~~e 168 (730)
++++|
T Consensus 153 ~l~~E 157 (157)
T PF13967_consen 153 LLWRE 157 (157)
T ss_pred hheeC
Confidence 99986
No 5
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.11 E-value=1.3e-10 Score=99.50 Aligned_cols=71 Identities=41% Similarity=0.701 Sum_probs=58.2
Q ss_pred EecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccC---CCC----------CCCCCcccccccCCCC-ccccHHHHHHHH
Q 004795 227 VVTNNKEANKIYEELEGYKKKLARAEAVYAESKSA---GKP----------EGTRPTIKTGFLGLLG-KRVDAIEYYNEK 292 (730)
Q Consensus 227 i~~d~~~l~~L~~~r~~~~~~Le~~~~~~~~~k~~---~~~----------~~~rP~~r~~~~~~~g-~kvDai~~~~~~ 292 (730)
+|||+++|++|+++|++++++||.++++|.+..++ ..+ ...||.++.+++|++| +|||||+||++|
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 58999999999999999999999999998654321 001 1246677779999998 999999999999
Q ss_pred HHHHH
Q 004795 293 IKEII 297 (730)
Q Consensus 293 l~~l~ 297 (730)
+++||
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=98.99 E-value=2e-07 Score=105.39 Aligned_cols=262 Identities=16% Similarity=0.175 Sum_probs=158.5
Q ss_pred CcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHhhhcccchhhhc---chhHHHHHHhHHHHHHHHHHHH
Q 004795 356 NLNIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLKKILPFLKPVIN---ITALKTVLEAYLPQIALIVFLA 432 (730)
Q Consensus 356 NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~~~~l~~~~p~l~~i~~---~~~~~~~i~g~lP~lil~i~~~ 432 (730)
+...+.++|..|..++..++++++... ++++.++..++.. +....+ .....+++.+++-++++.++|.
T Consensus 109 ~~~~p~~~r~~r~~~s~~ivl~~i~i~---~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~vl~~v~i~il~~ 179 (452)
T PF04547_consen 109 EPYYPPWKRILRYLVSVPIVLLFILIV---IGIVIGVFYLRIY------LTEIYSGPGKQFLASLIPTVLNAVVILILNF 179 (452)
T ss_pred ccCCcHHHHhhhhhhhHHHHHHHHHHH---HHHHHHHHHHHHH------HHHHhcccchhHHHHHHHHHHHHHHHHhhhh
Confidence 445677788888866655544433221 2222222222211 111111 1123344445555555566677
Q ss_pred HHHHHHHHHHhccCCcchhHHHHHHHhHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCcchHHHHHHHhCCcchhHHHHHH
Q 004795 433 LLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGGTLFKTFKSIEKDPNSIVDVLANSLPGNATFFLTYV 512 (730)
Q Consensus 433 llp~il~~ls~~eg~~T~S~~e~s~~~k~f~f~~~n~flv~~l~~~~~~~l~~~~~~p~~i~~~l~~~lp~~s~ffi~yi 512 (730)
+...+...+.++|.|.|.|+.|.|...|.|.|+++|.+...... +.+....+.-=+| +.. . -+.-+...+
T Consensus 180 iy~~~a~~Lt~~EnhrT~~~ye~sli~K~F~f~fvn~y~~Lfyi-aF~~~~~~~~~~~-~~~-~-------L~~ql~~~~ 249 (452)
T PF04547_consen 180 IYRKLAKKLTDWENHRTESEYENSLIIKVFLFQFVNSYAPLFYI-AFFYGVRQEECQP-CLS-R-------LRIQLFTIM 249 (452)
T ss_pred HHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhcccccCC-CHH-H-------HHHHHHHHH
Confidence 77788889999999999999999999999999999999754432 2221100000011 111 1 122344444
Q ss_pred HHHHhhhhhHHhhhHHHHHHHHHHhh-hcCC---CH--------------HHHHHhcCCCCCCCc---ccchhHHHHHHH
Q 004795 513 ALQFFVGYGLELSRIVPLIIYHLKRK-YLCK---TE--------------AELKEAWFPGDLGYG---TRVPSDMLIVTI 571 (730)
Q Consensus 513 i~~~~~~~~~~Ll~~~~l~~~~~~~~-~~~~---T~--------------re~~~~~~~~~f~~~---~~y~~~l~~~~i 571 (730)
+++-+.+...|.. .|.+....+++ ...+ ++ .+.++-...++++-. ..|..+..-+..
T Consensus 250 ~~~qi~~~~~e~~--~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~y~~~g~~~dY~emviQFGy 327 (452)
T PF04547_consen 250 VTKQIINNLLEVV--LPYLKKRYRRKKIRKKQRKKQQDERQENEEENQFLQQWEKEYELPPYDPDGLFDDYLEMVIQFGY 327 (452)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHhhhhhcccccccccccccchHHHHHHHhcCCCCCcCCchHHHHHHHHHHHH
Confidence 5554455555543 45555444332 1111 10 001112344555543 889999999999
Q ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHhhheeeecCCc---CCccccHHHHHHHHHHHHHHHHHHHHHHH
Q 004795 572 VFCYSCIAPLIIPFGVVYFALGWLILRNQALKVYVPAY---ESYGRMWPHMFLRLVAALLLYQITMLGYF 638 (730)
Q Consensus 572 ~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~llyvy~~~~---es~G~~~~~~~~~~~~~l~i~q~~~~g~f 638 (730)
...|+++.|+...++++.-.+-.-+|++.+++.+++|. .++=..|-.++.-+...-++....++++-
T Consensus 328 v~lF~~afPlapl~allnN~~eir~D~~Kl~~~~rRP~p~~~~~IG~W~~il~~i~~lav~tN~~li~~~ 397 (452)
T PF04547_consen 328 VTLFSAAFPLAPLFALLNNIVEIRLDAFKLLYLYRRPVPRRASSIGIWNNILEIISWLAVITNAALIAFT 397 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhCCCCcccccchhhhHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999997553 22224799988888777777666666554
No 7
>KOG2513 consensus Protein required for meiotic chromosome segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=97.75 E-value=0.018 Score=64.70 Aligned_cols=249 Identities=18% Similarity=0.256 Sum_probs=141.2
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHhhhcccchhhhcchhHHHHHHhHHHHHHHHHHHHHHHHH
Q 004795 358 NIKFFQRQIRQYVVYVIVALTIMFYMIPIGLISALTTLDNLKKILPFLKPVINITALKTVLEAYLPQIALIVFLALLPKL 437 (730)
Q Consensus 358 ~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~~~~l~~~~p~l~~i~~~~~~~~~i~g~lP~lil~i~~~llp~i 437 (730)
..+.|+|.+|+.++.+-++++++....++.+...- ++. |.......| +.+ +-.++|++++.++..++..+
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 45668899999988888877776666665554432 221 111112223 222 34578988888877766655
Q ss_pred HHH----HHhccCCcchhHHHHHHHhHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCcchHHHHHHHhCCcchhHHHHHHH
Q 004795 438 LLF----LSKTEGIPAVSHAVRAASGKYFYFTVLNVFIGVTVGGTLFKTFKSIEKDPNSIVDVLANSLPGNATFFLTYVA 513 (730)
Q Consensus 438 l~~----ls~~eg~~T~S~~e~s~~~k~f~f~~~n~flv~~l~~~~~~~l~~~~~~p~~i~~~l~~~lp~~s~ffi~yii 513 (730)
-++ |.++|.|.|+|..+++...|.+.|+|+|.++-....+-.. .|-...-..++..+-.. -++
T Consensus 330 Y~k~Ae~Lt~~EN~r~~s~y~~hli~K~~lf~f~nsy~sLFyi~f~l-------~d~~~Lk~~l~~~li~s------Q~l 396 (647)
T KOG2513|consen 330 YKKLAEFLTKLENHRLESAYQKHLIAKVFLFNFVNSYLSLFYIAFLL-------RDMELLKQQLATLLITS------QSL 396 (647)
T ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------ccHHHHHHHHHHHHHHH------HHH
Confidence 555 4589999999999999999999999999987443332111 11111112222211100 000
Q ss_pred HHHhhhhhHHhhhHHHHHHH---------HHH-hhhc---CCCHHHHH---------------Hhc--------CC--CC
Q 004795 514 LQFFVGYGLELSRIVPLIIY---------HLK-RKYL---CKTEAELK---------------EAW--------FP--GD 555 (730)
Q Consensus 514 ~~~~~~~~~~Ll~~~~l~~~---------~~~-~~~~---~~T~re~~---------------~~~--------~~--~~ 555 (730)
.+ .++... |.+.. .++ +.+. ..++.+.. +.+ +. .+
T Consensus 397 ~~-----~~e~~~--p~f~~~~~r~~~~~~f~t~~~ae~~~s~~~~i~~~~~~~~~~s~~~~a~~~~~~~qa~~E~~~~~ 469 (647)
T KOG2513|consen 397 LN-----LMEIAL--PYFKIRTKRYENYIRFRTKSFAEELASAQAKIDGESPGFPAPSREPEAQLFPSLKQAELESGLAE 469 (647)
T ss_pred HH-----HHhhcc--hHHHHhhhhhhhhhhHHHHHHHHhhccchhhhcccccCCCCcccccchhhcccchhhhhcchhhh
Confidence 00 011000 00000 000 0000 00111111 000 11 11
Q ss_pred CC-CcccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhheeeecCCc----CCccccHHHHHHHHHHHHHHH
Q 004795 556 LG-YGTRVPSDMLIVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQALKVYVPAY----ESYGRMWPHMFLRLVAALLLY 630 (730)
Q Consensus 556 f~-~~~~y~~~l~~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~llyvy~~~~----es~G~~~~~~~~~~~~~l~i~ 630 (730)
+| --..|=.+.+-|-....||++.|+-..+|++-=.+.+=+|-+.+..+.++|. ++-| .|..++..+-+--++.
T Consensus 470 ydgtf~Dylel~lQFGyvVlFS~~~PLA~~~aLvnNv~eirsda~Kl~~~~krPfp~r~~~IG-~Wq~~l~~lSvls~vt 548 (647)
T KOG2513|consen 470 YDGTFDDYLELLLQFGYVVLFSCAFPLAAIFALVNNVIEIRSDALKLCLVLKRPFPRRVANIG-AWQNALELLSVLSCVT 548 (647)
T ss_pred hcchhHHHHHHHHHhhHHHHHHhHhhHHHHHHHHHHHhhhhHHHHHHHHhcCCCCcchhhhhH-HHHHHHHHHHHHHHHH
Confidence 22 2233556778888899999999999999999999999999999999998764 4555 4888776665544444
Q ss_pred HHHHHHH
Q 004795 631 QITMLGY 637 (730)
Q Consensus 631 q~~~~g~ 637 (730)
...++|+
T Consensus 549 ncaLi~~ 555 (647)
T KOG2513|consen 549 NCALIGM 555 (647)
T ss_pred hHHHHhc
Confidence 4444443
No 8
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=96.72 E-value=0.0036 Score=67.90 Aligned_cols=40 Identities=13% Similarity=0.236 Sum_probs=34.6
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCc
Q 004795 186 RPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (730)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (730)
..+..||.|.|||.+++ +++|+++|+++ +.|++|.++.|.
