Query 027234
Match_columns 226
No_of_seqs 268 out of 1959
Neff 9.2
Searched_HMMs 46136
Date Fri Mar 29 06:56:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027234.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027234hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4565 CitB Response regulato 99.9 5.8E-21 1.3E-25 147.0 13.1 100 2-103 25-126 (224)
2 COG4753 Response regulator con 99.8 1.1E-20 2.5E-25 162.8 12.4 101 1-103 26-128 (475)
3 COG0745 OmpR Response regulato 99.8 8.3E-20 1.8E-24 146.6 12.4 96 2-100 24-121 (229)
4 COG2204 AtoC Response regulato 99.8 3.3E-18 7.2E-23 147.9 13.3 98 1-100 27-125 (464)
5 COG4566 TtrR Response regulato 99.8 3.7E-18 8.1E-23 129.2 11.7 99 1-101 27-126 (202)
6 COG2197 CitB Response regulato 99.8 2.9E-17 6.2E-22 130.6 13.9 99 3-103 26-126 (211)
7 PRK10046 dpiA two-component re 99.7 1.1E-16 2.4E-21 128.5 16.2 97 2-100 29-127 (225)
8 PF00072 Response_reg: Respons 99.7 1E-16 2.2E-21 114.2 12.5 90 1-92 21-112 (112)
9 PRK11475 DNA-binding transcrip 99.7 8.5E-17 1.8E-21 127.4 12.6 96 2-99 17-117 (207)
10 COG4567 Response regulator con 99.7 3.1E-17 6.7E-22 119.6 8.2 90 2-93 33-123 (182)
11 COG3437 Response regulator con 99.7 1E-16 2.2E-21 132.5 10.3 95 2-98 38-136 (360)
12 PLN03162 golden-2 like transcr 99.7 6.9E-17 1.5E-21 132.4 6.0 62 149-210 233-294 (526)
13 PRK10430 DNA-binding transcrip 99.6 1.1E-14 2.5E-19 117.8 16.9 96 2-97 26-123 (239)
14 COG3706 PleD Response regulato 99.6 1.1E-14 2.3E-19 125.4 13.0 97 2-100 156-255 (435)
15 PRK10840 transcriptional regul 99.6 1.4E-14 3.1E-19 115.3 12.9 93 5-99 32-128 (216)
16 PLN03029 type-a response regul 99.6 6.6E-14 1.4E-18 112.2 14.9 98 1-98 31-149 (222)
17 COG3947 Response regulator con 99.6 3.8E-15 8.3E-20 119.8 7.5 91 2-96 24-115 (361)
18 PRK09958 DNA-binding transcrip 99.6 1E-13 2.2E-18 108.8 15.1 94 2-97 24-119 (204)
19 PRK11173 two-component respons 99.6 4.4E-14 9.6E-19 113.7 13.3 96 1-98 26-121 (237)
20 COG0784 CheY FOG: CheY-like re 99.6 6.2E-14 1.3E-18 102.3 12.7 93 1-95 28-124 (130)
21 KOG0519 Sensory transduction h 99.6 8.9E-15 1.9E-19 136.0 10.2 94 1-95 689-784 (786)
22 PRK10529 DNA-binding transcrip 99.6 7.1E-14 1.5E-18 111.3 13.4 95 1-97 24-118 (225)
23 PRK10766 DNA-binding transcrip 99.6 9.1E-14 2E-18 110.4 13.2 95 1-97 25-119 (221)
24 PRK09483 response regulator; P 99.6 1.3E-13 2.8E-18 109.2 14.0 96 2-99 26-123 (217)
25 PRK10816 DNA-binding transcrip 99.6 1.1E-13 2.3E-18 110.3 13.2 95 1-97 23-118 (223)
26 PRK09836 DNA-binding transcrip 99.5 2E-13 4.2E-18 109.0 13.3 95 1-97 23-118 (227)
27 PRK10841 hybrid sensory kinase 99.5 1.3E-13 2.8E-18 130.9 13.7 96 1-98 824-920 (924)
28 PRK10643 DNA-binding transcrip 99.5 3.1E-13 6.8E-18 107.0 13.4 96 1-98 23-119 (222)
29 PRK10360 DNA-binding transcrip 99.5 8.1E-13 1.7E-17 102.9 15.3 92 2-97 26-118 (196)
30 PRK10701 DNA-binding transcrip 99.5 2.9E-13 6.4E-18 109.1 13.2 95 1-97 24-118 (240)
31 PRK13856 two-component respons 99.5 3.1E-13 6.7E-18 109.2 13.2 95 1-97 24-119 (241)
32 PRK10161 transcriptional regul 99.5 4.8E-13 1E-17 106.9 13.1 94 2-97 26-122 (229)
33 PRK09468 ompR osmolarity respo 99.5 4.6E-13 1E-17 107.8 12.9 95 1-97 28-123 (239)
34 PRK11517 transcriptional regul 99.5 5.4E-13 1.2E-17 105.9 13.1 95 1-97 23-117 (223)
35 PRK10336 DNA-binding transcrip 99.5 5.6E-13 1.2E-17 105.4 13.1 94 2-97 24-118 (219)
36 PRK10955 DNA-binding transcrip 99.5 6.2E-13 1.4E-17 106.2 12.8 95 1-98 24-118 (232)
37 TIGR03787 marine_sort_RR prote 99.5 9.1E-13 2E-17 105.1 13.6 95 2-98 24-121 (227)
38 TIGR02154 PhoB phosphate regul 99.5 7.1E-13 1.5E-17 105.2 12.8 94 2-97 26-122 (226)
39 CHL00148 orf27 Ycf27; Reviewed 99.5 8.3E-13 1.8E-17 106.0 13.3 95 2-98 30-124 (240)
40 TIGR01387 cztR_silR_copR heavy 99.5 7.8E-13 1.7E-17 104.4 12.8 94 2-97 22-116 (218)
41 TIGR02915 PEP_resp_reg putativ 99.5 6.1E-13 1.3E-17 117.1 13.3 94 1-96 19-118 (445)
42 PRK10693 response regulator of 99.5 6.8E-13 1.5E-17 111.2 12.5 88 7-96 2-91 (303)
43 PRK09935 transcriptional regul 99.5 2.9E-12 6.3E-17 100.6 15.5 94 2-97 28-123 (210)
44 PRK09581 pleD response regulat 99.5 3.7E-13 8.1E-18 117.9 10.9 93 3-97 179-274 (457)
45 PRK11083 DNA-binding response 99.5 1.1E-12 2.3E-17 104.4 12.6 95 1-97 26-121 (228)
46 PRK11107 hybrid sensory histid 99.5 5.6E-13 1.2E-17 126.7 12.8 95 1-97 690-787 (919)
47 PRK15347 two component system 99.5 6.9E-13 1.5E-17 126.2 13.4 94 1-96 713-811 (921)
48 PRK10100 DNA-binding transcrip 99.5 8.8E-13 1.9E-17 105.2 11.8 91 5-101 37-131 (216)
49 PRK11466 hybrid sensory histid 99.5 7E-13 1.5E-17 126.1 12.9 96 1-97 704-800 (914)
50 TIGR01557 myb_SHAQKYF myb-like 99.5 1.6E-13 3.5E-18 85.2 5.6 55 151-205 1-56 (57)
51 TIGR02875 spore_0_A sporulatio 99.4 1.4E-12 3.1E-17 106.8 12.7 93 3-97 28-124 (262)
52 TIGR02956 TMAO_torS TMAO reduc 99.4 1.4E-12 3.1E-17 124.7 13.2 95 1-97 725-823 (968)
53 PRK15115 response regulator Gl 99.4 1.7E-12 3.7E-17 114.2 12.4 95 1-97 28-123 (444)
54 PRK10923 glnG nitrogen regulat 99.4 3.3E-12 7.2E-17 113.2 13.9 95 1-97 26-121 (469)
55 TIGR01818 ntrC nitrogen regula 99.4 3.9E-12 8.4E-17 112.5 13.6 95 1-97 21-116 (463)
56 PRK14084 two-component respons 99.4 4.1E-12 8.8E-17 103.0 12.6 90 4-97 28-118 (246)
57 PRK10403 transcriptional regul 99.4 1.4E-11 3E-16 96.8 15.1 94 2-97 31-126 (215)
58 PRK11361 acetoacetate metaboli 99.4 2.7E-12 5.7E-17 113.4 12.2 94 1-96 27-121 (457)
59 PRK10365 transcriptional regul 99.4 2.4E-12 5.2E-17 113.1 11.7 95 1-97 28-123 (441)
60 PRK09959 hybrid sensory histid 99.4 4.7E-12 1E-16 123.7 13.3 94 1-96 981-1075(1197)
61 PRK10710 DNA-binding transcrip 99.4 1.1E-11 2.4E-16 99.5 13.2 94 2-97 34-127 (240)
62 PRK11697 putative two-componen 99.4 7.3E-12 1.6E-16 100.9 12.2 89 5-97 30-118 (238)
63 PRK11091 aerobic respiration c 99.4 6.7E-12 1.4E-16 117.7 12.7 94 1-97 548-645 (779)
64 PRK15411 rcsA colanic acid cap 99.4 6.4E-12 1.4E-16 99.7 10.5 91 5-98 30-124 (207)
65 PRK15369 two component system 99.3 1.8E-11 3.9E-16 95.5 12.1 93 3-97 29-123 (211)
66 PRK15479 transcriptional regul 99.3 3.1E-11 6.7E-16 95.5 13.3 95 2-98 24-119 (221)
67 COG3707 AmiR Response regulato 99.3 1.7E-11 3.7E-16 93.7 11.1 100 2-103 29-129 (194)
68 PRK12555 chemotaxis-specific m 99.3 1.9E-11 4E-16 104.0 12.0 92 2-95 25-128 (337)
69 PRK10651 transcriptional regul 99.3 6.8E-11 1.5E-15 93.0 14.2 93 3-97 32-126 (216)
70 PRK09581 pleD response regulat 99.3 4.1E-11 9E-16 105.0 14.1 96 2-99 26-124 (457)
71 PRK13435 response regulator; P 99.3 4.8E-11 1E-15 88.9 10.8 94 2-100 29-124 (145)
72 PRK09390 fixJ response regulat 99.3 5.6E-11 1.2E-15 92.2 11.0 95 1-97 26-121 (202)
73 PRK13558 bacterio-opsin activa 99.2 8E-11 1.7E-15 108.6 11.4 94 2-97 31-127 (665)
74 PRK10610 chemotaxis regulatory 99.2 7.4E-10 1.6E-14 78.8 13.2 93 2-96 29-125 (129)
75 COG2201 CheB Chemotaxis respon 99.2 8.2E-11 1.8E-15 98.6 9.3 78 4-83 29-108 (350)
76 PRK00742 chemotaxis-specific m 99.2 2.6E-10 5.6E-15 97.7 12.0 80 2-83 28-110 (354)
77 PRK09191 two-component respons 99.1 9E-10 1.9E-14 89.9 12.1 92 2-97 161-254 (261)
78 cd00156 REC Signal receiver do 99.1 1.5E-09 3.2E-14 74.1 10.7 91 2-94 21-112 (113)
79 PRK13837 two-component VirA-li 99.1 9.8E-10 2.1E-14 103.8 12.1 93 1-96 720-813 (828)
80 PRK13557 histidine kinase; Pro 98.9 9.6E-09 2.1E-13 91.9 12.0 95 1-96 438-534 (540)
81 COG3279 LytT Response regulato 98.9 1E-08 2.2E-13 83.3 8.0 87 7-97 32-119 (244)
82 COG3706 PleD Response regulato 98.7 1.7E-08 3.8E-13 87.3 6.4 95 3-100 13-107 (435)
83 PRK15029 arginine decarboxylas 98.6 5.2E-07 1.1E-11 83.5 11.0 91 1-94 31-130 (755)
84 PRK11107 hybrid sensory histid 97.6 0.00052 1.1E-08 65.7 10.5 89 1-95 559-650 (919)
85 PF00165 HTH_AraC: Bacterial r 96.9 0.00029 6.2E-09 40.9 0.6 31 181-212 1-31 (42)
86 PF03709 OKR_DC_1_N: Orn/Lys/A 96.7 0.018 3.9E-07 41.2 8.4 92 2-95 17-112 (115)
87 PRK09685 DNA-binding transcrip 96.4 0.0014 3E-08 54.8 1.2 42 180-221 205-246 (302)
88 cd02071 MM_CoA_mut_B12_BD meth 96.0 0.17 3.6E-06 36.5 10.5 89 2-92 27-121 (122)
89 TIGR03815 CpaE_hom_Actino heli 96.0 0.032 7E-07 47.2 7.7 84 2-95 1-86 (322)
90 PF02796 HTH_7: Helix-turn-hel 96.0 0.0037 7.9E-08 36.8 1.2 31 180-211 13-43 (45)
91 TIGR00640 acid_CoA_mut_C methy 95.5 0.44 9.6E-06 34.9 11.0 92 2-95 30-127 (132)
92 cd04728 ThiG Thiazole synthase 95.5 0.39 8.4E-06 38.8 11.4 89 2-98 123-227 (248)
93 PRK02261 methylaspartate mutas 95.3 0.4 8.7E-06 35.4 10.4 92 2-96 31-135 (137)
94 PRK00208 thiG thiazole synthas 95.3 0.46 9.9E-06 38.5 11.3 88 2-97 123-226 (250)
95 PRK10219 DNA-binding transcrip 95.2 0.02 4.4E-07 40.1 3.0 50 161-220 3-53 (107)
96 PRK11511 DNA-binding transcrip 94.7 0.012 2.6E-07 42.8 0.8 41 180-221 17-58 (127)
97 PRK09978 DNA-binding transcrip 94.7 0.015 3.2E-07 48.0 1.4 41 180-221 150-190 (274)
98 cd02067 B12-binding B12 bindin 94.4 0.28 6.2E-06 34.9 7.5 78 2-81 27-110 (119)
99 PRK10130 transcriptional regul 94.3 0.018 3.9E-07 49.4 1.1 50 162-221 239-289 (350)
100 TIGR01501 MthylAspMutase methy 93.9 1.6 3.5E-05 32.0 10.6 92 2-95 29-132 (134)
101 smart00448 REC cheY-homologous 93.5 0.22 4.8E-06 27.8 4.6 32 2-35 24-55 (55)
102 TIGR02297 HpaA 4-hydroxyphenyl 93.3 0.033 7.2E-07 46.0 0.8 40 180-220 194-234 (287)
103 PRK10371 DNA-binding transcrip 93.0 0.044 9.6E-07 46.0 1.2 41 180-221 199-240 (302)
104 PRK00043 thiE thiamine-phospha 92.6 2.4 5.3E-05 33.2 10.7 69 7-79 110-187 (212)
105 PF00440 TetR_N: Bacterial reg 92.5 0.17 3.7E-06 29.8 3.0 32 181-212 8-39 (47)
106 PF06490 FleQ: Flagellar regul 92.4 1.2 2.7E-05 31.3 7.8 85 1-94 22-107 (109)
107 PF02954 HTH_8: Bacterial regu 92.4 0.11 2.4E-06 29.9 2.0 30 180-209 9-38 (42)
108 TIGR02311 HpaI 2,4-dihydroxyhe 92.3 2.6 5.6E-05 34.4 10.7 83 10-94 21-106 (249)
109 TIGR00343 pyridoxal 5'-phospha 91.6 3.5 7.5E-05 34.2 10.4 89 7-98 120-251 (287)
110 cd04727 pdxS PdxS is a subunit 91.3 4.1 8.9E-05 33.7 10.6 88 7-97 118-247 (283)
111 PRK13503 transcriptional activ 90.9 0.18 3.8E-06 41.4 2.5 40 180-220 179-219 (278)
112 PRK15044 transcriptional regul 90.9 0.1 2.3E-06 43.3 1.0 36 180-216 200-235 (295)
113 PRK09940 transcriptional regul 90.7 0.076 1.6E-06 43.4 0.1 40 180-220 142-181 (253)
114 smart00342 HTH_ARAC helix_turn 90.6 0.11 2.3E-06 34.0 0.8 40 181-220 42-83 (84)
115 PRK15320 transcriptional activ 90.6 0.77 1.7E-05 36.0 5.5 76 2-80 27-102 (251)
116 PRK10558 alpha-dehydro-beta-de 90.6 5.2 0.00011 32.8 10.7 80 12-93 30-112 (256)
117 PF00249 Myb_DNA-binding: Myb- 90.6 0.83 1.8E-05 26.9 4.6 47 154-203 2-48 (48)
118 COG4943 Predicted signal trans 90.4 0.16 3.5E-06 44.8 1.8 56 127-184 284-339 (524)
119 PRK01130 N-acetylmannosamine-6 90.3 2.5 5.4E-05 33.6 8.6 72 6-80 124-202 (221)
120 PRK15186 AraC family transcrip 90.1 0.12 2.6E-06 43.2 0.7 37 180-217 189-225 (291)
121 CHL00162 thiG thiamin biosynth 90.0 8.7 0.00019 31.4 11.1 94 2-99 137-242 (267)
122 cd02072 Glm_B12_BD B12 binding 89.9 6 0.00013 28.8 10.0 88 2-92 27-127 (128)
123 PRK13502 transcriptional activ 89.9 0.12 2.7E-06 42.6 0.7 40 180-220 184-224 (282)
124 PRK15185 transcriptional regul 89.8 0.14 3.1E-06 42.9 1.0 39 180-219 214-252 (309)
125 COG2207 AraC AraC-type DNA-bin 89.7 0.085 1.9E-06 37.4 -0.3 37 181-218 29-66 (127)
126 PF13384 HTH_23: Homeodomain-l 89.7 0.12 2.7E-06 30.7 0.4 34 181-215 10-43 (50)
127 TIGR03239 GarL 2-dehydro-3-deo 89.3 5.4 0.00012 32.5 9.8 81 11-93 22-105 (249)
128 COG4977 Transcriptional regula 89.3 0.3 6.5E-06 41.4 2.6 41 161-212 219-259 (328)
129 PRK07896 nicotinate-nucleotide 88.9 3 6.5E-05 34.8 8.2 67 5-78 203-272 (289)
130 TIGR01334 modD putative molybd 88.9 3.1 6.6E-05 34.5 8.2 69 6-78 193-261 (277)
131 PF13936 HTH_38: Helix-turn-he 88.8 0.39 8.5E-06 27.9 2.1 29 180-209 12-40 (44)
132 PF00325 Crp: Bacterial regula 88.6 0.15 3.1E-06 27.6 0.1 23 189-211 2-24 (32)
133 PRK12704 phosphodiesterase; Pr 88.5 1.3 2.8E-05 40.1 6.2 45 52-96 250-296 (520)
134 PLN02591 tryptophan synthase 88.4 2.6 5.7E-05 34.4 7.4 56 39-94 66-127 (250)
135 PF02310 B12-binding: B12 bind 88.4 5.7 0.00012 27.9 8.5 75 2-79 28-110 (121)
136 cd04729 NanE N-acetylmannosami 88.3 4.4 9.6E-05 32.1 8.6 71 7-80 129-206 (219)
137 cd04724 Tryptophan_synthase_al 88.3 2.8 6.1E-05 34.0 7.6 56 39-94 64-125 (242)
138 PRK10572 DNA-binding transcrip 88.3 0.34 7.4E-06 40.1 2.3 40 180-220 191-231 (290)
139 PRK10128 2-keto-3-deoxy-L-rham 88.1 7.7 0.00017 32.0 10.0 80 12-93 29-111 (267)
140 TIGR00007 phosphoribosylformim 87.9 4 8.7E-05 32.6 8.2 68 10-79 146-217 (230)
141 PF13443 HTH_26: Cro/C1-type H 87.8 0.24 5.3E-06 30.9 0.8 33 181-213 2-34 (63)
142 TIGR02531 yecD_yerC TrpR-relat 87.8 0.3 6.4E-06 33.1 1.3 32 180-212 42-73 (88)
143 COG3355 Predicted transcriptio 87.3 0.41 8.9E-06 34.6 1.9 38 171-208 23-61 (126)
144 PRK09393 ftrA transcriptional 87.2 0.47 1E-05 40.0 2.5 41 180-221 226-267 (322)
145 PRK09426 methylmalonyl-CoA mut 87.1 7.6 0.00017 36.7 10.5 93 2-96 610-708 (714)
146 PRK13111 trpA tryptophan synth 86.8 3.6 7.9E-05 33.7 7.4 56 39-94 76-138 (258)
147 PF01978 TrmB: Sugar-specific 86.4 0.075 1.6E-06 34.0 -2.1 39 171-209 4-42 (68)
148 TIGR00262 trpA tryptophan synt 86.1 4.4 9.6E-05 33.2 7.6 56 39-94 74-136 (256)
149 PRK06096 molybdenum transport 86.1 5.6 0.00012 33.1 8.2 70 5-78 193-262 (284)
150 PRK15340 transcriptional regul 86.1 0.4 8.6E-06 38.2 1.4 47 161-212 102-148 (216)
151 PRK00748 1-(5-phosphoribosyl)- 86.0 5.4 0.00012 31.8 8.0 68 10-79 147-219 (233)
152 PF02001 DUF134: Protein of un 85.9 0.34 7.4E-06 34.0 0.8 30 182-211 50-79 (106)
153 TIGR02366 DHAK_reg probable di 85.9 1.1 2.4E-05 34.0 3.8 32 181-212 15-46 (176)
154 cd04723 HisA_HisF Phosphoribos 85.8 6 0.00013 31.8 8.1 69 9-79 146-217 (233)
155 cd00564 TMP_TenI Thiamine mono 85.6 7 0.00015 29.8 8.3 68 8-79 102-177 (196)
156 TIGR01321 TrpR trp operon repr 85.0 0.43 9.2E-06 32.7 0.9 33 187-219 53-85 (94)
157 PRK13587 1-(5-phosphoribosyl)- 84.9 8.4 0.00018 31.1 8.6 68 11-79 150-220 (234)
158 TIGR03151 enACPred_II putative 84.8 9.1 0.0002 32.2 9.0 72 6-80 114-190 (307)
159 PRK05848 nicotinate-nucleotide 84.4 8.7 0.00019 31.8 8.5 67 6-79 187-256 (273)
160 PRK15399 lysine decarboxylase 84.4 11 0.00023 35.7 10.0 91 2-96 30-122 (713)
161 PRK13501 transcriptional activ 84.3 0.55 1.2E-05 38.9 1.5 31 180-211 184-214 (290)
162 COG5001 Predicted signal trans 84.3 1.8 3.9E-05 37.9 4.5 74 127-203 418-504 (663)
163 cd02069 methionine_synthase_B1 84.2 6.6 0.00014 31.2 7.6 78 2-81 116-202 (213)
164 PRK11840 bifunctional sulfur c 84.2 20 0.00043 30.5 10.6 93 2-98 197-301 (326)
165 CHL00200 trpA tryptophan synth 84.1 5.4 0.00012 32.8 7.2 56 39-94 79-140 (263)
166 PRK09975 DNA-binding transcrip 84.1 1.4 2.9E-05 34.6 3.6 42 161-212 13-54 (213)
167 PRK15400 lysine decarboxylase 83.9 10 0.00022 35.8 9.7 91 1-95 29-121 (714)
168 PRK13500 transcriptional activ 83.5 0.61 1.3E-05 39.3 1.5 40 180-220 214-254 (312)
169 TIGR01764 excise DNA binding d 83.5 0.6 1.3E-05 27.1 1.1 23 190-212 2-24 (49)
170 PF01381 HTH_3: Helix-turn-hel 83.5 0.61 1.3E-05 28.1 1.1 28 185-212 5-32 (55)
171 PF08279 HTH_11: HTH domain; 83.4 0.93 2E-05 27.4 1.9 23 186-208 12-34 (55)
172 PF04545 Sigma70_r4: Sigma-70, 83.2 0.83 1.8E-05 27.1 1.6 29 181-209 12-40 (50)
173 TIGR00735 hisF imidazoleglycer 83.1 23 0.00051 28.7 10.7 80 11-92 157-247 (254)
174 PRK07428 nicotinate-nucleotide 83.0 9.5 0.00021 31.9 8.2 68 6-78 201-269 (288)
175 PF04131 NanE: Putative N-acet 82.8 5.6 0.00012 31.0 6.3 69 2-78 45-116 (192)
176 PF12728 HTH_17: Helix-turn-he 82.7 0.69 1.5E-05 27.5 1.1 23 190-212 2-24 (51)
177 PF13412 HTH_24: Winged helix- 82.6 1.1 2.4E-05 26.3 1.9 26 184-209 12-37 (48)
178 PHA01976 helix-turn-helix prot 82.5 0.57 1.2E-05 29.5 0.7 31 180-210 6-36 (67)
179 COG2185 Sbm Methylmalonyl-CoA 82.3 18 0.00039 26.9 10.0 92 1-96 39-138 (143)
180 cd02070 corrinoid_protein_B12- 82.2 11 0.00023 29.6 8.0 74 2-80 110-191 (201)
181 PF03328 HpcH_HpaI: HpcH/HpaI 82.1 22 0.00048 28.1 9.9 85 8-94 7-106 (221)
182 TIGR01361 DAHP_synth_Bsub phos 81.9 18 0.00039 29.7 9.4 84 10-94 147-257 (260)
183 TIGR01305 GMP_reduct_1 guanosi 81.8 9.8 0.00021 32.4 7.9 57 24-80 121-178 (343)
184 PF04297 UPF0122: Putative hel 81.4 1.3 2.7E-05 30.9 2.1 28 180-207 24-51 (101)
185 PRK14996 TetR family transcrip 81.2 1.7 3.7E-05 33.5 3.1 42 161-212 10-51 (192)
186 PRK08385 nicotinate-nucleotide 81.1 14 0.0003 30.7 8.5 69 6-78 187-257 (278)
187 TIGR00122 birA_repr_reg BirA b 81.0 0.54 1.2E-05 30.0 0.2 29 180-208 4-32 (69)
188 PF01729 QRPTase_C: Quinolinat 80.7 5.8 0.00013 30.4 5.8 69 6-78 85-153 (169)
189 TIGR00693 thiE thiamine-phosph 80.7 16 0.00034 28.2 8.5 69 7-79 102-179 (196)
190 smart00342 HTH_ARAC helix_turn 80.5 0.68 1.5E-05 30.0 0.6 24 189-212 1-24 (84)
191 cd00452 KDPG_aldolase KDPG and 80.5 12 0.00025 29.1 7.6 68 7-80 103-171 (190)
192 PRK09480 slmA division inhibit 80.4 2.7 6E-05 32.1 4.0 44 159-212 10-53 (194)
193 TIGR01610 phage_O_Nterm phage 80.3 2.5 5.5E-05 28.9 3.4 46 163-208 13-66 (95)
194 PRK00767 transcriptional regul 80.3 2.7 6E-05 32.2 4.0 43 160-212 10-52 (197)
195 PRK13756 tetracycline represso 80.2 2.4 5.1E-05 33.5 3.6 42 161-212 6-47 (205)
196 PRK02083 imidazole glycerol ph 80.1 30 0.00065 28.0 10.7 80 11-92 155-245 (253)
197 PF10078 DUF2316: Uncharacteri 80.1 1.4 3.1E-05 29.8 2.0 42 180-222 14-55 (89)
198 PF12844 HTH_19: Helix-turn-he 80.0 0.87 1.9E-05 28.4 0.9 30 181-210 4-33 (64)
199 PRK04180 pyridoxal biosynthesi 80.0 11 0.00024 31.4 7.5 94 7-103 127-262 (293)
200 PF13560 HTH_31: Helix-turn-he 79.8 0.96 2.1E-05 28.3 1.1 32 181-212 6-37 (64)
201 PRK07695 transcriptional regul 79.3 20 0.00043 27.9 8.7 68 7-78 101-175 (201)
202 PF03060 NMO: Nitronate monoox 79.3 12 0.00026 31.9 7.8 72 5-79 140-218 (330)
203 cd00569 HTH_Hin_like Helix-tur 79.1 1.7 3.7E-05 22.8 1.9 21 189-209 21-41 (42)
204 cd00331 IGPS Indole-3-glycerol 79.0 30 0.00064 27.3 9.8 68 27-94 48-117 (217)
205 PF04131 NanE: Putative N-acet 78.6 20 0.00043 28.0 8.1 70 6-79 97-172 (192)
206 PHA00542 putative Cro-like pro 78.6 1.4 3.1E-05 29.3 1.6 32 181-212 23-54 (82)
207 TIGR00734 hisAF_rel hisA/hisF 78.6 19 0.0004 28.8 8.4 68 10-79 142-212 (221)
208 TIGR02370 pyl_corrinoid methyl 78.3 14 0.00031 28.8 7.5 73 2-79 112-192 (197)
209 PF13518 HTH_28: Helix-turn-he 78.2 1.6 3.6E-05 25.7 1.7 28 181-209 5-32 (52)
210 PRK01033 imidazole glycerol ph 78.1 18 0.00039 29.6 8.3 69 10-79 153-225 (258)
211 cd04730 NPD_like 2-Nitropropan 78.1 30 0.00065 27.5 9.6 70 8-80 109-185 (236)
212 PRK10668 DNA-binding transcrip 78.0 3.3 7.1E-05 32.4 3.9 43 160-212 12-54 (215)
213 PRK09016 quinolinate phosphori 78.0 27 0.00058 29.3 9.3 67 5-78 212-278 (296)
214 PF13744 HTH_37: Helix-turn-he 78.0 1.5 3.3E-05 28.9 1.7 31 180-210 22-52 (80)
215 PRK06106 nicotinate-nucleotide 77.9 26 0.00057 29.1 9.2 66 6-78 199-264 (281)
216 PRK15435 bifunctional DNA-bind 77.9 2.5 5.4E-05 36.4 3.3 34 187-220 97-131 (353)
217 PRK06543 nicotinate-nucleotide 77.6 24 0.00051 29.4 8.8 65 6-77 198-262 (281)
218 cd04731 HisF The cyclase subun 77.6 20 0.00043 28.8 8.4 70 8-79 26-99 (243)
219 cd00331 IGPS Indole-3-glycerol 77.6 30 0.00065 27.2 9.3 71 6-79 126-200 (217)
220 cd04731 HisF The cyclase subun 77.5 27 0.00059 28.0 9.2 65 13-79 153-222 (243)
221 PF08535 KorB: KorB domain; I 77.4 0.89 1.9E-05 31.0 0.4 26 189-214 3-28 (93)
222 TIGR03384 betaine_BetI transcr 77.0 4.1 9E-05 30.9 4.1 43 160-212 9-51 (189)
223 TIGR01859 fruc_bis_ald_ fructo 77.0 14 0.0003 30.8 7.4 70 7-79 151-229 (282)
224 PF05690 ThiG: Thiazole biosyn 76.8 11 0.00024 30.5 6.4 92 2-97 123-226 (247)
225 PF09936 Methyltrn_RNA_4: SAM- 76.5 20 0.00042 27.8 7.4 77 5-84 84-162 (185)
226 cd04726 KGPDC_HPS 3-Keto-L-gul 76.1 21 0.00045 27.6 8.0 70 6-79 111-185 (202)
227 PRK05458 guanosine 5'-monophos 75.8 17 0.00036 31.0 7.6 66 11-78 99-166 (326)
228 TIGR00736 nifR3_rel_arch TIM-b 75.6 22 0.00048 28.7 8.0 65 13-79 152-219 (231)
229 COG0157 NadC Nicotinate-nucleo 75.6 27 0.00059 28.9 8.5 65 6-77 193-259 (280)
230 PRK04217 hypothetical protein; 75.5 1.9 4.2E-05 30.5 1.7 29 181-209 50-78 (110)
231 PF13542 HTH_Tnp_ISL3: Helix-t 75.4 2.6 5.7E-05 25.0 2.1 40 162-211 10-49 (52)
232 PRK06978 nicotinate-nucleotide 75.3 25 0.00054 29.5 8.4 65 6-77 210-274 (294)
233 PRK01905 DNA-binding protein F 75.1 3.3 7.2E-05 27.1 2.7 30 180-209 41-70 (77)
234 PRK06843 inosine 5-monophospha 74.2 19 0.00041 31.6 7.8 54 24-78 165-220 (404)
235 PRK06806 fructose-bisphosphate 74.2 23 0.00051 29.4 8.0 71 7-79 151-229 (281)
236 PRK11608 pspF phage shock prot 74.1 2.6 5.7E-05 35.7 2.5 32 180-211 290-321 (326)
237 TIGR03070 couple_hipB transcri 74.0 2.7 5.9E-05 25.1 1.9 32 181-212 7-38 (58)
238 TIGR03613 RutR pyrimidine util 73.5 4.8 0.0001 31.1 3.7 43 160-212 9-51 (202)
239 PF07374 DUF1492: Protein of u 73.0 2.2 4.8E-05 29.5 1.5 46 163-210 47-92 (100)
240 PRK04128 1-(5-phosphoribosyl)- 72.9 26 0.00057 28.1 7.9 66 10-79 144-210 (228)
241 COG4753 Response regulator con 72.9 2.3 4.9E-05 37.9 1.9 31 180-211 380-410 (475)
242 PF01022 HTH_5: Bacterial regu 72.9 2.9 6.3E-05 24.4 1.8 29 180-208 6-34 (47)
243 PRK08185 hypothetical protein; 72.7 23 0.0005 29.5 7.6 66 8-76 148-224 (283)
244 COG1309 AcrR Transcriptional r 72.6 5.2 0.00011 29.4 3.6 28 185-212 28-55 (201)
245 cd04762 HTH_MerR-trunc Helix-T 72.5 2.2 4.8E-05 24.4 1.2 22 190-211 1-22 (49)
246 PRK01381 Trp operon repressor; 72.3 1.3 2.8E-05 30.6 0.1 39 181-219 47-85 (99)
247 TIGR02607 antidote_HigA addict 72.1 2.7 5.8E-05 27.2 1.7 32 180-211 8-40 (78)
248 cd00093 HTH_XRE Helix-turn-hel 71.9 1.6 3.4E-05 25.3 0.5 31 181-211 4-34 (58)
249 PLN02716 nicotinate-nucleotide 71.4 41 0.00088 28.4 8.8 72 6-77 208-287 (308)
250 TIGR01037 pyrD_sub1_fam dihydr 71.1 54 0.0012 27.2 9.7 57 41-97 224-286 (300)
251 PRK13398 3-deoxy-7-phosphohept 71.0 58 0.0013 26.9 10.9 83 12-95 151-260 (266)
252 TIGR00735 hisF imidazoleglycer 71.0 48 0.001 26.9 9.1 71 9-80 30-103 (254)
253 PHA02591 hypothetical protein; 70.7 2.7 5.8E-05 27.6 1.3 24 186-209 56-79 (83)
254 PRK06559 nicotinate-nucleotide 70.7 37 0.0008 28.4 8.4 65 6-77 202-266 (290)
255 PF02581 TMP-TENI: Thiamine mo 70.5 22 0.00048 27.1 6.8 68 7-78 101-175 (180)
256 PF13022 HTH_Tnp_1_2: Helix-tu 70.4 2.5 5.4E-05 31.2 1.3 21 188-208 33-53 (142)
257 PRK04128 1-(5-phosphoribosyl)- 70.3 55 0.0012 26.3 10.0 82 9-92 30-116 (228)
258 TIGR01303 IMP_DH_rel_1 IMP deh 70.0 29 0.00063 31.2 8.2 67 9-78 224-292 (475)
259 COG2022 ThiG Uncharacterized e 69.9 22 0.00048 28.7 6.5 69 28-96 154-232 (262)
260 PRK13585 1-(5-phosphoribosyl)- 69.7 56 0.0012 26.1 9.6 78 10-89 150-237 (241)
261 cd00092 HTH_CRP helix_turn_hel 69.6 4.9 0.00011 24.9 2.5 26 186-211 22-47 (67)
262 cd06171 Sigma70_r4 Sigma70, re 69.6 4.3 9.3E-05 23.4 2.1 29 181-209 18-46 (55)
263 cd00561 CobA_CobO_BtuR ATP:cor 69.2 20 0.00044 27.1 6.0 47 23-69 94-145 (159)
264 KOG4175 Tryptophan synthase al 69.1 14 0.0003 29.2 5.1 40 50-89 94-139 (268)
265 COG2070 Dioxygenases related t 69.0 25 0.00055 30.0 7.3 70 5-77 131-210 (336)
266 PF12840 HTH_20: Helix-turn-he 68.9 3.2 7E-05 25.6 1.4 29 180-208 14-43 (61)
267 PRK13890 conjugal transfer pro 68.8 4 8.6E-05 29.3 2.1 33 181-213 10-42 (120)
268 PLN02274 inosine-5'-monophosph 68.8 30 0.00065 31.4 8.1 67 10-79 248-316 (505)
269 PRK11202 DNA-binding transcrip 68.8 6.4 0.00014 30.7 3.5 43 161-212 13-55 (203)
270 COG1342 Predicted DNA-binding 68.6 2.5 5.4E-05 28.9 0.9 27 183-209 43-69 (99)
271 PF13309 HTH_22: HTH domain 68.5 2.9 6.4E-05 26.4 1.2 18 191-208 44-61 (64)
272 TIGR01818 ntrC nitrogen regula 68.4 4.4 9.6E-05 35.9 2.8 30 180-209 430-459 (463)
273 PRK13586 1-(5-phosphoribosyl)- 68.4 47 0.001 26.7 8.4 68 10-79 147-217 (232)
274 PF07638 Sigma70_ECF: ECF sigm 68.1 5.1 0.00011 30.9 2.7 30 180-209 142-171 (185)
275 PRK05718 keto-hydroxyglutarate 68.1 59 0.0013 25.8 10.2 83 5-90 20-104 (212)
276 TIGR03879 near_KaiC_dom probab 68.0 4.1 9E-05 26.5 1.8 23 187-209 30-52 (73)
277 TIGR02337 HpaR homoprotocatech 67.8 5.5 0.00012 28.1 2.7 49 161-209 14-62 (118)
278 PF05930 Phage_AlpA: Prophage 67.8 2.5 5.4E-05 25.2 0.7 22 190-211 4-25 (51)
