Query 004043
Match_columns 777
No_of_seqs 311 out of 910
Neff 6.0
Searched_HMMs 46136
Date Thu Mar 28 16:33:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004043.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004043hhsearch_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 1.9E-69 4.1E-74 653.5 41.9 759 2-776 142-940 (970)
2 PF02854 MIF4G: MIF4G domain; 100.0 1.3E-31 2.8E-36 269.1 20.7 202 199-424 1-209 (209)
3 smart00543 MIF4G Middle domain 100.0 4.1E-27 9E-32 236.4 21.9 194 200-424 2-200 (200)
4 smart00544 MA3 Domain in DAP-5 99.9 7.7E-23 1.7E-27 189.7 13.3 113 612-724 1-113 (113)
5 PF02847 MA3: MA3 domain; Int 99.9 3.8E-23 8.2E-28 191.5 10.8 113 612-724 1-113 (113)
6 KOG0403 Neoplastic transformat 99.8 6.8E-21 1.5E-25 206.4 12.9 140 601-746 496-636 (645)
7 KOG0403 Neoplastic transformat 99.8 3.9E-20 8.5E-25 200.6 14.0 151 609-760 341-491 (645)
8 KOG2140 Uncharacterized conser 99.8 2.5E-19 5.5E-24 197.1 15.8 193 195-429 161-353 (739)
9 KOG2141 Protein involved in hi 99.6 2.5E-14 5.4E-19 163.1 19.2 201 195-429 316-525 (822)
10 KOG2051 Nonsense-mediated mRNA 98.9 1.5E-08 3.1E-13 120.8 16.8 188 198-421 423-614 (1128)
11 KOG3942 MIF4G domain-containin 98.7 1.7E-07 3.7E-12 99.1 12.6 170 228-430 163-338 (348)
12 KOG0401 Translation initiation 98.2 3E-07 6.4E-12 113.6 -0.1 272 173-447 588-892 (970)
13 KOG2051 Nonsense-mediated mRNA 98.0 0.0002 4.4E-09 86.5 18.4 192 200-422 632-835 (1128)
14 KOG1104 Nuclear cap-binding co 95.4 0.77 1.7E-05 55.0 18.5 202 190-429 19-248 (759)
15 PF12152 eIF_4G1: Eukaryotic t 89.9 0.17 3.6E-06 44.2 1.5 27 54-80 42-69 (75)
16 PF05918 API5: Apoptosis inhib 89.3 5.1 0.00011 47.5 13.5 156 196-379 177-346 (556)
17 PF02847 MA3: MA3 domain; Int 85.8 6 0.00013 36.3 9.3 63 199-263 2-66 (113)
18 smart00544 MA3 Domain in DAP-5 80.8 7.9 0.00017 35.6 8.0 62 200-263 3-66 (113)
19 KOG2140 Uncharacterized conser 73.0 35 0.00075 40.2 11.6 49 213-262 467-515 (739)
20 PF07817 GLE1: GLE1-like prote 64.9 1.5E+02 0.0032 31.8 14.0 168 196-383 27-241 (256)
21 PF02854 MIF4G: MIF4G domain; 62.8 43 0.00094 33.1 9.1 123 614-738 2-134 (209)
22 PLN00131 hypothetical protein; 55.1 1.6E+02 0.0036 29.3 10.9 68 598-676 117-185 (218)
23 PF05456 eIF_4EBP: Eukaryotic 53.6 4 8.6E-05 38.7 -0.3 18 61-78 44-61 (116)
24 PRK14703 glutaminyl-tRNA synth 50.4 2.9E+02 0.0064 34.5 14.7 86 663-760 663-761 (771)
25 PF04844 Ovate: Transcriptiona 49.1 45 0.00098 28.0 5.3 46 609-654 5-52 (59)
26 PLN03081 pentatricopeptide (PP 45.5 1.6E+02 0.0035 35.9 11.7 61 617-681 263-323 (697)
27 KOG2141 Protein involved in hi 44.7 67 0.0014 39.2 7.7 105 208-347 628-732 (822)
28 PRK05477 gatB aspartyl/glutamy 42.5 2.9E+02 0.0063 32.6 12.5 87 663-761 367-466 (474)
29 PLN03218 maturation of RBCL 1; 40.6 1.5E+02 0.0033 38.3 10.7 68 616-684 582-650 (1060)
30 TIGR01568 A_thal_3678 uncharac 40.3 91 0.002 26.8 5.9 47 608-654 10-59 (66)
31 PF08044 DUF1707: Domain of un 39.6 41 0.0009 27.5 3.6 45 660-704 4-53 (53)
32 cd03567 VHS_GGA VHS domain fam 36.1 2.3E+02 0.005 27.7 8.9 94 325-425 19-118 (139)
33 TIGR01446 DnaD_dom DnaD and ph 36.1 1.2E+02 0.0025 25.7 6.2 53 631-686 20-72 (73)
34 PF08876 DUF1836: Domain of un 35.7 1.1E+02 0.0023 28.7 6.2 48 662-709 57-104 (105)
35 PF10602 RPN7: 26S proteasome 33.3 1.4E+02 0.0029 30.3 7.1 57 605-661 28-88 (177)
36 smart00543 MIF4G Middle domain 33.0 4.1E+02 0.0089 26.1 10.6 31 705-735 94-124 (200)
37 PF12854 PPR_1: PPR repeat 32.9 58 0.0013 23.6 3.2 26 615-640 9-34 (34)
38 PF04286 DUF445: Protein of un 32.4 4.3E+02 0.0092 29.0 11.5 93 608-700 102-200 (367)
39 PLN03218 maturation of RBCL 1; 31.7 2.6E+02 0.0057 36.3 10.8 67 615-682 616-683 (1060)
40 PTZ00429 beta-adaptin; Provisi 30.5 1.2E+03 0.025 29.4 15.6 192 193-413 344-540 (746)
41 COG5537 IRR1 Cohesin [Cell div 28.2 8E+02 0.017 30.0 12.8 136 610-753 328-468 (740)
42 PRK09498 sifA secreted effecto 27.5 1.1E+02 0.0024 33.5 5.4 46 615-676 29-74 (336)
43 PLN03077 Protein ECB2; Provisi 27.0 2.8E+02 0.0061 34.7 9.9 64 615-682 325-388 (857)
44 PLN03081 pentatricopeptide (PP 26.3 3.7E+02 0.0081 32.7 10.5 62 616-681 161-222 (697)
45 PTZ00009 heat shock 70 kDa pro 25.5 3.2E+02 0.0068 33.4 9.6 78 361-442 512-596 (653)
46 TIGR00756 PPR pentatricopeptid 24.7 82 0.0018 21.4 2.8 25 617-641 4-28 (35)
47 PF10363 DUF2435: Protein of u 24.7 5.3E+02 0.011 23.4 8.7 81 651-736 7-87 (92)
48 cd03561 VHS VHS domain family; 24.5 6.2E+02 0.013 24.1 10.1 90 326-422 19-111 (133)
49 PF08542 Rep_fac_C: Replicatio 24.4 3.8E+02 0.0082 23.3 7.6 48 645-696 4-51 (89)
50 cd03569 VHS_Hrs_Vps27p VHS dom 24.0 4.1E+02 0.0088 25.9 8.3 109 325-444 22-132 (142)
51 COG1421 CRISPR system related 23.8 1.7E+02 0.0038 28.6 5.5 65 679-743 43-115 (137)
52 PF01535 PPR: PPR repeat; Int 23.5 1E+02 0.0022 20.6 3.0 25 617-641 4-28 (31)
53 PF10884 DUF2683: Protein of u 23.3 2E+02 0.0044 25.6 5.3 45 613-657 12-61 (80)
54 KOG2027 Spindle pole body prot 23.3 6.5E+02 0.014 29.0 10.8 133 610-755 14-160 (388)
55 PF13041 PPR_2: PPR repeat fam 22.5 1.6E+02 0.0034 22.8 4.2 29 616-644 6-34 (50)
56 PF05004 IFRD: Interferon-rela 22.4 9.5E+02 0.021 26.5 11.8 121 608-729 37-170 (309)
57 PF12612 TFCD_C: Tubulin foldi 21.9 2.5E+02 0.0054 28.6 6.7 37 642-678 2-38 (193)
58 PF01602 Adaptin_N: Adaptin N 21.7 1.3E+03 0.027 26.6 15.8 191 199-414 322-519 (526)
59 PF09851 SHOCT: Short C-termin 21.6 1.7E+02 0.0037 21.1 3.8 26 668-693 5-30 (31)
60 PF04147 Nop14: Nop14-like fam 21.5 1.4E+03 0.031 29.0 14.3 134 199-355 428-576 (840)
61 KOG2050 Puf family RNA-binding 21.1 1.6E+02 0.0035 35.3 5.5 60 615-676 322-387 (652)
62 PF13311 DUF4080: Protein of u 20.6 5.2E+02 0.011 26.4 8.7 86 603-688 18-107 (190)
63 PF10155 DUF2363: Uncharacteri 20.5 7E+02 0.015 24.0 9.0 32 662-693 77-108 (126)
64 PF12295 Symplekin_C: Sympleki 20.0 7.7E+02 0.017 25.2 9.7 87 629-734 95-181 (183)
No 1
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-69 Score=653.49 Aligned_cols=759 Identities=30% Similarity=0.420 Sum_probs=558.8
Q ss_pred CcCCcc---eeEeccCCCCCCCCCccccccCCCC--CCC--CCCCCCCCCCCCCCc---ccccCCCccCCCcccccCHHH
Q 004043 2 QAADQT---VISLRPGGGGGPRGTRLFTHRFDSS--STP--SSDSQTLPPHGGVAS---AFKMGDLRFEGHERVRYTREQ 71 (777)
Q Consensus 2 ~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~y~~~~ 71 (777)
+.+++. +++++|+|.. ...+.|+.....+ .+. ++....++.+++.+. .......++....+..|....
T Consensus 142 ~~~~~s~~~~l~~~~~~~~--~~~~~~~~~~~~s~~~~~~~~s~~~~~~~~~~~~~~~~~e~~~~~~~~~~l~~~~~~~~ 219 (970)
T KOG0401|consen 142 QEGEPSSTKALILKKSGEE--ADDKAFGEPKESSLGEGQADSSTPKTSEDGIPFEKPPDPEEQKASDRMDALTLAFSEEL 219 (970)
T ss_pred cCCCCCccccccccccccc--ccccccccccccccccccCCCCCcccccccCCCCCCCCcccccccccchhhhhhhhhhh
Confidence 345556 9999999995 3445555553322 221 222222455666433 445567778888899999999
Q ss_pred HHHHHHHhhhcHHHHHHhhhhhccccCCCCCCCCCCCCCCchhhhhhhhhcccCccccccCCCC--Cccchhhhhhhhhh
Q 004043 72 LLQLKEVAQLTEDILKIKQEIESEFDGEGQSWGGRAENNNLQSQFQARYLEADNRDWRTRSTTS--GQEKSLEANQEKME 149 (777)
Q Consensus 72 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~--~~~~~~~~~~~~~~ 149 (777)
+++......++.+++..+......+..++.+|. ...+..+.....|..++.++||..+..+. ...+.|++.++.+.
T Consensus 220 ~~~~e~~~~~~d~~~~~~e~~~~~~~~e~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~ 297 (970)
T KOG0401|consen 220 LLEAENTPRSSDEYVRRIEAEQEPLRPEEPSGL--RAIQKIPEKATERRAEESGRDKPEHEDQTKPAGNRLLDEPRESQP 297 (970)
T ss_pred hhhhhhcCCcchHHHHHHHHHhhccCCccchhh--hcccccccccccccccccccccccccccccccccccccchhhhcc
Confidence 999988889999988888777788889999883 22223456777899999999998776664 33356666666654
Q ss_pred hcccccc---cchhhhhhhcccCCCCCCccchhcccCCcccccCCCChHHHHHHHHHHhhccCChhhHHHHHHHHHhccC
Q 004043 150 FGAHEGQ---LNSQFASAQISTNQGAGPAPALIKAEVPWSARRGNLSEKDRVLKTVKGILNKLTPEKFDVLKGQLIDSGI 226 (777)
Q Consensus 150 ~~~~~~~---~~~~~~~~~~~~~~~~~p~~~l~~~e~~w~~~~~~~~e~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l~i 226 (777)
++++-.+ ....+.........+..|.+...++..+|...+..++..+++.+.|++|||||||++|+.++.+++++.+
T Consensus 298 ~~~~e~~~~~~~~~~~~~~~~~~~~~~ps~k~a~~~~~~~~~~~~~~~~~el~~~vrsilnkltp~~~~~l~~q~~~~~i 377 (970)
T KOG0401|consen 298 AENGEPAKKGVEEVEEVVLNFAQKAPSPSPKRAKSKSDQGAERKDVELKEELAKRVRSLLNKLTPERKELLIEQLIELNV 377 (970)
T ss_pred ccccccccccchhhhHHHHHhccCCCCCcchhhccccccccccchhHHHHHHHHHHhhhcCCCchHHHHHHHHHHHhhcc
Confidence 4332110 1223333333344556777777888888888777788899999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHhhhh-chHHHHhhcC
Q 004043 227 TTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEAFEGAD-NTRAEIRQMT 305 (777)
Q Consensus 227 ~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~cQeeFe~~~-~~~~ei~~~~ 305 (777)
++.+.|++||.+||||||.||+||.|||+||..|.. ++.++.-+.++..++||++||++||++|+... ...+++....
T Consensus 378 ~t~~~l~~vi~~vfdkAi~EP~f~~~yA~lc~~l~~-~~~~~~~~~~~~~~~fr~~lL~rcq~~fe~~~~~~~~~~~~~~ 456 (970)
T KOG0401|consen 378 DTDDALKEVIELVFDKAINEPTFCAMYARLCFDLEG-PPSEPELDMGGDEINFRRLLLNRCQKEFEGEDDKIADEYSEAE 456 (970)
T ss_pred CcHHHHhHHHHHHHHhhhcccccchhcchhcccccC-CccCCCcCCCCCcccHHHHHHHHhHHHhhcccHHHHHHhhhhc
Confidence 999999999999999999999999999999999998 55555555566789999999999999999987 6666777776
Q ss_pred ChHH-HHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCC
Q 004043 306 APEQ-EMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAEENVEAICQFFNTIGKQLDENP 384 (777)
Q Consensus 306 ~~e~-E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~ 384 (777)
.+++ |.++++.++++++|++|||+|||+||+.+|++++|||.||..||..+. ++|++|||+|+|++|+|+.||...
