Query 045399
Match_columns 802
No_of_seqs 340 out of 962
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 12:51:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045399.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045399hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0401 Translation initiation 100.0 1.1E-67 2.4E-72 640.3 43.9 764 2-802 142-940 (970)
2 PF02854 MIF4G: MIF4G domain; 100.0 6.8E-31 1.5E-35 264.6 20.7 202 223-448 1-209 (209)
3 smart00543 MIF4G Middle domain 100.0 6.5E-27 1.4E-31 235.7 23.1 194 224-448 2-200 (200)
4 smart00544 MA3 Domain in DAP-5 99.9 1.3E-22 2.7E-27 189.0 13.3 113 639-751 1-113 (113)
5 PF02847 MA3: MA3 domain; Int 99.9 6.1E-23 1.3E-27 190.8 11.0 113 639-751 1-113 (113)
6 KOG2140 Uncharacterized conser 99.9 1.3E-21 2.8E-26 215.7 16.2 193 218-452 160-352 (739)
7 KOG0403 Neoplastic transformat 99.8 6E-20 1.3E-24 199.9 13.4 146 636-782 341-486 (645)
8 KOG0403 Neoplastic transformat 99.8 2.6E-18 5.6E-23 187.3 13.9 128 636-764 46-173 (645)
9 KOG2141 Protein involved in hi 99.6 2E-14 4.4E-19 164.4 19.8 200 219-452 316-524 (822)
10 KOG2051 Nonsense-mediated mRNA 99.0 6.4E-09 1.4E-13 124.2 15.1 188 222-445 423-614 (1128)
11 KOG3942 MIF4G domain-containin 98.8 3.8E-08 8.2E-13 104.4 12.4 170 252-454 163-338 (348)
12 KOG2051 Nonsense-mediated mRNA 98.2 5.9E-05 1.3E-09 91.2 18.1 194 224-448 632-837 (1128)
13 KOG0401 Translation initiation 97.8 3.3E-06 7.1E-11 104.9 -1.9 268 200-470 591-891 (970)
14 KOG1104 Nuclear cap-binding co 96.4 0.12 2.6E-06 61.8 17.7 202 215-454 20-249 (759)
15 PF12152 eIF_4G1: Eukaryotic t 92.2 0.083 1.8E-06 46.3 1.9 32 68-99 40-73 (75)
16 PF05918 API5: Apoptosis inhib 89.0 5.7 0.00012 47.3 13.7 155 221-403 178-346 (556)
17 PF02847 MA3: MA3 domain; Int 87.5 6.4 0.00014 36.3 10.6 63 223-287 2-66 (113)
18 smart00544 MA3 Domain in DAP-5 76.8 13 0.00028 34.3 8.2 62 224-287 3-66 (113)
19 PF07817 GLE1: GLE1-like prote 74.5 82 0.0018 34.0 14.6 169 220-407 27-241 (256)
20 KOG2140 Uncharacterized conser 71.3 44 0.00096 39.5 12.0 49 237-286 467-515 (739)
21 PF02854 MIF4G: MIF4G domain; 63.4 31 0.00067 34.3 8.1 122 641-764 2-133 (209)
22 PF05456 eIF_4EBP: Eukaryotic 61.4 2.3 4.9E-05 40.5 -0.5 20 76-95 43-62 (116)
23 PF04844 Ovate: Transcriptiona 51.8 38 0.00082 28.6 5.2 46 636-681 5-52 (59)
24 PRK14137 recX recombination re 50.8 3.1E+02 0.0067 28.5 15.0 30 630-659 29-58 (195)
25 cd03567 VHS_GGA VHS domain fam 48.0 1.4E+02 0.0029 29.5 9.4 94 350-450 20-119 (139)
26 PLN03218 maturation of RBCL 1; 47.7 88 0.0019 40.6 10.2 72 643-715 582-654 (1060)
27 KOG2141 Protein involved in hi 46.4 59 0.0013 39.8 7.7 104 232-370 628-731 (822)
28 cd03568 VHS_STAM VHS domain fa 45.7 2.6E+02 0.0057 27.5 11.1 109 350-469 19-129 (144)
29 cd03561 VHS VHS domain family; 45.1 2.1E+02 0.0045 27.6 10.1 94 350-450 19-115 (133)
30 PLN03081 pentatricopeptide (PP 45.1 1.5E+02 0.0033 36.2 11.4 61 644-708 263-323 (697)
31 PRK14703 glutaminyl-tRNA synth 42.5 4.4E+02 0.0096 33.2 14.6 81 690-782 663-756 (771)
32 TIGR01568 A_thal_3678 uncharac 41.8 80 0.0017 27.3 5.8 46 636-681 11-59 (66)
33 smart00288 VHS Domain present 41.0 3.4E+02 0.0073 26.2 11.4 109 350-468 19-129 (133)
34 cd03569 VHS_Hrs_Vps27p VHS dom 40.8 2.3E+02 0.0049 27.9 9.8 109 349-468 22-132 (142)
35 PRK05477 gatB aspartyl/glutamy 40.3 2.7E+02 0.0059 33.0 11.8 50 672-722 338-398 (474)
36 smart00543 MIF4G Middle domain 39.8 3.1E+02 0.0068 27.1 11.0 32 732-763 94-125 (200)
37 PF08044 DUF1707: Domain of un 38.6 45 0.00098 27.4 3.7 45 687-731 4-53 (53)
38 PLN03218 maturation of RBCL 1; 38.4 1.5E+02 0.0033 38.5 10.3 66 642-708 616-682 (1060)
39 PF05004 IFRD: Interferon-rela 37.3 6.2E+02 0.013 28.1 14.2 128 635-763 37-177 (309)
40 KOG1924 RhoA GTPase effector D 36.9 6.3E+02 0.014 31.8 14.1 20 386-405 400-419 (1102)
41 PLN00131 hypothetical protein; 35.7 4.8E+02 0.01 26.3 11.0 64 629-703 121-185 (218)
42 PF10395 Utp8: Utp8 family; I 34.4 9.9E+02 0.021 29.7 15.7 165 223-444 408-594 (670)
43 PF08876 DUF1836: Domain of un 34.2 30 0.00066 32.4 2.3 65 672-736 36-104 (105)
44 TIGR01446 DnaD_dom DnaD and ph 33.1 1.4E+02 0.003 25.4 6.2 43 671-713 30-72 (73)
45 PLN03081 pentatricopeptide (PP 32.5 7.9E+02 0.017 30.1 14.8 77 643-720 90-168 (697)
46 KOG2171 Karyopherin (importin) 32.4 1.2E+03 0.025 30.6 16.0 196 222-443 61-274 (1075)
47 PF04286 DUF445: Protein of un 31.1 5.3E+02 0.011 28.3 12.0 94 634-727 101-200 (367)
48 COG5537 IRR1 Cohesin [Cell div 30.3 7.4E+02 0.016 30.4 13.0 135 637-779 328-467 (740)
49 PTZ00009 heat shock 70 kDa pro 29.7 6E+02 0.013 31.2 13.0 12 254-265 346-357 (653)
50 KOG2050 Puf family RNA-binding 29.5 1.9E+02 0.0042 34.8 8.2 60 642-703 322-387 (652)
51 COG1421 CRISPR system related 27.4 1.2E+02 0.0025 30.0 5.0 65 706-770 43-115 (137)
52 PF12295 Symplekin_C: Sympleki 27.3 4.3E+02 0.0094 27.1 9.6 104 642-761 75-181 (183)
53 PLN03077 Protein ECB2; Provisi 27.1 2.6E+02 0.0057 35.1 9.6 63 642-708 325-387 (857)
54 KOG3091 Nuclear pore complex, 27.0 8E+02 0.017 29.2 12.4 156 632-801 332-506 (508)
55 PF04147 Nop14: Nop14-like fam 27.0 1E+03 0.023 30.2 14.7 132 224-378 429-575 (840)
56 PF10602 RPN7: 26S proteasome 26.4 1.2E+02 0.0025 30.9 5.3 57 632-688 28-88 (177)
57 PF12854 PPR_1: PPR repeat 25.5 92 0.002 22.7 3.2 25 643-667 10-34 (34)
58 PF09851 SHOCT: Short C-termin 25.4 1E+02 0.0022 22.4 3.4 25 696-720 6-30 (31)
59 PF12612 TFCD_C: Tubulin foldi 25.4 1.6E+02 0.0036 30.1 6.2 37 669-705 2-38 (193)
60 KOG3915 Transcription regulato 25.1 98 0.0021 36.0 4.7 20 634-653 499-518 (641)
61 PF01602 Adaptin_N: Adaptin N 25.0 1.1E+03 0.024 27.2 14.3 191 223-438 322-519 (526)
62 KOG2027 Spindle pole body prot 23.6 1.1E+03 0.023 27.4 12.7 133 637-782 14-160 (388)
63 PLN03077 Protein ECB2; Provisi 23.5 4.3E+02 0.0094 33.2 10.6 26 643-668 256-281 (857)
64 PRK09498 sifA secreted effecto 23.5 1.4E+02 0.0031 32.8 5.3 47 641-703 28-74 (336)
65 PF00790 VHS: VHS domain; Int 23.0 4.9E+02 0.011 25.2 8.7 93 350-449 24-120 (140)
66 PF11705 RNA_pol_3_Rpc31: DNA- 22.9 1.5E+02 0.0033 31.4 5.5 19 77-95 47-65 (233)
67 PF08542 Rep_fac_C: Replicatio 22.2 4.9E+02 0.011 22.7 7.9 48 672-723 4-51 (89)
68 cd00923 Cyt_c_Oxidase_Va Cytoc 22.1 6.7E+02 0.015 23.6 9.1 93 634-732 3-99 (103)
69 PF10155 DUF2363: Uncharacteri 21.7 5.7E+02 0.012 24.8 8.6 32 689-720 77-108 (126)
70 PF13311 DUF4080: Protein of u 21.4 5.1E+02 0.011 26.6 8.9 74 630-703 18-95 (190)
71 PF02650 HTH_WhiA: WhiA C-term 21.3 6.1E+02 0.013 23.0 8.2 64 347-425 21-84 (85)
72 TIGR00756 PPR pentatricopeptid 20.9 1E+02 0.0023 21.0 2.7 26 644-669 4-29 (35)
73 TIGR00153 conserved hypothetic 20.8 9.5E+02 0.021 24.9 14.6 80 643-731 30-112 (216)
74 PTZ00429 beta-adaptin; Provisi 20.6 1.8E+03 0.038 27.9 16.3 193 218-437 345-540 (746)
75 cd03565 VHS_Tom1 VHS domain fa 20.3 6.7E+02 0.014 24.5 9.0 112 350-469 20-134 (141)
76 PF12145 Med12-LCEWAV: Eukaryo 20.2 2.9E+02 0.0063 32.7 7.4 146 205-368 160-349 (480)
No 1
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-67 Score=640.28 Aligned_cols=764 Identities=31% Similarity=0.426 Sum_probs=542.2
Q ss_pred CCCCcc---eeeeccCCCCCCCCCCCCCCCccccCCccC-CCCCCCCCCcccCCCCCCCCCcCCCCCCC----CCCCCCC
Q 045399 2 HQGDQT---VLSLRPGGGRGGAGGGGGGNSRLFSGSRFD-SGAGAAAPSLAFGSFSSDLPFLRPHGGAP----PSATGDS 73 (802)
Q Consensus 2 ~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ 73 (802)
+.+++. +++++|+|.++ ..+.|+..... .+.+.+..+ .-..++.+++.+ .......
T Consensus 142 ~~~~~s~~~~l~~~~~~~~~--------~~~~~~~~~~~s~~~~~~~~s--------~~~~~~~~~~~~~~~~~e~~~~~ 205 (970)
T KOG0401|consen 142 QEGEPSSTKALILKKSGEEA--------DDKAFGEPKESSLGEGQADSS--------TPKTSEDGIPFEKPPDPEEQKAS 205 (970)
T ss_pred cCCCCCcccccccccccccc--------cccccccccccccccccCCCC--------CcccccccCCCCCCCCccccccc
Confidence 345566 99999999987 45566655422 111111111 111123333322 2223445
Q ss_pred CCCCCcccccCHHHHHHHHHhhcCChHHHHHhhhhhhhhcccccccccCCCCC-CCCCCCcCCCCCCcccCCCCCCCCCC
Q 045399 74 RFEGRERVRYTREQLLQLREAAVIDDDILKIKREFESEVFGEEQIWGRAENNP-PNQPQSRYSEPDNRDWRRPAQSFPSG 152 (802)
Q Consensus 74 ~~~~~~~~~y~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~d~~~w~~~~~~~~~~ 152 (802)
++....+..|....+++......+++++...+......+..++.+|. ..... +...-.|..++.++||.....+..+.
T Consensus 206 ~~~~~l~~~~~~~~~~~~e~~~~~~d~~~~~~e~~~~~~~~e~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ 284 (970)
T KOG0401|consen 206 DRMDALTLAFSEELLLEAENTPRSSDEYVRRIEAEQEPLRPEEPSGL-RAIQKIPEKATERRAEESGRDKPEHEDQTKPA 284 (970)
T ss_pred ccchhhhhhhhhhhhhhhhhcCCcchHHHHHHHHHhhccCCccchhh-hccccccccccccccccccccccccccccccc
Confidence 55666677888888888776678888888877777788889998882 21111 45556888899999998876665532
Q ss_pred c--cccccccccCCCCC-CCCCCccCCccchhhhhhhhccccCCCCCCCCcccccccCCCccccCCCChHHHHHHHHHHH
Q 045399 153 E--FNRDNREFAGRYDF-RQPDGSQFNRQDQLNYQFSRVQMSSNPGGGPAPALIKAEVPWSAKRGNLSEKERVLKTVKGI 229 (802)
Q Consensus 153 ~--~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~l~~~en~w~~~r~~~se~e~l~r~Vk~I 229 (802)
. -.+++++.++...+ .++. . ....+........++..|++...++..+|...+..++..+++.+.|++|
T Consensus 285 ~~~~~~~~~~~~~~~~~e~~~~----~----~~~~~~~~~~~~~~~~~ps~k~a~~~~~~~~~~~~~~~~~el~~~vrsi 356 (970)
T KOG0401|consen 285 GNRLLDEPRESQPAENGEPAKK----G----VEEVEEVVLNFAQKAPSPSPKRAKSKSDQGAERKDVELKEELAKRVRSL 356 (970)
T ss_pred ccccccchhhhccccccccccc----c----chhhhHHHHHhccCCCCCcchhhccccccccccchhHHHHHHHHHHhhh
Confidence 2 23344433222211 1110 1 1111122222233455678888889999988887788899999999999
Q ss_pred hhcCCHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHH
Q 045399 230 LNKLTPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKEITFKRVLLN 309 (802)
Q Consensus 230 LNKLTpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Frr~LL~ 309 (802)
||||||++|+.++.+++++.|++.+.|++||.+||||||.||+||.|||+||..|.. .+.++.-+.++..++||++||+
T Consensus 357 lnkltp~~~~~l~~q~~~~~i~t~~~l~~vi~~vfdkAi~EP~f~~~yA~lc~~l~~-~~~~~~~~~~~~~~~fr~~lL~ 435 (970)
T KOG0401|consen 357 LNKLTPERKELLIEQLIELNVDTDDALKEVIELVFDKAINEPTFCAMYARLCFDLEG-PPSEPELDMGGDEINFRRLLLN 435 (970)
T ss_pred cCCCchHHHHHHHHHHHhhccCcHHHHhHHHHHHHHhhhcccccchhcchhcccccC-CccCCCcCCCCCcccHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999998 5555444455678999999999
Q ss_pred HHHHHHhhhh-hhHHHHHhcCCchH-HHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh
Q 045399 310 ICQEAFEGAD-KLREEVRQMTAPDQ-ESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE 387 (802)
Q Consensus 310 rcQeeFe~~~-~~~~e~~~~~~~e~-E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E 387 (802)
+||++|+... ....++..++.+++ |.+.++.+.++++|.+|||+|||+||+..|++++|||.||..||..+. ++|
T Consensus 436 rcq~~fe~~~~~~~~~~~~~~~~~~~e~~le~~k~~~~~rtlgn~~~ig~l~~~~ml~e~i~~~~v~~Ll~~~~---~~e 512 (970)
T KOG0401|consen 436 RCQKEFEGEDDKIADEYSEAEEPDELEEELEEEKYILRRRTLGNFRFIGELFKLKMLTEKIVHACVQKLLSDDQ---PSE 512 (970)
T ss_pred HhHHHhhcccHHHHHHhhhhcCchhHHHHHHhccceecCCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccc---ccc
Confidence 9999999987 66677777776655 666777778899999999999999999999999999999999998642 789
Q ss_pred hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhCCCCccccccCcc-cHHHHHH
Q 045399 388 ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNPQLAPRLRFMVRDVLDLRANNWVPRREEVTAK-TITEIHS 466 (802)
Q Consensus 388 e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~~lssRIRFML~dvidLR~n~W~~r~~~~~pk-ti~eI~~ 466 (802)
++|||+|+|++|+|+.||........||.||.+++.+.....+++|+|||+++++|||.++|++|+.+.+++ +|++||.
T Consensus 513 e~ie~lc~f~~tig~~lD~~~~s~r~md~~~~~~k~~~~~~~~s~r~RfM~~~~idlR~~~w~~rr~~~~~~~~ieei~~ 592 (970)
T KOG0401|consen 513 ESIECLCRFLTTIGKKLDFSKESPRNMDEYFNSMKNLKRKPQRSNRIRFMLQSVIDLRKSGWGPRRAEETNDKPIEEIAP 592 (970)
T ss_pred hhhhhHHhhhhcccccccccCcccchhHHHHHHHHHhhhhhhhccchhhhhccccccccccccchhcccCCCCchhhcch
Confidence 999999999999999999754433349999999999999999999999999999999999999999988777 9999999
Q ss_pred HHHHhcCCCCCcchhhccccCccCCCCCCCC-----CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCCC
Q 045399 467 EAEKNLGLRPGATASIRNSRGMISGAPGVTG-----PGGMPITRPGSGGMMPGMPGTRKMPGMPGIDNDNWEFPRQRSIP 541 (802)
Q Consensus 467 ea~~~~~~~~~~~~~~r~~r~~~~~~~~~~~-----p~~~~~~~p~~gg~~p~~~~~r~~~~~~g~~~d~~~~~~~~s~~ 541 (802)
++.+.....+.....++.++.......+..+ +.+....++..+.+++.++...-+...+.++.++|++.......
T Consensus 593 ~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k~~~~~ 672 (970)
T KOG0401|consen 593 EAPSANRWSPKSLSKKTEGRLAEESDSGLLGKEVVERKGKSGLRKLTPEMFDKISDPILDIADQSMDEEDGEASKQKGEQ 672 (970)
T ss_pred hhhhhcccCcccccccccccccccccccccCccccccccccccccCChhhcccccccccccchhhccccccchhhhcccc
Confidence 9988876555555445554411111111111 11122233344445555544433333445666677754332111
Q ss_pred CCCCCCCCCCC-CCCCCCccCCCCC----CcccCCCCCCCCCCC---cccccC---CCCCCCCCCCCCCCCCCCCCCCCC
Q 045399 542 RGDGSGMQPGG-RVQSPMINKSSSL----NTRLLPQGTGGPMGA---RSALLQ---GSGTPPPRPSNFIPGPEPTSQLPI 610 (802)
Q Consensus 542 ~~~~~~~~~~~-~~~~~~~~k~~~~----n~~~~p~~s~~~~~g---~sa~~~---~~~~p~~r~~~~~~~~~~~~q~~~ 610 (802)
.+.....+.+. ....+..++.-.. -....++|+.|.... .++... ..+....+++.....+. .+...