279 PLN02274 inosine-5'-monophosph 67.5 38 0.00082 30.8 8.4 70 7-79 296-379 (505)
280 PRK00430 fis global DNA-bindin 67.4 7 0.00015 26.8 3.0 30 180-209 59-88 (95)
281 PF00977 His_biosynth: Histidi 67.3 30 0.00065 27.7 7.1 70 9-79 147-219 (229)
282 PRK15115 response regulator Gl 67.3 2.5 5.3E-05 37.3 0.9 32 180-211 402-433 (444)
283 PF13545 HTH_Crp_2: Crp-like h 67.2 2.1 4.5E-05 27.6 0.3 22 189-210 28-49 (76)
284 PRK15418 transcriptional regul 67.0 3.3 7.2E-05 35.0 1.6 32 181-212 21-52 (318)
285 TIGR01302 IMP_dehydrog inosine 66.9 27 0.00058 31.2 7.3 64 11-78 226-291 (450)
286 cd04722 TIM_phosphate_binding 66.5 25 0.00053 26.5 6.3 55 25-79 137-198 (200)
287 PF09339 HTH_IclR: IclR helix- 66.5 2.7 5.9E-05 25.1 0.7 24 187-210 16-39 (52)
288 PRK14114 1-(5-phosphoribosyl)- 66.3 45 0.00097 27.1 7.9 69 10-79 145-222 (241)
289 TIGR01306 GMP_reduct_2 guanosi 66.3 35 0.00076 29.0 7.5 56 25-80 109-165 (321)
290 COG3836 HpcH 2,4-dihydroxyhept 66.3 64 0.0014 26.2 8.5 70 14-86 30-102 (255)
291 PRK13125 trpA tryptophan synth 66.2 36 0.00078 27.5 7.4 53 42-94 65-125 (244)
292 cd04732 HisA HisA. Phosphorib 66.1 48 0.001 26.2 8.2 68 10-79 147-218 (234)
293 COG0159 TrpA Tryptophan syntha 66.0 38 0.00083 27.9 7.4 49 40-88 82-137 (265)
294 PRK12738 kbaY tagatose-bisphos 65.8 29 0.00063 29.0 6.8 67 8-77 154-229 (286)
295 COG0352 ThiE Thiamine monophos 65.8 53 0.0011 26.1 8.0 68 7-78 110-184 (211)
296 PF04309 G3P_antiterm: Glycero 65.6 12 0.00027 28.8 4.3 61 11-77 106-166 (175)
297 PLN02617 imidazole glycerol ph 65.6 98 0.0021 28.4 10.7 69 25-93 453-531 (538)
298 PRK09283 delta-aminolevulinic 65.5 25 0.00055 29.7 6.4 65 9-76 225-290 (323)
299 smart00418 HTH_ARSR helix_turn 65.5 5 0.00011 24.2 1.9 24 186-209 7-30 (66)
300 TIGR01163 rpe ribulose-phospha 65.0 63 0.0014 25.0 9.8 77 13-91 15-97 (210)
301 PF13941 MutL: MutL protein 65.0 76 0.0016 28.4 9.6 89 9-99 111-211 (457)
302 TIGR03572 WbuZ glycosyl amidat 64.6 60 0.0013 25.8 8.4 70 9-80 30-103 (232)
303 PF01959 DHQS: 3-dehydroquinat 64.5 33 0.00071 29.5 6.9 71 25-96 97-169 (354)
304 TIGR02974 phageshock_pspF psp 63.7 6.7 0.00014 33.4 2.8 30 180-209 296-325 (329)
305 cd01573 modD_like ModD; Quinol 63.1 63 0.0014 26.7 8.4 69 6-79 188-257 (272)
306 PF07688 KaiA: KaiA domain; I 63.1 23 0.0005 29.0 5.5 92 3-97 25-119 (283)
307 PF04967 HTH_10: HTH DNA bindi 62.8 15 0.00033 22.2 3.5 35 162-207 6-41 (53)
308 PRK10365 transcriptional regul 62.7 3.9 8.4E-05 35.9 1.2 30 180-209 409-438 (441)
309 PRK11361 acetoacetate metaboli 62.7 6.6 0.00014 34.7 2.7 30 180-209 421-450 (457)
310 PRK15008 HTH-type transcriptio 62.6 11 0.00025 29.4 3.8 43 160-212 19-61 (212)
311 PRK12595 bifunctional 3-deoxy- 62.5 38 0.00082 29.3 7.2 68 10-78 240-320 (360)
312 PRK05458 guanosine 5'-monophos 62.2 83 0.0018 26.8 9.0 71 7-80 147-230 (326)
313 TIGR02915 PEP_resp_reg putativ 62.1 3.8 8.2E-05 36.1 1.1 30 180-209 409-438 (445)
314 PRK06015 keto-hydroxyglutarate 62.0 77 0.0017 25.0 8.6 83 5-89 9-92 (201)
315 cd02068 radical_SAM_B12_BD B12 61.9 55 0.0012 23.2 7.9 84 9-95 25-111 (127)
316 COG1476 Predicted transcriptio 61.8 4.5 9.7E-05 25.9 1.1 29 181-209 6-34 (68)
317 COG1411 Uncharacterized protei 61.8 52 0.0011 26.0 7.0 58 23-80 150-210 (229)
318 PRK13413 mpi multiple promoter 61.7 4.7 0.0001 31.5 1.4 30 181-211 165-194 (200)
319 PF01408 GFO_IDH_MocA: Oxidore 61.7 32 0.00069 23.9 5.7 45 52-96 63-111 (120)
320 cd03823 GT1_ExpE7_like This fa 61.5 84 0.0018 25.6 9.2 76 12-97 254-329 (359)
321 PRK13698 plasmid-partitioning 61.5 5.7 0.00012 33.6 1.9 32 184-215 171-202 (323)
322 PRK10923 glnG nitrogen regulat 61.4 7.1 0.00015 34.7 2.7 30 180-209 433-462 (469)
323 PRK05567 inosine 5'-monophosph 61.3 47 0.001 29.9 7.9 64 12-78 230-295 (486)
324 COG2390 DeoR Transcriptional r 61.3 5 0.00011 34.0 1.6 27 184-210 21-47 (321)
325 PF00290 Trp_syntA: Tryptophan 61.3 16 0.00034 30.1 4.4 49 40-88 75-130 (259)
326 PRK09726 antitoxin HipB; Provi 61.1 5 0.00011 26.9 1.3 31 181-211 17-47 (88)
327 PRK08673 3-deoxy-7-phosphohept 61.1 1.1E+02 0.0023 26.3 10.4 84 11-95 216-326 (335)
328 smart00421 HTH_LUXR helix_turn 61.1 6 0.00013 23.3 1.6 22 187-208 16-37 (58)
329 PF04218 CENP-B_N: CENP-B N-te 61.1 7.8 0.00017 23.4 2.0 30 181-211 15-44 (53)
330 PF08220 HTH_DeoR: DeoR-like h 61.0 10 0.00022 23.2 2.6 22 187-208 12-33 (57)
331 cd04823 ALAD_PBGS_aspartate_ri 60.7 35 0.00075 28.8 6.3 66 9-77 222-288 (320)
332 PRK14024 phosphoribosyl isomer 60.4 89 0.0019 25.2 8.7 79 11-90 148-238 (241)
333 PRK06512 thiamine-phosphate py 60.3 60 0.0013 25.9 7.6 67 8-78 118-190 (221)
334 PRK13397 3-deoxy-7-phosphohept 60.2 43 0.00094 27.4 6.7 66 11-78 138-217 (250)
335 PRK01033 imidazole glycerol ph 60.0 84 0.0018 25.6 8.6 72 8-80 29-103 (258)
336 PLN02775 Probable dihydrodipic 60.0 65 0.0014 26.9 7.9 74 9-86 66-140 (286)
337 PF12802 MarR_2: MarR family; 59.9 2.8 6.2E-05 25.7 -0.1 20 190-209 22-41 (62)
338 COG4999 Uncharacterized domain 59.9 12 0.00025 27.0 3.0 66 25-90 52-120 (140)
339 PRK11388 DNA-binding transcrip 59.9 4.1 9E-05 37.9 1.0 35 180-214 595-629 (638)
340 PRK02615 thiamine-phosphate py 59.6 66 0.0014 27.7 8.1 69 7-79 246-321 (347)
341 TIGR00721 tfx DNA-binding prot 59.6 5.1 0.00011 29.5 1.2 28 180-208 13-40 (137)
342 TIGR01919 hisA-trpF 1-(5-phosp 59.2 78 0.0017 25.6 8.2 69 10-79 150-224 (243)
343 PRK00994 F420-dependent methyl 58.8 40 0.00088 27.3 6.1 62 17-81 55-116 (277)
344 PF01081 Aldolase: KDPG and KH 58.7 29 0.00063 27.2 5.4 81 8-91 16-98 (196)
345 COG3311 AlpA Predicted transcr 58.0 5.5 0.00012 25.7 1.0 27 185-211 9-35 (70)
346 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 58.0 5.9 0.00013 23.7 1.1 33 180-212 11-43 (50)
347 PRK08359 transcription factor; 57.9 5.8 0.00013 30.5 1.3 30 180-209 89-118 (176)
348 PRK08072 nicotinate-nucleotide 57.5 69 0.0015 26.6 7.7 66 6-79 193-259 (277)
349 COG2109 BtuR ATP:corrinoid ade 57.5 42 0.0009 26.3 5.9 56 12-69 112-172 (198)
350 PRK05986 cob(I)alamin adenolsy 57.5 27 0.00059 27.3 5.0 47 23-69 114-165 (191)
351 PRK13695 putative NTPase; Prov 57.5 80 0.0017 23.7 8.3 72 23-95 95-172 (174)
352 smart00346 HTH_ICLR helix_turn 57.3 7.5 0.00016 25.8 1.7 31 181-211 10-42 (91)
353 TIGR03830 CxxCG_CxxCG_HTH puta 57.3 21 0.00045 25.4 4.1 34 176-209 65-98 (127)
354 TIGR03572 WbuZ glycosyl amidat 57.2 96 0.0021 24.6 8.5 67 11-79 155-226 (232)
355 PRK09195 gatY tagatose-bisphos 57.2 43 0.00094 27.9 6.4 66 8-76 154-228 (284)
356 PRK06843 inosine 5-monophospha 57.0 72 0.0016 28.1 8.0 70 7-79 201-284 (404)
357 PRK05096 guanosine 5'-monophos 56.9 57 0.0012 28.0 7.1 53 24-77 122-176 (346)
358 TIGR02329 propionate_PrpR prop 56.8 5.7 0.00012 36.2 1.3 31 180-210 494-524 (526)
359 PF01993 MTD: methylene-5,6,7, 56.5 25 0.00054 28.5 4.6 64 16-82 53-116 (276)
360 PRK07414 cob(I)yrinic acid a,c 56.5 35 0.00076 26.3 5.4 47 23-69 114-165 (178)
361 PF13551 HTH_29: Winged helix- 56.5 8.4 0.00018 26.5 1.9 31 181-212 4-35 (112)
362 cd01568 QPRTase_NadC Quinolina 56.2 73 0.0016 26.3 7.6 68 6-79 186-254 (269)
363 PRK07028 bifunctional hexulose 56.1 95 0.0021 27.4 8.8 72 25-97 132-212 (430)
364 PF10237 N6-adenineMlase: Prob 56.0 22 0.00049 26.9 4.2 54 23-80 85-145 (162)
365 PRK00118 putative DNA-binding 55.9 8.3 0.00018 27.0 1.7 28 181-208 25-52 (104)
366 PRK03975 tfx putative transcri 55.8 8.7 0.00019 28.5 1.9 28 180-208 13-40 (141)
367 PF02887 PK_C: Pyruvate kinase 55.8 69 0.0015 22.5 6.8 74 14-94 8-83 (117)
368 PRK10072 putative transcriptio 55.2 9 0.0002 26.4 1.8 33 177-209 34-66 (96)
369 PRK11572 copper homeostasis pr 55.2 75 0.0016 26.0 7.3 70 7-78 126-196 (248)
370 TIGR02026 BchE magnesium-proto 55.1 1.1E+02 0.0024 27.6 9.2 83 12-97 53-138 (497)
371 PRK06801 hypothetical protein; 55.0 64 0.0014 26.9 7.1 70 8-79 155-232 (286)
372 PRK09706 transcriptional repre 55.0 9.4 0.0002 27.8 2.0 29 181-209 10-38 (135)
373 PRK00230 orotidine 5'-phosphat 55.0 64 0.0014 25.8 7.0 83 9-94 12-101 (230)
374 COG2522 Predicted transcriptio 54.9 14 0.00029 26.6 2.7 38 162-208 4-41 (119)
375 PF13404 HTH_AsnC-type: AsnC-t 54.9 25 0.00055 20.0 3.4 22 187-208 15-36 (42)
376 PRK00748 1-(5-phosphoribosyl)- 54.9 1E+02 0.0023 24.3 8.6 71 9-80 30-103 (233)
377 TIGR00708 cobA cob(I)alamin ad 54.8 36 0.00078 26.2 5.2 47 23-69 96-147 (173)
378 PRK07259 dihydroorotate dehydr 54.6 1.2E+02 0.0026 25.2 8.8 57 40-96 223-285 (301)
379 PF05732 RepL: Firmicute plasm 54.6 7.9 0.00017 29.5 1.6 53 160-212 42-98 (165)
380 PRK14949 DNA polymerase III su 54.6 48 0.001 32.4 6.9 73 24-97 119-193 (944)
381 TIGR01182 eda Entner-Doudoroff 54.6 1.1E+02 0.0023 24.3 8.6 80 5-87 13-94 (204)
382 PF12833 HTH_18: Helix-turn-he 54.3 3.1 6.7E-05 27.1 -0.6 23 195-217 1-24 (81)
383 PF01710 HTH_Tnp_IS630: Transp 54.3 12 0.00025 26.7 2.3 23 189-211 18-40 (119)
384 cd00381 IMPDH IMPDH: The catal 53.7 92 0.002 26.4 8.0 55 24-79 106-162 (325)
385 cd03818 GT1_ExpC_like This fam 53.6 1.3E+02 0.0028 25.8 9.2 59 34-98 309-367 (396)
386 smart00420 HTH_DEOR helix_turn 53.6 11 0.00025 21.7 1.9 23 187-209 12-34 (53)
387 cd00384 ALAD_PBGS Porphobilino 53.5 59 0.0013 27.4 6.5 64 9-75 217-281 (314)
388 PRK08999 hypothetical protein; 53.5 93 0.002 25.9 8.1 68 7-78 232-306 (312)
389 PF01729 QRPTase_C: Quinolinat 53.4 52 0.0011 25.1 5.9 55 40-95 67-122 (169)
390 cd00381 IMPDH IMPDH: The catal 53.3 63 0.0014 27.4 7.0 69 7-79 142-225 (325)
391 PRK08649 inosine 5-monophospha 53.0 1.3E+02 0.0028 26.2 8.8 66 10-79 142-214 (368)
392 PF02572 CobA_CobO_BtuR: ATP:c 53.0 49 0.0011 25.4 5.7 47 23-69 95-146 (172)
393 COG3010 NanE Putative N-acetyl 53.0 1.2E+02 0.0025 24.3 7.9 71 6-80 132-209 (229)
394 PRK15424 propionate catabolism 52.9 7.1 0.00015 35.6 1.2 32 180-211 501-532 (538)
395 cd02065 B12-binding_like B12 b 52.7 51 0.0011 23.0 5.6 53 2-56 27-85 (125)
396 TIGR02684 dnstrm_HI1420 probab 52.4 9.8 0.00021 25.8 1.6 29 183-213 39-67 (89)
397 cd03114 ArgK-like The function 52.2 57 0.0012 24.1 5.9 44 11-60 80-123 (148)
398 PRK11359 cyclic-di-GMP phospho 52.2 1.1E+02 0.0023 29.0 9.1 91 1-94 690-794 (799)
399 PRK09140 2-dehydro-3-deoxy-6-p 52.2 1.2E+02 0.0025 24.0 8.6 82 5-89 15-98 (206)
400 PRK13125 trpA tryptophan synth 52.2 1.2E+02 0.0026 24.5 8.2 66 12-80 142-214 (244)
401 PF00356 LacI: Bacterial regul 52.1 9.2 0.0002 22.4 1.2 23 191-213 1-23 (46)
402 PLN02898 HMP-P kinase/thiamin- 51.9 1.5E+02 0.0032 26.8 9.5 65 7-75 396-467 (502)
403 PF00196 GerE: Bacterial regul 51.9 12 0.00027 22.6 1.9 26 180-206 10-35 (58)
404 cd04726 KGPDC_HPS 3-Keto-L-gul 51.9 68 0.0015 24.7 6.6 74 8-83 9-87 (202)
405 PRK02083 imidazole glycerol ph 51.8 1.3E+02 0.0027 24.4 9.2 72 8-80 29-103 (253)
406 PTZ00314 inosine-5'-monophosph 51.8 76 0.0017 28.7 7.6 54 24-78 253-308 (495)
407 PRK11161 fumarate/nitrate redu 51.8 5.8 0.00013 31.5 0.5 23 189-211 184-206 (235)
408 PF14606 Lipase_GDSL_3: GDSL-l 51.8 29 0.00063 26.8 4.2 46 12-60 49-102 (178)
409 PRK12724 flagellar biosynthesi 51.6 1.1E+02 0.0024 27.2 8.3 74 2-79 279-366 (432)
410 PF02042 RWP-RK: RWP-RK domain 51.5 8.2 0.00018 23.3 1.0 25 189-213 15-39 (52)
411 cd04824 eu_ALAD_PBGS_cysteine_ 51.4 70 0.0015 27.1 6.7 65 9-76 222-288 (320)
412 cd02801 DUS_like_FMN Dihydrour 51.3 1.1E+02 0.0024 24.0 7.9 65 12-78 141-211 (231)
413 TIGR02844 spore_III_D sporulat 51.3 11 0.00023 25.1 1.6 30 181-210 11-40 (80)
414 PF08281 Sigma70_r4_2: Sigma-7 51.3 9.5 0.00021 22.6 1.3 29 180-208 17-45 (54)
415 TIGR00270 conserved hypothetic 51.2 7.1 0.00015 29.4 0.8 32 180-211 73-104 (154)
416 cd03316 MR_like Mandelate race 51.2 98 0.0021 26.3 8.0 81 10-92 201-282 (357)
417 cd02809 alpha_hydroxyacid_oxid 51.1 1.4E+02 0.0031 24.8 8.7 70 8-80 180-256 (299)
418 TIGR02129 hisA_euk phosphoribo 51.0 1.2E+02 0.0027 24.8 8.0 57 13-71 162-221 (253)
419 smart00345 HTH_GNTR helix_turn 50.7 10 0.00022 22.6 1.4 23 189-211 19-42 (60)
420 cd04949 GT1_gtfA_like This fam 50.6 1.2E+02 0.0027 25.4 8.5 58 36-98 289-346 (372)
421 smart00354 HTH_LACI helix_turn 50.5 8.6 0.00019 24.5 1.0 21 191-211 2-22 (70)
422 PRK07998 gatY putative fructos 50.3 80 0.0017 26.3 6.9 68 8-78 152-227 (283)
423 TIGR02612 mob_myst_A mobile my 50.2 20 0.00044 26.8 3.1 32 180-211 29-60 (150)
424 COG2169 Ada Adenosine deaminas 49.7 8.4 0.00018 29.9 1.0 29 181-211 91-119 (187)
425 PRK05742 nicotinate-nucleotide 49.6 1.5E+02 0.0033 24.6 8.6 65 6-79 194-260 (277)
426 PRK07764 DNA polymerase III su 49.5 81 0.0017 30.6 7.7 72 24-97 120-194 (824)
427 PF06056 Terminase_5: Putative 49.5 11 0.00024 23.3 1.4 21 188-208 12-32 (58)
428 PF04703 FaeA: FaeA-like prote 49.5 5.5 0.00012 25.0 0.0 20 188-207 14-33 (62)
429 smart00426 TEA TEA domain. 49.5 16 0.00035 23.4 2.1 17 155-171 5-21 (68)
430 TIGR03697 NtcA_cyano global ni 49.5 7 0.00015 29.9 0.6 24 189-212 143-166 (193)
431 COG2876 AroA 3-deoxy-D-arabino 49.2 1.5E+02 0.0033 24.5 8.8 82 13-95 170-278 (286)
432 TIGR03151 enACPred_II putative 49.1 1E+02 0.0022 25.9 7.6 63 9-80 74-136 (307)
433 PRK13384 delta-aminolevulinic 49.0 42 0.00091 28.4 5.0 65 9-76 226-291 (322)
434 PRK06424 transcription factor; 49.0 23 0.00049 26.4 3.2 32 180-211 88-119 (144)
435 cd02809 alpha_hydroxyacid_oxid 49.0 1.2E+02 0.0026 25.3 7.9 64 13-79 133-199 (299)
436 cd07377 WHTH_GntR Winged helix 48.9 32 0.0007 20.8 3.6 19 191-209 27-45 (66)
437 cd04736 MDH_FMN Mandelate dehy 48.9 1.2E+02 0.0027 26.2 8.1 69 8-79 244-317 (361)
438 PF05043 Mga: Mga helix-turn-h 48.7 8.4 0.00018 25.6 0.8 29 182-210 23-51 (87)
439 PRK13918 CRP/FNR family transc 48.7 7.1 0.00015 30.1 0.5 23 189-211 149-171 (202)
440 cd03820 GT1_amsD_like This fam 48.7 1.4E+02 0.0031 23.9 10.4 68 25-98 253-320 (348)
441 cd02922 FCB2_FMN Flavocytochro 48.6 1.3E+02 0.0027 25.9 8.1 39 41-80 203-241 (344)
442 PRK07315 fructose-bisphosphate 48.5 1.1E+02 0.0023 25.7 7.5 68 9-79 154-231 (293)
443 PRK00278 trpC indole-3-glycero 48.2 1.5E+02 0.0033 24.2 9.7 74 2-79 160-239 (260)
444 PRK01906 tetraacyldisaccharide 48.1 30 0.00066 29.6 4.3 49 2-59 127-175 (338)
445 PF04358 DsrC: DsrC like prote 48.1 45 0.00097 23.5 4.4 44 158-212 40-90 (109)
446 PRK10296 DNA-binding transcrip 48.0 14 0.00031 30.2 2.2 28 190-217 189-217 (278)
447 COG0113 HemB Delta-aminolevuli 47.9 85 0.0018 26.5 6.6 64 9-75 230-294 (330)
448 PRK14994 SAM-dependent 16S rib 47.9 1.5E+02 0.0033 24.7 8.2 51 25-76 85-138 (287)
449 PLN02591 tryptophan synthase 47.7 47 0.001 27.2 5.1 42 40-81 178-219 (250)
450 cd06170 LuxR_C_like C-terminal 47.4 16 0.00034 21.4 1.8 21 188-208 14-34 (57)
451 COG2200 Rtn c-di-GMP phosphodi 47.3 3.2 7E-05 33.9 -1.7 55 128-184 20-74 (256)
452 PRK15484 lipopolysaccharide 1, 47.3 1.6E+02 0.0035 25.2 8.8 67 25-97 277-344 (380)
453 KOG3040 Predicted sugar phosph 47.3 38 0.00081 27.1 4.2 53 1-58 63-118 (262)
454 COG1927 Mtd Coenzyme F420-depe 47.2 71 0.0015 25.5 5.7 62 16-80 54-115 (277)
455 PF13613 HTH_Tnp_4: Helix-turn 47.0 7.7 0.00017 23.3 0.4 28 183-211 14-41 (53)
456 PF01710 HTH_Tnp_IS630: Transp 47.0 16 0.00035 26.0 2.1 23 187-209 69-91 (119)
457 cd02911 arch_FMN Archeal FMN-b 46.9 1.5E+02 0.0033 23.8 8.4 65 10-78 153-218 (233)
458 smart00419 HTH_CRP helix_turn_ 46.9 12 0.00026 21.2 1.2 22 189-210 8-29 (48)
459 PRK09413 IS2 repressor TnpA; R 46.8 17 0.00038 25.9 2.3 22 187-208 27-48 (121)
460 PF00478 IMPDH: IMP dehydrogen 46.7 1.3E+02 0.0027 26.1 7.7 71 7-80 105-177 (352)
461 PHA00675 hypothetical protein 46.7 15 0.00033 24.1 1.7 29 181-209 31-59 (78)
462 PRK13523 NADPH dehydrogenase N 46.7 88 0.0019 26.7 6.9 66 11-78 226-302 (337)
463 COG1510 Predicted transcriptio 46.6 33 0.00071 26.3 3.7 45 163-207 14-59 (177)
464 PRK07428 nicotinate-nucleotide 46.6 1E+02 0.0022 25.8 7.1 40 54-94 198-237 (288)
465 PRK11753 DNA-binding transcrip 46.5 7.7 0.00017 30.1 0.4 23 189-211 168-190 (211)
466 PTZ00314 inosine-5'-monophosph 46.4 82 0.0018 28.6 6.9 70 8-80 290-373 (495)
467 smart00530 HTH_XRE Helix-turn- 46.2 11 0.00024 21.2 1.0 27 185-211 6-32 (56)
468 TIGR01304 IMP_DH_rel_2 IMP deh 46.2 1.8E+02 0.0039 25.3 8.7 65 10-78 143-214 (369)
469 TIGR01858 tag_bisphos_ald clas 46.1 89 0.0019 26.1 6.6 67 8-76 152-226 (282)
470 PRK05848 nicotinate-nucleotide 46.0 1E+02 0.0022 25.6 6.8 53 41-94 170-223 (273)
471 PRK05022 anaerobic nitric oxid 45.8 11 0.00025 34.0 1.4 30 180-209 472-501 (509)
472 smart00351 PAX Paired Box doma 45.8 16 0.00034 26.3 1.9 28 181-209 26-53 (125)
473 COG1191 FliA DNA-directed RNA 45.6 12 0.00025 30.6 1.3 34 176-209 199-232 (247)
474 smart00347 HTH_MARR helix_turn 45.4 12 0.00026 25.0 1.2 24 185-208 20-43 (101)
475 PRK10820 DNA-binding transcrip 45.4 19 0.00042 32.7 2.8 29 180-209 478-506 (520)
476 PRK07455 keto-hydroxyglutarate 45.2 1.4E+02 0.0031 23.0 8.0 65 8-77 112-177 (187)
477 COG1419 FlhF Flagellar GTP-bin 44.9 1.7E+02 0.0036 25.8 8.3 78 1-79 259-345 (407)
478 PRK08610 fructose-bisphosphate 44.6 83 0.0018 26.3 6.2 67 8-76 155-229 (286)
479 TIGR01817 nifA Nif-specific re 44.6 11 0.00023 34.3 1.1 30 180-209 494-523 (534)
480 PRK06552 keto-hydroxyglutarate 44.5 1.6E+02 0.0034 23.4 8.5 83 5-89 18-104 (213)
481 KOG2794 Delta-aminolevulinic a 44.3 1.2E+02 0.0025 25.2 6.7 65 8-75 237-303 (340)
482 PRK11512 DNA-binding transcrip 44.3 19 0.00042 26.3 2.2 42 168-209 33-74 (144)
483 cd01424 MGS_CPS_II Methylglyox 44.2 93 0.002 21.4 5.7 41 12-55 57-99 (110)
484 COG2739 Uncharacterized protei 43.9 19 0.00042 25.0 1.9 28 180-208 25-52 (105)
485 cd04740 DHOD_1B_like Dihydroor 43.9 1.8E+02 0.004 24.0 9.3 56 40-95 220-281 (296)
486 cd04733 OYE_like_2_FMN Old yel 43.7 1.2E+02 0.0027 25.7 7.4 40 40-79 281-320 (338)
487 smart00550 Zalpha Z-DNA-bindin 43.7 16 0.00034 23.2 1.5 21 189-209 22-42 (68)
488 PRK11552 putative DNA-binding 43.6 36 0.00078 27.0 3.9 43 159-212 13-55 (225)
489 PF04539 Sigma70_r3: Sigma-70 43.5 44 0.00095 21.4 3.7 24 189-212 20-43 (78)
490 PRK04435 hypothetical protein; 43.5 40 0.00086 25.0 3.8 40 159-208 14-53 (147)
491 PRK10870 transcriptional repre 43.5 27 0.0006 26.7 3.0 48 162-209 42-91 (176)
492 PRK02290 3-dehydroquinate synt 43.3 2.2E+02 0.0047 24.6 8.6 70 25-96 89-160 (344)
493 PRK09391 fixK transcriptional 43.3 9.5 0.00021 30.4 0.5 26 189-214 179-204 (230)
494 KOG1601 GATA-4/5/6 transcripti 43.3 8.1 0.00018 31.4 0.1 69 25-93 64-135 (340)
495 TIGR00642 mmCoA_mut_beta methy 43.2 2.7E+02 0.0058 26.1 9.8 87 2-93 523-614 (619)
496 cd01844 SGNH_hydrolase_like_6 43.1 67 0.0015 24.1 5.2 44 16-61 51-103 (177)
497 KOG0538 Glycolate oxidase [Ene 42.9 79 0.0017 26.8 5.7 51 43-94 215-275 (363)
498 cd03819 GT1_WavL_like This fam 42.8 1.9E+02 0.0041 23.8 9.6 66 25-96 264-329 (355)
499 PF01527 HTH_Tnp_1: Transposas 42.8 8.2 0.00018 24.7 0.0 22 187-208 21-42 (76)
500 cd00532 MGS-like MGS-like doma 42.7 55 0.0012 22.8 4.3 41 12-55 57-103 (112)
No 1
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=99.86 E-value=5.8e-21 Score=147.03 Aligned_cols=100 Identities=28% Similarity=0.414 Sum_probs=91.1
Q ss_pred CcE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
||. |.+|.+.++|..+++... |||||+|+-||+.+|++|+..++ ++..+-||++|+-.+.+.+.+|+++||.|||.
T Consensus 25 gF~~vg~A~~~~ea~~~i~~~~--pDLILLDiYmPd~~Gi~lL~~ir~~~~~~DVI~iTAA~d~~tI~~alr~Gv~DYLi 102 (224)
T COG4565 25 GFSVVGTAGTLEEAKMIIEEFK--PDLILLDIYMPDGNGIELLPELRSQHYPVDVIVITAASDMETIKEALRYGVVDYLI 102 (224)
T ss_pred CceEEEeeccHHHHHHHHHhhC--CCEEEEeeccCCCccHHHHHHHHhcCCCCCEEEEeccchHHHHHHHHhcCchhhee
Confidence 566 568999999999999977 99999999999999999999998 56788999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhhh
Q 027234 80 KPVRIEELKNIWQHVVRKRKNERK 103 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~~~~~ 103 (226)
|||..+.|..++.+..+.+.....
T Consensus 103 KPf~~eRl~~aL~~y~~~r~~l~~ 126 (224)
T COG4565 103 KPFTFERLQQALTRYRQKRHALES 126 (224)
T ss_pred cceeHHHHHHHHHHHHHHHHHHhh
Confidence 999999999999998877665443
No 2
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=99.85 E-value=1.1e-20 Score=162.84 Aligned_cols=101 Identities=29% Similarity=0.499 Sum_probs=92.3
Q ss_pred CCcE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 1 MGFS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 1 lg~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+||+ |.+|.||.+|++.+.+.. |||||+|++||+|||+++++.++ ..|++.+|++|++++++++.+|+++|+.|||
T Consensus 26 ~g~eiVgtA~NG~eAleli~e~~--pDiviTDI~MP~mdGLdLI~~ike~~p~~~~IILSGy~eFeYak~Am~lGV~dYL 103 (475)
T COG4753 26 LGIEVVGTAANGKEALELIQETQ--PDIVITDINMPGMDGLDLIKAIKEQSPDTEFIILSGYDEFEYAKKAMKLGVKDYL 103 (475)
T ss_pred cCCeEEEecccHHHHHHHHHhcC--CCEEEEecCCCCCcHHHHHHHHHHhCCCceEEEEeccchhHHHHHHHhcCchhhe
Confidence 4777 559999999999999977 99999999999999999999998 6789999999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHHHhhhhh
Q 027234 79 TKPVRIEELKNIWQHVVRKRKNERK 103 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~~~~~~~ 103 (226)
+||++.++|..++.++.........
T Consensus 104 LKP~~k~eL~~~L~ki~~kl~~~~~ 128 (475)
T COG4753 104 LKPVDKAELEEALKKIIGKLEEQQK 128 (475)
T ss_pred eCcCCHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999998876554433
No 3
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=99.83 E-value=8.3e-20 Score=146.59 Aligned_cols=96 Identities=30% Similarity=0.485 Sum_probs=89.5
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc--CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL--EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~--~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
||+|..+.++.+|++.+.. . ||+||+|++||++||+++|++++. ...+|||++|+.++.+....+++.|||||+.
T Consensus 24 g~~v~~~~~~~~a~~~~~~--~-~dlviLD~~lP~~dG~~~~~~iR~~~~~~~PIi~Lta~~~~~d~v~gl~~GADDYl~ 100 (229)
T COG0745 24 GYEVDVAADGEEALEAARE--Q-PDLVLLDLMLPDLDGLELCRRLRAKKGSGPPIIVLTARDDEEDRVLGLEAGADDYLT 100 (229)
T ss_pred CCEEEEECCHHHHHHHHhc--C-CCEEEEECCCCCCCHHHHHHHHHhhcCCCCcEEEEECCCcHHHHHHHHhCcCCeeee
Confidence 8999999999999999986 4 999999999999999999999983 4678999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 027234 80 KPVRIEELKNIWQHVVRKRKN 100 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~~ 100 (226)
|||++.+|...++.++++...
T Consensus 101 KPf~~~EL~ARi~a~lRR~~~ 121 (229)
T COG0745 101 KPFSPRELLARLRALLRRNAG 121 (229)
T ss_pred CCCCHHHHHHHHHHHHCcCcC
Confidence 999999999999999976543
No 4
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=99.78 E-value=3.3e-18 Score=147.89 Aligned_cols=98 Identities=34% Similarity=0.615 Sum_probs=92.0
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|.++.++.+|++.+.... ||+||+|+.||++||+++++.++ ..+.+|||++|++.+.+.+..|++.||.|||.
T Consensus 27 ~G~~v~~a~~~~~al~~i~~~~--~~lvl~Di~mp~~~Gl~ll~~i~~~~~~~pVI~~Tg~g~i~~AV~A~k~GA~Dfl~ 104 (464)
T COG2204 27 AGYEVVTAESAEEALEALSESP--FDLVLLDIRMPGMDGLELLKEIKSRDPDLPVIVMTGHGDIDTAVEALRLGAFDFLE 104 (464)
T ss_pred cCCeEEEeCCHHHHHHHHhcCC--CCEEEEecCCCCCchHHHHHHHHhhCCCCCEEEEeCCCCHHHHHHHHhcCcceeee
Confidence 3899999999999999999865 99999999999999999999997 56899999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 027234 80 KPVRIEELKNIWQHVVRKRKN 100 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~~ 100 (226)
|||+++.|...+++++..++.
T Consensus 105 KP~~~~~L~~~v~ral~~~~~ 125 (464)
T COG2204 105 KPFDLDRLLAIVERALELREL 125 (464)
T ss_pred CCCCHHHHHHHHHHHHHHhhh
Confidence 999999999999999886544
No 5
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=99.77 E-value=3.7e-18 Score=129.18 Aligned_cols=99 Identities=25% Similarity=0.447 Sum_probs=89.8
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||+|.++.++++.|....... |-++|+|+.||+|+|+++.+++. .....|||++|++.+..-..++++.||.|||.
T Consensus 27 ~G~~v~~~~s~~~fL~~~~~~~--pGclllDvrMPg~sGlelq~~L~~~~~~~PVIfiTGhgDIpmaV~AmK~GAvDFLe 104 (202)
T COG4566 27 AGFQVKCFASAEEFLAAAPLDR--PGCLLLDVRMPGMSGLELQDRLAERGIRLPVIFLTGHGDIPMAVQAMKAGAVDFLE 104 (202)
T ss_pred CCceeeeecCHHHHHhhccCCC--CCeEEEecCCCCCchHHHHHHHHhcCCCCCEEEEeCCCChHHHHHHHHcchhhHHh
Confidence 3899999999999998865544 89999999999999999999997 56789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhhh
Q 027234 80 KPVRIEELKNIWQHVVRKRKNE 101 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~~~ 101 (226)
|||+...|..++++.+......
