Query 015063
Match_columns 414
No_of_seqs 178 out of 931
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 02:44:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015063.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015063hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5594 Uncharacterized integr 100.0 1.5E-72 3.3E-77 567.6 29.4 391 3-413 20-455 (827)
2 KOG1134 Uncharacterized conser 100.0 2.1E-68 4.7E-73 554.5 31.7 399 1-413 1-402 (728)
3 PF13967 RSN1_TM: Late exocyto 100.0 1.2E-37 2.6E-42 270.2 13.2 156 6-177 1-157 (157)
4 PF02714 DUF221: Domain of unk 99.8 3.6E-20 7.9E-25 180.2 10.0 94 319-412 1-94 (325)
5 PF14703 DUF4463: Domain of un 99.2 3.4E-11 7.5E-16 93.2 6.1 64 235-298 1-85 (85)
6 TIGR01659 sex-lethal sex-letha 96.6 0.0077 1.7E-07 58.9 8.1 40 195-239 104-143 (346)
7 PLN03120 nucleic acid binding 95.3 0.12 2.6E-06 48.0 9.3 33 198-235 4-36 (260)
8 PLN03121 nucleic acid binding 95.3 0.12 2.5E-06 47.3 8.8 34 197-235 4-37 (243)
9 TIGR01628 PABP-1234 polyadenyl 95.1 0.17 3.6E-06 53.2 10.9 165 200-375 2-201 (562)
10 PLN03134 glycine-rich RNA-bind 95.1 0.2 4.3E-06 42.6 9.3 35 197-236 33-67 (144)
11 KOG0144 RNA-binding protein CU 95.0 0.11 2.4E-06 50.7 8.4 142 197-349 33-203 (510)
12 TIGR01648 hnRNP-R-Q heterogene 94.8 0.1 2.2E-06 54.3 8.1 172 197-376 57-257 (578)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 94.8 0.25 5.3E-06 48.4 10.5 101 198-374 3-111 (352)
14 TIGR01661 ELAV_HUD_SF ELAV/HuD 93.5 0.28 6E-06 48.0 7.9 35 199-238 270-304 (352)
15 KOG0122 Translation initiation 93.0 0.52 1.1E-05 42.9 7.9 34 316-349 231-266 (270)
16 TIGR01648 hnRNP-R-Q heterogene 92.8 0.6 1.3E-05 48.7 9.3 35 317-351 270-306 (578)
17 KOG0148 Apoptosis-promoting RN 91.7 0.54 1.2E-05 43.4 6.5 114 198-336 6-124 (321)
18 KOG0149 Predicted RNA-binding 91.2 0.66 1.4E-05 42.0 6.5 20 316-335 54-73 (247)
19 TIGR01628 PABP-1234 polyadenyl 90.9 2.5 5.4E-05 44.4 11.7 37 197-238 177-213 (562)
20 KOG0117 Heterogeneous nuclear 90.2 3.1 6.7E-05 41.2 10.5 61 315-375 207-282 (506)
21 KOG0125 Ataxin 2-binding prote 88.2 3.6 7.7E-05 39.2 9.1 50 316-365 136-197 (376)
22 PF13893 RRM_5: RNA recognitio 87.6 0.8 1.7E-05 31.6 3.5 24 316-339 21-44 (56)
23 TIGR01642 U2AF_lg U2 snRNP aux 85.6 4.9 0.00011 41.5 9.6 36 198-238 295-330 (509)
24 TIGR01645 half-pint poly-U bin 85.3 5 0.00011 42.3 9.3 43 316-358 246-290 (612)
25 TIGR01649 hnRNP-L_PTB hnRNP-L/ 85.3 9 0.00019 39.4 11.3 36 197-237 274-310 (481)
26 KOG0109 RNA-binding protein LA 82.2 2 4.2E-05 40.3 4.3 35 201-240 5-39 (346)
27 smart00361 RRM_1 RNA recogniti 81.9 2 4.3E-05 31.3 3.5 25 315-339 36-60 (70)
28 KOG4211 Splicing factor hnRNP- 81.1 3.3 7.2E-05 41.5 5.7 23 315-337 144-166 (510)
29 PF14259 RRM_6: RNA recognitio 80.2 2.6 5.6E-05 30.3 3.7 32 201-237 1-32 (70)
30 KOG0145 RNA-binding protein EL 80.1 24 0.00051 32.7 10.3 144 200-352 43-209 (360)
31 PF00076 RRM_1: RNA recognitio 80.1 2.8 6.2E-05 29.7 3.9 33 201-238 1-33 (70)
32 PF14259 RRM_6: RNA recognitio 80.0 1.8 3.9E-05 31.1 2.8 23 315-337 38-60 (70)
33 PF00076 RRM_1: RNA recognitio 79.1 2.1 4.6E-05 30.4 2.9 25 315-339 38-62 (70)
34 TIGR01645 half-pint poly-U bin 78.0 7.5 0.00016 41.0 7.5 36 197-237 106-141 (612)
35 KOG0127 Nucleolar protein fibr 77.9 7.3 0.00016 39.7 7.0 26 199-227 293-318 (678)
36 KOG0107 Alternative splicing f 77.7 2 4.3E-05 37.2 2.6 34 315-348 46-81 (195)
37 TIGR01659 sex-lethal sex-letha 76.2 6.4 0.00014 38.6 6.2 61 315-375 148-216 (346)
38 PF04059 RRM_2: RNA recognitio 74.3 3.6 7.8E-05 32.3 3.1 25 315-339 44-68 (97)
39 KOG0146 RNA-binding protein ET 72.9 6.4 0.00014 36.4 4.8 50 315-376 59-113 (371)
40 smart00362 RRM_2 RNA recogniti 72.5 5.9 0.00013 27.6 3.8 31 200-235 1-31 (72)
41 smart00362 RRM_2 RNA recogniti 70.2 6.1 0.00013 27.5 3.5 24 315-338 38-61 (72)
42 smart00360 RRM RNA recognition 69.8 6.2 0.00013 27.3 3.4 23 315-337 37-59 (71)
43 KOG4206 Spliceosomal protein s 68.8 8 0.00017 34.9 4.4 44 315-358 51-96 (221)
44 cd00590 RRM RRM (RNA recogniti 68.8 8.5 0.00018 26.9 4.0 24 316-339 40-63 (74)
45 PF07292 NID: Nmi/IFP 35 domai 66.4 1.4 3.1E-05 33.8 -0.7 30 195-224 49-79 (88)
46 KOG0117 Heterogeneous nuclear 65.4 9.8 0.00021 37.9 4.6 51 289-339 95-148 (506)
47 cd00590 RRM RRM (RNA recogniti 65.3 9.3 0.0002 26.7 3.6 31 200-235 1-31 (74)
48 PF01102 Glycophorin_A: Glycop 59.9 9 0.0002 31.4 2.8 20 12-31 73-92 (122)
49 TIGR01622 SF-CC1 splicing fact 53.0 19 0.00041 36.5 4.6 37 197-238 88-124 (457)
50 PF11823 DUF3343: Protein of u 52.9 26 0.00057 25.7 4.1 36 317-355 2-37 (73)
51 PF02439 Adeno_E3_CR2: Adenovi 52.4 41 0.00088 21.4 4.2 30 3-32 4-33 (38)
52 KOG1457 RNA binding protein (c 49.4 25 0.00054 31.9 4.0 23 315-337 76-98 (284)
53 PF14257 DUF4349: Domain of un 48.2 2.3E+02 0.005 26.3 11.2 26 283-308 160-185 (262)
54 KOG0114 Predicted RNA-binding 48.0 18 0.00038 28.8 2.5 26 315-340 56-81 (124)
55 PF04059 RRM_2: RNA recognitio 44.4 26 0.00057 27.5 3.1 28 199-229 2-29 (97)
56 KOG0226 RNA-binding proteins [ 44.0 36 0.00078 31.5 4.3 23 315-337 231-253 (290)
57 KOG4208 Nucleolar RNA-binding 43.8 23 0.0005 31.6 3.0 22 315-336 91-112 (214)
58 TIGR01649 hnRNP-L_PTB hnRNP-L/ 41.4 33 0.00071 35.3 4.2 35 198-237 2-36 (481)
59 COG0724 RNA-binding proteins ( 39.2 41 0.0009 30.4 4.2 36 198-238 115-150 (306)
60 KOG0110 RNA-binding protein (R 39.0 43 0.00093 35.5 4.5 60 315-374 559-635 (725)
61 PF11608 Limkain-b1: Limkain b 38.5 65 0.0014 24.7 4.2 40 316-355 39-80 (90)
62 PF10309 DUF2414: Protein of u 36.6 64 0.0014 23.1 3.8 42 199-240 6-52 (62)
63 COG4709 Predicted membrane pro 35.7 2.6E+02 0.0056 24.8 8.1 15 283-297 22-36 (195)
64 TIGR01622 SF-CC1 splicing fact 34.4 78 0.0017 32.0 5.7 36 315-350 409-446 (457)
65 PF05393 Hum_adeno_E3A: Human 33.6 50 0.0011 25.2 2.9 35 10-45 36-73 (94)
66 PF12273 RCR: Chitin synthesis 31.0 43 0.00092 27.7 2.5 8 22-29 16-23 (130)
67 KOG0105 Alternative splicing f 30.0 24 0.00052 31.0 0.9 21 315-335 44-64 (241)
68 TIGR01642 U2AF_lg U2 snRNP aux 29.8 66 0.0014 33.1 4.3 25 315-339 336-360 (509)
69 KOG0718 Molecular chaperone (D 29.8 3.8E+02 0.0081 27.4 9.1 26 205-230 16-42 (546)
70 PF00322 Endothelin: Endotheli 29.5 21 0.00046 21.5 0.3 6 354-359 23-28 (31)
71 PF04423 Rad50_zn_hook: Rad50 28.7 76 0.0016 21.7 3.1 31 275-306 21-51 (54)
72 KOG3048 Molecular chaperone Pr 27.9 69 0.0015 26.9 3.1 26 284-309 100-125 (153)
73 PF15179 Myc_target_1: Myc tar 27.4 1E+02 0.0022 27.1 4.2 34 5-38 23-56 (197)
74 PF08006 DUF1700: Protein of u 26.1 2.6E+02 0.0057 24.3 6.9 17 282-298 21-37 (181)
75 PRK04989 psbM photosystem II r 26.1 1.4E+02 0.0029 18.7 3.4 18 376-393 6-23 (35)
76 KOG1365 RNA-binding protein Fu 24.5 86 0.0019 30.8 3.6 24 314-337 322-345 (508)
77 PF04065 Not3: Not1 N-terminal 24.1 2.1E+02 0.0045 26.4 5.9 68 241-308 72-145 (233)
78 PHA02673 ORF109 EEV glycoprote 24.1 61 0.0013 27.7 2.2 25 99-123 29-53 (161)
79 PRK06231 F0F1 ATP synthase sub 24.0 1.4E+02 0.003 26.9 4.7 37 155-191 50-86 (205)
80 KOG1548 Transcription elongati 24.0 1.8E+02 0.0039 28.3 5.5 47 293-339 285-337 (382)
81 KOG4207 Predicted splicing fac 23.8 63 0.0014 29.1 2.3 35 315-349 54-90 (256)
82 KOG0144 RNA-binding protein CU 23.1 1.3E+02 0.0028 30.2 4.5 26 315-340 75-100 (510)
83 CHL00080 psbM photosystem II p 22.8 1.7E+02 0.0037 18.1 3.3 17 377-393 7-23 (34)
84 PF15050 SCIMP: SCIMP protein 22.5 1.3E+02 0.0028 24.4 3.7 19 13-31 16-34 (133)
85 TIGR03038 PS_II_psbM photosyst 22.2 1.9E+02 0.004 17.8 3.4 17 377-393 7-23 (33)
86 KOG2150 CCR4-NOT transcription 22.2 1.9E+02 0.0041 30.2 5.6 66 239-306 70-143 (575)
87 KOG0113 U1 small nuclear ribon 21.7 1.2E+02 0.0026 28.9 3.8 36 198-238 101-136 (335)
88 PF08946 Osmo_CC: Osmosensory 21.5 1.1E+02 0.0025 20.2 2.6 19 289-307 16-34 (46)
89 PF01034 Syndecan: Syndecan do 21.1 34 0.00074 24.5 0.2 25 14-38 20-44 (64)
90 PF07243 Phlebovirus_G1: Phleb 20.9 37 0.0008 34.9 0.4 25 6-30 418-442 (526)
91 PRK14094 psbM photosystem II r 20.9 1.3E+02 0.0029 20.0 2.8 18 376-393 6-23 (50)
92 KOG1365 RNA-binding protein Fu 20.4 91 0.002 30.7 2.9 22 314-335 204-225 (508)
93 KOG0131 Splicing factor 3b, su 20.2 91 0.002 27.5 2.5 22 316-337 51-72 (203)
94 PF02388 FemAB: FemAB family; 20.1 7.8E+02 0.017 24.6 9.7 93 218-326 220-316 (406)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=1.5e-72 Score=567.63 Aligned_cols=391 Identities=27% Similarity=0.462 Sum_probs=343.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceecceeeecCCCCCCCCCCcccccccccccccccccccchhhhcCC
Q 015063 3 NLKDIGVSAAINLLSAFAFLVVFAILRIQPVNDRVYFPKWYRKGVRSSPTHSGTFANKFVNLDLRTYLRFLNWMPDALKM 82 (414)
Q Consensus 3 ~~~~~~t~l~~~~~~~~~~l~~F~~lR~~~~~~~iY~pr~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~Wi~~~~~~ 82 (414)
+.++++|++++++.++++++++|++||+| ++++|+||+..++.+ . .+|+..++|+|||+.+++++
T Consensus 20 s~~~~~t~l~f~~~~~~~~l~~f~iLR~r--~k~lY~pr~~~~~~~--~-----------~~P~~~~ss~~gWl~~L~~i 84 (827)
T COG5594 20 STSAVITQLVFAGLIFLVFLILFLILRKR--WKRLYAPRTNFDGQN--E-----------CLPEPNPSSYWGWLEPLVKI 84 (827)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHH--HhHhcCcceeecCCC--c-----------ccCCCCccchHHHHHHHHhC
Confidence 57899999999999999999999999986 799999999876543 0 12223678999999999999
Q ss_pred ChhHHHHhcCchHHHHHHHHHHhHHHHHHHHHHhhheeeeeeeeCCCcccccCcCCCCCccccccccCCCCcchHhHHHH
Q 015063 83 PESELVDHAGLDSVAYLRIYLLGLKIFVPLAILAFVVLVPINWTGKTLEHATNVSFSDIDKLSISNIPAGSKRLYAHTIM 162 (414)
Q Consensus 83 ~d~~i~~~~GlDa~~flrflr~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~l~~~Ti~Ni~~~s~~lw~h~i~ 162 (414)
+|+.+++.+|+|||+||||+|||+.+|+++|++++|||+|||++.+...+...-..++++++|++|+.+ ++++|+|++.