T Consensus 673 ~~~k~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~--~e~~~ 750 (970)
T KOG0401|consen 673 GGRKASDEQHFSSMRAPALEKVVPSLSSDIDDKRNRGSNGELLSDSYLSARCHEEFENGWSRELPSGKDGERE--PEMMS 750 (970)
T ss_pred cccccCccccccccCCccccccccccccccccccccCCccccccccccchhhhhhccccccccCCCCcccccc--hhhcC
Confidence 11100000000 1111111111111 113344554432211 111111 11111111111110000 00000
Q ss_pred CCCCCCCCCCCCcccCCCCCCC--CCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCC
Q 045399 611 PTKPVTSSPVPAVVEKPLRPAG--KLNLDELCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNP 688 (802)
Q Consensus 611 ~~k~~~~~~~p~~~~~~~~~~~--~~s~eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~ 688 (802)
+.- .+++ +.+..+... .++.+.+..++++|++||++..+.+|++.|+++|++|.+|+.+|..+|+..|++++
T Consensus 751 ---~~~-~~~~--~~~~~~~~~v~~~~~~~l~~~sk~l~ee~~~~~~~~~~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~ 824 (970)
T KOG0401|consen 751 ---PEY-YAAK--AAKRAGLGLVIALSSELLELLSKSLLEEFLSLRLEKEALKCIEELESPSLLLKTVGENIEPTLEKSP 824 (970)
T ss_pred ---ccc-chhh--hhhccCCcchhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccchhhhHHHHHHhcCcccccCh
Confidence 000 0011 112223334 78999999999999999999999999999999999999999999999999999999
Q ss_pred CChHHHHHHHHHHHhCCCcCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHhCCCCH-HHHHHHHHhhHhHHH
Q 045399 689 PCVDPVTKLLEYLFTQKVITARDIGTGCLLFGALMDDVGIDLPRAPNNFGEIIGKLILAGGLDF-KVVQEILKKMEEEMY 767 (802)
Q Consensus 689 ~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~~-~~l~~~~~~~e~~~~ 767 (802)
..++++++||..|+..+.++.+++..||..++..++|+.||+|++|.|+++|++.++..+++++ ..+.++...+.+.++
T Consensus 825 ~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d~pk~w~~~~e~~gp~~~~~~~~~~e~~~~~~~~~~~~~~ 904 (970)
T KOG0401|consen 825 QAVEELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELDLPKGWNYIKEFLGPLIHQKILDESELVREILKNMRPNGR 904 (970)
T ss_pred hHHHHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhcccccchhHHHHhhhhHhhhccccHHHHHHHHhhcCCcccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999 677888888999999
Q ss_pred HHHHHHHHHHHHHhC-CChhhhhhhhhcHHHHhhcC
Q 045399 768 RKSVLDAALRIISCS-PGQNILDSQASDIEACQSLL 802 (802)
Q Consensus 768 ~~~v~~a~l~~l~~~-~G~~v~~~~~~~~~~~~~~~ 802 (802)
+..++.+++..+... .+.++.+.++....+|+.++
T Consensus 905 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~ 940 (970)
T KOG0401|consen 905 RSNVLFSVLEIVEKELGRADLGDIQRESFLSTKTLL 940 (970)
T ss_pred ccchHHHHHHHHHHhhhHHHHHHHHHHhcccchhcc
Confidence 999999999999988 78999999999998887653
No 2
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=99.97 E-value=6.8e-31 Score=264.64 Aligned_cols=202 Identities=42% Similarity=0.773 Sum_probs=174.0
Q ss_pred HHHHHHHhhcCCHhhHHHHHHHHHHhccCC-HHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchh
Q 045399 223 LKTVKGILNKLTPEKFDLLKGQLIDSGITS-ADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKEI 301 (802)
Q Consensus 223 ~r~Vk~ILNKLTpenfd~l~~qLl~l~I~s-~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~ 301 (802)
.|+|+++|||||++||+.++++|..+.+.+ .+.++.+++.||++|+.+|+|+.+||+||..|+...+ .
T Consensus 1 ~r~v~~~lnklt~~n~~~~~~~l~~~~~~~~~~~~~~i~~~i~~~a~~~~~~~~~~a~l~~~l~~~~~-----------~ 69 (209)
T PF02854_consen 1 LRKVRGILNKLTPSNFESIIDELIKLNWSDDPETLKEIVKLIFEKAVEEPNFSPLYARLCAALNSRFP-----------S 69 (209)
T ss_dssp HHHHHHHHHHCSSTTHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHHCH-----------H
T ss_pred CchHHHHHHHCCHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhhcCchHHHHHHHHHHHHhccch-----------h
Confidence 489999999999999999999999987764 8999999999999999999999999999999998743 5
Q ss_pred hHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCC
Q 045399 302 TFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLGHDS 381 (802)
Q Consensus 302 ~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~ 381 (802)
.|+..||++||++|+.... ..+.+ +.....++++.|+++||||||+.+++++++|++|+..|+....
T Consensus 70 ~f~~~ll~~~~~~f~~~~~-----------~~~~~--~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~ 136 (209)
T PF02854_consen 70 EFRSLLLNRCQEEFEERYS-----------NEELE--ENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELLSDGT 136 (209)
T ss_dssp HHHHHHHHHHHHHHHHHT------------HHHHH--HHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHTS
T ss_pred hHHHHHHHHHHHHHHHhhh-----------hhhHH--HHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHHhccc
Confidence 7999999999999998530 00111 1223456788999999999999999999999999999998632
Q ss_pred C---CCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHHhCC
Q 045399 382 S---TCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN---PQLAPRLRFMVRDVLDLRANN 448 (802)
Q Consensus 382 ~---~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~---~~lssRIRFML~dvidLR~n~ 448 (802)
. ..+++++|||+|.+|.+||+.|+.....+..|+.||..++.+..+ ..+++|+||||++++|+|+||
T Consensus 137 ~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~r~~~~l~~l~~lr~~~ 209 (209)
T PF02854_consen 137 DECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANSKKDPNLSSRIRFMLEDLIELRNNK 209 (209)
T ss_dssp HHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHSSSSSHHHHHHHHHHHHHHHTC
T ss_pred ccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHhcCC
Confidence 1 124668999999999999999994445568999999999999887 799999999999999999986
No 3
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=99.95 E-value=6.5e-27 Score=235.75 Aligned_cols=194 Identities=36% Similarity=0.582 Sum_probs=168.0
Q ss_pred HHHHHHhhcCCHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhH
Q 045399 224 KTVKGILNKLTPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKEITF 303 (802)
Q Consensus 224 r~Vk~ILNKLTpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~F 303 (802)
++|+++|||||++||+.++++|..+.+.+.+..+.+++.||++|+.+|+|+.+||+||..|+... ..|
T Consensus 2 ~~v~~~lnkLs~~n~~~~~~~l~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ya~L~~~l~~~~------------~~f 69 (200)
T smart00543 2 KKVKGLINKLSPSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKN------------PDF 69 (200)
T ss_pred hHHHHHHhhCCHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHH------------HHH
Confidence 68999999999999999999999998888899999999999999999999999999999999763 269
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCC-
Q 045399 304 KRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLGHDSS- 382 (802)
Q Consensus 304 rr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~- 382 (802)
+..||+.||++|+..-. . .+...++++.|+++||||||+.++++..++++|+..|+.....
T Consensus 70 ~~~ll~~~~~~f~~~~e----------------~--~~~~~~~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~ 131 (200)
T smart00543 70 GSLLLERLQEEFEKGLE----------------S--EEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKL 131 (200)
T ss_pred HHHHHHHHHHHHHHHHH----------------H--HHHHhhhhHHhHHHHHHHHHHcccCcHHHHHHHHHHHHhccCCC
Confidence 99999999999988511 0 0112346789999999999999999999999999999986311
Q ss_pred -CCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCC---CCChHHHHHHHHHHHHHhCC
Q 045399 383 -TCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNP---QLAPRLRFMVRDVLDLRANN 448 (802)
Q Consensus 383 -~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~---~lssRIRFML~dvidLR~n~ 448 (802)
...++++|||+|.+|.+||+.|+. ...+..|+.+|+.++.+..+. .+++|+|||++++++||+++
T Consensus 132 ~~~~~~~~ve~l~~lL~~~G~~l~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~~r~~~~l~~l~~l~~~~ 200 (200)
T smart00543 132 DPPRSDFSVECLLSLLPTCGKDLER-EKSPKLLDEILERLQDYLLKKDKTELSSRLRFMLELLIELRKNK 200 (200)
T ss_pred CCCCcHHHHHHHHHHHHHhhHHHcC-cccHHHHHHHHHHHHHHHhcccccCCChHHHHHHHHHHHHhhCc
Confidence 113568999999999999999994 223478999999999998776 79999999999999999864
No 4
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=99.89 E-value=1.3e-22 Score=188.95 Aligned_cols=113 Identities=32% Similarity=0.462 Sum_probs=110.4
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHHHHH
Q 045399 639 LCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTGCLL 718 (802)
Q Consensus 639 l~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~ 718 (802)
++|++..+|+||++++|.+||++||++|+.|.+|++||+.+|..+||+++.+|+.+++||.+|++.+++++++|..||.+
T Consensus 1 ~~k~i~~~l~ey~~~~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~~~~~~~~~~~~f~~ 80 (113)
T smart00544 1 LKKKIFLIIEEYLSSGDTDEAVHCLLELKLPEQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQANVISTKQFEKGFWR 80 (113)
T ss_pred ChhHHHHHHHHHHHcCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHcCCcCHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhcchhhhcCCCchhHHHHHHHHHHHHhCCCC
Q 045399 719 FGALMDDVGIDLPRAPNNFGEIIGKLILAGGLD 751 (802)
Q Consensus 719 vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~ 751 (802)
+++.++|+++|+|+|++++|+|+|++|.+|+++
T Consensus 81 ~~~~l~dl~~D~P~a~~~la~~~a~~v~~~~l~ 113 (113)
T smart00544 81 LLEDIEDLELDIPNAWRNLAEFVARLISDGILP 113 (113)
T ss_pred HHhhChhhhcccccHHHHHHHHHHHHHHcCCCC
Confidence 999999999999999999999999999999986
No 5
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=99.89 E-value=6.1e-23 Score=190.78 Aligned_cols=113 Identities=34% Similarity=0.528 Sum_probs=107.3
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHHHHH
Q 045399 639 LCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTGCLL 718 (802)
Q Consensus 639 l~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~ 718 (802)
++|++..+|.|||+++|.+||+.||+||+.|.+|++||..+|..+||+++.+|+.++.||.+|+++++++.++|..||.+
T Consensus 1 ~rk~i~~~l~ey~~~~d~~ea~~~l~el~~~~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~ 80 (113)
T PF02847_consen 1 LRKKIFSILMEYFSSGDVDEAVECLKELKLPSQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISKEQFQEGFED 80 (113)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHHHHTT-GGGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHH
T ss_pred ChHHHHHHHHHHhcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 68999999999999999999999999999998999999999999999999999999999999999999999999999999
Q ss_pred HhhcchhhhcCCCchhHHHHHHHHHHHHhCCCC
Q 045399 719 FGALMDDVGIDLPRAPNNFGEIIGKLILAGGLD 751 (802)
Q Consensus 719 vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~ 751 (802)
+++.++|+.+|+|++|+++|+|++++|.+|+||
T Consensus 81 ~l~~l~Dl~~D~P~~~~~la~~~~~~i~~~~lp 113 (113)
T PF02847_consen 81 LLESLEDLELDIPKAPEYLAKFLARLIADGILP 113 (113)
T ss_dssp HHHHHHHHHHHSTTHHHHHHHHHHHHHHTTSS-
T ss_pred HHhHhhhccccchHHHHHHHHHHHHHHHcCCcC
Confidence 999999999999999999999999999999986
No 6
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=99.87 E-value=1.3e-21 Score=215.66 Aligned_cols=193 Identities=25% Similarity=0.478 Sum_probs=168.6
Q ss_pred hHHHHHHHHHHHhhcCCHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCC
Q 045399 218 EKERVLKTVKGILNKLTPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPG 297 (802)
Q Consensus 218 e~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~ 297 (802)
.||.+.++|.+|+||++.+|+..++.+|+..+|.....| +...|++-....|.|+.+||.|...|+.++|.+
T Consensus 160 nWEalkksInglInkvn~sNi~~ii~eLfqeNiirgRgl--~crsv~~aq~asp~ft~vyaALvAviNskfP~I------ 231 (739)
T KOG2140|consen 160 NWEALKKSINGLINKVNASNIQEIIRELFQENIIRGRGL--LCRSVMQAQAASPGFTPVYAALVAVINSKFPQI------ 231 (739)
T ss_pred HHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHhccch--hHHHHHHHHhcCCCCcHHHHHHHHHHccCCchH------
Confidence 378999999999999999999999999999988766655 666777777788999999999999999999876
Q ss_pred CchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 045399 298 GKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELL 377 (802)
Q Consensus 298 ~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL 377 (802)
.....++++|+ |.+.. .++| |..|++.++||++|++++|.+|-++++++..||
T Consensus 232 -gElLlkrLilq-----f~r~f----------------~RnD-----k~~c~~~~kfiahLinq~VahEIv~Leil~lLL 284 (739)
T KOG2140|consen 232 -GELLLKRLILQ-----FKRSF----------------RRND-----KVSCLNASKFIAHLINQQVAHEIVALEILTLLL 284 (739)
T ss_pred -HHHHHHHHHHH-----HHHHh----------------cccc-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35667777776 66652 2233 356899999999999999999999999999999
Q ss_pred cCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhCCCCcc
Q 045399 378 GHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNPQLAPRLRFMVRDVLDLRANNWVPR 452 (802)
Q Consensus 378 ~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~~lssRIRFML~dvidLR~n~W~~r 452 (802)
+. |++++||.++.+|+.||.+|-...+ ..++.+|++|+.|+....++.|++|||+.++..|+.+++.-
T Consensus 285 e~-----PTddSvevaI~flkecGakL~~VSp--r~~n~IfErlR~ILhe~Eld~rvqy~iEtlf~iRkdkfk~~ 352 (739)
T KOG2140|consen 285 ER-----PTDDSVEVAIAFLKECGAKLAEVSP--RALNGIFERLRYILHEGELDRRVQYMIETLFQIRKDKFKSH 352 (739)
T ss_pred cC-----CCCchHHHHHHHHHHHHHHHHHhCh--HHHhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHhhccC
Confidence 86 8999999999999999999997654 67899999999999999999999999999999999988864
No 7
>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]
Probab=99.82 E-value=6e-20 Score=199.92 Aligned_cols=146 Identities=22% Similarity=0.367 Sum_probs=137.2
Q ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHH
Q 045399 636 LDELCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTG 715 (802)
Q Consensus 636 ~eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~G 715 (802)
...|++.+.+||.|||.++|+.|.++|+++|+.|.|.+-|++.+|++|||++..++|+++.||+.|+-+ ++|++++.+|
T Consensus 341 ~r~Fkk~~~~IIqEYFlsgDt~Evi~~L~DLn~~E~~~~f~k~lITLAldrK~~ekEMasvllS~L~~e-~fsteDv~~~ 419 (645)
T KOG0403|consen 341 LRAFKKDLTPIIQEYFLSGDTPEVIRSLRDLNLPEYNPGFLKLLITLALDRKNSEKEMASVLLSDLHGE-VFSTEDVEKG 419 (645)
T ss_pred HHHHHHhhHHHHHHHHhcCChHHHHHHHHHcCCccccchHHHHHHHHHhccchhHHHHHHHHHHHhhcc-cCCHHHHHHH
Confidence 567999999999999999999999999999999999999999999999999999999999999999986 9999999999
Q ss_pred HHHHhhcchhhhcCCCchhHHHHHHHHHHHHhCCCCHHHHHHHHHhhHhHHHHHHHHHHHHHHHHhC
Q 045399 716 CLLFGALMDDVGIDLPRAPNNFGEIIGKLILAGGLDFKVVQEILKKMEEEMYRKSVLDAALRIISCS 782 (802)
Q Consensus 716 f~~vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~~~~l~~~~~~~e~~~~~~~v~~a~l~~l~~~ 782 (802)
|..+|+.++|+++|+|.|++.||.|+||||.|++|-+..|+++..++.+.-...+.+..+-..|+..
T Consensus 420 F~mLLesaedtALD~p~a~~elalFlARAViDdVLap~~leei~~~lp~~s~g~et~~~ArsLlsar 486 (645)
T KOG0403|consen 420 FDMLLESAEDTALDIPRASQELALFLARAVIDDVLAPTNLEEISGTLPPVSQGRETLDKARSLLSAR 486 (645)
T ss_pred HHHHHhcchhhhccccccHHHHHHHHHHHHhhcccccCcHHHHcCCCCCchhhHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999988866666666666666655
No 8
>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]
Probab=99.77 E-value=2.6e-18 Score=187.30 Aligned_cols=128 Identities=27% Similarity=0.414 Sum_probs=124.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHH
Q 045399 636 LDELCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTG 715 (802)
Q Consensus 636 ~eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~G 715 (802)
-++++|++.+||+|||+.+|+.-|+..++||....|||.||+++|.+||||.++++|+++.||+.||.. +|+++|+..|
T Consensus 46 l~dykk~~~sii~eyfstgdv~vaa~dl~elg~seyhpyfvkrlvsmamdrhdkekemasvlls~lyad-vi~p~qir~g 124 (645)
T KOG0403|consen 46 LSDYKKKAVSIIDEYFSTGDVVVAASDLKELGSSEYHPYFVKRLVSMAMDRHDKEKEMASVLLSALYAD-VIDPDQIRDG 124 (645)
T ss_pred HHHHHHHHHHHHHHHccCCCchhhHHHHHHhccccccHHHHHHHHHHHhhccchHHHHHHHHHHHHHHH-hcChHHHHHH
Confidence 578999999999999999999999999999999999999999999999999999999999999999995 9999999999
Q ss_pred HHHHhhcchhhhcCCCchhHHHHHHHHHHHHhCCCCHHHHHHHHHhhHh
Q 045399 716 CLLFGALMDDVGIDLPRAPNNFGEIIGKLILAGGLDFKVVQEILKKMEE 764 (802)
Q Consensus 716 f~~vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~~~~l~~~~~~~e~ 764 (802)
|-+++++.+|+++|||+|-+.||-||||+|.|++||+.|+....+-+.+
T Consensus 125 f~~ll~s~ddl~vdipdavnvlalfiaraivddilpp~fl~r~~k~lp~ 173 (645)
T KOG0403|consen 125 FIRLLESADDLAVDIPDAVNVLALFIARAIVDDILPPAFLKRAKKLLPD 173 (645)
T ss_pred HHHHHHhcccceecCchHHHHHHHHHHHHHHHhccChHHHHHHHhhCCC
Confidence 9999999999999999999999999999999999999999998887654
No 9
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=99.61 E-value=2e-14 Score=164.44 Aligned_cols=200 Identities=20% Similarity=0.273 Sum_probs=151.8
Q ss_pred HHHHHHHHHHHhhcCCHhhHHHHHHHHHHhccCC-HHHHHHHHHHHHHHhhcCC-----CchHHHHHHHHHHhhhCCCCC
Q 045399 219 KERVLKTVKGILNKLTPEKFDLLKGQLIDSGITS-ADILKEVISLIFDKAVLEP-----TFCPMYAQLCSDLNEKLPPFP 292 (802)
Q Consensus 219 ~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l~I~s-~e~Lk~VI~lIFeKAi~Ep-----~fs~~YA~LC~~L~~~lp~~~ 292 (802)
..++.|+|+++||||+..|+.+|+..|-.++..+ ....+..+.-...+|+.-| .++..||.|...|+....
