Query 014468
Match_columns 424
No_of_seqs 194 out of 809
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 05:25:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014468.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014468hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1134 Uncharacterized conser 100.0 8.1E-80 1.8E-84 655.2 37.4 405 2-406 295-707 (728)
2 COG5594 Uncharacterized integr 100.0 3.5E-74 7.6E-79 594.8 31.7 362 6-367 352-721 (827)
3 PF02714 DUF221: Domain of unk 100.0 2E-70 4.3E-75 543.3 34.1 318 14-331 1-325 (325)
4 PF04547 Anoctamin: Calcium-ac 99.2 4.7E-08 1E-12 101.5 31.7 264 47-331 101-397 (452)
5 KOG2513 Protein required for m 98.3 0.00033 7.2E-09 72.8 23.7 256 57-332 261-557 (647)
6 KOG2514 Uncharacterized conser 91.0 2.2 4.9E-05 46.6 11.4 56 114-169 433-488 (861)
7 PF07810 TMC: TMC domain; Int 90.8 1.9 4.1E-05 35.9 8.4 53 245-302 48-105 (111)
8 PF13893 RRM_5: RNA recognitio 86.2 1 2.3E-05 31.9 3.6 24 11-34 21-44 (56)
9 smart00361 RRM_1 RNA recogniti 84.4 1.4 3E-05 33.0 3.7 28 8-35 34-61 (70)
10 PF00076 RRM_1: RNA recognitio 82.8 1.4 2.9E-05 32.2 3.0 28 7-34 35-62 (70)
11 KOG0149 Predicted RNA-binding 82.4 1 2.2E-05 42.0 2.6 26 5-30 48-73 (247)
12 TIGR01659 sex-lethal sex-letha 79.8 4.6 0.0001 40.5 6.5 59 9-67 147-213 (346)
13 PLN03134 glycine-rich RNA-bind 77.9 3.9 8.4E-05 35.6 4.7 37 8-44 73-111 (144)
14 smart00362 RRM_2 RNA recogniti 77.1 3.7 8.1E-05 29.3 3.8 26 8-33 36-61 (72)
15 smart00360 RRM RNA recognition 76.8 4.6 0.0001 28.6 4.2 26 8-33 35-60 (71)
16 PF14259 RRM_6: RNA recognitio 76.2 2.7 5.8E-05 31.0 2.8 25 8-32 36-60 (70)
17 KOG0117 Heterogeneous nuclear 73.7 7.5 0.00016 39.7 5.9 64 6-69 120-186 (506)
18 KOG0107 Alternative splicing f 73.7 2.9 6.3E-05 37.4 2.7 38 7-44 43-82 (195)
19 KOG4206 Spliceosomal protein s 71.1 5.1 0.00011 37.2 3.8 47 7-53 48-96 (221)
20 TIGR01661 ELAV_HUD_SF ELAV/HuD 70.5 8.7 0.00019 38.1 5.7 61 8-68 42-110 (352)
21 KOG0146 RNA-binding protein ET 69.4 8.8 0.00019 36.6 5.0 52 8-71 57-113 (371)
22 cd00590 RRM RRM (RNA recogniti 67.3 8.7 0.00019 27.4 3.8 26 9-34 38-63 (74)
23 KOG0125 Ataxin 2-binding prote 67.2 6.6 0.00014 38.5 3.8 54 5-58 130-195 (376)
24 PF15176 LRR19-TM: Leucine-ric 60.2 16 0.00035 29.6 4.2 22 300-321 8-29 (102)
25 PLN03120 nucleic acid binding 60.0 16 0.00034 35.1 4.9 36 9-45 41-78 (260)
26 KOG1457 RNA binding protein (c 56.8 14 0.0003 34.5 3.7 23 11-33 77-99 (284)
27 TIGR01659 sex-lethal sex-letha 56.7 14 0.0003 37.1 4.2 37 8-44 232-272 (346)
28 PF05620 DUF788: Protein of un 56.6 1.5E+02 0.0032 26.5 11.3 50 288-337 59-117 (170)
29 PF02654 CobS: Cobalamin-5-pho 55.5 1.4E+02 0.0031 28.0 10.6 108 255-364 103-215 (235)
30 TIGR01628 PABP-1234 polyadenyl 50.1 32 0.00069 36.7 5.9 62 8-69 39-110 (562)
31 TIGR01648 hnRNP-R-Q heterogene 47.1 42 0.00091 36.1 6.1 61 8-68 96-159 (578)
32 PF11823 DUF3343: Protein of u 46.0 27 0.00059 26.3 3.4 36 12-50 2-37 (73)
33 PF11608 Limkain-b1: Limkain b 44.2 39 0.00084 26.7 3.9 41 10-50 38-80 (90)
34 KOG4211 Splicing factor hnRNP- 44.0 21 0.00046 37.0 3.1 24 7-30 141-164 (510)
35 PLN03121 nucleic acid binding 43.9 30 0.00066 32.7 4.0 23 7-29 40-62 (243)
36 TIGR01628 PABP-1234 polyadenyl 43.5 51 0.0011 35.2 6.2 62 8-69 126-200 (562)
37 PF04835 Pox_A9: A9 protein co 41.9 83 0.0018 22.4 4.9 43 289-333 4-46 (54)
38 KOG4208 Nucleolar RNA-binding 41.6 30 0.00066 31.8 3.5 27 6-32 87-113 (214)
39 KOG0114 Predicted RNA-binding 39.3 40 0.00086 27.8 3.4 28 8-35 54-81 (124)
40 TIGR01648 hnRNP-R-Q heterogene 38.8 65 0.0014 34.7 6.0 26 8-33 179-204 (578)
41 KOG0144 RNA-binding protein CU 38.4 38 0.00082 34.6 3.9 28 8-35 162-189 (510)
42 PF06570 DUF1129: Protein of u 36.8 3.3E+02 0.0072 24.9 10.3 20 343-362 183-202 (206)
43 PF14362 DUF4407: Domain of un 35.8 2.6E+02 0.0056 27.2 9.4 26 273-298 46-71 (301)
44 KOG0131 Splicing factor 3b, su 35.4 32 0.0007 31.1 2.6 28 5-32 45-72 (203)
45 KOG1304 Amino acid transporter 35.4 3.6E+02 0.0079 28.1 10.5 96 214-316 332-429 (449)
46 TIGR01642 U2AF_lg U2 snRNP aux 34.6 47 0.001 34.8 4.2 37 8-44 334-372 (509)
47 PF04059 RRM_2: RNA recognitio 34.5 48 0.001 26.8 3.3 28 7-34 41-68 (97)
48 TIGR01661 ELAV_HUD_SF ELAV/HuD 34.0 70 0.0015 31.6 5.2 28 9-36 129-156 (352)
49 TIGR01649 hnRNP-L_PTB hnRNP-L/ 33.3 1E+02 0.0023 32.2 6.5 24 10-33 312-335 (481)
50 KOG1365 RNA-binding protein Fu 31.7 19 0.00041 36.2 0.6 29 5-33 318-346 (508)
51 KOG0144 RNA-binding protein CU 31.4 74 0.0016 32.7 4.6 30 6-35 71-100 (510)
52 TIGR01645 half-pint poly-U bin 31.2 73 0.0016 34.6 4.9 46 8-53 243-290 (612)
53 COG0368 CobS Cobalamin-5-phosp 29.7 5E+02 0.011 24.7 10.7 110 255-364 107-219 (246)
54 PRK09702 PTS system arbutin-sp 27.8 63 0.0014 28.7 3.1 19 277-295 14-32 (161)
55 PF15159 PIG-Y: Phosphatidylin 27.3 57 0.0012 24.9 2.4 25 268-292 44-68 (72)
56 PF09874 DUF2101: Predicted me 26.9 2.4E+02 0.0053 26.0 6.7 97 266-372 50-151 (206)
57 TIGR01645 half-pint poly-U bin 26.5 63 0.0014 35.1 3.4 28 7-34 145-172 (612)
58 KOG0113 U1 small nuclear ribon 25.6 63 0.0014 31.5 2.9 27 5-31 137-163 (335)
59 KOG1365 RNA-binding protein Fu 25.0 66 0.0014 32.5 3.0 24 7-30 202-225 (508)
60 PF00322 Endothelin: Endotheli 24.4 26 0.00056 22.0 0.1 8 48-55 22-29 (31)
61 KOG0148 Apoptosis-promoting RN 24.3 72 0.0016 30.8 3.0 28 5-32 98-125 (321)
62 KOG4207 Predicted splicing fac 24.2 68 0.0015 29.7 2.7 38 7-44 51-90 (256)
63 TIGR01649 hnRNP-L_PTB hnRNP-L/ 24.1 78 0.0017 33.2 3.6 28 9-36 132-159 (481)
64 KOG0153 Predicted RNA-binding 23.9 69 0.0015 31.9 2.9 37 10-46 263-302 (377)
65 TIGR01622 SF-CC1 splicing fact 23.4 77 0.0017 32.7 3.4 36 9-44 226-263 (457)
66 TIGR02976 phageshock_pspB phag 23.2 2.6E+02 0.0057 21.5 5.4 40 120-159 8-47 (75)
67 KOG0110 RNA-binding protein (R 23.1 1.7E+02 0.0036 32.0 5.7 60 10-69 559-635 (725)
68 PF09726 Macoilin: Transmembra 22.0 8.2E+02 0.018 27.1 11.0 51 257-313 75-125 (697)
69 TIGR01622 SF-CC1 splicing fact 21.5 87 0.0019 32.2 3.3 23 8-30 128-150 (457)
70 KOG4212 RNA-binding protein hn 21.4 1.2E+02 0.0025 31.3 3.9 40 6-45 81-122 (608)
71 PF09446 VMA21: VMA21-like dom 21.3 3.5E+02 0.0075 20.1 5.6 49 123-171 9-60 (66)
No 1
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=8.1e-80 Score=655.23 Aligned_cols=405 Identities=44% Similarity=0.810 Sum_probs=382.7
Q ss_pred ccc-ccccCCCceEEEEeCCHHHHHHHHHhccCCCCCcceeccCCCCCCeecCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 014468 2 EQS-SLAGKEVAAAFVSFNSRYGAAIALHIQQGVNPTEWVTEQAPAPQDVHWPFFSSSFMKRWICKLAVVVACIALTILF 80 (424)
Q Consensus 2 ~~~-~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~ 80 (424)
||+ ..++++.+.|||||+|+.+|+.|+|..++.++++|.++.||||+||.|+|+..+..+|+.|++.++++.+++++||
T Consensus 295 ~~~~~~~~~~~~~aFVtf~sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~li~f~ 374 (728)
T KOG1134|consen 295 LRESLYEEKPLPAAFVTFKSRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFLLLFFW 374 (728)
T ss_pred HHHHHHhcCCCceEEEEEEeeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 4555899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcchhhhhhhhchhhhhhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHH
Q 014468 81 LIPVVIVQGLTHLDQLETWFPFLKGVLNLTFISQVITGYLPSLILQLFLSFVPPIMIMFSSIQGHISLSNIEKSACSKVW 160 (424)
Q Consensus 81 ~iPv~~v~~l~~l~~L~~~~p~l~~~~~~~~~~~li~g~lp~l~l~~~~~llP~i~~~ls~~eg~~s~S~~~~s~~~k~f 160 (424)
++|+++|++++|+++|++++||++.+.+.++++++++|+||++++.++++++|.++++++++|||.|+|+.|++.+.|+|
T Consensus 375 ~iPva~V~~l~nl~~l~~~~Pflk~i~~~~~i~~vI~gfLP~l~l~~~~~~lP~~l~~ls~~eG~~s~S~~e~~a~~k~~ 454 (728)
T KOG1134|consen 375 IIPVAFVQALTNLEGLSKVFPFLKPILEMKFISSVITGFLPTLALVIFLALLPPFLRYLSKLEGLISRSEEERSALNKYY 454 (728)
