Query 016782
Match_columns 383
No_of_seqs 132 out of 529
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 02:46:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016782.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016782hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4282 Transcription factor G 99.9 1.2E-25 2.7E-30 219.1 14.7 272 78-371 54-337 (345)
2 PF13837 Myb_DNA-bind_4: Myb/S 99.9 5.8E-22 1.3E-26 157.1 7.7 85 79-164 2-90 (90)
3 PF13873 Myb_DNA-bind_5: Myb/S 98.5 5.8E-07 1.3E-11 70.6 8.1 67 77-143 1-75 (78)
4 smart00595 MADF subfamily of S 98.3 6.1E-07 1.3E-11 71.5 4.0 71 89-164 2-84 (89)
5 PF12776 Myb_DNA-bind_3: Myb/S 98.2 7.7E-06 1.7E-10 65.8 7.8 71 80-150 1-75 (96)
6 PF10545 MADF_DNA_bdg: Alcohol 97.9 7.5E-06 1.6E-10 63.4 3.5 71 89-162 1-83 (85)
7 PF00249 Myb_DNA-binding: Myb- 97.6 0.00013 2.7E-09 53.0 5.1 47 79-137 2-48 (48)
8 PF13921 Myb_DNA-bind_6: Myb-l 97.4 0.00018 4E-09 53.8 4.1 43 81-137 1-44 (60)
9 smart00717 SANT SANT SWI3, AD 97.4 0.00031 6.6E-09 48.4 4.4 47 79-138 2-48 (49)
10 cd00167 SANT 'SWI3, ADA2, N-Co 97.2 0.0005 1.1E-08 46.8 3.9 45 80-137 1-45 (45)
11 PLN03212 Transcription repress 94.8 0.052 1.1E-06 53.1 5.7 49 78-138 25-73 (249)
12 PLN03091 hypothetical protein; 93.7 0.11 2.3E-06 54.7 5.4 49 75-135 11-59 (459)
13 PLN03091 hypothetical protein; 93.0 0.23 5E-06 52.3 6.6 57 73-143 62-118 (459)
14 PLN03212 Transcription repress 91.6 0.42 9E-06 47.0 6.1 56 73-142 73-128 (249)
15 PF04504 DUF573: Protein of un 81.7 8.9 0.00019 32.4 7.8 65 79-146 5-71 (98)
16 KOG0051 RNA polymerase I termi 81.7 2.3 5.1E-05 46.5 5.3 68 76-147 434-517 (607)
17 KOG1279 Chromatin remodeling f 81.2 1.8 3.9E-05 46.4 4.2 48 78-139 253-300 (506)
18 COG5259 RSC8 RSC chromatin rem 76.2 4.2 9.1E-05 43.5 5.1 49 77-139 278-326 (531)
19 TIGR02894 DNA_bind_RsfA transc 75.8 7.2 0.00016 36.3 5.9 60 76-143 2-62 (161)
20 PRK13923 putative spore coat p 73.7 11 0.00023 35.4 6.5 61 75-143 2-63 (170)
21 KOG0049 Transcription factor, 67.8 12 0.00027 41.8 6.4 57 73-141 248-304 (939)
22 KOG0048 Transcription factor, 67.8 5.3 0.00012 38.1 3.3 49 78-138 9-57 (238)
23 cd06398 PB1_Joka2 The PB1 doma 53.9 22 0.00048 29.8 4.2 33 264-296 2-41 (91)
24 KOG0860 Synaptobrevin/VAMP-lik 49.7 17 0.00038 32.3 3.1 62 78-139 30-95 (116)
25 PF03353 Lin-8: Ras-mediated v 46.3 42 0.00091 33.2 5.6 64 79-142 18-83 (313)
26 PRK12354 carbamate kinase; Rev 41.2 16 0.00035 37.0 1.8 38 331-368 116-154 (307)
27 KOG4468 Polycomb-group transcr 40.8 46 0.001 37.1 5.2 82 57-148 61-148 (782)
28 PF00435 Spectrin: Spectrin re 37.8 1.3E+02 0.0029 22.8 6.2 63 82-145 32-94 (105)
29 KOG0048 Transcription factor, 36.5 1.1E+02 0.0023 29.4 6.4 58 73-144 57-115 (238)
30 PF09608 Alph_Pro_TM: Putative 36.3 28 0.0006 33.9 2.5 47 280-326 120-176 (236)
31 cd01812 BAG1_N Ubiquitin-like 34.4 47 0.001 24.9 3.1 56 265-324 3-60 (71)
32 TIGR01557 myb_SHAQKYF myb-like 34.2 88 0.0019 24.1 4.5 44 77-132 2-49 (57)
33 PRK09767 hypothetical protein; 34.1 35 0.00077 29.9 2.6 43 313-359 37-89 (117)
34 PF00046 Homeobox: Homeobox do 29.3 2.2E+02 0.0048 20.5 8.3 54 78-142 4-57 (57)
35 PF08994 T4_Gp59_C: T4 gene Gp 27.4 1.2E+02 0.0026 26.5 4.7 56 84-140 45-102 (103)
36 PF07495 Y_Y_Y: Y_Y_Y domain; 26.0 40 0.00086 25.0 1.3 13 316-328 35-47 (66)
37 TIGR01869 casC_Cse4 CRISPR sys 25.3 56 0.0012 33.5 2.7 37 262-301 22-68 (325)
38 cd05992 PB1 The PB1 domain is 25.3 1.4E+02 0.003 22.9 4.4 33 264-296 2-37 (81)
39 smart00666 PB1 PB1 domain. Pho 23.9 1.6E+02 0.0034 22.8 4.5 32 264-295 3-36 (81)
40 COG2001 Uncharacterized protei 23.7 42 0.00091 30.8 1.3 29 317-354 1-30 (146)
41 PRK12454 carbamate kinase-like 23.2 51 0.0011 33.5 1.9 29 339-367 134-163 (313)
42 PRK12686 carbamate kinase; Rev 23.2 50 0.0011 33.5 1.8 68 284-367 89-161 (312)
43 PHA02291 hypothetical protein 21.8 46 0.001 29.7 1.1 30 319-348 57-101 (132)
44 TIGR02870 spore_II_D stage II 21.7 58 0.0013 33.3 2.0 35 259-304 254-288 (338)
45 PRK09411 carbamate kinase; Rev 21.2 58 0.0013 33.0 1.8 29 339-367 126-154 (297)
46 cd04235 AAK_CK AAK_CK: Carbama 20.6 66 0.0014 32.6 2.1 27 339-365 130-157 (308)
47 PLN00020 ribulose bisphosphate 20.0 35 0.00076 36.1 0.0 64 106-169 161-229 (413)
No 1
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=99.93 E-value=1.2e-25 Score=219.09 Aligned_cols=272 Identities=22% Similarity=0.319 Sum_probs=207.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccCCCC-CCCCCc
Q 016782 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQDRGS-GSAKMS 156 (383)
Q Consensus 78 ~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKiKd~nkgs-Gskkwp 156 (383)
...|+.+||++||.+|++++..|..++.|.++|++||++|.+.||.||+.||+.||+||+++||+.|....+. +...|+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~~~~~~~s~~~ 133 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKKEGSGEGSSWK 133 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcccCCCCCCccch
Confidence 6899999999999999999999999999999999999999999999999999999999999999999987644 457899
Q ss_pred ChHHHHHHHc-cccccc----c---ccccccccccccccccccccCCCCCCCCCCCCCcccCCCC-CcccccccCCCCCc
Q 016782 157 YYKEIDEILK-ERSKNA----Q---YKATSVANSANKVDTFMQFSDKGFDDTSISFGPVEATGRP-TLNLERRLDHDGHP 227 (383)
Q Consensus 157 YFdEMDeILG-~rp~~~----s---~~sP~~~aSssK~d~~~q~~d~g~edtsi~f~pvea~gr~-~ln~E~~lD~d~~~ 227 (383)
||.+||.++. .++... . ...|.....+++ .+|...+.+.. ..+.-.+.+..+ ++|.+-....+..+
T Consensus 134 ff~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~~~~~~~~~ 208 (345)
T KOG4282|consen 134 FFSELEALLITFKARPRSDEVGPGNASAPLTLSVSSE----PQFSSNPTELQ-FDGSSLEDSSQPSGLNEDNSNSSSPEP 208 (345)
T ss_pred HHHHHHHHHhccCCCCCCCCCCcccccCccccCCCCC----CCCCCCccccc-cCCCcCCCCCcccccCccccccCCCCC
Confidence 9999999997 222111 0 111222111121 44443333332 222323444444 45444444455566
Q ss_pred cccchhhHHHhcCCCCCCCCCCCCCCCCCCCccCceEEEEeecccceeecccCChHHHHHHHHHhhcccccceeeccccc
Q 016782 228 LAITTADAVAAAGVPPWNWRDPPPGNGGEGQSFGGKVISVKCGDYTRRIGIDGTPDAIKEAIKSAFGIRTKRAFWLEDED 307 (383)
Q Consensus 228 l~i~~~d~vaa~g~~p~~~~~~~~~~g~~~~~~~g~~~~~~~~~~t~r~g~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~ 307 (383)
.+...++.++ .+++++++ ++.++. +.+.+.++.+++|..+.+++.++..++...+-..|++.-.