T Consensus 316 l~rl~rkv~g~LNKLSdaNi~~I~~~i~~Ly~~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~~~y~AL~~~l~~~vg--- 392 (822)
T KOG2141|consen 316 LQRLRRKVNGSLNKLSDANIIKIIAGIAELYMNNSRYDVTSSLTKLLLKALLGPFRLLDSLLTTYAALAAMLHTMVG--- 392 (822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHh---
Confidence 4579999999999999999999999999987643 2233333333444454433 589999999999998642
Q ss_pred CCCCCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHH
Q 045399 293 SDEPGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHI 372 (802)
Q Consensus 293 ~~e~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~c 372 (802)
..|.-.+|....+.|-...+..+ ++... -+.|.|++.|+++||+++++.+.+|+++
T Consensus 393 --------~eigahf~q~~ve~f~~~~~~~~----------~~~~~------~K~~~Nl~~~l~ylynF~ivs~~Liydi 448 (822)
T KOG2141|consen 393 --------NEIGAHFLQTFVEDFLKSYKEEE----------EMDLK------DKSLNNIVLFLSYLYNFGIVSCSLIYDI 448 (822)
T ss_pred --------hHHHHHHHHHHHHHHHHHHHHHH----------hcccc------cchhhhHHHHHHHHHHhhcccHHHHHHH
Confidence 33455556666666766543111 11111 2457899999999999999999999999
Q ss_pred HHHHhcCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCCC---CChHHHHHHHHHHHHHhCCC
Q 045399 373 VQELLGHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNPQ---LAPRLRFMVRDVLDLRANNW 449 (802)
Q Consensus 373 I~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~~---lssRIRFML~dvidLR~n~W 449 (802)
|..|..+ ++|-++|||..++..||..|..++. ..+.+++..|+....+.. .++|+|||++.++.|++|+-
T Consensus 449 I~kl~~~-----l~e~~ve~ll~ii~~~G~~LRkDDp--~alk~~i~eiq~~a~~a~~s~~~pR~rFmleti~aLKnN~~ 521 (822)
T KOG2141|consen 449 IRKLAEN-----LNETNVEALLTIIANCGFSLRKDDP--LALKDIITEIQSKAASAKISAISPRLRFMLETISALKNNKL 521 (822)
T ss_pred HHHHHhc-----hhhhhHHHHHHHHHHccchhcCCCh--HHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHhcCCC
Confidence 9999986 7899999999999999999998654 567777777777665432 47999999999999999887
Q ss_pred Ccc
Q 045399 450 VPR 452 (802)
Q Consensus 450 ~~r 452 (802)
++-
T Consensus 522 kki 524 (822)
T KOG2141|consen 522 KKI 524 (822)
T ss_pred cCC
Confidence 654
No 10
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.96 E-value=6.4e-09 Score=124.21 Aligned_cols=188 Identities=19% Similarity=0.323 Sum_probs=142.8
Q ss_pred HHHHHHHHhhcC----CHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCC
Q 045399 222 VLKTVKGILNKL----TPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPG 297 (802)
Q Consensus 222 l~r~Vk~ILNKL----Tpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~ 297 (802)
+..+|...|-+| +.+-+|..+-++... ++|...=+.+++.+|.---..-...+.|++|++.|+...|++
T Consensus 423 ~~~~~d~Fl~~L~~~vsrdliD~~a~ef~~n-lNtKa~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~M~dv------ 495 (1128)
T KOG2051|consen 423 VVSNVDCFLLDLPNCVSRDLIDQAAIEFCSN-LNTKANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKCMPDV------ 495 (1128)
T ss_pred HHHHHHHHHccCcchHHHHHHHHHHHHHHHH-hccHHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhhhhHH------
Confidence 333444444444 345556666665554 778888888999999766677788899999999999988765
Q ss_pred CchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 045399 298 GKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELL 377 (802)
Q Consensus 298 ~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL 377 (802)
-.-|++..-++|...-.... + .+.+. .+-+|+|||||.|+++++...++.|++.||
T Consensus 496 ------at~lv~~L~~eFr~~~hkK~---q----------~~iet-----k~~~VrfIsEL~KF~lv~~~~if~cLk~ll 551 (1128)
T KOG2051|consen 496 ------ATELVTMLRKEFRSHLHKKA---Q----------INIET-----KLKIVRFISELCKFQLVPKFEIFSCLKMLL 551 (1128)
T ss_pred ------HHHHHHHHHHHHHHHHhhhh---h----------hhhhh-----hhhhhhhHHhhhhhCccChHHHHHHHHHHH
Confidence 33466666777876521110 0 01111 245899999999999999999999999998
Q ss_pred cCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHH
Q 045399 378 GHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNPQLAPRLRFMVRDVLDLR 445 (802)
Q Consensus 378 ~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~~lssRIRFML~dvidLR 445 (802)
.. ..-.+||.+|.||.+||..|-..+.++..|..++++|+.......+.+|..-+|++++-+=
T Consensus 552 ~d-----F~~hnIEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~~ 614 (1128)
T KOG2051|consen 552 ND-----FTHHNIEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYLC 614 (1128)
T ss_pred Hh-----cccccHHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHhc
Confidence 75 3556899999999999999998888888899999999987777888999999999988774
No 11
>KOG3942 consensus MIF4G domain-containing protein [Translation, ribosomal structure and biogenesis]
Probab=98.80 E-value=3.8e-08 Score=104.44 Aligned_cols=170 Identities=18% Similarity=0.158 Sum_probs=132.8
Q ss_pred CHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCc
Q 045399 252 SADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAP 331 (802)
Q Consensus 252 s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~ 331 (802)
+.+.|-.++-.|+.+||..-.|.-..++||..+....- +.+.|+..||+.|++.|+-+..++
T Consensus 163 ~de~l~rc~~~~~r~avegg~ggl~v~klC~n~~~~~~---------~gt~f~~~Lln~lrq~f~~r~gl~--------- 224 (348)
T KOG3942|consen 163 DDEMLFRCGPTIARQAVEGGGGGLFVCKLCTNLGSSWR---------NGTQFMDELLNLLRQGFLLRTGLS--------- 224 (348)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCchhHHHHhhhhhhhhh---------ccchHHHHHHHHHHHhhccchhcc---------
Confidence 34778888889999999999999999999998875421 235699999999999998773321
Q ss_pred hHHHHHHhHHHHHhhhhhhHHHHHHHHHhcC-----CCCHHHHHHHHHHHhcCCCCCCCChhcHHHHHHHHHHHhhhhhc
Q 045399 332 DQESERRDKERLVKLRTLGNIRLIGELLKQK-----MVPEKIVHHIVQELLGHDSSTCPAEENVEAICQFVNTIGKQLDE 406 (802)
Q Consensus 332 e~E~E~~dke~~~Krr~lGnIrFIGELyk~~-----ml~e~Im~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~ 406 (802)
.....||++.|.|++|||-+- ++=..+++.|+..|+... .-.+..+|||.-.|...|..|++
T Consensus 225 ----------s~~~~rw~~fisfltelf~nlgs~p~~vL~~~l~~cl~~llrsp---d~~~~e~ecl~~~L~~~g~dle~ 291 (348)
T KOG3942|consen 225 ----------SLASCRWWRFISFLTELFDNLGSCPQVVLQRSLRLCLQILLRSP---DWPEFEYECLSMKLAVEGLDLEK 291 (348)
T ss_pred ----------chhHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHHHccCC---CcchHHHHHHHHHHHHcCccchh
Confidence 112368999999999999864 455788999999999862 13478999999999999999996
Q ss_pred CCchhHhHHHHHHHHHHHhcCCCCC-hHHHHHHHHHHHHHhCCCCcccc
Q 045399 407 GPKSRRINDMYFSRLKELTTNPQLA-PRLRFMVRDVLDLRANNWVPRRE 454 (802)
Q Consensus 407 ~~k~~~~mD~~F~rL~~l~~~~~ls-sRIRFML~dvidLR~n~W~~r~~ 454 (802)
.- +..|..+|.-.++..-+..-| .-+|.||..+|||.++.|+++..
T Consensus 292 ql--P~ql~lL~~s~rDafL~~sep~a~~r~~lllliel~As~wqlpt~ 338 (348)
T KOG3942|consen 292 QL--PFQLLLLFPSRRDAFLVRSEPLAPWRCPLLLLIELPASAWQLPTT 338 (348)
T ss_pred hh--hHHHHHHHHHHHHhhhccccccccccchhhhccccCccccCCCCC
Confidence 43 256777777777654443333 23699999999999999998754
No 12
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.16 E-value=5.9e-05 Score=91.23 Aligned_cols=194 Identities=16% Similarity=0.244 Sum_probs=129.9
Q ss_pred HHHHHHhh-cCCHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhh
Q 045399 224 KTVKGILN-KLTPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKEIT 302 (802)
Q Consensus 224 r~Vk~ILN-KLTpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~ 302 (802)
..||-++- .|+.++|+.++.+|-.+.+.++++-+.+|..+..-=.-.-+-...-|.|..-|+...|.|.
T Consensus 632 efiR~Li~~dL~k~tvd~~lkllRkl~W~D~e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fv---------- 701 (1128)
T KOG2051|consen 632 EFIRYLIRSDLSKDTVDRVLKLLRKLDWSDPEVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFV---------- 701 (1128)
T ss_pred HHHHHHHHHHhccccHHHHHHHHHhcccccHHHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhh----------
Confidence 34444333 6667788888999999888888888888887764333333334445666666666555442
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCC
Q 045399 303 FKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLGHDSS 382 (802)
Q Consensus 303 Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~ 382 (802)
-.++.. .+|.. ... +|-.+ ...+.|++.++|||||||++.|+...+|+..|..++.-...
T Consensus 702 --i~VID~---vlE~I-------r~g------lEin~--~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~g~~ 761 (1128)
T KOG2051|consen 702 --IHVIDH---VLEDI-------RPG------LEIND--YVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISLGHF 761 (1128)
T ss_pred --hhhHHH---HHHHH-------Hhh------hhcCc--HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhccccc
Confidence 122221 12221 100 11111 24467889999999999999999999999999998863211
Q ss_pred CC-------CCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCC--CCChHHHHHHHHHHHHHhCC
Q 045399 383 TC-------PAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNP--QLAPRLRFMVRDVLDLRANN 448 (802)
Q Consensus 383 ~~-------p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~--~lssRIRFML~dvidLR~n~ 448 (802)
.. |.+ .-|..+|.||.|||..++. .+++..|+.|+-..+.+.--+ ..|--+.++.+|++.+-.-+
T Consensus 762 ~~~~~~~ldppddlFRirlV~~lL~tc~~yf~r-gs~kkkl~~fL~~fq~Y~~iKk~~~Pld~~~~f~d~~~~~rp~ 837 (1128)
T KOG2051|consen 762 ENLTPSALDPPDDLFRIRLVCMLLQTCGPYFTR-GSTKKKLDQFLVAFQRYILIKKSQQPLDMEYEFEDFLELVRPE 837 (1128)
T ss_pred CCCCcccCCChHHHHHHHHHHHHHHHccccccc-chhHHHHHHHHHHHHHHhhcccccCCCchhhhHHhhhhhcccc
Confidence 11 222 2699999999999999996 356678998888777654333 47889999999999986433
No 13
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=97.77 E-value=3.3e-06 Score=104.95 Aligned_cols=268 Identities=20% Similarity=0.219 Sum_probs=174.3
Q ss_pred cccccccCCCcccc------CCC---Ch-----HHHHHHHHHHHhhcCCHhhHHHHHHHHHHh-----ccCCHHHHHHHH
Q 045399 200 PALIKAEVPWSAKR------GNL---SE-----KERVLKTVKGILNKLTPEKFDLLKGQLIDS-----GITSADILKEVI 260 (802)
Q Consensus 200 ~~l~~~en~w~~~r------~~~---se-----~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l-----~I~s~e~Lk~VI 260 (802)
++....++.|.+.. ..+ ++ .+...+.+++.+|++++++|+.+...++.. .-.+.+..+.++
T Consensus 591 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k~~~ 670 (970)
T KOG0401|consen 591 APEAPSANRWSPKSLSKKTEGRLAEESDSGLLGKEVVERKGKSGLRKLTPEMFDKISDPILDIADQSMDEEDGEASKQKG 670 (970)
T ss_pred chhhhhhcccCcccccccccccccccccccccCccccccccccccccCChhhcccccccccccchhhccccccchhhhcc
Confidence 55666778887642 111 11 233478899999999999999999998754 234577999999
Q ss_pred HHHHHHhhcCCCchHHHHHHHHHHhhhCCC-CCC--CCCCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHH--
Q 045399 261 SLIFDKAVLEPTFCPMYAQLCSDLNEKLPP-FPS--DEPGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQES-- 335 (802)
Q Consensus 261 ~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~-~~~--~e~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~-- 335 (802)
..++.|+..+++|+.+|+..|......+.. +.. .........+...+..+|+++|.+.+.-.--.........|+
T Consensus 671 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~e~~~ 750 (970)
T KOG0401|consen 671 EQGGRKASDEQHFSSMRAPALEKVVPSLSSDIDDKRNRGSNGELLSDSYLSARCHEEFENGWSRELPSGKDGEREPEMMS 750 (970)
T ss_pred cccccccCccccccccCCccccccccccccccccccccCCccccccccccchhhhhhccccccccCCCCcccccchhhcC
Confidence 999999999999999999999776543321 100 111123457888999999999988753210000000000010
Q ss_pred HHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHH
Q 045399 336 ERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRIND 415 (802)
Q Consensus 336 E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD 415 (802)
.........+++.+|++ +......+.+.+..|++.|+...+... ..+..+.++..|.++++||..++..-.....+.
T Consensus 751 ~~~~~~~~~~~~~~~~v-~~~~~~~l~~~sk~l~ee~~~~~~~~~--~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~~~~ 827 (970)
T KOG0401|consen 751 PEYYAAKAAKRAGLGLV-IALSSELLELLSKSLLEEFLSLRLEKE--ALKCIEELESPSLLLKTVGENIEPTLEKSPQAV 827 (970)
T ss_pred cccchhhhhhccCCcch-hhhhHHHHHHHHHHHHHHHHHHhhhhh--hhhhhhcccchhhhHHHHHHhcCcccccChhHH
Confidence 01112245678999999 666666677888999999888777642 346788999999999999999985322112233
Q ss_pred HHHHHHHHHh-c-C------CCCChHHHHHHHHHHHHH-hCCCCccccccCcccHHHHHHHHHH
Q 045399 416 MYFSRLKELT-T-N------PQLAPRLRFMVRDVLDLR-ANNWVPRREEVTAKTITEIHSEAEK 470 (802)
Q Consensus 416 ~~F~rL~~l~-~-~------~~lssRIRFML~dvidLR-~n~W~~r~~~~~pkti~eI~~ea~~ 470 (802)
.+..+|..++ . + -..+.+..|-+.+.+.++ -+.|.--.+..+|++++.|+.+.+.
T Consensus 828 ~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d~pk~w~~~~e~~gp~~~~~~~~~~e~ 891 (970)
T KOG0401|consen 828 EELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELDLPKGWNYIKEFLGPLIHQKILDESEL 891 (970)
T ss_pred HHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhcccccchhHHHHhhhhHhhhccccHHHH
Confidence 3333333221 1 1 234566666666666666 3778877777788888888876554
No 14
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=96.42 E-value=0.12 Score=61.84 Aligned_cols=202 Identities=15% Similarity=0.232 Sum_probs=137.6
Q ss_pred CCChHHHHHHHHHHHhhcCC-------HhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhh
Q 045399 215 NLSEKERVLKTVKGILNKLT-------PEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEK 287 (802)
Q Consensus 215 ~~se~e~l~r~Vk~ILNKLT-------penfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~ 287 (802)
..++.+.+.+++.+.+-++. .+|++.++.-|..- + +..-..+++.|-.-|+.-|.-+..||-|.-.|+.+
T Consensus 20 r~~~~e~l~krl~~~i~~vg~~s~ss~e~~l~~l~~~l~~~-~--~~~~~~iL~~L~~ca~~lP~K~~~yaTLvgllN~k 96 (759)
T KOG1104|consen 20 RISPAETLEKRLESLIREVGEPSGSSVEDNLENLVAVLEAD-L--ENFKSKILDILNTCAVYLPEKITAYATLVGLLNLK 96 (759)
T ss_pred cCCcHHHHHHHHHHHHHhhcCCCCCcHHHhHHHHHHHHHhh-H--HHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhcc
Confidence 45677888888888888887 34555554444431 1 11445677888888999999999999999999876
Q ss_pred CCCCCCCCCCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHH
Q 045399 288 LPPFPSDEPGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEK 367 (802)
Q Consensus 288 lp~~~~~e~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~ 367 (802)
-+. |-.-+++..-.+|... +... .. .++-+.+||+..|++-+||...
T Consensus 97 n~~------------fg~~~v~~~~~~~q~s------l~~~----------~~-----n~ar~llrfL~dL~~~~vl~~~ 143 (759)
T KOG1104|consen 97 NFN------------FGGEFVEYMIEELQES------LKSG----------NW-----NEARYLLRFLSDLSNCHVLQAD 143 (759)
T ss_pred chh------------hHHHHHHHHHHHHHHH------hhcC----------Ch-----HHHHHHHHHHHHHhcCCccChH
Confidence 443 3333444333333221 0000 00 1234899999999999999999
Q ss_pred HHHHHHHHHhcCCCC-CCC---ChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCC---------------
Q 045399 368 IVHHIVQELLGHDSS-TCP---AEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNP--------------- 428 (802)
Q Consensus 368 Im~~cI~~LL~~~~~-~~p---~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~--------------- 428 (802)
-|..++..|+..... ..| .+.-+-|+..-|--+|+.|.+. .+..|+.++..++..+..+
T Consensus 144 sli~l~esl~~~~~e~~~Pqvr~D~~v~~vLs~lPw~g~el~e~--~~~~~e~ll~~ie~Yl~~R~~shi~lL~vw~~~~ 221 (759)
T KOG1104|consen 144 SLINLFESLLDAAIEENVPQVRRDYYVYCVLSSLPWFGRELNEK--KPTEMEELLVYIEIYLKKRKKSHINLLNVWSGEP 221 (759)
T ss_pred HHHHHHHHHHHHHHhhcCcchhhhHHHHHHHhccchhhhhhccc--chHHHHHHHHHHHHHHHHhcccccchhhcCCCCC
Confidence 998898888874210 112 4567888888888999999864 3478899998887654321
Q ss_pred CCChH--HHHHHHHHHHHHhCCCCcccc
Q 045399 429 QLAPR--LRFMVRDVLDLRANNWVPRRE 454 (802)
Q Consensus 429 ~lssR--IRFML~dvidLR~n~W~~r~~ 454 (802)
...++ ++.+...|..+|.|+|+.+.-
T Consensus 222 ~~~qeeyle~L~~qI~~lr~n~w~e~hI 249 (759)
T KOG1104|consen 222 DHPQEEYLELLWAQIQKLRQNDWAENHI 249 (759)
T ss_pred CchHHHHHHHHHHHHHHHHhcCcccccC
Confidence 12222 788999999999999997543
No 15
>PF12152 eIF_4G1: Eukaryotic translation initiation factor 4G1; InterPro: IPR022745 The eukaryotic initiation factor 4G (eIF4G) is the core of a multicomponent switch controlling gene expression at the level of translation initiation. It interacts with the small ribosomal subunit interacting protein, eIF3, and the eIF4E/cap-mRNA complex in order to load the ribosome onto mRNA during cap-dependent translation. This entry represents the eIF4E-binding domain of eIF4G []. Binding of this domain to its substrate triggers a coupled folding transition where it forms a right-handed helical ring that wraps around the N terminus of eIF4E.; PDB: 1RF8_B.
Probab=92.23 E-value=0.083 Score=46.31 Aligned_cols=32 Identities=22% Similarity=0.358 Sum_probs=17.8
Q ss_pred CCCCCCCCCCC-cccccCHHHHHHHHHhh-cCCh
Q 045399 68 SATGDSRFEGR-ERVRYTREQLLQLREAA-VIDD 99 (802)
Q Consensus 68 ~~~~~~~~~~~-~~~~y~~~~l~~~~~~~-~~p~ 99 (802)
++.-|++++.. -+.||.++|||||++.| .-|+
T Consensus 40 i~~P~~~ln~~~~kf~Yd~~FLLQF~~v~~~kpd 73 (75)
T PF12152_consen 40 IESPDPALNKAAKKFRYDPDFLLQFQDVFKEKPD 73 (75)
T ss_dssp ---SSTTGGGSS-SS---HHHHHHHHHHH----S
T ss_pred CCCCCHHHccccCccccCHHHHHHHHHHhccCCC
Confidence 44556666555 68999999999999999 5554
No 16
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=89.03 E-value=5.7 Score=47.33 Aligned_cols=155 Identities=23% Similarity=0.318 Sum_probs=90.0
Q ss_pred HHHHHHHHHhhcCCHhhHHHHHHHHHHhcc----CCHHHHHHHHHHHHHHhhcCCCc----hHHHHHHHHHHhhhCCCCC
Q 045399 221 RVLKTVKGILNKLTPEKFDLLKGQLIDSGI----TSADILKEVISLIFDKAVLEPTF----CPMYAQLCSDLNEKLPPFP 292 (802)
Q Consensus 221 ~l~r~Vk~ILNKLTpenfd~l~~qLl~l~I----~s~e~Lk~VI~lIFeKAi~Ep~f----s~~YA~LC~~L~~~lp~~~ 292 (802)
-|.-.|+.+|..+|.+.|+.++.=|-.+.+ .+.+-.+.++++|++.|..+..| ...+.+|...+...+|-|.
