Query 006823
Match_columns 630
No_of_seqs 311 out of 890
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 15:00:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006823.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006823hhsearch_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 6.4E-65 1.4E-69 598.2 34.7 595 23-629 321-940 (970)
2 PF02854 MIF4G: MIF4G domain; 100.0 3.8E-32 8.3E-37 267.2 20.1 202 52-277 1-209 (209)
3 smart00543 MIF4G Middle domain 100.0 1.4E-27 3.1E-32 234.4 23.0 194 53-277 2-200 (200)
4 smart00544 MA3 Domain in DAP-5 99.9 1.1E-23 2.4E-28 189.9 13.2 113 465-577 1-113 (113)
5 PF02847 MA3: MA3 domain; Int 99.9 7.7E-24 1.7E-28 190.7 10.8 113 465-577 1-113 (113)
6 KOG0403 Neoplastic transformat 99.9 5.6E-22 1.2E-26 208.2 12.8 141 453-599 495-636 (645)
7 KOG0403 Neoplastic transformat 99.9 1.3E-21 2.8E-26 205.5 13.9 149 462-611 341-489 (645)
8 KOG2140 Uncharacterized conser 99.8 1.3E-18 2.8E-23 185.8 15.2 192 48-281 161-352 (739)
9 KOG2141 Protein involved in hi 99.5 1.4E-12 3E-17 144.7 18.6 199 49-281 317-524 (822)
10 KOG2051 Nonsense-mediated mRNA 99.2 2.9E-10 6.3E-15 131.0 14.0 179 60-274 436-614 (1128)
11 KOG3942 MIF4G domain-containin 98.8 3E-08 6.5E-13 101.2 12.7 170 81-283 163-338 (348)
12 KOG0401 Translation initiation 98.1 5.1E-07 1.1E-11 108.5 -0.7 269 29-300 591-892 (970)
13 KOG2051 Nonsense-mediated mRNA 98.1 0.00013 2.7E-09 85.5 18.5 184 61-275 641-835 (1128)
14 KOG1104 Nuclear cap-binding co 95.1 1.5 3.2E-05 51.0 18.9 203 42-282 18-248 (759)
15 PF02847 MA3: MA3 domain; Int 87.3 7.1 0.00015 34.6 10.4 63 52-116 2-66 (113)
16 PF05918 API5: Apoptosis inhib 86.3 13 0.00027 42.8 13.9 155 50-232 178-346 (556)
17 smart00544 MA3 Domain in DAP-5 84.1 5.9 0.00013 35.2 8.3 63 52-116 2-66 (113)
18 KOG2140 Uncharacterized conser 72.7 38 0.00081 38.5 11.4 50 66-116 467-516 (739)
19 PF07817 GLE1: GLE1-like prote 71.5 1E+02 0.0022 32.0 14.0 168 49-235 27-240 (256)
20 PLN00131 hypothetical protein; 60.4 1.3E+02 0.0029 28.7 10.9 69 450-529 116-185 (218)
21 PF04844 Ovate: Transcriptiona 53.9 37 0.0008 27.2 5.3 45 462-506 5-51 (59)
22 PF02854 MIF4G: MIF4G domain; 53.3 1.1E+02 0.0024 29.3 9.9 121 467-589 2-132 (209)
23 PLN03081 pentatricopeptide (PP 51.7 1.3E+02 0.0027 35.7 11.8 60 470-533 263-322 (697)
24 PF08044 DUF1707: Domain of un 50.7 22 0.00047 27.8 3.5 45 513-557 4-53 (53)
25 PLN03218 maturation of RBCL 1; 49.0 1.1E+02 0.0023 38.5 10.8 23 470-492 546-568 (1060)
26 TIGR01568 A_thal_3678 uncharac 45.0 73 0.0016 26.1 5.8 46 461-506 10-58 (66)
27 PLN03081 pentatricopeptide (PP 44.5 5.9E+02 0.013 30.0 16.0 74 469-543 90-165 (697)
28 KOG2141 Protein involved in hi 44.5 70 0.0015 37.7 7.6 105 61-200 628-732 (822)
29 PRK05477 gatB aspartyl/glutamy 40.8 3.7E+02 0.0081 30.6 12.7 110 498-613 338-465 (474)
30 TIGR01446 DnaD_dom DnaD and ph 40.8 97 0.0021 25.1 6.2 54 483-539 19-72 (73)
31 PLN03218 maturation of RBCL 1; 40.7 1.8E+02 0.0039 36.5 11.1 65 469-534 617-682 (1060)
32 cd03567 VHS_GGA VHS domain fam 39.7 2.3E+02 0.005 26.6 9.2 95 178-279 19-119 (139)
33 PF12854 PPR_1: PPR repeat 36.9 48 0.001 22.9 3.2 25 468-492 9-33 (34)
34 PRK14703 glutaminyl-tRNA synth 36.3 8.7E+02 0.019 29.5 16.0 31 517-548 664-694 (771)
35 PF12612 TFCD_C: Tubulin foldi 34.3 1.2E+02 0.0027 29.7 6.9 37 495-531 2-38 (193)
36 PF09851 SHOCT: Short C-termin 33.3 66 0.0014 22.1 3.3 25 522-546 6-30 (31)
37 PF08876 DUF1836: Domain of un 33.1 30 0.00065 31.0 2.0 51 512-562 54-104 (105)
38 PLN03077 Protein ECB2; Provisi 32.3 2.2E+02 0.0048 34.5 10.0 62 469-534 326-387 (857)
39 COG5537 IRR1 Cohesin [Cell div 31.3 7.1E+02 0.015 29.2 12.7 135 464-606 329-468 (740)
40 KOG2027 Spindle pole body prot 31.2 7.6E+02 0.017 27.3 13.8 133 463-608 14-160 (388)
41 TIGR00756 PPR pentatricopeptid 30.5 61 0.0013 21.1 2.9 26 469-494 3-28 (35)
42 PF04286 DUF445: Protein of un 30.4 5.8E+02 0.012 27.0 11.9 93 461-553 102-200 (367)
43 PF10602 RPN7: 26S proteasome 30.2 93 0.002 30.3 5.2 57 458-514 28-88 (177)
44 smart00543 MIF4G Middle domain 29.9 4.4E+02 0.0096 25.0 10.0 31 558-588 94-124 (200)
45 PF01535 PPR: PPR repeat; Int 28.3 82 0.0018 20.2 3.2 26 469-494 3-28 (31)
46 PF08149 BING4CT: BING4CT (NUC 28.0 60 0.0013 27.6 2.8 22 46-67 55-76 (80)
47 PRK09498 sifA secreted effecto 26.9 1.2E+02 0.0026 32.0 5.3 45 469-529 30-74 (336)
48 PTZ00009 heat shock 70 kDa pro 26.5 1.8E+02 0.0038 34.5 7.5 77 215-295 513-596 (653)
49 PF13041 PPR_2: PPR repeat fam 26.4 1.3E+02 0.0029 22.1 4.4 40 469-508 6-46 (50)
50 PLN03077 Protein ECB2; Provisi 26.1 4.3E+02 0.0094 32.0 11.0 26 469-494 256-281 (857)
51 PRK14137 recX recombination re 25.5 6.8E+02 0.015 24.9 13.6 102 456-590 29-130 (195)
52 cd07347 harmonin_N_like N-term 25.5 1.5E+02 0.0032 25.2 4.8 38 460-498 16-54 (78)
53 PF02284 COX5A: Cytochrome c o 25.3 4.7E+02 0.01 23.6 8.0 95 458-558 4-102 (108)
54 COG1745 Predicted metal-bindin 24.6 3.9E+02 0.0085 23.5 7.2 68 461-528 2-84 (94)
55 PF09733 VEFS-Box: VEFS-Box of 24.4 90 0.002 29.4 3.7 30 176-205 111-140 (140)
56 PF12755 Vac14_Fab1_bd: Vacuol 24.2 1.9E+02 0.0042 25.3 5.5 74 497-573 24-97 (97)
57 PF14837 INTS5_N: Integrator c 23.4 7.9E+02 0.017 24.9 10.5 32 530-561 72-103 (213)
58 PF10155 DUF2363: Uncharacteri 23.2 6E+02 0.013 23.5 8.8 32 515-546 77-108 (126)
59 cd03561 VHS VHS domain family; 22.9 5.9E+02 0.013 23.3 10.6 94 178-278 18-114 (133)
60 cd03569 VHS_Hrs_Vps27p VHS dom 22.8 6.3E+02 0.014 23.6 9.2 109 178-297 22-132 (142)
61 TIGR00153 conserved hypothetic 22.6 7.6E+02 0.017 24.5 12.2 78 471-557 32-112 (216)
62 COG1421 CRISPR system related 22.2 2.1E+02 0.0046 26.8 5.6 59 532-590 43-109 (137)
63 cd03568 VHS_STAM VHS domain fa 22.1 6.6E+02 0.014 23.6 10.9 110 178-298 18-129 (144)
64 PF13311 DUF4080: Protein of u 21.9 5E+02 0.011 25.5 8.7 73 457-529 19-95 (190)
65 PF10884 DUF2683: Protein of u 21.6 2.5E+02 0.0054 23.9 5.3 44 466-509 12-60 (80)
66 PF05030 SSXT: SSXT protein (N 21.3 2.5E+02 0.0055 23.0 5.1 36 457-492 3-44 (65)
67 PF12145 Med12-LCEWAV: Eukaryo 21.1 3.4E+02 0.0073 30.9 7.9 154 34-208 160-357 (480)
68 PF11867 DUF3387: Domain of un 21.0 5.9E+02 0.013 27.3 9.7 89 460-548 117-230 (335)
69 PF04147 Nop14: Nop14-like fam 20.5 1.6E+03 0.035 27.5 14.2 132 53-207 429-575 (840)
No 1
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.4e-65 Score=598.20 Aligned_cols=595 Identities=35% Similarity=0.517 Sum_probs=448.1
Q ss_pred CCCCCCcccccccCCcccccCCCChHHHHHHHHHHHhhcCChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCc
Q 006823 23 QGAGPAPALIKAEVPWSARRGNLSEKDRVLKTVKGILNKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTF 102 (630)
Q Consensus 23 ~~~~p~~~l~~~~~~w~~~~~~~~~~e~l~r~vk~iLNKLTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~f 102 (630)
++..|.+...++..+|...+..++..+++.+.|++|||||||++|+.+..+++++.+++...|+++|.+||||||.||+|
T Consensus 321 ~~~~ps~k~a~~~~~~~~~~~~~~~~~el~~~vrsilnkltp~~~~~l~~q~~~~~i~t~~~l~~vi~~vfdkAi~EP~f 400 (970)
T KOG0401|consen 321 KAPSPSPKRAKSKSDQGAERKDVELKEELAKRVRSLLNKLTPERKELLIEQLIELNVDTDDALKEVIELVFDKAINEPTF 400 (970)
T ss_pred CCCCCcchhhccccccccccchhHHHHHHHHHHhhhcCCCchHHHHHHHHHHHhhccCcHHHHhHHHHHHHHhhhccccc
Confidence 46677777888888887777777888999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHhchh-chHHHHhhcCChHH-HHHHhhHHHHHHhhhhhH
Q 006823 103 CPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEAFEGAD-NTRAEIRQMTAPEQ-EMERMDQERLVKLRTLGN 180 (630)
Q Consensus 103 s~~YA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~cQ~eFe~~~-~~~~e~~~~~~~e~-e~e~~d~e~~~K~r~lGn 180 (630)
|.|||+||..|.. ++..+.-+.++..++||++||++||++|+... ...+++...+.+++ |.+..+.+.++++|++||
T Consensus 401 ~~~yA~lc~~l~~-~~~~~~~~~~~~~~~fr~~lL~rcq~~fe~~~~~~~~~~~~~~~~~~~e~~le~~k~~~~~rtlgn 479 (970)
T KOG0401|consen 401 CAMYARLCFDLEG-PPSEPELDMGGDEINFRRLLLNRCQKEFEGEDDKIADEYSEAEEPDELEEELEEEKYILRRRTLGN 479 (970)
T ss_pred chhcchhcccccC-CccCCCcCCCCCcccHHHHHHHHhHHHhhcccHHHHHHhhhhcCchhHHHHHHhccceecCCccch
Confidence 9999999999998 55555445556788999999999999999987 56667777666655 566667778899999999
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCCCCC
Q 006823 181 IRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQLV 260 (630)
Q Consensus 181 irFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~~ls 260 (630)
|+|||+||+..|++++|||.|++.||..+. ++|++|||+|+|++|+|+.||........||.||.+++.+...+.++
T Consensus 480 ~~~ig~l~~~~ml~e~i~~~~v~~Ll~~~~---~~ee~ie~lc~f~~tig~~lD~~~~s~r~md~~~~~~k~~~~~~~~s 556 (970)
T KOG0401|consen 480 FRFIGELFKLKMLTEKIVHACVQKLLSDDQ---PSEESIECLCRFLTTIGKKLDFSKESPRNMDEYFNSMKNLKRKPQRS 556 (970)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccc---ccchhhhhHHhhhhcccccccccCcccchhHHHHHHHHHhhhhhhhc
Confidence 999999999999999999999999998742 78999999999999999999975444334999999999999999999
Q ss_pred hHHHHHHHHHHHHHhCCCCCcccccCCC-cHHHHHHHHHHHcCCCCchhhhhhcCCCCCC---CCCC-----CCCCCCCC
Q 006823 261 PRLRFMIHDVLDLRANNWVPRREEMKAK-TITEIHSEAEKNLGLRPGATAMMRNGRTGAT---GGMG-----PGGFPIAR 331 (630)
Q Consensus 261 ~Rirfmi~dlidLR~n~W~~r~~~~~pk-ti~ei~~ea~~~~~~~~~~~~~~r~~~~~~~---~~~~-----~~~~~~~~ 331 (630)
+|+|||+++++|||.++|++|+.+.+++ +|++||.++....+..+.....++..+.+.. +..+ +......+
T Consensus 557 ~r~RfM~~~~idlR~~~w~~rr~~~~~~~~ieei~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 636 (970)
T KOG0401|consen 557 NRIRFMLQSVIDLRKSGWGPRRAEETNDKPIEEIAPEAPSANRWSPKSLSKKTEGRLAEESDSGLLGKEVVERKGKSGLR 636 (970)
T ss_pred cchhhhhccccccccccccchhcccCCCCchhhcchhhhhhcccCcccccccccccccccccccccCccccccccccccc
Confidence 9999999999999999999999988877 9999999998887655544443333321110 0000 11111223
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCccccCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCC----CccCCCCCCCCc
Q 006823 332 PGTGGMMPGMPGTQKMPGMPGFDTDNWEVPRSR--TMPRGDSKSPSQFPGRVQSPLIGKSPSIN----SKFLPQGSGGII 405 (630)
Q Consensus 332 ~~~gg~~p~~~~~~~~~~~~g~~~~~~~~~~~~--s~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~ 405 (630)
...+.++++++...-....+.++.++|.+.... ..++..... +.......+..++.-... .+..++|+.|..