T Consensus 104 ~~~~~~LfVgnLp~~~t----e~~L~~lF~~~--G~V~~v~i~~d~ 143 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMT----DRELYALFRTI--GPINTCRIMRDY 143 (346)
T ss_pred CCCCcEEEEeCCCCCCC----HHHHHHHHHhc--CCEEEEEEEecC
Confidence 35789999999999987 79999999987 569999998774
No 9
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=95.92 E-value=0.052 Score=51.25 Aligned_cols=36 Identities=8% Similarity=0.098 Sum_probs=30.3
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
...+|.|.|||.+.+ +++|+++|+++ |.|.++.++.
T Consensus 33 ~~~~lfVgnL~~~~t----e~~L~~~F~~~--G~I~~v~i~~ 68 (144)
T PLN03134 33 MSTKLFIGGLSWGTD----DASLRDAFAHF--GDVVDAKVIV 68 (144)
T ss_pred CCCEEEEeCCCCCCC----HHHHHHHHhcC--CCeEEEEEEe
Confidence 467899999999886 79999999987 6788887764
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=95.49 E-value=0.087 Score=57.43 Aligned_cols=100 Identities=22% Similarity=0.268 Sum_probs=73.2
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCC
Q 004795 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTR 268 (730)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~L~~~r~~~~~~Le~~~~~~~~~k~~~~~~~~r 268 (730)
..+|+|.|||.++. +++|+++|+++ |.|.+|.+++|-.
T Consensus 3 ~~~l~V~nLp~~~~----e~~l~~~F~~~--G~i~~v~i~~d~~------------------------------------ 40 (352)
T TIGR01661 3 KTNLIVNYLPQTMT----QEEIRSLFTSI--GEIESCKLVRDKV------------------------------------ 40 (352)
T ss_pred CcEEEEeCCCCCCC----HHHHHHHHHcc--CCEEEEEEEEcCC------------------------------------
Confidence 56899999999987 79999999997 6899988876421
Q ss_pred CcccccccCCCCccccHHHHHHHHHHHHHHHHHHHHHhhhcccCCceEEEEecCHHHHHHHHhhhccCC--CCceeeecC
Q 004795 269 PTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA 346 (730)
Q Consensus 269 P~~r~~~~~~~g~kvDai~~~~~~l~~l~~~I~~~r~~~~~~~~~~~AFVtF~s~~~a~~a~q~~~~~~--~~~~~v~~A 346 (730)
..+..|+|||+|.+.++|..|.+.+.... ...+.++.|
T Consensus 41 ----------------------------------------~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 41 ----------------------------------------TGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred ----------------------------------------CCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence 01244799999999999999998765542 334555554
Q ss_pred C------CCCCeeeCCcCCchHHHHHHHHH
Q 004795 347 P------ESRELIWNNLNIKFFQRQIRQYV 370 (730)
Q Consensus 347 P------~P~DIiW~NL~~~~~~r~~R~~~ 370 (730)
- ....|.-.||..+..+..++.++
T Consensus 81 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f 110 (352)
T TIGR01661 81 RPSSDSIKGANLYVSGLPKTMTQHELESIF 110 (352)
T ss_pred cccccccccceEEECCccccCCHHHHHHHH
Confidence 2 23357778888777666666654
No 11
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=95.43 E-value=0.048 Score=58.45 Aligned_cols=135 Identities=17% Similarity=0.306 Sum_probs=73.8
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHH------HHHHHHHHHHHHHHHHHHHhhhccC
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKSA 261 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~------L~~~r~~~~~~Le~~~~~~~~~k~~ 261 (730)
+.--+.|-.||+... +.+|+++||++ |.|.+|.+.+|-..=.. ....||++.+ +...+...|.-
T Consensus 33 ~~vKlfVgqIprt~s----E~dlr~lFe~y--g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~----a~~Alhn~ktl 102 (510)
T KOG0144|consen 33 SAVKLFVGQIPRTAS----EKDLRELFEKY--GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADE----AINALHNQKTL 102 (510)
T ss_pred hhhhheeccCCcccc----HHHHHHHHHHh--CceeEEEeecccccCcccceEEEEeccHHHHHH----HHHHhhccccc
Confidence 344577889999876 78999999999 78999999887422100 0111222211 11111111100
Q ss_pred -----------CCCCCCC-CcccccccCCCCccccHHHHHHHHHHHHHHH---HHHHHHhh-hcccCCceEEEEecCHHH
Q 004795 262 -----------GKPEGTR-PTIKTGFLGLLGKRVDAIEYYNEKIKEIIPK---LEAEQKIT-LKEKQLGAALVFFTSRVA 325 (730)
Q Consensus 262 -----------~~~~~~r-P~~r~~~~~~~g~kvDai~~~~~~l~~l~~~---I~~~r~~~-~~~~~~~~AFVtF~s~~~ 325 (730)
.+.+.+| +..+.-|.|+..|+.. +++++++-.+ |++.+-.. ......|+|||+|.+.+.
T Consensus 103 pG~~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~t-----e~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~ 177 (510)
T KOG0144|consen 103 PGMHHPVQVKYADGERERIVEERKLFVGMLSKQCT-----ENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEM 177 (510)
T ss_pred CCCCcceeecccchhhhccccchhhhhhhcccccc-----HHHHHHHHHhhCccchhhheecccccccceeEEEEehHHH
Confidence 0011111 1112224455555542 3445555443 33322111 134568999999999999
Q ss_pred HHHHHhhhccCC
Q 004795 326 AASAAQSLHAQL 337 (730)
Q Consensus 326 a~~a~q~~~~~~ 337 (730)
|..|...++...
T Consensus 178 A~~Aika~ng~~ 189 (510)
T KOG0144|consen 178 AVAAIKALNGTQ 189 (510)
T ss_pred HHHHHHhhccce
Confidence 999999887654
No 12
>PLN03120 nucleic acid binding protein; Provisional
Probab=95.19 E-value=0.12 Score=52.90 Aligned_cols=34 Identities=9% Similarity=0.073 Sum_probs=29.5
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEe
Q 004795 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (730)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (730)
.+||.|.|||.+.+ +++|++||+.+ |.|+++.+.
T Consensus 4 ~rtVfVgNLs~~tT----E~dLrefFS~~--G~I~~V~I~ 37 (260)
T PLN03120 4 VRTVKVSNVSLKAT----ERDIKEFFSFS--GDIEYVEMQ 37 (260)
T ss_pred CCEEEEeCCCCCCC----HHHHHHHHHhc--CCeEEEEEe
Confidence 58999999999876 79999999887 788888765
No 13
>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=95.14 E-value=0.075 Score=42.64 Aligned_cols=32 Identities=19% Similarity=0.345 Sum_probs=25.7
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
|.|.|||.+.. +++|+++|+++ |.+..+.+..
T Consensus 1 l~v~nlp~~~t----~~~l~~~f~~~--g~i~~~~~~~ 32 (70)
T PF00076_consen 1 LYVGNLPPDVT----EEELRDFFSQF--GKIESIKVMR 32 (70)
T ss_dssp EEEESETTTSS----HHHHHHHHHTT--STEEEEEEEE
T ss_pred cEEcCCCCcCC----HHHHHHHHHHh--hhcccccccc
Confidence 67999999887 79999999986 5677666554
No 14
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=94.95 E-value=0.069 Score=62.32 Aligned_cols=170 Identities=18% Similarity=0.210 Sum_probs=86.7
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHH------HHHHHHHHHHHHHHHHHHHhhhccCCC-
Q 004795 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANK------IYEELEGYKKKLARAEAVYAESKSAGK- 263 (730)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~------L~~~r~~~~~~Le~~~~~~~~~k~~~~- 263 (730)
||.|.|||.+.. ++.|+++|+++ |.|.+|.+++|...=.. -....+.+.+.++.........+.-+.
T Consensus 2 sl~VgnLp~~vt----e~~L~~~F~~~--G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~ 75 (562)
T TIGR01628 2 SLYVGDLDPDVT----EAKLYDLFKPF--GPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIM 75 (562)
T ss_pred eEEEeCCCCCCC----HHHHHHHHHhc--CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEee
Confidence 799999999986 79999999998 67999999987541000 012333444433332111000000000
Q ss_pred CCCCCCccc-cc----ccCCCCccccHHHHHHHHHHHHHHH---HHHHHHhh-hcccCCceEEEEecCHHHHHHHHhhhc
Q 004795 264 PEGTRPTIK-TG----FLGLLGKRVDAIEYYNEKIKEIIPK---LEAEQKIT-LKEKQLGAALVFFTSRVAAASAAQSLH 334 (730)
Q Consensus 264 ~~~~rP~~r-~~----~~~~~g~kvDai~~~~~~l~~l~~~---I~~~r~~~-~~~~~~~~AFVtF~s~~~a~~a~q~~~ 334 (730)
.....|..+ .+ +.+-..+.+|. +++.++-++ |...+-.. ...+..|.|||.|.+.++|..|.+.+.
T Consensus 76 ~s~~~~~~~~~~~~~vfV~nLp~~~~~-----~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~ln 150 (562)
T TIGR01628 76 WSQRDPSLRRSGVGNIFVKNLDKSVDN-----KALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVN 150 (562)
T ss_pred cccccccccccCCCceEEcCCCccCCH-----HHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhc
Confidence 000111111 11 11101123321 223222222 11111000 122457899999999999999998764
Q ss_pred cCC--CCceeee-----------cCCCCCCeeeCCcCCchHHHHHHHHHH
Q 004795 335 AQL--VDTWTVS-----------DAPESRELIWNNLNIKFFQRQIRQYVV 371 (730)
Q Consensus 335 ~~~--~~~~~v~-----------~AP~P~DIiW~NL~~~~~~r~~R~~~~ 371 (730)
... .....+. ..+....|.-.||..+..+..++.++.
T Consensus 151 g~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~ 200 (562)
T TIGR01628 151 GMLLNDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFA 200 (562)
T ss_pred ccEecCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHH
Confidence 321 1122211 223345588889988877777776554
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=94.31 E-value=0.12 Score=59.49 Aligned_cols=39 Identities=13% Similarity=0.251 Sum_probs=33.6
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCch
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (730)
...+|.|.|||.++. +++|++.|+++ |.|.++.+.+|..
