Query psy14051
Match_columns 256
No_of_seqs 137 out of 223
Neff 3.1
Searched_HMMs 46136
Date Fri Aug 16 18:20:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14051.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14051hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3802|consensus 100.0 5.9E-56 1.3E-60 418.3 6.5 132 2-167 200-333 (398)
2 PF00157 Pou: Pou domain - N-t 100.0 1.7E-35 3.6E-40 226.2 5.5 75 2-110 1-75 (75)
3 KOG1168|consensus 100.0 5E-35 1.1E-39 270.9 5.9 128 4-166 213-347 (385)
4 smart00352 POU Found in Pit-Oc 100.0 1.1E-29 2.3E-34 194.3 6.4 75 2-110 1-75 (75)
5 TIGR01565 homeo_ZF_HD homeobox 97.3 7.4E-05 1.6E-09 55.0 0.6 40 128-167 1-44 (58)
6 PF00046 Homeobox: Homeobox do 97.2 4.8E-05 1E-09 52.5 -1.2 38 129-166 1-38 (57)
7 smart00389 HOX Homeodomain. DN 97.0 0.00017 3.6E-09 49.1 0.3 38 129-166 1-38 (56)
8 cd00086 homeodomain Homeodomai 96.9 0.00027 5.8E-09 48.1 0.3 38 129-166 1-38 (59)
9 PF13560 HTH_31: Helix-turn-he 95.6 0.011 2.4E-07 41.9 2.8 33 12-50 1-33 (64)
10 KOG0488|consensus 95.3 0.0046 1E-07 57.9 0.1 42 126-167 170-211 (309)
11 KOG2251|consensus 94.7 0.01 2.3E-07 54.3 0.5 43 124-166 32-75 (228)
12 COG5576 Homeodomain-containing 93.7 0.043 9.3E-07 47.2 2.2 64 103-166 26-89 (156)
13 TIGR03070 couple_hipB transcri 93.4 0.13 2.8E-06 34.3 3.7 33 12-50 2-34 (58)
14 KOG0842|consensus 92.7 0.056 1.2E-06 51.3 1.5 41 126-166 151-191 (307)
15 KOG0843|consensus 92.4 0.045 9.7E-07 49.3 0.5 40 128-167 102-141 (197)
16 KOG0850|consensus 91.9 0.071 1.5E-06 49.4 1.2 42 126-167 119-161 (245)
17 KOG0485|consensus 90.6 0.078 1.7E-06 49.2 0.1 42 126-167 102-143 (268)
18 TIGR00270 conserved hypothetic 88.8 0.81 1.7E-05 39.2 4.9 35 10-50 67-101 (154)
19 PHA01976 helix-turn-helix prot 88.3 0.97 2.1E-05 31.7 4.3 33 12-50 2-34 (67)
20 KOG2252|consensus 87.8 0.32 6.9E-06 49.6 2.1 41 127-167 419-459 (558)
21 TIGR03830 CxxCG_CxxCG_HTH puta 87.6 1.1 2.3E-05 35.0 4.5 30 15-50 68-97 (127)
22 PRK06424 transcription factor; 87.4 0.83 1.8E-05 38.9 4.0 37 8-50 80-116 (144)
23 KOG0491|consensus 86.8 0.1 2.2E-06 46.7 -1.8 43 125-167 97-139 (194)
24 KOG0489|consensus 85.6 0.41 8.9E-06 43.6 1.4 42 126-167 157-198 (261)
25 PRK09943 DNA-binding transcrip 84.9 1.6 3.5E-05 36.7 4.6 37 8-50 3-39 (185)
26 KOG0494|consensus 84.6 0.43 9.3E-06 45.5 1.1 40 127-166 139-179 (332)
27 TIGR01321 TrpR trp operon repr 81.8 3.7 8E-05 33.2 5.2 40 5-50 33-74 (94)
28 KOG0849|consensus 80.9 0.94 2E-05 43.2 1.9 42 126-167 174-215 (354)
29 PRK09726 antitoxin HipB; Provi 80.3 3.4 7.4E-05 31.3 4.4 35 10-50 10-44 (88)
30 KOG0490|consensus 79.9 1.3 2.7E-05 37.5 2.1 42 126-167 58-99 (235)
31 KOG0486|consensus 78.0 1.2 2.5E-05 43.3 1.5 41 127-167 111-151 (351)
32 PRK09706 transcriptional repre 78.0 4.4 9.6E-05 32.7 4.6 34 11-50 4-37 (135)
33 PF13744 HTH_37: Helix-turn-he 77.4 4.7 0.0001 30.2 4.3 33 12-50 18-50 (80)
34 KOG0492|consensus 77.2 1.1 2.3E-05 41.7 0.9 39 129-167 145-183 (246)
35 COG3620 Predicted transcriptio 76.6 4.1 8.8E-05 36.7 4.4 55 15-111 8-62 (187)
36 PHA00542 putative Cro-like pro 76.3 4.8 0.0001 30.6 4.2 27 18-50 24-50 (82)
37 PF12844 HTH_19: Helix-turn-he 75.4 4.3 9.2E-05 28.2 3.4 30 15-50 2-31 (64)
38 PRK10856 cytoskeletal protein 72.0 19 0.00041 34.3 7.8 36 9-50 11-46 (331)
39 TIGR02612 mob_myst_A mobile my 70.2 5.1 0.00011 34.3 3.3 29 16-50 29-57 (150)
40 PF01381 HTH_3: Helix-turn-hel 69.1 8 0.00017 25.9 3.5 27 18-50 2-28 (55)
41 KOG0484|consensus 68.9 1.2 2.7E-05 37.6 -0.6 39 128-166 17-55 (125)
42 KOG0774|consensus 68.0 1.2 2.5E-05 42.7 -1.1 78 90-167 147-230 (334)
43 PRK10072 putative transcriptio 66.8 9.3 0.0002 30.5 4.0 31 14-50 35-65 (96)
44 PRK08154 anaerobic benzoate ca 62.3 11 0.00024 34.6 4.2 35 10-50 26-60 (309)
45 COG1476 Predicted transcriptio 61.7 5.4 0.00012 30.6 1.7 23 16-38 5-27 (68)
46 PRK08359 transcription factor; 61.0 16 0.00035 32.3 4.8 37 8-50 81-117 (176)
47 PRK13890 conjugal transfer pro 53.8 24 0.00051 28.7 4.3 33 12-50 5-37 (120)
48 PRK04140 hypothetical protein; 53.4 19 0.0004 34.4 4.1 31 14-50 128-158 (317)
49 TIGR02607 antidote_HigA addict 51.6 48 0.001 23.6 5.2 31 14-50 6-37 (78)
50 cd00093 HTH_XRE Helix-turn-hel 50.4 28 0.0006 21.2 3.4 22 16-37 3-24 (58)
51 PRK13355 bifunctional HTH-doma 47.7 31 0.00066 33.6 4.7 39 11-50 2-40 (517)
52 KOG0898|consensus 44.9 18 0.00039 31.8 2.4 47 4-50 26-116 (152)
53 PF01371 Trp_repressor: Trp re 44.0 36 0.00079 27.0 3.8 39 6-50 28-68 (87)
54 PF11774 Lsr2: Lsr2 ; InterPr 42.5 15 0.00033 30.0 1.5 26 87-112 32-57 (110)
55 PF01316 Arg_repressor: Argini 41.9 15 0.00033 27.9 1.4 29 18-50 15-43 (70)
56 TIGR01529 argR_whole arginine 38.2 18 0.0004 30.5 1.4 24 26-50 17-40 (146)
57 PRK13698 plasmid-partitioning 38.2 61 0.0013 31.4 5.0 56 23-104 174-230 (323)
58 KOG0850|consensus 37.2 19 0.0004 33.9 1.4 9 23-31 158-166 (245)
59 KOG0775|consensus 37.1 36 0.00078 32.9 3.3 80 85-166 122-214 (304)
60 COG1426 Predicted transcriptio 35.0 21 0.00045 33.3 1.4 27 11-37 2-28 (284)
61 PF01710 HTH_Tnp_IS630: Transp 33.0 49 0.0011 26.5 3.0 34 5-50 57-90 (119)
62 KOG0844|consensus 32.7 15 0.00033 36.1 0.1 40 128-167 181-220 (408)
63 PF10691 DUF2497: Protein of u 31.4 31 0.00068 26.6 1.6 11 98-108 43-53 (73)
64 PF10926 DUF2800: Protein of u 28.6 1.5E+02 0.0032 29.1 6.0 60 85-145 243-315 (372)
65 PF13565 HTH_32: Homeodomain-l 28.5 86 0.0019 22.3 3.4 41 8-50 33-75 (77)
66 PHA02591 hypothetical protein; 28.4 52 0.0011 26.5 2.4 35 6-50 44-78 (83)
67 PRK01381 Trp operon repressor; 26.4 1.6E+02 0.0034 24.3 4.9 40 5-50 33-74 (99)
68 KOG4577|consensus 26.4 39 0.00085 33.1 1.7 41 125-165 164-204 (383)
69 TIGR03764 ICE_PFGI_1_parB inte 25.6 86 0.0019 29.6 3.7 27 23-50 134-160 (258)
70 PF00872 Transposase_mut: Tran 25.5 45 0.00098 31.8 1.9 26 25-50 114-140 (381)
71 PF13613 HTH_Tnp_4: Helix-turn 25.0 39 0.00084 23.5 1.0 27 19-51 13-39 (53)
72 COG1396 HipB Predicted transcr 22.4 85 0.0018 20.2 2.3 25 13-37 2-26 (120)
No 1
>KOG3802|consensus
Probab=100.00 E-value=5.9e-56 Score=418.33 Aligned_cols=132 Identities=32% Similarity=0.458 Sum_probs=127.2
Q ss_pred CCCCChHHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy14051 2 VDGINLDEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICSALATQMLCAAQIASQQQQQQQQQHQQQQQQQ 81 (256)
Q Consensus 2 vd~~~l~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (256)
.|++|+||||+|||.||+|||+|||||+|||+|||++||++||||||||
T Consensus 200 ed~~~leELEqFAK~FKqRRIkLGfTQaDVGlALG~lyGn~FSQTTIcR------------------------------- 248 (398)
T KOG3802|consen 200 EDTPDLEELEQFAKTFKQRRIKLGFTQADVGLALGALYGNVFSQTTICR------------------------------- 248 (398)