T Consensus 209 ~~~~~~~~~~----~s~~~~~s-~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~ 272 (345)
T KOG4282|consen 209 VAGSLSNDTS----SSSSPDDS-ADSEGG-----------KSSSRKRRVRKDGSKEGIEELMREVARSQERLDEVLERVE 272 (345)
T ss_pred CCcchhhccc----cccchhcc-cccccC-----------CCCCCCccccccccchhHHHHhhhhhhhHHHHHHHHHHHh
Confidence 5543333333 78999999 554443 5678889999999999999999999999999999999998
Q ss_pred hhhhhcccCCCCcceeEeecC--CCCccccccceecchhhHHHHHHhhccccceeccCcccccCcc
Q 016782 308 QIVRCIDRDMPVGNYTLHLDE--DHISVHTEDKTFYTEEDYREFLARHGWTCLREFDGYRNVDNMD 371 (383)
Q Consensus 308 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 371 (383)
+ .+.+.|-++...+....-+ ..+.++.+++.+.++.+++..++.+++++-.-..--.+..+.+
T Consensus 273 ~-~~~~~~~~~~e~~r~~~~~r~ke~e~~~~~~~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~ 337 (345)
T KOG4282|consen 273 E-KKEQERMSEEEKWRMEEIERNKELELARQERIQETQLEIRSIKAIQASRRGSLIDPAQNTLTRS 337 (345)
T ss_pred c-cchHhhhhHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHhccccCCcCcccccCCCC
Confidence 8 8999999999988887776 8899999999999999999999999999876655444444433
No 2
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=99.86 E-value=5.8e-22 Score=157.15 Aligned_cols=85 Identities=39% Similarity=0.896 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHHHH--HHHhhcc--cCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccCCCCCCCC
Q 016782 79 ETWVQDETRILIAFRRE--MDGLFNT--SKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQDRGSGSAK 154 (383)
Q Consensus 79 ~~WTdeETkaLI~Lw~E--~e~~F~s--skrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKiKd~nkgsGskk 154 (383)
.+||++||.+||++|.+ ++..|.. ..++..+|+.||..|+++||.||+.||+.||+||++.|+++++...+.| ..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~~~~~~-~~ 80 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDRNKKSG-SS 80 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSSSS-----S
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhcCCCCC-Cc
Confidence 48999999999999999 5667864 4577789999999999999999999999999999999999999887666 49
Q ss_pred CcChHHHHHH
Q 016782 155 MSYYKEIDEI 164 (383)
Q Consensus 155 wpYFdEMDeI 164 (383)
|+||++||+|
T Consensus 81 w~~f~~md~i 90 (90)
T PF13837_consen 81 WPYFDEMDEI 90 (90)
T ss_dssp ---TT-----
T ss_pred CcCHHHHhcC
Confidence 9999999986
No 3
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=98.50 E-value=5.8e-07 Score=70.58 Aligned_cols=67 Identities=25% Similarity=0.510 Sum_probs=55.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcc-------cCCchHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHHHHHh
Q 016782 77 RAETWVQDETRILIAFRREMDGLFNT-------SKSNKHLWEQISAKMREKGF-DRSPTMCTDKWRNLLKEFKKT 143 (383)
Q Consensus 77 R~~~WTdeETkaLI~Lw~E~e~~F~s-------skrnkkVWEeIS~kM~ekGY-~RTakQCr~KWKNLKK~YKKi 143 (383)
|..+||.+|...||++...+-..+.+ ...+...|++|+..|...|. .||+.||+.||+||+..=|+.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 67899999999999998886544433 12467899999999999877 799999999999999876664
No 4
>smart00595 MADF subfamily of SANT domain.
Probab=98.30 E-value=6.1e-07 Score=71.51 Aligned_cols=71 Identities=21% Similarity=0.528 Sum_probs=52.2
Q ss_pred HHHHHHHHH-------HhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccC--C-CCC--CCCCc
Q 016782 89 LIAFRREMD-------GLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQD--R-GSG--SAKMS 156 (383)
Q Consensus 89 LI~Lw~E~e-------~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKiKd~n--k-gsG--skkwp 156 (383)
||++++..- ..+.....+...|++|+..|.. |..+|+.||+||+..|++..... . ..| ..+|.
