Query 016093
Match_columns 395
No_of_seqs 153 out of 531
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 03:43:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016093.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016093hhsearch_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 1.4E-24 3E-29 212.5 14.8 273 78-382 54-336 (345)
2 PF13837 Myb_DNA-bind_4: Myb/S 99.9 5.6E-22 1.2E-26 157.8 7.8 85 79-164 2-90 (90)
3 PF13873 Myb_DNA-bind_5: Myb/S 98.5 8E-07 1.7E-11 70.0 8.1 67 77-143 1-75 (78)
4 smart00595 MADF subfamily of S 98.3 5.7E-07 1.2E-11 71.9 4.0 71 89-164 2-84 (89)
5 PF12776 Myb_DNA-bind_3: Myb/S 98.2 8E-06 1.7E-10 65.9 8.0 71 80-150 1-75 (96)
6 PF10545 MADF_DNA_bdg: Alcohol 98.0 6.8E-06 1.5E-10 63.8 3.5 71 89-162 1-83 (85)
7 PF00249 Myb_DNA-binding: Myb- 97.6 0.00011 2.3E-09 53.5 5.1 47 79-137 2-48 (48)
8 PF13921 Myb_DNA-bind_6: Myb-l 97.5 0.00016 3.5E-09 54.3 4.2 43 81-137 1-44 (60)
9 smart00717 SANT SANT SWI3, AD 97.4 0.00032 6.9E-09 48.5 4.3 47 79-138 2-48 (49)
10 cd00167 SANT 'SWI3, ADA2, N-Co 97.2 0.00051 1.1E-08 46.9 3.8 45 80-137 1-45 (45)
11 PLN03212 Transcription repress 95.0 0.036 7.8E-07 54.4 5.2 48 78-137 25-72 (249)
12 PLN03091 hypothetical protein; 94.0 0.083 1.8E-06 55.7 5.3 49 75-135 11-59 (459)
13 PLN03091 hypothetical protein; 93.0 0.26 5.6E-06 52.1 7.0 57 73-143 62-118 (459)
14 PLN03212 Transcription repress 92.5 0.32 6.9E-06 48.0 6.5 54 73-140 73-126 (249)
15 PF04504 DUF573: Protein of un 85.3 5.3 0.00011 33.9 7.9 66 78-146 4-71 (98)
16 KOG1279 Chromatin remodeling f 85.3 0.93 2E-05 48.7 4.1 48 77-138 252-299 (506)
17 KOG0051 RNA polymerase I termi 80.2 2.9 6.3E-05 46.0 5.4 67 76-146 434-516 (607)
18 TIGR02894 DNA_bind_RsfA transc 78.7 5.9 0.00013 37.1 6.2 60 76-143 2-62 (161)
19 COG5259 RSC8 RSC chromatin rem 78.5 3.2 6.9E-05 44.6 5.0 49 77-139 278-326 (531)
20 PRK13923 putative spore coat p 74.0 9.6 0.00021 35.9 6.3 61 75-143 2-63 (170)
21 KOG0048 Transcription factor, 73.3 3.3 7.1E-05 39.7 3.2 48 78-137 9-56 (238)
22 KOG0049 Transcription factor, 72.6 8.3 0.00018 43.2 6.3 58 72-141 247-304 (939)
23 PRK09767 hypothetical protein; 69.5 4.4 9.6E-05 35.6 2.9 51 313-371 37-89 (117)
24 cd01812 BAG1_N Ubiquitin-like 67.3 13 0.00028 28.1 4.8 64 265-334 3-68 (71)
25 cd06398 PB1_Joka2 The PB1 doma 54.8 22 0.00048 29.9 4.4 34 264-297 2-42 (91)
26 KOG0860 Synaptobrevin/VAMP-lik 47.0 27 0.00058 31.2 3.8 62 78-139 30-95 (116)
27 cd01809 Scythe_N Ubiquitin-lik 42.4 68 0.0015 24.1 5.1 58 271-334 12-69 (72)
28 TIGR01557 myb_SHAQKYF myb-like 40.0 53 0.0012 25.5 4.1 44 77-132 2-49 (57)
29 KOG4468 Polycomb-group transcr 36.0 62 0.0013 36.3 5.3 169 57-240 61-267 (782)
30 cd02549 Peptidase_C39A A sub-f 36.0 1.5E+02 0.0033 24.6 6.7 80 281-366 45-134 (141)
31 PF09608 Alph_Pro_TM: Putative 35.7 27 0.00059 34.1 2.4 52 280-331 120-184 (236)
32 PF00435 Spectrin: Spectrin re 35.2 1.5E+02 0.0032 22.6 6.1 62 83-145 33-94 (105)
33 KOG0048 Transcription factor, 32.8 1.3E+02 0.0029 28.9 6.5 57 74-144 58-115 (238)
34 PRK12354 carbamate kinase; Rev 32.6 53 0.0012 33.5 3.9 46 335-380 107-154 (307)
35 cd01789 Alp11_N Ubiquitin-like 30.9 94 0.002 25.2 4.4 60 272-334 15-78 (84)
36 TIGR01869 casC_Cse4 CRISPR sys 29.3 40 0.00086 34.7 2.4 36 262-301 22-68 (325)
37 smart00666 PB1 PB1 domain. Pho 29.1 1.2E+02 0.0026 23.6 4.7 32 264-295 3-36 (81)
38 cd05992 PB1 The PB1 domain is 28.8 1.1E+02 0.0024 23.6 4.4 32 264-295 2-36 (81)
39 cd01236 PH_outspread Outspread 27.0 1.1E+02 0.0024 26.3 4.4 45 316-363 47-98 (104)
40 cd01038 Endonuclease_DUF559 Do 26.4 96 0.0021 26.1 3.9 47 316-371 37-86 (108)
41 cd04041 C2A_fungal C2 domain f 24.5 70 0.0015 26.4 2.7 18 357-374 93-110 (111)
42 PF07750 GcrA: GcrA cell cycle 24.4 74 0.0016 29.4 3.0 37 79-128 1-37 (162)
43 PF08994 T4_Gp59_C: T4 gene Gp 24.0 1.4E+02 0.0031 26.2 4.6 56 84-140 45-102 (103)
44 PF03353 Lin-8: Ras-mediated v 23.9 1.8E+02 0.0039 28.9 5.9 64 79-142 18-83 (313)
45 PF07495 Y_Y_Y: Y_Y_Y domain; 23.9 42 0.00092 24.9 1.2 11 316-326 35-45 (66)
46 PF14769 CLAMP: Flagellar C1a 23.7 4.4E+02 0.0094 22.0 8.2 63 78-140 9-80 (101)
47 cd01244 PH_RasGAP_CG9209 RAS_G 23.0 1.2E+02 0.0027 25.6 3.9 46 316-363 41-93 (98)
48 PHA03092 semaphorin-like prote 22.5 40 0.00086 30.4 0.9 25 276-304 87-111 (134)
49 PRK12454 carbamate kinase-like 22.2 55 0.0012 33.4 1.9 29 351-379 134-163 (313)
50 COG2852 Very-short-patch-repai 22.1 91 0.002 28.5 3.0 50 314-372 48-100 (129)
51 PRK12686 carbamate kinase; Rev 21.8 55 0.0012 33.4 1.8 31 349-379 130-161 (312)
52 PF00046 Homeobox: Homeobox do 21.2 3.3E+02 0.0071 19.7 8.4 54 78-142 4-57 (57)
53 KOG0051 RNA polymerase I termi 20.9 1.2E+02 0.0026 34.0 4.2 45 79-138 385-429 (607)
54 PRK09411 carbamate kinase; Rev 20.1 63 0.0014 32.9 1.8 29 351-379 126-154 (297)
No 1
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=99.92 E-value=1.4e-24 Score=212.51 Aligned_cols=273 Identities=22% Similarity=0.319 Sum_probs=201.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccCCCC-CCCCCc
Q 016093 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQDRGS-GSAKMS 156 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKiKd~nkgs-G~kkWp 156 (395)
...|+.+||++||.+|++++..|..+++|.++|++||++|.+.||.||+.||+.||+||+++||+.|....+. +...|+