T Consensus 457 ~~~~~e~~le~~k~~~~~rtlgn~~~ig~l~~~~ml~e~i~~~~v~~Ll~~~~---~~ee~ie~lc~f~~tig~~lD~~~ 533 (970)
T KOG0401|consen 457 EPDELEEELEEEKYILRRRTLGNFRFIGELFKLKMLTEKIVHACVQKLLSDDQ---PSEESIECLCRFLTTIGKKLDFSK 533 (970)
T ss_pred CchhHHHHHHhccceecCCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccc---ccchhhhhHHhhhhcccccccccC
Confidence 6655 666667778889999999999999999999999999999999998742 799999999999999999999754
Q ss_pred chhhhHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHhCCCcccccccCcc-cHHHHHHHHHHhcCCCCchhhhhhcCCC
Q 004043 385 KSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLRANNWVPRREEMKAK-TITEIHSEAEKNLGLRPGATAMMRNGRT 463 (777)
Q Consensus 385 k~~~~md~yF~rL~~l~~~~~lssRiRFmL~dvidLR~nnW~~r~~~~~pk-ti~eI~~eae~~~~~~~~~~~~~r~~r~ 463 (777)
.....||.||.+++.+...+.+++|+|||+++++|||.++|++|+.+.+++ +|++||.++.+.....++....++..+.
T Consensus 534 ~s~r~md~~~~~~k~~~~~~~~s~r~RfM~~~~idlR~~~w~~rr~~~~~~~~ieei~~~~~~~~~~~p~~~~~~~~~~~ 613 (970)
T KOG0401|consen 534 ESPRNMDEYFNSMKNLKRKPQRSNRIRFMLQSVIDLRKSGWGPRRAEETNDKPIEEIAPEAPSANRWSPKSLSKKTEGRL 613 (970)
T ss_pred cccchhHHHHHHHHHhhhhhhhccchhhhhccccccccccccchhcccCCCCchhhcchhhhhhcccCcccccccccccc
Confidence 443349999999999999999999999999999999999999999988877 9999999999887755655544444432
Q ss_pred CCC---CC-C----CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCC--CCCCCCCCCCCCCCCCCCCCCC
Q 004043 464 GAT---GG-M----GPGGFPIARPGTGGMMPGMPGTQKMPGMPGFDTDNWEVPRSR--TMPRGDSKSPSQFPGRVQSPLI 533 (777)
Q Consensus 464 ~~~---g~-~----~~g~~~~~~~~~gg~~p~~~~~~~~p~~pg~~~d~~~~~~~~--s~~r~~~~~~~~~~~~~~~~~~ 533 (777)
+.. +. . .+.+....+...+.|+++++...-+..++.++.++|++.... ...+..+.. +.....+.+..
T Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k~~~~~~~~k~~~~--~~~~~~~~~~~ 691 (970)
T KOG0401|consen 614 AEESDSGLLGKEVVERKGKSGLRKLTPEMFDKISDPILDIADQSMDEEDGEASKQKGEQGGRKASDE--QHFSSMRAPAL 691 (970)
T ss_pred cccccccccCccccccccccccccCChhhcccccccccccchhhccccccchhhhcccccccccCcc--ccccccCCccc
Confidence 110 00 0 011122223344555666554444445556677777765332 122211111 00101122222
Q ss_pred CCCCCCC----CCcCCCCCCCCcCC--CcccccC---CCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCC
Q 004043 534 GKSPSIN----SKFLPQGSGGIISG--KTSALLQ---GSPTPSARPSGIASGVEPLTQYTKPVAPAASVVASPEKPSAPV 604 (777)
Q Consensus 534 ~k~~~~n----~~~~p~gs~~~~s~--k~sall~---~~~~p~~r~~~~~~~~~~~~~~~~~~k~~~~~p~~~~~~~~~~ 604 (777)
++..... ....++|+.+.... ..++... ..+....++++....+ .++-+.+. -.++.+.+.+...
T Consensus 692 ~~~~~~~s~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~-----~~e~~~~~-~~~~~~~~~~~~~ 765 (970)
T KOG0401|consen 692 EKVVPSLSSDIDDKRNRGSNGELLSDSYLSARCHEEFENGWSRELPSGKDGER-----EPEMMSPE-YYAAKAAKRAGLG 765 (970)
T ss_pred cccccccccccccccccCCccccccccccchhhhhhccccccccCCCCccccc-----chhhcCcc-cchhhhhhccCCc
Confidence 2211111 13334444431111 1111111 1111111111111000 00101110 0011112223333
Q ss_pred C--CCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCH
Q 004043 605 T--KLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTT 682 (777)
Q Consensus 605 ~--~~s~eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~ 682 (777)
. ..+.+.+..+++.|++||++..+.+|++.|+++|++|.+|+.+|...|+..|++++..++++++||..|+..+.++.
T Consensus 766 ~v~~~~~~~l~~~sk~l~ee~~~~~~~~~~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~~~~~~~~~ll~~l~~~~~~~~ 845 (970)
T KOG0401|consen 766 LVIALSSELLELLSKSLLEEFLSLRLEKEALKCIEELESPSLLLKTVGENIEPTLEKSPQAVEELLQLLDILVSKNPLSI 845 (970)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccchhhhHHHHHHhcCcccccChhHHHHHHHHHHHHHhcCcccH
Confidence 4 78899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCChH-HHHHHHhhhcchhHHHHHHHHHHHHHhcCCCchhh
Q 004043 683 RDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFI-VLKEVLKKVEDNMFRRSIFTAAMKSIQSSPAGQEV 761 (777)
Q Consensus 683 ~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~~-~i~~~~~~~~~~~~~~~~~~a~l~~l~~~~~g~~v 761 (777)
+++..||..++..++|+.||+|++|.|+++|++.++..+++++. .+..+...+.+.+++..|+.+++..+...-+..++
T Consensus 846 ~~~~~~~~~~~~~~~d~~~d~pk~w~~~~e~~gp~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 925 (970)
T KOG0401|consen 846 ETLEIGYREKFKLADDKELDLPKGWNYIKEFLGPLIHQKILDESELVREILKNMRPNGRRSNVLFSVLEIVEKELGRADL 925 (970)
T ss_pred HHHhhhHHHHHhhhHHHhcccccchhHHHHhhhhHhhhccccHHHHHHHHhhcCCccccccchHHHHHHHHHHhhhHHHH
Confidence 99999999999999999999999999999999999999999994 56788888999999999999999999988899999
Q ss_pred HhhhhhhHHHHhhhh
Q 004043 762 LAVQGAEVQACESLL 776 (777)
Q Consensus 762 ~~~~~~~~~~~~~~~ 776 (777)
.+..+....+|+.++
T Consensus 926 ~~~~~~~~~s~~~~~ 940 (970)
T KOG0401|consen 926 GDIQRESFLSTKTLL 940 (970)
T ss_pred HHHHHHhcccchhcc
Confidence 999999999988764
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=99.98 E-value=1.3e-31 Score=269.07 Aligned_cols=202 Identities=42% Similarity=0.776 Sum_probs=174.5
Q ss_pred HHHHHHhhccCChhhHHHHHHHHHhccCC-CHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchh
Q 004043 199 LKTVKGILNKLTPEKFDVLKGQLIDSGIT-TPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDI 277 (777)
Q Consensus 199 ~r~Vk~ILNKLTpenfd~l~~qLl~l~i~-t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~~ 277 (777)
.|+|+++|||||++||+.++++|..+.+. +.+.++.+++.||++|+.+|+|+.+||+||..|+...+ .
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 48999999999999999999999998765 59999999999999999999999999999999999743 5
Q ss_pred hHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCC
Q 004043 278 TFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDG 357 (777)
Q Consensus 278 ~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~ 357 (777)
.|+..||+.||++|+.... ..+.+ +.....+++..|+++||||||+.+++++++|++|+..|+....
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 8999999999999998530 00111 1223456788999999999999999999999999999998742
Q ss_pred C---CCCChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhC---CCCChHHHHHHHHHHHHHhCC
Q 004043 358 K---TCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTN---SQLVPRLRFMIHDVLDLRANN 424 (777)
Q Consensus 358 ~---~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~---~~lssRiRFmL~dvidLR~nn 424 (777)
. ..+++++|||+|.+|.+||+.|+.....+..|+.||..++.+..+ ..+++|+||||++++|||+||
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 125679999999999999999995445667899999999999887 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=4.1e-27 Score=236.40 Aligned_cols=194 Identities=37% Similarity=0.584 Sum_probs=167.8
Q ss_pred HHHHHhhccCChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhH
Q 004043 200 KTVKGILNKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITF 279 (777)
Q Consensus 200 r~Vk~ILNKLTpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~~~F 279 (777)
++|+++|||||++||+.++++|..+.+.+++..+.+++.||++|+.+|.|+.+||+||..|+... ..|
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 68999999999999999999999998888899999999999999999999999999999999863 269
Q ss_pred HHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCC-
Q 004043 280 KRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGK- 358 (777)
Q Consensus 280 r~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~- 358 (777)
+..|++.||++|+.... .. +...++++.|+++||||||+.++++..++++|+..|+.....
T Consensus 70 ~~~ll~~~~~~f~~~~e----------------~~--~~~~~~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~ 131 (200)
T smart00543 70 GSLLLERLQEEFEKGLE----------------SE--EESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKL 131 (200)
T ss_pred HHHHHHHHHHHHHHHHH----------------HH--HHHhhhhHHhHHHHHHHHHHcccCcHHHHHHHHHHHHhccCCC
Confidence 99999999999988511 00 012346789999999999999999999999999999986311
Q ss_pred -CCCChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhCC---CCChHHHHHHHHHHHHHhCC
Q 004043 359 -TCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNS---QLVPRLRFMIHDVLDLRANN 424 (777)
Q Consensus 359 -~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~~---~lssRiRFmL~dvidLR~nn 424 (777)
...++++|||+|.+|.+||+.|+. ...+..|+.+|..++....+. .+++|+|||++++++||+++
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 223467999999999998876 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=7.7e-23 Score=189.68 Aligned_cols=113 Identities=35% Similarity=0.472 Sum_probs=110.4
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 004043 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLL 691 (777)
Q Consensus 612 l~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~Gf~~ 691 (777)
+++++..+|+||++++|.+||++||++|+.|++||+||+.+|..+||+++.+++.+++||.+|++.+++++++|..||.+
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 47899999999999999999999999999999999999999999999998999999999999999999999999999999
Q ss_pred HhhcchhhhcCCCchhHHHHHHHHHHHHcCCCC
Q 004043 692 YGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLD 724 (777)
Q Consensus 692 vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~ 724 (777)
+++.++|+++|+|+|+.++|+|+|++|.+|+||
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=3.8e-23 Score=191.46 Aligned_cols=113 Identities=35% Similarity=0.537 Sum_probs=107.2
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 004043 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLL 691 (777)
Q Consensus 612 l~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~Gf~~ 691 (777)
++|++..+|.|||+++|.+||+.||+||+.|.+|++||..+|..+||+++.+|+.++.||.+|++.++++.++|..||.+
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 68999999999999999999999999999998899999999999999999999999999999999999999999999999
Q ss_pred HhhcchhhhcCCCchhHHHHHHHHHHHHcCCCC
Q 004043 692 YGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLD 724 (777)
Q Consensus 692 vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~ 724 (777)
+++.++|+.+|+|++|+++|+|++++|.+|+||
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
>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]
Probab=99.84 E-value=6.8e-21 Score=206.44 Aligned_cols=140 Identities=25% Similarity=0.346 Sum_probs=126.9
Q ss_pred CCCC-CCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCC
Q 004043 601 SAPV-TKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNV 679 (777)
Q Consensus 601 ~~~~-~~~s~eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~l 679 (777)
+.++ +.++.+++++||..+|+||..+||+.||.+||+||..|+||||||+++|.++||++. +.+++.+||+.++++|+
T Consensus 496 WGgGG~g~sVed~kdkI~~LLeEY~~~GdisEA~~CikeLgmPfFhHEvVkkAlVm~mEkk~-d~t~~ldLLk~cf~sgl 574 (645)
T KOG0403|consen 496 WGGGGGGWSVEDAKDKIDMLLEEYELSGDISEACHCIKELGMPFFHHEVVKKALVMVMEKKG-DSTMILDLLKECFKSGL 574 (645)
T ss_pred ecCCCCcchHHHHHHHHHHHHHHHHhccchHHHHHHHHHhCCCcchHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHhcCc
Confidence 4444 899999999999999999999999999999999999999999999999999999985 34599999999999999
Q ss_pred CCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCChHHHHHHHhhhcchhHHHHHHH
Q 004043 680 LTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVEDNMFRRSIFT 746 (777)
Q Consensus 680 ls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~~~~~~~~~~~~~~~~~~ 746 (777)
||.+|+.+||.+|.+.|+||.+|||+|++.|..|+.+|...|++.. .+..+++...++.|..