T Consensus 85 ~d~~~l~~aGlD~y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~gn~~s~s~l~~Ls~~Nv~~-~n~~~aHvf~ 163 (827)
T COG5594 85 PDEFLLQYAGLDGYFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATNGNSDSESGLDKLSISNVSP-SNRLYAHVFL 163 (827)
T ss_pred CHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHhHEeeeeeecccccccCCccchhhhhHhhhhcccC-CCceeeeeeh
Confidence 999999999999999999999999999999999999999999887554322112458999999999986 7899999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---------CCCCceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEE
Q 015063 163 SYVFTLWAFYVLRNEYKMIADMRLRFLASQN---------RRPDQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTH 233 (414)
Q Consensus 163 ~~l~~~~~~~~l~~e~~~~~~~R~~~l~~~~---------~~~~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v 233 (414)
.|++.++++|.+++|++.|+.+||++++++. .+.++|||++++||.+... .+.+.++|+++..+++.+.
T Consensus 164 ~~~f~~~vlfii~~el~~y~~lr~a~~~~p~y~qs~~~~~~~~ssRTvlis~LP~~~~~--~e~L~~~~~kl~~~~i~~~ 241 (827)
T COG5594 164 SWFFFGYVLFIIFRELRFYVVLRQAYLRSPLYQQSLLTLQNNLSSRTVLISGLPSELRS--DEELKELFDKLKVGEIDSD 241 (827)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHhhccCCCCceEEeecCChhhcC--chhHHHHHhhcCeeeeccc
Confidence 9999999999999999999999999999874 2448899999999997432 1458899999988888888
Q ss_pred EEEeccchHHHHHHHHHHHHHHHHHHHh-------hh------h--------------------ccCCCCccccccc--c
Q 015063 234 QVVYNANKLAQLVENKKSLRNWLTYYKN-------TY------E--------------------RTSKKPTTKTGFW--G 278 (414)
Q Consensus 234 ~i~~d~~~L~~l~~~r~~~~~~le~~~~-------k~------~--------------------~~~~rp~~r~~~~--~ 278 (414)
.+|||.+.+++++.+|++..+++|...+ |. + .+++||++|.+-. +
T Consensus 242 ~l~~~~~~l~~l~k~R~ki~~klE~~~~~~~~~~~K~~~~~~~K~~~~L~~~~~k~~~~~~~y~~~~~Rp~~~i~k~~~~ 321 (827)
T COG5594 242 VLCRDLGTLQELYKERDKILKKLEKALNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEILPEYVPDKKRPKHRIKKLNKG 321 (827)
T ss_pred hhhhhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHhhccCCCCCCCcccccchhhhhhccccccchhhhhhhhhh
Confidence 9999999999999999999999883211 11 0 0156998887644 6
Q ss_pred ccCCcccHHHHHHHHHHHhhHHHHHHHhhhhhccCCCCCeEEEEeCCHHHHHHHHHhhccCCCCCce-eeeCCCCCCccc
Q 015063 279 LWGTRVDAIDYYTAEINKLTEEENAEREKVISDANSIIPAAFVSFKSRWGAAVCAQTQQSRNPTIWL-TNWAPEPRDIFW 357 (414)
Q Consensus 279 ~~g~kvdai~y~~~~l~~l~~~I~~~r~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~~~-v~~AP~P~DIiW 357 (414)
+.||||||||||++++.+++++|++.|+...... +.++|||||+|+..||+|+|.+.++++.... ++.||+|+||+|
T Consensus 322 i~gKkVdaI~y~s~~l~~l~~~i~~~r~~~~~~t--~~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iapaPnDi~W 399 (827)
T COG5594 322 IFGKKVDAIDYYSAKLTKLDAEIENARKSLYENT--PTKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAPAPNDIIW 399 (827)
T ss_pred hccceecHHHHHHHHHHHHHHHHHHHHhCccccC--ccccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecCCcccccc
Confidence 7899999999999999999999999999865543 5679999999999999999999999998776 999999999999
Q ss_pred cCcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcHhhHHhhcCCchhhhc
Q 015063 358 DNLSIPYVELTIRRLLMAVSLFALIFFFMIPIAFVQSLANIEGIQKVLPFLKPLID 413 (414)
Q Consensus 358 ~Nl~~~~~~r~~R~~~~~~~~~~liif~~iPv~~v~~l~~l~~l~~~~p~L~~~~~ 413 (414)
+|+..++++|..+++++++++++++++|++|||+|+.++|+++|++.||||+.+++
T Consensus 400 ~Nl~ls~~~r~~k~~~~ni~~il~II~w~~pVa~v~~i~Nl~~l~~~~p~l~~il~ 455 (827)
T COG5594 400 DNLRLSRKERLFKRISANILFILLIILWAFPVAFVGTISNLNTLSSLWPFLKFILK 455 (827)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHhhhhHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999865
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=2.1e-68 Score=554.48 Aligned_cols=399 Identities=50% Similarity=0.890 Sum_probs=353.1
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceecceeeecCCCCCCCCCCccccccccccccccccc-ccchhhh
Q 015063 1 MANLKDIGVSAAINLLSAFAFLVVFAILRIQPVNDRVYFPKWYRKGVRSSPTHSGTFANKFVNLDLRTYLRF-LNWMPDA 79 (414)
Q Consensus 1 ~~~~~~~~t~l~~~~~~~~~~l~~F~~lR~~~~~~~iY~pr~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~-~~Wi~~~ 79 (414)
|+++.+++.+-.++...+..++.+|.+++.++++.++|.|+++..+.+..|.... ....+++. |+|+.++
T Consensus 1 ~~~~~~~~~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~---------~~~~~~~~~~~Wl~~~ 71 (728)
T KOG1134|consen 1 MATFESIGISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESK---------VEPVPSSVNFGWLPAL 71 (728)
T ss_pred CCccccccccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCcccc---------CCCCCCcccccchHHH
Confidence 5666667777777777788888888888888889999999998887664443221 11234455 9999999
Q ss_pred cCCChhHHHHhcCchHHHHHHHHHHhHHHHHHHHHHhhheeeeeeeeCCCcccccCcCCCCCccccccccCCCCcchHhH
Q 015063 80 LKMPESELVDHAGLDSVAYLRIYLLGLKIFVPLAILAFVVLVPINWTGKTLEHATNVSFSDIDKLSISNIPAGSKRLYAH 159 (414)
Q Consensus 80 ~~~~d~~i~~~~GlDa~~flrflr~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~l~~~Ti~Ni~~~s~~lw~h 159 (414)
++++|+|+++++|+||++||||+++++++|+++++++++||+|+|+++++..+.+ .++++++|++|++.+++++|+|
T Consensus 72 ~k~~~~ei~~~~GlDa~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~~---~~s~~~ls~snv~~~s~~lw~H 148 (728)
T KOG1134|consen 72 LKIPDEEILEHAGLDAYVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELGN---EDSLDKLSISNVQPGSSLLWAH 148 (728)
T ss_pred hcCCHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCcccccc---cchhhhhhheeccCCCCCEEEE
Confidence 9999999999999999999999999999999999999999999999999876431 1279999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEecc
Q 015063 160 TIMSYVFTLWAFYVLRNEYKMIADMRLRFLASQNRRPDQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNA 239 (414)
Q Consensus 160 ~i~~~l~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 239 (414)
++++|+++++++|++++|++++..+|++++.++.+.+++.|+++.++|...+.+....++++|+..+|+++.+++++||.