T Consensus 178 ~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~~~Alp~fs 257 (556)
T PF05918_consen 178 FIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQADLDQPFDPSDPESIDRLISCLRQALPFFS 257 (556)
T ss_dssp HHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHHTTTS---SSSHHHHHHHHHHHHHHGGG-B
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHhhHHhc
Confidence 467789999999999999999966666666 57889999999999999644333 4777888888888887663
Q ss_pred CCCCCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcC-CCC-HHHHH
Q 045399 293 SDEPGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQK-MVP-EKIVH 370 (802)
Q Consensus 293 ~~e~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~-ml~-e~Im~ 370 (802)
. +...+.|-.++..+ -|-.... + ++ + +.+-.++.++|+--+- -.. ..++-
T Consensus 258 ~---~v~Sskfv~y~~~k---vlP~l~~-------l--~e------~-------~kl~lLk~lAE~s~~~~~~d~~~~L~ 309 (556)
T PF05918_consen 258 R---GVSSSKFVNYMCEK---VLPKLSD-------L--PE------D-------RKLDLLKLLAELSPFCGAQDARQLLP 309 (556)
T ss_dssp T---TB--HHHHHHHHHH---TCCCTT---------------------------HHHHHHHHHHHHHTT----THHHHHH
T ss_pred C---CCChHHHHHHHHHH---hcCChhh-------C--Ch------H-------HHHHHHHHHHHHcCCCCcccHHHHHH
Confidence 2 23345565555442 2222111 1 00 0 1145777888887652 122 23332
Q ss_pred HHHHHHhcCC--CCCCC--ChhcHHHHHHHHHHHhhh
Q 045399 371 HIVQELLGHD--SSTCP--AEENVEAICQFVNTIGKQ 403 (802)
Q Consensus 371 ~cI~~LL~~~--~~~~p--~Ee~IE~Lc~LL~tiGk~ 403 (802)
.++..|+..- ....| .--.||||...+..+|+.
T Consensus 310 ~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 310 SIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp HHHHHHHTTS----------HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 3333333211 11112 123799999998888876
No 17
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=87.53 E-value=6.4 Score=36.26 Aligned_cols=63 Identities=22% Similarity=0.293 Sum_probs=45.5
Q ss_pred HHHHHHHhhcC-CHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcC-CCchHHHHHHHHHHhhh
Q 045399 223 LKTVKGILNKL-TPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLE-PTFCPMYAQLCSDLNEK 287 (802)
Q Consensus 223 ~r~Vk~ILNKL-Tpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~E-p~fs~~YA~LC~~L~~~ 287 (802)
+|+|+.+|.-- +-...+..+..|.++++. .....||..+++.++++ ..+..+|+.|...|...
T Consensus 2 rk~i~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~ 66 (113)
T PF02847_consen 2 RKKIFSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKR 66 (113)
T ss_dssp HHHHHHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHT
T ss_pred hHHHHHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhc
Confidence 45555555421 123567777888887666 66778889999999998 89999999999999864
No 18
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=76.77 E-value=13 Score=34.32 Aligned_cols=62 Identities=24% Similarity=0.311 Sum_probs=45.8
Q ss_pred HHHHHHhhc-CCHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcC-CCchHHHHHHHHHHhhh
Q 045399 224 KTVKGILNK-LTPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLE-PTFCPMYAQLCSDLNEK 287 (802)
Q Consensus 224 r~Vk~ILNK-LTpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~E-p~fs~~YA~LC~~L~~~ 287 (802)
++|..+|+- ++...++..+.-|.++++. .....|+..++.-++++ ..|..+|+.|...|...
T Consensus 3 k~i~~~l~ey~~~~D~~ea~~~l~~L~~~--~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~ 66 (113)
T smart00544 3 KKIFLIIEEYLSSGDTDEAVHCLLELKLP--EQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQA 66 (113)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHhCCC--cchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHc
Confidence 444444432 2245677888888888766 36677888888888888 58999999999999864
No 19
>PF07817 GLE1: GLE1-like protein; InterPro: IPR012476 The members of this family are sequences that are similar to the human protein GLE1 (O75458 from SWISSPROT). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm []. ; GO: 0016973 poly(A)+ mRNA export from nucleus, 0005643 nuclear pore; PDB: 3PEV_B 3RRN_B 3PEU_B 3RRM_B.
Probab=74.49 E-value=82 Score=33.98 Aligned_cols=169 Identities=17% Similarity=0.163 Sum_probs=94.3
Q ss_pred HHHHHHHHHHhhcCCH--hhHHHHHHHHHHh----------c---cC-CHH----HHHHHHHHHHHHhhc----CCCchH
Q 045399 220 ERVLKTVKGILNKLTP--EKFDLLKGQLIDS----------G---IT-SAD----ILKEVISLIFDKAVL----EPTFCP 275 (802)
Q Consensus 220 e~l~r~Vk~ILNKLTp--enfd~l~~qLl~l----------~---I~-s~e----~Lk~VI~lIFeKAi~----Ep~fs~ 275 (802)
..+.|.|+.-+|.||. +.+..++.+|.++ - .. ... .|..+++.|...|-. .|..+.
T Consensus 27 ~~~kr~I~~~vgQls~~~~qi~~i~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~l~~lAk~iv~Q~e~ev~~~~~~A~ 106 (256)
T PF07817_consen 27 FDLKRKINPKVGQLSNSSSQINRIINQISNLLSGQPVKSNDLQQSKNDHPLAYKYLLNFLAKKIVSQAETEVSANPESAF 106 (256)
T ss_dssp HHHHHHHCCHHHC--SBHHHHHHHHHHHHHH----------HHTTTT-SHHHHHHHHHHHHHHHHHHHHHHHHH-GGGHH
T ss_pred HHhhhhCcCcHhhccCcHHHHHHHHHHHHHHhhhhhhchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHhccCCchhh
Confidence 3577888888888884 4566666666665 1 11 122 444555555555544 477888
Q ss_pred HHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHH--hh------h-hhhHHHHHhcCC---chHHHHHHhHHHH
Q 045399 276 MYAQLCSDLNEKLPPFPSDEPGGKEITFKRVLLNICQEAF--EG------A-DKLREEVRQMTA---PDQESERRDKERL 343 (802)
Q Consensus 276 ~YA~LC~~L~~~lp~~~~~e~~~~~~~Frr~LL~rcQeeF--e~------~-~~~~~e~~~~~~---~e~E~E~~dke~~ 343 (802)
-||.++..|....|+ |..+|+.++.+.- -- . ..-.++..+.-+ .+...| .+..
T Consensus 107 PlA~v~~~l~~~~p~------------~~dillA~l~k~Cp~~vP~~~~~~~~~~~e~~~k~lGyk~~~~~~E---~~~~ 171 (256)
T PF07817_consen 107 PLARVAVQLWSQHPE------------FGDILLARLHKKCPYLVPKYPGFTCDQSTEEYRKRLGYKRDDGGWE---SEDQ 171 (256)
T ss_dssp HHHHHHHHHHHHSTC------------HHHHHHHHHHHH-GGGG----T-----SSHHHHHHTT--B-TTSB-----HHH
T ss_pred hHHHHHHHHHHcCCc------------HHHHHHHHHHHcCceeEeecCcccCCCCHHHHHHHcCCccCCCCcc---chHH
Confidence 899999999988765 4455655544331 11 0 001112211100 000012 1223
Q ss_pred HhhhhhhHHHHHHHHHhcCC---------CCHHHHHHHHHHHhcCCCCCCC-ChhcHHHHHHHHHHHhhhhhcC
Q 045399 344 VKLRTLGNIRLIGELLKQKM---------VPEKIVHHIVQELLGHDSSTCP-AEENVEAICQFVNTIGKQLDEG 407 (802)
Q Consensus 344 ~Krr~lGnIrFIGELyk~~m---------l~e~Im~~cI~~LL~~~~~~~p-~Ee~IE~Lc~LL~tiGk~Ld~~ 407 (802)
.-.|+-|.+++-+-+..... .+-.-.=..+..+|+.. | .+-...+|..+|+.+|..|-..
T Consensus 172 y~~Rm~Gi~~lyaAi~~~~~~~~~~~~~p~~~~~~W~wlAr~lN~~----p~~~~~~~lL~~~Le~ag~~l~~~ 241 (256)
T PF07817_consen 172 YLKRMTGIIRLYAAIIQTPPPKGQKTSNPHGLEHGWRWLARILNLP----PAPNITATLLHSFLEVAGFRLLQI 241 (256)
T ss_dssp HHHHHHHHHHHHHHHHHS---CCCCTT-SS-THHHHHHHHHHHCS-----CC-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhccCCcCCCCCCCCCcHHHHHHHHHHhCCC----CCcccHHHHHHHHHHHHHHHHHHH
Confidence 34688999999999987542 22233345666777652 3 4567889999999999999753
No 20
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=71.26 E-value=44 Score=39.50 Aligned_cols=49 Identities=22% Similarity=0.317 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhh
Q 045399 237 KFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNE 286 (802)
Q Consensus 237 nfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~ 286 (802)
-|+..+-.|+.+.|.... -+.|+.+|++-+..|-+|...|.-|..+++.
T Consensus 467 dfeEaaHKLLKmkip~~q-~~elc~mii~cc~QerTy~kFYglL~eRfc~ 515 (739)
T KOG2140|consen 467 DFEEAAHKLLKMKIPESQ-EKELCNMIIDCCAQERTYEKFYGLLGERFCM 515 (739)
T ss_pred cHHHHHHHHHhccCCchh-hHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 467777777777665432 2467888898888999999999888877664
No 21
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=63.38 E-value=31 Score=34.34 Aligned_cols=122 Identities=15% Similarity=0.074 Sum_probs=72.4
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHhhCCCC---ChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCC-cCHHHHHHHH
Q 045399 641 RKTISLLEEYFNIRVLEEALMCVEELKSPG---YHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKV-ITARDIGTGC 716 (802)
Q Consensus 641 kk~~siL~EY~~~~D~~EA~~cvkEL~~p~---~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~l-ls~~q~~~Gf 716 (802)
|+++.+|...- ..++++.+..+..+.... ....+|..+++.+.+.. ......++|...|....- -=...+.+.+
T Consensus 2 r~v~~~lnklt-~~n~~~~~~~l~~~~~~~~~~~~~~i~~~i~~~a~~~~-~~~~~~a~l~~~l~~~~~~~f~~~ll~~~ 79 (209)
T PF02854_consen 2 RKVRGILNKLT-PSNFESIIDELIKLNWSDDPETLKEIVKLIFEKAVEEP-NFSPLYARLCAALNSRFPSEFRSLLLNRC 79 (209)
T ss_dssp HHHHHHHHHCS-STTHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSG-GGHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred chHHHHHHHCC-HHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhhcCc-hHHHHHHHHHHHHhccchhhHHHHHHHHH
Confidence 55666666643 677777777777765543 34455555555555443 456677777777776422 1122233333
Q ss_pred HHHhhc------chhhhcCCCchhHHHHHHHHHHHHhCCCCHHHHHHHHHhhHh
Q 045399 717 LLFGAL------MDDVGIDLPRAPNNFGEIIGKLILAGGLDFKVVQEILKKMEE 764 (802)
Q Consensus 717 ~~vle~------LdDl~iDiP~A~~~La~~iar~I~d~~l~~~~l~~~~~~~e~ 764 (802)
...+.. +++..--.-.-..-+..|+|.+..-+.++...+.+++..+-.
T Consensus 80 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll~ 133 (209)
T PF02854_consen 80 QEEFEERYSNEELEENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELLS 133 (209)
T ss_dssp HHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHH
T ss_pred HHHHHHhhhhhhHHHHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHHh
Confidence 333333 222222223345567789999999999999888887777543
No 22
>PF05456 eIF_4EBP: Eukaryotic translation initiation factor 4E binding protein (EIF4EBP); InterPro: IPR008606 This family consists of several eukaryotic translation initiation factor 4E binding proteins (EIF4EBP1, -2 and -3). Translation initiation in eukaryotes is mediated by the cap structure (m7GpppN, where N is any nucleotide) present at the 5' end of all cellular mRNAs, except organellar. The cap is recognised by eukaryotic initiation factor 4F (eIF4F), which consists of three polypeptides, including eIF4E, the cap-binding protein subunit. The interaction of the cap with eIF4E facilitates the binding of the ribosome to the mRNA. eIF4E activity is regulated in part by translational repressors, 4E-BP1, 4E-BP2 and 4E-BP3 which bind to it and prevent its assembly into eIF4F [].; GO: 0008190 eukaryotic initiation factor 4E binding, 0045947 negative regulation of translational initiation; PDB: 2JGB_B 2V8Y_F 1WKW_B 3HXG_C 3U7X_D 3M94_C 3M93_C 2V8X_B 3HXI_C 2V8W_B ....
Probab=61.38 E-value=2.3 Score=40.50 Aligned_cols=20 Identities=35% Similarity=0.612 Sum_probs=8.6
Q ss_pred CCCcccccCHHHHHHHHHhh
Q 045399 76 EGRERVRYTREQLLQLREAA 95 (802)
Q Consensus 76 ~~~~~~~y~~~~l~~~~~~~ 95 (802)
-++.||-|+|+|||+++.--
T Consensus 43 PGGTRIIYdR~FLL~~RnSP 62 (116)
T PF05456_consen 43 PGGTRIIYDRKFLLECRNSP 62 (116)
T ss_dssp ---------HHHHHCTCG--
T ss_pred cCCcEEEEeHHHHHHhcCCC
Confidence 46789999999999998763
No 23
>PF04844 Ovate: Transcriptional repressor, ovate; InterPro: IPR006458 This group of sequences contain an uncharacterised domain of about 70 residues found exclusively in plants, generally toward the C terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana (Mouse-ear cress). Other regions of these proteins tend to consist largely of low-complexity sequence. Function is not known.
Probab=51.75 E-value=38 Score=28.61 Aligned_cols=46 Identities=26% Similarity=0.364 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHhc--CCCHHHHHHHHHhhCCCCChHHHHHHHHH
Q 045399 636 LDELCRKTISLLEEYFN--IRVLEEALMCVEELKSPGYHPEVVKEAIS 681 (802)
Q Consensus 636 ~eel~kk~~siL~EY~~--~~D~~EA~~cvkEL~~p~~~~e~V~~~I~ 681 (802)
-++|++.+..+|.|--- -.+++|-+.|.-.||.|.+|..+|.-...
T Consensus 5 ~~DFr~SM~EMI~~~~i~~~~~LeeLL~cYL~LN~~~~H~~Iv~aF~d 52 (59)
T PF04844_consen 5 YEDFRESMVEMIEENGIRDWDDLEELLACYLSLNSPEHHKFIVEAFVD 52 (59)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCChhhhhHHHHHHHH
Confidence 46889888888877543 34799999999999999998766655443
No 24
>PRK14137 recX recombination regulator RecX; Provisional
Probab=50.76 E-value=3.1e+02 Score=28.53 Aligned_cols=30 Identities=13% Similarity=0.048 Sum_probs=24.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCCCHHHH
Q 045399 630 PAGKLNLDELCRKTISLLEEYFNIRVLEEA 659 (802)
Q Consensus 630 ~~~~~s~eel~kk~~siL~EY~~~~D~~EA 659 (802)
....++++|+..++....-.|++.++-.+.
T Consensus 29 ~~~~~~~~e~~~~~~~~Al~~Ls~R~rS~~ 58 (195)
T PRK14137 29 RRTPPTPDEAREALLAYAFRALAARAMTAA 58 (195)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHhcchhhHH
Confidence 456789999999999999999888875444
No 25
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=48.02 E-value=1.4e+02 Score=29.45 Aligned_cols=94 Identities=9% Similarity=0.159 Sum_probs=61.2
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC
Q 045399 350 GNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN 427 (802)
Q Consensus 350 GnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~ 427 (802)
+.|.-||++.+.+-...+.....|.+-|.+. +|.. ..|..|=.+++.||..+...-..+. +++.|..++..
T Consensus 20 ~~ileicD~In~~~~~~k~a~rai~krl~~~---n~~v~l~AL~LLe~~vkNCG~~fh~evas~~----Fl~el~kl~~~ 92 (139)
T cd03567 20 EAIQAFCEQINKEPEGPQLAVRLLAHKIQSP---QEKEALQALTVLEACMKNCGERFHSEVGKFR----FLNELIKLVSP 92 (139)
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHHcCHHHHHHHHhHH----HHHHHHHHhcc
Confidence 6677889999887666555555555556542 1221 2566677788889998874322233 44445555432
Q ss_pred ----CCCChHHHHHHHHHHHHHhCCCC
Q 045399 428 ----PQLAPRLRFMVRDVLDLRANNWV 450 (802)
Q Consensus 428 ----~~lssRIRFML~dvidLR~n~W~ 450 (802)
...+..|+-.|..+|........
T Consensus 93 k~~~~~~~~~Vk~kil~li~~W~~~f~ 119 (139)
T cd03567 93 KYLGSRTSEKVKTKIIELLYSWTLELP 119 (139)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 45789999999999998776654
No 26
>PLN03218 maturation of RBCL 1; Provisional
Probab=47.73 E-value=88 Score=40.63 Aligned_cols=72 Identities=8% Similarity=-0.035 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhhCCCCCh-HHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHH
Q 045399 643 TISLLEEYFNIRVLEEALMCVEELKSPGYH-PEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTG 715 (802)
Q Consensus 643 ~~siL~EY~~~~D~~EA~~cvkEL~~p~~~-~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~G 715 (802)
...+|.-|...+++++|...++++...... ...+...+..++-+. ..-+.+.+++..+...|+.........
T Consensus 582 ynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~-G~~deAl~lf~eM~~~Gv~PD~~Tyns 654 (1060)
T PLN03218 582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQK-GDWDFALSIYDDMKKKGVKPDEVFFSA 654 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence 456677777778888877777777544332 123333343344332 234666677777777665544433333
No 27
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=46.35 E-value=59 Score=39.80 Aligned_cols=104 Identities=18% Similarity=0.304 Sum_probs=68.5
Q ss_pred cCCHhhHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHH
Q 045399 232 KLTPEKFDLLKGQLIDSGITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKEITFKRVLLNIC 311 (802)
Q Consensus 232 KLTpenfd~l~~qLl~l~I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Frr~LL~rc 311 (802)
-++.+-|....+.|+.+.+... ...+|+..|++=+..|..|-+.||-|+.++++.-..+ ..+|.=.|-.+
T Consensus 628 ImsaeDyiDAFEklLkL~LK~~-Q~rEI~~VllhC~l~EK~yNpfYa~lA~KfCe~~~~~--------~~tfQF~~WD~- 697 (822)
T KOG2141|consen 628 IMSAEDYIDAFEKLLKLSLKGK-QEREIARVLLHCCLNEKTYNPFYALLALKFCEFNKNL--------KKTFQFALWDR- 697 (822)
T ss_pred eecchHHHHHHHHHHhccCCCc-chHHHHHHHHHHHhhhcccchHHHHHHHHHHHHhhhh--------HHHHHHHHHHH-
Confidence 3556667777777887766543 3457888899989999999999999999998752221 23343333322
Q ss_pred HHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHH
Q 045399 312 QEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVH 370 (802)
Q Consensus 312 QeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~ 370 (802)
|. ++..+ -..|..+..+|+++|.....++-.|+.