T Consensus 2 LI~~v~~~p~Lwd~~~~~y~~~~~r~~aW~~Ia~~l~~-----~~~~~~~kw~~LR~~y~~e~~r~~~~~~~~~~~~~w~ 76 (89)
T smart00595 2 LIELVRERPCLWDRRHPDYRNKEEKRKAWEEIAEELGL-----SVEECKKRWKNLRDRYRRELKRLQNGKSGGGKKSKWE 76 (89)
T ss_pred hHHHHHhCccccCCCChhhcChHHHHHHHHHHHHHHCc-----CHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCch
Confidence 677777632 2333334567899999999975 99999999999999999985432 1 122 47899
Q ss_pred ChHHHHHH
Q 016782 157 YYKEIDEI 164 (383)
Q Consensus 157 YFdEMDeI 164 (383)
||++|.=|
T Consensus 77 ~~~~m~FL 84 (89)
T smart00595 77 YFDRLSFL 84 (89)
T ss_pred hhHhhhhH
Confidence 99999644
No 5
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=98.18 E-value=7.7e-06 Score=65.76 Aligned_cols=71 Identities=23% Similarity=0.426 Sum_probs=58.4
Q ss_pred CCCHHHHHHHHHHHHHHHHh-hc--ccCCchHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHhcccCCCC
Q 016782 80 TWVQDETRILIAFRREMDGL-FN--TSKSNKHLWEQISAKMRE-KGFDRSPTMCTDKWRNLLKEFKKTKHQDRGS 150 (383)
Q Consensus 80 ~WTdeETkaLI~Lw~E~e~~-F~--sskrnkkVWEeIS~kM~e-kGY~RTakQCr~KWKNLKK~YKKiKd~nkgs 150 (383)
+||++++..||++..+.... .. .+.-++..|+.|+.+|.+ .|...+..||+.||+.||+.|+.++.-...+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~~~l~~~s 75 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIWKELRNHS 75 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 69999999999999874332 22 344678999999999987 4888999999999999999999998765433
No 6
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=97.94 E-value=7.5e-06 Score=63.36 Aligned_cols=71 Identities=20% Similarity=0.495 Sum_probs=51.0
Q ss_pred HHHHHHHHH-------HhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccCC----CC-CCCCCc
Q 016782 89 LIAFRREMD-------GLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQDR----GS-GSAKMS 156 (383)
Q Consensus 89 LI~Lw~E~e-------~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKiKd~nk----gs-Gskkwp 156 (383)
||++++... ..+.....+...|++|+..| |...++.+|+.+|++|+..|++.+.... +. -...|.
T Consensus 1 LI~~v~~~p~Lwd~~~~~y~~~~~r~~aw~~Ia~~l---~~~~~~~~~~~~w~~Lr~~y~~~~~~~~~~~~~~~~~~~~~ 77 (85)
T PF10545_consen 1 LIELVKKHPCLWDPSHPDYKNRQLREEAWQEIAREL---GKEFSVDDCKKRWKNLRDRYRRELKKIKSSGGSEEYVPTWS 77 (85)
T ss_pred CHHHHhhCHHhhCCCCcccCCHHHHHHHHHHHHHHH---ccchhHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCCccH
Confidence 456665532 23333335678999999999 4557799999999999999999976543 11 135799
Q ss_pred ChHHHH
Q 016782 157 YYKEID 162 (383)
Q Consensus 157 YFdEMD 162 (383)
||+.|.
T Consensus 78 ~~~~l~ 83 (85)
T PF10545_consen 78 YYEELS 83 (85)
T ss_pred HHHHCc
Confidence 999874
No 7
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=97.60 E-value=0.00013 Score=52.97 Aligned_cols=47 Identities=23% Similarity=0.555 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 016782 79 ETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL 137 (383)
Q Consensus 79 ~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLK 137 (383)
..||.+|...|+++...+-.. -|..||..|. -.||+.||+.+|.+++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~---------~W~~Ia~~~~---~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD---------NWKKIAKRMP---GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT---------HHHHHHHHHS---SSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCc---------HHHHHHHHcC---CCCCHHHHHHHHHhhC
Confidence 479999999999998864222 8999999988 4699999999999874
No 8
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=97.43 E-value=0.00018 Score=53.76 Aligned_cols=43 Identities=28% Similarity=0.871 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HH
Q 016782 81 WVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRN-LL 137 (383)
Q Consensus 81 WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKN-LK 137 (383)
||.+|...|+.++..+.. -|..||..|. +||+.||+.||.+ |.
T Consensus 1 WT~eEd~~L~~~~~~~g~----------~W~~Ia~~l~----~Rt~~~~~~r~~~~l~ 44 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----------DWKKIAEHLG----NRTPKQCRNRWRNHLR 44 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----------HHHHHHHST----TS-HHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHHCc----------CHHHHHHHHC----cCCHHHHHHHHHHHCc
Confidence 999999999999987421 4999999974 8999999999999 63
No 9
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.37 E-value=0.00031 Score=48.38 Aligned_cols=47 Identities=30% Similarity=0.796 Sum_probs=40.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 016782 79 ETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK 138 (383)
Q Consensus 79 ~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK 138 (383)
..||.+|...|+.+...+-. .-|..||..|. .||+.+|+.+|.++.+
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~---------~~w~~Ia~~~~----~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK---------NNWEKIAKELP----GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc---------CCHHHHHHHcC----CCCHHHHHHHHHHHcC
Confidence 47999999999999886432 45999999986 7999999999999864
No 10
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=97.20 E-value=0.0005 Score=46.78 Aligned_cols=45 Identities=31% Similarity=0.855 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 016782 80 TWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL 137 (383)
Q Consensus 80 ~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLK 137 (383)
.||.+|...|+.+...+-. ..|..|+..|.. ||+.||+.+|.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~---------~~w~~Ia~~~~~----rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK---------NNWEKIAKELPG----RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc---------CCHHHHHhHcCC----CCHHHHHHHHHHhC
Confidence 4999999999999886522 459999999863 99999999998873
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=94.85 E-value=0.052 Score=53.13 Aligned_cols=49 Identities=24% Similarity=0.637 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 016782 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK 138 (383)
Q Consensus 78 ~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK 138 (383)
...||.+|-..|+++...+- ..-|..||.+| |..|+++||+.+|.|..+
T Consensus 25 Rg~WT~EEDe~L~~lV~kyG---------~~nW~~IAk~~---g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 25 RGPWTVEEDEILVSFIKKEG---------EGRWRSLPKRA---GLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred CCCCCHHHHHHHHHHHHHhC---------cccHHHHHHhh---hcCCCcchHHHHHHHhhc
Confidence 45899999999998776531 13499999875 367999999999998753
No 12
>PLN03091 hypothetical protein; Provisional
Probab=93.69 E-value=0.11 Score=54.69 Aligned_cols=49 Identities=22% Similarity=0.536 Sum_probs=38.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 016782 75 KKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRN 135 (383)
Q Consensus 75 ~kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKN 135 (383)
+-|...||.+|-..|+.+...+- ..-|..|+..| |..|+++||+.+|.|
T Consensus 11 klrKg~WTpEEDe~L~~~V~kyG---------~~nWs~IAk~~---g~gRT~KQCRERW~N 59 (459)
T PLN03091 11 KLRKGLWSPEEDEKLLRHITKYG---------HGCWSSVPKQA---GLQRCGKSCRLRWIN 59 (459)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhC---------cCCHHHHhhhh---ccCcCcchHhHHHHh
Confidence 34456899999999998876431 13699999765 467999999999996
No 13
>PLN03091 hypothetical protein; Provisional
Probab=93.01 E-value=0.23 Score=52.29 Aligned_cols=57 Identities=23% Similarity=0.471 Sum_probs=46.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHh
Q 016782 73 APKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKT 143 (383)
Q Consensus 73 ~p~kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKi 143 (383)
.|.-....||.+|-..||+++..+ +.-|..||..|. .||..||+++|..+.+++.+.