T ss_pred ccccCHHHHHHHHHHHHhheeccccchhHHHHHHHhhhCcccchhhhhH-------------------------------
Confidence 5899999999999999999999999999999999999999999999999
Q ss_pred hhchhcccCChhhhhhhhHHHHHHHHHHHHhhhcC--CCCCCCCCcccccCCCcccchhhHhhhHHhhccCCCCCccccc
Q psy14051 82 NTMFEKLDITPKSAQKIKPVLERWMKEAEERQVMS--NMPGIISPPLISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRT 159 (256)
Q Consensus 82 ~~~FEkLdls~kna~KlkPvLekWL~EAE~~~~~g--n~~~~i~~~~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT 159 (256)
||+|+|||||||||||+|+|||+|||.++..| +..++|+...|||||||+|++.+|..||+||.+|||||++||+
T Consensus 249 ---FEALqLSFKNMCKLKPLL~KWLeEAes~~~~~~~~~~e~i~a~~RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt 325 (398)
T KOG3802|consen 249 ---FEALQLSFKNMCKLKPLLEKWLEEAESRESTGSPNSIEKIGAQSRKRKKRTSIEVNVRGALEKHFLKNPKPTSQEIT 325 (398)
T ss_pred ---hHhhccCHHHHhhhHHHHHHHHHHHhcccccCCCCCHHHhhccccccccccceeHHHHHHHHHHHHhCCCCCHHHHH
Confidence 99999999999999999999999999976655 6788899889999999999999999999999999999999999
Q ss_pred cCCCCCCC
Q psy14051 160 DLKNPSAG 167 (256)
Q Consensus 160 ~LAe~Lns 167 (256)
+||++|+-
T Consensus 326 ~iA~~L~l 333 (398)
T KOG3802|consen 326 HIAESLQL 333 (398)
T ss_pred HHHHHhcc
Confidence 99999986
No 2
>PF00157 Pou: Pou domain - N-terminal to homeobox domain; InterPro: IPR000327 POU proteins are eukaryotic transcription factors containing a bipartite DNA binding domain referred to as the POU domain. The acronym POU (pronounced 'pow') is derived from the names of three mammalian transcription factors, the pituitary-specific Pit-1, the octamer-binding proteins Oct-1 and Oct-2, and the neural Unc-86 from Caenorhabditis elegans. POU domain genes have been identified in diverse organisms including nematodes, flies, amphibians, fish and mammals but have not been yet identified in plants and fungi. The various members of the POU family have a wide variety of functions, all of which are related to the function of the neuroendocrine system [] and the development of an organism []. Some other genes are also regulated, including those for immunoglobulin light and heavy chains (Oct-2) [, ], and trophic hormone genes, such as those for prolactin and growth hormone (Pit-1). The POU domain is a bipartite domain composed of two subunits separated by a non-conserved region of 15-55 aa. The N-terminal subunit is known as the POU-specific (POUs) domain (IPR000327 from INTERPRO), while the C-terminal subunit is a homeobox domain (IPR007103 from INTERPRO). 3D structures of complexes including both POU subdomains bound to DNA are available. Both subdomains contain the structural motif 'helix-turn-helix', which directly associates with the two components of bipartite DNA binding sites, and both are required for high affinity sequence-specific DNA-binding. The domain may also be involved in protein-protein interactions []. The subdomains are connected by a flexible linker [, , ]. In proteins a POU-specific domain is always accompanied by a homeodomain. Despite of the lack of sequence homology, 3D structure of POUs is similar to 3D structure of bacteriophage lambda repressor and other members of HTH_3 family [, ]. This entry represents the POU-specific subunit of the POU domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3D1N_O 1AU7_A 3L1P_A 2XSD_C 1O4X_A 1HF0_B 1GT0_C 1POU_A 1CQT_B 1E3O_C ....
Probab=100.00 E-value=1.7e-35 Score=226.17 Aligned_cols=75 Identities=48% Similarity=0.814 Sum_probs=70.3
Q ss_pred CCCCChHHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy14051 2 VDGINLDEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICSALATQMLCAAQIASQQQQQQQQQHQQQQQQQ 81 (256)
Q Consensus 2 vd~~~l~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (256)
.|+++++||++||+.||.|||+|||||+|||.||+.+||+.||||+|||
T Consensus 1 ~~~~~~~ele~Fa~~fk~rRi~LG~TQ~dVg~al~~~~G~~~SQttI~R------------------------------- 49 (75)
T PF00157_consen 1 EDTPDLKELEQFAKEFKQRRIKLGYTQADVGAALGRLYGKEFSQTTICR------------------------------- 49 (75)
T ss_dssp --CHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHSSGGSHHHHHH-------------------------------
T ss_pred CCccCHHHHHHHHHHHHHhhhhcccCHHHHhHHHHHhcCccccchhhhh-------------------------------
Confidence 3889999999999999999999999999999999999999999999999
Q ss_pred hhchhcccCChhhhhhhhHHHHHHHHHHH
Q psy14051 82 NTMFEKLDITPKSAQKIKPVLERWMKEAE 110 (256)
Q Consensus 82 ~~~FEkLdls~kna~KlkPvLekWL~EAE 110 (256)
||+||||+||||||||+|+|||+|||
T Consensus 50 ---FE~L~LS~kn~~klkP~L~kWL~eaE 75 (75)
T PF00157_consen 50 ---FEALQLSFKNMCKLKPLLEKWLEEAE 75 (75)
T ss_dssp ---HHTTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred ---hHhcccCHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999997
No 3
>KOG1168|consensus
Probab=100.00 E-value=5e-35 Score=270.94 Aligned_cols=128 Identities=26% Similarity=0.413 Sum_probs=114.6
Q ss_pred CCChHHHHHHHHHHHhhhhccCcchhHHhhhhhcccCC---CCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14051 4 GINLDEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGP---AYSQSAICSALATQMLCAAQIASQQQQQQQQQHQQQQQQ 80 (256)
Q Consensus 4 ~~~l~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~---aySQstICR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (256)
..|.+|||.||+.||+|||+||+||+|||.||..+.-| .+|||||||
T Consensus 213 dtDPReLEaFAErFKQRRIKLGVTQADVG~ALAnLKiPGVGsLSQSTICR------------------------------ 262 (385)
T KOG1168|consen 213 DTDPRELEAFAERFKQRRIKLGVTQADVGKALANLKIPGVGSLSQSTICR------------------------------ 262 (385)
T ss_pred CCCHHHHHHHHHHHHhhhhhhcccHHHHHHHHHhCcCCCcccccccceee------------------------------
Confidence 36899999999999999999999999999999998754 799999999
Q ss_pred hhhchhcccCChhhhhhhhHHHHHHHHHHHHhhhcC----CCCCCCCCcccccCCCcccchhhHhhhHHhhccCCCCCcc
Q psy14051 81 QNTMFEKLDITPKSAQKIKPVLERWMKEAEERQVMS----NMPGIISPPLISQNQNMVNAPLNLSLNSNAVSANFHPNVN 156 (256)
Q Consensus 81 ~~~~FEkLdls~kna~KlkPvLekWL~EAE~~~~~g----n~~~~i~~~~~KRKRRTSIep~vKslLEs~F~knPKPSse 156 (256)
||+|.||++||..|||+|+.||+|||..++.+ +.++++.+.. |+||||+|....|..||.||..+|+||+|
T Consensus 263 ----FESLTLSHNNMiALKPILqaWLEeAE~a~keK~~~pd~~~l~~~~e-kKRKRTSIAAPEKRsLEayFavQPRPS~E 337 (385)
T KOG1168|consen 263 ----FESLTLSHNNMIALKPILQAWLEEAEAAMKEKDTKPDINELLPGGE-KKRKRTSIAAPEKRSLEAYFAVQPRPSGE 337 (385)
T ss_pred ----eeeeccccCcchhhhHHHHHHHHHHHHHHHhhccCCchhhccCccc-cccccccccCcccccHHHHhccCCCCchh
Confidence 99999999999999999999999999988776 3446655544 56678888777777799999999999999
Q ss_pred ccccCCCCCC
Q psy14051 157 PRTDLKNPSA 166 (256)
Q Consensus 157 EIT~LAe~Ln 166 (256)
.|..||++|.
