Query 011273
Match_columns 489
No_of_seqs 325 out of 1799
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 23:31:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011273.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011273hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03162 golden-2 like transcr 99.9 2E-22 4.2E-27 205.6 6.1 67 100-166 230-296 (526)
2 TIGR01557 myb_SHAQKYF myb-like 99.7 1.7E-18 3.6E-23 136.3 5.3 55 105-159 1-56 (57)
3 COG4565 CitB Response regulato 99.3 3.2E-13 6.9E-18 131.2 0.2 121 1-145 80-203 (224)
4 COG0745 OmpR Response regulato 97.8 1.8E-05 3.9E-10 77.7 4.3 44 1-44 78-121 (229)
5 COG2204 AtoC Response regulato 97.1 0.00054 1.2E-08 74.2 5.1 44 1-44 82-125 (464)
6 COG4566 TtrR Response regulato 97.0 0.00043 9.3E-09 67.2 3.2 44 1-44 82-125 (202)
7 PRK10046 dpiA two-component re 96.7 0.0025 5.5E-08 60.7 5.6 43 1-43 84-126 (225)
8 PF00249 Myb_DNA-binding: Myb- 96.1 0.0097 2.1E-07 44.6 4.3 48 107-157 1-48 (48)
9 PRK10529 DNA-binding transcrip 95.7 0.015 3.3E-07 53.7 5.0 42 1-42 78-119 (225)
10 COG4753 Response regulator con 95.7 0.01 2.2E-07 64.7 4.2 44 1-44 82-125 (475)
11 PRK11173 two-component respons 95.7 0.015 3.3E-07 54.6 4.9 42 2-43 81-122 (237)
12 PRK10766 DNA-binding transcrip 95.7 0.015 3.3E-07 53.5 4.8 41 2-42 80-120 (221)
13 COG4567 Response regulator con 95.6 0.0075 1.6E-07 57.3 2.4 37 1-37 87-123 (182)
14 PRK09836 DNA-binding transcrip 95.5 0.02 4.3E-07 53.1 4.9 41 1-41 78-118 (227)
15 TIGR03787 marine_sort_RR prote 95.5 0.023 5E-07 52.6 5.2 42 1-42 80-121 (227)
16 PRK10816 DNA-binding transcrip 95.4 0.02 4.4E-07 52.9 4.7 41 2-42 79-119 (223)
17 PRK10643 DNA-binding transcrip 95.2 0.028 6.1E-07 51.2 4.9 42 1-42 78-119 (222)
18 PRK10161 transcriptional regul 95.1 0.032 7E-07 51.8 5.0 40 2-41 83-122 (229)
19 PRK10336 DNA-binding transcrip 95.0 0.035 7.6E-07 50.7 4.9 42 1-42 78-119 (219)
20 PRK09468 ompR osmolarity respo 95.0 0.031 6.7E-07 52.4 4.5 41 2-42 84-124 (239)
21 PRK10701 DNA-binding transcrip 94.8 0.041 9E-07 51.7 4.9 41 2-42 79-119 (240)
22 PRK10955 DNA-binding transcrip 94.8 0.041 9E-07 50.8 4.8 42 1-42 77-118 (232)
23 CHL00148 orf27 Ycf27; Reviewed 94.8 0.044 9.6E-07 50.9 5.0 42 1-42 83-124 (240)
24 PRK11517 transcriptional regul 94.7 0.044 9.5E-07 50.3 4.7 40 2-41 78-117 (223)
25 PRK13856 two-component respons 94.6 0.05 1.1E-06 51.6 4.9 37 6-42 84-120 (241)
26 PRK09581 pleD response regulat 94.6 0.031 6.6E-07 57.1 3.6 42 1-42 234-275 (457)
27 TIGR01387 cztR_silR_copR heavy 94.5 0.051 1.1E-06 49.4 4.6 41 2-42 77-117 (218)
28 TIGR02154 PhoB phosphate regul 94.5 0.051 1.1E-06 49.6 4.5 41 2-42 83-123 (226)
29 PRK11083 DNA-binding response 94.5 0.046 1E-06 50.1 4.2 41 2-42 82-122 (228)
30 TIGR02915 PEP_resp_reg putativ 94.2 0.056 1.2E-06 56.8 4.8 41 1-41 79-119 (445)
31 COG3437 Response regulator con 94.2 0.034 7.3E-07 58.6 3.1 42 1-42 95-136 (360)
32 PLN03029 type-a response regul 94.2 0.066 1.4E-06 51.8 4.9 43 1-43 108-150 (222)
33 PRK10360 DNA-binding transcrip 94.2 0.067 1.5E-06 48.2 4.6 40 2-41 79-118 (196)
34 PRK10693 response regulator of 94.1 0.069 1.5E-06 54.1 4.9 41 1-41 51-92 (303)
35 PRK09958 DNA-binding transcrip 94.0 0.076 1.7E-06 48.2 4.6 40 2-41 80-119 (204)
36 PRK10430 DNA-binding transcrip 93.8 0.1 2.2E-06 50.2 5.3 42 1-42 83-124 (239)
37 COG3706 PleD Response regulato 93.7 0.081 1.8E-06 57.3 4.7 44 1-44 212-255 (435)
38 PRK10610 chemotaxis regulatory 93.6 0.14 3.1E-06 40.8 5.1 38 4-41 89-126 (129)
39 PRK15479 transcriptional regul 93.4 0.13 2.9E-06 46.8 5.0 41 2-42 79-119 (221)
40 PRK09935 transcriptional regul 93.4 0.11 2.5E-06 46.8 4.6 40 2-41 84-123 (210)
41 PRK10840 transcriptional regul 93.1 0.13 2.8E-06 48.4 4.7 40 1-40 86-125 (216)
42 TIGR02875 spore_0_A sporulatio 93.1 0.13 2.8E-06 49.8 4.8 41 1-41 84-124 (262)
43 COG3707 AmiR Response regulato 92.1 0.19 4.1E-06 49.2 4.4 42 1-42 83-124 (194)
44 PRK10710 DNA-binding transcrip 92.0 0.24 5.1E-06 46.0 4.9 41 2-42 88-128 (240)
45 PRK11475 DNA-binding transcrip 91.5 0.24 5.2E-06 48.1 4.4 41 1-41 74-115 (207)
46 PRK09483 response regulator; P 91.5 0.27 5.8E-06 45.1 4.5 40 2-41 82-121 (217)
47 PRK09581 pleD response regulat 91.3 0.32 7E-06 49.7 5.4 40 2-41 83-122 (457)
48 PRK11361 acetoacetate metaboli 90.6 0.26 5.7E-06 51.8 4.0 41 1-41 82-122 (457)
49 smart00426 TEA TEA domain. 90.4 0.3 6.5E-06 40.5 3.3 48 108-155 4-67 (68)
50 PRK10403 transcriptional regul 90.4 0.39 8.5E-06 43.2 4.4 40 2-41 87-126 (215)
51 PRK15369 two component system 90.3 0.43 9.3E-06 42.4 4.6 40 2-41 84-123 (211)
52 PRK10923 glnG nitrogen regulat 90.2 0.41 9E-06 50.8 5.1 42 1-42 81-122 (469)
53 COG0784 CheY FOG: CheY-like re 90.0 0.53 1.1E-05 39.7 4.7 41 1-41 85-126 (130)
54 COG2197 CitB Response regulato 90.0 0.46 1E-05 46.0 4.9 42 1-42 80-121 (211)
55 PRK13435 response regulator; P 89.6 0.51 1.1E-05 41.1 4.4 33 11-43 91-123 (145)
56 PRK15115 response regulator Gl 89.5 0.34 7.4E-06 50.9 3.8 41 1-41 83-123 (444)
57 PRK11697 putative two-componen 89.3 0.68 1.5E-05 43.7 5.3 34 8-41 85-118 (238)
58 TIGR01818 ntrC nitrogen regula 89.2 0.52 1.1E-05 49.8 4.9 41 1-41 76-116 (463)
59 PRK11107 hybrid sensory histid 89.2 0.41 8.8E-06 54.3 4.3 41 1-41 747-787 (919)
60 PRK14084 two-component respons 88.9 0.74 1.6E-05 43.9 5.3 35 8-42 85-119 (246)
61 PRK10365 transcriptional regul 88.7 0.34 7.4E-06 50.6 3.1 42 1-42 83-124 (441)
62 PRK10651 transcriptional regul 88.5 0.71 1.5E-05 41.6 4.7 40 2-41 87-126 (216)
63 PRK15347 two component system 88.1 0.66 1.4E-05 52.7 5.1 41 1-41 772-812 (921)
64 PRK11466 hybrid sensory histid 86.6 0.76 1.7E-05 52.4 4.6 41 1-41 760-800 (914)
65 PRK09390 fixJ response regulat 85.4 0.73 1.6E-05 40.7 2.9 40 2-41 82-121 (202)
66 TIGR02956 TMAO_torS TMAO reduc 84.8 1.1 2.5E-05 51.2 4.8 41 1-41 783-823 (968)
67 cd00156 REC Signal receiver do 84.8 0.76 1.6E-05 34.5 2.4 34 5-38 79-112 (113)
68 PRK09959 hybrid sensory histid 83.7 1.3 2.9E-05 52.3 4.9 40 1-40 1036-1075(1197)
69 TIGR03815 CpaE_hom_Actino heli 76.6 3.1 6.7E-05 42.4 4.2 36 4-39 51-86 (322)
70 PRK11091 aerobic respiration c 74.6 3.7 8.1E-05 46.3 4.6 34 8-41 612-645 (779)
71 PRK12555 chemotaxis-specific m 73.1 4.3 9.4E-05 41.5 4.3 34 6-39 86-128 (337)
72 PRK00742 chemotaxis-specific m 62.0 12 0.00027 38.4 4.9 22 6-27 89-110 (354)
73 PF01285 TEA: TEA/ATTS domain 61.6 8.3 0.00018 42.1 3.7 53 104-156 46-112 (431)
74 PRK10100 DNA-binding transcrip 61.1 11 0.00025 36.7 4.3 38 2-41 88-127 (216)
75 PRK13558 bacterio-opsin activa 61.0 9.5 0.00021 42.3 4.2 41 1-41 85-127 (665)
76 COG3947 Response regulator con 44.9 9.3 0.0002 40.3 0.8 31 9-39 84-114 (361)
