Query 018945
Match_columns 348
No_of_seqs 137 out of 845
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 05:23:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018945.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018945hhsearch_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 3.9E-47 8.4E-52 392.5 18.6 290 3-347 20-347 (827)
2 KOG1134 Uncharacterized conser 100.0 4.6E-45 9.9E-50 384.6 19.4 292 1-346 1-294 (728)
3 PF13967 RSN1_TM: Late exocyto 100.0 3.4E-38 7.5E-43 276.8 13.2 156 6-200 1-157 (157)
4 PF14703 DUF4463: Domain of un 99.5 1E-13 2.3E-18 109.1 6.3 65 277-341 1-85 (85)
5 PF04059 RRM_2: RNA recognitio 82.5 1.8 3.9E-05 35.1 3.8 25 241-265 2-27 (97)
6 PF07292 NID: Nmi/IFP 35 domai 80.5 0.48 1E-05 37.9 -0.2 35 232-266 44-79 (88)
7 PLN03120 nucleic acid binding 79.9 2.6 5.6E-05 40.2 4.4 37 240-281 4-40 (260)
8 PLN03134 glycine-rich RNA-bind 77.3 4.2 9.2E-05 35.1 4.7 39 238-281 32-70 (144)
9 PLN03121 nucleic acid binding 76.2 4 8.6E-05 38.5 4.5 36 240-280 5-40 (243)
10 PF00076 RRM_1: RNA recognitio 74.9 4.8 0.0001 28.8 3.8 33 243-280 1-33 (70)
11 PF14259 RRM_6: RNA recognitio 74.6 6.2 0.00013 28.7 4.4 33 243-280 1-33 (70)
12 smart00362 RRM_2 RNA recogniti 67.7 8.7 0.00019 26.7 3.8 34 242-280 1-34 (72)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 67.2 8 0.00017 37.5 4.6 37 240-281 3-39 (352)
14 TIGR01659 sex-lethal sex-letha 66.8 8 0.00017 38.4 4.5 39 238-281 105-143 (346)
15 TIGR01661 ELAV_HUD_SF ELAV/HuD 63.4 10 0.00022 36.8 4.5 37 240-281 269-305 (352)
16 KOG0122 Translation initiation 56.5 13 0.00029 35.2 3.6 56 240-300 189-250 (270)
17 cd00590 RRM RRM (RNA recogniti 55.9 20 0.00043 25.0 3.9 35 242-281 1-35 (74)
18 TIGR01622 SF-CC1 splicing fact 54.1 17 0.00037 36.7 4.4 37 239-280 88-124 (457)
19 TIGR01648 hnRNP-R-Q heterogene 53.2 19 0.00041 38.3 4.6 57 239-300 232-288 (578)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 52.6 17 0.00038 37.4 4.2 36 240-280 2-37 (481)
21 PF01102 Glycophorin_A: Glycop 52.2 13 0.00027 31.6 2.6 20 12-31 73-92 (122)
22 TIGR01659 sex-lethal sex-letha 49.7 22 0.00048 35.3 4.3 38 238-280 191-228 (346)
23 TIGR01628 PABP-1234 polyadenyl 43.5 30 0.00064 36.2 4.3 54 242-300 2-61 (562)
24 KOG0132 RNA polymerase II C-te 39.1 23 0.00049 38.7 2.6 57 237-299 418-475 (894)
25 KOG1855 Predicted RNA-binding 38.2 32 0.0007 35.1 3.4 39 237-280 228-266 (484)
26 COG0724 RNA-binding proteins ( 35.7 52 0.0011 29.1 4.1 36 240-280 115-150 (306)
27 KOG3048 Molecular chaperone Pr 33.7 30 0.00065 30.2 2.0 21 327-347 100-120 (153)
28 TIGR01648 hnRNP-R-Q heterogene 32.8 53 0.0011 35.0 4.1 38 239-281 57-94 (578)
29 PF02439 Adeno_E3_CR2: Adenovi 31.1 1.2E+02 0.0026 20.5 4.1 28 4-31 5-32 (38)
30 KOG0117 Heterogeneous nuclear 30.5 36 0.00077 35.0 2.3 55 240-301 259-313 (506)
31 TIGR01622 SF-CC1 splicing fact 30.5 66 0.0014 32.4 4.3 36 240-280 186-221 (457)
32 PF11608 Limkain-b1: Limkain b 28.1 85 0.0018 25.1 3.5 33 242-275 4-37 (90)
33 KOG0125 Ataxin 2-binding prote 27.6 64 0.0014 32.0 3.4 36 240-281 96-132 (376)
34 PF10309 DUF2414: Protein of u 27.2 98 0.0021 23.0 3.6 41 241-281 6-51 (62)
35 TIGR02542 B_forsyth_147 Bacter 26.4 87 0.0019 26.5 3.5 41 240-289 5-45 (145)
36 PF12273 RCR: Chitin synthesis 26.3 53 0.0011 27.6 2.3 14 17-30 11-24 (130)
37 TIGR01645 half-pint poly-U bin 24.5 91 0.002 33.5 4.2 37 240-281 204-240 (612)
38 TIGR01642 U2AF_lg U2 snRNP aux 24.4 97 0.0021 31.6 4.3 27 239-265 174-201 (509)
39 PF15179 Myc_target_1: Myc tar 24.1 1.2E+02 0.0025 27.7 4.1 26 6-31 24-49 (197)
40 smart00360 RRM RNA recognition 23.9 84 0.0018 21.3 2.7 31 245-280 1-31 (71)
41 TIGR01642 U2AF_lg U2 snRNP aux 23.8 1E+02 0.0022 31.5 4.3 37 239-280 294-330 (509)
42 PHA02673 ORF109 EEV glycoprote 23.7 56 0.0012 28.9 2.0 24 99-122 29-52 (161)
43 KOG0127 Nucleolar protein fibr 23.1 93 0.002 32.9 3.8 33 241-278 293-325 (678)