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 6899999999999999999999999999999999999999999999999999999999999999999887644 457899
Q ss_pred ChHHHHHHHc-ccccccc-------cccccccCCccccccccccccCCCCCCCCCCCCccCCCCC-CCccccccCCCCCC
Q 016093 157 YYKEIDEILK-ERSKNAQ-------YKATSVANSANKVDTFMQFSDKGFDDTSISFGPVEATGRP-TLNLERRLDHDGHP 227 (395)
Q Consensus 157 YFDEMDeILG-~rp~~~~-------~ksPs~s~Ss~KiD~~~q~~d~~~~dts~~f~pve~~gr~-~ln~E~~lD~d~h~ 227 (395)
||.+||+++. ..+.... ...|....+++. .+|+..+.... +.+.-.+.+..+ .+|..-....+..+
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 2221010 111111111111 33322222221 122223344344 33333333334455
Q ss_pred cccchhhHHHhcCCCCCCCCCCCCCCCCCCCcccceEEEEecCcceeeecccCCHHHHHHHHHHhhcccccceeeccccc
Q 016093 228 LAITTADAVAAAGVPPWNWRDPPPGNGGEGQSFGGKVISVKCGDYTRRIGIDGTPDAIKEAIKSAFGIRTKRAFWLEDED 307 (395)
Q Consensus 228 ~ai~~adavaa~g~~p~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 307 (395)
.+...++..+ .+++++++ +..++. +.+.+.++++++|+.+.+++.++..++...+-..|++.-.
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 4433333333 78999999 433332 5678899999999999999999999999999999999998
Q ss_pred hhhhhcccCCCCcceEEecCCCceeEEeecCCCCCcccccccceecchhhHHHHHHhhccccceeccCcccccCc
Q 016093 308 QIVRCIDRDMPVGNYTLHLDEGLTIKVCLYDESDHISVHTEDKTFYTEEDYREFLARHGWTCLREFDGYRNVDNM 382 (395)
Q Consensus 308 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 382 (395)
+ .+.+.|-++...+.....+. ...+.++.++..+.++.+++..++.+++++-.-..--.+..+.
T Consensus 273 ~-~~~~~~~~~~e~~r~~~~~r----------~ke~e~~~~~~~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~ 336 (345)
T KOG4282|consen 273 E-KKEQERMSEEEKWRMEEIER----------NKELELARQERIQETQLEIRSIKAIQASRRGSLIDPAQNTLTR 336 (345)
T ss_pred c-cchHhhhhHHHHHHHHHHHh----------cchHHHHHHHHHHHHHHHHHHHHHHHhccccCCcCcccccCCC
Confidence 8 89999999988887765554 4668999999999999999999999999987665544444443
No 2
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=99.86 E-value=5.6e-22 Score=157.79 Aligned_cols=85 Identities=39% Similarity=0.896 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHHHH--HHHhhcc--cCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccCCCCCCCC
Q 016093 79 ETWVQDETRILIAFRRE--MDGLFNT--SKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQDRGSGSAK 154 (395)
Q Consensus 79 ~~WT~eET~lLIeLw~E--~e~~F~~--skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKiKd~nkgsG~kk 154 (395)
.+||++||.+||++|.+ ++..|.. ..++..+|+.||+.|+++||.||+.||+.||+||++.|++++....+.| ..
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 58999999999999999 5667864 4577789999999999999999999999999999999999999887666 49
Q ss_pred CcChHHHHHH
Q 016093 155 MSYYKEIDEI 164 (395)
Q Consensus 155 WpYFDEMDeI 164 (395)
|+||++||+|
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=98.47 E-value=8e-07 Score=70.04 Aligned_cols=67 Identities=25% Similarity=0.510 Sum_probs=56.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcc-------cCCchHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHHHHHh
Q 016093 77 RAETWVQDETRILIAFRREMDGLFNT-------SKSNKHLWEQISAKMREKGF-DRSPTMCTDKWRNLLKEFKKT 143 (395)
Q Consensus 77 Rg~~WT~eET~lLIeLw~E~e~~F~~-------skrnk~LWEeISekMaekGY-~RSaeQCr~KWKNLKK~YKKi 143 (395)
|..+||.+|...||++...+-..+.+ ...+...|++|+..|...|. .||+.||+.||+||+..=|+.
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 67899999999999998886554433 12478999999999999877 799999999999999876654
No 4
>smart00595 MADF subfamily of SANT domain.
Probab=98.31 E-value=5.7e-07 Score=71.93 Aligned_cols=71 Identities=21% Similarity=0.528 Sum_probs=52.1
Q ss_pred HHHHHHHHH-------HhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccC--C-CCC--CCCCc
Q 016093 89 LIAFRREMD-------GLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQD--R-GSG--SAKMS 156 (395)
Q Consensus 89 LIeLw~E~e-------~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKiKd~n--k-gsG--~kkWp 156 (395)
||++++..- ..+.....+...|++||..|.. ++.+|+.||+||+..|++..... . ..| ..+|.
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 677776632 2334344567899999999965 99999999999999999985332 1 122 47899
Q ss_pred ChHHHHHH
Q 016093 157 YYKEIDEI 164 (395)
Q Consensus 157 YFDEMDeI 164 (395)
||++|.=|
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=8e-06 Score=65.89 Aligned_cols=71 Identities=23% Similarity=0.426 Sum_probs=58.8
Q ss_pred CCCHHHHHHHHHHHHHHHHh-hc--ccCCchHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHhcccCCCC
Q 016093 80 TWVQDETRILIAFRREMDGL-FN--TSKSNKHLWEQISAKMRE-KGFDRSPTMCTDKWRNLLKEFKKTKHQDRGS 150 (395)
Q Consensus 80 ~WT~eET~lLIeLw~E~e~~-F~--~skrnk~LWEeISekMae-kGY~RSaeQCr~KWKNLKK~YKKiKd~nkgs 150 (395)
+||.+++..||++..+.... .. ++.-++..|+.|++.|.+ .|...+..||++||+.||+.|+.++.-...+
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 69999999999999875332 22 345788999999999988 4788999999999999999999998765433
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=97.96 E-value=6.8e-06 Score=63.84 Aligned_cols=71 Identities=20% Similarity=0.500 Sum_probs=51.2
Q ss_pred HHHHHHHH-------HHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcccCC----CC-CCCCCc
Q 016093 89 LIAFRREM-------DGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQDR----GS-GSAKMS 156 (395)
Q Consensus 89 LIeLw~E~-------e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKiKd~nk----gs-G~kkWp 156 (395)
||++++.. ...+.....+...|++|+..| |...++.+|+.+|++|+..|++.+.... +. -...|.