T Consensus 338 kIAaIAekLD 347 (385)
T KOG1168|consen 338 KIAAIAEKLD 347 (385)
T ss_pred HHHHHHHhhh
Confidence 9999999997
No 4
>smart00352 POU Found in Pit-Oct-Unc transcription factors.
Probab=99.96 E-value=1.1e-29 Score=194.35 Aligned_cols=75 Identities=47% Similarity=0.826 Sum_probs=73.5
Q ss_pred CCCCChHHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy14051 2 VDGINLDEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICSALATQMLCAAQIASQQQQQQQQQHQQQQQQQ 81 (256)
Q Consensus 2 vd~~~l~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (256)
.|++|++|++.|++.||.+|+.+||||+|||.+++.+||+.+||+||||
T Consensus 1 ~~~~~~~ele~~~~~lk~~R~~lGLTQ~dvA~~lg~~~g~i~SQstISR------------------------------- 49 (75)
T smart00352 1 DEDTDPRELEAFAKTFKQRRIKLGFTQADVGLALGALYGPDFSQTTICR------------------------------- 49 (75)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHhcccccCcCCHHHHHH-------------------------------
Confidence 3899999999999999999999999999999999999999999999999
Q ss_pred hhchhcccCChhhhhhhhHHHHHHHHHHH
Q psy14051 82 NTMFEKLDITPKSAQKIKPVLERWMKEAE 110 (256)
Q Consensus 82 ~~~FEkLdls~kna~KlkPvLekWL~EAE 110 (256)
||++|||+||||||||||++||+|||
T Consensus 50 ---~Es~~ls~~n~~kl~p~l~~wl~~~e 75 (75)
T smart00352 50 ---FEALQLSFKNMCKLKPLLEKWLEEAE 75 (75)
T ss_pred ---HHhcCccHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999986
No 5
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=97.29 E-value=7.4e-05 Score=55.00 Aligned_cols=40 Identities=0% Similarity=-0.204 Sum_probs=38.1
Q ss_pred ccCCCcccchhhHhhhHHhhccCCC----CCccccccCCCCCCC
Q psy14051 128 SQNQNMVNAPLNLSLNSNAVSANFH----PNVNPRTDLKNPSAG 167 (256)
Q Consensus 128 KRKRRTSIep~vKslLEs~F~knPK----PSseEIT~LAe~Lns 167 (256)
|||.||.|++..+..||.+|+++++ |+..++.+||..++-
T Consensus 1 ~kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl 44 (58)
T TIGR01565 1 KKRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGV 44 (58)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCC
Confidence 5899999999999999999999999 999999999999984
No 6
>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=97.20 E-value=4.8e-05 Score=52.52 Aligned_cols=38 Identities=13% Similarity=0.112 Sum_probs=36.3
Q ss_pred cCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 129 QNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 129 RKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
||+|+.+++..+..|+.+|..+++|+.+++..||..++
T Consensus 1 kr~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~ 38 (57)
T PF00046_consen 1 KRKRTRFTKEQLKVLEEYFQENPYPSKEEREELAKELG 38 (57)
T ss_dssp SSSSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHT
T ss_pred CcCCCCCCHHHHHHHHHHHHHhcccccccccccccccc
Confidence 68899999999999999999999999999999999886
No 7
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=97.04 E-value=0.00017 Score=49.11 Aligned_cols=38 Identities=16% Similarity=0.155 Sum_probs=35.8
Q ss_pred cCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 129 QNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 129 RKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
+|.|+.+++..+..|+..|..+++|+.+++..||..++
T Consensus 1 ~k~r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~ 38 (56)
T smart00389 1 RRKRTSFTPEQLEELEKEFQKNPYPSREEREELAAKLG 38 (56)
T ss_pred CCCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHC
Confidence 46788899999999999999999999999999999988
No 8
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=96.89 E-value=0.00027 Score=48.12 Aligned_cols=38 Identities=16% Similarity=0.156 Sum_probs=35.6
Q ss_pred cCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 129 QNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 129 RKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
+++|+.++...+..||.+|..+++|+..++..||..++
T Consensus 1 ~~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~ 38 (59)
T cd00086 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELG 38 (59)
T ss_pred CCCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHC
Confidence 46788999999999999999999999999999999988
No 9
>PF13560 HTH_31: Helix-turn-helix domain; PDB: 3F51_C 3F52_A 3PXP_A 2OFY_A.
Probab=95.60 E-value=0.011 Score=41.88 Aligned_cols=33 Identities=27% Similarity=0.423 Sum_probs=28.9
Q ss_pred HHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 12 EFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 12 ~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+|+..+|..|-..|+||.+|+..++ +|+++||+
T Consensus 1 ~lg~~lr~~R~~~gls~~~lA~~~g------~s~s~v~~ 33 (64)
T PF13560_consen 1 QLGRRLRRLRERAGLSQAQLADRLG------VSQSTVSR 33 (64)
T ss_dssp HHHHHHHHHHHCHTS-HHHHHHHHT------S-HHHHHH
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHC------cCHHHHHH
Confidence 5899999999999999999999998 78999998
No 10
>KOG0488|consensus
Probab=95.34 E-value=0.0046 Score=57.92 Aligned_cols=42 Identities=10% Similarity=-0.073 Sum_probs=39.7
Q ss_pred ccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 126 LISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 126 ~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
+|+||.||+|+...+..||+.|+++-+-|..|..+||.+|+-
T Consensus 170 kK~RksRTaFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgL 211 (309)
T KOG0488|consen 170 KKRRKSRTAFSDHQLFELEKRFEKQKYLSVADRIELAASLGL 211 (309)
T ss_pred cccccchhhhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCC
Confidence 445999999999999999999999999999999999999995
No 11
>KOG2251|consensus
Probab=94.70 E-value=0.01 Score=54.29 Aligned_cols=43 Identities=12% Similarity=0.029 Sum_probs=39.8
Q ss_pred Ccccc-cCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 124 PPLIS-QNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 124 ~~~~K-RKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
..+|| ||.||+|+-..+++||..|.+..+|...-..++|.+|+
T Consensus 32 ~~pRkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlkln 75 (228)
T KOG2251|consen 32 SGPRKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLN 75 (228)
T ss_pred ccchhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhC
Confidence 33455 99999999999999999999999999999999999999
No 12
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=93.72 E-value=0.043 Score=47.22 Aligned_cols=64 Identities=11% Similarity=0.005 Sum_probs=41.9
Q ss_pred HHHHHHHHHhhhcCCCCCCCCCcccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 103 ERWMKEAEERQVMSNMPGIISPPLISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 103 ekWL~EAE~~~~~gn~~~~i~~~~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
.+|..+.|.....-.+..........+++|+--+...+.+|+..|..+|+|+..+...|+..++
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~ln 89 (156)
T COG5576 26 TKNKREVEAADSEMKLERKQDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLN 89 (156)
T ss_pred hhHHHHHHHHhhhhhhhhcccCCCcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcC
Confidence 3466666654422222222222222244444445678899999999999999999999999999
No 13
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=93.42 E-value=0.13 Score=34.31 Aligned_cols=33 Identities=24% Similarity=0.311 Sum_probs=29.0
Q ss_pred HHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 12 EFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 12 ~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+|++.+|..|-..|+||.+++..++ .|+++|++
T Consensus 2 ~~~~~l~~~r~~~gltq~~lA~~~g------vs~~~vs~ 34 (58)
T TIGR03070 2 QIGMLVRARRKALGLTQADLADLAG------VGLRFIRD 34 (58)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHhC------CCHHHHHH
Confidence 5788899999999999999999887 46899987
No 14
>KOG0842|consensus
Probab=92.69 E-value=0.056 Score=51.34 Aligned_cols=41 Identities=5% Similarity=-0.045 Sum_probs=38.6
Q ss_pred ccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 126 LISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 126 ~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
.+|||+|-.|+.-..-.||+-|.++-+-|+-|..+||..|+
T Consensus 151 ~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~Lr 191 (307)
T KOG0842|consen 151 RKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLR 191 (307)
T ss_pred ccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcC
Confidence 46799999999999999999999999999999999999999
No 15
>KOG0843|consensus
Probab=92.39 E-value=0.045 Score=49.28 Aligned_cols=40 Identities=15% Similarity=0.006 Sum_probs=38.2
Q ss_pred ccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 128 SQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 128 KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
-||.||+|++..+..||.+|..|.+-.+.|...||..|+-
T Consensus 102 ~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~L 141 (197)
T KOG0843|consen 102 PKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSL 141 (197)
T ss_pred CCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCC
Confidence 3889999999999999999999999999999999999994
No 16
>KOG0850|consensus
Probab=91.92 E-value=0.071 Score=49.39 Aligned_cols=42 Identities=10% Similarity=0.028 Sum_probs=39.2
Q ss_pred ccc-cCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 126 LIS-QNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 126 ~~K-RKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.+| ||.||+++...+-.|...|+++.+--.-|+.+||-.|+-
T Consensus 119 ~KK~RKPRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGL 161 (245)
T KOG0850|consen 119 GKKVRKPRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGL 161 (245)