T Consensus 149 v~~~y~~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~ 228 (728)
T KOG1134|consen 149 VFFTYLFTFFTLFILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPPPDGVSVSVIVRHFFSLNHPVKVRSHQVVYNE 228 (728)
T ss_pred eehhHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccCCCCCchhhHHhhhhhccCCceeehhHHHhhH
Confidence 99999999999999999999999999999999998999999999999965444556678888888899999999999999
Q ss_pred chHHHHHHHHHHHH-HHHHHHHhhhhcc-CCCCccccccccccCCcccHHHHHHHHHHHhhHHHHHHHhhhhhccCCCCC
Q 015063 240 NKLAQLVENKKSLR-NWLTYYKNTYERT-SKKPTTKTGFWGLWGTRVDAIDYYTAEINKLTEEENAEREKVISDANSIIP 317 (414)
Q Consensus 240 ~~L~~l~~~r~~~~-~~le~~~~k~~~~-~~rp~~r~~~~~~~g~kvdai~y~~~~l~~l~~~I~~~r~~~~~~~~~~~~ 317 (414)
.+|.++.++++++. +++.+...+..++ .+||++|.++|+++||||||||||++|+++++++|+++|+....+. ..+
T Consensus 229 ~~l~~l~~~~~k~~~~~l~~~~~~~~~~~~~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~~~~~~~~~~--~~~ 306 (728)
T KOG1134|consen 229 SKLSKLLSKLKKLRENKLYKEHKRLKSNPKKRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEELRESLYEEK--PLP 306 (728)
T ss_pred HHHHHHHHHHHHHhHHHHHHhhhhhccccccCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCc
Confidence 99999999999994 4444333333222 3799999999999999999999999999999999999999987762 689
Q ss_pred eEEEEeCCHHHHHHHHHhhccCCCCCceeeeCCCCCCccccCcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 015063 318 AAFVSFKSRWGAAVCAQTQQSRNPTIWLTNWAPEPRDIFWDNLSIPYVELTIRRLLMAVSLFALIFFFMIPIAFVQSLAN 397 (414)
Q Consensus 318 ~aFVtF~s~~~A~~a~Q~~~~~~~~~~~v~~AP~P~DIiW~Nl~~~~~~r~~R~~~~~~~~~~liif~~iPv~~v~~l~~ 397 (414)
.|||||+|+.+|+.|+|.+++.++..|.++.||||+||.|+|+..+..+|+.|+++++++++++++||++|||+|++++|
T Consensus 307 ~aFVtf~sr~~A~~~aq~~~~~~~~~w~~~~APeP~Di~W~nl~i~~~~~~~~~~~~~~~~~~li~f~~iPva~V~~l~n 386 (728)
T KOG1134|consen 307 AAFVTFKSRYGAAVAAQTQQSLNPTKWLTEFAPEPRDIYWDNLAISYVERYLRRFLVNVALFLLLFFWIIPVAFVQALTN 386 (728)
T ss_pred eEEEEEEeeHHHHHHHHhhhcCCCCceEEEecCCcccceecccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhHHhhcCCchhhhc
Q 015063 398 IEGIQKVLPFLKPLID 413 (414)
Q Consensus 398 l~~l~~~~p~L~~~~~ 413 (414)
++.|++.+|||+++.+
T Consensus 387 l~~l~~~~Pflk~i~~ 402 (728)
T KOG1134|consen 387 LEGLSKVFPFLKPILE 402 (728)
T ss_pred hhhhhhccchhhhhhh
Confidence 9999999999999875
No 3
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=1.2e-37 Score=270.24 Aligned_cols=156 Identities=37% Similarity=0.676 Sum_probs=136.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceecceeeecC-CCCCCCCCCcccccccccccccccccccchhhhcCCCh
Q 015063 6 DIGVSAAINLLSAFAFLVVFAILRIQPVNDRVYFPKWYRKG-VRSSPTHSGTFANKFVNLDLRTYLRFLNWMPDALKMPE 84 (414)
Q Consensus 6 ~~~t~l~~~~~~~~~~l~~F~~lR~~~~~~~iY~pr~~~~~-~~~~p~~~~~~~~~~~~~~~~~~~~~~~Wi~~~~~~~d 84 (414)
+|++++++|++++++++++|++||+| ++++|+||.+.++ ....| ++..++|+|+|++++++++|
T Consensus 1 s~~~sl~~~~~i~~~~~~~F~~lR~~--~~~iY~pR~~~~~~~~~~~-------------~~~~~~g~f~Wi~~~~~~~d 65 (157)
T PF13967_consen 1 SFLTSLAINLIIFLVLLLLFCILRKR--FPRIYQPRSYLPHPEPERP-------------PPLPSRGFFGWIKPVFKISD 65 (157)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhc--cHHhcccccccCCcccccC-------------CCCCCCCchHHHHHHHcCCH
Confidence 58999999999999999999999986 7899999998753 11111 11234799999999999999
Q ss_pred hHHHHhcCchHHHHHHHHHHhHHHHHHHHHHhhheeeeeeeeCCCcccccCcCCCCCccccccccCCCCcchHhHHHHHH
Q 015063 85 SELVDHAGLDSVAYLRIYLLGLKIFVPLAILAFVVLVPINWTGKTLEHATNVSFSDIDKLSISNIPAGSKRLYAHTIMSY 164 (414)
Q Consensus 85 ~~i~~~~GlDa~~flrflr~~~~~f~~~~~~~~~iLlPin~~~~~~~~~~~~~~~~l~~~Ti~Ni~~~s~~lw~h~i~~~ 164 (414)
+|++++||+||++|+||+|+++++|+++++++++||+|+|++|++.++..+ ..++++++|++|++++++++|+|++++|
T Consensus 66 ~~i~~~~GlDa~~flrflr~~~~~f~~~~i~~~~vLlPi~~~~~~~~~~~~-~~~~l~~~tisnv~~~s~~lw~h~v~~~ 144 (157)
T PF13967_consen 66 DEILRHCGLDAYVFLRFLRMLIKIFLFLSILSLPVLLPINYTGGDDDGDSD-NESGLDRLTISNVPKGSSRLWAHVVFAY 144 (157)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHheeeeEEeCCCCccccc-cccccccccHHhhcCCCCeehHHHHHHH
Confidence 999999999999999999999999999999999999999999988753211 1279999999999989999999999999
Q ss_pred HHHHHHHHHHHHH
Q 015063 165 VFTLWAFYVLRNE 177 (414)
Q Consensus 165 l~~~~~~~~l~~e 177 (414)
+++++++|++++|
T Consensus 145 i~~~~~~~~l~~E 157 (157)
T PF13967_consen 145 IFTFYVLYLLWRE 157 (157)
T ss_pred HHHHHHHhhheeC
Confidence 9999999999876
No 4
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=99.82 E-value=3.6e-20 Score=180.18 Aligned_cols=94 Identities=44% Similarity=0.805 Sum_probs=91.9
Q ss_pred EEEEeCCHHHHHHHHHhhccCCCCCceeeeCCCCCCccccCcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcH
Q 015063 319 AFVSFKSRWGAAVCAQTQQSRNPTIWLTNWAPEPRDIFWDNLSIPYVELTIRRLLMAVSLFALIFFFMIPIAFVQSLANI 398 (414)
Q Consensus 319 aFVtF~s~~~A~~a~Q~~~~~~~~~~~v~~AP~P~DIiW~Nl~~~~~~r~~R~~~~~~~~~~liif~~iPv~~v~~l~~l 398 (414)
|||||+++.+|+.|+|...+++|.+|.++.||||+||+|+|++.+..+|..|+++++++++++++||++|++++++++|+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~APeP~DI~W~NL~~~~~~r~~R~~~~~~~~~~l~i~~~ipv~~v~~l~~l 80 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAPEPDDIIWENLSISSKQRFLRRIIVNILLFLLIIFWTIPVAFVSALSNL 80 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCCCcccccccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHhhcCCchhhh
Q 015063 399 EGIQKVLPFLKPLI 412 (414)
Q Consensus 399 ~~l~~~~p~L~~~~ 412 (414)
+++++.+|+++++.
T Consensus 81 ~~l~~~~~~l~~~~ 94 (325)
T PF02714_consen 81 DTLKKVIPFLQWII 94 (325)
T ss_pred cchhccchhhHHHh
Confidence 99999999999874
No 5
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.19 E-value=3.4e-11 Score=93.22 Aligned_cols=64 Identities=38% Similarity=0.685 Sum_probs=52.4
Q ss_pred EEeccchHHHHHHHHHHHHHHHHHHHhhhhcc--------------------CCCCccccccccccC-CcccHHHHHHHH
Q 015063 235 VVYNANKLAQLVENKKSLRNWLTYYKNTYERT--------------------SKKPTTKTGFWGLWG-TRVDAIDYYTAE 293 (414)
Q Consensus 235 i~~d~~~L~~l~~~r~~~~~~le~~~~k~~~~--------------------~~rp~~r~~~~~~~g-~kvdai~y~~~~ 293 (414)
||||+++|.+|+++|++++++||.+..++.+. ..||+++.|++|++| ++|||||||+++
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 58999999999999999999999766544322 124555668889888 999999999999
Q ss_pred HHHhh
Q 015063 294 INKLT 298 (414)
Q Consensus 294 l~~l~ 298 (414)
|++|+
T Consensus 81 l~~Ln 85 (85)
T PF14703_consen 81 LKELN 85 (85)
T ss_pred HHHhC
Confidence 99875
No 6
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=96.60 E-value=0.0077 Score=58.95 Aligned_cols=40 Identities=13% Similarity=0.192 Sum_probs=32.3
Q ss_pred CCCceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEecc
Q 015063 195 RPDQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNA 239 (414)
Q Consensus 195 ~~~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~ 239 (414)
..+..+|+|.|||.+.++ +.|+++|+... .|.+|.++.|.
T Consensus 104 ~~~~~~LfVgnLp~~~te---~~L~~lF~~~G--~V~~v~i~~d~ 143 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTD---RELYALFRTIG--PINTCRIMRDY 143 (346)
T ss_pred CCCCcEEEEeCCCCCCCH---HHHHHHHHhcC--CEEEEEEEecC
Confidence 456789999999999876 67999998864 47888888764
No 7
>PLN03120 nucleic acid binding protein; Provisional
Probab=95.35 E-value=0.12 Score=47.98 Aligned_cols=33 Identities=21% Similarity=0.294 Sum_probs=25.8
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEE
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQV 235 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i 235 (414)
.+||+|.|||.+.++ +.|++||+.. |.|.++.+
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 479999999998776 6799999876 45655544
No 8
>PLN03121 nucleic acid binding protein; Provisional
Probab=95.29 E-value=0.12 Score=47.34 Aligned_cols=34 Identities=24% Similarity=0.379 Sum_probs=26.8
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEE
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQV 235 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i 235 (414)
.-|||.|+||+...++ +.|++||+.. |.|.++.+
T Consensus 4 ~g~TV~V~NLS~~tTE---~dLrefFS~~--G~I~~V~I 37 (243)
T PLN03121 4 GGYTAEVTNLSPKATE---KDVYDFFSHC--GAIEHVEI 37 (243)
T ss_pred CceEEEEecCCCCCCH---HHHHHHHHhc--CCeEEEEE
Confidence 3589999999998876 6799999875 55666554
No 9
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=95.11 E-value=0.17 Score=53.18 Aligned_cols=165 Identities=14% Similarity=0.110 Sum_probs=84.7
Q ss_pred EEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccchHHH------HHHHHHHHHHHHHHHHhhhh--cc-----
Q 015063 200 TVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNANKLAQ------LVENKKSLRNWLTYYKNTYE--RT----- 266 (414)
Q Consensus 200 Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~L~~------l~~~r~~~~~~le~~~~k~~--~~----- 266 (414)
||.|.|||.+.++ +.|+++|++.+ .|.+|.+++|...=.. -+...+.+.+.++.+..+.- +.
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---AKLYDLFKPFG--PVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMW 76 (562)
T ss_pred eEEEeCCCCCCCH---HHHHHHHHhcC--CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeec
Confidence 7999999999876 67999998874 5889999887541000 12233444444443321100 00
Q ss_pred -CCCCcccc-cc----ccccCCcccHHHHHHHHHHHhhHH---HHHHHhhhhhccCCCCCeEEEEeCCHHHHHHHHHhhc
Q 015063 267 -SKKPTTKT-GF----WGLWGTRVDAIDYYTAEINKLTEE---ENAEREKVISDANSIIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 267 -~~rp~~r~-~~----~~~~g~kvdai~y~~~~l~~l~~~---I~~~r~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
...|..+. +. .+-..+.+|. +.|.++-++ |...+-. .+......|.|||.|.+..+|..|.+.+.
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-----KALFDTFSKFGNILSCKVA-TDENGKSRGYGFVHFEKEESAKAAIQKVN 150 (562)
T ss_pred ccccccccccCCCceEEcCCCccCCH-----HHHHHHHHhcCCcceeEee-ecCCCCcccEEEEEECCHHHHHHHHHHhc
Confidence 11121111 10 0101123331 111111111 1111000 01111145899999999999999998764
Q ss_pred cCC--CCCceee-----------eCCCCCCccccCcCCChhHHHHHHHHHH
Q 015063 338 SRN--PTIWLTN-----------WAPEPRDIFWDNLSIPYVELTIRRLLMA 375 (414)
Q Consensus 338 ~~~--~~~~~v~-----------~AP~P~DIiW~Nl~~~~~~r~~R~~~~~ 375 (414)
... .....+. ..+....|+-.||..+..+.-++.++..
T Consensus 151 g~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~ 201 (562)
T TIGR01628 151 GMLLNDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAK 201 (562)
T ss_pred ccEecCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHh
Confidence 331 1111111 1233455888888888777777777654
No 10
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=95.07 E-value=0.2 Score=42.61 Aligned_cols=35 Identities=9% Similarity=0.185 Sum_probs=26.3
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEE
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVV 236 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~ 236 (414)
...+|+|.|||.+.++ +.|+++|+.. +.|.++.++
T Consensus 33 ~~~~lfVgnL~~~~te---~~L~~~F~~~--G~I~~v~i~ 67 (144)
T PLN03134 33 MSTKLFIGGLSWGTDD---ASLRDAFAHF--GDVVDAKVI 67 (144)
T ss_pred CCCEEEEeCCCCCCCH---HHHHHHHhcC--CCeEEEEEE
Confidence 3568999999999876 6799999875 356565543
No 11
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=95.02 E-value=0.11 Score=50.71 Aligned_cols=142 Identities=12% Similarity=0.157 Sum_probs=71.1
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccchHHH------HHHHHHHHHHHHHHHHhhhh------
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNANKLAQ------LVENKKSLRNWLTYYKNTYE------ 264 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~L~~------l~~~r~~~~~~le~~~~k~~------ 264 (414)
+.--++|-.||+...| +.++++|++. |.|.++.+.+|-..=.. .+..|+++.+....+.++..