T ss_pred HHHHHHHHHHHhhhhhhhccchhhhhhhcchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhchhhHHHHHHh-hcCCCcHHHHHHhccCchhHHHHHHHHHHHhhhhhHHHHhhHHHHHHHHHhhccCC
Q 014468 161 WFTVWNIFFANALSGTALYHVQV-FLEPKKIPQVLAEGVPAQASFFIAYVVTSGWTSISSELFRMFPLICSFISRLCCHN 239 (424)
Q Consensus 161 ~f~~~N~~lv~~l~~s~~~~l~~-~~~p~~i~~~l~~~lp~~s~ffi~yii~~~~~~~~~~Ll~~~~li~~~i~~~~~~~ 239 (424)
+|+++|+|++.+++|+.++++.. .++|.++...++.++|++++||++|++++|+.|.+.|++|+.+++++.+++.+.++
T Consensus 455 ~F~~~nvFl~~~l~~sa~~~~~~~l~~p~~i~~~la~~lP~~a~Ff~~yii~~g~~g~~~ellrl~~Li~~~i~~~~~~~ 534 (728)
T KOG1134|consen 455 IFLLVNVFLVVTLSGSALRQLLSILSTPRLIPKLLAAALPKQASFFITYIITSGWAGFAGELLRLVPLIIYLLKKLFLKS 534 (728)
T ss_pred HHHHhhhHHHhhhhHHHHHHHHHHhcCHhHHHHHHhhhChhhHHHHHHHHHHhccchhhHHHhcchhHHHHHHHHHHccc
Confidence 99999999999999999999988 66699999999999999999999999999999999999999999999999887655
Q ss_pred CCcc----CCC-CCCCcccchhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCccHHHHHH
Q 014468 240 ASDD----LEV-PSIPYHSEIPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKFETGGKFWPIVHN 314 (424)
Q Consensus 240 ~~~~----~~~-~~f~~~~~y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~esgG~~w~~~~~ 314 (424)
++|+ .++ +.+++|..||..+++++|+++||+++|+|+|||++||+++|+|||||++|||.++|||||++||.+++
T Consensus 535 t~~~~~e~~~p~~~~~~g~~yP~~~~~f~i~i~YsviaPlILpF~lvyF~l~y~vyr~ql~yvy~~~yes~g~~wp~ih~ 614 (728)
T KOG1134|consen 535 TPRDREERYEPLSSFYFGTIYPRILLIFTIGICYSVIAPLILPFGLVYFCLAYLVYRYQLIYVYNQKYESGGRFWPDIHR 614 (728)
T ss_pred chhhhhhhcCCccccchhhhccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhhheeecccccccccchHHHHH
Confidence 4432 344 77889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHhccccccccccchhhhhhchhhhhhhh-HHHhhHhh
Q 014468 315 STIFSLLLMHVIAIGIFGLKKLPLASSLVIPLPVLTLLFNEYCRKRFLPIFEAYPTECLVKKDREDQNDAT-MAEFYEKL 393 (424)
Q Consensus 315 ~~~~~l~l~q~~~~g~~~lk~~~~~~~~~~~l~~~t~~f~~~~~~~f~~~~~~~pl~~~~~~d~~~~~~~~-~~~~~~~~ 393 (424)
++++|++++|++|+|+|++|+++..+.+++|++++|+.||.+|+.+|.|.+.++|++++...|++|++.+. .+...+..
T Consensus 615 ~ii~~l~l~ql~l~gl~~~k~~~~~s~~~~~l~~lTi~~~~~c~~rf~p~f~~~~~~~~~~~d~~~~~~~~~~~~~~~~~ 694 (728)
T KOG1134|consen 615 RIIFGLILFQLILFGLFSLKKGAVASVLLFPLIVLTILFHIYCKGRFLPLFIAYPIEEAEVDDTLDEEREPNMENLYNYL 694 (728)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHhhhccccccccchhhhhhccCCccccCCChhhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999988888875443 44566788
Q ss_pred hhccCCCCCCCCc
Q 014468 394 VTAYQDPALMPVQ 406 (424)
Q Consensus 394 ~~~Y~~Pal~~~~ 406 (424)
.++|.||++++..
T Consensus 695 ~~~~~~p~~~~~~ 707 (728)
T KOG1134|consen 695 KSAYVLPVFLSGS 707 (728)
T ss_pred cccccCccccccc
Confidence 9999999999876
No 2
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=3.5e-74 Score=594.80 Aligned_cols=362 Identities=30% Similarity=0.508 Sum_probs=341.7
Q ss_pred cccCCCceEEEEeCCHHHHHHHHHhccCCCCCcce-eccCCCCCCeecCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014468 6 LAGKEVAAAFVSFNSRYGAAIALHIQQGVNPTEWV-TEQAPAPQDVHWPFFSSSFMKRWICKLAVVVACIALTILFLIPV 84 (424)
Q Consensus 6 ~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~~~~~-v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv 84 (424)
...+++++|||||+|+..||+|+|...++++.... ++.||+|+||+|+|+..++++|..|++.+++++++++++|++||
T Consensus 352 ~~~t~~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iapaPnDi~W~Nl~ls~~~r~~k~~~~ni~~il~II~w~~pV 431 (827)
T COG5594 352 YENTPTKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAPAPNDIIWDNLRLSRKERLFKRISANILFILLIILWAFPV 431 (827)
T ss_pred cccCccccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecCCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455779999999999999999999999997766 99999999999999999999999999999999999999999999
Q ss_pred HHHHhhcchhhhhhhhchhhhhhh-hhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHHHHH
Q 014468 85 VIVQGLTHLDQLETWFPFLKGVLN-LTFISQVITGYLPSLILQLFLSFVPPIMIMFSSIQGHISLSNIEKSACSKVWWFT 163 (424)
Q Consensus 85 ~~v~~l~~l~~L~~~~p~l~~~~~-~~~~~~li~g~lp~l~l~~~~~llP~i~~~ls~~eg~~s~S~~~~s~~~k~f~f~ 163 (424)
|+++.++|++++++.|||++.+.+ .|+++++++|+||++++.++++++|+++++|+++||..|+|+.|+.++.|||.|+
T Consensus 432 a~v~~i~Nl~~l~~~~p~l~~il~~~~~l~~iltglLptv~~~~l~~ivP~fir~Ls~~qG~~S~se~E~~~~~k~~~f~ 511 (827)
T COG5594 432 AFVGTISNLNTLSSLWPFLKFILKDPPFLAGILTGLLPTVALSLLMSIVPYFIRWLSYMQGLVSYSEEEIYVQNKYFAFL 511 (827)
T ss_pred HHHHHHhcchhHhhhhHHHHHHHhccHHHHHHHHhhhhHHHHHHHHHHhHHHHHHHHHhcCccchHHHHHHHHhhhhhhe
Confidence 999999999999999999999876 5699999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhchhhHHHHHHh-hcCCCcHHHHHHhccCchhHHHHHHHHHHHhhhhhHHHHhhHHHHHHHHHhhccCC-CC
Q 014468 164 VWNIFFANALSGTALYHVQV-FLEPKKIPQVLAEGVPAQASFFIAYVVTSGWTSISSELFRMFPLICSFISRLCCHN-AS 241 (424)
Q Consensus 164 ~~N~~lv~~l~~s~~~~l~~-~~~p~~i~~~l~~~lp~~s~ffi~yii~~~~~~~~~~Ll~~~~li~~~i~~~~~~~-~~ 241 (424)
++|.|++.+++++..+.+.+ .++|.++..++++++|++|+||++|+++||+.+++.+|+|+++|+.+++..++.+. +|
T Consensus 512 fv~~FlV~Tl~s~fss~v~~~~ke~~s~~~llA~~lpk~SnFfi~~iilqgl~~~~~~LLqi~~Ll~~~vl~kf~~~TpR 591 (827)
T COG5594 512 FVNLFLVVTLASSFSSIVWSLLKEPTSIMTLLANNLPKASNFFISYIILQGLSGFPGTLLQIVPLLLSLVLGKFKDSTPR 591 (827)
T ss_pred eeeehheeeehhHHHHHHHHHhcChHhHHHHHHhccHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHhhhhhcCCChH
Confidence 99999999999988777766 78999999999999999999999999999999999999999999998887765544 44
Q ss_pred cc----CCCCCCCcccchhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHH
Q 014468 242 DD----LEVPSIPYHSEIPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKFETGGKFWPIVHNSTI 317 (424)
Q Consensus 242 ~~----~~~~~f~~~~~y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~esgG~~w~~~~~~~~ 317 (424)
++ ..++.|+||..||..+++++|+++||+++|+|+.||++||++.|++|||+++|+++.++||||+.||++++|++
T Consensus 592 ~k~nr~~~~~~f~~G~v~P~~~~l~~I~icYSiisPlILlf~~v~F~~~ylaykY~l~Yv~~~~~es~G~~w~~al~qii 671 (827)
T COG5594 592 QKWNRLETPPSFQFGTVLPQPILLFTITICYSIISPLILLFGAVYFILNYLAYKYNLIYVSNHSPESGGGYWPRALFQII 671 (827)
T ss_pred HHHhhccCCCccccccccchhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhccCCCcccCCCccHHHHHHHH
Confidence 32 46899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHhcccccccc
Q 014468 318 FSLLLMHVIAIGIFGLKKLPLASSLVIPLPVLTLLFNEYCRKRFLPIFEA 367 (424)
Q Consensus 318 ~~l~l~q~~~~g~~~lk~~~~~~~~~~~l~~~t~~f~~~~~~~f~~~~~~ 367 (424)
+|++++|+||+|+|++.++|+.+++++|++.+|++||.+|++.|+|+.++
T Consensus 672 vGl~l~qv~l~glf~~~k~~~ls~~~~p~~~~Tvi~~~~~~~~f~pl~~~ 721 (827)
T COG5594 672 VGLYLFQVCLLGLFSLAKGWGLSVLLFPLIVFTVIFHYYFKKMFDPLSKY 721 (827)
T ss_pred HHHHHHHHHHHHHHHhcCcceeEeehHHHHHHHHHHHHHHHHhhcccccc
Confidence 99999999999999999999999999999999999999999999976543
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=2e-70 Score=543.28 Aligned_cols=318 Identities=35% Similarity=0.675 Sum_probs=304.7
Q ss_pred EEEEeCCHHHHHHHHHhccCCCCCcceeccCCCCCCeecCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcch
Q 014468 14 AFVSFNSRYGAAIALHIQQGVNPTEWVTEQAPAPQDVHWPFFSSSFMKRWICKLAVVVACIALTILFLIPVVIVQGLTHL 93 (424)
Q Consensus 14 aFVtF~s~~~A~~a~q~~~~~~~~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~l 93 (424)
|||||+++++|+.|+|..++++|++|++++||||+||+|+|++.+..+|..|++++++++++++++|++|++++++++|+
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 hhhhhhhchhhhhhh-hhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHHHHHHHHHHHHhh
Q 014468 94 DQLETWFPFLKGVLN-LTFISQVITGYLPSLILQLFLSFVPPIMIMFSSIQGHISLSNIEKSACSKVWWFTVWNIFFANA 172 (424)
Q Consensus 94 ~~L~~~~p~l~~~~~-~~~~~~li~g~lp~l~l~~~~~llP~i~~~ls~~eg~~s~S~~~~s~~~k~f~f~~~N~~lv~~ 172 (424)
+++++.+|++++..+ ++...++++|++|++++.++|.++|.+++.++++|||.|+|+.|+++++|+|+|+++|++++++