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 45566553 223443346789999999999 5567799999999999999999876543 11 235789
Q ss_pred ChHHHH
Q 016093 157 YYKEID 162 (395)
Q Consensus 157 YFDEMD 162 (395)
||+.|.
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=97.63 E-value=0.00011 Score=53.55 Aligned_cols=47 Identities=23% Similarity=0.555 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 016093 79 ETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL 137 (395)
Q Consensus 79 ~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLK 137 (395)
..||.+|...|+++...+-.. -|..||..|. -.||+.||+.+|.+++
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 479999999999998863222 7999999997 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=97.47 E-value=0.00016 Score=54.28 Aligned_cols=43 Identities=28% Similarity=0.877 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HH
Q 016093 81 WVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRN-LL 137 (395)
Q Consensus 81 WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKN-LK 137 (395)
||.+|...|+.++..+. .-|..||..|. +||+.||+.||.+ |.
T Consensus 1 WT~eEd~~L~~~~~~~g----------~~W~~Ia~~l~----~Rt~~~~~~r~~~~l~ 44 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG----------NDWKKIAEHLG----NRTPKQCRNRWRNHLR 44 (60)
T ss_dssp S-HHHHHHHHHHHHHHT----------S-HHHHHHHST----TS-HHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHHC----------cCHHHHHHHHC----cCCHHHHHHHHHHHCc
Confidence 99999999999998752 14999999973 7999999999999 63
No 9
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.35 E-value=0.00032 Score=48.47 Aligned_cols=47 Identities=30% Similarity=0.796 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 016093 79 ETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK 138 (395)
Q Consensus 79 ~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK 138 (395)
..||.+|...|+.+...+-. ..|..||..|. .||+.+|+.+|.++.+
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 47999999999998876432 45999999986 7999999999998864
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=97.18 E-value=0.00051 Score=46.88 Aligned_cols=45 Identities=31% Similarity=0.855 Sum_probs=37.7
Q ss_pred CCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 016093 80 TWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL 137 (395)
Q Consensus 80 ~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLK 137 (395)
.||.+|...|+.+...+-. ..|..||..|.. ||+.||+.+|.+++
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 5999999999999886522 459999999853 99999999999873
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=95.05 E-value=0.036 Score=54.45 Aligned_cols=48 Identities=25% Similarity=0.632 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 016093 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL 137 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLK 137 (395)
...||.+|-..|+++...+- ..-|..||.+| |..|+++||+.+|.|..
T Consensus 25 Rg~WT~EEDe~L~~lV~kyG---------~~nW~~IAk~~---g~gRT~KQCReRW~N~L 72 (249)
T PLN03212 25 RGPWTVEEDEILVSFIKKEG---------EGRWRSLPKRA---GLLRCGKSCRLRWMNYL 72 (249)
T ss_pred CCCCCHHHHHHHHHHHHHhC---------cccHHHHHHhh---hcCCCcchHHHHHHHhh
Confidence 55899999999998776531 12499999875 46799999999999765
No 12
>PLN03091 hypothetical protein; Provisional
Probab=93.98 E-value=0.083 Score=55.68 Aligned_cols=49 Identities=22% Similarity=0.536 Sum_probs=38.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 016093 75 KKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRN 135 (395)
Q Consensus 75 skRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKN 135 (395)
+-|...||.+|-..|+++...+- ..-|..||..| |..|+++||+.+|.|
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 34456899999999998876531 13599999765 567999999999996
No 13
>PLN03091 hypothetical protein; Provisional
Probab=93.00 E-value=0.26 Score=52.13 Aligned_cols=57 Identities=23% Similarity=0.471 Sum_probs=45.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHh
Q 016093 73 APKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKT 143 (395)
Q Consensus 73 apskRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKi 143 (395)
.|.-....||.+|-..||+++..+ +.-|..||..|. .||..||+++|..+.+++.+.
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 344446799999999999988752 136999999883 599999999999988876553
No 14
>PLN03212 Transcription repressor MYB5; Provisional
Probab=92.50 E-value=0.32 Score=47.99 Aligned_cols=54 Identities=17% Similarity=0.428 Sum_probs=43.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Q 016093 73 APKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEF 140 (395)
Q Consensus 73 apskRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~Y 140 (395)
.|.-....||.+|-..||+++.. +. .-|..||..|. .||..||+++|.++.+..
T Consensus 73 ~P~I~kgpWT~EED~lLlel~~~----~G------nKWs~IAk~Lp----GRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 73 RPSVKRGGITSDEEDLILRLHRL----LG------NRWSLIAGRIP----GRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred chhcccCCCChHHHHHHHHHHHh----cc------ccHHHHHhhcC----CCCHHHHHHHHHHHHhHH
Confidence 45555679999999999988654 21 35999999883 499999999999988654
No 15
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=85.33 E-value=5.3 Score=33.88 Aligned_cols=66 Identities=15% Similarity=0.323 Sum_probs=47.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccC--CchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhccc
Q 016093 78 AETWVQDETRILIAFRREMDGLFNTSK--SNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKHQ 146 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~~F~~sk--rnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKiKd~ 146 (395)
...||.+.=..||+..-++...-.... --..+++.|...| .+..|..|..+|++.||+.|......
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l---~~~~s~~Ql~~KirrLK~Ky~~~~~k 71 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSL---SFDVSKNQLYDKIRRLKKKYRNAVKK 71 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHc---cCCCCHHHHHHHHHHHHHHHHHHhhh
Confidence 357999988888887776543322211 2245666666554 46789999999999999999998655
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=85.26 E-value=0.93 Score=48.71 Aligned_cols=48 Identities=19% Similarity=0.380 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 016093 77 RAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK 138 (395)
Q Consensus 77 Rg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK 138 (395)
-...||++||.+||+.-..+ ...|.+||.+.. .+|..||-.||-.|-.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y----------~ddW~kVa~hVg----~ks~eqCI~kFL~LPi 299 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMY----------GDDWNKVADHVG----TKSQEQCILKFLRLPI 299 (506)
T ss_pred CCCCccHHHHHHHHHHHHHh----------cccHHHHHhccC----CCCHHHHHHHHHhcCc
Confidence 35799999999999865532 357999999886 7999999999998863
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=80.17 E-value=2.9 Score=45.96 Aligned_cols=67 Identities=22% Similarity=0.376 Sum_probs=49.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHH-hhccc--------C--C-----chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 016093 76 KRAETWVQDETRILIAFRREMDG-LFNTS--------K--S-----NKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKE 139 (395)
Q Consensus 76 kRg~~WT~eET~lLIeLw~E~e~-~F~~s--------k--r-----nk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~ 139 (395)
.+...||.+|...||.+..++.. .++.. . . ..--|-.|++.|. .|+..||+-||..|...
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 34679999999999999987543 22210 1 1 2345999998544 69999999999999988
Q ss_pred HHHhccc
Q 016093 140 FKKTKHQ 146 (395)
Q Consensus 140 YKKiKd~ 146 (395)
+-..+.+
T Consensus 510 ~s~n~~~ 516 (607)
T KOG0051|consen 510 PSFNKRQ 516 (607)
T ss_pred HHhhccc
Confidence 7666544
No 18
>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=78.74 E-value=5.9 Score=37.05 Aligned_cols=60 Identities=15% Similarity=0.480 Sum_probs=47.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HHHHHh
Q 016093 76 KRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL-KEFKKT 143 (395)
Q Consensus 76 kRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLK-K~YKKi 143 (395)
.|-..||.+|-++|-++--. -.+.+...-..+++|+.+| +||+.-|.-+|+... ++|...