44 TIGR01628 PABP-1234 polyadenyl 21.7 1.1E+02 0.0024 31.9 4.2 36 240-280 178-213 (562)
45 TIGR01645 half-pint poly-U bin 21.3 1.2E+02 0.0026 32.6 4.3 36 240-280 107-142 (612)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=3.9e-47 Score=392.48 Aligned_cols=290 Identities=24% Similarity=0.429 Sum_probs=246.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHcCCCCCCceecceeeccCCC-CCCCCCCccccccccccccccCccccchhhhcc
Q 018945 3 TLGDIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKGLR-SSPLQTGTLVSKFVNLDFRSYLRFLSWMPAALQ 81 (348)
Q Consensus 3 ~~~~~~~sl~i~~~i~~~~lllF~~LR~~~~~~~iY~pr~~~~~~~-~~p~~~~~~~~~~~~~~~~~~~~~f~Wi~~~~~ 81 (348)
+.+++.||+.++..++++++.+|++||+| ++++|+||+...+.. +.|. +.++|+|||+.++++
T Consensus 20 s~~~~~t~l~f~~~~~~~~l~~f~iLR~r--~k~lY~pr~~~~~~~~~~P~--------------~~~ss~~gWl~~L~~ 83 (827)
T COG5594 20 STSAVITQLVFAGLIFLVFLILFLILRKR--WKRLYAPRTNFDGQNECLPE--------------PNPSSYWGWLEPLVK 83 (827)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHH--HhHhcCcceeecCCCcccCC--------------CCccchHHHHHHHHh
Confidence 57899999999999999999999999985 999999999887644 3332 357899999999999
Q ss_pred CChhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCCccccCC-cCCCCCccccccCCCCCCCccchhhh
Q 018945 82 MPEPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSK-LKYSNIDLLSISNVPLGSNRMSSLQR 160 (348)
Q Consensus 82 ~~d~~il~~~GlDA~v~Lrflr~~~~~f~~~~~~~~~ILlPin~t~~~~~~~~-~~~~~l~~~si~Nv~~~s~~~~~~~~ 160 (348)
++|+.+++.+|+|||+||||+|||+++|+++|++++|||+|||++.....+.+ -..++++++|++|+.. ++
T Consensus 84 i~d~~~l~~aGlD~y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~gn~~s~s~l~~Ls~~Nv~~-~n------- 155 (827)
T COG5594 84 IPDEFLLQYAGLDGYFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATNGNSDSESGLDKLSISNVSP-SN------- 155 (827)
T ss_pred CCHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHhHEeeeeeecccccccCCccchhhhhHhhhhcccC-CC-------
Confidence 99999999999999999999999999999999999999999999885443221 1468999999999975 45
Q ss_pred hhcccCcccccccccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcccchhhhcccccccccccc
Q 018945 161 FYSNLGSWAFLGNVFFKRFWTHLVMAYVFTFWTCYVLKREYEIVAAMRLHFLASEHRRPDQFTSFACIIHNFEFILEYTT 240 (348)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~lw~h~v~~~l~t~~~~~~l~~e~~~~~~lR~~~l~s~~~~~~~~t~~~~~~~~~~~~~~is~ 240 (348)
++|+|++..|++.++++|.+++|++.|+++||++++++.++.+..+ .-+.+++
T Consensus 156 -----------------~~~aHvf~~~~f~~~vlfii~~el~~y~~lr~a~~~~p~y~qs~~~----------~~~~~ss 208 (827)
T COG5594 156 -----------------RLYAHVFLSWFFFGYVLFIIFRELRFYVVLRQAYLRSPLYQQSLLT----------LQNNLSS 208 (827)
T ss_pred -----------------ceeeeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHh----------hccCCCC
Confidence 9999999999999999999999999999999999999998654332 2256799
Q ss_pred eEEEEecCCCC--CChhHHHHHHhhhcccCCCceeEEEEEcChhhHHHHHHHHHHHHHHHHHHHhh-------h-----c
Q 018945 241 REVLVRNVPPD--PDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKMQNWLDFYQLK-------Y-----S 306 (348)
Q Consensus 241 rTVlV~~IP~~--~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~L~~~r~~~~~~LE~~~~k-------~-----~ 306 (348)
|||+++++|.+ ++++ +..+|.++.-+.+.+..+|+|.+.|++++.+|+++.+++|.+.++ . .
T Consensus 209 RTvlis~LP~~~~~~e~----L~~~~~kl~~~~i~~~~l~~~~~~l~~l~k~R~ki~~klE~~~~~~~~~~~K~~~~~~~ 284 (827)
T COG5594 209 RTVLISGLPSELRSDEE----LKELFDKLKVGEIDSDVLCRDLGTLQELYKERDKILKKLEKALNELLNKLLKKSHLKTN 284 (827)
T ss_pred ceEEeecCChhhcCchh----HHHHHhhcCeeeeccchhhhhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHhhc
Confidence 99999999997 4443 566777666677778889999999999999999999999975421 1 0
Q ss_pred c--------------------CCCCCCccccCCC--CCCCCcccHHHHHHHHHHHHHHHhccc
Q 018945 307 R--------------------NPARKPSTKTGFL--GLWGKTVDAIDFYTSKIETLKKEVSGF 347 (348)
Q Consensus 307 ~--------------------~~~~rP~~r~g~~--~~~g~kVDaidy~~~~l~~l~~~i~~~ 347 (348)
+ +.++||+||.+-. +++||||||||||++++.+++++|++.