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 999999999999865 5678899999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHh-hcCCCcHHHHHHhccCchhHHHHHHHHHHHhhhhhHHHHhhHHHHHHHHHhhccCCCCcc----C-CC
Q 014468 173 LSGTALYHVQV-FLEPKKIPQVLAEGVPAQASFFIAYVVTSGWTSISSELFRMFPLICSFISRLCCHNASDD----L-EV 246 (424)
Q Consensus 173 l~~s~~~~l~~-~~~p~~i~~~l~~~lp~~s~ffi~yii~~~~~~~~~~Ll~~~~li~~~i~~~~~~~~~~~----~-~~ 246 (424)
+++++++.+++ .++|+++.+.+|.++|++++||++|++++++.+.+++|+|+++++++.++++..++++|+ . ++
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 99999999888 788999999999999999999999999999999999999999999999988765444432 3 88
Q ss_pred CCCCcccchhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHHHHHHHHHHH
Q 014468 247 PSIPYHSEIPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKFETGGKFWPIVHNSTIFSLLLMHVI 326 (424)
Q Consensus 247 ~~f~~~~~y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~esgG~~w~~~~~~~~~~l~l~q~~ 326 (424)
++|+||..||..+++++|+++||+++|+++|+|++||++.|++||||++|||++++||||++|+.+++++++|++++|++
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 014468 327 AIGIF 331 (424)
Q Consensus 327 ~~g~~ 331 (424)
|+|+|
T Consensus 321 ~~g~f 325 (325)
T PF02714_consen 321 MIGLF 325 (325)
T ss_pred HHHhC
Confidence 99985
No 4
>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=99.19 E-value=4.7e-08 Score=101.48 Aligned_cols=264 Identities=16% Similarity=0.162 Sum_probs=167.8
Q ss_pred CCCee-cCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhhhchhhhhhh---hhhHHHHHHhhHHH
Q 014468 47 PQDVH-WPFFSSSFMKRWICKLAVVVACIALTILFLIPVVIVQGLTHLDQLETWFPFLKGVLN---LTFISQVITGYLPS 122 (424)
Q Consensus 47 P~DIi-W~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~l~~L~~~~p~l~~~~~---~~~~~~li~g~lp~ 122 (424)
.++|. ..+...+.++|..|...+..++++++.. -++++.++..++. ++....+ .....+++.+++-+
T Consensus 101 ~~~vtg~~~~~~p~~~r~~r~~~s~~ivl~~i~i---~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~vl~~ 171 (452)
T PF04547_consen 101 IDPVTGEMEPYYPPWKRILRYLVSVPIVLLFILI---VIGIVIGVFYLRI------YLTEIYSGPGKQFLASLIPTVLNA 171 (452)
T ss_pred ccccCCCCccCCcHHHHhhhhhhhHHHHHHHHHH---HHHHHHHHHHHHH------HHHHHhcccchhHHHHHHHHHHHH
Confidence 34442 4566778889999996666554443322 1222222222221 1111122 12334555555666
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHhh-cCCCcHHHHHHhccCch
Q 014468 123 LILQLFLSFVPPIMIMFSSIQGHISLSNIEKSACSKVWWFTVWNIFFANALSGTALYHVQVF-LEPKKIPQVLAEGVPAQ 201 (424)
Q Consensus 123 l~l~~~~~llP~i~~~ls~~eg~~s~S~~~~s~~~k~f~f~~~N~~lv~~l~~s~~~~l~~~-~~p~~i~~~l~~~lp~~ 201 (424)
+++.++|.+...+...|+++|.|.|.|+.|.+...|.|.|+++|.+.-... -+.+....+- -+| ...+ +
T Consensus 172 v~i~il~~iy~~~a~~Lt~~EnhrT~~~ye~sli~K~F~f~fvn~y~~Lfy-iaF~~~~~~~~~~~-~~~~-L------- 241 (452)
T PF04547_consen 172 VVILILNFIYRKLAKKLTDWENHRTESEYENSLIIKVFLFQFVNSYAPLFY-IAFFYGVRQEECQP-CLSR-L------- 241 (452)
T ss_pred HHHHhhhhHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhcccccCC-CHHH-H-------
Confidence 666677778888889999999999999999999999999999999974333 3333332110 012 2211 1
Q ss_pred hHHHHHHHHHHHhhhhhHHHHhhHHHHHHHHHhh-cc----CCC----C-------------ccCCCCCCCcc---cchh
Q 014468 202 ASFFIAYVVTSGWTSISSELFRMFPLICSFISRL-CC----HNA----S-------------DDLEVPSIPYH---SEIP 256 (424)
Q Consensus 202 s~ffi~yii~~~~~~~~~~Ll~~~~li~~~i~~~-~~----~~~----~-------------~~~~~~~f~~~---~~y~ 256 (424)
+.-+...++++-+.+...|.. .|.+.+..+++ .. ++. + ++.+.++++-. .+|.
T Consensus 242 ~~ql~~~~~~~qi~~~~~e~~--~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~y~~~g~~~dY~ 319 (452)
T PF04547_consen 242 RIQLFTIMVTKQIINNLLEVV--LPYLKKRYRRKKIRKKQRKKQQDERQENEEENQFLQQWEKEYELPPYDPDGLFDDYL 319 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhhhhhcccccccccccccchHHHHHHHhcCCCCCcCCchHHHH
Confidence 333444555554555555543 45555554433 11 111 0 11234555533 7888
Q ss_pred hHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCC---CCCCccHHHHHHHHHHHHHHHHHHHHHHH
Q 014468 257 RVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKF---ETGGKFWPIVHNSTIFSLLLMHVIAIGIF 331 (424)
Q Consensus 257 ~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~---esgG~~w~~~~~~~~~~l~l~q~~~~g~~ 331 (424)
.+..-+-....|+++.|+.-.++++.-++-.-.|++.+++.++|+. +++=..|..+++-+...-++....++++.
T Consensus 320 emviQFGyv~lF~~afPlapl~allnN~~eir~D~~Kl~~~~rRP~p~~~~~IG~W~~il~~i~~lav~tN~~li~~~ 397 (452)
T PF04547_consen 320 EMVIQFGYVTLFSAAFPLAPLFALLNNIVEIRLDAFKLLYLYRRPVPRRASSIGIWNNILEIISWLAVITNAALIAFT 397 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhCCCCcccccchhhhHHHHHHHHHHHHHHHHHHHHhh
Confidence 8888899999999999999999999999999999999999997653 33335799999988888887777777666
No 5
>KOG2513 consensus Protein required for meiotic chromosome segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=98.26 E-value=0.00033 Score=72.83 Aligned_cols=256 Identities=16% Similarity=0.197 Sum_probs=142.2
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhhhchhhhhhhhhhHHHHHHhhHHHHHHHHHHHHHHHHH
Q 014468 57 SSFMKRWICKLAVVVACIALTILFLIPVVIVQGLTHLDQLETWFPFLKGVLNLTFISQVITGYLPSLILQLFLSFVPPIM 136 (424)
Q Consensus 57 ~~~~~r~~R~~~~~~~~~~l~if~~iPv~~v~~l~~l~~L~~~~p~l~~~~~~~~~~~li~g~lp~l~l~~~~~llP~i~ 136 (424)
.+.|+|..|+.++.+-++++++....++.+...- ++. +.......| +.+++ .++|++++.++..++.-+-
T Consensus 261 yp~w~~~~~~~~vsvPv~l~c~~i~l~f~l~~f~--ie~------~~~s~~~~~-~~sil-s~lP~iv~~~li~~~t~~Y 330 (647)
T KOG2513|consen 261 YPEWKRILRRYLVSVPVILLCLCILLSFMLYCFQ--IEV------WVLSDYGGP-LISIL-SYLPTIVYAVLIPVLTRIY 330 (647)
T ss_pred ccHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH--HHH------HHHHHcCCc-hHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 4568889999888877776666555555554432 221 122222233 33333 5788888887776666555
Q ss_pred H----HHHhhhcCcchhHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHhhcCCCcHHHHHHhccCchhHH------HH
Q 014468 137 I----MFSSIQGHISLSNIEKSACSKVWWFTVWNIFFANALSGTALYHVQVFLEPKKIPQVLAEGVPAQASF------FI 206 (424)
Q Consensus 137 ~----~ls~~eg~~s~S~~~~s~~~k~f~f~~~N~~lv~~l~~s~~~~l~~~~~p~~i~~~l~~~lp~~s~f------fi 206 (424)
+ +|.++|.|.++|..+++...|.+.|+++|.++--...+-+...+. .+...+++-+-..-.+ .+
T Consensus 331 ~k~Ae~Lt~~EN~r~~s~y~~hli~K~~lf~f~nsy~sLFyi~f~l~d~~------~Lk~~l~~~li~sQ~l~~~~e~~~ 404 (647)
T KOG2513|consen 331 KKLAEFLTKLENHRLESAYQKHLIAKVFLFNFVNSYLSLFYIAFLLRDME------LLKQQLATLLITSQSLLNLMEIAL 404 (647)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHH------HHHHHHHHHHHHHHHHHHHHhhcc
Confidence 5 456799999999999999999999999999974333322221111 1111222111100000 00
Q ss_pred HHHHHHHhhhhhHHHHhhH--HHHHHHHH--hh-------ccCCCCcc-------------CCCCCCCcc---cchhhHH
Q 014468 207 AYVVTSGWTSISSELFRMF--PLICSFIS--RL-------CCHNASDD-------------LEVPSIPYH---SEIPRVI 259 (424)
Q Consensus 207 ~yii~~~~~~~~~~Ll~~~--~li~~~i~--~~-------~~~~~~~~-------------~~~~~f~~~---~~y~~~l 259 (424)
.|...+.--.= +..|.. ...-...+ .+ +. ++.|+ .++.--.|. ..|=.++
T Consensus 405 p~f~~~~~r~~--~~~~f~t~~~ae~~~s~~~~i~~~~~~~~-~~s~~~~a~~~~~~~qa~~E~~~~~ydgtf~Dylel~ 481 (647)
T KOG2513|consen 405 PYFKIRTKRYE--NYIRFRTKSFAEELASAQAKIDGESPGFP-APSREPEAQLFPSLKQAELESGLAEYDGTFDDYLELL 481 (647)
T ss_pred hHHHHhhhhhh--hhhhHHHHHHHHhhccchhhhcccccCCC-CcccccchhhcccchhhhhcchhhhhcchhHHHHHHH
Confidence 01111100000 000000 00000000 00 00 01111 011111132 2334567
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCC----CCCCccHHHHHHHHHHHHHHHHHHHHHHHH
Q 014468 260 FSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKF----ETGGKFWPIVHNSTIFSLLLMHVIAIGIFG 332 (424)
Q Consensus 260 ~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~----esgG~~w~~~~~~~~~~l~l~q~~~~g~~~ 332 (424)
+-|-....||++.|+-..+|++--.+.+=+|-+.+..+.+|+. ++-| .|..++.-+-+.-++-...++|+..