T Consensus 637 ~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k~~~~~~~~k~~~~--~~~~~~~~~~~~~~~~~~s~~~~~~~~~g~~~~~ 714 (970)
T KOG0401|consen 637 KLTPEMFDKISDPILDIADQSMDEEDGEASKQKGEQGGRKASDE--QHFSSMRAPALEKVVPSLSSDIDDKRNRGSNGEL 714 (970)
T ss_pred cCChhhcccccccccccchhhccccccchhhhcccccccccCcc--ccccccCCccccccccccccccccccccCCcccc
Confidence 334444444443322333445566667654332 111111111 001011122222111111 122334443321
Q ss_pred cC-C-cccccC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCHHHHHHHHHHHHHHHhc
Q 006823 406 SG-K-TSALLQ---GSPTPSARPSGIASGVEPLTQYTKPVAPAASVVASPEKPSAPVT--KLNLADLRKKTVSLLEEYFS 478 (630)
Q Consensus 406 s~-~-~s~~~~---~~~~~~~~~~~~~~~~~~~~q~~~~~~~~~~~p~~~~~~~~~~~--~~s~eel~kk~~~il~EY~~ 478 (630)
.. + .++... ..+....++++....+ .++-+.+. ..++.+....+.+. .++.+++..++++|+.||++
T Consensus 715 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~-----~~e~~~~~-~~~~~~~~~~~~~~v~~~~~~~l~~~sk~l~ee~~~ 788 (970)
T KOG0401|consen 715 LSDSYLSARCHEEFENGWSRELPSGKDGER-----EPEMMSPE-YYAAKAAKRAGLGLVIALSSELLELLSKSLLEEFLS 788 (970)
T ss_pred ccccccchhhhhhccccccccCCCCccccc-----chhhcCcc-cchhhhhhccCCcchhhhhHHHHHHHHHHHHHHHHH
Confidence 11 1 111111 1111111111111111 00001110 00111122233344 78999999999999999999
Q ss_pred CCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhccchhhhcCCCc
Q 006823 479 IRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPK 558 (630)
Q Consensus 479 ~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle~l~Dl~iDvP~ 558 (630)
..+.+|++.|+++|++|.+|+.+|..+|+..+++++..++++++||..|+..+.++.+++..||...+..++|+.||+|+
T Consensus 789 ~~~~~~~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d~pk 868 (970)
T KOG0401|consen 789 LRLEKEALKCIEELESPSLLLKTVGENIEPTLEKSPQAVEELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELDLPK 868 (970)
T ss_pred HhhhhhhhhhhhcccchhhhHHHHHHhcCcccccChhHHHHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHcCCCCH-HHHHHHHhhccchHHHHHHHHHHHHHhhcCCCchhHHHHhhhhHHHHhhhh
Q 006823 559 APNNFGEMVGKLVVAKSLDF-IVLKEVLKKVEDNMFRRSIFTAAMKSIQSSPAGQEVLAVQGAEVQACESLL 629 (630)
Q Consensus 559 A~~~la~~iarai~~~~l~~-~~i~~~~~~~~~~~~~~~~l~~~l~~l~~~~~g~~v~~~~~~~~~~~~~~~ 629 (630)
+|.|+++|++..+..+++++ ..+..+...+.+.+++..++.+++..+....++.++.+.++....+|+.++
T Consensus 869 ~w~~~~e~~gp~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~ 940 (970)
T KOG0401|consen 869 GWNYIKEFLGPLIHQKILDESELVREILKNMRPNGRRSNVLFSVLEIVEKELGRADLGDIQRESFLSTKTLL 940 (970)
T ss_pred chhHHHHhhhhHhhhccccHHHHHHHHhhcCCccccccchHHHHHHHHHHhhhHHHHHHHHHHhcccchhcc
Confidence 99999999999999999999 566778888999999999999999999988889999999999999998764
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=100.00 E-value=3.8e-32 Score=267.18 Aligned_cols=202 Identities=42% Similarity=0.776 Sum_probs=174.2
Q ss_pred HHHHHHHhhcCChhhHHHHHHHHHHccCC-ChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchh
Q 006823 52 LKTVKGILNKLTPEKFDVLKGQLIDSGIT-TPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDI 130 (630)
Q Consensus 52 ~r~vk~iLNKLTpenfd~l~~ql~~l~i~-~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~ 130 (630)
.|+|+++|||||++||+.++++|..+.+. +++.++.+++.||++|+.+|+|+.+||+||..|+...+ .
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 48999999999999999999999997665 48999999999999999999999999999999998752 5
Q ss_pred hHHHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCC
Q 006823 131 TFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDG 210 (630)
Q Consensus 131 ~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~ 210 (630)
.|+..|+++||++|+.... ..+.+ +.....++|..|+++||||||+.+++++.++++|+..|+....
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---CCCChhhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhC---CCCChHHHHHHHHHHHHHhCC
Q 006823 211 K---TCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTN---SQLVPRLRFMIHDVLDLRANN 277 (630)
Q Consensus 211 ~---~~p~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~---~~ls~Rirfmi~dlidLR~n~ 277 (630)
. ..+++++|||+|.+|.+||+.|+.....+..|+.||..++.+..+ ..+++|+||||+|++|+|+||
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 124679999999999999999995455667899999999999877 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=99.96 E-value=1.4e-27 Score=234.37 Aligned_cols=194 Identities=37% Similarity=0.584 Sum_probs=168.2
Q ss_pred HHHHHHhhcCChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhH
Q 006823 53 KTVKGILNKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITF 132 (630)
Q Consensus 53 r~vk~iLNKLTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~F 132 (630)
++|++++||||++||+.++++|..+.+.+++..+.+++.||++|+.+|.|+.+||+||..|+... ..|
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 68999999999999999999999998888899999999999999999999999999999999864 269
Q ss_pred HHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCC-
Q 006823 133 KRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGK- 211 (630)
Q Consensus 133 r~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~- 211 (630)
+..|++.||++|++... .. +...++++.|+++||||||+.++++..++.+|+..|+.....
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 99999999999987511 00 122346789999999999999999999999999999987421
Q ss_pred -CCCChhhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCC---CCChHHHHHHHHHHHHHhCC
Q 006823 212 -TCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNS---QLVPRLRFMIHDVLDLRANN 277 (630)
Q Consensus 212 -~~p~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~---~ls~Rirfmi~dlidLR~n~ 277 (630)
..++++++||+|.+|.+||+.|+. +..+..|+.+|..++....+. .+++|+|||+++++++|++.
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 234578999999999998776 79999999999999999863
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=99.90 E-value=1.1e-23 Score=189.92 Aligned_cols=113 Identities=35% Similarity=0.472 Sum_probs=110.2
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 006823 465 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLL 544 (630)
Q Consensus 465 l~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~ 544 (630)
+++++..+|+||++++|++||++||++|+.|++||+||+.+|+.+||+++.+|+.++.||.+|++.+++++++|.+||.+
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 47889999999999999999999999999999999999999999999998999999999999999999999999999999
Q ss_pred HhccchhhhcCCCchhHHHHHHHHHHHHcCCCC
Q 006823 545 YGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLD 577 (630)
Q Consensus 545 vle~l~Dl~iDvP~A~~~la~~iarai~~~~l~ 577 (630)
+++.++|+++|+|+|+.++|+|+|++|.+|++|
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=99.90 E-value=7.7e-24 Score=190.75 Aligned_cols=113 Identities=35% Similarity=0.537 Sum_probs=107.1
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHH
Q 006823 465 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLL 544 (630)
Q Consensus 465 l~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~ 544 (630)
+++++..+|.|||+++|.+||+.||+||+.|.+|++||..+|..+||+++.+|+.++.||.+|+..++++.++|.+||.+
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 HhccchhhhcCCCchhHHHHHHHHHHHHcCCCC
Q 006823 545 YGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLD 577 (630)
Q Consensus 545 vle~l~Dl~iDvP~A~~~la~~iarai~~~~l~ 577 (630)
+++.++|+.+|+|++|+++|+|++++|.+|+||
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=99.87 E-value=5.6e-22 Score=208.22 Aligned_cols=141 Identities=25% Similarity=0.345 Sum_probs=127.3
Q ss_pred CCCCC-CCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCC
Q 006823 453 PSAPV-TKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKN 531 (630)
Q Consensus 453 ~~~~~-~~~s~eel~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~ 531 (630)
.|+++ +.+++++++++|..+|+||..+||+.||.+||+||..|+|||++|+++|.++||++.. .+++.+||+.++++|
T Consensus 495 ~WGgGG~g~sVed~kdkI~~LLeEY~~~GdisEA~~CikeLgmPfFhHEvVkkAlVm~mEkk~d-~t~~ldLLk~cf~sg 573 (645)
T KOG0403|consen 495 VWGGGGGGWSVEDAKDKIDMLLEEYELSGDISEACHCIKELGMPFFHHEVVKKALVMVMEKKGD-STMILDLLKECFKSG 573 (645)
T ss_pred eecCCCCcchHHHHHHHHHHHHHHHHhccchHHHHHHHHHhCCCcchHHHHHHHHHHHHHhcCc-HHHHHHHHHHHHhcC
Confidence 57666 9999999999999999999999999999999999999999999999999999998863 359999999999999
Q ss_pred CCCHHHHHHHHHHHhccchhhhcCCCchhHHHHHHHHHHHHcCCCCHHHHHHHHhhccchHHHHHHHH
Q 006823 532 VLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVEDNMFRRSIFT 599 (630)
Q Consensus 532 ~ls~~~~~~Gf~~vle~l~Dl~iDvP~A~~~la~~iarai~~~~l~~~~i~~~~~~~~~~~~~~~~l~ 599 (630)
+||.+||.+||.+|.+.|+||.+|||+|++.+..|+.++..+|++... +..+.++..+++|..
T Consensus 574 lIT~nQMtkGf~RV~dsl~DlsLDvPna~ekf~~~Ve~~~~~G~i~~~-----l~~~~~s~l~~~F~s 636 (645)
T KOG0403|consen 574 LITTNQMTKGFERVYDSLPDLSLDVPNAYEKFERYVEECFQNGIISKQ-----LRDLCPSRLRKRFVS 636 (645)
T ss_pred ceeHHHhhhhhhhhhccCcccccCCCcHHHHHHHHHHHHHHcCchhHH-----hhhcchhhhcccccc
Confidence 999999999999999999999999999999999999999999965433 334566676666643
No 7
>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]
Probab=99.86 E-value=1.3e-21 Score=205.47 Aligned_cols=149 Identities=23% Similarity=0.353 Sum_probs=142.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHH
Q 006823 462 LADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTG 541 (630)
Q Consensus 462 ~eel~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~G 541 (630)
...|++.+.+||+|||.++|+.|.++|+++|+.|.|.+-|++.+|++|||+|+.++|+++.||+.|+. -++|++++.+|
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 66799999999999999999999999999999999999999999999999999999999999999998 59999999999
Q ss_pred HHHHhccchhhhcCCCchhHHHHHHHHHHHHcCCCCHHHHHHHHhhccchHHHHHHHHHHHHHhhcCCCc
Q 006823 542 CLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVEDNMFRRSIFTAAMKSIQSSPAG 611 (630)
Q Consensus 542 f~~vle~l~Dl~iDvP~A~~~la~~iarai~~~~l~~~~i~~~~~~~~~~~~~~~~l~~~l~~l~~~~~g 611 (630)
|..+++.++|+++|+|.|.+.||.|+||||.|++|.+..++++..++.+....++.+..|-.+|+...+|
T Consensus 420 F~mLLesaedtALD~p~a~~elalFlARAViDdVLap~~leei~~~lp~~s~g~et~~~ArsLlsar~aG 489 (645)
T KOG0403|consen 420 FDMLLESAEDTALDIPRASQELALFLARAVIDDVLAPTNLEEISGTLPPVSQGRETLDKARSLLSARHAG 489 (645)
T ss_pred HHHHHhcchhhhccccccHHHHHHHHHHHHhhcccccCcHHHHcCCCCCchhhHHHHHHHHHHHHHhhcc
Confidence 9999999999999999999999999999999999999999999999999877888888888888877665
No 8
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=99.79 E-value=1.3e-18 Score=185.81 Aligned_cols=192 Identities=25% Similarity=0.481 Sum_probs=166.5
Q ss_pred HHHHHHHHHHHhhcCChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCC
Q 006823 48 KDRVLKTVKGILNKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGG 127 (630)
Q Consensus 48 ~e~l~r~vk~iLNKLTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~ 127 (630)
+|.+.++|.+|+||+|..|+..++.+|+..+|--...| ++..|++-....|.|+++||.|++.|+.++|.+
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 57899999999999999999999999999877655555 788899888899999999999999999999866
Q ss_pred chhhHHHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhh
Q 006823 128 KDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLE 207 (630)
Q Consensus 128 ~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~ 207 (630)
+.+..++++|+ |.+..+ +.| |..|+..++||++|+++++.+|-+.++++.-||+
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 35677777776 654321 222 2468899999999999999999999999999998
Q ss_pred cCCCCCCChhhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHhCCCCCc
Q 006823 208 NDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLRANNWVPR 281 (630)
Q Consensus 208 ~~~~~~p~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~~ls~Rirfmi~dlidLR~n~W~~r 281 (630)
. |++++||.++.+|+.||.+|-... +..++.+|++++.|.....++.|++|||+.++..|+.++..-
T Consensus 286 ~-----PTddSvevaI~flkecGakL~~VS--pr~~n~IfErlR~ILhe~Eld~rvqy~iEtlf~iRkdkfk~~ 352 (739)
T KOG2140|consen 286 R-----PTDDSVEVAIAFLKECGAKLAEVS--PRALNGIFERLRYILHEGELDRRVQYMIETLFQIRKDKFKSH 352 (739)
T ss_pred C-----CCCchHHHHHHHHHHHHHHHHHhC--hHHHhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHhhccC
Confidence 6 899999999999999999998643 356899999999999989999999999999999999888654
No 9
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=99.47 E-value=1.4e-12 Score=144.66 Aligned_cols=199 Identities=21% Similarity=0.277 Sum_probs=148.1
Q ss_pred HHHHHHHHHHhhcCChhhHHHHHHHHHHccCCC-hHHHHHHHHHHHHHHhc-----CCCchHHHHHHHHHHhhhCCCCCC
Q 006823 49 DRVLKTVKGILNKLTPEKFDVLKGQLIDSGITT-PDILKGVIELIFDKAVL-----EPTFCPMYALLCSDLNEKLPPFPS 122 (630)
Q Consensus 49 e~l~r~vk~iLNKLTpenfd~l~~ql~~l~i~~-~e~L~~vi~lIfeKAi~-----Ep~fs~~YA~LC~~L~~~lp~~~~ 122 (630)
.++.|+|+|+||||+..|+.+|+..|-.+..++ ....+..+.-...+|+. --.++..||.|...|+...