T Consensus 575 IT~nQMtkGf~RV~dsl~DlsLDvPna~ekf~~~Ve~~~~~G~i~~-----~l~~~~~s~l~~~F~s 636 (645)
T KOG0403|consen 575 ITTNQMTKGFERVYDSLPDLSLDVPNAYEKFERYVEECFQNGIISK-----QLRDLCPSRLRKRFVS 636 (645)
T ss_pred eeHHHhhhhhhhhhccCcccccCCCcHHHHHHHHHHHHHHcCchhH-----Hhhhcchhhhcccccc
Confidence 9999999999999999999999999999999999999999996543 4455667777777743
No 7
>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]
Probab=99.83 E-value=3.9e-20 Score=200.61 Aligned_cols=151 Identities=23% Similarity=0.353 Sum_probs=142.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHH
Q 004043 609 LADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTG 688 (777)
Q Consensus 609 ~eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~G 688 (777)
...+++.+..||.|||.++|+.|.++|+++|+.|.|.+-|++.+|++|||+++.++||++.||+.|+- .++|++++..|
T Consensus 341 ~r~Fkk~~~~IIqEYFlsgDt~Evi~~L~DLn~~E~~~~f~k~lITLAldrK~~ekEMasvllS~L~~-e~fsteDv~~~ 419 (645)
T KOG0403|consen 341 LRAFKKDLTPIIQEYFLSGDTPEVIRSLRDLNLPEYNPGFLKLLITLALDRKNSEKEMASVLLSDLHG-EVFSTEDVEKG 419 (645)
T ss_pred HHHHHHhhHHHHHHHHhcCChHHHHHHHHHcCCccccchHHHHHHHHHhccchhHHHHHHHHHHHhhc-ccCCHHHHHHH
Confidence 56799999999999999999999999999999999999999999999999999999999999999998 79999999999
Q ss_pred HHHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCChHHHHHHHhhhcchhHHHHHHHHHHHHHhcCCCchh
Q 004043 689 CLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVEDNMFRRSIFTAAMKSIQSSPAGQE 760 (777)
Q Consensus 689 f~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~~~~~~~~~~~~~~~~~~a~l~~l~~~~~g~~ 760 (777)
|..+|+.++|+++|+|.|++.||.|+||||.|++|.+..|+++...+.+.....+.+..+-..|+...+|+.
T Consensus 420 F~mLLesaedtALD~p~a~~elalFlARAViDdVLap~~leei~~~lp~~s~g~et~~~ArsLlsar~aGeR 491 (645)
T KOG0403|consen 420 FDMLLESAEDTALDIPRASQELALFLARAVIDDVLAPTNLEEISGTLPPVSQGRETLDKARSLLSARHAGER 491 (645)
T ss_pred HHHHHhcchhhhccccccHHHHHHHHHHHHhhcccccCcHHHHcCCCCCchhhHHHHHHHHHHHHHhhcccc
Confidence 999999999999999999999999999999999999999999999999887777888888877777666533
No 8
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=99.81 E-value=2.5e-19 Score=197.06 Aligned_cols=193 Identities=25% Similarity=0.478 Sum_probs=167.3
Q ss_pred HHHHHHHHHHhhccCChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCC
Q 004043 195 KDRVLKTVKGILNKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGG 274 (777)
Q Consensus 195 ~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~ 274 (777)
+|.+.++|.+|+|||+..|+..++.+|+..+|--...| +...|++-....|.|+++||.|+..|+.++|.+
T Consensus 161 WEalkksInglInkvn~sNi~~ii~eLfqeNiirgRgl--~crsv~~aq~asp~ft~vyaALvAviNskfP~I------- 231 (739)
T KOG2140|consen 161 WEALKKSINGLINKVNASNIQEIIRELFQENIIRGRGL--LCRSVMQAQAASPGFTPVYAALVAVINSKFPQI------- 231 (739)
T ss_pred HHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHhccch--hHHHHHHHHhcCCCCcHHHHHHHHHHccCCchH-------
Confidence 57899999999999999999999999999887665555 777788877889999999999999999999876
Q ss_pred chhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhh
Q 004043 275 KDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLE 354 (777)
Q Consensus 275 ~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~ 354 (777)
+....++++|+ |.+..+ +.| |..|+..++||++|+++++.+|.+.++++.-||+
T Consensus 232 gElLlkrLilq-----f~r~f~----------------RnD-----k~~c~~~~kfiahLinq~VahEIv~Leil~lLLe 285 (739)
T KOG2140|consen 232 GELLLKRLILQ-----FKRSFR----------------RND-----KVSCLNASKFIAHLINQQVAHEIVALEILTLLLE 285 (739)
T ss_pred HHHHHHHHHHH-----HHHHhc----------------ccc-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45777888877 655432 222 2468899999999999999999999999999998
Q ss_pred cCCCCCCChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHhCCCcccc
Q 004043 355 NDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLRANNWVPRR 429 (777)
Q Consensus 355 ~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~~~lssRiRFmL~dvidLR~nnW~~r~ 429 (777)
. |++++||.++.+|+.||.+|-...+ ..++.+|++|+.+.....++.|++|||+.++..|+.+++..-
T Consensus 286 ~-----PTddSvevaI~flkecGakL~~VSp--r~~n~IfErlR~ILhe~Eld~rvqy~iEtlf~iRkdkfk~~p 353 (739)
T KOG2140|consen 286 R-----PTDDSVEVAIAFLKECGAKLAEVSP--RALNGIFERLRYILHEGELDRRVQYMIETLFQIRKDKFKSHP 353 (739)
T ss_pred C-----CCCchHHHHHHHHHHHHHHHHHhCh--HHHhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHhhccCC
Confidence 6 8999999999999999999986543 468999999999999999999999999999999998887543
No 9
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=99.60 E-value=2.5e-14 Score=163.09 Aligned_cols=201 Identities=20% Similarity=0.273 Sum_probs=153.9
Q ss_pred HHHHHHHHHHhhccCChhhHHHHHHHHHhccCC-CHHHHHHHHHHHHHHhhcCC-----CchHHHHHHHHHHhhhCCCCC
Q 004043 195 KDRVLKTVKGILNKLTPEKFDVLKGQLIDSGIT-TPDILKGVIELIFDKAVLEP-----TFCPMYALLCSDLNEKLPPFP 268 (777)
Q Consensus 195 ~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l~i~-t~e~L~~VI~lIFeKAi~Ep-----~fs~mYA~LC~~L~~~lp~~~ 268 (777)
..++.|+|+|+||||+..|+.+|+..|..++.. +....+..+.-...+|+.-| .++..||.|...|+....
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 357999999999999999999999999998764 33333444444445555543 589999999999998642
Q ss_pred CCCCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHH
Q 004043 269 SDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHI 348 (777)
Q Consensus 269 ~~e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~c 348 (777)
..|-..+++..-+.|-..++..+ ++... -+.|.+.+.|+++||+++++.+.+|+++
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 34556666666667776543111 11111 2357799999999999999999999999
Q ss_pred HHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhCC---CCChHHHHHHHHHHHHHhCCC
Q 004043 349 VQELLENDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNS---QLVPRLRFMIHDVLDLRANNW 425 (777)
Q Consensus 349 I~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~~---~lssRiRFmL~dvidLR~nnW 425 (777)
|..|..+ ++|-++|||..++..||..|..++. ..+..+...|+..+.+. ..++|+|||++.++.|++|+-
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 9999987 7999999999999999999998765 35677777777666543 247999999999999999887
Q ss_pred cccc
Q 004043 426 VPRR 429 (777)
Q Consensus 426 ~~r~ 429 (777)
.+.-
T Consensus 522 kki~ 525 (822)
T KOG2141|consen 522 KKIP 525 (822)
T ss_pred cCCC
Confidence 6543
No 10
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.94 E-value=1.5e-08 Score=120.79 Aligned_cols=188 Identities=21% Similarity=0.331 Sum_probs=143.9
Q ss_pred HHHHHHHhhcc----CChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCC
Q 004043 198 VLKTVKGILNK----LTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPG 273 (777)
Q Consensus 198 l~r~Vk~ILNK----LTpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~ 273 (777)
+..+|.+.|-+ ++.+-+|.++-++... ++|...=+.++..+|.---..-...+.|++|++.|+..+|.+
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 33344444444 4455566666666653 778888888999999877777788999999999999988755
Q ss_pred CchhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 004043 274 GKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELL 353 (777)
Q Consensus 274 ~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL 353 (777)
-.-|++..-++|...-..... .+.+. .+-+|+|||||.|.++++...++.|++.||
T Consensus 496 ------at~lv~~L~~eFr~~~hkK~q-------------~~iet-----k~~~VrfIsEL~KF~lv~~~~if~cLk~ll 551 (1128)
T KOG2051|consen 496 ------ATELVTMLRKEFRSHLHKKAQ-------------INIET-----KLKIVRFISELCKFQLVPKFEIFSCLKMLL 551 (1128)
T ss_pred ------HHHHHHHHHHHHHHHHhhhhh-------------hhhhh-----hhhhhhhHHhhhhhCccChHHHHHHHHHHH
Confidence 334666666777764211100 01111 235899999999999999999999999999
Q ss_pred hcCCCCCCChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHH
Q 004043 354 ENDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLR 421 (777)
Q Consensus 354 ~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~~~lssRiRFmL~dvidLR 421 (777)
.. ..-.+||.+|.||++||+.|-..+.++..|..++++|+.......+.+|..-+|++++-+=
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 76 3556899999999999999998888888899999999988777889999999999998875
No 11
>KOG3942 consensus MIF4G domain-containing protein [Translation, ribosomal structure and biogenesis]
Probab=98.68 E-value=1.7e-07 Score=99.14 Aligned_cols=170 Identities=18% Similarity=0.137 Sum_probs=131.9
Q ss_pred CHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCCh
Q 004043 228 TPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAP 307 (777)
Q Consensus 228 t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~ 307 (777)
+.+.|-.++-.|+.+||..-.|.-.-++||..|..... ..+.|+..||+.|++.|+-...++ +
T Consensus 163 ~de~l~rc~~~~~r~avegg~ggl~v~klC~n~~~~~~---------~gt~f~~~Lln~lrq~f~~r~gl~----s---- 225 (348)
T KOG3942|consen 163 DDEMLFRCGPTIARQAVEGGGGGLFVCKLCTNLGSSWR---------NGTQFMDELLNLLRQGFLLRTGLS----S---- 225 (348)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCchhHHHHhhhhhhhhh---------ccchHHHHHHHHHHHhhccchhcc----c----
Confidence 45788889999999999999999999999998876432 235699999999999999764321 0
Q ss_pred HHHHHHhhHHHHHHhhhhhHHHHHHHHHhcC-----CCCHHHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhc
Q 004043 308 EQEMERMDQERLVKLRTLGNIRLIGELLKQK-----MVPEKIVHHIVQELLENDGKTCPAEENVEAICQFFNTIGKQLDE 382 (777)
Q Consensus 308 e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~-----mL~e~Ii~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~ 382 (777)
....|+++.|.|++|||-+- ++=..+++.|++.|+..- .-.+..+|||.-.|...|..|++
T Consensus 226 -----------~~~~rw~~fisfltelf~nlgs~p~~vL~~~l~~cl~~llrsp---d~~~~e~ecl~~~L~~~g~dle~ 291 (348)
T KOG3942|consen 226 -----------LASCRWWRFISFLTELFDNLGSCPQVVLQRSLRLCLQILLRSP---DWPEFEYECLSMKLAVEGLDLEK 291 (348)
T ss_pred -----------hhHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHHHccCC---CcchHHHHHHHHHHHHcCccchh
Confidence 12358999999999999874 455788999999999862 23578999999999999999996
Q ss_pred CCchhhhHHHHHHHHHHHhhCCCCC-hHHHHHHHHHHHHHhCCCccccc
Q 004043 383 NPKSRRVNDVYFSRLKELTTNSQLV-PRLRFMIHDVLDLRANNWVPRRE 430 (777)
Q Consensus 383 ~~k~~~~md~yF~rL~~l~~~~~ls-sRiRFmL~dvidLR~nnW~~r~~ 430 (777)
.-. ..|..+|.-.++..-...-| .-+|.||..+|||.++.|.++..
T Consensus 292 qlP--~ql~lL~~s~rDafL~~sep~a~~r~~lllliel~As~wqlpt~ 338 (348)
T KOG3942|consen 292 QLP--FQLLLLFPSRRDAFLVRSEPLAPWRCPLLLLIELPASAWQLPTT 338 (348)
T ss_pred hhh--HHHHHHHHHHHHhhhccccccccccchhhhccccCccccCCCCC
Confidence 432 45666777666544333222 33699999999999999998753
No 12
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=98.19 E-value=3e-07 Score=113.61 Aligned_cols=272 Identities=20% Similarity=0.210 Sum_probs=181.7
Q ss_pred CCccchhcccCCccccc------CCC---C-----hHHHHHHHHHHhhccCChhhHHHHHHHHHhc-----cCCCHHHHH
Q 004043 173 GPAPALIKAEVPWSARR------GNL---S-----EKDRVLKTVKGILNKLTPEKFDVLKGQLIDS-----GITTPDILK 233 (777)
Q Consensus 173 ~p~~~l~~~e~~w~~~~------~~~---~-----e~e~l~r~Vk~ILNKLTpenfd~l~~qLl~l-----~i~t~e~L~ 233 (777)
...++...+.+.|.+.. ..+ + ..+.+.+.+++-+|++|+++|+.+...++.. .-.+.+.++
T Consensus 588 eei~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k 667 (970)
T KOG0401|consen 588 EEIAPEAPSANRWSPKSLSKKTEGRLAEESDSGLLGKEVVERKGKSGLRKLTPEMFDKISDPILDIADQSMDEEDGEASK 667 (970)
T ss_pred hhcchhhhhhcccCcccccccccccccccccccccCccccccccccccccCChhhcccccccccccchhhccccccchhh
Confidence 44467777888898732 111 1 1234578999999999999999999998764 234678999
Q ss_pred HHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCC---CCCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHH
Q 004043 234 GVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPS---DEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQE 310 (777)
Q Consensus 234 ~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~---~e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E 310 (777)
.++..++.|+..+++|+.+|+..|.........-.. .........+...+..+|+.+|.+.+...---........|
T Consensus 668 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~e 747 (970)
T KOG0401|consen 668 QKGEQGGRKASDEQHFSSMRAPALEKVVPSLSSDIDDKRNRGSNGELLSDSYLSARCHEEFENGWSRELPSGKDGEREPE 747 (970)
T ss_pred hcccccccccCccccccccCCccccccccccccccccccccCCccccccccccchhhhhhccccccccCCCCcccccchh
Confidence 999999999999999999999999987654321000 11112345788899999999999876421000000000001
Q ss_pred H--HHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCCchhh
Q 004043 311 M--ERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAEENVEAICQFFNTIGKQLDENPKSRR 388 (777)
Q Consensus 311 ~--E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~ 388 (777)
+ .........+++.+|+| +......+.+.+..|++.|+...+.. ...+..+.++..|.++++||..++.......