T Consensus 105 KP~~~q~Lldav~~Al~~~~~~ 126 (202)
T COG4566 105 KPFSEQDLLDAVERALARDASR 126 (202)
T ss_pred CCCchHHHHHHHHHHHHHHHHH
Confidence 9999999999999998765443
No 6
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=99.75 E-value=2.9e-17 Score=130.57 Aligned_cols=99 Identities=29% Similarity=0.398 Sum_probs=90.1
Q ss_pred cE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 3 FS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 3 ~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
++ |.++.++.++++.+.... ||+||+|+.||+++|+++++.|+ ..++++|+++|.+.+.....++++.||+||+.|
T Consensus 26 ~~vv~~a~~~~~~l~~~~~~~--pdvvl~Dl~mP~~~G~e~~~~l~~~~p~~~vvvlt~~~~~~~v~~al~~Ga~Gyl~K 103 (211)
T COG2197 26 LEVVGEASNGEEALDLARELK--PDVVLLDLSMPGMDGLEALKQLRARGPDIKVVVLTAHDDPAYVIRALRAGADGYLLK 103 (211)
T ss_pred CEEEEEeCCHHHHHHHhhhcC--CCEEEEcCCCCCCChHHHHHHHHHHCCCCcEEEEeccCCHHHHHHHHHcCCCEEEeC
Confidence 55 557888999999988866 99999999999999999999998 678899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHhhhhh
Q 027234 81 PVRIEELKNIWQHVVRKRKNERK 103 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~~~~~~ 103 (226)
..++++|..+++.+..+.....+
T Consensus 104 ~~~~~~l~~ai~~v~~G~~~~~~ 126 (211)
T COG2197 104 DASPEELVEAIRAVAAGGTYLPP 126 (211)
T ss_pred CCCHHHHHHHHHHHHCCCeEeCH
Confidence 99999999999999877655444
No 7
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=99.74 E-value=1.1e-16 Score=128.46 Aligned_cols=97 Identities=25% Similarity=0.325 Sum_probs=87.6
Q ss_pred CcE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
|+. |..+.++.+|++.+.... ||+||+|+.||+++|+++++.++. .+..|||++|+..+.+...+++..||++|+.
T Consensus 29 ~~~~v~~a~~~~~al~~~~~~~--pdlvllD~~mp~~~gle~~~~l~~~~~~~~iivls~~~~~~~~~~al~~Ga~~yl~ 106 (225)
T PRK10046 29 GFSQILLAGNLAQARMMIERFK--PGLILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLI 106 (225)
T ss_pred CcEEEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEEcCCCHHHHHHHHHcCccEEEE
Confidence 464 678999999999998866 999999999999999999999974 5678999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 027234 80 KPVRIEELKNIWQHVVRKRKN 100 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~~ 100 (226)
||++.++|...++++..+...
T Consensus 107 Kp~~~~~L~~~i~~~~~~~~~ 127 (225)
T PRK10046 107 KPIAYERLGQTLTRFRQRKHM 127 (225)
T ss_pred CCcCHHHHHHHHHHHHHHHHH
Confidence 999999999999988766543
No 8
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=99.73 E-value=1e-16 Score=114.19 Aligned_cols=90 Identities=32% Similarity=0.591 Sum_probs=84.2
Q ss_pred CCc-EEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 1 MGF-SVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 1 lg~-~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.|| .|..+.++.+|++.+.... ||+||+|+.||+++|+++++.|+ ..+.+|+|++|...+.....++++.|+++||
T Consensus 21 ~~~~~v~~~~~~~~~~~~~~~~~--~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l 98 (112)
T PF00072_consen 21 AGYEEVTTASSGEEALELLKKHP--PDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDEDDSDEVQEALRAGADDYL 98 (112)
T ss_dssp TTEEEEEEESSHHHHHHHHHHST--ESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESSTSHHHHHHHHHTTESEEE
T ss_pred CCCCEEEEECCHHHHHHHhcccC--ceEEEEEeeeccccccccccccccccccccEEEecCCCCHHHHHHHHHCCCCEEE
Confidence 378 8999999999999999977 99999999999999999999997 4568999999999999999999999999999
Q ss_pred eCCCCHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQ 92 (226)
Q Consensus 79 ~KP~~~~~L~~~l~ 92 (226)
.||++.++|..+++
T Consensus 99 ~kp~~~~~l~~~i~ 112 (112)
T PF00072_consen 99 SKPFSPEELRAAIN 112 (112)
T ss_dssp ESSSSHHHHHHHHH
T ss_pred ECCCCHHHHHHhhC
Confidence 99999999998874
No 9
>PRK11475 DNA-binding transcriptional activator BglJ; Provisional
Probab=99.72 E-value=8.5e-17 Score=127.37 Aligned_cols=96 Identities=10% Similarity=0.123 Sum_probs=84.2
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEE---EccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHH-hCCcce
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVI---SDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGV-THDACD 76 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl---~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~-~~ga~~ 76 (226)
||.|..+.+++++++.+.... ||+|| +|+.||+++|+++++.++ ..+.+|||++|+.++......++ +.||.|
T Consensus 17 ~~~v~~~~~~~~~l~~~~~~~--pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p~~~iIvlt~~~~~~~~~~~~~~~Ga~g 94 (207)
T PRK11475 17 PYKLHTFSSQSSFQDAMSRIS--FSAVIFSLSAMRSERREGLSCLTELAIKFPRMRRLVIADDDIEARLIGSLSPSPLDG 94 (207)
T ss_pred eeEEEEeCCHHHHHHHhccCC--CCEEEeeccccCCCCCCHHHHHHHHHHHCCCCCEEEEeCCCCHHHHHHHHHHcCCeE
Confidence 567789999999999988755 99998 788999999999999997 56889999999988777666665 799999
Q ss_pred EEeCCCCHHHHHHHHHHHHHHHh
Q 027234 77 YLTKPVRIEELKNIWQHVVRKRK 99 (226)
Q Consensus 77 yl~KP~~~~~L~~~l~~~~~~~~ 99 (226)
||.||.+.++|..+++.++.+..
T Consensus 95 yl~K~~~~~eL~~aI~~v~~G~~ 117 (207)
T PRK11475 95 VLSKASTLEILQQELFLSLNGVR 117 (207)
T ss_pred EEecCCCHHHHHHHHHHHHCCCc
Confidence 99999999999999999987654
No 10
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=99.71 E-value=3.1e-17 Score=119.61 Aligned_cols=90 Identities=24% Similarity=0.436 Sum_probs=84.7
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
||.|.+|.+.+||+..+++.. |.-.++|+.|.+.+|+.+++.|+ ...+..+|++|++.+...+..|++.||++||.|
T Consensus 33 Gf~v~~a~~~~eal~~art~~--PayAvvDlkL~~gsGL~~i~~lr~~~~d~rivvLTGy~sIATAV~AvKlGA~~YLaK 110 (182)
T COG4567 33 GFAVVTAESVEEALAAARTAP--PAYAVVDLKLGDGSGLAVIEALRERRADMRIVVLTGYASIATAVEAVKLGACDYLAK 110 (182)
T ss_pred CceeEeeccHHHHHHHHhcCC--CceEEEEeeecCCCchHHHHHHHhcCCcceEEEEecchHHHHHHHHHHhhhhhhcCC
Confidence 899999999999999999976 99999999999999999999998 567899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQH 93 (226)
Q Consensus 81 P~~~~~L~~~l~~ 93 (226)
|-+.+++..++.+
T Consensus 111 PAdaDdi~aAl~~ 123 (182)
T COG4567 111 PADADDILAALLR 123 (182)
T ss_pred CCChHHHHHHHhh
Confidence 9999999877654
No 11
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=99.70 E-value=1e-16 Score=132.53 Aligned_cols=95 Identities=31% Similarity=0.492 Sum_probs=87.6
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CC---CCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EM---DLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~---~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
||.|..|.+|++|+++..++. ||+||+|++||+|||+++|++|+. .+ .+|++++|++.+.+...+++..||++|
T Consensus 38 ~y~v~~ae~g~~a~kl~~~~~--~dlvllD~~mp~mdg~ev~~~lk~~~p~t~~ip~i~lT~~~d~~~~~~~~~~g~~dy 115 (360)
T COG3437 38 GYRVIEAENGEEALKLLQEEP--PDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDY 115 (360)
T ss_pred ccceeeecCchHHHHHhcccC--CceEEeeccCCCccHHHHHHHHHhcCCcccccceEEEeecCChHHHHHHHHhhHHHH
Confidence 799999999999999998876 999999999999999999999985 55 589999999999999999999999999
Q ss_pred EeCCCCHHHHHHHHHHHHHHH
Q 027234 78 LTKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 78 l~KP~~~~~L~~~l~~~~~~~ 98 (226)
|.||+++.+|...+...+..+
T Consensus 116 l~KP~~~~~l~~rv~~~~q~k 136 (360)
T COG3437 116 LSKPISPKELVARVSSHLQLK 136 (360)
T ss_pred hcCCCCHHHHHHHHHHHHHHH
Confidence 999999999999997666544
No 12
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.67 E-value=6.9e-17 Score=132.44 Aligned_cols=62 Identities=52% Similarity=0.761 Sum_probs=59.3
Q ss_pred ccCCceeeeHhhHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 149 LKKPRLVWSVELHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 149 ~~~~~~~~~~~l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.+|+++.||.+||++|+.+++++|.++++||.|+++|++++||+++|+|||||||.+++|+-
T Consensus 233 ~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l~ 294 (526)
T PLN03162 233 KKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHLA 294 (526)
T ss_pred CCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhccccc
Confidence 57899999999999999999999999999999999999999999999999999999998653
No 13
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=99.65 E-value=1.1e-14 Score=117.82 Aligned_cols=96 Identities=19% Similarity=0.346 Sum_probs=83.1
Q ss_pred CcE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
|+. +..+.++.++++.+......||+||+|+.||+++|+++++.++ ..+.+|+|++|+..+......++..|+++|+.
T Consensus 26 ~~~~~~~~~~~~~a~~~~~~~~~~~DlvilD~~~p~~~G~eli~~l~~~~~~~~vI~ls~~~~~~~~~~al~~Ga~~yl~ 105 (239)
T PRK10430 26 GFQCCGTASTLEQAKEIIFNSDTPIDLILLDIYMQQENGLDLLPVLHEAGCKSDVIVISSAADAATIKDSLHYGVVDYLI 105 (239)
T ss_pred CceEEEEeCCHHHHHHHHHhcCCCCCEEEEecCCCCCCcHHHHHHHHhhCCCCCEEEEECCCcHHHHHHHHHcCCCEEEe
Confidence 455 4478899999998863223399999999999999999999997 45789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|..++.++...
T Consensus 106 Kp~~~~~l~~~i~~~~~~ 123 (239)
T PRK10430 106 KPFQASRFEEALTGWRQK 123 (239)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 999999999999876543
No 14
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=99.61 E-value=1.1e-14 Score=125.36 Aligned_cols=97 Identities=31% Similarity=0.537 Sum_probs=90.0
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC---CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE---MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
||.|..+.++.+|+..+.+.. ||+||+|+.||++||+++|+.++.. ..+|||++++.++.....+|++.|+.||+
T Consensus 156 g~~v~~a~~~~~Al~~~~e~~--~dlil~d~~mp~~dg~el~~~lr~~~~t~~ipii~~~~~~d~~~~~~Af~~G~~Dyi 233 (435)
T COG3706 156 GFRVVEATDGEEALLQLAELP--PDLVLLDANMPDMDGLELCTRLRQLERTRDIPIILLSSKDDDELVVRAFELGVNDYI 233 (435)
T ss_pred cceeeeecCHHHHHHHHhcCC--CcEEEEecCCCccCHHHHHHHHhcccccccccEEEEecccchHHHHHHHHcCCcceE
Confidence 799999999999999999876 9999999999999999999999743 46899999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHHHhh
Q 027234 79 TKPVRIEELKNIWQHVVRKRKN 100 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~~~~ 100 (226)
.||+...+|...+.+.++..+.
T Consensus 234 ~kPi~~~~l~~Rl~~~l~~~~~ 255 (435)
T COG3706 234 TKPIEEGELRARLRRQLRRKRY 255 (435)
T ss_pred ecCCCHHHHHHHHHHHHHhhhH
Confidence 9999999999999988877664
No 15
>PRK10840 transcriptional regulator RcsB; Provisional
Probab=99.60 E-value=1.4e-14 Score=115.34 Aligned_cols=93 Identities=16% Similarity=0.251 Sum_probs=84.0
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccCCCC---CCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVHMPD---MDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~---~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|..+.++.++++.+.... ||+||+|+.||+ ++|+++++.++ ..+.+|||++|...+......+++.||++|+.|
T Consensus 32 v~~~~~~~~~~~~~~~~~--~DlvllD~~l~~~~~~~g~~~~~~l~~~~~~~~iIvls~~~~~~~~~~a~~~Ga~~yl~K 109 (216)
T PRK10840 32 VGEFEDSTALINNLPKLD--AHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSIIVLTMNNNPAILSAVLDLDIEGIVLK 109 (216)
T ss_pred EEEECCHHHHHHHHHhCC--CCEEEEeCcCCCCCCCCHHHHHHHHHHHCCCCcEEEEEecCCHHHHHHHHHCCCeEEEEC
Confidence 667899999999998766 999999999999 59999999997 457899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHh
Q 027234 81 PVRIEELKNIWQHVVRKRK 99 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~~ 99 (226)
|.+.++|..+++.+..+..
T Consensus 110 ~~~~~~l~~ai~~v~~g~~ 128 (216)
T PRK10840 110 QGAPTDLPKALAALQKGKK 128 (216)
T ss_pred CCCHHHHHHHHHHHHCCCe
Confidence 9999999999998876543
No 16
>PLN03029 type-a response regulator protein; Provisional
Probab=99.58 E-value=6.6e-14 Score=112.24 Aligned_cols=98 Identities=22% Similarity=0.500 Sum_probs=85.1
Q ss_pred CCcEEEEECCHHHHHHHHHhCC------------------CCceEEEEccCCCCCCHHHHHHHHhcC---CCCcEEEEec
Q 027234 1 MGFSVTKCNRAEIALDMLRTNK------------------NGYDIVISDVHMPDMDGFKLLELVGLE---MDLPVIMMCA 59 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~------------------~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~~pvI~ls~ 59 (226)
.||+|.++.++.+|++.+.... ..+|+||+|+.||+++|+++++.++.. ..+|+|++|+
T Consensus 31 ~g~~v~~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~~mp~~~G~e~l~~ir~~~~~~~ipvIils~ 110 (222)
T PLN03029 31 SSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSS 110 (222)
T ss_pred cCceEEEECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcCCCCCCCHHHHHHHHHhccccCCCcEEEEeC
Confidence 4899999999999999986532 126799999999999999999999743 4789999999
Q ss_pred cCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHH
Q 027234 60 HGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 60 ~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~~~ 98 (226)
........+++..|+++||.||++..+|...+.+++..+
T Consensus 111 ~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~~~ 149 (222)
T PLN03029 111 ENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTK 149 (222)
T ss_pred CCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999988877765543
No 17
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=99.58 E-value=3.8e-15 Score=119.81 Aligned_cols=91 Identities=32% Similarity=0.540 Sum_probs=81.8
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|..+..|+...+|++.+.... ||||++|+.||+|+|++|+++++ ..+.+|||++|++. ++...++.+.++|||+|
T Consensus 24 ~~~~~~~~~~~eal~~Le~~k--pDLifldI~mp~~ngiefaeQvr~i~~~v~iifIssh~--eya~dsf~~n~~dYl~K 99 (361)
T COG3947 24 GHEVRSCSHPVEALDLLEVFK--PDLIFLDIVMPYMNGIEFAEQVRDIESAVPIIFISSHA--EYADDSFGMNLDDYLPK 99 (361)
T ss_pred cchhhccCCHHHHHHHHHhcC--CCEEEEEeecCCccHHHHHHHHHHhhccCcEEEEecch--hhhhhhcccchHhhccC
Confidence 456788999999999999987 99999999999999999999997 45789999999975 56777888899999999
Q ss_pred CCCHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVR 96 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~ 96 (226)
|++++.|..++.++.+
T Consensus 100 Pvt~ekLnraIdr~~k 115 (361)
T COG3947 100 PVTPEKLNRAIDRRLK 115 (361)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 9999999999988763
No 18
>PRK09958 DNA-binding transcriptional activator EvgA; Provisional
Probab=99.58 E-value=1e-13 Score=108.76 Aligned_cols=94 Identities=18% Similarity=0.243 Sum_probs=85.2
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
||.+. .+.++.++++.+.... ||+|++|+.||+++|+++++.++. .+..|+|++++..+......++..|+++|+.
T Consensus 24 ~~~v~~~~~~~~~~~~~~~~~~--~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~ga~~~i~ 101 (204)
T PRK09958 24 DIEILAELTEGGSAVQRVETLK--PDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVS 101 (204)
T ss_pred CCEEEEEeCCHHHHHHHHHccC--CCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEEeCCCCHHHHHHHHHCCCCEEEe
Confidence 67776 6899999999998765 999999999999999999999974 5678999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++.+.++
T Consensus 102 kp~~~~~l~~~i~~~~~~ 119 (204)
T PRK09958 102 KKEGMNNIIAAIEAAKNG 119 (204)
T ss_pred cCCCHHHHHHHHHHHHcC
Confidence 999999999999988754
No 19
>PRK11173 two-component response regulator; Provisional
Probab=99.58 E-value=4.4e-14 Score=113.74 Aligned_cols=96 Identities=20% Similarity=0.369 Sum_probs=88.3
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.||.|..+.++.++++.+.... ||+||+|+.||+++|+++++.++..+.+|+|++|+..+......++..||++|+.|
T Consensus 26 ~g~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~lr~~~~~pii~lt~~~~~~~~~~~~~~ga~d~l~k 103 (237)
T PRK11173 26 EGYDVFEATDGAEMHQILSEND--INLVIMDINLPGKNGLLLARELREQANVALMFLTGRDNEVDKILGLEIGADDYITK 103 (237)
T ss_pred cCCEEEEECCHHHHHHHHhhCC--CCEEEEcCCCCCCCHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEEEC
Confidence 3789999999999999998765 99999999999999999999998667899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~ 98 (226)
|++..+|...++.+++..
T Consensus 104 P~~~~eL~~~i~~~l~r~ 121 (237)
T PRK11173 104 PFNPRELTIRARNLLSRT 121 (237)
T ss_pred CCCHHHHHHHHHHHHhcc
Confidence 999999999999887653
No 20
>COG0784 CheY FOG: CheY-like receiver [Signal transduction mechanisms]
Probab=99.57 E-value=6.2e-14 Score=102.27 Aligned_cols=93 Identities=32% Similarity=0.576 Sum_probs=80.0
Q ss_pred CCcEEEEECCHH-HHHHHHHhC-CCCceEEEEccCCCCCCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 1 MGFSVTKCNRAE-IALDMLRTN-KNGYDIVISDVHMPDMDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 1 lg~~V~~~~~~~-eal~~l~~~-~~~~DlVl~D~~mp~~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+||.|..+.++. +|++.++.. . ||+|++|+.||++||+++++.++.. ..+|+|++|+.........++..|+++|
T Consensus 28 ~g~~v~~a~~g~~~al~~~~~~~~--~dlii~D~~mp~~~G~~~~~~l~~~~~~~pvv~~t~~~~~~~~~~~~~~g~~~~ 105 (130)
T COG0784 28 LGYEVVEAADGEEEALELLRELPQ--PDLILLDINMPGMDGIELLRRLRARGPNIPVILLTAYADEADRERALAAGADDY 105 (130)
T ss_pred cCCeEEEeCChHHHHHHHHHhCCC--CCEEEEeCCCCCCCHHHHHHHHHhCCCCCCEEEEEcCcCHHHHHHHHHcCCCeE
Confidence 368899999995 999999975 4 9999999999999999999999855 6788888999988887777899999999
Q ss_pred EeCCCCHHH-HHHHHHHHH
Q 027234 78 LTKPVRIEE-LKNIWQHVV 95 (226)
Q Consensus 78 l~KP~~~~~-L~~~l~~~~ 95 (226)
+.||+...+ |...+.+.+
T Consensus 106 l~kP~~~~~~l~~~i~~~~ 124 (130)
T COG0784 106 LTKPIFLEEELLAALRRLL 124 (130)
T ss_pred EcCCCCcHHHHHHHHHHHH
Confidence 999977766 677776544
No 21
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.57 E-value=8.9e-15 Score=136.00 Aligned_cols=94 Identities=28% Similarity=0.528 Sum_probs=85.9
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC--CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE--MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~--~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+|.+|+++.+|.||++.+... +.||+||+|++||.|||++..++|+.. ..+|||.+|+....+...+|++.|.++||
T Consensus 689 ~g~~~~~~~sg~e~l~~~~~~-~~y~~ifmD~qMP~mDG~e~~~~irk~~~~~~pIvAlTa~~~~~~~~~c~~~Gmd~yl 767 (786)
T KOG0519|consen 689 LGAEVTEVNSGQEALDKLKPP-HSYDVIFMDLQMPEMDGYEATREIRKKERWHLPIVALTADADPSTEEECLEVGMDGYL 767 (786)
T ss_pred hCCeeEeecCcHHHHHhcCCC-CcccEEEEEcCCcccchHHHHHHHHHhhcCCCCEEEEecCCcHHHHHHHHHhCCceEE
Confidence 588999999999999999822 459999999999999999999999743 58999999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQHVV 95 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~ 95 (226)
.|||+.+.|...+.+++
T Consensus 768 ~KP~~~~~l~~~l~~~~ 784 (786)
T KOG0519|consen 768 SKPFTLEKLVKILREFL 784 (786)
T ss_pred cccccHHHHHHHHHHHh
Confidence 99999999999988775
No 22
>PRK10529 DNA-binding transcriptional activator KdpE; Provisional
Probab=99.56 E-value=7.1e-14 Score=111.35 Aligned_cols=95 Identities=27% Similarity=0.403 Sum_probs=87.3
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.||.+..+.++.+++..+.... ||+||+|+.||+++|+++++.++..+.+|+|++|+..+.+....++..|+++|+.|
T Consensus 24 ~g~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~lr~~~~~pvi~lt~~~~~~~~~~~~~~ga~~~l~k 101 (225)
T PRK10529 24 DGMRVFEAETLQRGLLEAATRK--PDLIILDLGLPDGDGIEFIRDLRQWSAIPVIVLSARSEESDKIAALDAGADDYLSK 101 (225)
T ss_pred CCCEEEEeCCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHcCCCCCEEEEECCCCHHHHHHHHHcCCCEEEeC
Confidence 3788999999999999887755 99999999999999999999998777899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++.++|...++.+++.
T Consensus 102 P~~~~~l~~~i~~~~~~ 118 (225)
T PRK10529 102 PFGIGELQARLRVALRR 118 (225)
T ss_pred CCCHHHHHHHHHHHHhh
Confidence 99999999999887764
No 23
>PRK10766 DNA-binding transcriptional regulator TorR; Provisional
Probab=99.56 E-value=9.1e-14 Score=110.41 Aligned_cols=95 Identities=19% Similarity=0.385 Sum_probs=87.9
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.||.|..+.++.++++.+.... ||+|++|..||+++|+++++.++..+.+|+|++++..+......++..||++|+.|
T Consensus 25 ~~~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~lr~~~~~~ii~l~~~~~~~~~~~~l~~Ga~d~l~k 102 (221)
T PRK10766 25 EGYTVSEAASGAGMREIMQNQH--VDLILLDINLPGEDGLMLTRELRSRSTVGIILVTGRTDSIDRIVGLEMGADDYVTK 102 (221)
T ss_pred cCCEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhCCCCCEEEEECCCcHHHHHHHHHcCCCcEEeC
Confidence 3789999999999999988765 99999999999999999999998667899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++..+|...+..+++.
T Consensus 103 P~~~~~L~~~i~~~~~r 119 (221)
T PRK10766 103 PLELRELLVRVKNLLWR 119 (221)
T ss_pred CCCHHHHHHHHHHHHhh
Confidence 99999999999988765
No 24
>PRK09483 response regulator; Provisional
Probab=99.55 E-value=1.3e-13 Score=109.16 Aligned_cols=96 Identities=25% Similarity=0.371 Sum_probs=86.3
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
|+.+. .+.++.+++..+.... ||+||+|+.+|+++|+++++.++ ..+.+|+|++|...+......++..|+++|+.
T Consensus 26 ~~~~v~~~~~~~~~~~~~~~~~--~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~ 103 (217)
T PRK09483 26 GIKVVGEACCGEDAVKWCRTNA--VDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLS 103 (217)
T ss_pred CCEEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHHHCCCCeEEEEeCCCCHHHHHHHHHcCCCEEEe
Confidence 56665 7899999999998866 99999999999999999999986 46789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHh
Q 027234 80 KPVRIEELKNIWQHVVRKRK 99 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~ 99 (226)
||++.++|...++.+..+..
T Consensus 104 k~~~~~~l~~~i~~~~~g~~ 123 (217)
T PRK09483 104 KGAAPQEVVSAIRSVHSGQR 123 (217)
T ss_pred CCCCHHHHHHHHHHHHCCCc
Confidence 99999999999999876543
No 25
>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional
Probab=99.55 E-value=1.1e-13 Score=110.26 Aligned_cols=95 Identities=31% Similarity=0.435 Sum_probs=87.4
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.+|+..+.... ||+|++|+.||+++|+++++.++. .+.+|+|++|+..+.+....++..||++|+.
T Consensus 23 ~g~~v~~~~~~~~~l~~~~~~~--~dlvild~~l~~~~g~~l~~~lr~~~~~~pii~ls~~~~~~~~~~~l~~Ga~d~l~ 100 (223)
T PRK10816 23 AGHQVDAAEDAKEADYYLNEHL--PDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVT 100 (223)
T ss_pred CCCEEEEECCHHHHHHHHhhCC--CCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEEEcCCCHHHHHHHHHcCCCeeEe
Confidence 3789999999999999998766 999999999999999999999974 5789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++..+|...+..++++
T Consensus 101 kp~~~~eL~~~i~~~~~~ 118 (223)
T PRK10816 101 KPFHIEEVMARMQALMRR 118 (223)
T ss_pred CCCCHHHHHHHHHHHHhc
Confidence 999999999999988764
No 26
>PRK09836 DNA-binding transcriptional activator CusR; Provisional
Probab=99.53 E-value=2e-13 Score=109.04 Aligned_cols=95 Identities=27% Similarity=0.548 Sum_probs=86.7
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.++++.+.... ||+||+|+.||+++|+++++.++. .+.+|+|++|+..+.+....++..||++|+.
T Consensus 23 ~g~~v~~~~~~~~~~~~~~~~~--~dlvild~~~~~~~g~~~~~~lr~~~~~~pii~ls~~~~~~~~~~~~~~Ga~~~l~ 100 (227)
T PRK09836 23 AGFVVDLADNGLNGYHLAMTGD--YDLIILDIMLPDVNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLV 100 (227)
T ss_pred CCCEEEEECCHHHHHHHHhhCC--CCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEEEcCCCHHHHHHHHhCCCCEEEe
Confidence 3788999999999999887765 999999999999999999999974 4789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++.+++.
T Consensus 101 kp~~~~~l~~~i~~~~~~ 118 (227)
T PRK09836 101 KPFAFAELLARVRTLLRR 118 (227)
T ss_pred CCCCHHHHHHHHHHHHhc
Confidence 999999999999887653
No 27
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=99.53 E-value=1.3e-13 Score=130.93 Aligned_cols=96 Identities=30% Similarity=0.490 Sum_probs=88.6
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+||.|..+.++.+|++.+.... ||+||+|+.||+|+|+++++.+++ .+.+|||++|+....+...++++.|+++||.
T Consensus 824 ~G~~v~~a~~g~eal~~l~~~~--~DlVl~D~~mP~mdG~el~~~ir~~~~~~pII~lTa~~~~~~~~~~~~aG~d~~L~ 901 (924)
T PRK10841 824 LGYQCKTANDGVDALNVLSKNH--IDIVLTDVNMPNMDGYRLTQRLRQLGLTLPVIGVTANALAEEKQRCLEAGMDSCLS 901 (924)
T ss_pred cCCEEEEECCHHHHHHHHHhCC--CCEEEEcCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEEe
Confidence 5899999999999999998866 999999999999999999999984 5679999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~ 98 (226)
||++.++|...+.++....
T Consensus 902 KPv~~~~L~~~L~~~~~~~ 920 (924)
T PRK10841 902 KPVTLDVLKQTLTVYAERV 920 (924)
T ss_pred CCCCHHHHHHHHHHHHHHh
Confidence 9999999999999876543
No 28
>PRK10643 DNA-binding transcriptional regulator BasR; Provisional
Probab=99.52 E-value=3.1e-13 Score=107.02 Aligned_cols=96 Identities=30% Similarity=0.517 Sum_probs=87.1
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.++++.+.... ||+|++|+.||+++|+++++.++ ..+.+|+|++|+..+......++..|+++|+.
T Consensus 23 ~~~~v~~~~~~~~~~~~~~~~~--~d~illd~~~~~~~g~~~~~~l~~~~~~~pii~ls~~~~~~~~~~~~~~ga~~~l~ 100 (222)
T PRK10643 23 EGYACDCASTAREAEALLESGH--YSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLV 100 (222)
T ss_pred CCCEEEEeCCHHHHHHHHHhCC--CCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHhcCCCeEEe
Confidence 3788889999999999988765 99999999999999999999997 44779999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~ 98 (226)
||++.++|...++.+++..
T Consensus 101 kp~~~~~l~~~i~~~~~~~ 119 (222)
T PRK10643 101 KPFALEELHARIRALIRRH 119 (222)
T ss_pred CCCCHHHHHHHHHHHHhhh
Confidence 9999999999998877643
No 29
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=99.52 E-value=8.1e-13 Score=102.93 Aligned_cols=92 Identities=25% Similarity=0.383 Sum_probs=82.7
Q ss_pred CcE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|+. +..+.++.+++..+.... ||+||+|+.||+++|+++++.++ +.+|+|++|...+.+....++..|+++|+.|
T Consensus 26 ~~~~~~~~~~~~~~l~~~~~~~--~dlvi~d~~~~~~~g~~~~~~l~--~~~~vi~~s~~~~~~~~~~~~~~ga~~~i~k 101 (196)
T PRK10360 26 DLQVVAEFGSGREALAGLPGRG--VQVCICDISMPDISGLELLSQLP--KGMATIMLSVHDSPALVEQALNAGARGFLSK 101 (196)
T ss_pred CcEEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHc--cCCCEEEEECCCCHHHHHHHHHcCCcEEEEC
Confidence 344 568899999999998765 99999999999999999999886 3689999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++.++|..+++.+.++
T Consensus 102 p~~~~~l~~~i~~~~~~ 118 (196)
T PRK10360 102 RCSPDELIAAVHTVATG 118 (196)
T ss_pred CCCHHHHHHHHHHHHcC
Confidence 99999999999988764
No 30
>PRK10701 DNA-binding transcriptional regulator RstA; Provisional
Probab=99.52 E-value=2.9e-13 Score=109.07 Aligned_cols=95 Identities=20% Similarity=0.295 Sum_probs=86.8
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.||.|..+.++.++++.+.... ||+||+|+.||+++|+++++.++.....|+|++++..+......++..|+++|+.|
T Consensus 24 ~g~~v~~~~~~~~~l~~~~~~~--~dlvild~~l~~~~g~~~~~~ir~~~~~pii~l~~~~~~~~~~~~~~~Ga~d~l~k 101 (240)
T PRK10701 24 HDIDVTVEPRGDRAEATILREQ--PDLVLLDIMLPGKDGMTICRDLRPKWQGPIVLLTSLDSDMNHILALEMGACDYILK 101 (240)
T ss_pred cCCEEEEeCCHHHHHHHHhhCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEECCCCHHHHHHHHHcCCCEEEEC
Confidence 3788999999999999998766 99999999999999999999998666789999999888888889999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++..+|...+..+++.
T Consensus 102 P~~~~~l~~~i~~~l~~ 118 (240)
T PRK10701 102 TTPPAVLLARLRLHLRQ 118 (240)
T ss_pred CCCHHHHHHHHHHHHhc
Confidence 99999999999887765
No 31
>PRK13856 two-component response regulator VirG; Provisional
Probab=99.51 E-value=3.1e-13 Score=109.22 Aligned_cols=95 Identities=19% Similarity=0.349 Sum_probs=85.0
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEecc-CCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAH-GSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~-~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.++++.+.... ||+||+|+.||+++|+++++.++....+|+|++|+. .+......++..||++|+.
T Consensus 24 ~~~~v~~~~~~~~~~~~~~~~~--~dlvi~d~~l~~~~g~~l~~~i~~~~~~pii~lt~~~~~~~~~~~~l~~Ga~~yl~ 101 (241)
T PRK13856 24 HAFKVTAVADSQQFNRVLASET--VDVVVVDLNLGREDGLEIVRSLATKSDVPIIIISGDRLEEADKVVALELGATDFIA 101 (241)
T ss_pred cCCEEEEECCHHHHHHHHhhCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCcEEEEECCCCcHHHHHHHHhcCcCeEEe
Confidence 3788999999999999988766 999999999999999999999986678999999985 4667778999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++.+++.
T Consensus 102 kP~~~~eL~~~i~~~l~~ 119 (241)
T PRK13856 102 KPFGTREFLARIRVALRV 119 (241)
T ss_pred CCCCHHHHHHHHHHHHhh
Confidence 999999999999887764
No 32
>PRK10161 transcriptional regulator PhoB; Provisional
Probab=99.50 E-value=4.8e-13 Score=106.91 Aligned_cols=94 Identities=29% Similarity=0.495 Sum_probs=86.1
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC---CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE---MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
||++..+.++.++++.+.... ||+||+|+.||+++|+++++.++.. +.+|+|++|+..+......++..||++|+
T Consensus 26 g~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~l~~~~~~~~~pvi~ls~~~~~~~~~~~~~~Ga~~~l 103 (229)
T PRK10161 26 GFQPVEAEDYDSAVNQLNEPW--PDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYI 103 (229)
T ss_pred CCEEEEECCHHHHHHHHhccC--CCEEEEeCCCCCCCHHHHHHHHHhccccCCCCEEEEECCCCHHHHHHHHHcCCCEEE
Confidence 788999999999999988765 9999999999999999999999743 57899999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~ 97 (226)
.||++.++|...++.++++
T Consensus 104 ~kp~~~~~L~~~i~~~~~~ 122 (229)
T PRK10161 104 TKPFSPKELVARIKAVMRR 122 (229)
T ss_pred ECCCCHHHHHHHHHHHHhc
Confidence 9999999999999988764
No 33
>PRK09468 ompR osmolarity response regulator; Provisional
Probab=99.50 E-value=4.6e-13 Score=107.77 Aligned_cols=95 Identities=27% Similarity=0.449 Sum_probs=87.1
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.++++.+.... ||+||+|+.||+++|+++++.++. .+.+|+|++++..+......++..|+++|+.
T Consensus 28 ~g~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~lr~~~~~~pii~ls~~~~~~~~~~~l~~Ga~~~l~ 105 (239)
T PRK09468 28 QGFQVRSAANAEQMDRLLTRES--FHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGADDYLP 105 (239)
T ss_pred CCCEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCcHHHHHHHHhcCCCeEEE
Confidence 3789999999999999988765 999999999999999999999974 4689999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...+..++++
T Consensus 106 kP~~~~~L~~~i~~~~~r 123 (239)
T PRK09468 106 KPFNPRELLARIRAVLRR 123 (239)
T ss_pred CCCCHHHHHHHHHHHhcc
Confidence 999999999999988754
No 34
>PRK11517 transcriptional regulatory protein YedW; Provisional
Probab=99.50 E-value=5.4e-13 Score=105.91 Aligned_cols=95 Identities=26% Similarity=0.489 Sum_probs=86.9
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.||.|..+.++.+++..+.... ||+|++|+.||+++|+++++.++....+|+|++++..+.+....++..||++|+.|
T Consensus 23 ~~~~v~~~~~~~~~l~~~~~~~--~dlvi~d~~~~~~~g~~~~~~l~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~k 100 (223)
T PRK11517 23 AGYVIDAVSDGRDGLYLALKDD--YALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDSVDDRVRGLDSGANDYLVK 100 (223)
T ss_pred CCCEEEEECCHHHHHHHHhcCC--CCEEEEECCCCCCCHHHHHHHHHcCCCCCEEEEECCCCHHHHHHHHhcCCCEEEEC
Confidence 3788889999999999988765 99999999999999999999998667899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++.++|...++.++++
T Consensus 101 p~~~~~l~~~i~~~~~~ 117 (223)
T PRK11517 101 PFSFSELLARVRAQLRQ 117 (223)
T ss_pred CCCHHHHHHHHHHHHcc
Confidence 99999999999887653
No 35
>PRK10336 DNA-binding transcriptional regulator QseB; Provisional
Probab=99.49 E-value=5.6e-13 Score=105.42 Aligned_cols=94 Identities=29% Similarity=0.440 Sum_probs=85.9
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
||.+..+.++.+++..+.... ||+||+|+.||+++|+++++.++. .+.+|+|++|...+.+....++..||++|+.|
T Consensus 24 ~~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~i~~~~~~~~ii~lt~~~~~~~~~~~~~~ga~~~i~k 101 (219)
T PRK10336 24 GFSVDWFTQGRQGKEALYSAP--YDAVILDLTLPGMDGRDILREWREKGQREPVLILTARDALAERVEGLRLGADDYLCK 101 (219)
T ss_pred CCEEEEeCCHHHHHHHHhhCC--CCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHhCCCCeEEEC
Confidence 788889999999999888755 999999999999999999999974 57899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++.++|...++.+++.
