Query 021948
Match_columns 305
No_of_seqs 148 out of 808
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 06:52:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021948.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021948hhsearch_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 4.8E-49 1E-53 387.4 17.9 283 3-304 20-347 (827)
2 KOG1134 Uncharacterized conser 100.0 2.1E-46 4.5E-51 377.5 18.7 292 1-303 1-294 (728)
3 PF13967 RSN1_TM: Late exocyto 100.0 2.3E-40 5E-45 278.4 12.6 156 6-176 1-157 (157)
4 PF14703 DUF4463: Domain of un 99.5 9.1E-15 2E-19 110.2 6.0 65 234-298 1-85 (85)
5 PF07292 NID: Nmi/IFP 35 domai 84.6 0.26 5.7E-06 37.1 -0.2 31 194-224 49-80 (88)
6 PLN03121 nucleic acid binding 84.5 1.6 3.5E-05 39.0 4.6 39 195-238 3-41 (243)
7 PF04059 RRM_2: RNA recognitio 81.9 2.1 4.5E-05 32.9 3.8 38 198-239 2-40 (97)
8 PLN03120 nucleic acid binding 80.2 2.3 5E-05 38.5 4.0 37 197-238 4-40 (260)
9 PF14259 RRM_6: RNA recognitio 77.9 4.3 9.3E-05 28.1 4.2 33 200-237 1-33 (70)
10 PF00076 RRM_1: RNA recognitio 76.3 3.6 7.7E-05 28.1 3.3 33 200-237 1-33 (70)
11 PLN03134 glycine-rich RNA-bind 73.6 6.2 0.00013 32.4 4.5 38 196-238 33-70 (144)
12 smart00362 RRM_2 RNA recogniti 70.3 6.2 0.00013 26.4 3.3 34 199-237 1-34 (72)
13 TIGR01659 sex-lethal sex-letha 69.8 7.3 0.00016 36.9 4.7 41 194-239 104-144 (346)
14 TIGR01661 ELAV_HUD_SF ELAV/HuD 69.4 6.4 0.00014 36.7 4.3 37 197-238 3-39 (352)
15 KOG0117 Heterogeneous nuclear 67.7 3.1 6.7E-05 40.2 1.7 54 198-258 260-313 (506)
16 KOG0122 Translation initiation 66.5 7.2 0.00016 34.9 3.6 58 196-258 188-251 (270)
17 cd00590 RRM RRM (RNA recogniti 66.1 8.7 0.00019 25.8 3.4 35 199-238 1-35 (74)
18 TIGR01661 ELAV_HUD_SF ELAV/HuD 65.6 7.9 0.00017 36.1 4.0 36 198-238 270-305 (352)
19 PF01102 Glycophorin_A: Glycop 63.7 7.1 0.00015 31.3 2.8 20 12-31 73-92 (122)
20 TIGR01648 hnRNP-R-Q heterogene 60.9 13 0.00028 37.8 4.7 56 196-256 232-287 (578)
21 TIGR01622 SF-CC1 splicing fact 54.2 16 0.00035 35.5 4.1 37 196-237 88-124 (457)
22 PF11608 Limkain-b1: Limkain b 53.8 18 0.00038 27.2 3.2 33 199-232 4-37 (90)
23 TIGR01628 PABP-1234 polyadenyl 49.9 19 0.00041 36.2 3.9 36 199-239 2-37 (562)
24 TIGR01659 sex-lethal sex-letha 48.7 22 0.00048 33.6 4.0 39 195-238 191-229 (346)
25 TIGR01649 hnRNP-L_PTB hnRNP-L/ 43.2 28 0.00062 34.3 3.9 36 197-237 2-37 (481)
26 PLN02999 photosystem II oxygen 42.9 43 0.00093 28.6 4.3 43 174-222 112-154 (190)
27 KOG2150 CCR4-NOT transcription 41.7 45 0.00098 33.5 4.9 66 235-304 67-141 (575)
28 PF02439 Adeno_E3_CR2: Adenovi 38.6 90 0.002 19.6 4.2 28 4-31 5-32 (38)
29 CHL00190 psaM photosystem I su 37.8 57 0.0012 19.4 3.0 21 1-21 1-21 (30)
30 TIGR01648 hnRNP-R-Q heterogene 36.9 41 0.00089 34.2 3.9 39 196-239 57-95 (578)
31 KOG3048 Molecular chaperone Pr 36.4 25 0.00055 28.8 1.9 20 285-304 101-120 (153)
32 COG0724 RNA-binding proteins ( 36.3 45 0.00098 28.6 3.8 37 197-238 115-151 (306)
33 PF05393 Hum_adeno_E3A: Human 35.8 59 0.0013 24.4 3.6 40 7-46 33-74 (94)
34 PF10912 DUF2700: Protein of u 34.7 44 0.00095 27.4 3.1 63 119-181 75-137 (143)
35 PF10309 DUF2414: Protein of u 33.2 1.1E+02 0.0024 21.4 4.5 43 197-239 5-52 (62)
36 TIGR01622 SF-CC1 splicing fact 33.1 56 0.0012 31.7 4.2 39 195-238 184-222 (457)
37 PF12273 RCR: Chitin synthesis 32.9 38 0.00083 27.1 2.5 16 15-30 9-24 (130)
38 PF14654 Epiglycanin_C: Mucin, 32.2 96 0.0021 23.8 4.3 28 4-31 18-45 (106)
39 cd00584 Prefoldin_alpha Prefol 32.0 68 0.0015 25.4 3.8 22 283-304 85-106 (129)
40 PF15179 Myc_target_1: Myc tar 31.1 83 0.0018 27.0 4.2 27 5-31 23-49 (197)
41 TIGR01645 half-pint poly-U bin 29.5 63 0.0014 33.1 3.8 38 196-238 203-240 (612)
42 smart00360 RRM RNA recognition 28.5 54 0.0012 21.3 2.3 31 202-237 1-31 (71)
43 PHA02673 ORF109 EEV glycoprote 27.5 38 0.00083 28.3 1.6 24 99-122 29-52 (161)
44 KOG0125 Ataxin 2-binding prote 27.5 57 0.0012 30.6 2.9 37 197-239 96-133 (376)
45 PRK03814 oxaloacetate decarbox 26.3 1.3E+02 0.0028 22.5 4.1 19 1-19 1-19 (85)
46 KOG0131 Splicing factor 3b, su 26.1 46 0.001 28.6 1.9 39 195-238 7-45 (203)
47 PF15050 SCIMP: SCIMP protein 24.5 1.2E+02 0.0025 24.3 3.7 17 15-31 18-34 (133)
48 TIGR01649 hnRNP-L_PTB hnRNP-L/ 24.2 1.1E+02 0.0023 30.3 4.4 37 196-237 274-311 (481)
49 PF11365 DUF3166: Protein of u 23.3 3.4E+02 0.0075 20.7 6.1 61 239-305 22-82 (96)
50 PF04065 Not3: Not1 N-terminal 23.1 1.3E+02 0.0028 26.9 4.3 66 236-304 68-141 (233)
51 PF01034 Syndecan: Syndecan do 22.8 30 0.00066 24.4 0.2 23 14-36 20-42 (64)
52 PF02532 PsbI: Photosystem II 22.6 1.6E+02 0.0036 18.1 3.3 19 154-172 5-23 (36)
53 TIGR01642 U2AF_lg U2 snRNP aux 22.5 1E+02 0.0023 30.2 4.0 36 197-237 295-330 (509)
54 TIGR01645 half-pint poly-U bin 22.4 1.1E+02 0.0023 31.5 4.0 38 196-238 106-143 (612)
55 KOG1855 Predicted RNA-binding 22.0 90 0.002 30.4 3.2 37 196-237 230-266 (484)
56 TIGR01642 U2AF_lg U2 snRNP aux 21.6 1.5E+02 0.0033 29.1 4.9 29 193-221 171-200 (509)
57 TIGR01628 PABP-1234 polyadenyl 21.0 1.6E+02 0.0034 29.6 4.9 39 195-238 283-321 (562)
58 PF06698 DUF1192: Protein of u 20.8 1.2E+02 0.0027 20.9 2.9 24 280-303 14-39 (59)
59 COG4980 GvpP Gas vesicle prote 20.6 1.3E+02 0.0029 23.7 3.4 25 1-25 1-25 (115)
60 KOG4206 Spliceosomal protein s 20.5 1.5E+02 0.0032 26.3 4.0 35 198-234 10-45 (221)
61 PF07243 Phlebovirus_G1: Phleb 20.5 35 0.00075 34.0 0.1 25 6-30 418-442 (526)