T Consensus 285 K~~~~L~~~~~k~~~~~~~y~~~~~Rp~~~i~k~~~~i~gKkVdaI~y~s~~l~~l~~~i~~~ 347 (827)
T COG5594 285 KKSGKLTPSRKKEFEILPEYVPDKKRPKHRIKKLNKGIFGKKVDAIDYYSAKLTKLDAEIENA 347 (827)
T ss_pred cCCCCCCCcccccchhhhhhccccccchhhhhhhhhhhccceecHHHHHHHHHHHHHHHHHHH
Confidence 1 0145999997754 678999999999999999999999863
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=4.6e-45 Score=384.63 Aligned_cols=292 Identities=47% Similarity=0.815 Sum_probs=254.0
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHcCCCCCCceecceeeccCCCCCCCCCCccccccccccccccCcc-ccchhhh
Q 018945 1 MATLGDIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKGLRSSPLQTGTLVSKFVNLDFRSYLRF-LSWMPAA 79 (348)
Q Consensus 1 ~~~~~~~~~sl~i~~~i~~~~lllF~~LR~~~~~~~iY~pr~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~-f~Wi~~~ 79 (348)
|++.+++..+-.++...+..++.+|.+++.++++.++|.|++++.+.++.|..... ...+++. |+|++++
T Consensus 1 ~~~~~~~~~~s~~~~~~~~~~~~~~~~l~l~~~~~~vy~~~~~l~~~~~~~~~~~~---------~~~~~~~~~~Wl~~~ 71 (728)
T KOG1134|consen 1 MATFESIGISSTLNLNSAFAFLFLFLFLRLQPRNFRVYLPIWSLKGLRSSPIESKV---------EPVPSSVNFGWLPAL 71 (728)
T ss_pred CCccccccccccccchhhHHHHHHHHHHHhhhcceEEEEeeeeeccccCcCccccC---------CCCCCcccccchHHH
Confidence 56777777777788888888888999999889999999999998876644433211 0234455 9999999
Q ss_pred ccCChhHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCCccccCCcCCCCCccccccCCCCCCCccchhh
Q 018945 80 LQMPEPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRMSSLQ 159 (348)
Q Consensus 80 ~~~~d~~il~~~GlDA~v~Lrflr~~~~~f~~~~~~~~~ILlPin~t~~~~~~~~~~~~~l~~~si~Nv~~~s~~~~~~~ 159 (348)
++++|+|+++++|+||++||||+++++++|+++|+++++||+|||+++++.++.+ ..+++++|++||+.+++
T Consensus 72 ~k~~~~ei~~~~GlDa~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~~--~~s~~~ls~snv~~~s~------ 143 (728)
T KOG1134|consen 72 LKIPDEEILEHAGLDAYVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELGN--EDSLDKLSISNVQPGSS------ 143 (728)
T ss_pred hcCCHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCcccccc--cchhhhhhheeccCCCC------
Confidence 9999999999999999999999999999999999999999999999999886433 22799999999999988
Q ss_pred hhhcccCcccccccccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcccchhhhccccccccccc
Q 018945 160 RFYSNLGSWAFLGNVFFKRFWTHLVMAYVFTFWTCYVLKREYEIVAAMRLHFLASEHRRPDQFTSFACIIHNFEFILEYT 239 (348)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~lw~h~v~~~l~t~~~~~~l~~e~~~~~~lR~~~l~s~~~~~~~~t~~~~~~~~~~~~~~is 239 (348)
++|+|++++|+++++++|++++||++++.+|++|+.++.+++++.+
T Consensus 144 ------------------~lw~Hv~~~y~~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s---------------- 189 (728)
T KOG1134|consen 144 ------------------LLWAHVFFTYLFTFFTLFILYREYKHVASIRQAYLASPKYRPDQSS---------------- 189 (728)
T ss_pred ------------------CEEEEeehhHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcCccccc----------------
Confidence 8999999999999999999999999999999999999999888764
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcChhhHHHHHHHHHHH-HHHHHHHHhhhccCCCCCCccccC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKM-QNWLDFYQLKYSRNPARKPSTKTG 318 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~L~~~r~~~-~~~LE~~~~k~~~~~~~rP~~r~g 318 (348)
++++++|+....+....++++|...+|++++++++++|..+|.++.++++++ ..++.+...+...+.++||++|.|
T Consensus 190 ---~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~k~~~~~l~~~~~~~~~~~~~rP~~k~~ 266 (728)
T KOG1134|consen 190 ---VLVRNVPPPDGVSVSVIVRHFFSLNHPVKVRSHQVVYNESKLSKLLSKLKKLRENKLYKEHKRLKSNPKKRPKRKLG 266 (728)
T ss_pred ---hhhhcccCCCCCchhhHHhhhhhccCCceeehhHHHhhHHHHHHHHHHHHHHhHHHHHHhhhhhccccccCCcceee
Confidence 8899999655555567889999999999999999999999999999999999 555555555555555589999999
Q ss_pred CCCCCCCcccHHHHHHHHHHHHHHHhcc
Q 018945 319 FLGLWGKTVDAIDFYTSKIETLKKEVSG 346 (348)
Q Consensus 319 ~~~~~g~kVDaidy~~~~l~~l~~~i~~ 346 (348)
+||++||||||||||++|+++++++|.+
T Consensus 267 ~~~l~gkkvdai~yy~~kl~~l~~~i~~ 294 (728)
T KOG1134|consen 267 FCGLFGKKVDAIDYYSEKLQELSEDIEE 294 (728)
T ss_pred eeeeecceecHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999875
No 3
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=3.4e-38 Score=276.83 Aligned_cols=156 Identities=35% Similarity=0.647 Sum_probs=137.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHcCCCCCCceecceeeccC-CCCCCCCCCccccccccccccccCccccchhhhccCCh
Q 018945 6 DIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKG-LRSSPLQTGTLVSKFVNLDFRSYLRFLSWMPAALQMPE 84 (348)
Q Consensus 6 ~~~~sl~i~~~i~~~~lllF~~LR~~~~~~~iY~pr~~~~~-~~~~p~~~~~~~~~~~~~~~~~~~~~f~Wi~~~~~~~d 84 (348)
+|.+|+++|++++++++++|+++|++ ++++|+||.+.++ ....|++ ..++|+|+|++++++++|
T Consensus 1 s~~~sl~~~~~i~~~~~~~F~~lR~~--~~~iY~pR~~~~~~~~~~~~~-------------~~~~g~f~Wi~~~~~~~d 65 (157)
T PF13967_consen 1 SFLTSLAINLIIFLVLLLLFCILRKR--FPRIYQPRSYLPHPEPERPPP-------------LPSRGFFGWIKPVFKISD 65 (157)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhc--cHHhcccccccCCcccccCCC-------------CCCCCchHHHHHHHcCCH
Confidence 58899999999999999999999985 9999999998863 1111111 134799999999999999
Q ss_pred hHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCCccccCCcCCCCCccccccCCCCCCCccchhhhhhcc
Q 018945 85 PELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRMSSLQRFYSN 164 (348)
Q Consensus 85 ~~il~~~GlDA~v~Lrflr~~~~~f~~~~~~~~~ILlPin~t~~~~~~~~~~~~~l~~~si~Nv~~~s~~~~~~~~~~~~ 164 (348)
+|++++||+||++|+||+|+++++|+++++++++||+|+|++++...++..+.++++++|++|++++++
T Consensus 66 ~~i~~~~GlDa~~flrflr~~~~~f~~~~i~~~~vLlPi~~~~~~~~~~~~~~~~l~~~tisnv~~~s~----------- 134 (157)