T Consensus 317 ~rl~rkv~g~LNKLSdaNi~~I~~~i~~Ly~~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~~~y~AL~~~l~~~v----- 391 (822)
T KOG2141|consen 317 QRLRRKVNGSLNKLSDANIIKIIAGIAELYMNNSRYDVTSSLTKLLLKALLGPFRLLDSLLTTYAALAAMLHTMV----- 391 (822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH-----
Confidence 579999999999999999999999999976543 22222223323333333 3467899999999999874
Q ss_pred CCCCCchhhHHHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHH
Q 006823 123 DEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIV 202 (630)
Q Consensus 123 ~e~~~~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci 202 (630)
...|...+++...+.|-...+.. ++++-+ -+.+-+.+.|+++||+.+++...+|+++|
T Consensus 392 ------g~eigahf~q~~ve~f~~~~~~~-------------~~~~~~---~K~~~Nl~~~l~ylynF~ivs~~LiydiI 449 (822)
T KOG2141|consen 392 ------GNEIGAHFLQTFVEDFLKSYKEE-------------EEMDLK---DKSLNNIVLFLSYLYNFGIVSCSLIYDII 449 (822)
T ss_pred ------hhHHHHHHHHHHHHHHHHHHHHH-------------Hhcccc---cchhhhHHHHHHHHHHhhcccHHHHHHHH
Confidence 23455566666666676543211 111100 23578999999999999999999999999
Q ss_pred HHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCCC---CChHHHHHHHHHHHHHhCCCC
Q 006823 203 QELLENDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQ---LVPRLRFMIHDVLDLRANNWV 279 (630)
Q Consensus 203 ~~LL~~~~~~~p~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~~---ls~Rirfmi~dlidLR~n~W~ 279 (630)
..|..+ ++|-++||+..++..||..|..++. ..+..+...|+....+.. .++|+|||++.++.|++|+-.
T Consensus 450 ~kl~~~-----l~e~~ve~ll~ii~~~G~~LRkDDp--~alk~~i~eiq~~a~~a~~s~~~pR~rFmleti~aLKnN~~k 522 (822)
T KOG2141|consen 450 RKLAEN-----LNETNVEALLTIIANCGFSLRKDDP--LALKDIITEIQSKAASAKISAISPRLRFMLETISALKNNKLK 522 (822)
T ss_pred HHHHhc-----hhhhhHHHHHHHHHHccchhcCCCh--HHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHhcCCCc
Confidence 999987 6899999999999999999986543 467777777777665432 479999999999999988765
Q ss_pred Cc
Q 006823 280 PR 281 (630)
Q Consensus 280 ~r 281 (630)
+-
T Consensus 523 ki 524 (822)
T KOG2141|consen 523 KI 524 (822)
T ss_pred CC
Confidence 44
No 10
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=99.15 E-value=2.9e-10 Score=130.96 Aligned_cols=179 Identities=21% Similarity=0.338 Sum_probs=144.0
Q ss_pred hcCChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHH
Q 006823 60 NKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNH 139 (630)
Q Consensus 60 NKLTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~ 139 (630)
|.++.+-+|..+-++... ++|...-+.++..+|.-..+.-...+.|++|++.|+.+.|++ -.-|++.
T Consensus 436 ~~vsrdliD~~a~ef~~n-lNtKa~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~M~dv------------at~lv~~ 502 (1128)
T KOG2051|consen 436 NCVSRDLIDQAAIEFCSN-LNTKANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKCMPDV------------ATELVTM 502 (1128)
T ss_pred chHHHHHHHHHHHHHHHH-hccHHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhhhhHH------------HHHHHHH
Confidence 334455666666666654 788888999999999988888889999999999999998755 3346666
Q ss_pred HHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCChhhH
Q 006823 140 CQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAEENV 219 (630)
Q Consensus 140 cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~ee~I 219 (630)
..++|.........+ +++ ..+-+|+|||||.|.++++..-++.|++.||... ...+|
T Consensus 503 L~~eFr~~~hkK~q~--------~ie----------tk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~dF-----~~hnI 559 (1128)
T KOG2051|consen 503 LRKEFRSHLHKKAQI--------NIE----------TKLKIVRFISELCKFQLVPKFEIFSCLKMLLNDF-----THHNI 559 (1128)
T ss_pred HHHHHHHHHhhhhhh--------hhh----------hhhhhhhhHHhhhhhCccChHHHHHHHHHHHHhc-----ccccH
Confidence 677787642211100 011 1256899999999999999999999999999864 56789
Q ss_pred HHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHH
Q 006823 220 EAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLR 274 (630)
Q Consensus 220 E~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~~ls~Rirfmi~dlidLR 274 (630)
|.+|.||++||+.|-.++.++..|..++++|+.......+.+|..-+|++++-+=
T Consensus 560 Em~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~~ 614 (1128)
T KOG2051|consen 560 EMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYLC 614 (1128)
T ss_pred HHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHhc
Confidence 9999999999999998888888899999999988888899999999999999885
No 11
>KOG3942 consensus MIF4G domain-containing protein [Translation, ribosomal structure and biogenesis]
Probab=98.84 E-value=3e-08 Score=101.23 Aligned_cols=170 Identities=18% Similarity=0.136 Sum_probs=131.6
Q ss_pred ChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHhchhchHHHHhhcCCh
Q 006823 81 TPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAP 160 (630)
Q Consensus 81 ~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~ 160 (630)
+.|.|-.++-.|..+|+..-.|.-.-++||..+..... ..+.|+..||+.|++.|+-+..++
T Consensus 163 ~de~l~rc~~~~~r~avegg~ggl~v~klC~n~~~~~~---------~gt~f~~~Lln~lrq~f~~r~gl~--------- 224 (348)
T KOG3942|consen 163 DDEMLFRCGPTIARQAVEGGGGGLFVCKLCTNLGSSWR---------NGTQFMDELLNLLRQGFLLRTGLS--------- 224 (348)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCchhHHHHhhhhhhhhh---------ccchHHHHHHHHHHHhhccchhcc---------
Confidence 35778888999999999999999999999999876531 245699999999999998763321
Q ss_pred HHHHHHhhHHHHHHhhhhhHHHHHHHHHhcC-----CCCHHHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhc
Q 006823 161 EQEMERMDQERLVKLRTLGNIRLIGELLKQK-----MVPEKIVHHIVQELLENDGKTCPAEENVEAICQFFNTIGKQLDE 235 (630)
Q Consensus 161 e~e~e~~d~e~~~K~r~lGnirFIGELfk~~-----~l~e~I~~~ci~~LL~~~~~~~p~ee~IE~lc~LL~tiG~~Ld~ 235 (630)
.....|+++.|.|++|||-+- ++=..++..|++.|+..- +-.+..+|||.-.|...|..|++
T Consensus 225 ----------s~~~~rw~~fisfltelf~nlgs~p~~vL~~~l~~cl~~llrsp---d~~~~e~ecl~~~L~~~g~dle~ 291 (348)
T KOG3942|consen 225 ----------SLASCRWWRFISFLTELFDNLGSCPQVVLQRSLRLCLQILLRSP---DWPEFEYECLSMKLAVEGLDLEK 291 (348)
T ss_pred ----------chhHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHHHccCC---CcchHHHHHHHHHHHHcCccchh
Confidence 112368999999999999874 445678999999999862 23478999999999999999986
Q ss_pred CCcchhhHHHHHHHHHHHhhCCCCC-hHHHHHHHHHHHHHhCCCCCccc
Q 006823 236 NPKSRRVNDVYFSRLKELTTNSQLV-PRLRFMIHDVLDLRANNWVPRRE 283 (630)
Q Consensus 236 ~~k~~~~md~~f~rl~~l~~~~~ls-~Rirfmi~dlidLR~n~W~~r~~ 283 (630)
.- ...|..+|.-.++..-+..-| .-+|.+|..+|||-++.|.++..
T Consensus 292 ql--P~ql~lL~~s~rDafL~~sep~a~~r~~lllliel~As~wqlpt~ 338 (348)
T KOG3942|consen 292 QL--PFQLLLLFPSRRDAFLVRSEPLAPWRCPLLLLIELPASAWQLPTT 338 (348)
T ss_pred hh--hHHHHHHHHHHHHhhhccccccccccchhhhccccCccccCCCCC
Confidence 32 245666777666544333333 33699999999999999998764
No 12
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=98.10 E-value=5.1e-07 Score=108.46 Aligned_cols=269 Identities=19% Similarity=0.211 Sum_probs=177.1
Q ss_pred cccccccCCcccccC------CC---C-----hHHHHHHHHHHHhhcCChhhHHHHHHHHHHc-----cCCChHHHHHHH
Q 006823 29 PALIKAEVPWSARRG------NL---S-----EKDRVLKTVKGILNKLTPEKFDVLKGQLIDS-----GITTPDILKGVI 89 (630)
Q Consensus 29 ~~l~~~~~~w~~~~~------~~---~-----~~e~l~r~vk~iLNKLTpenfd~l~~ql~~l-----~i~~~e~L~~vi 89 (630)
++...+.+.|.+... .+ + ..+...+.+++.+|++|+++|+.+...++.. .-.+.+..+.++
T Consensus 591 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k~~~ 670 (970)
T KOG0401|consen 591 APEAPSANRWSPKSLSKKTEGRLAEESDSGLLGKEVVERKGKSGLRKLTPEMFDKISDPILDIADQSMDEEDGEASKQKG 670 (970)
T ss_pred chhhhhhcccCcccccccccccccccccccccCccccccccccccccCChhhcccccccccccchhhccccccchhhhcc
Confidence 556677888876421 11 1 1134578899999999999999999998754 235578899999
Q ss_pred HHHHHHHhcCCCchHHHHHHHHHHhhhCCC-CCC--CCCCCchhhHHHHHHHHHHHHHhchhchHHHHhhcCChHHHH--
Q 006823 90 ELIFDKAVLEPTFCPMYALLCSDLNEKLPP-FPS--DEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEM-- 164 (630)
Q Consensus 90 ~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~-~~~--~e~~~~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~-- 164 (630)
..++.|+..+++|+.+|+..|......... +.. .........+.+.+..+|+.+|.+.+.-.--..+......|+
T Consensus 671 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~e~~~ 750 (970)
T KOG0401|consen 671 EQGGRKASDEQHFSSMRAPALEKVVPSLSSDIDDKRNRGSNGELLSDSYLSARCHEEFENGWSRELPSGKDGEREPEMMS 750 (970)
T ss_pred cccccccCccccccccCCccccccccccccccccccccCCccccccccccchhhhhhccccccccCCCCcccccchhhcC
Confidence 999999999999999999999987654321 000 011123457888999999999998764210000000000010
Q ss_pred HHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHhhhhhcCCcchhhHH
Q 006823 165 ERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAEENVEAICQFFNTIGKQLDENPKSRRVND 244 (630)
Q Consensus 165 e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md 244 (630)
.........+++.+|+| +......+.+.+..|++.|+...+... ..+..+.++..|.++++||..++..-.....+.
T Consensus 751 ~~~~~~~~~~~~~~~~v-~~~~~~~l~~~sk~l~ee~~~~~~~~~--~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~~~~ 827 (970)
T KOG0401|consen 751 PEYYAAKAAKRAGLGLV-IALSSELLELLSKSLLEEFLSLRLEKE--ALKCIEELESPSLLLKTVGENIEPTLEKSPQAV 827 (970)
T ss_pred cccchhhhhhccCCcch-hhhhHHHHHHHHHHHHHHHHHHhhhhh--hhhhhhcccchhhhHHHHHHhcCcccccChhHH
Confidence 11122345688999999 777777788999999999988766542 346788999999999999999985322112222
Q ss_pred HHHHHHHHH-h-h------CCCCChHHHHHHHHHHHHH-hCCCCCcccccCCCcHHHHHHHHHHH
Q 006823 245 VYFSRLKEL-T-T------NSQLVPRLRFMIHDVLDLR-ANNWVPRREEMKAKTITEIHSEAEKN 300 (630)
Q Consensus 245 ~~f~rl~~l-~-~------~~~ls~Rirfmi~dlidLR-~n~W~~r~~~~~pkti~ei~~ea~~~ 300 (630)
.+..+|..+ . + .-..+.+..|-+.|.+.++ -++|..-....+|++++.++.+.+..
T Consensus 828 ~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d~pk~w~~~~e~~gp~~~~~~~~~~e~~ 892 (970)
T KOG0401|consen 828 EELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELDLPKGWNYIKEFLGPLIHQKILDESELV 892 (970)
T ss_pred HHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhcccccchhHHHHhhhhHhhhccccHHHHH
Confidence 333333221 1 1 1224556666666666665 47788777777888888888766543
No 13
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.10 E-value=0.00013 Score=85.55 Aligned_cols=184 Identities=17% Similarity=0.260 Sum_probs=124.5
Q ss_pred cCChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHH
Q 006823 61 KLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHC 140 (630)
Q Consensus 61 KLTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~c 140 (630)
.|+.++|+.++.++-.+...++++=+-+|..+..-=.-.-.--..-|.|..-|+...|.|. -.++..
T Consensus 641 dL~k~tvd~~lkllRkl~W~D~e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fv------------i~VID~- 707 (1128)
T KOG2051|consen 641 DLSKDTVDRVLKLLRKLDWSDPEVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFV------------IHVIDH- 707 (1128)
T ss_pred HhccccHHHHHHHHHhcccccHHHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhh------------hhhHHH-
Confidence 6666778888888888888888888878887765443333334455777777766555431 112221
Q ss_pred HHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCC-------
Q 006823 141 QEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTC------- 213 (630)
Q Consensus 141 Q~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~------- 213 (630)
.+|.. ... +|-++ ...+.|++.++||+||||+..|+...+|...|-.++--.....
T Consensus 708 --vlE~I-------r~g------lEin~--~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~g~~~~~~~~~ld 770 (1128)
T KOG2051|consen 708 --VLEDI-------RPG------LEIND--YVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISLGHFENLTPSALD 770 (1128)
T ss_pred --HHHHH-------Hhh------hhcCc--HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhcccccCCCCcccCC
Confidence 12221 100 12122 3456788999999999999999999999999988875321111
Q ss_pred CCh--hhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCC--CCChHHHHHHHHHHHHHh
Q 006823 214 PAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNS--QLVPRLRFMIHDVLDLRA 275 (630)
Q Consensus 214 p~e--e~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~--~ls~Rirfmi~dlidLR~ 275 (630)
|.+ .-|..+|.||.|||..++. ...+..|+.|.-.++...--+ ..|--+.++++|++.+-.
T Consensus 771 ppddlFRirlV~~lL~tc~~yf~r-gs~kkkl~~fL~~fq~Y~~iKk~~~Pld~~~~f~d~~~~~r 835 (1128)
T KOG2051|consen 771 PPDDLFRIRLVCMLLQTCGPYFTR-GSTKKKLDQFLVAFQRYILIKKSQQPLDMEYEFEDFLELVR 835 (1128)
T ss_pred ChHHHHHHHHHHHHHHHccccccc-chhHHHHHHHHHHHHHHhhcccccCCCchhhhHHhhhhhcc
Confidence 222 3689999999999999996 345667888877777654222 478899999999998864
No 14
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=95.11 E-value=1.5 Score=51.02 Aligned_cols=203 Identities=15% Similarity=0.241 Sum_probs=136.5
Q ss_pred cCCCChHHHHHHHHHHHhhcCC-------hhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHh
Q 006823 42 RGNLSEKDRVLKTVKGILNKLT-------PEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLN 114 (630)
Q Consensus 42 ~~~~~~~e~l~r~vk~iLNKLT-------penfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~ 114 (630)
|...+..+.+.+++.+..-++. ..|.+.++.-|.. .+ +..-..+++.|-.=|+.-|.=+..||-|...|+
T Consensus 18 r~r~~~~e~l~krl~~~i~~vg~~s~ss~e~~l~~l~~~l~~-~~--~~~~~~iL~~L~~ca~~lP~K~~~yaTLvgllN 94 (759)
T KOG1104|consen 18 RRRISPAETLEKRLESLIREVGEPSGSSVEDNLENLVAVLEA-DL--ENFKSKILDILNTCAVYLPEKITAYATLVGLLN 94 (759)
T ss_pred cccCCcHHHHHHHHHHHHHhhcCCCCCcHHHhHHHHHHHHHh-hH--HHHHHHHHHHHHHHHHHcccchhHHHHHHHHHh
Confidence 3455677888999999888888 2355555444443 11 124455788888889999999999999999998
Q ss_pred hhCCCCCCCCCCCchhhHHHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCC
Q 006823 115 EKLPPFPSDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVP 194 (630)
Q Consensus 115 ~~lp~~~~~e~~~~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~ 194 (630)
.+-+. |..-+++..-.+|... ++. .. =.+.-+.+||+.-|++.+||.