T ss_pred cccccCCcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCC
Confidence 445 999999999999999999999999999999999999984
No 17
>KOG0485|consensus
Probab=90.55 E-value=0.078 Score=49.24 Aligned_cols=42 Identities=7% Similarity=-0.112 Sum_probs=39.8
Q ss_pred ccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 126 LISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 126 ~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.+|+|.||+|+-.....||..|+..-+-|+.|.+.||.+|.-
T Consensus 102 ~RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqL 143 (268)
T KOG0485|consen 102 DRKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQL 143 (268)
T ss_pred cccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhh
Confidence 479999999999999999999999999999999999999984
No 18
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=88.81 E-value=0.81 Score=39.19 Aligned_cols=35 Identities=17% Similarity=0.305 Sum_probs=30.7
Q ss_pred HHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 10 IKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 10 l~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
.+.|++.+|..|...|+||.+++..++ +|+++|.|
T Consensus 67 ~~~~g~~Ir~~Re~~glSqeeLA~~lg------vs~s~Isr 101 (154)
T TIGR00270 67 VEDYGIIIRREREKRGWSQEQLAKKIQ------EKESLIKK 101 (154)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHhC------CCHHHHHH
Confidence 456888889999999999999999886 67999988
No 19
>PHA01976 helix-turn-helix protein
Probab=88.34 E-value=0.97 Score=31.75 Aligned_cols=33 Identities=18% Similarity=0.201 Sum_probs=28.9
Q ss_pred HHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 12 EFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 12 ~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
.|++.+|..|...|+||.+++..++. |+++|.+
T Consensus 2 ~~~~rl~~~R~~~glt~~~lA~~~gv------s~~~v~~ 34 (67)
T PHA01976 2 SFAIQLIKARNARAWSAPELSRRAGV------RHSLIYD 34 (67)
T ss_pred cHHHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 48899999999999999999999865 4788877
No 20
>KOG2252|consensus
Probab=87.84 E-value=0.32 Score=49.63 Aligned_cols=41 Identities=7% Similarity=0.045 Sum_probs=38.0
Q ss_pred cccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 127 ISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 127 ~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.-+|.|++|++..|+.|-..|..++|||.+....|+..|+-
T Consensus 419 ~~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L 459 (558)
T KOG2252|consen 419 QTKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNL 459 (558)
T ss_pred cCCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCC
Confidence 34777999999999999999999999999999999999984
No 21
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=87.57 E-value=1.1 Score=35.01 Aligned_cols=30 Identities=23% Similarity=0.292 Sum_probs=24.2
Q ss_pred HHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 15 KAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 15 k~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
..+|..|..+|+||.+++..++ +|++||.|
T Consensus 68 ~~i~~~r~~~gltq~~lA~~lg------~~~~tis~ 97 (127)
T TIGR03830 68 PEIRRIRKKLGLSQREAAELLG------GGVNAFSR 97 (127)
T ss_pred HHHHHHHHHcCCCHHHHHHHhC------CCHHHHHH
Confidence 4566778899999999998875 45788887
No 22
>PRK06424 transcription factor; Provisional
Probab=87.36 E-value=0.83 Score=38.89 Aligned_cols=37 Identities=22% Similarity=0.358 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 8 DEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 8 ~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+..+.|+..++..|-..|+||.+++..++. ++++|.+
T Consensus 80 ~~~~~~g~~Ir~lRe~~GLSQ~eLA~~iGv------s~stIsk 116 (144)
T PRK06424 80 DIVEDYAELVKNARERLSMSQADLAAKIFE------RKNVIAS 116 (144)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 345789999999999999999999999875 5889887
No 23
>KOG0491|consensus
Probab=86.79 E-value=0.1 Score=46.74 Aligned_cols=43 Identities=14% Similarity=-0.022 Sum_probs=40.4
Q ss_pred cccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 125 PLISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 125 ~~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.+++||-||+|+...++.||+.|+.+-+-|..|+.+||+-|+-
T Consensus 97 ~~~r~K~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~L 139 (194)
T KOG0491|consen 97 HCRRRKARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSL 139 (194)
T ss_pred HHHhhhhcccccCccccccHHHHhhhhhcccHHHHHHHHHhhh
Confidence 4678999999999999999999999999999999999999984
No 24
>KOG0489|consensus
Probab=85.57 E-value=0.41 Score=43.60 Aligned_cols=42 Identities=10% Similarity=-0.083 Sum_probs=38.5
Q ss_pred ccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 126 LISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 126 ~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.+.||.||.++...+-.||+.|..|.+-+.....+||..|+-
T Consensus 157 ~~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~L 198 (261)
T KOG0489|consen 157 GKSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNL 198 (261)
T ss_pred CCCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcch
Confidence 346899999999999999999999999999999999999884
No 25
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=84.89 E-value=1.6 Score=36.71 Aligned_cols=37 Identities=27% Similarity=0.270 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 8 DEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 8 ~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
|+...+++.+|..|...|+||.+++..++. |+++|++
T Consensus 3 ~~~~~~g~~l~~~R~~~glt~~elA~~~gi------s~~~is~ 39 (185)
T PRK09943 3 DEGLAPGKRLSEIRQQQGLSQRRAAELSGL------THSAIST 39 (185)
T ss_pred chhhHHHHHHHHHHHHcCCCHHHHHHHHCC------CHHHHHH
Confidence 345568999999999999999999998765 6899987
No 26
>KOG0494|consensus
Probab=84.62 E-value=0.43 Score=45.50 Aligned_cols=40 Identities=15% Similarity=0.187 Sum_probs=35.8
Q ss_pred cccCC-CcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 127 ISQNQ-NMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 127 ~KRKR-RTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
+|||+ ||+|+...++.||+.|..--+|.......||.+..
T Consensus 139 ~kRRh~RTiFT~~Qle~LEkaFkeaHYPDv~Are~la~kte 179 (332)
T KOG0494|consen 139 KKRRHFRTIFTSYQLEELEKAFKEAHYPDVYAREMLADKTE 179 (332)
T ss_pred cccccccchhhHHHHHHHHHHHhhccCccHHHHHHHhhhcc
Confidence 35666 99999999999999999999999999998888876
No 27
>TIGR01321 TrpR trp operon repressor, proteobacterial. This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis.
Probab=81.79 E-value=3.7 Score=33.21 Aligned_cols=40 Identities=18% Similarity=0.333 Sum_probs=34.0
Q ss_pred CChHHHHHHHHHHHhhh--hccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 5 INLDEIKEFAKAFKLRR--LSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 5 ~~l~el~~FAk~FK~rR--l~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
-+.+|++.++..++.-+ +.-|+||.+|...+|+ |+++|.|
T Consensus 33 LTp~E~~~l~~R~~i~~~Ll~~~~tQrEIa~~lGi------S~atIsR 74 (94)
T TIGR01321 33 LTRSEREDLGDRIRIVNELLNGNMSQREIASKLGV------SIATITR 74 (94)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhCC------ChhhhhH
Confidence 46789999999998887 3458999999999886 6999998
No 28
>KOG0849|consensus
Probab=80.94 E-value=0.94 Score=43.24 Aligned_cols=42 Identities=12% Similarity=0.082 Sum_probs=37.3
Q ss_pred ccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 126 LISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 126 ~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.+.|++||++++..+..||+-|..+++|...-...||.+...
T Consensus 174 ~~~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l 215 (354)
T KOG0849|consen 174 RGGRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGL 215 (354)
T ss_pred ccccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccC
Confidence 445888999999999999999999999999998888887764
No 29
>PRK09726 antitoxin HipB; Provisional
Probab=80.34 E-value=3.4 Score=31.29 Aligned_cols=35 Identities=29% Similarity=0.452 Sum_probs=30.1
Q ss_pred HHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 10 IKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 10 l~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
.++|++.+|..|...|+||.+++..++. |+++|.+
T Consensus 10 ~~~l~~~lk~~R~~~gltq~elA~~~gv------s~~tis~ 44 (88)
T PRK09726 10 PTQLANAMKLVRQQNGWTQSELAKKIGI------KQATISN 44 (88)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHCc------CHHHHHH
Confidence 4688899999999999999999998875 4888876
No 30
>KOG0490|consensus
Probab=79.91 E-value=1.3 Score=37.48 Aligned_cols=42 Identities=14% Similarity=-0.032 Sum_probs=39.1
Q ss_pred ccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 126 LISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 126 ~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
.++|+.||.++...+..||..|.+.++|...-...+|..++.
T Consensus 58 ~~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~ 99 (235)
T KOG0490|consen 58 FSKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTG 99 (235)
T ss_pred ccccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCC
Confidence 456999999999999999999999999999999999998886
No 31
>KOG0486|consensus
Probab=77.98 E-value=1.2 Score=43.30 Aligned_cols=41 Identities=12% Similarity=0.051 Sum_probs=36.5
Q ss_pred cccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 127 ISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 127 ~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
|+||.||.|+...+..||..|.+|-+|.-+-..+||---+.