T Consensus 748 ~~~~~~~~~~~~~~~~~~~v-~~~~~~~l~~~sk~l~ee~~~~~~~~--~~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~ 824 (970)
T KOG0401|consen 748 MMSPEYYAAKAAKRAGLGLV-IALSSELLELLSKSLLEEFLSLRLEK--EALKCIEELESPSLLLKTVGENIEPTLEKSP 824 (970)
T ss_pred hcCcccchhhhhhccCCcch-hhhhHHHHHHHHHHHHHHHHHHhhhh--hhhhhhhcccchhhhHHHHHHhcCcccccCh
Confidence 0 11122235678999999 77777777889999999998876654 2346788999999999999999985432212
Q ss_pred hHHHHHHHHHH-Hh-h------CCCCChHHHHHHHHHHHHH-hCCCcccccccCcccHHHHHHHHHHh
Q 004043 389 VNDVYFSRLKE-LT-T------NSQLVPRLRFMIHDVLDLR-ANNWVPRREEMKAKTITEIHSEAEKN 447 (777)
Q Consensus 389 ~md~yF~rL~~-l~-~------~~~lssRiRFmL~dvidLR-~nnW~~r~~~~~pkti~eI~~eae~~ 447 (777)
.+..+..+|.. ++ + .-..+.+..|-+.|.+.++ -+.|.--.+..+|.+++.|+.+.+.-
T Consensus 825 ~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d~pk~w~~~~e~~gp~~~~~~~~~~e~~ 892 (970)
T KOG0401|consen 825 QAVEELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELDLPKGWNYIKEFLGPLIHQKILDESELV 892 (970)
T ss_pred hHHHHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhcccccchhHHHHhhhhHhhhccccHHHHH
Confidence 22223333222 11 1 1234667777777777776 47888888888888888888776643
No 13
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.01 E-value=0.0002 Score=86.48 Aligned_cols=192 Identities=16% Similarity=0.256 Sum_probs=125.1
Q ss_pred HHHHHhhc-cCChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhh
Q 004043 200 KTVKGILN-KLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDIT 278 (777)
Q Consensus 200 r~Vk~ILN-KLTpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~~~ 278 (777)
..||-++- .|+..+|+.++.++-.+...++++=+.+|..+..-=.-.-+-...-|.|..-|+...|.|.
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 33444333 5556778888888888877777777777777664333333334444666666666555431
Q ss_pred HHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCC
Q 004043 279 FKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGK 358 (777)
Q Consensus 279 Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~ 358 (777)
-.++. ..+|.. .. -+|-++ ...+.|++.++|||||||++.|+...+|...+-.++--...
T Consensus 702 --i~VID---~vlE~I-------r~------glEin~--~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~g~~ 761 (1128)
T KOG2051|consen 702 --IHVID---HVLEDI-------RP------GLEIND--YVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISLGHF 761 (1128)
T ss_pred --hhhHH---HHHHHH-------Hh------hhhcCc--HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhccccc
Confidence 12222 122221 10 012122 34567889999999999999999999999999888753211
Q ss_pred CC-------CCh--hhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhCC--CCChHHHHHHHHHHHHHh
Q 004043 359 TC-------PAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNS--QLVPRLRFMIHDVLDLRA 422 (777)
Q Consensus 359 ~~-------p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~~--~lssRiRFmL~dvidLR~ 422 (777)
.. |.+ .-|..+|-||.|||..++. ...+..|+.|+-.++...--+ ..|--+.++++|++.+-.
T Consensus 762 ~~~~~~~ldppddlFRirlV~~lL~tc~~yf~r-gs~kkkl~~fL~~fq~Y~~iKk~~~Pld~~~~f~d~~~~~r 835 (1128)
T KOG2051|consen 762 ENLTPSALDPPDDLFRIRLVCMLLQTCGPYFTR-GSTKKKLDQFLVAFQRYILIKKSQQPLDMEYEFEDFLELVR 835 (1128)
T ss_pred CCCCcccCCChHHHHHHHHHHHHHHHccccccc-chhHHHHHHHHHHHHHHhhcccccCCCchhhhHHhhhhhcc
Confidence 11 222 3789999999999999985 345567888777776654322 478899999999999854
No 14
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=95.43 E-value=0.77 Score=55.00 Aligned_cols=202 Identities=14% Similarity=0.235 Sum_probs=136.1
Q ss_pred CCCChHHHHHHHHHHhhccCC-------hhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhh
Q 004043 190 GNLSEKDRVLKTVKGILNKLT-------PEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNE 262 (777)
Q Consensus 190 ~~~~e~e~l~r~Vk~ILNKLT-------penfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~ 262 (777)
...++.+.+.+.+.+..-++. ..|++.++.-|.+ .+ +..-..+++.|-.=|+.-|.=+..||-|...|+.
T Consensus 19 ~r~~~~e~l~krl~~~i~~vg~~s~ss~e~~l~~l~~~l~~-~~--~~~~~~iL~~L~~ca~~lP~K~~~yaTLvgllN~ 95 (759)
T KOG1104|consen 19 RRISPAETLEKRLESLIREVGEPSGSSVEDNLENLVAVLEA-DL--ENFKSKILDILNTCAVYLPEKITAYATLVGLLNL 95 (759)
T ss_pred ccCCcHHHHHHHHHHHHHhhcCCCCCcHHHhHHHHHHHHHh-hH--HHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhc
Confidence 345667888888888888887 2344444444332 11 1245567888888899999999999999999987
Q ss_pred hCCCCCCCCCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCH
Q 004043 263 KLPPFPSDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPE 342 (777)
Q Consensus 263 ~lp~~~~~e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e 342 (777)
+-+ .|-.-+++..-.+|... ++.. .. .++-+.+||+..|++.+||..
T Consensus 96 kn~------------~fg~~~v~~~~~~~q~s------l~~~----------~~-----n~ar~llrfL~dL~~~~vl~~ 142 (759)
T KOG1104|consen 96 KNF------------NFGGEFVEYMIEELQES------LKSG----------NW-----NEARYLLRFLSDLSNCHVLQA 142 (759)
T ss_pred cch------------hhHHHHHHHHHHHHHHH------hhcC----------Ch-----HHHHHHHHHHHHHhcCCccCh
Confidence 532 34444444333333221 1000 00 123389999999999999999
Q ss_pred HHHHHHHHHHhhcCC-CCCC---ChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhCCC-------------
Q 004043 343 KIVHHIVQELLENDG-KTCP---AEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQ------------- 405 (777)
Q Consensus 343 ~Ii~~cI~~LL~~~~-~~~p---~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~~~------------- 405 (777)
.-|..++..|+.... ...| .+.-+-|+..-|--+|+.|.+. .+..|+.++..++.....++
T Consensus 143 ~sli~l~esl~~~~~e~~~Pqvr~D~~v~~vLs~lPw~g~el~e~--~~~~~e~ll~~ie~Yl~~R~~shi~lL~vw~~~ 220 (759)
T KOG1104|consen 143 DSLINLFESLLDAAIEENVPQVRRDYYVYCVLSSLPWFGRELNEK--KPTEMEELLVYIEIYLKKRKKSHINLLNVWSGE 220 (759)
T ss_pred HHHHHHHHHHHHHHHhhcCcchhhhHHHHHHHhccchhhhhhccc--chHHHHHHHHHHHHHHHHhcccccchhhcCCCC
Confidence 988888888887521 1122 4457788888888899999853 34678888888876543211
Q ss_pred --CCh--HHHHHHHHHHHHHhCCCcccc
Q 004043 406 --LVP--RLRFMIHDVLDLRANNWVPRR 429 (777)
Q Consensus 406 --lss--RiRFmL~dvidLR~nnW~~r~ 429 (777)
... =++.+...|..||.|+|+.+.
T Consensus 221 ~~~~qeeyle~L~~qI~~lr~n~w~e~h 248 (759)
T KOG1104|consen 221 PDHPQEEYLELLWAQIQKLRQNDWAENH 248 (759)
T ss_pred CCchHHHHHHHHHHHHHHHHhcCccccc
Confidence 122 278899999999999999754
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=89.92 E-value=0.17 Score=44.22 Aligned_cols=27 Identities=26% Similarity=0.433 Sum_probs=15.9
Q ss_pred cCCCccCCC-cccccCHHHHHHHHHHhh
Q 004043 54 MGDLRFEGH-ERVRYTREQLLQLKEVAQ 80 (777)
Q Consensus 54 ~~~~~~~~~-~~~~y~~~~l~~~~~~~~ 80 (777)
.-+++++.. -+.||.++|||||+.+|.
T Consensus 42 ~P~~~ln~~~~kf~Yd~~FLLQF~~v~~ 69 (75)
T PF12152_consen 42 SPDPALNKAAKKFRYDPDFLLQFQDVFK 69 (75)
T ss_dssp -SSTTGGGSS-SS---HHHHHHHHHHH-
T ss_pred CCCHHHccccCccccCHHHHHHHHHHhc
Confidence 334444443 588999999999999993
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=89.27 E-value=5.1 Score=47.49 Aligned_cols=156 Identities=23% Similarity=0.318 Sum_probs=91.1
Q ss_pred HHHHHHHHHhhccCChhhHHHHHHHHHhccC----CCHHHHHHHHHHHHHHhhcCC----CchHHHHHHHHHHhhhCCCC
Q 004043 196 DRVLKTVKGILNKLTPEKFDVLKGQLIDSGI----TTPDILKGVIELIFDKAVLEP----TFCPMYALLCSDLNEKLPPF 267 (777)
Q Consensus 196 e~l~r~Vk~ILNKLTpenfd~l~~qLl~l~i----~t~e~L~~VI~lIFeKAi~Ep----~fs~mYA~LC~~L~~~lp~~ 267 (777)
+-|...|+.+|..+|.+.|+.++.=|-.+.+ .+.+..+.++++|++.|..+. +....+.+|...+...+|-|
T Consensus 177 ~~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~~~Alp~f 256 (556)
T PF05918_consen 177 EFIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQADLDQPFDPSDPESIDRLISCLRQALPFF 256 (556)
T ss_dssp HHHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHHTTTS---SSSHHHHHHHHHHHHHHGGG-
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHhhHHh
Confidence 4577889999999999999999966666666 588999999999999995443 44577888888888888766
Q ss_pred CCCCCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcC-CCC-HHHH
Q 004043 268 PSDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQK-MVP-EKIV 345 (777)
Q Consensus 268 ~~~e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~-mL~-e~Ii 345 (777)
.. +.....|-.++..+ -|=.... + ++ + +.+-.++.++|+--+- -+. ..++
T Consensus 257 s~---~v~Sskfv~y~~~k---vlP~l~~-------l--~e------~-------~kl~lLk~lAE~s~~~~~~d~~~~L 308 (556)
T PF05918_consen 257 SR---GVSSSKFVNYMCEK---VLPKLSD-------L--PE------D-------RKLDLLKLLAELSPFCGAQDARQLL 308 (556)
T ss_dssp BT---TB--HHHHHHHHHH---TCCCTT---------------------------HHHHHHHHHHHHHTT----THHHHH
T ss_pred cC---CCChHHHHHHHHHH---hcCChhh-------C--Ch------H-------HHHHHHHHHHHHcCCCCcccHHHHH
Confidence 32 23345566666542 2222111 1 00 0 1134667777776542 122 3333
Q ss_pred HHHHHHHhhcCC--CCCC--ChhhHHHHHHHHHHHhhh
Q 004043 346 HHIVQELLENDG--KTCP--AEENVEAICQFFNTIGKQ 379 (777)
Q Consensus 346 ~~cI~~LL~~~~--~~~p--~Ee~IE~Lc~LL~tiGk~ 379 (777)
-.++..|+...+ ...| .--.||||...+..+|++
T Consensus 309 ~~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 309 PSIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp HHHHHHHHTTS----------HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 233333333221 1112 224899999888888875
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=85.78 E-value=6 Score=36.32 Aligned_cols=63 Identities=21% Similarity=0.261 Sum_probs=46.2
Q ss_pred HHHHHHhhccC-ChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcC-CCchHHHHHHHHHHhhh
Q 004043 199 LKTVKGILNKL-TPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLE-PTFCPMYALLCSDLNEK 263 (777)
Q Consensus 199 ~r~Vk~ILNKL-Tpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~E-p~fs~mYA~LC~~L~~~ 263 (777)
+|+|+.+|.-- .-...+..+..|.++.+. .....||..++..++++ ..+..+|+.|...|...
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 45556555421 123566777778887666 67778999999999999 89999999999999874
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=80.83 E-value=7.9 Score=35.61 Aligned_cols=62 Identities=23% Similarity=0.315 Sum_probs=46.8
Q ss_pred HHHHHhhcc-CChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcC-CCchHHHHHHHHHHhhh
Q 004043 200 KTVKGILNK-LTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLE-PTFCPMYALLCSDLNEK 263 (777)
Q Consensus 200 r~Vk~ILNK-LTpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~E-p~fs~mYA~LC~~L~~~ 263 (777)
++|..+|+- ++...++..+.-|.++.+. +....|+..++.-++++ ..|..+|+.|...|++.
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 2345777888888888776 46777888999999988 58999999999999864
No 19
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=73.03 E-value=35 Score=40.15 Aligned_cols=49 Identities=22% Similarity=0.325 Sum_probs=38.3
Q ss_pred hHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhh
Q 004043 213 KFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNE 262 (777)
Q Consensus 213 nfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~ 262 (777)
-|+...-.|+.+.|.+.. -+.|+.+|++=+..|.+|...|.-|..+++.
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 577777888887775432 3468889999999999999999988887765
No 20
>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=64.87 E-value=1.5e+02 Score=31.83 Aligned_cols=168 Identities=17% Similarity=0.197 Sum_probs=90.4
Q ss_pred HHHHHHHHHhhccCChh--hHHHHHHHHHhc-------------cCC-CH----HHHHHHHHHHHHHhhc----CCCchH
Q 004043 196 DRVLKTVKGILNKLTPE--KFDVLKGQLIDS-------------GIT-TP----DILKGVIELIFDKAVL----EPTFCP 251 (777)
Q Consensus 196 e~l~r~Vk~ILNKLTpe--nfd~l~~qLl~l-------------~i~-t~----e~L~~VI~lIFeKAi~----Ep~fs~ 251 (777)
..+.|.|+.-+|.||.. .+..++.+|.++ ... .+ -.|..+++.|...|-. .|..+.