T Consensus 95 ~kn~~------------fg~~~v~~~~~~~q~s------l~~----------~~-----~n~ar~llrfL~dL~~~~vl~ 141 (759)
T KOG1104|consen 95 LKNFN------------FGGEFVEYMIEELQES------LKS----------GN-----WNEARYLLRFLSDLSNCHVLQ 141 (759)
T ss_pred ccchh------------hHHHHHHHHHHHHHHH------hhc----------CC-----hHHHHHHHHHHHHHhcCCccC
Confidence 76433 3333444322223211 100 00 013358999999999999999
Q ss_pred HHHHHHHHHHHhhcCCC-CCC---ChhhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhhCC-------------
Q 006823 195 EKIVHHIVQELLENDGK-TCP---AEENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTTNS------------- 257 (630)
Q Consensus 195 e~I~~~ci~~LL~~~~~-~~p---~ee~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~~~------------- 257 (630)
..-|...+..|+..... ..| .+.-+-|+..-|--+|+.|... .+..|+.++..++...+.+
T Consensus 142 ~~sli~l~esl~~~~~e~~~Pqvr~D~~v~~vLs~lPw~g~el~e~--~~~~~e~ll~~ie~Yl~~R~~shi~lL~vw~~ 219 (759)
T KOG1104|consen 142 ADSLINLFESLLDAAIEENVPQVRRDYYVYCVLSSLPWFGRELNEK--KPTEMEELLVYIEIYLKKRKKSHINLLNVWSG 219 (759)
T ss_pred hHHHHHHHHHHHHHHHhhcCcchhhhHHHHHHHhccchhhhhhccc--chHHHHHHHHHHHHHHHHhcccccchhhcCCC
Confidence 99888888888874211 112 3456788888888899999853 3467888888887644321
Q ss_pred --CCChH--HHHHHHHHHHHHhCCCCCcc
Q 006823 258 --QLVPR--LRFMIHDVLDLRANNWVPRR 282 (630)
Q Consensus 258 --~ls~R--irfmi~dlidLR~n~W~~r~ 282 (630)
....+ ++.+...|.-+|.|+|..+.
T Consensus 220 ~~~~~qeeyle~L~~qI~~lr~n~w~e~h 248 (759)
T KOG1104|consen 220 EPDHPQEEYLELLWAQIQKLRQNDWAENH 248 (759)
T ss_pred CCCchHHHHHHHHHHHHHHHHhcCccccc
Confidence 12222 78899999999999999754
No 15
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=87.29 E-value=7.1 Score=34.56 Aligned_cols=63 Identities=21% Similarity=0.271 Sum_probs=46.7
Q ss_pred HHHHHHHhhc-CChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcC-CCchHHHHHHHHHHhhh
Q 006823 52 LKTVKGILNK-LTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLE-PTFCPMYALLCSDLNEK 116 (630)
Q Consensus 52 ~r~vk~iLNK-LTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~E-p~fs~~YA~LC~~L~~~ 116 (630)
+|+++.+|.- +.-...+..+..|.++++. .....||..++..++++ ..+..+|+.|...|...
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 4566655542 2234667778888887666 67778999999999999 99999999999999864
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=86.27 E-value=13 Score=42.83 Aligned_cols=155 Identities=23% Similarity=0.304 Sum_probs=89.9
Q ss_pred HHHHHHHHHhhcCChhhHHHHHHHHHHccC----CChHHHHHHHHHHHHHHhcC----CCchHHHHHHHHHHhhhCCCCC
Q 006823 50 RVLKTVKGILNKLTPEKFDVLKGQLIDSGI----TTPDILKGVIELIFDKAVLE----PTFCPMYALLCSDLNEKLPPFP 121 (630)
Q Consensus 50 ~l~r~vk~iLNKLTpenfd~l~~ql~~l~i----~~~e~L~~vi~lIfeKAi~E----p~fs~~YA~LC~~L~~~lp~~~ 121 (630)
-|...|+.+|..+|.+.|+.+++=|-.+.+ .+.+..+.++++|++.|--+ +.....+.+|...+...+|-|.
T Consensus 178 ~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~~~Alp~fs 257 (556)
T PF05918_consen 178 FIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQADLDQPFDPSDPESIDRLISCLRQALPFFS 257 (556)
T ss_dssp HHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHHTTTS---SSSHHHHHHHHHHHHHHGGG-B
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHhhHHhc
Confidence 467788999999999999999965555666 57889999999999999533 3335777888888888877553
Q ss_pred CCCCCCchhhHHHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcC-CCCHHHHHH
Q 006823 122 SDEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQK-MVPEKIVHH 200 (630)
Q Consensus 122 ~~e~~~~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~-~l~e~I~~~ 200 (630)
. +...+.|-.++..+ -|=....+ . | + +.+-.++.++|+--+- -....-+..
T Consensus 258 ~---~v~Sskfv~y~~~k---vlP~l~~l-------~------e--~-------~kl~lLk~lAE~s~~~~~~d~~~~L~ 309 (556)
T PF05918_consen 258 R---GVSSSKFVNYMCEK---VLPKLSDL-------P------E--D-------RKLDLLKLLAELSPFCGAQDARQLLP 309 (556)
T ss_dssp T---TB--HHHHHHHHHH---TCCCTT---------------------------HHHHHHHHHHHHHTT----THHHHHH
T ss_pred C---CCChHHHHHHHHHH---hcCChhhC-------C------h--H-------HHHHHHHHHHHHcCCCCcccHHHHHH
Confidence 2 23345566665442 22211111 0 0 0 1145677778876652 122222223
Q ss_pred HHHHHhhc-CC--CCCCC--hhhHHHHHHHHHHHhhh
Q 006823 201 IVQELLEN-DG--KTCPA--EENVEAICQFFNTIGKQ 232 (630)
Q Consensus 201 ci~~LL~~-~~--~~~p~--ee~IE~lc~LL~tiG~~ 232 (630)
.|..+|.. .. ...|+ --.||||...+.++|+.
T Consensus 310 ~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 310 SIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp HHHHHHHTTS----------HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 33333332 11 11121 24799999988888876
No 17
>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=84.14 E-value=5.9 Score=35.19 Aligned_cols=63 Identities=22% Similarity=0.299 Sum_probs=47.8
Q ss_pred HHHHHHHhhc-CChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcC-CCchHHHHHHHHHHhhh
Q 006823 52 LKTVKGILNK-LTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLE-PTFCPMYALLCSDLNEK 116 (630)
Q Consensus 52 ~r~vk~iLNK-LTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~E-p~fs~~YA~LC~~L~~~ 116 (630)
+++|..+|+- ++...++..+.-|.++++. .....++..++.-++++ ..|.++|+.|...|...
T Consensus 2 ~k~i~~~l~ey~~~~D~~ea~~~l~~L~~~--~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~ 66 (113)
T smart00544 2 KKKIFLIIEEYLSSGDTDEAVHCLLELKLP--EQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQA 66 (113)
T ss_pred hhHHHHHHHHHHHcCCHHHHHHHHHHhCCC--cchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHc
Confidence 3455555432 2356778888888888776 46777899999999988 58999999999999864
No 18
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=72.71 E-value=38 Score=38.50 Aligned_cols=50 Identities=22% Similarity=0.304 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhh
Q 006823 66 KFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEK 116 (630)
Q Consensus 66 nfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~ 116 (630)
-|+...-.|+.+.|.+.. -+.|+..|.+=+..|.+|...|.-|..+++..
T Consensus 467 dfeEaaHKLLKmkip~~q-~~elc~mii~cc~QerTy~kFYglL~eRfc~l 516 (739)
T KOG2140|consen 467 DFEEAAHKLLKMKIPESQ-EKELCNMIIDCCAQERTYEKFYGLLGERFCML 516 (739)
T ss_pred cHHHHHHHHHhccCCchh-hHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence 578888888887775432 34689999999999999999999888887653
No 19
>PF07817 GLE1: GLE1-like protein; InterPro: IPR012476 The members of this family are sequences that are similar to the human protein GLE1 (O75458 from SWISSPROT). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm []. ; GO: 0016973 poly(A)+ mRNA export from nucleus, 0005643 nuclear pore; PDB: 3PEV_B 3RRN_B 3PEU_B 3RRM_B.
Probab=71.53 E-value=1e+02 Score=31.95 Aligned_cols=168 Identities=17% Similarity=0.208 Sum_probs=94.1
Q ss_pred HHHHHHHHHHhhcCCh--hhHHHHHHHHHHc-------------cCC-Ch----HHHHHHHHHHHHHHhc----CCCchH
Q 006823 49 DRVLKTVKGILNKLTP--EKFDVLKGQLIDS-------------GIT-TP----DILKGVIELIFDKAVL----EPTFCP 104 (630)
Q Consensus 49 e~l~r~vk~iLNKLTp--enfd~l~~ql~~l-------------~i~-~~----e~L~~vi~lIfeKAi~----Ep~fs~ 104 (630)
..+.|.|+.-+|+||. +.+..++.+|.++ ... .+ -.|..+++.|...|-. .|..+.
T Consensus 27 ~~~kr~I~~~vgQls~~~~qi~~i~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~l~~lAk~iv~Q~e~ev~~~~~~A~ 106 (256)
T PF07817_consen 27 FDLKRKINPKVGQLSNSSSQINRIINQISNLLSGQPVKSNDLQQSKNDHPLAYKYLLNFLAKKIVSQAETEVSANPESAF 106 (256)
T ss_dssp HHHHHHHCCHHHC--SBHHHHHHHHHHHHHH----------HHTTTT-SHHHHHHHHHHHHHHHHHHHHHHHHH-GGGHH
T ss_pred HHhhhhCcCcHhhccCcHHHHHHHHHHHHHHhhhhhhchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHhccCCchhh
Confidence 3577888888888884 4555666666655 112 22 2455566666666655 578888
Q ss_pred HHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHHHHHHh--c------h-hchHHHHhh-cC--ChHHHHHHhhHHHH
Q 006823 105 MYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEAFE--G------A-DNTRAEIRQ-MT--APEQEMERMDQERL 172 (630)
Q Consensus 105 ~YA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~cQ~eFe--~------~-~~~~~e~~~-~~--~~e~e~e~~d~e~~ 172 (630)
-||.++..|...+|+ |..+|+.+....-= - . ....++..+ +. ..+... |.+..
T Consensus 107 PlA~v~~~l~~~~p~------------~~dillA~l~k~Cp~~vP~~~~~~~~~~~e~~~k~lGyk~~~~~~---E~~~~ 171 (256)
T PF07817_consen 107 PLARVAVQLWSQHPE------------FGDILLARLHKKCPYLVPKYPGFTCDQSTEEYRKRLGYKRDDGGW---ESEDQ 171 (256)
T ss_dssp HHHHHHHHHHHHSTC------------HHHHHHHHHHHH-GGGG----T-----SSHHHHHHTT--B-TTSB-----HHH
T ss_pred hHHHHHHHHHHcCCc------------HHHHHHHHHHHcCceeEeecCcccCCCCHHHHHHHcCCccCCCCc---cchHH
Confidence 899999999888764 45555555433210 0 0 001112211 10 000001 11223
Q ss_pred HHhhhhhHHHHHHHHHhcCC---------CCHHHHHHHHHHHhhcCCCCCC-ChhhHHHHHHHHHHHhhhhhc
Q 006823 173 VKLRTLGNIRLIGELLKQKM---------VPEKIVHHIVQELLENDGKTCP-AEENVEAICQFFNTIGKQLDE 235 (630)
Q Consensus 173 ~K~r~lGnirFIGELfk~~~---------l~e~I~~~ci~~LL~~~~~~~p-~ee~IE~lc~LL~tiG~~Ld~ 235 (630)
.-.|+-|.+++-+-+..... .+-...=..+..+|+.. | .+-....|..+|+.+|..|-+
T Consensus 172 y~~Rm~Gi~~lyaAi~~~~~~~~~~~~~p~~~~~~W~wlAr~lN~~----p~~~~~~~lL~~~Le~ag~~l~~ 240 (256)
T PF07817_consen 172 YLKRMTGIIRLYAAIIQTPPPKGQKTSNPHGLEHGWRWLARILNLP----PAPNITATLLHSFLEVAGFRLLQ 240 (256)
T ss_dssp HHHHHHHHHHHHHHHHHS---CCCCTT-SS-THHHHHHHHHHHCS-----CC-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhccCCcCCCCCCCCCcHHHHHHHHHHhCCC----CCcccHHHHHHHHHHHHHHHHHH
Confidence 34689999999999987532 22333345666777653 3 355688999999999999875
No 20
>PLN00131 hypothetical protein; Provisional
Probab=60.38 E-value=1.3e+02 Score=28.65 Aligned_cols=69 Identities=19% Similarity=0.242 Sum_probs=39.6
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHH-HHhcCCCCChHHHHHHHHHHH
Q 006823 450 PEKPSAPVTKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIA-LALEKIPPCVEPVIQLLEFLL 528 (630)
Q Consensus 450 ~~~~~~~~~~~s~eel~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~-~ale~~~~~re~~~~LL~~L~ 528 (630)
-++.+.++|.+...++..|-+..-+| ++.+-.+.+-.....+...++. +.|| +..+|-++-+|..+||
T Consensus 116 heqepepapplddqdlltkrkrvsee----------lrlllqigavkrknkiadqlldwmgld-netdrtllddlynhly 184 (218)
T PLN00131 116 HEQEPEPAPPLDDQDLLTKRKRVSEE----------LRLLLQIGAVKRKNKIADQLLDWMGLD-NETDRTLLDDLYNHLY 184 (218)
T ss_pred cccCCCCCCCCCcHHHHHHHHHHHHH----------HHHHHHHhhhhhhhHHHHHHHHHhccC-ccchHHHHHHHHHHHh
Confidence 34555667788888876665543322 3333333322233344444444 3444 4567889999999998
Q ss_pred h
Q 006823 529 N 529 (630)
Q Consensus 529 ~ 529 (630)
+
T Consensus 185 d 185 (218)
T PLN00131 185 D 185 (218)
T ss_pred h
Confidence 7
No 21
>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=53.89 E-value=37 Score=27.23 Aligned_cols=45 Identities=29% Similarity=0.430 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHh--cCCCHHHHHHHHHHhCCCCChHHHHHHHH
Q 006823 462 LADLRKKTVSLLEEYF--SIRILDEALQCVEELRAPTYHPEVVKEAI 506 (630)
Q Consensus 462 ~eel~kk~~~il~EY~--~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I 506 (630)
-++|++.+..+|.|-- .-.|++|-+.|.-.||.|.+|..+|.-..