T Consensus 482 lQFGyvVlFS~~~PLA~~~aLvnNv~eirsda~Kl~~~~krPfp~r~~~IG-~Wq~~l~~lSvls~vtncaLi~~~~ 557 (647)
T KOG2513|consen 482 LQFGYVVLFSCAFPLAAIFALVNNVIEIRSDALKLCLVLKRPFPRRVANIG-AWQNALELLSVLSCVTNCALIGMYP 557 (647)
T ss_pred HHhhHHHHHHhHhhHHHHHHHHHHHhhhhHHHHHHHHhcCCCCcchhhhhH-HHHHHHHHHHHHHHHHhHHHHhccc
Confidence 7788888999999999999999999999999999999988764 6666 4888777766555555555555544
No 6
>KOG2514 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.01 E-value=2.2 Score=46.64 Aligned_cols=56 Identities=11% Similarity=0.201 Sum_probs=45.6
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHHHHHHHHHHH
Q 014468 114 QVITGYLPSLILQLFLSFVPPIMIMFSSIQGHISLSNIEKSACSKVWWFTVWNIFF 169 (424)
Q Consensus 114 ~li~g~lp~l~l~~~~~llP~i~~~ls~~eg~~s~S~~~~s~~~k~f~f~~~N~~l 169 (424)
+..+..+-.+++.++|.+---+-.+++.+|.+.|.|+.|.++.-|.|.||++|...
T Consensus 433 t~~a~~in~~~i~~L~~iy~~~a~~lt~~e~prTe~~~ensl~~KiflfqfvN~ys 488 (861)
T KOG2514|consen 433 TATAVIINLVVIMILNAIYSNLASRLTNLENPRTESEFENSLILKIFLFQFVNYYS 488 (861)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHhhhcCccchhhhcchhHHHHHHHHHHHhcC
Confidence 33344455566677777777788889999999999999999999999999999754
No 7
>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=90.76 E-value=1.9 Score=35.87 Aligned_cols=53 Identities=17% Similarity=0.210 Sum_probs=40.0
Q ss_pred CCCCCCc-----ccchhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCC
Q 014468 245 EVPSIPY-----HSEIPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKF 302 (424)
Q Consensus 245 ~~~~f~~-----~~~y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~ 302 (424)
..++|+. +-.|++. +..+|+.|||..|++ +.+-+++.+++.|+.+++.++|+.
T Consensus 48 g~~eF~i~~nvL~liY~Qt--l~WiG~ffsPlLP~i---~~ik~~i~FYvKk~sll~~c~p~~ 105 (111)
T PF07810_consen 48 GKPEFDIPKNVLDLIYNQT--LVWIGMFFSPLLPAI---NVIKLFILFYVKKFSLLYNCQPPQ 105 (111)
T ss_pred CCCCccHhhhHHHHHHcch--hhhhhHHhchhHHHH---HHHHHHHHHHHHHHHHHHhcCCCC
Confidence 3455554 4455655 567899999988885 566788899999999999998863
No 8
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=86.17 E-value=1 Score=31.89 Aligned_cols=24 Identities=33% Similarity=0.293 Sum_probs=21.6
Q ss_pred CceEEEEeCCHHHHHHHHHhccCC
Q 014468 11 VAAAFVSFNSRYGAAIALHIQQGV 34 (424)
Q Consensus 11 ~~~aFVtF~s~~~A~~a~q~~~~~ 34 (424)
.+.|||+|.+.++|..|.+.++..
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 599999999999999999988654
No 9
>smart00361 RRM_1 RNA recognition motif.
Probab=84.39 E-value=1.4 Score=33.03 Aligned_cols=28 Identities=18% Similarity=0.230 Sum_probs=23.8
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVN 35 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~ 35 (424)
.++.|.|||+|++..+|..|.+.+....
T Consensus 34 ~~~rG~~fV~f~~~~dA~~A~~~l~g~~ 61 (70)
T smart00361 34 NHKRGNVYITFERSEDAARAIVDLNGRY 61 (70)
T ss_pred CCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence 4567899999999999999999887653
No 10
>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=82.77 E-value=1.4 Score=32.21 Aligned_cols=28 Identities=39% Similarity=0.442 Sum_probs=24.2
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHhccCC
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHIQQGV 34 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~~~~~ 34 (424)
.++..+.|||+|++..+|..|.+.++..
T Consensus 35 ~~~~~~~a~V~F~~~~~a~~a~~~l~g~ 62 (70)
T PF00076_consen 35 SGKSKGYAFVEFESEEDAEKALEELNGK 62 (70)
T ss_dssp TSSEEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred cccccceEEEEEcCHHHHHHHHHHcCCC
Confidence 4567899999999999999999977654
No 11
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=82.42 E-value=1 Score=42.00 Aligned_cols=26 Identities=23% Similarity=0.252 Sum_probs=22.5
Q ss_pred ccccCCCceEEEEeCCHHHHHHHHHh
Q 014468 5 SLAGKEVAAAFVSFNSRYGAAIALHI 30 (424)
Q Consensus 5 ~~~~~~~~~aFVtF~s~~~A~~a~q~ 30 (424)
+..++..|++||||++.++|..||+.
T Consensus 48 ~~t~rskGyGfVTf~d~~aa~rAc~d 73 (247)
T KOG0149|consen 48 KNTGRSKGYGFVTFRDAEAATRACKD 73 (247)
T ss_pred cCCccccceeeEEeecHHHHHHHhcC
Confidence 34567889999999999999999975
No 12
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=79.84 E-value=4.6 Score=40.51 Aligned_cols=59 Identities=15% Similarity=0.191 Sum_probs=38.3
Q ss_pred CCCceEEEEeCCHHHHHHHHHhccCCC--CCcceeccC-C-----CCCCeecCCCCCchHHHHHHHH
Q 014468 9 KEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTEQA-P-----APQDVHWPFFSSSFMKRWICKL 67 (424)
Q Consensus 9 ~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~A-P-----~P~DIiW~NL~~~~~~r~~R~~ 67 (424)
+..++|||+|+++++|..|.+.+.... ...++|+.| | ....|+-.||..+..+..+|.+
T Consensus 147 ~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~ 213 (346)
T TIGR01659 147 YSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTI 213 (346)
T ss_pred ccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHH
Confidence 345899999999999999998776543 234555544 2 1223666666665555555543
No 13
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=77.85 E-value=3.9 Score=35.56 Aligned_cols=37 Identities=24% Similarity=0.306 Sum_probs=27.5
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCC--CCcceeccC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTEQA 44 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~A 44 (424)
.++.+.|||+|++.++|+.|.+.+.... ...++|+.|
T Consensus 73 g~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 73 GRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 4567999999999999999998765543 234555554
No 14
>smart00362 RRM_2 RNA recognition motif.
Probab=77.05 E-value=3.7 Score=29.27 Aligned_cols=26 Identities=38% Similarity=0.491 Sum_probs=22.1
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQG 33 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~ 33 (424)
+++.+.|||+|++..+|..|.+.+..
T Consensus 36 ~~~~~~~~v~f~~~~~a~~a~~~~~~ 61 (72)
T smart00362 36 GKSKGFAFVEFESEEDAEKAIEALNG 61 (72)
T ss_pred CCCCceEEEEeCCHHHHHHHHHHhCC
Confidence 34679999999999999999887654
No 15
>smart00360 RRM RNA recognition motif.
Probab=76.77 E-value=4.6 Score=28.58 Aligned_cols=26 Identities=42% Similarity=0.506 Sum_probs=22.0
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQG 33 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~ 33 (424)
.++.+.|||+|++.++|..|.+.+..
T Consensus 35 ~~~~~~a~v~f~~~~~a~~a~~~~~~ 60 (71)
T smart00360 35 GKSKGFAFVEFESEEDAEKALEALNG 60 (71)
T ss_pred CCCCceEEEEeCCHHHHHHHHHHcCC
Confidence 45578999999999999999887663
No 16
>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=76.16 E-value=2.7 Score=30.99 Aligned_cols=25 Identities=36% Similarity=0.450 Sum_probs=22.0
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhcc
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQ 32 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~ 32 (424)
++..+.|||+|.|..+|..|.+...
T Consensus 36 ~~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 36 GQSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp SSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred cccCCEEEEEeCCHHHHHHHHHHCC
Confidence 3568999999999999999998865
No 17
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=73.73 E-value=7.5 Score=39.66 Aligned_cols=64 Identities=17% Similarity=0.082 Sum_probs=47.1
Q ss_pred cccCCCceEEEEeCCHHHHHHHHHhccCCC--C-CcceeccCCCCCCeecCCCCCchHHHHHHHHHH
Q 014468 6 LAGKEVAAAFVSFNSRYGAAIALHIQQGVN--P-TEWVTEQAPAPQDVHWPFFSSSFMKRWICKLAV 69 (424)
Q Consensus 6 ~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~-~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~ 69 (424)
..++..|+|||||.+...|+.|...+.+.. + ..+.|...-+-.-..=.|+-.++.+--++.-+.
T Consensus 120 ~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~ 186 (506)
T KOG0117|consen 120 FSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMK 186 (506)
T ss_pred cCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHH
Confidence 346788999999999999999999988762 2 334455455567777788888777666665543
No 18
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=73.73 E-value=2.9 Score=37.41 Aligned_cols=38 Identities=24% Similarity=0.218 Sum_probs=31.0
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHhccCCCC--CcceeccC
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTEQA 44 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~A 44 (424)
+..+-+.|||+|++..+|..|...|-.++- ..++|++.
