Query 004125
Match_columns 772
No_of_seqs 323 out of 983
Neff 7.6
Searched_HMMs 46136
Date Thu Mar 28 17:59:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004125.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004125hhsearch_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 1E-132 2E-137 1159.8 61.5 724 1-743 1-728 (728)
2 COG5594 Uncharacterized integr 100.0 7E-119 1E-123 1007.4 54.4 656 3-682 20-721 (827)
3 PF02714 DUF221: Domain of unk 100.0 1.3E-66 2.9E-71 567.6 35.6 323 323-646 1-325 (325)
4 PF13967 RSN1_TM: Late exocyto 100.0 2.4E-34 5.1E-39 280.0 13.4 156 6-180 1-157 (157)
5 PF14703 DUF4463: Domain of un 99.0 3.8E-10 8.3E-15 98.2 5.9 65 238-302 1-85 (85)
6 PF04547 Anoctamin: Calcium-ac 99.0 3.9E-07 8.5E-12 104.2 30.5 213 422-647 162-398 (452)
7 KOG2513 Protein required for m 97.8 0.013 2.8E-07 66.8 26.2 258 366-653 261-564 (647)
8 TIGR01659 sex-lethal sex-letha 95.6 0.05 1.1E-06 60.0 9.1 42 197-243 103-144 (346)
9 KOG0144 RNA-binding protein CU 93.8 0.26 5.7E-06 53.9 8.9 132 201-343 34-188 (510)
10 PLN03134 glycine-rich RNA-bind 92.9 0.86 1.9E-05 43.7 10.1 36 200-240 33-68 (144)
11 TIGR01628 PABP-1234 polyadenyl 92.8 0.77 1.7E-05 54.2 11.8 165 203-378 2-200 (562)
12 TIGR01661 ELAV_HUD_SF ELAV/HuD 92.1 0.28 6E-06 54.1 6.5 37 201-242 3-39 (352)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 90.8 1 2.2E-05 49.6 9.2 35 202-241 270-304 (352)
14 TIGR01648 hnRNP-R-Q heterogene 90.8 0.87 1.9E-05 53.4 8.9 39 200-243 57-95 (578)
15 PLN03120 nucleic acid binding 90.7 1.4 3E-05 46.2 9.3 33 201-238 4-36 (260)
16 KOG0122 Translation initiation 90.5 1.1 2.4E-05 45.8 8.1 34 320-353 231-266 (270)
17 PF07810 TMC: TMC domain; Int 86.9 4.4 9.5E-05 37.0 8.7 56 559-617 47-105 (111)
18 TIGR01628 PABP-1234 polyadenyl 86.3 3 6.5E-05 49.3 9.6 37 200-241 177-213 (562)
19 TIGR01648 hnRNP-R-Q heterogene 84.6 4.2 9.1E-05 47.8 9.4 37 321-357 270-308 (578)
20 TIGR01645 half-pint poly-U bin 82.3 5 0.00011 47.4 8.8 44 319-362 245-290 (612)
21 KOG2514 Uncharacterized conser 81.5 9.9 0.00021 45.7 10.7 52 426-477 436-487 (861)
22 TIGR01622 SF-CC1 splicing fact 81.0 7.1 0.00015 44.7 9.5 37 200-241 88-124 (457)
23 KOG0125 Ataxin 2-binding prote 80.3 8 0.00017 41.4 8.5 48 321-368 137-196 (376)
24 KOG0149 Predicted RNA-binding 79.3 5 0.00011 41.0 6.5 19 321-339 55-73 (247)
25 PF13893 RRM_5: RNA recognitio 77.3 3.5 7.6E-05 32.1 3.9 24 320-343 21-44 (56)
26 TIGR01642 U2AF_lg U2 snRNP aux 77.3 18 0.00039 42.0 11.5 36 201-241 295-330 (509)
27 KOG0148 Apoptosis-promoting RN 75.1 4.5 9.8E-05 42.1 4.8 117 200-340 5-124 (321)
28 KOG0145 RNA-binding protein EL 74.6 24 0.00052 36.6 9.8 136 203-347 43-196 (360)
29 KOG0127 Nucleolar protein fibr 73.1 13 0.00028 42.5 8.1 34 320-363 334-367 (678)
30 TIGR01649 hnRNP-L_PTB hnRNP-L/ 69.9 39 0.00084 39.1 11.7 35 200-239 274-309 (481)
31 PLN03121 nucleic acid binding 67.4 8.3 0.00018 39.9 4.8 38 199-241 3-40 (243)
32 KOG0117 Heterogeneous nuclear 65.2 38 0.00082 37.9 9.5 37 318-354 206-246 (506)
33 PF15176 LRR19-TM: Leucine-ric 64.3 24 0.00053 31.3 6.3 24 615-638 8-31 (102)
34 PF00076 RRM_1: RNA recognitio 60.8 12 0.00027 29.8 3.9 32 204-240 1-32 (70)
35 KOG4206 Spliceosomal protein s 60.3 14 0.0003 37.7 4.8 44 319-362 51-96 (221)
36 smart00361 RRM_1 RNA recogniti 58.8 10 0.00022 31.2 3.1 25 319-343 36-60 (70)
37 PF04059 RRM_2: RNA recognitio 58.5 14 0.0003 32.9 4.0 23 320-342 45-67 (97)
38 PF14259 RRM_6: RNA recognitio 57.2 17 0.00037 29.3 4.2 32 204-240 1-32 (70)
39 TIGR01659 sex-lethal sex-letha 56.4 24 0.00053 39.0 6.4 58 320-377 149-214 (346)
40 PF00076 RRM_1: RNA recognitio 52.9 13 0.00028 29.7 2.8 24 319-342 38-61 (70)
41 KOG0107 Alternative splicing f 52.9 13 0.00029 36.4 3.2 34 319-352 46-81 (195)
42 PF02654 CobS: Cobalamin-5-pho 52.9 1.3E+02 0.0028 31.3 10.9 124 549-677 85-213 (235)
43 smart00362 RRM_2 RNA recogniti 52.1 21 0.00045 28.0 3.9 21 321-341 40-60 (72)
44 PF07292 NID: Nmi/IFP 35 domai 52.1 3.7 8E-05 35.8 -0.7 30 198-227 49-79 (88)
45 PF14259 RRM_6: RNA recognitio 50.6 12 0.00027 30.2 2.3 23 319-341 38-60 (70)
46 KOG0108 mRNA cleavage and poly 48.8 49 0.0011 37.7 7.3 36 319-354 59-96 (435)
47 KOG0117 Heterogeneous nuclear 45.2 36 0.00079 38.1 5.3 85 293-377 95-185 (506)
48 smart00362 RRM_2 RNA recogniti 44.8 27 0.00059 27.2 3.5 23 203-228 1-23 (72)
49 cd00590 RRM RRM (RNA recogniti 44.4 34 0.00073 26.8 4.0 24 320-343 40-63 (74)
50 smart00360 RRM RNA recognition 44.3 27 0.00059 27.1 3.4 23 319-341 37-59 (71)
51 KOG1365 RNA-binding protein Fu 39.6 1.7E+02 0.0038 32.3 9.2 25 318-342 322-346 (508)
52 PF03699 UPF0182: Uncharacteri 39.4 8.3E+02 0.018 30.2 24.5 18 595-612 211-228 (774)
53 KOG1457 RNA binding protein (c 38.5 45 0.00099 34.0 4.4 24 319-342 76-99 (284)
54 cd00590 RRM RRM (RNA recogniti 38.2 37 0.00081 26.6 3.3 32 203-239 1-32 (74)
55 KOG0109 RNA-binding protein LA 37.5 38 0.00082 35.9 3.8 35 204-243 5-39 (346)
56 KOG0226 RNA-binding proteins [ 35.1 56 0.0012 34.1 4.6 23 319-341 231-253 (290)
57 KOG0146 RNA-binding protein ET 34.9 61 0.0013 33.9 4.8 48 319-378 59-111 (371)
58 PF14362 DUF4407: Domain of un 34.4 1.5E+02 0.0033 31.9 8.2 58 588-646 46-106 (301)
59 COG0368 CobS Cobalamin-5-phosp 33.5 4.7E+02 0.01 27.4 11.3 127 549-678 89-218 (246)
60 KOG3142 Prenylated rab accepto 30.8 54 0.0012 32.8 3.6 44 565-608 65-109 (187)
61 PF01102 Glycophorin_A: Glycop 29.9 43 0.00094 31.1 2.6 19 14-32 75-93 (122)
62 PRK00068 hypothetical protein; 29.8 1.3E+03 0.027 29.4 24.2 34 596-631 224-257 (970)
63 COG5438 Predicted multitransme 27.3 5.7E+02 0.012 28.5 10.8 59 427-485 207-265 (385)
64 KOG4208 Nucleolar RNA-binding 26.7 62 0.0013 32.7 3.2 23 319-341 91-113 (214)
65 PF06570 DUF1129: Protein of u 26.4 5.7E+02 0.012 25.8 10.4 20 658-677 183-202 (206)
66 TIGR01622 SF-CC1 splicing fact 26.3 1.3E+02 0.0028 34.4 6.3 37 319-355 409-447 (457)
67 KOG1548 Transcription elongati 25.5 1.2E+02 0.0026 33.1 5.2 46 298-343 286-337 (382)
68 PF09874 DUF2101: Predicted me 24.7 3.3E+02 0.0071 27.6 7.7 93 581-682 50-146 (206)
69 PF11823 DUF3343: Protein of u 23.9 1.1E+02 0.0024 25.3 3.9 36 321-359 2-37 (73)
70 PF05620 DUF788: Protein of un 23.2 3.8E+02 0.0081 26.3 8.0 57 596-652 52-117 (170)
71 KOG4205 RNA-binding protein mu 21.7 37 0.00081 36.8 0.6 153 200-360 5-179 (311)
72 PF03208 PRA1: PRA1 family pro 21.2 2.6E+02 0.0056 26.7 6.4 39 571-609 42-81 (153)
73 PRK12438 hypothetical protein; 20.9 1.8E+03 0.039 28.2 24.4 34 598-631 224-257 (991)
74 KOG0132 RNA polymerase II C-te 20.7 1.6E+02 0.0034 35.6 5.3 62 294-358 434-499 (894)
75 KOG0144 RNA-binding protein CU 20.6 1.3E+02 0.0029 33.7 4.5 24 319-342 75-98 (510)
76 PF04059 RRM_2: RNA recognitio 20.2 96 0.0021 27.6 2.8 23 202-224 2-25 (97)
77 KOG0114 Predicted RNA-binding 20.2 1E+02 0.0022 27.9 2.8 26 319-344 56-81 (124)
No 1
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.1e-132 Score=1159.80 Aligned_cols=724 Identities=51% Similarity=0.870 Sum_probs=674.7
Q ss_pred CCchhhhHHHHHHHHHHHHHHHHHHHHHcCCCCCCceeccccccCCCCCCCCCCCccccccccccccccCcc-ccchhhh
Q 004125 1 MATLADIGVSAALNILGAFIFLIAFAILRLQPFNDRVYFPKWYLKGLRDSPTHGGAFVRKFVNLDFRSYIRF-LNWMPEA 79 (772)
Q Consensus 1 ~~~~~~~~~sl~in~~~~~~~~~~F~~LR~~p~~~~vY~Pr~~~~~~~~~p~~~~~~~~~~~~l~~~~~~~~-f~Wi~~~ 79 (772)
||+.++++.+..+|...+..++.+|.+++.+|+|++||.|+|++.+.+..|..... ...+++. |+|++++
T Consensus 1 ~~~~~~~~~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~~---------~~~~~~~~~~Wl~~~ 71 (728)
T KOG1134|consen 1 MATFESIGISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESKV---------EPVPSSVNFGWLPAL 71 (728)
T ss_pred CCccccccccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCccccC---------CCCCCcccccchHHH
Confidence 78888899999999999999999999999999999999999999987655543211 1234455 9999999
Q ss_pred cCCChhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHhhheeeeeecCCCccccccccCccCCccccccccCCCCCCcch
Q 004125 80 LKMPEPELIEHAGLDSAVYLRIYLIGLKIFVPIALVAWSVLVPVNWTNDTLDVAVKISNVTASDIDKLSISNVPLKSQRF 159 (772)
Q Consensus 80 ~~~~e~eil~~~GlDa~~fLrfl~~~~~if~~~~i~~~~iLlPvn~~~~~~~~~~~~~~~~~~~l~~lsisNv~~~s~~l 159 (772)
+|++|+|++++||+||++||||+++++++|+++++++++||+|||+++++.+..+ ..++|++|++|++.+|+++
T Consensus 72 ~k~~~~ei~~~~GlDa~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~~------~~s~~~ls~snv~~~s~~l 145 (728)
T KOG1134|consen 72 LKIPDEEILEHAGLDAYVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELGN------EDSLDKLSISNVQPGSSLL 145 (728)
T ss_pred hcCCHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCcccccc------cchhhhhhheeccCCCCCE
Confidence 9999999999999999999999999999999999999999999999999886431 1279999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcCCCCCcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEE
Q 004125 160 WTHVVMAYAFTFWTCYVLLKEYEKVANLRLQFVASEKRRPDQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVV 239 (772)
Q Consensus 160 w~h~i~~~~~t~~~~~~L~~ey~~~~~~R~~~l~s~~~~~~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~ 239 (772)
|+|++++|++++|+||++++||+++..+|+++++++.+++++.|++++++|+..+.+..+.++++|...+|+++.+++++
T Consensus 146 w~Hv~~~y~~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~ 225 (728)
T KOG1134|consen 146 WAHVFFTYLFTFFTLFILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPPPDGVSVSVIVRHFFSLNHPVKVRSHQVV 225 (728)
T ss_pred EEEeehhHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccCCCCCchhhHHhhhhhccCCceeehhHHH
Confidence 99999999999999999999999999999999999999999999999999976666778899999999999999999999
Q ss_pred ecchhHHHHHHHHHHH-HHHHHHhHhhhhcCCCCCCcccccccCCCCccccHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q 004125 240 VNANKLAKLVKKKKKL-QNWLDYYQLKYSRNNSKRPMMKTGFLGLWGEKVDGIDYHISEIEKLSKEIAEERERVVSDPKA 318 (772)
Q Consensus 240 ~~~~~L~~L~~~r~~~-~~~Le~~~~k~~r~~~~Rp~~r~g~~g~~g~kvDaI~~~~~~i~~L~~~I~~~r~~~~~~~~~ 318 (772)
||.+++.++.++++|+ ++++.+...+..++..+||++|.|+||++|+||||||||++|+++++++|+++|+...++ +
T Consensus 226 ~~~~~l~~l~~~~~k~~~~~l~~~~~~~~~~~~~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~~~~~~~~~--~ 303 (728)
T KOG1134|consen 226 YNESKLSKLLSKLKKLRENKLYKEHKRLKSNPKKRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEELRESLYEE--K 303 (728)
T ss_pred hhHHHHHHHHHHHHHHhHHHHHHhhhhhccccccCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHHHHHHHHhc--C
Confidence 9999999999999999 666666665555554589999999999999999999999999999999999999998776 3
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCCCCcceeeeCCCCCCeeecccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRNPTLWLTEWASEPRDVYWQNLAIPYVSLSVRRLIMGVAFFFLTFFFMIPIAIVQS 398 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~p~~~~v~~APeP~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPva~v~~ 398 (772)
..|+|||||+|+++|+.|+|++++.++..|.++.||||+||+|+||.++..+|+.|+++++++++++++||++|+|+||+
T Consensus 304 ~~~~aFVtf~sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~li~f~~iPva~V~~ 383 (728)
T KOG1134|consen 304 PLPAAFVTFKSRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFLLLFFWIIPVAFVQA 383 (728)
T ss_pred CCceEEEEEEeeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhchhhhhhhcCcchhhhhchhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhcCCcchhHHHHHhhhhhhhhHHHHHHH
Q 004125 399 FASIEGIEKAVPFLKPVIEAKFIKSVIQGFLPGIALKLFLIFLPTILMIMSKFEGFISLSSLERRAATRYYLFNFVNVFL 478 (772)
Q Consensus 399 l~~l~~l~~~~p~l~~~~~~~~~~~li~g~LP~l~l~i~~~lLP~il~~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvfl 478 (772)
++|+++|++.+||++++.+.++++++|+|+||++++.++++++|.++++++++|||.|+|+.|++++.|||+|+++|+|+
T Consensus 384 l~nl~~l~~~~Pflk~i~~~~~i~~vI~gfLP~l~l~~~~~~lP~~l~~ls~~eG~~s~S~~e~~a~~k~~~F~~~nvFl 463 (728)
T KOG1134|consen 384 LTNLEGLSKVFPFLKPILEMKFISSVITGFLPTLALVIFLALLPPFLRYLSKLEGLISRSEEERSALNKYYIFLLVNVFL 463 (728)
T ss_pred HHhhhhhhhccchhhhhhhcchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHhHHHHHHhhhHH
Confidence 99999999999999999888999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhHHHHHHHHhcccCCCHHHHHhhhcCchhHHHHHHHHHHHhhhhHHHHHhhHHHHHHHHHHhhhcCCHHHHhhh
Q 004125 479 GSIIAGTAFEQLNSFLKQSANDIPKTIGIAIPKKATFFITYIMVDGWAGIAGEILMLKPLIIFHLKNFFLVKTEKDRVEA 558 (772)
Q Consensus 479 v~~i~~s~~~~l~~~~~~p~~~i~~~L~~~lP~~s~FFi~yii~~~~~~~~~~Llr~~~li~~~~~~~~~~~T~re~~~~ 558 (772)
+++++|++++++..++++| .+++..+|.++|++++||++|++++||+|.++|++|+++|+++++++.+..+|||++++.