T Consensus 2 ~RQDAWT~eeDlLLAEtVLr---hIReG~TQL~AFeEvg~~L-----~RTsAACGFRWNs~VRkqY~~~ 62 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLR---HIREGSTQLSAFEEVGRAL-----NRTAAACGFRWNAYVRKQYEEA 62 (161)
T ss_pred ccccccccHHHHHHHHHHHH---HHhcchHHHHHHHHHHHHH-----cccHHHhcchHHHHHHHHHHHH
Confidence 46778999999998876654 3344455567899999998 699999999999876 468876
No 19
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=78.53 E-value=3.2 Score=44.58 Aligned_cols=49 Identities=16% Similarity=0.381 Sum_probs=40.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 016093 77 RAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKE 139 (395)
Q Consensus 77 Rg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~ 139 (395)
+..+|+.+|+.+||+....+ ..-|.+||.+.. .+|.+||-.||=+|-..
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 56699999999999866542 257999999875 79999999999988644
No 20
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=73.98 E-value=9.6 Score=35.89 Aligned_cols=61 Identities=16% Similarity=0.505 Sum_probs=45.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HHHHHh
Q 016093 75 KKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL-KEFKKT 143 (395)
Q Consensus 75 skRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLK-K~YKKi 143 (395)
+.|...||.++-++|-++.-+ ..+.+...-..++.++..| .||+.+|..+|.... ++|...
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---HIREGGTQLKAFEEVGDAL-----KRTAAACGFRWNSVVRKQYQEQ 63 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHH---HHhccchHHHHHHHHHHHH-----hhhHHHHHhHHHHHHHHHHHHH
Confidence 356778999999998666655 3444556678899999888 489999999996544 557664
No 21
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=73.31 E-value=3.3 Score=39.72 Aligned_cols=48 Identities=23% Similarity=0.419 Sum_probs=37.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 016093 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLL 137 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLK 137 (395)
...||.+|-..|+++...+=. .-|..|++.+ |-.|++++|+.+|-|=.
T Consensus 9 kGpWt~EED~~L~~~V~~~G~---------~~W~~i~k~~---gl~R~GKSCRlRW~NyL 56 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGK---------HNGTALPKLA---GLRRCGKSCRLRWTNYL 56 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCC---------CCcchhhhhc---CCCccchHHHHHhhccc
Confidence 469999999999988775321 1688888765 45899999999998743
No 22
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=72.62 E-value=8.3 Score=43.21 Aligned_cols=58 Identities=24% Similarity=0.484 Sum_probs=44.7
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 016093 72 RAPKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFK 141 (395)
Q Consensus 72 ~apskRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YK 141 (395)
..|+=+...|+.+|...|++|=.- .+..-|+.||..| |-+||.-||-.||+.-.+..+
T Consensus 247 l~P~~nk~~WS~EE~E~L~AiA~A---------~~~~~W~~IA~~L---gt~RS~yQC~~kF~t~~~~L~ 304 (939)
T KOG0049|consen 247 LNPKWNKEHWSNEEVEKLKALAEA---------PKFVSWPMIALNL---GTNRSSYQCMEKFKTEVSQLS 304 (939)
T ss_pred cCCccchhccChHHHHHHHHHHhc---------cccccHHHHHHHh---CCCcchHHHHHHHHHHHHHHH
Confidence 347777889999999888887542 3345699999765 779999999999987665433
No 23
>PRK09767 hypothetical protein; Provisional
Probab=69.45 E-value=4.4 Score=35.57 Aligned_cols=51 Identities=31% Similarity=0.603 Sum_probs=32.7
Q ss_pred cccCCCCcceEEecCCCceeEEee-cCCCCCcccccccceecchhhHH-HHHHhhccccce
Q 016093 313 IDRDMPVGNYTLHLDEGLTIKVCL-YDESDHISVHTEDKTFYTEEDYR-EFLARHGWTCLR 371 (395)
Q Consensus 313 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 371 (395)
.-|-.|+|.|++.+== ..-|||. ||...| .+. +..|--| .+|...||+.||
T Consensus 37 FrRQ~pig~yi~DF~c-~~~rLaIE~DG~~H----~~~---~~~D~~R~~~L~~~G~~VlR 89 (117)
T PRK09767 37 FRRQHPVGSYILDFAC-CSARVVVELDGGQH----DLA---VAYDTRRTSWLESQGWTVLR 89 (117)
T ss_pred eEecccccCeeeceec-cccCEEEEEeCccc----chh---HHHHHHHHHHHHHCCCEEEE
Confidence 4577999999975532 3344443 688655 222 2223333 599999999997
No 24
>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=67.32 E-value=13 Score=28.12 Aligned_cols=64 Identities=14% Similarity=0.215 Sum_probs=43.9
Q ss_pred EEEecCcceee--ecccCCHHHHHHHHHHhhcccccceeeccccchhhhhcccCCCCcceEEecCCCceeEE
Q 016093 265 ISVKCGDYTRR--IGIDGTPDAIKEAIKSAFGIRTKRAFWLEDEDQIVRCIDRDMPVGNYTLHLDEGLTIKV 334 (395)
Q Consensus 265 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (395)
|+|||+.-+.- +.-+-|...+|+.|...+++-..|--++-. . +.|+.+.+|+.|- +.+|-+|-|
T Consensus 3 i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~-g---~~l~d~~~L~~~~--i~~g~~l~v 68 (71)
T cd01812 3 VRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFK-G---KERDDAETLDMSG--VKDGSKVML 68 (71)
T ss_pred EEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeC-C---cccCccCcHHHcC--CCCCCEEEE
Confidence 67888865544 444568899999999999987766433332 3 3356678888885 466766654
No 25
>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=54.76 E-value=22 Score=29.92 Aligned_cols=34 Identities=26% Similarity=0.460 Sum_probs=30.2
Q ss_pred EEEEecCcceeeeccc-------CCHHHHHHHHHHhhcccc
Q 016093 264 VISVKCGDYTRRIGID-------GTPDAIKEAIKSAFGIRT 297 (395)
Q Consensus 264 ~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~ 297 (395)
||-|+||+-+|||.+. .+.+..++=|+..|.|-.
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~ 42 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSP 42 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCC
Confidence 7899999999999998 589999999999998743
No 26
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.01 E-value=27 Score=31.23 Aligned_cols=62 Identities=11% Similarity=0.154 Sum_probs=40.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHH--cCCCCCHHHHHHH--HHHHHHH
Q 016093 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMRE--KGFDRSPTMCTDK--WRNLLKE 139 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMae--kGY~RSaeQCr~K--WKNLKK~ 139 (395)
...=+.+++..-+.|.++.-+++....-+-..-+.=|+.|.+ .+|.+++.+.+.| |+|+|-.