T Consensus 57 ~~~~lFVgnLp~~~t----Ed~L~~~F~~~--G~I~~vrl~~D~s 95 (578)
T TIGR01648 57 RGCEVFVGKIPRDLY----EDELVPLFEKA--GPIYELRLMMDFS 95 (578)
T ss_pred CCCEEEeCCCCCCCC----HHHHHHHHHhh--CCEEEEEEEECCC
Confidence 468999999999886 79999999998 6899999988743
No 16
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=94.03 E-value=0.22 Score=54.19 Aligned_cols=36 Identities=8% Similarity=0.211 Sum_probs=30.1
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
.++|.|.|||.+.. ++.|+++|+++ |.|.++.+++|
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 45799999998865 79999999987 67888888753
No 17
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=93.72 E-value=0.23 Score=49.72 Aligned_cols=37 Identities=14% Similarity=0.345 Sum_probs=30.1
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
..-||.|+|+|.+.+ ++.|++.|..+ |.+.++.+++|
T Consensus 188 D~~tvRvtNLsed~~----E~dL~eLf~~f--g~i~rvylard 224 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMR----EDDLEELFRPF--GPITRVYLARD 224 (270)
T ss_pred ccceeEEecCccccC----hhHHHHHhhcc--CccceeEEEEc
Confidence 467999999999987 67888888877 56888887753
No 18
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=93.69 E-value=0.36 Score=42.11 Aligned_cols=26 Identities=35% Similarity=0.353 Sum_probs=21.7
Q ss_pred cCCceEEEEecCHHHHHHHHhhhccC
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~~~ 336 (730)
...|+|||-|.+.++|....+..+..
T Consensus 43 ~N~GYAFVNf~~~~~~~~F~~~f~g~ 68 (97)
T PF04059_consen 43 CNLGYAFVNFTSPQAAIRFYKAFNGK 68 (97)
T ss_pred CceEEEEEEcCCHHHHHHHHHHHcCC
Confidence 35799999999999999988876643
No 19
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=93.51 E-value=0.19 Score=50.11 Aligned_cols=33 Identities=24% Similarity=0.416 Sum_probs=26.7
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
-|.|-|+|=+.. ++.|++|||++ |+|++..++-
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 488999998776 68999999998 6777766663
No 20
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=92.45 E-value=0.64 Score=48.55 Aligned_cols=37 Identities=11% Similarity=0.185 Sum_probs=32.2
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
..+-+.|+|||-..|| .+|+..|+++ |.|.+|.|+.|
T Consensus 95 ~pkRLhVSNIPFrFRd----pDL~aMF~kf--G~VldVEIIfN 131 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRD----PDLRAMFEKF--GKVLDVEIIFN 131 (376)
T ss_pred CCceeEeecCCccccC----ccHHHHHHhh--CceeeEEEEec
Confidence 4577999999999995 7799999998 78999999874
No 21
>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=91.33 E-value=1.4 Score=51.45 Aligned_cols=39 Identities=10% Similarity=0.230 Sum_probs=31.7
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCc
Q 004795 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (730)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (730)
....+|.|+|+|.+.. +++|+++|+++ |.|.++.+..|.
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 3456899999999886 78999999987 678888877653
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=91.13 E-value=0.92 Score=52.46 Aligned_cols=39 Identities=23% Similarity=0.150 Sum_probs=30.0
Q ss_pred CCceEEEEecCHHHHHHHHhhhccC--CCCceeeecCCCCC
Q 004795 312 QLGAALVFFTSRVAAASAAQSLHAQ--LVDTWTVSDAPESR 350 (730)
Q Consensus 312 ~~~~AFVtF~s~~~a~~a~q~~~~~--~~~~~~v~~AP~P~ 350 (730)
..+.|||.|++.++|..|.+.+... ....++|..|..++
T Consensus 268 ~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~ 308 (578)
T TIGR01648 268 IRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVD 308 (578)
T ss_pred ecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCC
Confidence 4579999999999999999877654 34467788875543
No 23
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=91.05 E-value=0.44 Score=48.42 Aligned_cols=114 Identities=20% Similarity=0.317 Sum_probs=66.0
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCC-CC
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKP-EG 266 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~L~~~r~~~~~~Le~~~~~~~~~k~~~~~-~~ 266 (730)
.-||+.|-|+..+.. ++-|...|.++ |.|.++.+++|. +....+ ..| ..
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--GSVTKTKVIFDE----------------LKVNWA--------TAPGNQ 54 (321)
T ss_pred CCceEEeeccChhhH----HHHHHHHHHhc--cccccceeehhh----------------hccccc--------cCcccC
Confidence 368999999998876 67788899988 678888888870 110000 001 12
Q ss_pred CCCcccccccCCCCccccHHHHHHHHHHHHHH---HHHHHH--HhhhcccCCceEEEEecCHHHHHHHHhhh
Q 004795 267 TRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIP---KLEAEQ--KITLKEKQLGAALVFFTSRVAAASAAQSL 333 (730)
Q Consensus 267 ~rP~~r~~~~~~~g~kvDai~~~~~~l~~l~~---~I~~~r--~~~~~~~~~~~AFVtF~s~~~a~~a~q~~ 333 (730)
++|+.+..+.-..|.-+..|++ ++|++.-. +|.+.| ++....|..|++||+|-+.++|..|.|..
T Consensus 55 sk~t~~~hfhvfvgdls~eI~~--e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M 124 (321)
T KOG0148|consen 55 SKPTSNQHFHVFVGDLSPEIDN--EKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM 124 (321)
T ss_pred CCCccccceeEEehhcchhcch--HHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHh
Confidence 2444333322223332223332 23333222 222222 11123467899999999999999998864
No 24
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=89.66 E-value=1.6 Score=50.76 Aligned_cols=86 Identities=9% Similarity=0.100 Sum_probs=63.8
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCC
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGT 267 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~L~~~r~~~~~~Le~~~~~~~~~k~~~~~~~~ 267 (730)
..++|.|.|||.+.. +++|+++|+++ |.|.++.+.+|-.
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 357999999999986 68899999987 6788877654220
Q ss_pred CCcccccccCCCCccccHHHHHHHHHHHHHHHHHHHHHhhhcccCCceEEEEecCHHHHHHHHhhhccC--CCCceeeec
Q 004795 268 RPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQ--LVDTWTVSD 345 (730)
Q Consensus 268 rP~~r~~~~~~~g~kvDai~~~~~~l~~l~~~I~~~r~~~~~~~~~~~AFVtF~s~~~a~~a~q~~~~~--~~~~~~v~~ 345 (730)
..+..|+|||.|++.++|..|.+.+... ....++|..
T Consensus 242 -----------------------------------------tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~k 280 (612)
T TIGR01645 242 -----------------------------------------GRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK 280 (612)
T ss_pred -----------------------------------------CCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEe
Confidence 1134589999999999999999887654 344567777
Q ss_pred CCCCCCeeeC
Q 004795 346 APESRELIWN 355 (730)
Q Consensus 346 AP~P~DIiW~ 355 (730)
|..|-|=.|.
T Consensus 281 Ai~pP~~~~~ 290 (612)
T TIGR01645 281 CVTPPDALLQ 290 (612)
T ss_pred cCCCccccCC
Confidence 7666655564
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=89.14 E-value=2.7 Score=47.56 Aligned_cols=36 Identities=11% Similarity=0.223 Sum_probs=30.5
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
..+||.|.|||.+.. +++|+++|+++ |.|.+|.++.
T Consensus 88 ~~~~l~V~nlp~~~~----~~~l~~~F~~~--G~v~~v~i~~ 123 (457)
T TIGR01622 88 DDRTVFVLQLALKAR----ERDLYEFFSKV--GKVRDVQCIK 123 (457)
T ss_pred CCcEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEee
Confidence 478999999999886 68899999987 5788887764
No 26
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=89.05 E-value=1.5 Score=48.86 Aligned_cols=33 Identities=24% Similarity=0.376 Sum_probs=28.2
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEe
Q 004795 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (730)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (730)
+||.|+|+|-+.. ++.|.++|+++ |+|..+.+|
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 8999999999876 79999999998 677766665
No 27
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=88.27 E-value=1.9 Score=43.53 Aligned_cols=147 Identities=18% Similarity=0.213 Sum_probs=80.3
Q ss_pred cce-EEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHHHHH---------HHHHHHHHHHHHHHHHHHhhh
Q 004795 189 QFA-VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEANKI---------YEELEGYKKKLARAEAVYAES 258 (730)
Q Consensus 189 ~~T-VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l~~L---------~~~r~~~~~~Le~~~~~~~~~ 258 (730)
++| +.|.-+|..+. .++++..|..+ |+++++.++||--.=+.| -++.|++...|.....+ .
T Consensus 40 skTNLIvNYLPQ~MT----qdE~rSLF~Si--GeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ---~ 110 (360)
T KOG0145|consen 40 SKTNLIVNYLPQNMT----QDELRSLFGSI--GEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQ---N 110 (360)
T ss_pred ccceeeeeecccccC----HHHHHHHhhcc--cceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeec---c
Confidence 444 55566999887 68999999887 799999999974221111 12334444444433211 1
Q ss_pred ccCCCCCCCCCccc---ccccCCCC-ccccHHHHHHHHHHHHHHHHHHHH-Hhhh----cccCCceEEEEecCHHHHHHH
Q 004795 259 KSAGKPEGTRPTIK---TGFLGLLG-KRVDAIEYYNEKIKEIIPKLEAEQ-KITL----KEKQLGAALVFFTSRVAAASA 329 (730)
Q Consensus 259 k~~~~~~~~rP~~r---~~~~~~~g-~kvDai~~~~~~l~~l~~~I~~~r-~~~~----~~~~~~~AFVtF~s~~~a~~a 329 (730)
|. -+-+-.||..- -.-+=..| .|. --++|+|++-...-+.- .+++ ..-..|.+||.|+.+.+|..|
T Consensus 111 KT-IKVSyARPSs~~Ik~aNLYvSGlPkt----MtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~A 185 (360)
T KOG0145|consen 111 KT-IKVSYARPSSDSIKDANLYVSGLPKT----MTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEA 185 (360)
T ss_pred ce-EEEEeccCChhhhcccceEEecCCcc----chHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHH
Confidence 10 00111244311 00000011 121 12345555544332211 1111 234578999999999999999
Q ss_pred HhhhccCCCCc----eeeecCCCC
Q 004795 330 AQSLHAQLVDT----WTVSDAPES 349 (730)
Q Consensus 330 ~q~~~~~~~~~----~~v~~AP~P 349 (730)
...+...+|.. ..|+-|-.|
T Consensus 186 Ik~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 186 IKGLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred HHhccCCCCCCCCCCeEEEecCCc
Confidence 99998877754 456666666
No 28
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=87.04 E-value=0.49 Score=54.10 Aligned_cols=36 Identities=17% Similarity=0.162 Sum_probs=31.3
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
++||.|.|||.+.. +++|++.|+++ |.|.++.++.+
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 68999999999876 78999999987 78998888753
No 29
>PF07810 TMC: TMC domain; InterPro: IPR012496 These sequences are similar to a region conserved amongst various protein products of the transmembrane channel-like (TMC) gene family, such as Transmembrane channel-like protein 3 (Q7TN63 from SWISSPROT) and EVIN2 (Q8IU68 from SWISSPROT) - this region is termed the TMC domain []. Mutations in these genes are implicated in a number of human conditions, such as deafness and epidermodysplasia verruciformis []. TMC proteins are thought to have important cellular roles, and may be modifiers of ion channels or transporters []. ; GO: 0016021 integral to membrane
Probab=86.91 E-value=4.2 Score=36.44 Aligned_cols=54 Identities=13% Similarity=0.093 Sum_probs=41.7
Q ss_pred cCCCCCCCccc-----chhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhheeeecCCc
Q 004795 551 WFPGDLGYGTR-----VPSDMLIVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQALKVYVPAY 609 (730)
Q Consensus 551 ~~~~~f~~~~~-----y~~~l~~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~llyvy~~~~ 609 (730)
...++|+.+.. |+| .+..+|+.|||..|+ ++.+-+++.+++.|+.+++.++|+.