T Consensus 464 ~~~l~~sa~~~~~~~l~~p-~~i~~~la~~lP~~a~Ff~~yii~~g~~g~~~ellrl~~Li~~~i~~~~~~~t~~~~~e~ 542 (728)
T KOG1134|consen 464 VVTLSGSALRQLLSILSTP-RLIPKLLAAALPKQASFFITYIITSGWAGFAGELLRLVPLIIYLLKKLFLKSTPRDREER 542 (728)
T ss_pred HhhhhHHHHHHHHHHhcCH-hHHHHHHhhhChhhHHHHHHHHHHhccchhhHHHhcchhHHHHHHHHHHcccchhhhhhh
Confidence 9999999999999999887 899999999999999999999999999999999999999999999999999999999999
Q ss_pred cCC-CCCCcccchhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhheeeeccCCCcccccHHHHHHHHHHHHHH
Q 004125 559 MDP-GSLGFNSGEPRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQIINVYNQRYESAAAFWPDVHRRIIAALII 637 (772)
Q Consensus 559 ~~~-~~f~~g~~y~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~llyvy~~~~esgG~~wp~~~~~~~~~l~i 637 (772)
++| +.+++|..||+.+++++||++||++||+|+|||++||+++|+|||||++|||.++|||||++||.+|+++++|+++
T Consensus 543 ~~p~~~~~~g~~yP~~~~~f~i~i~YsviaPlILpF~lvyF~l~y~vyr~ql~yvy~~~yes~g~~wp~ih~~ii~~l~l 622 (728)
T KOG1134|consen 543 YEPLSSFYFGTIYPRILLIFTIGICYSVIAPLILPFGLVYFCLAYLVYRYQLIYVYNQKYESGGRFWPDIHRRIIFGLIL 622 (728)
T ss_pred cCCccccchhhhccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhhheeecccccccccchHHHHHHHHHHHHH
Confidence 987 8899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHHhhhhhhhccCchhHhhhcchhhhhcCCCc-chhhhhhcccCCCC
Q 004125 638 SQLLLMGLLSTKKAALSTPFLIALPVLTIWFHYFSKDRYESAFVKYPLQEAMMKDTLERAREPNL-NLKGYLRNAYIHPV 716 (772)
Q Consensus 638 ~q~~m~glf~lk~~~~~~~~~~~l~i~ti~f~~~~~~~~~~~~~~~pl~~a~~~d~~~~~~~~~~-~~~~~~~~~Y~~P~ 716 (772)
||++|+|+|++|+++..+.+++|++++|++||.+|+.+|.|.+.++|+++++.+|+.|+.++|+. +..+++.++|.||+
T Consensus 623 ~ql~l~gl~~~k~~~~~s~~~~~l~~lTi~~~~~c~~rf~p~f~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~ 702 (728)
T KOG1134|consen 623 FQLILFGLFSLKKGAVASVLLFPLIVLTILFHIYCKGRFLPLFIAYPIEEAEVDDTLDEEREPNMENLYNYLKSAYVLPV 702 (728)
T ss_pred HHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHhhhccccccccchhhhhhccCCccccCCChhhccccccccccCcc
Confidence 99999999999999999999999999999999999999999999999999999999998777755 56788999999999
Q ss_pred CCCCCCCchhhcccccccccccccccc
Q 004125 717 FKGEDDDDDALFNNEENENVLVLTKRQ 743 (772)
Q Consensus 717 l~~~~~~~~~~~~~~~~~~~~~~~~~~ 743 (772)
+.+.+|+++ ..+..+++++++.||++
T Consensus 703 ~~~~~~~~~-~~~~~~~~~~~~~~~~~ 728 (728)
T KOG1134|consen 703 FLSGSDSDG-SELSSEEKSPIVLTKRN 728 (728)
T ss_pred ccccccccc-cccccccCCcHhhcCCC
Confidence 998875543 22233444777777763
No 2
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=6.7e-119 Score=1007.39 Aligned_cols=656 Identities=27% Similarity=0.470 Sum_probs=600.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHcCCCCCCceeccccccCCCCCCCCCCCccccccccccccccCccccchhhhcCC
Q 004125 3 TLADIGVSAALNILGAFIFLIAFAILRLQPFNDRVYFPKWYLKGLRDSPTHGGAFVRKFVNLDFRSYIRFLNWMPEALKM 82 (772)
Q Consensus 3 ~~~~~~~sl~in~~~~~~~~~~F~~LR~~p~~~~vY~Pr~~~~~~~~~p~~~~~~~~~~~~l~~~~~~~~f~Wi~~~~~~ 82 (772)
+++++.|+++++..++++++++|++||+ +++++|+||+..++.. .+++.+.|+|+|||+.+++++
T Consensus 20 s~~~~~t~l~f~~~~~~~~l~~f~iLR~--r~k~lY~pr~~~~~~~-------------~~~P~~~~ss~~gWl~~L~~i 84 (827)
T COG5594 20 STSAVITQLVFAGLIFLVFLILFLILRK--RWKRLYAPRTNFDGQN-------------ECLPEPNPSSYWGWLEPLVKI 84 (827)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHH--HHhHhcCcceeecCCC-------------cccCCCCccchHHHHHHHHhC
Confidence 4789999999999999999999999996 5999999999887642 123334678999999999999
Q ss_pred ChhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHhhheeeeeecCCCccccccccCccCCccccccccCCCCCCcchhhH
Q 004125 83 PEPELIEHAGLDSAVYLRIYLIGLKIFVPIALVAWSVLVPVNWTNDTLDVAVKISNVTASDIDKLSISNVPLKSQRFWTH 162 (772)
Q Consensus 83 ~e~eil~~~GlDa~~fLrfl~~~~~if~~~~i~~~~iLlPvn~~~~~~~~~~~~~~~~~~~l~~lsisNv~~~s~~lw~h 162 (772)
+|+.+++++|+|||+||||+|||++++++.|+++++||+|||++.++..+. + ..+.++++++|++|+.+ ++++|+|
T Consensus 85 ~d~~~l~~aGlD~y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~g--n-~~s~s~l~~Ls~~Nv~~-~n~~~aH 160 (827)
T COG5594 85 PDEFLLQYAGLDGYFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATNG--N-SDSESGLDKLSISNVSP-SNRLYAH 160 (827)
T ss_pred CHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHhHEeeeeeecccccccC--C-ccchhhhhHhhhhcccC-CCceeee
Confidence 999999999999999999999999999999999999999999887543221 0 12458999999999986 7899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcCC---------CCCcceEEEecCCCCCCcchHHHHHHhhhccCCCce
Q 004125 163 VVMAYAFTFWTCYVLLKEYEKVANLRLQFVASEKR---------RPDQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHY 233 (772)
Q Consensus 163 ~i~~~~~t~~~~~~L~~ey~~~~~~R~~~l~s~~~---------~~~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v 233 (772)
++.+|++.++++|.+++||+.+..+||++++++.. +.++|||+++++|.+... .+.+.++|++..-+++
T Consensus 161 vf~~~~f~~~vlfii~~el~~y~~lr~a~~~~p~y~qs~~~~~~~~ssRTvlis~LP~~~~~--~e~L~~~~~kl~~~~i 238 (827)
T COG5594 161 VFLSWFFFGYVLFIIFRELRFYVVLRQAYLRSPLYQQSLLTLQNNLSSRTVLISGLPSELRS--DEELKELFDKLKVGEI 238 (827)
T ss_pred eehhHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHhhccCCCCceEEeecCChhhcC--chhHHHHHhhcCeeee
Confidence 99999999999999999999999999999998752 348899999999995422 1457888888888888
Q ss_pred eEEEEEecchhHHHHHHHHHHHHHHHHHhHh-------hh-----hc--------------------CCCCCCccccccc
Q 004125 234 LTHQVVVNANKLAKLVKKKKKLQNWLDYYQL-------KY-----SR--------------------NNSKRPMMKTGFL 281 (772)
Q Consensus 234 ~~v~i~~~~~~L~~L~~~r~~~~~~Le~~~~-------k~-----~r--------------------~~~~Rp~~r~g~~ 281 (772)
.+..+|||.+.++++.++|++..+++|.+.+ |. .+ ...+||+||.+-.