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 334567788888888888666655443333334444566654 5788888888876 7888754
No 27
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=42.38 E-value=68 Score=24.06 Aligned_cols=58 Identities=22% Similarity=0.323 Sum_probs=39.8
Q ss_pred cceeeecccCCHHHHHHHHHHhhcccccceeeccccchhhhhcccCCCCcceEEecCCCceeEE
Q 016093 271 DYTRRIGIDGTPDAIKEAIKSAFGIRTKRAFWLEDEDQIVRCIDRDMPVGNYTLHLDEGLTIKV 334 (395)
Q Consensus 271 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (395)
.++-++.-+-|...+|+.|...+++-..+-=++-+ . +.|+-+.+|..| ++.+|-+|.+
T Consensus 12 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~-g---~~L~d~~~L~~~--~i~~~~~l~l 69 (72)
T cd01809 12 THTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYS-G---RVLKDDETLSEY--KVEDGHTIHL 69 (72)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEEC-C---EECCCcCcHHHC--CCCCCCEEEE
Confidence 45566677789999999999998875554322222 2 346778899988 4567766654
No 28
>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=39.96 E-value=53 Score=25.46 Aligned_cols=44 Identities=14% Similarity=0.256 Sum_probs=31.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHH---HHHHHHHHHcCCCC-CHHHHHHH
Q 016093 77 RAETWVQDETRILIAFRREMDGLFNTSKSNKHLW---EQISAKMREKGFDR-SPTMCTDK 132 (395)
Q Consensus 77 Rg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LW---EeISekMaekGY~R-SaeQCr~K 132 (395)
....||.+|-..+|+....+ .. .-| +.|++.|.. .+ |..||+.-
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~----G~-----g~~a~pk~I~~~~~~---~~lT~~qV~SH 49 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKL----GG-----PDWATPKRILELMVV---DGLTRDQVASH 49 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHh----CC-----CcccchHHHHHHcCC---CCCCHHHHHHH
Confidence 45689999999999888753 11 137 778777653 44 89999864
No 29
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=36.04 E-value=62 Score=36.32 Aligned_cols=169 Identities=12% Similarity=0.173 Sum_probs=94.9
Q ss_pred hhhccCCCCCCCC-CccCCCCC-----CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHH
Q 016093 57 QMILADSSGGEDH-EVRAPKKR-----AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCT 130 (395)
Q Consensus 57 ~~~~~~ssged~~-~~~apskR-----g~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr 130 (395)
+++++-+|-|-.. +.+++.+. ...||++|..++.....++-.. ++.|-+.|.++-...|-.|.+
T Consensus 61 p~~l~pss~ept~~~~k~~qk~Lkt~~ktaWt~~E~~~Ffdal~~~GKd----------Fe~VinaklKRrna~s~~~~K 130 (782)
T KOG4468|consen 61 PNLLSPSSIEPTQFPAKKPQKQLKTWAKTAWTHQEEESFFDALRQVGKD----------FEKVINAKLKRRNATSRVQSK 130 (782)
T ss_pred CCcCCccccCCcccccccchhhcccccccccchhhHHHHHHHHHHhccc----------HHHHHHHHHHhcccccchhhh
Confidence 6788777666554 23333322 3489999999988777664444 445555666655567788888
Q ss_pred HHHHHHHHHHHHhcccCC---CCC----C------------CCC-----cChHHHHHHHcc--ccccc-----ccccccc
Q 016093 131 DKWRNLLKEFKKTKHQDR---GSG----S------------AKM-----SYYKEIDEILKE--RSKNA-----QYKATSV 179 (395)
Q Consensus 131 ~KWKNLKK~YKKiKd~nk---gsG----~------------kkW-----pYFDEMDeILG~--rp~~~-----~~ksPs~ 179 (395)
+|.-+=...|+-+..+++ +.. + +.| .||..+.+|.=+ -+..+ ..+.|.-
T Consensus 131 tkdqvr~~yY~~~~~m~k~~F~~~l~~dAkel~tliNa~e~rrk~fl~ek~~~Klk~Lv~~Gqi~VR~~~k~I~iktp~c 210 (782)
T KOG4468|consen 131 TKDQVRHYYYRLVRRMNKLLFGPDLSLDAKELKTLINAAELRRKSFLLEKYSCKLKKLVLKGQIPVRRFKKFIEIKTPQC 210 (782)
T ss_pred hhHHHHHHHHHHHHHHHhhhcccccCcchhhHHHHhhHHHHHHHHHHHHHHHHHHHHHhhcceeeeeeccceeEecCCcc
Confidence 888888888888776554 110 0 011 356666665532 12122 2232322
Q ss_pred cCCccccccccccccCCCCCCCCCCCCccCCCCCCCccccccCCCCC-CcccchhhHHHhcC
Q 016093 180 ANSANKVDTFMQFSDKGFDDTSISFGPVEATGRPTLNLERRLDHDGH-PLAITTADAVAAAG 240 (395)
Q Consensus 180 s~Ss~KiD~~~q~~d~~~~dts~~f~pve~~gr~~ln~E~~lD~d~h-~~ai~~adavaa~g 240 (395)
.++-...+. +.++.=++--+.-++++-...+-.|+.+|+.-+ .+-+..++-|.--|
T Consensus 211 ----~alrR~~~~-k~~~~lP~~~~~~~~p~n~~~h~r~r~l~qnPfgr~il~~~~~v~kl~ 267 (782)
T KOG4468|consen 211 ----LALRRKSIR-KRTCQLPGENLSSASPGNISSHSRERGLDQNPFGRLILSDGQNVKKLG 267 (782)
T ss_pred ----HHHHHHHhh-hhhccCCccceeeecccccchhhhhhhhccCcceeEEecCchhHHHhc
Confidence 122222222 444553333344455666667778888877543 55566666666544
No 30
>cd02549 Peptidase_C39A A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=35.98 E-value=1.5e+02 Score=24.58 Aligned_cols=80 Identities=19% Similarity=0.353 Sum_probs=54.3
Q ss_pred CHHHHHHHHHHhhcccccceeeccccchhhhhcccCCCCcceEEecC-------CCceeEEeecCCCCCccccc---ccc
Q 016093 281 TPDAIKEAIKSAFGIRTKRAFWLEDEDQIVRCIDRDMPVGNYTLHLD-------EGLTIKVCLYDESDHISVHT---EDK 350 (395)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~---~~~ 350 (395)
++..|.+++-..+||+.+. +.....|.+.|+...|+ .++++ .|=.+-|.-||+.+.+.++- ++.