T Consensus 43 ArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 43 ARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred eecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 457889999999999999999999887763 45777643
No 19
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=71.09 E-value=5.1 Score=37.17 Aligned_cols=47 Identities=26% Similarity=0.217 Sum_probs=36.5
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHhccCCC--CCcceeccCCCCCCeecC
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTEQAPAPQDVHWP 53 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~AP~P~DIiW~ 53 (424)
..|-.|.|||+|++..+|..|...++.-. ...|+++.|=+++||+=+
T Consensus 48 t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~ 96 (221)
T KOG4206|consen 48 TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQ 96 (221)
T ss_pred CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhc
Confidence 45668999999999999988887665432 235778888888888766
No 20
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=70.51 E-value=8.7 Score=38.09 Aligned_cols=61 Identities=11% Similarity=0.115 Sum_probs=41.9
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCCC--CcceeccCC------CCCCeecCCCCCchHHHHHHHHH
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTEQAP------APQDVHWPFFSSSFMKRWICKLA 68 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~AP------~P~DIiW~NL~~~~~~r~~R~~~ 68 (424)
++..|+|||+|.+.++|..|...+....- ..++++.|- ....|.-.||..+..+..++.++
T Consensus 42 g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f 110 (352)
T TIGR01661 42 GQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSDSIKGANLYVSGLPKTMTQHELESIF 110 (352)
T ss_pred CccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccccccccceEEECCccccCCHHHHHHHH
Confidence 45678999999999999999988765432 345555442 23347777777776666666544
No 21
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=69.44 E-value=8.8 Score=36.59 Aligned_cols=52 Identities=23% Similarity=0.325 Sum_probs=39.7
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCCC-----CcceeccCCCCCCeecCCCCCchHHHHHHHHHHHH
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVNP-----TEWVTEQAPAPQDVHWPFFSSSFMKRWICKLAVVV 71 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~-----~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~~~~ 71 (424)
+...|+|||-|++..+|+.|...+++++- ..+.|+.| .+.++|..||.--..
T Consensus 57 g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~A------------DTdkER~lRRMQQma 113 (371)
T KOG0146|consen 57 GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFA------------DTDKERTLRRMQQMA 113 (371)
T ss_pred CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEec------------cchHHHHHHHHHHHH
Confidence 44689999999999999999999998752 24556554 346789899876543
No 22
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=67.28 E-value=8.7 Score=27.41 Aligned_cols=26 Identities=35% Similarity=0.378 Sum_probs=22.4
Q ss_pred CCCceEEEEeCCHHHHHHHHHhccCC
Q 014468 9 KEVAAAFVSFNSRYGAAIALHIQQGV 34 (424)
Q Consensus 9 ~~~~~aFVtF~s~~~A~~a~q~~~~~ 34 (424)
++.+.|||+|++.++|+.|.+.....
T Consensus 38 ~~~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 38 KSKGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCC
Confidence 35889999999999999999877655
No 23
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=67.19 E-value=6.6 Score=38.50 Aligned_cols=54 Identities=13% Similarity=0.102 Sum_probs=37.6
Q ss_pred ccccCCCceEEEEeCCHHHHHHHHHhccCCCC--Ccceec----------cCCCCCCeecCCCCCc
Q 014468 5 SLAGKEVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTE----------QAPAPQDVHWPFFSSS 58 (424)
Q Consensus 5 ~~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~----------~AP~P~DIiW~NL~~~ 58 (424)
..++...|-+||||++..+|..|++.++.... .+..|. --|-|.-.-|+++...
T Consensus 130 fNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n~K~~v~p~~~g~~~~~a~ 195 (376)
T KOG0125|consen 130 FNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHNKKKKVLPYPNGWKLLPAV 195 (376)
T ss_pred eccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhccCCcccCCCccccccccch
Confidence 46778899999999999999999999986532 112222 2244555568877654
No 24
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=60.23 E-value=16 Score=29.59 Aligned_cols=22 Identities=27% Similarity=0.678 Sum_probs=14.4
Q ss_pred CCCCCCCccHHHHHHHHHHHHH
Q 014468 300 PKFETGGKFWPIVHNSTIFSLL 321 (424)
Q Consensus 300 ~~~esgG~~w~~~~~~~~~~l~ 321 (424)
|....||+-|+.++.-++.++.
T Consensus 8 ~~~~~~g~sW~~LVGVv~~al~ 29 (102)
T PF15176_consen 8 PGPGEGGRSWPFLVGVVVTALV 29 (102)
T ss_pred CCCCCCCcccHhHHHHHHHHHH
Confidence 4567789999986555444433
No 25
>PLN03120 nucleic acid binding protein; Provisional
Probab=60.02 E-value=16 Score=35.07 Aligned_cols=36 Identities=25% Similarity=0.294 Sum_probs=25.9
Q ss_pred CCCceEEEEeCCHHHHHHHHHhccCC--CCCcceeccCC
Q 014468 9 KEVAAAFVSFNSRYGAAIALHIQQGV--NPTEWVTEQAP 45 (424)
Q Consensus 9 ~~~~~aFVtF~s~~~A~~a~q~~~~~--~~~~~~v~~AP 45 (424)
++.+.|||||++..+|..|.. +... .....+|++|+
T Consensus 41 ~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 41 ERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 467999999999999999985 4333 23455666664
No 26
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=56.84 E-value=14 Score=34.50 Aligned_cols=23 Identities=30% Similarity=0.361 Sum_probs=20.5
Q ss_pred CceEEEEeCCHHHHHHHHHhccC
Q 014468 11 VAAAFVSFNSRYGAAIALHIQQG 33 (424)
Q Consensus 11 ~~~aFVtF~s~~~A~~a~q~~~~ 33 (424)
.+.|||||.|.+.|..|...+..
T Consensus 77 ~pvaFatF~s~q~A~aamnaLNG 99 (284)
T KOG1457|consen 77 KPVAFATFTSHQFALAAMNALNG 99 (284)
T ss_pred cceEEEEecchHHHHHHHHHhcC
Confidence 58999999999999999988754
No 27
>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=56.69 E-value=14 Score=37.12 Aligned_cols=37 Identities=32% Similarity=0.370 Sum_probs=27.3
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCCC----CcceeccC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVNP----TEWVTEQA 44 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~----~~~~v~~A 44 (424)
.++.+.|||+|++.++|..|.+.+..... ..++|+.|
T Consensus 232 g~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a 272 (346)
T TIGR01659 232 GTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLA 272 (346)
T ss_pred CccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence 34568999999999999999998765432 24455544
No 28
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=56.65 E-value=1.5e+02 Score=26.48 Aligned_cols=50 Identities=14% Similarity=0.121 Sum_probs=29.8
Q ss_pred HHHHHhhhhccCCCCCCCCccHHH---------HHHHHHHHHHHHHHHHHHHHHhcccc
Q 014468 288 IIYRNQLLNVYAPKFETGGKFWPI---------VHNSTIFSLLLMHVIAIGIFGLKKLP 337 (424)
Q Consensus 288 ~v~Ky~llyvy~~~~esgG~~w~~---------~~~~~~~~l~l~q~~~~g~~~lk~~~ 337 (424)
++-=|.+-+.-+|+++.+|++-.. +..++..-+++.=++-++...-.+.|
T Consensus 59 ~~~~~~l~~~~rp~~~~~g~Lv~~G~DL~~~G~l~ey~~Diiylt~~vq~l~~~s~~~w 117 (170)
T PF05620_consen 59 IFCYYFLEKMARPKYDETGELVDAGEDLNQPGGLTEYMFDIIYLTWFVQVLSIISNKFW 117 (170)
T ss_pred HHHHHHHHHhCCCCcCCCCCeecCcccccCCcchHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 333345556678888866654333 56677777777766665555544443
No 29
>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=55.49 E-value=1.4e+02 Score=28.03 Aligned_cols=108 Identities=19% Similarity=0.248 Sum_probs=52.5
Q ss_pred hhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhh---ccCCCCCCCCccHHHHH--HHHHHHHHHHHHHHHH
Q 014468 255 IPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLN---VYAPKFETGGKFWPIVH--NSTIFSLLLMHVIAIG 329 (424)
Q Consensus 255 y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~lly---vy~~~~esgG~~w~~~~--~~~~~~l~l~q~~~~g 329 (424)
|+...+++.+.+-++.++-+.-.-......+....-|...+. ..+|+.|.-|+.+..-. ++...+.++.=+..+.
T Consensus 103 ~Gv~al~~~lllk~~~l~~l~~~~~~~~l~i~~~~~r~~~~~~~~~~~p~~~Glg~~f~~~~~~~~~~~~~~~~~~~~~~ 182 (235)
T PF02654_consen 103 FGVLALVLVLLLKYAALSSLPSHGLALALLIAPVLARLSMLLLAAFSKPRPEGLGALFVGSAKKRQVLIALIILLLLALF 182 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcchhHHhccCChhHHHHHHHHHHHHHHH
Confidence 344455555555555555444322233334444556665543 33455566666664433 3444444433222222
Q ss_pred HHHhcccccchhhHHHHHHHHHHHHHHHHhccccc
Q 014468 330 IFGLKKLPLASSLVIPLPVLTLLFNEYCRKRFLPI 364 (424)
Q Consensus 330 ~~~lk~~~~~~~~~~~l~~~t~~f~~~~~~~f~~~ 364 (424)
+.... +......+...+.+..+.++++++++-.
T Consensus 183 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~r~lGG~ 215 (235)
T PF02654_consen 183 LGGIP--WIGLLALLVALLLALLLARYARRRLGGI 215 (235)
T ss_pred HhhhH--HHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 22111 2223333444556677888899888754
No 30
>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=50.10 E-value=32 Score=36.74 Aligned_cols=62 Identities=10% Similarity=0.014 Sum_probs=40.8
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCCC--CcceeccCC--------CCCCeecCCCCCchHHHHHHHHHH
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTEQAP--------APQDVHWPFFSSSFMKRWICKLAV 69 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~AP--------~P~DIiW~NL~~~~~~r~~R~~~~ 69 (424)
++..|+|||+|.+.++|..|.+.+..... ..+++..+. +...|+=.||..+..+..++..+.
T Consensus 39 ~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~~~~~~~~vfV~nLp~~~~~~~L~~~F~ 110 (562)
T TIGR01628 39 RRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSLRRSGVGNIFVKNLDKSVDNKALFDTFS 110 (562)
T ss_pred CCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccccccccCCCceEEcCCCccCCHHHHHHHHH
Confidence 56678999999999999999988765422 234443331 122355567766666666666554
No 31
>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=47.08 E-value=42 Score=36.14 Aligned_cols=61 Identities=13% Similarity=-0.003 Sum_probs=43.1
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCCC---CcceeccCCCCCCeecCCCCCchHHHHHHHHH
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVNP---TEWVTEQAPAPQDVHWPFFSSSFMKRWICKLA 68 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~---~~~~v~~AP~P~DIiW~NL~~~~~~r~~R~~~ 68 (424)
.++.+.|||+|.+.++|+.|.+.+..... ..+.+..+-+-..+.=.||..+..+..++..+
T Consensus 96 G~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~~~~rLFVgNLP~~~TeeeL~eeF 159 (578)
T TIGR01648 96 GQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISVDNCRLFVGGIPKNKKREEILEEF 159 (578)
T ss_pred CCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccccCceeEeecCCcchhhHHHHHHh
Confidence 45778999999999999999998875432 23445555555667777777766655555543
No 32
>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=46.04 E-value=27 Score=26.31 Aligned_cols=36 Identities=17% Similarity=0.232 Sum_probs=28.1
Q ss_pred ceEEEEeCCHHHHHHHHHhccCCCCCcceeccCCCCCCe
Q 014468 12 AAAFVSFNSRYGAAIALHIQQGVNPTEWVTEQAPAPQDV 50 (424)
Q Consensus 12 ~~aFVtF~s~~~A~~a~q~~~~~~~~~~~v~~AP~P~DI 50 (424)
....+||+|..+|-.|-+.+.+.+ ..++..|-|++|
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 568999999999999988876654 345567888876
No 33
>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=44.18 E-value=39 Score=26.73 Aligned_cols=41 Identities=15% Similarity=0.137 Sum_probs=25.7
Q ss_pred CCceEEEEeCCHHHHHHHHHhccCCCC--CcceeccCCCCCCe
Q 014468 10 EVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTEQAPAPQDV 50 (424)
Q Consensus 10 ~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~AP~P~DI 50 (424)
..++|.+-|.++..|..|..-....+. .+..|+-.|.++|.