T Consensus 239 ~~~~l~~~~~~l~~l~k~R~ki~~klE~~~~~~~~~~~K~~~~~~~K~~~~L~~~~~k~~~~~~~y~~~~~Rp~~~i~k~ 318 (827)
T COG5594 239 DSDVLCRDLGTLQELYKERDKILKKLEKALNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEILPEYVPDKKRPKHRIKKL 318 (827)
T ss_pred ccchhhhhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHhhccCCCCCCCcccccchhhhhhccccccchhhhhhh
Confidence 8899999999999999999999998884321 11 00 1136999998765
Q ss_pred --CCCCccccHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCeEEEEecCHHHHHHHHHhccCCCCCcce-eeeCCCCCC
Q 004125 282 --GLWGEKVDGIDYHISEIEKLSKEIAEERERVVSDPKAIMPAAFVSFNSRWGAAVCAQTQQTRNPTLWL-TEWASEPRD 358 (772)
Q Consensus 282 --g~~g~kvDaI~~~~~~i~~L~~~I~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~q~~~~~~p~~~~-v~~APeP~D 358 (772)
|+.|+|||+|||+++++.+++++|++.|+...... .+++|||||+|+..||+|+|.+..+++.... ++.||+|+|
T Consensus 319 ~~~i~gKkVdaI~y~s~~l~~l~~~i~~~r~~~~~~t--~~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iapaPnD 396 (827)
T COG5594 319 NKGIFGKKVDAIDYYSAKLTKLDAEIENARKSLYENT--PTKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAPAPND 396 (827)
T ss_pred hhhhccceecHHHHHHHHHHHHHHHHHHHHhCccccC--ccccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecCCccc
Confidence 78899999999999999999999999999765432 4679999999999999999999999887776 999999999
Q ss_pred eeecccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhhhcCcchhh-hhchhHHHHHhhhhhHHHHHHH
Q 004125 359 VYWQNLAIPYVSLSVRRLIMGVAFFFLTFFFMIPIAIVQSFASIEGIEKAVPFLKPV-IEAKFIKSVIQGFLPGIALKLF 437 (772)
Q Consensus 359 IiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPva~v~~l~~l~~l~~~~p~l~~~-~~~~~~~~li~g~LP~l~l~i~ 437 (772)
|+|+|+..++++|..|++.+++++++++++|++|||+|+.++|++++++.+||++.+ .+.|+++++++|+||++++.++
T Consensus 397 i~W~Nl~ls~~~r~~k~~~~ni~~il~II~w~~pVa~v~~i~Nl~~l~~~~p~l~~il~~~~~l~~iltglLptv~~~~l 476 (827)
T COG5594 397 IIWDNLRLSRKERLFKRISANILFILLIILWAFPVAFVGTISNLNTLSSLWPFLKFILKDPPFLAGILTGLLPTVALSLL 476 (827)
T ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHhhhhHHHHHHHhccHHHHHHHHhhhhHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999 4567999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCcchhHHHHHhhhhhhhhHHHHHHHHHHhhhhHHHHHHHHhcccCCCHHHHHhhhcCchhHHHH
Q 004125 438 LIFLPTILMIMSKFEGFISLSSLERRAATRYYLFNFVNVFLGSIIAGTAFEQLNSFLKQSANDIPKTIGIAIPKKATFFI 517 (772)
Q Consensus 438 ~~lLP~il~~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvflv~~i~~s~~~~l~~~~~~p~~~i~~~L~~~lP~~s~FFi 517 (772)
+.++|+++++|+++||..|+|+.|+.++.|||.|+|+|+|+|.+++|++.+.+.+.+++| .+++..||+++|++|+||+
T Consensus 477 ~~ivP~fir~Ls~~qG~~S~se~E~~~~~k~~~f~fv~~FlV~Tl~s~fss~v~~~~ke~-~s~~~llA~~lpk~SnFfi 555 (827)
T COG5594 477 MSIVPYFIRWLSYMQGLVSYSEEEIYVQNKYFAFLFVNLFLVVTLASSFSSIVWSLLKEP-TSIMTLLANNLPKASNFFI 555 (827)
T ss_pred HHHhHHHHHHHHHhcCccchHHHHHHHHhhhhhheeeeehheeeehhHHHHHHHHHhcCh-HhHHHHHHhccHHHHHHHH
Confidence 999999999999999999999999999999999999999999999998888888899999 9999999999999999999
Q ss_pred HHHHHHHhhhhHHHHHhhHHHHHHHHHHhhhcCCHHHH-hhhcCCCCCCcccchhHHHHHHHHHHHHhhhhhHHHHHHHH
Q 004125 518 TYIMVDGWAGIAGEILMLKPLIIFHLKNFFLVKTEKDR-VEAMDPGSLGFNSGEPRIQFYFLLGLVYATVTPLLLPFIIV 596 (772)
Q Consensus 518 ~yii~~~~~~~~~~Llr~~~li~~~~~~~~~~~T~re~-~~~~~~~~f~~g~~y~~~ll~~~i~l~Ys~i~Plilpf~~~ 596 (772)
+||++||+++.+++|+|+++|+.++++.+|.++|||++ +++..|+.|+||..||+.+++++|+++||+++|+|+.||++
T Consensus 556 ~~iilqgl~~~~~~LLqi~~Ll~~~vl~kf~~~TpR~k~nr~~~~~~f~~G~v~P~~~~l~~I~icYSiisPlILlf~~v 635 (827)
T COG5594 556 SYIILQGLSGFPGTLLQIVPLLLSLVLGKFKDSTPRQKWNRLETPPSFQFGTVLPQPILLFTITICYSIISPLILLFGAV 635 (827)
T ss_pred HHHHHhcccccchHHHHHHHHHHHHhhhhhcCCChHHHHhhccCCCccccccccchhHHHHHHHHHHHHHhHHHHHHHHH
Confidence 99999999999999999999999999999999999986 77888999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhheeeeccCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHHhhh
Q 004125 597 FFALAYVVFRHQIINVYNQRYESAAAFWPDVHRRIIAALIISQLLLMGLLSTKKAALSTPFLIALPVLTIWFHYFSKDRY 676 (772)
Q Consensus 597 yF~l~y~v~Ky~llyvy~~~~esgG~~wp~~~~~~~~~l~i~q~~m~glf~lk~~~~~~~~~~~l~i~ti~f~~~~~~~~ 676 (772)
||++.|++|||+++|+++.++||||++||++++|+++|+++||+||+|+|++.++|..+.+++|++++|++||.+|+..|
T Consensus 636 ~F~~~ylaykY~l~Yv~~~~~es~G~~w~~al~qiivGl~l~qv~l~glf~~~k~~~ls~~~~p~~~~Tvi~~~~~~~~f 715 (827)
T COG5594 636 YFILNYLAYKYNLIYVSNHSPESGGGYWPRALFQIIVGLYLFQVCLLGLFSLAKGWGLSVLLFPLIVFTVIFHYYFKKMF 715 (827)
T ss_pred HHHHHHHHHHHHhhhccCCCcccCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCcceeEeehHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcc
Q 004125 677 ESAFVK 682 (772)
Q Consensus 677 ~~~~~~ 682 (772)
.|+.++
T Consensus 716 ~pl~~~ 721 (827)
T COG5594 716 DPLSKY 721 (827)
T ss_pred cccccc
Confidence 977533
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=567.56 Aligned_cols=323 Identities=34% Similarity=0.680 Sum_probs=314.1
Q ss_pred EEEEecCHHHHHHHHHhccCCCCCcceeeeCCCCCCeeecccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 004125 323 AFVSFNSRWGAAVCAQTQQTRNPTLWLTEWASEPRDVYWQNLAIPYVSLSVRRLIMGVAFFFLTFFFMIPIAIVQSFASI 402 (772)
Q Consensus 323 AFVtF~s~~~A~~~~q~~~~~~p~~~~v~~APeP~DIiW~NL~~~~~~r~~R~~~~~~~~~~l~if~~iPva~v~~l~~l 402 (772)
|||||+++++|+.|+|...+++|..|.+++||||+||+|+||+.+..+|..|++++++++++++++|++|++++++++|+
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 hhhhhhcCcchhh-hhchhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhcCCcchhHHHHHhhhhhhhhHHHHHHHHHH
Q 004125 403 EGIEKAVPFLKPV-IEAKFIKSVIQGFLPGIALKLFLIFLPTILMIMSKFEGFISLSSLERRAATRYYLFNFVNVFLGSI 481 (772)
Q Consensus 403 ~~l~~~~p~l~~~-~~~~~~~~li~g~LP~l~l~i~~~lLP~il~~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvflv~~ 481 (772)
+++++..|++++. ..++...++++|++|++++.++|.++|.+++.++++|||.|+|+.|+++++|+|+|+++|++++++
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 9999999999998 445688899999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHhcccCCCHHHHHhhhcCchhHHHHHHHHHHHhhhhHHHHHhhHHHHHHHHHHhhhcCCHHHHhhhc-C
Q 004125 482 IAGTAFEQLNSFLKQSANDIPKTIGIAIPKKATFFITYIMVDGWAGIAGEILMLKPLIIFHLKNFFLVKTEKDRVEAM-D 560 (772)
Q Consensus 482 i~~s~~~~l~~~~~~p~~~i~~~L~~~lP~~s~FFi~yii~~~~~~~~~~Llr~~~li~~~~~~~~~~~T~re~~~~~-~ 560 (772)
+++++++.+.++.++| +++.+.+|+++|++++||++|++++++.+.+++|+|+++++++.+++++..+||||+++.+ +
T Consensus 161 l~~~~~~~~~~~~~~~-~~i~~~l~~~lp~~s~ffi~~ii~~~~~~~~~~Ll~~~~l~~~~~~~~~~~~t~r~~~~~~~~ 239 (325)
T PF02714_consen 161 LAGTILSALKNIINNP-GSILQLLGNFLPNSSNFFINYIILQAFIGSPLELLRPPPLIIYYIRRKFFSKTPRELNELYTE 239 (325)
T ss_pred hhHHHHHHHHHHHhCc-chHHHHHHHHhhhhhHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhcCC
Confidence 9999999999999889 8999999999999999999999999999999999999999999998887779999999988 9
Q ss_pred CCCCCcccchhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhheeeeccCCCcccccHHHHHHHHHHHHHHHHH
Q 004125 561 PGSLGFNSGEPRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQIINVYNQRYESAAAFWPDVHRRIIAALIISQL 640 (772)
Q Consensus 561 ~~~f~~g~~y~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~llyvy~~~~esgG~~wp~~~~~~~~~l~i~q~ 640 (772)
+++|+||..||+.+++++++++||+++|+++|+|++||++.|++||||++|||+++|||||++||.+++++++|++++|+
T Consensus 240 ~~~f~~~~~ya~~l~v~~i~l~ys~i~Plil~~~~~yf~l~y~v~ky~llyvy~~~~es~G~~~~~~~~~~~~~l~i~q~ 319 (325)
T PF02714_consen 240 PPPFDYGYQYAQMLLVFFIGLFYSPIAPLILPFGLVYFLLKYFVDKYNLLYVYRPKYESGGRLWPTAFNRLLFGLVIFQF 319 (325)
T ss_pred CCCCcchHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhheeeeccCCCCCCchHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHH
Q 004125 641 LLMGLL 646 (772)
Q Consensus 641 ~m~glf 646 (772)
+|+|+|
T Consensus 320 ~~~g~f 325 (325)
T PF02714_consen 320 TMIGLF 325 (325)
T ss_pred HHHHhC
Confidence 999986
No 4
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=2.4e-34 Score=280.00 Aligned_cols=156 Identities=36% Similarity=0.672 Sum_probs=136.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCCCCceeccccccCC-CCCCCCCCCccccccccccccccCccccchhhhcCCCh
Q 004125 6 DIGVSAALNILGAFIFLIAFAILRLQPFNDRVYFPKWYLKG-LRDSPTHGGAFVRKFVNLDFRSYIRFLNWMPEALKMPE 84 (772)
Q Consensus 6 ~~~~sl~in~~~~~~~~~~F~~LR~~p~~~~vY~Pr~~~~~-~~~~p~~~~~~~~~~~~l~~~~~~~~f~Wi~~~~~~~e 84 (772)
++++++++|++++++++++|++||+| ++++|+||.+.++ ..+.|.+ ..+.|+|+|++++++++|
T Consensus 1 s~~~sl~~~~~i~~~~~~~F~~lR~~--~~~iY~pR~~~~~~~~~~~~~-------------~~~~g~f~Wi~~~~~~~d 65 (157)
T PF13967_consen 1 SFLTSLAINLIIFLVLLLLFCILRKR--FPRIYQPRSYLPHPEPERPPP-------------LPSRGFFGWIKPVFKISD 65 (157)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhc--cHHhcccccccCCcccccCCC-------------CCCCCchHHHHHHHcCCH
Confidence 58999999999999999999999975 8999999998863 1111110 123599999999999999
Q ss_pred hHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHhhheeeeeecCCCccccccccCccCCccccccccCCCCCCcchhhHHH
Q 004125 85 PELIEHAGLDSAVYLRIYLIGLKIFVPIALVAWSVLVPVNWTNDTLDVAVKISNVTASDIDKLSISNVPLKSQRFWTHVV 164 (772)
Q Consensus 85 ~eil~~~GlDa~~fLrfl~~~~~if~~~~i~~~~iLlPvn~~~~~~~~~~~~~~~~~~~l~~lsisNv~~~s~~lw~h~i 164 (772)
+|++++||+||++|+||+||++++|+++++++++||+|+|++|++.++. ....+++|++|++|++++++++|+|++
T Consensus 66 ~~i~~~~GlDa~~flrflr~~~~~f~~~~i~~~~vLlPi~~~~~~~~~~----~~~~~~l~~~tisnv~~~s~~lw~h~v 141 (157)
T PF13967_consen 66 DEILRHCGLDAYVFLRFLRMLIKIFLFLSILSLPVLLPINYTGGDDDGD----SDNESGLDRLTISNVPKGSSRLWAHVV 141 (157)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHheeeeEEeCCCCccc----cccccccccccHHhhcCCCCeehHHHH
Confidence 9999999999999999999999999999999999999999998876532 111278999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 004125 165 MAYAFTFWTCYVLLKE 180 (772)
Q Consensus 165 ~~~~~t~~~~~~L~~e 180 (772)
++|+++++++|+|++|
T Consensus 142 ~~~i~~~~~~~~l~~E 157 (157)
T PF13967_consen 142 FAYIFTFYVLYLLWRE 157 (157)
T ss_pred HHHHHHHHHHhhheeC
Confidence 9999999999999886
No 5
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.02 E-value=3.8e-10 Score=98.18 Aligned_cols=65 Identities=43% Similarity=0.689 Sum_probs=53.1
Q ss_pred EEecchhHHHHHHHHHHHHHHHHHhHhhhhcCC-------------------CCCCcccccccCCCC-ccccHHHHHHHH
Q 004125 238 VVVNANKLAKLVKKKKKLQNWLDYYQLKYSRNN-------------------SKRPMMKTGFLGLWG-EKVDGIDYHISE 297 (772)
Q Consensus 238 i~~~~~~L~~L~~~r~~~~~~Le~~~~k~~r~~-------------------~~Rp~~r~g~~g~~g-~kvDaI~~~~~~ 297 (772)
||||+++|++|+++|++++++||.+..++.+.. ..||+++.|++|++| +||||||||++|
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 589999999999999999999997665443221 125566669999998 999999999999
Q ss_pred HHHHH
Q 004125 298 IEKLS 302 (772)
Q Consensus 298 i~~L~ 302 (772)
+++|+
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=98.98 E-value=3.9e-07 Score=104.24 Aligned_cols=213 Identities=13% Similarity=0.191 Sum_probs=142.8
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHHHHHHHhhcCCcchhHHHHHhhhhhhhhHHHHHHHHHHhhhhHHHHHHHHhcccCCCH
Q 004125 422 KSVIQGFLPGIALKLFLIFLPTILMIMSKFEGFISLSSLERRAATRYYLFNFVNVFLGSIIAGTAFEQLNSFLKQSANDI 501 (772)
Q Consensus 422 ~~li~g~LP~l~l~i~~~lLP~il~~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvflv~~i~~s~~~~l~~~~~~p~~~i 501 (772)
.+++.+++-++++.+++.+...+...|.++|.|.|.|+.|.+...|.|.|+++|.+...... +.+.. ..++. -+.
T Consensus 162 ~~~~~~vl~~v~i~il~~iy~~~a~~Lt~~EnhrT~~~ye~sli~K~F~f~fvn~y~~Lfyi-aF~~~---~~~~~-~~~ 236 (452)
T PF04547_consen 162 ASLIPTVLNAVVILILNFIYRKLAKKLTDWENHRTESEYENSLIIKVFLFQFVNSYAPLFYI-AFFYG---VRQEE-CQP 236 (452)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHh---hcccc-cCC
Confidence 34444555555556667777788889999999999999999999999999999999654443 22222 11101 000
Q ss_pred HHHHhhhcCchhHHHHHHHHHHHhhhhHHHHHhhHHHHHHHHHHhhh----cCCH--------------HHHhhhcCCCC
Q 004125 502 PKTIGIAIPKKATFFITYIMVDGWAGIAGEILMLKPLIIFHLKNFFL----VKTE--------------KDRVEAMDPGS 563 (772)
Q Consensus 502 ~~~L~~~lP~~s~FFi~yii~~~~~~~~~~Llr~~~li~~~~~~~~~----~~T~--------------re~~~~~~~~~ 563 (772)
.+..-+.-+.++++++-+.+...|. +.|.+.+..+++.. .++. .+.++-.+.++
T Consensus 237 ------~~~~L~~ql~~~~~~~qi~~~~~e~--~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~ 308 (452)
T PF04547_consen 237 ------CLSRLRIQLFTIMVTKQIINNLLEV--VLPYLKKRYRRKKIRKKQRKKQQDERQENEEENQFLQQWEKEYELPP 308 (452)
T ss_pred ------CHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhhhcccccccccccccchHHHHHHHhcCCC
Confidence 1111233445555555555565665 34565555544311 1111 01112234555
Q ss_pred CCcc---cchhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhheeeeccCC---CcccccHHHHHHHHHHHHHH
Q 004125 564 LGFN---SGEPRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQIINVYNQRY---ESAAAFWPDVHRRIIAALII 637 (772)
Q Consensus 564 f~~g---~~y~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~llyvy~~~~---esgG~~wp~~~~~~~~~l~i 637 (772)
++-. .+|..+..-+-....||++.|+...++++.-.+-.-+|++.+++.+++|. .++=..|-.++.-+...-++
T Consensus 309 y~~~g~~~dY~emviQFGyv~lF~~afPlapl~allnN~~eir~D~~Kl~~~~rRP~p~~~~~IG~W~~il~~i~~lav~ 388 (452)
T PF04547_consen 309 YDPDGLFDDYLEMVIQFGYVTLFSAAFPLAPLFALLNNIVEIRLDAFKLLYLYRRPVPRRASSIGIWNNILEIISWLAVI 388 (452)
T ss_pred CCcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhCCCCcccccchhhhHHHHHHHHHHHHH
Confidence 6543 78999999999999999999999999999999999999999999998753 22324599999988887777
Q ss_pred HHHHHHHHHH
Q 004125 638 SQLLLMGLLS 647 (772)
Q Consensus 638 ~q~~m~glf~ 647 (772)
....++++-.