T Consensus 47 ~g~~eF~i~~nvL~liY~Q--tl~WiG~ffsPlLP~---i~~ik~~i~FYvKk~sll~~c~p~~ 105 (111)
T PF07810_consen 47 PGKPEFDIPKNVLDLIYNQ--TLVWIGMFFSPLLPA---INVIKLFILFYVKKFSLLYNCQPPQ 105 (111)
T ss_pred CCCCCccHhhhHHHHHHcc--hhhhhhHHhchhHHH---HHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 34577877654 444 367889999888887 5677788889999999999998864
No 30
>KOG2514 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.14 E-value=5.7 Score=46.89 Aligned_cols=53 Identities=17% Similarity=0.223 Sum_probs=42.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHhccCCcchhHHHHHHHhHHHHHHHHHHHH
Q 004795 419 EAYLPQIALIVFLALLPKLLLFLSKTEGIPAVSHAVRAASGKYFYFTVLNVFI 471 (730)
Q Consensus 419 ~g~lP~lil~i~~~llp~il~~ls~~eg~~T~S~~e~s~~~k~f~f~~~n~fl 471 (730)
+..+-.+++.++|.+---+-.+++..|.+.|.|+.|.|+.-|.|+||++|...
T Consensus 436 a~~in~~~i~~L~~iy~~~a~~lt~~e~prTe~~~ensl~~KiflfqfvN~ys 488 (861)
T KOG2514|consen 436 AVIINLVVIMILNAIYSNLASRLTNLENPRTESEFENSLILKIFLFQFVNYYS 488 (861)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHhhhcCccchhhhcchhHHHHHHHHHHHhcC
Confidence 33344455566677777778889999999999999999999999999999754
No 31
>PLN03121 nucleic acid binding protein; Provisional
Probab=85.97 E-value=1.2 Score=45.23 Aligned_cols=38 Identities=13% Similarity=0.302 Sum_probs=32.9
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
+.-|||.|+||+.+.+ +++|++||+.. |+|.+|.+.+|
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 3469999999999887 79999999986 89999998854
No 32
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=85.52 E-value=3.5 Score=47.38 Aligned_cols=36 Identities=8% Similarity=0.217 Sum_probs=28.9
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
+.++|.|.|||..+. +++|+++|+++ |.|..+.++.
T Consensus 294 ~~~~l~v~nlp~~~~----~~~l~~~f~~~--G~i~~~~~~~ 329 (509)
T TIGR01642 294 SKDRIYIGNLPLYLG----EDQIKELLESF--GDLKAFNLIK 329 (509)
T ss_pred CCCEEEEeCCCCCCC----HHHHHHHHHhc--CCeeEEEEEe
Confidence 357999999999876 68999999987 5677776653
No 33
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=85.43 E-value=1.1 Score=49.35 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=29.7
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
...+-|.++++|=+.+ .++|.+||+.. .|+++.+.++
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 4678899999998776 68899999865 5777777665
No 34
>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=84.71 E-value=4.1 Score=46.07 Aligned_cols=37 Identities=11% Similarity=0.159 Sum_probs=29.6
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
+...||.|.|||.++. +++|+++|+++ |.|.++.+.+
T Consensus 184 p~~~~l~v~nl~~~~t----e~~l~~~f~~~--G~i~~v~~~~ 220 (457)
T TIGR01622 184 PNFLKLYVGNLHFNIT----EQELRQIFEPF--GDIEDVQLHR 220 (457)
T ss_pred CCCCEEEEcCCCCCCC----HHHHHHHHHhc--CCeEEEEEEE
Confidence 4578999999999876 78999999876 5677766553
No 35
>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=83.74 E-value=9.6 Score=43.58 Aligned_cols=38 Identities=13% Similarity=0.103 Sum_probs=30.7
Q ss_pred CccceEEEecCCCC-CCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 187 PQQFAVLVRDLPDL-PKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 187 ~~~~TVlV~~IP~~-~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
+...+|+|.|||.+ .. ++.|++.|+++ |.|.+|.+.+|
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 35679999999974 54 78999999987 78888877654
No 36
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=83.50 E-value=4 Score=44.54 Aligned_cols=38 Identities=39% Similarity=0.422 Sum_probs=29.7
Q ss_pred cccCCceEEEEecCHHHHHHHHhhhccCCCCce----eeecC
Q 004795 309 KEKQLGAALVFFTSRVAAASAAQSLHAQLVDTW----TVSDA 346 (730)
Q Consensus 309 ~~~~~~~AFVtF~s~~~a~~a~q~~~~~~~~~~----~v~~A 346 (730)
+.+..|-|||.+.|-.+|.++.|.+.+.+-.-| .|.+|
T Consensus 204 k~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWA 245 (506)
T KOG0117|consen 204 KTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWA 245 (506)
T ss_pred cccccceEEEEeecchhHHHHHhhccCCceeecCCcceeecc
Confidence 346789999999999999999998877664433 46665
No 37
>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=83.37 E-value=3.3 Score=48.25 Aligned_cols=36 Identities=8% Similarity=0.034 Sum_probs=30.2
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
..++|.|.|||.+.+ ++.|+++|+++ |.|.++.+.+
T Consensus 106 ~~~rLfVGnLp~~~t----Ee~Lr~lF~~f--G~I~sV~I~~ 141 (612)
T TIGR01645 106 IMCRVYVGSISFELR----EDTIRRAFDPF--GPIKSINMSW 141 (612)
T ss_pred CCCEEEEcCCCCCCC----HHHHHHHHHcc--CCEEEEEEee
Confidence 457999999999886 78999999987 6788887765
No 38
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=82.18 E-value=5.9 Score=43.04 Aligned_cols=37 Identities=8% Similarity=0.099 Sum_probs=26.6
Q ss_pred CCCccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEE
Q 004795 185 VRPQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSM 226 (730)
Q Consensus 185 ~~~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~ 226 (730)
....+|+|.|||||-+.+- +.|++.+++.- ++|+-|.
T Consensus 40 ~~~r~R~vfItNIpyd~rW----qdLKdLvrekv-Gev~yve 76 (608)
T KOG4212|consen 40 VAARDRSVFITNIPYDYRW----QDLKDLVREKV-GEVEYVE 76 (608)
T ss_pred cccccceEEEecCcchhhh----HhHHHHHHHhc-CceEeee
Confidence 3456789999999999884 67888777653 4555443
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=81.60 E-value=2.2 Score=32.70 Aligned_cols=24 Identities=33% Similarity=0.343 Sum_probs=21.3
Q ss_pred CceEEEEecCHHHHHHHHhhhccC
Q 004795 313 LGAALVFFTSRVAAASAAQSLHAQ 336 (730)
Q Consensus 313 ~~~AFVtF~s~~~a~~a~q~~~~~ 336 (730)
.+.|||+|.+.++|..|.+.++..
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 599999999999999999987654
No 40
>smart00362 RRM_2 RNA recognition motif.
Probab=79.32 E-value=3.1 Score=32.47 Aligned_cols=34 Identities=15% Similarity=0.292 Sum_probs=26.9
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
||.|+|+|.+.. .++|+++|+++ |.+.++.+.++
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 689999999876 68999999987 56777666543
No 41
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=78.92 E-value=1.7 Score=44.75 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=31.1
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchHH
Q 004795 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKEA 234 (730)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~l 234 (730)
+.|-|+|.+.. .++|+..|+++ |+|.++-|+.|.+=+
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 56789998876 68999999998 899999999887643
No 42
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=78.63 E-value=2 Score=42.82 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=34.5
Q ss_pred cCCceEEEEecCHHHHHHHHhhhccCC--CCceeeecCCCCCCeeeC
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDAPESRELIWN 355 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~~~~--~~~~~v~~AP~P~DIiW~ 355 (730)
+-.|.|||+|++..+|..|...++.-. ...+++..|-+++||+=+
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 568999999999999988887665532 335667888888888755
No 43
>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=74.83 E-value=3.5 Score=33.03 Aligned_cols=31 Identities=16% Similarity=0.439 Sum_probs=24.8
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEe
Q 004795 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (730)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (730)
|+|+|||.+.. +++|.++|+.+ |.|.++.+.
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 68999999875 78999999987 568888777
No 44
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=73.79 E-value=2.9 Score=40.09 Aligned_cols=43 Identities=19% Similarity=0.102 Sum_probs=32.7
Q ss_pred HHHhhhcccCCceEEEEecCHHHHHHHHhhhccCC--CCceeeec
Q 004795 303 EQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSD 345 (730)
Q Consensus 303 ~r~~~~~~~~~~~AFVtF~s~~~a~~a~q~~~~~~--~~~~~v~~ 345 (730)
++.......+.+.|||+|++..+|.-|...+..++ ..++.||+
T Consensus 37 lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~ 81 (195)
T KOG0107|consen 37 LRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVEL 81 (195)
T ss_pred ceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEe
Confidence 34333344688999999999999999999887776 45677765
No 45
>smart00361 RRM_1 RNA recognition motif.
Probab=71.06 E-value=5.2 Score=32.40 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=22.3
Q ss_pred cCCceEEEEecCHHHHHHHHhhhccC
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLHAQ 336 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~~~ 336 (730)
...|.|||+|++..+|..|.+.++..