T Consensus 111 KqrrQrthFtSqqlqele~tF~rNrypdMstrEEIavwtNl 151 (351)
T KOG0486|consen 111 KQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNL 151 (351)
T ss_pred hhhhhhhhhHHHHHHHHHHHHhhccCCccchhhHHHhhccc
Confidence 56999999999999999999999999999988888866554
No 32
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=77.96 E-value=4.4 Score=32.68 Aligned_cols=34 Identities=26% Similarity=0.421 Sum_probs=29.5
Q ss_pred HHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 11 KEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 11 ~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
..|.+.+|..|...|+||.+++..++. |+++|++
T Consensus 4 ~~~g~rlk~~R~~~gltq~~lA~~~gv------s~~~is~ 37 (135)
T PRK09706 4 LTLGQRIRYRRKQLKLSQRSLAKAVKV------SHVSISQ 37 (135)
T ss_pred hhHHHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 458899999999999999999999875 5888876
No 33
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=77.43 E-value=4.7 Score=30.18 Aligned_cols=33 Identities=27% Similarity=0.408 Sum_probs=25.3
Q ss_pred HHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 12 EFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 12 ~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+++...+..|-..|+||.+++..++. ||+.|+|
T Consensus 18 ~l~~~i~~~~~~~~ltQ~e~A~~lgi------sq~~vS~ 50 (80)
T PF13744_consen 18 QLMAAIRELREERGLTQAELAERLGI------SQPRVSR 50 (80)
T ss_dssp HHHHHHHHHHHCCT--HHHHHHHHTS-------HHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHCC------ChhHHHH
Confidence 46667777888899999999999875 5999987
No 34
>KOG0492|consensus
Probab=77.21 E-value=1.1 Score=41.69 Aligned_cols=39 Identities=5% Similarity=-0.030 Sum_probs=37.5
Q ss_pred cCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 129 QNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 129 RKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
||.||-|++..+-.||+-|...++-|..|..+++++|+-
T Consensus 145 RkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~L 183 (246)
T KOG0492|consen 145 RKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLEL 183 (246)
T ss_pred CCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhh
Confidence 999999999999999999999999999999999999875
No 35
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=76.59 E-value=4.1 Score=36.71 Aligned_cols=55 Identities=31% Similarity=0.506 Sum_probs=40.2
Q ss_pred HHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhchhcccCChhh
Q psy14051 15 KAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICSALATQMLCAAQIASQQQQQQQQQHQQQQQQQNTMFEKLDITPKS 94 (256)
Q Consensus 15 k~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~FEkLdls~kn 94 (256)
+.+|.+|-.||+||.+...--+ -||+-|.| .|+=++.|+
T Consensus 8 edlrk~Rk~LGitQ~dLA~~aG------VSQ~~IAr----------------------------------lE~G~vdPr- 46 (187)
T COG3620 8 EDLRKRRKELGITQKDLARRAG------VSQPYIAR----------------------------------LEAGKVDPR- 46 (187)
T ss_pred HHHHHHHHHcCCCHHHHHHHcC------ccHHHHHH----------------------------------HhcCCCCcc-
Confidence 4467899999999999866543 47999877 888888874
Q ss_pred hhhhhHHHHHHHHHHHH
Q psy14051 95 AQKIKPVLERWMKEAEE 111 (256)
Q Consensus 95 a~KlkPvLekWL~EAE~ 111 (256)
.-++|-+|+. |+|+|.
T Consensus 47 lSt~k~Il~a-L~e~e~ 62 (187)
T COG3620 47 LSTVKRILEA-LEEAEK 62 (187)
T ss_pred HHHHHHHHHH-HHHhhc
Confidence 4566666653 455554
No 36
>PHA00542 putative Cro-like protein
Probab=76.32 E-value=4.8 Score=30.56 Aligned_cols=27 Identities=33% Similarity=0.480 Sum_probs=22.1
Q ss_pred HhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 18 KLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 18 K~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+..+..-|+||.+++..++. |+++|+|
T Consensus 24 ~~~l~~~glTq~elA~~lgI------s~~tIsr 50 (82)
T PHA00542 24 VCALIRAGWSQEQIADATDV------SQPTICR 50 (82)
T ss_pred HHHHHHCCCCHHHHHHHHCc------CHHHHHH
Confidence 33455679999999999886 7999998
No 37
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=75.35 E-value=4.3 Score=28.21 Aligned_cols=30 Identities=33% Similarity=0.439 Sum_probs=22.6
Q ss_pred HHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 15 KAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 15 k~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+.+|..|...|+||.+|+..++. +.++|++
T Consensus 2 ~~lk~~r~~~~lt~~~~a~~~~i------~~~~i~~ 31 (64)
T PF12844_consen 2 ERLKELREEKGLTQKDLAEKLGI------SRSTISK 31 (64)
T ss_dssp HHHHHHHHHCT--HHHHHHHHTS-------HHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHCc------CHHHHHH
Confidence 56888899999999999998876 4677766
No 38
>PRK10856 cytoskeletal protein RodZ; Provisional
Probab=72.02 E-value=19 Score=34.26 Aligned_cols=36 Identities=28% Similarity=0.348 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 9 EIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 9 el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+...+.+.+|..|-.+||||.+|...|+. ++++|.+
T Consensus 11 ~~~~~G~~Lr~aRe~~GlSq~~vA~~l~l------~~~~I~~ 46 (331)
T PRK10856 11 EALTTGERLRQAREQLGLTQQAVAERLCL------KVSTVRD 46 (331)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHCC------CHHHHHH
Confidence 34458999999999999999999998874 4666655
No 39
>TIGR02612 mob_myst_A mobile mystery protein A. Members of this protein family are found in mobization-related contexts more often than not, including within a CRISPR-associated gene region in Geobacter sulfurreducens PCA, and on plasmids in Agrobacterium tumefaciens and Coxiella burnetii, always together with mobile mystery protein B, a member of the Fic protein family (pfam02661). This protein is encoded by the upstream member of the gene pair and belongs to a family of helix-turn-helix DNA binding proteins (pfam01381).
Probab=70.16 E-value=5.1 Score=34.30 Aligned_cols=29 Identities=21% Similarity=0.313 Sum_probs=25.1
Q ss_pred HHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 16 AFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 16 ~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
.+|..|-.+|+||.+++..++. |+++|++
T Consensus 29 ~Ir~~R~~lGmTq~eLAerlGV------S~~tIs~ 57 (150)
T TIGR02612 29 WVRAIRKALGMSGAQLAGRLGV------TPQRVEA 57 (150)
T ss_pred HHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 4577899999999999999885 5899987
No 40
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=69.11 E-value=8 Score=25.93 Aligned_cols=27 Identities=33% Similarity=0.411 Sum_probs=21.0
Q ss_pred HhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 18 KLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 18 K~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
|..|...|+||.+++..++ .|.++|.|
T Consensus 2 k~~r~~~gls~~~la~~~g------is~~~i~~ 28 (55)
T PF01381_consen 2 KELRKEKGLSQKELAEKLG------ISRSTISR 28 (55)
T ss_dssp HHHHHHTTS-HHHHHHHHT------S-HHHHHH
T ss_pred HHHHHHcCCCHHHHHHHhC------CCcchhHH
Confidence 5678899999999999987 56788877
No 41
>KOG0484|consensus
Probab=68.89 E-value=1.2 Score=37.55 Aligned_cols=39 Identities=8% Similarity=0.097 Sum_probs=35.8
Q ss_pred ccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCC
Q psy14051 128 SQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSA 166 (256)
Q Consensus 128 KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Ln 166 (256)
.||=||.|+...+..||..|....+|......+||-++.
T Consensus 17 QRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kid 55 (125)
T KOG0484|consen 17 QRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKID 55 (125)
T ss_pred hhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhh
Confidence 388899999999999999999999999999999988877
No 42
>KOG0774|consensus
Probab=67.98 E-value=1.2 Score=42.72 Aligned_cols=78 Identities=12% Similarity=0.137 Sum_probs=52.2
Q ss_pred CChhhhhhhhHHHHHHHHHHHHhhhcCCCCCCC---CCcccccCCCcccchhhHhhhHHhhcc---CCCCCccccccCCC
Q psy14051 90 ITPKSAQKIKPVLERWMKEAEERQVMSNMPGII---SPPLISQNQNMVNAPLNLSLNSNAVSA---NFHPNVNPRTDLKN 163 (256)
Q Consensus 90 ls~kna~KlkPvLekWL~EAE~~~~~gn~~~~i---~~~~~KRKRRTSIep~vKslLEs~F~k---nPKPSseEIT~LAe 163 (256)
|+||+..++.-.+.+-++.-...-+.......+ +.-.--||||-.|+-..-++|..||.. ||+||-++-.+||.