T PF13967_consen 66 DEILRHCGLDAYVFLRFLRMLIKIFLFLSILSLPVLLPINYTGGDDDGDSDNESGLDRLTISNVPKGSS----------- 134 (157)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHheeeeEEeCCCCccccccccccccccHHhhcCCCC-----------
Confidence 999999999999999999999999999999999999999999988754333337999999999998887
Q ss_pred cCcccccccccchhHhHHHHHHHHHHHHHHHHHHHH
Q 018945 165 LGSWAFLGNVFFKRFWTHLVMAYVFTFWTCYVLKRE 200 (348)
Q Consensus 165 ~~~~~~~~~~~~~~lw~h~v~~~l~t~~~~~~l~~e 200 (348)
++|+|++++|+++++++|+|++|
T Consensus 135 -------------~lw~h~v~~~i~~~~~~~~l~~E 157 (157)
T PF13967_consen 135 -------------RLWAHVVFAYIFTFYVLYLLWRE 157 (157)
T ss_pred -------------eehHHHHHHHHHHHHHHhhheeC
Confidence 99999999999999999999886
No 4
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.46 E-value=1e-13 Score=109.12 Aligned_cols=65 Identities=38% Similarity=0.722 Sum_probs=54.6
Q ss_pred EEcChhhHHHHHHHHHHHHHHHHHHHhhhccCCC-------------------CCCccccCCCCCCC-CcccHHHHHHHH
Q 018945 277 VVNNANKLSELVNKKKKMQNWLDFYQLKYSRNPA-------------------RKPSTKTGFLGLWG-KTVDAIDFYTSK 336 (348)
Q Consensus 277 v~~d~~~L~~L~~~r~~~~~~LE~~~~k~~~~~~-------------------~rP~~r~g~~~~~g-~kVDaidy~~~~ 336 (348)
|++|+++|++|+++|++++++||++..++.+.+. .||++|.|++|++| +||||||||+++
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 5899999999999999999999998766543211 24566669999998 999999999999
Q ss_pred HHHHH
Q 018945 337 IETLK 341 (348)
Q Consensus 337 l~~l~ 341 (348)
|++||
T Consensus 81 l~~Ln 85 (85)
T PF14703_consen 81 LKELN 85 (85)
T ss_pred HHHhC
Confidence 99985
No 5
>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=82.53 E-value=1.8 Score=35.15 Aligned_cols=25 Identities=28% Similarity=0.632 Sum_probs=19.6
Q ss_pred eEEEEecCCCC-CChhHHHHHHhhhc
Q 018945 241 REVLVRNVPPD-PDESVTQLVEHFFL 265 (348)
Q Consensus 241 rTVlV~~IP~~-~~~~l~~~l~~~f~ 265 (348)
.||||+|||.. +++.|.+.|++.|.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~ 27 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFK 27 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhcc
Confidence 47999999998 55677777777653
No 6
>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=80.48 E-value=0.48 Score=37.86 Aligned_cols=35 Identities=26% Similarity=0.412 Sum_probs=26.9
Q ss_pred ccccccccceEEEEecCCCC-CChhHHHHHHhhhcc
Q 018945 232 FEFILEYTTREVLVRNVPPD-PDESVTQLVEHFFLV 266 (348)
Q Consensus 232 ~~~~~~is~rTVlV~~IP~~-~~~~l~~~l~~~f~~ 266 (348)
+|--..++.|||+|+|||.. .++.+++.|+=+|.+
T Consensus 44 ~qv~~~vs~rtVlvsgip~~l~ee~l~D~LeIhFqK 79 (88)
T PF07292_consen 44 FQVFSGVSKRTVLVSGIPDVLDEEELRDKLEIHFQK 79 (88)
T ss_pred EEEEEcccCCEEEEeCCCCCCChhhheeeEEEEEec
Confidence 45555789999999999996 445677777777765
No 7
>PLN03120 nucleic acid binding protein; Provisional
Probab=79.93 E-value=2.6 Score=40.21 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=29.2
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
.|||.|.|||...++ +.|++||... |.|.++.++.|-
T Consensus 4 ~rtVfVgNLs~~tTE---~dLrefFS~~--G~I~~V~I~~d~ 40 (260)
T PLN03120 4 VRTVKVSNVSLKATE---RDIKEFFSFS--GDIEYVEMQSEN 40 (260)
T ss_pred CCEEEEeCCCCCCCH---HHHHHHHHhc--CCeEEEEEeecC
Confidence 588999999998654 3577788765 789999887664
No 8
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=77.29 E-value=4.2 Score=35.07 Aligned_cols=39 Identities=8% Similarity=0.169 Sum_probs=28.8
Q ss_pred ccceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 238 YTTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 238 is~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
..+++|+|.|||.+.++ +.|+++|... |.|.++.++.|.
T Consensus 32 ~~~~~lfVgnL~~~~te---~~L~~~F~~~--G~I~~v~i~~d~ 70 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDD---ASLRDAFAHF--GDVVDAKVIVDR 70 (144)
T ss_pred CCCCEEEEeCCCCCCCH---HHHHHHHhcC--CCeEEEEEEecC
Confidence 35678999999998654 3567777764 678888887654
No 9
>PLN03121 nucleic acid binding protein; Provisional
Probab=76.17 E-value=4 Score=38.52 Aligned_cols=36 Identities=19% Similarity=0.231 Sum_probs=29.4
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
.+||.|.||+....+ +.|++||... |.|.++.+++|
T Consensus 5 g~TV~V~NLS~~tTE---~dLrefFS~~--G~I~~V~I~~D 40 (243)
T PLN03121 5 GYTAEVTNLSPKATE---KDVYDFFSHC--GAIEHVEIIRS 40 (243)
T ss_pred ceEEEEecCCCCCCH---HHHHHHHHhc--CCeEEEEEecC
Confidence 478999999998654 4678888865 88999999877
No 10
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=74.93 E-value=4.8 Score=28.76 Aligned_cols=33 Identities=30% Similarity=0.480 Sum_probs=22.0
Q ss_pred EEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 243 VLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 243 VlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
|.|.|+|.+.++ +.|.++|... |.|..+.+..+
T Consensus 1 l~v~nlp~~~t~---~~l~~~f~~~--g~i~~~~~~~~ 33 (70)
T PF00076_consen 1 LYVGNLPPDVTE---EELRDFFSQF--GKIESIKVMRN 33 (70)
T ss_dssp EEEESETTTSSH---HHHHHHHHTT--STEEEEEEEEE
T ss_pred cEEcCCCCcCCH---HHHHHHHHHh--hhccccccccc
Confidence 679999998553 3456666654 55666666554
No 11
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=74.59 E-value=6.2 Score=28.65 Aligned_cols=33 Identities=24% Similarity=0.439 Sum_probs=23.4
Q ss_pred EEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 243 VLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 243 VlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
|+|+|||...++ +.|.++|... |.|..+.+..+
T Consensus 1 v~i~nlp~~~~~---~~l~~~f~~~--g~v~~v~~~~~ 33 (70)
T PF14259_consen 1 VYISNLPPSTTE---EDLRNFFSRF--GPVEKVRLIKN 33 (70)
T ss_dssp EEEESSTTT--H---HHHHHHCTTS--SBEEEEEEEES
T ss_pred CEEeCCCCCCCH---HHHHHHHHhc--CCcceEEEEee
Confidence 689999998654 4577788765 56888887755
No 12
>smart00362 RRM_2 RNA recognition motif.