T Consensus 389 tN~~li~~~s 398 (452)
T PF04547_consen 389 TNAALIAFTS 398 (452)
T ss_pred HHHHHHHhhh
Confidence 7777777663
No 7
>KOG2513 consensus Protein required for meiotic chromosome segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=97.76 E-value=0.013 Score=66.84 Aligned_cols=258 Identities=15% Similarity=0.236 Sum_probs=146.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhhhcCcchhhhhchhHHHHHhhhhhHHHHHHHHHHHHHHH
Q 004125 366 IPYVSLSVRRLIMGVAFFFLTFFFMIPIAIVQSFASIEGIEKAVPFLKPVIEAKFIKSVIQGFLPGIALKLFLIFLPTIL 445 (772)
Q Consensus 366 ~~~~~r~~R~~~~~~~~~~l~if~~iPva~v~~l~~l~~l~~~~p~l~~~~~~~~~~~li~g~LP~l~l~i~~~lLP~il 445 (772)
.+.|.|.+|+.++.+-+++++++...++.+...-.+. |.......| +. -+-.++|++++.++..++..+.
T Consensus 261 yp~w~~~~~~~~vsvPv~l~c~~i~l~f~l~~f~ie~--------~~~s~~~~~-~~-sils~lP~iv~~~li~~~t~~Y 330 (647)
T KOG2513|consen 261 YPEWKRILRRYLVSVPVILLCLCILLSFMLYCFQIEV--------WVLSDYGGP-LI-SILSYLPTIVYAVLIPVLTRIY 330 (647)
T ss_pred ccHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH--------HHHHHcCCc-hH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888999988888877777766666655443221 111111223 22 2346788888877776666655
Q ss_pred H----HHHhhcCCcchhHHHHHhhhhhhhhHHHHHHHHHHhhhhHHHHHHHHhcccCCCHHHHHhhhcCchhHHHHHHHH
Q 004125 446 M----IMSKFEGFISLSSLERRAATRYYLFNFVNVFLGSIIAGTAFEQLNSFLKQSANDIPKTIGIAIPKKATFFITYIM 521 (772)
Q Consensus 446 ~----~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvflv~~i~~s~~~~l~~~~~~p~~~i~~~L~~~lP~~s~FFi~yii 521 (772)
. +|.++|-|.++|..+++...|.+.|+|+|.++.-+..+-+..-... + -..|+.-+-. +..
T Consensus 331 ~k~Ae~Lt~~EN~r~~s~y~~hli~K~~lf~f~nsy~sLFyi~f~l~d~~~-L-------k~~l~~~li~-sQ~------ 395 (647)
T KOG2513|consen 331 KKLAEFLTKLENHRLESAYQKHLIAKVFLFNFVNSYLSLFYIAFLLRDMEL-L-------KQQLATLLIT-SQS------ 395 (647)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHH-H-------HHHHHHHHHH-HHH------
Confidence 4 4568899999999999999999999999999755544332211110 1 0111111000 000
Q ss_pred HHHhhhhHHHHHh------hH--HHHHHHHHHhhh---cCCHHHHh---------------h--------hcCCCCCCcc
Q 004125 522 VDGWAGIAGEILM------LK--PLIIFHLKNFFL---VKTEKDRV---------------E--------AMDPGSLGFN 567 (772)
Q Consensus 522 ~~~~~~~~~~Llr------~~--~li~~~~~~~~~---~~T~re~~---------------~--------~~~~~~f~~g 567 (772)
....++... .. .--.+.-++.+. ..++.+.+ + ..+++--.|.
T Consensus 396 ----l~~~~e~~~p~f~~~~~r~~~~~~f~t~~~ae~~~s~~~~i~~~~~~~~~~s~~~~a~~~~~~~qa~~E~~~~~yd 471 (647)
T KOG2513|consen 396 ----LLNLMEIALPYFKIRTKRYENYIRFRTKSFAEELASAQAKIDGESPGFPAPSREPEAQLFPSLKQAELESGLAEYD 471 (647)
T ss_pred ----HHHHHhhcchHHHHhhhhhhhhhhHHHHHHHHhhccchhhhcccccCCCCcccccchhhcccchhhhhcchhhhhc
Confidence 000011100 00 000000001000 11111110 0 0112222222
Q ss_pred ---cchhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhheeeeccCC----CcccccHHHHHHHHHHHHHHHHH
Q 004125 568 ---SGEPRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQIINVYNQRY----ESAAAFWPDVHRRIIAALIISQL 640 (772)
Q Consensus 568 ---~~y~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~llyvy~~~~----esgG~~wp~~~~~~~~~l~i~q~ 640 (772)
..|=.+.+-|-....||++.|+-..++++-=.+.+=++-+.++.+..+|. ++=|. |..++..+-+.-++...
T Consensus 472 gtf~Dylel~lQFGyvVlFS~~~PLA~~~aLvnNv~eirsda~Kl~~~~krPfp~r~~~IG~-Wq~~l~~lSvls~vtnc 550 (647)
T KOG2513|consen 472 GTFDDYLELLLQFGYVVLFSCAFPLAAIFALVNNVIEIRSDALKLCLVLKRPFPRRVANIGA-WQNALELLSVLSCVTNC 550 (647)
T ss_pred chhHHHHHHHHHhhHHHHHHhHhhHHHHHHHHHHHhhhhHHHHHHHHhcCCCCcchhhhhHH-HHHHHHHHHHHHHHHhH
Confidence 24446677777888999999999999999999999999999999998864 55565 98888876655555445
Q ss_pred HHHHHHH-hccccc
Q 004125 641 LLMGLLS-TKKAAL 653 (772)
Q Consensus 641 ~m~glf~-lk~~~~ 653 (772)
.++|+.. +++.|.
T Consensus 551 aLi~~~~~~~~~~~ 564 (647)
T KOG2513|consen 551 ALIGMYPQVNKLWP 564 (647)
T ss_pred HHHhccccccccCc
Confidence 5555554 333444
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=95.57 E-value=0.05 Score=59.97 Aligned_cols=42 Identities=12% Similarity=0.159 Sum_probs=32.8
Q ss_pred CCCCcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecch
Q 004125 197 RRPDQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNAN 243 (772)
Q Consensus 197 ~~~~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~ 243 (772)
..++..||.|.|||.+.++ +.|+++|++. +.|.++.++.|..
T Consensus 103 ~~~~~~~LfVgnLp~~~te---~~L~~lF~~~--G~V~~v~i~~d~~ 144 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTD---RELYALFRTI--GPINTCRIMRDYK 144 (346)
T ss_pred CCCCCcEEEEeCCCCCCCH---HHHHHHHHhc--CCEEEEEEEecCC
Confidence 3456789999999998775 7888999876 4577888877643
No 9
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=93.83 E-value=0.26 Score=53.91 Aligned_cols=132 Identities=16% Similarity=0.184 Sum_probs=68.9
Q ss_pred cceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecchhH---------HHHHHHHHHHHHHHHHh---------
Q 004125 201 QFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNANKL---------AKLVKKKKKLQNWLDYY--------- 262 (772)
Q Consensus 201 ~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~~L---------~~L~~~r~~~~~~Le~~--------- 262 (772)
.--+.|-.||+...| +.++++|+++ |.|.++.+.+|-..= -.-.|+.+++++.|-..
T Consensus 34 ~vKlfVgqIprt~sE---~dlr~lFe~y--g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~p 108 (510)
T KOG0144|consen 34 AVKLFVGQIPRTASE---KDLRELFEKY--GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHP 108 (510)
T ss_pred hhhheeccCCccccH---HHHHHHHHHh--CceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcc
Confidence 345678899997665 5677778776 677777777664321 11222333333322210
Q ss_pred -HhhhhcCCCCCC-cccccccCCCCccccHHHHHHHHHHHHHHH---HHHHHhhhhcCCCCCCCeEEEEecCHHHHHHHH
Q 004125 263 -QLKYSRNNSKRP-MMKTGFLGLWGEKVDGIDYHISEIEKLSKE---IAEERERVVSDPKAIMPAAFVSFNSRWGAAVCA 337 (772)
Q Consensus 263 -~~k~~r~~~~Rp-~~r~g~~g~~g~kvDaI~~~~~~i~~L~~~---I~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~ 337 (772)
+-|+...+..|- --+.=|.|+..+++. +++++++-.+ |++.+--...+.. ..|+|||+|.+.+.|..|.
T Consensus 109 vqvk~Ad~E~er~~~e~KLFvg~lsK~~t-----e~evr~iFs~fG~Ied~~ilrd~~~~-sRGcaFV~fstke~A~~Ai 182 (510)
T KOG0144|consen 109 VQVKYADGERERIVEERKLFVGMLSKQCT-----ENEVREIFSRFGHIEDCYILRDPDGL-SRGCAFVKFSTKEMAVAAI 182 (510)
T ss_pred eeecccchhhhccccchhhhhhhcccccc-----HHHHHHHHHhhCccchhhheeccccc-ccceeEEEEehHHHHHHHH
Confidence 111111111121 112224455555543 3444554433 3332221112222 5699999999999999998
Q ss_pred HhccCC
Q 004125 338 QTQQTR 343 (772)
Q Consensus 338 q~~~~~ 343 (772)
..++..
T Consensus 183 ka~ng~ 188 (510)
T KOG0144|consen 183 KALNGT 188 (510)
T ss_pred Hhhccc
Confidence 887654
No 10
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=92.91 E-value=0.86 Score=43.69 Aligned_cols=36 Identities=11% Similarity=0.161 Sum_probs=26.8
Q ss_pred CcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEe
Q 004125 200 DQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVV 240 (772)
Q Consensus 200 ~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~ 240 (772)
...+|.|.|||.+.++ +.|+++|+++ +.+.++.++.
T Consensus 33 ~~~~lfVgnL~~~~te---~~L~~~F~~~--G~I~~v~i~~ 68 (144)
T PLN03134 33 MSTKLFIGGLSWGTDD---ASLRDAFAHF--GDVVDAKVIV 68 (144)
T ss_pred CCCEEEEeCCCCCCCH---HHHHHHHhcC--CCeEEEEEEe
Confidence 3468999999998775 7888888775 4566665543
No 11
>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=92.80 E-value=0.77 Score=54.21 Aligned_cols=165 Identities=16% Similarity=0.164 Sum_probs=83.2
Q ss_pred eEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecchhHHH------HHHHHHHHHHHHHHhHhh--hhc-----C
Q 004125 203 TVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNANKLAK------LVKKKKKLQNWLDYYQLK--YSR-----N 269 (772)
Q Consensus 203 TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~~L~~------L~~~r~~~~~~Le~~~~k--~~r-----~ 269 (772)
||.|.|||.+.+| +.|.++|++. |.+.+|.+++|...=.. -....+.+++-++....+ ..+ .
T Consensus 2 sl~VgnLp~~vte---~~L~~~F~~~--G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~ 76 (562)
T TIGR01628 2 SLYVGDLDPDVTE---AKLYDLFKPF--GPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMW 76 (562)
T ss_pred eEEEeCCCCCCCH---HHHHHHHHhc--CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeec
Confidence 7999999998775 7888999887 56888999887541000 012223333333322111 000 0
Q ss_pred CCCCCccc-cc----ccCCCCccccHHHHHHHHHHHHHHH---HHHHHhhhhcCCCCCCCeEEEEecCHHHHHHHHHhcc
Q 004125 270 NSKRPMMK-TG----FLGLWGEKVDGIDYHISEIEKLSKE---IAEERERVVSDPKAIMPAAFVSFNSRWGAAVCAQTQQ 341 (772)
Q Consensus 270 ~~~Rp~~r-~g----~~g~~g~kvDaI~~~~~~i~~L~~~---I~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~q~~~ 341 (772)
....|..+ .+ +.+-....+|. +++.++=++ |...+-....+.+ ..|.|||.|.+.++|..|.+.+.
T Consensus 77 s~~~~~~~~~~~~~vfV~nLp~~~~~-----~~L~~~F~~~G~i~~~~i~~~~~g~-skg~afV~F~~~e~A~~Ai~~ln 150 (562)
T TIGR01628 77 SQRDPSLRRSGVGNIFVKNLDKSVDN-----KALFDTFSKFGNILSCKVATDENGK-SRGYGFVHFEKEESAKAAIQKVN 150 (562)
T ss_pred ccccccccccCCCceEEcCCCccCCH-----HHHHHHHHhcCCcceeEeeecCCCC-cccEEEEEECCHHHHHHHHHHhc
Confidence 00112111 11 11111123331 222222211 1111111111122 45899999999999999987764
Q ss_pred CC--CCCcceee-----------eCCCCCCeeecccccchhHHHHHHHHH
Q 004125 342 TR--NPTLWLTE-----------WASEPRDVYWQNLAIPYVSLSVRRLIM 378 (772)
Q Consensus 342 ~~--~p~~~~v~-----------~APeP~DIiW~NL~~~~~~r~~R~~~~ 378 (772)
.. +.....+. ..+..+.|+-.||..+..+..++.++.