T Consensus 62 dP~IkKgpWT~EED~lLLeL~k~~----------GnKWskIAk~LP----GRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 62 RPDLKRGTFSQQEENLIIELHAVL----------GNRWSQIAAQLP----GRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred CCcccCCCCCHHHHHHHHHHHHHh----------CcchHHHHHhcC----CCCHHHHHHHHHHHHHHHHHH
Confidence 455556799999999999988752 146999999884 599999999999988877653
No 14
>PLN03212 Transcription repressor MYB5; Provisional
Probab=91.56 E-value=0.42 Score=46.99 Aligned_cols=56 Identities=16% Similarity=0.379 Sum_probs=44.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 016782 73 APKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKK 142 (383)
Q Consensus 73 ~p~kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKK 142 (383)
.|.-....||.+|-..||+++.. + + .-|..||..|. .||..||+++|.++.+...+
T Consensus 73 ~P~I~kgpWT~EED~lLlel~~~----~-G-----nKWs~IAk~Lp----GRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 73 RPSVKRGGITSDEEDLILRLHRL----L-G-----NRWSLIAGRIP----GRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred chhcccCCCChHHHHHHHHHHHh----c-c-----ccHHHHHhhcC----CCCHHHHHHHHHHHHhHHHH
Confidence 46666779999999999987653 2 1 34999999984 49999999999998876533
No 15
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=81.69 E-value=8.9 Score=32.38 Aligned_cols=65 Identities=15% Similarity=0.329 Sum_probs=44.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccC--CchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhccc
Q 016782 79 ETWVQDETRILIAFRREMDGLFNTSK--SNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQ 146 (383)
Q Consensus 79 ~~WTdeETkaLI~Lw~E~e~~F~ssk--rnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKiKd~ 146 (383)
..|++++=..||+..-++...-.... --..+++.|...| .++.+..|..+|++.||+.|......
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l---~~~~s~~Ql~~KirrLK~Ky~~~~~k 71 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSL---SFDVSKNQLYDKIRRLKKKYRNAVKK 71 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHc---cCCCCHHHHHHHHHHHHHHHHHHhhh
Confidence 47999877777766655432222111 1235566665554 47789999999999999999998766
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=81.68 E-value=2.3 Score=46.46 Aligned_cols=68 Identities=24% Similarity=0.351 Sum_probs=49.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHH---hhc---------ccCC----chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 016782 76 KRAETWVQDETRILIAFRREMDG---LFN---------TSKS----NKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKE 139 (383)
Q Consensus 76 kR~~~WTdeETkaLI~Lw~E~e~---~F~---------sskr----nkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~ 139 (383)
.+...|+.+|...||++..++.. +++ .... ..--|-.|++.|. .|+..||+-||..|...
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~----TR~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLG----TRSRIQCRYKWYKLTTS 509 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhc----CCCcchHHHHHHHHHhh
Confidence 34679999999999999987643 221 1110 2234999999554 69999999999999988
Q ss_pred HHHhcccC
Q 016782 140 FKKTKHQD 147 (383)
Q Consensus 140 YKKiKd~n 147 (383)
+-..+.+-
T Consensus 510 ~s~n~~~~ 517 (607)
T KOG0051|consen 510 PSFNKRQE 517 (607)
T ss_pred HHhhcccc
Confidence 77665543
No 17
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=81.16 E-value=1.8 Score=46.41 Aligned_cols=48 Identities=21% Similarity=0.410 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 016782 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKE 139 (383)
Q Consensus 78 ~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~ 139 (383)
...||++||.+||+.-..+ ...|.+|+.... .+|..||-.||-.|-..
T Consensus 253 ~~~WT~qE~lLLLE~ie~y----------~ddW~kVa~hVg----~ks~eqCI~kFL~LPie 300 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMY----------GDDWNKVADHVG----TKSQEQCILKFLRLPIE 300 (506)
T ss_pred CCCccHHHHHHHHHHHHHh----------cccHHHHHhccC----CCCHHHHHHHHHhcCcc
Confidence 5699999999999865531 267999999877 89999999999988643
No 18
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=76.20 E-value=4.2 Score=43.53 Aligned_cols=49 Identities=16% Similarity=0.381 Sum_probs=40.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 016782 77 RAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKE 139 (383)
Q Consensus 77 R~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~ 139 (383)
+-.+|+.+|+.+||+-...+ ..-|.+||.+.. .+|.+||-.||=+|-..
T Consensus 278 ~dk~WS~qE~~LLLEGIe~y----------gDdW~kVA~HVg----tKt~EqCIl~FL~LPie 326 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMY----------GDDWDKVARHVG----TKTKEQCILHFLQLPIE 326 (531)
T ss_pred ccccccHHHHHHHHHHHHHh----------hhhHHHHHHHhC----CCCHHHHHHHHHcCCcc
Confidence 55699999999999765532 267999999876 79999999999998754
No 19
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=75.77 E-value=7.2 Score=36.32 Aligned_cols=60 Identities=13% Similarity=0.467 Sum_probs=46.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-HHHHh
Q 016782 76 KRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK-EFKKT 143 (383)
Q Consensus 76 kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK-~YKKi 143 (383)
.|-..||.+|-.+|-++--. ..+.+...-..+++|..+|. ||+.-|--+|+...+ .|...
T Consensus 2 ~RQDAWT~eeDlLLAEtVLr---hIReG~TQL~AFeEvg~~L~-----RTsAACGFRWNs~VRkqY~~~ 62 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLR---HIREGSTQLSAFEEVGRALN-----RTAAACGFRWNAYVRKQYEEA 62 (161)
T ss_pred ccccccccHHHHHHHHHHHH---HHhcchHHHHHHHHHHHHHc-----ccHHHhcchHHHHHHHHHHHH
Confidence 46778999999888765543 23344555678999999975 999999999998774 58877
No 20
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=73.67 E-value=11 Score=35.42 Aligned_cols=61 Identities=16% Similarity=0.517 Sum_probs=45.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HHHHHh
Q 016782 75 KKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL-KEFKKT 143 (383)
Q Consensus 75 ~kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLK-K~YKKi 143 (383)
+.|...||.++-++|-.+.-+ ....+...-..++.+...|. ||+.+|..+|+... +.|...