77 KOG0850 Transcription factor D 43.2 21 0.00046 36.2 3.0 64 97-166 116-183 (245)
78 KOG3841 TEF-1 and related tran 40.5 52 0.0011 35.7 5.5 51 107-157 76-142 (455)
79 PF00046 Homeobox: Homeobox do 39.0 39 0.00083 25.5 3.2 56 104-161 1-56 (57)
80 PRK12704 phosphodiesterase; Pr 34.9 30 0.00064 38.6 2.8 42 1-42 255-298 (520)
81 cd00086 homeodomain Homeodomai 34.0 85 0.0018 23.3 4.4 55 105-161 2-56 (59)
82 PF01408 GFO_IDH_MocA: Oxidore 31.9 1.1E+02 0.0024 25.8 5.3 36 6-41 75-112 (120)
83 cd00167 SANT 'SWI3, ADA2, N-Co 31.3 1.5E+02 0.0032 20.2 5.1 43 109-155 1-43 (45)
84 PF10009 DUF2252: Uncharacteri 31.2 16 0.00035 39.1 0.0 21 421-441 37-57 (385)
85 COG3279 LytT Response regulato 28.5 43 0.00093 33.4 2.5 34 8-41 86-119 (244)
86 KOG0848 Transcription factor C 28.2 64 0.0014 33.7 3.6 66 97-165 193-259 (317)
87 PF11888 DUF3408: Protein of u 27.4 1.5E+02 0.0032 27.2 5.6 48 108-165 83-131 (136)
88 smart00717 SANT SANT SWI3, AD 26.7 1.7E+02 0.0037 20.2 4.8 42 108-153 2-43 (49)
89 smart00389 HOX Homeodomain. DN 24.4 1.3E+02 0.0028 22.3 3.9 51 105-157 2-52 (56)
90 PF02042 RWP-RK: RWP-RK domain 22.8 82 0.0018 24.9 2.6 38 113-150 9-50 (52)
91 PRK11107 hybrid sensory histid 21.6 1.1E+02 0.0023 35.1 4.3 36 4-39 615-650 (919)
92 KOG0842 Transcription factor t 21.6 29 0.00063 36.5 -0.2 61 100-166 150-214 (307)
93 COG2201 CheB Chemotaxis respon 20.9 1.4E+02 0.003 32.1 4.6 21 7-27 88-108 (350)
No 1
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.86 E-value=2e-22 Score=205.58 Aligned_cols=67 Identities=51% Similarity=0.778 Sum_probs=63.0
Q ss_pred CCccccceEecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhhhhHhhhhhh
Q 011273 100 ASSTKKARVVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYRLYLTRLQKD 166 (489)
Q Consensus 100 ~~t~kK~R~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~~~~~~~~ 166 (489)
....||+|++||+|||++||+||++||++|||||+||++|+|+||||+||||||||||++++++...
T Consensus 230 ~~g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l~~r 296 (526)
T PLN03162 230 APGKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHLAAR 296 (526)
T ss_pred CCCCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccccch
Confidence 3458999999999999999999999999999999999999999999999999999999999986544
No 2
>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=99.74 E-value=1.7e-18 Score=136.31 Aligned_cols=55 Identities=60% Similarity=0.914 Sum_probs=52.9
Q ss_pred cceEecchhHHHHHHHHHHHhCC-CCCChHHHHhhcCCCcchHHHHHHhhhhhhhh
Q 011273 105 KARVVWSIDLHQKFVKAVNQIGF-DKVGPKKILDLMNVPWLTRENVASHLQKYRLY 159 (489)
Q Consensus 105 K~R~~WT~eLH~~Fv~AV~~LG~-~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~ 159 (489)
|+|+.||+|+|.+|++|++.+|. +.||||+|+++|++++||+.||+|||||||+.
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 68999999999999999999995 99999999999999999999999999999974
No 3
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=99.31 E-value=3.2e-13 Score=131.16 Aligned_cols=121 Identities=15% Similarity=0.280 Sum_probs=96.0
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhhh-cccccccccccccccccCCCCCCCCCCCCccCCcc
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKIH-EVRDIENIEGFESIHMTRSGSDQSVDGPLLTGEDL 79 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~~-~~~~~~~~e~vds~q~~~~gs~~~~~g~~~~~~~~ 79 (489)
+||.++.+++..|+++||+|||+|||.+++|.+.+.++.+++.. .+....+|+.+|.+ .+.
T Consensus 80 iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~~~r~~l~~~~~~sQ~~lD~l------------------~~~ 141 (224)
T COG4565 80 ITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYRQKRHALESHQQLSQKELDQL------------------FNI 141 (224)
T ss_pred EeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHH------------------Hhc
Confidence 58999999999999999999999999999999999999888766 55566777777765 222
Q ss_pred ccccccccccccCCCCCCCCCCccccceEecchhHHHHH--HHHHHHhCCCCCChHHHHhhcCCCcch
Q 011273 80 TSVRKRKDAENRHDDRDCGDASSTKKARVVWSIDLHQKF--VKAVNQIGFDKVGPKKILDLMNVPWLT 145 (489)
Q Consensus 80 ~s~kKRKd~~~kg~D~~~~d~~t~kK~R~~WT~eLH~~F--v~AV~~LG~~kAtPKrILElM~v~gLT 145 (489)
.++...++..+||+++. |+.+++-.+. +..+.| .++.+.+|++++|.|||||+|...|+-
T Consensus 142 ~~k~~~~~~LPkGi~~~-----Tl~~i~~~~~-~~~~~~Taeela~~~giSRvTaRRYLeyl~~~~~l 203 (224)
T COG4565 142 QSKEQPPDDLPKGLDEL-----TLQKVREALK-EPDQELTAEELAQALGISRVTARRYLEYLVSNGIL 203 (224)
T ss_pred cccccCcccCCCCcCHH-----HHHHHHHHHh-CcCCccCHHHHHHHhCccHHHHHHHHHHHHhcCee
Confidence 22333344555787665 8888876665 445677 899999999999999999999876653
No 4
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=97.81 E-value=1.8e-05 Score=77.67 Aligned_cols=44 Identities=25% Similarity=0.447 Sum_probs=41.3
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKIH 44 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~~ 44 (489)
+||.++..+.+.++++||+|||.|||+++||.++++.++|+...
T Consensus 78 Lta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~~~ 121 (229)
T COG0745 78 LTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRNAG 121 (229)
T ss_pred EECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCcCcC
Confidence 58899999999999999999999999999999999999988754
No 5
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=97.11 E-value=0.00054 Score=74.15 Aligned_cols=44 Identities=23% Similarity=0.416 Sum_probs=41.1
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKIH 44 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~~ 44 (489)
||++++.+++..|++.||+|||.|||++++|...+++++..+..
T Consensus 82 ~Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~~~~~ 125 (464)
T COG2204 82 MTGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALELREL 125 (464)
T ss_pred EeCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHHHhhh
Confidence 79999999999999999999999999999999999999976543
No 6
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=97.04 E-value=0.00043 Score=67.23 Aligned_cols=44 Identities=18% Similarity=0.419 Sum_probs=40.8
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKIH 44 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~~ 44 (489)
||+++++....+|++.||.|||.|||+..+|...+++++++...
T Consensus 82 iTGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~~~~~ 125 (202)
T COG4566 82 LTGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALARDAS 125 (202)
T ss_pred EeCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999999877543
No 7
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=96.73 E-value=0.0025 Score=60.74 Aligned_cols=43 Identities=26% Similarity=0.438 Sum_probs=37.5
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKI 43 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~ 43 (489)
+|+..+...+.+++++||.+||.||++.++|...++++.+.+.