Probab=67.70 E-value=8.7 Score=26.70 Aligned_cols=34 Identities=21% Similarity=0.368 Sum_probs=20.9
Q ss_pred EEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 242 EVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 242 TVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
||.|.|+|....+ +.++++|... |.|..+.+..+
T Consensus 1 ~v~i~~l~~~~~~---~~l~~~~~~~--g~v~~~~~~~~ 34 (72)
T smart00362 1 TLFVGNLPPDVTE---EDLKELFSKF--GPIESVKIPKD 34 (72)
T ss_pred CEEEcCCCCcCCH---HHHHHHHHhc--CCEEEEEEecC
Confidence 4899999997543 2455566543 44556655544
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=67.23 E-value=8 Score=37.46 Aligned_cols=37 Identities=11% Similarity=0.257 Sum_probs=28.5
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
..+|+|.|+|.+..+ +.|+++|... |.|.++.+++|-
T Consensus 3 ~~~l~V~nLp~~~~e---~~l~~~F~~~--G~i~~v~i~~d~ 39 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQ---EEIRSLFTSI--GEIESCKLVRDK 39 (352)
T ss_pred CcEEEEeCCCCCCCH---HHHHHHHHcc--CCEEEEEEEEcC
Confidence 357999999998654 3577788875 678899888763
No 14
>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=66.76 E-value=8 Score=38.36 Aligned_cols=39 Identities=13% Similarity=0.214 Sum_probs=29.3
Q ss_pred ccceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 238 YTTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 238 is~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
-..++|+|.|||.+.++ +.|+++|... +.|.+|.++.|.
T Consensus 105 ~~~~~LfVgnLp~~~te---~~L~~lF~~~--G~V~~v~i~~d~ 143 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTD---RELYALFRTI--GPINTCRIMRDY 143 (346)
T ss_pred CCCcEEEEeCCCCCCCH---HHHHHHHHhc--CCEEEEEEEecC
Confidence 35788999999998654 3567777765 568888888764
No 15
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=63.45 E-value=10 Score=36.75 Aligned_cols=37 Identities=19% Similarity=0.288 Sum_probs=27.9
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
.++|+|.|||.+.++ +.|.++|... |.|.++.+++|-
T Consensus 269 ~~~lfV~NL~~~~~e---~~L~~~F~~f--G~v~~v~i~~d~ 305 (352)
T TIGR01661 269 GYCIFVYNLSPDTDE---TVLWQLFGPF--GAVQNVKIIRDL 305 (352)
T ss_pred CcEEEEeCCCCCCCH---HHHHHHHHhC--CCeEEEEEeEcC
Confidence 457999999998654 3567778765 678899888763
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=56.52 E-value=13 Score=35.16 Aligned_cols=56 Identities=16% Similarity=0.127 Sum_probs=35.9
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcChh-hHHH-----HHHHHHHHHHHHHH
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNAN-KLSE-----LVNKKKKMQNWLDF 300 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~-~L~~-----L~~~r~~~~~~LE~ 300 (348)
+.||.|+|+|.+.++ ..|+++|..+ |.|.++.+++|-. -+.+ -+..|+.+.+.++.
T Consensus 189 ~~tvRvtNLsed~~E---~dL~eLf~~f--g~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~ 250 (270)
T KOG0122|consen 189 EATVRVTNLSEDMRE---DDLEELFRPF--GPITRVYLARDKETGLSKGFAFVTFESRDDAARAIAD 250 (270)
T ss_pred cceeEEecCccccCh---hHHHHHhhcc--CccceeEEEEccccCcccceEEEEEecHHHHHHHHHH
Confidence 356999999998655 3467888766 5577888876532 1211 13456666666554
No 17
>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=55.90 E-value=20 Score=24.95 Aligned_cols=35 Identities=23% Similarity=0.403 Sum_probs=22.2
Q ss_pred EEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 242 EVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 242 TVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
+|+|+|+|...++ +.++++|... |.+.++.+..+-
T Consensus 1 ~i~i~~l~~~~~~---~~i~~~~~~~--g~i~~~~~~~~~ 35 (74)
T cd00590 1 TLFVGNLPPDVTE---EDLRELFSKF--GKVESVRIVRDK 35 (74)
T ss_pred CEEEeCCCCccCH---HHHHHHHHhc--CCEEEEEEeeCC
Confidence 3889999998543 3455566553 556666665543
No 18
>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=54.10 E-value=17 Score=36.69 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=28.4
Q ss_pred cceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 239 TTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 239 s~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
.++||+|.|||...++ +.|+++|... |.|.++.++.|
T Consensus 88 ~~~~l~V~nlp~~~~~---~~l~~~F~~~--G~v~~v~i~~d 124 (457)
T TIGR01622 88 DDRTVFVLQLALKARE---RDLYEFFSKV--GKVRDVQCIKD 124 (457)
T ss_pred CCcEEEEeCCCCCCCH---HHHHHHHHhc--CCeeEEEEeec
Confidence 4689999999998654 3467777765 67888888765
No 19
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=53.22 E-value=19 Score=38.34 Aligned_cols=57 Identities=14% Similarity=0.193 Sum_probs=38.1
Q ss_pred cceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcChhhHHHHHHHHHHHHHHHHH
Q 018945 239 TTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKMQNWLDF 300 (348)
Q Consensus 239 s~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~L~~~r~~~~~~LE~ 300 (348)
..++|+|.|+|.+.++ +.|+++|...-||.|++|.+.++..=+ -++.++.+.+.++.