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 468999999999999999988776665 45677778777764
No 34
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=43.99 E-value=21 Score=36.96 Aligned_cols=24 Identities=42% Similarity=0.556 Sum_probs=21.5
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHh
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHI 30 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~ 30 (424)
+.++++.|||.|.++.+|+.|.|-
T Consensus 141 rgR~tGEAfVqF~sqe~ae~Al~r 164 (510)
T KOG4211|consen 141 RGRPTGEAFVQFESQESAEIALGR 164 (510)
T ss_pred CCCcccceEEEecCHHHHHHHHHH
Confidence 345899999999999999999985
No 35
>PLN03121 nucleic acid binding protein; Provisional
Probab=43.88 E-value=30 Score=32.74 Aligned_cols=23 Identities=26% Similarity=0.527 Sum_probs=18.8
Q ss_pred ccCCCceEEEEeCCHHHHHHHHH
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALH 29 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q 29 (424)
+++..+.|||+|++.++|..|..
T Consensus 40 D~et~gfAfVtF~d~~aaetAll 62 (243)
T PLN03121 40 SGEYACTAYVTFKDAYALETAVL 62 (243)
T ss_pred CCCcceEEEEEECCHHHHHHHHh
Confidence 34556799999999999988873
No 36
>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=43.48 E-value=51 Score=35.16 Aligned_cols=62 Identities=18% Similarity=0.135 Sum_probs=41.9
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCC--CCcceec-----------cCCCCCCeecCCCCCchHHHHHHHHHH
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTE-----------QAPAPQDVHWPFFSSSFMKRWICKLAV 69 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~-----------~AP~P~DIiW~NL~~~~~~r~~R~~~~ 69 (424)
++..++|||.|.+.++|..|.+.+.... .....+. ..+....|+-.|+..+..+..++..+.
T Consensus 126 g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~ 200 (562)
T TIGR01628 126 GKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFA 200 (562)
T ss_pred CCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHH
Confidence 3467899999999999999998764331 1112211 223345588889988877777777654
No 37
>PF04835 Pox_A9: A9 protein conserved region; InterPro: IPR006920 This entry represents a family of Chordopoxvirus A9 proteins. Chordopoxvirus belongs to the family Poxviridae and is the cause of vertebrate infections [].
Probab=41.86 E-value=83 Score=22.41 Aligned_cols=43 Identities=16% Similarity=0.491 Sum_probs=28.2
Q ss_pred HHHHhhhhccCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014468 289 IYRNQLLNVYAPKFETGGKFWPIVHNSTIFSLLLMHVIAIGIFGL 333 (424)
Q Consensus 289 v~Ky~llyvy~~~~esgG~~w~~~~~~~~~~l~l~q~~~~g~~~l 333 (424)
..|+.++|.|+.+.... .+|- ++-+.+++++++-+.-++++.+
T Consensus 4 l~rH~~myfce~k~R~N-sF~f-Viik~vismimylilGi~L~yi 46 (54)
T PF04835_consen 4 LFRHCFMYFCENKLRPN-SFWF-VIIKSVISMIMYLILGIALIYI 46 (54)
T ss_pred HHHHHHHHHHHhhcCCc-hHHH-HHHHHHHHHHHHHHHHHHHhhh
Confidence 36899999998876542 3444 4445667777776665555554
No 38
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=41.63 E-value=30 Score=31.83 Aligned_cols=27 Identities=33% Similarity=0.332 Sum_probs=22.6
Q ss_pred cccCCCceEEEEeCCHHHHHHHHHhcc
Q 014468 6 LAGKEVAAAFVSFNSRYGAAIALHIQQ 32 (424)
Q Consensus 6 ~~~~~~~~aFVtF~s~~~A~~a~q~~~ 32 (424)
..+..-++|||.|.|..-|.+|+.+..
T Consensus 87 rTGNSKgYAFVEFEs~eVA~IaAETMN 113 (214)
T KOG4208|consen 87 RTGNSKGYAFVEFESEEVAKIAAETMN 113 (214)
T ss_pred ccCCcCceEEEEeccHHHHHHHHHHhh
Confidence 345668999999999999999998743
No 39
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=39.33 E-value=40 Score=27.77 Aligned_cols=28 Identities=25% Similarity=0.324 Sum_probs=23.4
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVN 35 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~ 35 (424)
....|+|||.+++..+|..|+..+..-+
T Consensus 54 k~TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 54 KETRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred cCcCceEEEEehHhhhHHHHHHHhcccc
Confidence 3458999999999999999998876543
No 40
>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=38.78 E-value=65 Score=34.70 Aligned_cols=26 Identities=31% Similarity=0.277 Sum_probs=22.0
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQG 33 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~ 33 (424)
.+..+.|||+|++.++|..|.+.+..
T Consensus 179 gKnRGFAFVeF~s~edAa~AirkL~~ 204 (578)
T TIGR01648 179 KKNRGFAFVEYESHRAAAMARRKLMP 204 (578)
T ss_pred CccCceEEEEcCCHHHHHHHHHHhhc
Confidence 35678999999999999999887654
No 41
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=38.37 E-value=38 Score=34.64 Aligned_cols=28 Identities=29% Similarity=0.425 Sum_probs=24.2
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVN 35 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~ 35 (424)
+...|+|||+|.+.+.|..|...++...
T Consensus 162 ~~sRGcaFV~fstke~A~~Aika~ng~~ 189 (510)
T KOG0144|consen 162 GLSRGCAFVKFSTKEMAVAAIKALNGTQ 189 (510)
T ss_pred ccccceeEEEEehHHHHHHHHHhhccce
Confidence 4568999999999999999999887653
No 42
>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=36.77 E-value=3.3e+02 Score=24.86 Aligned_cols=20 Identities=20% Similarity=0.409 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHhccc
Q 014468 343 VIPLPVLTLLFNEYCRKRFL 362 (424)
Q Consensus 343 ~~~l~~~t~~f~~~~~~~f~ 362 (424)
.+.+-++++..++|.+++|.
T Consensus 183 ~iiig~i~~~~~~~lkkk~~ 202 (206)
T PF06570_consen 183 YIIIGVIAFALRFYLKKKYN 202 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 34444556667888888874
No 43
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=35.85 E-value=2.6e+02 Score=27.16 Aligned_cols=26 Identities=19% Similarity=0.171 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc
Q 014468 273 PLILPFLLVYYCLGYIIYRNQLLNVY 298 (424)
Q Consensus 273 Plilp~~~lyF~~~y~v~Ky~llyvy 298 (424)
|..+++|+++.++-+-+||+-+.-+.
T Consensus 46 ~~ai~~glvwgl~I~~lDR~ivss~~ 71 (301)
T PF14362_consen 46 WAAIPFGLVWGLVIFNLDRFIVSSIR 71 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 77888999999999999999988664
No 44
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=35.44 E-value=32 Score=31.13 Aligned_cols=28 Identities=21% Similarity=0.315 Sum_probs=24.0
Q ss_pred ccccCCCceEEEEeCCHHHHHHHHHhcc
Q 014468 5 SLAGKEVAAAFVSFNSRYGAAIALHIQQ 32 (424)
Q Consensus 5 ~~~~~~~~~aFVtF~s~~~A~~a~q~~~ 32 (424)
...++..|.||+.|.++++|.-|.+.+.
T Consensus 45 rv~~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 45 RVTQKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred hhcccccceeEEEEechhhhHHHHHHHH
Confidence 3455789999999999999999999764
No 45
>KOG1304 consensus Amino acid transporters [Amino acid transport and metabolism]
Probab=35.42 E-value=3.6e+02 Score=28.11 Aligned_cols=96 Identities=19% Similarity=0.272 Sum_probs=49.6
Q ss_pred hhhhhHHHHhhHHHHHHHHHhhccCCCCccCCCCCCCcccchhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 014468 214 WTSISSELFRMFPLICSFISRLCCHNASDDLEVPSIPYHSEIPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQ 293 (424)
Q Consensus 214 ~~~~~~~Ll~~~~li~~~i~~~~~~~~~~~~~~~~f~~~~~y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~ 293 (424)
+.+.++++-=+.+.+++.+++++.+++ ..-.+|+.++...+++..++..=--+.+.|-.+|+......-+++==.
T Consensus 332 ~ls~pLQ~yv~~eIi~~~i~~k~~~~~-----~~~~~~~~R~~lVllt~~iA~~iPnL~~fisLVGs~~~s~L~li~P~l 406 (449)
T KOG1304|consen 332 FLTYPLQFYVPIEIIEPGIRKKFSENR-----KKLLEYALRVFLVLLTFLIAVAVPNLALFISLVGSVSCSLLALIFPPL 406 (449)
T ss_pred HHcCchhhhhhHHHHHHhHHHhcCcch-----hHHHHHHHHHHHHHHHHHHHHHCCcHHhhHHHHHHHHHHHHHHHccHH
Confidence 445566665566778888877765221 112344555555555554444423345677777776666555443221
Q ss_pred --hhhccCCCCCCCCccHHHHHHHH
Q 014468 294 --LLNVYAPKFETGGKFWPIVHNST 316 (424)
Q Consensus 294 --llyvy~~~~esgG~~w~~~~~~~ 316 (424)
++.-| ++.. |...|....|-.
T Consensus 407 iel~~~~-~~~~-~~~~~~~~~ni~ 429 (449)
T KOG1304|consen 407 IELITFY-PEGK-GRFMWKLIKNIV 429 (449)
T ss_pred HHHHHhc-cccc-CceehHHHHHHH
Confidence 12122 1111 446788777743
No 46
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=34.62 E-value=47 Score=34.76 Aligned_cols=37 Identities=16% Similarity=0.264 Sum_probs=28.0
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCCC--CcceeccC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTEQA 44 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~A 44 (424)
++..|.|||+|++..+|..|.+.+..... ..+.|+.|
T Consensus 334 g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 334 GLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 45679999999999999999998765543 23555544
No 47
>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=34.49 E-value=48 Score=26.80 Aligned_cols=28 Identities=25% Similarity=0.214 Sum_probs=23.3
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHhccCC
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHIQQGV 34 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~~~~~ 34 (424)
.+-..|+|||-|.+.++|..-.+..++.