T Consensus 147 i~~ke~e~m~~~i~~kF~~iq~~lkqstce~vmiLr~r~ldarRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAk 226 (334)
T KOG0774|consen 147 IMPKEIERMVQIISKKFSHIQMQLKQSTCEAVMILRSRFLDARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAK 226 (334)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence 777888777777776655443322111000000 011123677778999999999999975 99999999999999
Q ss_pred CCCC
Q psy14051 164 PSAG 167 (256)
Q Consensus 164 ~Lns 167 (256)
+.+-
T Consensus 227 qCnI 230 (334)
T KOG0774|consen 227 QCNI 230 (334)
T ss_pred HcCc
Confidence 9886
No 43
>PRK10072 putative transcriptional regulator; Provisional
Probab=66.83 E-value=9.3 Score=30.54 Aligned_cols=31 Identities=23% Similarity=0.273 Sum_probs=26.1
Q ss_pred HHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 14 AKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 14 Ak~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+..+|.-|-.+|+||.+++..++. |++||++
T Consensus 35 ~~eik~LR~~~glTQ~elA~~lGv------S~~TVs~ 65 (96)
T PRK10072 35 FTEFEQLRKGTGLKIDDFARVLGV------SVAMVKE 65 (96)
T ss_pred hHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 445788889999999999999885 6889887
No 44
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=62.26 E-value=11 Score=34.60 Aligned_cols=35 Identities=17% Similarity=0.297 Sum_probs=27.6
Q ss_pred HHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 10 IKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 10 l~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
...|.+.+|..|...|+||.+++..++. |+++|.+
T Consensus 26 ~~~~g~rl~~~R~~~gltq~~lA~~~gv------s~~~i~~ 60 (309)
T PRK08154 26 LAALGERVRTLRARRGMSRKVLAQASGV------SERYLAQ 60 (309)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHCc------CHHHHHH
Confidence 4567888888999999999999998774 3555554
No 45
>COG1476 Predicted transcriptional regulators [Transcription]
Probab=61.73 E-value=5.4 Score=30.61 Aligned_cols=23 Identities=35% Similarity=0.502 Sum_probs=20.6
Q ss_pred HHHhhhhccCcchhHHhhhhhcc
Q psy14051 16 AFKLRRLSLGLTQTQVGQALSVT 38 (256)
Q Consensus 16 ~FK~rRl~LGlTQ~~Vg~aL~~~ 38 (256)
.+|.-|-.+|+||.+++..++++
T Consensus 5 k~k~~R~~~~ltQ~elA~~vgVs 27 (68)
T COG1476 5 KLKELRAELGLTQEELAKLVGVS 27 (68)
T ss_pred HHHHHHHHhCcCHHHHHHHcCcC
Confidence 57788999999999999999885
No 46
>PRK08359 transcription factor; Validated
Probab=61.01 E-value=16 Score=32.34 Aligned_cols=37 Identities=14% Similarity=0.243 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 8 DEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 8 ~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+=.+.|++..|.-|-..|+||.+++..++. |+++|.+
T Consensus 81 elv~dy~~rIkeaRe~kglSQeeLA~~lgv------s~stI~~ 117 (176)
T PRK08359 81 DIVEDYAERVYEAIQKSGLSYEELSHEVGL------SVNDLRR 117 (176)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 335678888999999999999999998864 6888876
No 47
>PRK13890 conjugal transfer protein TrbA; Provisional
Probab=53.78 E-value=24 Score=28.73 Aligned_cols=33 Identities=15% Similarity=0.033 Sum_probs=27.3
Q ss_pred HHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 12 EFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 12 ~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
-|...++.-|-..|+||.+|+..++. |+++|.+
T Consensus 5 i~~~~l~~ll~~~Glsq~eLA~~~Gi------s~~~is~ 37 (120)
T PRK13890 5 IFFTNVLRLLDERHMTKKELSERSGV------SISFLSD 37 (120)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHCc------CHHHHHH
Confidence 47778888888999999999988765 4788876
No 48
>PRK04140 hypothetical protein; Provisional
Probab=53.39 E-value=19 Score=34.44 Aligned_cols=31 Identities=26% Similarity=0.412 Sum_probs=26.9
Q ss_pred HHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 14 AKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 14 Ak~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
++.+|..|-..|+||.+++..++. |+++|.+
T Consensus 128 GerLk~lRe~~GlSq~eLA~~lGV------Sr~tIsk 158 (317)
T PRK04140 128 GDVLREAREELGLSLGELASELGV------SRRTISK 158 (317)
T ss_pred HHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 577888899999999999999875 6888887
No 49
>TIGR02607 antidote_HigA addiction module antidote protein, HigA family. Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by Pfam model pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair.
Probab=51.63 E-value=48 Score=23.60 Aligned_cols=31 Identities=26% Similarity=0.345 Sum_probs=24.1
Q ss_pred HHHHH-hhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 14 AKAFK-LRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 14 Ak~FK-~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
.+.++ ..|-..|+||.+++..++. |+++|.+
T Consensus 6 g~~i~~~~~~~~~~t~~~lA~~~gi------s~~tis~ 37 (78)
T TIGR02607 6 GEILREEFLEPLGLSIRALAKALGV------SRSTLSR 37 (78)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHhCC------CHHHHHH
Confidence 34566 5688899999999999874 5778776
No 50
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=50.43 E-value=28 Score=21.21 Aligned_cols=22 Identities=36% Similarity=0.442 Sum_probs=16.4
Q ss_pred HHHhhhhccCcchhHHhhhhhc
Q psy14051 16 AFKLRRLSLGLTQTQVGQALSV 37 (256)
Q Consensus 16 ~FK~rRl~LGlTQ~~Vg~aL~~ 37 (256)
.++..|...|+|+.+++..++.
T Consensus 3 ~l~~~~~~~~~s~~~~a~~~~~ 24 (58)
T cd00093 3 RLKELRKEKGLTQEELAEKLGV 24 (58)
T ss_pred HHHHHHHHcCCCHHHHHHHHCC
Confidence 4455566679999999988764
No 51
>PRK13355 bifunctional HTH-domain containing protein/aminotransferase; Provisional
Probab=47.72 E-value=31 Score=33.59 Aligned_cols=39 Identities=26% Similarity=0.308 Sum_probs=33.2
Q ss_pred HHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 11 KEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 11 ~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+.|++.+|..|-..|+||.+++..++. .|-..|+++|.+
T Consensus 2 ~~~~~rL~~~r~~~g~tq~~la~~~~~-~g~~vs~~~is~ 40 (517)
T PRK13355 2 TTFAERLKQAMKARGLKQEDLVHAAEA-RGVKLGKSHISQ 40 (517)
T ss_pred chHHHHHHHHHHHCCCCHHHHHHHHHh-ccCCcCHHHHHH
Confidence 368899999999999999999998764 466788999987
No 52
>KOG0898|consensus
Probab=44.90 E-value=18 Score=31.78 Aligned_cols=47 Identities=36% Similarity=0.659 Sum_probs=36.9
Q ss_pred CCChHHH-----HHHHHHHH---hhhhccCcchhH------------------------------------Hhhhhhccc
Q psy14051 4 GINLDEI-----KEFAKAFK---LRRLSLGLTQTQ------------------------------------VGQALSVTE 39 (256)
Q Consensus 4 ~~~l~el-----~~FAk~FK---~rRl~LGlTQ~~------------------------------------Vg~aL~~~~ 39 (256)
|.|+|+| ++|++.|- .||++-||++.+ ||.-.|+-.
T Consensus 26 GVdld~Lldms~~~~~~l~~ar~rrR~~RGL~~k~~~liKklrkAkk~A~~~ekpe~VkTHlR~mII~PEMvGs~VGVyN 105 (152)
T KOG0898|consen 26 GVDLDQLLDMSTEQLVKLFPARQRRRLNRGLTRKPHSLIKKLRKAKKEAPPMEKPEVVKTHLRNMIIVPEMVGSMVGVYN 105 (152)
T ss_pred CCCHHHHhcCCHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHhhcCcccCcHHHHHHhhcceeeHhhhcceEEEec
Confidence 6778776 46777773 358999999865 677778889
Q ss_pred CCCCcchhhhh
Q psy14051 40 GPAYSQSAICS 50 (256)
Q Consensus 40 G~aySQstICR 50 (256)
|..|+|-.|--
T Consensus 106 GK~FnqvEiKP 116 (152)
T KOG0898|consen 106 GKTFNQVEIKP 116 (152)
T ss_pred CcccceeeccH
Confidence 99999998865
No 53
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=44.00 E-value=36 Score=26.97 Aligned_cols=39 Identities=21% Similarity=0.389 Sum_probs=33.3
Q ss_pred ChHHHHHHHHHHHhhh--hccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 6 NLDEIKEFAKAFKLRR--LSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 6 ~l~el~~FAk~FK~rR--l~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
..+|++.++..|+.-+ +.=|.||.+|...+|+ |=.||+|
T Consensus 28 T~~E~~~l~~R~~va~~lL~~g~syreIa~~tgv------S~aTItR 68 (87)
T PF01371_consen 28 TPDELEALAQRWQVAKELLDEGKSYREIAEETGV------SIATITR 68 (87)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHTS------THHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHhCC------CHHHHHH
Confidence 5789999999998877 6679999999998876 5678888
No 54
>PF11774 Lsr2: Lsr2 ; InterPro: IPR024412 This entry represents Lsr2, which is a small, basic DNA-bridging protein present in Mycobacterium and related actinomycetes. It is a functional homologue of the H-NS-like proteins []. H-NS proteins play a role in nucleoid organisation and also function as a pleiotropic regulator of gene expression [, ].; PDB: 4E1R_B 4E1P_B 2KNG_A.