T Consensus 698 ---f~-------ele~l---------------s~~ri~nLa~l~a~Li~~~~lsLtVLK 731 (822)
T KOG2141|consen 698 ---FK-------ELEQL---------------SLFRISNLAKLLASLISNAVLSLTVLK 731 (822)
T ss_pred ---HH-------Hhhhc---------------chhhHhHHHHHHHHHHHhcccceeeee
Confidence 11 11111 124567889999999998887766544
No 28
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=45.66 E-value=2.6e+02 Score=27.53 Aligned_cols=109 Identities=16% Similarity=0.237 Sum_probs=71.6
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC
Q 045399 350 GNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN 427 (802)
Q Consensus 350 GnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~ 427 (802)
+.|.=||.+.+..-...+-...+|++-|.+. +|.. ..|..|=.+++.||..+...-.+ ..+.+.|..++..
T Consensus 19 ~~il~icD~I~~~~~~~k~a~ral~KRl~~~---n~~v~l~AL~LLe~~vkNCG~~fh~evas----k~Fl~eL~kl~~~ 91 (144)
T cd03568 19 GLILDVCDKVKSDENGAKDCLKAIMKRLNHK---DPNVQLRALTLLDACAENCGKRFHQEVAS----RDFTQELKKLIND 91 (144)
T ss_pred HHHHHHHHHHhcCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHHCCHHHHHHHhh----HHHHHHHHHHhcc
Confidence 6777799999988666666666666656542 1221 36777777888889887743222 3566667777765
Q ss_pred CCCChHHHHHHHHHHHHHhCCCCccccccCcccHHHHHHHHH
Q 045399 428 PQLAPRLRFMVRDVLDLRANNWVPRREEVTAKTITEIHSEAE 469 (802)
Q Consensus 428 ~~lssRIRFML~dvidLR~n~W~~r~~~~~pkti~eI~~ea~ 469 (802)
+ .+..|+-.|..+|.-....... +...+-|.+.+++-.
T Consensus 92 ~-~~~~Vk~kil~li~~W~~~f~~---~~~l~~i~~~y~~L~ 129 (144)
T cd03568 92 R-VHPTVKEKLREVVKQWADEFKN---DPSLSLMSDLYKKLK 129 (144)
T ss_pred c-CCHHHHHHHHHHHHHHHHHhCC---CcccHHHHHHHHHHH
Confidence 5 7889999999999886655542 223445677776543
No 29
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=45.14 E-value=2.1e+02 Score=27.57 Aligned_cols=94 Identities=12% Similarity=0.140 Sum_probs=64.6
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC
Q 045399 350 GNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN 427 (802)
Q Consensus 350 GnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~ 427 (802)
..|..|+++.+..-...+....+|++-|.+. .|.. -.+..|=.+++.||..+...-.+ ..++..|..++.+
T Consensus 19 ~~il~icd~I~~~~~~~k~a~raL~krl~~~---n~~vql~AL~lLd~~vkNcg~~f~~~i~s----~~fl~~l~~l~~~ 91 (133)
T cd03561 19 ALNLELCDLINLKPNGPKEAARAIRKKIKYG---NPHVQLLALTLLELLVKNCGKPFHLQVAD----KEFLLELVKIAKN 91 (133)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHhCChHHHHHHhh----HHHHHHHHHHhCC
Confidence 5778899999988777777777777777752 1222 25666667777888877632111 2455667777665
Q ss_pred C-CCChHHHHHHHHHHHHHhCCCC
Q 045399 428 P-QLAPRLRFMVRDVLDLRANNWV 450 (802)
Q Consensus 428 ~-~lssRIRFML~dvidLR~n~W~ 450 (802)
. ..+..||-.+..++.-......
T Consensus 92 ~~~~~~~Vk~kil~ll~~W~~~f~ 115 (133)
T cd03561 92 SPKYDPKVREKALELILAWSESFG 115 (133)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhc
Confidence 4 7899999999999987654444
No 30
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=45.06 E-value=1.5e+02 Score=36.25 Aligned_cols=61 Identities=11% Similarity=0.076 Sum_probs=36.0
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcC
Q 045399 644 ISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVIT 708 (802)
Q Consensus 644 ~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls 708 (802)
.++|+-|...+++++|...++++..+. .++...+..++-+. ...+.+.+||..+...|+..
T Consensus 263 n~Li~~y~k~g~~~~A~~vf~~m~~~~---~vt~n~li~~y~~~-g~~~eA~~lf~~M~~~g~~p 323 (697)
T PLN03081 263 CALIDMYSKCGDIEDARCVFDGMPEKT---TVAWNSMLAGYALH-GYSEEALCLYYEMRDSGVSI 323 (697)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhCCCCC---hhHHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCC
Confidence 556777777777788777777776542 23334444444333 23455666777776665443
No 31
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=42.55 E-value=4.4e+02 Score=33.19 Aligned_cols=81 Identities=15% Similarity=0.083 Sum_probs=46.7
Q ss_pred ChHHHHHHHHHHHhCCCcCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHhCCCCHHHHHHHHHhhHh-----
Q 045399 690 CVDPVTKLLEYLFTQKVITARDIGTGCLLFGALMDDVGIDLPRAPNNFGEIIGKLILAGGLDFKVVQEILKKMEE----- 764 (802)
Q Consensus 690 ~re~vs~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~~~~l~~~~~~~e~----- 764 (802)
.-+.++.|+ .|+.+|.||.....+-|..+++.=. + + ..+|...=...+.+...|..+++++-.
T Consensus 663 ~pe~LaeLv-~lV~~g~IS~~~AK~VL~~m~~~~~----~----p---~~IIee~GL~qisDe~~Le~iV~eVI~~NP~~ 730 (771)
T PRK14703 663 TPAALARLV-ALVDAGRISTRIAKDVLAELAASGG----D----P---EAIVEAKGLEQVSDAGALEPIVEEVLAAHPDK 730 (771)
T ss_pred CHHHHHHHH-HHHHcCCccHHHHHHHHHHHHhcCC----C----H---HHHHHhcCCcccCCHHHHHHHHHHHHHHCHHH
Confidence 347788886 4777789999998888887764411 1 1 122222211112233455555555422
Q ss_pred --------HHHHHHHHHHHHHHHHhC
Q 045399 765 --------EMYRKSVLDAALRIISCS 782 (802)
Q Consensus 765 --------~~~~~~v~~a~l~~l~~~ 782 (802)
......++|.+|+..+..
T Consensus 731 Ve~yk~GK~kalgfLVGqVMK~tkGK 756 (771)
T PRK14703 731 VAAYRAGKTKLLGFFVGQVMRETGGK 756 (771)
T ss_pred HHHHhcchHHHHHHHHHHHHHHhCCC
Confidence 455566778888777654
No 32
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=41.81 E-value=80 Score=27.33 Aligned_cols=46 Identities=24% Similarity=0.327 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHhc--C-CCHHHHHHHHHhhCCCCChHHHHHHHHH
Q 045399 636 LDELCRKTISLLEEYFN--I-RVLEEALMCVEELKSPGYHPEVVKEAIS 681 (802)
Q Consensus 636 ~eel~kk~~siL~EY~~--~-~D~~EA~~cvkEL~~p~~~~e~V~~~I~ 681 (802)
-++|++.+..+|.|-=- . .+++|-+.|.-.||.+.+|+.+|.-...
T Consensus 11 y~DFr~SM~EMI~~~~i~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~d 59 (66)
T TIGR01568 11 YEDFRRSMEEMIEERELEADWKELEELLACYLDLNPKKSHRFIVRAFVD 59 (66)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCchhhhHHHHHHHH
Confidence 57899999988887632 2 4699999999999999888766655443
No 33
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=41.05 E-value=3.4e+02 Score=26.17 Aligned_cols=109 Identities=13% Similarity=0.141 Sum_probs=68.2
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC
Q 045399 350 GNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN 427 (802)
Q Consensus 350 GnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~ 427 (802)
+.|.-|+++.+.+-...+....+|.+=|.+. .|.. ..|..|=.+++.||..+...-.+ ..+.+.|..++..
T Consensus 19 ~~~l~icD~i~~~~~~~k~a~r~l~krl~~~---n~~v~l~AL~lLe~~vkNcg~~f~~ev~s----~~fl~~L~~l~~~ 91 (133)
T smart00288 19 ELILEICDLINSTPDGPKDAVRLLKKRLNNK---NPHVALLALTLLDACVKNCGSKFHLEVAS----KEFLNELVKLIKP 91 (133)
T ss_pred HHHHHHHHHHhCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHHCCHHHHHHHHh----HHHHHHHHHHHcC
Confidence 5677789999998777777666766666642 1222 25666677777888888642222 3455666676665
Q ss_pred CCCChHHHHHHHHHHHHHhCCCCccccccCcccHHHHHHHH
Q 045399 428 PQLAPRLRFMVRDVLDLRANNWVPRREEVTAKTITEIHSEA 468 (802)
Q Consensus 428 ~~lssRIRFML~dvidLR~n~W~~r~~~~~pkti~eI~~ea 468 (802)
+.....|+-.+..++.-....... +.+.+.|.+.+++-
T Consensus 92 ~~~~~~Vk~kil~li~~W~~~f~~---~~~~~~i~~~y~~L 129 (133)
T smart00288 92 KYPLPLVKKRILELIQEWADAFKN---DPDLSQIVDVYDLL 129 (133)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHcC---CCCchHHHHHHHHH
Confidence 544444888877877766554433 23345566666653
No 34
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=40.79 E-value=2.3e+02 Score=27.86 Aligned_cols=109 Identities=16% Similarity=0.194 Sum_probs=71.3
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhc
Q 045399 349 LGNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTT 426 (802)
Q Consensus 349 lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~ 426 (802)
.+.|.-|+.+.+..-...+-...+|++-|.+. +|.. ..++.|=.+++.||..+...-.+ ..+.+.|..++.
T Consensus 22 w~~ileicD~In~~~~~~k~a~ral~krl~~~---n~~vql~AL~LLe~~vkNCG~~fh~evas----~~fl~~l~~l~~ 94 (142)
T cd03569 22 LASILEICDMIRSKDVQPKYAMRALKKRLLSK---NPNVQLYALLLLESCVKNCGTHFHDEVAS----REFMDELKDLIK 94 (142)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCC---ChHHHHHHHHHHHHHHHHCCHHHHHHHhh----HHHHHHHHHHHc
Confidence 46778899999987777666666666666542 1222 25777777888889988743222 346667777765
Q ss_pred CCCCChHHHHHHHHHHHHHhCCCCccccccCcccHHHHHHHH
Q 045399 427 NPQLAPRLRFMVRDVLDLRANNWVPRREEVTAKTITEIHSEA 468 (802)
Q Consensus 427 ~~~lssRIRFML~dvidLR~n~W~~r~~~~~pkti~eI~~ea 468 (802)
+ +.+.+|+-.+..+|.-........ -+-.-|.+++++-
T Consensus 95 ~-~~~~~Vk~kil~li~~W~~~f~~~---~~l~~i~~~y~~L 132 (142)
T cd03569 95 T-TKNEEVRQKILELIQAWALAFRNK---PQLKYVVDTYQIL 132 (142)
T ss_pred c-cCCHHHHHHHHHHHHHHHHHhCCC---cccHHHHHHHHHH
Confidence 5 788999999999998776555422 1223456666543
No 35
>PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated
Probab=40.34 E-value=2.7e+02 Score=32.99 Aligned_cols=50 Identities=10% Similarity=0.105 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHhh----cCC-------CCChHHHHHHHHHHHhCCCcCHHHHHHHHHHHhhc
Q 045399 672 HPEVVKEAISLAL----EKN-------PPCVDPVTKLLEYLFTQKVITARDIGTGCLLFGAL 722 (802)
Q Consensus 672 ~~e~V~~~I~~aL----Ek~-------~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vle~ 722 (802)
.+.++..||..-| .+. .-.-+.++.|+. |+..|.||..+..+-|..+++.
T Consensus 338 ~~k~~anwl~~el~~~l~~~~~~~~~~~i~~~~l~~Li~-lv~~g~Is~~~ak~vl~~~~~~ 398 (474)
T PRK05477 338 DAKLAANWLMGELLGLLNEEGIEIEESPITPEQLAELIK-LIDDGTISGKIAKEVFEEMLET 398 (474)
T ss_pred CHHHHHHHHHHHHHHHHHHCCCChhhcCCCHHHHHHHHH-HHHcCCccHHHHHHHHHHHHhc
Confidence 4566666665433 222 123477888874 7778999999999999888765
No 36
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=39.75 E-value=3.1e+02 Score=27.09 Aligned_cols=32 Identities=22% Similarity=0.268 Sum_probs=26.1
Q ss_pred chhHHHHHHHHHHHHhCCCCHHHHHHHHHhhH
Q 045399 732 RAPNNFGEIIGKLILAGGLDFKVVQEILKKME 763 (802)
Q Consensus 732 ~A~~~La~~iar~I~d~~l~~~~l~~~~~~~e 763 (802)
..+..+..|++.+..-+.++...+.+++..+-
T Consensus 94 ~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~ll 125 (200)
T smart00543 94 QRRLGLVRFLGELYNFQVLTSKIILELLKELL 125 (200)
T ss_pred hhHHhHHHHHHHHHHcccCcHHHHHHHHHHHH
Confidence 55677888999999999999888777777753
No 37
>PF08044 DUF1707: Domain of unknown function (DUF1707); InterPro: IPR012551 This domain is found in a variety of actinomycetales proteins. All of the proteins containing this domain are hypothetical and probably membrane bound or associated. Currently, it is unclear to the function of this domain.
Probab=38.65 E-value=45 Score=27.42 Aligned_cols=45 Identities=16% Similarity=0.138 Sum_probs=36.8
Q ss_pred CCCChHHHHHHHHHHHhCCCcCHHHHHHHHHHHh-----hcchhhhcCCC
Q 045399 687 NPPCVDPVTKLLEYLFTQKVITARDIGTGCLLFG-----ALMDDVGIDLP 731 (802)
Q Consensus 687 ~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vl-----e~LdDl~iDiP 731 (802)
++.+|+.+..+|...+..|-|+.+.|..=+..++ ..|..+.-|+|
T Consensus 4 sd~dR~~~~~~L~~a~a~GrL~~~Ef~~R~~~a~~A~t~~eL~~l~~DLP 53 (53)
T PF08044_consen 4 SDADRERAVDLLRAAFAEGRLSLDEFDERLDAAYAARTRGELDALFADLP 53 (53)
T ss_pred cHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCcHHHHHHHHccCc
Confidence 5779999999999999999999999998887754 34555666655
No 38
>PLN03218 maturation of RBCL 1; Provisional
Probab=38.43 E-value=1.5e+02 Score=38.52 Aligned_cols=66 Identities=17% Similarity=0.094 Sum_probs=40.7
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHhhCCCCChH-HHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcC
Q 045399 642 KTISLLEEYFNIRVLEEALMCVEELKSPGYHP-EVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVIT 708 (802)
Q Consensus 642 k~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~-e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls 708 (802)
....+|.-|...+++++|...++++....+.| .++...+..++-+. ..-+.+.+++..+.+.|+-.
T Consensus 616 tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~-G~~eeA~~l~~eM~k~G~~p 682 (1060)
T PLN03218 616 VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA-GDLDKAFEILQDARKQGIKL 682 (1060)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCC
Confidence 34677888888888888888888886544432 23444444444332 33456666777776665443
No 39
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=37.29 E-value=6.2e+02 Score=28.10 Aligned_cols=128 Identities=19% Similarity=0.153 Sum_probs=66.3
Q ss_pred CHHHHHHHHHHHHHHHhcCCC--HHHHHHHHHhhCCCCChHHHHHH---HHHHhhc----CC-CCChHHHHHHHHHHHhC
Q 045399 635 NLDELCRKTISLLEEYFNIRV--LEEALMCVEELKSPGYHPEVVKE---AISLALE----KN-PPCVDPVTKLLEYLFTQ 704 (802)
Q Consensus 635 s~eel~kk~~siL~EY~~~~D--~~EA~~cvkEL~~p~~~~e~V~~---~I~~aLE----k~-~~~re~vs~LL~~L~~~ 704 (802)
+.++++.+++..|+.-...+. =++|+..|..+-.-+|.+++|.. -|..+++ +. ..++.++++++.-|+-+
T Consensus 37 ~~~~~e~~L~~~Id~l~eK~~~~Re~aL~~l~~~l~~~~~~d~v~~~~~tL~~~~~k~lkkg~~~E~~lA~~~l~Ll~lt 116 (309)
T PF05004_consen 37 SQEDLEDKLKEAIDLLTEKSSSTREAALEALIRALSSRYLPDFVEDRRETLLDALLKSLKKGKSEEQALAARALALLALT 116 (309)
T ss_pred chhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhh
Confidence 345667777777776664442 25566666655444566666633 2233333 32 35666777888877654
Q ss_pred -C-CcCHHHHHHHHHHHhhcc-hhhhcCCCchhHHHHHHHHHHHHhCCCCHHHHHHHHHhhH
Q 045399 705 -K-VITARDIGTGCLLFGALM-DDVGIDLPRAPNNFGEIIGKLILAGGLDFKVVQEILKKME 763 (802)
Q Consensus 705 -~-lls~~q~~~Gf~~vle~L-dDl~iDiP~A~~~La~~iar~I~d~~l~~~~l~~~~~~~e 763 (802)
| --..+.+...+..+|..+ .|- -+.|++......-+|-+..-++-....+...++.++
T Consensus 117 lg~g~~~~ei~~~~~~~L~~~l~d~-s~~~~~R~~~~~aLai~~fv~~~d~~~~~~~~~~le 177 (309)
T PF05004_consen 117 LGAGEDSEEIFEELKPVLKRILTDS-SASPKARAACLEALAICTFVGGSDEEETEELMESLE 177 (309)
T ss_pred cCCCccHHHHHHHHHHHHHHHHhCC-ccchHHHHHHHHHHHHHHHhhcCChhHHHHHHHHHH
Confidence 1 234555555555544332 222 334555333343444444444555555654444333
No 40
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=36.90 E-value=6.3e+02 Score=31.80 Aligned_cols=20 Identities=25% Similarity=0.119 Sum_probs=11.1
Q ss_pred ChhcHHHHHHHHHHHhhhhh
Q 045399 386 AEENVEAICQFVNTIGKQLD 405 (802)
Q Consensus 386 ~Ee~IE~Lc~LL~tiGk~Ld 405 (802)
+|-..-.+++.|..|-..+.
T Consensus 400 aE~yfLSILQhlllirnDy~ 419 (1102)
T KOG1924|consen 400 AEPYFLSILQHLLLIRNDYY 419 (1102)
T ss_pred ccchHHHHHHHHHHHhhhhh
Confidence 44455556666666555544
No 41
>PLN00131 hypothetical protein; Provisional
Probab=35.71 E-value=4.8e+02 Score=26.33 Aligned_cols=64 Identities=19% Similarity=0.272 Sum_probs=36.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHH-HhhcCCCCChHHHHHHHHHHHh
Q 045399 629 RPAGKLNLDELCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAIS-LALEKNPPCVDPVTKLLEYLFT 703 (802)
Q Consensus 629 ~~~~~~s~eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~-~aLEk~~~~re~vs~LL~~L~~ 703 (802)
.++|.+.+.++..|-+..-+| ++.+-.+.+-.....+..+++. +.|| ++.+|.++-.|..||+.
T Consensus 121 epapplddqdlltkrkrvsee----------lrlllqigavkrknkiadqlldwmgld-netdrtllddlynhlyd 185 (218)
T PLN00131 121 EPAPPLDDQDLLTKRKRVSEE----------LRLLLQIGAVKRKNKIADQLLDWMGLD-NETDRTLLDDLYNHLYD 185 (218)
T ss_pred CCCCCCCcHHHHHHHHHHHHH----------HHHHHHHhhhhhhhHHHHHHHHHhccC-ccchHHHHHHHHHHHhh
Confidence 345677777777665554333 2233233322333344444443 2343 55688888899888887
No 42
>PF10395 Utp8: Utp8 family; InterPro: IPR018843 Utp8 is an essential component of the nuclear tRNA export machinery in Saccharomyces cerevisiae (Baker's yeast). It is a tRNA binding protein that acts at a step between tRNA maturation /aminoacylation, and translocation of the tRNA across the nuclear pore complex [].