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 32 11112111 223445588889988877777777654
No 12
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=92.14 E-value=0.28 Score=54.07 Aligned_cols=37 Identities=14% Similarity=0.247 Sum_probs=30.5
Q ss_pred cceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecc
Q 004125 201 QFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNA 242 (772)
Q Consensus 201 ~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~ 242 (772)
..+|+|.|||.+.+| +.|+++|+.. |.+.++.+++|-
T Consensus 3 ~~~l~V~nLp~~~~e---~~l~~~F~~~--G~i~~v~i~~d~ 39 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQ---EEIRSLFTSI--GEIESCKLVRDK 39 (352)
T ss_pred CcEEEEeCCCCCCCH---HHHHHHHHcc--CCEEEEEEEEcC
Confidence 459999999998775 7899999887 677888888764
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=90.83 E-value=1 Score=49.63 Aligned_cols=35 Identities=20% Similarity=0.395 Sum_probs=27.0
Q ss_pred ceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEec
Q 004125 202 FTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVN 241 (772)
Q Consensus 202 ~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~ 241 (772)
++|.|.|||.+.++ +.|+++|+.+ |.+.++.+++|
T Consensus 270 ~~lfV~NL~~~~~e---~~L~~~F~~f--G~v~~v~i~~d 304 (352)
T TIGR01661 270 YCIFVYNLSPDTDE---TVLWQLFGPF--GAVQNVKIIRD 304 (352)
T ss_pred cEEEEeCCCCCCCH---HHHHHHHHhC--CCeEEEEEeEc
Confidence 57999999998765 7788889876 56767776653
No 14
>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=90.82 E-value=0.87 Score=53.42 Aligned_cols=39 Identities=15% Similarity=0.226 Sum_probs=31.0
Q ss_pred CcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecch
Q 004125 200 DQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNAN 243 (772)
Q Consensus 200 ~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~ 243 (772)
...+|.|.|||.+.+| +.|.++|++. +.+.++.+++|..
T Consensus 57 ~~~~lFVgnLp~~~tE---d~L~~~F~~~--G~I~~vrl~~D~s 95 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYE---DELVPLFEKA--GPIYELRLMMDFS 95 (578)
T ss_pred CCCEEEeCCCCCCCCH---HHHHHHHHhh--CCEEEEEEEECCC
Confidence 3579999999998876 7788888876 6677888887743
No 15
>PLN03120 nucleic acid binding protein; Provisional
Probab=90.74 E-value=1.4 Score=46.19 Aligned_cols=33 Identities=24% Similarity=0.231 Sum_probs=25.6
Q ss_pred cceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEE
Q 004125 201 QFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQV 238 (772)
Q Consensus 201 ~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i 238 (772)
.+||.|.|||.+.++ +.|++||+.. |.+.++.+
T Consensus 4 ~rtVfVgNLs~~tTE---~dLrefFS~~--G~I~~V~I 36 (260)
T PLN03120 4 VRTVKVSNVSLKATE---RDIKEFFSFS--GDIEYVEM 36 (260)
T ss_pred CCEEEEeCCCCCCCH---HHHHHHHHhc--CCeEEEEE
Confidence 479999999998775 7889999766 55655554
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=90.51 E-value=1.1 Score=45.78 Aligned_cols=34 Identities=29% Similarity=0.337 Sum_probs=26.3
Q ss_pred CCeEEEEecCHHHHHHHHHhccCCC--CCcceeeeC
Q 004125 320 MPAAFVSFNSRWGAAVCAQTQQTRN--PTLWLTEWA 353 (772)
Q Consensus 320 ~~~AFVtF~s~~~A~~~~q~~~~~~--p~~~~v~~A 353 (772)
-|-|||||.++.+|+.|...+.... ...++|++|
T Consensus 231 kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 231 KGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred cceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 4899999999999999988876543 334566765
No 17
>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=86.86 E-value=4.4 Score=37.01 Aligned_cols=56 Identities=7% Similarity=0.141 Sum_probs=42.7
Q ss_pred cCCCCCCcccch---hHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhheeeeccCC
Q 004125 559 MDPGSLGFNSGE---PRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQIINVYNQRY 617 (772)
Q Consensus 559 ~~~~~f~~g~~y---~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~llyvy~~~~ 617 (772)
...++|+.+... -....+..+|++||++.|+ ++++-+++.+++.|+.+++.+.|+.
T Consensus 47 ~g~~eF~i~~nvL~liY~Qtl~WiG~ffsPlLP~---i~~ik~~i~FYvKk~sll~~c~p~~ 105 (111)
T PF07810_consen 47 PGKPEFDIPKNVLDLIYNQTLVWIGMFFSPLLPA---INVIKLFILFYVKKFSLLYNCQPPQ 105 (111)
T ss_pred CCCCCccHhhhHHHHHHcchhhhhhHHhchhHHH---HHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 456777776643 2334578899999888887 5777888889999999999998863
No 18
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=86.25 E-value=3 Score=49.26 Aligned_cols=37 Identities=16% Similarity=0.291 Sum_probs=27.8
Q ss_pred CcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEec
Q 004125 200 DQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVN 241 (772)
Q Consensus 200 ~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~ 241 (772)
...+|.|+|+|.+.++ +.|+++|+.+ |.+.++.+..|
T Consensus 177 ~~~~l~V~nl~~~~te---e~L~~~F~~f--G~i~~~~i~~~ 213 (562)
T TIGR01628 177 KFTNLYVKNLDPSVNE---DKLRELFAKF--GEITSAAVMKD 213 (562)
T ss_pred CCCeEEEeCCCCcCCH---HHHHHHHHhc--CCEEEEEEEEC
Confidence 4468999999998765 7788888876 55666666654
No 19
>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=84.62 E-value=4.2 Score=47.84 Aligned_cols=37 Identities=19% Similarity=0.121 Sum_probs=28.3
Q ss_pred CeEEEEecCHHHHHHHHHhccCC--CCCcceeeeCCCCC
Q 004125 321 PAAFVSFNSRWGAAVCAQTQQTR--NPTLWLTEWASEPR 357 (772)
Q Consensus 321 ~~AFVtF~s~~~A~~~~q~~~~~--~p~~~~v~~APeP~ 357 (772)
+.|||.|++.++|..|.+.+... ....+.|++|..++
T Consensus 270 gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~ 308 (578)
T TIGR01648 270 DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVD 308 (578)
T ss_pred CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCC
Confidence 47999999999999998876554 34567788885443
No 20
>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=82.26 E-value=5 Score=47.40 Aligned_cols=44 Identities=11% Similarity=0.066 Sum_probs=32.9
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCC--CCCcceeeeCCCCCCeeec
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTR--NPTLWLTEWASEPRDVYWQ 362 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~--~p~~~~v~~APeP~DIiW~ 362 (772)
..|.|||.|++..+|..|....... +....+|..|..|.|=.|.
T Consensus 245 sKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~~~~ 290 (612)
T TIGR01645 245 HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDALLQ 290 (612)
T ss_pred cCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccccCC
Confidence 4589999999999999998877654 3455677777666665564
No 21
>KOG2514 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.52 E-value=9.9 Score=45.69 Aligned_cols=52 Identities=15% Similarity=0.294 Sum_probs=41.4
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhhcCCcchhHHHHHhhhhhhhhHHHHHH
Q 004125 426 QGFLPGIALKLFLIFLPTILMIMSKFEGFISLSSLERRAATRYYLFNFVNVF 477 (772)
Q Consensus 426 ~g~LP~l~l~i~~~lLP~il~~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvf 477 (772)
+..+-.+++.++|.+---+-.+++..|.+.|.|+.|.|+.-|.|+||++|..
T Consensus 436 a~~in~~~i~~L~~iy~~~a~~lt~~e~prTe~~~ensl~~KiflfqfvN~y 487 (861)
T KOG2514|consen 436 AVIINLVVIMILNAIYSNLASRLTNLENPRTESEFENSLILKIFLFQFVNYY 487 (861)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHhhhcCccchhhhcchhHHHHHHHHHHHhc
Confidence 3334444555566666667788899999999999999999999999999965
No 22
>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=81.03 E-value=7.1 Score=44.71 Aligned_cols=37 Identities=22% Similarity=0.200 Sum_probs=30.0
Q ss_pred CcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEec
Q 004125 200 DQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVN 241 (772)
Q Consensus 200 ~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~ 241 (772)
+.+||.|.|||.+.++ +.|+++|+.. |.+.++.++.|
T Consensus 88 ~~~~l~V~nlp~~~~~---~~l~~~F~~~--G~v~~v~i~~d 124 (457)
T TIGR01622 88 DDRTVFVLQLALKARE---RDLYEFFSKV--GKVRDVQCIKD 124 (457)
T ss_pred CCcEEEEeCCCCCCCH---HHHHHHHHhc--CCeeEEEEeec
Confidence 4689999999998765 6788999876 57888888775
No 23
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=80.26 E-value=8 Score=41.40 Aligned_cols=48 Identities=13% Similarity=-0.016 Sum_probs=32.2
Q ss_pred CeEEEEecCHHHHHHHHHhccCCC--CCcceee----------eCCCCCCeeecccccch
Q 004125 321 PAAFVSFNSRWGAAVCAQTQQTRN--PTLWLTE----------WASEPRDVYWQNLAIPY 368 (772)
Q Consensus 321 ~~AFVtF~s~~~A~~~~q~~~~~~--p~~~~v~----------~APeP~DIiW~NL~~~~ 368 (772)
|-+||||++..+|..|.+.++... ..+..|. .-|-|.-.-|+++....
T Consensus 137 GFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n~K~~v~p~~~g~~~~~a~~ 196 (376)
T KOG0125|consen 137 GFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHNKKKKVLPYPNGWKLLPAVG 196 (376)
T ss_pred ccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhccCCcccCCCccccccccchh
Confidence 789999999999999999887532 1122222 23456666788776543
No 24
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=79.31 E-value=5 Score=41.03 Aligned_cols=19 Identities=21% Similarity=0.274 Sum_probs=17.4
Q ss_pred CeEEEEecCHHHHHHHHHh
Q 004125 321 PAAFVSFNSRWGAAVCAQT 339 (772)
Q Consensus 321 ~~AFVtF~s~~~A~~~~q~ 339 (772)
|++||||++.++|..|++.
T Consensus 55 GyGfVTf~d~~aa~rAc~d 73 (247)
T KOG0149|consen 55 GYGFVTFRDAEAATRACKD 73 (247)
T ss_pred ceeeEEeecHHHHHHHhcC
Confidence 8999999999999998875
No 25
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=77.34 E-value=3.5 Score=32.14 Aligned_cols=24 Identities=29% Similarity=0.206 Sum_probs=20.8
Q ss_pred CCeEEEEecCHHHHHHHHHhccCC
Q 004125 320 MPAAFVSFNSRWGAAVCAQTQQTR 343 (772)
Q Consensus 320 ~~~AFVtF~s~~~A~~~~q~~~~~ 343 (772)
.+.|||+|.+..+|..|.+.++..
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 489999999999999999877543
No 26
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=77.33 E-value=18 Score=41.98 Aligned_cols=36 Identities=8% Similarity=0.184 Sum_probs=26.9
Q ss_pred cceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEec
Q 004125 201 QFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVN 241 (772)
Q Consensus 201 ~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~ 241 (772)
.++|.|.|||...++ +.|+++|+.+ |.+..+.++.|
T Consensus 295 ~~~l~v~nlp~~~~~---~~l~~~f~~~--G~i~~~~~~~~ 330 (509)
T TIGR01642 295 KDRIYIGNLPLYLGE---DQIKELLESF--GDLKAFNLIKD 330 (509)
T ss_pred CCEEEEeCCCCCCCH---HHHHHHHHhc--CCeeEEEEEec
Confidence 479999999997765 6778888776 45666666655
No 27
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=75.10 E-value=4.5 Score=42.11 Aligned_cols=117 Identities=17% Similarity=0.189 Sum_probs=60.6
Q ss_pred CcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecchhHHHHHHHHHHHHHHHHHhHhhhhcCCCCCCccccc
Q 004125 200 DQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNANKLAKLVKKKKKLQNWLDYYQLKYSRNNSKRPMMKTG 279 (772)
Q Consensus 200 ~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~~L~~L~~~r~~~~~~Le~~~~k~~r~~~~Rp~~r~g 279 (772)
.-+|+.|-|+.++..| +.|...|.+. |.+.+..+++| ++........ ...++|+.+..
T Consensus 5 ~prtlyvgnld~~vte---~~i~~lf~qi--g~v~~~k~i~~----------------e~~v~wa~~p-~nQsk~t~~~h 62 (321)
T KOG0148|consen 5 EPRTLYVGNLDSTVTE---DFIATLFNQI--GSVTKTKVIFD----------------ELKVNWATAP-GNQSKPTSNQH 62 (321)
T ss_pred CCceEEeeccChhhHH---HHHHHHHHhc--cccccceeehh----------------hhccccccCc-ccCCCCccccc
Confidence 3479999999986654 6777788776 55667777766 1111110000 11234554432
Q ss_pred ccCCCCccccHHHHHHHHHHHHHH---HHHHHHhhhhcCCCCCCCeEEEEecCHHHHHHHHHhc
Q 004125 280 FLGLWGEKVDGIDYHISEIEKLSK---EIAEERERVVSDPKAIMPAAFVSFNSRWGAAVCAQTQ 340 (772)
Q Consensus 280 ~~g~~g~kvDaI~~~~~~i~~L~~---~I~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~q~~ 340 (772)
+-=..|.-+..|++ ++|++--. +|.+.|---+....+.-|++||+|-+.++|..|.|..
T Consensus 63 fhvfvgdls~eI~~--e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M 124 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDN--EKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM 124 (321)
T ss_pred eeEEehhcchhcch--HHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHh
Confidence 21112322233332 22222211 2333321111111124599999999999999988754
No 28
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=74.59 E-value=24 Score=36.60 Aligned_cols=136 Identities=18% Similarity=0.175 Sum_probs=71.6
Q ss_pred eEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecchhHH-------HH--HHHHHHHHHHHHH--hHhhhhcCCC
Q 004125 203 TVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNANKLA-------KL--VKKKKKLQNWLDY--YQLKYSRNNS 271 (772)
Q Consensus 203 TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~~L~-------~L--~~~r~~~~~~Le~--~~~k~~r~~~ 271 (772)
-+.|.-+|....+ |.++..|... |+++++.+++|--.=+ .. -+..+++.+-|.- ++.|--+-.-
T Consensus 43 NLIvNYLPQ~MTq---dE~rSLF~Si--GeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy 117 (360)
T KOG0145|consen 43 NLIVNYLPQNMTQ---DELRSLFGSI--GEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY 117 (360)
T ss_pred eeeeeecccccCH---HHHHHHhhcc--cceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence 4567778887654 7889988765 7888888888753211 11 1233445554442 2232211112
Q ss_pred CCCc---ccccccCCCC-ccccHHHHHHHHHHHHHHHH---HHHHhhhhcCCCCCCCeEEEEecCHHHHHHHHHhccCCC
Q 004125 272 KRPM---MKTGFLGLWG-EKVDGIDYHISEIEKLSKEI---AEERERVVSDPKAIMPAAFVSFNSRWGAAVCAQTQQTRN 344 (772)
Q Consensus 272 ~Rp~---~r~g~~g~~g-~kvDaI~~~~~~i~~L~~~I---~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~q~~~~~~ 344 (772)
.||. +|..-+=..| .|- .-++|+|.+-... -.-|--++.-.....|.+||-|+.+.+|..|...+...+
T Consensus 118 ARPSs~~Ik~aNLYvSGlPkt----MtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~ 193 (360)
T KOG0145|consen 118 ARPSSDSIKDANLYVSGLPKT----MTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQK 193 (360)
T ss_pred ccCChhhhcccceEEecCCcc----chHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCC
Confidence 3553 2211110011 111 1234444443322 112211111111235899999999999999999998888
Q ss_pred CCc
Q 004125 345 PTL 347 (772)
Q Consensus 345 p~~ 347 (772)
|..