T Consensus 33 ~~vKlfVgqIprt~sE---~dlr~lFe~y--g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~ 107 (510)
T KOG0144|consen 33 SAVKLFVGQIPRTASE---KDLRELFEKY--GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHH 107 (510)
T ss_pred hhhhheeccCCccccH---HHHHHHHHHh--CceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCc
Confidence 3445678999998776 5688899886 56778888776432100 01112222221111111100
Q ss_pred ----c--cCCCCc---cccccccccCCcccHHHHHHHHHHHhhHH---HHHHHhhhhhccCCCCCeEEEEeCCHHHHHHH
Q 015063 265 ----R--TSKKPT---TKTGFWGLWGTRVDAIDYYTAEINKLTEE---ENAEREKVISDANSIIPAAFVSFKSRWGAAVC 332 (414)
Q Consensus 265 ----~--~~~rp~---~r~~~~~~~g~kvdai~y~~~~l~~l~~~---I~~~r~~~~~~~~~~~~~aFVtF~s~~~A~~a 332 (414)
| +++|.. .+.=|.|+..|+.. +++++++-.+ |++.+--...+ ...-|.|||+|.+...|..|
T Consensus 108 pvqvk~Ad~E~er~~~e~KLFvg~lsK~~t-----e~evr~iFs~fG~Ied~~ilrd~~-~~sRGcaFV~fstke~A~~A 181 (510)
T KOG0144|consen 108 PVQVKYADGERERIVEERKLFVGMLSKQCT-----ENEVREIFSRFGHIEDCYILRDPD-GLSRGCAFVKFSTKEMAVAA 181 (510)
T ss_pred ceeecccchhhhccccchhhhhhhcccccc-----HHHHHHHHHhhCccchhhheeccc-ccccceeEEEEehHHHHHHH
Confidence 0 011111 11113344445543 2233333222 22222111111 12569999999999999999
Q ss_pred HHhhccCCC-----CCceeeeC
Q 015063 333 AQTQQSRNP-----TIWLTNWA 349 (414)
Q Consensus 333 ~Q~~~~~~~-----~~~~v~~A 349 (414)
...+..... .-+.|+.|
T Consensus 182 ika~ng~~tmeGcs~PLVVkFA 203 (510)
T KOG0144|consen 182 IKALNGTQTMEGCSQPLVVKFA 203 (510)
T ss_pred HHhhccceeeccCCCceEEEec
Confidence 988765432 22456666
No 12
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=94.80 E-value=0.1 Score=54.33 Aligned_cols=172 Identities=17% Similarity=0.173 Sum_probs=84.1
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccchHHH-----HHHHHHHHHHHHHHHHhhhhccCCCCc
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNANKLAQ-----LVENKKSLRNWLTYYKNTYERTSKKPT 271 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~L~~-----l~~~r~~~~~~le~~~~k~~~~~~rp~ 271 (414)
...+|+|.|||.+.++ +.|+++|++. |.|.++.+++|.....+ -+...+.+.+.++.+.....+.+ |..
T Consensus 57 ~~~~lFVgnLp~~~tE---d~L~~~F~~~--G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~G-r~l 130 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYE---DELVPLFEKA--GPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPG-RLL 130 (578)
T ss_pred CCCEEEeCCCCCCCCH---HHHHHHHHhh--CCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCC-ccc
Confidence 3579999999999876 6789999886 46788888887432111 01122333333333221111110 110
Q ss_pred --------cccccccccCCcccHHHHHHHHHHHhhHHHHHHHh-hhhhccCCCCCeEEEEeCCHHHHHHHHHhhccCC--
Q 015063 272 --------TKTGFWGLWGTRVDAIDYYTAEINKLTEEENAERE-KVISDANSIIPAAFVSFKSRWGAAVCAQTQQSRN-- 340 (414)
Q Consensus 272 --------~r~~~~~~~g~kvdai~y~~~~l~~l~~~I~~~r~-~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~-- 340 (414)
.+. +.+-..+.++ -+-..+++.+..+.+.+... ....+.....+.|||+|.+..+|..|.+.+...+
T Consensus 131 ~V~~S~~~~rL-FVgNLP~~~T-eeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~ 208 (578)
T TIGR01648 131 GVCISVDNCRL-FVGGIPKNKK-REEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQ 208 (578)
T ss_pred cccccccCcee-EeecCCcchh-hHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceE
Confidence 000 0000111111 11111122211110000000 0000111145899999999999999987664332
Q ss_pred --CCCceeeeCC-C--C--------CCccccCcCCChhHHHHHHHHHHH
Q 015063 341 --PTIWLTNWAP-E--P--------RDIFWDNLSIPYVELTIRRLLMAV 376 (414)
Q Consensus 341 --~~~~~v~~AP-~--P--------~DIiW~Nl~~~~~~r~~R~~~~~~ 376 (414)
.....|+.|. + + +-|.=.||..+..+..++..+..+
T Consensus 209 l~Gr~I~VdwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f 257 (578)
T TIGR01648 209 LWGHVIAVDWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEF 257 (578)
T ss_pred ecCceEEEEeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhc
Confidence 2234454432 1 1 126667888777777788777543
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=94.77 E-value=0.25 Score=48.41 Aligned_cols=101 Identities=10% Similarity=0.186 Sum_probs=70.0
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccchHHHHHHHHHHHHHHHHHHHhhhhccCCCCccccccc
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNANKLAQLVENKKSLRNWLTYYKNTYERTSKKPTTKTGFW 277 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~L~~l~~~r~~~~~~le~~~~k~~~~~~rp~~r~~~~ 277 (414)
..+|+|.|||.+.++ +.|+++|+..+ .|.++.+++|-.
T Consensus 3 ~~~l~V~nLp~~~~e---~~l~~~F~~~G--~i~~v~i~~d~~------------------------------------- 40 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQ---EEIRSLFTSIG--EIESCKLVRDKV------------------------------------- 40 (352)
T ss_pred CcEEEEeCCCCCCCH---HHHHHHHHccC--CEEEEEEEEcCC-------------------------------------
Confidence 359999999999876 67999998864 566776655321
Q ss_pred cccCCcccHHHHHHHHHHHhhHHHHHHHhhhhhccCCCCCeEEEEeCCHHHHHHHHHhhccCC--CCCceeeeCC-----
Q 015063 278 GLWGTRVDAIDYYTAEINKLTEEENAEREKVISDANSIIPAAFVSFKSRWGAAVCAQTQQSRN--PTIWLTNWAP----- 350 (414)
Q Consensus 278 ~~~g~kvdai~y~~~~l~~l~~~I~~~r~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~AP----- 350 (414)
+ .. ..|.|||+|.+..+|..|.+.+.... .....++.|-
T Consensus 41 -------~------------------------g~---s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~~ 86 (352)
T TIGR01661 41 -------T------------------------GQ---SLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSDS 86 (352)
T ss_pred -------C------------------------Cc---cceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccccc
Confidence 0 00 34899999999999999998765542 2334555442
Q ss_pred -CCCCccccCcCCChhHHHHHHHHH
Q 015063 351 -EPRDIFWDNLSIPYVELTIRRLLM 374 (414)
Q Consensus 351 -~P~DIiW~Nl~~~~~~r~~R~~~~ 374 (414)
....|.-.||..+-.+.-++.++.
T Consensus 87 ~~~~~l~v~~l~~~~~~~~l~~~f~ 111 (352)
T TIGR01661 87 IKGANLYVSGLPKTMTQHELESIFS 111 (352)
T ss_pred cccceEEECCccccCCHHHHHHHHh
Confidence 233577788887776666776654
No 14
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=93.47 E-value=0.28 Score=48.03 Aligned_cols=35 Identities=20% Similarity=0.406 Sum_probs=27.0
Q ss_pred eEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 199 FTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 199 ~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
++|+|.|||.+.++ +.|+++|+.. |.|.++.+++|
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 47999999998775 6799999876 45777766553
No 15
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=92.96 E-value=0.52 Score=42.90 Aligned_cols=34 Identities=26% Similarity=0.258 Sum_probs=26.2
Q ss_pred CCeEEEEeCCHHHHHHHHHhhccCCCCC--ceeeeC
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQSRNPTI--WLTNWA 349 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~~~~~~~--~~v~~A 349 (414)
-|.|||+|.+..+|+.|...+....-.+ ++|+.|
T Consensus 231 kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 231 KGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred cceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 4899999999999999998887665443 345554
No 16
>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=92.77 E-value=0.6 Score=48.74 Aligned_cols=35 Identities=20% Similarity=0.165 Sum_probs=25.2
Q ss_pred CeEEEEeCCHHHHHHHHHhhccCC--CCCceeeeCCC
Q 015063 317 PAAFVSFKSRWGAAVCAQTQQSRN--PTIWLTNWAPE 351 (414)
Q Consensus 317 ~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~AP~ 351 (414)
+.|||+|.+..+|..|.+.+.... .....|+.|..
T Consensus 270 gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp 306 (578)
T TIGR01648 270 DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKP 306 (578)
T ss_pred CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence 479999999999999988765542 33456666643
No 17
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=91.67 E-value=0.54 Score=43.40 Aligned_cols=114 Identities=22% Similarity=0.243 Sum_probs=60.5
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccchHHHHHHHHHHHHHHHHHHHhhhhccCCCCccccccc
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNANKLAQLVENKKSLRNWLTYYKNTYERTSKKPTTKTGFW 277 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~L~~l~~~r~~~~~~le~~~~k~~~~~~rp~~r~~~~ 277 (414)
-+|+.|-|+.++..| +.|...|+...| |.+..+++| ++.....-..-+.++|+.+.++.
T Consensus 6 prtlyvgnld~~vte---~~i~~lf~qig~--v~~~k~i~~----------------e~~v~wa~~p~nQsk~t~~~hfh 64 (321)
T KOG0148|consen 6 PRTLYVGNLDSTVTE---DFIATLFNQIGS--VTKTKVIFD----------------ELKVNWATAPGNQSKPTSNQHFH 64 (321)
T ss_pred CceEEeeccChhhHH---HHHHHHHHhccc--cccceeehh----------------hhccccccCcccCCCCcccccee
Confidence 489999999998665 678888888754 667777776 11111111112234565554322
Q ss_pred cccCCcccHHHHHHHHHHHhhH---HHHHHHhhhhhcc--CCCCCeEEEEeCCHHHHHHHHHhh
Q 015063 278 GLWGTRVDAIDYYTAEINKLTE---EENAEREKVISDA--NSIIPAAFVSFKSRWGAAVCAQTQ 336 (414)
Q Consensus 278 ~~~g~kvdai~y~~~~l~~l~~---~I~~~r~~~~~~~--~~~~~~aFVtF~s~~~A~~a~Q~~ 336 (414)
-+.|.-+..|++ |+|++.-. +|.+.| +.++. .+..|++||+|-+..+|..|.|..
T Consensus 65 vfvgdls~eI~~--e~lr~aF~pFGevS~ak--virD~~T~KsKGYgFVSf~~k~dAEnAI~~M 124 (321)
T KOG0148|consen 65 VFVGDLSPEIDN--EKLREAFAPFGEVSDAK--VIRDMNTGKSKGYGFVSFPNKEDAENAIQQM 124 (321)
T ss_pred EEehhcchhcch--HHHHHHhccccccccce--EeecccCCcccceeEEeccchHHHHHHHHHh
Confidence 122222221211 12211111 122221 11111 125699999999999999998754
No 18
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=91.24 E-value=0.66 Score=42.00 Aligned_cols=20 Identities=20% Similarity=0.265 Sum_probs=17.9
Q ss_pred CCeEEEEeCCHHHHHHHHHh
Q 015063 316 IPAAFVSFKSRWGAAVCAQT 335 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~ 335 (414)
.|.+||||++..+|..|++.
T Consensus 54 kGyGfVTf~d~~aa~rAc~d 73 (247)
T KOG0149|consen 54 KGYGFVTFRDAEAATRACKD 73 (247)
T ss_pred cceeeEEeecHHHHHHHhcC
Confidence 48999999999999999874
No 19
>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=90.92 E-value=2.5 Score=44.38 Aligned_cols=37 Identities=16% Similarity=0.343 Sum_probs=28.4
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
...+|+|.|||.+.++ +.|+++|+.. |.|.++.+..|
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 3468999999998775 6789999876 45777777655
No 20
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=90.24 E-value=3.1 Score=41.22 Aligned_cols=61 Identities=26% Similarity=0.435 Sum_probs=41.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCCCCCc----eeeeCC---CCC--------CccccCcCCChhHHHHHHHHHH
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRNPTIW----LTNWAP---EPR--------DIFWDNLSIPYVELTIRRLLMA 375 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~~----~v~~AP---~P~--------DIiW~Nl~~~~~~r~~R~~~~~ 375 (414)
+-|.|||.|.|-..|.++.|.+...+..-| .|+.|= +|+ =.+=.||..+-.+-.+...+..
T Consensus 207 NRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~ 282 (506)
T KOG0117|consen 207 NRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNE 282 (506)
T ss_pred ccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHh
Confidence 579999999999999999999988765433 555552 121 1344566666666666655543
No 21
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=88.23 E-value=3.6 Score=39.21 Aligned_cols=50 Identities=14% Similarity=-0.022 Sum_probs=35.1
Q ss_pred CCeEEEEeCCHHHHHHHHHhhccCCCC--Cceeee----------CCCCCCccccCcCCChh
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQSRNPT--IWLTNW----------APEPRDIFWDNLSIPYV 365 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~~~~~~--~~~v~~----------AP~P~DIiW~Nl~~~~~ 365 (414)
.|.+||||++..+|..|.+.++.+... +..|.. -|-|.-.-|.++.....
T Consensus 136 KGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n~K~~v~p~~~g~~~~~a~~a 197 (376)
T KOG0125|consen 136 KGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHNKKKKVLPYPNGWKLLPAVGA 197 (376)
T ss_pred CccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhccCCcccCCCccccccccchhh
Confidence 389999999999999999998876321 122222 24566677888876553
No 22
>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=87.58 E-value=0.8 Score=31.61 Aligned_cols=24 Identities=29% Similarity=0.216 Sum_probs=20.9
Q ss_pred CCeEEEEeCCHHHHHHHHHhhccC
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
.+.|||+|.+..+|..|.+.+...