T Consensus 232 ~~k~LfVgNL~~~~te---e~L~~~F~~f~~G~I~rV~~~rgfAFV--eF~s~e~A~kAi~~ 288 (578)
T TIGR01648 232 KVKILYVRNLMTTTTE---EIIEKSFSEFKPGKVERVKKIRDYAFV--HFEDREDAVKAMDE 288 (578)
T ss_pred cccEEEEeCCCCCCCH---HHHHHHHHhcCCCceEEEEeecCeEEE--EeCCHHHHHHHHHH
Confidence 4588999999998554 456777777668899998877665432 23344445555543
No 20
>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=52.60 E-value=17 Score=37.38 Aligned_cols=36 Identities=19% Similarity=0.117 Sum_probs=26.4
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
||+|.|.|||.+.++ +.|.++|... |.|.++.++.+
T Consensus 2 s~vv~V~nLp~~~te---~~L~~~f~~f--G~V~~v~i~~~ 37 (481)
T TIGR01649 2 SPVVHVRNLPQDVVE---ADLVEALIPF--GPVSYVMMLPG 37 (481)
T ss_pred ccEEEEcCCCCCCCH---HHHHHHHHhc--CCeeEEEEECC
Confidence 689999999998654 3456666654 67888877653
No 21
>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=52.18 E-value=13 Score=31.56 Aligned_cols=20 Identities=15% Similarity=0.336 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 018945 12 TINILSAFAFLSAFAILRIQ 31 (348)
Q Consensus 12 ~i~~~i~~~~lllF~~LR~~ 31 (348)
+++.+|+.+++++||+.|++
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 34556777788888888875
No 22
>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=49.68 E-value=22 Score=35.27 Aligned_cols=38 Identities=11% Similarity=0.288 Sum_probs=26.9
Q ss_pred ccceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 238 YTTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 238 is~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
+.+.+|.|.|||...++ +.|+++|.+. |.|.++.+.+|
T Consensus 191 ~~~~~lfV~nLp~~vte---e~L~~~F~~f--G~V~~v~i~~d 228 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITD---DQLDTIFGKY--GQIVQKNILRD 228 (346)
T ss_pred cccceeEEeCCCCcccH---HHHHHHHHhc--CCEEEEEEeec
Confidence 45678999999998553 3456677654 56777777655
No 23
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=43.45 E-value=30 Score=36.18 Aligned_cols=54 Identities=15% Similarity=0.168 Sum_probs=35.3
Q ss_pred EEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcChhhHHH------HHHHHHHHHHHHHH
Q 018945 242 EVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSE------LVNKKKKMQNWLDF 300 (348)
Q Consensus 242 TVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~------L~~~r~~~~~~LE~ 300 (348)
||.|.|+|.+.++ +.|.++|... |.|.+|.+++|-..=.. .+...+.+.+.++.
T Consensus 2 sl~VgnLp~~vte---~~L~~~F~~~--G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ 61 (562)
T TIGR01628 2 SLYVGDLDPDVTE---AKLYDLFKPF--GPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALET 61 (562)
T ss_pred eEEEeCCCCCCCH---HHHHHHHHhc--CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHH
Confidence 5899999998654 3567788766 67899999887541111 13445555555554
No 24
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=39.05 E-value=23 Score=38.68 Aligned_cols=57 Identities=12% Similarity=0.230 Sum_probs=33.7
Q ss_pred cccceEEEEecCCCCC-ChhHHHHHHhhhcccCCCceeEEEEEcChhhHHHHHHHHHHHHHHHH
Q 018945 237 EYTTREVLVRNVPPDP-DESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKMQNWLD 299 (348)
Q Consensus 237 ~is~rTVlV~~IP~~~-~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~L~~~r~~~~~~LE 299 (348)
+|.|||+.|-+||+.. +..|+..||+| |.|.++.++.+.+----.+..|+.|-+.|.
T Consensus 418 sV~SrTLwvG~i~k~v~e~dL~~~feef------GeiqSi~li~~R~cAfI~M~~RqdA~kalq 475 (894)
T KOG0132|consen 418 SVCSRTLWVGGIPKNVTEQDLANLFEEF------GEIQSIILIPPRGCAFIKMVRRQDAEKALQ 475 (894)
T ss_pred eEeeeeeeeccccchhhHHHHHHHHHhc------ccceeEeeccCCceeEEEEeehhHHHHHHH
Confidence 7889999999999984 45566655554 456666554433322222334444443333
No 25
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=38.18 E-value=32 Score=35.07 Aligned_cols=39 Identities=15% Similarity=0.274 Sum_probs=30.9
Q ss_pred cccceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 237 EYTTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 237 ~is~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
++.+|||++.|+|.+-. .+.|+++|... |+|.++.||.-
T Consensus 228 el~srtivaenLP~Dh~---~enl~kiFg~~--G~IksIRIckP 266 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHS---YENLSKIFGTV--GSIKSIRICKP 266 (484)
T ss_pred ccccceEEEecCCcchH---HHHHHHHhhcc--cceeeeeecCC
Confidence 46799999999999621 25688899865 88888988875
No 26
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=35.73 E-value=52 Score=29.05 Aligned_cols=36 Identities=19% Similarity=0.267 Sum_probs=25.0
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
.+||.|.|+|.+..+ +.|.++|... |.|..+.+..|
T Consensus 115 ~~~l~v~nL~~~~~~---~~l~~~F~~~--g~~~~~~~~~d 150 (306)
T COG0724 115 NNTLFVGNLPYDVTE---EDLRELFKKF--GPVKRVRLVRD 150 (306)
T ss_pred CceEEEeCCCCCCCH---HHHHHHHHhc--CceeEEEeeec
Confidence 589999999998553 3566677665 44566666555
No 27
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=33.68 E-value=30 Score=30.17 Aligned_cols=21 Identities=33% Similarity=0.607 Sum_probs=18.6
Q ss_pred ccHHHHHHHHHHHHHHHhccc
Q 018945 327 VDAIDFYTSKIETLKKEVSGF 347 (348)
Q Consensus 327 VDaidy~~~~l~~l~~~i~~~ 347 (348)
-||.|||.+|++.|+++|+.+
T Consensus 100 e~akdyfkRKve~l~kq~e~i 120 (153)
T KOG3048|consen 100 EDAKDYFKRKVEYLTKQIEQI 120 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 389999999999999998764
No 28
>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=32.84 E-value=53 Score=35.03 Aligned_cols=38 Identities=18% Similarity=0.192 Sum_probs=28.1
Q ss_pred cceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 239 TTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 239 s~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
...+|+|.|||.+.++ +.|.++|... |.|.++.+++|.