T Consensus 5 ~~DFr~SM~EMI~~~~i~~~~~LeeLL~cYL~LN~~~~H~~Iv~aF~ 51 (59)
T PF04844_consen 5 YEDFRESMVEMIEENGIRDWDDLEELLACYLSLNSPEHHKFIVEAFV 51 (59)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCChhhhhHHHHHHH
Confidence 4688888877776653 33689999999999999988876655444
No 22
>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=53.29 E-value=1.1e+02 Score=29.27 Aligned_cols=121 Identities=12% Similarity=0.031 Sum_probs=69.7
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhCCCC---ChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCC-CCHHHHHHHH
Q 006823 467 KKTVSLLEEYFSIRILDEALQCVEELRAPT---YHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNV-LTTRDIGTGC 542 (630)
Q Consensus 467 kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~---~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~-ls~~~~~~Gf 542 (630)
++++.+|...= .+++++.+..+..+.... ....+|..+++.+.+.. ......++|...|....- -=...+...+
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 45566666543 677777777777765443 34456666666555543 445677777777765322 0012222222
Q ss_pred HHHhcc------chhhhcCCCchhHHHHHHHHHHHHcCCCCHHHHHHHHhhcc
Q 006823 543 LLYGSL------LDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVE 589 (630)
Q Consensus 543 ~~vle~------l~Dl~iDvP~A~~~la~~iarai~~~~l~~~~i~~~~~~~~ 589 (630)
...+.. +++..--.-.-..-+..|+|.+..-+.++...+-+++..+-
T Consensus 80 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll 132 (209)
T PF02854_consen 80 QEEFEERYSNEELEENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELL 132 (209)
T ss_dssp HHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHH
T ss_pred HHHHHHhhhhhhHHHHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHH
Confidence 333332 22222222233455778999999999999988888777653
No 23
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=51.72 E-value=1.3e+02 Score=35.65 Aligned_cols=60 Identities=13% Similarity=0.115 Sum_probs=33.6
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCC
Q 006823 470 VSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVL 533 (630)
Q Consensus 470 ~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~l 533 (630)
..+|+-|...|++++|...+.++..+. .++...+..++-+.. ..+.+..++..+...|+.
T Consensus 263 n~Li~~y~k~g~~~~A~~vf~~m~~~~---~vt~n~li~~y~~~g-~~~eA~~lf~~M~~~g~~ 322 (697)
T PLN03081 263 CALIDMYSKCGDIEDARCVFDGMPEKT---TVAWNSMLAGYALHG-YSEEALCLYYEMRDSGVS 322 (697)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhCCCCC---hhHHHHHHHHHHhCC-CHHHHHHHHHHHHHcCCC
Confidence 456677777777777777777765442 333444444443332 335556666666655544
No 24
>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=50.72 E-value=22 Score=27.78 Aligned_cols=45 Identities=20% Similarity=0.144 Sum_probs=36.2
Q ss_pred CCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhc-----cchhhhcCCC
Q 006823 513 IPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGS-----LLDDIGIDLP 557 (630)
Q Consensus 513 ~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle-----~l~Dl~iDvP 557 (630)
++.+|+.+..+|...+..|-|+.+.|..=...++. .|..+.-|+|
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 56789999999999999999999999988776543 4555555555
No 25
>PLN03218 maturation of RBCL 1; Provisional
Probab=49.02 E-value=1.1e+02 Score=38.50 Aligned_cols=23 Identities=17% Similarity=0.251 Sum_probs=10.9
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHh
Q 006823 470 VSLLEEYFSIRILDEALQCVEEL 492 (630)
Q Consensus 470 ~~il~EY~~~~D~~Ea~~~i~eL 492 (630)
..+|.-|...|++++|...+.++
T Consensus 546 nsLI~a~~k~G~~deA~~lf~eM 568 (1060)
T PLN03218 546 NALISACGQSGAVDRAFDVLAEM 568 (1060)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH
Confidence 44444444444444444444444
No 26
>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=44.95 E-value=73 Score=26.14 Aligned_cols=46 Identities=24% Similarity=0.355 Sum_probs=34.4
Q ss_pred CHHHHHHHHHHHHHHHhc--C-CCHHHHHHHHHHhCCCCChHHHHHHHH
Q 006823 461 NLADLRKKTVSLLEEYFS--I-RILDEALQCVEELRAPTYHPEVVKEAI 506 (630)
Q Consensus 461 s~eel~kk~~~il~EY~~--~-~D~~Ea~~~i~eL~~p~~~~~~V~~~I 506 (630)
+-++|++.+..+|.|-=- . .+++|-+.|.-.||.+.+|+.+|.-..
T Consensus 10 Py~DFr~SM~EMI~~~~i~~~w~~LeeLL~cYL~LN~~~~H~~Iv~AF~ 58 (66)
T TIGR01568 10 PYEDFRRSMEEMIEERELEADWKELEELLACYLDLNPKKSHRFIVRAFV 58 (66)
T ss_pred hHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCchhhhHHHHHHH
Confidence 367899988888877532 2 468999999999999888765555443
No 27
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=44.51 E-value=5.9e+02 Score=29.99 Aligned_cols=74 Identities=18% Similarity=0.129 Sum_probs=47.5
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCC-C-hHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRAPT-Y-HPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCL 543 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~p~-~-~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~ 543 (630)
+..+|..|...|+.+||+..++.+.... + ...++...+..++-+.. ..+.+.+++..+...|+.+.......+-
T Consensus 90 ~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~-~~~~a~~l~~~m~~~g~~~~~~~~n~Li 165 (697)
T PLN03081 90 LCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALK-SIRCVKAVYWHVESSGFEPDQYMMNRVL 165 (697)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHhCCCcchHHHHHHH
Confidence 5778899999999999999999985421 2 34455555555554432 3455666777777666655444333333
No 28
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=44.50 E-value=70 Score=37.69 Aligned_cols=105 Identities=19% Similarity=0.326 Sum_probs=71.0
Q ss_pred cCChhhHHHHHHHHHHccCCChHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhhhCCCCCCCCCCCchhhHHHHHHHHH
Q 006823 61 KLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLCSDLNEKLPPFPSDEPGGKDITFKRILLNHC 140 (630)
Q Consensus 61 KLTpenfd~l~~ql~~l~i~~~e~L~~vi~lIfeKAi~Ep~fs~~YA~LC~~L~~~lp~~~~~e~~~~~~~Fr~~LL~~c 140 (630)
-++.+-|.-..+.|+.+.+... ...+|+.+|+.=+..|-.|-+.||-|..++++.-..+ ..+|.-.|-.+
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 3567777777888888877653 3557899999999999999999999999998752211 22333222221
Q ss_pred HHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHH
Q 006823 141 QEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHH 200 (630)
Q Consensus 141 Q~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ 200 (630)
| .++. .....|....++|+++|.....++-.|+..
T Consensus 698 ---f-------~ele---------------~ls~~ri~nLa~l~a~Li~~~~lsLtVLK~ 732 (822)
T KOG2141|consen 698 ---F-------KELE---------------QLSLFRISNLAKLLASLISNAVLSLTVLKH 732 (822)
T ss_pred ---H-------HHhh---------------hcchhhHhHHHHHHHHHHHhcccceeeeee
Confidence 1 1111 112345678899999999988887666553
No 29
>PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated
Probab=40.84 E-value=3.7e+02 Score=30.57 Aligned_cols=110 Identities=10% Similarity=0.061 Sum_probs=59.0
Q ss_pred hHHHHHHHHHHHh----cCCC-------CChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhccchh---hhc--CCCc--h
Q 006823 498 HPEVVKEAIALAL----EKIP-------PCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDD---IGI--DLPK--A 559 (630)
Q Consensus 498 ~~~~V~~~I~~al----e~~~-------~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle~l~D---l~i--DvP~--A 559 (630)
.+.++..||..-+ .+.. -.-+.++.|+. |+..|.||..+..+-|..+++.=.| +.- ++-. -
T Consensus 338 ~~k~~anwl~~el~~~l~~~~~~~~~~~i~~~~l~~Li~-lv~~g~Is~~~ak~vl~~~~~~~~~~~~ii~~~gl~~isd 416 (474)
T PRK05477 338 DAKLAANWLMGELLGLLNEEGIEIEESPITPEQLAELIK-LIDDGTISGKIAKEVFEEMLETGGDPDEIVEEKGLKQISD 416 (474)
T ss_pred CHHHHHHHHHHHHHHHHHHCCCChhhcCCCHHHHHHHHH-HHHcCCccHHHHHHHHHHHHhcCCCHHHHHHHcCCcccCC
Confidence 4566666665433 2221 23477888875 6677999999999999988865111 000 0000 0
Q ss_pred hHHHHHHHHHHHHcCCCCHHHHHHHHhhccchHHHHHHHHHHHHHhhcCCCchh
Q 006823 560 PNNFGEMVGKLVVAKSLDFIVLKEVLKKVEDNMFRRSIFTAAMKSIQSSPAGQE 613 (630)
Q Consensus 560 ~~~la~~iarai~~~~l~~~~i~~~~~~~~~~~~~~~~l~~~l~~l~~~~~g~~ 613 (630)
...|..++...|.+ .++.|++... ........++|.+|+..+..-+++.
T Consensus 417 ~~~l~~iv~evi~~---np~~v~~~~~--Gk~~~~~~lvG~vMk~t~GkAdp~~ 465 (474)
T PRK05477 417 EGALEAIVDEVLAA---NPKAVEDYKA--GKEKALGFLVGQVMKATKGKANPKL 465 (474)
T ss_pred HHHHHHHHHHHHHH---CHHHHHHHHc--ccHHHHHHHHHHHHHHhcCCCCHHH
Confidence 01222333333322 2233333221 1356777889999999877534433
No 30
>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=40.80 E-value=97 Score=25.13 Aligned_cols=54 Identities=20% Similarity=0.285 Sum_probs=40.6
Q ss_pred HHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHH
Q 006823 483 DEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIG 539 (630)
Q Consensus 483 ~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~ 539 (630)
+....-+.+++ +.+++|..+|..++++......-+-..|..-.++|+-|.+|..
T Consensus 19 ~~i~~~~~~~~---~~~evI~~ai~~a~~~~~~~~~Yi~~Il~~W~~~gi~T~e~~~ 72 (73)
T TIGR01446 19 EDLKYWLDEFG---NSPELIKEALKEAVSNNKANYKYIDAILNNWKNNGIKTVEDVE 72 (73)
T ss_pred HHHHHHHHHhC---CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCCCHHHHh
Confidence 33333444443 3489999999999987656667888999999999999988864
No 31
>PLN03218 maturation of RBCL 1; Provisional
Probab=40.66 E-value=1.8e+02 Score=36.48 Aligned_cols=65 Identities=12% Similarity=0.087 Sum_probs=38.4
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCChH-HHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCC
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRAPTYHP-EVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLT 534 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~-~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls 534 (630)
...+|.-|...|+.++|...++++......+ .++...+..++-+. ..-+.+.+++..+.+.|+-.
T Consensus 617 ynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~-G~~eeA~~l~~eM~k~G~~p 682 (1060)
T PLN03218 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA-GDLDKAFEILQDARKQGIKL 682 (1060)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCC
Confidence 4567777888888888888888775443332 34444444444332 23455666666666655443
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=39.66 E-value=2.3e+02 Score=26.55 Aligned_cols=95 Identities=11% Similarity=0.151 Sum_probs=58.3
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhh
Q 006823 178 LGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT 255 (630)
Q Consensus 178 lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~e--e~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~ 255 (630)
.+.+.-|+.+.+.+--..+.....|.+-|... .|.. -.|..|=.+++.||..+...-..+.+++ .|..+..
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 46778888888877555544444444444431 1211 2566666777888998864322334444 4444443
Q ss_pred ----CCCCChHHHHHHHHHHHHHhCCCC
Q 006823 256 ----NSQLVPRLRFMIHDVLDLRANNWV 279 (630)
Q Consensus 256 ----~~~ls~Rirfmi~dlidLR~n~W~ 279 (630)
....+..|+-.|..+|........
T Consensus 92 ~k~~~~~~~~~Vk~kil~li~~W~~~f~ 119 (139)
T cd03567 92 PKYLGSRTSEKVKTKIIELLYSWTLELP 119 (139)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 245789999999999998776553
No 33
>PF12854 PPR_1: PPR repeat
Probab=36.92 E-value=48 Score=22.94 Aligned_cols=25 Identities=24% Similarity=0.441 Sum_probs=22.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHh
Q 006823 468 KTVSLLEEYFSIRILDEALQCVEEL 492 (630)
Q Consensus 468 k~~~il~EY~~~~D~~Ea~~~i~eL 492 (630)
....+|+-|...|+++||.+.++++
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 3578999999999999999999986
No 34
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=36.25 E-value=8.7e+02 Score=29.51 Aligned_cols=31 Identities=13% Similarity=0.078 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcc
Q 006823 517 VEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSL 548 (630)
Q Consensus 517 re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle~ 548 (630)
-+.++.|+ .|+..|.||.....+-|..+++.
T Consensus 664 pe~LaeLv-~lV~~g~IS~~~AK~VL~~m~~~ 694 (771)
T PRK14703 664 PAALARLV-ALVDAGRISTRIAKDVLAELAAS 694 (771)
T ss_pred HHHHHHHH-HHHHcCCccHHHHHHHHHHHHhc
Confidence 47888886 46667999999999888888754
No 35
>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=34.29 E-value=1.2e+02 Score=29.72 Aligned_cols=37 Identities=24% Similarity=0.263 Sum_probs=31.0
Q ss_pred CCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCC
Q 006823 495 PTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKN 531 (630)
Q Consensus 495 p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~ 531 (630)
|...+.++..++-.+.||=|+-|+.++..|..+....
T Consensus 2 ~~~~~~~~~~llrqa~EKiDrvR~~A~~~l~~ll~~~ 38 (193)
T PF12612_consen 2 PELVQQIIGGLLRQAAEKIDRVREVAGKCLQRLLHSQ 38 (193)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3456788899999999999999999999999988533
No 36
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=33.28 E-value=66 Score=22.12 Aligned_cols=25 Identities=12% Similarity=0.041 Sum_probs=21.1
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHh
Q 006823 522 QLLEFLLNKNVLTTRDIGTGCLLYG 546 (630)
Q Consensus 522 ~LL~~L~~~~~ls~~~~~~Gf~~vl 546 (630)
.-|..|+..|+||.+.|.+--..++
T Consensus 6 ~~L~~l~~~G~IseeEy~~~k~~ll 30 (31)
T PF09851_consen 6 EKLKELYDKGEISEEEYEQKKARLL 30 (31)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 4577899999999999998877765
No 37
>PF08876 DUF1836: Domain of unknown function (DUF1836); InterPro: IPR014975 This group of proteins are functionally uncharacterised.