T Consensus 35 ~~rG~~fV~f~~~~dA~~A~~~l~g~ 60 (70)
T smart00361 35 HKRGNVYITFERSEDAARAIVDLNGR 60 (70)
T ss_pred CCcEEEEEEECCHHHHHHHHHHhCCC
Confidence 34688999999999999999987664
No 46
>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=70.30 E-value=7.6 Score=30.37 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=26.8
Q ss_pred eEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEec
Q 004795 191 AVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVT 229 (730)
Q Consensus 191 TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 229 (730)
+|.|+|+|.+.. +++++++|+.. |.+.++.+..
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 588999999875 78999999987 6777776654
No 47
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=65.24 E-value=12 Score=41.08 Aligned_cols=83 Identities=14% Similarity=0.146 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHH---HHH--hhhcccCCceEEEEecCHHHHHHHHhhhccC---CCCceeeecCCCCCCeeeCCcCC
Q 004795 288 YYNEKIKEIIPKLEA---EQK--ITLKEKQLGAALVFFTSRVAAASAAQSLHAQ---LVDTWTVSDAPESRELIWNNLNI 359 (730)
Q Consensus 288 ~~~~~l~~l~~~I~~---~r~--~~~~~~~~~~AFVtF~s~~~a~~a~q~~~~~---~~~~~~v~~AP~P~DIiW~NL~~ 359 (730)
-++++|.-+-++|-+ .|- +.......|+|||||.+...|+.|...+.+. ....+.|...-.-.-..=.|+-.
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 467788888776654 221 1124467899999999999999999998775 22334444444455666677777
Q ss_pred chHHHHHHHHH
Q 004795 360 KFFQRQIRQYV 370 (730)
Q Consensus 360 ~~~~r~~R~~~ 370 (730)
++.+--++.-+
T Consensus 175 ~k~keeIlee~ 185 (506)
T KOG0117|consen 175 TKKKEEILEEM 185 (506)
T ss_pred cccHHHHHHHH
Confidence 76655544443
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=64.94 E-value=16 Score=39.85 Aligned_cols=59 Identities=25% Similarity=0.272 Sum_probs=39.8
Q ss_pred CCceEEEEecCHHHHHHHHhhhccCC--CCceeeecC-C-----CCCCeeeCCcCCchHHHHHHHHH
Q 004795 312 QLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA-P-----ESRELIWNNLNIKFFQRQIRQYV 370 (730)
Q Consensus 312 ~~~~AFVtF~s~~~a~~a~q~~~~~~--~~~~~v~~A-P-----~P~DIiW~NL~~~~~~r~~R~~~ 370 (730)
..++|||+|.++++|..|.+.+.... ...+++..| | ....|.-.||..+..+..+|.++
T Consensus 148 srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F 214 (346)
T TIGR01659 148 SFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIF 214 (346)
T ss_pred cCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHH
Confidence 45899999999999999998765442 334555544 2 22347777777776666666544
No 49
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=64.55 E-value=51 Score=35.59 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=23.2
Q ss_pred cccCCceEEEEecCHHHHHHHHhhhcc
Q 004795 309 KEKQLGAALVFFTSRVAAASAAQSLHA 335 (730)
Q Consensus 309 ~~~~~~~AFVtF~s~~~a~~a~q~~~~ 335 (730)
+..++|-|||.|++.++|.+|+|..+.
T Consensus 320 qGrPSGeAFIqm~nae~a~aaaqk~hk 346 (508)
T KOG1365|consen 320 QGRPSGEAFIQMRNAERARAAAQKCHK 346 (508)
T ss_pred CCCcChhhhhhhhhhHHHHHHHHHHHH
Confidence 346899999999999999999997554
No 50
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=64.45 E-value=20 Score=40.06 Aligned_cols=35 Identities=23% Similarity=0.289 Sum_probs=28.7
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
++|.|.|||.+.. +++|.+.|++. |.|.++.+++|
T Consensus 19 ~~v~vgnip~~~s----e~~l~~~~~~~--g~v~s~~~v~D 53 (435)
T KOG0108|consen 19 SSVFVGNIPYEGS----EEQLLSIFSGV--GPVLSFRLVYD 53 (435)
T ss_pred cceEecCCCCccc----HHHHHHHHhcc--Cccceeeeccc
Confidence 9999999999886 68999999877 56777766653
No 51
>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=64.39 E-value=6.3 Score=31.48 Aligned_cols=24 Identities=33% Similarity=0.340 Sum_probs=21.2
Q ss_pred cCCceEEEEecCHHHHHHHHhhhc
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLH 334 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~ 334 (730)
...+.|||+|.|+++|..|.+..+
T Consensus 37 ~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 37 QSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp SEEEEEEEEESSHHHHHHHHHHHT
T ss_pred ccCCEEEEEeCCHHHHHHHHHHCC
Confidence 357999999999999999998864
No 52
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=60.84 E-value=17 Score=37.45 Aligned_cols=40 Identities=23% Similarity=0.322 Sum_probs=33.5
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCch
Q 004795 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNK 232 (730)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 232 (730)
-+++-|.|.++.++.. .+.|++-|..+ |+|.+..+++|..
T Consensus 60 ~~hfhvfvgdls~eI~----~e~lr~aF~pF--GevS~akvirD~~ 99 (321)
T KOG0148|consen 60 NQHFHVFVGDLSPEID----NEKLREAFAPF--GEVSDAKVIRDMN 99 (321)
T ss_pred ccceeEEehhcchhcc----hHHHHHHhccc--cccccceEeeccc
Confidence 3467899999998887 48899998876 7899999999864
No 53
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=55.82 E-value=20 Score=40.34 Aligned_cols=35 Identities=29% Similarity=0.429 Sum_probs=27.9
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
-|+.|+++|.+.+ .++|.++|+... .|..+.++-|
T Consensus 6 ~TlfV~~lp~~~~----~~qL~e~FS~vG--Pik~~~vVt~ 40 (678)
T KOG0127|consen 6 ATLFVSRLPFSST----GEQLEEFFSYVG--PIKHAVVVTN 40 (678)
T ss_pred ceEEEecCCCccc----hhHHHHhhhccc--CcceeEEecC
Confidence 7999999999887 588999999884 4666666544
No 54
>smart00360 RRM RNA recognition motif.
Probab=55.59 E-value=14 Score=28.40 Aligned_cols=24 Identities=38% Similarity=0.397 Sum_probs=20.7
Q ss_pred cCCceEEEEecCHHHHHHHHhhhc
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLH 334 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~ 334 (730)
+..+.|||+|++.++|..|.+.++
T Consensus 36 ~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 36 KSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCceEEEEeCCHHHHHHHHHHcC
Confidence 456899999999999999987765
No 55
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=55.27 E-value=22 Score=36.31 Aligned_cols=51 Identities=25% Similarity=0.264 Sum_probs=39.6
Q ss_pred ccCCceEEEEecCHHHHHHHHhhhccCCC-----CceeeecCCCCCCeeeCCcCCchHHHHHHHHHHH
Q 004795 310 EKQLGAALVFFTSRVAAASAAQSLHAQLV-----DTWTVSDAPESRELIWNNLNIKFFQRQIRQYVVY 372 (730)
Q Consensus 310 ~~~~~~AFVtF~s~~~a~~a~q~~~~~~~-----~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~ 372 (730)
....|+|||-|++..+|++|...+|.++. ..+.|+.| .+.++|..||.--.
T Consensus 57 g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~A------------DTdkER~lRRMQQm 112 (371)
T KOG0146|consen 57 GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFA------------DTDKERTLRRMQQM 112 (371)
T ss_pred CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEec------------cchHHHHHHHHHHH
Confidence 34679999999999999999999998753 35667665 35678888886443
No 56
>smart00362 RRM_2 RNA recognition motif.
Probab=54.01 E-value=15 Score=28.32 Aligned_cols=25 Identities=36% Similarity=0.393 Sum_probs=21.1
Q ss_pred cCCceEEEEecCHHHHHHHHhhhcc
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLHA 335 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~~ 335 (730)
...+.|||+|++..+|..|.+.++.
T Consensus 37 ~~~~~~~v~f~~~~~a~~a~~~~~~ 61 (72)
T smart00362 37 KSKGFAFVEFESEEDAEKAIEALNG 61 (72)
T ss_pred CCCceEEEEeCCHHHHHHHHHHhCC
Confidence 3568999999999999999887653
No 57
>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=53.81 E-value=1.9 Score=36.85 Aligned_cols=23 Identities=26% Similarity=0.444 Sum_probs=17.3
Q ss_pred CCccceEEEecCCCCCCCCChHHHHHH
Q 004795 186 RPQQFAVLVRDLPDLPKGQSRKEQVDS 212 (730)
Q Consensus 186 ~~~~~TVlV~~IP~~~~~~~~~~~l~~ 212 (730)
..+.+||+|+|||..+. ++.+++
T Consensus 49 ~vs~rtVlvsgip~~l~----ee~l~D 71 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLD----EEELRD 71 (88)
T ss_pred cccCCEEEEeCCCCCCC----hhhhee
Confidence 46889999999999655 455544
No 58
>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=48.00 E-value=22 Score=27.52 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=21.6
Q ss_pred CCceEEEEecCHHHHHHHHhhhccC
Q 004795 312 QLGAALVFFTSRVAAASAAQSLHAQ 336 (730)
Q Consensus 312 ~~~~AFVtF~s~~~a~~a~q~~~~~ 336 (730)
+.+.|||+|++.++|+.|.+..+..
T Consensus 39 ~~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 39 SKGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred cceEEEEEECCHHHHHHHHHHhCCC
Confidence 4789999999999999999876554
No 59
>smart00360 RRM RNA recognition motif.
Probab=47.10 E-value=23 Score=27.07 Aligned_cols=32 Identities=19% Similarity=0.307 Sum_probs=24.7
Q ss_pred EecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCc
Q 004795 194 VRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (730)
Q Consensus 194 V~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (730)
|.|+|.+.. ++.|+++|+++ |.+.++.+..+-
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 468888876 68999999987 567777777653
No 60
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=44.65 E-value=63 Score=35.53 Aligned_cols=34 Identities=15% Similarity=0.314 Sum_probs=28.7
Q ss_pred EEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCc
Q 004795 192 VLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (730)
Q Consensus 192 VlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (730)
|.|.|+|++.++ ..|.+.|+.+ |.|.+|.+..|.