T Consensus 57 ~~~~lFVgnLp~~~tE---d~L~~~F~~~--G~I~~vrl~~D~ 94 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYE---DELVPLFEKA--GPIYELRLMMDF 94 (578)
T ss_pred CCCEEEeCCCCCCCCH---HHHHHHHHhh--CCEEEEEEEECC
Confidence 4578999999998654 3456677665 668888887774
No 29
>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=31.08 E-value=1.2e+02 Score=20.46 Aligned_cols=28 Identities=14% Similarity=0.017 Sum_probs=19.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHcCC
Q 018945 4 LGDIGVAATINILSAFAFLSAFAILRIQ 31 (348)
Q Consensus 4 ~~~~~~sl~i~~~i~~~~lllF~~LR~~ 31 (348)
.-++.+++.+.+++-+++++.|.+.|+|
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk 32 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKK 32 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4456677777777777777777788876
No 30
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=30.52 E-value=36 Score=34.97 Aligned_cols=55 Identities=9% Similarity=0.071 Sum_probs=38.1
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcChhhHHHHHHHHHHHHHHHHHH
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKMQNWLDFY 301 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~L~~~r~~~~~~LE~~ 301 (348)
-+.+.|+|||..+.+ +.|++.|.+. |+|++|...+|+.=+. +.+|+.+++.++..
T Consensus 259 VKvLYVRNL~~~tTe---E~lk~~F~~~--G~veRVkk~rDYaFVH--f~eR~davkAm~~~ 313 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTE---ETLKKLFNEF--GKVERVKKPRDYAFVH--FAEREDAVKAMKET 313 (506)
T ss_pred eeeeeeeccchhhhH---HHHHHHHHhc--cceEEeecccceeEEe--ecchHHHHHHHHHh
Confidence 366899999998543 3456666654 8899988877765432 46677777776653
No 31
>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=30.49 E-value=66 Score=32.43 Aligned_cols=36 Identities=17% Similarity=0.081 Sum_probs=25.8
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
.++|+|.|+|....+ +.|+++|... |.|.++.+.++
T Consensus 186 ~~~l~v~nl~~~~te---~~l~~~f~~~--G~i~~v~~~~d 221 (457)
T TIGR01622 186 FLKLYVGNLHFNITE---QELRQIFEPF--GDIEDVQLHRD 221 (457)
T ss_pred CCEEEEcCCCCCCCH---HHHHHHHHhc--CCeEEEEEEEc
Confidence 588999999998543 3456677654 66777777654
No 32
>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=28.14 E-value=85 Score=25.13 Aligned_cols=33 Identities=18% Similarity=0.224 Sum_probs=21.4
Q ss_pred EEEEecCCCCCC-hhHHHHHHhhhcccCCCceeEE
Q 018945 242 EVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTH 275 (348)
Q Consensus 242 TVlV~~IP~~~~-~~l~~~l~~~f~~~~p~~v~~v 275 (348)
.++|.|+|.+.| ..++..|+++.++. -|.|.++
T Consensus 4 ~L~V~NLP~~~d~~~I~~RL~qLsdNC-GGkVl~v 37 (90)
T PF11608_consen 4 LLYVSNLPTNKDPSSIKNRLRQLSDNC-GGKVLSV 37 (90)
T ss_dssp EEEEES--TTS-HHHHHHHHHHHHHTT-T--EEE-
T ss_pred EEEEecCCCCCCHHHHHHHHHHHhhcc-CCEEEEE
Confidence 489999999754 57788899998877 3677664
No 33
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=27.64 E-value=64 Score=31.96 Aligned_cols=36 Identities=17% Similarity=0.235 Sum_probs=25.5
Q ss_pred ceEEEEecCCCCCC-hhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 240 TREVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 240 ~rTVlV~~IP~~~~-~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
.+-+.|+|||=+.+ -+| +.+|++. |.|.+|.|+.|-
T Consensus 96 pkRLhVSNIPFrFRdpDL----~aMF~kf--G~VldVEIIfNE 132 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDL----RAMFEKF--GKVLDVEIIFNE 132 (376)
T ss_pred CceeEeecCCccccCccH----HHHHHhh--CceeeEEEEecc
Confidence 46699999999854 345 4455554 678899887654
No 34
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=27.22 E-value=98 Score=23.05 Aligned_cols=41 Identities=17% Similarity=0.218 Sum_probs=29.7
Q ss_pred eEEEEecCCCCCChhHHHHHHhhhcccCCCcee-----EEEEEcCh
Q 018945 241 REVLVRNVPPDPDESVTQLVEHFFLVNHPDHYL-----THQVVNNA 281 (348)
Q Consensus 241 rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~-----~v~v~~d~ 281 (348)
.+|.|+|+..-+.+.++.++.+||....|..|+ ++.++...
T Consensus 6 eavhirGvd~lsT~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d 51 (62)
T PF10309_consen 6 EAVHIRGVDELSTDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKD 51 (62)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHhcccCCCceEEEecCCcEEEEECC
Confidence 458999998877777889999997766676663 45555443
No 35
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=26.37 E-value=87 Score=26.49 Aligned_cols=41 Identities=20% Similarity=0.324 Sum_probs=27.8
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcChhhHHHHHH
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVN 289 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~~~L~~L~~ 289 (348)
..||+| +|+-++ ++.+||+. ||+|.++..+..+.+=+.|+.
T Consensus 5 ~QtVqV--lPPYTn-----KLSDYfeS--PGKI~svItvtqypdndal~~ 45 (145)
T TIGR02542 5 NQTVQV--LPPYTN-----KLSDYFES--PGKIQSVITVTQYPDNDALLY 45 (145)
T ss_pred ccceEe--cCCccc-----hhhHHhcC--CCceEEEEEEeccCCchhhhe
Confidence 445655 788654 35778874 999999877776666555553
No 36
>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=26.31 E-value=53 Score=27.62 Aligned_cols=14 Identities=21% Similarity=0.187 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHcC
Q 018945 17 SAFAFLSAFAILRI 30 (348)
Q Consensus 17 i~~~~lllF~~LR~ 30 (348)
+++++|++|++.++
T Consensus 11 ~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 11 AILLFLFLFYCHNR 24 (130)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333434444433
No 37
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=24.48 E-value=91 Score=33.51 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=26.8
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcCh
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 281 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d~ 281 (348)
.++|.|.|||.+.++ +.|+++|... |.|.++.+.+|.