Probab=42.53 E-value=15 Score=30.03 Aligned_cols=26 Identities=19% Similarity=0.465 Sum_probs=21.9
Q ss_pred cccCChhhhhhhhHHHHHHHHHHHHh
Q psy14051 87 KLDITPKSAQKIKPVLERWMKEAEER 112 (256)
Q Consensus 87 kLdls~kna~KlkPvLekWL~EAE~~ 112 (256)
.+|||.+|+.||+-.|++|++.+...
T Consensus 32 eIDLs~~na~~lr~~l~~yi~~arr~ 57 (110)
T PF11774_consen 32 EIDLSAENAAKLRDALAPYIAAARRV 57 (110)
T ss_dssp EEEE-HHHHHHHHHHHHHHHHHSEEE
T ss_pred EEECCHHHHHHHHHHHHHHHHHheEc
Confidence 36899999999999999999887654
No 55
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=41.93 E-value=15 Score=27.90 Aligned_cols=29 Identities=21% Similarity=0.266 Sum_probs=20.1
Q ss_pred HhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 18 KLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 18 K~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+.+.++ ||.++-..|... |-..+|+||+|
T Consensus 15 ~~~~i~---sQ~eL~~~L~~~-Gi~vTQaTiSR 43 (70)
T PF01316_consen 15 SEHEIS---SQEELVELLEEE-GIEVTQATISR 43 (70)
T ss_dssp HHS------SHHHHHHHHHHT-T-T--HHHHHH
T ss_pred HHCCcC---CHHHHHHHHHHc-CCCcchhHHHH
Confidence 444444 999999999885 99999999999
No 56
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=38.23 E-value=18 Score=30.45 Aligned_cols=24 Identities=25% Similarity=0.281 Sum_probs=21.5
Q ss_pred cchhHHhhhhhcccCCCCcchhhhh
Q psy14051 26 LTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 26 lTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
.||.++-..| ...|...||+||+|
T Consensus 17 ~tqeeL~~~L-~~~G~~vsqaTIsR 40 (146)
T TIGR01529 17 STQEELVALL-KAEGIEVTQATVSR 40 (146)
T ss_pred CCHHHHHHHH-HHhCCCcCHHHHHH
Confidence 5999999999 55599999999999
No 57
>PRK13698 plasmid-partitioning protein; Provisional
Probab=38.20 E-value=61 Score=31.41 Aligned_cols=56 Identities=9% Similarity=0.226 Sum_probs=39.5
Q ss_pred ccCcchhHHhhhhhcccCCCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhchhc-ccCChhhhhhhhHH
Q psy14051 23 SLGLTQTQVGQALSVTEGPAYSQSAICSALATQMLCAAQIASQQQQQQQQQHQQQQQQQNTMFEK-LDITPKSAQKIKPV 101 (256)
Q Consensus 23 ~LGlTQ~~Vg~aL~~~~G~aySQstICR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~FEk-Ldls~kna~KlkPv 101 (256)
..|+||.+++..++. |.++|.|.+ +++++ |..+.. .|.. =+||+..+..|.++
T Consensus 174 ~~~~tQeeLA~~lG~------SRs~Vsn~L------------------rla~L-P~~vi~-~~~~p~~Ls~gharaL~~l 227 (323)
T PRK13698 174 EFAGNISALADAENI------SRKIITRCI------------------NTAKL-PKSVVA-LFAHPGELSARSGEALQKA 227 (323)
T ss_pred hcCCCHHHHHHHHCC------CHHHHHHHH------------------HHHcC-CHHHHH-HhhccCCCChhHHHHHHHH
Confidence 568899999888875 577777733 23333 322332 3888 89999999999999
Q ss_pred HHH
Q psy14051 102 LER 104 (256)
Q Consensus 102 Lek 104 (256)
|++
T Consensus 228 l~~ 230 (323)
T PRK13698 228 FTD 230 (323)
T ss_pred hhh
Confidence 754
No 58
>KOG0850|consensus
Probab=37.17 E-value=19 Score=33.89 Aligned_cols=9 Identities=100% Similarity=1.132 Sum_probs=8.3
Q ss_pred ccCcchhHH
Q psy14051 23 SLGLTQTQV 31 (256)
Q Consensus 23 ~LGlTQ~~V 31 (256)
+||||||||
T Consensus 158 sLGLTQTQV 166 (245)
T KOG0850|consen 158 SLGLTQTQV 166 (245)
T ss_pred HhCCchhHh
Confidence 689999999
No 59
>KOG0775|consensus
Probab=37.07 E-value=36 Score=32.87 Aligned_cols=80 Identities=18% Similarity=0.213 Sum_probs=46.8
Q ss_pred hhcccCChhhhhhhhH-HHHHHHHHHHHhhhcCCCCCCCCCcccccC---CCcc---------cchhhHhhhHHhhccCC
Q psy14051 85 FEKLDITPKSAQKIKP-VLERWMKEAEERQVMSNMPGIISPPLISQN---QNMV---------NAPLNLSLNSNAVSANF 151 (256)
Q Consensus 85 FEkLdls~kna~KlkP-vLekWL~EAE~~~~~gn~~~~i~~~~~KRK---RRTS---------Iep~vKslLEs~F~knP 151 (256)
.|.=..++++--||.- .|+....|||... |---+.++.-.-+|| .||+ |-..-+.+|-..|.+||
T Consensus 122 LE~h~Fs~~~h~~LQ~lWl~AhY~EAek~R--GR~LgaV~KYRvRrKfPlPrTIWDGEet~yCFKekSR~~LrewY~~~~ 199 (304)
T KOG0775|consen 122 LENHKFSPHNHPKLQALWLKAHYKEAEKLR--GRPLGAVDKYRVRRKFPLPRTIWDGEETVYCFKEKSRSLLREWYLQNP 199 (304)
T ss_pred HHhccCChhhhHHHHHHHHHHHHHHHHHhc--CCcCCccccceeeccCCCCCccccCceeeeehhHhhHHHHHHHHhcCC
Confidence 4555678888555432 2333455666433 211111221111222 2554 34567889999999999
Q ss_pred CCCccccccCCCCCC
Q psy14051 152 HPNVNPRTDLKNPSA 166 (256)
Q Consensus 152 KPSseEIT~LAe~Ln 166 (256)
+||..|--+||+.-+
T Consensus 200 YPsp~eKReLA~aTg 214 (304)
T KOG0775|consen 200 YPSPREKRELAEATG 214 (304)
T ss_pred CCChHHHHHHHHHhC
Confidence 999999888877654
No 60
>COG1426 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]
Probab=34.98 E-value=21 Score=33.30 Aligned_cols=27 Identities=19% Similarity=0.310 Sum_probs=23.5
Q ss_pred HHHHHHHHhhhhccCcchhHHhhhhhc
Q psy14051 11 KEFAKAFKLRRLSLGLTQTQVGQALSV 37 (256)
Q Consensus 11 ~~FAk~FK~rRl~LGlTQ~~Vg~aL~~ 37 (256)
+++.+.||+.|..+|||..||...++.
T Consensus 2 ~~~Ge~Lr~~Re~~gLsL~dva~~t~I 28 (284)
T COG1426 2 KTLGERLRQAREEKGLSLEDVAARTKI 28 (284)
T ss_pred ccHHHHHHHHHHHcCCCHHHHHHHhCc
Confidence 467889999999999999999987653
No 61
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=32.98 E-value=49 Score=26.50 Aligned_cols=34 Identities=29% Similarity=0.396 Sum_probs=24.4
Q ss_pred CChHHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 5 INLDEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 5 ~~l~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+|.++|+++.+. .-+.|+.++...|++ |.++||+
T Consensus 57 id~~~L~~~v~~------~pd~tl~Ela~~l~V------s~~ti~~ 90 (119)
T PF01710_consen 57 IDRDELKALVEE------NPDATLRELAERLGV------SPSTIWR 90 (119)
T ss_pred ccHHHHHHHHHH------CCCcCHHHHHHHcCC------CHHHHHH
Confidence 456777777666 456777887776653 8999998
No 62
>KOG0844|consensus
Probab=32.73 E-value=15 Score=36.12 Aligned_cols=40 Identities=5% Similarity=-0.123 Sum_probs=37.7
Q ss_pred ccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCCCC
Q psy14051 128 SQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPSAG 167 (256)
Q Consensus 128 KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~Lns 167 (256)
-||=||.|+-+...-||+.|-+..+-|.-...+||-.||-
T Consensus 181 mRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNL 220 (408)
T KOG0844|consen 181 MRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNL 220 (408)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCC
Confidence 4999999999999999999999999999999999999994
No 63
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=31.38 E-value=31 Score=26.64 Aligned_cols=11 Identities=36% Similarity=1.253 Sum_probs=10.0
Q ss_pred hhHHHHHHHHH
Q psy14051 98 IKPVLERWMKE 108 (256)
Q Consensus 98 lkPvLekWL~E 108 (256)
|||.|..||++
T Consensus 43 LRPmLkeWLD~ 53 (73)
T PF10691_consen 43 LRPMLKEWLDE 53 (73)
T ss_pred HHHHHHHHHHh
Confidence 69999999986
No 64
>PF10926 DUF2800: Protein of unknown function (DUF2800); InterPro: IPR021229 This entry is represented by Bacteriophage APSE-1, protein 51. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of uncharacterised proteins found in bacteria and viruses. Some members of this family are annotated as being Phi APSE P51-like proteins.