Probab=34.44 E-value=9.9e+02 Score=29.66 Aligned_cols=165 Identities=22% Similarity=0.359 Sum_probs=86.7
Q ss_pred HHHHHHHhhcCCHhhHHHHHHHHHHh-c--------------------cCCHHHHHHHHHHHHHHhhcCCCchHHHHHHH
Q 045399 223 LKTVKGILNKLTPEKFDLLKGQLIDS-G--------------------ITSADILKEVISLIFDKAVLEPTFCPMYAQLC 281 (802)
Q Consensus 223 ~r~Vk~ILNKLTpenfd~l~~qLl~l-~--------------------I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC 281 (802)
.+.++.+=++=..++||++.-..+.. . +.+.+.+..|+++||+.- .++.|++-|+ |.
T Consensus 408 ~~~L~~l~~~kdi~kfesi~~~~Lk~kk~w~~~~~~y~F~e~~~e~DR~vD~~Fi~~vl~LIF~~f-~d~efvPe~t-Lt 485 (670)
T PF10395_consen 408 YDILKELKNQKDINKFESIFFPYLKNKKSWKKKSKVYEFKEFYTENDRFVDPEFIEKVLDLIFDNF-KDPEFVPEKT-LT 485 (670)
T ss_pred HHHHHHHHhccChHHHHHHHHHHhccccccccccccccccceeccCccccCHHHHHHHHHHHhhhc-cccccCchhh-hh
Confidence 33344333777788999887666543 1 125679999999999944 4556766665 44
Q ss_pred HHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHhhhhhhH-HHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHh
Q 045399 282 SDLNEKLPPFPSDEPGGKEITFKRVLLNICQEAFEGADKLR-EEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLK 360 (802)
Q Consensus 282 ~~L~~~lp~~~~~e~~~~~~~Frr~LL~rcQeeFe~~~~~~-~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk 360 (802)
+.|-+ |-||. .+-+-||.+ |....++. ..+- |.| -+-.--++-|||.
T Consensus 486 YLLTh--PLFP~--------~~T~gLL~~----l~~~prL~kQAIv--TCP----------------NlPl~eLl~qL~~ 533 (670)
T PF10395_consen 486 YLLTH--PLFPI--------EYTKGLLEL----LRNNPRLFKQAIV--TCP----------------NLPLDELLQQLFT 533 (670)
T ss_pred hhhcC--CCCch--------hhhhhHHHH----hhcChhHHHHHhc--cCC----------------CCcHHHHHHHHHh
Confidence 44543 55652 233445554 33332221 1111 111 0122334555653
Q ss_pred cCCCCHHHHHHHHHHHhcCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCCCCChHHHHHHHH
Q 045399 361 QKMVPEKIVHHIVQELLGHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNPQLAPRLRFMVRD 440 (802)
Q Consensus 361 ~~ml~e~Im~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~~lssRIRFML~d 440 (802)
..+..+..+++.+||++ ...+.+.+-++.+ . + .-++.++++|-++-... ..=.+|.-
T Consensus 534 --~~n~El~~Di~~Ril~d--------fs~~~It~~~k~l----~---~--~dl~~~I~~li~~~~~~----q~~~Ll~~ 590 (670)
T PF10395_consen 534 --IENDELFLDISLRILQD--------FSKDEITQEIKKL----N---K--VDLNNFINFLIKLNNNE----QLWQLLSL 590 (670)
T ss_pred --ccchHHHHHHHHHHHHH--------hhHHHHHHHHHhh----c---c--ccHHHHHHHHhccCCcc----chHHHHHH
Confidence 45566788888888874 3444444444444 1 1 23455555555432221 34445555
Q ss_pred HHHH
Q 045399 441 VLDL 444 (802)
Q Consensus 441 vidL 444 (802)
|||.
T Consensus 591 vID~ 594 (670)
T PF10395_consen 591 VIDS 594 (670)
T ss_pred Hhhc
Confidence 5554
No 43
>PF08876 DUF1836: Domain of unknown function (DUF1836); InterPro: IPR014975 This group of proteins are functionally uncharacterised.
Probab=34.21 E-value=30 Score=32.44 Aligned_cols=65 Identities=18% Similarity=0.116 Sum_probs=48.4
Q ss_pred hHHHHHHHHHHhh----cCCCCChHHHHHHHHHHHhCCCcCHHHHHHHHHHHhhcchhhhcCCCchhHH
Q 045399 672 HPEVVKEAISLAL----EKNPPCVDPVTKLLEYLFTQKVITARDIGTGCLLFGALMDDVGIDLPRAPNN 736 (802)
Q Consensus 672 ~~e~V~~~I~~aL----Ek~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~ 736 (802)
-..+|...|-..+ ++|-=.|++++.|+.--.-+.++|-+++.++|..+.....+-.++...||++
T Consensus 36 T~tMInNYvK~~li~~P~kKkYsr~qla~li~I~~lK~vlsi~dI~~ll~~~~~~~~~~~~~~~~~Y~~ 104 (105)
T PF08876_consen 36 TKTMINNYVKRGLIPPPIKKKYSREQLAYLIVISILKQVLSIDDIKKLLDLQFNNYEDDEISLEDAYNY 104 (105)
T ss_pred CHHHHHHHHhcccCCCcccCccCHHHHHHHHHHHHHHccCCHHHHHHHHHHHHhcccccCCCHHHHHhc
Confidence 3455555554443 2344568999999886666789999999999999999988777777777664
No 44
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=33.08 E-value=1.4e+02 Score=25.36 Aligned_cols=43 Identities=23% Similarity=0.336 Sum_probs=35.9
Q ss_pred ChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHH
Q 045399 671 YHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIG 713 (802)
Q Consensus 671 ~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~ 713 (802)
+-+++|..+|..++++......-+-..|..-.++|+-|.+|+.
T Consensus 30 ~~~evI~~ai~~a~~~~~~~~~Yi~~Il~~W~~~gi~T~e~~~ 72 (73)
T TIGR01446 30 NSPELIKEALKEAVSNNKANYKYIDAILNNWKNNGIKTVEDVE 72 (73)
T ss_pred CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCCCHHHHh
Confidence 4489999999999987655567888999999999999988864
No 45
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=32.50 E-value=7.9e+02 Score=30.07 Aligned_cols=77 Identities=17% Similarity=0.069 Sum_probs=49.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhhCCCC-C-hHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Q 045399 643 TISLLEEYFNIRVLEEALMCVEELKSPG-Y-HPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTGCLLFG 720 (802)
Q Consensus 643 ~~siL~EY~~~~D~~EA~~cvkEL~~p~-~-~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vl 720 (802)
...+|..|...++.+||+..++.+.... + ...++...+..++-+. ...+.+.+++..+...|+.+.......+..++
T Consensus 90 ~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~-~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y 168 (697)
T PLN03081 90 LCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIAL-KSIRCVKAVYWHVESSGFEPDQYMMNRVLLMH 168 (697)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence 5677888999999999999999986421 2 3445555555555443 23455667777777777665544444444433
No 46
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.38 E-value=1.2e+03 Score=30.62 Aligned_cols=196 Identities=18% Similarity=0.218 Sum_probs=109.4
Q ss_pred HHHHHHHHhhcCCHhhHHHHHHHHHHhccCC-----HHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCC
Q 045399 222 VLKTVKGILNKLTPEKFDLLKGQLIDSGITS-----ADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEP 296 (802)
Q Consensus 222 l~r~Vk~ILNKLTpenfd~l~~qLl~l~I~s-----~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~ 296 (802)
++|-+..+-++|+.++-..|..+|+..-... ..-+-.||..|+.+.+.| .|-.+-.-|....+..-+.
T Consensus 61 ~Rkl~~~~w~~l~~e~~~siks~lL~~~~~E~~~~vr~k~~dviAeia~~~l~e-~WPell~~L~q~~~S~~~~------ 133 (1075)
T KOG2171|consen 61 LRKLLTKHWSRLSAEVQQSIKSSLLEIIQSETEPSVRHKLADVIAEIARNDLPE-KWPELLQFLFQSTKSPNPS------ 133 (1075)
T ss_pred HHHHHHHHhhcCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhcccc-chHHHHHHHHHHhcCCCcc------
Confidence 4555556888899999999999998863321 235567888888888888 7777766666666543221
Q ss_pred CCchhhHHHHHHHHHHHHHhhhhh-hHHHH----H-hcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcC-------C
Q 045399 297 GGKEITFKRVLLNICQEAFEGADK-LREEV----R-QMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQK-------M 363 (802)
Q Consensus 297 ~~~~~~Frr~LL~rcQeeFe~~~~-~~~e~----~-~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~-------m 363 (802)
...+.| .+|..|-+.|-+... ...++ . .++++.--. +.+-.| +.+.|+-.|=..+ .
T Consensus 134 -~rE~al--~il~s~~~~~~~~~~~~~~~l~~lf~q~~~d~s~~v------r~~a~r--A~~a~~~~~~~~~~~~~~~~~ 202 (1075)
T KOG2171|consen 134 -LRESAL--LILSSLPETFGNTLQPHLDDLLRLFSQTMTDPSSPV------RVAAVR--ALGAFAEYLENNKSEVDKFRD 202 (1075)
T ss_pred -hhHHHH--HHHHhhhhhhccccchhHHHHHHHHHHhccCCcchH------HHHHHH--HHHHHHHHhccchHHHHHHHH
Confidence 122222 244555555544322 01111 1 122221000 111123 3334444442111 1
Q ss_pred CCHHHHHHHHHHHhcCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcCCCCChHHHHHHHHHHH
Q 045399 364 VPEKIVHHIVQELLGHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTNPQLAPRLRFMVRDVLD 443 (802)
Q Consensus 364 l~e~Im~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~~~lssRIRFML~dvid 443 (802)
+=-+ |...+..++..+. +.-...-+|+|..|+.+.++.|. .++.+++.-.-.+..++.+..-+|.+...+|=
T Consensus 203 llP~-~l~vl~~~i~~~d-~~~a~~~l~~l~El~e~~pk~l~------~~l~~ii~~~l~Ia~n~~l~~~~R~~ALe~iv 274 (1075)
T KOG2171|consen 203 LLPS-LLNVLQEVIQDGD-DDAAKSALEALIELLESEPKLLR------PHLSQIIQFSLEIAKNKELENSIRHLALEFLV 274 (1075)
T ss_pred HhHH-HHHHhHhhhhccc-hHHHHHHHHHHHHHHhhchHHHH------HHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence 1111 2333444444320 00013458888888888888876 36788888888888888898888887766653
No 47
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=31.07 E-value=5.3e+02 Score=28.35 Aligned_cols=94 Identities=11% Similarity=0.141 Sum_probs=51.3
Q ss_pred CCHHHHHHHHHHHHHHHhcCCCHHHHHHHH-HhhCCCCChHHHHHHHHHHhhc--CCCCChHHHHHHHHHHHhCCCcC--
Q 045399 634 LNLDELCRKTISLLEEYFNIRVLEEALMCV-EELKSPGYHPEVVKEAISLALE--KNPPCVDPVTKLLEYLFTQKVIT-- 708 (802)
Q Consensus 634 ~s~eel~kk~~siL~EY~~~~D~~EA~~cv-kEL~~p~~~~e~V~~~I~~aLE--k~~~~re~vs~LL~~L~~~~lls-- 708 (802)
+..+.+.+.+...+.+++..-+.......+ ..+-...++..++..++....+ .++..++.+.+++.....+..-+
T Consensus 101 ~~~~~i~~~i~~~~~~~l~~~~~~~~~~~~l~~ll~~~~~~~l~~~il~~i~~~l~~~e~~~~I~~~i~~~~~~~~~~~~ 180 (367)
T PF04286_consen 101 IDQEKIAEFIEKNLRKKLSEIILAPLLQKLLRSLLEEEQHQKLLDRILEKIKEYLKSEETRERIRDLIEEFLEEYLGKSF 180 (367)
T ss_pred hhhHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHhccchHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHhcccch
Confidence 344455555555555555554444444333 3443345566666655544433 24566677888888777754333
Q ss_pred HHHHHHHHHHH-hhcchhhh
Q 045399 709 ARDIGTGCLLF-GALMDDVG 727 (802)
Q Consensus 709 ~~q~~~Gf~~v-le~LdDl~ 727 (802)
.+.+..-|... ...++++.
T Consensus 181 ~~~l~~~i~~~l~~~l~~l~ 200 (367)
T PF04286_consen 181 LDKLAEKIQDELDSLLEKLQ 200 (367)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 56666666655 44556665
No 48
>COG5537 IRR1 Cohesin [Cell division and chromosome partitioning]
Probab=30.31 E-value=7.4e+02 Score=30.36 Aligned_cols=135 Identities=11% Similarity=0.050 Sum_probs=87.5
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHHH
Q 045399 637 DELCRKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTGC 716 (802)
Q Consensus 637 eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~Gf 716 (802)
+.++..+..+|.-+++..--..|++-+-| .|-..+++.+.--.+..|-...+++.+|...|.|+...+..=.
T Consensus 328 ~~vRl~v~Kil~~L~s~~p~~d~ir~f~e--------RFk~rILE~~r~D~d~VRi~sik~l~~lr~lg~L~~SeIlIvs 399 (740)
T COG5537 328 EGVRLLVSKILLFLCSRIPHTDAIRRFVE--------RFKDRILEFLRTDSDCVRICSIKSLCYLRILGVLSSSEILIVS 399 (740)
T ss_pred HHHHHHHHHHHHHHHhcCCcchHHHHHHH--------HHHHHHHHHHhhccchhhHHHHHHHHHHHHhcccchhHHHHHH
Confidence 45777777777776665544444443332 3444444444333455777889999999999999999888777
Q ss_pred HHHhhcchhhhcCCCchhHHHHHHHHHHHHhCC---CCHHHHHHHHHhhHhHHH--HHHHHHHHHHHH
Q 045399 717 LLFGALMDDVGIDLPRAPNNFGEIIGKLILAGG---LDFKVVQEILKKMEEEMY--RKSVLDAALRII 779 (802)
Q Consensus 717 ~~vle~LdDl~iDiP~A~~~La~~iar~I~d~~---l~~~~l~~~~~~~e~~~~--~~~v~~a~l~~l 779 (802)
.-+++..+|--+-+-.+.+.++++.|+.|.+.+ +-.+.+..++++.-..++ .-.+|.-+++.+
T Consensus 400 scmlDi~pd~r~~~~E~v~~icK~~aevikEKipl~~k~n~lL~a~~qgse~~f~v~~~iFsr~~~ll 467 (740)
T COG5537 400 SCMLDIIPDSRENIVESVESICKIDAEVIKEKIPLATKTNRLLEAMKQGSERYFVVCEEIFSRFVHLL 467 (740)
T ss_pred HHHhcCCCcchHHHHHHHHHHHHHHHHHHHhhcchhhhhhhHHHHHHhhhhccchhHHHHHHHHHHHH
Confidence 778888877655577889999999999998543 222445555555544555 233444444433
No 49
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=29.71 E-value=6e+02 Score=31.23 Aligned_cols=12 Identities=17% Similarity=0.357 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHH
Q 045399 254 DILKEVISLIFD 265 (802)
Q Consensus 254 e~Lk~VI~lIFe 265 (802)
-.++..|..+|.
T Consensus 346 P~v~~~i~~~f~ 357 (653)
T PTZ00009 346 PKVQSLIKDFFN 357 (653)
T ss_pred hhHHHHHHHHhC
Confidence 357777888884
No 50
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=29.49 E-value=1.9e+02 Score=34.84 Aligned_cols=60 Identities=25% Similarity=0.222 Sum_probs=40.6
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHH------HHHHHHhhcCCCCChHHHHHHHHHHHh
Q 045399 642 KTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVV------KEAISLALEKNPPCVDPVTKLLEYLFT 703 (802)
Q Consensus 642 k~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V------~~~I~~aLEk~~~~re~vs~LL~~L~~ 703 (802)
.+..++-|||.+-|.+|+...+.-|. ...++|| ..+|.+.--..+.+|.++.+-+...+.
T Consensus 322 ivHk~mlEy~~~ade~e~~e~l~ll~--elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~ 387 (652)
T KOG2050|consen 322 IVHKLMLEYLTIADEEEKSELLELLK--ELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVE 387 (652)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHH--HHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHH
Confidence 45677899999999999988887765 2333443 233433333467888888887775554
No 51
>COG1421 CRISPR system related protein [Defense mechanisms]
Probab=27.44 E-value=1.2e+02 Score=29.95 Aligned_cols=65 Identities=14% Similarity=0.252 Sum_probs=47.7
Q ss_pred CcCHHHHHHHHHHH-------hhcchhhhcCCCchhHHHHHHHHHHHHhCCCC-HHHHHHHHHhhHhHHHHHH
Q 045399 706 VITARDIGTGCLLF-------GALMDDVGIDLPRAPNNFGEIIGKLILAGGLD-FKVVQEILKKMEEEMYRKS 770 (802)
Q Consensus 706 lls~~q~~~Gf~~v-------le~LdDl~iDiP~A~~~La~~iar~I~d~~l~-~~~l~~~~~~~e~~~~~~~ 770 (802)
-+|+.|+-+=+..+ .....++.+|+|+..-.||.-++|.+..-.-. ..++.+++.++.++..+.+
T Consensus 43 ~l~~~q~R~fy~~~~r~~~~~~~~~k~i~~~l~~m~~~lay~~gR~~~~~~e~lyevle~~idkid~D~~~~~ 115 (137)
T COG1421 43 NLTTTQLRKFYDYILRIDEENENSWKEIVLDLPKMKPQLAYAVGRDGKEALEGLYEVLEEMIDKIDDDNDRNA 115 (137)
T ss_pred cCcHHHHHHHHHHHHHHhHhccCcHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHhhhhhhHHH
Confidence 57888887777766 45668999999999999998888887664222 3678888888844444433
No 52
>PF12295 Symplekin_C: Symplekin tight junction protein C terminal; InterPro: IPR022075 This domain family is found in eukaryotes, and is approximately 180 amino acids in length. There is a single completely conserved residue P that may be functionally important. Symplekn has been localized, by light and electron microscopy, to the plaque associated with the cytoplasmic face of the tight junction-containing zone (zonula occludens) of polar epithelial cells and of Sertoli cells of testis. However, both the mRNA and the protein can also be detected in a wide range of cell types that do not form tight junctions. Careful analyses have revealed that the protein occurs in all these diverse cells in the nucleoplasm, and only in those cells forming tight junctions is it recruited, partly but specifically, to the plaque structure of the zonula occludens.
Probab=27.34 E-value=4.3e+02 Score=27.13 Aligned_cols=104 Identities=22% Similarity=0.276 Sum_probs=67.8
Q ss_pred HHHHHHHHHhcCCC---HHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHHHHH
Q 045399 642 KTISLLEEYFNIRV---LEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTGCLL 718 (802)
Q Consensus 642 k~~siL~EY~~~~D---~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~ 718 (802)
++...++--|+..+ .+-+...++.+-.-.-.|.+.-+.+..++..-+.-+..++.+|..|+.+++.....+-+||-+
T Consensus 75 ~~~~a~~~Cf~~~~vf~~evla~~l~ql~~~~~lP~LfmRTviq~~~~~p~L~~FV~~iL~rLi~kqvW~~~~lW~Gfi~ 154 (183)
T PF12295_consen 75 KIIEALDLCFSMRDVFTQEVLASALQQLVEQPPLPLLFMRTVIQALQKYPSLRSFVSNILSRLIQKQVWKNKKLWEGFIK 154 (183)
T ss_pred HHHHHHHHHHcccccCCHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcChhHHHHHHH
Confidence 34555555555554 222233333332223445666666667777778889999999999999999999999999998
Q ss_pred HhhcchhhhcCCCchhHHHHHHHHHHHHhCCCCHHHHHHHHHh
Q 045399 719 FGALMDDVGIDLPRAPNNFGEIIGKLILAGGLDFKVVQEILKK 761 (802)
Q Consensus 719 vle~LdDl~iDiP~A~~~La~~iar~I~d~~l~~~~l~~~~~~ 761 (802)
-...+-- +.... +. .||...+.+++++
T Consensus 155 C~~~~~p------~sf~~--------ll--~LP~~ql~~~l~~ 181 (183)
T PF12295_consen 155 CAKRLKP------SSFPA--------LL--QLPPEQLEELLKK 181 (183)
T ss_pred HHHHhhh------HHHHH--------HH--hCCHHHHHHHHHh
Confidence 8776643 22211 11 1777777777764
No 53
>PLN03077 Protein ECB2; Provisional
Probab=27.11 E-value=2.6e+02 Score=35.09 Aligned_cols=63 Identities=19% Similarity=0.161 Sum_probs=39.7
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcC
Q 045399 642 KTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVIT 708 (802)
Q Consensus 642 k~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls 708 (802)
....+|.=|...+++++|...++++..|.. +....+..++-+.. .-+.+.++|..+...|+-.