62 KOG0132 RNA polymerase II C-te 20.1 84 0.0018 32.9 2.7 35 195-235 419-454 (894)
No 1
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=100.00 E-value=4.8e-49 Score=387.35 Aligned_cols=283 Identities=24% Similarity=0.410 Sum_probs=242.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceecccccccCCC-CCCCCCCcccccccccccccccccccchHhhcC
Q 021948 3 TLGDIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKGLR-SSPLQTGTLVSKFVNLDFRSYLRFLSWMPAALQ 81 (305)
Q Consensus 3 ~~~~~~t~l~~~~~i~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~-~~p~~~~~~~~~~~~l~~~~~~~~f~Wi~~~~~ 81 (305)
+.++++|++.++..++++++++|++||+| ++++|+||+..++.. +.|. +.++|+|||+.++++
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 57899999999999999999999999975 999999999877543 3332 367899999999999
Q ss_pred CChhHHHHhcCchHHHHHHHHHHHHHHHHHHHHhhheeeeeeeeeCCcccCCC-CCCCCcccccccCCCCCCchHHHHHH
Q 021948 82 MPEPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSK-LKYSNIDLLSISNVPLGSNRFWTHLV 160 (305)
Q Consensus 82 ~~d~~i~~~~GlDa~~flrflr~~~~lf~~~~v~~~~iLlPin~~~~~~~~~~-~~~~~l~~~Ti~Nv~~~s~~lw~h~v 160 (305)
++|+.+++++|+|||+||||+|||+.++++.|++++|||+|||++.+..++.+ ...++++++|++|+.+ ++++|+|++
T Consensus 84 i~d~~~l~~aGlD~y~fLrflkm~~~~~~i~sl~~ipIL~Pvn~~~~~~~~gn~~s~s~l~~Ls~~Nv~~-~n~~~aHvf 162 (827)
T COG5594 84 IPDEFLLQYAGLDGYFFLRFLKMLIKLLFILSLILIPILLPVNYHFQKATNGNSDSESGLDKLSISNVSP-SNRLYAHVF 162 (827)
T ss_pred CCHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHhHEeeeeeecccccccCCccchhhhhHhhhhcccC-CCceeeeee
Confidence 99999999999999999999999999999999999999999998885543221 2568999999999986 799999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCC---------CCcceEEEEecCCCCCchhHHHHHHHhccccCCCccee
Q 021948 161 MAYVFTFWTCYVLKREYEIVAAMRLHFLASEHR---------RPDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLT 231 (305)
Q Consensus 161 ~~~l~~~~~~~~l~~e~~~~~~~R~~~l~~~~~---------~~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~ 231 (305)
..|++.++++|.+++|++.|..+||++++++.. ..++||++++++|.+..+ .+.+..+|+++.-+.+.+
T Consensus 163 ~~~~f~~~vlfii~~el~~y~~lr~a~~~~p~y~qs~~~~~~~~ssRTvlis~LP~~~~~--~e~L~~~~~kl~~~~i~~ 240 (827)
T COG5594 163 LSWFFFGYVLFIIFRELRFYVVLRQAYLRSPLYQQSLLTLQNNLSSRTVLISGLPSELRS--DEELKELFDKLKVGEIDS 240 (827)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHhhccCCCCceEEeecCChhhcC--chhHHHHHhhcCeeeecc
Confidence 999999999999999999999999999999852 348899999999997432 133666777777777777
Q ss_pred EEeEcccchHHHHHHHHHHHHHHHHHHHhh-------h-----cc--------------------CCCCCCccccCCc--
Q 021948 232 HQVVNNANKLSELVNKKKKMQNWLDFYQLK-------Y-----SR--------------------NPARKPSTKTGFL-- 277 (305)
Q Consensus 232 v~i~~d~~~L~~L~~~r~~~~~~Le~~~~k-------~-----~~--------------------~~~~rP~~r~~~~-- 277 (305)
..+|||.+.|++++.+|++..+++|.+.++ . .+ +.++||+||.+-.
T Consensus 241 ~~l~~~~~~l~~l~k~R~ki~~klE~~~~~~~~~~~K~~~~~~~K~~~~L~~~~~k~~~~~~~y~~~~~Rp~~~i~k~~~ 320 (827)
T COG5594 241 DVLCRDLGTLQELYKERDKILKKLEKALNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEILPEYVPDKKRPKHRIKKLNK 320 (827)
T ss_pred chhhhhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHhhccCCCCCCCcccccchhhhhhccccccchhhhhhhhh
Confidence 889999999999999999999999965321 1 01 1246999998755
Q ss_pred CCCCCcccHHHHHHHHHHHHHHhhccc
Q 021948 278 GLWGKTVDAIDFYTSKIETLKKEVSGF 304 (305)
Q Consensus 278 ~~~g~kvDai~yy~~~l~~l~~~i~~~ 304 (305)
+++||||||||||++++++++++|++.
T Consensus 321 ~i~gKkVdaI~y~s~~l~~l~~~i~~~ 347 (827)
T COG5594 321 GIFGKKVDAIDYYSAKLTKLDAEIENA 347 (827)
T ss_pred hhccceecHHHHHHHHHHHHHHHHHHH
Confidence 678999999999999999999999864
No 2
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=2.1e-46 Score=377.50 Aligned_cols=292 Identities=46% Similarity=0.804 Sum_probs=250.9
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceecccccccCCCCCCCCCCccccccccccccccccc-ccchHhh
Q 021948 1 MATLGDIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKGLRSSPLQTGTLVSKFVNLDFRSYLRF-LSWMPAA 79 (305)
Q Consensus 1 ~~~~~~~~t~l~~~~~i~~~~l~lF~~lR~~~~~~~iY~pr~~~~~~~~~p~~~~~~~~~~~~l~~~~~~~~-f~Wi~~~ 79 (305)
|++.+++..+-.++...+..++.+|.+++.++++.++|.|+++..+.+..|..... ...+++. |+|++++
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 55666666666777777777888888888888999999999998876644443211 1235566 9999999
Q ss_pred cCCChhHHHHhcCchHHHHHHHHHHHHHHHHHHHHhhheeeeeeeeeCCcccCCCCCCCCcccccccCCCCCCchHHHHH
Q 021948 80 LQMPEPELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRFWTHL 159 (305)
Q Consensus 80 ~~~~d~~i~~~~GlDa~~flrflr~~~~lf~~~~v~~~~iLlPin~~~~~~~~~~~~~~~l~~~Ti~Nv~~~s~~lw~h~ 159 (305)
++++|+|+++++|+||++||||+++++++|+++|+++++||+|+|+++++.+..+ ...++++|++|++.+++++|+|+
T Consensus 72 ~k~~~~ei~~~~GlDa~~~L~~~~~~~~lf~~~~~l~~~illPVn~~~~~~~~~~--~~s~~~ls~snv~~~s~~lw~Hv 149 (728)
T KOG1134|consen 72 LKIPDEEILEHAGLDAYVFLRFLKLGIKLFAVLSLLSVPILLPVNWTNGNLELGN--EDSLDKLSISNVQPGSSLLWAHV 149 (728)
T ss_pred hcCCHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhheEEeeEEEecCcccccc--cchhhhhhheeccCCCCCEEEEe
Confidence 9999999999999999999999999999999999999999999999999885432 12799999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccc
Q 021948 160 VMAYVFTFWTCYVLKREYEIVAAMRLHFLASEHRRPDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNAN 239 (305)
Q Consensus 160 v~~~l~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~ 239 (305)
+++|++++++++++++|+++++.+|++++.++...+++.|++++++|.....+.....+++|+..+|+++.++.+++|..