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 489999999999999999877544
No 23
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=85.56 E-value=4.9 Score=41.46 Aligned_cols=36 Identities=8% Similarity=0.200 Sum_probs=27.6
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
.++|+|.|||...++ +.|+++|+..+ .+..+.++.|
T Consensus 295 ~~~l~v~nlp~~~~~---~~l~~~f~~~G--~i~~~~~~~~ 330 (509)
T TIGR01642 295 KDRIYIGNLPLYLGE---DQIKELLESFG--DLKAFNLIKD 330 (509)
T ss_pred CCEEEEeCCCCCCCH---HHHHHHHHhcC--CeeEEEEEec
Confidence 479999999998765 67888998864 4666666665
No 24
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=85.33 E-value=5 Score=42.29 Aligned_cols=43 Identities=7% Similarity=0.056 Sum_probs=30.9
Q ss_pred CCeEEEEeCCHHHHHHHHHhhccCC--CCCceeeeCCCCCCcccc
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQSRN--PTIWLTNWAPEPRDIFWD 358 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~AP~P~DIiW~ 358 (414)
.|.|||.|.+..+|..|.+.+.... .....|..|..|-|=.|.
T Consensus 246 KGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~~~~ 290 (612)
T TIGR01645 246 KGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDALLQ 290 (612)
T ss_pred CCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccccCC
Confidence 4899999999999999988776542 344566666555555553
No 25
>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=85.32 E-value=9 Score=39.42 Aligned_cols=36 Identities=11% Similarity=0.239 Sum_probs=25.5
Q ss_pred CceEEEEecCCC-CCCCchHHHHHHHhhhcCCCceeEEEEEe
Q 015063 197 DQFTVLVRNIPP-DPDESVSEHVQHFFCVNHPDHYLTHQVVY 237 (414)
Q Consensus 197 ~~~Tvlv~~IP~-~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 237 (414)
...+|+|.|||. ..++ +.|++.|+.. |.|.++.+.+
T Consensus 274 ~~~~l~v~nL~~~~vt~---~~L~~lF~~y--G~V~~vki~~ 310 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNC---DRLFNLFCVY--GNVERVKFMK 310 (481)
T ss_pred CCCEEEEeCCCCCCCCH---HHHHHHHHhc--CCeEEEEEEe
Confidence 456999999997 4554 6788899876 4566655533
No 26
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=82.16 E-value=2 Score=40.26 Aligned_cols=35 Identities=20% Similarity=0.416 Sum_probs=27.9
Q ss_pred EEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccc
Q 015063 201 VLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNAN 240 (414)
Q Consensus 201 vlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~ 240 (414)
++|-|+|+..++ ++++..|+.. |+|.++-|+.|.+
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 578899998765 5788888876 6788888887776
No 27
>smart00361 RRM_1 RNA recognition motif.
Probab=81.87 E-value=2 Score=31.31 Aligned_cols=25 Identities=16% Similarity=0.165 Sum_probs=21.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
..|.|||+|.+..+|..|.+.+...
T Consensus 36 ~rG~~fV~f~~~~dA~~A~~~l~g~ 60 (70)
T smart00361 36 KRGNVYITFERSEDAARAIVDLNGR 60 (70)
T ss_pred CcEEEEEEECCHHHHHHHHHHhCCC
Confidence 4589999999999999999877654
No 28
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=81.13 E-value=3.3 Score=41.52 Aligned_cols=23 Identities=26% Similarity=0.328 Sum_probs=21.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
+++.|||.|.++.+|+.|+|-..
T Consensus 144 ~tGEAfVqF~sqe~ae~Al~rhr 166 (510)
T KOG4211|consen 144 PTGEAFVQFESQESAEIALGRHR 166 (510)
T ss_pred cccceEEEecCHHHHHHHHHHHH
Confidence 68999999999999999998754
No 29
>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=80.15 E-value=2.6 Score=30.31 Aligned_cols=32 Identities=25% Similarity=0.478 Sum_probs=22.9
Q ss_pred EEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEe
Q 015063 201 VLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVY 237 (414)
Q Consensus 201 vlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 237 (414)
|+|+|||.+.++ +.|.++|+..+ .|.++.+.+
T Consensus 1 v~i~nlp~~~~~---~~l~~~f~~~g--~v~~v~~~~ 32 (70)
T PF14259_consen 1 VYISNLPPSTTE---EDLRNFFSRFG--PVEKVRLIK 32 (70)
T ss_dssp EEEESSTTT--H---HHHHHHCTTSS--BEEEEEEEE
T ss_pred CEEeCCCCCCCH---HHHHHHHHhcC--CcceEEEEe
Confidence 689999998765 67899998864 476766653
No 30
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=80.10 E-value=24 Score=32.69 Aligned_cols=144 Identities=15% Similarity=0.184 Sum_probs=72.9
Q ss_pred EEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEeccchHHH-------HH--HHHHHHHHHHHH--HHhhhhcc-C
Q 015063 200 TVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYNANKLAQ-------LV--ENKKSLRNWLTY--YKNTYERT-S 267 (414)
Q Consensus 200 Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d~~~L~~-------l~--~~r~~~~~~le~--~~~k~~~~-~ 267 (414)
-+.|.-+|....+ +++++.|... |+++++.+++|--.=+. .+ +..+++...|.- ++.|.-|- =
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 3556669998775 7899999765 67888888887431110 00 122333333331 22221110 1
Q ss_pred CCCcc---ccccccccC-CcccHHHHHHHHHHHhhHH---HHHHHhhhhhccCCCCCeEEEEeCCHHHHHHHHHhhccCC
Q 015063 268 KKPTT---KTGFWGLWG-TRVDAIDYYTAEINKLTEE---ENAEREKVISDANSIIPAAFVSFKSRWGAAVCAQTQQSRN 340 (414)
Q Consensus 268 ~rp~~---r~~~~~~~g-~kvdai~y~~~~l~~l~~~---I~~~r~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~~ 340 (414)
-||.. |..-+=..| .|. --++|++.+-.. |-..|--.........|.+||-|+....|..|...+..++
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 25532 211110011 111 113344444332 1111111111111245899999999999999999998888
Q ss_pred CCC----ceeeeCCCC
Q 015063 341 PTI----WLTNWAPEP 352 (414)
Q Consensus 341 ~~~----~~v~~AP~P 352 (414)
|.. ..|..|-.|
T Consensus 194 P~g~tepItVKFannP 209 (360)
T KOG0145|consen 194 PSGCTEPITVKFANNP 209 (360)
T ss_pred CCCCCCCeEEEecCCc
Confidence 754 345555555
No 31
>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=80.08 E-value=2.8 Score=29.72 Aligned_cols=33 Identities=33% Similarity=0.538 Sum_probs=24.7
Q ss_pred EEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 201 VLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 201 vlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
|.|.|||.+.++ +.|+++|+..+ .+..+.+..+
T Consensus 1 l~v~nlp~~~t~---~~l~~~f~~~g--~i~~~~~~~~ 33 (70)
T PF00076_consen 1 LYVGNLPPDVTE---EELRDFFSQFG--KIESIKVMRN 33 (70)
T ss_dssp EEEESETTTSSH---HHHHHHHHTTS--TEEEEEEEEE
T ss_pred cEEcCCCCcCCH---HHHHHHHHHhh--hccccccccc
Confidence 689999999775 67999998853 4556666554
No 32
>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=79.99 E-value=1.8 Score=31.11 Aligned_cols=23 Identities=26% Similarity=0.136 Sum_probs=20.7
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
..+.|||+|.++.+|..|.+...
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 57999999999999999998864
No 33
>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=79.07 E-value=2.1 Score=30.43 Aligned_cols=25 Identities=24% Similarity=0.211 Sum_probs=21.6
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
..+.|||+|.+..+|..|.+.+...
T Consensus 38 ~~~~a~V~F~~~~~a~~a~~~l~g~ 62 (70)
T PF00076_consen 38 SKGYAFVEFESEEDAEKALEELNGK 62 (70)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred ccceEEEEEcCHHHHHHHHHHcCCC
Confidence 5789999999999999999876543
No 34
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=77.97 E-value=7.5 Score=40.97 Aligned_cols=36 Identities=14% Similarity=0.084 Sum_probs=27.1
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEe
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVY 237 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 237 (414)
..++|+|.|||.+.++ +.|+++|+..+ .|.++.+.+
T Consensus 106 ~~~rLfVGnLp~~~tE---e~Lr~lF~~fG--~I~sV~I~~ 141 (612)
T TIGR01645 106 IMCRVYVGSISFELRE---DTIRRAFDPFG--PIKSINMSW 141 (612)
T ss_pred CCCEEEEcCCCCCCCH---HHHHHHHHccC--CEEEEEEee
Confidence 3569999999998776 67999998764 466665544
No 35
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=77.89 E-value=7.3 Score=39.72 Aligned_cols=26 Identities=38% Similarity=0.507 Sum_probs=21.5
Q ss_pred eEEEEecCCCCCCCchHHHHHHHhhhcCC
Q 015063 199 FTVLVRNIPPDPDESVSEHVQHFFCVNHP 227 (414)
Q Consensus 199 ~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p 227 (414)
+||+|+|+|=+..+ +.|.++|+.+++
T Consensus 293 ~tVFvRNL~fD~tE---Eel~~~fskFG~ 318 (678)
T KOG0127|consen 293 KTVFVRNLPFDTTE---EELKEHFSKFGE 318 (678)
T ss_pred ceEEEecCCccccH---HHHHHHHHhhcc
Confidence 79999999998765 678888888754
No 36
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=77.68 E-value=2 Score=37.24 Aligned_cols=34 Identities=15% Similarity=0.073 Sum_probs=28.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCCC--CCceeee
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRNP--TIWLTNW 348 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~~--~~~~v~~ 348 (414)
+-|.|||+|++..+|..|...|..+.. ..|.||+
T Consensus 46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~ 81 (195)
T KOG0107|consen 46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVEL 81 (195)
T ss_pred CCCceEEeccCcccHHHHHhhcCCccccCceEEEEe
Confidence 459999999999999999999887764 4588876
No 37
>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=76.21 E-value=6.4 Score=38.60 Aligned_cols=61 Identities=15% Similarity=0.197 Sum_probs=43.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCC--CCCceeeeC-C-----CCCCccccCcCCChhHHHHHHHHHH
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRN--PTIWLTNWA-P-----EPRDIFWDNLSIPYVELTIRRLLMA 375 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~A-P-----~P~DIiW~Nl~~~~~~r~~R~~~~~ 375 (414)
..+.|||+|.++.+|..|.+.+.... ...+.+..| | ....|+-.||..+..+.-+|.++..
T Consensus 148 srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~ 216 (346)
T TIGR01659 148 SFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGK 216 (346)
T ss_pred cCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHHHh
Confidence 34899999999999999998765432 233445443 2 2344888888888777777877654
No 38
>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=74.26 E-value=3.6 Score=32.34 Aligned_cols=25 Identities=24% Similarity=0.215 Sum_probs=20.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
..|.|||-|.+..+|....+..+..
T Consensus 44 N~GYAFVNf~~~~~~~~F~~~f~g~ 68 (97)
T PF04059_consen 44 NLGYAFVNFTSPQAAIRFYKAFNGK 68 (97)
T ss_pred ceEEEEEEcCCHHHHHHHHHHHcCC
Confidence 4689999999999998888876543
No 39
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=72.92 E-value=6.4 Score=36.42 Aligned_cols=50 Identities=22% Similarity=0.218 Sum_probs=39.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCCC-----CCceeeeCCCCCCccccCcCCChhHHHHHHHHHHH
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRNP-----TIWLTNWAPEPRDIFWDNLSIPYVELTIRRLLMAV 376 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~~-----~~~~v~~AP~P~DIiW~Nl~~~~~~r~~R~~~~~~ 376 (414)
..|.|||.|++..+|+++...++.++. ....|..| -+.++|.+||.--..
T Consensus 59 sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~A------------DTdkER~lRRMQQma 113 (371)
T KOG0146|consen 59 SKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFA------------DTDKERTLRRMQQMA 113 (371)
T ss_pred CCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEec------------cchHHHHHHHHHHHH
Confidence 468999999999999999999988753 45667776 367889999865443
No 40
>smart00362 RRM_2 RNA recognition motif.