T Consensus 2 k~rqdawt~e~d~llae~vl~---~i~eg~tql~afe~~g~~L~-----rt~aac~fRwNs~vrk~Yee~ 63 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLR---HIREGGTQLKAFEEVGDALK-----RTAAACGFRWNSVVRKQYQEQ 63 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHH---HHhccchHHHHHHHHHHHHh-----hhHHHHHhHHHHHHHHHHHHH
Confidence 356789999999988665544 33445566788999999876 89999999996655 557665
No 21
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=67.83 E-value=12 Score=41.78 Aligned_cols=57 Identities=25% Similarity=0.506 Sum_probs=44.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 016782 73 APKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFK 141 (383)
Q Consensus 73 ~p~kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YK 141 (383)
.|+=+...|+.+|...|.++=.. .+..-|+.||..| |-+||.-||-.||+.-.+.-+
T Consensus 248 ~P~~nk~~WS~EE~E~L~AiA~A---------~~~~~W~~IA~~L---gt~RS~yQC~~kF~t~~~~L~ 304 (939)
T KOG0049|consen 248 NPKWNKEHWSNEEVEKLKALAEA---------PKFVSWPMIALNL---GTNRSSYQCMEKFKTEVSQLS 304 (939)
T ss_pred CCccchhccChHHHHHHHHHHhc---------cccccHHHHHHHh---CCCcchHHHHHHHHHHHHHHH
Confidence 57888899999999988877542 2345699998765 678999999999987665433
No 22
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=67.79 E-value=5.3 Score=38.14 Aligned_cols=49 Identities=20% Similarity=0.377 Sum_probs=37.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 016782 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK 138 (383)
Q Consensus 78 ~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK 138 (383)
...||.+|=..|+.+...+-. .-|-.|+..+. -.|++++|+.+|-|=.+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~---------~~W~~i~k~~g---l~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGK---------HNGTALPKLAG---LRRCGKSCRLRWTNYLR 57 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCC---------CCcchhhhhcC---CCccchHHHHHhhcccC
Confidence 468999999999988775311 16888877654 47999999999998443
No 23
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=53.86 E-value=22 Score=29.82 Aligned_cols=33 Identities=27% Similarity=0.473 Sum_probs=29.8
Q ss_pred EEEEeecccceeeccc-------CChHHHHHHHHHhhccc
Q 016782 264 VISVKCGDYTRRIGID-------GTPDAIKEAIKSAFGIR 296 (383)
Q Consensus 264 ~~~~~~~~~t~r~g~~-------g~~~~~~~~~~~~~~~~ 296 (383)
||-|+||+-+||+.+. .+.+..++=|+..|.|-
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~ 41 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLS 41 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCC
Confidence 7899999999999998 58899999999999874
No 24
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.72 E-value=17 Score=32.25 Aligned_cols=62 Identities=11% Similarity=0.154 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHH--cCCCCCHHHHHHH--HHHHHHH
Q 016782 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMRE--KGFDRSPTMCTDK--WRNLLKE 139 (383)
Q Consensus 78 ~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~e--kGY~RTakQCr~K--WKNLKK~ 139 (383)
...=+.+++...+.+.++.-.++....-+-.--+.=|..|.. .+|.+++.+.+.| |+|+|-.
T Consensus 30 k~~~tq~QvdeVv~IMr~NV~KVlER~ekL~~L~drad~L~~~as~F~~~A~klkrk~wWkn~Km~ 95 (116)
T KOG0860|consen 30 KLQQTQAQVDEVVDIMRENVEKVLERGEKLDELDDRADQLQAGASQFEKTAVKLKRKMWWKNCKMR 95 (116)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334567788888888888665554433333334444566654 4788888888776 7777643
No 25
>PF03353 Lin-8: Ras-mediated vulval-induction antagonist; InterPro: IPR005020 This is a family of Caenorhabditis elegans proteins of unknown function.
Probab=46.26 E-value=42 Score=33.16 Aligned_cols=64 Identities=11% Similarity=0.234 Sum_probs=46.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHhh-cccCCchHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHH
Q 016782 79 ETWVQDETRILIAFRREMDGLF-NTSKSNKHLWEQISAKMRE-KGFDRSPTMCTDKWRNLLKEFKK 142 (383)
Q Consensus 79 ~~WTdeETkaLI~Lw~E~e~~F-~sskrnkkVWEeIS~kM~e-kGY~RTakQCr~KWKNLKK~YKK 142 (383)
..|...-.+++|.+.++.-... ..++.....|+.|+..+-+ .|.-.+...++.=|++.|...++
T Consensus 18 ~~~~~~~kk~il~~i~~~p~lw~~~~~~~~~~~~~v~v~vy~Rtg~~~~~~~i~~~~~~aK~~Lr~ 83 (313)
T PF03353_consen 18 AKKDVELKKVILSEIEKFPELWKKKSRVPNEEWEEVAVEVYKRTGKLVSVKHIRSIFKNAKDSLRR 83 (313)
T ss_pred chhhHHHHHHHHHHHhcChHhhhccCCccHHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHH
Confidence 3454445555566666543322 3445678899999998865 59999999999999999988554
No 26
>PRK12354 carbamate kinase; Reviewed
Probab=41.18 E-value=16 Score=36.95 Aligned_cols=38 Identities=26% Similarity=0.376 Sum_probs=29.6
Q ss_pred Cccccc-cceecchhhHHHHHHhhccccceeccCccccc
Q 016782 331 ISVHTE-DKTFYTEEDYREFLARHGWTCLREFDGYRNVD 368 (383)
Q Consensus 331 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (383)
.+..|- =-.|||||.-+.....+||+....=+|||-|-
T Consensus 116 f~~ptKpiG~~y~~~~a~~~~~e~g~~~~~dg~g~rrVv 154 (307)
T PRK12354 116 FANPTKPIGPVYDEAEAERLAAEKGWTIKPDGDYFRRVV 154 (307)
T ss_pred cCCCCCCcCcccCHHHHHHHHHhcCCEEeecCCceEEEe
Confidence 344442 23599999999999999999988866888764
No 27
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=40.82 E-value=46 Score=37.12 Aligned_cols=82 Identities=13% Similarity=0.192 Sum_probs=54.9
Q ss_pred hhhcccCCCCCCC-CccCCCCC-----CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHH
Q 016782 57 QMILADSSGGEDH-EVRAPKKR-----AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCT 130 (383)
Q Consensus 57 ~~~~~~~sged~~-~~~~p~kR-----~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr 130 (383)
+++++-+|-|-.. +.+++-+. ...||++|..++.+...++-. -++.|-+.|.+.-...|-.|.+
T Consensus 61 p~~l~pss~ept~~~~k~~qk~Lkt~~ktaWt~~E~~~Ffdal~~~GK----------dFe~VinaklKRrna~s~~~~K 130 (782)
T KOG4468|consen 61 PNLLSPSSIEPTQFPAKKPQKQLKTWAKTAWTHQEEESFFDALRQVGK----------DFEKVINAKLKRRNATSRVQSK 130 (782)
T ss_pred CCcCCccccCCcccccccchhhcccccccccchhhHHHHHHHHHHhcc----------cHHHHHHHHHHhcccccchhhh
Confidence 6788777655443 22222222 238999999999887766433 3455556666655667888888
Q ss_pred HHHHHHHHHHHHhcccCC
Q 016782 131 DKWRNLLKEFKKTKHQDR 148 (383)
Q Consensus 131 ~KWKNLKK~YKKiKd~nk 148 (383)
+|.-+=..+|+.++.+++
T Consensus 131 tkdqvr~~yY~~~~~m~k 148 (782)
T KOG4468|consen 131 TKDQVRHYYYRLVRRMNK 148 (782)
T ss_pred hhHHHHHHHHHHHHHHHh
Confidence 888888888888876554
No 28
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=37.78 E-value=1.3e+02 Score=22.76 Aligned_cols=63 Identities=8% Similarity=0.129 Sum_probs=46.3
Q ss_pred CHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcc
Q 016782 82 VQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKH 145 (383)
Q Consensus 82 TdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKKiKd 145 (383)
+.+++..++.-...+...+......-..-...+..|...+ .-....++.+..+|...|..+..