T Consensus 84 ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~~~~~ 126 (225)
T PRK10046 84 TTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQRKH 126 (225)
T ss_pred EEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHHHHHH
Confidence 3677788899999999999999999999999999998875543
No 8
>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=96.08 E-value=0.0097 Score=44.60 Aligned_cols=48 Identities=29% Similarity=0.307 Sum_probs=41.2
Q ss_pred eEecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhh
Q 011273 107 RVVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYR 157 (489)
Q Consensus 107 R~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR 157 (489)
|..||.+-+.+|++||.+.|.. .-++|.+.|. .+-|..++++|.++|+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~--~W~~Ia~~~~-~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKD--NWKKIAKRMP-GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTT--HHHHHHHHHS-SSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCc--HHHHHHHHcC-CCCCHHHHHHHHHhhC
Confidence 4679999999999999999944 5788999988 8999999999999985
No 9
>PRK10529 DNA-binding transcriptional activator KdpE; Provisional
Probab=95.72 E-value=0.015 Score=53.69 Aligned_cols=42 Identities=31% Similarity=0.486 Sum_probs=37.2
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+.+...+++++||++||.||++.++|..+++.++++.
T Consensus 78 lt~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~~~ 119 (225)
T PRK10529 78 LSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH 119 (225)
T ss_pred EECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence 356777888899999999999999999999999999988764
No 10
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=95.70 E-value=0.01 Score=64.66 Aligned_cols=44 Identities=30% Similarity=0.380 Sum_probs=40.6
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKIH 44 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~~ 44 (489)
+|++++.+.+.+|+++|+.|||+||++..+|...+.++..+...
T Consensus 82 LSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~~kl~~ 125 (475)
T COG4753 82 LSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKIIGKLEE 125 (475)
T ss_pred EeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999876544
No 11
>PRK11173 two-component response regulator; Provisional
Probab=95.68 E-value=0.015 Score=54.64 Aligned_cols=42 Identities=21% Similarity=0.370 Sum_probs=37.2
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKI 43 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~ 43 (489)
|+..+......++++||++||.||++.++|..++++++++..
T Consensus 81 t~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~r~~ 122 (237)
T PRK11173 81 TGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRTM 122 (237)
T ss_pred ECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhccc
Confidence 566777788899999999999999999999999999987753
No 12
>PRK10766 DNA-binding transcriptional regulator TorR; Provisional
Probab=95.66 E-value=0.015 Score=53.50 Aligned_cols=41 Identities=22% Similarity=0.395 Sum_probs=36.7
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
++..+.....+++++||++||.||++.++|..+++.++++.
T Consensus 80 ~~~~~~~~~~~~l~~Ga~d~l~kP~~~~~L~~~i~~~~~r~ 120 (221)
T PRK10766 80 TGRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLWRI 120 (221)
T ss_pred ECCCcHHHHHHHHHcCCCcEEeCCCCHHHHHHHHHHHHhhh
Confidence 56677788889999999999999999999999999988764
No 13
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=95.58 E-value=0.0075 Score=57.26 Aligned_cols=37 Identities=24% Similarity=0.464 Sum_probs=33.3
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHH
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQH 37 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~ 37 (489)
+|+++++.+.+.|+++|||+||.||-+.+++...+..
T Consensus 87 LTGy~sIATAV~AvKlGA~~YLaKPAdaDdi~aAl~~ 123 (182)
T COG4567 87 LTGYASIATAVEAVKLGACDYLAKPADADDILAALLR 123 (182)
T ss_pred EecchHHHHHHHHHHhhhhhhcCCCCChHHHHHHHhh
Confidence 5899999999999999999999999999998766643
No 14
>PRK09836 DNA-binding transcriptional activator CusR; Provisional
Probab=95.49 E-value=0.02 Score=53.12 Aligned_cols=41 Identities=32% Similarity=0.546 Sum_probs=36.7
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|+..+.+....++++||++||.||++.++|..+++.++++
T Consensus 78 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~ 118 (227)
T PRK09836 78 LTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRR 118 (227)
T ss_pred EEcCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence 35677888899999999999999999999999999998765
No 15
>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator. This model describes a family of DNA-binding response regulator proteins, associated with an adjacent histidine kinase (TIGR03785) to form a two-component system. This system co-occurs with, and often is adjacent to, a proteobacterial variant form of the protein sorting transpeptidase called sortase (TIGR03784), and a single target protein for the sortase. We give this protein the gene symbol pdsR, for Proteobacterial Dedicated Sortase system Response regulator.
Probab=95.47 E-value=0.023 Score=52.56 Aligned_cols=42 Identities=26% Similarity=0.423 Sum_probs=37.2
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+.+....++++||++||.||++.++|..+++.++++.
T Consensus 80 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~ 121 (227)
T TIGR03787 80 LTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRRA 121 (227)
T ss_pred EECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHHhh
Confidence 356777888899999999999999999999999999988764
No 16
>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional
Probab=95.45 E-value=0.02 Score=52.95 Aligned_cols=41 Identities=22% Similarity=0.363 Sum_probs=36.6
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
|+..+......++++||++||.||++.++|..+++.++++.
T Consensus 79 s~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~~~ 119 (223)
T PRK10816 79 TARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRN 119 (223)
T ss_pred EcCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhcc
Confidence 56677788899999999999999999999999999988763
No 17
>PRK10643 DNA-binding transcriptional regulator BasR; Provisional
Probab=95.24 E-value=0.028 Score=51.24 Aligned_cols=42 Identities=26% Similarity=0.506 Sum_probs=37.0
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+......++++||.+||.||++.++|..+++.++++.
T Consensus 78 ls~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~ 119 (222)
T PRK10643 78 LTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRRH 119 (222)
T ss_pred EECCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhhh
Confidence 356777888999999999999999999999999999887654
No 18
>PRK10161 transcriptional regulator PhoB; Provisional
Probab=95.11 E-value=0.032 Score=51.79 Aligned_cols=40 Identities=35% Similarity=0.582 Sum_probs=36.1
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+.....+++++||.+||.||++.++|..+++.++++
T Consensus 83 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~ 122 (229)
T PRK10161 83 TARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR 122 (229)
T ss_pred ECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhc
Confidence 5667778889999999999999999999999999998875
No 19
>PRK10336 DNA-binding transcriptional regulator QseB; Provisional
Probab=95.01 E-value=0.035 Score=50.66 Aligned_cols=42 Identities=24% Similarity=0.470 Sum_probs=36.7
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+......++++||.+||.||++.++|..+++.++++.
T Consensus 78 lt~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~ 119 (219)
T PRK10336 78 LTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRT 119 (219)
T ss_pred EECCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHhcc
Confidence 356677788899999999999999999999999999887654
No 20
>PRK09468 ompR osmolarity response regulator; Provisional
Probab=94.98 E-value=0.031 Score=52.42 Aligned_cols=41 Identities=34% Similarity=0.536 Sum_probs=36.4
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
++..+......++++||++||.||++.++|..+++.++++.
T Consensus 84 s~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~r~ 124 (239)
T PRK09468 84 TAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQ 124 (239)
T ss_pred ECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhccc
Confidence 55677788889999999999999999999999999988764
No 21
>PRK10701 DNA-binding transcriptional regulator RstA; Provisional
Probab=94.82 E-value=0.041 Score=51.71 Aligned_cols=41 Identities=22% Similarity=0.316 Sum_probs=35.8
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
++..+......++++||++||.||++..+|..+++.++++.
T Consensus 79 ~~~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~~~ 119 (240)
T PRK10701 79 TSLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQN 119 (240)
T ss_pred ECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhcc
Confidence 45566777889999999999999999999999999988764
No 22
>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional
Probab=94.80 E-value=0.041 Score=50.78 Aligned_cols=42 Identities=29% Similarity=0.479 Sum_probs=36.5
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+.....+++++||.+||.||++.++|..+++.++++.
T Consensus 77 lt~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~ 118 (232)
T PRK10955 77 LTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRS 118 (232)
T ss_pred EECCCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHhcc
Confidence 356677778889999999999999999999999999888654
No 23
>CHL00148 orf27 Ycf27; Reviewed
Probab=94.80 E-value=0.044 Score=50.85 Aligned_cols=42 Identities=33% Similarity=0.575 Sum_probs=36.5
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+.....+++++||.+||.||++.++|..+++.++++.
T Consensus 83 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~~ 124 (240)
T CHL00148 83 LTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRRT 124 (240)
T ss_pred EECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence 356677788889999999999999999999999999887654
No 24
>PRK11517 transcriptional regulatory protein YedW; Provisional
Probab=94.71 E-value=0.044 Score=50.30 Aligned_cols=40 Identities=28% Similarity=0.497 Sum_probs=35.7
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+.+...+++++||++||.||++.++|..+++.++++
T Consensus 78 s~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~ 117 (223)
T PRK11517 78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117 (223)
T ss_pred ECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence 5667788899999999999999999999999999988764
No 25
>PRK13856 two-component response regulator VirG; Provisional
Probab=94.60 E-value=0.05 Score=51.55 Aligned_cols=37 Identities=22% Similarity=0.394 Sum_probs=33.0
Q ss_pred chHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 6 ETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 6 d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+.....+++++||++||.||++.++|..+++.++++.