T Consensus 194 P~g 196 (360)
T KOG0145|consen 194 PSG 196 (360)
T ss_pred CCC
Confidence 865
No 29
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=73.12 E-value=13 Score=42.49 Aligned_cols=34 Identities=29% Similarity=0.384 Sum_probs=24.9
Q ss_pred CCeEEEEecCHHHHHHHHHhccCCCCCcceeeeCCCCCCeeecc
Q 004125 320 MPAAFVSFNSRWGAAVCAQTQQTRNPTLWLTEWASEPRDVYWQN 363 (772)
Q Consensus 320 ~~~AFVtF~s~~~A~~~~q~~~~~~p~~~~v~~APeP~DIiW~N 363 (772)
-|+|||-|+++.+|+.|.... .+|-++..++-++
T Consensus 334 kGtAFv~Fkt~~~~~~ci~~A----------spa~e~g~~ll~G 367 (678)
T KOG0127|consen 334 KGTAFVKFKTQIAAQNCIEAA----------SPASEDGSVLLDG 367 (678)
T ss_pred ccceEEEeccHHHHHHHHHhc----------CccCCCceEEEec
Confidence 489999999999999997664 2344555555554
No 30
>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=69.91 E-value=39 Score=39.14 Aligned_cols=35 Identities=9% Similarity=0.096 Sum_probs=24.1
Q ss_pred CcceEEEecCCC-CCCcchHHHHHHhhhccCCCceeEEEEE
Q 004125 200 DQFTVLVRNVPP-DPDESVSELVEHFFLVNHPNHYLTHQVV 239 (772)
Q Consensus 200 ~~~TVlV~~IP~-~~~~~~~e~l~~~F~~~~p~~v~~v~i~ 239 (772)
...+|+|.|+|. ..++ +.|++.|+.+ |.|.++.+.
T Consensus 274 ~~~~l~v~nL~~~~vt~---~~L~~lF~~y--G~V~~vki~ 309 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNC---DRLFNLFCVY--GNVERVKFM 309 (481)
T ss_pred CCCEEEEeCCCCCCCCH---HHHHHHHHhc--CCeEEEEEE
Confidence 456999999997 4553 6788888766 555555443
No 31
>PLN03121 nucleic acid binding protein; Provisional
Probab=67.42 E-value=8.3 Score=39.93 Aligned_cols=38 Identities=24% Similarity=0.350 Sum_probs=30.6
Q ss_pred CCcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEec
Q 004125 199 PDQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVN 241 (772)
Q Consensus 199 ~~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~ 241 (772)
+.-|||.|+||+.+.++ +.|++||+.. |.+.++.+.+|
T Consensus 3 ~~g~TV~V~NLS~~tTE---~dLrefFS~~--G~I~~V~I~~D 40 (243)
T PLN03121 3 PGGYTAEVTNLSPKATE---KDVYDFFSHC--GAIEHVEIIRS 40 (243)
T ss_pred CCceEEEEecCCCCCCH---HHHHHHHHhc--CCeEEEEEecC
Confidence 34589999999998775 7899999876 77888887643
No 32
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=65.20 E-value=38 Score=37.94 Aligned_cols=37 Identities=27% Similarity=0.461 Sum_probs=30.0
Q ss_pred CCCCeEEEEecCHHHHHHHHHhccCCCCCcc----eeeeCC
Q 004125 318 AIMPAAFVSFNSRWGAAVCAQTQQTRNPTLW----LTEWAS 354 (772)
Q Consensus 318 ~~~~~AFVtF~s~~~A~~~~q~~~~~~p~~~----~v~~AP 354 (772)
+..|-|||.+.|-.+|+++.|.+...+-..| .|+||=
T Consensus 206 KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAe 246 (506)
T KOG0117|consen 206 KNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAE 246 (506)
T ss_pred cccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccC
Confidence 3679999999999999999999887765444 577773
No 33
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=64.29 E-value=24 Score=31.29 Aligned_cols=24 Identities=21% Similarity=0.344 Sum_probs=17.6
Q ss_pred cCCCcccccHHHHHHHHHHHHHHH
Q 004125 615 QRYESAAAFWPDVHRRIIAALIIS 638 (772)
Q Consensus 615 ~~~esgG~~wp~~~~~~~~~l~i~ 638 (772)
+....||+-||-+..-++.++.++
T Consensus 8 ~~~~~~g~sW~~LVGVv~~al~~S 31 (102)
T PF15176_consen 8 PGPGEGGRSWPFLVGVVVTALVTS 31 (102)
T ss_pred CCCCCCCcccHhHHHHHHHHHHHH
Confidence 455677999998877777666654
No 34
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=60.81 E-value=12 Score=29.78 Aligned_cols=32 Identities=31% Similarity=0.454 Sum_probs=23.9
Q ss_pred EEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEe
Q 004125 204 VLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVV 240 (772)
Q Consensus 204 VlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~ 240 (772)
|.|.|||.+.++ +.|+++|++. |.+..+.+..
T Consensus 1 l~v~nlp~~~t~---~~l~~~f~~~--g~i~~~~~~~ 32 (70)
T PF00076_consen 1 LYVGNLPPDVTE---EELRDFFSQF--GKIESIKVMR 32 (70)
T ss_dssp EEEESETTTSSH---HHHHHHHHTT--STEEEEEEEE
T ss_pred cEEcCCCCcCCH---HHHHHHHHHh--hhcccccccc
Confidence 689999998775 7888999886 4455555554
No 35
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=60.30 E-value=14 Score=37.68 Aligned_cols=44 Identities=20% Similarity=0.168 Sum_probs=34.4
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCC--CCcceeeeCCCCCCeeec
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRN--PTLWLTEWASEPRDVYWQ 362 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~--p~~~~v~~APeP~DIiW~ 362 (772)
..|.|||+|++..+|..|...++... ...++++.|=+++||+=+
T Consensus 51 mRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~ 96 (221)
T KOG4206|consen 51 MRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQ 96 (221)
T ss_pred ccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhc
Confidence 67999999999998888877666532 245678889888888765
No 36
>smart00361 RRM_1 RNA recognition motif.
Probab=58.83 E-value=10 Score=31.16 Aligned_cols=25 Identities=16% Similarity=0.150 Sum_probs=21.4
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTR 343 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~ 343 (772)
..|.|||+|++..+|..|.+.+...
T Consensus 36 ~rG~~fV~f~~~~dA~~A~~~l~g~ 60 (70)
T smart00361 36 KRGNVYITFERSEDAARAIVDLNGR 60 (70)
T ss_pred CcEEEEEEECCHHHHHHHHHHhCCC
Confidence 3589999999999999999887654
No 37
>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=58.46 E-value=14 Score=32.93 Aligned_cols=23 Identities=26% Similarity=0.219 Sum_probs=16.7
Q ss_pred CCeEEEEecCHHHHHHHHHhccC
Q 004125 320 MPAAFVSFNSRWGAAVCAQTQQT 342 (772)
Q Consensus 320 ~~~AFVtF~s~~~A~~~~q~~~~ 342 (772)
.|+|||-|.+..+|....+..+.
T Consensus 45 ~GYAFVNf~~~~~~~~F~~~f~g 67 (97)
T PF04059_consen 45 LGYAFVNFTSPQAAIRFYKAFNG 67 (97)
T ss_pred eEEEEEEcCCHHHHHHHHHHHcC
Confidence 47888888888777777766543
No 38
>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=57.24 E-value=17 Score=29.33 Aligned_cols=32 Identities=25% Similarity=0.410 Sum_probs=22.8
Q ss_pred EEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEe
Q 004125 204 VLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVV 240 (772)
Q Consensus 204 VlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~ 240 (772)
|+|+|||.+.++ +.|.++|+.. +.+.++.+.+
T Consensus 1 v~i~nlp~~~~~---~~l~~~f~~~--g~v~~v~~~~ 32 (70)
T PF14259_consen 1 VYISNLPPSTTE---EDLRNFFSRF--GPVEKVRLIK 32 (70)
T ss_dssp EEEESSTTT--H---HHHHHHCTTS--SBEEEEEEEE
T ss_pred CEEeCCCCCCCH---HHHHHHHHhc--CCcceEEEEe
Confidence 689999998664 7788898876 4566666653
No 39
>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=56.45 E-value=24 Score=38.98 Aligned_cols=58 Identities=16% Similarity=0.185 Sum_probs=39.2
Q ss_pred CCeEEEEecCHHHHHHHHHhccCC--CCCcceeeeC-C-----CCCCeeecccccchhHHHHHHHH
Q 004125 320 MPAAFVSFNSRWGAAVCAQTQQTR--NPTLWLTEWA-S-----EPRDVYWQNLAIPYVSLSVRRLI 377 (772)
Q Consensus 320 ~~~AFVtF~s~~~A~~~~q~~~~~--~p~~~~v~~A-P-----eP~DIiW~NL~~~~~~r~~R~~~ 377 (772)
.+.|||+|.++++|..|.+.+... ....+.+..| | ....|+-.||.....+..+|.++
T Consensus 149 rGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F 214 (346)
T TIGR01659 149 FGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIF 214 (346)
T ss_pred CcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHH
Confidence 489999999999999999876543 2334555554 2 23347777777766666666554
No 40
>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=52.95 E-value=13 Score=29.67 Aligned_cols=24 Identities=25% Similarity=0.167 Sum_probs=21.0
Q ss_pred CCCeEEEEecCHHHHHHHHHhccC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQT 342 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~ 342 (772)
..+.|||+|++..+|..|.+.++.
T Consensus 38 ~~~~a~V~F~~~~~a~~a~~~l~g 61 (70)
T PF00076_consen 38 SKGYAFVEFESEEDAEKALEELNG 61 (70)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHTT
T ss_pred ccceEEEEEcCHHHHHHHHHHcCC
Confidence 568999999999999999987654
No 41
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=52.92 E-value=13 Score=36.38 Aligned_cols=34 Identities=18% Similarity=0.095 Sum_probs=28.5
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCC--CCcceeee
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRN--PTLWLTEW 352 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~--p~~~~v~~ 352 (772)
+-+.|||.|++..+|.-|...+..++ ...|.||+
T Consensus 46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~ 81 (195)
T KOG0107|consen 46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVEL 81 (195)
T ss_pred CCCceEEeccCcccHHHHHhhcCCccccCceEEEEe
Confidence 45899999999999999999988776 45677776
No 42
>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=52.88 E-value=1.3e+02 Score=31.25 Aligned_cols=124 Identities=21% Similarity=0.272 Sum_probs=60.2
Q ss_pred cCCHHHHhhhcCCCCCCcccchhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhhe---eeeccCCCcccccHH
Q 004125 549 VKTEKDRVEAMDPGSLGFNSGEPRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQII---NVYNQRYESAAAFWP 625 (772)
Q Consensus 549 ~~T~re~~~~~~~~~f~~g~~y~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~ll---yvy~~~~esgG~~wp 625 (772)
.++++++.|.++.+...- |+...+++.+.+-|+.++-+...-......+....-|...+ +...|+.+.-|+.+.
T Consensus 85 ~~~~er~LeIMKDsriG~---~Gv~al~~~lllk~~~l~~l~~~~~~~~l~i~~~~~r~~~~~~~~~~~p~~~Glg~~f~ 161 (235)
T PF02654_consen 85 GRDRERRLEIMKDSRIGA---FGVLALVLVLLLKYAALSSLPSHGLALALLIAPVLARLSMLLLAAFSKPRPEGLGALFV 161 (235)
T ss_pred CCCHHHHHHHHhCCCCCh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcchhHHh
Confidence 355555678887654432 45555555555555555544432223333344455565443 233344454455553
Q ss_pred HHH--HHHHHHHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHHhhhh
Q 004125 626 DVH--RRIIAALIISQLLLMGLLSTKKAALSTPFLIALPVLTIWFHYFSKDRYE 677 (772)
Q Consensus 626 ~~~--~~~~~~l~i~q~~m~glf~lk~~~~~~~~~~~l~i~ti~f~~~~~~~~~ 677 (772)
.-. +++..++++.=+.. ++.....+......+...+.+..+.+++++++.
T Consensus 162 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~lG 213 (235)
T PF02654_consen 162 GSAKKRQVLIALIILLLLA--LFLGGIPWIGLLALLVALLLALLLARYARRRLG 213 (235)
T ss_pred ccCChhHHHHHHHHHHHHH--HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 332 33444444432222 222111122233344455667778888888875
No 43
>smart00362 RRM_2 RNA recognition motif.
Probab=52.12 E-value=21 Score=27.98 Aligned_cols=21 Identities=29% Similarity=0.275 Sum_probs=17.4
Q ss_pred CeEEEEecCHHHHHHHHHhcc
Q 004125 321 PAAFVSFNSRWGAAVCAQTQQ 341 (772)
Q Consensus 321 ~~AFVtF~s~~~A~~~~q~~~ 341 (772)
+.|||+|++..+|..|.+.+.
T Consensus 40 ~~~~v~f~~~~~a~~a~~~~~ 60 (72)
T smart00362 40 GFAFVEFESEEDAEKAIEALN 60 (72)
T ss_pred ceEEEEeCCHHHHHHHHHHhC
Confidence 689999999988888877654
No 44
>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=52.12 E-value=3.7 Score=35.83 Aligned_cols=30 Identities=30% Similarity=0.355 Sum_probs=22.1
Q ss_pred CCCcceEEEecCCCCCC-cchHHHHHHhhhc
Q 004125 198 RPDQFTVLVRNVPPDPD-ESVSELVEHFFLV 227 (772)
Q Consensus 198 ~~~~~TVlV~~IP~~~~-~~~~e~l~~~F~~ 227 (772)
..+.+||+|+|||...+ |.+.+.|+=+|++
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~LeIhFqK 79 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLEIHFQK 79 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEEEEEec
Confidence 46789999999999554 3566666666754
No 45
>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=50.56 E-value=12 Score=30.23 Aligned_cols=23 Identities=26% Similarity=0.157 Sum_probs=20.5
Q ss_pred CCCeEEEEecCHHHHHHHHHhcc
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQ 341 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~ 341 (772)
..+.|||+|.++.+|..|.+...