T Consensus 150 ~~~y~~~~~~~~~l~~e~~~~~~~R~~~l~~~~~~~~~~s~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~ 229 (728)
T KOG1134|consen 150 FFTYLFTFFTLFILYREYKHVASIRQAYLASPKYRPDQSSVLVRNVPPPDGVSVSVIVRHFFSLNHPVKVRSHQVVYNES 229 (728)
T ss_pred ehhHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcCccccchhhhcccCCCCCchhhHHhhhhhccCCceeehhHHHhhHH
Confidence 99999999999999999999999999999999989999999999999654445567888888888999999999999999
Q ss_pred hHHHHHHHHHHHHHHHH-HHHhhhccCCCCCCccccCCcCCCCCcccHHHHHHHHHHHHHHhhcc
Q 021948 240 KLSELVNKKKKMQNWLD-FYQLKYSRNPARKPSTKTGFLGLWGKTVDAIDFYTSKIETLKKEVSG 303 (305)
Q Consensus 240 ~L~~L~~~r~~~~~~Le-~~~~k~~~~~~~rP~~r~~~~~~~g~kvDai~yy~~~l~~l~~~i~~ 303 (305)
+|.++++++++..+... +...+...+..+||++|.|+||++||||||||||++|+++++++|++
T Consensus 230 ~l~~l~~~~~k~~~~~l~~~~~~~~~~~~~rP~~k~~~~~l~gkkvdai~yy~~kl~~l~~~i~~ 294 (728)
T KOG1134|consen 230 KLSKLLSKLKKLRENKLYKEHKRLKSNPKKRPKRKLGFCGLFGKKVDAIDYYSEKLQELSEDIEE 294 (728)
T ss_pred HHHHHHHHHHHHhHHHHHHhhhhhccccccCCcceeeeeeeecceecHHHHHHHHHHHHHHHHHH
Confidence 99999999999954444 44444444545899999999999999999999999999999999875
No 3
>PF13967 RSN1_TM: Late exocytosis, associated with Golgi transport
Probab=100.00 E-value=2.3e-40 Score=278.42 Aligned_cols=156 Identities=35% Similarity=0.647 Sum_probs=138.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceecccccccC-CCCCCCCCCcccccccccccccccccccchHhhcCCCh
Q 021948 6 DIGVAATINILSAFAFLSAFAILRIQPINDRVYFPKWYLKG-LRSSPLQTGTLVSKFVNLDFRSYLRFLSWMPAALQMPE 84 (305)
Q Consensus 6 ~~~t~l~~~~~i~~~~l~lF~~lR~~~~~~~iY~pr~~~~~-~~~~p~~~~~~~~~~~~l~~~~~~~~f~Wi~~~~~~~d 84 (305)
+|.+++++|++++++++++|+++|++ ++++|+||.+..+ ....|++ ..++|+|+|++++++++|
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 9999999998763 1111111 134799999999999999
Q ss_pred hHHHHhcCchHHHHHHHHHHHHHHHHHHHHhhheeeeeeeeeCCcccCCCCCCCCcccccccCCCCCCchHHHHHHHHHH
Q 021948 85 PELIDHAGLDSAVYLRIYLIGLKIFIPIACLGFAVMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRFWTHLVMAYV 164 (305)
Q Consensus 85 ~~i~~~~GlDa~~flrflr~~~~lf~~~~v~~~~iLlPin~~~~~~~~~~~~~~~l~~~Ti~Nv~~~s~~lw~h~v~~~l 164 (305)
+|++++||+||++|+||+|+++++|+++++++++||+|+|++|+..+++..+.++++++|++|++++++++|+|++++|+
T Consensus 66 ~~i~~~~GlDa~~flrflr~~~~~f~~~~i~~~~vLlPi~~~~~~~~~~~~~~~~l~~~tisnv~~~s~~lw~h~v~~~i 145 (157)
T PF13967_consen 66 DEILRHCGLDAYVFLRFLRMLIKIFLFLSILSLPVLLPINYTGGDDDGDSDNESGLDRLTISNVPKGSSRLWAHVVFAYI 145 (157)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHheeeeEEeCCCCccccccccccccccHHhhcCCCCeehHHHHHHHH
Confidence 99999999999999999999999999999999999999999999875433333899999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 021948 165 FTFWTCYVLKRE 176 (305)
Q Consensus 165 ~~~~~~~~l~~e 176 (305)
+++++++++++|
T Consensus 146 ~~~~~~~~l~~E 157 (157)
T PF13967_consen 146 FTFYVLYLLWRE 157 (157)
T ss_pred HHHHHHhhheeC
Confidence 999999999876
No 4
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=99.54 E-value=9.1e-15 Score=110.17 Aligned_cols=65 Identities=38% Similarity=0.722 Sum_probs=54.7
Q ss_pred eEcccchHHHHHHHHHHHHHHHHHHHhhhccCC-------------------CCCCccccCCcCCCC-CcccHHHHHHHH
Q 021948 234 VVNNANKLSELVNKKKKMQNWLDFYQLKYSRNP-------------------ARKPSTKTGFLGLWG-KTVDAIDFYTSK 293 (305)
Q Consensus 234 i~~d~~~L~~L~~~r~~~~~~Le~~~~k~~~~~-------------------~~rP~~r~~~~~~~g-~kvDai~yy~~~ 293 (305)
||||+++|++|+++|++++++||.+..++.+.+ ..||++|.|++|++| +||||||||++|
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 689999999999999999999998876544321 135667779999998 999999999999
Q ss_pred HHHHH
Q 021948 294 IETLK 298 (305)
Q Consensus 294 l~~l~ 298 (305)
|++||
T Consensus 81 l~~Ln 85 (85)
T PF14703_consen 81 LKELN 85 (85)
T ss_pred HHHhC
Confidence 99985
No 5
>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=84.65 E-value=0.26 Score=37.10 Aligned_cols=31 Identities=29% Similarity=0.314 Sum_probs=23.9
Q ss_pred CCcceEEEEecCCCCCc-hhHHHHHHHhcccc
Q 021948 194 RPDQFTVLVRNVPPDPD-ESVTQLVEHFFLVN 224 (305)
Q Consensus 194 ~~~~~Tvlv~~IP~~~~-~~l~~~l~~~F~~~ 224 (305)
.++.+||+|+|||...+ +.+++.|+=+|++-
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~LeIhFqK~ 80 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLEIHFQKP 80 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEEEEEecC
Confidence 56889999999999654 55677777777653
No 6
>PLN03121 nucleic acid binding protein; Provisional
Probab=84.46 E-value=1.6 Score=38.96 Aligned_cols=39 Identities=23% Similarity=0.365 Sum_probs=31.1
Q ss_pred CcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 195 PDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 195 ~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
+.-+||.|.||+.+.++ +.|++||+.. |.|.++.+.+|-
T Consensus 3 ~~g~TV~V~NLS~~tTE---~dLrefFS~~--G~I~~V~I~~D~ 41 (243)
T PLN03121 3 PGGYTAEVTNLSPKATE---KDVYDFFSHC--GAIEHVEIIRSG 41 (243)
T ss_pred CCceEEEEecCCCCCCH---HHHHHHHHhc--CCeEEEEEecCC
Confidence 34589999999998764 6788888764 678899998873
No 7
>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=81.94 E-value=2.1 Score=32.88 Aligned_cols=38 Identities=24% Similarity=0.385 Sum_probs=25.3
Q ss_pred eEEEEecCCCCCc-hhHHHHHHHhccccCCCcceeEEeEcccc
Q 021948 198 FTVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTHQVVNNAN 239 (305)
Q Consensus 198 ~Tvlv~~IP~~~~-~~l~~~l~~~F~~~~p~~v~~v~i~~d~~ 239 (305)
-|||++|||.+.+ +.|.+.+++.| +|++.=+-++.|.+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~----~g~yDF~YLPiDf~ 40 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHF----KGKYDFFYLPIDFK 40 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhc----cCcceEEEeeeecc
Confidence 4999999999854 56777777765 44443344555543
No 8
>PLN03120 nucleic acid binding protein; Provisional
Probab=80.18 E-value=2.3 Score=38.52 Aligned_cols=37 Identities=22% Similarity=0.214 Sum_probs=29.7
Q ss_pred ceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 197 QFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
.+||.|.|||.+.++ +.|++||+.+ |.|.++.+++|-
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 479999999998664 5678888765 678889888774
No 9
>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=77.94 E-value=4.3 Score=28.13 Aligned_cols=33 Identities=24% Similarity=0.439 Sum_probs=23.6
Q ss_pred EEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 200 VLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 200 vlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
|+|+|||.+.++ +.|.++|+.. |.|.++.+.++
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 5678888775 45777877765
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=76.27 E-value=3.6 Score=28.14 Aligned_cols=33 Identities=30% Similarity=0.480 Sum_probs=22.7
Q ss_pred EEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 200 VLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 200 vlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
|.|.|||.+.++ +.|.++|++. |.+..+.+..+
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 689999998664 5667777664 34556666664
No 11
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=73.58 E-value=6.2 Score=32.40 Aligned_cols=38 Identities=8% Similarity=0.114 Sum_probs=28.7
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
...+|.|.|||.+.++ +.|+++|+.. |.|.++.++.|-
T Consensus 33 ~~~~lfVgnL~~~~te---~~L~~~F~~~--G~I~~v~i~~d~ 70 (144)
T PLN03134 33 MSTKLFIGGLSWGTDD---ASLRDAFAHF--GDVVDAKVIVDR 70 (144)
T ss_pred CCCEEEEeCCCCCCCH---HHHHHHHhcC--CCeEEEEEEecC
Confidence 3568999999998764 5677788764 467788887765
No 12
>smart00362 RRM_2 RNA recognition motif.