T Consensus 102 p~~~~~l~~~i~~~~~~ 118 (219)
T PRK10336 102 PFALIEVAARLEALMRR 118 (219)
T ss_pred CCCHHHHHHHHHHHHhc
Confidence 99999999999887654
No 36
>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional
Probab=99.49 E-value=6.2e-13 Score=106.19 Aligned_cols=95 Identities=34% Similarity=0.505 Sum_probs=85.1
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.||.|..+.++.++++.+. .. ||+||+|+.||+++|+++++.++....+|+|++|+..+......+++.|+++|+.|
T Consensus 24 ~~~~v~~~~~~~~~~~~~~-~~--~d~vl~d~~~~~~~g~~~~~~l~~~~~~~ii~lt~~~~~~~~~~~~~~ga~~~l~k 100 (232)
T PRK10955 24 EGFNVIVAHDGEQALDLLD-DS--IDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLTARGSELDRVLGLELGADDYLPK 100 (232)
T ss_pred CCCEEEEeCCHHHHHHHhh-cC--CCEEEEeCCCCCCcHHHHHHHHHhcCCCcEEEEECCCCHHHHHHHHHcCCCEEEcC
Confidence 3788889999999999886 34 99999999999999999999998554599999999999989999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~ 98 (226)
|++.++|...++.++++.
T Consensus 101 p~~~~~l~~~i~~~~~~~ 118 (232)
T PRK10955 101 PFNDRELVARIRAILRRS 118 (232)
T ss_pred CCCHHHHHHHHHHHHhcc
Confidence 999999999998887653
No 37
>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=99.48 E-value=9.1e-13 Score=105.08 Aligned_cols=95 Identities=26% Similarity=0.388 Sum_probs=86.3
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCC--CCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPD--MDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~--~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
||.|..+.++.+++..+.... ||+|++|+.||+ .+|+++++.++. .+.+|+|++|+..+......++..||++|+
T Consensus 24 ~~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~~~g~~~~~~i~~~~~~~pii~ls~~~~~~~~~~~~~~Ga~~~l 101 (227)
T TIGR03787 24 GYQVTTYADRPSAMQAFRQRL--PDLAIIDIGLGEEIDGGFMLCQDLRSLSATLPIIFLTARDSDFDTVSGLRLGADDYL 101 (227)
T ss_pred CcEEEEecCHHHHHHHHHhCC--CCEEEEECCCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 788888999999999998766 999999999998 589999999974 467999999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~~ 98 (226)
.||++.++|...++.++++.
T Consensus 102 ~kp~~~~~l~~~i~~~~~~~ 121 (227)
T TIGR03787 102 TKDISLPHLLARITALFRRA 121 (227)
T ss_pred ECCCCHHHHHHHHHHHHHhh
Confidence 99999999999999887654
No 38
>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=99.48 E-value=7.1e-13 Score=105.15 Aligned_cols=94 Identities=28% Similarity=0.502 Sum_probs=85.8
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC---CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE---MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
|+.|..+.++.+++..+.... ||+|++|+.||+++|+++++.++.. +.+|+|++|+..+......++..|+++|+
T Consensus 26 ~~~v~~~~~~~~~~~~~~~~~--~d~vi~d~~~~~~~g~~~~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l 103 (226)
T TIGR02154 26 GYDVVEAGDGDEALTLINERG--PDLILLDWMLPGTSGIELCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYI 103 (226)
T ss_pred CCEEEEEcCHHHHHHHHHhcC--CCEEEEECCCCCCcHHHHHHHHHccccCCCCCEEEEecCCCHHHHHHHHhcCcceEE
Confidence 688888999999999998765 9999999999999999999999743 57899999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~ 97 (226)
.||++.++|...+..++++
T Consensus 104 ~kp~~~~~l~~~i~~~~~~ 122 (226)
T TIGR02154 104 TKPFSPRELLARIKAVLRR 122 (226)
T ss_pred eCCCCHHHHHHHHHHHhcc
Confidence 9999999999999888754
No 39
>CHL00148 orf27 Ycf27; Reviewed
Probab=99.48 E-value=8.3e-13 Score=106.01 Aligned_cols=95 Identities=34% Similarity=0.574 Sum_probs=86.8
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKP 81 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP 81 (226)
||.|..+.++.+++..+.... ||+|++|+.||+++|+++++.++..+.+|+|++|+..+......++..||++|+.||
T Consensus 30 ~~~v~~~~~~~~~l~~~~~~~--~d~illd~~~~~~~g~~~~~~l~~~~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp 107 (240)
T CHL00148 30 GYEVITASDGEEALKLFRKEQ--PDLVILDVMMPKLDGYGVCQEIRKESDVPIIMLTALGDVSDRITGLELGADDYVVKP 107 (240)
T ss_pred CCEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCcEEEEECCCCHHhHHHHHHCCCCEEEeCC
Confidence 688888999999999888765 999999999999999999999986678999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHH
Q 027234 82 VRIEELKNIWQHVVRKR 98 (226)
Q Consensus 82 ~~~~~L~~~l~~~~~~~ 98 (226)
++.++|...+..+++..
T Consensus 108 ~~~~~L~~~i~~~~~~~ 124 (240)
T CHL00148 108 FSPKELEARIRSVLRRT 124 (240)
T ss_pred CCHHHHHHHHHHHHhhc
Confidence 99999999998887543
No 40
>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=99.48 E-value=7.8e-13 Score=104.44 Aligned_cols=94 Identities=30% Similarity=0.530 Sum_probs=86.5
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
||.+..+.++.++++.+.... ||+|++|+.||+++|+++++.++ ..+.+|+|++|+..+......++..|+++|+.|
T Consensus 22 ~~~v~~~~~~~~~~~~~~~~~--~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~iivls~~~~~~~~~~~~~~Ga~~~l~k 99 (218)
T TIGR01387 22 GYVVDAASNGRDGLHLALKDD--YDLIILDVMLPGMDGWQILQTLRRSGKQTPVLFLTARDSVADKVKGLDLGADDYLVK 99 (218)
T ss_pred CCEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHccCCCCcEEEEEcCCCHHHHHHHHHcCCCeEEEC
Confidence 688889999999999998766 99999999999999999999997 457899999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++.++|...++.++++
T Consensus 100 p~~~~~l~~~i~~~~~~ 116 (218)
T TIGR01387 100 PFSFSELLARVRTLLRR 116 (218)
T ss_pred CCCHHHHHHHHHHHhcc
Confidence 99999999999887754
No 41
>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=99.48 E-value=6.1e-13 Score=117.09 Aligned_cols=94 Identities=21% Similarity=0.380 Sum_probs=86.4
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCC-----CCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCc
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPD-----MDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDA 74 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-----~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga 74 (226)
.||.|..+.++.+|++.+.... ||+||+|+.||+ ++|+++++.++ ..+.+|||++|+..+.+...++++.||
T Consensus 19 ~~~~v~~a~~~~~al~~l~~~~--~dlvllD~~mp~~~~~~~~g~~~l~~i~~~~~~~piI~lt~~~~~~~~~~a~~~Ga 96 (445)
T TIGR02915 19 ADYELAVAADRESAIALVRRHE--PAVVTLDLGLPPDADGASEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGA 96 (445)
T ss_pred CCCeEEEeCCHHHHHHHHhhCC--CCEEEEeCCCCCCcCCCCCHHHHHHHHHhhCCCCCEEEEecCCCHHHHHHHHHCCc
Confidence 3789999999999999998866 999999999996 89999999987 567899999999999999999999999
Q ss_pred ceEEeCCCCHHHHHHHHHHHHH
Q 027234 75 CDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 75 ~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
++||.||++.++|..++++++.
T Consensus 97 ~dyl~KP~~~~~L~~~i~~~~~ 118 (445)
T TIGR02915 97 YDFYQKPIDPDVLKLIVDRAFH 118 (445)
T ss_pred cEEEeCCCCHHHHHHHHhhhhh
Confidence 9999999999999999887765
No 42
>PRK10693 response regulator of RpoS; Provisional
Probab=99.47 E-value=6.8e-13 Score=111.21 Aligned_cols=88 Identities=24% Similarity=0.365 Sum_probs=79.4
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC-CH
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV-RI 84 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~-~~ 84 (226)
.+.++.+|++.+.... ||+||+|+.||+++|+++++.++ ..+.+|+|++|+..+.+...++++.|+++|+.||+ +.
T Consensus 2 ~a~~g~~al~~l~~~~--pDlVL~D~~mp~~~Gle~~~~ir~~~~~ipiI~lt~~~~~~~~~~al~~Ga~dyl~KP~~~~ 79 (303)
T PRK10693 2 LAANGVDALELLGGFT--PDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKDL 79 (303)
T ss_pred EeCCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHHCCCcEEEECCCCcH
Confidence 4789999999998865 99999999999999999999997 44679999999999999999999999999999999 58
Q ss_pred HHHHHHHHHHHH
Q 027234 85 EELKNIWQHVVR 96 (226)
Q Consensus 85 ~~L~~~l~~~~~ 96 (226)
++|...+.+.++
T Consensus 80 ~~L~~~i~~~l~ 91 (303)
T PRK10693 80 NRLREMVFACLY 91 (303)
T ss_pred HHHHHHHHHHhh
Confidence 999888877654
No 43
>PRK09935 transcriptional regulator FimZ; Provisional
Probab=99.47 E-value=2.9e-12 Score=100.58 Aligned_cols=94 Identities=19% Similarity=0.369 Sum_probs=83.9
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
++.+. .+.++.++++.+.... ||+|++|+.||+++|+++++.++. .+.+|+|++|+..+......++..|+++|+.
T Consensus 28 ~~~~~~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~ 105 (210)
T PRK09935 28 ELQIVLKTDDYRITIDYLRTRP--VDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVS 105 (210)
T ss_pred CceEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHHhCCCCcEEEEECCCcHHHHHHHHHcCCCEEEe
Confidence 46664 6889999999988755 999999999999999999999974 5679999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++.++.+
T Consensus 106 kp~~~~~l~~~i~~~l~~ 123 (210)
T PRK09935 106 KCNDQNDIFHAVQMILSG 123 (210)
T ss_pred CCCCHHHHHHHHHHHHcC
Confidence 999999999999887764
No 44
>PRK09581 pleD response regulator PleD; Reviewed
Probab=99.46 E-value=3.7e-13 Score=117.92 Aligned_cols=93 Identities=20% Similarity=0.355 Sum_probs=84.1
Q ss_pred cEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc---CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 3 FSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL---EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 3 ~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~---~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+.+..+.++.+|+..+.... ||+||+|+.||+++|+++++.+++ .+.+|+|++|+..+.+...+++..||++||.
T Consensus 179 ~~~~~~~~~~~a~~~~~~~~--~d~vi~d~~~p~~~g~~l~~~i~~~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~d~l~ 256 (457)
T PRK09581 179 FRVVVVSDPSEALFNAAETN--YDLVIVSANFENYDPLRLCSQLRSKERTRYVPILLLVDEDDDPRLVKALELGVNDYLM 256 (457)
T ss_pred ceeeeecChHHHHHhcccCC--CCEEEecCCCCCchHhHHHHHHHhccccCCCcEEEEeCCCChHHHHHHHHccchhhhh
Confidence 45667899999999988766 999999999999999999999974 2689999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||+++++|...+......
T Consensus 257 kp~~~~~l~~~i~~~~~~ 274 (457)
T PRK09581 257 RPIDKNELLARVRTQIRR 274 (457)
T ss_pred CCCcHHHHHHHHHHHHHH
Confidence 999999999988876654
No 45
>PRK11083 DNA-binding response regulator CreB; Provisional
Probab=99.46 E-value=1.1e-12 Score=104.35 Aligned_cols=95 Identities=34% Similarity=0.492 Sum_probs=86.0
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.+++..+.... ||+|++|+.||+.+|+++++.++. .+.+|+|++|+..+......++..|+++|+.
T Consensus 26 ~~~~v~~~~~~~~~~~~~~~~~--~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~ 103 (228)
T PRK11083 26 EGFTVEWFERGLPALDKLRQQP--PDLVILDVGLPDISGFELCRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVA 103 (228)
T ss_pred CCCEEEEEcCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEEEcCCcHHHHHHHhhcCCCeEEE
Confidence 3788888999999999988765 999999999999999999999974 4789999999999998899999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++.++++
T Consensus 104 kp~~~~~l~~~i~~~~~~ 121 (228)
T PRK11083 104 KPFSPREVAARVRTILRR 121 (228)
T ss_pred CCCCHHHHHHHHHHHHCc
Confidence 999999999999887654
No 46
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=99.46 E-value=5.6e-13 Score=126.70 Aligned_cols=95 Identities=24% Similarity=0.419 Sum_probs=87.3
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc---CCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL---EMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~---~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+||.|..+.++.+|++.+.... ||+||+|+.||+|||+++++.++. .+.+|||++|+....+...+++..|+++|
T Consensus 690 ~~~~v~~~~~~~~al~~~~~~~--~dlil~D~~mp~~~g~~~~~~lr~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~ 767 (919)
T PRK11107 690 QVEHVVLCDSGHQAVEQAKQRP--FDLILMDIQMPGMDGIRACELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDY 767 (919)
T ss_pred cCCEEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCcHHHHHHHHHhcccCCCCCEEEEeCCCCHHHHHHHHHcCCCeE
Confidence 4789999999999999998866 999999999999999999999974 35799999999999999999999999999
Q ss_pred EeCCCCHHHHHHHHHHHHHH
Q 027234 78 LTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 78 l~KP~~~~~L~~~l~~~~~~ 97 (226)
|.||++..+|...+.++...
T Consensus 768 l~KP~~~~~L~~~l~~~~~~ 787 (919)
T PRK11107 768 LAKPIDEAMLKQVLLRYKPG 787 (919)
T ss_pred eeCCCCHHHHHHHHHHHccc
Confidence 99999999999999887643
No 47
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=99.46 E-value=6.9e-13 Score=126.17 Aligned_cols=94 Identities=26% Similarity=0.449 Sum_probs=86.6
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC-----CCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE-----MDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~-----~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
+||+|..+.++.+|++.+.... ||+||+|+.||++||+++++.++.. +.+|||++|+..+.....+++..|++
T Consensus 713 ~g~~v~~a~~~~~al~~~~~~~--~dlil~D~~mp~~~G~~~~~~ir~~~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~ 790 (921)
T PRK15347 713 LGQQVTTAASGTEALELGRQHR--FDLVLMDIRMPGLDGLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMN 790 (921)
T ss_pred cCCEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhchhhcCCCCcEEEEeCCCCHHHHHHHHHCCCC
Confidence 4899999999999999998866 9999999999999999999999742 56899999999999999999999999
Q ss_pred eEEeCCCCHHHHHHHHHHHHH
Q 027234 76 DYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 76 ~yl~KP~~~~~L~~~l~~~~~ 96 (226)
+||.||++.++|...+.++..
T Consensus 791 ~~l~KP~~~~~L~~~l~~~~~ 811 (921)
T PRK15347 791 HYLTKPVTLAQLARALELAAE 811 (921)
T ss_pred EEEECCCCHHHHHHHHHHHHh
Confidence 999999999999999987754
No 48
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=99.46 E-value=8.8e-13 Score=105.16 Aligned_cols=91 Identities=12% Similarity=0.099 Sum_probs=74.6
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHH-HHHh-cCCCCcEEEEeccCCHHHHHHHHh--CCcceEEeC
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLL-ELVG-LEMDLPVIMMCAHGSKEVVMKGVT--HDACDYLTK 80 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~-~~l~-~~~~~pvI~ls~~~~~~~~~~a~~--~ga~~yl~K 80 (226)
+..+.++.++++.+. . ||+||+|+.||+++|++++ +.++ ..+.++||++|+..+. ...++. .||.||+.|
T Consensus 37 ~~~~~~~~~~~~~~~--~--~DvvllDi~~p~~~G~~~~~~~i~~~~p~~~vvvlt~~~~~--~~~~~~~~~Ga~G~l~K 110 (216)
T PRK10100 37 TGKLHNIQRSLDDIS--S--GSIILLDMMEADKKLIHYWQDTLSRKNNNIKILLLNTPEDY--PYREIENWPHINGVFYA 110 (216)
T ss_pred eEEEcCHHHhhccCC--C--CCEEEEECCCCCccHHHHHHHHHHHhCCCCcEEEEECCchh--HHHHHHHhcCCeEEEEC
Confidence 446789999988743 2 8999999999999999997 5566 5678999999998763 344455 599999999
Q ss_pred CCCHHHHHHHHHHHHHHHhhh
Q 027234 81 PVRIEELKNIWQHVVRKRKNE 101 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~~~~ 101 (226)
+.+.++|..+++.+..+....
T Consensus 111 ~~~~~~L~~aI~~v~~G~~~~ 131 (216)
T PRK10100 111 MEDQERVVNGLQGVLRGECYF 131 (216)
T ss_pred CCCHHHHHHHHHHHHcCCccc
Confidence 999999999999998765543
No 49
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=99.45 E-value=7e-13 Score=126.13 Aligned_cols=96 Identities=24% Similarity=0.319 Sum_probs=87.2
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+||.|..+.++.+|++.+... .+||+||+|+.||++||+++++.++ ..+.+|+|++|+.........++..|+++||.
T Consensus 704 ~g~~v~~a~~~~~al~~~~~~-~~~Dlvl~D~~mp~~~G~~~~~~lr~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~ 782 (914)
T PRK11466 704 SGAQVVAVGNAAQALETLQNS-EPFAAALVDFDLPDYDGITLARQLAQQYPSLVLIGFSAHVIDETLRQRTSSLFRGIIP 782 (914)
T ss_pred cCCceEEeCCHHHHHHHHHcC-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEEeCCCchhhHHHHHhcCcCCEEe
Confidence 489999999999999988643 2489999999999999999999997 45789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...+.+++..
T Consensus 783 KP~~~~~L~~~i~~~~~~ 800 (914)
T PRK11466 783 KPVPREVLGQLLAHYLQL 800 (914)
T ss_pred CCCCHHHHHHHHHHHhhh
Confidence 999999999999998754
No 50
>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=99.45 E-value=1.6e-13 Score=85.23 Aligned_cols=55 Identities=62% Similarity=0.957 Sum_probs=51.8
Q ss_pred CCceeeeHhhHHHHHHHHHHhCC-CCCCchHHHHhhCCCCCCHHHHHHHhhhhhhh
Q 027234 151 KPRLVWSVELHQQFVSAVKELGF-DKAGPKKILELMNIPGLTRENVASHLQKHRLY 205 (226)
Q Consensus 151 ~~~~~~~~~l~~~Fi~~~~~~g~-~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~ 205 (226)
++++.||.++|..|+.+++.+|. +.+.|+.|.++|..+++|.++|+||+||||..
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 47789999999999999999998 88999999999999999999999999999864
No 51
>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=99.45 E-value=1.4e-12 Score=106.79 Aligned_cols=93 Identities=26% Similarity=0.422 Sum_probs=82.3
Q ss_pred cEE-EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC-CC--CcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 3 FSV-TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE-MD--LPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 3 ~~V-~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~-~~--~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+.+ ..+.++.++++.+.... ||+||+|+.||++||+++++.++.. .. +|+|++|+.........++..|+++|+
T Consensus 28 ~~~~~~a~~~~eal~~l~~~~--~DlvllD~~mp~~dG~~~l~~i~~~~~~~~~~iI~lt~~~~~~~~~~~~~~G~~~~l 105 (262)
T TIGR02875 28 MEVVGVAHNGVDALELIKEQQ--PDVVVLDIIMPHLDGIGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVALGADYYV 105 (262)
T ss_pred eEEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhhccccCCeEEEEeCCCCHHHHHHHHHCCCCEEE
Confidence 444 47899999999998866 9999999999999999999999743 33 789999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~ 97 (226)
.||++.++|...+.++...
T Consensus 106 ~KP~~~~~L~~~i~~~~~~ 124 (262)
T TIGR02875 106 LKPFDLEILAARIRQLAWG 124 (262)
T ss_pred ECCCCHHHHHHHHHHHHcc
Confidence 9999999999999887643
No 52
>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=99.43 E-value=1.4e-12 Score=124.68 Aligned_cols=95 Identities=25% Similarity=0.386 Sum_probs=87.2
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC-CC---CcEEEEeccCCHHHHHHHHhCCcce
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE-MD---LPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~-~~---~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
+||+|..+.++.+|++.+.... ||+||+|+.||+++|+++++.++.. +. +|||++|+....+...+++..|+++
T Consensus 725 ~g~~v~~~~~~~~a~~~l~~~~--~dlvl~D~~mp~~~g~~~~~~ir~~~~~~~~~pii~lta~~~~~~~~~~~~~G~~~ 802 (968)
T TIGR02956 725 LGHKVTLAESGQSALECFHQHA--FDLALLDINLPDGDGVTLLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDG 802 (968)
T ss_pred cCCEEEEECCHHHHHHHHHCCC--CCEEEECCCCCCCCHHHHHHHHHhCccccCCCeEEEEECCCCHHHHHHHHHCCCCE
Confidence 5899999999999999998865 9999999999999999999999743 33 8999999999999999999999999
Q ss_pred EEeCCCCHHHHHHHHHHHHHH
Q 027234 77 YLTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 77 yl~KP~~~~~L~~~l~~~~~~ 97 (226)
||.||++.++|...+.+++..
T Consensus 803 ~l~KP~~~~~L~~~l~~~~~~ 823 (968)
T TIGR02956 803 FLAKPVVEEQLTAMIAVILAG 823 (968)
T ss_pred EEeCCCCHHHHHHHHHHHhcc
Confidence 999999999999999988753
No 53
>PRK15115 response regulator GlrR; Provisional
Probab=99.43 E-value=1.7e-12 Score=114.23 Aligned_cols=95 Identities=32% Similarity=0.544 Sum_probs=87.2
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.+|++.+.... ||+||+|+.||+++|+++++.++ ..+.+|||++|+..+.....+++..|+.+|+.
T Consensus 28 ~g~~v~~~~~~~eal~~l~~~~--~dlvilD~~lp~~~g~~ll~~l~~~~~~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~ 105 (444)
T PRK15115 28 EGYSVVTAESGQEALRVLNREK--VDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLT 105 (444)
T ss_pred CCCEEEEeCCHHHHHHHHhcCC--CCEEEEcCCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHhcChhhhcc
Confidence 4789999999999999998766 99999999999999999999987 45779999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...+..++..
T Consensus 106 KP~~~~~L~~~l~~~~~~ 123 (444)
T PRK15115 106 KPVDRDALYKAIDDALEQ 123 (444)
T ss_pred CCCCHHHHHHHHHHHHHh
Confidence 999999999999887754
No 54
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=99.42 E-value=3.3e-12 Score=113.18 Aligned_cols=95 Identities=31% Similarity=0.542 Sum_probs=87.4
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.+|+..+.... ||+||+|+.||+++|+++++.++ ..+.+|+|++|+..+.+....+++.|+.+|+.
T Consensus 26 ~g~~v~~~~s~~~al~~l~~~~--~DlvllD~~lp~~dgl~~l~~ir~~~~~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~ 103 (469)
T PRK10923 26 AGLTCTTFENGNEVLEALASKT--PDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLP 103 (469)
T ss_pred cCCEEEEECCHHHHHHHHhcCC--CCEEEECCCCCCCCHHHHHHHHHhhCCCCeEEEEECCCCHHHHHHHHhcCcceEEe
Confidence 4789999999999999998866 99999999999999999999997 45779999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...+.+++..
T Consensus 104 KP~~~~~L~~~i~~~l~~ 121 (469)
T PRK10923 104 KPFDIDEAVALVERAISH 121 (469)
T ss_pred cCCcHHHHHHHHHHHHHH
Confidence 999999999999887654
No 55
>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=99.41 E-value=3.9e-12 Score=112.53 Aligned_cols=95 Identities=29% Similarity=0.512 Sum_probs=86.9
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.+|+..+.... ||+||+|+.||+++|+++++.++ ..+.+|+|++|+..+.....+++..|+++|+.
T Consensus 21 ~g~~v~~~~~~~~al~~~~~~~--~DlVllD~~~p~~~g~~ll~~l~~~~~~~~vIvlt~~~~~~~~~~a~~~Ga~~~l~ 98 (463)
T TIGR01818 21 AGYEVRTFGNAASVLRALARGQ--PDLLITDVRMPGEDGLDLLPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLP 98 (463)
T ss_pred cCCEEEEECCHHHHHHHHhcCC--CCEEEEcCCCCCCCHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHcCcceeec
Confidence 4789999999999999998765 99999999999999999999997 45779999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...+.+++..
T Consensus 99 KP~~~~~L~~~i~~~l~~ 116 (463)
T TIGR01818 99 KPFDLDEAVTLVERALAH 116 (463)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 999999999999887653
No 56
>PRK14084 two-component response regulator; Provisional
Probab=99.41 E-value=4.1e-12 Score=103.02 Aligned_cols=90 Identities=22% Similarity=0.406 Sum_probs=78.0
Q ss_pred EEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 4 SVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 4 ~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
.|..+.++.+++..+.... ||+|++|+.||+++|+++++.++. .+..++|++|+.. +...++++.|+.+||.||+
T Consensus 28 ~v~~~~~~~~~l~~~~~~~--~dlv~lDi~m~~~~G~~~~~~i~~~~~~~~iI~~t~~~--~~~~~~~~~~~~~yl~KP~ 103 (246)
T PRK14084 28 EINEAENVKETLEALLINQ--YDIIFLDINLMDESGIELAAKIQKMKEPPAIIFATAHD--QFAVKAFELNATDYILKPF 103 (246)
T ss_pred EEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEEecCh--HHHHHHHhcCCcEEEECCC
Confidence 4678999999999998765 999999999999999999999974 4556788888765 4567899999999999999
Q ss_pred CHHHHHHHHHHHHHH
Q 027234 83 RIEELKNIWQHVVRK 97 (226)
Q Consensus 83 ~~~~L~~~l~~~~~~ 97 (226)
+.++|..+++++...
T Consensus 104 ~~~~l~~~l~~~~~~ 118 (246)
T PRK14084 104 EQKRIEQAVNKVRAT 118 (246)
T ss_pred CHHHHHHHHHHHHHh
Confidence 999999999988654
No 57
>PRK10403 transcriptional regulator NarP; Provisional
Probab=99.41 E-value=1.4e-11 Score=96.76 Aligned_cols=94 Identities=20% Similarity=0.298 Sum_probs=82.7
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
++.+. .+.++.+++..+.... ||+|++|..||+++|+++++.++. .+..|+++++...+......++..|+++|+.
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~--~dlvi~d~~~~~~~~~~~~~~l~~~~~~~~ii~l~~~~~~~~~~~~~~~g~~~~i~ 108 (215)
T PRK10403 31 GFEVVAEAGDGASAIDLANRLD--PDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLL 108 (215)
T ss_pred CCEEEEEeCCHHHHHHHHHhcC--CCEEEEecCCCCCcHHHHHHHHHHhCCCCeEEEEeCCCChHHHHHHHHcCCCeEEe
Confidence 45654 6889999999887765 999999999999999999999974 4678999999988888899999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++.+..+
T Consensus 109 kp~~~~~l~~~i~~~~~~ 126 (215)
T PRK10403 109 KDSDPEVLLEAIRAGAKG 126 (215)
T ss_pred cCCCHHHHHHHHHHHhCC
Confidence 999999999999887653
No 58
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=99.40 E-value=2.7e-12 Score=113.39 Aligned_cols=94 Identities=33% Similarity=0.533 Sum_probs=86.2
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.|..+.++.+|+..+.... ||+|++|+.||+++|+++++.++ ..+.+|+|++|+..+.+....++..|+.+|+.
T Consensus 27 ~g~~v~~~~~~~~al~~l~~~~--~dlillD~~~p~~~g~~ll~~i~~~~~~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~ 104 (457)
T PRK11361 27 QGFETHCANNGRTALHLFADIH--PDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVI 104 (457)
T ss_pred CCCEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEeCCCCHHHHHHHHHCCccEEEe
Confidence 4789999999999999998766 99999999999999999999987 45789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVR 96 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~ 96 (226)
||++.++|...+.+++.
T Consensus 105 KP~~~~~L~~~i~~~l~ 121 (457)
T PRK11361 105 KPFDLDELNLIVQRALQ 121 (457)
T ss_pred cccCHHHHHHHHhhhcc
Confidence 99999999998887654
No 59
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=99.40 E-value=2.4e-12 Score=113.14 Aligned_cols=95 Identities=31% Similarity=0.566 Sum_probs=86.9
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+||.|..+.++.+++..+.... ||+||+|+.||+++|+++++.++ ..+.+|+|++|++.+.+....++..|+.+|+.
T Consensus 28 ~g~~v~~~~~~~~al~~l~~~~--~DlvilD~~m~~~~G~~~~~~ir~~~~~~~vi~lt~~~~~~~~~~a~~~ga~~~l~ 105 (441)
T PRK10365 28 WGYNVALANSGRQALEQVREQV--FDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLI 105 (441)
T ss_pred CCCeEEEeCCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEEECCCCHHHHHHHHHhhhHHHhc
Confidence 4789999999999999998765 99999999999999999999997 45789999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.+.|...+.+++..
T Consensus 106 Kp~~~~~L~~~l~~~l~~ 123 (441)
T PRK10365 106 KPLDFDNLQATLEKALAH 123 (441)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 999999999999887654
No 60
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.38 E-value=4.7e-12 Score=123.70 Aligned_cols=94 Identities=28% Similarity=0.481 Sum_probs=86.8
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+||+|..+.++.+|++.+.... ||+||+|+.||+++|+++++.++ ..+.+|+|++|+..+.....+++..|+++||.
T Consensus 981 ~g~~v~~~~~~~~al~~~~~~~--~dlil~D~~mp~~~g~~~~~~i~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~ 1058 (1197)
T PRK09959 981 LGYDVDEATDGVQALHKVSMQH--YDLLITDVNMPNMDGFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLF 1058 (1197)
T ss_pred cCCEEEEECCHHHHHHHhhcCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEEe
Confidence 4899999999999999998766 99999999999999999999997 45779999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVR 96 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~ 96 (226)
||++.++|...++++..
T Consensus 1059 KP~~~~~L~~~l~~~~~ 1075 (1197)
T PRK09959 1059 KPLTLDVLKTHLSQLHQ 1075 (1197)
T ss_pred CCCCHHHHHHHHHHHhh
Confidence 99999999999987653
No 61
>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional
Probab=99.38 E-value=1.1e-11 Score=99.46 Aligned_cols=94 Identities=22% Similarity=0.383 Sum_probs=86.0
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKP 81 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP 81 (226)
||.|..+.++.+++..+.... ||+|++|..||+++|+++++.++..+.+|+|+++...+......++..|+++|+.||
T Consensus 34 ~~~v~~~~~~~~~~~~~~~~~--~dlvl~d~~~~~~~g~~~~~~l~~~~~~pii~l~~~~~~~~~~~~~~~ga~~~l~kp 111 (240)
T PRK10710 34 SYATTLLSHGDEVLPYVRQTP--PDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKP 111 (240)
T ss_pred CCEEEEeCCHHHHHHHHhhCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEEcCCCHHHHHHHHhcCCCeEEECC
Confidence 688889999999999998765 999999999999999999999986678999999999988888999999999999999
Q ss_pred CCHHHHHHHHHHHHHH
Q 027234 82 VRIEELKNIWQHVVRK 97 (226)
Q Consensus 82 ~~~~~L~~~l~~~~~~ 97 (226)
++.++|...+..++..
T Consensus 112 ~~~~~L~~~i~~~~~~ 127 (240)
T PRK10710 112 YSPREVVARVKTILRR 127 (240)
T ss_pred CCHHHHHHHHHHHHhh
Confidence 9999999998887654
No 62
>PRK11697 putative two-component response-regulatory protein YehT; Provisional
Probab=99.38 E-value=7.3e-12 Score=100.92 Aligned_cols=89 Identities=26% Similarity=0.443 Sum_probs=76.1
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCH
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRI 84 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~ 84 (226)
+..+.++.++++.+.... ||+||+|+.||+++|+++++.++.....++|++|++. +...+++..|+.+||.||++.
T Consensus 30 ~~~~~~~~~~l~~~~~~~--~dlv~lDi~~~~~~G~~~~~~l~~~~~~~ii~vt~~~--~~~~~a~~~~~~~yl~KP~~~ 105 (238)
T PRK11697 30 VGECSNAIEAIGAIHRLK--PDVVFLDIQMPRISGLELVGMLDPEHMPYIVFVTAFD--EYAIKAFEEHAFDYLLKPIDP 105 (238)
T ss_pred EEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHhcccCCCEEEEEeccH--HHHHHHHhcCCcEEEECCCCH
Confidence 457889999999988765 9999999999999999999988643445688888765 567889999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 027234 85 EELKNIWQHVVRK 97 (226)
Q Consensus 85 ~~L~~~l~~~~~~ 97 (226)
++|...+.++...
T Consensus 106 ~~l~~~l~~~~~~ 118 (238)
T PRK11697 106 ARLAKTLARLRQE 118 (238)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999988653
No 63
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.36 E-value=6.7e-12 Score=117.69 Aligned_cols=94 Identities=24% Similarity=0.401 Sum_probs=81.8
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC---CC-CcEEEEeccCCHHHHHHHHhCCcce
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE---MD-LPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~-~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
+||.|..+.++.+|++.+.... ||+||+|+.||++||+++++.|+.. +. +|+|++|+.... ....++..|+++
T Consensus 548 ~g~~v~~a~~~~eal~~~~~~~--~Dlvl~D~~mp~~~G~e~~~~ir~~~~~~~~~~ii~~ta~~~~-~~~~~~~~G~~~ 624 (779)
T PRK11091 548 LGNSVDVAMTGKEALEMFDPDE--YDLVLLDIQLPDMTGLDIARELRERYPREDLPPLVALTANVLK-DKKEYLDAGMDD 624 (779)
T ss_pred cCCEEEEECCHHHHHHHhhcCC--CCEEEEcCCCCCCCHHHHHHHHHhccccCCCCcEEEEECCchH-hHHHHHHCCCCE
Confidence 4899999999999999998765 9999999999999999999999743 34 488888886654 467899999999
Q ss_pred EEeCCCCHHHHHHHHHHHHHH
Q 027234 77 YLTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 77 yl~KP~~~~~L~~~l~~~~~~ 97 (226)
||.||++.++|...+++++..
T Consensus 625 ~l~KP~~~~~L~~~l~~~~~~ 645 (779)
T PRK11091 625 VLSKPLSVPALTAMIKKFWDT 645 (779)
T ss_pred EEECCCCHHHHHHHHHHHhcc
Confidence 999999999999999988643
No 64
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=99.36 E-value=6.4e-12 Score=99.70 Aligned_cols=91 Identities=9% Similarity=0.061 Sum_probs=75.7
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccC--CCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcce-EEeC
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVH--MPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACD-YLTK 80 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~--mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~-yl~K 80 (226)
|..++++.++++.+.... ||+||+|+. ||.++|.++++.++ ..+.+++|++|+..+..... ++..|+.+ |+.|
T Consensus 30 v~~~~~~~~~~~~~~~~~--pDlvLlDl~~~l~~~~g~~~i~~i~~~~p~~~iivlt~~~~~~~~~-~~~~~~~~~~~~K 106 (207)
T PRK15411 30 INDIETVDDLAIACDSLR--PSVVFINEDCFIHDASNSQRIKQIINQHPNTLFIVFMAIANIHFDE-YLLVRKNLLISSK 106 (207)
T ss_pred EEecCCHHHHHHHHhccC--CCEEEEeCcccCCCCChHHHHHHHHHHCCCCeEEEEECCCchhHHH-HHHHHhhceeeec
Confidence 568899999999988765 999999966 88889999999997 56889999999988776543 55555554 8899
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~ 98 (226)
+.++++|..+++.+..+.
T Consensus 107 ~~~~~~L~~aI~~v~~g~ 124 (207)
T PRK15411 107 SIKPESLDDLLGDILKKE 124 (207)
T ss_pred cCCHHHHHHHHHHHHcCC
Confidence 999999999999987654
No 65
>PRK15369 two component system sensor kinase SsrB; Provisional
Probab=99.34 E-value=1.8e-11 Score=95.49 Aligned_cols=93 Identities=17% Similarity=0.265 Sum_probs=82.4
Q ss_pred cEE-EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 3 FSV-TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 3 ~~V-~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+ ..+.++.++++.+.... ||+|++|..||+++|+++++.++. .+..|+|++|...+......++..|+.+|+.|
T Consensus 29 ~~~~~~~~~~~~~~~~~~~~~--~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~k 106 (211)
T PRK15369 29 YKIVGQVDNGLEVYNACRQLE--PDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVLTARQEEHMASRTLAAGALGYVLK 106 (211)
T ss_pred cEEEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHhCCCEEEeC
Confidence 454 47889999998887765 999999999999999999999874 57789999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++..+|...+..+..+
T Consensus 107 p~~~~~l~~~i~~~~~~ 123 (211)
T PRK15369 107 KSPQQILLAAIQTVAVG 123 (211)
T ss_pred CCCHHHHHHHHHHHHCC
Confidence 99999999999887654
No 66
>PRK15479 transcriptional regulatory protein TctD; Provisional
Probab=99.34 E-value=3.1e-11 Score=95.46 Aligned_cols=95 Identities=31% Similarity=0.536 Sum_probs=85.4
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|+.+..+.++.++++.+.... ||+|++|+.+|+++|+++++.++ ..+.+|+|+++...+.....+++..|+++|+.|
T Consensus 24 ~~~v~~~~~~~~~~~~~~~~~--~d~vild~~~~~~~~~~~~~~i~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~i~k 101 (221)
T PRK15479 24 GFAVDCVFDGLAADHLLQSEM--YALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPK 101 (221)
T ss_pred CCEEEEeCCHHHHHHHHhhCC--CCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHcCCCeeEeC
Confidence 677888999999998887755 99999999999999999999997 456799999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~ 98 (226)
|++..+|...++.++++.