Probab=33.14 E-value=30 Score=31.00 Aligned_cols=51 Identities=27% Similarity=0.129 Sum_probs=40.9
Q ss_pred CCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhccchhhhcCCCchhHH
Q 006823 512 KIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNN 562 (630)
Q Consensus 512 ~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle~l~Dl~iDvP~A~~~ 562 (630)
+|-=.|++++.|+.--.-++++|-+++.++|..+.....|-..+...||++
T Consensus 54 kKkYsr~qla~li~I~~lK~vlsi~dI~~ll~~~~~~~~~~~~~~~~~Y~~ 104 (105)
T PF08876_consen 54 KKKYSREQLAYLIVISILKQVLSIDDIKKLLDLQFNNYEDDEISLEDAYNY 104 (105)
T ss_pred cCccCHHHHHHHHHHHHHHccCCHHHHHHHHHHHHhcccccCCCHHHHHhc
Confidence 344568999998886666699999999999999999987777776666654
No 38
>PLN03077 Protein ECB2; Provisional
Probab=32.26 E-value=2.2e+02 Score=34.48 Aligned_cols=62 Identities=19% Similarity=0.206 Sum_probs=39.7
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCC
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLT 534 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls 534 (630)
...+|.-|...|++++|...++++..|.- +....+..++-+.. .-+.+..++..+...|+.+
T Consensus 326 ~n~Li~~y~k~g~~~~A~~vf~~m~~~d~---~s~n~li~~~~~~g-~~~~A~~lf~~M~~~g~~P 387 (857)
T PLN03077 326 CNSLIQMYLSLGSWGEAEKVFSRMETKDA---VSWTAMISGYEKNG-LPDKALETYALMEQDNVSP 387 (857)
T ss_pred HHHHHHHHHhcCCHHHHHHHHhhCCCCCe---eeHHHHHHHHHhCC-CHHHHHHHHHHHHHhCCCC
Confidence 46788888888888888888888876542 33344444444433 3456667777776655443
No 39
>COG5537 IRR1 Cohesin [Cell division and chromosome partitioning]
Probab=31.32 E-value=7.1e+02 Score=29.25 Aligned_cols=135 Identities=14% Similarity=0.093 Sum_probs=85.2
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHHHH
Q 006823 464 DLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCL 543 (630)
Q Consensus 464 el~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~ 543 (630)
.++..+..++.-+++..--..|++-+-| .|-.++++.+.--.+.-|-...+++.+|..-|+++...+..=-.
T Consensus 329 ~vRl~v~Kil~~L~s~~p~~d~ir~f~e--------RFk~rILE~~r~D~d~VRi~sik~l~~lr~lg~L~~SeIlIvss 400 (740)
T COG5537 329 GVRLLVSKILLFLCSRIPHTDAIRRFVE--------RFKDRILEFLRTDSDCVRICSIKSLCYLRILGVLSSSEILIVSS 400 (740)
T ss_pred HHHHHHHHHHHHHHhcCCcchHHHHHHH--------HHHHHHHHHHhhccchhhHHHHHHHHHHHHhcccchhHHHHHHH
Confidence 4556666666666554433333333222 23333444333233446778889999999999999999888877
Q ss_pred HHhccchhhhcCCCchhHHHHHHHHHHHHcCC---CCHHHHHHHHhhccchHH--HHHHHHHHHHHhh
Q 006823 544 LYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKS---LDFIVLKEVLKKVEDNMF--RRSIFTAAMKSIQ 606 (630)
Q Consensus 544 ~vle~l~Dl~iDvP~A~~~la~~iarai~~~~---l~~~~i~~~~~~~~~~~~--~~~~l~~~l~~l~ 606 (630)
-+++..+|--+-+-.+.+.++++.|+.|.+.+ +-...+..++.+.-..++ .-.++..+.+.++
T Consensus 401 cmlDi~pd~r~~~~E~v~~icK~~aevikEKipl~~k~n~lL~a~~qgse~~f~v~~~iFsr~~~llk 468 (740)
T COG5537 401 CMLDIIPDSRENIVESVESICKIDAEVIKEKIPLATKTNRLLEAMKQGSERYFVVCEEIFSRFVHLLK 468 (740)
T ss_pred HHhcCCCcchHHHHHHHHHHHHHHHHHHHhhcchhhhhhhHHHHHHhhhhccchhHHHHHHHHHHHHH
Confidence 78888888666677899999999999998442 222344444444444444 3445566655554
No 40
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=31.17 E-value=7.6e+02 Score=27.35 Aligned_cols=133 Identities=11% Similarity=0.085 Sum_probs=85.6
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCCh---HHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHH
Q 006823 463 ADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYH---PEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIG 539 (630)
Q Consensus 463 eel~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~---~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~ 539 (630)
+.+-++.+.-|-.|+.+|....|.--++-|---.++ .+||....+ ++..=|. +.....-=++++.
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 456678888999999999999887776654211111 122222222 2221122 2333345567777
Q ss_pred HHHHHHhccchhhhcCCCch--------hHHHHHHHHHHHHc---CCCCHHHHHHHHhhccchHHHHHHHHHHHHHhhcC
Q 006823 540 TGCLLYGSLLDDIGIDLPKA--------PNNFGEMVGKLVVA---KSLDFIVLKEVLKKVEDNMFRRSIFTAAMKSIQSS 608 (630)
Q Consensus 540 ~Gf~~vle~l~Dl~iDvP~A--------~~~la~~iarai~~---~~l~~~~i~~~~~~~~~~~~~~~~l~~~l~~l~~~ 608 (630)
.|+..|+-..+-+. |||.. +.|=-.|+..|+.. .+++..+|..+--...+.....+++.+..+.....
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 88888877777777 77754 33444566666655 67888888877777777788888888888777665
No 41
>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=30.52 E-value=61 Score=21.14 Aligned_cols=26 Identities=19% Similarity=0.276 Sum_probs=22.6
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCC
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRA 494 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~ 494 (630)
...+|.-|...++.++|...+.++..
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M~~ 28 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEMLE 28 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 46788999999999999999999854
No 42
>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=30.39 E-value=5.8e+02 Score=26.99 Aligned_cols=93 Identities=18% Similarity=0.153 Sum_probs=50.1
Q ss_pred CHHHHHHHHHHHHHHHhcCCCHHHHHHHH-HHhCCCCChHHHHHHHHHHHhc--CCCCChHHHHHHHHHHHhCCCCC--H
Q 006823 461 NLADLRKKTVSLLEEYFSIRILDEALQCV-EELRAPTYHPEVVKEAIALALE--KIPPCVEPVIQLLEFLLNKNVLT--T 535 (630)
Q Consensus 461 s~eel~kk~~~il~EY~~~~D~~Ea~~~i-~eL~~p~~~~~~V~~~I~~ale--~~~~~re~~~~LL~~L~~~~~ls--~ 535 (630)
..+.+.+.+...+..++..-+.......+ ..+-...++..++..++....+ .++..++.+.+++.....+..-+ .
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 34455555555555555544444444333 3333345566666666554443 34555677788877777643333 6
Q ss_pred HHHHHHHHHH-hccchhhh
Q 006823 536 RDIGTGCLLY-GSLLDDIG 553 (630)
Q Consensus 536 ~~~~~Gf~~v-le~l~Dl~ 553 (630)
+.+...|..- ...++++.
T Consensus 182 ~~l~~~i~~~l~~~l~~l~ 200 (367)
T PF04286_consen 182 DKLAEKIQDELDSLLEKLQ 200 (367)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 6666666655 44455565
No 43
>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=30.24 E-value=93 Score=30.28 Aligned_cols=57 Identities=21% Similarity=0.204 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCC----CChHHHHHHHHHHHhcCCC
Q 006823 458 TKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAP----TYHPEVVKEAIALALEKIP 514 (630)
Q Consensus 458 ~~~s~eel~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p----~~~~~~V~~~I~~ale~~~ 514 (630)
..+-+++++.....+-+-|+..||.++|+.|+...... ...-.+.-.+|..++...+
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 34567888888889999999999999999999986432 2233566666666666554
No 44
>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=29.91 E-value=4.4e+02 Score=24.98 Aligned_cols=31 Identities=19% Similarity=0.271 Sum_probs=25.5
Q ss_pred chhHHHHHHHHHHHHcCCCCHHHHHHHHhhc
Q 006823 558 KAPNNFGEMVGKLVVAKSLDFIVLKEVLKKV 588 (630)
Q Consensus 558 ~A~~~la~~iarai~~~~l~~~~i~~~~~~~ 588 (630)
..+..+..|++.++.-+.++...+-+++..+
T Consensus 94 ~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~l 124 (200)
T smart00543 94 QRRLGLVRFLGELYNFQVLTSKIILELLKEL 124 (200)
T ss_pred hhHHhHHHHHHHHHHcccCcHHHHHHHHHHH
Confidence 5567788999999999999988877777754
No 45
>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=28.28 E-value=82 Score=20.16 Aligned_cols=26 Identities=31% Similarity=0.530 Sum_probs=22.4
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCC
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRA 494 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~ 494 (630)
...+|+-|...++.++|...++++..
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHHhH
Confidence 35789999999999999999998753
No 46
>PF08149 BING4CT: BING4CT (NUC141) domain; InterPro: IPR012952 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This C-terminal domain is found in the BING4 family of nucleolar WD40 repeat proteins [].
Probab=28.04 E-value=60 Score=27.63 Aligned_cols=22 Identities=27% Similarity=0.599 Sum_probs=18.6
Q ss_pred ChHHHHHHHHHHHhhcCChhhH
Q 006823 46 SEKDRVLKTVKGILNKLTPEKF 67 (630)
Q Consensus 46 ~~~e~l~r~vk~iLNKLTpenf 67 (630)
+.+++-.+.|+++|+||-|+.+
T Consensus 55 t~kqRrE~EV~~LLeKippd~I 76 (80)
T PF08149_consen 55 TKKQRREREVRSLLEKIPPDMI 76 (80)
T ss_pred chhHHhHHHHHHHHHhCCccce
Confidence 4567888999999999999864
No 47
>PRK09498 sifA secreted effector protein SifA; Reviewed
Probab=26.88 E-value=1.2e+02 Score=31.99 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=32.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHh
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLN 529 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~ 529 (630)
+=.-|++||.+.--.||.+||.||--|. .+..||.+..++..|..
T Consensus 30 LWEKIKdFFcSThqaeA~~CI~eLchp~----------------~~~trE~i~~~F~~Lk~ 74 (336)
T PRK09498 30 LWEKIKDFFFSTGKAKADRCLHEMLFAD----------------RAPTRERLTEIFFELKE 74 (336)
T ss_pred HHHHHHHHhhcccHHHHHHHHHHHhCCC----------------CCCCHHHHHHHHHHHHH
Confidence 3455789999999999999999995442 23456666666666554
No 48
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=26.48 E-value=1.8e+02 Score=34.45 Aligned_cols=77 Identities=9% Similarity=0.201 Sum_probs=36.8
Q ss_pred ChhhHHHHHHHHHHHhhhhh-c--CCcchhhHHHHHHHHHHHhhC----CCCChHHHHHHHHHHHHHhCCCCCcccccCC
Q 006823 215 AEENVEAICQFFNTIGKQLD-E--NPKSRRVNDVYFSRLKELTTN----SQLVPRLRFMIHDVLDLRANNWVPRREEMKA 287 (630)
Q Consensus 215 ~ee~IE~lc~LL~tiG~~Ld-~--~~k~~~~md~~f~rl~~l~~~----~~ls~Rirfmi~dlidLR~n~W~~r~~~~~p 287 (630)
++++++.+.+.+...-..=. . ....+..++.|.-.++..... ..++..-|--|.+.++--. .|..... .
T Consensus 513 s~~~i~~~~~~~~~~~~~d~~~~~~~eakN~lEs~Iy~~r~~L~~~~~~~~~t~ee~~~l~~~l~~~~-~wL~~~~---~ 588 (653)
T PTZ00009 513 SKADIDRMVNEAEKYKAEDEANRERVEAKNGLENYCYSMKNTLQDEKVKGKLSDSDKATIEKAIDEAL-EWLEKNQ---L 588 (653)
T ss_pred cHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhccCCHHHHHHHHHHHHHHH-HHHhcCC---c
Confidence 45566666655543321100 0 001223456666667665532 3456665555656555543 6775322 2
Q ss_pred CcHHHHHH
Q 006823 288 KTITEIHS 295 (630)
Q Consensus 288 kti~ei~~ 295 (630)
.+++++.+
T Consensus 589 ~~~~~~~~ 596 (653)
T PTZ00009 589 AEKEEFEH 596 (653)
T ss_pred hhHHHHHH
Confidence 34455444
No 49
>PF13041 PPR_2: PPR repeat family
Probab=26.36 E-value=1.3e+02 Score=22.11 Aligned_cols=40 Identities=18% Similarity=0.277 Sum_probs=28.7
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCCChH-HHHHHHHHH
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRAPTYHP-EVVKEAIAL 508 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~-~~V~~~I~~ 508 (630)
...+|.-|...|+.++|...++++..-...| .+....+..
T Consensus 6 yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~ 46 (50)
T PF13041_consen 6 YNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILIN 46 (50)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 4678999999999999999999986544332 333444333
No 50
>PLN03077 Protein ECB2; Provisional
Probab=26.14 E-value=4.3e+02 Score=32.00 Aligned_cols=26 Identities=19% Similarity=0.198 Sum_probs=22.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCC
Q 006823 469 TVSLLEEYFSIRILDEALQCVEELRA 494 (630)
Q Consensus 469 ~~~il~EY~~~~D~~Ea~~~i~eL~~ 494 (630)
...+|.-|...|+.+||...++++..
T Consensus 256 ~n~li~~~~~~g~~~eAl~lf~~M~~ 281 (857)
T PLN03077 256 WNAMISGYFENGECLEGLELFFTMRE 281 (857)
T ss_pred hHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 57888999999999999999998743
No 51
>PRK14137 recX recombination regulator RecX; Provisional
Probab=25.52 E-value=6.8e+02 Score=24.89 Aligned_cols=102 Identities=11% Similarity=0.032 Sum_probs=60.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCH
Q 006823 456 PVTKLNLADLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTT 535 (630)
Q Consensus 456 ~~~~~s~eel~kk~~~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~ 535 (630)
....++.+|+..++....-.|++.++-.+....= .+ .++.-+-+.+-..|..|...|+|+-
T Consensus 29 ~~~~~~~~e~~~~~~~~Al~~Ls~R~rS~~ELr~--------------KL-----~~kg~~~e~Ie~vI~rL~e~gyLDD 89 (195)
T PRK14137 29 RRTPPTPDEAREALLAYAFRALAARAMTAAELRA--------------KL-----ERRSEDEALVTEVLERVQELGYQDD 89 (195)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHhcchhhHHHHHH--------------HH-----HhcCCCHHHHHHHHHHHHHcCCCCH
Confidence 3456899999999998888888887765442211 11 1122233555566667777777777
Q ss_pred HHHHHHHHHHhccchhhhcCCCchhHHHHHHHHHHHHcCCCCHHHHHHHHhhccc
Q 006823 536 RDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAKSLDFIVLKEVLKKVED 590 (630)
Q Consensus 536 ~~~~~Gf~~vle~l~Dl~iDvP~A~~~la~~iarai~~~~l~~~~i~~~~~~~~~ 590 (630)
..|...|.. --..-+ .-|-.-+...+|+...|..++..++.
T Consensus 90 ~rfAe~~~~----------~k~~Gp----~rI~~eL~qKGI~~~lI~~al~~~d~ 130 (195)
T PRK14137 90 AQVARAENS----------RRGVGA----LRVRQTLRRRGVEETLIEETLAARDP 130 (195)
T ss_pred HHHHHHHHH----------hcCchH----HHHHHHHHHcCCCHHHHHHHHHhcCc
Confidence 777765410 001111 13445555667777777777766543
No 52
>cd07347 harmonin_N_like N-terminal protein-binding module of harmonin and similar domains. This domain is found in harmonin, and similar proteins such as delphilin, and whirlin. These are postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold proteins. Harmonin and whirlin are organizers of the Usher protein network of the inner ear and the retina, delphilin is found at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain is found in either one or two copies. Harmonin contains a single copy, which is found at its N-terminus and binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network. Whirlin contains two copies of the harmonin_N_like domain; the first of these has been assayed for interaction with the cytoplasmic domain of cadherin 23 and no interaction could be detected.