Probab=70.31 E-value=6.2 Score=26.40 Aligned_cols=34 Identities=24% Similarity=0.393 Sum_probs=21.5
Q ss_pred EEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 199 TVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 199 Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
||.|.|+|...++ +.+.++|++. |.+.++.+.++
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 6899999997653 4556666554 33555555554
No 13
>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=69.77 E-value=7.3 Score=36.91 Aligned_cols=41 Identities=12% Similarity=0.190 Sum_probs=31.1
Q ss_pred CCcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccc
Q 021948 194 RPDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNAN 239 (305)
Q Consensus 194 ~~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~ 239 (305)
..+..+|.|.+||.+.++ +.|+++|+.. +.|.++.++.|..
T Consensus 104 ~~~~~~LfVgnLp~~~te---~~L~~lF~~~--G~V~~v~i~~d~~ 144 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTD---RELYALFRTI--GPINTCRIMRDYK 144 (346)
T ss_pred CCCCcEEEEeCCCCCCCH---HHHHHHHHhc--CCEEEEEEEecCC
Confidence 456789999999998764 5677788765 4488888887753
No 14
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=69.40 E-value=6.4 Score=36.69 Aligned_cols=37 Identities=11% Similarity=0.248 Sum_probs=29.4
Q ss_pred ceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 197 QFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
..+|+|.|||.+.++ +.|+++|... |.|.++.+++|-
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 359999999998765 5778888875 568888888774
No 15
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=67.73 E-value=3.1 Score=40.22 Aligned_cols=54 Identities=9% Similarity=0.047 Sum_probs=40.0
Q ss_pred eEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccchHHHHHHHHHHHHHHHHHH
Q 021948 198 FTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKMQNWLDFY 258 (305)
Q Consensus 198 ~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~~L~~L~~~r~~~~~~Le~~ 258 (305)
..+.|+|||.++.+ +.|++.|++. |+|++|...+|..=+. +.+|+.+++.++..
T Consensus 260 KvLYVRNL~~~tTe---E~lk~~F~~~--G~veRVkk~rDYaFVH--f~eR~davkAm~~~ 313 (506)
T KOG0117|consen 260 KVLYVRNLMESTTE---ETLKKLFNEF--GKVERVKKPRDYAFVH--FAEREDAVKAMKET 313 (506)
T ss_pred eeeeeeccchhhhH---HHHHHHHHhc--cceEEeecccceeEEe--ecchHHHHHHHHHh
Confidence 57889999998654 5667777665 8899998888866332 56788888877754
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=66.53 E-value=7.2 Score=34.91 Aligned_cols=58 Identities=19% Similarity=0.171 Sum_probs=37.6
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccch-HHH-----HHHHHHHHHHHHHHH
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANK-LSE-----LVNKKKKMQNWLDFY 258 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~~-L~~-----L~~~r~~~~~~Le~~ 258 (305)
...||.|+|+|.+.++ ..|+++|..+ |.|.++.+++|-.. +.+ -++.|+.+.+.++.+
T Consensus 188 D~~tvRvtNLsed~~E---~dL~eLf~~f--g~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~L 251 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMRE---DDLEELFRPF--GPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADL 251 (270)
T ss_pred ccceeEEecCccccCh---hHHHHHhhcc--CccceeEEEEccccCcccceEEEEEecHHHHHHHHHHc
Confidence 4569999999998765 4557777665 44678888877441 221 145566666666543
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=66.10 E-value=8.7 Score=25.78 Aligned_cols=35 Identities=26% Similarity=0.428 Sum_probs=23.1
Q ss_pred EEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 199 TVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 199 Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
+|.|+|+|...++ +.+.++|+.. |.+.++.+..+-
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 5889999997653 4566666554 456666666543
No 18
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=65.64 E-value=7.9 Score=36.10 Aligned_cols=36 Identities=19% Similarity=0.393 Sum_probs=28.1
Q ss_pred eEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 198 FTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 198 ~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
++|.|.|||.+.++ +.|.++|+.. |.|.++.+++|-
T Consensus 270 ~~lfV~NL~~~~~e---~~L~~~F~~f--G~v~~v~i~~d~ 305 (352)
T TIGR01661 270 YCIFVYNLSPDTDE---TVLWQLFGPF--GAVQNVKIIRDL 305 (352)
T ss_pred cEEEEeCCCCCCCH---HHHHHHHHhC--CCeEEEEEeEcC
Confidence 47999999998764 5677788765 568888888774
No 19
>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=63.67 E-value=7.1 Score=31.28 Aligned_cols=20 Identities=15% Similarity=0.336 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHhcC
Q 021948 12 TINILSAFAFLSAFAILRIQ 31 (305)
Q Consensus 12 ~~~~~i~~~~l~lF~~lR~~ 31 (305)
++..+++.+++++|++.|++
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 34556777788889998875
No 20
>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=60.86 E-value=13 Score=37.79 Aligned_cols=56 Identities=14% Similarity=0.190 Sum_probs=38.3
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccchHHHHHHHHHHHHHHHH
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNANKLSELVNKKKKMQNWLD 256 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~~L~~L~~~r~~~~~~Le 256 (305)
..++|.|.|+|.+.++ +.|+++|+...||.|++|.+.++..=+ -++.++.+.+.++
T Consensus 232 ~~k~LfVgNL~~~~te---e~L~~~F~~f~~G~I~rV~~~rgfAFV--eF~s~e~A~kAi~ 287 (578)
T TIGR01648 232 KVKILYVRNLMTTTTE---EIIEKSFSEFKPGKVERVKKIRDYAFV--HFEDREDAVKAMD 287 (578)
T ss_pred cccEEEEeCCCCCCCH---HHHHHHHHhcCCCceEEEEeecCeEEE--EeCCHHHHHHHHH
Confidence 3579999999998664 677888888778899988877765422 1333444444444
No 21
>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=54.22 E-value=16 Score=35.46 Aligned_cols=37 Identities=22% Similarity=0.230 Sum_probs=28.7
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
..+||.|.|||.+.++ +.|.++|+.. |.|.+|.++.|
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 4689999999998664 5577788765 46888888776
No 22
>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=53.77 E-value=18 Score=27.16 Aligned_cols=33 Identities=18% Similarity=0.239 Sum_probs=22.0
Q ss_pred EEEEecCCCCCc-hhHHHHHHHhccccCCCcceeE
Q 021948 199 TVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTH 232 (305)
Q Consensus 199 Tvlv~~IP~~~~-~~l~~~l~~~F~~~~p~~v~~v 232 (305)
.++|.|+|.+.+ ..++..|.+++++. -|.|.++
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 689999999755 56888999998886 6777765
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=49.95 E-value=19 Score=36.17 Aligned_cols=36 Identities=19% Similarity=0.279 Sum_probs=28.9
Q ss_pred EEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccc
Q 021948 199 TVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNAN 239 (305)
Q Consensus 199 Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~ 239 (305)
+|.|.|||.+.++ +.|.++|++. |.|.+|.+++|-.