T Consensus 102 p~~~~~l~~~i~~~~~~~ 119 (221)
T PRK15479 102 PFELEELDARLRALLRRS 119 (221)
T ss_pred CCCHHHHHHHHHHHHhhh
Confidence 999999999998877643
No 67
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=99.34 E-value=1.7e-11 Score=93.69 Aligned_cols=100 Identities=21% Similarity=0.341 Sum_probs=84.6
Q ss_pred CcE-EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFS-VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
||+ |.++.++.++.+.+.... ||+||+|+.||..|-.+-+.....+...|+|++++++++.....++..||.+|+.|
T Consensus 29 g~~~Vg~~~~~~~~~~~~~~~~--pDvVildie~p~rd~~e~~~~~~~~~~~piv~lt~~s~p~~i~~a~~~Gv~ayivk 106 (194)
T COG3707 29 GYQRVGEAADGLEAVEVCERLQ--PDVVILDIEMPRRDIIEALLLASENVARPIVALTAYSDPALIEAAIEAGVMAYIVK 106 (194)
T ss_pred CCeEeeeecccccchhHHHhcC--CCEEEEecCCCCccHHHHHHHhhcCCCCCEEEEEccCChHHHHHHHHcCCeEEEec
Confidence 677 457778889999998877 99999999999999544444445667889999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHhhhhh
Q 027234 81 PVRIEELKNIWQHVVRKRKNERK 103 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~~~~~~~ 103 (226)
|+++..|...+.-+.......++
T Consensus 107 pi~~~rl~p~L~vA~srf~~~~~ 129 (194)
T COG3707 107 PLDESRLLPILDVAVSRFEERRA 129 (194)
T ss_pred CcchhhhhHHHHHHHHHHHHHHH
Confidence 99999999998887766555443
No 68
>PRK12555 chemotaxis-specific methylesterase; Provisional
Probab=99.32 E-value=1.9e-11 Score=104.02 Aligned_cols=92 Identities=18% Similarity=0.279 Sum_probs=75.8
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCC--HHHHHHHHhCCcceEE
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGS--KEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~--~~~~~~a~~~ga~~yl 78 (226)
||+|. .+.++.+|++.+.... ||+|++|+.||+|+|+++++.++....+|+|++++... .....++++.|+++|+
T Consensus 25 ~~~vv~~a~~~~eal~~l~~~~--pDlVllD~~mp~~~G~e~l~~l~~~~~~pvivvs~~~~~~~~~~~~al~~Ga~d~l 102 (337)
T PRK12555 25 DHEVVWVATDGAQAVERCAAQP--PDVILMDLEMPRMDGVEATRRIMAERPCPILIVTSLTERNASRVFEAMGAGALDAV 102 (337)
T ss_pred CCEEEEEECCHHHHHHHHhccC--CCEEEEcCCCCCCCHHHHHHHHHHHCCCcEEEEeCCCCcCHHHHHHHHhcCceEEE
Confidence 56765 7899999999998866 99999999999999999999997656689999998754 5667789999999999
Q ss_pred eCCC---------CHHHHHHHHHHHH
Q 027234 79 TKPV---------RIEELKNIWQHVV 95 (226)
Q Consensus 79 ~KP~---------~~~~L~~~l~~~~ 95 (226)
.||+ ..++|...++.+.
T Consensus 103 ~KP~~~~~~~~~~~~~~l~~~i~~~~ 128 (337)
T PRK12555 103 DTPTLGIGAGLEEYAAELLAKIDQIG 128 (337)
T ss_pred ECCCCCcchhHHHHHHHHHHHHHHHh
Confidence 9999 4445555555443
No 69
>PRK10651 transcriptional regulator NarL; Provisional
Probab=99.32 E-value=6.8e-11 Score=92.97 Aligned_cols=93 Identities=19% Similarity=0.369 Sum_probs=83.1
Q ss_pred cEE-EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 3 FSV-TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 3 ~~V-~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+ ..+.++.+++..+.... ||+|++|+.+|+++|+++++.++ ..+..|+|+++...+......++..|+++|+.|
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~~--~dlvl~d~~l~~~~~~~~~~~l~~~~~~~~vi~l~~~~~~~~~~~~~~~g~~~~i~k 109 (216)
T PRK10651 32 ITVVGEASNGEQGIELAESLD--PDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLK 109 (216)
T ss_pred cEEEEEeCCHHHHHHHHHhCC--CCEEEEeCCCCCCcHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHcCCCEEEeC
Confidence 443 46889999999998765 99999999999999999999987 456789999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~~L~~~l~~~~~~ 97 (226)
|++.++|...+..++.+
T Consensus 110 ~~~~~~l~~~i~~~~~~ 126 (216)
T PRK10651 110 DMEPEDLLKALQQAAAG 126 (216)
T ss_pred CCCHHHHHHHHHHHHCC
Confidence 99999999999998764
No 70
>PRK09581 pleD response regulator PleD; Reviewed
Probab=99.31 E-value=4.1e-11 Score=104.99 Aligned_cols=96 Identities=27% Similarity=0.431 Sum_probs=87.1
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC---CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE---MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
||.|..+.++.+++..+.... ||+|++|+.||+.+|+++++.++.. +.+|+|++|+..+.....+++..|+++|+
T Consensus 26 ~~~v~~~~~~~~~~~~~~~~~--~dlvi~d~~~~~~~g~~l~~~i~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l 103 (457)
T PRK09581 26 YYTVLTASSGAEAIAICEREQ--PDIILLDVMMPGMDGFEVCRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFL 103 (457)
T ss_pred CCEEEEeCCHHHHHHHHhhcC--CCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCEEEEECCCCHHHHHHHHHCCCCEEE
Confidence 688999999999999998765 9999999999999999999999753 36899999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHHHHHHh
Q 027234 79 TKPVRIEELKNIWQHVVRKRK 99 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~~~~ 99 (226)
.||++.++|..++..+.+...
T Consensus 104 ~kp~~~~~l~~~i~~~~~~~~ 124 (457)
T PRK09581 104 TKPINDVALFARVKSLTRLKM 124 (457)
T ss_pred ECCCCHHHHHHHHHHHHHHHH
Confidence 999999999999988776543
No 71
>PRK13435 response regulator; Provisional
Probab=99.28 E-value=4.8e-11 Score=88.87 Aligned_cols=94 Identities=17% Similarity=0.238 Sum_probs=78.8
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCC-CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMP-DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp-~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
||.+. .++++.++++.+.... ||+|++|..++ +.+|+++++.++..+.+|+|+++...+ ...++..|+++|+.
T Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~--~dliivd~~~~~~~~~~~~~~~l~~~~~~pii~ls~~~~---~~~~~~~ga~~~l~ 103 (145)
T PRK13435 29 GHEVVGIAMSSEQAIALGRRRQ--PDVALVDVHLADGPTGVEVARRLSADGGVEVVFMTGNPE---RVPHDFAGALGVIA 103 (145)
T ss_pred CCeEEEeeCCHHHHHHHhhhcC--CCEEEEeeecCCCCcHHHHHHHHHhCCCCCEEEEeCCHH---HHHHHhcCcceeEe
Confidence 67766 7899999999887655 99999999998 589999999987667899999987543 24677899999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 027234 80 KPVRIEELKNIWQHVVRKRKN 100 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~~~~ 100 (226)
||++.++|...++++..+...
T Consensus 104 kp~~~~~l~~~i~~~~~~~~~ 124 (145)
T PRK13435 104 KPYSPRGVARALSYLSARRVG 124 (145)
T ss_pred CCCCHHHHHHHHHHHHhcCcc
Confidence 999999999999988754443
No 72
>PRK09390 fixJ response regulator FixJ; Provisional
Probab=99.27 E-value=5.6e-11 Score=92.16 Aligned_cols=95 Identities=31% Similarity=0.518 Sum_probs=85.2
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||.+..+.++.++++.+.... ||+|++|..||+++|+++++.++ ..+.+|+|+++...+......++..|+.+|+.
T Consensus 26 ~~~~v~~~~~~~~~~~~~~~~~--~d~ii~d~~~~~~~~~~~~~~l~~~~~~~~ii~l~~~~~~~~~~~~~~~g~~~~l~ 103 (202)
T PRK09390 26 AGFEVRLFESAQAFLDALPGLR--FGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIE 103 (202)
T ss_pred CCCeEEEeCCHHHHHHHhccCC--CCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHcChHHHhh
Confidence 3688889999999999988765 99999999999999999999997 45678999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++...+...+..++..
T Consensus 104 ~p~~~~~l~~~l~~~~~~ 121 (202)
T PRK09390 104 KPFEDERLIGAIERALAQ 121 (202)
T ss_pred CCCCHHHHHHHHHHHHHh
Confidence 999999999888877654
No 73
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.22 E-value=8e-11 Score=108.60 Aligned_cols=94 Identities=23% Similarity=0.303 Sum_probs=81.6
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
||.|..+.++.+++..+.... ||+||+|+.||+++|+++++.++ ..+.+|+|++|+..+.+...+++..|+.+|+.|
T Consensus 31 ~~~v~~~~~~~~al~~~~~~~--~Dlvl~d~~lp~~~g~~~l~~l~~~~~~~piI~lt~~~~~~~~~~al~~Ga~dyl~k 108 (665)
T PRK13558 31 RLDVTQIRDFVAARDRVEAGE--IDCVVADHEPDGFDGLALLEAVRQTTAVPPVVVVPTAGDEAVARRAVDADAAAYVPA 108 (665)
T ss_pred CcceEeeCCHHHHHHHhhccC--CCEEEEeccCCCCcHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHhcCcceEEec
Confidence 688999999999999998765 99999999999999999999997 457899999999999999999999999999999
Q ss_pred CCCHH--HHHHHHHHHHHH
Q 027234 81 PVRIE--ELKNIWQHVVRK 97 (226)
Q Consensus 81 P~~~~--~L~~~l~~~~~~ 97 (226)
|.... .+...+...+..
T Consensus 109 ~~~~~~~~l~~~i~~~~~~ 127 (665)
T PRK13558 109 VSDDATAAIAERIESAVPE 127 (665)
T ss_pred cchhHHHHHHHHHHHhhhc
Confidence 97643 555566555543
No 74
>PRK10610 chemotaxis regulatory protein CheY; Provisional
Probab=99.20 E-value=7.4e-10 Score=78.78 Aligned_cols=93 Identities=31% Similarity=0.559 Sum_probs=81.4
Q ss_pred Cc-EEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC---CCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 2 GF-SVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE---MDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 2 g~-~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~---~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
|+ .+..+.++.+++..+.... +|++++|..+++++|+++++.++.. +.+|+++++...+......++..|+.+|
T Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~--~di~l~d~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~ 106 (129)
T PRK10610 29 GFNNVEEAEDGVDALNKLQAGG--FGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGY 106 (129)
T ss_pred CCCeEEEeCCHHHHHHHhhccC--CCEEEEcCCCCCCCHHHHHHHHHhCCCcCCCcEEEEECCCCHHHHHHHHHhCCCeE
Confidence 55 3667889999999887755 9999999999999999999999743 4689999998888888899999999999
Q ss_pred EeCCCCHHHHHHHHHHHHH
Q 027234 78 LTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 78 l~KP~~~~~L~~~l~~~~~ 96 (226)
+.||++.+++...++++++
T Consensus 107 i~~p~~~~~l~~~l~~~~~ 125 (129)
T PRK10610 107 VVKPFTAATLEEKLNKIFE 125 (129)
T ss_pred EECCCCHHHHHHHHHHHHH
Confidence 9999999999999988764
No 75
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=99.20 E-value=8.2e-11 Score=98.63 Aligned_cols=78 Identities=29% Similarity=0.453 Sum_probs=70.5
Q ss_pred EEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCH--HHHHHHHhCCcceEEeCC
Q 027234 4 SVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSK--EVVMKGVTHDACDYLTKP 81 (226)
Q Consensus 4 ~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~--~~~~~a~~~ga~~yl~KP 81 (226)
.|.++.|+.+|++.+.... ||+|.+|+.||.|||+++++.+-+...+|||++|+.... +...+++++||.||+.||
T Consensus 29 vv~~a~ng~~a~~~~~~~~--PDVi~ld~emp~mdgl~~l~~im~~~p~pVimvsslt~~g~~~t~~al~~gAvD~i~kp 106 (350)
T COG2201 29 VVGTARNGREAIDKVKKLK--PDVITLDVEMPVMDGLEALRKIMRLRPLPVIMVSSLTEEGAEATLEALELGAVDFIAKP 106 (350)
T ss_pred EEEecCCHHHHHHHHHhcC--CCEEEEecccccccHHHHHHHHhcCCCCcEEEEeccccccHHHHHHHHhcCcceeecCC
Confidence 4678999999999999987 999999999999999999999977788999999976654 677899999999999999
Q ss_pred CC
Q 027234 82 VR 83 (226)
Q Consensus 82 ~~ 83 (226)
..
T Consensus 107 ~~ 108 (350)
T COG2201 107 SG 108 (350)
T ss_pred Cc
Confidence 74
No 76
>PRK00742 chemotaxis-specific methylesterase; Provisional
Probab=99.19 E-value=2.6e-10 Score=97.66 Aligned_cols=80 Identities=26% Similarity=0.401 Sum_probs=68.9
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccC--CHHHHHHHHhCCcceEE
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHG--SKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~--~~~~~~~a~~~ga~~yl 78 (226)
|+.+. .+.++.++++.+.... ||+|++|+.||+++|+++++.++....+|+|++|+.. ......+++..|+++|+
T Consensus 28 ~~~vv~~a~~~~~al~~~~~~~--~DlVllD~~mp~~dgle~l~~i~~~~~~piIvls~~~~~~~~~~~~al~~Ga~d~l 105 (354)
T PRK00742 28 DIEVVGTAPDGLEAREKIKKLN--PDVITLDVEMPVMDGLDALEKIMRLRPTPVVMVSSLTERGAEITLRALELGAVDFV 105 (354)
T ss_pred CCEEEEEECCHHHHHHHHhhhC--CCEEEEeCCCCCCChHHHHHHHHHhCCCCEEEEecCCCCCHHHHHHHHhCCCcEEE
Confidence 56766 8899999999998766 9999999999999999999999754449999999753 34667789999999999
Q ss_pred eCCCC
Q 027234 79 TKPVR 83 (226)
Q Consensus 79 ~KP~~ 83 (226)
.||+.
T Consensus 106 ~kP~~ 110 (354)
T PRK00742 106 TKPFL 110 (354)
T ss_pred eCCcc
Confidence 99994
No 77
>PRK09191 two-component response regulator; Provisional
Probab=99.13 E-value=9e-10 Score=89.93 Aligned_cols=92 Identities=18% Similarity=0.335 Sum_probs=76.3
Q ss_pred CcEEE-EECCHHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVT-KCNRAEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
|+.+. .+.++.++++.+.... ||+||+|+.||+ ++|+++++.++....+|+|++|+..+.... +...|+.+|+.
T Consensus 161 ~~~~~~~~~~~~~~l~~l~~~~--~dlvi~d~~~~~~~~g~e~l~~l~~~~~~pii~ls~~~~~~~~--~~~~~~~~~l~ 236 (261)
T PRK09191 161 GHRVTGIARTRAEAVALAKKTR--PGLILADIQLADGSSGIDAVNDILKTFDVPVIFITAFPERLLT--GERPEPAFLIT 236 (261)
T ss_pred CCEEEEEECCHHHHHHHHhccC--CCEEEEecCCCCCCCHHHHHHHHHHhCCCCEEEEeCCCcHHHH--HHhcccCceEE
Confidence 67776 6889999999998765 999999999995 899999999874348999999997765443 34467889999
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
||++.++|...++++...
T Consensus 237 kP~~~~~l~~~i~~~~~~ 254 (261)
T PRK09191 237 KPFQPDTVKAAISQALFF 254 (261)
T ss_pred CCCCHHHHHHHHHHHHhc
Confidence 999999999999887643
No 78
>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=99.11 E-value=1.5e-09 Score=74.13 Aligned_cols=91 Identities=36% Similarity=0.603 Sum_probs=80.0
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|+.+..+.+..+++..+.... +|++++|..+++.+|+++++.++. .+.+|+++++..........++..|+.+|+.|
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~--~~~ii~~~~~~~~~~~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~ 98 (113)
T cd00156 21 GYEVVEAEDGEEALALLAEEK--PDLILLDIMMPGMDGLELLRRIRKRGPDIPIIFLTAHGDDEDAVEALKAGADDYLTK 98 (113)
T ss_pred CceEEEecCHHHHHHHHHhCC--CCEEEEecCCCCCchHHHHHHHHHhCCCCCEEEEEecccHHHHHHHHHcChhhHccC
Confidence 678888889999999888765 999999999999999999998874 46789999998877888889999999999999
Q ss_pred CCCHHHHHHHHHHH
Q 027234 81 PVRIEELKNIWQHV 94 (226)
Q Consensus 81 P~~~~~L~~~l~~~ 94 (226)
|++...|...+..+
T Consensus 99 p~~~~~l~~~l~~~ 112 (113)
T cd00156 99 PFSPEELLARIRAL 112 (113)
T ss_pred CCCHHHHHHHHHhh
Confidence 99999998887653
No 79
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.09 E-value=9.8e-10 Score=103.84 Aligned_cols=93 Identities=13% Similarity=0.198 Sum_probs=83.7
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+||+|..+.++.++++.+......||+||+ .||+++|+++++.++ ..+.+|||++|+........+++..| ++||.
T Consensus 720 ~G~~v~~~~s~~~al~~l~~~~~~~DlVll--~~~~~~g~~l~~~l~~~~~~ipIIvls~~~~~~~~~~~~~~G-~d~L~ 796 (828)
T PRK13837 720 LGYEPVGFSTLAAAIAWISKGPERFDLVLV--DDRLLDEEQAAAALHAAAPTLPIILGGNSKTMALSPDLLASV-AEILA 796 (828)
T ss_pred CCCEEEEeCCHHHHHHHHHhCCCCceEEEE--CCCCCCHHHHHHHHHhhCCCCCEEEEeCCCchhhhhhHhhcc-CcEEe
Confidence 489999999999999999764334799999 799999999999997 55789999999999999999999999 99999
Q ss_pred CCCCHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVR 96 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~ 96 (226)
||++..+|..++.++++
T Consensus 797 KP~~~~~L~~~l~~~l~ 813 (828)
T PRK13837 797 KPISSRTLAYALRTALA 813 (828)
T ss_pred CCCCHHHHHHHHHHHHc
Confidence 99999999999998875
No 80
>PRK13557 histidine kinase; Provisional
Probab=98.94 E-value=9.6e-09 Score=91.91 Aligned_cols=95 Identities=21% Similarity=0.339 Sum_probs=83.9
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.||.+..+.++.++++.+... ..||+|++|..||+ ++|+++++.++ ..+.+|+|+++...+......++..|+.+|+
T Consensus 438 ~~~~v~~~~~~~~~~~~~~~~-~~~d~vi~d~~~~~~~~~~~~~~~l~~~~~~~~ii~~~~~~~~~~~~~~~~~g~~~~l 516 (540)
T PRK13557 438 FGYRTLVASNGREALEILDSH-PEVDLLFTDLIMPGGMNGVMLAREARRRQPKIKVLLTTGYAEASIERTDAGGSEFDIL 516 (540)
T ss_pred cCCeEEEeCCHHHHHHHHhcC-CCceEEEEeccCCCCCCHHHHHHHHHHhCCCCcEEEEcCCCchhhhhhhccccCCcee
Confidence 378899999999999998653 23999999999997 99999999997 4577999999999888888889999999999
Q ss_pred eCCCCHHHHHHHHHHHHH
Q 027234 79 TKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 79 ~KP~~~~~L~~~l~~~~~ 96 (226)
.||++.++|...++.++.
T Consensus 517 ~kp~~~~~l~~~l~~~~~ 534 (540)
T PRK13557 517 NKPYRRAELARRVRMVLD 534 (540)
T ss_pred eCCCCHHHHHHHHHHHhc
Confidence 999999999999887664
No 81
>COG3279 LytT Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]
Probab=98.85 E-value=1e-08 Score=83.29 Aligned_cols=87 Identities=28% Similarity=0.469 Sum_probs=76.3
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHH
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIE 85 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~ 85 (226)
.+.++.++++.+.... ||++++|+.||+++|+++...++. .+..+|+++|++. +++..+++..|.+|+.||++.+
T Consensus 32 ~~~~~~~~~~~~~~~~--~~~~fldI~~~~~~G~ela~~i~~~~~~~~Ivfvt~~~--~~a~~afev~a~d~i~kp~~~~ 107 (244)
T COG3279 32 EAENGEEALQLLQGLR--PDLVFLDIAMPDINGIELAARIRKGDPRPAIVFVTAHD--EYAVAAFEVEALDYLLKPISEE 107 (244)
T ss_pred eeccchhhHHHHhccC--CCeEEEeeccCccchHHHHHHhcccCCCCeEEEEEehH--HHHHHHHhHHHHhhhcCcchHH
Confidence 6889999999999876 999999999999999999999985 4567788899865 5677788999999999999999
Q ss_pred HHHHHHHHHHHH
Q 027234 86 ELKNIWQHVVRK 97 (226)
Q Consensus 86 ~L~~~l~~~~~~ 97 (226)
.|...+.+..+.
T Consensus 108 ~l~~~l~~~~~~ 119 (244)
T COG3279 108 RLAKTLERLRRY 119 (244)
T ss_pred HHHHHHHHHHHH
Confidence 999999876554
No 82
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=98.75 E-value=1.7e-08 Score=87.29 Aligned_cols=95 Identities=33% Similarity=0.404 Sum_probs=84.4
Q ss_pred cEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 3 FSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 3 ~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
|+|.++..+..++..+..+. ||.+++|+.||+|+|+++++.++..+.. ++++|...+.....+++++|++++|+||.
T Consensus 13 ~~v~~a~~g~~~l~~~~~~~--~~~~lld~~m~~~~~~~~~~~lk~~~~~-~v~~t~~~~~~~~~~~~~~~~~~~l~~~~ 89 (435)
T COG3706 13 KEVATAKKGLIALAILLDHK--PDYKLLDVMMPGMDGFELCRRLKAEPAT-VVMVTALDDSAPRVRGLKAGADDFLTKPV 89 (435)
T ss_pred hhhhhccchHHHHHHHhcCC--CCeEEeecccCCcCchhHHHHHhcCCcc-eEEEEecCCCCcchhHHhhhhhhhccCCC
Confidence 45777899999999999876 9999999999999999999999876655 88899999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHhh
Q 027234 83 RIEELKNIWQHVVRKRKN 100 (226)
Q Consensus 83 ~~~~L~~~l~~~~~~~~~ 100 (226)
+...+......+.+....
T Consensus 90 ~~~~~~~r~~~l~~~k~~ 107 (435)
T COG3706 90 NDSQLFLRAKSLVRLKCS 107 (435)
T ss_pred ChHHHHHhhhhhccchhh
Confidence 999999888887655443
No 83
>PRK15029 arginine decarboxylase; Provisional
Probab=98.57 E-value=5.2e-07 Score=83.55 Aligned_cols=91 Identities=10% Similarity=0.105 Sum_probs=68.1
Q ss_pred CCcEEEEECCHHHHHHHHHh-CCCCceEEEEccCCCCCCHH----HHHHHHhc-CCCCcEEEEeccCC--HHHHHHHHhC
Q 027234 1 MGFSVTKCNRAEIALDMLRT-NKNGYDIVISDVHMPDMDGF----KLLELVGL-EMDLPVIMMCAHGS--KEVVMKGVTH 72 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~-~~~~~DlVl~D~~mp~~dG~----~l~~~l~~-~~~~pvI~ls~~~~--~~~~~~a~~~ 72 (226)
.||+|..+.++.+|++.+.. .. ||+||+|++||+++|+ ++++.|+. .+++|||++|+..+ .......+ -
T Consensus 31 ~G~eV~~a~s~~dAl~~l~~~~~--~DlVLLD~~LPd~dG~~~~~ell~~IR~~~~~iPIIlLTar~~~~~~~~~~~~-~ 107 (755)
T PRK15029 31 QNVTVIKSTSFDDGFAILSSNEA--IDCLMFSYQMEHPDEHQNVRQLIGKLHERQQNVPVFLLGDREKALAAMDRDLL-E 107 (755)
T ss_pred CCCEEEEECCHHHHHHHHHhcCC--CcEEEEECCCCCCccchhHHHHHHHHHhhCCCCCEEEEEcCCcccccCCHHHH-H
Confidence 38999999999999999976 35 9999999999999997 89999984 56899999999886 22222222 2
Q ss_pred CcceEEeCCCCHHHH-HHHHHHH
Q 027234 73 DACDYLTKPVRIEEL-KNIWQHV 94 (226)
Q Consensus 73 ga~~yl~KP~~~~~L-~~~l~~~ 94 (226)
-+.+|+.+--+..++ ...+...
T Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~ 130 (755)
T PRK15029 108 LVDEFAWILEDTADFIAGRAVAA 130 (755)
T ss_pred hhheEEEecCCCHHHHHHHHHHH
Confidence 367888776554443 3334444
No 84
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=97.58 E-value=0.00052 Score=65.72 Aligned_cols=89 Identities=16% Similarity=0.130 Sum_probs=70.0
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHH-HHhc--CCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLE-LVGL--EMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~-~l~~--~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+||.|..+.+..+ +.... ||++++|..||++++...+. .++. ....++|+++..........+...|+++|
T Consensus 559 ~g~~v~~~~~~~~----l~~~~--~d~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~ 632 (919)
T PRK11107 559 TPLEVTYSPTLSQ----LPEAH--YDILLLGLPVTFREPLTMLHERLAKAKSMTDFLILALPCHEQVLAEQLKQDGADAC 632 (919)
T ss_pred CCCEEEEcCCHHH----hccCC--CCEEEecccCCCCCCHHHHHHHHHhhhhcCCcEEEEeCCcchhhHHHHhhCCCceE
Confidence 4788888888777 34434 99999999999988776654 3332 23456788888888888899999999999
Q ss_pred EeCCCCHHHHHHHHHHHH
Q 027234 78 LTKPVRIEELKNIWQHVV 95 (226)
Q Consensus 78 l~KP~~~~~L~~~l~~~~ 95 (226)
+.||++..++...+....
T Consensus 633 l~kp~~~~~l~~~l~~~~ 650 (919)
T PRK11107 633 LSKPLSHTRLLPALLEPC 650 (919)
T ss_pred ECCCCCHHHHHHHHHHhh
Confidence 999999999988887643
No 85
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=96.93 E-value=0.00029 Score=40.86 Aligned_cols=31 Identities=32% Similarity=0.278 Sum_probs=22.9
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
|.+++.. ++++++||+++++|++||+|+|+.
T Consensus 1 I~~~~~~-~~~l~~iA~~~g~S~~~f~r~Fk~ 31 (42)
T PF00165_consen 1 IEENLQQ-KLTLEDIAEQAGFSPSYFSRLFKK 31 (42)
T ss_dssp HHTTT-S-S--HHHHHHHHTS-HHHHHHHHHH
T ss_pred CCccccC-CCCHHHHHHHHCCCHHHHHHHHHH
Confidence 4566677 699999999999999999998864
No 86
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=96.67 E-value=0.018 Score=41.18 Aligned_cols=92 Identities=13% Similarity=0.183 Sum_probs=66.2
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCC--CCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPD--MDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~--~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
||+|+.+.+.++++..+++. ..+..|++|+. ++ ....++++.++ .+..+||.+++.....+.+-...-..+++|+
T Consensus 17 ~~~vv~~~~~dd~~~~i~~~-~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~~iPVFl~~~~~~~~~l~~~~l~~v~~~i 94 (115)
T PF03709_consen 17 GREVVDADSTDDALAIIESF-TDIAAVVISWD-GEEEDEAQELLDKIRERNFGIPVFLLAERDTTEDLPAEVLGEVDGFI 94 (115)
T ss_dssp TTEEEEESSHHHHHHHHHCT-TTEEEEEEECH-HHHHHHHHHHHHHHHHHSTT-EEEEEESCCHHHCCCHHHHCCESEEE
T ss_pred CCEEEEeCChHHHHHHHHhC-CCeeEEEEEcc-cccchhHHHHHHHHHHhCCCCCEEEEecCCCcccCCHHHHhhccEEE
Confidence 79999999999999999986 45899999986 22 23566788887 6789999999986644444444555688898
Q ss_pred eCCC-CHHHHHHHHHHHH
Q 027234 79 TKPV-RIEELKNIWQHVV 95 (226)
Q Consensus 79 ~KP~-~~~~L~~~l~~~~ 95 (226)
...- +++.+...+..+.
T Consensus 95 ~l~~~t~~fia~rI~~Aa 112 (115)
T PF03709_consen 95 WLFEDTAEFIARRIEAAA 112 (115)
T ss_dssp ETTTTTHHHHHHHHHHHH
T ss_pred EecCCCHHHHHHHHHHHH
Confidence 7754 4455555555544
No 87
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=96.37 E-value=0.0014 Score=54.75 Aligned_cols=42 Identities=19% Similarity=0.032 Sum_probs=37.2
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQGNSFV 221 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~~~ 221 (226)
.|.+++.+|+||.+.||.++++|++||+|+|+-.++.+..|+
T Consensus 205 ~I~~~l~~~~ls~~~lA~~~giS~r~L~r~Fk~~G~T~~~yi 246 (302)
T PRK09685 205 LIDQSIQEEILRPEWIAGELGISVRSLYRLFAEQGLVVAQYI 246 (302)
T ss_pred HHHHhcCCCCCCHHHHHHHHCCCHHHHHHHHHHcCCCHHHHH
Confidence 699999999999999999999999999999997766665554
No 88
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=96.02 E-value=0.17 Score=36.48 Aligned_cols=89 Identities=12% Similarity=-0.005 Sum_probs=63.7
Q ss_pred CcEEEEE---CCHHHHHHHHHhCCCCceEEEEccCCCCCC--HHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 2 GFSVTKC---NRAEIALDMLRTNKNGYDIVISDVHMPDMD--GFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 2 g~~V~~~---~~~~eal~~l~~~~~~~DlVl~D~~mp~~d--G~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
||+|... ...++..+.+.+.. ||+|.+...++..- --++++.+++. +....+++.+....+...+..++|++
T Consensus 27 G~~vi~lG~~vp~e~~~~~a~~~~--~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~~~~~~~~~~~G~d 104 (122)
T cd02071 27 GFEVIYTGLRQTPEEIVEAAIQED--VDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIPPEDYELLKEMGVA 104 (122)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCC
Confidence 7887643 35778888888876 99999998876432 24456666643 43445566665666777888899999
Q ss_pred eEEeCCCCHHHHHHHHH
Q 027234 76 DYLTKPVRIEELKNIWQ 92 (226)
Q Consensus 76 ~yl~KP~~~~~L~~~l~ 92 (226)
+|+..--+.++....++
T Consensus 105 ~~~~~~~~~~~~~~~~~ 121 (122)
T cd02071 105 EIFGPGTSIEEIIDKIR 121 (122)
T ss_pred EEECCCCCHHHHHHHHh
Confidence 99999888888766543
No 89
>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=96.00 E-value=0.032 Score=47.15 Aligned_cols=84 Identities=12% Similarity=0.020 Sum_probs=56.9
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHH-HHHhcCCCCcEEEE-eccCCHHHHHHHHhCCcceEEe
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLL-ELVGLEMDLPVIMM-CAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~-~~l~~~~~~pvI~l-s~~~~~~~~~~a~~~ga~~yl~ 79 (226)
|.++..+.+..++-..... -.+|++|..+ ...+ ...- -....++++ +...+.+....++..|+.+||.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~----~~~v~~~~~~-----~~~~~~~~~-p~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~ 70 (322)
T TIGR03815 1 GVELDVAPDPEAARRAWAR----APLVLVDADM-----AEACAAAGL-PRRRRVVLVGGGEPGGALWRAAAAVGAEHVAV 70 (322)
T ss_pred CCceEEccCchhhhhcccc----CCeEEECchh-----hhHHHhccC-CCCCCEEEEeCCCCCHHHHHHHHHhChhheee
Confidence 5677788877766444332 5788998543 1111 1111 122335544 4455788999999999999999
Q ss_pred CCCCHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVV 95 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~ 95 (226)
+|++..+|...+.++.
T Consensus 71 ~P~~~~~l~~~l~~~~ 86 (322)
T TIGR03815 71 LPEAEGWLVELLADLD 86 (322)
T ss_pred CCCCHHHHHHHHHhhc
Confidence 9999999999988763
No 90
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=95.95 E-value=0.0037 Score=36.80 Aligned_cols=31 Identities=23% Similarity=0.285 Sum_probs=24.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+++.. |.++.+||..+++||+.+||+..
T Consensus 13 ~i~~l~~~-G~si~~IA~~~gvsr~TvyR~l~ 43 (45)
T PF02796_consen 13 EIKELYAE-GMSIAEIAKQFGVSRSTVYRYLN 43 (45)
T ss_dssp HHHHHHHT-T--HHHHHHHTTS-HHHHHHHHC
T ss_pred HHHHHHHC-CCCHHHHHHHHCcCHHHHHHHHh
Confidence 47777777 79999999999999999999754
No 91
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=95.50 E-value=0.44 Score=34.89 Aligned_cols=92 Identities=9% Similarity=-0.057 Sum_probs=63.3
Q ss_pred CcEEEE---ECCHHHHHHHHHhCCCCceEEEEccCCCC-CCHH-HHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 2 GFSVTK---CNRAEIALDMLRTNKNGYDIVISDVHMPD-MDGF-KLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 2 g~~V~~---~~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~-~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
||+|.. ..+.+++.+...+.. +|+|.+.-.+.. +..+ ++++.|++. .....|++-+....+......++|++
T Consensus 30 GfeVi~lg~~~s~e~~v~aa~e~~--adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~~~~~~~l~~~Gvd 107 (132)
T TIGR00640 30 GFDVDVGPLFQTPEEIARQAVEAD--VHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIPPQDFDELKEMGVA 107 (132)
T ss_pred CcEEEECCCCCCHHHHHHHHHHcC--CCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCChHhHHHHHHCCCC
Confidence 788774 446888888888866 999988776643 3332 344566543 32233445544455667778999999
Q ss_pred eEEeCCCCHHHHHHHHHHHH
Q 027234 76 DYLTKPVRIEELKNIWQHVV 95 (226)
Q Consensus 76 ~yl~KP~~~~~L~~~l~~~~ 95 (226)
+|+..--+..++...+.+.+
T Consensus 108 ~~~~~gt~~~~i~~~l~~~~ 127 (132)
T TIGR00640 108 EIFGPGTPIPESAIFLLKKL 127 (132)
T ss_pred EEECCCCCHHHHHHHHHHHH
Confidence 99999888888888777644
No 92
>cd04728 ThiG Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes the formation of thiazole from 1-deoxy-D-xylulose 5-phosphate (DXP) and dehydroglycine, with the help of the sulfur carrier protein ThiS that carries the sulfur needed for thiazole assembly on its carboxy terminus (ThiS-COSH).
Probab=95.49 E-value=0.39 Score=38.84 Aligned_cols=89 Identities=20% Similarity=0.251 Sum_probs=64.2
Q ss_pred CcEEE-EE-CCHHHHHHHHHhCCCCceEEEEccCCC---------CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHH
Q 027234 2 GFSVT-KC-NRAEIALDMLRTNKNGYDIVISDVHMP---------DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGV 70 (226)
Q Consensus 2 g~~V~-~~-~~~~eal~~l~~~~~~~DlVl~D~~mp---------~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~ 70 (226)
||.|. .| +|...|-.+.. .. +++| || +..-.++++.+++..++|||+=.+-...+.+.+++
T Consensus 123 Gf~vlpyc~dd~~~ar~l~~-~G--~~~v-----mPlg~pIGsg~Gi~~~~~I~~I~e~~~vpVI~egGI~tpeda~~Am 194 (248)
T cd04728 123 GFTVLPYCTDDPVLAKRLED-AG--CAAV-----MPLGSPIGSGQGLLNPYNLRIIIERADVPVIVDAGIGTPSDAAQAM 194 (248)
T ss_pred CCEEEEEeCCCHHHHHHHHH-cC--CCEe-----CCCCcCCCCCCCCCCHHHHHHHHHhCCCcEEEeCCCCCHHHHHHHH
Confidence 78877 44 45666655544 33 8887 66 22126778888766789999888888999999999
Q ss_pred hCCcceEE-----eCCCCHHHHHHHHHHHHHHH
Q 027234 71 THDACDYL-----TKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 71 ~~ga~~yl-----~KP~~~~~L~~~l~~~~~~~ 98 (226)
++|+++.+ .|.-++..+.......+..-
T Consensus 195 elGAdgVlV~SAIt~a~dP~~ma~af~~Av~aG 227 (248)
T cd04728 195 ELGADAVLLNTAIAKAKDPVAMARAFKLAVEAG 227 (248)
T ss_pred HcCCCEEEEChHhcCCCCHHHHHHHHHHHHHHH
Confidence 99999988 46566777777776665443
No 93
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=95.33 E-value=0.4 Score=35.36 Aligned_cols=92 Identities=16% Similarity=0.037 Sum_probs=65.9
Q ss_pred CcEEEE---ECCHHHHHHHHHhCCCCceEEEEccCCCCC--CHHHHHHHHhcC-C-CCcEEEEeccC------CHHHHHH
Q 027234 2 GFSVTK---CNRAEIALDMLRTNKNGYDIVISDVHMPDM--DGFKLLELVGLE-M-DLPVIMMCAHG------SKEVVMK 68 (226)
Q Consensus 2 g~~V~~---~~~~~eal~~l~~~~~~~DlVl~D~~mp~~--dG~~l~~~l~~~-~-~~pvI~ls~~~------~~~~~~~ 68 (226)
||+|+. .-..++..+.+.+.. ||+|.+...|+.. .--++++.++.. + ++++ ++.+.. ..+...+
T Consensus 31 G~eVi~LG~~vp~e~i~~~a~~~~--~d~V~lS~~~~~~~~~~~~~~~~L~~~~~~~~~i-~vGG~~~~~~~~~~~~~~~ 107 (137)
T PRK02261 31 GFEVINLGVMTSQEEFIDAAIETD--ADAILVSSLYGHGEIDCRGLREKCIEAGLGDILL-YVGGNLVVGKHDFEEVEKK 107 (137)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEcCccccCHHHHHHHHHHHHhcCCCCCeE-EEECCCCCCccChHHHHHH
Confidence 788774 346788888888876 9999999988753 234556677633 3 4444 444432 3455677
Q ss_pred HHhCCcceEEeCCCCHHHHHHHHHHHHH
Q 027234 69 GVTHDACDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 69 a~~~ga~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
+.++|++..+...-+.+++...+++.+.