T Consensus 38 ~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 38 SRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHT
T ss_pred cCCEEEEEeCCHHHHHHHHHHCC
Confidence 57899999999999999998864
No 46
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=48.81 E-value=49 Score=37.67 Aligned_cols=36 Identities=14% Similarity=0.058 Sum_probs=26.3
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCC--CCcceeeeCC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRN--PTLWLTEWAS 354 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~--p~~~~v~~AP 354 (772)
+.|.||+.|.++++|..|...+.+.+ +..+++..|.
T Consensus 59 ~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~ 96 (435)
T KOG0108|consen 59 PKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS 96 (435)
T ss_pred cCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence 45899999999999999988876543 3455555553
No 47
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=45.23 E-value=36 Score=38.09 Aligned_cols=85 Identities=13% Similarity=0.009 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHH---HHhhhhcCCCCCCCeEEEEecCHHHHHHHHHhccCC---CCCcceeeeCCCCCCeeeccccc
Q 004125 293 YHISEIEKLSKEIAE---ERERVVSDPKAIMPAAFVSFNSRWGAAVCAQTQQTR---NPTLWLTEWASEPRDVYWQNLAI 366 (772)
Q Consensus 293 ~~~~~i~~L~~~I~~---~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~q~~~~~---~p~~~~v~~APeP~DIiW~NL~~ 366 (772)
-|+++|.-|-++|=+ .|--.+...-...|+|||||.+-..|+.|...+.+. ....+.+...-.-.-+.=.|+-.
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 467777777766443 332111111124699999999999999999988764 22233333333344556666666
Q ss_pred chhHHHHHHHH
Q 004125 367 PYVSLSVRRLI 377 (772)
Q Consensus 367 ~~~~r~~R~~~ 377 (772)
++.+--++.-+
T Consensus 175 ~k~keeIlee~ 185 (506)
T KOG0117|consen 175 TKKKEEILEEM 185 (506)
T ss_pred cccHHHHHHHH
Confidence 66554444433
No 48
>smart00362 RRM_2 RNA recognition motif.
Probab=44.79 E-value=27 Score=27.24 Aligned_cols=23 Identities=39% Similarity=0.596 Sum_probs=17.7
Q ss_pred eEEEecCCCCCCcchHHHHHHhhhcc
Q 004125 203 TVLVRNVPPDPDESVSELVEHFFLVN 228 (772)
Q Consensus 203 TVlV~~IP~~~~~~~~e~l~~~F~~~ 228 (772)
||.|+|+|.+.++ +.++++|++.
T Consensus 1 ~v~i~~l~~~~~~---~~l~~~~~~~ 23 (72)
T smart00362 1 TLFVGNLPPDVTE---EDLKELFSKF 23 (72)
T ss_pred CEEEcCCCCcCCH---HHHHHHHHhc
Confidence 6899999987654 6777888765
No 49
>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=44.37 E-value=34 Score=26.85 Aligned_cols=24 Identities=21% Similarity=0.214 Sum_probs=19.5
Q ss_pred CCeEEEEecCHHHHHHHHHhccCC
Q 004125 320 MPAAFVSFNSRWGAAVCAQTQQTR 343 (772)
Q Consensus 320 ~~~AFVtF~s~~~A~~~~q~~~~~ 343 (772)
.+.|||+|++..+|+.|.+.....
T Consensus 40 ~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 40 KGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCC
Confidence 478999999999999988776543
No 50
>smart00360 RRM RNA recognition motif.
Probab=44.31 E-value=27 Score=27.09 Aligned_cols=23 Identities=26% Similarity=0.199 Sum_probs=19.9
Q ss_pred CCCeEEEEecCHHHHHHHHHhcc
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQ 341 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~ 341 (772)
..+.|||+|++..+|..|.+...
T Consensus 37 ~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 37 SKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCceEEEEeCCHHHHHHHHHHcC
Confidence 46899999999999999987665
No 51
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=39.63 E-value=1.7e+02 Score=32.28 Aligned_cols=25 Identities=20% Similarity=0.134 Sum_probs=21.7
Q ss_pred CCCCeEEEEecCHHHHHHHHHhccC
Q 004125 318 AIMPAAFVSFNSRWGAAVCAQTQQT 342 (772)
Q Consensus 318 ~~~~~AFVtF~s~~~A~~~~q~~~~ 342 (772)
.++|-|||.|++.++|..|+|..+.
T Consensus 322 rPSGeAFIqm~nae~a~aaaqk~hk 346 (508)
T KOG1365|consen 322 RPSGEAFIQMRNAERARAAAQKCHK 346 (508)
T ss_pred CcChhhhhhhhhhHHHHHHHHHHHH
Confidence 3789999999999999999987553
No 52
>PF03699 UPF0182: Uncharacterised protein family (UPF0182); InterPro: IPR005372 This family contains uncharacterised integral membrane proteins.; GO: 0016021 integral to membrane
Probab=39.40 E-value=8.3e+02 Score=30.21 Aligned_cols=18 Identities=17% Similarity=0.300 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHhhheee
Q 004125 595 IVFFALAYVVFRHQIINV 612 (772)
Q Consensus 595 ~~yF~l~y~v~Ky~llyv 612 (772)
++-.++.||.+||+++|.
T Consensus 211 ~l~~a~~y~L~ry~Ll~s 228 (774)
T PF03699_consen 211 FLLKAVGYWLDRYELLYS 228 (774)
T ss_pred HHHHHHHHHHHHHhHeec
Confidence 455678999999999998
No 53
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=38.49 E-value=45 Score=34.00 Aligned_cols=24 Identities=25% Similarity=0.265 Sum_probs=20.4
Q ss_pred CCCeEEEEecCHHHHHHHHHhccC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQT 342 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~ 342 (772)
+.+.|||||.|.+.|..|...+..
T Consensus 76 ~~pvaFatF~s~q~A~aamnaLNG 99 (284)
T KOG1457|consen 76 CKPVAFATFTSHQFALAAMNALNG 99 (284)
T ss_pred ccceEEEEecchHHHHHHHHHhcC
Confidence 458999999999999998877654
No 54
>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=38.25 E-value=37 Score=26.59 Aligned_cols=32 Identities=31% Similarity=0.469 Sum_probs=22.3
Q ss_pred eEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEE
Q 004125 203 TVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVV 239 (772)
Q Consensus 203 TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~ 239 (772)
+|.|+|+|.+.++ +.++++|+.. +.+.++.+.
T Consensus 1 ~i~i~~l~~~~~~---~~i~~~~~~~--g~i~~~~~~ 32 (74)
T cd00590 1 TLFVGNLPPDVTE---EDLRELFSKF--GKVESVRIV 32 (74)
T ss_pred CEEEeCCCCccCH---HHHHHHHHhc--CCEEEEEEe
Confidence 5889999997654 6778888765 455555443
No 55
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=37.45 E-value=38 Score=35.91 Aligned_cols=35 Identities=20% Similarity=0.375 Sum_probs=27.2
Q ss_pred EEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecch
Q 004125 204 VLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNAN 243 (772)
Q Consensus 204 VlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~ 243 (772)
+.|-|+|...++ ..++..|+.+ ++|+.+-|+.|.+
T Consensus 5 LFIGNLp~~~~~---~elr~lFe~y--gkVlECDIvKNYg 39 (346)
T KOG0109|consen 5 LFIGNLPREATE---QELRSLFEQY--GKVLECDIVKNYG 39 (346)
T ss_pred hhccCCCcccch---HHHHHHHHhh--CceEeeeeecccc
Confidence 467889987664 6677888777 7888888888876
No 56
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=35.15 E-value=56 Score=34.06 Aligned_cols=23 Identities=17% Similarity=0.094 Sum_probs=19.4
Q ss_pred CCCeEEEEecCHHHHHHHHHhcc
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQ 341 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~ 341 (772)
.-|++||+|++..++..|.....
T Consensus 231 SkgygfVSf~~pad~~rAmrem~ 253 (290)
T KOG0226|consen 231 SKGYGFVSFRDPADYVRAMREMN 253 (290)
T ss_pred cccceeeeecCHHHHHHHHHhhc
Confidence 45899999999999998877654
No 57
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=34.95 E-value=61 Score=33.90 Aligned_cols=48 Identities=19% Similarity=0.192 Sum_probs=37.0
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCCC-----CcceeeeCCCCCCeeecccccchhHHHHHHHHH
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRNP-----TLWLTEWASEPRDVYWQNLAIPYVSLSVRRLIM 378 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~p-----~~~~v~~APeP~DIiW~NL~~~~~~r~~R~~~~ 378 (772)
..|+|||-|++..+|+++...+++++- ..+.|+.| -+.++|.+||.--
T Consensus 59 sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~A------------DTdkER~lRRMQQ 111 (371)
T KOG0146|consen 59 SKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFA------------DTDKERTLRRMQQ 111 (371)
T ss_pred CCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEec------------cchHHHHHHHHHH
Confidence 358999999999999999999987642 34556555 3567899998743
No 58
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=34.43 E-value=1.5e+02 Score=31.90 Aligned_cols=58 Identities=17% Similarity=0.244 Sum_probs=36.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhheeeeccCCCccc---ccHHHHHHHHHHHHHHHHHHHHHHH
Q 004125 588 PLLLPFIIVFFALAYVVFRHQIINVYNQRYESAA---AFWPDVHRRIIAALIISQLLLMGLL 646 (772)
Q Consensus 588 Plilpf~~~yF~l~y~v~Ky~llyvy~~~~esgG---~~wp~~~~~~~~~l~i~q~~m~glf 646 (772)
|..+++|+++.++.+.+||+-+.-+-.... ++. ..+|++.--+++|+++++.+..-+|
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 788899999999999999999876544332 111 2344444445555555544444444
No 59
>COG0368 CobS Cobalamin-5-phosphate synthase [Coenzyme metabolism]
Probab=33.53 E-value=4.7e+02 Score=27.45 Aligned_cols=127 Identities=14% Similarity=0.115 Sum_probs=59.2
Q ss_pred cCCHHHHhhhcCCCCCCcccchhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhhee--e-eccCCCcccccHH
Q 004125 549 VKTEKDRVEAMDPGSLGFNSGEPRIQFYFLLGLVYATVTPLLLPFIIVFFALAYVVFRHQIIN--V-YNQRYESAAAFWP 625 (772)
Q Consensus 549 ~~T~re~~~~~~~~~f~~g~~y~~~ll~~~i~l~Ys~i~Plilpf~~~yF~l~y~v~Ky~lly--v-y~~~~esgG~~wp 625 (772)
.++++++.|.++.+...= ++....++.+.+-++.++=+..-.....+.+.-+.-|...+- . ..+++...|.+..
T Consensus 89 ~~~~er~leiMkDsrvG~---~Gv~ali~vlll~~~~L~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 165 (246)
T COG0368 89 GGSRERKLEIMKDSRVGA---GGVAALILVLLLKVLALASLLDLGAAALLALAEVLAKSRMLLVALLSKPPYAGLGGLGK 165 (246)
T ss_pred CCCHHHHHHHHhCCCcCc---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcchhhH
Confidence 345556677786554432 455556666666666555444322222333333333333332 2 3456666665655
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHHhhhhh
Q 004125 626 DVHRRIIAALIISQLLLMGLLSTKKAALSTPFLIALPVLTIWFHYFSKDRYES 678 (772)
Q Consensus 626 ~~~~~~~~~l~i~q~~m~glf~lk~~~~~~~~~~~l~i~ti~f~~~~~~~~~~ 678 (772)
...+..-....+......++..+--.......++...++..++.++|.+++.=
T Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~r~~GG 218 (246)
T COG0368 166 EFADPRKGLIGALLLLVLLLLALLFGLSGAIAVAVALLAAALLGRLAKRRFGG 218 (246)
T ss_pred HHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 55433222222222222111111000012233444556677788888888764
No 60
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.78 E-value=54 Score=32.78 Aligned_cols=44 Identities=14% Similarity=0.152 Sum_probs=27.9
Q ss_pred CcccchhHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHhh
Q 004125 565 GFNSGEPRIQFYFLLGLVYATVT-PLLLPFIIVFFALAYVVFRHQ 608 (772)
Q Consensus 565 ~~g~~y~~~ll~~~i~l~Ys~i~-Plilpf~~~yF~l~y~v~Ky~ 608 (772)
++.+.-.+...++.+.++||.+. |+.+.+-+..++.-++.|++.
T Consensus 65 Nl~yF~~NY~~iv~~~~~~sLi~~P~~Livl~~lv~~w~~LY~~r 109 (187)
T KOG3142|consen 65 NLSYFRVNYVIIVAILLFLSLITHPLSLIVLLALVAAWLFLYFLR 109 (187)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHheeeec
Confidence 44444455666777777777765 777766666666666555554
No 61
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=29.87 E-value=43 Score=31.12 Aligned_cols=19 Identities=32% Similarity=0.459 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHcCCC
Q 004125 14 NILGAFIFLIAFAILRLQP 32 (772)
Q Consensus 14 n~~~~~~~~~~F~~LR~~p 32 (772)
..+++.+++++||+.|+|.