T Consensus 2 sl~VgnLp~~vte---~~L~~~F~~~--G~v~~v~v~~d~~ 37 (562)
T TIGR01628 2 SLYVGDLDPDVTE---AKLYDLFKPF--GPVLSVRVCRDSV 37 (562)
T ss_pred eEEEeCCCCCCCH---HHHHHHHHhc--CCEEEEEEEecCC
Confidence 7999999998764 5677788776 5688999998865
No 24
>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=48.75 E-value=22 Score=33.64 Aligned_cols=39 Identities=10% Similarity=0.251 Sum_probs=27.6
Q ss_pred CcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 195 PDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 195 ~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
....+|.|.|||.+.++ +.|+++|++. +.|.++.+.+|-
T Consensus 191 ~~~~~lfV~nLp~~vte---e~L~~~F~~f--G~V~~v~i~~d~ 229 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITD---DQLDTIFGKY--GQIVQKNILRDK 229 (346)
T ss_pred cccceeEEeCCCCcccH---HHHHHHHHhc--CCEEEEEEeecC
Confidence 34568999999998664 4567777665 456677777663
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=43.18 E-value=28 Score=34.35 Aligned_cols=36 Identities=19% Similarity=0.096 Sum_probs=26.3
Q ss_pred ceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 197 QFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
++||.|.|||.+.++ +.|.++|+.. |.|.++.++.+
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 579999999998664 4566677654 56777776653
No 26
>PLN02999 photosystem II oxygen-evolving enhancer 3 protein (PsbQ)
Probab=42.95 E-value=43 Score=28.62 Aligned_cols=43 Identities=9% Similarity=0.116 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHccCCCCCcceEEEEecCCCCCchhHHHHHHHhcc
Q 021948 174 KREYEIVAAMRLHFLASEHRRPDQFTVLVRNVPPDPDESVTQLVEHFFL 222 (305)
Q Consensus 174 ~~e~~~~~~~R~~~l~~~~~~~~~~Tvlv~~IP~~~~~~l~~~l~~~F~ 222 (305)
|++-+.++++|..|+.-. -+| .++..|++..+.+++.-.++|+
T Consensus 112 W~YVq~~LRlkasyLryD-----L~t-iIsskP~~eK~~L~~LankLFd 154 (190)
T PLN02999 112 WRYVIFYIRLKQAYLSQD-----LTN-AMNILPESRRNDYVQAANELVE 154 (190)
T ss_pred HHHHHHHHHHHHHHHHHH-----HHH-HHhcCCHhhhHHHHHHHHHHhh
Confidence 567788899999998642 123 3344576554555555455553
No 27
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=41.72 E-value=45 Score=33.53 Aligned_cols=66 Identities=17% Similarity=0.407 Sum_probs=44.3
Q ss_pred EcccchHHHHHHHHHHHHHHHHHHHh--hhccCCCCCCccccCCcCC-------CCCcccHHHHHHHHHHHHHHhhccc
Q 021948 235 VNNANKLSELVNKKKKMQNWLDFYQL--KYSRNPARKPSTKTGFLGL-------WGKTVDAIDFYTSKIETLKKEVSGF 304 (305)
Q Consensus 235 ~~d~~~L~~L~~~r~~~~~~Le~~~~--k~~~~~~~rP~~r~~~~~~-------~g~kvDai~yy~~~l~~l~~~i~~~ 304 (305)
.-|+++=+.|++.|+-+...+|.+.. |..++ ++--+.|+ +. --+|-|.++|..+.|++|+.|++.+
T Consensus 67 s~dIKDK~~L~d~RrlIE~~MErfK~vEke~Kt---Ka~SkegL-~~~~klDPkEkek~d~~~wi~~~ideLe~q~d~~ 141 (575)
T KOG2150|consen 67 SSDIKDKDSLLDNRRLIEQRMERFKAVEKEMKT---KAFSKEGL-SAAEKLDPKEKEKRDTMDWISNQIDELERQVDSF 141 (575)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhc---cccchhhc-cccccCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677778999999999888886542 22222 12222221 11 1257789999999999999999864
No 28
>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=38.59 E-value=90 Score=19.61 Aligned_cols=28 Identities=14% Similarity=0.017 Sum_probs=20.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhcC
Q 021948 4 LGDIGVAATINILSAFAFLSAFAILRIQ 31 (305)
Q Consensus 4 ~~~~~t~l~~~~~i~~~~l~lF~~lR~~ 31 (305)
+-++..+...-+++-.+++..|.+.+||
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk 32 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKK 32 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4456677777777777777777788876
No 29
>CHL00190 psaM photosystem I subunit XII; Provisional
Probab=37.78 E-value=57 Score=19.39 Aligned_cols=21 Identities=14% Similarity=0.108 Sum_probs=15.2
Q ss_pred CcchhhHHHHHHHHHHHHHHH
Q 021948 1 MATLGDIGVAATINILSAFAF 21 (305)
Q Consensus 1 ~~~~~~~~t~l~~~~~i~~~~ 21 (305)
|||.+.+..+|.++++-++..
T Consensus 1 misd~Qi~iAL~~Al~~~iLA 21 (30)
T CHL00190 1 MISDSQIFIALFLALTTGILA 21 (30)
T ss_pred CchHHHHHHHHHHHHHHHHHH
Confidence 788888888887777655543
No 30
>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=36.90 E-value=41 Score=34.23 Aligned_cols=39 Identities=15% Similarity=0.175 Sum_probs=29.6
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcccc
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNAN 239 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~~ 239 (305)
...+|.|.|||.+.++ +.|.++|++. |.|.++.+.+|..