Probab=25.49 E-value=1.5e+02 Score=25.22 Aligned_cols=38 Identities=24% Similarity=0.329 Sum_probs=29.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHh-CCCCCh
Q 006823 460 LNLADLRKKTVSLLEEYFSIRILDEALQCVEEL-RAPTYH 498 (630)
Q Consensus 460 ~s~eel~kk~~~il~EY~~~~D~~Ea~~~i~eL-~~p~~~ 498 (630)
+++.| +..+...|++|+.++++++.+..+.++ +.|..+
T Consensus 16 L~~~E-r~~~~~~L~~Y~~~~~Vd~LV~~L~~vLdtPaK~ 54 (78)
T cd07347 16 LTDAE-REQVTRALERYHQERNVDDLVRDLYLVLDTPAKL 54 (78)
T ss_pred CCHHH-HHHHHHHHHHHHhcCCHHHHHHHHHHHcCcHhHH
Confidence 45555 455677899999999999999999985 666654
No 53
>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....
Probab=25.29 E-value=4.7e+02 Score=23.58 Aligned_cols=95 Identities=14% Similarity=0.104 Sum_probs=58.5
Q ss_pred CCCCHHHHHHHHHHHHHHHhcCC--CHHHHHHHHHHhCCCCCh--HHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCC
Q 006823 458 TKLNLADLRKKTVSLLEEYFSIR--ILDEALQCVEELRAPTYH--PEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVL 533 (630)
Q Consensus 458 ~~~s~eel~kk~~~il~EY~~~~--D~~Ea~~~i~eL~~p~~~--~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~l 533 (630)
..-|.|||..+.. .||+.. |.=|+.+.+.+|..-+.. |.+|..++-.+ |.-.+-.++...|..+..+.--
T Consensus 4 ~~Et~eeF~ary~----~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAc--RRvND~a~AVR~lE~iK~K~~~ 77 (108)
T PF02284_consen 4 SEETDEEFDARYE----KYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRAC--RRVNDFALAVRILEGIKDKCGN 77 (108)
T ss_dssp ----HHHHHHHHH----HHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHH--HHTT-HHHHHHHHHHHHHHTTT
T ss_pred cccCHHHHHHHHH----HHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHH--HHhhhHHHHHHHHHHHHHHccC
Confidence 3457788866654 578754 555888888888654443 56777666544 3444667888888887764444
Q ss_pred CHHHHHHHHHHHhccchhhhcCCCc
Q 006823 534 TTRDIGTGCLLYGSLLDDIGIDLPK 558 (630)
Q Consensus 534 s~~~~~~Gf~~vle~l~Dl~iDvP~ 558 (630)
..+++..=++++--.+++|-|+.|.
T Consensus 78 ~~~~Y~~~lqElkPtl~ELGI~t~E 102 (108)
T PF02284_consen 78 KKEIYPYILQELKPTLEELGIPTPE 102 (108)
T ss_dssp -TTHHHHHHHHHHHHHHHHT---TT
T ss_pred hHHHHHHHHHHHhhHHHHhCCCCHH
Confidence 4447777788888888899888874
No 54
>COG1745 Predicted metal-binding protein [General function prediction only]
Probab=24.61 E-value=3.9e+02 Score=23.48 Aligned_cols=68 Identities=24% Similarity=0.303 Sum_probs=41.2
Q ss_pred CHHHHHHH--HHHHHHHHhcC-CCHHH-HHHHHHHhCC-CCChHH----------HHHHHHHHHhcCCCCChHHHHHHHH
Q 006823 461 NLADLRKK--TVSLLEEYFSI-RILDE-ALQCVEELRA-PTYHPE----------VVKEAIALALEKIPPCVEPVIQLLE 525 (630)
Q Consensus 461 s~eel~kk--~~~il~EY~~~-~D~~E-a~~~i~eL~~-p~~~~~----------~V~~~I~~ale~~~~~re~~~~LL~ 525 (630)
..||+-.- .--=++.||.. .++++ ......+|+. |...|. +...+|..+|-..+..-+.+++.|.
T Consensus 2 hKeELi~LH~~l~~vkky~e~~~~~~n~~fk~YdeLnI~P~HIHrsK~eHK~AIFlL~~~Ia~~ms~~~~~~~~~~~~l~ 81 (94)
T COG1745 2 HKEELIQLHQLLVYVKKYFENEYGIDNEEFKEYDELNISPVHIHRSKAEHKAAIFLLSGGIASAMSDEDPEAEELSKRLE 81 (94)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHcCCCchhhhhhHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHH
Confidence 34555432 22336777766 44444 7888889986 543221 5566677777656666677777776
Q ss_pred HHH
Q 006823 526 FLL 528 (630)
Q Consensus 526 ~L~ 528 (630)
.+.
T Consensus 82 ~~l 84 (94)
T COG1745 82 ELL 84 (94)
T ss_pred HHH
Confidence 653
No 55
>PF09733 VEFS-Box: VEFS-Box of polycomb protein; InterPro: IPR019135 The VEFS-Box is found in the the C-terminal region of the VRN2, EMF2, FIS2, and Su(z)12 polycomb proteins. This domain is characterised by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain []. In some proteins the VEFS-Box is associated with a zinc-finger domain located roughly 100 residues towards the N terminus. These proteins are part of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression [].
Probab=24.41 E-value=90 Score=29.42 Aligned_cols=30 Identities=7% Similarity=0.032 Sum_probs=26.5
Q ss_pred hhhhHHHHHHHHHhcCCCCHHHHHHHHHHH
Q 006823 176 RTLGNIRLIGELLKQKMVPEKIVHHIVQEL 205 (630)
Q Consensus 176 r~lGnirFIGELfk~~~l~e~I~~~ci~~L 205 (630)
.+...+.++..|+.+|+|+...|..|+..|
T Consensus 111 l~~~f~lHl~~L~d~glLd~~~i~~c~~~l 140 (140)
T PF09733_consen 111 LRREFLLHLINLWDFGLLDARTIDECMKIL 140 (140)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHhhC
Confidence 456778999999999999999999998764
No 56
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=24.16 E-value=1.9e+02 Score=25.29 Aligned_cols=74 Identities=11% Similarity=0.019 Sum_probs=47.7
Q ss_pred ChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhccchhhhcCCCchhHHHHHHHHHHHHc
Q 006823 497 YHPEVVKEAIALALEKIPPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVA 573 (630)
Q Consensus 497 ~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle~l~Dl~iDvP~A~~~la~~iarai~~ 573 (630)
|..+++.-++...=|...+-|..++.-|..+.+ +..+.+..=|..+++.|-.+.-|.=.--..-|+++.|.+.|
T Consensus 24 ~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k---~~~~~~l~~f~~IF~~L~kl~~D~d~~Vr~~a~~Ld~llkd 97 (97)
T PF12755_consen 24 YLDEILPPVLKCFDDQDSRVRYYACEALYNISK---VARGEILPYFNEIFDALCKLSADPDENVRSAAELLDRLLKD 97 (97)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhcC
Confidence 445566666654444555678888888888776 44566666777777777766666655555556667666543
No 57
>PF14837 INTS5_N: Integrator complex subunit 5 N-terminus
Probab=23.41 E-value=7.9e+02 Score=24.92 Aligned_cols=32 Identities=19% Similarity=0.071 Sum_probs=26.2
Q ss_pred CCCCCHHHHHHHHHHHhccchhhhcCCCchhH
Q 006823 530 KNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPN 561 (630)
Q Consensus 530 ~~~ls~~~~~~Gf~~vle~l~Dl~iDvP~A~~ 561 (630)
..--...++..++.++.+.|..+.-.-|+||.
T Consensus 72 ~~~~~~~~~~~ai~ei~~~L~~fv~~npkAWa 103 (213)
T PF14837_consen 72 KQQQDEADLDEAIQEIHDVLSRFVEANPKAWA 103 (213)
T ss_pred ccCCCCccHHHHHHHHHHHHHHHHhcCCcccH
Confidence 34456778888999999999999999999885
No 58
>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=23.23 E-value=6e+02 Score=23.48 Aligned_cols=32 Identities=16% Similarity=0.221 Sum_probs=25.3
Q ss_pred CChHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Q 006823 515 PCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYG 546 (630)
Q Consensus 515 ~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vl 546 (630)
+...+++.++..|...+++..+++..-++.+.
T Consensus 77 R~VRlvcvfl~sLir~~i~~~~~l~~evq~FC 108 (126)
T PF10155_consen 77 RLVRLVCVFLQSLIRNKIIDVEDLFIEVQAFC 108 (126)
T ss_pred chhhhHHHHHHHHHHcCCCchHHHHhhHHHHH
Confidence 44579999999999999999988766555443
No 59
>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=22.91 E-value=5.9e+02 Score=23.28 Aligned_cols=94 Identities=12% Similarity=0.150 Sum_probs=61.4
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhh
Q 006823 178 LGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT 255 (630)
Q Consensus 178 lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~e--e~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~ 255 (630)
...+..|+++.+.+-...+....+|++-|... .|.. -.+..|=.+++.||+.+...-.. ..++..|..+..
T Consensus 18 ~~~il~icd~I~~~~~~~k~a~raL~krl~~~---n~~vql~AL~lLd~~vkNcg~~f~~~i~s----~~fl~~l~~l~~ 90 (133)
T cd03561 18 WALNLELCDLINLKPNGPKEAARAIRKKIKYG---NPHVQLLALTLLELLVKNCGKPFHLQVAD----KEFLLELVKIAK 90 (133)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHhCChHHHHHHhh----HHHHHHHHHHhC
Confidence 46778899999888777666666666666642 1221 24556666677778876532111 245555666665
Q ss_pred CC-CCChHHHHHHHHHHHHHhCCC
Q 006823 256 NS-QLVPRLRFMIHDVLDLRANNW 278 (630)
Q Consensus 256 ~~-~ls~Rirfmi~dlidLR~n~W 278 (630)
++ ..+..++-.+..++.-.....
T Consensus 91 ~~~~~~~~Vk~kil~ll~~W~~~f 114 (133)
T cd03561 91 NSPKYDPKVREKALELILAWSESF 114 (133)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHh
Confidence 54 788999999999998765433
No 60
>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=22.80 E-value=6.3e+02 Score=23.60 Aligned_cols=109 Identities=16% Similarity=0.198 Sum_probs=68.1
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhh
Q 006823 178 LGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT 255 (630)
Q Consensus 178 lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~e--e~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~ 255 (630)
++.+.-|+.+.+.+-...+-...+|++-|... +|.. -.++.|=.+++.||..+...-.. ..+.+.|..+..
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 57888899999887666665555555555431 2222 35666677778889888743222 345566776665
Q ss_pred CCCCChHHHHHHHHHHHHHhCCCCCcccccCCCcHHHHHHHH
Q 006823 256 NSQLVPRLRFMIHDVLDLRANNWVPRREEMKAKTITEIHSEA 297 (630)
Q Consensus 256 ~~~ls~Rirfmi~dlidLR~n~W~~r~~~~~pkti~ei~~ea 297 (630)
+ +.+.+|+-.+..+|.-........ -+-.-+.+++++-
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 778999999999988776544321 1223355555544
No 61
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=22.59 E-value=7.6e+02 Score=24.47 Aligned_cols=78 Identities=19% Similarity=0.129 Sum_probs=46.0
Q ss_pred HHHHHHhcCCCHHHHHHHHHHhCCCCChHHHHHHHHHHHhcCC---CCChHHHHHHHHHHHhCCCCCHHHHHHHHHHHhc
Q 006823 471 SLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI---PPCVEPVIQLLEFLLNKNVLTTRDIGTGCLLYGS 547 (630)
Q Consensus 471 ~il~EY~~~~D~~Ea~~~i~eL~~p~~~~~~V~~~I~~ale~~---~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~vle 547 (630)
.+++.|. .+|.+++....+++..-.....-+.+-|...|.+. +-+|+-+..|+..+-. +..+.+.+..
T Consensus 32 ~~~~~~~-~~~~~~~~~~~~~I~~lE~eaD~i~~~i~~~L~~~fitP~dReDi~~L~~~lD~--------I~D~i~~~a~ 102 (216)
T TIGR00153 32 KSFELLK-SGNNEKDEELRKEIIEIEHEADEIKREIRLNLEKGAFLPNDRRDLLELAELLDE--------ILDSLEHAAM 102 (216)
T ss_pred HHHHHHH-hCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCcCcHHHHHHHHHHHHH--------HHHHHHHHHH
Confidence 3455565 56655555555555443444556666666677764 7889999998887744 4444444444
Q ss_pred cchhhhcCCC
Q 006823 548 LLDDIGIDLP 557 (630)
Q Consensus 548 ~l~Dl~iDvP 557 (630)
.+.=..++.|
T Consensus 103 ~l~l~~~~~~ 112 (216)
T TIGR00153 103 LYELRKFEFP 112 (216)
T ss_pred HHhcccCCCC
Confidence 4443344555
No 62
>COG1421 CRISPR system related protein [Defense mechanisms]
Probab=22.24 E-value=2.1e+02 Score=26.80 Aligned_cols=59 Identities=25% Similarity=0.271 Sum_probs=43.4
Q ss_pred CCCHHHHHHHHHHH-------hccchhhhcCCCchhHHHHHHHHHHHHcCCC-CHHHHHHHHhhccc
Q 006823 532 VLTTRDIGTGCLLY-------GSLLDDIGIDLPKAPNNFGEMVGKLVVAKSL-DFIVLKEVLKKVED 590 (630)
Q Consensus 532 ~ls~~~~~~Gf~~v-------le~l~Dl~iDvP~A~~~la~~iarai~~~~l-~~~~i~~~~~~~~~ 590 (630)
-+++.|+-+=+..+ .....+|.+|+|+..-.||.-++|.+..-.- -..+++.++.++.+
T Consensus 43 ~l~~~q~R~fy~~~~r~~~~~~~~~k~i~~~l~~m~~~lay~~gR~~~~~~e~lyevle~~idkid~ 109 (137)
T COG1421 43 NLTTTQLRKFYDYILRIDEENENSWKEIVLDLPKMKPQLAYAVGRDGKEALEGLYEVLEEMIDKIDD 109 (137)
T ss_pred cCcHHHHHHHHHHHHHHhHhccCcHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHhhh
Confidence 58888888877776 3456889999999999888888887765311 13567778888833
No 63
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=22.13 E-value=6.6e+02 Score=23.58 Aligned_cols=110 Identities=14% Similarity=0.206 Sum_probs=68.3
Q ss_pred hhHHHHHHHHHhcCCCCHHHHHHHHHHHhhcCCCCCCCh--hhHHHHHHHHHHHhhhhhcCCcchhhHHHHHHHHHHHhh
Q 006823 178 LGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAE--ENVEAICQFFNTIGKQLDENPKSRRVNDVYFSRLKELTT 255 (630)
Q Consensus 178 lGnirFIGELfk~~~l~e~I~~~ci~~LL~~~~~~~p~e--e~IE~lc~LL~tiG~~Ld~~~k~~~~md~~f~rl~~l~~ 255 (630)
.+.|.=|+.+.+.+-...+-...+|++=|... +|.. -.|..|=.+++.||..+...-.+ ..+.+.|..+..