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 34677777777888743 445555555554 111 22 2444555555555544 588888
Q ss_pred HHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHH----H------hhhhchHHHHhh-cC--ChHHHHHHhhHHH
Q 004043 252 MYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEA----F------EGADNTRAEIRQ-MT--APEQEMERMDQER 318 (777)
Q Consensus 252 mYA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~cQee----F------e~~~~~~~ei~~-~~--~~e~E~E~~d~e~ 318 (777)
-||.++..|...+|+ |..+|+.++... + .... -.++..+ +- ..+...|. +.
T Consensus 107 PlA~v~~~l~~~~p~------------~~dillA~l~k~Cp~~vP~~~~~~~~~-~~e~~~k~lGyk~~~~~~E~---~~ 170 (256)
T PF07817_consen 107 PLARVAVQLWSQHPE------------FGDILLARLHKKCPYLVPKYPGFTCDQ-STEEYRKRLGYKRDDGGWES---ED 170 (256)
T ss_dssp HHHHHHHHHHHHSTC------------HHHHHHHHHHHH-GGGG----T------SSHHHHHHTT--B-TTSB-----HH
T ss_pred hHHHHHHHHHHcCCc------------HHHHHHHHHHHcCceeEeecCcccCCC-CHHHHHHHcCCccCCCCccc---hH
Confidence 899999999988764 445555544332 1 1110 0111111 10 00000111 11
Q ss_pred HHHhhhhhHHHHHHHHHhcCC---------CCHHHHHHHHHHHhhcCCCCCC-ChhhHHHHHHHHHHHhhhhhcC
Q 004043 319 LVKLRTLGNIRLIGELLKQKM---------VPEKIVHHIVQELLENDGKTCP-AEENVEAICQFFNTIGKQLDEN 383 (777)
Q Consensus 319 ~~Krr~lGnIrFIGELyk~~m---------L~e~Ii~~cI~~LL~~~~~~~p-~Ee~IE~Lc~LL~tiGk~Ld~~ 383 (777)
..-.|+-|.+++-+-+..... .+-...=..+..+|+.. | .+-....|..+|+.+|..|-..
T Consensus 171 ~y~~Rm~Gi~~lyaAi~~~~~~~~~~~~~p~~~~~~W~wlAr~lN~~----p~~~~~~~lL~~~Le~ag~~l~~~ 241 (256)
T PF07817_consen 171 QYLKRMTGIIRLYAAIIQTPPPKGQKTSNPHGLEHGWRWLARILNLP----PAPNITATLLHSFLEVAGFRLLQI 241 (256)
T ss_dssp HHHHHHHHHHHHHHHHHHS---CCCCTT-SS-THHHHHHHHHHHCS-----CC-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhccCCcCCCCCCCCCcHHHHHHHHHHhCCC----CCcccHHHHHHHHHHHHHHHHHHH
Confidence 223588899999999987542 22223345566667642 3 4567889999999999998853
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=62.85 E-value=43 Score=33.12 Aligned_cols=123 Identities=11% Similarity=0.038 Sum_probs=74.1
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhCCCC---ChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCC-CCHHHHHHHH
Q 004043 614 KKTVSLLEEYFSIRILDEALQCVEELRAPT---YHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNV-LTTRDIGTGC 689 (777)
Q Consensus 614 kki~~ll~EY~~~~D~~EA~~cvkEL~~P~---~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~l-ls~~q~~~Gf 689 (777)
|+++.+|...- ..++++.+..+..+.... ....+|+.+++.+.+.. ......++|...|....- -=...+...+
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 56666666644 678888888877775544 34555666666555543 456777888877776332 1112233333
Q ss_pred HHHhhc------chhhhcCCCchhHHHHHHHHHHHHcCCCChHHHHHHHhhhcch
Q 004043 690 LLYGSL------LDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVEDN 738 (777)
Q Consensus 690 ~~vle~------LdDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~~~~~~~~~~ 738 (777)
...+.. +++..--.-.-..-+..|+|.+..-+.++...+-+++..+-..
T Consensus 80 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll~~ 134 (209)
T PF02854_consen 80 QEEFEERYSNEELEENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELLSD 134 (209)
T ss_dssp HHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred HHHHHHhhhhhhHHHHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHHhc
Confidence 333332 2222222223455678899999999999998888777766443
No 22
>PLN00131 hypothetical protein; Provisional
Probab=55.09 E-value=1.6e+02 Score=29.32 Aligned_cols=68 Identities=19% Similarity=0.251 Sum_probs=41.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHH-HHhccCCCChHHHHHHHHHHHh
Q 004043 598 EKPSAPVTKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIA-LALEKIPPCVEPVIQLLEFLLN 676 (777)
Q Consensus 598 ~~~~~~~~~~s~eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~-~aLEk~~~~re~v~~LL~~L~~ 676 (777)
+..+.++|.+.+.++..|-+..-+| ++.+-.+.+-.....+..+++. +.|| ++.+|.++-+|..||++
T Consensus 117 eqepepapplddqdlltkrkrvsee----------lrlllqigavkrknkiadqlldwmgld-netdrtllddlynhlyd 185 (218)
T PLN00131 117 EQEPEPAPPLDDQDLLTKRKRVSEE----------LRLLLQIGAVKRKNKIADQLLDWMGLD-NETDRTLLDDLYNHLYD 185 (218)
T ss_pred ccCCCCCCCCCcHHHHHHHHHHHHH----------HHHHHHHhhhhhhhHHHHHHHHHhccC-ccchHHHHHHHHHHHhh
Confidence 3445567788888877666554333 3333333333334455555555 4555 44678899999999987
No 23
>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=53.59 E-value=4 Score=38.71 Aligned_cols=18 Identities=33% Similarity=0.601 Sum_probs=8.6
Q ss_pred CCcccccCHHHHHHHHHH
Q 004043 61 GHERVRYTREQLLQLKEV 78 (777)
Q Consensus 61 ~~~~~~y~~~~l~~~~~~ 78 (777)
+|-||-|+|+|||++|--
T Consensus 44 GGTRIIYdR~FLL~~RnS 61 (116)
T PF05456_consen 44 GGTRIIYDRKFLLECRNS 61 (116)
T ss_dssp --------HHHHHCTCG-
T ss_pred CCcEEEEeHHHHHHhcCC
Confidence 467899999999999875
No 24
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=50.35 E-value=2.9e+02 Score=34.54 Aligned_cols=86 Identities=13% Similarity=0.067 Sum_probs=49.9
Q ss_pred ChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCChHHHHHHHhhhc------
Q 004043 663 CVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVE------ 736 (777)
Q Consensus 663 ~re~v~~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~~~~~~~~------ 736 (777)
.-+.++.|+ .|+..|.||.....+-|..+++.=. + ...+|...=...+-+...|+.+++++.
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-------PEAIVEAKGLEQVSDAGALEPIVEEVLAAHPDK 730 (771)
T ss_pred CHHHHHHHH-HHHHcCCccHHHHHHHHHHHHhcCC----C-------HHHHHHhcCCcccCCHHHHHHHHHHHHHHCHHH
Confidence 347888887 4677799999999888888775411 1 112322221111222344554544432
Q ss_pred -------chhHHHHHHHHHHHHHhcCCCchh
Q 004043 737 -------DNMFRRSIFTAAMKSIQSSPAGQE 760 (777)
Q Consensus 737 -------~~~~~~~~~~a~l~~l~~~~~g~~ 760 (777)
......-++|.||+..+..=.++-
T Consensus 731 Ve~yk~GK~kalgfLVGqVMK~tkGKAdP~~ 761 (771)
T PRK14703 731 VAAYRAGKTKLLGFFVGQVMRETGGKANPQQ 761 (771)
T ss_pred HHHHhcchHHHHHHHHHHHHHHhCCCCCHHH
Confidence 245567778999988876534433
No 25
>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=49.09 E-value=45 Score=28.00 Aligned_cols=46 Identities=28% Similarity=0.418 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHh--cCCCHHHHHHHHHHhCCCCChHHHHHHHHH
Q 004043 609 LADLRKKTVSLLEEYF--SIRILDEALQCVEELRAPTYHPEVVKEAIA 654 (777)
Q Consensus 609 ~eel~kki~~ll~EY~--~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~ 654 (777)
-+++++.+..+|.|-- .-.+++|-+.|.-.||.|.+|..+|.-...
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 4788888888887754 335899999999999999888766655443
No 26
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=45.52 E-value=1.6e+02 Score=35.86 Aligned_cols=61 Identities=13% Similarity=0.110 Sum_probs=38.3
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCC
Q 004043 617 VSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLT 681 (777)
Q Consensus 617 ~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls 681 (777)
..+|+-|...|++++|...++++..+. .++...+..++-+. ...+.+..+|..+...|+..
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 557777888888888888888776543 34444454444443 23456677777776665543
No 27
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=44.73 E-value=67 Score=39.20 Aligned_cols=105 Identities=19% Similarity=0.332 Sum_probs=69.3
Q ss_pred cCChhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHH
Q 004043 208 KLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHC 287 (777)
Q Consensus 208 KLTpenfd~l~~qLl~l~i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~c 287 (777)
-++.+-|.-..+.|+.+.+... ...+|+.+|+.=+..|-.|-+.||-|+.++++.-..+ ..+|.-.|-.+
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 3556667677777888776543 3457889999999999999999999999998852211 22333333222
Q ss_pred HHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHH
Q 004043 288 QEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHH 347 (777)
Q Consensus 288 QeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~ 347 (777)
|. ++..+ -..|..+..+|+++|.....++-.|+.+
T Consensus 698 ---f~-------ele~l---------------s~~ri~nLa~l~a~Li~~~~lsLtVLK~ 732 (822)
T KOG2141|consen 698 ---FK-------ELEQL---------------SLFRISNLAKLLASLISNAVLSLTVLKH 732 (822)
T ss_pred ---HH-------Hhhhc---------------chhhHhHHHHHHHHHHHhcccceeeeee
Confidence 11 11111 1245668899999999988877665553
No 28
>PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated
Probab=42.53 E-value=2.9e+02 Score=32.61 Aligned_cols=87 Identities=15% Similarity=0.102 Sum_probs=49.9
Q ss_pred ChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCChHHHHHHHhhhc------
Q 004043 663 CVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVE------ 736 (777)
Q Consensus 663 ~re~v~~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~~~~~~~~------ 736 (777)
.-+.++.|+. |+..|.||..+..+-|..+++.- -| + ..+|...=....-+...|..++.++.
T Consensus 367 ~~~~l~~Li~-lv~~g~Is~~~ak~vl~~~~~~~----~~----~---~~ii~~~gl~~isd~~~l~~iv~evi~~np~~ 434 (474)
T PRK05477 367 TPEQLAELIK-LIDDGTISGKIAKEVFEEMLETG----GD----P---DEIVEEKGLKQISDEGALEAIVDEVLAANPKA 434 (474)
T ss_pred CHHHHHHHHH-HHHcCCccHHHHHHHHHHHHhcC----CC----H---HHHHHHcCCcccCCHHHHHHHHHHHHHHCHHH
Confidence 4577888875 67779999999999999888651 11 1 11221110000111223433333321
Q ss_pred -------chhHHHHHHHHHHHHHhcCCCchhh
Q 004043 737 -------DNMFRRSIFTAAMKSIQSSPAGQEV 761 (777)
Q Consensus 737 -------~~~~~~~~~~a~l~~l~~~~~g~~v 761 (777)
.......++|.||+..+..-.++.|
T Consensus 435 v~~~~~Gk~~~~~~lvG~vMk~t~GkAdp~~v 466 (474)
T PRK05477 435 VEDYKAGKEKALGFLVGQVMKATKGKANPKLV 466 (474)
T ss_pred HHHHHcccHHHHHHHHHHHHHHhcCCCCHHHH
Confidence 3466677899999998776455444
No 29
>PLN03218 maturation of RBCL 1; Provisional
Probab=40.59 E-value=1.5e+02 Score=38.34 Aligned_cols=68 Identities=9% Similarity=0.010 Sum_probs=39.0
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCCh-HHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHH
Q 004043 616 TVSLLEEYFSIRILDEALQCVEELRAPTYH-PEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRD 684 (777)
Q Consensus 616 i~~ll~EY~~~~D~~EA~~cvkEL~~P~~~-~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q 684 (777)
...+|.-|...+++++|...++++...... ..++...+..++-+. ...+.+.+++..+...|+.+...
T Consensus 582 ynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~-G~~deAl~lf~eM~~~Gv~PD~~ 650 (1060)
T PLN03218 582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQK-GDWDFALSIYDDMKKKGVKPDEV 650 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCCHH
Confidence 456677777777777777777777543322 223344444444433 23456666777776666554433
No 30
>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=40.30 E-value=91 Score=26.82 Aligned_cols=47 Identities=23% Similarity=0.345 Sum_probs=36.0
Q ss_pred CHHHHHHHHHHHHHHHhc--C-CCHHHHHHHHHHhCCCCChHHHHHHHHH
Q 004043 608 NLADLRKKTVSLLEEYFS--I-RILDEALQCVEELRAPTYHPEVVKEAIA 654 (777)
Q Consensus 608 s~eel~kki~~ll~EY~~--~-~D~~EA~~cvkEL~~P~~~~e~V~~~I~ 654 (777)
+-+++++.+.++|.|-=- . .+++|-+.|.-.||.+.+|+.+|.-...