T Consensus 57 ~~~~lFVgnLp~~~tE---d~L~~~F~~~--G~I~~vrl~~D~s 95 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYE---DELVPLFEKA--GPIYELRLMMDFS 95 (578)
T ss_pred CCCEEEeCCCCCCCCH---HHHHHHHHhh--CCEEEEEEEECCC
Confidence 3579999999998765 5667777765 5678888888744
No 31
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=36.35 E-value=25 Score=28.85 Aligned_cols=20 Identities=35% Similarity=0.669 Sum_probs=18.0
Q ss_pred cHHHHHHHHHHHHHHhhccc
Q 021948 285 DAIDFYTSKIETLKKEVSGF 304 (305)
Q Consensus 285 Dai~yy~~~l~~l~~~i~~~ 304 (305)
||.|||..+++.|+++|+.+
T Consensus 101 ~akdyfkRKve~l~kq~e~i 120 (153)
T KOG3048|consen 101 DAKDYFKRKVEYLTKQIEQI 120 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999998753
No 32
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=36.34 E-value=45 Score=28.57 Aligned_cols=37 Identities=22% Similarity=0.236 Sum_probs=26.5
Q ss_pred ceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 197 QFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
.+||.|.|||.+.++ +.|.++|.+.. .+.++.+.+|-
T Consensus 115 ~~~l~v~nL~~~~~~---~~l~~~F~~~g--~~~~~~~~~d~ 151 (306)
T COG0724 115 NNTLFVGNLPYDVTE---EDLRELFKKFG--PVKRVRLVRDR 151 (306)
T ss_pred CceEEEeCCCCCCCH---HHHHHHHHhcC--ceeEEEeeecc
Confidence 489999999998664 56777777653 35567776664
No 33
>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=35.84 E-value=59 Score=24.42 Aligned_cols=40 Identities=10% Similarity=0.049 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHH--HHHhcCCCCCceecccccccC
Q 021948 7 IGVAATINILSAFAFLSAF--AILRIQPINDRVYFPKWYLKG 46 (305)
Q Consensus 7 ~~t~l~~~~~i~~~~l~lF--~~lR~~~~~~~iY~pr~~~~~ 46 (305)
+.-++++=+.+|++.+++| |++.|++.-+.||.|-.-+.+
T Consensus 33 Lgm~~lvI~~iFil~VilwfvCC~kRkrsRrPIYrPvI~~~P 74 (94)
T PF05393_consen 33 LGMWFLVICGIFILLVILWFVCCKKRKRSRRPIYRPVIGLEP 74 (94)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHhhhccCCccccccccCC
Confidence 3334444445555554444 344443445679988876543
No 34
>PF10912 DUF2700: Protein of unknown function (DUF2700); InterPro: IPR024483 This is a family of proteins with unknown function.
Probab=34.67 E-value=44 Score=27.44 Aligned_cols=63 Identities=14% Similarity=0.156 Sum_probs=39.2
Q ss_pred eeeeeeeeCCcccCCCCCCCCcccccccCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021948 119 VMVPVNWTNKTLEHSKLKYSNIDLLSISNVPLGSNRFWTHLVMAYVFTFWTCYVLKREYEIVA 181 (305)
Q Consensus 119 iLlPin~~~~~~~~~~~~~~~l~~~Ti~Nv~~~s~~lw~h~v~~~l~~~~~~~~l~~e~~~~~ 181 (305)
..+|+..+.....+.+.+.+....-.++|.+...++.|.-....|..-+....++--+.-+|+
T Consensus 75 l~~PV~~aS~~ASG~~~n~t~~~~e~~~~~t~~e~~F~~Gl~~G~~~E~~~~l~i~v~~lky~ 137 (143)
T PF10912_consen 75 LIFPVMFASFVASGYDSNDTYFHPEFIGNKTSEEDRFVSGLLAGYIVEILIILLIGVEVLKYV 137 (143)
T ss_pred HHhHHHHhhHHhhCCCcCCCccchHHhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhhhe
Confidence 356666543322111112233344466777766788899889999888888877777766664
No 35
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=33.19 E-value=1.1e+02 Score=21.41 Aligned_cols=43 Identities=16% Similarity=0.185 Sum_probs=29.5
Q ss_pred ceEEEEecCCCCCchhHHHHHHHhccccCCCcce-----eEEeEcccc
Q 021948 197 QFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYL-----THQVVNNAN 239 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~-----~v~i~~d~~ 239 (305)
..+|.++|+-.-+.+.++..+.+||....|..|+ ++.+++...
T Consensus 5 peavhirGvd~lsT~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~ 52 (62)
T PF10309_consen 5 PEAVHIRGVDELSTDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDE 52 (62)
T ss_pred eceEEEEcCCCCCHHHHHHHHHHhcccCCCceEEEecCCcEEEEECCH
Confidence 3589999997755666778888887666676664 456665543
No 36
>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=33.11 E-value=56 Score=31.67 Aligned_cols=39 Identities=18% Similarity=0.184 Sum_probs=27.9
Q ss_pred CcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 195 PDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 195 ~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
+..+||.|.|||...++ +.|.++|+.. |.|.++.+.+|-
T Consensus 184 p~~~~l~v~nl~~~~te---~~l~~~f~~~--G~i~~v~~~~d~ 222 (457)
T TIGR01622 184 PNFLKLYVGNLHFNITE---QELRQIFEPF--GDIEDVQLHRDP 222 (457)
T ss_pred CCCCEEEEcCCCCCCCH---HHHHHHHHhc--CCeEEEEEEEcC
Confidence 44689999999997654 4567777654 457777777654
No 37
>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=32.95 E-value=38 Score=27.10 Aligned_cols=16 Identities=25% Similarity=0.285 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHhc
Q 021948 15 ILSAFAFLSAFAILRI 30 (305)
Q Consensus 15 ~~i~~~~l~lF~~lR~ 30 (305)
+++++++|++|++.++
T Consensus 9 i~~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 9 IVAILLFLFLFYCHNR 24 (130)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333344444444443
No 38
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=32.22 E-value=96 Score=23.78 Aligned_cols=28 Identities=11% Similarity=0.033 Sum_probs=17.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhcC
Q 021948 4 LGDIGVAATINILSAFAFLSAFAILRIQ 31 (305)
Q Consensus 4 ~~~~~t~l~~~~~i~~~~l~lF~~lR~~ 31 (305)
|+-|+.+|+--.+-..++..+|.++|+.
T Consensus 18 WeIfLItLasVvvavGl~aGLfFcvR~~ 45 (106)
T PF14654_consen 18 WEIFLITLASVVVAVGLFAGLFFCVRNS 45 (106)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 4556666665555555555666666764
No 39
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=31.99 E-value=68 Score=25.38 Aligned_cols=22 Identities=36% Similarity=0.601 Sum_probs=18.3
Q ss_pred cccHHHHHHHHHHHHHHhhccc
Q 021948 283 TVDAIDFYTSKIETLKKEVSGF 304 (305)
Q Consensus 283 kvDai~yy~~~l~~l~~~i~~~ 304 (305)
--+|++++.++++.+++.++++
T Consensus 85 ~~eA~~~l~~r~~~l~~~~~~l 106 (129)
T cd00584 85 LEEAIEFLDKKIEELTKQIEKL 106 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3469999999999999888764
No 40
>PF15179 Myc_target_1: Myc target protein 1
Probab=31.08 E-value=83 Score=27.00 Aligned_cols=27 Identities=11% Similarity=0.086 Sum_probs=21.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhcC
Q 021948 5 GDIGVAATINILSAFAFLSAFAILRIQ 31 (305)
Q Consensus 5 ~~~~t~l~~~~~i~~~~l~lF~~lR~~ 31 (305)
-+|..+++|.++||+++.++|.+|-++
T Consensus 23 laF~vSm~iGLviG~li~~LltwlSRR 49 (197)
T PF15179_consen 23 LAFCVSMAIGLVIGALIWALLTWLSRR 49 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356777888888888888888888665
No 41
>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=29.46 E-value=63 Score=33.15 Aligned_cols=38 Identities=18% Similarity=0.217 Sum_probs=28.3
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
..++|.|.|||.+.++ +.|+++|+.. |.|.++.+.+|-
T Consensus 203 ~~~rLfVgnLp~~vte---edLk~lFs~F--G~I~svrl~~D~ 240 (612)
T TIGR01645 203 KFNRIYVASVHPDLSE---TDIKSVFEAF--GEIVKCQLARAP 240 (612)
T ss_pred ccceEEeecCCCCCCH---HHHHHHHhhc--CCeeEEEEEecC
Confidence 3479999999998764 4567777664 567788888764
No 42
>smart00360 RRM RNA recognition motif.