T Consensus 325 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~---~s~n~li~~~~~~g-~~~~A~~lf~~M~~~g~~P 387 (857)
T PLN03077 325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDA---VSWTAMISGYEKNG-LPDKALETYALMEQDNVSP 387 (857)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHhhCCCCCe---eeHHHHHHHHHhCC-CHHHHHHHHHHHHHhCCCC
Confidence 347788888888889998888888876642 22333333443332 3456667777776655443
No 54
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.04 E-value=8e+02 Score=29.24 Aligned_cols=156 Identities=15% Similarity=0.145 Sum_probs=84.2
Q ss_pred CCCCHHHHHHHHHHHHHHHhcCCC-HHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHH------HHhC
Q 045399 632 GKLNLDELCRKTISLLEEYFNIRV-LEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEY------LFTQ 704 (802)
Q Consensus 632 ~~~s~eel~kk~~siL~EY~~~~D-~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~------L~~~ 704 (802)
+-.--++|+++++.=..|--.+++ +++...-|.||+ ++|...|.++..+ +.++.++--+.|.- |.+.
T Consensus 332 pvvGF~dL~~R~K~Q~q~~~~~r~ri~~i~e~v~eLq--k~~ad~~~KI~~~----k~r~~~Ls~RiLRv~ikqeilr~~ 405 (508)
T KOG3091|consen 332 PVVGFEDLRQRLKVQDQEVKQHRIRINAIGERVTELQ--KHHADAVAKIEEA----KNRHVELSHRILRVMIKQEILRKR 405 (508)
T ss_pred eccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhhhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344578899888887777666665 678888899998 4554444443321 22333332222222 2223
Q ss_pred CC---cCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHh---------CCCCHHHHHHHHHhhHhHHHHHHHH
Q 045399 705 KV---ITARDIGTGCLLFGALMDDVGIDLPRAPNNFGEIIGKLILA---------GGLDFKVVQEILKKMEEEMYRKSVL 772 (802)
Q Consensus 705 ~l---ls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iar~I~d---------~~l~~~~l~~~~~~~e~~~~~~~v~ 772 (802)
|. ...++|..=|+.++..+.+= -..|-+|.+|...+-.. .+++...+.++.+++-.+.-+--.|
T Consensus 406 G~~L~~~EE~Lr~Kldtll~~ln~P----nq~k~Rl~~L~e~~r~q~~~~~~~~~~~iD~~~~~e~~e~lt~~~e~l~~L 481 (508)
T KOG3091|consen 406 GYALTPDEEELRAKLDTLLAQLNAP----NQLKARLDELYEILRMQNSQLKLQESYWIDFDKLIEMKEHLTQEQEALTKL 481 (508)
T ss_pred CCcCCccHHHHHHHHHHHHHHhcCh----HHHHHHHHHHHHHHHhhcchhccccceeechhhhHHHHHHHHHHHHHHHHH
Confidence 32 35677777788888777664 45666777766443322 2455555666666554443222222
Q ss_pred HHHHHHHHhCCChhhhhhhhhcHHHHhhc
Q 045399 773 DAALRIISCSPGQNILDSQASDIEACQSL 801 (802)
Q Consensus 773 ~a~l~~l~~~~G~~v~~~~~~~~~~~~~~ 801 (802)
..+++..-+ .+..-...+++.|...
T Consensus 482 v~Ilk~d~e----di~~~l~E~~~~~~~~ 506 (508)
T KOG3091|consen 482 VNILKGDQE----DIKHQLIEDLEICRKS 506 (508)
T ss_pred HHHHHhHHH----HHHHHHHhhHHHHhhh
Confidence 222222211 1113334567777654
No 55
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=27.02 E-value=1e+03 Score=30.24 Aligned_cols=132 Identities=17% Similarity=0.271 Sum_probs=74.3
Q ss_pred HHHHHHhhcCCHhhHHHHHHHHHHhcc-----CCHHHHHH----HHHHHHHHhhcC-CCchHHHHHHHHHHhhhCCCCCC
Q 045399 224 KTVKGILNKLTPEKFDLLKGQLIDSGI-----TSADILKE----VISLIFDKAVLE-PTFCPMYAQLCSDLNEKLPPFPS 293 (802)
Q Consensus 224 r~Vk~ILNKLTpenfd~l~~qLl~l~I-----~s~e~Lk~----VI~lIFeKAi~E-p~fs~~YA~LC~~L~~~lp~~~~ 293 (802)
..+..+|...+++....++..|..++- .|.+.|.. +++.|..-|... +..-.+.-.||.+|+.....++.
T Consensus 429 eel~~lL~~~~~~~~~~iI~RIrk~~hpsLa~~NK~Kl~~f~~vLlq~i~~la~~~~~~~~~~ld~L~~~L~~Laq~~p~ 508 (840)
T PF04147_consen 429 EELLELLDGYSPEDQPTIIQRIRKCYHPSLAEGNKEKLQVFFGVLLQHILYLASQDSPPPFEVLDSLIPHLYDLAQKYPE 508 (840)
T ss_pred HHHHHHHhcCCHHHHhHHHHHHHHhCCCCCCcchHHHHHHHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 446678889999999999999998753 35555544 344444445444 45555667777776654322210
Q ss_pred CCCCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhc-----CCCCHHH
Q 045399 294 DEPGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQ-----KMVPEKI 368 (802)
Q Consensus 294 ~e~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~-----~ml~e~I 368 (802)
.....||. +|..||..|....-... ..+-| ....|=.+++||.||-- -||+-.+
T Consensus 509 ----~~a~~~r~-~L~~~~~~~~~~~l~~~---~~~~P-------------~l~~Lvllklv~~lFPTSD~~HpVVTPal 567 (840)
T PF04147_consen 509 ----EAAECFRE-VLKEMQKRFRKGALKPK---ERSWP-------------SLSDLVLLKLVGTLFPTSDFRHPVVTPAL 567 (840)
T ss_pred ----HHHHHHHH-HHHHHHHHHhhhccccc---CCCCC-------------ChhHHHHHHHHHHhcCcccccCcchhHHH
Confidence 12234544 45567777766310000 00001 12456788889999854 3666555
Q ss_pred HHHHHHHHhc
Q 045399 369 VHHIVQELLG 378 (802)
Q Consensus 369 m~~cI~~LL~ 378 (802)
++ |..+|.
T Consensus 568 ll--m~~~L~ 575 (840)
T PF04147_consen 568 LL--MSEYLS 575 (840)
T ss_pred HH--HHHHHh
Confidence 53 334444
No 56
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=26.43 E-value=1.2e+02 Score=30.88 Aligned_cols=57 Identities=23% Similarity=0.293 Sum_probs=43.2
Q ss_pred CCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCC----CCChHHHHHHHHHHhhcCCC
Q 045399 632 GKLNLDELCRKTISLLEEYFNIRVLEEALMCVEELKS----PGYHPEVVKEAISLALEKNP 688 (802)
Q Consensus 632 ~~~s~eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~----p~~~~e~V~~~I~~aLEk~~ 688 (802)
..+-+++++.-...+-+-|+..||+++|+.|+..... +.+.-.+.-.+|..++...+
T Consensus 28 ~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d 88 (177)
T PF10602_consen 28 SNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGD 88 (177)
T ss_pred hccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCC
Confidence 4566888999999999999999999999999998643 22334566666666666553
No 57
>PF12854 PPR_1: PPR repeat
Probab=25.50 E-value=92 Score=22.71 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=22.2
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhhC
Q 045399 643 TISLLEEYFNIRVLEEALMCVEELK 667 (802)
Q Consensus 643 ~~siL~EY~~~~D~~EA~~cvkEL~ 667 (802)
...+|.-|...++++||.+.++++.
T Consensus 10 y~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 10 YNTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHhCc
Confidence 5688999999999999999999863
No 58
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=25.42 E-value=1e+02 Score=22.38 Aligned_cols=25 Identities=12% Similarity=0.090 Sum_probs=21.2
Q ss_pred HHHHHHHhCCCcCHHHHHHHHHHHh
Q 045399 696 KLLEYLFTQKVITARDIGTGCLLFG 720 (802)
Q Consensus 696 ~LL~~L~~~~lls~~q~~~Gf~~vl 720 (802)
.-|..|+..|+||.+.|.+--..++
T Consensus 6 ~~L~~l~~~G~IseeEy~~~k~~ll 30 (31)
T PF09851_consen 6 EKLKELYDKGEISEEEYEQKKARLL 30 (31)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 4577899999999999998877765
No 59
>PF12612 TFCD_C: Tubulin folding cofactor D C terminal; InterPro: IPR022577 This region is found in eukaryotes, and is typically between 182 and 199 amino acids in length. There is a single completely conserved residue R that may be functionally important. Tubulin folding cofactor D does not co-polymerise with microtubules either in vivo or in vitro, but instead modulates microtubule dynamics by sequestering beta-tubulin from GTP-bound alphabeta-heterodimers in microtubules [].
Probab=25.40 E-value=1.6e+02 Score=30.07 Aligned_cols=37 Identities=19% Similarity=0.226 Sum_probs=31.0
Q ss_pred CCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCC
Q 045399 669 PGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQK 705 (802)
Q Consensus 669 p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~ 705 (802)
|...+.++..++-.+.||=|..|+.+++.|..|....
T Consensus 2 ~~~~~~~~~~llrqa~EKiDrvR~~A~~~l~~ll~~~ 38 (193)
T PF12612_consen 2 PELVQQIIGGLLRQAAEKIDRVREVAGKCLQRLLHSQ 38 (193)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3456788899999999999999999999999988543
No 60
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=25.07 E-value=98 Score=36.03 Aligned_cols=20 Identities=15% Similarity=0.180 Sum_probs=13.2
Q ss_pred CCHHHHHHHHHHHHHHHhcC
Q 045399 634 LNLDELCRKTISLLEEYFNI 653 (802)
Q Consensus 634 ~s~eel~kk~~siL~EY~~~ 653 (802)
-+.|-+..-+..+|+--.++
T Consensus 499 SS~eTll~niq~llkva~dn 518 (641)
T KOG3915|consen 499 SSIETLLTNIQGLLKVAIDN 518 (641)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 45677777777777765543
No 61
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=24.95 E-value=1.1e+03 Score=27.22 Aligned_cols=191 Identities=20% Similarity=0.212 Sum_probs=93.1
Q ss_pred HHHHHHHhhcCCHhhHHHHHHHHHHhc--cCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCch
Q 045399 223 LKTVKGILNKLTPEKFDLLKGQLIDSG--ITSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDEPGGKE 300 (802)
Q Consensus 223 ~r~Vk~ILNKLTpenfd~l~~qLl~l~--I~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~ 300 (802)
.+++.-+.+-.+++|+..++.+|+..- ..+.+.-..+|..|..=|..-+....-|.+..-.+...-...... .--
T Consensus 322 ~~~l~lL~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~~~~~~---~~~ 398 (526)
T PF01602_consen 322 KKALDLLYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISGDYVSN---EII 398 (526)
T ss_dssp HHHHHHHHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTGGGCHC---HHH
T ss_pred HHHHHHHhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhccccccc---hHH
Confidence 445566666666899999999999863 234556666666666666555555555555554444321111000 000
Q ss_pred hhHHHHHHHHHHHHHhhh-hhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcC
Q 045399 301 ITFKRVLLNICQEAFEGA-DKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLGH 379 (802)
Q Consensus 301 ~~Frr~LL~rcQeeFe~~-~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~ 379 (802)
..+++++ .+..+..+.. ..+-+-+.... +.+ + .-..+-.|||-...---.+ ++.+++..|...
T Consensus 399 ~~i~~ll-~~~~~~~~~~l~~L~~~l~~~~--~~~---------~---~~~~~wilGEy~~~~~~~~-~~~~~~~~l~~~ 462 (526)
T PF01602_consen 399 NVIRDLL-SNNPELREKILKKLIELLEDIS--SPE---------A---LAAAIWILGEYGELIENTE-SAPDILRSLIEN 462 (526)
T ss_dssp HHHHHHH-HHSTTTHHHHHHHHHHHHTSSS--SHH---------H---HHHHHHHHHHHCHHHTTTT-HHHHHHHHHHHH
T ss_pred HHHHHHh-hcChhhhHHHHHHHHHHHHHhh--HHH---------H---HHHHHhhhcccCCcccccc-cHHHHHHHHHHh
Confidence 1222222 1111111100 00000011111 000 1 1245666777544322233 666666666654
Q ss_pred CCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhc--C--CCCChHHHHHH
Q 045399 380 DSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTT--N--PQLAPRLRFMV 438 (802)
Q Consensus 380 ~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~--~--~~lssRIRFML 438 (802)
+.+++.+.-+.+|+...|.....+.. ...+.+++.+..+.. + ..+-.|.+|.+
T Consensus 463 -----~~~~~~~vk~~ilt~~~Kl~~~~~~~-~~~~~i~~~~~~~~~~~s~~~evr~Ra~~y~ 519 (526)
T PF01602_consen 463 -----FIEESPEVKLQILTALAKLFKRNPEN-EVQNEILQFLLSLATEDSSDPEVRDRAREYL 519 (526)
T ss_dssp -----HTTSHHHHHHHHHHHHHHHHHHSCST-THHHHHHHHHHCHHHHS-SSHHHHHHHHHHH
T ss_pred -----hccccHHHHHHHHHHHHHHHhhCCch-hhHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Confidence 23456788889999999888765421 122456666666555 3 34556666543
No 62
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=23.56 E-value=1.1e+03 Score=27.39 Aligned_cols=133 Identities=12% Similarity=0.123 Sum_probs=81.8
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHhhCCCCCh---HHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHH
Q 045399 637 DELCRKTISLLEEYFNIRVLEEALMCVEELKSPGYH---PEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIG 713 (802)
Q Consensus 637 eel~kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~---~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~ 713 (802)
+.+-++++.-|-.|+.+|....|.--++-|---.++ .+||.... +++..=|. ++++..-=.+++.
T Consensus 14 ~a~~kq~RrdIA~lL~sg~~~~A~~RvE~li~ee~~~~a~e~le~fC-----------elll~R~~-~i~~~~~cp~~l~ 81 (388)
T KOG2027|consen 14 EALAKQLRRDIADLLKSGQDERARIRVEHLIREENLLEAYEILELFC-----------ELLLARLS-LIEKQKECPDDLK 81 (388)
T ss_pred HHHHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHhh-HHhhcccCCHHHH
Confidence 467788899999999999998888776654221111 12222222 22222222 3333355567788
Q ss_pred HHHHHHhhcchhhhcCCCchh--------HHHHHHHHHHHHh---CCCCHHHHHHHHHhhHhHHHHHHHHHHHHHHHHhC
Q 045399 714 TGCLLFGALMDDVGIDLPRAP--------NNFGEIIGKLILA---GGLDFKVVQEILKKMEEEMYRKSVLDAALRIISCS 782 (802)
Q Consensus 714 ~Gf~~vle~LdDl~iDiP~A~--------~~La~~iar~I~d---~~l~~~~l~~~~~~~e~~~~~~~v~~a~l~~l~~~ 782 (802)
.|+..|+-...-+. |||-.. .|=-+|+..++.. .+++..+|..+.-.......+.+++.+..+.....
T Consensus 82 EAVsSlifAA~R~~-EvpEL~~i~~~f~~kYGk~f~~~a~~l~p~~~Vn~kiiekLs~~~P~~e~k~k~lkEIA~ey~v~ 160 (388)
T KOG2027|consen 82 EAVSSLIFAAPRLS-EVPELREIRDLFVKKYGKEFVKAAIELRPGNGVNRKIIEKLSVEAPPKELKEKYLKEIAKEYNVN 160 (388)
T ss_pred HHHHHHHHHhcccc-ccHHHHHHHHHHHHHHhHHHHHHHHhccccCCcCHHHHHHhcCCCCcHHHHHHHHHHHHHHhCCC
Confidence 88888888777777 777543 3334455556655 57777777777666666666777766666655443
No 63
>PLN03077 Protein ECB2; Provisional
Probab=23.52 E-value=4.3e+02 Score=33.18 Aligned_cols=26 Identities=15% Similarity=0.155 Sum_probs=22.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhhCC
Q 045399 643 TISLLEEYFNIRVLEEALMCVEELKS 668 (802)
Q Consensus 643 ~~siL~EY~~~~D~~EA~~cvkEL~~ 668 (802)
...+|.-|...++.+||+..++++..
T Consensus 256 ~n~li~~~~~~g~~~eAl~lf~~M~~ 281 (857)
T PLN03077 256 WNAMISGYFENGECLEGLELFFTMRE 281 (857)
T ss_pred hHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 47788889999999999999998854
No 64
>PRK09498 sifA secreted effector protein SifA; Reviewed
Probab=23.48 E-value=1.4e+02 Score=32.85 Aligned_cols=47 Identities=15% Similarity=0.212 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHh
Q 045399 641 RKTISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKNPPCVDPVTKLLEYLFT 703 (802)
Q Consensus 641 kk~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~ 703 (802)
+.+=.-|++||.+.--.||.+||.||--|. .+..||.+..+|..|..
T Consensus 28 ~~LWEKIKdFFcSThqaeA~~CI~eLchp~----------------~~~trE~i~~~F~~Lk~ 74 (336)
T PRK09498 28 KVLWEKIKDFFFSTGKAKADRCLHEMLFAD----------------RAPTRERLTEIFFELKE 74 (336)
T ss_pred HHHHHHHHHHhhcccHHHHHHHHHHHhCCC----------------CCCCHHHHHHHHHHHHH
Confidence 334455789999999999999999995442 34456666666666654
No 65
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=23.02 E-value=4.9e+02 Score=25.15 Aligned_cols=93 Identities=16% Similarity=0.224 Sum_probs=59.7
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCCh--hcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC
Q 045399 350 GNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAE--ENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN 427 (802)
Q Consensus 350 GnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~ 427 (802)
+.|.-|+++.+..-...+....+|++=|.+. .|.. ..|..|-.+++.||..+...-.. ..+++.|..++.+
T Consensus 24 ~~~l~icD~i~~~~~~~kea~~~l~krl~~~---~~~vq~~aL~lld~lvkNcg~~f~~ev~~----~~fl~~l~~l~~~ 96 (140)
T PF00790_consen 24 SLILEICDLINSSPDGAKEAARALRKRLKHG---NPNVQLLALTLLDALVKNCGPRFHREVAS----KEFLDELVKLIKS 96 (140)
T ss_dssp HHHHHHHHHHHTSTTHHHHHHHHHHHHHTTS---SHHHHHHHHHHHHHHHHHSHHHHHHHHTS----HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHHHHHcCCHHHHHHHhH----HHHHHHHHHHHcc
Confidence 4556689999988666666666666666652 1211 25666667777888887642111 3466677777665
Q ss_pred CCCChH--HHHHHHHHHHHHhCCC
Q 045399 428 PQLAPR--LRFMVRDVLDLRANNW 449 (802)
Q Consensus 428 ~~lssR--IRFML~dvidLR~n~W 449 (802)
...... ||-.+..+|.-.....