Probab=28.60 E-value=1.5e+02 Score=29.14 Aligned_cols=60 Identities=20% Similarity=0.264 Sum_probs=34.8
Q ss_pred hhccc-----CChhhhhhh---hHHHHHHHHHHHHhhhc----C-CCCCCCCCcccccCCCcccchhhHhhhHH
Q psy14051 85 FEKLD-----ITPKSAQKI---KPVLERWMKEAEERQVM----S-NMPGIISPPLISQNQNMVNAPLNLSLNSN 145 (256)
Q Consensus 85 FEkLd-----ls~kna~Kl---kPvLekWL~EAE~~~~~----g-n~~~~i~~~~~KRKRRTSIep~vKslLEs 145 (256)
|+... +|...+-.| .+.|++|+++.+.+-.. | .++++=-.+.|..|+=| -+..+...|+.
T Consensus 243 f~~~~~~l~~Lt~~eia~il~~~~~l~~w~~~v~~~a~~~~~~G~~~pG~KlVeGRs~R~~~-De~~a~~~L~~ 315 (372)
T PF10926_consen 243 FEDPPLPLAPLTDEEIAEILPKADELESWAKDVKEYALAEALNGEEVPGWKLVEGRSNRKWT-DEDAAAEILKA 315 (372)
T ss_pred hcCCCcccCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCccCCeeEEeccCccccC-CHHHHHHHHHH
Confidence 66654 688887777 78999999998875432 4 45554223333222222 34455555543
No 65
>PF13565 HTH_32: Homeodomain-like domain
Probab=28.53 E-value=86 Score=22.30 Aligned_cols=41 Identities=20% Similarity=0.131 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCC--cchhhhh
Q psy14051 8 DEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAY--SQSAICS 50 (256)
Q Consensus 8 ~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~ay--SQstICR 50 (256)
+|++++..++.... -..|-.++...|...+|-.+ |.+||.|
T Consensus 33 ~e~~~~i~~~~~~~--p~wt~~~i~~~L~~~~g~~~~~S~~tv~R 75 (77)
T PF13565_consen 33 PEQRERIIALIEEH--PRWTPREIAEYLEEEFGISVRVSRSTVYR 75 (77)
T ss_pred HHHHHHHHHHHHhC--CCCCHHHHHHHHHHHhCCCCCccHhHHHH
Confidence 45545554443321 16788899999999999888 9999987
No 66
>PHA02591 hypothetical protein; Provisional
Probab=28.38 E-value=52 Score=26.50 Aligned_cols=35 Identities=17% Similarity=0.280 Sum_probs=26.5
Q ss_pred ChHHHHHHHHHHHhhhhccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 6 NLDEIKEFAKAFKLRRLSLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 6 ~l~el~~FAk~FK~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
+-||+...|+.+. .+|+||.+|+..|+. ||.++.+
T Consensus 44 ~~dd~~~vA~eL~----eqGlSqeqIA~~LGV------sqetVrK 78 (83)
T PHA02591 44 SEDDLISVTHELA----RKGFTVEKIASLLGV------SVRKVRR 78 (83)
T ss_pred ccchHHHHHHHHH----HcCCCHHHHHHHhCC------CHHHHHH
Confidence 4567777777664 579999999999975 4777654
No 67
>PRK01381 Trp operon repressor; Provisional
Probab=26.40 E-value=1.6e+02 Score=24.29 Aligned_cols=40 Identities=20% Similarity=0.268 Sum_probs=31.8
Q ss_pred CChHHHHHHHHHHHhhhh-cc-CcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 5 INLDEIKEFAKAFKLRRL-SL-GLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 5 ~~l~el~~FAk~FK~rRl-~L-GlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
-..+|++.++..++.-+. -- +.||.+|.+.||+ |=+||.|
T Consensus 33 lTp~Er~al~~R~~I~~~L~~g~~sQREIa~~lGv------SiaTITR 74 (99)
T PRK01381 33 LTPDEREALGTRVRIVEELLRGELSQREIKQELGV------GIATITR 74 (99)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHhCC------ceeeehh
Confidence 357899999999988873 33 4999999999886 4578887
No 68
>KOG4577|consensus
Probab=26.39 E-value=39 Score=33.12 Aligned_cols=41 Identities=12% Similarity=0.105 Sum_probs=33.8
Q ss_pred cccccCCCcccchhhHhhhHHhhccCCCCCccccccCCCCC
Q psy14051 125 PLISQNQNMVNAPLNLSLNSNAVSANFHPNVNPRTDLKNPS 165 (256)
Q Consensus 125 ~~~KRKRRTSIep~vKslLEs~F~knPKPSseEIT~LAe~L 165 (256)
+..-+|.||.|+...++.|...|...|||-..-...|+..-
T Consensus 164 d~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseT 204 (383)
T KOG4577|consen 164 DASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSET 204 (383)
T ss_pred ccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhcc
Confidence 33456779999999999999999999999988777776543
No 69
>TIGR03764 ICE_PFGI_1_parB integrating conjugative element, PFGI_1 class, ParB family protein. Members of this protein family carry the ParB-type nuclease domain and are found in integrating conjugative elements (ICE) in the same class as PFGI-1 of Pseudomonas fluorescens Pf-5.
Probab=25.59 E-value=86 Score=29.55 Aligned_cols=27 Identities=33% Similarity=0.378 Sum_probs=22.5
Q ss_pred ccCcchhHHhhhhhcccCCCCcchhhhh
Q psy14051 23 SLGLTQTQVGQALSVTEGPAYSQSAICS 50 (256)
Q Consensus 23 ~LGlTQ~~Vg~aL~~~~G~aySQstICR 50 (256)
..|+||.++...|+.- |-..|+|+|++
T Consensus 134 g~~ltq~ela~~lgk~-g~~isrs~Isn 160 (258)
T TIGR03764 134 GESLSQRELARRLSAD-GYPISQSHISR 160 (258)
T ss_pred cCCCCHHHHHHHhccc-CCCCCHHHHHH
Confidence 4789999999999873 55678999987
No 70
>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. The mutator family of transposases consists of a number of elements that include, mutator from maize, IsT2 from Thiobacillus ferrooxidans, Is256 from Staphylococcus aureus, Is1201 from Lactobacillus helveticus, Is1081 from Mycobacterium bovis, IsRm3 from Rhizobium meliloti and others. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=25.52 E-value=45 Score=31.80 Aligned_cols=26 Identities=27% Similarity=0.397 Sum_probs=24.9
Q ss_pred CcchhHHhhhhhcccC-CCCcchhhhh
Q psy14051 25 GLTQTQVGQALSVTEG-PAYSQSAICS 50 (256)
Q Consensus 25 GlTQ~~Vg~aL~~~~G-~aySQstICR 50 (256)
|+|..+|+.+|..++| ..||-++|+|
T Consensus 114 G~Str~i~~~l~~l~g~~~~S~s~vSr 140 (381)
T PF00872_consen 114 GVSTRDIEEALEELYGEVAVSKSTVSR 140 (381)
T ss_pred ccccccccchhhhhhcccccCchhhhh
Confidence 9999999999999999 7799999998
No 71
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=24.96 E-value=39 Score=23.52 Aligned_cols=27 Identities=33% Similarity=0.315 Sum_probs=20.5
Q ss_pred hhhhccCcchhHHhhhhhcccCCCCcchhhhhH
Q psy14051 19 LRRLSLGLTQTQVGQALSVTEGPAYSQSAICSA 51 (256)
Q Consensus 19 ~rRl~LGlTQ~~Vg~aL~~~~G~aySQstICR~ 51 (256)
.-+++.|+|+.++|.- +| -|+||+||.
T Consensus 13 L~~LR~~~~~~~La~~----Fg--Is~stvsri 39 (53)
T PF13613_consen 13 LMYLRLNLTFQDLAYR----FG--ISQSTVSRI 39 (53)
T ss_pred HHHHHcCCcHhHHhhh----ee--ecHHHHHHH
Confidence 4578899999998654 43 379999983
No 72
>COG1396 HipB Predicted transcriptional regulators [Transcription]
Probab=22.39 E-value=85 Score=20.19 Aligned_cols=25 Identities=28% Similarity=0.408 Sum_probs=21.4
Q ss_pred HHHHHHhhhhccCcchhHHhhhhhc
Q psy14051 13 FAKAFKLRRLSLGLTQTQVGQALSV 37 (256)
Q Consensus 13 FAk~FK~rRl~LGlTQ~~Vg~aL~~ 37 (256)
|.+.++..|-..|+||.++...++.
T Consensus 2 ~~~~~~~~r~~~~~s~~~~a~~~~~ 26 (120)
T COG1396 2 IGERLKELRKKKGLSQEELAERLGV 26 (120)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHhCC
Confidence 5677888999999999998888776
Done!