Probab=28.48 E-value=54 Score=21.34 Aligned_cols=31 Identities=26% Similarity=0.423 Sum_probs=18.0
Q ss_pred EecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 202 VRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 202 v~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
|.|+|....+ +.+.++|+.. |.|.++.+..+
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 4688886543 4556666544 34556666554
No 43
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=27.51 E-value=38 Score=28.29 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHhhheeeee
Q 021948 99 LRIYLIGLKIFIPIACLGFAVMVP 122 (305)
Q Consensus 99 lrflr~~~~lf~~~~v~~~~iLlP 122 (305)
-|++++++++..+++++++.+|.-
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v 52 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVV 52 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999998888888766543
No 44
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=27.50 E-value=57 Score=30.60 Aligned_cols=37 Identities=16% Similarity=0.180 Sum_probs=26.3
Q ss_pred ceEEEEecCCCCCc-hhHHHHHHHhccccCCCcceeEEeEcccc
Q 021948 197 QFTVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTHQVVNNAN 239 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~-~~l~~~l~~~F~~~~p~~v~~v~i~~d~~ 239 (305)
.+-+-|+|||=+.+ .+|+.. |++. |.|.+|.|+.|-+
T Consensus 96 pkRLhVSNIPFrFRdpDL~aM----F~kf--G~VldVEIIfNER 133 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLRAM----FEKF--GKVLDVEIIFNER 133 (376)
T ss_pred CceeEeecCCccccCccHHHH----HHhh--CceeeEEEEeccC
Confidence 46799999999854 445554 4443 5688998887765
No 45
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=26.30 E-value=1.3e+02 Score=22.47 Aligned_cols=19 Identities=26% Similarity=0.454 Sum_probs=9.5
Q ss_pred CcchhhHHHHHHHHHHHHH
Q 021948 1 MATLGDIGVAATINILSAF 19 (305)
Q Consensus 1 ~~~~~~~~t~l~~~~~i~~ 19 (305)
|||.+..+..-+...++|.
T Consensus 1 Mm~~~~~l~~~~~lm~~GM 19 (85)
T PRK03814 1 MTDIGSLLVDAATLMLTGM 19 (85)
T ss_pred CCcHHHHHHHHHHHHHHHH
Confidence 6776555544443333333
No 46
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=26.05 E-value=46 Score=28.63 Aligned_cols=39 Identities=15% Similarity=0.253 Sum_probs=28.3
Q ss_pred CcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 195 PDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 195 ~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
.+..||.|.|||....+ +.|-+.|-++. .|+++++++|-
T Consensus 7 nqd~tiyvgnld~kvs~---~~l~EL~iqag--pVv~i~iPkDr 45 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSE---ELLYELFIQAG--PVVNLHIPKDR 45 (203)
T ss_pred CCCceEEEecCCHHHHH---HHHHHHHHhcC--ceeeeecchhh
Confidence 34579999999987553 56777776654 48888887764
No 47
>PF15050 SCIMP: SCIMP protein
Probab=24.49 E-value=1.2e+02 Score=24.30 Aligned_cols=17 Identities=24% Similarity=0.284 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHhcC
Q 021948 15 ILSAFAFLSAFAILRIQ 31 (305)
Q Consensus 15 ~~i~~~~l~lF~~lR~~ 31 (305)
++-.++.+++||++|.+
T Consensus 18 ~vS~~lglIlyCvcR~~ 34 (133)
T PF15050_consen 18 LVSVVLGLILYCVCRWQ 34 (133)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33345667899999953
No 48
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=24.23 E-value=1.1e+02 Score=30.27 Aligned_cols=37 Identities=11% Similarity=0.114 Sum_probs=26.8
Q ss_pred cceEEEEecCCC-CCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 196 DQFTVLVRNVPP-DPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 196 ~~~Tvlv~~IP~-~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
...+|+|.|+|. ..++ +.|.++|+.. |.|.++.+.++
T Consensus 274 ~~~~l~v~nL~~~~vt~---~~L~~lF~~y--G~V~~vki~~~ 311 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNC---DRLFNLFCVY--GNVERVKFMKN 311 (481)
T ss_pred CCCEEEEeCCCCCCCCH---HHHHHHHHhc--CCeEEEEEEeC
Confidence 457999999997 4443 4667777654 56888888776
No 49
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=23.30 E-value=3.4e+02 Score=20.72 Aligned_cols=61 Identities=21% Similarity=0.282 Sum_probs=31.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHhhhccCCCCCCccccCCcCCCCCcccHHHHHHHHHHHHHHhhcccC
Q 021948 239 NKLSELVNKKKKMQNWLDFYQLKYSRNPARKPSTKTGFLGLWGKTVDAIDFYTSKIETLKKEVSGFS 305 (305)
Q Consensus 239 ~~L~~L~~~r~~~~~~Le~~~~k~~~~~~~rP~~r~~~~~~~g~kvDai~yy~~~l~~l~~~i~~~~ 305 (305)
+++.++-++-+.+...|.+|..++..... .+..-.|.. -.|+ -.-.+++++....||+++|
T Consensus 22 Rkl~ele~eN~~l~~EL~kyk~~~g~~d~-~~~~~~g~~-~~~~----~~~l~~eLk~a~~qi~~Ls 82 (96)
T PF11365_consen 22 RKLSELEDENKQLTEELNKYKSKYGDLDS-LAKLSEGGS-PSGR----EAELQEELKLAREQINELS 82 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCcc-cccCCCCCC-Cccc----cHHHHHHHHHHHHHHHHHh
Confidence 45667777777777788877765533211 111111211 1121 2245666666666666553
No 50
>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=23.07 E-value=1.3e+02 Score=26.88 Aligned_cols=66 Identities=18% Similarity=0.379 Sum_probs=41.6
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHh--hhccCCCCCCccccCCc------CCCCCcccHHHHHHHHHHHHHHhhccc
Q 021948 236 NNANKLSELVNKKKKMQNWLDFYQL--KYSRNPARKPSTKTGFL------GLWGKTVDAIDFYTSKIETLKKEVSGF 304 (305)
Q Consensus 236 ~d~~~L~~L~~~r~~~~~~Le~~~~--k~~~~~~~rP~~r~~~~------~~~g~kvDai~yy~~~l~~l~~~i~~~ 304 (305)
-|+++=..|.+.|+.+..+.|.+.. +..++ .+--+.|.. +--.++.++.+|.+.-|++|+.+|+.+
T Consensus 68 ~diKdk~~L~e~Rk~IE~~MErFK~vEkesKt---KafSkeGL~~~~k~dp~e~ek~e~~~wl~~~Id~L~~QiE~~ 141 (233)
T PF04065_consen 68 NDIKDKKKLLENRKLIEEQMERFKVVEKESKT---KAFSKEGLMAASKLDPKEKEKEEARDWLKDSIDELNRQIEQL 141 (233)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHhcc---cccchhhhhcccccCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667899999999889886532 22221 111111211 012367889999999999998888754
No 51
>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=22.82 E-value=30 Score=24.35 Aligned_cols=23 Identities=22% Similarity=0.183 Sum_probs=0.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCc
Q 021948 14 NILSAFAFLSAFAILRIQPINDR 36 (305)
Q Consensus 14 ~~~i~~~~l~lF~~lR~~~~~~~ 36 (305)
..+++++++++|.+-|.+.++..