T Consensus 79 ~~i~nl~~~~~~----~~~~d~f~~~--g~ilS~kv~~~~ 112 (369)
T KOG0123|consen 79 VFIKNLDESIDN----KSLYDTFSEF--GNILSCKVATDE 112 (369)
T ss_pred eeecCCCcccCc----HHHHHHHHhh--cCeeEEEEEEcC
Confidence 999999999874 8899999988 789998877543
No 61
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=43.45 E-value=32 Score=34.78 Aligned_cols=36 Identities=22% Similarity=0.328 Sum_probs=29.7
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
.+||.|.|||.+.+ +++|.++|.++ |.+.++.+.+|
T Consensus 115 ~~~l~v~nL~~~~~----~~~l~~~F~~~--g~~~~~~~~~d 150 (306)
T COG0724 115 NNTLFVGNLPYDVT----EEDLRELFKKF--GPVKRVRLVRD 150 (306)
T ss_pred CceEEEeCCCCCCC----HHHHHHHHHhc--CceeEEEeeec
Confidence 49999999998886 79999999998 55666666654
No 62
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=41.60 E-value=37 Score=25.96 Aligned_cols=32 Identities=19% Similarity=0.120 Sum_probs=24.2
Q ss_pred ceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEe
Q 004795 190 FAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVV 228 (730)
Q Consensus 190 ~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 228 (730)
++|-|+|.|.+. .+.+.+||+++ |+|.++.+.
T Consensus 2 ~wI~V~Gf~~~~-----~~~vl~~F~~f--GeI~~~~~~ 33 (53)
T PF14605_consen 2 TWISVSGFPPDL-----AEEVLEHFASF--GEIVDIYVP 33 (53)
T ss_pred cEEEEEeECchH-----HHHHHHHHHhc--CCEEEEEcC
Confidence 689999999876 46777899986 677665544
No 63
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=37.44 E-value=41 Score=33.70 Aligned_cols=24 Identities=29% Similarity=0.228 Sum_probs=20.6
Q ss_pred CCceEEEEecCHHHHHHHHhhhcc
Q 004795 312 QLGAALVFFTSRVAAASAAQSLHA 335 (730)
Q Consensus 312 ~~~~AFVtF~s~~~a~~a~q~~~~ 335 (730)
..+.|||||.|.+.|..|...+..
T Consensus 76 ~~pvaFatF~s~q~A~aamnaLNG 99 (284)
T KOG1457|consen 76 CKPVAFATFTSHQFALAAMNALNG 99 (284)
T ss_pred ccceEEEEecchHHHHHHHHHhcC
Confidence 458999999999999999887653
No 64
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=37.02 E-value=4.9e+02 Score=26.88 Aligned_cols=25 Identities=8% Similarity=0.167 Sum_probs=16.6
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHh
Q 004795 282 RVDAIEYYNEKIKEIIPKLEAEQKI 306 (730)
Q Consensus 282 kvDai~~~~~~l~~l~~~I~~~r~~ 306 (730)
+++.+--.+++|.+++.+|+..+.+
T Consensus 160 ~~~d~l~ie~~L~~v~~eIe~~~~~ 184 (262)
T PF14257_consen 160 TVEDLLEIERELSRVRSEIEQLEGQ 184 (262)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444545677888888888876544
No 65
>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=36.58 E-value=66 Score=27.35 Aligned_cols=41 Identities=24% Similarity=0.327 Sum_probs=24.8
Q ss_pred CCceEEEEecCHHHHHHHHhhhccCC--CCceeeecCCCCCCe
Q 004795 312 QLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDAPESREL 352 (730)
Q Consensus 312 ~~~~AFVtF~s~~~a~~a~q~~~~~~--~~~~~v~~AP~P~DI 352 (730)
..++|.+.|.+++.|..|..-....+ ..+..|...|.+.|.
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 36899999999999999988776554 345667777776654
No 66
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=35.62 E-value=66 Score=34.41 Aligned_cols=45 Identities=16% Similarity=0.175 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHhhh--------cccCCceEEEEecCHHHHHHHHhhhccC
Q 004795 292 KIKEIIPKLEAEQKITL--------KEKQLGAALVFFTSRVAAASAAQSLHAQ 336 (730)
Q Consensus 292 ~l~~l~~~I~~~r~~~~--------~~~~~~~AFVtF~s~~~a~~a~q~~~~~ 336 (730)
-+.++++.+.++..+.. ..++-|.|=|+|++...|..|.|..+.+
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 36777778887777652 3467899999999999999999998764
No 67
>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=33.88 E-value=3.4e+02 Score=30.24 Aligned_cols=83 Identities=19% Similarity=0.420 Sum_probs=46.4
Q ss_pred CCCCceEEEEe-cCchH-HHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCcccccccCCCCccccHHHHHHHHHHH
Q 004795 218 YPDTFYRSMVV-TNNKE-ANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKE 295 (730)
Q Consensus 218 ~p~~v~~v~i~-~d~~~-l~~L~~~r~~~~~~Le~~~~~~~~~k~~~~~~~~rP~~r~~~~~~~g~kvDai~~~~~~l~~ 295 (730)
+|+.. ...++ .|.++ +..+.++++++.++++....++++. | ++...++-.+++++.
T Consensus 227 f~d~a-~~~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~----------~-----------k~~~k~~~~~~q~~~ 284 (406)
T PF02388_consen 227 FGDKA-KFFLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKN----------P-----------KKKNKLKELEEQLAS 284 (406)
T ss_dssp CCCCE-EEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------T-----------HHHHHHHHHHHHHHH
T ss_pred cCCCe-EEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC----------c-----------chhhHHHHHHHHHHH
Confidence 46663 34444 46644 5677777888888888877766532 1 011123345667777
Q ss_pred HHHHHHHHHHhhh---cc-cCCceEEEEecC
Q 004795 296 IIPKLEAEQKITL---KE-KQLGAALVFFTS 322 (730)
Q Consensus 296 l~~~I~~~r~~~~---~~-~~~~~AFVtF~s 322 (730)
+++++++.++... +. .-.++-||.+.+
T Consensus 285 ~~k~~~~~~~~~~~~~~~~~la~~l~~~~g~ 315 (406)
T PF02388_consen 285 LEKRIEEAEELIAEYGDEIPLAGALFIYYGD 315 (406)
T ss_dssp HHHHHHHHHHHHHHH-SEEEEEEEEEEEETT
T ss_pred HHHHHHHHHHHHHhcCCcceEEEEEEEEECC
Confidence 7777776554321 11 224555666654
No 68
>PF09874 DUF2101: Predicted membrane protein (DUF2101); InterPro: IPR018663 This family of conserved hypothetical proteins has no known function.
Probab=33.46 E-value=1.4e+02 Score=29.65 Aligned_cols=98 Identities=17% Similarity=0.305 Sum_probs=53.2
Q ss_pred HHhhhhhhHHHHHHHHHHHHHHHHHHhhheeeecCCcCCccccHHHHHHHHHHHHHHHH-HHHHHHHhhccc---cc-ch
Q 004795 573 FCYSCIAPLIIPFGVVYFALGWLILRNQALKVYVPAYESYGRMWPHMFLRLVAALLLYQ-ITMLGYFGSKKF---IY-VG 647 (730)
Q Consensus 573 l~Ys~i~Plil~~~~~yF~~~y~v~Ky~llyvy~~~~es~G~~~~~~~~~~~~~l~i~q-~~~~g~f~l~~~---~~-~~ 647 (730)
.++..-.|+.++.+++||+...++-+.|.-..++. | +.+....|+-+.- ++..|...+++. .. ..
T Consensus 50 ~v~~~~~~~~i~~~i~yf~yLrYiL~~~~~f~id~--e--------pYR~FY~~Isli~~l~~~gyvlvr~~s~~~~~y~ 119 (206)
T PF09874_consen 50 YVFFISPLILIPLFIFYFIYLRYILIRNRNFMIDF--E--------PYRFFYYGISLIGFLSFLGYVLVRRFSFEVYPYY 119 (206)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHhccceeEech--h--------HHHHHHHHHhhhhheeecchhhheeccchhhhHH
Confidence 34444466677777888887766655555545532 2 2222233333322 223344445443 11 12
Q ss_pred hhHHH-HHHHHHHHHHHHhhccccccccchHHHh
Q 004795 648 FLIPL-PILSLIFVYICQKRFYKSFSDTALEVAS 680 (730)
Q Consensus 648 ~~i~l-~~~t~~f~~~~~~~~~~~~~~~pl~~~~ 680 (730)
..+.+ .+..++|.++.+.+|.+-..+--.++..
T Consensus 120 ~yL~~v~laVl~fr~~Fr~ky~RdyTyG~VeEv~ 153 (206)
T PF09874_consen 120 TYLGFVFLAVLAFRYYFRSKYGRDYTYGVVEEVK 153 (206)
T ss_pred HHHHHHHHHHHHHhhheeeeecccceeEEEEEec
Confidence 22222 3356678899999999988876664433
No 69
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=33.30 E-value=1.5e+02 Score=25.95 Aligned_cols=23 Identities=35% Similarity=0.598 Sum_probs=15.1
Q ss_pred CCcCCccccHHHHHHHHHHHHHH
Q 004795 607 PAYESYGRMWPHMFLRLVAALLL 629 (730)
Q Consensus 607 ~~~es~G~~~~~~~~~~~~~l~i 629 (730)
|....+|+-||.+..-++.++.+
T Consensus 8 ~~~~~~g~sW~~LVGVv~~al~~ 30 (102)
T PF15176_consen 8 PGPGEGGRSWPFLVGVVVTALVT 30 (102)
T ss_pred CCCCCCCcccHhHHHHHHHHHHH
Confidence 55677899999766554444444
No 70
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=32.61 E-value=65 Score=38.07 Aligned_cols=62 Identities=18% Similarity=0.161 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCCceEEEEecCHHHHHHHHhhhccCC--CCceeeecC--CCCCC
Q 004795 289 YNEKIKEIIPKLEAEQKITLKEKQLGAALVFFTSRVAAASAAQSLHAQL--VDTWTVSDA--PESRE 351 (730)
Q Consensus 289 ~~~~l~~l~~~I~~~r~~~~~~~~~~~AFVtF~s~~~a~~a~q~~~~~~--~~~~~v~~A--P~P~D 351 (730)
+++.|+.+-++.-+.+.-. -..+.++|||+..++.+|+.|.|.+.+.+ +...++.+| +.|++
T Consensus 434 ~e~dL~~~feefGeiqSi~-li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 434 TEQDLANLFEEFGEIQSII-LIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred hHHHHHHHHHhcccceeEe-eccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 3445555555444443322 34678999999999999999999987543 233334433 55566
No 71
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=32.41 E-value=64 Score=36.94 Aligned_cols=25 Identities=12% Similarity=0.288 Sum_probs=22.2
Q ss_pred CceEEEEecCHHHHHHHHhhhccCC
Q 004795 313 LGAALVFFTSRVAAASAAQSLHAQL 337 (730)
Q Consensus 313 ~~~AFVtF~s~~~a~~a~q~~~~~~ 337 (730)
.|.|||+|++.++|+.|.+.++...