T Consensus 108 l~~~G~~~vf~~~~~~~~i~~~l~~~~~ 135 (137)
T PRK02261 108 FKEMGFDRVFPPGTDPEEAIDDLKKDLN 135 (137)
T ss_pred HHHcCCCEEECcCCCHHHHHHHHHHHhc
Confidence 8899999999999999999888877653
No 94
>PRK00208 thiG thiazole synthase; Reviewed
Probab=95.33 E-value=0.46 Score=38.49 Aligned_cols=88 Identities=19% Similarity=0.231 Sum_probs=63.8
Q ss_pred CcEEE-EE-CCHHHHHHHHHhCCCCceEEEEccCCC---------CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHH
Q 027234 2 GFSVT-KC-NRAEIALDMLRTNKNGYDIVISDVHMP---------DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGV 70 (226)
Q Consensus 2 g~~V~-~~-~~~~eal~~l~~~~~~~DlVl~D~~mp---------~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~ 70 (226)
||.|. .| +|...|-.+.. .. +|+| || +..-.++++.+++..++|||+=.+-...+.+.+++
T Consensus 123 Gf~vlpyc~~d~~~ak~l~~-~G--~~~v-----mPlg~pIGsg~gi~~~~~i~~i~e~~~vpVIveaGI~tpeda~~Am 194 (250)
T PRK00208 123 GFVVLPYCTDDPVLAKRLEE-AG--CAAV-----MPLGAPIGSGLGLLNPYNLRIIIEQADVPVIVDAGIGTPSDAAQAM 194 (250)
T ss_pred CCEEEEEeCCCHHHHHHHHH-cC--CCEe-----CCCCcCCCCCCCCCCHHHHHHHHHhcCCeEEEeCCCCCHHHHHHHH
Confidence 78877 44 45666655544 33 8887 76 12125677888765789999988889999999999
Q ss_pred hCCcceEE-----eCCCCHHHHHHHHHHHHHH
Q 027234 71 THDACDYL-----TKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 71 ~~ga~~yl-----~KP~~~~~L~~~l~~~~~~ 97 (226)
++|+++.+ .|.-++..+.......+..
T Consensus 195 elGAdgVlV~SAItka~dP~~ma~af~~Av~a 226 (250)
T PRK00208 195 ELGADAVLLNTAIAVAGDPVAMARAFKLAVEA 226 (250)
T ss_pred HcCCCEEEEChHhhCCCCHHHHHHHHHHHHHH
Confidence 99999988 4656677777777666543
No 95
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=95.20 E-value=0.02 Score=40.14 Aligned_cols=50 Identities=22% Similarity=0.270 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSF 220 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~ 220 (226)
+...+..+.. .|.+++.. .++++++|.++++|+++|.|+|+- .++.+..|
T Consensus 3 ~~~~~~~~~~---------~i~~~~~~-~~~~~~lA~~~~~S~~~l~r~f~~~~g~s~~~~ 53 (107)
T PRK10219 3 HQKIIQTLIA---------WIDEHIDQ-PLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDY 53 (107)
T ss_pred hHHHHHHHHH---------HHHHhcCC-CCCHHHHHHHHCCCHHHHHHHHHHHHCcCHHHH
Confidence 4455666666 58888877 699999999999999999997765 35554443
No 96
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=94.71 E-value=0.012 Score=42.80 Aligned_cols=41 Identities=15% Similarity=0.129 Sum_probs=33.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCC-CCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVS-PQQGNSFV 221 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~-~~~~~~~~ 221 (226)
.|.+++.. .++++++|+++++|+.+|.|+|+-. ++++..|+
T Consensus 17 ~I~~~~~~-~~sl~~lA~~~g~S~~~l~r~Fk~~~G~s~~~~l 58 (127)
T PRK11511 17 WIEDNLES-PLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYI 58 (127)
T ss_pred HHHHhcCC-CCCHHHHHHHHCcCHHHHHHHHHHHHCcCHHHHH
Confidence 58888887 6999999999999999999988754 66665553
No 97
>PRK09978 DNA-binding transcriptional regulator GadX; Provisional
Probab=94.70 E-value=0.015 Score=48.02 Aligned_cols=41 Identities=15% Similarity=0.024 Sum_probs=34.6
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQGNSFV 221 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~~~ 221 (226)
.|.+++.. .++++++|+++++|+++|+|+|+..++++..|+
T Consensus 150 yI~~~~~~-~lsl~~lA~~~g~S~~~L~R~Fk~~G~S~~~yl 190 (274)
T PRK09978 150 VINNNIAH-EWTLARIASELLMSPSLLKKKLREEETSYSQLL 190 (274)
T ss_pred HHHhcccC-CCCHHHHHHHHCcCHHHHHHHHHhcCCCHHHHH
Confidence 58888887 799999999999999999999987666555543
No 98
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=94.45 E-value=0.28 Score=34.91 Aligned_cols=78 Identities=9% Similarity=-0.079 Sum_probs=52.4
Q ss_pred CcEEEE---ECCHHHHHHHHHhCCCCceEEEEccCCCC--CCHHHHHHHHhcCCC-CcEEEEeccCCHHHHHHHHhCCcc
Q 027234 2 GFSVTK---CNRAEIALDMLRTNKNGYDIVISDVHMPD--MDGFKLLELVGLEMD-LPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 2 g~~V~~---~~~~~eal~~l~~~~~~~DlVl~D~~mp~--~dG~~l~~~l~~~~~-~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
||+|.. ..+.++..+.+.+.. ||+|.+...+.. .+..++++.+++... -+.|++.+.........+...|++
T Consensus 27 G~~V~~lg~~~~~~~l~~~~~~~~--pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~~~~~~~~~~~~G~D 104 (119)
T cd02067 27 GFEVIDLGVDVPPEEIVEAAKEED--ADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAIVTRDFKFLKEIGVD 104 (119)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCCCChhHHHHHHcCCe
Confidence 778754 335678888888876 999999887654 244666777774432 334556655554444578889998
Q ss_pred eEEeCC
Q 027234 76 DYLTKP 81 (226)
Q Consensus 76 ~yl~KP 81 (226)
+|+...
T Consensus 105 ~~~~~~ 110 (119)
T cd02067 105 AYFGPA 110 (119)
T ss_pred EEECCH
Confidence 887643
No 99
>PRK10130 transcriptional regulator EutR; Provisional
Probab=94.34 E-value=0.018 Score=49.36 Aligned_cols=50 Identities=22% Similarity=0.280 Sum_probs=40.8
Q ss_pred HHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCCC
Q 027234 162 QQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSFV 221 (226)
Q Consensus 162 ~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~~ 221 (226)
..++..+.. .|.+++..+ +|+++||.++++|+++|.|.|+- .++.+..|+
T Consensus 239 ~~~v~~~~~---------~i~~~~~~~-ltv~~lA~~~gvS~r~L~r~Fk~~~G~sp~~yl 289 (350)
T PRK10130 239 RRLLSRARE---------YVLENMSEP-VTVLDLCNQLHVSRRTLQNAFHAILGIGPNAWL 289 (350)
T ss_pred HHHHHHHHH---------HHHhhhcCC-CCHHHHHHHHCCCHHHHHHHHHHHHCcCHHHHH
Confidence 566777777 688999884 99999999999999999998854 677666553
No 100
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=93.95 E-value=1.6 Score=32.03 Aligned_cols=92 Identities=10% Similarity=-0.049 Sum_probs=62.8
Q ss_pred CcEEE---EECCHHHHHHHHHhCCCCceEEEEccCCCC-CCH-HHHHHHHhcC-CCCcEEEEeccC-----CHH-HHHHH
Q 027234 2 GFSVT---KCNRAEIALDMLRTNKNGYDIVISDVHMPD-MDG-FKLLELVGLE-MDLPVIMMCAHG-----SKE-VVMKG 69 (226)
Q Consensus 2 g~~V~---~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG-~~l~~~l~~~-~~~pvI~ls~~~-----~~~-~~~~a 69 (226)
||+|. ..-+.++.++.+.+.. +|+|-+...|.. +.. -++.+.+++. ..-+++++-+.. +.. ...++
T Consensus 29 GfeVi~LG~~v~~e~~v~aa~~~~--adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~~vi~~~d~~~~~~~l 106 (134)
T TIGR01501 29 GFNVVNLGVLSPQEEFIKAAIETK--ADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGNLVVGKQDFPDVEKRF 106 (134)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCCcCcChhhhHHHHHHH
Confidence 78876 3557889999988866 999999888754 222 3344566532 323445555531 111 24467
Q ss_pred HhCCcceEEeCCCCHHHHHHHHHHHH
Q 027234 70 VTHDACDYLTKPVRIEELKNIWQHVV 95 (226)
Q Consensus 70 ~~~ga~~yl~KP~~~~~L~~~l~~~~ 95 (226)
.++|++..+...-.++++...+++.+
T Consensus 107 ~~~Gv~~vF~pgt~~~~iv~~l~~~~ 132 (134)
T TIGR01501 107 KEMGFDRVFAPGTPPEVVIADLKKDL 132 (134)
T ss_pred HHcCCCEEECcCCCHHHHHHHHHHHh
Confidence 88999999998889999988887765
No 101
>smart00448 REC cheY-homologous receiver domain. CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.
Probab=93.49 E-value=0.22 Score=27.76 Aligned_cols=32 Identities=34% Similarity=0.706 Sum_probs=25.4
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMP 35 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp 35 (226)
|+.+..+.+..+++..+.... +|++++|..++
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~--~~~vi~~~~~~ 55 (55)
T smart00448 24 GYEVDEATDGEEALELLKEEK--PDLILLDIMMP 55 (55)
T ss_pred CcEEEEeCCHHHHHHHHHhcC--CCEEEEeccCC
Confidence 677788888888888887655 89999987654
No 102
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=93.26 E-value=0.033 Score=46.04 Aligned_cols=40 Identities=18% Similarity=0.046 Sum_probs=34.3
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSF 220 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~ 220 (226)
.|.+++.. .+|++++|+++++|++||.|+|+. +++.+..|
T Consensus 194 ~I~~~~~~-~~sl~~lA~~~~~S~~~l~r~Fk~~~G~t~~~y 234 (287)
T TIGR02297 194 LIEENYKQ-HLRLPEYADRLGISESRLNDICRRFSALSPKRL 234 (287)
T ss_pred HHHHhhcc-CCCHHHHHHHHCCCHHHHHHHHHHHhCCCHHHH
Confidence 47788887 799999999999999999998887 77666555
No 103
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=92.99 E-value=0.044 Score=45.96 Aligned_cols=41 Identities=20% Similarity=0.184 Sum_probs=34.2
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSFV 221 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~~ 221 (226)
.|.+++.. .+|++++|+++++|+++|+|+|+- .++.+..|+
T Consensus 199 ~i~~~~~~-~~tl~~lA~~~~~S~~~l~r~Fk~~~G~t~~~~l 240 (302)
T PRK10371 199 FIAENYDQ-ALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYI 240 (302)
T ss_pred HHHHhhcC-CCCHHHHHHHHCcCHHHHHHHHHHHhCCCHHHHH
Confidence 58888874 899999999999999999999987 466655543
No 104
>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed
Probab=92.64 E-value=2.4 Score=33.16 Aligned_cols=69 Identities=19% Similarity=0.188 Sum_probs=49.7
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCCC--------CHHHHHHHHhcCC-CCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPDM--------DGFKLLELVGLEM-DLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~--------dG~~l~~~l~~~~-~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
.+.+..++.+... .++|.|.+.-..|.. .|++.++.++... ++||++..+- +.+.+..++..|++++
T Consensus 110 ~~~t~~e~~~a~~---~gaD~v~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~v~a~GGI-~~~~i~~~~~~Ga~gv 185 (212)
T PRK00043 110 STHTLEEAAAALA---AGADYVGVGPIFPTPTKKDAKAPQGLEGLREIRAAVGDIPIVAIGGI-TPENAPEVLEAGADGV 185 (212)
T ss_pred eCCCHHHHHHHhH---cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEE
Confidence 3456677766654 338999887555543 3588888886444 4898877665 6788889999999998
Q ss_pred Ee
Q 027234 78 LT 79 (226)
Q Consensus 78 l~ 79 (226)
..
T Consensus 186 ~~ 187 (212)
T PRK00043 186 AV 187 (212)
T ss_pred EE
Confidence 84
No 105
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=92.52 E-value=0.17 Score=29.78 Aligned_cols=32 Identities=6% Similarity=0.017 Sum_probs=26.8
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
++....-.++|++.||+.+++++..+|+-|..
T Consensus 8 l~~~~G~~~~s~~~Ia~~~gvs~~~~y~~f~~ 39 (47)
T PF00440_consen 8 LFAEKGYEAVSIRDIARRAGVSKGSFYRYFPS 39 (47)
T ss_dssp HHHHHHTTTSSHHHHHHHHTSCHHHHHHHCSS
T ss_pred HHHHhCHHhCCHHHHHHHHccchhhHHHHcCC
Confidence 44455567899999999999999999998864
No 106
>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e.g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).
Probab=92.38 E-value=1.2 Score=31.34 Aligned_cols=85 Identities=13% Similarity=0.199 Sum_probs=54.2
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHH-hcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELV-GLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l-~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+|+++..+++.+- ........ .+.+++-..-.. ...++++.+ +..+.+|++++......... ..+.+-|.
T Consensus 22 lGe~~~~~~~~~~-~~~~~~~~--~~~~~v~~g~~~-~~~~~l~~l~~~~~~~Pvlllg~~~~~~~~-----~nvvg~Le 92 (109)
T PF06490_consen 22 LGEQCEAVSSSDW-SQADWSSP--WEACAVILGSCS-KLAELLKELLKWAPHIPVLLLGEHDSPEEL-----PNVVGELE 92 (109)
T ss_pred cCCCeEEecHHHH-HHhhhhcC--CcEEEEEecCch-hHHHHHHHHHhhCCCCCEEEECCCCccccc-----cCeeEecC
Confidence 5777777765433 23333332 444444332222 445666666 47789999999887766111 12778899
Q ss_pred CCCCHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHV 94 (226)
Q Consensus 80 KP~~~~~L~~~l~~~ 94 (226)
-|++..+|...+++.
T Consensus 93 ~Pl~Y~qLt~~L~~c 107 (109)
T PF06490_consen 93 EPLNYPQLTDALHRC 107 (109)
T ss_pred CCCCHHHHHHHHHHh
Confidence 999999999998874
No 107
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=92.37 E-value=0.11 Score=29.90 Aligned_cols=30 Identities=23% Similarity=0.074 Sum_probs=23.4
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..||++|+.|||.
T Consensus 9 ~i~~aL~~~~gn~~~aA~~Lgisr~tL~~k 38 (42)
T PF02954_consen 9 LIRQALERCGGNVSKAARLLGISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHTTT-HHHHHHHHTS-HHHHHHH
T ss_pred HHHHHHHHhCCCHHHHHHHHCCCHHHHHHH
Confidence 466666677889999999999999999974
No 108
>TIGR02311 HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents the aldolase which performs the final step unique to the 4-hydroxyphenylacetic acid catabolism pathway in which 2,4-dihydroxyhept-2-ene-1,7-dioic acid is split into pyruvate and succinate-semialdehyde. The gene for enzyme is generally found adjacent to other genes for this pathway organized into an operon.
Probab=92.33 E-value=2.6 Score=34.37 Aligned_cols=83 Identities=12% Similarity=0.041 Sum_probs=60.7
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc--CCCCcEEEEeccCCHHHHHHHHhCCcceEE-eCCCCHHH
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL--EMDLPVIMMCAHGSKEVVMKGVTHDACDYL-TKPVRIEE 86 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~--~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl-~KP~~~~~ 86 (226)
......+.+.... +|.|++|++-...|--++...++. .....+++=....+...+.+++..|+++.+ +|--+.++
T Consensus 21 ~~p~~~e~~~~~g--~D~v~iDlEH~~~~~~~~~~~~~a~~~~g~~~~VRv~~~~~~~i~~~Ld~Ga~gIivP~v~s~e~ 98 (249)
T TIGR02311 21 ADPYAAEICAGAG--FDWLLIDGEHAPNDVRTILSQLQALAPYPSSPVVRPAIGDPVLIKQLLDIGAQTLLVPMIETAEQ 98 (249)
T ss_pred CCcHHHHHHHhcC--CCEEEEeccCCCCCHHHHHHHHHHHHhcCCCcEEECCCCCHHHHHHHhCCCCCEEEecCcCCHHH
Confidence 3345667777654 999999999888887777776652 334455555555667789999999999987 66778888
Q ss_pred HHHHHHHH
Q 027234 87 LKNIWQHV 94 (226)
Q Consensus 87 L~~~l~~~ 94 (226)
++.+++..
T Consensus 99 a~~~v~~~ 106 (249)
T TIGR02311 99 AEAAVAAT 106 (249)
T ss_pred HHHHHHHc
Confidence 77777664
No 109
>TIGR00343 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1. This protein had been believed to be a singlet oxygen resistance protein. Subsequent work showed that it is a protein of pyridoxine (vitamin B6) biosynthesis, and that pyridoxine quenches the highly toxic singlet form of oxygen produced by light in the presence of certain chemicals.
Probab=91.57 E-value=3.5 Score=34.20 Aligned_cols=89 Identities=15% Similarity=-0.010 Sum_probs=63.5
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccC-------------------------CC-----------CCCHHHHHHHHhcCC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVH-------------------------MP-----------DMDGFKLLELVGLEM 50 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~-------------------------mp-----------~~dG~~l~~~l~~~~ 50 (226)
-|++..||+..+... +|+|=+-.. |. ...|+++++.+++..
T Consensus 120 d~~~l~EAlrai~~G---admI~Tt~e~gTg~v~~av~hlr~~~~~~~~~~~~~~~~~~~~~a~~~~~~~elLkei~~~~ 196 (287)
T TIGR00343 120 GARDLGEALRRINEG---AAMIRTKGEAGTGNIVEAVRHMRKINEEIRQIQNMLEEEDLAAVAKELRVPVELLLEVLKLG 196 (287)
T ss_pred cCCCHHHHHHHHHCC---CCEEeccccCCCccHHHHHHHHHHHHHHHHHHhcccchhHHhhhhcccCCCHHHHHHHHHhC
Confidence 467888888887743 677765521 10 125888998887666
Q ss_pred CCcEE--EEeccCCHHHHHHHHhCCcceEE-----eCCCCHHHHHHHHHHHHHHH
Q 027234 51 DLPVI--MMCAHGSKEVVMKGVTHDACDYL-----TKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 51 ~~pvI--~ls~~~~~~~~~~a~~~ga~~yl-----~KP~~~~~L~~~l~~~~~~~ 98 (226)
.+||| ...+-..++.+..++++||++++ .|.-++......+...+...
T Consensus 197 ~iPVV~fAiGGI~TPedAa~~melGAdGVaVGSaI~ks~dP~~~akafv~ai~~~ 251 (287)
T TIGR00343 197 KLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSSNPEKLAKAIVEATTHY 251 (287)
T ss_pred CCCEEEeccCCCCCHHHHHHHHHcCCCEEEEhHHhhcCCCHHHHHHHHHHHHHHc
Confidence 79998 56666689999999999999987 44556777766666665543
No 110
>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=91.29 E-value=4.1 Score=33.71 Aligned_cols=88 Identities=13% Similarity=0.051 Sum_probs=63.3
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccC---------------------------------C--CCCCHHHHHHHHhcCCC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVH---------------------------------M--PDMDGFKLLELVGLEMD 51 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~---------------------------------m--p~~dG~~l~~~l~~~~~ 51 (226)
-|++.+||+...+. ++|+|=+-+. . ....|+++++.+.+...
T Consensus 118 D~stleEal~a~~~---Gad~I~TTl~gyT~~~~~~~~~~~~i~~~i~~~~gyt~~t~~~~~~~~~~d~elLk~l~~~~~ 194 (283)
T cd04727 118 GARNLGEALRRISE---GAAMIRTKGEAGTGNVVEAVRHMRAVNGEIRKLQSMSEEELYAVAKEIQAPYELVKETAKLGR 194 (283)
T ss_pred cCCCHHHHHHHHHC---CCCEEEecCCCCCCcHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcccCCCHHHHHHHHHhcC
Confidence 47788999988874 3788877651 1 12347888988876667
Q ss_pred CcEE--EEeccCCHHHHHHHHhCCcceEEe-----CCCCHHHHHHHHHHHHHH
Q 027234 52 LPVI--MMCAHGSKEVVMKGVTHDACDYLT-----KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 52 ~pvI--~ls~~~~~~~~~~a~~~ga~~yl~-----KP~~~~~L~~~l~~~~~~ 97 (226)
+||| ...+-..++.+..+++.||++++. +.-++......+...+..
T Consensus 195 iPVV~iAeGGI~Tpena~~v~e~GAdgVaVGSAI~~a~dP~~~tk~f~~ai~~ 247 (283)
T cd04727 195 LPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSENPEKRARAIVEAVTH 247 (283)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHcCCCEEEEcHHhhcCCCHHHHHHHHHHHHHh
Confidence 9997 566666899999999999999874 334566666666555544
No 111
>PRK13503 transcriptional activator RhaS; Provisional
Probab=90.88 E-value=0.18 Score=41.42 Aligned_cols=40 Identities=10% Similarity=0.028 Sum_probs=32.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSF 220 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~ 220 (226)
.|.+++.. .+|++++|+++++|++||.|+||. +++++..|
T Consensus 179 ~I~~~~~~-~~tl~~lA~~~~lS~~~l~r~Fk~~~G~S~~~y 219 (278)
T PRK13503 179 WLEDHFAE-EVNWEALADQFSLSLRTLHRQLKQQTGLTPQRY 219 (278)
T ss_pred HHHHhhcC-CCCHHHHHHHHCCCHHHHHHHHHHHhCcCHHHH
Confidence 57788877 899999999999999999998853 35554443
No 112
>PRK15044 transcriptional regulator SirC; Provisional
Probab=90.87 E-value=0.1 Score=43.33 Aligned_cols=36 Identities=17% Similarity=0.077 Sum_probs=31.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQ 216 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~ 216 (226)
.|.+++.. .++++++|+++++|+++|+|.|+..++.
T Consensus 200 ~I~~nl~~-~~SLeeLA~~lgmS~~tL~R~Fk~eg~T 235 (295)
T PRK15044 200 IIISDLTR-KWSQAEVAGKLFMSVSSLKRKLAAEEVS 235 (295)
T ss_pred HHHhCccc-CCCHHHHHHHhCCCHHHHHHHHHHcCCC
Confidence 67788877 6999999999999999999999865443
No 113
>PRK09940 transcriptional regulator YdeO; Provisional
Probab=90.70 E-value=0.076 Score=43.37 Aligned_cols=40 Identities=5% Similarity=-0.071 Sum_probs=32.1
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQGNSF 220 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~~ 220 (226)
.|.+++.. .+|++++|+++++|+++|.|+|+..++.+..|
T Consensus 142 ~I~~~~~~-~~tl~~LA~~~gmS~s~l~R~FK~~G~T~~ey 181 (253)
T PRK09940 142 IVNMKLAH-PWKLKDICDCLYISESLLKKKLKQEQTTFSQI 181 (253)
T ss_pred HHHHhhcC-CCCHHHHHHHHCcCHHHHHHHHHHcCCCHHHH
Confidence 46666766 69999999999999999999998765554444
No 114
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=90.65 E-value=0.11 Score=33.97 Aligned_cols=40 Identities=15% Similarity=0.152 Sum_probs=29.3
Q ss_pred HHHhhCCCCCCHHHHHHHhhh-hhhhhhccc-CCCCCCCCCC
Q 027234 181 ILELMNIPGLTRENVASHLQK-HRLYLSRLS-GVSPQQGNSF 220 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~-~r~~l~r~~-~~~~~~~~~~ 220 (226)
+.+.+...++++++||..+|. +.++|+|.| +..++.|..|
T Consensus 42 a~~~l~~~~~~~~~ia~~~g~~s~~~f~r~Fk~~~g~sp~~~ 83 (84)
T smart00342 42 ARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83 (84)
T ss_pred HHHHHHcCCCCHHHHHHHhCCCChHHHHHHHHHHHCcChhhc
Confidence 344444448999999999999 999999977 4455555443
No 115
>PRK15320 transcriptional activator SprB; Provisional
Probab=90.62 E-value=0.77 Score=35.95 Aligned_cols=76 Identities=16% Similarity=0.046 Sum_probs=48.3
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|..|.+|.+....+..++.. ||.+++=.--|..--+-+-.....-++-||++++..--.....-..-.|+.+|+.|
T Consensus 27 ~~~~~t~~~l~~ll~~l~~~---p~a~lil~l~p~eh~~lf~~l~~~l~~~~v~vv~d~l~~~dr~vl~~~g~~~~~l~ 102 (251)
T PRK15320 27 EKCVKTCNSLTALLHSLSDM---PDAGLILALNPHEHVYLFHALLTRLQNRKVLVVADRLYYIDRCVLQYFGVMDYVLK 102 (251)
T ss_pred ccchhhhhhHHHHHHHHhhC---CCceEEEeeCchhHHHHHHHHHHHcCCCceEEEecceeehhhhhhhhhcchhHHHH
Confidence 34567777777777777753 77766644445544333322223456789999998766655555555788888766
No 116
>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional
Probab=90.57 E-value=5.2 Score=32.76 Aligned_cols=80 Identities=11% Similarity=0.096 Sum_probs=58.7
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh--cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC-CHHHHH
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG--LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV-RIEELK 88 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~--~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~-~~~~L~ 88 (226)
..+.+.+.... +|.|++|++-..+|--++...++ +...++.++=....+...+.++++.|+.+.+..=+ +.++.+
T Consensus 30 p~~~e~~a~~G--~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~lVRvp~~~~~~i~r~LD~Ga~giivP~v~tae~a~ 107 (256)
T PRK10558 30 PITTEVLGLAG--FDWLVLDGEHAPNDVSTFIPQLMALKGSASAPVVRVPTNEPVIIKRLLDIGFYNFLIPFVETAEEAR 107 (256)
T ss_pred cHHHHHHHhcC--CCEEEEccccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhCCCCCeeeecCcCCHHHHH
Confidence 45667777654 99999999998888877777665 33455666666667889999999999999986544 456665
Q ss_pred HHHHH
Q 027234 89 NIWQH 93 (226)
Q Consensus 89 ~~l~~ 93 (226)
.+++.
T Consensus 108 ~~v~a 112 (256)
T PRK10558 108 RAVAS 112 (256)
T ss_pred HHHHH
Confidence 55544
No 117
>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=90.56 E-value=0.83 Score=26.87 Aligned_cols=47 Identities=32% Similarity=0.352 Sum_probs=34.4
Q ss_pred eeeeHhhHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhh
Q 027234 154 LVWSVELHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHR 203 (226)
Q Consensus 154 ~~~~~~l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r 203 (226)
..||.+.+..|+.++.++|.. .-+.|-+.|. .+-|..++-+|.++++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~--~W~~Ia~~~~-~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD--NWKKIAKRMP-GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT--HHHHHHHHHS-SSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCc--HHHHHHHHcC-CCCCHHHHHHHHHhhC
Confidence 459999999999999998854 3556777766 3777788877776653
No 118
>COG4943 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]
Probab=90.45 E-value=0.16 Score=44.77 Aligned_cols=56 Identities=13% Similarity=-0.051 Sum_probs=47.3
Q ss_pred cccccCCCCCCccchHHHHHHhccCCceeeeHhhHHHHHHHHHHhCCCCCCchHHHHh
Q 027234 127 SYSVNEGTSNSRKDEEEEAEKRLKKPRLVWSVELHQQFVSAVKELGFDKAGPKKILEL 184 (226)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Fi~~~~~~g~~~~~p~~I~~~ 184 (226)
...++.....+++-.+.|++.||..+...| ..|+.||+++|+.|+....+..++++
T Consensus 284 v~YQPIV~la~GkcvGaEAL~RW~~~dG~~--vsPd~FIplAE~sG~ie~iT~~Vi~~ 339 (524)
T COG4943 284 VHYQPIVDLATGKCVGAEALARWPQEDGTV--VSPDVFIPLAEESGMIEQITDYVIRN 339 (524)
T ss_pred EEecceeEccCCcEecHHHHhcCcccCCCc--cChHHhhhHHhhcCchHHHHHHHHHH
Confidence 345666778889999999999999998886 78999999999999988777777653
No 119
>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional
Probab=90.31 E-value=2.5 Score=33.59 Aligned_cols=72 Identities=21% Similarity=0.289 Sum_probs=51.2
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccC-------CCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVH-------MPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~-------mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
..+.+.+++..... .++|+|.+... .+...++++++.++...++|++...+-.+.+.+.+++..||++.+
T Consensus 124 ~~v~t~ee~~~a~~---~G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~~iPvia~GGI~t~~~~~~~l~~GadgV~ 200 (221)
T PRK01130 124 ADCSTLEEGLAAQK---LGFDFIGTTLSGYTEETKKPEEPDFALLKELLKAVGCPVIAEGRINTPEQAKKALELGAHAVV 200 (221)
T ss_pred EeCCCHHHHHHHHH---cCCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhCCCCEEEECCCCCHHHHHHHHHCCCCEEE
Confidence 34567777765444 23888865321 122335788888876667999998888889999999999999987
Q ss_pred eC
Q 027234 79 TK 80 (226)
Q Consensus 79 ~K 80 (226)
.=
T Consensus 201 iG 202 (221)
T PRK01130 201 VG 202 (221)
T ss_pred Ec
Confidence 53
No 120
>PRK15186 AraC family transcriptional regulator; Provisional
Probab=90.05 E-value=0.12 Score=43.19 Aligned_cols=37 Identities=11% Similarity=-0.023 Sum_probs=30.3
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQG 217 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~ 217 (226)
.|..++.. .+|++++|++++||+++|+|.|+..++..
T Consensus 189 ~I~~~~~~-~~sl~~lA~~~gmS~stl~R~Fk~~g~s~ 225 (291)
T PRK15186 189 IIISDISR-KWALKDISDSLYMSCSTLKRKLKQENTSF 225 (291)
T ss_pred HHHhCccC-CCCHHHHHHHHCcCHHHHHHHHHHcCCCH
Confidence 46666665 89999999999999999999998754443
No 121
>CHL00162 thiG thiamin biosynthesis protein G; Validated
Probab=90.00 E-value=8.7 Score=31.40 Aligned_cols=94 Identities=16% Similarity=0.225 Sum_probs=64.0
Q ss_pred CcEEEE--ECCHHHHHHHHHhCCCCceEEEEccCCCCCCH-----HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCc
Q 027234 2 GFSVTK--CNRAEIALDMLRTNKNGYDIVISDVHMPDMDG-----FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDA 74 (226)
Q Consensus 2 g~~V~~--~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG-----~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga 74 (226)
||.|.. ..|..-|-++.+.. +. +++=+.-|-..| -..++.|.+++++|||+=.+-...+.+..++++|+
T Consensus 137 GF~VlPY~~~D~v~a~rLed~G---c~-aVMPlgsPIGSg~Gl~n~~~l~~i~e~~~vpVivdAGIgt~sDa~~AmElGa 212 (267)
T CHL00162 137 GFTVLPYINADPMLAKHLEDIG---CA-TVMPLGSPIGSGQGLQNLLNLQIIIENAKIPVIIDAGIGTPSEASQAMELGA 212 (267)
T ss_pred CCEEeecCCCCHHHHHHHHHcC---Ce-EEeeccCcccCCCCCCCHHHHHHHHHcCCCcEEEeCCcCCHHHHHHHHHcCC
Confidence 566652 33455555444332 32 233344443333 34567777778899999999999999999999999
Q ss_pred ceEE-----eCCCCHHHHHHHHHHHHHHHh
Q 027234 75 CDYL-----TKPVRIEELKNIWQHVVRKRK 99 (226)
Q Consensus 75 ~~yl-----~KP~~~~~L~~~l~~~~~~~~ 99 (226)
++.+ .|.-++.++...++.....-+
T Consensus 213 DgVL~nSaIakA~dP~~mA~a~~~AV~AGR 242 (267)
T CHL00162 213 SGVLLNTAVAQAKNPEQMAKAMKLAVQAGR 242 (267)
T ss_pred CEEeecceeecCCCHHHHHHHHHHHHHHHH
Confidence 9987 567888888888888765433
No 122
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=89.92 E-value=6 Score=28.81 Aligned_cols=88 Identities=14% Similarity=0.026 Sum_probs=59.8
Q ss_pred CcEEE---EECCHHHHHHHHHhCCCCceEEEEccCCCC-CCH-HHHHHHHhcC-C-CCcEEEEeccC-----C-HHHHHH
Q 027234 2 GFSVT---KCNRAEIALDMLRTNKNGYDIVISDVHMPD-MDG-FKLLELVGLE-M-DLPVIMMCAHG-----S-KEVVMK 68 (226)
Q Consensus 2 g~~V~---~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG-~~l~~~l~~~-~-~~pvI~ls~~~-----~-~~~~~~ 68 (226)
||+|. ..-+.++.++.+.+.. +|+|.+...|.. +.. -++.+.+++. . +++|+ +.+.. + .+...+
T Consensus 27 GfeVidLG~~v~~e~~v~aa~~~~--adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vi-vGG~~~i~~~d~~~~~~~ 103 (128)
T cd02072 27 GFNVVNLGVLSPQEEFIDAAIETD--ADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLY-VGGNLVVGKQDFEDVEKR 103 (128)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEE-EECCCCCChhhhHHHHHH
Confidence 78876 3457888888888866 999999888865 333 3445566533 2 44443 44431 1 234566
Q ss_pred HHhCCcceEEeCCCCHHHHHHHHH
Q 027234 69 GVTHDACDYLTKPVRIEELKNIWQ 92 (226)
Q Consensus 69 a~~~ga~~yl~KP~~~~~L~~~l~ 92 (226)
..++|++..+...-+++++...|+
T Consensus 104 L~~~Gv~~vf~pgt~~~~i~~~l~ 127 (128)
T cd02072 104 FKEMGFDRVFAPGTPPEEAIADLK 127 (128)
T ss_pred HHHcCCCEEECcCCCHHHHHHHHh
Confidence 888999999998888888876654
No 123
>PRK13502 transcriptional activator RhaR; Provisional
Probab=89.87 E-value=0.12 Score=42.55 Aligned_cols=40 Identities=8% Similarity=0.030 Sum_probs=33.5
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSF 220 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~ 220 (226)
.|.+++.. .++.+++|..+++|++||+|+|+. +++.+..|
T Consensus 184 ~I~~~~~~-~~~~~~lA~~~~iS~~~L~r~fk~~~G~t~~~y 224 (282)
T PRK13502 184 ALANSLEC-PFALDAFCQQEQCSERVLRQQFRAQTGMTINQY 224 (282)
T ss_pred HHHhcccC-CCCHHHHHHHHCcCHHHHHHHHHHHHCcCHHHH
Confidence 47778877 599999999999999999999985 67765544
No 124
>PRK15185 transcriptional regulator HilD; Provisional
Probab=89.76 E-value=0.14 Score=42.90 Aligned_cols=39 Identities=15% Similarity=-0.021 Sum_probs=31.1
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQGNS 219 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~ 219 (226)
.|.+++.. .++++++|+++++|+++|+|.|+..++++..