T Consensus 84 ~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~~~ 120 (241)
T PRK13856 84 EEADKVVALELGATDFIAKPFGTREFLARIRVALRVR 120 (241)
T ss_pred cHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHhhc
Confidence 5566789999999999999999999999999988764
No 26
>PRK09581 pleD response regulator PleD; Reviewed
Probab=94.56 E-value=0.031 Score=57.09 Aligned_cols=42 Identities=29% Similarity=0.534 Sum_probs=37.1
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|++.+.+.+.+|+..||+|||.||++.++|...+....+++
T Consensus 234 ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~~~~~~ 275 (457)
T PRK09581 234 LVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIRRK 275 (457)
T ss_pred EeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHHHHHHH
Confidence 467888999999999999999999999999999988766543
No 27
>TIGR01387 cztR_silR_copR heavy metal response regulator. Members of this family contain a response regulator receiver domain (Pfam:PF00072) and an associated transcriptional regulatory region (Pfam:PF00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system.
Probab=94.51 E-value=0.051 Score=49.41 Aligned_cols=41 Identities=29% Similarity=0.512 Sum_probs=35.9
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
|+..+.....+++++||++||.||++.++|..+++.++++.
T Consensus 77 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~ 117 (218)
T TIGR01387 77 TARDSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRS 117 (218)
T ss_pred EcCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhccc
Confidence 55677788889999999999999999999999999887653
No 28
>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB. PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well.
Probab=94.49 E-value=0.051 Score=49.56 Aligned_cols=41 Identities=32% Similarity=0.549 Sum_probs=36.1
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
|+..+.....+++++||++||.||++.++|...++.++++.
T Consensus 83 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~ 123 (226)
T TIGR02154 83 TARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRRI 123 (226)
T ss_pred ecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhccc
Confidence 56677788899999999999999999999999999887653
No 29
>PRK11083 DNA-binding response regulator CreB; Provisional
Probab=94.45 E-value=0.046 Score=50.05 Aligned_cols=41 Identities=22% Similarity=0.426 Sum_probs=35.5
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
|+..+......++++||++||.||++.++|...++.++++.
T Consensus 82 s~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~ 122 (228)
T PRK11083 82 TARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRRV 122 (228)
T ss_pred EcCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHCcc
Confidence 55667777889999999999999999999999998887654
No 30
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=94.23 E-value=0.056 Score=56.79 Aligned_cols=41 Identities=24% Similarity=0.417 Sum_probs=36.8
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
||+..+.+...++++.||++||.||++.++|..+++++++.
T Consensus 79 lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~ 119 (445)
T TIGR02915 79 ITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFHL 119 (445)
T ss_pred EecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhhhh
Confidence 46778889999999999999999999999999999887654
No 31
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=94.22 E-value=0.034 Score=58.63 Aligned_cols=42 Identities=29% Similarity=0.379 Sum_probs=37.6
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+.+...+|+..||+|||.||+++.+|..++...++.+
T Consensus 95 lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv~~~~q~k 136 (360)
T COG3437 95 LTAYADSEDRQRALEAGADDYLSKPISPKELVARVSSHLQLK 136 (360)
T ss_pred EeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 488999999999999999999999999999999997666544
No 32
>PLN03029 type-a response regulator protein; Provisional
Probab=94.20 E-value=0.066 Score=51.85 Aligned_cols=43 Identities=28% Similarity=0.611 Sum_probs=36.5
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKI 43 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~ 43 (489)
||+........+++++||.+||.||+...+|..++.++++.+.
T Consensus 108 ls~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~~~~ 150 (222)
T PLN03029 108 MSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTKS 150 (222)
T ss_pred EeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHHHHHH
Confidence 3566777888899999999999999999999888888776543
No 33
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=94.19 E-value=0.067 Score=48.21 Aligned_cols=40 Identities=25% Similarity=0.215 Sum_probs=35.2
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|...+.+....+++.||++||.||++.++|...++.+++.
T Consensus 79 s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~ 118 (196)
T PRK10360 79 SVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATG 118 (196)
T ss_pred ECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcC
Confidence 4566778888999999999999999999999999988754
No 34
>PRK10693 response regulator of RpoS; Provisional
Probab=94.08 E-value=0.069 Score=54.08 Aligned_cols=41 Identities=24% Similarity=0.422 Sum_probs=35.6
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCC-CHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPI-RMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~-~~eEL~~i~q~vLRr 41 (489)
+|+..+.+.+.++++.||+|||.||+ +.++|..+++++++.
T Consensus 51 lt~~~~~~~~~~al~~Ga~dyl~KP~~~~~~L~~~i~~~l~~ 92 (303)
T PRK10693 51 ISATENMADIAKALRLGVQDVLLKPVKDLNRLREMVFACLYP 92 (303)
T ss_pred EECCCCHHHHHHHHHCCCcEEEECCCCcHHHHHHHHHHHhhh
Confidence 36777888999999999999999999 599999999887754
No 35
>PRK09958 DNA-binding transcriptional activator EvgA; Provisional
Probab=94.00 E-value=0.076 Score=48.16 Aligned_cols=40 Identities=13% Similarity=0.057 Sum_probs=35.4
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+......++..||++||.||++.++|...++.+++.
T Consensus 80 s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~ 119 (204)
T PRK09958 80 SAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNG 119 (204)
T ss_pred eCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHcC
Confidence 5567778889999999999999999999999999988754
No 36
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=93.82 E-value=0.1 Score=50.17 Aligned_cols=42 Identities=21% Similarity=0.423 Sum_probs=36.5
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|+..+...+.++++.||.+||.||++.++|...+.+++.++
T Consensus 83 ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~~~~~ 124 (239)
T PRK10430 83 ISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGWRQKK 124 (239)
T ss_pred EECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence 467788888999999999999999999999999998876543
No 37
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=93.66 E-value=0.081 Score=57.28 Aligned_cols=44 Identities=30% Similarity=0.470 Sum_probs=39.6
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKKIH 44 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~~ 44 (489)
+++.++...+.+|++.||.|||.||+...+|..++...+++.+.
T Consensus 212 ~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~~Rl~~~l~~~~~ 255 (435)
T COG3706 212 LSSKDDDELVVRAFELGVNDYITKPIEEGELRARLRRQLRRKRY 255 (435)
T ss_pred EecccchHHHHHHHHcCCcceEecCCCHHHHHHHHHHHHHhhhH
Confidence 46778899999999999999999999999999999999887663
No 38
>PRK10610 chemotaxis regulatory protein CheY; Provisional
Probab=93.63 E-value=0.14 Score=40.85 Aligned_cols=38 Identities=24% Similarity=0.538 Sum_probs=33.0
Q ss_pred CCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 4 DGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 4 ~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
..+......+++.|+.+|+.||++.++|...+++++++
T Consensus 89 ~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~~~ 126 (129)
T PRK10610 89 EAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK 126 (129)
T ss_pred CCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHHHH
Confidence 44566778899999999999999999999999988765
No 39
>PRK15479 transcriptional regulatory protein TctD; Provisional
Probab=93.36 E-value=0.13 Score=46.81 Aligned_cols=41 Identities=29% Similarity=0.525 Sum_probs=35.7
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
|...+.....++++.||++||.||+..++|...++.++++.
T Consensus 79 t~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~~ 119 (221)
T PRK15479 79 TARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRRS 119 (221)
T ss_pred ECCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhhh
Confidence 45667778889999999999999999999999999887654
No 40
>PRK09935 transcriptional regulator FimZ; Provisional
Probab=93.35 E-value=0.11 Score=46.83 Aligned_cols=40 Identities=18% Similarity=0.165 Sum_probs=35.1
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+.....+++..||++|+.||++.++|...++.++++
T Consensus 84 s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~~ 123 (210)
T PRK09935 84 SSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSG 123 (210)
T ss_pred ECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHcC
Confidence 5566777888999999999999999999999999887764
No 41
>PRK10840 transcriptional regulator RcsB; Provisional
Probab=93.15 E-value=0.13 Score=48.36 Aligned_cols=40 Identities=8% Similarity=0.076 Sum_probs=34.8
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHH
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFR 40 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLR 40 (489)
+|+..+...+.+++++||.+||.||+++++|...++.+..
T Consensus 86 ls~~~~~~~~~~a~~~Ga~~yl~K~~~~~~l~~ai~~v~~ 125 (216)
T PRK10840 86 LTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQK 125 (216)
T ss_pred EEecCCHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHHHC
Confidence 3566778888999999999999999999999999988754
No 42
>TIGR02875 spore_0_A sporulation transcription factor Spo0A. Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species.
Probab=93.11 E-value=0.13 Score=49.79 Aligned_cols=41 Identities=24% Similarity=0.309 Sum_probs=35.9
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|+..+.....+++++||.+||.||++.++|..+++++++.