T Consensus 204 ~~rLfVgnLp~~vte---edLk~lFs~F--G~I~svrl~~D~ 240 (612)
T TIGR01645 204 FNRIYVASVHPDLSE---TDIKSVFEAF--GEIVKCQLARAP 240 (612)
T ss_pred cceEEeecCCCCCCH---HHHHHHHhhc--CCeeEEEEEecC
Confidence 468999999998554 3456666654 678888887764
No 38
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=24.40 E-value=97 Score=31.64 Aligned_cols=27 Identities=22% Similarity=0.605 Sum_probs=19.8
Q ss_pred cceEEEEecCCCCC-ChhHHHHHHhhhc
Q 018945 239 TTREVLVRNVPPDP-DESVTQLVEHFFL 265 (348)
Q Consensus 239 s~rTVlV~~IP~~~-~~~l~~~l~~~f~ 265 (348)
.+|||.|.|||... ++.|.+.|.+++.
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~ 201 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMI 201 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHH
Confidence 46899999999984 4566666666543
No 39
>PF15179 Myc_target_1: Myc target protein 1
Probab=24.10 E-value=1.2e+02 Score=27.68 Aligned_cols=26 Identities=12% Similarity=0.146 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHcCC
Q 018945 6 DIGVAATINILSAFAFLSAFAILRIQ 31 (348)
Q Consensus 6 ~~~~sl~i~~~i~~~~lllF~~LR~~ 31 (348)
+|-++++|.++||+++.++|.+|-+|
T Consensus 24 aF~vSm~iGLviG~li~~LltwlSRR 49 (197)
T PF15179_consen 24 AFCVSMAIGLVIGALIWALLTWLSRR 49 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45566777777888888888777655
No 40
>smart00360 RRM RNA recognition motif.
Probab=23.85 E-value=84 Score=21.25 Aligned_cols=31 Identities=26% Similarity=0.423 Sum_probs=17.3
Q ss_pred EecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 245 VRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 245 V~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
|.|+|....+ +.+.++|... |.|..+.+..+
T Consensus 1 i~~l~~~~~~---~~l~~~f~~~--g~v~~~~i~~~ 31 (71)
T smart00360 1 VGNLPPDVTE---EELRELFSKF--GKIESVRLVRD 31 (71)
T ss_pred CCCCCcccCH---HHHHHHHHhh--CCEeEEEEEeC
Confidence 4678887432 2345555543 45666666554
No 41
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=23.80 E-value=1e+02 Score=31.50 Aligned_cols=37 Identities=8% Similarity=0.227 Sum_probs=24.1
Q ss_pred cceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 239 TTREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 239 s~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
..++|+|.|||...++ +.|+++|... |.|..+.++.+
T Consensus 294 ~~~~l~v~nlp~~~~~---~~l~~~f~~~--G~i~~~~~~~~ 330 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGE---DQIKELLESF--GDLKAFNLIKD 330 (509)
T ss_pred CCCEEEEeCCCCCCCH---HHHHHHHHhc--CCeeEEEEEec
Confidence 3588999999998543 2445555544 45666666554
No 42
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=23.75 E-value=56 Score=28.92 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHhhheeee
Q 018945 99 LRIYLIGLKIFIPIACLGFAVMVP 122 (348)
Q Consensus 99 Lrflr~~~~~f~~~~~~~~~ILlP 122 (348)
-|++++++++..+++++++.+|.-
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v 52 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVV 52 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 799999999999998888776653
No 43
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=23.15 E-value=93 Score=32.92 Aligned_cols=33 Identities=27% Similarity=0.359 Sum_probs=20.9
Q ss_pred eEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEE
Q 018945 241 REVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVV 278 (348)
Q Consensus 241 rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~ 278 (348)
+||+|+|+|-+..+ +.|.++|..+ |.|..+.+|
T Consensus 293 ~tVFvRNL~fD~tE---Eel~~~fskF--G~v~ya~iV 325 (678)
T KOG0127|consen 293 KTVFVRNLPFDTTE---EELKEHFSKF--GEVKYAIIV 325 (678)
T ss_pred ceEEEecCCccccH---HHHHHHHHhh--ccceeEEEE
Confidence 89999999998543 3445555544 444454444
No 44
>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=21.75 E-value=1.1e+02 Score=31.86 Aligned_cols=36 Identities=17% Similarity=0.324 Sum_probs=25.1
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
.++|.|.|+|.+.++ +.|+++|... |.|+++.+.++
T Consensus 178 ~~~l~V~nl~~~~te---e~L~~~F~~f--G~i~~~~i~~~ 213 (562)
T TIGR01628 178 FTNLYVKNLDPSVNE---DKLRELFAKF--GEITSAAVMKD 213 (562)
T ss_pred CCeEEEeCCCCcCCH---HHHHHHHHhc--CCEEEEEEEEC
Confidence 467999999998553 3456666654 56777777655
No 45
>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=21.27 E-value=1.2e+02 Score=32.61 Aligned_cols=36 Identities=11% Similarity=0.027 Sum_probs=27.2
Q ss_pred ceEEEEecCCCCCChhHHHHHHhhhcccCCCceeEEEEEcC
Q 018945 240 TREVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 280 (348)
Q Consensus 240 ~rTVlV~~IP~~~~~~l~~~l~~~f~~~~p~~v~~v~v~~d 280 (348)
.++|.|.|||.+.++ +.|+++|... |.|.++.+..|
T Consensus 107 ~~rLfVGnLp~~~tE---e~Lr~lF~~f--G~I~sV~I~~D 142 (612)
T TIGR01645 107 MCRVYVGSISFELRE---DTIRRAFDPF--GPIKSINMSWD 142 (612)
T ss_pred CCEEEEcCCCCCCCH---HHHHHHHHcc--CCEEEEEEeec
Confidence 467999999998654 3567777765 66888888765
Done!