T Consensus 10 Py~DFr~SM~EMI~~~~i~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~d 59 (66)
T TIGR01568 10 PYEDFRRSMEEMIEERELEADWKELEELLACYLDLNPKKSHRFIVRAFVD 59 (66)
T ss_pred hHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCchhhhHHHHHHHH
Confidence 357899999888887632 2 4689999999999999888766554443
No 31
>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=39.56 E-value=41 Score=27.47 Aligned_cols=45 Identities=20% Similarity=0.138 Sum_probs=36.4
Q ss_pred CCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHh-----hcchhhhcCCC
Q 004043 660 IPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYG-----SLLDDIGIDLP 704 (777)
Q Consensus 660 ~~~~re~v~~LL~~L~~~~lls~~q~~~Gf~~vl-----e~LdDl~iDiP 704 (777)
++.+|+.+..+|...+..|-|+.+.|..=...++ ..|..+.-|+|
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 5678999999999999999999999998887754 34555555555
No 32
>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=36.08 E-value=2.3e+02 Score=27.70 Aligned_cols=94 Identities=11% Similarity=0.154 Sum_probs=56.0
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhh
Q 004043 325 LGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT 402 (777)
Q Consensus 325 lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~ 402 (777)
.+.|.-|+++.+.+-...+.....|++-|.+. .|.. -.+..|=.+++.||..+...-..+.+++ .|..++.
T Consensus 19 w~~ileicD~In~~~~~~k~a~rai~krl~~~---n~~v~l~AL~LLe~~vkNCG~~fh~evas~~Fl~----el~kl~~ 91 (139)
T cd03567 19 WEAIQAFCEQINKEPEGPQLAVRLLAHKIQSP---QEKEALQALTVLEACMKNCGERFHSEVGKFRFLN----ELIKLVS 91 (139)
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHHHH----HHHHHhc
Confidence 36777888888877555444444444444431 1221 2555666667778888764322333444 4444443
Q ss_pred C----CCCChHHHHHHHHHHHHHhCCC
Q 004043 403 N----SQLVPRLRFMIHDVLDLRANNW 425 (777)
Q Consensus 403 ~----~~lssRiRFmL~dvidLR~nnW 425 (777)
. +..+..|+-.|..+|..-....
T Consensus 92 ~k~~~~~~~~~Vk~kil~li~~W~~~f 118 (139)
T cd03567 92 PKYLGSRTSEKVKTKIIELLYSWTLEL 118 (139)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHHHh
Confidence 2 4578999999999998765444
No 33
>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=36.06 E-value=1.2e+02 Score=25.68 Aligned_cols=53 Identities=21% Similarity=0.273 Sum_probs=40.2
Q ss_pred HHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHH
Q 004043 631 EALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIG 686 (777)
Q Consensus 631 EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~ 686 (777)
....-+.++. +.+++|..+|..+++++.....-+-..|..-.++|+-|.+|+.
T Consensus 20 ~i~~~~~~~~---~~~evI~~ai~~a~~~~~~~~~Yi~~Il~~W~~~gi~T~e~~~ 72 (73)
T TIGR01446 20 DLKYWLDEFG---NSPELIKEALKEAVSNNKANYKYIDAILNNWKNNGIKTVEDVE 72 (73)
T ss_pred HHHHHHHHhC---CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCCCHHHHh
Confidence 3333444443 4489999999999987655667888999999999999988864
No 34
>PF08876 DUF1836: Domain of unknown function (DUF1836); InterPro: IPR014975 This group of proteins are functionally uncharacterised.
Probab=35.66 E-value=1.1e+02 Score=28.68 Aligned_cols=48 Identities=27% Similarity=0.134 Sum_probs=40.2
Q ss_pred CChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcchhhhcCCCchhHH
Q 004043 662 PCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNN 709 (777)
Q Consensus 662 ~~re~v~~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~ 709 (777)
=.|++++.|+.--.-++++|-+++.++|..+.....+-..+...||++
T Consensus 57 Ysr~qla~li~I~~lK~vlsi~dI~~ll~~~~~~~~~~~~~~~~~Y~~ 104 (105)
T PF08876_consen 57 YSREQLAYLIVISILKQVLSIDDIKKLLDLQFNNYEDDEISLEDAYNY 104 (105)
T ss_pred cCHHHHHHHHHHHHHHccCCHHHHHHHHHHHHhcccccCCCHHHHHhc
Confidence 368999999987777799999999999999999877777676666654
No 35
>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=33.32 E-value=1.4e+02 Score=30.25 Aligned_cols=57 Identities=23% Similarity=0.266 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCC----CCChHHHHHHHHHHHhccCC
Q 004043 605 TKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRA----PTYHPEVVKEAIALALEKIP 661 (777)
Q Consensus 605 ~~~s~eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~----P~~~~e~V~~~I~~aLEk~~ 661 (777)
..+-+++++.....+-+-|+..||+++|+.|+..... +...-.+.-.+|..++..++
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 3456788888889999999999999999999998642 22234555666666666553
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=33.04 E-value=4.1e+02 Score=26.10 Aligned_cols=31 Identities=19% Similarity=0.271 Sum_probs=25.0
Q ss_pred chhHHHHHHHHHHHHcCCCChHHHHHHHhhh
Q 004043 705 KAPNNFGEMVGKLVVAKSLDFIVLKEVLKKV 735 (777)
Q Consensus 705 ~A~~~La~~iaraI~~~~l~~~~i~~~~~~~ 735 (777)
..+..+..|++.+..-+.++...+-+++..+
T Consensus 94 ~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~l 124 (200)
T smart00543 94 QRRLGLVRFLGELYNFQVLTSKIILELLKEL 124 (200)
T ss_pred hhHHhHHHHHHHHHHcccCcHHHHHHHHHHH
Confidence 5567788999999999999988776666654
No 37
>PF12854 PPR_1: PPR repeat
Probab=32.90 E-value=58 Score=23.64 Aligned_cols=26 Identities=23% Similarity=0.459 Sum_probs=22.7
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhC
Q 004043 615 KTVSLLEEYFSIRILDEALQCVEELR 640 (777)
Q Consensus 615 ki~~ll~EY~~~~D~~EA~~cvkEL~ 640 (777)
....+|.-|...|.++||.+.++++.
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence 34788999999999999999999873
No 38
>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=32.35 E-value=4.3e+02 Score=28.96 Aligned_cols=93 Identities=17% Similarity=0.134 Sum_probs=52.3
Q ss_pred CHHHHHHHHHHHHHHHhcCCCHHHHHHHH-HHhCCCCChHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCCC--H
Q 004043 608 NLADLRKKTVSLLEEYFSIRILDEALQCV-EELRAPTYHPEVVKEAIALALEK--IPPCVEPVIQLLEFLLNKNVLT--T 682 (777)
Q Consensus 608 s~eel~kki~~ll~EY~~~~D~~EA~~cv-kEL~~P~~~~e~V~~~I~~aLEk--~~~~re~v~~LL~~L~~~~lls--~ 682 (777)
..+.+.+.+...+..++...+.......+ ..+-...+|..++..++....+. ++..++.+.+++.....+..-+ .
T Consensus 102 ~~~~i~~~i~~~~~~~l~~~~~~~~~~~~l~~ll~~~~~~~l~~~il~~i~~~l~~~e~~~~I~~~i~~~~~~~~~~~~~ 181 (367)
T PF04286_consen 102 DQEKIAEFIEKNLRKKLSEIILAPLLQKLLRSLLEEEQHQKLLDRILEKIKEYLKSEETRERIRDLIEEFLEEYLGKSFL 181 (367)
T ss_pred hhHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHhccchHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHhcccchh
Confidence 34455555555555555555444444333 44444556666666666554442 4556677888888777654333 6
Q ss_pred HHHHHHHHHH-hhcchhhh
Q 004043 683 RDIGTGCLLY-GSLLDDIG 700 (777)
Q Consensus 683 ~q~~~Gf~~v-le~LdDl~ 700 (777)
+.+...|... ...++++.
T Consensus 182 ~~l~~~i~~~l~~~l~~l~ 200 (367)
T PF04286_consen 182 DKLAEKIQDELDSLLEKLQ 200 (367)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 6666666665 44566665
No 39
>PLN03218 maturation of RBCL 1; Provisional
Probab=31.71 E-value=2.6e+02 Score=36.27 Aligned_cols=67 Identities=10% Similarity=0.029 Sum_probs=42.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhCCCCCh-HHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCH
Q 004043 615 KTVSLLEEYFSIRILDEALQCVEELRAPTYH-PEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTT 682 (777)
Q Consensus 615 ki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~-~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~ 682 (777)
....+|.-|...|++++|...++++..-.+. ..++...+..++-+. ...+.+.+++..+.+.|+-..
T Consensus 616 tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~-G~~eeA~~l~~eM~k~G~~pd 683 (1060)
T PLN03218 616 VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA-GDLDKAFEILQDARKQGIKLG 683 (1060)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCCC
Confidence 3467788888888888888888888654433 234444444454443 345666777777776665443
No 40
>PTZ00429 beta-adaptin; Provisional
Probab=30.47 E-value=1.2e+03 Score=29.36 Aligned_cols=192 Identities=13% Similarity=0.145 Sum_probs=89.1
Q ss_pred ChHHHHHHHHHHhhcc-CChhhHHHHHHHHHhccCC-CHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCC
Q 004043 193 SEKDRVLKTVKGILNK-LTPEKFDVLKGQLIDSGIT-TPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSD 270 (777)
Q Consensus 193 ~e~e~l~r~Vk~ILNK-LTpenfd~l~~qLl~l~i~-t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~ 270 (777)
+|...+.+..-.||-+ .|++|++.|+++|.++.-+ +.+.-..+|..|=.=|+.-|..+.-+......|...-.
T Consensus 344 ~Dp~yIK~~KLeIL~~Lane~Nv~~IL~EL~eYa~d~D~ef~r~aIrAIg~lA~k~~~~a~~cV~~Ll~ll~~~~----- 418 (746)
T PTZ00429 344 SDPPFVKLEKLRLLLKLVTPSVAPEILKELAEYASGVDMVFVVEVVRAIASLAIKVDSVAPDCANLLLQIVDRRP----- 418 (746)
T ss_pred CCcHHHHHHHHHHHHHHcCcccHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcCCc-----
Confidence 4444554443334444 4588999999999985332 45666777777777676545443333322222222100
Q ss_pred CCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCCh--HHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHH
Q 004043 271 EPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAP--EQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHI 348 (777)
Q Consensus 271 e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~--e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~c 348 (777)
.+....+.-+..-+.+..+.. .+..+... ..+.. +- .+| -+.|=.|||... .+.. ..++
T Consensus 419 -------~~v~e~i~vik~IlrkyP~~~-il~~L~~~~~~~~i~--e~--~AK---aaiiWILGEy~~--~I~~--a~~~ 479 (746)
T PTZ00429 419 -------ELLPQVVTAAKDIVRKYPELL-MLDTLVTDYGADEVV--EE--EAK---VSLLWMLGEYCD--FIEN--GKDI 479 (746)
T ss_pred -------hhHHHHHHHHHHHHHHCccHH-HHHHHHHhhcccccc--cH--HHH---HHHHHHHHhhHh--hHhh--HHHH
Confidence 111111121222222211100 01110000 00000 10 122 256777888643 2322 3456
Q ss_pred HHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCCc-hhhhHHHHHHHHHHHhhCCCCChHHHHH
Q 004043 349 VQELLENDGKTCPAEENVEAICQFFNTIGKQLDENPK-SRRVNDVYFSRLKELTTNSQLVPRLRFM 413 (777)
Q Consensus 349 I~~LL~~~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k-~~~~md~yF~rL~~l~~~~~lssRiRFm 413 (777)
|..++++ ..+|+.+-=..+|+++.|.+-..+. .+..+..+|..+-+-..+..+--|.+|-
T Consensus 480 L~~~i~~-----f~~E~~~VqlqlLta~vKlfl~~p~~~~~~l~~vL~~~t~~~~d~DVRDRA~~Y 540 (746)
T PTZ00429 480 IQRFIDT-----IMEHEQRVQLAILSAAVKMFLRDPQGMEPQLNRVLETVTTHSDDPDVRDRAFAY 540 (746)
T ss_pred HHHHHhh-----hccCCHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHhcCCChhHHHHHHHH
Confidence 6666654 2456677788899999998876552 2223333443332222233444455543
No 41
>COG5537 IRR1 Cohesin [Cell division and chromosome partitioning]
Probab=28.20 E-value=8e+02 Score=29.96 Aligned_cols=136 Identities=14% Similarity=0.079 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHHH
Q 004043 610 ADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGC 689 (777)
Q Consensus 610 eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~Gf 689 (777)
+.++..+..+|.-+++.---..|++-+-| .|-..+++.+.--.+..|-+..+++.+|...|+++...+..=-
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 34566666666666554433334433322 3334444444333455678889999999999999999888777
Q ss_pred HHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCCh---HHHHHHHhhhcchhH--HHHHHHHHHHHHh
Q 004043 690 LLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDF---IVLKEVLKKVEDNMF--RRSIFTAAMKSIQ 753 (777)
Q Consensus 690 ~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~---~~i~~~~~~~~~~~~--~~~~~~a~l~~l~ 753 (777)
.-+++..+|--+-+-.+.+.++++.|+.|.+..=-. +.+-.++...-..++ .-.+|..+++.++
T Consensus 400 scmlDi~pd~r~~~~E~v~~icK~~aevikEKipl~~k~n~lL~a~~qgse~~f~v~~~iFsr~~~llk 468 (740)
T COG5537 400 SCMLDIIPDSRENIVESVESICKIDAEVIKEKIPLATKTNRLLEAMKQGSERYFVVCEEIFSRFVHLLK 468 (740)
T ss_pred HHHhcCCCcchHHHHHHHHHHHHHHHHHHHhhcchhhhhhhHHHHHHhhhhccchhHHHHHHHHHHHHH
Confidence 778888777665677889999999999988443211 222223333333344 4555666666554
No 42
>PRK09498 sifA secreted effector protein SifA; Reviewed
Probab=27.54 E-value=1.1e+02 Score=33.52 Aligned_cols=46 Identities=15% Similarity=0.183 Sum_probs=32.3
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHh
Q 004043 615 KTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLN 676 (777)
Q Consensus 615 ki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~ 676 (777)
.+=+-|++||.+.--.||.+||.||--|. ....||.+..+|..|..