T Consensus 214 ~I~~n~~~-~~SledLA~~lgmS~~tL~R~FK~~G~S~~~ 252 (309)
T PRK15185 214 IISSSPSR-QWKLTDVADHIFMSTSTLKRKLAEEGTSFSD 252 (309)
T ss_pred HHHhCccC-CCCHHHHHHHHCcCHHHHHHHHHHcCCCHHH
Confidence 46666665 7899999999999999999999865555443
No 125
>COG2207 AraC AraC-type DNA-binding domain-containing proteins [Transcription]
Probab=89.71 E-value=0.085 Score=37.43 Aligned_cols=37 Identities=32% Similarity=0.229 Sum_probs=29.4
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccC-CCCCCCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSG-VSPQQGN 218 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~-~~~~~~~ 218 (226)
|.+++.. +++++.||.++++|+.+|.|.|+ ..+..+.
T Consensus 29 i~~~~~~-~~~l~~la~~~g~S~~~l~r~f~~~~g~s~~ 66 (127)
T COG2207 29 IEENLAE-PLTLEDLARRLGMSRRTLSRLFKKETGTSPS 66 (127)
T ss_pred HHHHhcC-CCCHHHHHHHHCCCHHHHHHHHHHHHCCCHH
Confidence 5565555 69999999999999999999887 5555443
No 126
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=89.69 E-value=0.12 Score=30.67 Aligned_cols=34 Identities=21% Similarity=0.235 Sum_probs=21.4
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQ 215 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~ 215 (226)
|+..... +.|..+||.+|++|++.+||..+--.+
T Consensus 10 ii~l~~~-G~s~~~ia~~lgvs~~Tv~~w~kr~~~ 43 (50)
T PF13384_consen 10 IIRLLRE-GWSIREIAKRLGVSRSTVYRWIKRYRE 43 (50)
T ss_dssp HHHHHHH-T--HHHHHHHHTS-HHHHHHHHT----
T ss_pred HHHHHHC-CCCHHHHHHHHCcCHHHHHHHHHHccc
Confidence 4444444 999999999999999999986554333
No 127
>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase. In E. coli this enzyme (GarL, ) 2-dehydro-3-deoxyglucarate aldolase acts in the catabolism of several sugars including D-galactarate, D-glucarate and L-idarate. In fact, 5-dehydro-4-deoxy-D-glucarate aldolase is a synonym for this enzyme as it is unclear in the literature whether the enzyme acts on only one of these or, as seems likely, has no preference. (Despite the apparent large difference in substrate stucture indicated by their names, 2-DH-3DO- and 5-DH-4DO-glucarate differ only by the chirality of most central hydroxyl-bearing carbon and is alternately named 2-DH-3DO-galactarate.) The reported product of D-galactarate dehydratase (4.2.1.42) is the 5DH-4DO-glucarate isomer and this enzyme is found proximal to the aldolase in many genomes (GenProp0714) where no epimerase is known. Similarly, the product of D-glucarate dehydratase (4.2.1.40) is again the 5-DH-4DO isomer, so the provenance of the 2-DH-3DO-glucarate isomer for which
Probab=89.30 E-value=5.4 Score=32.55 Aligned_cols=81 Identities=11% Similarity=0.089 Sum_probs=59.1
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh--cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC-CHHHH
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG--LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV-RIEEL 87 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~--~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~-~~~~L 87 (226)
...+.+.+.... +|.|++|++-..+|--++...++ +...++.++=....+...+.++++.|+.+.+..=+ +.++.
T Consensus 22 sp~~~e~~a~~G--~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~VRvp~~~~~~i~r~LD~Ga~gIivP~v~taeea 99 (249)
T TIGR03239 22 NPITTEVLGLAG--FDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVVRPPWNEPVIIKRLLDIGFYNFLIPFVESAEEA 99 (249)
T ss_pred CcHHHHHHHhcC--CCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhcCCCCEEEecCcCCHHHH
Confidence 345667777644 99999999998888777777665 33455556656667889999999999999986544 45666
Q ss_pred HHHHHH
Q 027234 88 KNIWQH 93 (226)
Q Consensus 88 ~~~l~~ 93 (226)
+.+++.
T Consensus 100 ~~~v~a 105 (249)
T TIGR03239 100 ERAVAA 105 (249)
T ss_pred HHHHHH
Confidence 555543
No 128
>COG4977 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]
Probab=89.28 E-value=0.3 Score=41.39 Aligned_cols=41 Identities=20% Similarity=0.196 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+.++..+++. +..++.. .++++++|.++++|+++|-|+|+.
T Consensus 219 ~~~l~~~i~~----------me~nle~-plsl~~LA~~~~~S~R~leRlF~~ 259 (328)
T COG4977 219 DPRLLRAIEL----------MEANLEE-PLSLEELADRAGLSRRQLERLFRA 259 (328)
T ss_pred CHHHHHHHHH----------HHHhhcC-CcCHHHHHHHhCCCHHHHHHHHHH
Confidence 4556555555 6677777 899999999999999999998764
No 129
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=88.94 E-value=3 Score=34.81 Aligned_cols=67 Identities=9% Similarity=0.027 Sum_probs=46.6
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHH---HHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLE---LVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~---~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+.+.+.++|.+.+.. ++|+|++| +|+--++-+ .++....-..+..|+.-+.+.+......|+|.+-
T Consensus 203 eVEv~tl~ea~eal~~---gaDiI~LD----nm~~e~vk~av~~~~~~~~~v~ieaSGGI~~~ni~~yA~tGvD~Is 272 (289)
T PRK07896 203 EVEVDSLEQLDEVLAE---GAELVLLD----NFPVWQTQEAVQRRDARAPTVLLESSGGLTLDTAAAYAETGVDYLA 272 (289)
T ss_pred EEEcCCHHHHHHHHHc---CCCEEEeC----CCCHHHHHHHHHHHhccCCCEEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 4578899999999874 38999999 344333322 3332333335678888999999999999988654
No 130
>TIGR01334 modD putative molybdenum utilization protein ModD. The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.
Probab=88.92 E-value=3.1 Score=34.55 Aligned_cols=69 Identities=16% Similarity=0.167 Sum_probs=47.7
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+.+.+.++|.+.+.. ++|+|++| +|+..+=.+..+.++....-..+-.|+.-+.+.+......|++-+.
T Consensus 193 VEv~tleea~ea~~~---GaDiI~lD-n~~~e~l~~~v~~l~~~~~~~~leasGGI~~~ni~~ya~~GvD~is 261 (277)
T TIGR01334 193 VEADTIEQALTVLQA---SPDILQLD-KFTPQQLHHLHERLKFFDHIPTLAAAGGINPENIADYIEAGIDLFI 261 (277)
T ss_pred EECCCHHHHHHHHHc---CcCEEEEC-CCCHHHHHHHHHHHhccCCCEEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467899999999874 38999999 3433333333444442222335678888999999888888988654
No 131
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=88.78 E-value=0.39 Score=27.88 Aligned_cols=29 Identities=28% Similarity=0.441 Sum_probs=18.6
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|..... .|.+..+||..|++|++.++|.
T Consensus 12 ~I~~l~~-~G~s~~~IA~~lg~s~sTV~re 40 (44)
T PF13936_consen 12 QIEALLE-QGMSIREIAKRLGRSRSTVSRE 40 (44)
T ss_dssp HHHHHHC-S---HHHHHHHTT--HHHHHHH
T ss_pred HHHHHHH-cCCCHHHHHHHHCcCcHHHHHH
Confidence 3555554 5999999999999999998873
No 132
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=88.57 E-value=0.15 Score=27.62 Aligned_cols=23 Identities=30% Similarity=0.364 Sum_probs=16.9
Q ss_pred CCCHHHHHHHhhhhhhhhhcccC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.+|+++||+.++.+|..+.|+++
T Consensus 2 ~mtr~diA~~lG~t~ETVSR~l~ 24 (32)
T PF00325_consen 2 PMTRQDIADYLGLTRETVSRILK 24 (32)
T ss_dssp E--HHHHHHHHTS-HHHHHHHHH
T ss_pred CcCHHHHHHHhCCcHHHHHHHHH
Confidence 36899999999999999888643
No 133
>PRK12704 phosphodiesterase; Provisional
Probab=88.48 E-value=1.3 Score=40.13 Aligned_cols=45 Identities=16% Similarity=0.169 Sum_probs=39.2
Q ss_pred CcEEEEeccCCHH--HHHHHHhCCcceEEeCCCCHHHHHHHHHHHHH
Q 027234 52 LPVIMMCAHGSKE--VVMKGVTHDACDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 52 ~pvI~ls~~~~~~--~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
..+|++|+++... .+..++..++.|+..||+..+++...++.-+.
T Consensus 250 p~~v~ls~~~~~rre~a~~~l~~l~~dg~i~P~~iee~~~~~~~~~~ 296 (520)
T PRK12704 250 PEAVILSGFDPIRREIARLALEKLVQDGRIHPARIEEMVEKARKEVD 296 (520)
T ss_pred CCeEEEecCChhhHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHHH
Confidence 3588899988775 88999999999999999999999988887665
No 134
>PLN02591 tryptophan synthase
Probab=88.43 E-value=2.6 Score=34.38 Aligned_cols=56 Identities=9% Similarity=0.177 Sum_probs=42.7
Q ss_pred HHHHHHHHhcCCCCcEEEEeccCC------HHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 39 GFKLLELVGLEMDLPVIMMCAHGS------KEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 39 G~~l~~~l~~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
.+++++.++...++|+|+|+-.+. .....++.++|+++.|.-.+..++........
T Consensus 66 ~~~~~~~~r~~~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~ 127 (250)
T PLN02591 66 VISMLKEVAPQLSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEA 127 (250)
T ss_pred HHHHHHHHhcCCCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence 366667776557789988876553 24578899999999999999988887766655
No 135
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=88.35 E-value=5.7 Score=27.93 Aligned_cols=75 Identities=15% Similarity=0.188 Sum_probs=44.4
Q ss_pred CcEEEEE---CCHHHHHHHHHhCCCCceEEEEccC-CCCC-CHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHh--CC
Q 027234 2 GFSVTKC---NRAEIALDMLRTNKNGYDIVISDVH-MPDM-DGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVT--HD 73 (226)
Q Consensus 2 g~~V~~~---~~~~eal~~l~~~~~~~DlVl~D~~-mp~~-dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~--~g 73 (226)
||+|... .+.++..+.+.... ||+|.+... .+.. ...++++.++. .++++++ +-+..-.......++ .|
T Consensus 28 G~~v~~~d~~~~~~~l~~~~~~~~--pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv-~GG~~~t~~~~~~l~~~~~ 104 (121)
T PF02310_consen 28 GHEVDILDANVPPEELVEALRAER--PDVVGISVSMTPNLPEAKRLARAIKERNPNIPIV-VGGPHATADPEEILREYPG 104 (121)
T ss_dssp TBEEEEEESSB-HHHHHHHHHHTT--CSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEE-EEESSSGHHHHHHHHHHHT
T ss_pred CCeEEEECCCCCHHHHHHHHhcCC--CcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEE-EECCchhcChHHHhccCcC
Confidence 7887755 24577778888866 999999984 4443 34566677764 4555555 444333333333343 56
Q ss_pred cceEEe
Q 027234 74 ACDYLT 79 (226)
Q Consensus 74 a~~yl~ 79 (226)
+|..+.
T Consensus 105 ~D~vv~ 110 (121)
T PF02310_consen 105 IDYVVR 110 (121)
T ss_dssp SEEEEE
T ss_pred cceecC
Confidence 665443
No 136
>cd04729 NanE N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of related sugars that are found as a component of glycoproteins, gangliosides, and other sialoglycoconjugates.
Probab=88.33 E-value=4.4 Score=32.14 Aligned_cols=71 Identities=23% Similarity=0.283 Sum_probs=50.7
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccC-------CCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVH-------MPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~-------mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.+.+.+++...... ++|.+.+... .....++++++.++...++|++...+-.+.+.+.+++..||++.+.
T Consensus 129 ~v~t~~ea~~a~~~---G~d~i~~~~~g~t~~~~~~~~~~~~~l~~i~~~~~ipvia~GGI~~~~~~~~~l~~GadgV~v 205 (219)
T cd04729 129 DISTLEEALNAAKL---GFDIIGTTLSGYTEETAKTEDPDFELLKELRKALGIPVIAEGRINSPEQAAKALELGADAVVV 205 (219)
T ss_pred ECCCHHHHHHHHHc---CCCEEEccCccccccccCCCCCCHHHHHHHHHhcCCCEEEeCCCCCHHHHHHHHHCCCCEEEE
Confidence 45677777655542 3888755321 1123457888888765689999988888899999999999999875
Q ss_pred C
Q 027234 80 K 80 (226)
Q Consensus 80 K 80 (226)
-
T Consensus 206 G 206 (219)
T cd04729 206 G 206 (219)
T ss_pred c
Confidence 3
No 137
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=88.29 E-value=2.8 Score=33.96 Aligned_cols=56 Identities=9% Similarity=0.158 Sum_probs=39.8
Q ss_pred HHHHHHHHhcCCCCcEEEEeccCC------HHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 39 GFKLLELVGLEMDLPVIMMCAHGS------KEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 39 G~~l~~~l~~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
++++++.++...++|+++|+-.+. ......+.++|+++.+.-....+++...++.+
T Consensus 64 ~~~~~~~vr~~~~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giiipDl~~ee~~~~~~~~ 125 (242)
T cd04724 64 VLELVKEIRKKNTIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLIIPDLPPEEAEEFREAA 125 (242)
T ss_pred HHHHHHHHhhcCCCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHH
Confidence 455666666555789888776553 55677889999999999777777665555544
No 138
>PRK10572 DNA-binding transcriptional regulator AraC; Provisional
Probab=88.27 E-value=0.34 Score=40.10 Aligned_cols=40 Identities=18% Similarity=0.063 Sum_probs=31.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCC-CCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVS-PQQGNSF 220 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~-~~~~~~~ 220 (226)
.|..++.. .++++++|+++++|++||.|+||-. ++.+..|
T Consensus 191 ~i~~~~~~-~isl~~lA~~~~lS~~~l~r~Fk~~~G~tp~~~ 231 (290)
T PRK10572 191 YISDHLAS-EFDIESVAQHVCLSPSRLAHLFRQQLGISVLRW 231 (290)
T ss_pred HHHhcccC-CCCHHHHHHHHCCCHHHHHHHHHHHHCcCHHHH
Confidence 46677774 9999999999999999999988764 5555444
No 139
>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional
Probab=88.11 E-value=7.7 Score=32.03 Aligned_cols=80 Identities=15% Similarity=0.127 Sum_probs=57.1
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh--cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCH-HHHH
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG--LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRI-EELK 88 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~--~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~-~~L~ 88 (226)
-.+.+.+.... +|.|++|++-...|--++...++ ....++.++-....+...+.++++.||.+.+..=++. ++.+
T Consensus 29 p~~~E~~a~~G--fD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~lVRvp~~~~~~i~r~LD~GA~GIivP~V~saeeA~ 106 (267)
T PRK10128 29 SYMAEIAATSG--YDWLLIDGEHAPNTIQDLYHQLQAIAPYASQPVIRPVEGSKPLIKQVLDIGAQTLLIPMVDTAEQAR 106 (267)
T ss_pred cHHHHHHHHcC--CCEEEEccccCCCCHHHHHHHHHHHHhcCCCeEEECCCCCHHHHHHHhCCCCCeeEecCcCCHHHHH
Confidence 45566676644 99999999998887777766664 3344555555566778889999999999999776544 5555
Q ss_pred HHHHH
Q 027234 89 NIWQH 93 (226)
Q Consensus 89 ~~l~~ 93 (226)
.+++.
T Consensus 107 ~~V~a 111 (267)
T PRK10128 107 QVVSA 111 (267)
T ss_pred HHHHh
Confidence 44443
No 140
>TIGR00007 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase. Examples of this enzyme in Actinobacteria have been found to be bifunctional, also possessing phosphoribosylanthranilate isomerase activity ; the trusted cutoff here has now been raised to 275.0 to exclude the bifunctional group, now represented by model TIGR01919. HisA from Lactococcus lactis was reported to be inactive (MEDLINE:93322317).
Probab=87.87 E-value=4 Score=32.56 Aligned_cols=68 Identities=16% Similarity=0.183 Sum_probs=49.9
Q ss_pred CHHHHHHHHHhCCCCce-EEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYD-IVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~D-lVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+..+.+.+.. ++ ++++|+.--++ .| +++++.+++...+|+++-.+-.+.+.+.+++..||++.+.
T Consensus 146 ~~~~~~~~~~~~g--~~~ii~~~~~~~g~~~g~~~~~i~~i~~~~~ipvia~GGi~~~~di~~~~~~Gadgv~i 217 (230)
T TIGR00007 146 SLEELAKRLEELG--LEGIIYTDISRDGTLSGPNFELTKELVKAVNVPVIASGGVSSIDDLIALKKLGVYGVIV 217 (230)
T ss_pred CHHHHHHHHHhCC--CCEEEEEeecCCCCcCCCCHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHCCCCEEEE
Confidence 4455556565543 67 77788854332 22 6778888766789999888888999999999999999875
No 141
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=87.80 E-value=0.24 Score=30.88 Aligned_cols=33 Identities=30% Similarity=0.355 Sum_probs=24.0
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGVS 213 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~ 213 (226)
|.+.|...++|...+|...+++++.++++++-.
T Consensus 2 L~~~m~~~~it~~~La~~~gis~~tl~~~~~~~ 34 (63)
T PF13443_consen 2 LKELMAERGITQKDLARKTGISRSTLSRILNGK 34 (63)
T ss_dssp HHHHHHHTT--HHHHHHHHT--HHHHHHHHTTT
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcc
Confidence 455677779999999999999999999987744
No 142
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=87.80 E-value=0.3 Score=33.13 Aligned_cols=32 Identities=13% Similarity=0.269 Sum_probs=26.8
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.|...+.. +.|..+||..+++||+.+||+.+.
T Consensus 42 ~I~~ll~~-G~S~~eIA~~LgISrsTIyRi~R~ 73 (88)
T TIGR02531 42 QVAKMLKQ-GKTYSDIEAETGASTATISRVKRC 73 (88)
T ss_pred HHHHHHHC-CCCHHHHHHHHCcCHHHHHHHHHh
Confidence 36566666 899999999999999999997763
No 143
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=87.29 E-value=0.41 Score=34.63 Aligned_cols=38 Identities=21% Similarity=0.253 Sum_probs=30.3
Q ss_pred hCCCCCCchHHHHhh-CCCCCCHHHHHHHhhhhhhhhhc
Q 027234 171 LGFDKAGPKKILELM-NIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 171 ~g~~~~~p~~I~~~~-~~~~lt~~~va~~l~~~r~~l~r 208 (226)
+|+....-.....++ .+..+|++.||+.|+.+|+..||
T Consensus 23 ~GLs~~Dv~v~~~LL~~~~~~tvdelae~lnr~rStv~r 61 (126)
T COG3355 23 YGLSELDVEVYKALLEENGPLTVDELAEILNRSRSTVYR 61 (126)
T ss_pred hCCcHHHHHHHHHHHhhcCCcCHHHHHHHHCccHHHHHH
Confidence 466665555666666 57799999999999999998776
No 144
>PRK09393 ftrA transcriptional activator FtrA; Provisional
Probab=87.20 E-value=0.47 Score=40.03 Aligned_cols=41 Identities=7% Similarity=-0.065 Sum_probs=32.6
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCC-CCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVS-PQQGNSFV 221 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~-~~~~~~~~ 221 (226)
.|.+++.. .++++++|+++++|+++|+|+|+-. ++.+..|+
T Consensus 226 ~i~~~~~~-~~sl~~lA~~~~~S~~~l~r~fk~~~g~s~~~~~ 267 (322)
T PRK09393 226 WMRAHLAE-PHTVASLAARAAMSPRTFLRRFEAATGMTPAEWL 267 (322)
T ss_pred HHHhccCC-CCCHHHHHHHHCcCHHHHHHHHHHHHCcCHHHHH
Confidence 46677666 6999999999999999999988753 66655543
No 145
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=87.13 E-value=7.6 Score=36.72 Aligned_cols=93 Identities=11% Similarity=-0.061 Sum_probs=62.3
Q ss_pred CcEEEE---ECCHHHHHHHHHhCCCCceEEEEccCCCCC--CHHHHHHHHhcCCCCcE-EEEeccCCHHHHHHHHhCCcc
Q 027234 2 GFSVTK---CNRAEIALDMLRTNKNGYDIVISDVHMPDM--DGFKLLELVGLEMDLPV-IMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 2 g~~V~~---~~~~~eal~~l~~~~~~~DlVl~D~~mp~~--dG~~l~~~l~~~~~~pv-I~ls~~~~~~~~~~a~~~ga~ 75 (226)
||+|.. ..+.+++.+...+.. +|+|.+...+... ..-.+++.|+....-.+ |++.+....+........|++
T Consensus 610 GfeV~~~~~~~s~e~~v~aa~~~~--a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~vl~GG~~~~~~~~~l~~aGvD 687 (714)
T PRK09426 610 GFDVDIGPLFQTPEEAARQAVEND--VHVVGVSSLAAGHKTLVPALIEALKKLGREDIMVVVGGVIPPQDYDFLYEAGVA 687 (714)
T ss_pred CeeEecCCCCCCHHHHHHHHHHcC--CCEEEEeccchhhHHHHHHHHHHHHhcCCCCcEEEEeCCCChhhHHHHHhCCCC
Confidence 788753 246788888887765 8988877665442 34456677775432123 345544234444567889999
Q ss_pred eEEeCCCCHHHHHHHHHHHHH
Q 027234 76 DYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 76 ~yl~KP~~~~~L~~~l~~~~~ 96 (226)
+|+..-.+..++...+.+.+.
T Consensus 688 ~~i~~g~d~~~~L~~l~~~l~ 708 (714)
T PRK09426 688 AIFGPGTVIADAAIDLLELLS 708 (714)
T ss_pred EEECCCCCHHHHHHHHHHHHH
Confidence 999999998888877777664
No 146
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=86.77 E-value=3.6 Score=33.74 Aligned_cols=56 Identities=11% Similarity=0.205 Sum_probs=42.1
Q ss_pred HHHHHHHHh-cCCCCcEEEEeccCC------HHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 39 GFKLLELVG-LEMDLPVIMMCAHGS------KEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 39 G~~l~~~l~-~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
.+++++.++ ..+++|+++|+-... .....++.++|+++.|.-.+..++....+...
T Consensus 76 ~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~ 138 (258)
T PRK13111 76 VFELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAA 138 (258)
T ss_pred HHHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHH
Confidence 366667776 557899998885442 35678899999999999888888777666554
No 147
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=86.42 E-value=0.075 Score=33.97 Aligned_cols=39 Identities=28% Similarity=0.309 Sum_probs=29.5
Q ss_pred hCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 171 LGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 171 ~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
+|+....-+....++.....|..+||..++++|+..|+.
T Consensus 4 ~gLs~~E~~vy~~Ll~~~~~t~~eIa~~l~i~~~~v~~~ 42 (68)
T PF01978_consen 4 LGLSENEAKVYLALLKNGPATAEEIAEELGISRSTVYRA 42 (68)
T ss_dssp HCHHHHHHHHHHHHHHHCHEEHHHHHHHHTSSHHHHHHH
T ss_pred CCcCHHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHH
Confidence 444444444556666777999999999999999988874
No 148
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=86.12 E-value=4.4 Score=33.17 Aligned_cols=56 Identities=18% Similarity=0.202 Sum_probs=42.0
Q ss_pred HHHHHHHHhcC-CCCcEEEEeccCC------HHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 39 GFKLLELVGLE-MDLPVIMMCAHGS------KEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 39 G~~l~~~l~~~-~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
.+++++.++.. .++|+++|+-... .....++.++|+++.+.-....++....++.+
T Consensus 74 ~~~~v~~ir~~~~~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~ 136 (256)
T TIGR00262 74 CFELLKKVRQKHPNIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAA 136 (256)
T ss_pred HHHHHHHHHhcCCCCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHH
Confidence 45556777644 6889887776654 46788899999999999988888776655554
No 149
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=86.11 E-value=5.6 Score=33.13 Aligned_cols=70 Identities=9% Similarity=0.087 Sum_probs=47.3
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+.+.+.++|.+.++.. +|+|++| +|+..+=-+..+.++....-..+-.|+.-+.+.+......|+|-..
T Consensus 193 eVEv~tleqa~ea~~ag---aDiI~LD-n~~~e~l~~av~~~~~~~~~~~leaSGGI~~~ni~~yA~tGvD~Is 262 (284)
T PRK06096 193 VVEADTPKEAIAALRAQ---PDVLQLD-KFSPQQATEIAQIAPSLAPHCTLSLAGGINLNTLKNYADCGIRLFI 262 (284)
T ss_pred EEECCCHHHHHHHHHcC---CCEEEEC-CCCHHHHHHHHHHhhccCCCeEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 35678999999998743 8999999 3332222233333332122345678888999999998899988654
No 150
>PRK15340 transcriptional regulator InvF; Provisional
Probab=86.09 E-value=0.4 Score=38.22 Aligned_cols=47 Identities=11% Similarity=0.014 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
-..|++..|.-|+ ...|++.... ..+++++|+++++|++||+|+|+-
T Consensus 102 ~~~~~r~~e~y~l----~~~Ll~~~~~-~~sleeLA~~~gvS~r~f~RlFk~ 148 (216)
T PRK15340 102 VLALLRKSESYWL----VGYLLAQSTS-GNTMRMLGEDYGVSYTHFRRLCSR 148 (216)
T ss_pred HHHHHHHHHHHHH----HHHHHhCccC-CCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3455555554432 1134444443 689999999999999999998875
No 151
>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated
Probab=86.02 E-value=5.4 Score=31.81 Aligned_cols=68 Identities=13% Similarity=0.120 Sum_probs=50.5
Q ss_pred CHHHHHHHHHhCCCCce-EEEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCC-cceEEe
Q 027234 10 RAEIALDMLRTNKNGYD-IVISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHD-ACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~D-lVl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~g-a~~yl~ 79 (226)
+..+..+.+.... ++ ++++|...-+ ..| +++++.+++...+|+|.-.+-.+.+.+.++++.| +++.+.
T Consensus 147 ~~~e~~~~~~~~g--~~~ii~~~~~~~g~~~G~d~~~i~~l~~~~~ipvia~GGi~~~~di~~~~~~g~~~gv~v 219 (233)
T PRK00748 147 TAEDLAKRFEDAG--VKAIIYTDISRDGTLSGPNVEATRELAAAVPIPVIASGGVSSLDDIKALKGLGAVEGVIV 219 (233)
T ss_pred CHHHHHHHHHhcC--CCEEEEeeecCcCCcCCCCHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCccEEEE
Confidence 3456666666543 66 7888876433 244 6788888766679999888888999999999988 998875
No 152
>PF02001 DUF134: Protein of unknown function DUF134; InterPro: IPR002852 The bacterial and archaeal proteins in this family have no known function.
Probab=85.93 E-value=0.34 Score=33.98 Aligned_cols=30 Identities=23% Similarity=0.428 Sum_probs=25.4
Q ss_pred HHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 182 LELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 182 ~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
+.+++-.++++++-|..||+||..|.|+..
T Consensus 50 iRL~D~egl~QeeaA~~MgVSR~T~~ril~ 79 (106)
T PF02001_consen 50 IRLVDYEGLSQEEAAERMGVSRPTFQRILE 79 (106)
T ss_pred HHHHHHcCCCHHHHHHHcCCcHHHHHHHHH
Confidence 345667799999999999999999998754
No 153
>TIGR02366 DHAK_reg probable dihydroxyacetone kinase regulator. The seed alignment for this family was built from a set of closely related uncharacterized proteins associated with operons for the type of bacterial dihydroxyacetone kinase that transfers PEP-derived phosphate from a phosphoprotein, as in phosphotransferase system transport, rather than from ATP. Members have a TetR transcriptional regulator domain (pfam00440) at the N-terminus and sequence homology throughout.
Probab=85.91 E-value=1.1 Score=33.96 Aligned_cols=32 Identities=13% Similarity=0.127 Sum_probs=26.9
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+++...-+.+|+++||.+-+++|+.||+=|+.
T Consensus 15 Ll~~k~~~~ITV~~I~~~AgvsR~TFY~hF~d 46 (176)
T TIGR02366 15 LMEVQAFSKISVSDIMSTAQIRRQTFYNHFQD 46 (176)
T ss_pred HHHHCCCccCCHHHHHHHhCCCHHHHHHHCCC
Confidence 45556677899999999999999999987763
No 154
>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl
Probab=85.80 E-value=6 Score=31.85 Aligned_cols=69 Identities=23% Similarity=0.199 Sum_probs=53.2
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.+..+.++.+.... -.++++|+..-++ .| +++++.+.+...+|+++-.+-.+.+.+.+++..|+++.+.
T Consensus 146 ~~~~~~~~~~~~~~--~~li~~di~~~G~~~g~~~~~~~~i~~~~~ipvi~~GGi~s~edi~~l~~~G~~~viv 217 (233)
T cd04723 146 IGPEELLRRLAKWP--EELIVLDIDRVGSGQGPDLELLERLAARADIPVIAAGGVRSVEDLELLKKLGASGALV 217 (233)
T ss_pred CCHHHHHHHHHHhC--CeEEEEEcCccccCCCcCHHHHHHHHHhcCCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence 35677777776542 4699999976542 33 6677888766789999888889999999999999998874
No 155
>cd00564 TMP_TenI Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl) thiazole phosphate to yield thiamine phosphate. TenI is a enzymatically inactive regulatory protein involved in the regulation of several extracellular enzymes. This superfamily also contains other enzymatically inactive proteins with unknown functions.
Probab=85.60 E-value=7 Score=29.83 Aligned_cols=68 Identities=21% Similarity=0.181 Sum_probs=48.5
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCCC--------CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMPD--------MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp~--------~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+.+..++.+.... ++|.|+++-..|. ..|++.++.++...++||++..+- +.+.+..+...|++++..
T Consensus 102 ~~t~~~~~~~~~~---g~d~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~a~GGi-~~~~i~~~~~~Ga~~i~~ 177 (196)
T cd00564 102 THSLEEALRAEEL---GADYVGFGPVFPTPTKPGAGPPLGLELLREIAELVEIPVVAIGGI-TPENAAEVLAAGADGVAV 177 (196)
T ss_pred CCCHHHHHHHhhc---CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhCCCCEEEECCC-CHHHHHHHHHcCCCEEEE
Confidence 3456676665542 3899988755442 356788888876577898877765 567888899999998764
No 156
>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=84.98 E-value=0.43 Score=32.70 Aligned_cols=33 Identities=15% Similarity=0.087 Sum_probs=27.1
Q ss_pred CCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCC
Q 027234 187 IPGLTRENVASHLQKHRLYLSRLSGVSPQQGNS 219 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~ 219 (226)
..++|..+||.++|+|+++..|..+.-...+++
T Consensus 53 ~~~~tQrEIa~~lGiS~atIsR~sn~lk~~~~~ 85 (94)
T TIGR01321 53 NGNMSQREIASKLGVSIATITRGSNNLKTMDPN 85 (94)
T ss_pred hCCCCHHHHHHHhCCChhhhhHHHhhcccCCHH
Confidence 358999999999999999999987766654443
No 157
>PRK13587 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=84.93 E-value=8.4 Score=31.08 Aligned_cols=68 Identities=13% Similarity=0.091 Sum_probs=51.1
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
..+.++.+.... .-.++++|+..-++ .| +++++.+.+..++|+++-.+-.+.+.+.++++.|+++.+.
T Consensus 150 ~~~~~~~~~~~g-~~~ii~tdi~~dGt~~G~~~~li~~l~~~~~ipvi~~GGi~s~edi~~l~~~G~~~viv 220 (234)
T PRK13587 150 LFSFVRQLSDIP-LGGIIYTDIAKDGKMSGPNFELTGQLVKATTIPVIASGGIRHQQDIQRLASLNVHAAII 220 (234)
T ss_pred HHHHHHHHHHcC-CCEEEEecccCcCCCCccCHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence 355555555432 13799999987553 44 6677888766789999888888999999999999999885
No 158
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=84.78 E-value=9.1 Score=32.24 Aligned_cols=72 Identities=17% Similarity=0.144 Sum_probs=53.3
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCC-----CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMP-----DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp-----~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
..+.+.++|....+. ++|.|++.-.-. ...-+.++..++...++|||.--+-.+.+.+..++..||++...=
T Consensus 114 ~~v~s~~~a~~a~~~---GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaaGGI~~~~~~~~al~~GA~gV~iG 190 (307)
T TIGR03151 114 PVVASVALAKRMEKA---GADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAAGGIADGRGMAAAFALGAEAVQMG 190 (307)
T ss_pred EEcCCHHHHHHHHHc---CCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEECCCCCHHHHHHHHHcCCCEeecc
Confidence 356788888766553 389988744311 223588888887666799998888888999999999999997743
No 159
>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=84.42 E-value=8.7 Score=31.83 Aligned_cols=67 Identities=18% Similarity=0.178 Sum_probs=46.6
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh---cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG---LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~---~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+.+++.+||.+.++. ++|+|.+|- |+--++-+.++ ....-..|..|+.-+.+.+.+....|+|.+-.
T Consensus 187 VEv~tleea~~A~~~---GaDiI~LDn----~~~e~l~~~v~~~~~~~~~~~ieAsGgIt~~ni~~ya~~GvD~Isv 256 (273)
T PRK05848 187 IECESLEEAKNAMNA---GADIVMCDN----MSVEEIKEVVAYRNANYPHVLLEASGNITLENINAYAKSGVDAISS 256 (273)
T ss_pred EEeCCHHHHHHHHHc---CCCEEEECC----CCHHHHHHHHHHhhccCCCeEEEEECCCCHHHHHHHHHcCCCEEEe
Confidence 478899999999874 389999883 33333333333 11122356688888999999999999987653
No 160
>PRK15399 lysine decarboxylase LdcC; Provisional
Probab=84.37 E-value=11 Score=35.68 Aligned_cols=91 Identities=16% Similarity=0.067 Sum_probs=58.1
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
||+|..+.+..++...+++. ...+.|++|..-. ...+++.++ .+..+||++++.......+-...-.-+++|+..
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~~Pv~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (713)
T PRK15399 30 GFQTIWPQNSVDLLKFIEHN-PRICGVIFDWDEY---SLDLCSDINQLNEYLPLYAFINTHSTMDVSVQDMRMALWFFEY 105 (713)
T ss_pred CcEEEEecCHHHHHHHHhcc-cceeEEEEecccc---hHHHHHHHHHhCCCCCEEEEcCccccccCChhHhhhcceeeee
Confidence 89999999999999998854 5688999995332 355788776 668999999876543332222222235566654
Q ss_pred CC-CHHHHHHHHHHHHH
Q 027234 81 PV-RIEELKNIWQHVVR 96 (226)
Q Consensus 81 P~-~~~~L~~~l~~~~~ 96 (226)
-- +.+.+...+....+
T Consensus 106 ~~~~~~~~a~~i~~~~~ 122 (713)
T PRK15399 106 ALGAAEDIAIRIRQYTN 122 (713)
T ss_pred ccCCHHHHHHHHHHHHH
Confidence 32 34444444444433
No 161
>PRK13501 transcriptional activator RhaR; Provisional
Probab=84.35 E-value=0.55 Score=38.91 Aligned_cols=31 Identities=10% Similarity=0.003 Sum_probs=27.1
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+++.. .++++++|+++++|++||+|+|+
T Consensus 184 ~I~~~~~e-~~sl~~lA~~~~lS~~~l~r~Fk 214 (290)
T PRK13501 184 ALQQSLGA-YFDMADFCHKNQLVERSLKQLFR 214 (290)
T ss_pred HHHHhhcc-CCCHHHHHHHHCcCHHHHHHHHH
Confidence 46677766 79999999999999999999876
No 162
>COG5001 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]
Probab=84.30 E-value=1.8 Score=37.89 Aligned_cols=74 Identities=19% Similarity=0.054 Sum_probs=53.9
Q ss_pred cccccCCCCCCccchHHHHHHhccCCceeeeHhhHHHHHHHHHHhCCCCCCchHHHH----hh---------CCCCCCHH
Q 027234 127 SYSVNEGTSNSRKDEEEEAEKRLKKPRLVWSVELHQQFVSAVKELGFDKAGPKKILE----LM---------NIPGLTRE 193 (226)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Fi~~~~~~g~~~~~p~~I~~----~~---------~~~~lt~~ 193 (226)
...++.....+++....|++.||.+|..+| ..|+.|+..+|+.|.....+..++. .+ +. +++-.
T Consensus 418 V~fQPiVDi~~gkt~a~EALaRWhspe~G~--vpPd~F~~iAErsG~i~~ltR~ll~~Alrea~~W~~~~Rvs~-NlSa~ 494 (663)
T COG5001 418 VHFQPIVDIVSGKTIALEALARWHSPEIGP--VPPDVFIGIAERSGQIVELTRLLLAKALREARAWPMDVRVSI-NLSAR 494 (663)
T ss_pred eeceeeeeecccchHHHHHHHhhcCCccCC--CChHHhhhhHhhcCchHHHHHHHHHHHHHHhccCCCCceEEE-ecCHH
Confidence 345566677888899999999999999998 6789999999999987666554442 11 22 45666
Q ss_pred HHHHHhhhhh
Q 027234 194 NVASHLQKHR 203 (226)
Q Consensus 194 ~va~~l~~~r 203 (226)
+++++=+.-|
T Consensus 495 dl~~~e~v~~ 504 (663)
T COG5001 495 DLASMENVRR 504 (663)
T ss_pred HHhhHHhHHH
Confidence 7776655433
No 163
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=84.22 E-value=6.6 Score=31.22 Aligned_cols=78 Identities=17% Similarity=0.218 Sum_probs=49.2
Q ss_pred CcEEEEEC---CHHHHHHHHHhCCCCceEEEEccCCCC-CC-HHHHHHHHhcC-CCCcEEEEeccCCHHHHHH---HHhC
Q 027234 2 GFSVTKCN---RAEIALDMLRTNKNGYDIVISDVHMPD-MD-GFKLLELVGLE-MDLPVIMMCAHGSKEVVMK---GVTH 72 (226)
Q Consensus 2 g~~V~~~~---~~~eal~~l~~~~~~~DlVl~D~~mp~-~d-G~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~---a~~~ 72 (226)
||+|.... ..++.++.+.+.. ||+|.+...|+. +. --++++.++.. .+++|++=...-+.+.... +-..