T Consensus 41 ~~~N~GYAFVNf~~~~~~~~F~~~f~g~ 68 (97)
T PF04059_consen 41 NKCNLGYAFVNFTSPQAAIRFYKAFNGK 68 (97)
T ss_pred CCCceEEEEEEcCCHHHHHHHHHHHcCC
Confidence 3446899999999999999988887654
No 48
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=34.02 E-value=70 Score=31.55 Aligned_cols=28 Identities=25% Similarity=0.436 Sum_probs=24.1
Q ss_pred CCCceEEEEeCCHHHHHHHHHhccCCCC
Q 014468 9 KEVAAAFVSFNSRYGAAIALHIQQGVNP 36 (424)
Q Consensus 9 ~~~~~aFVtF~s~~~A~~a~q~~~~~~~ 36 (424)
+..+.|||+|++.++|..|.+.+.....
T Consensus 129 ~~~g~~fv~f~~~~~A~~ai~~l~g~~~ 156 (352)
T TIGR01661 129 LSKGVGFIRFDKRDEADRAIKTLNGTTP 156 (352)
T ss_pred CcCcEEEEEECCHHHHHHHHHHhCCCcc
Confidence 4578999999999999999998876543
No 49
>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=33.28 E-value=1e+02 Score=32.23 Aligned_cols=24 Identities=25% Similarity=0.419 Sum_probs=20.8
Q ss_pred CCceEEEEeCCHHHHHHHHHhccC
Q 014468 10 EVAAAFVSFNSRYGAAIALHIQQG 33 (424)
Q Consensus 10 ~~~~aFVtF~s~~~A~~a~q~~~~ 33 (424)
+.+.|||+|.+..+|..|.+.+..
T Consensus 312 ~~g~afV~f~~~~~A~~Ai~~lng 335 (481)
T TIGR01649 312 KKETALIEMADPYQAQLALTHLNG 335 (481)
T ss_pred CCCEEEEEECCHHHHHHHHHHhCC
Confidence 358999999999999999987654
No 50
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=31.72 E-value=19 Score=36.18 Aligned_cols=29 Identities=17% Similarity=0.172 Sum_probs=25.3
Q ss_pred ccccCCCceEEEEeCCHHHHHHHHHhccC
Q 014468 5 SLAGKEVAAAFVSFNSRYGAAIALHIQQG 33 (424)
Q Consensus 5 ~~~~~~~~~aFVtF~s~~~A~~a~q~~~~ 33 (424)
..++.++|-|||.|++.++|.+|+|..+.
T Consensus 318 N~qGrPSGeAFIqm~nae~a~aaaqk~hk 346 (508)
T KOG1365|consen 318 NGQGRPSGEAFIQMRNAERARAAAQKCHK 346 (508)
T ss_pred cCCCCcChhhhhhhhhhHHHHHHHHHHHH
Confidence 45788999999999999999999997654
No 51
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=31.36 E-value=74 Score=32.65 Aligned_cols=30 Identities=20% Similarity=0.317 Sum_probs=25.3
Q ss_pred cccCCCceEEEEeCCHHHHHHHHHhccCCC
Q 014468 6 LAGKEVAAAFVSFNSRYGAAIALHIQQGVN 35 (424)
Q Consensus 6 ~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~ 35 (424)
..+...+++||+|.++++|..|...+|..+
T Consensus 71 ~t~~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 71 STGQSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred ccCcccceEEEEeccHHHHHHHHHHhhccc
Confidence 345678999999999999999999888654
No 52
>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=31.16 E-value=73 Score=34.57 Aligned_cols=46 Identities=11% Similarity=0.095 Sum_probs=34.1
Q ss_pred cCCCceEEEEeCCHHHHHHHHHhccCCC--CCcceeccCCCCCCeecC
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTEQAPAPQDVHWP 53 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~AP~P~DIiW~ 53 (424)
++..|+|||.|++.++|..|...+.... ....+|..|..|.|=.|.
T Consensus 243 gksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~~~~ 290 (612)
T TIGR01645 243 RGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDALLQ 290 (612)
T ss_pred CCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccccCC
Confidence 4567899999999999999998887553 345667766655555553
No 53
>COG0368 CobS Cobalamin-5-phosphate synthase [Coenzyme metabolism]
Probab=29.69 E-value=5e+02 Score=24.73 Aligned_cols=110 Identities=12% Similarity=0.072 Sum_probs=53.7
Q ss_pred hhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhh---ccCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHH
Q 014468 255 IPRVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLN---VYAPKFETGGKFWPIVHNSTIFSLLLMHVIAIGIF 331 (424)
Q Consensus 255 y~~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~lly---vy~~~~esgG~~w~~~~~~~~~~l~l~q~~~~g~~ 331 (424)
++....++.+.+-+...+=+..-.......+.-+.-|...+- ..+|.++..|.+.+...+..-...........++.
T Consensus 107 ~Gv~ali~vlll~~~~L~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 186 (246)
T COG0368 107 GGVAALILVLLLKVLALASLLDLGAAALLALAEVLAKSRMLLVALLSKPPYAGLGGLGKEFADPRKGLIGALLLLVLLLL 186 (246)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcchhhHHHhcccchHHHHHHHHHHHHH
Confidence 445555666666555555444312223333333333444333 34566777666776666543333333333222222
Q ss_pred HhcccccchhhHHHHHHHHHHHHHHHHhccccc
Q 014468 332 GLKKLPLASSLVIPLPVLTLLFNEYCRKRFLPI 364 (424)
Q Consensus 332 ~lk~~~~~~~~~~~l~~~t~~f~~~~~~~f~~~ 364 (424)
.+--.....+.++...++...+..+|++++.-.
T Consensus 187 ~~~~~~~~~i~~~~~~l~~~~~~~~~~r~~GG~ 219 (246)
T COG0368 187 ALLFGLSGAIAVAVALLAAALLGRLAKRRFGGV 219 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 211111122334444566778889999998763
No 54
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=27.76 E-value=63 Score=28.73 Aligned_cols=19 Identities=21% Similarity=0.516 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 014468 277 PFLLVYYCLGYIIYRNQLL 295 (424)
Q Consensus 277 p~~~lyF~~~y~v~Ky~ll 295 (424)
|+|++||.+.|++.|+.+.
T Consensus 14 ~iGl~~f~iYyfvF~flI~ 32 (161)
T PRK09702 14 AIGLCFTLLYFVVFRTLIL 32 (161)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444443
No 55
>PF15159 PIG-Y: Phosphatidylinositol N-acetylglucosaminyltransferase subunit Y
Probab=27.33 E-value=57 Score=24.89 Aligned_cols=25 Identities=24% Similarity=0.723 Sum_probs=22.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 014468 268 YFFLAPLILPFLLVYYCLGYIIYRN 292 (424)
Q Consensus 268 ys~i~Plilp~~~lyF~~~y~v~Ky 292 (424)
|+.+.|+.+|....+-...|+-+|+
T Consensus 44 Y~lLvPl~iPv~~~~vy~nWls~k~ 68 (72)
T PF15159_consen 44 YCLLVPLTIPVTIVFVYFNWLSWKF 68 (72)
T ss_pred eeeehhhhhhHHHHHHHHHHHhHHH
Confidence 6788999999999998889988886
No 56
>PF09874 DUF2101: Predicted membrane protein (DUF2101); InterPro: IPR018663 This family of conserved hypothetical proteins has no known function.
Probab=26.92 E-value=2.4e+02 Score=25.97 Aligned_cols=97 Identities=11% Similarity=0.176 Sum_probs=50.4
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHHHHHHHHHHH-HHHHHHhcccc---cchh
Q 014468 266 ITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKFETGGKFWPIVHNSTIFSLLLMHVI-AIGIFGLKKLP---LASS 341 (424)
Q Consensus 266 l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~esgG~~w~~~~~~~~~~l~l~q~~-~~g~~~lk~~~---~~~~ 341 (424)
.+|..-.|+..+.+++||+....+-+.|.=+.++. .+.+....|+-+.-+. ..|...+++.. ....
T Consensus 50 ~v~~~~~~~~i~~~i~yf~yLrYiL~~~~~f~id~----------epYR~FY~~Isli~~l~~~gyvlvr~~s~~~~~y~ 119 (206)
T PF09874_consen 50 YVFFISPLILIPLFIFYFIYLRYILIRNRNFMIDF----------EPYRFFYYGISLIGFLSFLGYVLVRRFSFEVYPYY 119 (206)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHhccceeEech----------hHHHHHHHHHhhhhheeecchhhheeccchhhhHH
Confidence 34433345556777778877655544443333321 3333334444433332 34555554432 2233
Q ss_pred hHHHH-HHHHHHHHHHHHhccccccccccchh
Q 014468 342 LVIPL-PVLTLLFNEYCRKRFLPIFEAYPTEC 372 (424)
Q Consensus 342 ~~~~l-~~~t~~f~~~~~~~f~~~~~~~pl~~ 372 (424)
..+.+ .+..++|.++.+.+|.+-..+=-.++
T Consensus 120 ~yL~~v~laVl~fr~~Fr~ky~RdyTyG~VeE 151 (206)
T PF09874_consen 120 TYLGFVFLAVLAFRYYFRSKYGRDYTYGVVEE 151 (206)
T ss_pred HHHHHHHHHHHHHhhheeeeecccceeEEEEE
Confidence 33222 33456788999999999776644433
No 57
>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=26.54 E-value=63 Score=35.05 Aligned_cols=28 Identities=32% Similarity=0.440 Sum_probs=23.6
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHhccCC
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHIQQGV 34 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~~~~~ 34 (424)
.+++.|+|||+|++.++|..|.+.+...
T Consensus 145 TgkskGfAFVeF~s~e~A~~Ai~~lnG~ 172 (612)
T TIGR01645 145 TGKHKGFAFVEYEVPEAAQLALEQMNGQ 172 (612)
T ss_pred CCCcCCeEEEEeCcHHHHHHHHHhcCCe
Confidence 3567899999999999999999876543
No 58
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=25.58 E-value=63 Score=31.54 Aligned_cols=27 Identities=19% Similarity=0.290 Sum_probs=23.2
Q ss_pred ccccCCCceEEEEeCCHHHHHHHHHhc
Q 014468 5 SLAGKEVAAAFVSFNSRYGAAIALHIQ 31 (424)
Q Consensus 5 ~~~~~~~~~aFVtF~s~~~A~~a~q~~ 31 (424)
+..+|+.|+|||.|+++.+-++|-...
T Consensus 137 ~vTgkskGYAFIeye~erdm~~AYK~a 163 (335)
T KOG0113|consen 137 KVTGKSKGYAFIEYEHERDMKAAYKDA 163 (335)
T ss_pred cccCCccceEEEEeccHHHHHHHHHhc
Confidence 467899999999999999999986643
No 59
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=24.95 E-value=66 Score=32.48 Aligned_cols=24 Identities=33% Similarity=0.447 Sum_probs=21.8
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHh
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHI 30 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~ 30 (424)
+++++|.|||.|.++.+|+.|.|.