Probab=72.54 E-value=5.9 Score=27.59 Aligned_cols=31 Identities=29% Similarity=0.507 Sum_probs=22.0
Q ss_pred EEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEE
Q 015063 200 TVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQV 235 (414)
Q Consensus 200 Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i 235 (414)
||.|+|||.+.++ +.++++|+..+ .+.++.+
T Consensus 1 ~v~i~~l~~~~~~---~~l~~~~~~~g--~v~~~~~ 31 (72)
T smart00362 1 TLFVGNLPPDVTE---EDLKELFSKFG--PIESVKI 31 (72)
T ss_pred CEEEcCCCCcCCH---HHHHHHHHhcC--CEEEEEE
Confidence 6899999998664 67888888764 3444443
No 41
>smart00362 RRM_2 RNA recognition motif.
Probab=70.21 E-value=6.1 Score=27.49 Aligned_cols=24 Identities=25% Similarity=0.196 Sum_probs=20.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhcc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQS 338 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~ 338 (414)
..+.|||+|++..+|..|.+.+..
T Consensus 38 ~~~~~~v~f~~~~~a~~a~~~~~~ 61 (72)
T smart00362 38 SKGFAFVEFESEEDAEKAIEALNG 61 (72)
T ss_pred CCceEEEEeCCHHHHHHHHHHhCC
Confidence 468999999999999999886653
No 42
>smart00360 RRM RNA recognition motif.
Probab=69.77 E-value=6.2 Score=27.31 Aligned_cols=23 Identities=26% Similarity=0.193 Sum_probs=20.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
..+.|||+|.+..+|..|.+.+.
T Consensus 37 ~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 37 SKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCceEEEEeCCHHHHHHHHHHcC
Confidence 46899999999999999987665
No 43
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=68.83 E-value=8 Score=34.95 Aligned_cols=44 Identities=23% Similarity=0.183 Sum_probs=31.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCC--CCCceeeeCCCCCCcccc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRN--PTIWLTNWAPEPRDIFWD 358 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~AP~P~DIiW~ 358 (414)
-.|.|||+|++...|..|...+..-. ..-+.++.|=+++||+=.
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 56999999999988888876554321 234567778777777644
No 44
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=68.78 E-value=8.5 Score=26.91 Aligned_cols=24 Identities=21% Similarity=0.230 Sum_probs=19.3
Q ss_pred CCeEEEEeCCHHHHHHHHHhhccC
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
.+.|||+|++..+|+.|.+.....
T Consensus 40 ~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 40 KGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCC
Confidence 478999999999999888765544
No 45
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=66.41 E-value=1.4 Score=33.84 Aligned_cols=30 Identities=30% Similarity=0.365 Sum_probs=21.1
Q ss_pred CCCceEEEEecCCCCCCC-chHHHHHHHhhh
Q 015063 195 RPDQFTVLVRNIPPDPDE-SVSEHVQHFFCV 224 (414)
Q Consensus 195 ~~~~~Tvlv~~IP~~~~~-~~~~~l~~~f~~ 224 (414)
..+.+||+|+|||...++ .+.+.|+=+|++
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~LeIhFqK 79 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLEIHFQK 79 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEEEEEec
Confidence 467899999999996654 344555555644
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=65.40 E-value=9.8 Score=37.87 Aligned_cols=51 Identities=18% Similarity=0.076 Sum_probs=33.6
Q ss_pred HHHHHHHHhhHHH---HHHHhhhhhccCCCCCeEEEEeCCHHHHHHHHHhhccC
Q 015063 289 YYTAEINKLTEEE---NAEREKVISDANSIIPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 289 y~~~~l~~l~~~I---~~~r~~~~~~~~~~~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
-|+.+|.-+-++| -+.|-.........-|.|||||.+...|+.|...+.+.
T Consensus 95 ~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~ 148 (506)
T KOG0117|consen 95 VFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNY 148 (506)
T ss_pred ccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCc
Confidence 4666776666654 23332222111125699999999999999999887765
No 47
>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=65.29 E-value=9.3 Score=26.69 Aligned_cols=31 Identities=29% Similarity=0.537 Sum_probs=22.5
Q ss_pred EEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEE
Q 015063 200 TVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQV 235 (414)
Q Consensus 200 Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i 235 (414)
+|+|+|+|...++ +.++++|+.. |.+.++.+
T Consensus 1 ~i~i~~l~~~~~~---~~i~~~~~~~--g~i~~~~~ 31 (74)
T cd00590 1 TLFVGNLPPDVTE---EDLRELFSKF--GKVESVRI 31 (74)
T ss_pred CEEEeCCCCccCH---HHHHHHHHhc--CCEEEEEE
Confidence 5889999998664 6788888775 44555544
No 48
>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=59.91 E-value=9 Score=31.42 Aligned_cols=20 Identities=15% Similarity=0.386 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHhcC
Q 015063 12 AINLLSAFAFLVVFAILRIQ 31 (414)
Q Consensus 12 ~~~~~~~~~~l~~F~~lR~~ 31 (414)
++.+++++++++.||+.|+|
T Consensus 73 v~aGvIg~Illi~y~irR~~ 92 (122)
T PF01102_consen 73 VMAGVIGIILLISYCIRRLR 92 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34455677778888888876
No 49
>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=53.04 E-value=19 Score=36.51 Aligned_cols=37 Identities=22% Similarity=0.257 Sum_probs=30.2
Q ss_pred CceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 197 DQFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 197 ~~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
..+||+|.|||.+.++ +.|+++|+..+ .|.+|.++.|
T Consensus 88 ~~~~l~V~nlp~~~~~---~~l~~~F~~~G--~v~~v~i~~d 124 (457)
T TIGR01622 88 DDRTVFVLQLALKARE---RDLYEFFSKVG--KVRDVQCIKD 124 (457)
T ss_pred CCcEEEEeCCCCCCCH---HHHHHHHHhcC--CeeEEEEeec
Confidence 4679999999998765 67899998864 6888888775
No 50
>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=52.91 E-value=26 Score=25.65 Aligned_cols=36 Identities=19% Similarity=0.290 Sum_probs=27.7
Q ss_pred CeEEEEeCCHHHHHHHHHhhccCCCCCceeeeCCCCCCc
Q 015063 317 PAAFVSFKSRWGAAVCAQTQQSRNPTIWLTNWAPEPRDI 355 (414)
Q Consensus 317 ~~aFVtF~s~~~A~~a~Q~~~~~~~~~~~v~~AP~P~DI 355 (414)
....|||.|..+|-.+-+.+...+- .++..|-|.+|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi---~~~liP~P~~i 37 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI---PVRLIPTPREI 37 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC---cEEEeCCChhc
Confidence 4689999999999998887765543 45667778777
No 51
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=52.39 E-value=41 Score=21.42 Aligned_cols=30 Identities=10% Similarity=0.074 Sum_probs=21.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 015063 3 NLKDIGVSAAINLLSAFAFLVVFAILRIQP 32 (414)
Q Consensus 3 ~~~~~~t~l~~~~~~~~~~l~~F~~lR~~~ 32 (414)
|.-++.+++....++-+++++.|...|||+
T Consensus 4 s~IaIIv~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 4 STIAIIVAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 344666777777777777788888888874
No 52
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=49.41 E-value=25 Score=31.88 Aligned_cols=23 Identities=26% Similarity=0.277 Sum_probs=19.3
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
..+.|||||.|..+|..|...+.
T Consensus 76 ~~pvaFatF~s~q~A~aamnaLN 98 (284)
T KOG1457|consen 76 CKPVAFATFTSHQFALAAMNALN 98 (284)
T ss_pred ccceEEEEecchHHHHHHHHHhc
Confidence 44799999999999998877654
No 53
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=48.18 E-value=2.3e+02 Score=26.32 Aligned_cols=26 Identities=12% Similarity=0.179 Sum_probs=17.8
Q ss_pred cccHHHHHHHHHHHhhHHHHHHHhhh
Q 015063 283 RVDAIDYYTAEINKLTEEENAEREKV 308 (414)
Q Consensus 283 kvdai~y~~~~l~~l~~~I~~~r~~~ 308 (414)
+++.+--.+++|.+.+.+|+..+...
T Consensus 160 ~~~d~l~ie~~L~~v~~eIe~~~~~~ 185 (262)
T PF14257_consen 160 TVEDLLEIERELSRVRSEIEQLEGQL 185 (262)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555566778888888888766543
No 54
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=47.98 E-value=18 Score=28.79 Aligned_cols=26 Identities=19% Similarity=0.243 Sum_probs=22.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRN 340 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~ 340 (414)
..|+|||++++..+|..|+..+..-+
T Consensus 56 TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 56 TRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred cCceEEEEehHhhhHHHHHHHhcccc
Confidence 46999999999999999998776543
No 55
>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=44.41 E-value=26 Score=27.48 Aligned_cols=28 Identities=25% Similarity=0.363 Sum_probs=17.4
Q ss_pred eEEEEecCCCCCCCchHHHHHHHhhhcCCCc
Q 015063 199 FTVLVRNIPPDPDESVSEHVQHFFCVNHPDH 229 (414)
Q Consensus 199 ~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~ 229 (414)
-|||++|||..-++ +.|.+.+++.++|+
T Consensus 2 TTvMirNIPn~~t~---~~L~~~l~~~~~g~ 29 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQ---EMLIQILDEHFKGK 29 (97)
T ss_pred eeEEEecCCCCCCH---HHHHHHHHHhccCc
Confidence 49999999998654 33444443334443
No 56
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=44.04 E-value=36 Score=31.52 Aligned_cols=23 Identities=17% Similarity=0.118 Sum_probs=19.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhc
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
..|++||+|.+..++..|.....
T Consensus 231 SkgygfVSf~~pad~~rAmrem~ 253 (290)
T KOG0226|consen 231 SKGYGFVSFRDPADYVRAMREMN 253 (290)
T ss_pred cccceeeeecCHHHHHHHHHhhc
Confidence 56999999999999988876543
No 57
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=43.79 E-value=23 Score=31.64 Aligned_cols=22 Identities=36% Similarity=0.300 Sum_probs=19.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhh
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQ 336 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~ 336 (414)
.-|.|||.|.|...|.+|+.+.
T Consensus 91 SKgYAFVEFEs~eVA~IaAETM 112 (214)
T KOG4208|consen 91 SKGYAFVEFESEEVAKIAAETM 112 (214)
T ss_pred cCceEEEEeccHHHHHHHHHHh
Confidence 4589999999999999998654
No 58
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=41.37 E-value=33 Score=35.30 Aligned_cols=35 Identities=20% Similarity=0.094 Sum_probs=27.8
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEe
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVY 237 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~ 237 (414)
++||.|.|||.+.++ +.|+++|+.. |.|.++.++.
T Consensus 2 s~vv~V~nLp~~~te---~~L~~~f~~f--G~V~~v~i~~ 36 (481)
T TIGR01649 2 SPVVHVRNLPQDVVE---ADLVEALIPF--GPVSYVMMLP 36 (481)
T ss_pred ccEEEEcCCCCCCCH---HHHHHHHHhc--CCeeEEEEEC
Confidence 579999999999776 6789999886 4577776664
No 59
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=39.21 E-value=41 Score=30.41 Aligned_cols=36 Identities=28% Similarity=0.380 Sum_probs=27.8
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
.+||+|.|||.+.++ +.|.++|...++ +.++.+.+|
T Consensus 115 ~~~l~v~nL~~~~~~---~~l~~~F~~~g~--~~~~~~~~d 150 (306)
T COG0724 115 NNTLFVGNLPYDVTE---EDLRELFKKFGP--VKRVRLVRD 150 (306)
T ss_pred CceEEEeCCCCCCCH---HHHHHHHHhcCc--eeEEEeeec
Confidence 489999999988765 678999988754 456666665
No 60
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=39.01 E-value=43 Score=35.46 Aligned_cols=60 Identities=15% Similarity=0.195 Sum_probs=38.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccC--CCCCceeeeCC-------------CCC--CccccCcCCChhHHHHHHHHH
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSR--NPTIWLTNWAP-------------EPR--DIFWDNLSIPYVELTIRRLLM 374 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~--~~~~~~v~~AP-------------~P~--DIiW~Nl~~~~~~r~~R~~~~ 374 (414)
.+|.|||.|.+..+|+.|.+.++.. +.+...++.++ .+. -|+=.|+..-...|-+|.++.
T Consensus 559 SmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~ 635 (725)
T KOG0110|consen 559 SMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFT 635 (725)
T ss_pred ccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHh
Confidence 4699999999999999999887633 22333333333 222 555666665556666666654
No 61
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=38.54 E-value=65 Score=24.65 Aligned_cols=40 Identities=13% Similarity=0.161 Sum_probs=23.9
Q ss_pred CCeEEEEeCCHHHHHHHHHhhccCCC--CCceeeeCCCCCCc
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQSRNP--TIWLTNWAPEPRDI 355 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~~~~~--~~~~v~~AP~P~DI 355 (414)
.++|.|-|.++..|..|..-...... ....|...|.+.|.