T Consensus 29 ~LWEKIKdFFcSThqaeA~~CI~eLchp~----------------~~~trE~i~~~F~~Lk~ 74 (336)
T PRK09498 29 VLWEKIKDFFFSTGKAKADRCLHEMLFAD----------------RAPTRERLTEIFFELKE 74 (336)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHhCCC----------------CCCCHHHHHHHHHHHHH
Confidence 34455789999999999999999995442 23456666666665543
No 43
>PLN03077 Protein ECB2; Provisional
Probab=27.04 E-value=2.8e+02 Score=34.69 Aligned_cols=64 Identities=19% Similarity=0.191 Sum_probs=43.1
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCH
Q 004043 615 KTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTT 682 (777)
Q Consensus 615 ki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~ 682 (777)
....+|.=|...|++++|...++++..|.. +....+..++-+.. .-+.+..++..+...|+-..
T Consensus 325 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~---~s~n~li~~~~~~g-~~~~A~~lf~~M~~~g~~Pd 388 (857)
T PLN03077 325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDA---VSWTAMISGYEKNG-LPDKALETYALMEQDNVSPD 388 (857)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHhhCCCCCe---eeHHHHHHHHHhCC-CHHHHHHHHHHHHHhCCCCC
Confidence 347788889999999999999999877642 33444444554442 34667777777766665433
No 44
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=26.30 E-value=3.7e+02 Score=32.71 Aligned_cols=62 Identities=11% Similarity=0.014 Sum_probs=42.2
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCC
Q 004043 616 TVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLT 681 (777)
Q Consensus 616 i~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls 681 (777)
...+|.=|...|++++|...+.++..|.. +....+..++-+. ..-+.+..+|..+...|+..
T Consensus 161 ~n~Li~~y~k~g~~~~A~~lf~~m~~~~~---~t~n~li~~~~~~-g~~~~A~~lf~~M~~~g~~p 222 (697)
T PLN03081 161 MNRVLLMHVKCGMLIDARRLFDEMPERNL---ASWGTIIGGLVDA-GNYREAFALFREMWEDGSDA 222 (697)
T ss_pred HHHHHHHHhcCCCHHHHHHHHhcCCCCCe---eeHHHHHHHHHHC-cCHHHHHHHHHHHHHhCCCC
Confidence 36678888899999999999999877642 3344444444443 23566778888877766543
No 45
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=25.47 E-value=3.2e+02 Score=33.45 Aligned_cols=78 Identities=9% Similarity=0.184 Sum_probs=38.6
Q ss_pred CChhhHHHHHHHHHHHhhhhhc---CCchhhhHHHHHHHHHHHhhC----CCCChHHHHHHHHHHHHHhCCCcccccccC
Q 004043 361 PAEENVEAICQFFNTIGKQLDE---NPKSRRVNDVYFSRLKELTTN----SQLVPRLRFMIHDVLDLRANNWVPRREEMK 433 (777)
Q Consensus 361 p~Ee~IE~Lc~LL~tiGk~Ld~---~~k~~~~md~yF~rL~~l~~~----~~lssRiRFmL~dvidLR~nnW~~r~~~~~ 433 (777)
.++++++.+.+.+...-..-.. ....+..++.|.-.++..... ..++..-|--|.+.++--. +|.....
T Consensus 512 ls~~~i~~~~~~~~~~~~~d~~~~~~~eakN~lEs~Iy~~r~~L~~~~~~~~~t~ee~~~l~~~l~~~~-~wL~~~~--- 587 (653)
T PTZ00009 512 LSKADIDRMVNEAEKYKAEDEANRERVEAKNGLENYCYSMKNTLQDEKVKGKLSDSDKATIEKAIDEAL-EWLEKNQ--- 587 (653)
T ss_pred ccHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhccCCHHHHHHHHHHHHHHH-HHHhcCC---
Confidence 3556676666665543221110 001223456677777766542 2456666555656555443 6875322
Q ss_pred cccHHHHHH
Q 004043 434 AKTITEIHS 442 (777)
Q Consensus 434 pkti~eI~~ 442 (777)
..+++++.+
T Consensus 588 ~~~~~~~~~ 596 (653)
T PTZ00009 588 LAEKEEFEH 596 (653)
T ss_pred chhHHHHHH
Confidence 234455443
No 46
>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=24.68 E-value=82 Score=21.44 Aligned_cols=25 Identities=20% Similarity=0.312 Sum_probs=22.0
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHhCC
Q 004043 617 VSLLEEYFSIRILDEALQCVEELRA 641 (777)
Q Consensus 617 ~~ll~EY~~~~D~~EA~~cvkEL~~ 641 (777)
..+|.-|...++.++|...+.++..
T Consensus 4 n~li~~~~~~~~~~~a~~~~~~M~~ 28 (35)
T TIGR00756 4 NTLIDGLCKAGRVEEALELFKEMLE 28 (35)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 5788999999999999999999854
No 47
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=24.66 E-value=5.3e+02 Score=23.35 Aligned_cols=81 Identities=22% Similarity=0.176 Sum_probs=55.5
Q ss_pred HHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcchhhhcCCCchhHHHHHHHHHHHHcCCCChHHHHH
Q 004043 651 EAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKE 730 (777)
Q Consensus 651 ~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~~ 730 (777)
+++...-|.-..-|-+-..+|..|+.++-.+..++..-+.-+++.|.| |.-|-||+-+=+-+...+..+-..+..
T Consensus 7 ~al~~L~dp~~PvRa~gL~~L~~Li~~~~~~~~~~~~il~l~l~~L~d-----~DsyVYL~aI~~L~~La~~~p~~vl~~ 81 (92)
T PF10363_consen 7 EALSDLNDPLPPVRAHGLVLLRKLIESKSEPVIDIPKILDLFLSQLKD-----EDSYVYLNAIKGLAALADRHPDEVLPI 81 (92)
T ss_pred HHHHHccCCCcchHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHcCC-----CCchHHHHHHHHHHHHHHHChHHHHHH
Confidence 344433333456788888888888887766667777777777777776 477888888777776666666666666
Q ss_pred HHhhhc
Q 004043 731 VLKKVE 736 (777)
Q Consensus 731 ~~~~~~ 736 (777)
+++.+.
T Consensus 82 L~~~y~ 87 (92)
T PF10363_consen 82 LLDEYA 87 (92)
T ss_pred HHHHHh
Confidence 665543
No 48
>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=24.47 E-value=6.2e+02 Score=24.10 Aligned_cols=90 Identities=12% Similarity=0.139 Sum_probs=57.9
Q ss_pred hHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhhC
Q 004043 326 GNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTN 403 (777)
Q Consensus 326 GnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~~ 403 (777)
..+..|+++.+..-...+....+|++-|.+. .|.. -.+..|=.+++.||..+...-.. ..++..|..+..+
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 6778889999888777666666666666642 1221 24555556666677766532111 2455556666665
Q ss_pred C-CCChHHHHHHHHHHHHHh
Q 004043 404 S-QLVPRLRFMIHDVLDLRA 422 (777)
Q Consensus 404 ~-~lssRiRFmL~dvidLR~ 422 (777)
+ ..+..||-.+..++.--.
T Consensus 92 ~~~~~~~Vk~kil~ll~~W~ 111 (133)
T cd03561 92 SPKYDPKVREKALELILAWS 111 (133)
T ss_pred CCCCCHHHHHHHHHHHHHHH
Confidence 4 788999999888887544
No 49
>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=24.40 E-value=3.8e+02 Score=23.26 Aligned_cols=48 Identities=21% Similarity=0.065 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcc
Q 004043 645 HPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLL 696 (777)
Q Consensus 645 ~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~Gf~~vle~L 696 (777)
++++|..++...+.+ .-+.+...+..|..+ -++..++.+.+.+++-..
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 366777777766664 345566667777776 678888888877766554
No 50
>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=24.01 E-value=4.1e+02 Score=25.95 Aligned_cols=109 Identities=16% Similarity=0.198 Sum_probs=65.1
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhh
Q 004043 325 LGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT 402 (777)
Q Consensus 325 lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~~~~~~p~E--e~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~ 402 (777)
.+.|.-|+++.+..-...+-...+|++-|.+. .|.. -.++.|=-+++.||..+...-.. ..+.+.|..++.
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 47788899999887666555555555555431 1222 25666666777788877743222 345566666665
Q ss_pred CCCCChHHHHHHHHHHHHHhCCCcccccccCcccHHHHHHHH
Q 004043 403 NSQLVPRLRFMIHDVLDLRANNWVPRREEMKAKTITEIHSEA 444 (777)
Q Consensus 403 ~~~lssRiRFmL~dvidLR~nnW~~r~~~~~pkti~eI~~ea 444 (777)
+ ..+.+|+-.+..+|.--....... -+-.-|.+++++-
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 4 778899988888887655333211 1223455655543
No 51
>COG1421 CRISPR system related protein [Defense mechanisms]
Probab=23.79 E-value=1.7e+02 Score=28.61 Aligned_cols=65 Identities=25% Similarity=0.275 Sum_probs=46.5
Q ss_pred CCCHHHHHHHHHHH-------hhcchhhhcCCCchhHHHHHHHHHHHHcCCCC-hHHHHHHHhhhcchhHHHH
Q 004043 679 VLTTRDIGTGCLLY-------GSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLD-FIVLKEVLKKVEDNMFRRS 743 (777)
Q Consensus 679 lls~~q~~~Gf~~v-------le~LdDl~iDiP~A~~~La~~iaraI~~~~l~-~~~i~~~~~~~~~~~~~~~ 743 (777)
-+++.|+-+=+..+ .....+|.+|+|+..-.||.-++|.+..-.=. ..++++++.++.++..+.+
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 57888887777666 34568999999999998888888877654211 2567888888844444433
No 52
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=23.49 E-value=1e+02 Score=20.61 Aligned_cols=25 Identities=32% Similarity=0.577 Sum_probs=22.0
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHhCC
Q 004043 617 VSLLEEYFSIRILDEALQCVEELRA 641 (777)
Q Consensus 617 ~~ll~EY~~~~D~~EA~~cvkEL~~ 641 (777)
..+|.-|...++.++|...++++..
T Consensus 4 ~~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 4 NSLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHHccchHHHHHHHHHHHhH
Confidence 5788999999999999999998753
No 53
>PF10884 DUF2683: Protein of unknown function (DUF2683); InterPro: IPR020271 This entry contains proteins with no known function.
Probab=23.33 E-value=2e+02 Score=25.62 Aligned_cols=45 Identities=13% Similarity=0.362 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHH-----HHhCCCCChHHHHHHHHHHHh
Q 004043 613 RKKTVSLLEEYFSIRILDEALQCV-----EELRAPTYHPEVVKEAIALAL 657 (777)
Q Consensus 613 ~kki~~ll~EY~~~~D~~EA~~cv-----kEL~~P~~~~e~V~~~I~~aL 657 (777)
.+++-.+++-=|+..|..+|+.-+ .++-.|.+.|+||+++....=
T Consensus 12 ~n~ilnIiKaky~lkdks~aId~~ieeye~~~lEpElkPEfVeki~~i~k 61 (80)
T PF10884_consen 12 TNQILNIIKAKYNLKDKSAAIDKIIEEYEEKILEPELKPEFVEKIKKIMK 61 (80)
T ss_pred chHHHHHHHHHhCCchHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHHh
Confidence 467888999999999999998644 345678999999999988643
No 54
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=23.27 E-value=6.5e+02 Score=28.97 Aligned_cols=133 Identities=11% Similarity=0.084 Sum_probs=83.5
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCCh---HHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHH
Q 004043 610 ADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYH---PEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIG 686 (777)
Q Consensus 610 eel~kki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~---~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~ 686 (777)
+.+.++++.-|..|+.+|....|.--++-|---.++ .+||...++ +++.=|. ++++..-=.+++.
T Consensus 14 ~a~~kq~RrdIA~lL~sg~~~~A~~RvE~li~ee~~~~a~e~le~fCe-----------lll~R~~-~i~~~~~cp~~l~ 81 (388)
T KOG2027|consen 14 EALAKQLRRDIADLLKSGQDERARIRVEHLIREENLLEAYEILELFCE-----------LLLARLS-LIEKQKECPDDLK 81 (388)
T ss_pred HHHHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHhh-HHhhcccCCHHHH
Confidence 566788899999999999999887665544211111 122222222 2222222 3333455567777
Q ss_pred HHHHHHhhcchhhhcCCCchh--------HHHHHHHHHHHHc---CCCChHHHHHHHhhhcchhHHHHHHHHHHHHHhcC
Q 004043 687 TGCLLYGSLLDDIGIDLPKAP--------NNFGEMVGKLVVA---KSLDFIVLKEVLKKVEDNMFRRSIFTAAMKSIQSS 755 (777)
Q Consensus 687 ~Gf~~vle~LdDl~iDiP~A~--------~~La~~iaraI~~---~~l~~~~i~~~~~~~~~~~~~~~~~~a~l~~l~~~ 755 (777)
.|+..++-...-+. |||-.. .|=-.|+..|+.. .+++..+|+.+--...+.....+++.+..+....+
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 88888777777777 777543 3334455556655 67778888777777777777788888777766554
No 55
>PF13041 PPR_2: PPR repeat family
Probab=22.53 E-value=1.6e+02 Score=22.76 Aligned_cols=29 Identities=21% Similarity=0.332 Sum_probs=24.2
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCC
Q 004043 616 TVSLLEEYFSIRILDEALQCVEELRAPTY 644 (777)
Q Consensus 616 i~~ll~EY~~~~D~~EA~~cvkEL~~P~~ 644 (777)
...+|.-|...+++++|...++++..-..