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 72
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=32.29 E-value=28 Score=40.89 Aligned_cols=39 Identities=8% Similarity=0.197 Sum_probs=32.9
Q ss_pred CccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCc
Q 004795 187 PQQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNN 231 (730)
Q Consensus 187 ~~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 231 (730)
..++|+.|-+||+..+ +++|++.|+++ |+|++|.+..+-
T Consensus 419 V~SrTLwvG~i~k~v~----e~dL~~~feef--GeiqSi~li~~R 457 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVT----EQDLANLFEEF--GEIQSIILIPPR 457 (894)
T ss_pred Eeeeeeeeccccchhh----HHHHHHHHHhc--ccceeEeeccCC
Confidence 4689999999999987 79999999998 788888776543
No 73
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=31.86 E-value=62 Score=33.15 Aligned_cols=56 Identities=23% Similarity=0.285 Sum_probs=34.1
Q ss_pred ccCCCCccccHHHHHHHHHHHHHHHHHHHHHh-h----hcccCCceEEEEecCHHHHHHHHhhhcc
Q 004795 275 FLGLLGKRVDAIEYYNEKIKEIIPKLEAEQKI-T----LKEKQLGAALVFFTSRVAAASAAQSLHA 335 (730)
Q Consensus 275 ~~~~~g~kvDai~~~~~~l~~l~~~I~~~r~~-~----~~~~~~~~AFVtF~s~~~a~~a~q~~~~ 335 (730)
|||..|..|. +|.. .+...++..-++. . ...+..|++||+|.+..++..|......
T Consensus 194 fcgdlgNevn-d~vl----~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~g 254 (290)
T KOG0226|consen 194 FCGDLGNEVN-DDVL----ARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNG 254 (290)
T ss_pred eccccccccc-HHHH----HHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcc
Confidence 6777776653 3332 3333333322211 1 1346789999999999999998876543
No 74
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=30.43 E-value=3e+02 Score=30.94 Aligned_cols=33 Identities=21% Similarity=0.439 Sum_probs=22.6
Q ss_pred HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhh
Q 004795 568 IVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQ 600 (730)
Q Consensus 568 ~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~ 600 (730)
..--+.+|+.+.|++..|++==|++.=+--|.+
T Consensus 372 ~~p~avfya~v~P~~s~F~l~k~v~rP~~~~~k 404 (546)
T KOG0718|consen 372 LLPSAVFYALVFPITSYFGLKKFVLRPYLLKRK 404 (546)
T ss_pred hhhhhhhhhhhHHHHHHHHHHHHeecHHHHhhH
Confidence 445677889999988877776666665544443
No 75
>PF02654 CobS: Cobalamin-5-phosphate synthase; InterPro: IPR003805 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CobS protein, a cobalamin-5-phosphate synthase that catyalzes the reactions: Adenosylcobinamide-GDP + alpha-ribazole-5'-P = adenosylcobalamin-5'-phosphate + GMP Adenosylcobinamide-GDP + alpha-ribazole = adenosylcobalamin + GMP The protein product from these catalyses is associated with a large complex of proteins and is induced by cobinamide. CobS is involved in part III of cobalamin biosynthesis, one of the late steps in adenosylcobalamin synthesis that, together with CobU, CobT, and CobC proteins, defines the nucleotide loop assembly pathway [, ].; GO: 0008818 cobalamin 5'-phosphate synthase activity, 0009236 cobalamin biosynthetic process
Probab=29.94 E-value=5.7e+02 Score=26.03 Aligned_cols=124 Identities=15% Similarity=0.174 Sum_probs=58.9
Q ss_pred CCHHHHHHhcCCCCCCCcccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhe---eeecCCcCCccccHHH
Q 004795 542 KTEAELKEAWFPGDLGYGTRVPSDMLIVTIVFCYSCIAPLIIPFGVVYFALGWLILRNQAL---KVYVPAYESYGRMWPH 618 (730)
Q Consensus 542 ~T~re~~~~~~~~~f~~~~~y~~~l~~~~i~l~Ys~i~Plil~~~~~yF~~~y~v~Ky~ll---yvy~~~~es~G~~~~~ 618 (730)
++++++.|.++.+.. |. |+....++.+.+-|+.++-+...-......+....-|...+ +...|+.+.-|+.+..
T Consensus 86 ~~~er~LeIMKDsri--G~-~Gv~al~~~lllk~~~l~~l~~~~~~~~l~i~~~~~r~~~~~~~~~~~p~~~Glg~~f~~ 162 (235)
T PF02654_consen 86 RDRERRLEIMKDSRI--GA-FGVLALVLVLLLKYAALSSLPSHGLALALLIAPVLARLSMLLLAAFSKPRPEGLGALFVG 162 (235)
T ss_pred CCHHHHHHHHhCCCC--Ch-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcchhHHhc
Confidence 445455566664433 22 45555566665556555544432223333344444555443 2234555555665543
Q ss_pred HH--HHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHhhccc
Q 004795 619 MF--LRLVAALLLYQITMLGYFGSKKFIYVGFLIPLPILSLIFVYICQKRFYK 669 (730)
Q Consensus 619 ~~--~~~~~~l~i~q~~~~g~f~l~~~~~~~~~i~l~~~t~~f~~~~~~~~~~ 669 (730)
-. +++..++++.=+..+.+.... .......+...+.+..+.+++++++.=
T Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~r~lGG 214 (235)
T PF02654_consen 163 SAKKRQVLIALIILLLLALFLGGIP-WIGLLALLVALLLALLLARYARRRLGG 214 (235)
T ss_pred cCChhHHHHHHHHHHHHHHHHhhhH-HHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 22 445555554322222111111 111123334455677788888888763
No 76
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=28.51 E-value=55 Score=32.49 Aligned_cols=24 Identities=33% Similarity=0.378 Sum_probs=20.9
Q ss_pred cCCceEEEEecCHHHHHHHHhhhc
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLH 334 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~ 334 (730)
+.-++|||.|++.+-|.+|+.+..
T Consensus 90 NSKgYAFVEFEs~eVA~IaAETMN 113 (214)
T KOG4208|consen 90 NSKGYAFVEFESEEVAKIAAETMN 113 (214)
T ss_pred CcCceEEEEeccHHHHHHHHHHhh
Confidence 457899999999999999998753
No 77
>PF11874 DUF3394: Domain of unknown function (DUF3394); InterPro: IPR021814 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 190 amino acids in length. This domain is found associated with PF06808 from PFAM.
Probab=28.31 E-value=66 Score=31.56 Aligned_cols=60 Identities=13% Similarity=0.227 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHhhccccccccchHHHhh
Q 004795 622 RLVAALLLYQITMLGYFGSKKFIYVGFLIPLPILSLIFVYICQKRFYKSFSDTALEVASR 681 (730)
Q Consensus 622 ~~~~~l~i~q~~~~g~f~l~~~~~~~~~i~l~~~t~~f~~~~~~~~~~~~~~~pl~~~~~ 681 (730)
..++|++++-..+-|+|..|+-++-.+++.+..++++-=-+.-.+..|+.+..|..+..+
T Consensus 8 ~a~~~~l~F~aatqg~f~~r~~~~E~~~ll~~~f~lf~P~~~~d~i~ppy~~~p~~~~~~ 67 (183)
T PF11874_consen 8 TALIAMLAFAAATQGWFLTRNKWWESVLLLLIAFTLFRPGFWMDMIYPPYEEVPPSELVQ 67 (183)
T ss_pred HHHHHHHHHHHHhcceeeecchHHHHHHHHHHHHHHhCchHHHHhccCccccCCHHHHHH
Confidence 345677777777788888888766666666667777767777788889999988765553
No 78
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=28.12 E-value=2.6e+02 Score=29.58 Aligned_cols=58 Identities=21% Similarity=0.248 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhheeeecCCcCCcc---ccHHHHHHHHHHHHHHHHHHHHHHH
Q 004795 580 PLIIPFGVVYFALGWLILRNQALKVYVPAYESYG---RMWPHMFLRLVAALLLYQITMLGYF 638 (730)
Q Consensus 580 Plil~~~~~yF~~~y~v~Ky~llyvy~~~~es~G---~~~~~~~~~~~~~l~i~q~~~~g~f 638 (730)
|..+++|+++.++-+-+||+-+.-+..... +.. ..+|++.--++.|+++++....-+|
T Consensus 46 ~~ai~~glvwgl~I~~lDR~ivss~~~~~~-~~~~~~~~~~R~~lAvliaivIs~pl~l~iF 106 (301)
T PF14362_consen 46 WAAIPFGLVWGLVIFNLDRFIVSSIRKSDG-SRKRLLQALPRLLLAVLIAIVISEPLELKIF 106 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccccc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 888999999999999999999886654322 111 3455555555666666666555444
No 79
>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=27.96 E-value=49 Score=30.18 Aligned_cols=19 Identities=11% Similarity=0.121 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHhccCCC
Q 004795 14 FIIFVVLMCLFAWLSSKPG 32 (730)
Q Consensus 14 ~~i~~~~~~~F~~lR~~~~ 32 (730)
.+++.+++++|++.|+|.+
T Consensus 76 GvIg~Illi~y~irR~~Kk 94 (122)
T PF01102_consen 76 GVIGIILLISYCIRRLRKK 94 (122)
T ss_dssp HHHHHHHHHHHHHHHHS--
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 3455667778888877643
No 80
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=27.88 E-value=1.6e+02 Score=33.93 Aligned_cols=23 Identities=13% Similarity=0.430 Sum_probs=18.8
Q ss_pred ccccHHHHHHHHHHHHHHHHHHH
Q 004795 281 KRVDAIEYYNEKIKEIIPKLEAE 303 (730)
Q Consensus 281 ~kvDai~~~~~~l~~l~~~I~~~ 303 (730)
+|-|..+|....+++|+.+++..