T Consensus 20 vgll~ailLIlf~iyR~rkkdEG 42 (64)
T PF01034_consen 20 VGLLFAILLILFLIYRMRKKDEG 42 (64)
T ss_dssp -----------------S-----
T ss_pred HHHHHHHHHHHHHHHHHHhcCCC
Confidence 44566677778888886544543
No 52
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=22.63 E-value=1.6e+02 Score=18.13 Aligned_cols=19 Identities=5% Similarity=0.266 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 021948 154 RFWTHLVMAYVFTFWTCYV 172 (305)
Q Consensus 154 ~lw~h~v~~~l~~~~~~~~ 172 (305)
++|+|.+...++++++..+
T Consensus 5 K~~Vy~vV~ffv~LFifGf 23 (36)
T PF02532_consen 5 KIFVYTVVIFFVSLFIFGF 23 (36)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred EEeehhhHHHHHHHHhccc
Confidence 4677777777777766654
No 53
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=22.49 E-value=1e+02 Score=30.21 Aligned_cols=36 Identities=8% Similarity=0.188 Sum_probs=24.5
Q ss_pred ceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 197 QFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 197 ~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
.++|.|.|||...++ +.|.++|+.. |.|..+.++.|
T Consensus 295 ~~~l~v~nlp~~~~~---~~l~~~f~~~--G~i~~~~~~~~ 330 (509)
T TIGR01642 295 KDRIYIGNLPLYLGE---DQIKELLESF--GDLKAFNLIKD 330 (509)
T ss_pred CCEEEEeCCCCCCCH---HHHHHHHHhc--CCeeEEEEEec
Confidence 479999999998653 4556666554 34666666655
No 54
>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=22.36 E-value=1.1e+02 Score=31.53 Aligned_cols=38 Identities=11% Similarity=-0.002 Sum_probs=28.9
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
..++|.|.|||.+.++ +.|+++|... |.|.++.+.+|-
T Consensus 106 ~~~rLfVGnLp~~~tE---e~Lr~lF~~f--G~I~sV~I~~D~ 143 (612)
T TIGR01645 106 IMCRVYVGSISFELRE---DTIRRAFDPF--GPIKSINMSWDP 143 (612)
T ss_pred CCCEEEEcCCCCCCCH---HHHHHHHHcc--CCEEEEEEeecC
Confidence 3579999999998664 5677788765 457888887764
No 55
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=22.04 E-value=90 Score=30.38 Aligned_cols=37 Identities=14% Similarity=0.190 Sum_probs=27.2
Q ss_pred cceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEcc
Q 021948 196 DQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNN 237 (305)
Q Consensus 196 ~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d 237 (305)
.+|||++.|+|.+-. -+.|.++|... |.|.+|.||.-
T Consensus 230 ~srtivaenLP~Dh~---~enl~kiFg~~--G~IksIRIckP 266 (484)
T KOG1855|consen 230 PSRTIVAENLPLDHS---YENLSKIFGTV--GSIKSIRICKP 266 (484)
T ss_pred ccceEEEecCCcchH---HHHHHHHhhcc--cceeeeeecCC
Confidence 679999999998632 25677888654 66777777764
No 56
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=21.59 E-value=1.5e+02 Score=29.05 Aligned_cols=29 Identities=17% Similarity=0.352 Sum_probs=20.3
Q ss_pred CCCcceEEEEecCCCCCc-hhHHHHHHHhc
Q 021948 193 RRPDQFTVLVRNVPPDPD-ESVTQLVEHFF 221 (305)
Q Consensus 193 ~~~~~~Tvlv~~IP~~~~-~~l~~~l~~~F 221 (305)
....++||.|.|||.+.+ +.|.+.+.+++
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~ 200 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLM 200 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHH
Confidence 345678999999999765 44555555543
No 57
>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=20.98 E-value=1.6e+02 Score=29.56 Aligned_cols=39 Identities=10% Similarity=0.208 Sum_probs=27.8
Q ss_pred CcceEEEEecCCCCCchhHHHHHHHhccccCCCcceeEEeEccc
Q 021948 195 PDQFTVLVRNVPPDPDESVTQLVEHFFLVNHPDHYLTHQVVNNA 238 (305)
Q Consensus 195 ~~~~Tvlv~~IP~~~~~~l~~~l~~~F~~~~p~~v~~v~i~~d~ 238 (305)
....+|.|.|+|.+.++ +.|+++|+.. |.|.++.+..|-
T Consensus 283 ~~~~~l~V~nl~~~~~~---~~L~~~F~~~--G~i~~~~i~~d~ 321 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTD---EKLRELFSEC--GEITSAKVMLDE 321 (562)
T ss_pred cCCCEEEEeCCCCccCH---HHHHHHHHhc--CCeEEEEEEECC
Confidence 34568999999998664 5667777664 457777776663
No 58
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=20.76 E-value=1.2e+02 Score=20.93 Aligned_cols=24 Identities=17% Similarity=0.396 Sum_probs=15.6
Q ss_pred CCCccc--HHHHHHHHHHHHHHhhcc
Q 021948 280 WGKTVD--AIDFYTSKIETLKKEVSG 303 (305)
Q Consensus 280 ~g~kvD--ai~yy~~~l~~l~~~i~~ 303 (305)
.|+..+ +++-+.+.|..|+.||..
T Consensus 14 ig~dLs~lSv~EL~~RIa~L~aEI~R 39 (59)
T PF06698_consen 14 IGEDLSLLSVEELEERIALLEAEIAR 39 (59)
T ss_pred cCCCchhcCHHHHHHHHHHHHHHHHH
Confidence 455554 567777777777777754
No 59
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=20.58 E-value=1.3e+02 Score=23.75 Aligned_cols=25 Identities=16% Similarity=-0.088 Sum_probs=16.2
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHHH
Q 021948 1 MATLGDIGVAATINILSAFAFLSAF 25 (305)
Q Consensus 1 ~~~~~~~~t~l~~~~~i~~~~l~lF 25 (305)
+|+..+|+...++-+++|.+.-++|
T Consensus 1 ~m~~~~~l~G~liGgiiGa~aaLL~ 25 (115)
T COG4980 1 NMKGKDFLFGILIGGIIGAAAALLF 25 (115)
T ss_pred CCccchHHHHHHHHHHHHHHHHHHh
Confidence 4666667777777666666665554
No 60
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=20.47 E-value=1.5e+02 Score=26.29 Aligned_cols=35 Identities=11% Similarity=0.106 Sum_probs=26.1
Q ss_pred eEEEEecCCCCCc-hhHHHHHHHhccccCCCcceeEEe
Q 021948 198 FTVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTHQV 234 (305)
Q Consensus 198 ~Tvlv~~IP~~~~-~~l~~~l~~~F~~~~p~~v~~v~i 234 (305)
.|+.|.|++.... +.|++.|...|+.. |.|.+|..
T Consensus 10 ~TlYInnLnekI~~~elkrsL~~LFsqf--G~ildI~a 45 (221)
T KOG4206|consen 10 GTLYINNLNEKIKKDELKRSLYLLFSQF--GKILDISA 45 (221)
T ss_pred ceEeehhccccccHHHHHHHHHHHHHhh--CCeEEEEe
Confidence 3999999999754 55888888898876 45555543
No 61
>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=20.45 E-value=35 Score=34.03 Aligned_cols=25 Identities=16% Similarity=0.064 Sum_probs=18.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhc
Q 021948 6 DIGVAATINILSAFAFLSAFAILRI 30 (305)
Q Consensus 6 ~~~t~l~~~~~i~~~~l~lF~~lR~ 30 (305)
++++++++++++..++.++|.++.+
T Consensus 418 TaLSAlvVStliss~iylil~IL~K 442 (526)
T PF07243_consen 418 TALSALVVSTLISSLIYLILSILSK 442 (526)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788877777777777777775
No 62
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=20.05 E-value=84 Score=32.91 Aligned_cols=35 Identities=17% Similarity=0.285 Sum_probs=23.7
Q ss_pred CcceEEEEecCCCCCc-hhHHHHHHHhccccCCCcceeEEeE
Q 021948 195 PDQFTVLVRNVPPDPD-ESVTQLVEHFFLVNHPDHYLTHQVV 235 (305)
Q Consensus 195 ~~~~Tvlv~~IP~~~~-~~l~~~l~~~F~~~~p~~v~~v~i~ 235 (305)
..++|+.|-+||+... ++|++.+++| |.|.++.+.
T Consensus 419 V~SrTLwvG~i~k~v~e~dL~~~feef------GeiqSi~li 454 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVTEQDLANLFEEF------GEIQSIILI 454 (894)
T ss_pred EeeeeeeeccccchhhHHHHHHHHHhc------ccceeEeec
Confidence 3579999999999754 4556655554 446666543
Done!