T Consensus 39 ~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~r~~ 80 (90)
T PF11608_consen 39 GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKNREF 80 (90)
T ss_dssp TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S---
T ss_pred CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCcccc
Confidence 47999999999999998876665443 45667777766654
No 62
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=36.56 E-value=64 Score=23.06 Aligned_cols=42 Identities=14% Similarity=0.244 Sum_probs=25.4
Q ss_pred eEEEEecCCCCCCCchHHHHHHHhhhcCCCcee-----EEEEEeccc
Q 015063 199 FTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYL-----THQVVYNAN 240 (414)
Q Consensus 199 ~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~-----~v~i~~d~~ 240 (414)
.+|.|+|+-.-+.++++..+.+||....|..|+ +++++|.-.
T Consensus 6 eavhirGvd~lsT~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~ 52 (62)
T PF10309_consen 6 EAVHIRGVDELSTDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDE 52 (62)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHhcccCCCceEEEecCCcEEEEECCH
Confidence 478999987654443444444444433666553 677887654
No 63
>COG4709 Predicted membrane protein [Function unknown]
Probab=35.73 E-value=2.6e+02 Score=24.82 Aligned_cols=15 Identities=13% Similarity=0.244 Sum_probs=9.1
Q ss_pred cccHHHHHHHHHHHh
Q 015063 283 RVDAIDYYTAEINKL 297 (414)
Q Consensus 283 kvdai~y~~~~l~~l 297 (414)
+.|+++||++-.++-
T Consensus 22 r~e~m~dyeehF~~a 36 (195)
T COG4709 22 RREIMYDYEEHFREA 36 (195)
T ss_pred HHHHHHHHHHHHHhh
Confidence 456677776665444
No 64
>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=34.42 E-value=78 Score=32.03 Aligned_cols=36 Identities=14% Similarity=-0.002 Sum_probs=27.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCCCCC--ceeeeCC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRNPTI--WLTNWAP 350 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~~~~--~~v~~AP 350 (414)
..|.|||.|.+..+|..|.+.+....-.. ..+...|
T Consensus 409 ~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~ 446 (457)
T TIGR01622 409 SAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVV 446 (457)
T ss_pred CceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEc
Confidence 46999999999999999999998765433 3344444
No 65
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=33.57 E-value=50 Score=25.20 Aligned_cols=35 Identities=9% Similarity=0.002 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHH---HHHhcCCCCCceecceeeec
Q 015063 10 SAAINLLSAFAFLVVF---AILRIQPVNDRVYFPKWYRK 45 (414)
Q Consensus 10 ~l~~~~~~~~~~l~~F---~~lR~~~~~~~iY~pr~~~~ 45 (414)
+..+-.++|++.+++| |.-|+|+| +.||.|=.-+.
T Consensus 36 ~~lvI~~iFil~VilwfvCC~kRkrsR-rPIYrPvI~~~ 73 (94)
T PF05393_consen 36 WFLVICGIFILLVILWFVCCKKRKRSR-RPIYRPVIGLE 73 (94)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhcc-CCccccccccC
Confidence 3444444555555555 44455543 56998876544
No 66
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=31.04 E-value=43 Score=27.68 Aligned_cols=8 Identities=25% Similarity=0.335 Sum_probs=3.0
Q ss_pred HHHHHHHh
Q 015063 22 LVVFAILR 29 (414)
Q Consensus 22 l~~F~~lR 29 (414)
+++|++.+
T Consensus 16 ~~~~~~~~ 23 (130)
T PF12273_consen 16 LFLFYCHN 23 (130)
T ss_pred HHHHHHHH
Confidence 33333333
No 67
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=30.04 E-value=24 Score=31.01 Aligned_cols=21 Identities=29% Similarity=0.253 Sum_probs=17.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHh
Q 015063 315 IIPAAFVSFKSRWGAAVCAQT 335 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~ 335 (414)
+-+.|||.|++..+|..|..-
T Consensus 44 ~ppfafVeFEd~RDAeDAiyg 64 (241)
T KOG0105|consen 44 PPPFAFVEFEDPRDAEDAIYG 64 (241)
T ss_pred CCCeeEEEecCccchhhhhhc
Confidence 468999999999999888743
No 68
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=29.85 E-value=66 Score=33.09 Aligned_cols=25 Identities=16% Similarity=0.125 Sum_probs=21.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
..|.|||+|.+..+|..|.+.+...
T Consensus 336 ~~g~afv~f~~~~~a~~A~~~l~g~ 360 (509)
T TIGR01642 336 SKGYAFCEYKDPSVTDVAIAALNGK 360 (509)
T ss_pred cCeEEEEEECCHHHHHHHHHHcCCC
Confidence 4689999999999999999876544
No 69
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=29.83 E-value=3.8e+02 Score=27.44 Aligned_cols=26 Identities=31% Similarity=0.566 Sum_probs=15.6
Q ss_pred cCCCCC-CCchHHHHHHHhhhcCCCce
Q 015063 205 NIPPDP-DESVSEHVQHFFCVNHPDHY 230 (414)
Q Consensus 205 ~IP~~~-~~~~~~~l~~~f~~~~p~~v 230 (414)
|+|++. +|.+++.-++...-++|++.
T Consensus 16 NlpkdAt~eeI~~AYrr~~~lfHPDkh 42 (546)
T KOG0718|consen 16 NLPKDATDEEIKKAYRRLSRLFHPDKH 42 (546)
T ss_pred CCCcccCHHHHHHHHHHHHHhcCCccc
Confidence 889984 44444444444445678764
No 70
>PF00322 Endothelin: Endothelin family; InterPro: IPR001928 Endothelins (ET's) are the most potent vasoconstrictors known [, , ]. They stimulate cardiac contraction, regulate release of vasoactive substances, and stimulate mitogenesis in blood vessels in primary culture. They also stimulate contraction in almost all other smooth muscles (e.g., uterus, bronchus, vas deferensa and stomach) and stimulate secretion in several tissues (e.g., kidney, liver and adrenals). Endothelin receptors have also been found in the brain, e.g. cerebral cortex, cerebellum and glial cells. Endothelins have been implicated in a variety of pathophysiological conditions associated with stress, including hypertension, myocardial infarction, subarachnoid haemorrhage and renal failure. Endothelins are synthesised by proteolysis of large preproendothelins, which are cleaved to 'big endothelins' before being processed to the mature peptide. Sarafotoxins (SRTX) and bibrotoxin (BTX) are cardiotoxins from the venom of snakes of the Atractaspis family, structurally and functionally [, ] similar to endothelin. As shown in the following schematic representation, these peptides which are 21 residues long contain two intramolecular disulphide bonds. +-------------+ | | CxCxxxxxxxCxxxCxxxxxx | | +-------+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0019229 regulation of vasoconstriction, 0005576 extracellular region; PDB: 1V6R_A 1T7H_A 1EDP_A 1EDN_A 3CMH_A 6CMH_A 1SRB_A 2LDF_A.
Probab=29.54 E-value=21 Score=21.46 Aligned_cols=6 Identities=67% Similarity=1.376 Sum_probs=2.8
Q ss_pred CccccC
Q 015063 354 DIFWDN 359 (414)
Q Consensus 354 DIiW~N 359 (414)
||||.|
T Consensus 23 diIW~n 28 (31)
T PF00322_consen 23 DIIWVN 28 (31)
T ss_dssp TTT-S-
T ss_pred cEEEec
Confidence 677766
No 71
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=28.74 E-value=76 Score=21.66 Aligned_cols=31 Identities=26% Similarity=0.231 Sum_probs=14.9
Q ss_pred ccccccCCcccHHHHHHHHHHHhhHHHHHHHh
Q 015063 275 GFWGLWGTRVDAIDYYTAEINKLTEEENAERE 306 (414)
Q Consensus 275 ~~~~~~g~kvdai~y~~~~l~~l~~~I~~~r~ 306 (414)
+.|++||...|.-+. .+-+++++.+++...+
T Consensus 21 ~~CPlC~r~l~~e~~-~~li~~~~~~i~~~~~ 51 (54)
T PF04423_consen 21 GCCPLCGRPLDEEHR-QELIKKYKSEIEELPE 51 (54)
T ss_dssp EE-TTT--EE-HHHH-HHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCCCCHHHH-HHHHHHHHHHHHhhhh
Confidence 367888888776433 4445555555554443
No 72
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=27.86 E-value=69 Score=26.93 Aligned_cols=26 Identities=23% Similarity=0.325 Sum_probs=21.3
Q ss_pred ccHHHHHHHHHHHhhHHHHHHHhhhh
Q 015063 284 VDAIDYYTAEINKLTEEENAEREKVI 309 (414)
Q Consensus 284 vdai~y~~~~l~~l~~~I~~~r~~~~ 309 (414)
-||.+||+.+++.+++++++.+.-..
T Consensus 100 e~akdyfkRKve~l~kq~e~i~~i~~ 125 (153)
T KOG3048|consen 100 EDAKDYFKRKVEYLTKQIEQIEGILK 125 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37899999999999999887765443
No 73
>PF15179 Myc_target_1: Myc target protein 1
Probab=27.44 E-value=1e+02 Score=27.06 Aligned_cols=34 Identities=21% Similarity=0.207 Sum_probs=21.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcee
Q 015063 5 KDIGVSAAINLLSAFAFLVVFAILRIQPVNDRVY 38 (414)
Q Consensus 5 ~~~~t~l~~~~~~~~~~l~~F~~lR~~~~~~~iY 38 (414)
-+|-+++++.+++|.++.++|..|-+|+--.+|.
T Consensus 23 laF~vSm~iGLviG~li~~LltwlSRRRASa~Is 56 (197)
T PF15179_consen 23 LAFCVSMAIGLVIGALIWALLTWLSRRRASARIS 56 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 3566777777888877777776665442233443
No 74
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=26.14 E-value=2.6e+02 Score=24.29 Aligned_cols=17 Identities=18% Similarity=0.477 Sum_probs=12.1
Q ss_pred CcccHHHHHHHHHHHhh
Q 015063 282 TRVDAIDYYTAEINKLT 298 (414)
Q Consensus 282 ~kvdai~y~~~~l~~l~ 298 (414)
++.|+++||+|-+++-.
T Consensus 21 e~~e~l~~Y~e~f~d~~ 37 (181)
T PF08006_consen 21 EREEILEYYEEYFDDAG 37 (181)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 45578999988876543
No 75
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=26.06 E-value=1.4e+02 Score=18.67 Aligned_cols=18 Identities=22% Similarity=0.674 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 015063 376 VSLFALIFFFMIPIAFVQ 393 (414)
Q Consensus 376 ~~~~~liif~~iPv~~v~ 393 (414)
+..++..+|-.+|++|+-
T Consensus 6 lgfiAt~Lfi~iPt~FLl 23 (35)
T PRK04989 6 LGFVASLLFVLVPTVFLI 23 (35)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345566777788999874
No 76
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=24.52 E-value=86 Score=30.85 Aligned_cols=24 Identities=21% Similarity=0.172 Sum_probs=21.3
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhc
Q 015063 314 SIIPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 314 ~~~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
.++|-|||.|.+..+|..|+|..+
T Consensus 322 rPSGeAFIqm~nae~a~aaaqk~h 345 (508)
T KOG1365|consen 322 RPSGEAFIQMRNAERARAAAQKCH 345 (508)
T ss_pred CcChhhhhhhhhhHHHHHHHHHHH
Confidence 478999999999999999998654
No 77
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=24.12 E-value=2.1e+02 Score=26.39 Aligned_cols=68 Identities=18% Similarity=0.276 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhhccCCCCccccccc------cccCCcccHHHHHHHHHHHhhHHHHHHHhhh
Q 015063 241 KLAQLVENKKSLRNWLTYYKNTYERTSKKPTTKTGFW------GLWGTRVDAIDYYTAEINKLTEEENAEREKV 308 (414)
Q Consensus 241 ~L~~l~~~r~~~~~~le~~~~k~~~~~~rp~~r~~~~------~~~g~kvdai~y~~~~l~~l~~~I~~~r~~~ 308 (414)
+=..|.+.|+.+..+.|.++.--...+..+..+-|.. +.-.++.++.+|.+..++.|+.+++......
T Consensus 72 dk~~L~e~Rk~IE~~MErFK~vEkesKtKafSkeGL~~~~k~dp~e~ek~e~~~wl~~~Id~L~~QiE~~E~E~ 145 (233)
T PF04065_consen 72 DKKKLLENRKLIEEQMERFKVVEKESKTKAFSKEGLMAASKLDPKEKEKEEARDWLKDSIDELNRQIEQLEAEI 145 (233)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhhhcccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445777777777777765521100111222232221 0112456778899988888888887766554
No 78
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=24.05 E-value=61 Score=27.72 Aligned_cols=25 Identities=28% Similarity=0.457 Sum_probs=21.0
Q ss_pred HHHHHHhHHHHHHHHHHhhheeeee
Q 015063 99 LRIYLLGLKIFVPLAILAFVVLVPI 123 (414)
Q Consensus 99 lrflr~~~~~f~~~~~~~~~iLlPi 123 (414)
-|++++++++..+++++++.+|.-+
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v~ 53 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVVI 53 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999999888776554
No 79
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=24.00 E-value=1.4e+02 Score=26.91 Aligned_cols=37 Identities=14% Similarity=0.259 Sum_probs=29.1
Q ss_pred chHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 015063 155 RLYAHTIMSYVFTLWAFYVLRNEYKMIADMRLRFLAS 191 (414)
Q Consensus 155 ~lw~h~i~~~l~~~~~~~~l~~e~~~~~~~R~~~l~~ 191 (414)
.+.++++...++.++..+++|.-...+++.|+.....