T Consensus 84 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~~~ 124 (262)
T TIGR02875 84 LSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG 124 (262)
T ss_pred EeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence 36677888889999999999999999999999999887654
No 43
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=92.14 E-value=0.19 Score=49.18 Aligned_cols=42 Identities=14% Similarity=0.328 Sum_probs=37.5
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|++++...+.++++.||..||+||++...|+.++.-+..+.
T Consensus 83 lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA~srf 124 (194)
T COG3707 83 LTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVAVSRF 124 (194)
T ss_pred EEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHHHHHHHH
Confidence 478999999999999999999999999999999887766554
No 44
>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional
Probab=92.04 E-value=0.24 Score=46.01 Aligned_cols=41 Identities=24% Similarity=0.362 Sum_probs=34.7
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
++..+......++.+||.+||.||++.++|..+++.++++.
T Consensus 88 ~~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~~~ 128 (240)
T PRK10710 88 TAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRC 128 (240)
T ss_pred EcCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHhhc
Confidence 44556677788999999999999999999999998887653
No 45
>PRK11475 DNA-binding transcriptional activator BglJ; Provisional
Probab=91.51 E-value=0.24 Score=48.06 Aligned_cols=41 Identities=12% Similarity=0.081 Sum_probs=33.5
Q ss_pred CCCCCchHHHHHHH-hcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGV-QHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kAL-elGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|++.+...+.+++ ++||++||.||++.++|...++.+++.
T Consensus 74 lt~~~~~~~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G 115 (207)
T PRK11475 74 IADDDIEARLIGSLSPSPLDGVLSKASTLEILQQELFLSLNG 115 (207)
T ss_pred EeCCCCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCC
Confidence 46666666666666 799999999999999999999988754
No 46
>PRK09483 response regulator; Provisional
Probab=91.45 E-value=0.27 Score=45.05 Aligned_cols=40 Identities=28% Similarity=0.260 Sum_probs=34.8
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|...+.....+++..||++||.||++.++|...++.+++.
T Consensus 82 s~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~g 121 (217)
T PRK09483 82 TVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSG 121 (217)
T ss_pred eCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence 4566777888999999999999999999999999887654
No 47
>PRK09581 pleD response regulator PleD; Reviewed
Probab=91.33 E-value=0.32 Score=49.69 Aligned_cols=40 Identities=25% Similarity=0.332 Sum_probs=35.2
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+.....+++..||.+||.||++.++|..++..+++.
T Consensus 83 s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~ 122 (457)
T PRK09581 83 TALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTRL 122 (457)
T ss_pred ECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence 4566778889999999999999999999999999887754
No 48
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=90.55 E-value=0.26 Score=51.79 Aligned_cols=41 Identities=29% Similarity=0.519 Sum_probs=36.0
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|+..+.+....+++.||.+||.||++.++|...++++++.
T Consensus 82 lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~ 122 (457)
T PRK11361 82 MTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQL 122 (457)
T ss_pred EeCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhccc
Confidence 46778888999999999999999999999999988876643
No 49
>smart00426 TEA TEA domain.
Probab=90.43 E-value=0.3 Score=40.46 Aligned_cols=48 Identities=29% Similarity=0.275 Sum_probs=30.8
Q ss_pred EecchhHHHHHHHHHHHhCCCCCChHHHHh-------------hcC---CCcchHHHHHHhhhh
Q 011273 108 VVWSIDLHQKFVKAVNQIGFDKVGPKKILD-------------LMN---VPWLTRENVASHLQK 155 (489)
Q Consensus 108 ~~WT~eLH~~Fv~AV~~LG~~kAtPKrILE-------------lM~---v~gLT~~~V~SHLQK 155 (489)
-+|.+++...|++|...+=...+.+-+++. ++- =.--|+.||.||+|-
T Consensus 4 ~vWp~~lE~Af~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk~Rt~KQVsShIQv 67 (68)
T smart00426 4 GVWSPDIEQAFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQV 67 (68)
T ss_pred CcCcHHHHHHHHHHHHHcCccCcccchhhhcCcccchhHHHHHHHHHHhCCccchhhhcchhee
Confidence 379999999999999987522222112221 111 134577999999994
No 50
>PRK10403 transcriptional regulator NarP; Provisional
Probab=90.37 E-value=0.39 Score=43.15 Aligned_cols=40 Identities=25% Similarity=0.236 Sum_probs=34.0
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+...+......++..||++|+.||++.++|...++.+++.
T Consensus 87 ~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~ 126 (215)
T PRK10403 87 TVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKG 126 (215)
T ss_pred eCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhCC
Confidence 4456677788899999999999999999999999887643
No 51
>PRK15369 two component system sensor kinase SsrB; Provisional
Probab=90.29 E-value=0.43 Score=42.39 Aligned_cols=40 Identities=23% Similarity=0.179 Sum_probs=34.5
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+......++..||.+|+.||++..+|...++.+++.
T Consensus 84 s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~ 123 (211)
T PRK15369 84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVG 123 (211)
T ss_pred eCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence 5566777888999999999999999999999999887644
No 52
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=90.17 E-value=0.41 Score=50.77 Aligned_cols=42 Identities=24% Similarity=0.414 Sum_probs=37.1
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
||+..+.+....+++.||.+||.||++.++|...+++++...
T Consensus 81 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~~ 122 (469)
T PRK10923 81 MTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHY 122 (469)
T ss_pred EECCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHHHHH
Confidence 467788888999999999999999999999999999887643
No 53
>COG0784 CheY FOG: CheY-like receiver [Signal transduction mechanisms]
Probab=90.04 E-value=0.53 Score=39.71 Aligned_cols=41 Identities=24% Similarity=0.438 Sum_probs=31.1
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHH-HHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKE-LRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eE-L~~i~q~vLRr 41 (489)
+|++.......++++.|+.+||.||+...+ |...+++++..
T Consensus 85 ~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~~ 126 (130)
T COG0784 85 LTAYADEADRERALAAGADDYLTKPIFLEEELLAALRRLLAR 126 (130)
T ss_pred EEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHHHHHHh
Confidence 356666666778899999999999977777 77777765543
No 54
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=90.03 E-value=0.46 Score=46.04 Aligned_cols=42 Identities=24% Similarity=0.347 Sum_probs=38.0
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|++.+...+.+++++||..|+.|..++++|...++.+....
T Consensus 80 lt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~G~ 121 (211)
T COG2197 80 LTAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAAGG 121 (211)
T ss_pred EeccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCC
Confidence 478899999999999999999999999999999999887544
No 55
>PRK13435 response regulator; Provisional
Probab=89.62 E-value=0.51 Score=41.13 Aligned_cols=33 Identities=12% Similarity=0.160 Sum_probs=28.7
Q ss_pred HHHHhcCCceEEeCCCCHHHHHHHHHHHHHhhh
Q 011273 11 MKGVQHGACDYLLKPIRMKELRNIWQHVFRKKI 43 (489)
Q Consensus 11 ~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr~ 43 (489)
..++..||.+||.||++.++|...+++++.++.
T Consensus 91 ~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~~ 123 (145)
T PRK13435 91 VPHDFAGALGVIAKPYSPRGVARALSYLSARRV 123 (145)
T ss_pred HHHHhcCcceeEeCCCCHHHHHHHHHHHHhcCc
Confidence 567889999999999999999999998875543
No 56
>PRK15115 response regulator GlrR; Provisional
Probab=89.51 E-value=0.34 Score=50.95 Aligned_cols=41 Identities=17% Similarity=0.400 Sum_probs=36.7
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|+..+.....+++++||.+||.||+..++|...++.+++.
T Consensus 83 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~~~ 123 (444)
T PRK15115 83 LTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALEQ 123 (444)
T ss_pred EECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHHHh
Confidence 46677888899999999999999999999999999988764
No 57
>PRK11697 putative two-component response-regulatory protein YehT; Provisional
Probab=89.27 E-value=0.68 Score=43.67 Aligned_cols=34 Identities=29% Similarity=0.435 Sum_probs=30.2
Q ss_pred HHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 8 SRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 8 e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+....+++.||.+||.||+..++|...+.++.+.
T Consensus 85 ~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~~~ 118 (238)
T PRK11697 85 EYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQE 118 (238)
T ss_pred HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHHh
Confidence 4677899999999999999999999999988654
No 58
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=89.19 E-value=0.52 Score=49.76 Aligned_cols=41 Identities=22% Similarity=0.433 Sum_probs=36.3
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|++.+.....++++.||.+||.||+..++|...+++++..
T Consensus 76 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~ 116 (463)
T TIGR01818 76 MTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERALAH 116 (463)
T ss_pred EeCCCCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHHHH
Confidence 36677788899999999999999999999999999887754
No 59
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=89.15 E-value=0.41 Score=54.27 Aligned_cols=41 Identities=20% Similarity=0.242 Sum_probs=36.4
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|+..+.+...+|++.||++||.||++.++|...+.++++.