T Consensus 32 ~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~~~-~~~~~~i~~~~~~l~~~w~~l~~ 94 (105)
T PF00435_consen 32 DLEELEEQLKKHKELQEEIESRQERLESLNEQAQQLIDSG-PEDSDEIQEKLEELNQRWEALCE 94 (105)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HTTHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence 3467788888777777777665444455557778886655 66779999999999999888753
No 29
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=36.51 E-value=1.1e+02 Score=29.40 Aligned_cols=58 Identities=16% Similarity=0.420 Sum_probs=43.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHHHHHhc
Q 016782 73 APKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNL-LKEFKKTK 144 (383)
Q Consensus 73 ~p~kR~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNL-KK~YKKiK 144 (383)
.|.=....||.+|..++|++...+-++ |..||..|- -||....++=|..- |+++++..
T Consensus 57 rP~ikrg~fT~eEe~~Ii~lH~~~GNr----------Ws~IA~~LP----GRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 57 RPDLKRGNFSDEEEDLIIKLHALLGNR----------WSLIAGRLP----GRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred CCCccCCCCCHHHHHHHHHHHHHHCcH----------HHHHHhhCC----CcCHHHHHHHHHHHHHHHHHHcC
Confidence 455446799999999999998864222 999999986 38888888878654 56666554
No 30
>PF09608 Alph_Pro_TM: Putative transmembrane protein (Alph_Pro_TM); InterPro: IPR019088 This entry consists of predicted transmembrane proteins of about 270 amino acids. They are found predominantly, though not exclusively, in alphaproteobacteria, generally only once in each genome.
Probab=36.29 E-value=28 Score=33.91 Aligned_cols=47 Identities=17% Similarity=0.434 Sum_probs=37.9
Q ss_pred CChHHHHHHHHHhhcccccceeeccccchhhh----------hcccCCCCcceeEee
Q 016782 280 GTPDAIKEAIKSAFGIRTKRAFWLEDEDQIVR----------CIDRDMPVGNYTLHL 326 (383)
Q Consensus 280 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~ 326 (383)
..++...+-..+..+||.+...|.+++.+|-- .|--+||.|+|++++
T Consensus 120 ~~~~~~~~f~~alirlk~~~gLY~~~~~~V~~~~~~lFra~i~LPanvp~G~Y~v~v 176 (236)
T PF09608_consen 120 SDPDEQDDFREALIRLKERAGLYQENEGGVQFLEGTLFRARIPLPANVPPGDYTVRV 176 (236)
T ss_pred CChhhHHHHHHHHHHHHHhCCCceecCCeEEEcCCCeEEEEeEcCCCCCcceEEEEE
Confidence 45666667778889999999999999987752 356789999999875
No 31
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=34.44 E-value=47 Score=24.90 Aligned_cols=56 Identities=14% Similarity=0.178 Sum_probs=37.9
Q ss_pred EEEeeccccee--ecccCChHHHHHHHHHhhcccccceeeccccchhhhhcccCCCCcceeE
Q 016782 265 ISVKCGDYTRR--IGIDGTPDAIKEAIKSAFGIRTKRAFWLEDEDQIVRCIDRDMPVGNYTL 324 (383)
Q Consensus 265 ~~~~~~~~t~r--~g~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 324 (383)
|.||++.-+.- +.-+-|-..+|+.|...+++-..|--++-. . +.|+.+.+|+.|-+
T Consensus 3 i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~-g---~~l~d~~~L~~~~i 60 (71)
T cd01812 3 VRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFK-G---KERDDAETLDMSGV 60 (71)
T ss_pred EEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeC-C---cccCccCcHHHcCC
Confidence 67788765443 344568899999999999987766433332 2 23556778888755
No 32
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=34.17 E-value=88 Score=24.14 Aligned_cols=44 Identities=14% Similarity=0.271 Sum_probs=31.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHH---HHHHHHHHHcCCCC-CHHHHHHH
Q 016782 77 RAETWVQDETRILIAFRREMDGLFNTSKSNKHLW---EQISAKMREKGFDR-SPTMCTDK 132 (383)
Q Consensus 77 R~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVW---EeIS~kM~ekGY~R-TakQCr~K 132 (383)
....||.+|-..+|.....+ .. .-| +.|++.|. -.+ |..||+.-
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~----G~-----g~~a~pk~I~~~~~---~~~lT~~qV~SH 49 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKL----GG-----PDWATPKRILELMV---VDGLTRDQVASH 49 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHh----CC-----CcccchHHHHHHcC---CCCCCHHHHHHH
Confidence 45689999999999888753 21 136 77877665 344 99998863
No 33
>PRK09767 hypothetical protein; Provisional
Probab=34.11 E-value=35 Score=29.86 Aligned_cols=43 Identities=35% Similarity=0.637 Sum_probs=26.3
Q ss_pred cccCCCCcceeEeecC---------CCCccccccceecchhhHH-HHHHhhccccce
Q 016782 313 IDRDMPVGNYTLHLDE---------DHISVHTEDKTFYTEEDYR-EFLARHGWTCLR 359 (383)
Q Consensus 313 ~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 359 (383)
.-|-.|+|.|++.+=- |. ..|.+. +..|--| .+|...||+.||
T Consensus 37 FrRQ~pig~yi~DF~c~~~rLaIE~DG-~~H~~~---~~~D~~R~~~L~~~G~~VlR 89 (117)
T PRK09767 37 FRRQHPVGSYILDFACCSARVVVELDG-GQHDLA---VAYDTRRTSWLESQGWTVLR 89 (117)
T ss_pred eEecccccCeeeceeccccCEEEEEeC-cccchh---HHHHHHHHHHHHHCCCEEEE
Confidence 4577899999864321 22 235322 2223333 599999999997
No 34
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=29.28 E-value=2.2e+02 Score=20.51 Aligned_cols=54 Identities=13% Similarity=0.254 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 016782 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKK 142 (383)
Q Consensus 78 ~~~WTdeETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ekGY~RTakQCr~KWKNLKK~YKK 142 (383)
...+|.+++..|-..|.. ........-+.||..| ..+..|...-|.|=+..+|+
T Consensus 4 r~~~t~~q~~~L~~~f~~------~~~p~~~~~~~la~~l-----~l~~~~V~~WF~nrR~k~kk 57 (57)
T PF00046_consen 4 RTRFTKEQLKVLEEYFQE------NPYPSKEEREELAKEL-----GLTERQVKNWFQNRRRKEKK 57 (57)
T ss_dssp SSSSSHHHHHHHHHHHHH------SSSCHHHHHHHHHHHH-----TSSHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHH------hccccccccccccccc-----cccccccccCHHHhHHHhCc
Confidence 457888888888887773 3346667788898887 58999999999999988875
No 35
>PF08994 T4_Gp59_C: T4 gene Gp59 loader of gp41 DNA helicase C-term; InterPro: IPR015086 The Bacteriophage T4 gene 59 helicase assembly protein is required for recombination-dependent DNA replication, which is the predominant mode of DNA replication in the late stage of T4 infection. T4 gene 59 helicase assembly protein accelerates the loading of the T4 gene 41 helicase during DNA synthesis by the T4 replication system in vitro. T4 gene 59 helicase assembly protein binds to both T4 gene 41 helicase and T4 gene 32 single-stranded DNA binding protein, and to single and double-stranded DNA. The C-terminal domain of the T4 gene 59 helicase assembly protein consists of seven alpha-helices with short intervening loops and turns; the surface of the domain contains large regions of exposed hydrophobic residues and clusters of acidic and basic residues. The hydrophobic region on the 'bottom' surface of the domain near the C-terminal helix binds the leading strand DNA, whilst the hydrophobic region on the, top, surface of the domain lies between the two arms of the fork DNA, allowing for T4 gene 41 helicase binding and assembly into a hexameric complex around the lagging strand []. ; PDB: 1C1K_A.