T Consensus 50 ~~i~qlInFlIlv~lL~k~l~kPi~~~L~~R~~~I~~ 86 (205)
T PRK06231 50 VFIAHLIAFSILLLLGIFLFWKPTQRFLNKRKELIEA 86 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777677777778888999999999999888754
No 80
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=23.96 E-value=1.8e+02 Score=28.35 Aligned_cols=47 Identities=30% Similarity=0.259 Sum_probs=33.7
Q ss_pred HHHHhhHHHHHHHhhhhhc------cCCCCCeEEEEeCCHHHHHHHHHhhccC
Q 015063 293 EINKLTEEENAEREKVISD------ANSIIPAAFVSFKSRWGAAVCAQTQQSR 339 (414)
Q Consensus 293 ~l~~l~~~I~~~r~~~~~~------~~~~~~~aFVtF~s~~~A~~a~Q~~~~~ 339 (414)
-+.++++.+.++..+...- ...+-|.|=|+|.+...|.+|.|..+..
T Consensus 285 l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 285 LLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred HHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCe
Confidence 3667777777766664311 0115689999999999999999998653
No 81
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=23.77 E-value=63 Score=29.05 Aligned_cols=35 Identities=17% Similarity=0.062 Sum_probs=25.3
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCC--CCCceeeeC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRN--PTIWLTNWA 349 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~--~~~~~v~~A 349 (414)
.-|.|||-|.+..+|+.|...+.... ...+.|++|
T Consensus 54 sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a 90 (256)
T KOG4207|consen 54 SRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA 90 (256)
T ss_pred ccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence 45899999999999999987765432 234555554
No 82
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=23.11 E-value=1.3e+02 Score=30.18 Aligned_cols=26 Identities=15% Similarity=0.193 Sum_probs=22.3
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhccCC
Q 015063 315 IIPAAFVSFKSRWGAAVCAQTQQSRN 340 (414)
Q Consensus 315 ~~~~aFVtF~s~~~A~~a~Q~~~~~~ 340 (414)
..|.+||+|.+.++|..|...++..+
T Consensus 75 s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 75 SKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred ccceEEEEeccHHHHHHHHHHhhccc
Confidence 46999999999999999988877653
No 83
>CHL00080 psbM photosystem II protein M
Probab=22.78 E-value=1.7e+02 Score=18.08 Aligned_cols=17 Identities=29% Similarity=0.723 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 015063 377 SLFALIFFFMIPIAFVQ 393 (414)
Q Consensus 377 ~~~~liif~~iPv~~v~ 393 (414)
..++..+|-.+|.+|+-
T Consensus 7 gfiAt~LFi~iPt~FLl 23 (34)
T CHL00080 7 AFIATALFILVPTAFLL 23 (34)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45566777788998864
No 84
>PF15050 SCIMP: SCIMP protein
Probab=22.50 E-value=1.3e+02 Score=24.45 Aligned_cols=19 Identities=32% Similarity=0.434 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHhcC
Q 015063 13 INLLSAFAFLVVFAILRIQ 31 (414)
Q Consensus 13 ~~~~~~~~~l~~F~~lR~~ 31 (414)
|-++--++-+++||++|..
T Consensus 16 II~vS~~lglIlyCvcR~~ 34 (133)
T PF15050_consen 16 IILVSVVLGLILYCVCRWQ 34 (133)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333345557889999854
No 85
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=22.25 E-value=1.9e+02 Score=17.83 Aligned_cols=17 Identities=24% Similarity=0.735 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHH
Q 015063 377 SLFALIFFFMIPIAFVQ 393 (414)
Q Consensus 377 ~~~~liif~~iPv~~v~ 393 (414)
..++..+|-.+|++|+-
T Consensus 7 ~fiAt~Lfi~iPt~FLi 23 (33)
T TIGR03038 7 GFIATLLFILVPTVFLL 23 (33)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44566677788999864
No 86
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=22.17 E-value=1.9e+02 Score=30.17 Aligned_cols=66 Identities=17% Similarity=0.326 Sum_probs=36.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHh--hhhccCCCCcccccccc---c---cCCcccHHHHHHHHHHHhhHHHHHHHh
Q 015063 239 ANKLAQLVENKKSLRNWLTYYKN--TYERTSKKPTTKTGFWG---L---WGTRVDAIDYYTAEINKLTEEENAERE 306 (414)
Q Consensus 239 ~~~L~~l~~~r~~~~~~le~~~~--k~~~~~~rp~~r~~~~~---~---~g~kvdai~y~~~~l~~l~~~I~~~r~ 306 (414)
+++=.+|++.|+-+..+.|.++. |..| .++..+.|.-. + -.+|-|..+|....+++|+++++..+.
T Consensus 70 IKDK~~L~d~RrlIE~~MErfK~vEke~K--tKa~SkegL~~~~klDPkEkek~d~~~wi~~~ideLe~q~d~~ea 143 (575)
T KOG2150|consen 70 IKDKDSLLDNRRLIEQRMERFKAVEKEMK--TKAFSKEGLSAAEKLDPKEKEKRDTMDWISNQIDELERQVDSFEA 143 (575)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHhh--ccccchhhccccccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33335566666655555565542 2211 12333332210 0 014567799999999999998875443
No 87
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=21.72 E-value=1.2e+02 Score=28.88 Aligned_cols=36 Identities=19% Similarity=0.204 Sum_probs=29.4
Q ss_pred ceEEEEecCCCCCCCchHHHHHHHhhhcCCCceeEEEEEec
Q 015063 198 QFTVLVRNIPPDPDESVSEHVQHFFCVNHPDHYLTHQVVYN 238 (414)
Q Consensus 198 ~~Tvlv~~IP~~~~~~~~~~l~~~f~~~~p~~v~~v~i~~d 238 (414)
-+|++|..|+-+++| ..|++.|+.+.| +.++.+++|
T Consensus 101 y~TLFv~RLnydT~E---skLrreF~~YG~--IkrirlV~d 136 (335)
T KOG0113|consen 101 YKTLFVARLNYDTSE---SKLRREFEKYGP--IKRIRLVRD 136 (335)
T ss_pred cceeeeeeccccccH---HHHHHHHHhcCc--ceeEEEeee
Confidence 469999999999887 578888988755 667788887
No 88
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.45 E-value=1.1e+02 Score=20.19 Aligned_cols=19 Identities=16% Similarity=0.179 Sum_probs=13.5
Q ss_pred HHHHHHHHhhHHHHHHHhh
Q 015063 289 YYTAEINKLTEEENAEREK 307 (414)
Q Consensus 289 y~~~~l~~l~~~I~~~r~~ 307 (414)
..+++++.++++|.+++++
T Consensus 16 ~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 16 NIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hHHHhHHHHHHHHHHHHHH
Confidence 4467788888888776654
No 89
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=21.09 E-value=34 Score=24.50 Aligned_cols=25 Identities=24% Similarity=0.370 Sum_probs=1.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCcee
Q 015063 14 NLLSAFAFLVVFAILRIQPVNDRVY 38 (414)
Q Consensus 14 ~~~~~~~~l~~F~~lR~~~~~~~iY 38 (414)
.++++++++++|.+-|-|.++..=|
T Consensus 20 vgll~ailLIlf~iyR~rkkdEGSY 44 (64)
T PF01034_consen 20 VGLLFAILLILFLIYRMRKKDEGSY 44 (64)
T ss_dssp -----------------S------S
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCc
Confidence 3455666777888888665554333
No 90
>PF07243 Phlebovirus_G1: Phlebovirus glycoprotein G1; InterPro: IPR010826 This domain is found in several Phlebovirus glycoprotein G1 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].; GO: 0016021 integral to membrane, 0019012 virion
Probab=20.91 E-value=37 Score=34.86 Aligned_cols=25 Identities=12% Similarity=0.142 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhc
Q 015063 6 DIGVSAAINLLSAFAFLVVFAILRI 30 (414)
Q Consensus 6 ~~~t~l~~~~~~~~~~l~~F~~lR~ 30 (414)
++++++++++++..++.++|.++.+
T Consensus 418 TaLSAlvVStliss~iylil~IL~K 442 (526)
T PF07243_consen 418 TALSALVVSTLISSLIYLILSILSK 442 (526)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777777777777777775
No 91
>PRK14094 psbM photosystem II reaction center protein M; Provisional
Probab=20.90 E-value=1.3e+02 Score=19.99 Aligned_cols=18 Identities=22% Similarity=0.510 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 015063 376 VSLFALIFFFMIPIAFVQ 393 (414)
Q Consensus 376 ~~~~~liif~~iPv~~v~ 393 (414)
+..++..+|..+|.+|+-
T Consensus 6 lgfiAtaLFi~iPT~FLl 23 (50)
T PRK14094 6 FGFVASLLFVGVPTIFLI 23 (50)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 345566778889999874
No 92
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=20.40 E-value=91 Score=30.68 Aligned_cols=22 Identities=23% Similarity=0.176 Sum_probs=19.5
Q ss_pred CCCCeEEEEeCCHHHHHHHHHh
Q 015063 314 SIIPAAFVSFKSRWGAAVCAQT 335 (414)
Q Consensus 314 ~~~~~aFVtF~s~~~A~~a~Q~ 335 (414)
+.+|.|||.|..+.+|+.|+|.
T Consensus 204 rpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 204 RPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred CcccceEEEecCHHHHHHHHHH
Confidence 3799999999999999998754
No 93
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=20.17 E-value=91 Score=27.49 Aligned_cols=22 Identities=14% Similarity=0.157 Sum_probs=19.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhc
Q 015063 316 IPAAFVSFKSRWGAAVCAQTQQ 337 (414)
Q Consensus 316 ~~~aFVtF~s~~~A~~a~Q~~~ 337 (414)
-|.||+.|.++.+|..|.+.+.
T Consensus 51 qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 51 QGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred cceeEEEEechhhhHHHHHHHH
Confidence 4899999999999999998764
No 94
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=20.09 E-value=7.8e+02 Score=24.60 Aligned_cols=93 Identities=13% Similarity=0.257 Sum_probs=47.4
Q ss_pred HHHHhhhcCCCceeEEEEE-eccch-HHHHHHHHHHHHHHHHHHHhhhhccCCCCccccccccccCCcccHHHHHHHHHH
Q 015063 218 VQHFFCVNHPDHYLTHQVV-YNANK-LAQLVENKKSLRNWLTYYKNTYERTSKKPTTKTGFWGLWGTRVDAIDYYTAEIN 295 (414)
Q Consensus 218 l~~~f~~~~p~~v~~v~i~-~d~~~-L~~l~~~r~~~~~~le~~~~k~~~~~~rp~~r~~~~~~~g~kvdai~y~~~~l~ 295 (414)
.+++++.+ ++. ....++ +|.++ +..+.++.+++.++++.+.++.+++ | ++...+.-++++++
T Consensus 220 f~~l~~~f-~d~-a~~~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~---~-----------k~~~k~~~~~~q~~ 283 (406)
T PF02388_consen 220 FENLYDAF-GDK-AKFFLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKN---P-----------KKKNKLKELEEQLA 283 (406)
T ss_dssp HHHHHHHC-CCC-EEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH----T-----------HHHHHHHHHHHHHH
T ss_pred HHHHHHhc-CCC-eEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC---c-----------chhhHHHHHHHHHH
Confidence 33444443 554 333343 46654 5556666777777777666654432 2 11122445667777
Q ss_pred HhhHHHHHHHhhhhhccC--CCCCeEEEEeCCH
Q 015063 296 KLTEEENAEREKVISDAN--SIIPAAFVSFKSR 326 (414)
Q Consensus 296 ~l~~~I~~~r~~~~~~~~--~~~~~aFVtF~s~ 326 (414)
.+++++++.++-...... .-.+.-||.+.+.
T Consensus 284 ~~~k~~~~~~~~~~~~~~~~~la~~l~~~~g~~ 316 (406)
T PF02388_consen 284 SLEKRIEEAEELIAEYGDEIPLAGALFIYYGDE 316 (406)
T ss_dssp HHHHHHHHHHHHHHHH-SEEEEEEEEEEEETTE
T ss_pred HHHHHHHHHHHHHHhcCCcceEEEEEEEEECCE
Confidence 777777766653221111 1234556666543
Done!