T Consensus 202 dgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 202 DGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred CCCcccceEEEecCHHHHHHHHHH
Confidence 678999999999999999998764
No 60
>PF00322 Endothelin: Endothelin family; InterPro: IPR001928 Endothelins (ET's) are the most potent vasoconstrictors known [, , ]. They stimulate cardiac contraction, regulate release of vasoactive substances, and stimulate mitogenesis in blood vessels in primary culture. They also stimulate contraction in almost all other smooth muscles (e.g., uterus, bronchus, vas deferensa and stomach) and stimulate secretion in several tissues (e.g., kidney, liver and adrenals). Endothelin receptors have also been found in the brain, e.g. cerebral cortex, cerebellum and glial cells. Endothelins have been implicated in a variety of pathophysiological conditions associated with stress, including hypertension, myocardial infarction, subarachnoid haemorrhage and renal failure. Endothelins are synthesised by proteolysis of large preproendothelins, which are cleaved to 'big endothelins' before being processed to the mature peptide. Sarafotoxins (SRTX) and bibrotoxin (BTX) are cardiotoxins from the venom of snakes of the Atractaspis family, structurally and functionally [, ] similar to endothelin. As shown in the following schematic representation, these peptides which are 21 residues long contain two intramolecular disulphide bonds. +-------------+ | | CxCxxxxxxxCxxxCxxxxxx | | +-------+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0019229 regulation of vasoconstriction, 0005576 extracellular region; PDB: 1V6R_A 1T7H_A 1EDP_A 1EDN_A 3CMH_A 6CMH_A 1SRB_A 2LDF_A.
Probab=24.39 E-value=26 Score=21.97 Aligned_cols=8 Identities=25% Similarity=0.464 Sum_probs=4.1
Q ss_pred CCeecCCC
Q 014468 48 QDVHWPFF 55 (424)
Q Consensus 48 ~DIiW~NL 55 (424)
-||||.|-
T Consensus 22 ldiIW~nt 29 (31)
T PF00322_consen 22 LDIIWVNT 29 (31)
T ss_dssp CTTT-S--
T ss_pred ccEEEecC
Confidence 48999884
No 61
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=24.26 E-value=72 Score=30.75 Aligned_cols=28 Identities=29% Similarity=0.320 Sum_probs=23.9
Q ss_pred ccccCCCceEEEEeCCHHHHHHHHHhcc
Q 014468 5 SLAGKEVAAAFVSFNSRYGAAIALHIQQ 32 (424)
Q Consensus 5 ~~~~~~~~~aFVtF~s~~~A~~a~q~~~ 32 (424)
....|..+++||+|-+.++|..|.|..-
T Consensus 98 ~~T~KsKGYgFVSf~~k~dAEnAI~~Mn 125 (321)
T KOG0148|consen 98 MNTGKSKGYGFVSFPNKEDAENAIQQMN 125 (321)
T ss_pred ccCCcccceeEEeccchHHHHHHHHHhC
Confidence 4557889999999999999999988643
No 62
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=24.22 E-value=68 Score=29.73 Aligned_cols=38 Identities=26% Similarity=0.274 Sum_probs=28.8
Q ss_pred ccCCCceEEEEeCCHHHHHHHHHhccCCC--CCcceeccC
Q 014468 7 AGKEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTEQA 44 (424)
Q Consensus 7 ~~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~A 44 (424)
.++.-+-|||-|.+..+|+.|...+.... ...++|++|
T Consensus 51 Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a 90 (256)
T KOG4207|consen 51 TRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA 90 (256)
T ss_pred cccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence 35678899999999999999988765542 345666666
No 63
>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=24.12 E-value=78 Score=33.18 Aligned_cols=28 Identities=29% Similarity=0.261 Sum_probs=23.5
Q ss_pred CCCceEEEEeCCHHHHHHHHHhccCCCC
Q 014468 9 KEVAAAFVSFNSRYGAAIALHIQQGVNP 36 (424)
Q Consensus 9 ~~~~~aFVtF~s~~~A~~a~q~~~~~~~ 36 (424)
+..+.|||.|++.++|..|.+.+....-
T Consensus 132 ~~~~~afVef~~~~~A~~A~~~Lng~~i 159 (481)
T TIGR01649 132 NNVFQALVEFESVNSAQHAKAALNGADI 159 (481)
T ss_pred CCceEEEEEECCHHHHHHHHHHhcCCcc
Confidence 3357899999999999999998887653
No 64
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=23.87 E-value=69 Score=31.87 Aligned_cols=37 Identities=22% Similarity=0.159 Sum_probs=25.9
Q ss_pred CCceEEEEeCCHHHHHHHHHhccCC---CCCcceeccCCC
Q 014468 10 EVAAAFVSFNSRYGAAIALHIQQGV---NPTEWVTEQAPA 46 (424)
Q Consensus 10 ~~~~aFVtF~s~~~A~~a~q~~~~~---~~~~~~v~~AP~ 46 (424)
..++|||+|.+..+|..|+-...+. +..+..+..++.
T Consensus 263 ~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 263 RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 3459999999999999998766543 233444555543
No 65
>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=23.40 E-value=77 Score=32.66 Aligned_cols=36 Identities=19% Similarity=0.230 Sum_probs=26.3
Q ss_pred CCCceEEEEeCCHHHHHHHHHhccCCCC--CcceeccC
Q 014468 9 KEVAAAFVSFNSRYGAAIALHIQQGVNP--TEWVTEQA 44 (424)
Q Consensus 9 ~~~~~aFVtF~s~~~A~~a~q~~~~~~~--~~~~v~~A 44 (424)
+..++|||+|.+..+|..|.+.+..... ..+.|..|
T Consensus 226 ~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a 263 (457)
T TIGR01622 226 RSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYA 263 (457)
T ss_pred ccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEc
Confidence 5568999999999999999987765322 23445443
No 66
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=23.24 E-value=2.6e+02 Score=21.46 Aligned_cols=40 Identities=20% Similarity=0.250 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHH
Q 014468 120 LPSLILQLFLSFVPPIMIMFSSIQGHISLSNIEKSACSKV 159 (424)
Q Consensus 120 lp~l~l~~~~~llP~i~~~ls~~eg~~s~S~~~~s~~~k~ 159 (424)
+|.++..++-+.+=.++.+.++.++..+.|+.|...+..+
T Consensus 8 ~Pliif~ifVap~wl~lHY~~k~~~~~~ls~~d~~~L~~L 47 (75)
T TIGR02976 8 IPLIIFVIFVAPLWLILHYRSKRKTAASLSTDDQALLQEL 47 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCHHHHHHHHHH
Confidence 4655665566667778889999888887888877655444
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=23.09 E-value=1.7e+02 Score=31.99 Aligned_cols=60 Identities=20% Similarity=0.160 Sum_probs=37.5
Q ss_pred CCceEEEEeCCHHHHHHHHHhccCC--CCCcceeccCC-------------CCC--CeecCCCCCchHHHHHHHHHH
Q 014468 10 EVAAAFVSFNSRYGAAIALHIQQGV--NPTEWVTEQAP-------------APQ--DVHWPFFSSSFMKRWICKLAV 69 (424)
Q Consensus 10 ~~~~aFVtF~s~~~A~~a~q~~~~~--~~~~~~v~~AP-------------~P~--DIiW~NL~~~~~~r~~R~~~~ 69 (424)
.+|.|||.|++..+|+.|.+.++.. +.+...++.++ .+. -|+=+|+..-...|-+|.++.
T Consensus 559 SmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~ 635 (725)
T KOG0110|consen 559 SMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFT 635 (725)
T ss_pred ccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHh
Confidence 5799999999999999999886632 22333333333 222 445555555555666666543
No 68
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=21.97 E-value=8.2e+02 Score=27.14 Aligned_cols=51 Identities=16% Similarity=0.358 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCccHHHHH
Q 014468 257 RVIFSVLLGITYFFLAPLILPFLLVYYCLGYIIYRNQLLNVYAPKFETGGKFWPIVH 313 (424)
Q Consensus 257 ~~l~v~~i~l~ys~i~Plilp~~~lyF~~~y~v~Ky~llyvy~~~~esgG~~w~~~~ 313 (424)
..+++.||+++==.|+=+.+|.-++||+..-+||=+ ||+.. | +|--.|++.
T Consensus 75 ~~~~~~~~~~~~d~~~~~~~p~~~~~~~~~~~v~~~---~~~~~--~-~~~~~~~~~ 125 (697)
T PF09726_consen 75 FSVFFVCIAFTSDLICLFFIPVHWLFFAASTYVWVQ---YVWHT--D-RGICLPTVS 125 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH---Hhhhc--c-CCccHHHHH
Confidence 445566666666778888899999999999998854 34322 3 666667644
No 69
>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=21.50 E-value=87 Score=32.25 Aligned_cols=23 Identities=22% Similarity=0.281 Sum_probs=20.2
Q ss_pred cCCCceEEEEeCCHHHHHHHHHh
Q 014468 8 GKEVAAAFVSFNSRYGAAIALHI 30 (424)
Q Consensus 8 ~~~~~~aFVtF~s~~~A~~a~q~ 30 (424)
++..|.|||+|.+.++|..|.+.
T Consensus 128 ~~skg~afVeF~~~e~A~~Al~l 150 (457)
T TIGR01622 128 RRSKGVAYVEFYDVESVIKALAL 150 (457)
T ss_pred CCcceEEEEEECCHHHHHHHHHh
Confidence 45689999999999999999863
No 70
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=21.40 E-value=1.2e+02 Score=31.34 Aligned_cols=40 Identities=23% Similarity=0.207 Sum_probs=30.7
Q ss_pred cccCCCceEEEEeCCHHHHHHHHHhccCCC--CCcceeccCC
Q 014468 6 LAGKEVAAAFVSFNSRYGAAIALHIQQGVN--PTEWVTEQAP 45 (424)
Q Consensus 6 ~~~~~~~~aFVtF~s~~~A~~a~q~~~~~~--~~~~~v~~AP 45 (424)
...|+.++|.|.|++++.++.|+..+.... ...+.|++-|
T Consensus 81 ~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 81 ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 467899999999999999999998876543 3345555544
No 71
>PF09446 VMA21: VMA21-like domain; InterPro: IPR019013 The vacuolar ATPase assembly integral membrane protein VMA21 is required for the assembly of the integral membrane sector (V0 component) of the vacuolar ATPase (V-ATPase) in the endoplasmic reticulum []. This entry represents a putative short domain found in VMA21-like proteins, and which appears to contain two potential transmembrane helices.
Probab=21.29 E-value=3.5e+02 Score=20.06 Aligned_cols=49 Identities=18% Similarity=0.220 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHHh---hhcCcchhHHHHHHHHHHHHHHHHHHHHHh
Q 014468 123 LILQLFLSFVPPIMIMFSS---IQGHISLSNIEKSACSKVWWFTVWNIFFAN 171 (424)
Q Consensus 123 l~l~~~~~llP~i~~~ls~---~eg~~s~S~~~~s~~~k~f~f~~~N~~lv~ 171 (424)
++-++.+..+|....+.++ ++|....|+.++....-.-.-..+|+.++.
T Consensus 9 l~fs~~M~~lPl~~ff~~~~~~~~~~~~~~~~~~~~~sgi~Avi~vnvVl~~ 60 (66)
T PF09446_consen 9 LFFSVLMFTLPLGTFFGFKYFLFDGFFGLSPSDNTIYSGIAAVIVVNVVLAS 60 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccCCcchhhHHHHHHHHHHHHHHHHH
Confidence 4456667789999998886 467777888888888888777778877654
Done!