Probab=27.37 E-value=1.2e+02 Score=26.50 Aligned_cols=56 Identities=13% Similarity=0.146 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHHH
Q 016782 84 DETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREK--GFDRSPTMCTDKWRNLLKEF 140 (383)
Q Consensus 84 eETkaLI~Lw~E~e~~F~sskrnkkVWEeIS~kM~ek--GY~RTakQCr~KWKNLKK~Y 140 (383)
=||.++++-.=..-..+.. .....+|+.++.+|.+- =...+..+++..+....+.+
T Consensus 45 ~ET~vilds~Lg~v~~~Dk-~~~D~iW~~~s~kl~kYr~fl~Id~~kyk~~~~eti~~~ 102 (103)
T PF08994_consen 45 LETFVILDSFLGFVDKFDK-VLTDPIWKNYSTKLKKYRPFLKIDCEKYKKLFIETIKSC 102 (103)
T ss_dssp HHHHHHHHHHH-HHHHHHH-H---HHHHHHHHHHHHHHHHEEE-HHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHhhHHhhhh-hccchhHHHHHHHHHHhcchhhcCHHHHHHHHHHHHHhc
Confidence 4888888766665555554 56679999999998761 12356677777666655554
No 36
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=25.96 E-value=40 Score=24.97 Aligned_cols=13 Identities=38% Similarity=0.882 Sum_probs=9.2
Q ss_pred CCCCcceeEeecC
Q 016782 316 DMPVGNYTLHLDE 328 (383)
Q Consensus 316 ~~~~~~~~~~~~~ 328 (383)
.+|.|+|+|++-.
T Consensus 35 ~L~~G~Y~l~V~a 47 (66)
T PF07495_consen 35 NLPPGKYTLEVRA 47 (66)
T ss_dssp S--SEEEEEEEEE
T ss_pred eCCCEEEEEEEEE
Confidence 4799999999854
No 37
>TIGR01869 casC_Cse4 CRISPR system CASCADE complex protein CasC/Cse4. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum and is part of the Ecoli subtype of CRISPR/Cas locis. It is designated Cse4, for CRISPR/Cas Subtype Ecoli protein 4.
Probab=25.33 E-value=56 Score=33.48 Aligned_cols=37 Identities=27% Similarity=0.412 Sum_probs=29.3
Q ss_pred ceEEEEeecccceeecccCChHHHHHHHHHhh----------ccccccee
Q 016782 262 GKVISVKCGDYTRRIGIDGTPDAIKEAIKSAF----------GIRTKRAF 301 (383)
Q Consensus 262 g~~~~~~~~~~t~r~g~~g~~~~~~~~~~~~~----------~~~~~~~~ 301 (383)
|.--++.||.++ |.=| |..++|.|||.+| ++||||.+
T Consensus 22 G~PKta~~GG~~-R~RV--SSQs~KRa~R~~~~~~~~~~~~~g~RTr~l~ 68 (325)
T TIGR01869 22 GAPKTAVYGGST-RTRV--SSQCLKRAWRLSAHDHEALAGHGGIRSRRLA 68 (325)
T ss_pred CCCceeeECCEe-ecee--cHHHHHHHHHHhhhhhhhcCccccccHHHHH
Confidence 666788888888 4444 7899999999876 68999875
No 38
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=25.30 E-value=1.4e+02 Score=22.90 Aligned_cols=33 Identities=24% Similarity=0.389 Sum_probs=27.4
Q ss_pred EEEEeecccceeeccc---CChHHHHHHHHHhhccc
Q 016782 264 VISVKCGDYTRRIGID---GTPDAIKEAIKSAFGIR 296 (383)
Q Consensus 264 ~~~~~~~~~t~r~g~~---g~~~~~~~~~~~~~~~~ 296 (383)
++-|+|++-++|+=+. -|-+.+++.|...|++=
T Consensus 2 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~ 37 (81)
T cd05992 2 RVKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLD 37 (81)
T ss_pred cEEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCCC
Confidence 4678899888888876 67789999999999873
No 39
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=23.92 E-value=1.6e+02 Score=22.80 Aligned_cols=32 Identities=19% Similarity=0.509 Sum_probs=26.6
Q ss_pred EEEEeecccceeecccC--ChHHHHHHHHHhhcc
Q 016782 264 VISVKCGDYTRRIGIDG--TPDAIKEAIKSAFGI 295 (383)
Q Consensus 264 ~~~~~~~~~t~r~g~~g--~~~~~~~~~~~~~~~ 295 (383)
.+.|.||+-++|+=+.. |-+.+...|...|++
T Consensus 3 ~vK~~~~~~~~~~~~~~~~s~~dL~~~i~~~~~~ 36 (81)
T smart00666 3 DVKLRYGGETRRLSVPRDISFEDLRSKVAKRFGL 36 (81)
T ss_pred cEEEEECCEEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 35678899999988865 668999999999985
No 40
>COG2001 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.66 E-value=42 Score=30.81 Aligned_cols=29 Identities=31% Similarity=0.549 Sum_probs=24.9
Q ss_pred CCCcceeEeecC-CCCccccccceecchhhHHHHHHhhc
Q 016782 317 MPVGNYTLHLDE-DHISVHTEDKTFYTEEDYREFLARHG 354 (383)
Q Consensus 317 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (383)
|.+|+|+..||. .+|.|-+ -||++|....
T Consensus 1 MF~G~~~~~LD~KgRl~vPa---------kfR~~L~~~~ 30 (146)
T COG2001 1 MFLGAYEHNLDSKGRLSVPA---------KFRAALGENA 30 (146)
T ss_pred CCccccccccCCcCCEeccH---------HHHHHHhccC
Confidence 889999999999 8888865 5899998774
No 41
>PRK12454 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed
Probab=23.22 E-value=51 Score=33.54 Aligned_cols=29 Identities=31% Similarity=0.721 Sum_probs=23.8
Q ss_pred eecchhhHHHHHHhhcccccee-ccCcccc
Q 016782 339 TFYTEEDYREFLARHGWTCLRE-FDGYRNV 367 (383)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 367 (383)
.||+||+-+....++||+.... =.|||-|
T Consensus 134 ~~y~~~~a~~~~~~~g~~~~~d~g~g~Rrv 163 (313)
T PRK12454 134 PFYDEEEAKKLAKEKGWIVKEDAGRGWRRV 163 (313)
T ss_pred CCcCHHHHHHHHHHcCCEEEEcCCCceEEE
Confidence 3999999999999999987755 3578754
No 42
>PRK12686 carbamate kinase; Reviewed
Probab=23.17 E-value=50 Score=33.53 Aligned_cols=68 Identities=26% Similarity=0.414 Sum_probs=40.5
Q ss_pred HHHHHHHHhhcccccceeeccccchhhhhcccC-CCCcceeEeecCCCCccccccc---eecchhhHHHHHHhhccccce
Q 016782 284 AIKEAIKSAFGIRTKRAFWLEDEDQIVRCIDRD-MPVGNYTLHLDEDHISVHTEDK---TFYTEEDYREFLARHGWTCLR 359 (383)
Q Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~ 359 (383)
-|..||+.++.-|- +|++ +-+=+-+| +|.+---.....| .|||+++-+..-.++||+...