T Consensus 45 ~~~~l~~~~a~~~G~~~~~---~~~~~~~~~~l~~~~Pv---i~~~~~~~~~~~~gH~vVv~g~~~~~~~~i~DP~~~~~ 118 (141)
T cd02549 45 YPKPIVSAAARKYGLVVRP---LTGLLALLRQLAAGHPV---IVSVNLGVSITPSGHAMVVIGYDRKGNVYVNDPGGGRR 118 (141)
T ss_pred CHHHHHHHHHhhCCCcEEE---CCCHHHHHHHHHCCCeE---EEEEecCcccCCCCeEEEEEEEcCCCCEEEECCCCCcC
Confidence 3677888834489998763 33333377889999997 44444 45566666688545555554 445
Q ss_pred eecchhhHHHHHHhhc
Q 016093 351 TFYTEEDYREFLARHG 366 (395)
Q Consensus 351 ~~~~~~~~~~~~~~~~ 366 (395)
..++.++|...-+.+|
T Consensus 119 ~~~~~~~f~~~w~~~~ 134 (141)
T cd02549 119 LVVSFDEFEKAWKRMG 134 (141)
T ss_pred EEEeHHHHHHHHHHcC
Confidence 5899999999988888
No 31
>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=35.70 E-value=27 Score=34.12 Aligned_cols=52 Identities=17% Similarity=0.441 Sum_probs=40.1
Q ss_pred CCHHHHHHHHHHhhcccccceeeccccchhhh----------hcccCCCCcceEEe---cCCCce
Q 016093 280 GTPDAIKEAIKSAFGIRTKRAFWLEDEDQIVR----------CIDRDMPVGNYTLH---LDEGLT 331 (395)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~---~~~~~~ 331 (395)
..++...+-..+..+||.+...|.+++.+|-- .|--+||.|+|+++ +.+|--
T Consensus 120 ~~~~~~~~f~~alirlk~~~gLY~~~~~~V~~~~~~lFra~i~LPanvp~G~Y~v~v~l~rdG~v 184 (236)
T PF09608_consen 120 SDPDEQDDFREALIRLKERAGLYQENEGGVQFLEGTLFRARIPLPANVPPGDYTVRVYLFRDGQV 184 (236)
T ss_pred CChhhHHHHHHHHHHHHHhCCCceecCCeEEEcCCCeEEEEeEcCCCCCcceEEEEEEEEECCEE
Confidence 45666667778889999999999999987752 35678999999875 466643
No 32
>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=35.17 E-value=1.5e+02 Score=22.61 Aligned_cols=62 Identities=8% Similarity=0.146 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcc
Q 016093 83 QDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKTKH 145 (395)
Q Consensus 83 ~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKKiKd 145 (395)
.+++..++.-...+...+......-..=...+..|...+ .-....++.+..+|...|..+..
T Consensus 33 ~~~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~~~-~~~~~~i~~~~~~l~~~w~~l~~ 94 (105)
T PF00435_consen 33 LEELEEQLKKHKELQEEIESRQERLESLNEQAQQLIDSG-PEDSDEIQEKLEELNQRWEALCE 94 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HTTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence 567788888777777777665444455557777775555 56778999999999998888754
No 33
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=32.79 E-value=1.3e+02 Score=28.85 Aligned_cols=57 Identities=16% Similarity=0.431 Sum_probs=41.7
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHHHHHhc
Q 016093 74 PKKRAETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNL-LKEFKKTK 144 (395)
Q Consensus 74 pskRg~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNL-KK~YKKiK 144 (395)
|.=+...||.+|..++|++...+-++ |..||..|- -||....++=|..- ||++++..
T Consensus 58 P~ikrg~fT~eEe~~Ii~lH~~~GNr----------Ws~IA~~LP----GRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 58 PDLKRGNFSDEEEDLIIKLHALLGNR----------WSLIAGRLP----GRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred CCccCCCCCHHHHHHHHHHHHHHCcH----------HHHHHhhCC----CcCHHHHHHHHHHHHHHHHHHcC
Confidence 44446699999999999988753222 999999985 38888888888643 55555543
No 34
>PRK12354 carbamate kinase; Reviewed
Probab=32.55 E-value=53 Score=33.47 Aligned_cols=46 Identities=26% Similarity=0.349 Sum_probs=35.8
Q ss_pred eecCCCCC-cccccc-cceecchhhHHHHHHhhccccceeccCccccc
Q 016093 335 CLYDESDH-ISVHTE-DKTFYTEEDYREFLARHGWTCLREFDGYRNVD 380 (395)
Q Consensus 335 ~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 380 (395)
++.|..|. .+..|- =-.|||||.-+.....+||+....=+|||-|-
T Consensus 107 ~~Vd~~dpAf~~ptKpiG~~y~~~~a~~~~~e~g~~~~~dg~g~rrVv 154 (307)
T PRK12354 107 VEVDANDPAFANPTKPIGPVYDEAEAERLAAEKGWTIKPDGDYFRRVV 154 (307)
T ss_pred EEEcCCCCccCCCCCCcCcccCHHHHHHHHHhcCCEEeecCCceEEEe
Confidence 45677776 555553 34699999999999999999988866888764
No 35
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=30.93 E-value=94 Score=25.23 Aligned_cols=60 Identities=27% Similarity=0.443 Sum_probs=44.1
Q ss_pred ceeeecccCCHHHHHHHHHHhhcc--cccceeeccccch-hhhhc-ccCCCCcceEEecCCCceeEE
Q 016093 272 YTRRIGIDGTPDAIKEAIKSAFGI--RTKRAFWLEDEDQ-IVRCI-DRDMPVGNYTLHLDEGLTIKV 334 (395)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~ 334 (395)
.+||+.-+-|-..+|+-|-..||+ .+-|= .|.|.++ .|-.| |-+.+||.|- +.+|.+|.|
T Consensus 15 ~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL-~l~~~~~~~~~~l~~d~~~L~~y~--~~dg~~IhV 78 (84)
T cd01789 15 FEKKYSRGLTIAELKKKLELVVGTPASSMRL-QLFDGDDKLVSKLDDDDALLGSYP--VDDGCRIHV 78 (84)
T ss_pred eeEecCCCCcHHHHHHHHHHHHCCCccceEE-EEEcCCCCeEeecCCCccEeeecc--CCCCCEEEE
Confidence 568999999999999999999997 23332 3344443 33335 6678899995 789999987
No 36
>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=29.34 E-value=40 Score=34.69 Aligned_cols=36 Identities=31% Similarity=0.481 Sum_probs=27.8
Q ss_pred ceEEEEecCccee-eecccCCHHHHHHHHHHhh----------ccccccee
Q 016093 262 GKVISVKCGDYTR-RIGIDGTPDAIKEAIKSAF----------GIRTKRAF 301 (395)
Q Consensus 262 g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~----------~~~~~~~~ 301 (395)
|.--++.||.++| || |..++|.|||.+| ++||||.+
T Consensus 22 G~PKta~~GG~~R~RV----SSQs~KRa~R~~~~~~~~~~~~~g~RTr~l~ 68 (325)
T TIGR01869 22 GAPKTAVYGGSTRTRV----SSQCLKRAWRLSAHDHEALAGHGGIRSRRLA 68 (325)
T ss_pred CCCceeeECCEeecee----cHHHHHHHHHHhhhhhhhcCccccccHHHHH
Confidence 5556677777766 44 8999999999876 58999875
No 37
>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=29.08 E-value=1.2e+02 Score=23.58 Aligned_cols=32 Identities=19% Similarity=0.509 Sum_probs=26.6
Q ss_pred EEEEecCcceeeecccC--CHHHHHHHHHHhhcc
Q 016093 264 VISVKCGDYTRRIGIDG--TPDAIKEAIKSAFGI 295 (395)
Q Consensus 264 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~ 295 (395)
.+.|.||+-+||+-+.. |-+.+...|...|++
T Consensus 3 ~vK~~~~~~~~~~~~~~~~s~~dL~~~i~~~~~~ 36 (81)
T smart00666 3 DVKLRYGGETRRLSVPRDISFEDLRSKVAKRFGL 36 (81)
T ss_pred cEEEEECCEEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 35678899999998864 778999999999984
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=28.84 E-value=1.1e+02 Score=23.59 Aligned_cols=32 Identities=25% Similarity=0.404 Sum_probs=27.1
Q ss_pred EEEEecCcceeeeccc---CCHHHHHHHHHHhhcc
Q 016093 264 VISVKCGDYTRRIGID---GTPDAIKEAIKSAFGI 295 (395)
Q Consensus 264 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~ 295 (395)
++.|.|++-++||=+. -|-+.+++.|...|++
T Consensus 2 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~ 36 (81)
T cd05992 2 RVKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGL 36 (81)
T ss_pred cEEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCC
Confidence 4678898888888876 6789999999999986
No 39
>cd01236 PH_outspread Outspread Pleckstrin homology (PH) domain. Outspread Pleckstrin homology (PH) domain. Outspread contains two PH domains and a C-terminal coiled-coil region. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=27.02 E-value=1.1e+02 Score=26.28 Aligned_cols=45 Identities=20% Similarity=0.356 Sum_probs=33.8
Q ss_pred CCCCcceEEecCCCceeEEeecCCC---CCcccccccceec----chhhHHHHHH
Q 016093 316 DMPVGNYTLHLDEGLTIKVCLYDES---DHISVHTEDKTFY----TEEDYREFLA 363 (395)
Q Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~----~~~~~~~~~~ 363 (395)
.-|.|. +.|..+..|+-+. |.. .-+.+.|.++||| ||++..+++.