T Consensus 747 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~ 787 (919)
T PRK11107 747 VTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYKPG 787 (919)
T ss_pred EeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHccc
Confidence 47788889999999999999999999999999998887644
No 60
>PRK14084 two-component response regulator; Provisional
Probab=88.95 E-value=0.74 Score=43.86 Aligned_cols=35 Identities=29% Similarity=0.414 Sum_probs=30.5
Q ss_pred HHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 8 SRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 8 e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+...++++.||.+||.||+..++|...++++.+..
T Consensus 85 ~~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~~~~ 119 (246)
T PRK14084 85 QFAVKAFELNATDYILKPFEQKRIEQAVNKVRATK 119 (246)
T ss_pred HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHHhh
Confidence 45678999999999999999999999999887543
No 61
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=88.73 E-value=0.34 Score=50.63 Aligned_cols=42 Identities=21% Similarity=0.490 Sum_probs=37.0
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
+|++.+.+.+..+++.||.+||.||++.++|...+++++++.
T Consensus 83 lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l~~~ 124 (441)
T PRK10365 83 MTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHT 124 (441)
T ss_pred EECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 466778889999999999999999999999999999887653
No 62
>PRK10651 transcriptional regulator NarL; Provisional
Probab=88.53 E-value=0.71 Score=41.63 Aligned_cols=40 Identities=28% Similarity=0.384 Sum_probs=34.4
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
++..+......+++.||.+||.||++.++|...++.+++.
T Consensus 87 ~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~~ 126 (216)
T PRK10651 87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAG 126 (216)
T ss_pred eCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence 4456677788999999999999999999999999988754
No 63
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=88.13 E-value=0.66 Score=52.72 Aligned_cols=41 Identities=15% Similarity=0.328 Sum_probs=36.2
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|+..+.....+++++||++||.||++.++|..++.++++.
T Consensus 772 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~ 812 (921)
T PRK15347 772 LTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAAEY 812 (921)
T ss_pred EeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhh
Confidence 46778888899999999999999999999999999887653
No 64
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=86.62 E-value=0.76 Score=52.43 Aligned_cols=41 Identities=12% Similarity=0.103 Sum_probs=36.4
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|++.......++++.|+++||.||++.++|...+.++++.
T Consensus 760 ~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~ 800 (914)
T PRK11466 760 FSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQL 800 (914)
T ss_pred EeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhhh
Confidence 46677778889999999999999999999999999998754
No 65
>PRK09390 fixJ response regulator FixJ; Provisional
Probab=85.39 E-value=0.73 Score=40.72 Aligned_cols=40 Identities=18% Similarity=0.376 Sum_probs=34.2
Q ss_pred CCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+......+++.|+.+|+.||+..++|...++.+++.
T Consensus 82 ~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~~~ 121 (202)
T PRK09390 82 TGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQ 121 (202)
T ss_pred ECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHHHh
Confidence 4556777888999999999999999999999988877754
No 66
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=84.80 E-value=1.1 Score=51.20 Aligned_cols=41 Identities=17% Similarity=0.212 Sum_probs=36.4
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+|++...+...++++.|+++||.||++.++|..++.+++..
T Consensus 783 lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~ 823 (968)
T TIGR02956 783 FSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILAG 823 (968)
T ss_pred EECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhcc
Confidence 46777888899999999999999999999999999887753
No 67
>cd00156 REC Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; contains a phosphoacceptor site that is phosphorylated by histidine kinase homologs; usually found N-terminal to a DNA binding effector domain; forms homodimers
Probab=84.76 E-value=0.76 Score=34.48 Aligned_cols=34 Identities=29% Similarity=0.490 Sum_probs=28.4
Q ss_pred CchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHH
Q 011273 5 GETSRVMKGVQHGACDYLLKPIRMKELRNIWQHV 38 (489)
Q Consensus 5 ~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~v 38 (489)
........++..|+.+|+.||+..++|...++.+
T Consensus 79 ~~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~~~ 112 (113)
T cd00156 79 GDDEDAVEALKAGADDYLTKPFSPEELLARIRAL 112 (113)
T ss_pred ccHHHHHHHHHcChhhHccCCCCHHHHHHHHHhh
Confidence 3456677889999999999999999998888654
No 68
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=83.72 E-value=1.3 Score=52.28 Aligned_cols=40 Identities=18% Similarity=0.389 Sum_probs=35.4
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHH
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVFR 40 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLR 40 (489)
+|+..+.....++++.||++||.||++.++|...++++.+
T Consensus 1036 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~ 1075 (1197)
T PRK09959 1036 LTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQ 1075 (1197)
T ss_pred EECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhh
Confidence 4677888889999999999999999999999999887654
No 69
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=76.65 E-value=3.1 Score=42.43 Aligned_cols=36 Identities=11% Similarity=-0.043 Sum_probs=32.0
Q ss_pred CCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHH
Q 011273 4 DGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVF 39 (489)
Q Consensus 4 ~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vL 39 (489)
..+.+....|++.||.+||.+|+...+|...+.++.
T Consensus 51 ~~~~~~~~~a~~~Ga~~~l~~P~~~~~l~~~l~~~~ 86 (322)
T TIGR03815 51 EPGGALWRAAAAVGAEHVAVLPEAEGWLVELLADLD 86 (322)
T ss_pred CCCHHHHHHHHHhChhheeeCCCCHHHHHHHHHhhc
Confidence 457788999999999999999999999998887763
No 70
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=74.57 E-value=3.7 Score=46.33 Aligned_cols=34 Identities=18% Similarity=0.278 Sum_probs=29.4
Q ss_pred HHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 8 SRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 8 e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
.....++++|+++||.||++.++|...+++++..
T Consensus 612 ~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~ 645 (779)
T PRK11091 612 KDKKEYLDAGMDDVLSKPLSVPALTAMIKKFWDT 645 (779)
T ss_pred HhHHHHHHCCCCEEEECCCCHHHHHHHHHHHhcc
Confidence 4467889999999999999999999999887643
No 71
>PRK12555 chemotaxis-specific methylesterase; Provisional
Probab=73.09 E-value=4.3 Score=41.47 Aligned_cols=34 Identities=26% Similarity=0.277 Sum_probs=25.0
Q ss_pred chHHHHHHHhcCCceEEeCCC---------CHHHHHHHHHHHH
Q 011273 6 ETSRVMKGVQHGACDYLLKPI---------RMKELRNIWQHVF 39 (489)
Q Consensus 6 d~e~v~kALelGA~DYLvKP~---------~~eEL~~i~q~vL 39 (489)
+.....++++.||.+||.||+ ..++|...++.+.
T Consensus 86 ~~~~~~~al~~Ga~d~l~KP~~~~~~~~~~~~~~l~~~i~~~~ 128 (337)
T PRK12555 86 NASRVFEAMGAGALDAVDTPTLGIGAGLEEYAAELLAKIDQIG 128 (337)
T ss_pred CHHHHHHHHhcCceEEEECCCCCcchhHHHHHHHHHHHHHHHh
Confidence 345677899999999999999 4455555555544
No 72
>PRK00742 chemotaxis-specific methylesterase; Provisional
Probab=61.98 E-value=12 Score=38.41 Aligned_cols=22 Identities=23% Similarity=0.517 Sum_probs=18.6
Q ss_pred chHHHHHHHhcCCceEEeCCCC
Q 011273 6 ETSRVMKGVQHGACDYLLKPIR 27 (489)
Q Consensus 6 d~e~v~kALelGA~DYLvKP~~ 27 (489)
......++++.||.+||.||+.
T Consensus 89 ~~~~~~~al~~Ga~d~l~kP~~ 110 (354)
T PRK00742 89 GAEITLRALELGAVDFVTKPFL 110 (354)
T ss_pred CHHHHHHHHhCCCcEEEeCCcc
Confidence 3456778999999999999994
No 73
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=61.59 E-value=8.3 Score=42.08 Aligned_cols=53 Identities=26% Similarity=0.313 Sum_probs=29.1
Q ss_pred ccceEecchhHHHHHHHHHHHhC-CCCCChH----------HHHhhcC---CCcchHHHHHHhhhhh
Q 011273 104 KKARVVWSIDLHQKFVKAVNQIG-FDKVGPK----------KILDLMN---VPWLTRENVASHLQKY 156 (489)
Q Consensus 104 kK~R~~WT~eLH~~Fv~AV~~LG-~~kAtPK----------rILElM~---v~gLT~~~V~SHLQKy 156 (489)
.+..-+|+++++..|++|+...= ..+.+-+ -|-+++. =.--||.+|+||+|-.
T Consensus 46 ~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 46 GDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 45578999999999999998864 1122211 1122222 1456789999999998
No 74
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=61.06 E-value=11 Score=36.68 Aligned_cols=38 Identities=11% Similarity=0.061 Sum_probs=29.1
Q ss_pred CCCCchHHHHHHHhc--CCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 2 SVDGETSRVMKGVQH--GACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 2 SA~~d~e~v~kALel--GA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
|+..+ ....++.. ||..||.|+.+.++|...++.+.+.