T Consensus 97 ~~~~~~~~Vk~k~l~ll~~W~~~f 120 (140)
T PF00790_consen 97 KKTDPETPVKEKILELLQEWAEAF 120 (140)
T ss_dssp TTTHHHSHHHHHHHHHHHHHHHHT
T ss_pred CCCCchhHHHHHHHHHHHHHHHHH
Confidence 555554 8888888888766555
No 66
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=22.93 E-value=1.5e+02 Score=31.43 Aligned_cols=19 Identities=32% Similarity=0.239 Sum_probs=8.7
Q ss_pred CCcccccCHHHHHHHHHhh
Q 045399 77 GRERVRYTREQLLQLREAA 95 (802)
Q Consensus 77 ~~~~~~y~~~~l~~~~~~~ 95 (802)
..+.-+|--..-+.|++.+
T Consensus 47 ~t~~E~~~v~~~~~lr~~~ 65 (233)
T PF11705_consen 47 LTEEERYLVALKRELRERM 65 (233)
T ss_pred CCHHHHHHHHHHHHHHHHH
Confidence 3344444444444455554
No 67
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=22.18 E-value=4.9e+02 Score=22.66 Aligned_cols=48 Identities=23% Similarity=0.131 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCHHHHHHHHHHHhhcc
Q 045399 672 HPEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITARDIGTGCLLFGALM 723 (802)
Q Consensus 672 ~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vle~L 723 (802)
+++.|..++...+.. .-+.+...+..|..+ -++..++.+.+.+++-..
T Consensus 4 ~~~~i~~i~~~~~~~---~~~~~~~~~~~l~~~-G~s~~~Il~~l~~~l~~~ 51 (89)
T PF08542_consen 4 PPEVIEEILESCLNG---DFKEARKKLYELLVE-GYSASDILKQLHEVLVES 51 (89)
T ss_dssp -HHHHHHHHHHHHHT---CHHHHHHHHHHHHHT-T--HHHHHHHHHHHHHTS
T ss_pred CHHHHHHHHHHHHhC---CHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHHh
Confidence 356666666666554 345566666777776 578888888777766555
No 68
>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.
Probab=22.07 E-value=6.7e+02 Score=23.62 Aligned_cols=93 Identities=16% Similarity=0.105 Sum_probs=67.1
Q ss_pred CCHHHHHHHHHHHHHHHhcCC--CHHHHHHHHHhhCCCCCh--HHHHHHHHHHhhcCCCCChHHHHHHHHHHHhCCCcCH
Q 045399 634 LNLDELCRKTISLLEEYFNIR--VLEEALMCVEELKSPGYH--PEVVKEAISLALEKNPPCVDPVTKLLEYLFTQKVITA 709 (802)
Q Consensus 634 ~s~eel~kk~~siL~EY~~~~--D~~EA~~cvkEL~~p~~~--~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~~~lls~ 709 (802)
-|.|||..+- .-||+.- |.=|+.+.+.+|-.=+.. |.+|..++..+ |.-.+-.++...|..+..+.-...
T Consensus 3 Et~EeF~aRy----e~~F~~~~iD~we~rr~mN~l~~~DlVP~P~ii~aaLrAc--RRvND~alAVR~lE~vK~K~~~~~ 76 (103)
T cd00923 3 ETDEEFDARY----ETYFNRPDIDGWELRRGLNNLFGYDLVPEPKVIEAALRAC--RRVNDFALAVRILEAIKDKCGAHK 76 (103)
T ss_pred ccHHHHHHHH----HHHhCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHH--HHhhhHHHHHHHHHHHHHHccCch
Confidence 3566776554 4488766 788999999988654443 67777777654 455567888899988775433366
Q ss_pred HHHHHHHHHHhhcchhhhcCCCc
Q 045399 710 RDIGTGCLLFGALMDDVGIDLPR 732 (802)
Q Consensus 710 ~q~~~Gf~~vle~LdDl~iDiP~ 732 (802)
+++..=++++-..+++|.|+.|-
T Consensus 77 ~~y~~~lqeikp~l~ELGI~t~E 99 (103)
T cd00923 77 EIYPYILQEIKPTLKELGISTPE 99 (103)
T ss_pred hhHHHHHHHHhHHHHHHCCCCHH
Confidence 77888888888889999988874
No 69
>PF10155 DUF2363: Uncharacterized conserved protein (DUF2363); InterPro: IPR019312 This entry represents a region of 120 amino acids in proteins conserved from plants to humans. Their function is not known.
Probab=21.69 E-value=5.7e+02 Score=24.81 Aligned_cols=32 Identities=25% Similarity=0.260 Sum_probs=25.6
Q ss_pred CChHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Q 045399 689 PCVDPVTKLLEYLFTQKVITARDIGTGCLLFG 720 (802)
Q Consensus 689 ~~re~vs~LL~~L~~~~lls~~q~~~Gf~~vl 720 (802)
.-..+++.+|..|+..+++..+++..=++.+.
T Consensus 77 R~VRlvcvfl~sLir~~i~~~~~l~~evq~FC 108 (126)
T PF10155_consen 77 RLVRLVCVFLQSLIRNKIIDVEDLFIEVQAFC 108 (126)
T ss_pred chhhhHHHHHHHHHHcCCCchHHHHhhHHHHH
Confidence 44579999999999999999988766555543
No 70
>PF13311 DUF4080: Protein of unknown function (DUF4080)
Probab=21.38 E-value=5.1e+02 Score=26.63 Aligned_cols=74 Identities=16% Similarity=0.216 Sum_probs=50.5
Q ss_pred CCCCCCHHHHH--HHHHHHHHHHhcCCCHHHHHHHHHhh-CCCC-ChHHHHHHHHHHhhcCCCCChHHHHHHHHHHHh
Q 045399 630 PAGKLNLDELC--RKTISLLEEYFNIRVLEEALMCVEEL-KSPG-YHPEVVKEAISLALEKNPPCVDPVTKLLEYLFT 703 (802)
Q Consensus 630 ~~~~~s~eel~--kk~~siL~EY~~~~D~~EA~~cvkEL-~~p~-~~~e~V~~~I~~aLEk~~~~re~vs~LL~~L~~ 703 (802)
..+-+|-+|+. |.+..+++-|+++|-....+..|-.. .+|. +...|..-+-.....+..-.++.+..+|...+.
T Consensus 18 ~t~~Ls~~ei~~Lk~~e~~le~yyNSgrF~~tl~~l~~~~~spF~ff~~l~~~~~~~g~~~~~~s~~~l~~~L~~F~~ 95 (190)
T PF13311_consen 18 STKWLSFDEIQRLKRFEDMLEKYYNSGRFDYTLEYLLKEFGSPFDFFEALADYWEEQGYFKRSHSLEDLFEILYDFLK 95 (190)
T ss_pred eCCCCCHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCHHHHHHHHHHHHHHCCCcccCCCHHHHHHHHHHHHH
Confidence 45678999887 57999999999999999999998876 3332 334455544455554444455555555555554
No 71
>PF02650 HTH_WhiA: WhiA C-terminal HTH domain; InterPro: IPR023054 This domain is found at the C terminus of the sporulation regulator WhiA. It is predicted to form a DNA binding helix-turn-helix structure []. ; PDB: 3HYI_A.
Probab=21.28 E-value=6.1e+02 Score=22.95 Aligned_cols=64 Identities=17% Similarity=0.294 Sum_probs=42.8
Q ss_pred hhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCChhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHh
Q 045399 347 RTLGNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPAEENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELT 425 (802)
Q Consensus 347 r~lGnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~ 425 (802)
+-+-.|.||=+-.....+++....-|--.|-. .|.++.-|+.+|.. +-+++-+..+|.+|+++.
T Consensus 21 ~qi~~I~~i~~~~~~~~l~~~l~~~a~lRl~~-------Pd~SL~EL~~~~~~--------~iSKSgvnhrlrKl~~ia 84 (85)
T PF02650_consen 21 KQIEAIEFIEENNGLDKLPEKLREFAELRLEN-------PDASLKELGELLEP--------PISKSGVNHRLRKLKKIA 84 (85)
T ss_dssp HHHHHHHHHHHHT-GGGS-HHHHHHHHHHHH--------TTS-HHHHHHTT----------T--HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcccccCCHHHHHHHHHHHHC-------ccccHHHHHHHHcC--------cCcHHHHHHHHHHHHHHh
Confidence 34678999999888889999988777655543 35688877777766 345577888999988875
No 72
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=20.90 E-value=1e+02 Score=20.99 Aligned_cols=26 Identities=23% Similarity=0.263 Sum_probs=22.2
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhhCCC
Q 045399 644 ISLLEEYFNIRVLEEALMCVEELKSP 669 (802)
Q Consensus 644 ~siL~EY~~~~D~~EA~~cvkEL~~p 669 (802)
..+|.-|...++.++|...+.++...
T Consensus 4 n~li~~~~~~~~~~~a~~~~~~M~~~ 29 (35)
T TIGR00756 4 NTLIDGLCKAGRVEEALELFKEMLER 29 (35)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence 57888999999999999999988543
No 73
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=20.79 E-value=9.5e+02 Score=24.87 Aligned_cols=80 Identities=21% Similarity=0.128 Sum_probs=48.8
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCC---CCChHHHHHHHHHHHhCCCcCHHHHHHHHHHH
Q 045399 643 TISLLEEYFNIRVLEEALMCVEELKSPGYHPEVVKEAISLALEKN---PPCVDPVTKLLEYLFTQKVITARDIGTGCLLF 719 (802)
Q Consensus 643 ~~siL~EY~~~~D~~EA~~cvkEL~~p~~~~e~V~~~I~~aLEk~---~~~re~vs~LL~~L~~~~lls~~q~~~Gf~~v 719 (802)
...+++.|. .+|.+++..+++++..-.....-++.-|...|.+. +-+|+-+..|+..+- ++....+.+
T Consensus 30 L~~~~~~~~-~~~~~~~~~~~~~I~~lE~eaD~i~~~i~~~L~~~fitP~dReDi~~L~~~lD--------~I~D~i~~~ 100 (216)
T TIGR00153 30 LIKSFELLK-SGNNEKDEELRKEIIEIEHEADEIKREIRLNLEKGAFLPNDRRDLLELAELLD--------EILDSLEHA 100 (216)
T ss_pred HHHHHHHHH-hCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCcCcHHHHHHHHHHHH--------HHHHHHHHH
Confidence 334455564 55555555555555443455556666666677664 889999999988764 455555555
Q ss_pred hhcchhhhcCCC
Q 045399 720 GALMDDVGIDLP 731 (802)
Q Consensus 720 le~LdDl~iDiP 731 (802)
...+.=..++.|
T Consensus 101 a~~l~l~~~~~~ 112 (216)
T TIGR00153 101 AMLYELRKFEFP 112 (216)
T ss_pred HHHHhcccCCCC
Confidence 555554455566
No 74
>PTZ00429 beta-adaptin; Provisional
Probab=20.59 E-value=1.8e+03 Score=27.93 Aligned_cols=193 Identities=16% Similarity=0.203 Sum_probs=89.8
Q ss_pred hHHHH-HHHHHHHhhcCCHhhHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCC
Q 045399 218 EKERV-LKTVKGILNKLTPEKFDLLKGQLIDSGI-TSADILKEVISLIFDKAVLEPTFCPMYAQLCSDLNEKLPPFPSDE 295 (802)
Q Consensus 218 e~e~l-~r~Vk~ILNKLTpenfd~l~~qLl~l~I-~s~e~Lk~VI~lIFeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e 295 (802)
|...+ ..++.-++.-.|++|++.|+++|.++.- .+.+....+|..|=.=|+.-|..+.-+......|...-..+.
T Consensus 345 Dp~yIK~~KLeIL~~Lane~Nv~~IL~EL~eYa~d~D~ef~r~aIrAIg~lA~k~~~~a~~cV~~Ll~ll~~~~~~v--- 421 (746)
T PTZ00429 345 DPPFVKLEKLRLLLKLVTPSVAPEILKELAEYASGVDMVFVVEVVRAIASLAIKVDSVAPDCANLLLQIVDRRPELL--- 421 (746)
T ss_pred CcHHHHHHHHHHHHHHcCcccHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcCCchhH---
Confidence 33344 3344445555568899999999998632 245666777777776676555444333322222221100000
Q ss_pred CCCchhhHHHHHHHHHHHHHhhhhhhHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHHHHHHHHH
Q 045399 296 PGGKEITFKRVLLNICQEAFEGADKLREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQE 375 (802)
Q Consensus 296 ~~~~~~~Frr~LL~rcQeeFe~~~~~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~Im~~cI~~ 375 (802)
...+.+-+.|+.+.=+.| .+..-+.....++ .. +-+ +| -+.|=.|||... .|.. ..++|..
T Consensus 422 --~e~i~vik~IlrkyP~~~----il~~L~~~~~~~~--i~--e~~--AK---aaiiWILGEy~~--~I~~--a~~~L~~ 482 (746)
T PTZ00429 422 --PQVVTAAKDIVRKYPELL----MLDTLVTDYGADE--VV--EEE--AK---VSLLWMLGEYCD--FIEN--GKDIIQR 482 (746)
T ss_pred --HHHHHHHHHHHHHCccHH----HHHHHHHhhcccc--cc--cHH--HH---HHHHHHHHhhHh--hHhh--HHHHHHH
Confidence 011222222222211111 0000000000000 00 111 11 256667888653 3322 3456666
Q ss_pred HhcCCCCCCCChhcHHHHHHHHHHHhhhhhcCCc-hhHhHHHHHHHHHHHhcCCCCChHHHHH
Q 045399 376 LLGHDSSTCPAEENVEAICQFVNTIGKQLDEGPK-SRRINDMYFSRLKELTTNPQLAPRLRFM 437 (802)
Q Consensus 376 LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k-~~~~mD~~F~rL~~l~~~~~lssRIRFM 437 (802)
++++ ..+|+.+-=..+|+++-|.+-..+. .+..+..+|..+.+-..+..+=-|.+|-
T Consensus 483 ~i~~-----f~~E~~~VqlqlLta~vKlfl~~p~~~~~~l~~vL~~~t~~~~d~DVRDRA~~Y 540 (746)
T PTZ00429 483 FIDT-----IMEHEQRVQLAILSAAVKMFLRDPQGMEPQLNRVLETVTTHSDDPDVRDRAFAY 540 (746)
T ss_pred HHhh-----hccCCHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHhcCCChhHHHHHHHH
Confidence 6654 3456677788899999998876542 2223333443332222233444555543
No 75
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=20.34 E-value=6.7e+02 Score=24.54 Aligned_cols=112 Identities=11% Similarity=0.058 Sum_probs=66.8
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCCCCCC--hhcHHHHHHHHHHHhhhhhcCCchhHhHHHHHHHHHHHhcC
Q 045399 350 GNIRLIGELLKQKMVPEKIVHHIVQELLGHDSSTCPA--EENVEAICQFVNTIGKQLDEGPKSRRINDMYFSRLKELTTN 427 (802)
Q Consensus 350 GnIrFIGELyk~~ml~e~Im~~cI~~LL~~~~~~~p~--Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~mD~~F~rL~~l~~~ 427 (802)
+.|.=|+.+.+.+-...+-...+|++=|.... .|. -..|..|=.+++.||..+...-.++..++.+ |..++..
T Consensus 20 ~~ileicD~In~~~~~~k~a~ralkkRl~~~~--n~~v~l~aL~LLe~~vkNCG~~fh~eiask~Fl~e~---L~~~i~~ 94 (141)
T cd03565 20 GLNMEICDIINETEDGPKDAVRALKKRLNGNK--NHKEVMLTLTVLETCVKNCGHRFHVLVAKKDFIKDV---LVKLINP 94 (141)
T ss_pred HHHHHHHHHHhCCCCcHHHHHHHHHHHHccCC--CHHHHHHHHHHHHHHHHHccHHHHHHHHHHHhhhHH---HHHHHcc
Confidence 56777888888877766655555555444210 111 1256677778888998887533333444442 4444443
Q ss_pred -CCCChHHHHHHHHHHHHHhCCCCccccccCcccHHHHHHHHH
Q 045399 428 -PQLAPRLRFMVRDVLDLRANNWVPRREEVTAKTITEIHSEAE 469 (802)
Q Consensus 428 -~~lssRIRFML~dvidLR~n~W~~r~~~~~pkti~eI~~ea~ 469 (802)
...+..|+-.|..+|.-........ -.-+-|.+.+++-.
T Consensus 95 ~~~~~~~Vk~kil~li~~W~~~f~~~---~~l~~i~~~y~~L~ 134 (141)
T cd03565 95 KNNPPTIVQEKVLALIQAWADAFRGS---PDLTGVVEVYEELK 134 (141)
T ss_pred cCCCcHHHHHHHHHHHHHHHHHhCCC---ccchHHHHHHHHHH
Confidence 3356789998888888776555322 12344677776543
No 76
>PF12145 Med12-LCEWAV: Eukaryotic Mediator 12 subunit domain; InterPro: IPR021990 This domain is found in eukaryotes, and is typically between 325 and 354 amino acids in length. The function of this particular region of the Mediator subunit Med12 is not known, but there is a conserved sequence motif: LCEWAV, from which the name derives.
Probab=20.19 E-value=2.9e+02 Score=32.74 Aligned_cols=146 Identities=21% Similarity=0.294 Sum_probs=77.1
Q ss_pred ccCCCccccCCCChHHHHHHHH---HHHhhcCC------HhhHHHHHHHHHHhccC--CHHHH--------------HHH
Q 045399 205 AEVPWSAKRGNLSEKERVLKTV---KGILNKLT------PEKFDLLKGQLIDSGIT--SADIL--------------KEV 259 (802)
Q Consensus 205 ~en~w~~~r~~~se~e~l~r~V---k~ILNKLT------penfd~l~~qLl~l~I~--s~e~L--------------k~V 259 (802)
+|++|+.-.-..+.......+| -.+|.+.. +..+|.|...|+..... ..+.+ ..+
T Consensus 160 aE~rWs~dk~q~s~~g~~i~rVL~~Le~LD~h~f~r~d~~nsld~LY~kIF~~~~~~~~~~~~~~~~~~~~~~~~~d~ai 239 (480)
T PF12145_consen 160 AESRWSFDKCQESTAGFTITRVLHTLEILDRHCFDRVDSPNSLDTLYNKIFPSIQKKDSEEELQQQPKFSEYEPPQDDAI 239 (480)
T ss_pred HHcccCHHhhhhcccchHHHHHHHHHHHhcccceeeccCCCcHHHHHHhcCCCCccccccchhcccccccccccccchHH
Confidence 6999985221111111223333 34555544 44578888888864321 22233 568
Q ss_pred HHHHHHHhhcCCCchHHH----HHHHHHHhhhCCCC------CCCCCC---------CchhhHHHHHHHHHHHHHhhhhh
Q 045399 260 ISLIFDKAVLEPTFCPMY----AQLCSDLNEKLPPF------PSDEPG---------GKEITFKRVLLNICQEAFEGADK 320 (802)
Q Consensus 260 I~lIFeKAi~Ep~fs~~Y----A~LC~~L~~~lp~~------~~~e~~---------~~~~~Frr~LL~rcQeeFe~~~~ 320 (802)
|.+++|=||....+-.-= |+|..+-...+-.. ..+++. .....|-.+|++ |-..+.
T Consensus 240 V~lLCEWAVs~~R~G~HRA~vVA~LLekrq~~~~~~~~~~s~~~d~k~s~~s~~~~~~~~PvfQ~~L~~-----FLD~~A 314 (480)
T PF12145_consen 240 VRLLCEWAVSPKRWGEHRAMVVAKLLEKRQNEIEAERCNESEVLDEKDSISSGSLSISSLPVFQNLLMK-----FLDTQA 314 (480)
T ss_pred HHhhhhcccccccccchHHHHHHHHHHHHHHHhhhhcccccccCcccccccccccCCCcchHHHHHHHH-----HhcccC
Confidence 999999999876543332 44443322222111 012211 122459999988 866421
Q ss_pred hHHHHHhcCCchHHHHHHhHHHHHhhhhhhHHHHHHHHHhcCCCCHHH
Q 045399 321 LREEVRQMTAPDQESERRDKERLVKLRTLGNIRLIGELLKQKMVPEKI 368 (802)
Q Consensus 321 ~~~e~~~~~~~e~E~E~~dke~~~Krr~lGnIrFIGELyk~~ml~e~I 368 (802)
..++.+..+.+ |....+.|.|.+||...+|.+..+
T Consensus 315 -----P~l~~~~s~~~--------~~eF~nLv~LF~ELIr~dVFSHd~ 349 (480)
T PF12145_consen 315 -----PVLDDPSSEQE--------KQEFANLVLLFSELIRHDVFSHDA 349 (480)
T ss_pred -----CCCCCCccccc--------cHHHHHHHHHHHHHHhccccchHH
Confidence 11211111111 234568999999999999997654
Done!