T Consensus 47 ~~p~G~--IdL~~~~~V~~~~-~~~~~~~~f~I~tp~R~f~l~Aete~E~~~Wi~ 98 (104)
T cd01236 47 TLPQGT--IDMNQCTDVVDAE-ARTGQKFSICILTPDKEHFIKAETKEEISWWLN 98 (104)
T ss_pred cccceE--EEccceEEEeecc-cccCCccEEEEECCCceEEEEeCCHHHHHHHHH
Confidence 368885 7788888887654 222 2488999999999 8888888764
No 40
>cd01038 Endonuclease_DUF559 Domain of unknown function, appears to be related to a diverse group of endonucleases.
Probab=26.39 E-value=96 Score=26.12 Aligned_cols=47 Identities=26% Similarity=0.542 Sum_probs=27.1
Q ss_pred CCCCcceEEecCCCc-eeEEee-cCCCCCcccccccceecchhhHH-HHHHhhccccce
Q 016093 316 DMPVGNYTLHLDEGL-TIKVCL-YDESDHISVHTEDKTFYTEEDYR-EFLARHGWTCLR 371 (395)
Q Consensus 316 ~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 371 (395)
..|+|.|.+.+ ++ .-||+. ||... |.... ..|-.| .+|..+||+.||
T Consensus 37 q~~i~~~~vD~--~~~~~kl~IE~DG~~----H~~~~---~~D~~R~~~L~~~Gw~vlR 86 (108)
T cd01038 37 QAPIGRYIVDF--ACPEAKLVVELDGGQ----HDEQI---AYDAERDAWLEARGFRVLR 86 (108)
T ss_pred ccCCCCcEeee--EccccCEEEEEeCcc----cCchH---HHHHHHHHHHHHCCCEEEE
Confidence 34567776544 21 234444 78763 44332 223332 588999999997
No 41
>cd04041 C2A_fungal C2 domain first repeat; fungal group. C2 domains were first identified in Protein Kinase C (PKC). C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such as synaptotagmin 1. However, there are a few exceptions to this including RIM isoforms and some splice variants of piccolo/aczonin and intersectin which only have a single C2 domain. C2 domains with a calcium binding region have negatively charged residues, primarily aspartates, that serve as ligan
Probab=24.51 E-value=70 Score=26.39 Aligned_cols=18 Identities=28% Similarity=0.553 Sum_probs=15.5
Q ss_pred hHHHHHHhhccccceecc
Q 016093 357 DYREFLARHGWTCLREFD 374 (395)
Q Consensus 357 ~~~~~~~~~~~~~~~~~~ 374 (395)
.+.+++..++|+.|||+|
T Consensus 93 ~l~~l~~~~~~~~~~~~~ 110 (111)
T cd04041 93 DLKELIEDRNWMGRREDG 110 (111)
T ss_pred EHHHHhcCCCCCcccccC
Confidence 468889999999999875
No 42
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=24.44 E-value=74 Score=29.39 Aligned_cols=37 Identities=19% Similarity=0.321 Sum_probs=26.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHH
Q 016093 79 ETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTM 128 (395)
Q Consensus 79 ~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQ 128 (395)
+.||++.+..|-++|.+- .--.+|++.|. |+.|++..
T Consensus 1 M~Wtde~~~~L~~lw~~G-----------~SasqIA~~lg--~vsRnAVi 37 (162)
T PF07750_consen 1 MSWTDERVERLRKLWAEG-----------LSASQIARQLG--GVSRNAVI 37 (162)
T ss_pred CCCCHHHHHHHHHHHHcC-----------CCHHHHHHHhC--Ccchhhhh
Confidence 579999999999999871 12345666665 46666655
No 43
>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=24.03 E-value=1.4e+02 Score=26.16 Aligned_cols=56 Identities=13% Similarity=0.196 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHH-cC-CCCCHHHHHHHHHHHHHHH
Q 016093 84 DETRILIAFRREMDGLFNTSKSNKHLWEQISAKMRE-KG-FDRSPTMCTDKWRNLLKEF 140 (395)
Q Consensus 84 eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMae-kG-Y~RSaeQCr~KWKNLKK~Y 140 (395)
=||.++++-.-..-+.+.. .....+|+.++.+|.+ +- ...+..+++..+....+.+
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 4899988877776666665 5677999999988875 11 2357777777766655544
No 44
>PF03353 Lin-8: Ras-mediated vulval-induction antagonist; InterPro: IPR005020 This is a family of Caenorhabditis elegans proteins of unknown function.
Probab=23.87 E-value=1.8e+02 Score=28.87 Aligned_cols=64 Identities=11% Similarity=0.234 Sum_probs=46.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHhh-cccCCchHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHH
Q 016093 79 ETWVQDETRILIAFRREMDGLF-NTSKSNKHLWEQISAKMRE-KGFDRSPTMCTDKWRNLLKEFKK 142 (395)
Q Consensus 79 ~~WT~eET~lLIeLw~E~e~~F-~~skrnk~LWEeISekMae-kGY~RSaeQCr~KWKNLKK~YKK 142 (395)
..|...-.+++|.+.++.-... ..++.....|+.|+-.+-. .|.-.+..+++.=|++.|...++
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 3455555556666666543322 4445678899999988855 69999999999999999987655
No 45
>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=23.87 E-value=42 Score=24.91 Aligned_cols=11 Identities=45% Similarity=1.050 Sum_probs=7.6
Q ss_pred CCCCcceEEec
Q 016093 316 DMPVGNYTLHL 326 (395)
Q Consensus 316 ~~~~~~~~~~~ 326 (395)
.+|.|+|+|++
T Consensus 35 ~L~~G~Y~l~V 45 (66)
T PF07495_consen 35 NLPPGKYTLEV 45 (66)
T ss_dssp S--SEEEEEEE
T ss_pred eCCCEEEEEEE
Confidence 47999999976
No 46
>PF14769 CLAMP: Flagellar C1a complex subunit C1a-32
Probab=23.69 E-value=4.4e+02 Score=22.04 Aligned_cols=63 Identities=6% Similarity=0.074 Sum_probs=50.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHH-hhcccCCchHHHHHHHHHHHHcCCC--------CCHHHHHHHHHHHHHHH
Q 016093 78 AETWVQDETRILIAFRREMDG-LFNTSKSNKHLWEQISAKMREKGFD--------RSPTMCTDKWRNLLKEF 140 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~-~F~~skrnk~LWEeISekMaekGY~--------RSaeQCr~KWKNLKK~Y 140 (395)
....+.++|.+++.|-.+... .+.....-.+.++..-+.|...+.. .|..||+.=.+-+...|
T Consensus 9 ~~~fs~~q~s~~~~i~~~ll~~~i~~~~~~~~~~~~fk~~l~~~sv~rpp~~~~iFs~~~~~~i~~y~~~t~ 80 (101)
T PF14769_consen 9 EQGFSWEQTSAFLSILKELLEKNIEKGMSLEDSFKYFKELLLRHSVQRPPFSIGIFSVDQVKAIIDYFHNTY 80 (101)
T ss_pred hCCCCHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHhccCCCCcccCcCCHHHHHHHHHHHHHHH
Confidence 456788899999999998665 5554446778899999999998888 78899998888887774
No 47
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=22.97 E-value=1.2e+02 Score=25.60 Aligned_cols=46 Identities=15% Similarity=0.063 Sum_probs=29.1
Q ss_pred CCCCcceEEecCCCceeEEeec---CCCCCcccccccceec----chhhHHHHHH
Q 016093 316 DMPVGNYTLHLDEGLTIKVCLY---DESDHISVHTEDKTFY----TEEDYREFLA 363 (395)
Q Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~----~~~~~~~~~~ 363 (395)
+-|.|+ +.|..-..+..|-- +...-+.|-|.++||| +|++-.+++.