T Consensus 89 ~~~q~l~~~l~~r~---------------~~~~v~~vvtqv~-Vd~~d~af~~ptk~ig~~~~~~~a~~~~~~~g~~~~~ 152 (312)
T PRK12686 89 WLQNALNNELTERG---------------IDKPVITLVTQVE-VDKDDPAFANPTKPIGPFYTEEEAKQQAEQPGSTFKE 152 (312)
T ss_pred HHHHHHHHHHHhcC---------------CCCCceEEEEEEE-ECCCChhhcCCCCCccCccCHHHHHHHHHHcCCcccc
Confidence 36788888876542 1221 22223333 5554333333333 699999999966677998776
Q ss_pred ec-cCcccc
Q 016782 360 EF-DGYRNV 367 (383)
Q Consensus 360 ~~-~~~~~~ 367 (383)
.. .|||-|
T Consensus 153 d~~~G~rrv 161 (312)
T PRK12686 153 DAGRGYRRV 161 (312)
T ss_pred cCCCCeEEe
Confidence 64 389753
No 43
>PHA02291 hypothetical protein
Probab=21.78 E-value=46 Score=29.71 Aligned_cols=30 Identities=33% Similarity=0.589 Sum_probs=24.4
Q ss_pred CcceeEeecC-----------CCCcccccc----ceecchhhHHH
Q 016782 319 VGNYTLHLDE-----------DHISVHTED----KTFYTEEDYRE 348 (383)
Q Consensus 319 ~~~~~~~~~~-----------~~~~~~~~~----~~~~~~~~~~~ 348 (383)
+|+|||.-|+ .-||++|.+ |.||--.|||+
T Consensus 57 V~~~TLKK~~D~KA~FM~~LP~~LPGRT~~~sID~~~YKsS~F~E 101 (132)
T PHA02291 57 VGDYTLKKVEDNKAYFMETLPTYLPGRTGDNSIDMRYYKTSRFKE 101 (132)
T ss_pred EEEEEEEeeccchhhhhHhccccCCCCCCCcccceeeeecccccc
Confidence 6999999998 457888875 56899888875
No 44
>TIGR02870 spore_II_D stage II sporulation protein D. Stage II sporulation protein D (SpoIID) is a protein of the endospore formation program in a number of lineages in the Firmicutes (low-GC Gram-positive bacteria). It is expressed in the mother cell compartment, under control of Sigma-E. SpoIID, along with SpoIIM and SpoIIP, is one of three major proteins involved in engulfment of the forespore by the mother cell.
Probab=21.73 E-value=58 Score=33.34 Aligned_cols=35 Identities=29% Similarity=0.618 Sum_probs=25.9
Q ss_pred ccCceEEEEeecccceeecccCChHHHHHHHHHhhcccccceeecc
Q 016782 259 SFGGKVISVKCGDYTRRIGIDGTPDAIKEAIKSAFGIRTKRAFWLE 304 (383)
Q Consensus 259 ~~~g~~~~~~~~~~t~r~g~~g~~~~~~~~~~~~~~~~~~~~~~~~ 304 (383)
.-+|||..|+.|+.| +.| +.||.+|+||+-+ |-++
T Consensus 254 ~~sGrV~~l~vg~~~----~~g------~~~R~~lgL~St~-F~i~ 288 (338)
T TIGR02870 254 TAGGRVKTIKIGGVT----LKG------REIRERLGLNSTD-FTWK 288 (338)
T ss_pred CCCCCEEEEEEeeEE----EEH------HHHHHHhCCCCcc-eEEE
Confidence 357999999999855 444 3688889999887 5443
No 45
>PRK09411 carbamate kinase; Reviewed
Probab=21.16 E-value=58 Score=33.01 Aligned_cols=29 Identities=28% Similarity=0.417 Sum_probs=25.8
Q ss_pred eecchhhHHHHHHhhccccceeccCcccc
Q 016782 339 TFYTEEDYREFLARHGWTCLREFDGYRNV 367 (383)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (383)
.||+++.-......+||+....=+|||-|
T Consensus 126 ~~y~~e~a~~l~~e~g~~~~~dg~g~rrV 154 (297)
T PRK09411 126 PVYQPEEQEALEAAYGWQMKRDGKYLRRV 154 (297)
T ss_pred CccCHHHHHHHHHhcCCEEEecCCceEEE
Confidence 59999999999999999988886689987
No 46
>cd04235 AAK_CK AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an essential precursor of arginine and pyrimidine bases, in the presence of ATP, bicarbonate, and ammonia. CK is a homodimer of 33 kDa subunits and is a member of the Amino Acid Kinase Superfamily (AAK).
Probab=20.55 E-value=66 Score=32.58 Aligned_cols=27 Identities=44% Similarity=0.892 Sum_probs=22.6
Q ss_pred eecchhhHHHHHHhhccccceec-cCcc
Q 016782 339 TFYTEEDYREFLARHGWTCLREF-DGYR 365 (383)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 365 (383)
-||+|+.-++.-.++||+....- .|||
T Consensus 130 ~~y~~~~a~~~~~~~g~~~~~d~~~g~r 157 (308)
T cd04235 130 PFYSEEEAEELAAEKGWTFKEDAGRGYR 157 (308)
T ss_pred CCcCHHHHHHHHHHcCCEEEEeCCCCce
Confidence 59999999999999999765444 5788
No 47
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=20.04 E-value=35 Score=36.10 Aligned_cols=64 Identities=9% Similarity=0.070 Sum_probs=47.4
Q ss_pred chHHHHHHHHHHHHcCCCCCHHHHHHHH-----HHHHHHHHHhcccCCCCCCCCCcChHHHHHHHcccc
Q 016782 106 NKHLWEQISAKMREKGFDRSPTMCTDKW-----RNLLKEFKKTKHQDRGSGSAKMSYYKEIDEILKERS 169 (383)
Q Consensus 106 nkkVWEeIS~kM~ekGY~RTakQCr~KW-----KNLKK~YKKiKd~nkgsGskkwpYFdEMDeILG~rp 169 (383)
|.-+=+.|+.+|...=+..++..+..|| ++|+..|++.+...+..+...+-|+||||.+++.+.
T Consensus 161 KTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~ 229 (413)
T PLN00020 161 KSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFG 229 (413)
T ss_pred HHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCC
Confidence 4445566666665443557999999999 899999999987643334455679999999998875
Done!