T Consensus 88 t~~~~--~~~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~G 127 (216)
T PRK10100 88 NTPED--YPYREIENWPHINGVFYAMEDQERVVNGLQGVLRG 127 (216)
T ss_pred ECCch--hHHHHHHHhcCCeEEEECCCCHHHHHHHHHHHHcC
Confidence 44444 34455554 9999999999999999999888653
No 75
>PRK13558 bacterio-opsin activator; Provisional
Probab=60.97 E-value=9.5 Score=42.28 Aligned_cols=41 Identities=10% Similarity=0.151 Sum_probs=31.1
Q ss_pred CCCCCchHHHHHHHhcCCceEEeCCCCHH--HHHHHHHHHHHh
Q 011273 1 MSVDGETSRVMKGVQHGACDYLLKPIRMK--ELRNIWQHVFRK 41 (489)
Q Consensus 1 MSA~~d~e~v~kALelGA~DYLvKP~~~e--EL~~i~q~vLRr 41 (489)
+|+..+.+...+++..||.+||.||.... .+..+++.++..
T Consensus 85 lt~~~~~~~~~~al~~Ga~dyl~k~~~~~~~~l~~~i~~~~~~ 127 (665)
T PRK13558 85 VPTAGDEAVARRAVDADAAAYVPAVSDDATAAIAERIESAVPE 127 (665)
T ss_pred EECCCCHHHHHHHHhcCcceEEeccchhHHHHHHHHHHHhhhc
Confidence 46677888999999999999999997543 566666655543
No 76
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=44.90 E-value=9.3 Score=40.29 Aligned_cols=31 Identities=19% Similarity=0.232 Sum_probs=24.2
Q ss_pred HHHHHHhcCCceEEeCCCCHHHHHHHHHHHH
Q 011273 9 RVMKGVQHGACDYLLKPIRMKELRNIWQHVF 39 (489)
Q Consensus 9 ~v~kALelGA~DYLvKP~~~eEL~~i~q~vL 39 (489)
....+....+.|||.|||..+.|...+.+..
T Consensus 84 ya~dsf~~n~~dYl~KPvt~ekLnraIdr~~ 114 (361)
T COG3947 84 YADDSFGMNLDDYLPKPVTPEKLNRAIDRRL 114 (361)
T ss_pred hhhhhcccchHhhccCCCCHHHHHHHHHHHh
Confidence 3444555667999999999999988887765
No 77
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=43.22 E-value=21 Score=36.17 Aligned_cols=64 Identities=23% Similarity=0.383 Sum_probs=47.4
Q ss_pred CCCCCccccceEecch----hHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhhhhHhhhhhh
Q 011273 97 CGDASSTKKARVVWSI----DLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYRLYLTRLQKD 166 (489)
Q Consensus 97 ~~d~~t~kK~R~~WT~----eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~~~~~~~~ 166 (489)
+......+|+|-+++. .|.+||-+.= .|- .|-| -||-.+-|||..+||.-.|.=|...||+.+.
T Consensus 116 Ngk~KK~RKPRTIYSS~QLqaL~rRFQkTQ-YLA----LPER-AeLAAsLGLTQTQVKIWFQNrRSK~KKl~k~ 183 (245)
T KOG0850|consen 116 NGKGKKVRKPRTIYSSLQLQALNRRFQQTQ-YLA----LPER-AELAASLGLTQTQVKIWFQNRRSKFKKLKKQ 183 (245)
T ss_pred CCCcccccCCcccccHHHHHHHHHHHhhcc-hhc----CcHH-HHHHHHhCCchhHhhhhhhhhHHHHHHHHhc
Confidence 4566788999999986 5778885432 222 2322 2677778999999999999999988887764
No 78
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=40.50 E-value=52 Score=35.73 Aligned_cols=51 Identities=29% Similarity=0.391 Sum_probs=37.1
Q ss_pred eEecchhHHHHHHHHHHHhC--------CCCCC--------hHHHHhhcCCCcchHHHHHHhhhhhh
Q 011273 107 RVVWSIDLHQKFVKAVNQIG--------FDKVG--------PKKILDLMNVPWLTRENVASHLQKYR 157 (489)
Q Consensus 107 R~~WT~eLH~~Fv~AV~~LG--------~~kAt--------PKrILElM~v~gLT~~~V~SHLQKyR 157 (489)
--+|+++..+.|.+|....- ++.+. --||.++-.-.--||.+|.||.|-..
T Consensus 76 egvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVla 142 (455)
T KOG3841|consen 76 EGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLA 142 (455)
T ss_pred ccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHH
Confidence 46899999999999998763 12221 24555555556779999999999753
No 79
>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=38.98 E-value=39 Score=25.51 Aligned_cols=56 Identities=18% Similarity=0.118 Sum_probs=42.4
Q ss_pred ccceEecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhhhhHh
Q 011273 104 KKARVVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYRLYLT 161 (489)
Q Consensus 104 kK~R~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~~~ 161 (489)
+|.|..+|.+ +...++++...+ ...+...+-++...-|||..+|..=.|.-|...+
T Consensus 1 kr~r~~~t~~-q~~~L~~~f~~~-~~p~~~~~~~la~~l~l~~~~V~~WF~nrR~k~k 56 (57)
T PF00046_consen 1 KRKRTRFTKE-QLKVLEEYFQEN-PYPSKEEREELAKELGLTERQVKNWFQNRRRKEK 56 (57)
T ss_dssp SSSSSSSSHH-HHHHHHHHHHHS-SSCHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCHH-HHHHHHHHHHHh-ccccccccccccccccccccccccCHHHhHHHhC
Confidence 4678889988 666666666665 5667777888888889999999988887666544
No 80
>PRK12704 phosphodiesterase; Provisional
Probab=34.92 E-value=30 Score=38.63 Aligned_cols=42 Identities=12% Similarity=0.057 Sum_probs=35.1
Q ss_pred CCCCCchH--HHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHhh
Q 011273 1 MSVDGETS--RVMKGVQHGACDYLLKPIRMKELRNIWQHVFRKK 42 (489)
Q Consensus 1 MSA~~d~e--~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRrr 42 (489)
||+.+... ....+++.|+.|+.+||++++++...++.-+...
T Consensus 255 ls~~~~~rre~a~~~l~~l~~dg~i~P~~iee~~~~~~~~~~~~ 298 (520)
T PRK12704 255 LSGFDPIRREIARLALEKLVQDGRIHPARIEEMVEKARKEVDEE 298 (520)
T ss_pred EecCChhhHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHHHHH
Confidence 35555555 7889999999999999999999999998877654
No 81
>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=33.98 E-value=85 Score=23.31 Aligned_cols=55 Identities=15% Similarity=0.081 Sum_probs=42.1
Q ss_pred cceEecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhhhhHh
Q 011273 105 KARVVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYRLYLT 161 (489)
Q Consensus 105 K~R~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~~~ 161 (489)
+.|..++.+ +...++++.... ...++..+-++...-||+..+|..-.+.-|...+
T Consensus 2 ~~r~~~~~~-~~~~Le~~f~~~-~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~ 56 (59)
T cd00086 2 RKRTRFTPE-QLEELEKEFEKN-PYPSREEREELAKELGLTERQVKIWFQNRRAKLK 56 (59)
T ss_pred CCCCcCCHH-HHHHHHHHHHhC-CCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHh
Confidence 456677777 566666666665 4678888999999999999999998887666544
No 82
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=31.87 E-value=1.1e+02 Score=25.82 Aligned_cols=36 Identities=17% Similarity=0.256 Sum_probs=29.7
Q ss_pred chHHHHHHHhcCCceEEeCCC--CHHHHHHHHHHHHHh
Q 011273 6 ETSRVMKGVQHGACDYLLKPI--RMKELRNIWQHVFRK 41 (489)
Q Consensus 6 d~e~v~kALelGA~DYLvKP~--~~eEL~~i~q~vLRr 41 (489)
..+.+.+++++|..=|+-||+ +.+++..+++.+-++
T Consensus 75 h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~~ 112 (120)
T PF01408_consen 75 HAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKEK 112 (120)
T ss_dssp HHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHHh
Confidence 456788999999999999999 888888887776444
No 83
>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=31.34 E-value=1.5e+02 Score=20.22 Aligned_cols=43 Identities=16% Similarity=0.203 Sum_probs=31.4
Q ss_pred ecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhh
Q 011273 109 VWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQK 155 (489)
Q Consensus 109 ~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQK 155 (489)
.||.+=+..|+.++...|. ..=..|-+.|. +-|..+|+.|-++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~--~~w~~Ia~~~~--~rs~~~~~~~~~~ 43 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK--NNWEKIAKELP--GRTPKQCRERWRN 43 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc--CCHHHHHhHcC--CCCHHHHHHHHHH
Confidence 3999889999999999994 23456666664 3677777776544
No 84
>PF10009 DUF2252: Uncharacterized protein conserved in bacteria (DUF2252); InterPro: IPR018721 This domain has no known function.
Probab=31.23 E-value=16 Score=39.10 Aligned_cols=21 Identities=24% Similarity=0.404 Sum_probs=18.6
Q ss_pred cccccccccccCcccccccCc
Q 011273 421 LDEDLQLCWLQGDCFAMNLGL 441 (489)
Q Consensus 421 l~~dl~~~~~~g~~~~~n~gl 441 (489)
.+..-.-.|+.|||+.+|||.