T Consensus 41 ~~~~g~--I~L~~i~~ve~v~~~~~~~~~~fqivt~~r~~yi~a~s~~E~~~Wi~ 93 (98)
T cd01244 41 CKKSAL--IKLAAIKGTEPLSDKSFVNVDIITIVCEDDTMQLQFEAPVEATDWLN 93 (98)
T ss_pred Cceeee--EEccceEEEEEcCCcccCCCceEEEEeCCCeEEEECCCHHHHHHHHH
Confidence 466664 45555555554432 2223478888999999 6777777764
No 48
>PHA03092 semaphorin-like protein; Provisional
Probab=22.54 E-value=40 Score=30.42 Aligned_cols=25 Identities=36% Similarity=0.731 Sum_probs=19.6
Q ss_pred ecccCCHHHHHHHHHHhhcccccceeecc
Q 016093 276 IGIDGTPDAIKEAIKSAFGIRTKRAFWLE 304 (395)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 304 (395)
--|||+-. +||-||.-|+-|-+|++
T Consensus 87 wkidgsdn----tIK~sf~hr~yriYfIk 111 (134)
T PHA03092 87 WKIDGSDN----TIKRSFGHRPYRIYFIK 111 (134)
T ss_pred EEEcCccc----hhhhhhccccccEEEEE
Confidence 34788854 56667999999999996
No 49
>PRK12454 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed
Probab=22.17 E-value=55 Score=33.45 Aligned_cols=29 Identities=31% Similarity=0.721 Sum_probs=23.9
Q ss_pred eecchhhHHHHHHhhcccccee-ccCcccc
Q 016093 351 TFYTEEDYREFLARHGWTCLRE-FDGYRNV 379 (395)
Q Consensus 351 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 379 (395)
.||+||+-+....++||+.... =.|||-|
T Consensus 134 ~~y~~~~a~~~~~~~g~~~~~d~g~g~Rrv 163 (313)
T PRK12454 134 PFYDEEEAKKLAKEKGWIVKEDAGRGWRRV 163 (313)
T ss_pred CCcCHHHHHHHHHHcCCEEEEcCCCceEEE
Confidence 4999999999999999987755 3578754
No 50
>COG2852 Very-short-patch-repair endonuclease [Replication, recombination, and repair]
Probab=22.12 E-value=91 Score=28.45 Aligned_cols=50 Identities=34% Similarity=0.637 Sum_probs=32.4
Q ss_pred ccCCCCcceEE---ecCCCceeEEeecCCCCCcccccccceecchhhHHHHHHhhcccccee
Q 016093 314 DRDMPVGNYTL---HLDEGLTIKVCLYDESDHISVHTEDKTFYTEEDYREFLARHGWTCLRE 372 (395)
Q Consensus 314 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 372 (395)
-|--|+|.|++ |.+.-|-|.+ |.+-| ++..=|..+ =-.||..+||+-||=
T Consensus 48 rRQ~~ig~yivDF~c~~~klIvEl---DG~qH-----~~~~~~Da~-Rd~~L~~~G~~VLRf 100 (129)
T COG2852 48 RRQQPIGRYIVDFACRDAKLIVEL---DGGQH-----EEREEYDAE-RDAFLESQGFTVLRF 100 (129)
T ss_pred EEeeeccCEEEEEEcCCccEEEEe---cCccc-----hhhhhhhHH-HHHHHHhCCceEEEe
Confidence 47789999986 5566666655 77754 222222111 125999999999983
No 51
>PRK12686 carbamate kinase; Reviewed
Probab=21.81 E-value=55 Score=33.37 Aligned_cols=31 Identities=35% Similarity=0.510 Sum_probs=23.5
Q ss_pred cceecchhhHHHHHHhhccccceec-cCcccc
Q 016093 349 DKTFYTEEDYREFLARHGWTCLREF-DGYRNV 379 (395)
Q Consensus 349 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 379 (395)
--.|||+++-+..-.++||+..... .|||-|
T Consensus 130 ig~~~~~~~a~~~~~~~g~~~~~d~~~G~rrv 161 (312)
T PRK12686 130 IGPFYTEEEAKQQAEQPGSTFKEDAGRGYRRV 161 (312)
T ss_pred ccCccCHHHHHHHHHHcCCcccccCCCCeEEe
Confidence 3469999999996667799877664 389753
No 52
>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=21.18 E-value=3.3e+02 Score=19.68 Aligned_cols=54 Identities=13% Similarity=0.254 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 016093 78 AETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKK 142 (395)
Q Consensus 78 g~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK~YKK 142 (395)
...+|.+.+..|-+.|.. +.......-+.||..| ..+..|...-|.|=+..+|+
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 457888888888887774 3346667788888887 68999999999998888775
No 53
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=20.89 E-value=1.2e+02 Score=33.96 Aligned_cols=45 Identities=29% Similarity=0.672 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhcccCCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 016093 79 ETWVQDETRILIAFRREMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLK 138 (395)
Q Consensus 79 ~~WT~eET~lLIeLw~E~e~~F~~skrnk~LWEeISekMaekGY~RSaeQCr~KWKNLKK 138 (395)
..||.+|+..|-.+-.+ .+.-|.+|...|. |.+..|+.+|++...
T Consensus 385 g~wt~ee~eeL~~l~~~----------~g~~W~~Ig~~lg-----r~P~~crd~wr~~~~ 429 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVE----------HGNDWKEIGKALG-----RMPMDCRDRWRQYVK 429 (607)
T ss_pred CCCCcchHHHHHHHHHH----------hcccHHHHHHHHc-----cCcHHHHHHHHHhhc
Confidence 47887777666554443 2356999999884 899999999997654
No 54
>PRK09411 carbamate kinase; Reviewed
Probab=20.15 E-value=63 Score=32.91 Aligned_cols=29 Identities=28% Similarity=0.417 Sum_probs=25.9
Q ss_pred eecchhhHHHHHHhhccccceeccCcccc
Q 016093 351 TFYTEEDYREFLARHGWTCLREFDGYRNV 379 (395)
Q Consensus 351 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 379 (395)
.||+++.-......+||+....=+|||-|
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
Done!