T Consensus 75 aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 75 AGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp HHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3445667788999988763
No 62
>PRK00068 hypothetical protein; Validated
Probab=29.79 E-value=1.3e+03 Score=29.43 Aligned_cols=34 Identities=15% Similarity=0.206 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhhheeeeccCCCcccccHHHHHHHH
Q 004125 596 VFFALAYVVFRHQIINVYNQRYESAAAFWPDVHRRI 631 (772)
Q Consensus 596 ~yF~l~y~v~Ky~llyvy~~~~esgG~~wp~~~~~~ 631 (772)
+.-++.||.+||+++|.-.-. -.|.-|-.++-.+
T Consensus 224 ll~a~~ywL~ry~Ll~s~~g~--v~GA~YTDv~a~L 257 (970)
T PRK00068 224 LLKAVGYWLDRYNLLYSTRGV--FTGASYTDINAVL 257 (970)
T ss_pred HHHHHHHHHhhhhheecCCCE--EecCChHhhhhHH
Confidence 345678999999999875432 3355566666544
No 63
>COG5438 Predicted multitransmembrane protein [Function unknown]
Probab=27.28 E-value=5.7e+02 Score=28.52 Aligned_cols=59 Identities=27% Similarity=0.371 Sum_probs=43.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCCcchhHHHHHhhhhhhhhHHHHHHHHHHhhhh
Q 004125 427 GFLPGIALKLFLIFLPTILMIMSKFEGFISLSSLERRAATRYYLFNFVNVFLGSIIAGT 485 (772)
Q Consensus 427 g~LP~l~l~i~~~lLP~il~~ls~~eg~~S~S~~e~s~~~k~f~F~~vNvflv~~i~~s 485 (772)
.+..+++-+++...+-++.-++.+.+|.......+.....+.--.-|-+.++..++.|+
T Consensus 207 A~~~Ti~~~~ls~il~~~~i~~~~l~G~~~E~~~~l~~~~~~v~i~~~~~~~~~viIg~ 265 (385)
T COG5438 207 AFIGTILGTLLSIILAYISIYMTNLSGFGDEDLDELTYLSKNVGINFSGLFLAGVIIGS 265 (385)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCcchhhhHHHhcCCcccCcchhhhHHHHHHHHH
Confidence 34445555666677888889999999999998888888888766666666666655544
No 64
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=26.69 E-value=62 Score=32.72 Aligned_cols=23 Identities=35% Similarity=0.303 Sum_probs=19.7
Q ss_pred CCCeEEEEecCHHHHHHHHHhcc
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQ 341 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~ 341 (772)
.-++|||.|+|..-|.+||-+..
T Consensus 91 SKgYAFVEFEs~eVA~IaAETMN 113 (214)
T KOG4208|consen 91 SKGYAFVEFESEEVAKIAAETMN 113 (214)
T ss_pred cCceEEEEeccHHHHHHHHHHhh
Confidence 34899999999999999987643
No 65
>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=26.39 E-value=5.7e+02 Score=25.83 Aligned_cols=20 Identities=20% Similarity=0.574 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHhhhh
Q 004125 658 LIALPVLTIWFHYFSKDRYE 677 (772)
Q Consensus 658 ~~~l~i~ti~f~~~~~~~~~ 677 (772)
.+.+-++++...+|.+++|.
T Consensus 183 ~iiig~i~~~~~~~lkkk~~ 202 (206)
T PF06570_consen 183 YIIIGVIAFALRFYLKKKYN 202 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 34455566677888888874
No 66
>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=26.33 E-value=1.3e+02 Score=34.37 Aligned_cols=37 Identities=14% Similarity=0.087 Sum_probs=28.1
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCCC--CcceeeeCCC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRNP--TLWLTEWASE 355 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~p--~~~~v~~APe 355 (772)
..|.|||.|.+..+|..|.+.++...- ....+...|+
T Consensus 409 ~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~~ 447 (457)
T TIGR01622 409 SAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVVN 447 (457)
T ss_pred CceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEcH
Confidence 468999999999999999999987643 3344445443
No 67
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=25.50 E-value=1.2e+02 Score=33.08 Aligned_cols=46 Identities=26% Similarity=0.305 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHhhhhcCC------CCCCCeEEEEecCHHHHHHHHHhccCC
Q 004125 298 IEKLSKEIAEERERVVSDP------KAIMPAAFVSFNSRWGAAVCAQTQQTR 343 (772)
Q Consensus 298 i~~L~~~I~~~r~~~~~~~------~~~~~~AFVtF~s~~~A~~~~q~~~~~ 343 (772)
+.++++.+.++.++...-. ..+-|.|=|+|++...|..|.|+.+.+
T Consensus 286 ~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 286 LNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred HHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCe
Confidence 6677777777776642100 014589999999999999999998764
No 68
>PF09874 DUF2101: Predicted membrane protein (DUF2101); InterPro: IPR018663 This family of conserved hypothetical proteins has no known function.
Probab=24.67 E-value=3.3e+02 Score=27.61 Aligned_cols=93 Identities=13% Similarity=0.253 Sum_probs=48.9
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHhhheeeeccCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHhcccccc---cch
Q 004125 581 LVYATVTPLLLPFIIVFFALAYVVFRHQIINVYNQRYESAAAFWPDVHRRIIAALIISQLLLMGLLSTKKAALS---TPF 657 (772)
Q Consensus 581 l~Ys~i~Plilpf~~~yF~l~y~v~Ky~llyvy~~~~esgG~~wp~~~~~~~~~l~i~q~~m~glf~lk~~~~~---~~~ 657 (772)
.++..-.|+.++.+++||+.-.++-+.|.=+.++.+ - |... ..-.+++.+ ++..|...+++.... ...
T Consensus 50 ~v~~~~~~~~i~~~i~yf~yLrYiL~~~~~f~id~e--p----YR~F--Y~~Isli~~-l~~~gyvlvr~~s~~~~~y~~ 120 (206)
T PF09874_consen 50 YVFFISPLILIPLFIFYFIYLRYILIRNRNFMIDFE--P----YRFF--YYGISLIGF-LSFLGYVLVRRFSFEVYPYYT 120 (206)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHhccceeEechh--H----HHHH--HHHHhhhhh-eeecchhhheeccchhhhHHH
Confidence 344444566777788888887766555555555331 1 1111 333333333 233444444443221 222
Q ss_pred hHH-HHHHHHHHHHHHHhhhhhhhcc
Q 004125 658 LIA-LPVLTIWFHYFSKDRYESAFVK 682 (772)
Q Consensus 658 ~~~-l~i~ti~f~~~~~~~~~~~~~~ 682 (772)
.+. ..+..++|.++++.+|.+...+
T Consensus 121 yL~~v~laVl~fr~~Fr~ky~RdyTy 146 (206)
T PF09874_consen 121 YLGFVFLAVLAFRYYFRSKYGRDYTY 146 (206)
T ss_pred HHHHHHHHHHHHhhheeeeeccccee
Confidence 222 2235567889999999887654
No 69
>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=23.92 E-value=1.1e+02 Score=25.34 Aligned_cols=36 Identities=14% Similarity=0.220 Sum_probs=27.7
Q ss_pred CeEEEEecCHHHHHHHHHhccCCCCCcceeeeCCCCCCe
Q 004125 321 PAAFVSFNSRWGAAVCAQTQQTRNPTLWLTEWASEPRDV 359 (772)
Q Consensus 321 ~~AFVtF~s~~~A~~~~q~~~~~~p~~~~v~~APeP~DI 359 (772)
....++|.|..+|-.+-+.+...+ ..++..|-|++|
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 568999999999998888776543 245667888877
No 70
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=23.19 E-value=3.8e+02 Score=26.35 Aligned_cols=57 Identities=7% Similarity=0.161 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhhheeeeccCCCcccccHHH---------HHHHHHHHHHHHHHHHHHHHHhcccc
Q 004125 596 VFFALAYVVFRHQIINVYNQRYESAAAFWPD---------VHRRIIAALIISQLLLMGLLSTKKAA 652 (772)
Q Consensus 596 ~yF~l~y~v~Ky~llyvy~~~~esgG~~wp~---------~~~~~~~~l~i~q~~m~glf~lk~~~ 652 (772)
+.+.+.+++-=|.+-+.-+|.|+.+|.+=.. +..++.--+++.=++-++.......|
T Consensus 52 ~~~~~~~~~~~~~l~~~~rp~~~~~g~Lv~~G~DL~~~G~l~ey~~Diiylt~~vq~l~~~s~~~w 117 (170)
T PF05620_consen 52 LLFSLPAIFCYYFLEKMARPKYDETGELVDAGEDLNQPGGLTEYMFDIIYLTWFVQVLSIISNKFW 117 (170)
T ss_pred HHHHHHHHHHHHHHHHhCCCCcCCCCCeecCcccccCCcchHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444446666778888755543221 45555555555555555555533333
No 71
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=21.68 E-value=37 Score=36.84 Aligned_cols=153 Identities=12% Similarity=0.082 Sum_probs=0.0
Q ss_pred CcceEEEecCCCCCCcchHHHHHHhhhccCCCceeEEEEEecch----------------hHHHHHHHHHH-----HHHH
Q 004125 200 DQFTVLVRNVPPDPDESVSELVEHFFLVNHPNHYLTHQVVVNAN----------------KLAKLVKKKKK-----LQNW 258 (772)
Q Consensus 200 ~~~TVlV~~IP~~~~~~~~e~l~~~F~~~~p~~v~~v~i~~~~~----------------~L~~L~~~r~~-----~~~~ 258 (772)
++-.+.|-+|+-+.++ |.+++||.+. +++.++.+.+|.. .....+..+.. ...-
T Consensus 5 ~~~KlfiGgisw~tte---e~Lr~yf~~~--Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~ 79 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTE---ESLREYFSQF--GEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEP 79 (311)
T ss_pred CCcceeecCcCccccH---HHHHHHhccc--CceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccc
Q ss_pred HHHhHhhhhcCCCCCCcccccccCCCCccccHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCeEEEEecCHHHHHHHH-
Q 004125 259 LDYYQLKYSRNNSKRPMMKTGFLGLWGEKVDGIDYHISEIEKLSKEIAEERERVVSDPKAIMPAAFVSFNSRWGAAVCA- 337 (772)
Q Consensus 259 Le~~~~k~~r~~~~Rp~~r~g~~g~~g~kvDaI~~~~~~i~~L~~~I~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~- 337 (772)
.+.............++.|.-|.| |-..|.-++--.+--+--..|.......+.+.....+-+||+|.++.+.-.+.
T Consensus 80 k~av~r~~~~~~~~~~~tkkiFvG--G~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~ 157 (311)
T KOG4205|consen 80 KRAVSREDQTKVGRHLRTKKIFVG--GLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL 157 (311)
T ss_pred eeccCcccccccccccceeEEEec--CcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc
Q ss_pred HhccCCCCCcceeeeCCCCCCee
Q 004125 338 QTQQTRNPTLWLTEWASEPRDVY 360 (772)
Q Consensus 338 q~~~~~~p~~~~v~~APeP~DIi 360 (772)
|..+.-+.....+..| .|+|+.
T Consensus 158 ~~f~~~~gk~vevkrA-~pk~~~ 179 (311)
T KOG4205|consen 158 QKFHDFNGKKVEVKRA-IPKEVM 179 (311)
T ss_pred cceeeecCceeeEeec-cchhhc
No 72
>PF03208 PRA1: PRA1 family protein; InterPro: IPR004895 This family includes yeast hypothetical proteins and the uncharacterised rat prenylated rab acceptor protein PRA1.
Probab=21.23 E-value=2.6e+02 Score=26.68 Aligned_cols=39 Identities=18% Similarity=0.374 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHhhh
Q 004125 571 PRIQFYFLLGLVYATV-TPLLLPFIIVFFALAYVVFRHQI 609 (772)
Q Consensus 571 ~~~ll~~~i~l~Ys~i-~Plilpf~~~yF~l~y~v~Ky~l 609 (772)
.+...++++.++|+.+ .|..+...++..+..+++++.+-
T Consensus 42 ~NY~~i~~~~~~~~ll~~P~~l~~~~~~~~~~~~~~~~~~ 81 (153)
T PF03208_consen 42 TNYLLIFLLLFLIFLLTNPFFLLVLLLVVALWAFIYKSRK 81 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3334444444444444 48766666665555555555443
No 73
>PRK12438 hypothetical protein; Provisional
Probab=20.94 E-value=1.8e+03 Score=28.17 Aligned_cols=34 Identities=18% Similarity=0.192 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhheeeeccCCCcccccHHHHHHHH
Q 004125 598 FALAYVVFRHQIINVYNQRYESAAAFWPDVHRRI 631 (772)
Q Consensus 598 F~l~y~v~Ky~llyvy~~~~esgG~~wp~~~~~~ 631 (772)
-++.||.+||.++|.-.-..--.|.-|-.++-.+
T Consensus 224 ~A~~ywLdRy~LL~s~~g~~~~~GAgYTDv~a~L 257 (991)
T PRK12438 224 KAVAYWLDRYELLSSGRKEPTFTGAGYTDINAVL 257 (991)
T ss_pred HHHHHHHhhhhheecCCCCceEecCChhhhhhHH
Confidence 3678999999999975421112345566666543
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=20.66 E-value=1.6e+02 Score=35.62 Aligned_cols=62 Identities=18% Similarity=0.234 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCCCCeEEEEecCHHHHHHHHHhccCCC--CCcceeeeC--CCCCC
Q 004125 294 HISEIEKLSKEIAEERERVVSDPKAIMPAAFVSFNSRWGAAVCAQTQQTRN--PTLWLTEWA--SEPRD 358 (772)
Q Consensus 294 ~~~~i~~L~~~I~~~r~~~~~~~~~~~~~AFVtF~s~~~A~~~~q~~~~~~--p~~~~v~~A--PeP~D 358 (772)
++..+..+-++.-+.+.-.... ..++|||+..++.+|+.|.|.+...+ +...++.|| +.|++
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 TEQDLANLFEEFGEIQSIILIP---PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred hHHHHHHHHHhcccceeEeecc---CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 3445555555444444433333 45899999999999999999987543 334445564 56666
No 75
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=20.62 E-value=1.3e+02 Score=33.69 Aligned_cols=24 Identities=17% Similarity=0.191 Sum_probs=20.4
Q ss_pred CCCeEEEEecCHHHHHHHHHhccC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQT 342 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~ 342 (772)
..|++||+|.++++|..|...++.
T Consensus 75 s~gcCFv~~~trk~a~~a~~Alhn 98 (510)
T KOG0144|consen 75 SKGCCFVKYYTRKEADEAINALHN 98 (510)
T ss_pred ccceEEEEeccHHHHHHHHHHhhc
Confidence 358999999999999998877764
No 76
>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=20.16 E-value=96 Score=27.64 Aligned_cols=23 Identities=22% Similarity=0.507 Sum_probs=15.7
Q ss_pred ceEEEecCCCCCCc-chHHHHHHh
Q 004125 202 FTVLVRNVPPDPDE-SVSELVEHF 224 (772)
Q Consensus 202 ~TVlV~~IP~~~~~-~~~e~l~~~ 224 (772)
-|||++|||...++ .+.+.+++.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~ 25 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEH 25 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHh
Confidence 49999999997653 344445443
No 77
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=20.16 E-value=1e+02 Score=27.90 Aligned_cols=26 Identities=19% Similarity=0.229 Sum_probs=22.0
Q ss_pred CCCeEEEEecCHHHHHHHHHhccCCC
Q 004125 319 IMPAAFVSFNSRWGAAVCAQTQQTRN 344 (772)
Q Consensus 319 ~~~~AFVtF~s~~~A~~~~q~~~~~~ 344 (772)
..|+|||.+++..+|..|+..+...+
T Consensus 56 TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 56 TRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred cCceEEEEehHhhhHHHHHHHhcccc
Confidence 67999999999999999988775543
Done!