T Consensus 119 ek~d~~~wi~~~ideLe~q~d~~ 141 (575)
T KOG2150|consen 119 EKRDTMDWISNQIDELERQVDSF 141 (575)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678899999999999988753
No 81
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=26.97 E-value=81 Score=33.10 Aligned_cols=37 Identities=14% Similarity=0.131 Sum_probs=32.3
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecC
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTN 230 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 230 (730)
.-+|++|--|+-+.. +.+|++.|+++ |.|.++.+|+|
T Consensus 100 Py~TLFv~RLnydT~----EskLrreF~~Y--G~IkrirlV~d 136 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTS----ESKLRREFEKY--GPIKRIRLVRD 136 (335)
T ss_pred ccceeeeeecccccc----HHHHHHHHHhc--CcceeEEEeee
Confidence 347999999998875 78999999998 67999999988
No 82
>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=26.75 E-value=7.9e+02 Score=26.06 Aligned_cols=29 Identities=14% Similarity=0.080 Sum_probs=12.2
Q ss_pred cccchhHHHHHHHHHHhhhhhhHHHHHHH
Q 004795 559 GTRVPSDMLIVTIVFCYSCIAPLIIPFGV 587 (730)
Q Consensus 559 ~~~y~~~l~~~~i~l~Ys~i~Plil~~~~ 587 (730)
.-.|+...-..+..++-+.+-=.+.|+.+
T Consensus 242 ~f~~~~~ya~~l~v~~i~l~ys~i~Plil 270 (325)
T PF02714_consen 242 PFDYGYQYAQMLLVFFIGLFYSPIAPLIL 270 (325)
T ss_pred CCcchHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 33444444444444444444344444444
No 83
>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=25.94 E-value=99 Score=25.18 Aligned_cols=36 Identities=28% Similarity=0.242 Sum_probs=26.8
Q ss_pred ceEEEEecCHHHHHHHHhhhccCCCCceeeecCCCCCCe
Q 004795 314 GAALVFFTSRVAAASAAQSLHAQLVDTWTVSDAPESREL 352 (730)
Q Consensus 314 ~~AFVtF~s~~~a~~a~q~~~~~~~~~~~v~~AP~P~DI 352 (730)
....+||+|..+|-.+-+.+...+ ..++..|-|++|
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 467899999999998888765543 345566777776
No 84
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=25.64 E-value=67 Score=35.35 Aligned_cols=27 Identities=30% Similarity=0.409 Sum_probs=23.7
Q ss_pred cCCceEEEEecCHHHHHHHHhhhccCC
Q 004795 311 KQLGAALVFFTSRVAAASAAQSLHAQL 337 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q~~~~~~ 337 (730)
...|++||+|.++++|..|...+|..+
T Consensus 74 ~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 74 QSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred cccceEEEEeccHHHHHHHHHHhhccc
Confidence 568999999999999999999888654
No 85
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=24.79 E-value=6.1e+02 Score=25.18 Aligned_cols=21 Identities=10% Similarity=0.396 Sum_probs=14.3
Q ss_pred hhHHHHHHHHHHHHHHHhhcc
Q 004795 648 FLIPLPILSLIFVYICQKRFY 668 (730)
Q Consensus 648 ~~i~l~~~t~~f~~~~~~~~~ 668 (730)
..+.+-++++...+|.+++|.
T Consensus 182 ~~iiig~i~~~~~~~lkkk~~ 202 (206)
T PF06570_consen 182 VYIIIGVIAFALRFYLKKKYN 202 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHhC
Confidence 444445566777888988875
No 86
>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=23.92 E-value=1.7e+02 Score=20.89 Aligned_cols=30 Identities=13% Similarity=0.193 Sum_probs=20.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhccCCC
Q 004795 3 FDSFLTSLGTSFIIFVVLMCLFAWLSSKPG 32 (730)
Q Consensus 3 ~~~~~~sl~~~~~i~~~~~~~F~~lR~~~~ 32 (730)
+-++..+....+++-.+.+..|...+||++
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~~ 34 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKKHR 34 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 445666666666666677777778888754
No 87
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=22.86 E-value=1.1e+02 Score=29.62 Aligned_cols=40 Identities=18% Similarity=0.190 Sum_probs=33.4
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEEEEecCchH
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRSMVVTNNKE 233 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~ 233 (730)
.+.-|.|-|+|.+.+ +.+|+.-|..+ |.+.+||++++...
T Consensus 9 ~~~kVYVGnL~~~a~----k~eLE~~F~~y--G~lrsvWvArnPPG 48 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRAT----KRELERAFSKY--GPLRSVWVARNPPG 48 (195)
T ss_pred CCceEEeccCCCCcc----hHHHHHHHHhc--CcceeEEEeecCCC
Confidence 467799999999886 78999999988 67899999986543
No 88
>PRK11020 hypothetical protein; Provisional
Probab=22.18 E-value=3.6e+02 Score=24.22 Aligned_cols=48 Identities=15% Similarity=0.315 Sum_probs=29.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCcccccccCCCCccccHHHHHHHHHHHHHHHHHHHHH
Q 004795 232 KEANKIYEELEGYKKKLARAEAVYAESKSAGKPEGTRPTIKTGFLGLLGKRVDAIEYYNEKIKEIIPKLEAEQK 305 (730)
Q Consensus 232 ~~l~~L~~~r~~~~~~Le~~~~~~~~~k~~~~~~~~rP~~r~~~~~~~g~kvDai~~~~~~l~~l~~~I~~~r~ 305 (730)
.++..|.++.+++.+++..+... | ..+-|.-+++|++.++.+|+..+.
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 35666777777777777666431 1 122345567778888888776554
No 89
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.71 E-value=1e+02 Score=30.37 Aligned_cols=57 Identities=18% Similarity=0.075 Sum_probs=31.9
Q ss_pred HHHHHHhcCCCCCCCcccchhHHHHHHHHHHhhhh-hhHHHHHHHHHHHHHHHHHHhh
Q 004795 544 EAELKEAWFPGDLGYGTRVPSDMLIVTIVFCYSCI-APLIIPFGVVYFALGWLILRNQ 600 (730)
Q Consensus 544 ~re~~~~~~~~~f~~~~~y~~~l~~~~i~l~Ys~i-~Plil~~~~~yF~~~y~v~Ky~ 600 (730)
|+-..++..+-..|+.+.=.+...++.+.++|+.+ .|+.+.+-...++.-++.|++.
T Consensus 52 P~s~s~a~sRi~~Nl~yF~~NY~~iv~~~~~~sLi~~P~~Livl~~lv~~w~~LY~~r 109 (187)
T KOG3142|consen 52 PRSLSDATSRIKRNLSYFRVNYVIIVAILLFLSLITHPLSLIVLLALVAAWLFLYFLR 109 (187)
T ss_pred CccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHheeeec
Confidence 44333433333334444445666677777777766 6766666655555555555544
No 90
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=21.57 E-value=89 Score=30.46 Aligned_cols=32 Identities=13% Similarity=0.257 Sum_probs=26.0
Q ss_pred ccceEEEecCCCCCCCCChHHHHHHHHHHhCCCCceEE
Q 004795 188 QQFAVLVRDLPDLPKGQSRKEQVDSYFKAIYPDTFYRS 225 (730)
Q Consensus 188 ~~~TVlV~~IP~~~~~~~~~~~l~~~f~~~~p~~v~~v 225 (730)
.+++|.|-|+|.+.+ +.++++.|.++ +.|..+
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 478999999999998 57899999988 445444
No 91
>PLN03121 nucleic acid binding protein; Provisional
Probab=20.97 E-value=1.5e+02 Score=30.49 Aligned_cols=21 Identities=24% Similarity=0.161 Sum_probs=17.5
Q ss_pred cCCceEEEEecCHHHHHHHHh
Q 004795 311 KQLGAALVFFTSRVAAASAAQ 331 (730)
Q Consensus 311 ~~~~~AFVtF~s~~~a~~a~q 331 (730)
+..+.|||+|+++.+|..|..
T Consensus 42 et~gfAfVtF~d~~aaetAll 62 (243)
T PLN03121 42 EYACTAYVTFKDAYALETAVL 62 (243)
T ss_pred CcceEEEEEECCHHHHHHHHh
Confidence 345799999999999988774
No 92
>PF04109 APG9: Autophagy protein Apg9 ; InterPro: IPR007241 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg9 plays a direct role in the formation of the cytoplasm to vacuole targeting and autophagic vesicles, possibly serving as a marker for a specialised compartment essential for these vesicle-mediated alternative targeting pathways [].
Probab=20.97 E-value=2.4e+02 Score=31.05 Aligned_cols=37 Identities=11% Similarity=0.293 Sum_probs=29.4
Q ss_pred HHHHHHHhhhhhhHHHHHHHHHHHHHHH-HHHhhheee
Q 004795 568 IVTIVFCYSCIAPLIIPFGVVYFALGWL-ILRNQALKV 604 (730)
Q Consensus 568 ~~~i~l~Ys~i~Plil~~~~~yF~~~y~-v~Ky~llyv 604 (730)
+..+|+++.+++|+++.+-++|+++.|. .+|.+--..
T Consensus 121 f~~~gi~nlll~Pfi~i~~il~~ff~y~e~~~~~P~~l 158 (370)
T PF04109_consen 121 FRLAGILNLLLSPFILIYQILYFFFKYAEEFKKNPGSL 158 (370)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhhChHhh
Confidence 6778899999999999999999999998 444443333
No 93
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=20.93 E-value=4.2e+02 Score=25.30 Aligned_cols=43 Identities=21% Similarity=0.322 Sum_probs=23.3
Q ss_pred ecCCCCCCe-eeCCcCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004795 344 SDAPESREL-IWNNLNIKFFQRQIRQYVVYVIVALTIMFYMIPI 386 (730)
Q Consensus 344 ~~AP~P~DI-iW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv 386 (730)
..+|+|+|. .|.|--++.---+--+.++.+++..++..+.-|-
T Consensus 32 fa~Pd~~D~~kW~nRVisNLLYyQTNYfv~~it~~~l~~f~sp~ 75 (188)
T KOG4050|consen 32 FARPDFNDFKKWNNRVISNLLYYQTNYFVTFITLFLLHGFISPQ 75 (188)
T ss_pred ccCCCCccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHcCHH
Confidence 468999998 6777655543222233444444444444444443
No 94
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=20.09 E-value=3.3e+02 Score=21.75 Aligned_cols=40 Identities=23% Similarity=0.328 Sum_probs=29.1
Q ss_pred cceEEEecCCCCCCCCChHHHHHHHHHHh----CCCCce-----EEEEecCchH
Q 004795 189 QFAVLVRDLPDLPKGQSRKEQVDSYFKAI----YPDTFY-----RSMVVTNNKE 233 (730)
Q Consensus 189 ~~TVlV~~IP~~~~~~~~~~~l~~~f~~~----~p~~v~-----~v~i~~d~~~ 233 (730)
.-+|.|+|+.. +. .+.+++||.++ .|.+|+ ++.+++...+
T Consensus 5 peavhirGvd~-ls----T~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~~ 53 (62)
T PF10309_consen 5 PEAVHIRGVDE-LS----TDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDEE 53 (62)
T ss_pred eceEEEEcCCC-CC----HHHHHHHHHHhcccCCCceEEEecCCcEEEEECCHH
Confidence 45799999854 33 68899999999 455553 7888886654
Done!