T Consensus 37 ~~~~~~~v~icGD~Hl~NFG~ 57 (385)
T PF10009_consen 37 TPPSGPPVWICGDAHLENFGA 57 (385)
T ss_pred CCCCCCceEEeccchhhccCc
Confidence 667777899999999999996
No 85
>COG3279 LytT Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]
Probab=28.51 E-value=43 Score=33.35 Aligned_cols=34 Identities=29% Similarity=0.405 Sum_probs=28.9
Q ss_pred HHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHh
Q 011273 8 SRVMKGVQHGACDYLLKPIRMKELRNIWQHVFRK 41 (489)
Q Consensus 8 e~v~kALelGA~DYLvKP~~~eEL~~i~q~vLRr 41 (489)
+....|.+..|.|||.||+..++|..+++...+.
T Consensus 86 ~~a~~afev~a~d~i~kp~~~~~l~~~l~~~~~~ 119 (244)
T COG3279 86 EYAVAAFEVEALDYLLKPISEERLAKTLERLRRY 119 (244)
T ss_pred HHHHHHHhHHHHhhhcCcchHHHHHHHHHHHHHH
Confidence 4556677889999999999999999999987665
No 86
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=28.22 E-value=64 Score=33.66 Aligned_cols=66 Identities=17% Similarity=0.110 Sum_probs=45.9
Q ss_pred CCCCCccccceEecchhHHHHHH-HHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhhhhHhhhhh
Q 011273 97 CGDASSTKKARVVWSIDLHQKFV-KAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYRLYLTRLQK 165 (489)
Q Consensus 97 ~~d~~t~kK~R~~WT~eLH~~Fv-~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~~~~~~~ 165 (489)
+....|..|.|||+|+. +|.+ |--... ---.|-+|=-|+-..-|||-.+||.-.|.-|..-+|..+
T Consensus 193 ~~KtRTkDKYRvVYTDh--QRLELEKEfh~-SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~nK 259 (317)
T KOG0848|consen 193 NVKTRTKDKYRVVYTDH--QRLELEKEFHT-SRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDNK 259 (317)
T ss_pred CceeecccceeEEecch--hhhhhhhhhcc-ccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHHH
Confidence 45677899999999984 4432 100000 113467788888888999999999999997776555433
No 87
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=27.39 E-value=1.5e+02 Score=27.17 Aligned_cols=48 Identities=29% Similarity=0.445 Sum_probs=39.0
Q ss_pred EecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHH-HHHhhhhhhhhHhhhhh
Q 011273 108 VVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTREN-VASHLQKYRLYLTRLQK 165 (489)
Q Consensus 108 ~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~-V~SHLQKyR~~~~~~~~ 165 (489)
+==..++|++...+|..||-.+.|.-.|++ | ++-||..|+--+.++..
T Consensus 83 vyI~~e~h~~l~~Iv~~ig~~~~si~~yid----------NIL~~Hle~~~eeI~~l~~ 131 (136)
T PF11888_consen 83 VYISRETHERLSRIVRVIGERKMSISGYID----------NILRHHLEEYREEINELYE 131 (136)
T ss_pred eEECHHHHHHHHHHHHHHCCCCCcHHHHHH----------HHHHHHHHHHHHHHHHHHH
Confidence 666789999999999999988888888764 4 45599999987776543
No 88
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=26.73 E-value=1.7e+02 Score=20.15 Aligned_cols=42 Identities=17% Similarity=0.166 Sum_probs=30.0
Q ss_pred EecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhh
Q 011273 108 VVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHL 153 (489)
Q Consensus 108 ~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHL 153 (489)
..||.+=...|+.++.+.|. ..=..|-+.|. +-|..+|+.+-
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~--~~w~~Ia~~~~--~rt~~~~~~~~ 43 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK--NNWEKIAKELP--GRTAEQCRERW 43 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc--CCHHHHHHHcC--CCCHHHHHHHH
Confidence 46999989999999999994 22355555554 66777776653
No 89
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=24.38 E-value=1.3e+02 Score=22.25 Aligned_cols=51 Identities=14% Similarity=0.068 Sum_probs=39.0
Q ss_pred cceEecchhHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhh
Q 011273 105 KARVVWSIDLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYR 157 (489)
Q Consensus 105 K~R~~WT~eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR 157 (489)
|.|..++.+ +...++++-.... ..++..+-++...-|+|..+|..=.+.-|
T Consensus 2 k~r~~~~~~-~~~~L~~~f~~~~-~P~~~~~~~la~~~~l~~~qV~~WF~nrR 52 (56)
T smart00389 2 RKRTSFTPE-QLEELEKEFQKNP-YPSREEREELAAKLGLSERQVKVWFQNRR 52 (56)
T ss_pred CCCCcCCHH-HHHHHHHHHHhCC-CCCHHHHHHHHHHHCcCHHHHHHhHHHHh
Confidence 556678888 6666777777664 67888889999999999999987666544
No 90
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=22.75 E-value=82 Score=24.93 Aligned_cols=38 Identities=21% Similarity=0.330 Sum_probs=28.0
Q ss_pred hHHHHH----HHHHHHhCCCCCChHHHHhhcCCCcchHHHHH
Q 011273 113 DLHQKF----VKAVNQIGFDKVGPKKILDLMNVPWLTRENVA 150 (489)
Q Consensus 113 eLH~~F----v~AV~~LG~~kAtPKrILElM~v~gLT~~~V~ 150 (489)
+|.+-| .+|...||++.++=||+...++++.--..+|+
T Consensus 9 ~L~~~fhlp~~eAA~~Lgv~~T~LKr~CR~~GI~RWP~Rkl~ 50 (52)
T PF02042_consen 9 DLSQYFHLPIKEAAKELGVSVTTLKRRCRRLGIPRWPYRKLK 50 (52)
T ss_pred HHHHHhCCCHHHHHHHhCCCHHHHHHHHHHcCCCCCCchhhc
Confidence 445555 89999999999999999888877644444443
No 91
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=21.64 E-value=1.1e+02 Score=35.14 Aligned_cols=36 Identities=22% Similarity=0.072 Sum_probs=29.5
Q ss_pred CCchHHHHHHHhcCCceEEeCCCCHHHHHHHHHHHH
Q 011273 4 DGETSRVMKGVQHGACDYLLKPIRMKELRNIWQHVF 39 (489)
Q Consensus 4 ~~d~e~v~kALelGA~DYLvKP~~~eEL~~i~q~vL 39 (489)
..+......+.+.|+.+|+.||+...+|...+....
T Consensus 615 ~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~ 650 (919)
T PRK11107 615 CHEQVLAEQLKQDGADACLSKPLSHTRLLPALLEPC 650 (919)
T ss_pred CcchhhHHHHhhCCCceEECCCCCHHHHHHHHHHhh
Confidence 345566778889999999999999999988887644
No 92
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=21.58 E-value=29 Score=36.48 Aligned_cols=61 Identities=26% Similarity=0.301 Sum_probs=42.0
Q ss_pred CCccccceEecch----hHHHHHHHHHHHhCCCCCChHHHHhhcCCCcchHHHHHHhhhhhhhhHhhhhhh
Q 011273 100 ASSTKKARVVWSI----DLHQKFVKAVNQIGFDKVGPKKILDLMNVPWLTRENVASHLQKYRLYLTRLQKD 166 (489)
Q Consensus 100 ~~t~kK~R~~WT~----eLH~~Fv~AV~~LG~~kAtPKrILElM~v~gLT~~~V~SHLQKyR~~~~~~~~~ 166 (489)
....||.|+.|+. ||.+||-+-=..-+.+|. ++-..-.||-.|||.-.|..|=..||.+++
T Consensus 150 ~~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE------~LA~~LrLT~TQVKIWFQNrRYK~KR~~~d 214 (307)
T KOG0842|consen 150 KRKKRKRRVLFSQAQVYELERRFRQQRYLSAPERE------HLASSLRLTPTQVKIWFQNRRYKTKRQQKD 214 (307)
T ss_pred cccccccccccchhHHHHHHHHHHhhhccccHhHH------HHHHhcCCCchheeeeeecchhhhhhhhhh
Confidence 3467899999986 788888432222222221 233446789999999999999888887655
No 93
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=20.91 E-value=1.4e+02 Score=32.10 Aligned_cols=21 Identities=24% Similarity=0.552 Sum_probs=19.0
Q ss_pred hHHHHHHHhcCCceEEeCCCC
Q 011273 7 TSRVMKGVQHGACDYLLKPIR 27 (489)
Q Consensus 7 ~e~v~kALelGA~DYLvKP~~ 27 (489)
.+...+|+++||.||+.||..
T Consensus 88 ~~~t~~al~~gAvD~i~kp~~ 108 (350)
T COG2201 88 AEATLEALELGAVDFIAKPSG 108 (350)
T ss_pred HHHHHHHHhcCcceeecCCCc
Confidence 677889999999999999974
Done!