T Consensus 6 yn~li~~~~~~~~~~~a~~l~~~M~~~g~ 34 (50)
T PF13041_consen 6 YNTLISGYCKAGKFEEALKLFKEMKKRGI 34 (50)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHHHcCC
Confidence 46789999999999999999999864433
No 56
>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=22.38 E-value=9.5e+02 Score=26.49 Aligned_cols=121 Identities=17% Similarity=0.079 Sum_probs=62.9
Q ss_pred CHHHHHHHHHHHHHHHhcCC--CHHHHHHHHHHhCCCCChHHHHHH-------HHHHHhccC-CCChHHHHHHHHHHHhC
Q 004043 608 NLADLRKKTVSLLEEYFSIR--ILDEALQCVEELRAPTYHPEVVKE-------AIALALEKI-PPCVEPVIQLLEFLLNK 677 (777)
Q Consensus 608 s~eel~kki~~ll~EY~~~~--D~~EA~~cvkEL~~P~~~~e~V~~-------~I~~aLEk~-~~~re~v~~LL~~L~~~ 677 (777)
+.+++..++...|+.-..-+ .=++|+..|..+-.-+|.+++|.. .+..++-+. ..++.++++++.-|+-+
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 34566666666666665433 225566666665444555666633 233344343 24667777888877654
Q ss_pred -C-CCCHHHHHHHHHHHhhcc-hhhhcCCCchhHHHHHHHHHHHHcCCCChHHHH
Q 004043 678 -N-VLTTRDIGTGCLLYGSLL-DDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLK 729 (777)
Q Consensus 678 -~-lls~~q~~~Gf~~vle~L-dDl~iDiP~A~~~La~~iaraI~~~~l~~~~i~ 729 (777)
| .-..+.+...+..+|..+ .|- -+.|++......-+|-+..=++-....+.
T Consensus 117 lg~g~~~~ei~~~~~~~L~~~l~d~-s~~~~~R~~~~~aLai~~fv~~~d~~~~~ 170 (309)
T PF05004_consen 117 LGAGEDSEEIFEELKPVLKRILTDS-SASPKARAACLEALAICTFVGGSDEEETE 170 (309)
T ss_pred cCCCccHHHHHHHHHHHHHHHHhCC-ccchHHHHHHHHHHHHHHHhhcCChhHHH
Confidence 2 344555555555544332 222 33455543344344444444455555555
No 57
>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=21.89 E-value=2.5e+02 Score=28.58 Aligned_cols=37 Identities=24% Similarity=0.263 Sum_probs=30.9
Q ss_pred CCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCC
Q 004043 642 PTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKN 678 (777)
Q Consensus 642 P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~ 678 (777)
|...+.++..++-.+.||=+.-|+.+++.|..+....
T Consensus 2 ~~~~~~~~~~llrqa~EKiDrvR~~A~~~l~~ll~~~ 38 (193)
T PF12612_consen 2 PELVQQIIGGLLRQAAEKIDRVREVAGKCLQRLLHSQ 38 (193)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3456788999999999999999999999999888543
No 58
>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=21.67 E-value=1.3e+03 Score=26.65 Aligned_cols=191 Identities=21% Similarity=0.216 Sum_probs=96.2
Q ss_pred HHHHHHhhccCChhhHHHHHHHHHhcc--CCCHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCch
Q 004043 199 LKTVKGILNKLTPEKFDVLKGQLIDSG--ITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKD 276 (777)
Q Consensus 199 ~r~Vk~ILNKLTpenfd~l~~qLl~l~--i~t~e~L~~VI~lIFeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~e~~~~~ 276 (777)
.+++.-+.+-.+++|+..++.+|+..- ..+.+.-..+|..|..=|..-+....-|.+..-.+...-......+ --
T Consensus 322 ~~~l~lL~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~~~~~~~---~~ 398 (526)
T PF01602_consen 322 KKALDLLYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISGDYVSNE---II 398 (526)
T ss_dssp HHHHHHHHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTGGGCHCH---HH
T ss_pred HHHHHHHhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhccccccch---HH
Confidence 344555555556889999999999853 3355566667777776666656666666666666554311110000 00
Q ss_pred hhHHHHHHHHHHHHHhhh-hchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhc
Q 004043 277 ITFKRILLNHCQEAFEGA-DNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLEN 355 (777)
Q Consensus 277 ~~Fr~~LL~~cQeeFe~~-~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~~mL~e~Ii~~cI~~LL~~ 355 (777)
..+++++ .+..+..+.. ..+-+-+.... +.+ ++ -..+-.|||....---.+ ++.+++..|...
T Consensus 399 ~~i~~ll-~~~~~~~~~~l~~L~~~l~~~~---------~~~--~~---~~~~wilGEy~~~~~~~~-~~~~~~~~l~~~ 462 (526)
T PF01602_consen 399 NVIRDLL-SNNPELREKILKKLIELLEDIS---------SPE--AL---AAAIWILGEYGELIENTE-SAPDILRSLIEN 462 (526)
T ss_dssp HHHHHHH-HHSTTTHHHHHHHHHHHHTSSS---------SHH--HH---HHHHHHHHHHCHHHTTTT-HHHHHHHHHHHH
T ss_pred HHHHHHh-hcChhhhHHHHHHHHHHHHHhh---------HHH--HH---HHHHhhhcccCCcccccc-cHHHHHHHHHHh
Confidence 1222222 1111111100 00000011111 000 11 156667777544322234 667777777765
Q ss_pred CCCCCCChhhHHHHHHHHHHHhhhhhcCCchhhhHHHHHHHHHHHhh--CC--CCChHHHHHH
Q 004043 356 DGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT--NS--QLVPRLRFMI 414 (777)
Q Consensus 356 ~~~~~p~Ee~IE~Lc~LL~tiGk~Ld~~~k~~~~md~yF~rL~~l~~--~~--~lssRiRFmL 414 (777)
..+++.+.-+.+|++..|.....+.. ...+.+++.+..+.. +. .+-.|.+|.+
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 24557788899999999988765421 123456666666655 33 3455555543
No 59
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=21.58 E-value=1.7e+02 Score=21.15 Aligned_cols=26 Identities=12% Similarity=0.075 Sum_probs=21.5
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHh
Q 004043 668 IQLLEFLLNKNVLTTRDIGTGCLLYG 693 (777)
Q Consensus 668 ~~LL~~L~~~~lls~~q~~~Gf~~vl 693 (777)
..-|..|+..|+||.+.|.+--..++
T Consensus 5 L~~L~~l~~~G~IseeEy~~~k~~ll 30 (31)
T PF09851_consen 5 LEKLKELYDKGEISEEEYEQKKARLL 30 (31)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 34577899999999999998777665
No 60
>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=21.47 E-value=1.4e+03 Score=28.97 Aligned_cols=134 Identities=16% Similarity=0.265 Sum_probs=77.7
Q ss_pred HHHHHHhhccCChhhHHHHHHHHHhcc-----CCCHHHHHHHHHHHHHH----hhcC-CCchHHHHHHHHHHhhhCCCCC
Q 004043 199 LKTVKGILNKLTPEKFDVLKGQLIDSG-----ITTPDILKGVIELIFDK----AVLE-PTFCPMYALLCSDLNEKLPPFP 268 (777)
Q Consensus 199 ~r~Vk~ILNKLTpenfd~l~~qLl~l~-----i~t~e~L~~VI~lIFeK----Ai~E-p~fs~mYA~LC~~L~~~lp~~~ 268 (777)
+..+..+|...+++....++..|..++ -.|.+.|..+..++++- |... +..-.+.-.||.+|+.....+|
T Consensus 428 ~eel~~lL~~~~~~~~~~iI~RIrk~~hpsLa~~NK~Kl~~f~~vLlq~i~~la~~~~~~~~~~ld~L~~~L~~Laq~~p 507 (840)
T PF04147_consen 428 HEELLELLDGYSPEDQPTIIQRIRKCYHPSLAEGNKEKLQVFFGVLLQHILYLASQDSPPPFEVLDSLIPHLYDLAQKYP 507 (840)
T ss_pred HHHHHHHHhcCCHHHHhHHHHHHHHhCCCCCCcchHHHHHHHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHHHHHHHH
Confidence 345777888999999999999999864 24666666555544444 4444 4555666778887766432222
Q ss_pred CCCCCCchhhHHHHHHHHHHHHHhhhhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhc-----CCCCHH
Q 004043 269 SDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQ-----KMVPEK 343 (777)
Q Consensus 269 ~~e~~~~~~~Fr~~LL~~cQeeFe~~~~~~~ei~~~~~~e~E~E~~d~e~~~Krr~lGnIrFIGELyk~-----~mL~e~ 343 (777)
. .....||. +|..||..|....-... ..+-| ....|=.++.||.||-- -|||..
T Consensus 508 ~----~~a~~~r~-~L~~~~~~~~~~~l~~~---~~~~P-------------~l~~Lvllklv~~lFPTSD~~HpVVTPa 566 (840)
T PF04147_consen 508 E----EAAECFRE-VLKEMQKRFRKGALKPK---ERSWP-------------SLSDLVLLKLVGTLFPTSDFRHPVVTPA 566 (840)
T ss_pred H----HHHHHHHH-HHHHHHHHHhhhccccc---CCCCC-------------ChhHHHHHHHHHHhcCcccccCcchhHH
Confidence 1 12234554 44567777766310000 00001 12456788899999853 477776
Q ss_pred HHHHHHHHHhhc
Q 004043 344 IVHHIVQELLEN 355 (777)
Q Consensus 344 Ii~~cI~~LL~~ 355 (777)
+++- ..+|..
T Consensus 567 lllm--~~~L~q 576 (840)
T PF04147_consen 567 LLLM--SEYLSQ 576 (840)
T ss_pred HHHH--HHHHhc
Confidence 6653 344543
No 61
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=21.11 E-value=1.6e+02 Score=35.33 Aligned_cols=60 Identities=22% Similarity=0.259 Sum_probs=39.5
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHH------HHHHHHHhccCCCChHHHHHHHHHHHh
Q 004043 615 KTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVV------KEAIALALEKIPPCVEPVIQLLEFLLN 676 (777)
Q Consensus 615 ki~~ll~EY~~~~D~~EA~~cvkEL~~P~~~~e~V------~~~I~~aLEk~~~~re~v~~LL~~L~~ 676 (777)
.+-.++-|||.+.|.+|+.+.+.-|. ...++|| +-+|.+.--..+++|..+.+-+...+.
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 34667889999999999988877764 1222332 233443333467888888888775544
No 62
>PF13311 DUF4080: Protein of unknown function (DUF4080)
Probab=20.56 E-value=5.2e+02 Score=26.43 Aligned_cols=86 Identities=14% Similarity=0.222 Sum_probs=53.5
Q ss_pred CCCCCCHHHHH--HHHHHHHHHHhcCCCHHHHHHHHHHh-CCCC-ChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCC
Q 004043 603 PVTKLNLADLR--KKTVSLLEEYFSIRILDEALQCVEEL-RAPT-YHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKN 678 (777)
Q Consensus 603 ~~~~~s~eel~--kki~~ll~EY~~~~D~~EA~~cvkEL-~~P~-~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~ 678 (777)
..+-+|-+|+. |.+..+++-|+++|-....+..|-.. ..|. +...|-.-+-..........++.+..+|...+.+.
T Consensus 18 ~t~~Ls~~ei~~Lk~~e~~le~yyNSgrF~~tl~~l~~~~~spF~ff~~l~~~~~~~g~~~~~~s~~~l~~~L~~F~~~~ 97 (190)
T PF13311_consen 18 STKWLSFDEIQRLKRFEDMLEKYYNSGRFDYTLEYLLKEFGSPFDFFEALADYWEEQGYFKRSHSLEDLFEILYDFLKEK 97 (190)
T ss_pred eCCCCCHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCHHHHHHHHHHHHHHCCCcccCCCHHHHHHHHHHHHHHh
Confidence 34578889987 57899999999999999999998876 3332 23344444444444444445555566555555433
Q ss_pred CCCHHHHHHH
Q 004043 679 VLTTRDIGTG 688 (777)
Q Consensus 679 lls~~q~~~G 688 (777)
......+...
T Consensus 98 ~~~~~~~~~e 107 (190)
T PF13311_consen 98 LGEDKELIKE 107 (190)
T ss_pred ccccHHHHHH
Confidence 3333333333
No 63
>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=20.48 E-value=7e+02 Score=24.04 Aligned_cols=32 Identities=16% Similarity=0.221 Sum_probs=25.6
Q ss_pred CChHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Q 004043 662 PCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYG 693 (777)
Q Consensus 662 ~~re~v~~LL~~L~~~~lls~~q~~~Gf~~vl 693 (777)
.-..+++.+|..|+..+++..+++..-++.+.
T Consensus 77 R~VRlvcvfl~sLir~~i~~~~~l~~evq~FC 108 (126)
T PF10155_consen 77 RLVRLVCVFLQSLIRNKIIDVEDLFIEVQAFC 108 (126)
T ss_pred chhhhHHHHHHHHHHcCCCchHHHHhhHHHHH
Confidence 34578999999999999999988776655543
No 64
>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=20.01 E-value=7.7e+02 Score=25.16 Aligned_cols=87 Identities=26% Similarity=0.285 Sum_probs=59.9
Q ss_pred HHHHHHHHHHhCCCCChHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhcchhhhcCCCchhH
Q 004043 629 LDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPN 708 (777)
Q Consensus 629 ~~EA~~cvkEL~~P~~~~e~V~~~I~~aLEk~~~~re~v~~LL~~L~~~~lls~~q~~~Gf~~vle~LdDl~iDiP~A~~ 708 (777)
+.-|++-+-|. .-.|.+.-+.+..++..-+.-+..++.+|..|+.+++-....+-+||-+....+-- +++
T Consensus 95 la~~l~ql~~~---~~lP~LfmRTviq~~~~~p~L~~FV~~iL~rLi~kqvW~~~~lW~Gfi~C~~~~~p------~sf- 164 (183)
T PF12295_consen 95 LASALQQLVEQ---PPLPLLFMRTVIQALQKYPSLRSFVSNILSRLIQKQVWKNKKLWEGFIKCAKRLKP------SSF- 164 (183)
T ss_pred HHHHHHHHHCC---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcChhHHHHHHHHHHHhhh------HHH-
Confidence 44454555444 22355555666667777677789999999999999999999999999998876543 222
Q ss_pred HHHHHHHHHHHcCCCChHHHHHHHhh
Q 004043 709 NFGEMVGKLVVAKSLDFIVLKEVLKK 734 (777)
Q Consensus 709 ~La~~iaraI~~~~l~~~~i~~~~~~ 734 (777)
.-+ . .||...+++++++
T Consensus 165 --~~l-----l--~LP~~ql~~~l~~ 181 (183)
T PF12295_consen 165 --PAL-----L--QLPPEQLEELLKK 181 (183)
T ss_pred --HHH-----H--hCCHHHHHHHHHh
Confidence 111 1 3777777777664
Done!