T Consensus 18 w~~il~icD~I~~~~~~~k~a~ral~KRl~~~---n~~v~l~AL~LLe~~vkNCG~~fh~evas----k~Fl~eL~kl~~ 90 (144)
T cd03568 18 WGLILDVCDKVKSDENGAKDCLKAIMKRLNHK---DPNVQLRALTLLDACAENCGKRFHQEVAS----RDFTQELKKLIN 90 (144)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHHHHHCCHHHHHHHhh----HHHHHHHHHHhc
Confidence 46778888998887555555445555444431 1211 35666667777888887743222 345566777665
Q ss_pred CCCCChHHHHHHHHHHHHHhCCCCCcccccCCCcHHHHHHHHH
Q 006823 256 NSQLVPRLRFMIHDVLDLRANNWVPRREEMKAKTITEIHSEAE 298 (630)
Q Consensus 256 ~~~ls~Rirfmi~dlidLR~n~W~~r~~~~~pkti~ei~~ea~ 298 (630)
.+ .+..|+-.|..+|........ .+....-|.+++++-.
T Consensus 91 ~~-~~~~Vk~kil~li~~W~~~f~---~~~~l~~i~~~y~~L~ 129 (144)
T cd03568 91 DR-VHPTVKEKLREVVKQWADEFK---NDPSLSLMSDLYKKLK 129 (144)
T ss_pred cc-CCHHHHHHHHHHHHHHHHHhC---CCcccHHHHHHHHHHH
Confidence 54 788999999999987654443 1223445777776543
No 64
>PF13311 DUF4080: Protein of unknown function (DUF4080)
Probab=21.93 E-value=5e+02 Score=25.50 Aligned_cols=73 Identities=15% Similarity=0.246 Sum_probs=48.8
Q ss_pred CCCCCHHHHHH--HHHHHHHHHhcCCCHHHHHHHHHHh-CCCC-ChHHHHHHHHHHHhcCCCCChHHHHHHHHHHHh
Q 006823 457 VTKLNLADLRK--KTVSLLEEYFSIRILDEALQCVEEL-RAPT-YHPEVVKEAIALALEKIPPCVEPVIQLLEFLLN 529 (630)
Q Consensus 457 ~~~~s~eel~k--k~~~il~EY~~~~D~~Ea~~~i~eL-~~p~-~~~~~V~~~I~~ale~~~~~re~~~~LL~~L~~ 529 (630)
.+-+|-+|+.+ .+..+++-|+++|-....+..|-.. ..|. |...|-.-+-.....+....++.+..+|...+.
T Consensus 19 t~~Ls~~ei~~Lk~~e~~le~yyNSgrF~~tl~~l~~~~~spF~ff~~l~~~~~~~g~~~~~~s~~~l~~~L~~F~~ 95 (190)
T PF13311_consen 19 TKWLSFDEIQRLKRFEDMLEKYYNSGRFDYTLEYLLKEFGSPFDFFEALADYWEEQGYFKRSHSLEDLFEILYDFLK 95 (190)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCHHHHHHHHHHHHHHCCCcccCCCHHHHHHHHHHHHH
Confidence 45689999874 6899999999999999999998876 3332 234444444444444444455555555555554
No 65
>PF10884 DUF2683: Protein of unknown function (DUF2683); InterPro: IPR020271 This entry contains proteins with no known function.
Probab=21.61 E-value=2.5e+02 Score=23.90 Aligned_cols=44 Identities=11% Similarity=0.339 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHH-----HhCCCCChHHHHHHHHHHH
Q 006823 466 RKKTVSLLEEYFSIRILDEALQCVE-----ELRAPTYHPEVVKEAIALA 509 (630)
Q Consensus 466 ~kk~~~il~EY~~~~D~~Ea~~~i~-----eL~~p~~~~~~V~~~I~~a 509 (630)
.+++-.|++-=|+..|..+|+.-+- ++-.|++.|+||+++....
T Consensus 12 ~n~ilnIiKaky~lkdks~aId~~ieeye~~~lEpElkPEfVeki~~i~ 60 (80)
T PF10884_consen 12 TNQILNIIKAKYNLKDKSAAIDKIIEEYEEKILEPELKPEFVEKIKKIM 60 (80)
T ss_pred chHHHHHHHHHhCCchHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHH
Confidence 3567889999999999999987554 3567899999999998754
No 66
>PF05030 SSXT: SSXT protein (N-terminal region); InterPro: IPR007726 SSXT (also known as SYT or SS18) appears to function synergistically with RBM14 as a transcriptional coactivator []. The SSXT protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteristic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2 []. This entry also includes SS18-like protein 1, a transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons [],[].
Probab=21.31 E-value=2.5e+02 Score=23.01 Aligned_cols=36 Identities=17% Similarity=0.205 Sum_probs=29.5
Q ss_pred CCCCCHHHHHHHHHH------HHHHHhcCCCHHHHHHHHHHh
Q 006823 457 VTKLNLADLRKKTVS------LLEEYFSIRILDEALQCVEEL 492 (630)
Q Consensus 457 ~~~~s~eel~kk~~~------il~EY~~~~D~~Ea~~~i~eL 492 (630)
.+.++.+.++++++. .|-||-+.|...|++.+.+-|
T Consensus 3 ~~~~~~~~IQk~LdEN~~LI~~I~e~qn~Gr~~Ec~qyq~~L 44 (65)
T PF05030_consen 3 KAQITTEQIQKMLDENDQLIQCIQEYQNKGRAQECVQYQQIL 44 (65)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 455778888888764 689999999999999887776
No 67
>PF12145 Med12-LCEWAV: Eukaryotic Mediator 12 subunit domain; InterPro: IPR021990 This domain is found in eukaryotes, and is typically between 325 and 354 amino acids in length. The function of this particular region of the Mediator subunit Med12 is not known, but there is a conserved sequence motif: LCEWAV, from which the name derives.
Probab=21.11 E-value=3.4e+02 Score=30.89 Aligned_cols=154 Identities=19% Similarity=0.272 Sum_probs=82.1
Q ss_pred ccCCcccccCCCChHHHHHHHH---HHHhhcCC------hhhHHHHHHHHHHccC--CChHHH--------------HHH
Q 006823 34 AEVPWSARRGNLSEKDRVLKTV---KGILNKLT------PEKFDVLKGQLIDSGI--TTPDIL--------------KGV 88 (630)
Q Consensus 34 ~~~~w~~~~~~~~~~e~l~r~v---k~iLNKLT------penfd~l~~ql~~l~i--~~~e~L--------------~~v 88 (630)
+|++|+...-..+..-....+| -.+|.+.. +..+|.|...|+...- +..+.+ ..+
T Consensus 160 aE~rWs~dk~q~s~~g~~i~rVL~~Le~LD~h~f~r~d~~nsld~LY~kIF~~~~~~~~~~~~~~~~~~~~~~~~~d~ai 239 (480)
T PF12145_consen 160 AESRWSFDKCQESTAGFTITRVLHTLEILDRHCFDRVDSPNSLDTLYNKIFPSIQKKDSEEELQQQPKFSEYEPPQDDAI 239 (480)
T ss_pred HHcccCHHhhhhcccchHHHHHHHHHHHhcccceeeccCCCcHHHHHHhcCCCCccccccchhcccccccccccccchHH
Confidence 3899985321111111222333 34555544 4467889999887432 222333 568
Q ss_pred HHHHHHHHhcCCCchHHH----HHHHHHHhhhCCCCC------CCCCC---------CchhhHHHHHHHHHHHHHhchhc
Q 006823 89 IELIFDKAVLEPTFCPMY----ALLCSDLNEKLPPFP------SDEPG---------GKDITFKRILLNHCQEAFEGADN 149 (630)
Q Consensus 89 i~lIfeKAi~Ep~fs~~Y----A~LC~~L~~~lp~~~------~~e~~---------~~~~~Fr~~LL~~cQ~eFe~~~~ 149 (630)
|.++.+=||...-+-.-= |+|-.+-...+-... .++++ .....|-.+|++ |-....
T Consensus 240 V~lLCEWAVs~~R~G~HRA~vVA~LLekrq~~~~~~~~~~s~~~d~k~s~~s~~~~~~~~PvfQ~~L~~-----FLD~~A 314 (480)
T PF12145_consen 240 VRLLCEWAVSPKRWGEHRAMVVAKLLEKRQNEIEAERCNESEVLDEKDSISSGSLSISSLPVFQNLLMK-----FLDTQA 314 (480)
T ss_pred HHhhhhcccccccccchHHHHHHHHHHHHHHHhhhhcccccccCcccccccccccCCCcchHHHHHHHH-----HhcccC
Confidence 999999999876554333 344433222221110 12221 122459999988 866521
Q ss_pred hHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhcCCCCHHHHHHHHHHHhhc
Q 006823 150 TRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLEN 208 (630)
Q Consensus 150 ~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~~~l~e~I~~~ci~~LL~~ 208 (630)
..++++..+. .|..+...|.+.+||..+++.+-.. -+..|+-.
T Consensus 315 -----P~l~~~~s~~--------~~~eF~nLv~LF~ELIr~dVFSHd~---YmcTLISR 357 (480)
T PF12145_consen 315 -----PVLDDPSSEQ--------EKQEFANLVLLFSELIRHDVFSHDA---YMCTLISR 357 (480)
T ss_pred -----CCCCCCcccc--------ccHHHHHHHHHHHHHHhccccchHH---HHHHHhhh
Confidence 1122111111 1234668999999999999998654 23355543
No 68
>PF11867 DUF3387: Domain of unknown function (DUF3387); InterPro: IPR021810 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is typically between 255 to 340 amino acids in length. This domain is found associated with PF04851 from PFAM, PF04313 from PFAM.
Probab=21.00 E-value=5.9e+02 Score=27.32 Aligned_cols=89 Identities=10% Similarity=0.210 Sum_probs=50.3
Q ss_pred CCHHHHHHHHHHHHHHHhcCCCHHH------------------HHHHHHHhCCCCChHHHHHHHHHHHhc----CCCCCh
Q 006823 460 LNLADLRKKTVSLLEEYFSIRILDE------------------ALQCVEELRAPTYHPEVVKEAIALALE----KIPPCV 517 (630)
Q Consensus 460 ~s~eel~kk~~~il~EY~~~~D~~E------------------a~~~i~eL~~p~~~~~~V~~~I~~ale----~~~~~r 517 (630)
++.+++..++..+|+++..+..+.+ ...-|+++..+....+.++++|..-+. .++.-.
T Consensus 117 ~~~~~~~~~i~~Lid~~I~s~~v~~i~~~~~~~~~disild~eFl~~v~~~~~k~~~~e~L~~~l~~~I~~~~~~N~~~~ 196 (335)
T PF11867_consen 117 PDIKEVEEKIRQLIDESIASEGVVDIFEAAGLKKPDISILDDEFLEEVKKMKSKNLKAELLEKLLRDEIKVRMKENPVRY 196 (335)
T ss_pred CCHHHHHHHHHHHHHHHHhcccchhHHhhcCCCCCChhhcCHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence 6788999999999999987765543 333344444444334455555443332 222222
Q ss_pred HHHHHHHHHHHh---CCCCCHHHHHHHHHHHhcc
Q 006823 518 EPVIQLLEFLLN---KNVLTTRDIGTGCLLYGSL 548 (630)
Q Consensus 518 e~~~~LL~~L~~---~~~ls~~~~~~Gf~~vle~ 548 (630)
...+..|..++. .+.++.+++.+-+..+...
T Consensus 197 ~~fsErLe~iI~~Y~~~~i~~~e~~~eLi~la~e 230 (335)
T PF11867_consen 197 KKFSERLEEIIEKYNNRSISSEEVIEELIKLAKE 230 (335)
T ss_pred HHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHH
Confidence 455555555443 5666666666555555443
No 69
>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=20.54 E-value=1.6e+03 Score=27.48 Aligned_cols=132 Identities=17% Similarity=0.254 Sum_probs=76.9
Q ss_pred HHHHHHhhcCChhhHHHHHHHHHHcc-----CCChHHHHHHHHHHH----HHHhcC-CCchHHHHHHHHHHhhhCCCCCC
Q 006823 53 KTVKGILNKLTPEKFDVLKGQLIDSG-----ITTPDILKGVIELIF----DKAVLE-PTFCPMYALLCSDLNEKLPPFPS 122 (630)
Q Consensus 53 r~vk~iLNKLTpenfd~l~~ql~~l~-----i~~~e~L~~vi~lIf----eKAi~E-p~fs~~YA~LC~~L~~~lp~~~~ 122 (630)
..+..+|...+++....++..|..++ -.|.+.|..+...++ .-|... +..-.+.-.||..|+.....++.
T Consensus 429 eel~~lL~~~~~~~~~~iI~RIrk~~hpsLa~~NK~Kl~~f~~vLlq~i~~la~~~~~~~~~~ld~L~~~L~~Laq~~p~ 508 (840)
T PF04147_consen 429 EELLELLDGYSPEDQPTIIQRIRKCYHPSLAEGNKEKLQVFFGVLLQHILYLASQDSPPPFEVLDSLIPHLYDLAQKYPE 508 (840)
T ss_pred HHHHHHHhcCCHHHHhHHHHHHHHhCCCCCCcchHHHHHHHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34568888999999999999999854 345666655444444 344444 55566678888887765332221
Q ss_pred CCCCCchhhHHHHHHHHHHHHHhchhchHHHHhhcCChHHHHHHhhHHHHHHhhhhhHHHHHHHHHhc-----CCCCHHH
Q 006823 123 DEPGGKDITFKRILLNHCQEAFEGADNTRAEIRQMTAPEQEMERMDQERLVKLRTLGNIRLIGELLKQ-----KMVPEKI 197 (630)
Q Consensus 123 ~e~~~~~~~Fr~~LL~~cQ~eFe~~~~~~~e~~~~~~~e~e~e~~d~e~~~K~r~lGnirFIGELfk~-----~~l~e~I 197 (630)
.-...||.. |..+|..|....-... ..+-| ....|-..+.||-||-- -|+|..+
T Consensus 509 ----~~a~~~r~~-L~~~~~~~~~~~l~~~---~~~~P-------------~l~~Lvllklv~~lFPTSD~~HpVVTPal 567 (840)
T PF04147_consen 509 ----EAAECFREV-LKEMQKRFRKGALKPK---ERSWP-------------SLSDLVLLKLVGTLFPTSDFRHPVVTPAL 567 (840)
T ss_pred ----HHHHHHHHH-HHHHHHHHhhhccccc---CCCCC-------------ChhHHHHHHHHHHhcCcccccCcchhHHH
Confidence 112345544 4567777765310000 00000 11457788899999864 4777777
Q ss_pred HHHHHHHHhh
Q 006823 198 VHHIVQELLE 207 (630)
Q Consensus 198 ~~~ci~~LL~ 207 (630)
++-| .+|.
T Consensus 568 llm~--~~L~ 575 (840)
T PF04147_consen 568 LLMS--EYLS 575 (840)
T ss_pred HHHH--HHHh
Confidence 6643 4444
Done!