T Consensus 116 G~~Vi~LG~~vp~e~~v~~~~~~~--~~~V~lS~~~~~~~~~~~~~i~~L~~~~~~~~i~vGG~~~~~~~~~~~~~~~~~ 193 (213)
T cd02069 116 GYEVIDLGVMVPIEKILEAAKEHK--ADIIGLSGLLVPSLDEMVEVAEEMNRRGIKIPLLIGGAATSRKHTAVKIAPEYD 193 (213)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEccchhccHHHHHHHHHHHHhcCCCCeEEEEChhcCHHHHhhhhccccC
Confidence 77876433 5788888888877 999999998875 33 24456677643 4555554333333333322 2457
Q ss_pred CcceEEeCC
Q 027234 73 DACDYLTKP 81 (226)
Q Consensus 73 ga~~yl~KP 81 (226)
|||+|-.-.
T Consensus 194 gad~y~~da 202 (213)
T cd02069 194 GPVVYVKDA 202 (213)
T ss_pred CCceEecCH
Confidence 999887543
No 164
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=84.19 E-value=20 Score=30.48 Aligned_cols=93 Identities=12% Similarity=0.124 Sum_probs=62.4
Q ss_pred CcEE-E-EECCHHHHHHHHHhCCCCceEEEEccCCC-----CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCc
Q 027234 2 GFSV-T-KCNRAEIALDMLRTNKNGYDIVISDVHMP-----DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDA 74 (226)
Q Consensus 2 g~~V-~-~~~~~~eal~~l~~~~~~~DlVl~D~~mp-----~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga 74 (226)
||.| . +++|...|-.+..- . | +.++=+--| +..--+.++.+...+.+|||+=.+-...+.+..|+++|+
T Consensus 197 Gf~v~~yc~~d~~~a~~l~~~-g--~-~avmPl~~pIGsg~gv~~p~~i~~~~e~~~vpVivdAGIg~~sda~~AmelGa 272 (326)
T PRK11840 197 GFQVMVYCSDDPIAAKRLEDA-G--A-VAVMPLGAPIGSGLGIQNPYTIRLIVEGATVPVLVDAGVGTASDAAVAMELGC 272 (326)
T ss_pred CCEEEEEeCCCHHHHHHHHhc-C--C-EEEeeccccccCCCCCCCHHHHHHHHHcCCCcEEEeCCCCCHHHHHHHHHcCC
Confidence 7777 3 44566666655543 2 5 222221111 122344556665567899999999999999999999999
Q ss_pred ceEE-----eCCCCHHHHHHHHHHHHHHH
Q 027234 75 CDYL-----TKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 75 ~~yl-----~KP~~~~~L~~~l~~~~~~~ 98 (226)
++.| .|--++-.+..+.+.....-
T Consensus 273 dgVL~nSaIa~a~dPv~Ma~A~~~av~aG 301 (326)
T PRK11840 273 DGVLMNTAIAEAKNPVLMARAMKLAVEAG 301 (326)
T ss_pred CEEEEcceeccCCCHHHHHHHHHHHHHHH
Confidence 9987 46778888888887776543
No 165
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=84.07 E-value=5.4 Score=32.82 Aligned_cols=56 Identities=13% Similarity=0.140 Sum_probs=42.0
Q ss_pred HHHHHHHHhcCCCCcEEEEeccCC------HHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 39 GFKLLELVGLEMDLPVIMMCAHGS------KEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 39 G~~l~~~l~~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
.+++++.++...++|+++|+-... .....++.++|+++.+.-.+..++....++.+
T Consensus 79 ~~~~~~~~r~~~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~~ 140 (263)
T CHL00200 79 ILSILSEVNGEIKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISVC 140 (263)
T ss_pred HHHHHHHHhcCCCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHH
Confidence 466667777557899888876543 35688899999999999988888866555544
No 166
>PRK09975 DNA-binding transcriptional regulator EnvR; Provisional
Probab=84.07 E-value=1.4 Score=34.56 Aligned_cols=42 Identities=12% Similarity=0.082 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.++.++++.+ +......++.|+++||...|+||..+|+-|+.
T Consensus 13 r~~Il~aa~~----------lf~~~G~~~~ti~~Ia~~agvsk~t~Y~~F~s 54 (213)
T PRK09975 13 RQELIETAIA----------QFALRGVSNTTLNDIADAANVTRGAIYWHFEN 54 (213)
T ss_pred HHHHHHHHHH----------HHHHcCcccCCHHHHHHHcCCCHHHHHHHcCC
Confidence 4567777776 44455667899999999999999999998864
No 167
>PRK15400 lysine decarboxylase CadA; Provisional
Probab=83.94 E-value=10 Score=35.79 Aligned_cols=91 Identities=15% Similarity=0.155 Sum_probs=57.0
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.||+|..+.+..+++..+++. .....|++|..- ....+++.++ .+..+||+++........+-...-.-+++|+.
T Consensus 29 ~~~~v~~~~~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~~~Pv~~~~~~~~~~~~~~~~l~~~~~~~~ 104 (714)
T PRK15400 29 LNFQIVYPNDRDDLLKLIENN-ARLCGVIFDWDK---YNLELCEEISKMNENLPLYAFANTYSTLDVSLNDLRLQVSFFE 104 (714)
T ss_pred CCcEEEEeCCHHHHHHHHhcc-cceeEEEEecch---hhHHHHHHHHHhCCCCCEEEEccccccccCChHHhhhccceee
Confidence 389999999999999998854 458899999532 2245778776 66899999987654332221112223455555
Q ss_pred CC-CCHHHHHHHHHHHH
Q 027234 80 KP-VRIEELKNIWQHVV 95 (226)
Q Consensus 80 KP-~~~~~L~~~l~~~~ 95 (226)
.- -+++.+...+.+..
T Consensus 105 ~~~~~~~~~a~~i~~~~ 121 (714)
T PRK15400 105 YALGAADDIANKIKQTT 121 (714)
T ss_pred eccCCHHHHHHHHHHHH
Confidence 32 23444444444443
No 168
>PRK13500 transcriptional activator RhaR; Provisional
Probab=83.54 E-value=0.61 Score=39.25 Aligned_cols=40 Identities=5% Similarity=0.026 Sum_probs=33.1
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSF 220 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~ 220 (226)
.|.+++.. .++++++|+.+++|++||.|+||. +++.+..|
T Consensus 214 yI~~~~~e-~isl~~lA~~~~iS~~~L~r~FK~~tG~T~~~y 254 (312)
T PRK13500 214 RLAASLKS-PFALDKFCDEASCSERVLRQQFRQQTGMTINQY 254 (312)
T ss_pred HHHHcccC-CCCHHHHHHHHCcCHHHHHHHHHHHHCcCHHHH
Confidence 57778877 599999999999999999998885 46665544
No 169
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=83.52 E-value=0.6 Score=27.07 Aligned_cols=23 Identities=30% Similarity=0.160 Sum_probs=20.0
Q ss_pred CCHHHHHHHhhhhhhhhhcccCC
Q 027234 190 LTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 190 lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+|..++|.+|+++++.+|+.-+.
T Consensus 2 lt~~e~a~~lgis~~ti~~~~~~ 24 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVYRLIHE 24 (49)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHc
Confidence 68999999999999999986544
No 170
>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=83.51 E-value=0.61 Score=28.07 Aligned_cols=28 Identities=25% Similarity=0.331 Sum_probs=21.6
Q ss_pred hCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 185 MNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 185 ~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+..-++|..++|..+++++++++++..-
T Consensus 5 r~~~gls~~~la~~~gis~~~i~~~~~g 32 (55)
T PF01381_consen 5 RKEKGLSQKELAEKLGISRSTISRIENG 32 (55)
T ss_dssp HHHTTS-HHHHHHHHTS-HHHHHHHHTT
T ss_pred HHHcCCCHHHHHHHhCCCcchhHHHhcC
Confidence 3345899999999999999999987554
No 171
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=83.36 E-value=0.93 Score=27.36 Aligned_cols=23 Identities=22% Similarity=0.252 Sum_probs=18.6
Q ss_pred CCCCCCHHHHHHHhhhhhhhhhc
Q 027234 186 NIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 186 ~~~~lt~~~va~~l~~~r~~l~r 208 (226)
+.+.+|.+++|..|++|++.++|
T Consensus 12 ~~~~it~~eLa~~l~vS~rTi~~ 34 (55)
T PF08279_consen 12 SKEPITAKELAEELGVSRRTIRR 34 (55)
T ss_dssp TTTSBEHHHHHHHCTS-HHHHHH
T ss_pred cCCCcCHHHHHHHhCCCHHHHHH
Confidence 34459999999999999998776
No 172
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=83.17 E-value=0.83 Score=27.06 Aligned_cols=29 Identities=31% Similarity=0.460 Sum_probs=22.0
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
|+...-..++|..+||..||+|+...+++
T Consensus 12 vi~~~y~~~~t~~eIa~~lg~s~~~V~~~ 40 (50)
T PF04545_consen 12 VIRLRYFEGLTLEEIAERLGISRSTVRRI 40 (50)
T ss_dssp HHHHHHTST-SHHHHHHHHTSCHHHHHHH
T ss_pred HHHHHhcCCCCHHHHHHHHCCcHHHHHHH
Confidence 33333366999999999999999988764
No 173
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=83.09 E-value=23 Score=28.75 Aligned_cols=80 Identities=19% Similarity=0.209 Sum_probs=51.7
Q ss_pred HHHHHHHHHhCCCCceE-EEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCC-cceEEe------
Q 027234 11 AEIALDMLRTNKNGYDI-VISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHD-ACDYLT------ 79 (226)
Q Consensus 11 ~~eal~~l~~~~~~~Dl-Vl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~g-a~~yl~------ 79 (226)
..+..+.+.+.. +|. +++|+.--+ +.| +++++.++...++|||...+-.+.+.+.+++..| +++.+.
T Consensus 157 ~~~~~~~l~~~G--~~~iivt~i~~~g~~~g~~~~~~~~i~~~~~ipvia~GGi~s~~di~~~~~~g~~dgv~~g~a~~~ 234 (254)
T TIGR00735 157 AVEWAKEVEKLG--AGEILLTSMDKDGTKSGYDLELTKAVSEAVKIPVIASGGAGKPEHFYEAFTKGKADAALAASVFHY 234 (254)
T ss_pred HHHHHHHHHHcC--CCEEEEeCcCcccCCCCCCHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCcceeeEhHHHhC
Confidence 344555555533 674 444542211 122 5778888766789999988899999999999988 888543
Q ss_pred CCCCHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQ 92 (226)
Q Consensus 80 KP~~~~~L~~~l~ 92 (226)
.-++..+++..++
T Consensus 235 ~~~~~~~~~~~~~ 247 (254)
T TIGR00735 235 REITIGEVKEYLA 247 (254)
T ss_pred CCCCHHHHHHHHH
Confidence 3455565554443
No 174
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=82.97 E-value=9.5 Score=31.87 Aligned_cols=68 Identities=13% Similarity=0.020 Sum_probs=45.0
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.++.+.+||.+.+.. ++|+|.+|-.-| .+=-+..+.++. .+.+| +..++.-+.+.+.+....|++..-
T Consensus 201 VEv~tleea~eA~~~---GaD~I~LDn~~~-e~l~~av~~~~~~~~~i~-leAsGGIt~~ni~~ya~tGvD~Is 269 (288)
T PRK07428 201 VETETLEQVQEALEY---GADIIMLDNMPV-DLMQQAVQLIRQQNPRVK-IEASGNITLETIRAVAETGVDYIS 269 (288)
T ss_pred EECCCHHHHHHHHHc---CCCEEEECCCCH-HHHHHHHHHHHhcCCCeE-EEEECCCCHHHHHHHHHcCCCEEE
Confidence 467899999999863 389999992222 111112233332 34454 557777888888888999998755
No 175
>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene [].; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.
Probab=82.79 E-value=5.6 Score=31.00 Aligned_cols=69 Identities=12% Similarity=0.043 Sum_probs=49.1
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCC---CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHM---PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~m---p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
++.|......+++-+++... .|+|=+|... | ..--++++.++... .++|...+..+....|.++|+| ++
T Consensus 45 ~~~V~ITPT~~ev~~l~~aG---adIIAlDaT~R~Rp-~~l~~li~~i~~~~---~l~MADist~ee~~~A~~~G~D-~I 116 (192)
T PF04131_consen 45 DSDVYITPTLKEVDALAEAG---ADIIALDATDRPRP-ETLEELIREIKEKY---QLVMADISTLEEAINAAELGFD-II 116 (192)
T ss_dssp TSS--BS-SHHHHHHHHHCT----SEEEEE-SSSS-S-S-HHHHHHHHHHCT---SEEEEE-SSHHHHHHHHHTT-S-EE
T ss_pred CCCeEECCCHHHHHHHHHcC---CCEEEEecCCCCCC-cCHHHHHHHHHHhC---cEEeeecCCHHHHHHHHHcCCC-EE
Confidence 35677777889998888853 7999999865 5 66777888888655 6778888999999999999976 44
No 176
>PF12728 HTH_17: Helix-turn-helix domain
Probab=82.70 E-value=0.69 Score=27.51 Aligned_cols=23 Identities=26% Similarity=0.124 Sum_probs=20.1
Q ss_pred CCHHHHHHHhhhhhhhhhcccCC
Q 027234 190 LTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 190 lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+|.+++|..|++|++.+|+..+.
T Consensus 2 lt~~e~a~~l~is~~tv~~~~~~ 24 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVYRWIRQ 24 (51)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHc
Confidence 78999999999999999986543
No 177
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=82.61 E-value=1.1 Score=26.26 Aligned_cols=26 Identities=27% Similarity=0.382 Sum_probs=20.1
Q ss_pred hhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 184 LMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 184 ~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
+..++++|+.++|..+++|+...++.
T Consensus 12 l~~~~~~t~~ela~~~~is~~tv~~~ 37 (48)
T PF13412_consen 12 LRENPRITQKELAEKLGISRSTVNRY 37 (48)
T ss_dssp HHHCTTS-HHHHHHHHTS-HHHHHHH
T ss_pred HHHcCCCCHHHHHHHhCCCHHHHHHH
Confidence 44578899999999999999987763
No 178
>PHA01976 helix-turn-helix protein
Probab=82.53 E-value=0.57 Score=29.53 Aligned_cols=31 Identities=3% Similarity=0.109 Sum_probs=25.8
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.|.......++|..++|..+++++++++++-
T Consensus 6 rl~~~R~~~glt~~~lA~~~gvs~~~v~~~e 36 (67)
T PHA01976 6 QLIKARNARAWSAPELSRRAGVRHSLIYDFE 36 (67)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHH
Confidence 4566666779999999999999999999853
No 179
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=82.30 E-value=18 Score=26.85 Aligned_cols=92 Identities=12% Similarity=-0.018 Sum_probs=59.9
Q ss_pred CCcEEE---EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHH----HHHhcCCCCcEE-EEeccCCHHHHHHHHhC
Q 027234 1 MGFSVT---KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLL----ELVGLEMDLPVI-MMCAHGSKEVVMKGVTH 72 (226)
Q Consensus 1 lg~~V~---~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~----~~l~~~~~~pvI-~ls~~~~~~~~~~a~~~ 72 (226)
.||+|. ...+++|+.+..-+.. .|+|.+...-.+ ..+++ +.++...--.|+ +.-+.-..+......++
T Consensus 39 ~GfeVi~~g~~~tp~e~v~aA~~~d--v~vIgvSsl~g~--h~~l~~~lve~lre~G~~~i~v~~GGvip~~d~~~l~~~ 114 (143)
T COG2185 39 AGFEVINLGLFQTPEEAVRAAVEED--VDVIGVSSLDGG--HLTLVPGLVEALREAGVEDILVVVGGVIPPGDYQELKEM 114 (143)
T ss_pred CCceEEecCCcCCHHHHHHHHHhcC--CCEEEEEeccch--HHHHHHHHHHHHHHhCCcceEEeecCccCchhHHHHHHh
Confidence 478876 4678899998886655 888877643322 23333 444433322333 45555566677777889
Q ss_pred CcceEEeCCCCHHHHHHHHHHHHH
Q 027234 73 DACDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 73 ga~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
|++.++..-....+...-+...+.
T Consensus 115 G~~~if~pgt~~~~~~~~v~~~l~ 138 (143)
T COG2185 115 GVDRIFGPGTPIEEALSDLLTRLG 138 (143)
T ss_pred CcceeeCCCCCHHHHHHHHHHHHH
Confidence 999999988888777666555443
No 180
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=82.16 E-value=11 Score=29.60 Aligned_cols=74 Identities=19% Similarity=0.162 Sum_probs=48.0
Q ss_pred CcEEEEE---CCHHHHHHHHHhCCCCceEEEEccCCCCC--CHHHHHHHHhcC-C--CCcEEEEeccCCHHHHHHHHhCC
Q 027234 2 GFSVTKC---NRAEIALDMLRTNKNGYDIVISDVHMPDM--DGFKLLELVGLE-M--DLPVIMMCAHGSKEVVMKGVTHD 73 (226)
Q Consensus 2 g~~V~~~---~~~~eal~~l~~~~~~~DlVl~D~~mp~~--dG~~l~~~l~~~-~--~~pvI~ls~~~~~~~~~~a~~~g 73 (226)
||+|... -..++..+.+.+.. ||+|-+...|+.. ...++++.++.. + +++|++=-..-..+ -+-..|
T Consensus 110 G~~vi~lG~~~p~~~l~~~~~~~~--~d~v~lS~~~~~~~~~~~~~i~~lr~~~~~~~~~i~vGG~~~~~~---~~~~~G 184 (201)
T cd02070 110 GFEVIDLGRDVPPEEFVEAVKEHK--PDILGLSALMTTTMGGMKEVIEALKEAGLRDKVKVMVGGAPVNQE---FADEIG 184 (201)
T ss_pred CCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccccHHHHHHHHHHHHHCCCCcCCeEEEECCcCCHH---HHHHcC
Confidence 7887743 35678888888876 9999999988663 334556677643 3 45555433333322 456679
Q ss_pred cceEEeC
Q 027234 74 ACDYLTK 80 (226)
Q Consensus 74 a~~yl~K 80 (226)
||.|-.-
T Consensus 185 aD~~~~d 191 (201)
T cd02070 185 ADGYAED 191 (201)
T ss_pred CcEEECC
Confidence 9988753
No 181
>PF03328 HpcH_HpaI: HpcH/HpaI aldolase/citrate lyase family; InterPro: IPR005000 This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (4.1.2 from EC) and 4-hydroxy-2-oxovalerate aldolase (4.1.2 from EC). ; GO: 0016830 carbon-carbon lyase activity, 0006725 cellular aromatic compound metabolic process; PDB: 1DXF_B 1DXE_A 3QZ6_A 3QLL_C 3QQW_F 3OYZ_A 3PUG_A 3OYX_A 1IZC_A 2V5K_B ....
Probab=82.06 E-value=22 Score=28.13 Aligned_cols=85 Identities=12% Similarity=0.039 Sum_probs=52.3
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCCC---------CCHHHHHHHHhc--CCCCcEEEEeccCCHHHHHH---HHhCC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMPD---------MDGFKLLELVGL--EMDLPVIMMCAHGSKEVVMK---GVTHD 73 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp~---------~dG~~l~~~l~~--~~~~pvI~ls~~~~~~~~~~---a~~~g 73 (226)
-.+..+.++.+.... +|.|++|+.-.. .+-.+++..+.. .....+++=....+.....+ ++..|
T Consensus 7 p~~~~~~~~~a~~~g--~D~vilDlEd~~~~~~K~~ar~~~~~~~~~~~~~~~~~~~~~VRvn~~~~~~~~~Dl~~l~~g 84 (221)
T PF03328_consen 7 PANSPKMLEKAAASG--ADFVILDLEDGVPPDEKDEAREDLAEALRSIRAARAAGSEIIVRVNSLDSPHIERDLEALDAG 84 (221)
T ss_dssp ESTSHHHHHHHHTTC--SSEEEEESSTTSSGGGHHHHHHHHHHHHHHHHHHTTSSSEEEEE-SSTTCHHHHHHHHHHHTT
T ss_pred eCCCHHHHHHHHhcC--CCEEEEeCcccCCcccchhhHHHHHHHHHhhcccccccccceecCCCCCcchhhhhhhhcccC
Confidence 345556677776655 999999998755 344445555542 22345555444444444555 99999
Q ss_pred cceEEeCC-CCHHHHHHHHHHH
Q 027234 74 ACDYLTKP-VRIEELKNIWQHV 94 (226)
Q Consensus 74 a~~yl~KP-~~~~~L~~~l~~~ 94 (226)
+++.+..= -+.+++...++.+
T Consensus 85 ~~gI~lP~ves~~~~~~~~~~~ 106 (221)
T PF03328_consen 85 ADGIVLPKVESAEDARQAVAAL 106 (221)
T ss_dssp SSEEEETT--SHHHHHHHHHHH
T ss_pred CCeeeccccCcHHHHHHHHHHH
Confidence 99987544 4677777766654
No 182
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=81.89 E-value=18 Score=29.73 Aligned_cols=84 Identities=12% Similarity=0.193 Sum_probs=51.6
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCC----CC---CCHHHHHHHHhcCCCCcEEEEeccC-C-----HHHHHHHHhCCcce
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHM----PD---MDGFKLLELVGLEMDLPVIMMCAHG-S-----KEVVMKGVTHDACD 76 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~m----p~---~dG~~l~~~l~~~~~~pvI~ls~~~-~-----~~~~~~a~~~ga~~ 76 (226)
+...|++.+.+. +..+++||.-.. |. .--+..+..+++.++.||++=+.+. . ......|..+||++
T Consensus 147 e~~~Ave~i~~~-Gn~~i~l~~rG~s~y~~~~~~~~dl~~i~~lk~~~~~pV~~ds~Hs~G~r~~~~~~~~aAva~Ga~g 225 (260)
T TIGR01361 147 EWLYAAEYILSS-GNGNVILCERGIRTFEKATRNTLDLSAVPVLKKETHLPIIVDPSHAAGRRDLVIPLAKAAIAAGADG 225 (260)
T ss_pred HHHHHHHHHHHc-CCCcEEEEECCCCCCCCCCcCCcCHHHHHHHHHhhCCCEEEcCCCCCCccchHHHHHHHHHHcCCCE
Confidence 355677888754 346899988522 21 1223444566655678988745543 2 35566799999998
Q ss_pred -EEeCC-------------CCHHHHHHHHHHH
Q 027234 77 -YLTKP-------------VRIEELKNIWQHV 94 (226)
Q Consensus 77 -yl~KP-------------~~~~~L~~~l~~~ 94 (226)
+|.|= +++++|...++.+
T Consensus 226 l~iE~H~t~d~a~~D~~~sl~p~~l~~lv~~i 257 (260)
T TIGR01361 226 LMIEVHPDPEKALSDSKQQLTPEEFKRLVKEL 257 (260)
T ss_pred EEEEeCCCccccCCcchhcCCHHHHHHHHHHH
Confidence 66662 5556666555543
No 183
>TIGR01305 GMP_reduct_1 guanosine monophosphate reductase, eukaryotic. A deep split separates two families of GMP reductase. This family includes both eukaryotic and some proteobacterial sequences, while the other family contains other bacterial sequences.
Probab=81.78 E-value=9.8 Score=32.45 Aligned_cols=57 Identities=16% Similarity=0.029 Sum_probs=41.9
Q ss_pred CceEEEEccCCCCCCH-HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 24 GYDIVISDVHMPDMDG-FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 24 ~~DlVl~D~~mp~~dG-~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.+|+|++|.--..... ++.+++|+....-+.|+--.-...+.+..++.+|||+...-
T Consensus 121 ~~d~iviD~AhGhs~~~i~~ik~ir~~~p~~~viaGNV~T~e~a~~Li~aGAD~ikVg 178 (343)
T TIGR01305 121 QLKFICLDVANGYSEHFVEFVKLVREAFPEHTIMAGNVVTGEMVEELILSGADIVKVG 178 (343)
T ss_pred CCCEEEEECCCCcHHHHHHHHHHHHhhCCCCeEEEecccCHHHHHHHHHcCCCEEEEc
Confidence 4899999997765443 67788888554334444444677889999999999998644
No 184
>PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B.
Probab=81.42 E-value=1.3 Score=30.88 Aligned_cols=28 Identities=29% Similarity=0.288 Sum_probs=20.8
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhh
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLS 207 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~ 207 (226)
.+++.+-.++++..+||..+++||...|
T Consensus 24 ~~l~lyy~eDlSlsEIAe~~~iSRqaV~ 51 (101)
T PF04297_consen 24 EILELYYEEDLSLSEIAEELGISRQAVY 51 (101)
T ss_dssp HHHHHHCTS---HHHHHHHCTS-HHHHH
T ss_pred HHHHHHHccCCCHHHHHHHHCCCHHHHH
Confidence 5778888889999999999999999765
No 185
>PRK14996 TetR family transcriptional regulator; Provisional
Probab=81.20 E-value=1.7 Score=33.49 Aligned_cols=42 Identities=12% Similarity=0.040 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.++.+.++.+ +...-.-.+.|+++||.+.|+||..+|+-|+.
T Consensus 10 R~~Il~aA~~----------lf~e~G~~~tSi~~Ia~~aGvsk~~lY~~F~s 51 (192)
T PRK14996 10 REVILQAAMR----------VALAEGFAAMTVRRIASEAQVAAGQVHHHFSS 51 (192)
T ss_pred HHHHHHHHHH----------HHHhcChhhccHHHHHHHhCCCcHHHHHHcCC
Confidence 4566677666 33444566889999999999999999998874
No 186
>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=81.05 E-value=14 Score=30.75 Aligned_cols=69 Identities=16% Similarity=0.096 Sum_probs=46.8
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-C-CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-E-MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+.+.+.+++.+.+... +|+|++|-..|. +=-+..+.++. . ..-..+..|+.-+.+.+....+.|+|.+-
T Consensus 187 VEv~~leea~~a~~ag---aDiI~LDn~~~e-~l~~~v~~l~~~~~~~~~~leaSGGI~~~ni~~yA~tGvD~Is 257 (278)
T PRK08385 187 VEVESLEDALKAAKAG---ADIIMLDNMTPE-EIREVIEALKREGLRERVKIEVSGGITPENIEEYAKLDVDVIS 257 (278)
T ss_pred EEeCCHHHHHHHHHcC---cCEEEECCCCHH-HHHHHHHHHHhcCcCCCEEEEEECCCCHHHHHHHHHcCCCEEE
Confidence 4788999999998743 799999955433 11122233332 1 12345678888899999999999988654
No 187
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=81.04 E-value=0.54 Score=30.03 Aligned_cols=29 Identities=17% Similarity=0.304 Sum_probs=24.4
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.|++.+.+...+..++|.++++||+..++
T Consensus 4 ~il~~L~~~~~~~~eLa~~l~vS~~tv~~ 32 (69)
T TIGR00122 4 RLLALLADNPFSGEKLGEALGMSRTAVNK 32 (69)
T ss_pred HHHHHHHcCCcCHHHHHHHHCCCHHHHHH
Confidence 46667777788999999999999998776
No 188
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=80.70 E-value=5.8 Score=30.35 Aligned_cols=69 Identities=16% Similarity=-0.006 Sum_probs=45.8
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
..+.+.+++.+.++.. +|+|.+|-.-| .+=-++.+.++....-..|..|+.-+.+.+.+..+.|+|.+-
T Consensus 85 VEv~~~ee~~ea~~~g---~d~I~lD~~~~-~~~~~~v~~l~~~~~~v~ie~SGGI~~~ni~~ya~~gvD~is 153 (169)
T PF01729_consen 85 VEVENLEEAEEALEAG---ADIIMLDNMSP-EDLKEAVEELRELNPRVKIEASGGITLENIAEYAKTGVDVIS 153 (169)
T ss_dssp EEESSHHHHHHHHHTT----SEEEEES-CH-HHHHHHHHHHHHHTTTSEEEEESSSSTTTHHHHHHTT-SEEE
T ss_pred EEcCCHHHHHHHHHhC---CCEEEecCcCH-HHHHHHHHHHhhcCCcEEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 4688899999998853 89999996544 112223334443333367778888888888888899987654
No 189
>TIGR00693 thiE thiamine-phosphate pyrophosphorylase. This model includes ThiE from Bacillus subtilis but excludes its paralog, the regulatory protein TenI, and neighbors of TenI.
Probab=80.67 E-value=16 Score=28.24 Aligned_cols=69 Identities=16% Similarity=0.193 Sum_probs=47.9
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC--------CCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD--------MDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~--------~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
.|.+..++.+..+ .++|.|.++-..|. ..|++.++.+.. .+.+||+++.+- +.+.+.+++..|++++
T Consensus 102 s~h~~~e~~~a~~---~g~dyi~~~~v~~t~~k~~~~~~~g~~~l~~~~~~~~~~pv~a~GGI-~~~~~~~~~~~G~~gv 177 (196)
T TIGR00693 102 STHNLEELAEAEA---EGADYIGFGPIFPTPTKKDPAPPAGVELLREIAATSIDIPIVAIGGI-TLENAAEVLAAGADGV 177 (196)
T ss_pred eCCCHHHHHHHhH---cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEE
Confidence 4556677665443 23899988765542 247888888763 356898777654 5788888889999887
Q ss_pred Ee
Q 027234 78 LT 79 (226)
Q Consensus 78 l~ 79 (226)
..
T Consensus 178 a~ 179 (196)
T TIGR00693 178 AV 179 (196)
T ss_pred EE
Confidence 63
No 190
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=80.50 E-value=0.68 Score=29.98 Aligned_cols=24 Identities=33% Similarity=0.217 Sum_probs=21.2
Q ss_pred CCCHHHHHHHhhhhhhhhhcccCC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
++++++||.++++++.+|+|+|+.
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~ 24 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKK 24 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHH
Confidence 478999999999999999997764
No 191
>cd00452 KDPG_aldolase KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.
Probab=80.49 E-value=12 Score=29.07 Aligned_cols=68 Identities=10% Similarity=-0.046 Sum_probs=50.0
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
-+.+.+|+.+.++. ++|.|-++- .+.. |.++++.++. .+.+|++.+.+ -+.+.....++.|+++.-.-
T Consensus 103 gv~t~~e~~~A~~~---Gad~i~~~p-~~~~-g~~~~~~l~~~~~~~p~~a~GG-I~~~n~~~~~~~G~~~v~v~ 171 (190)
T cd00452 103 GVATPTEIMQALEL---GADIVKLFP-AEAV-GPAYIKALKGPFPQVRFMPTGG-VSLDNAAEWLAAGVVAVGGG 171 (190)
T ss_pred CcCCHHHHHHHHHC---CCCEEEEcC-Cccc-CHHHHHHHHhhCCCCeEEEeCC-CCHHHHHHHHHCCCEEEEEc
Confidence 45688898888763 389998853 3333 9999999874 34688776655 48889999999998876643
No 192
>PRK09480 slmA division inhibitor protein; Provisional
Probab=80.35 E-value=2.7 Score=32.14 Aligned_cols=44 Identities=16% Similarity=0.117 Sum_probs=34.0
Q ss_pred hhHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 159 ELHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 159 ~l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.-.++.+.++.. .+.+.-. .+.|+++||.+.|+||..+|+-|+.
T Consensus 10 ~~r~~Il~aa~~---------l~~~~~G-~~~ti~~Ia~~agvs~gt~Y~~F~~ 53 (194)
T PRK09480 10 ERREQILQALAQ---------MLESPPG-ERITTAKLAARVGVSEAALYRHFPS 53 (194)
T ss_pred hHHHHHHHHHHH---------HHHhcCC-CccCHHHHHHHhCCCHhHHHHHCCC
Confidence 345677777777 2445423 5999999999999999999998875
No 193
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=80.34 E-value=2.5 Score=28.92 Aligned_cols=46 Identities=13% Similarity=0.119 Sum_probs=31.8
Q ss_pred HHHHHHHHhCCCCCCchHHHHhh--------CCCCCCHHHHHHHhhhhhhhhhc
Q 027234 163 QFVSAVKELGFDKAGPKKILELM--------NIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 163 ~Fi~~~~~~g~~~~~p~~I~~~~--------~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.+++.+..+++....-+.++.+. ..+.+|..++|+.++++|..+.|
T Consensus 13 ~~~e~l~~~~l~~r~~~vLl~L~~~~~G~~~~~~~is~~eLa~~~g~sr~tVsr 66 (95)
T TIGR01610 13 ELQEALPGADLSGREFRVLLAIIRLTYGWNKKQDRVTATVIAELTGLSRTHVSD 66 (95)
T ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHhCccccCCccCHHHHHHHHCcCHHHHHH
Confidence 44444445555544444444443 46689999999999999998887
No 194
>PRK00767 transcriptional regulator BetI; Validated
Probab=80.29 E-value=2.7 Score=32.22 Aligned_cols=43 Identities=16% Similarity=0.105 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 160 LHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 160 l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
-.++.+.++.+ +...-...+.|.+.||++.|+++..+|+-|+.
T Consensus 10 ~r~~Il~aA~~----------lf~~~G~~~~s~~~Ia~~aGvs~gslY~~F~~ 52 (197)
T PRK00767 10 RRQQLIDATLR----------AIGEVGLLDATIAQIARRAGVSTGIISHYFGG 52 (197)
T ss_pred HHHHHHHHHHH----------HHHHcCcccCCHHHHHHHhCCCHHHHHHHhCC
Confidence 34567777776 44444566889999999999999999998864
No 195
>PRK13756 tetracycline repressor protein TetR; Provisional
Probab=80.24 E-value=2.4 Score=33.50 Aligned_cols=42 Identities=21% Similarity=0.264 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.++++.++.+ +++.-..+++|+..||.++++++..+|+-|+.
T Consensus 6 re~Il~aA~~----------l~~e~G~~~lsmr~lA~~lgv~~~slY~hf~~ 47 (205)
T PRK13756 6 KEKVIDSALE----------LLNEVGIEGLTTRKLAQKLGVEQPTLYWHVKN 47 (205)
T ss_pred HHHHHHHHHH----------HHHHcCcccCCHHHHHHHhCCCchHHHHHcCC
Confidence 3566677666 55555677899999999999999999998764
No 196
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=80.12 E-value=30 Score=28.03 Aligned_cols=80 Identities=21% Similarity=0.224 Sum_probs=52.8
Q ss_pred HHHHHHHHHhCCCCce-EEEEccCC-CCCCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhC-CcceEEe------
Q 027234 11 AEIALDMLRTNKNGYD-IVISDVHM-PDMDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTH-DACDYLT------ 79 (226)
Q Consensus 11 ~~eal~~l~~~~~~~D-lVl~D~~m-p~~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~-ga~~yl~------ 79 (226)
..+..+.+.... ++ ++++|+.- ..+.| +++++.+.+...+|+|.-.+-.+.+...++++. |+++.+.
T Consensus 155 ~~~~~~~~~~~g--~~~ii~~~i~~~g~~~g~d~~~i~~~~~~~~ipvia~GGv~s~~d~~~~~~~~G~~gvivg~al~~ 232 (253)
T PRK02083 155 AVEWAKEVEELG--AGEILLTSMDRDGTKNGYDLELTRAVSDAVNVPVIASGGAGNLEHFVEAFTEGGADAALAASIFHF 232 (253)
T ss_pred HHHHHHHHHHcC--CCEEEEcCCcCCCCCCCcCHHHHHHHHhhCCCCEEEECCCCCHHHHHHHHHhCCccEEeEhHHHHc
Confidence 344555555433 65 66766542 11222 667788876668999988888889999999975 9988775
Q ss_pred CCCCHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQ 92 (226)
Q Consensus 80 KP~~~~~L~~~l~ 92 (226)
.-++..+++..++
T Consensus 233 ~~~~~~~~~~~~~ 245 (253)
T PRK02083 233 GEITIGELKAYLA 245 (253)
T ss_pred CCCCHHHHHHHHH
Confidence 3466666655443
No 197
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=80.06 E-value=1.4 Score=29.80 Aligned_cols=42 Identities=17% Similarity=0.184 Sum_probs=35.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQGNSFVS 222 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~~~~ 222 (226)
.+.+|+...++|.++||..|+.|-.++.++....+.. +..||
T Consensus 14 ELq~nf~~~~ls~~~ia~dL~~s~~~le~vL~l~~~~-~~~vW 55 (89)
T PF10078_consen 14 ELQANFELSGLSLEQIAADLGTSPEHLEQVLNLKQPF-PEDVW 55 (89)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHcCCCCC-cccch
Confidence 4677888889999999999999999999998888554 44455
No 198
>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=80.02 E-value=0.87 Score=28.37 Aligned_cols=30 Identities=30% Similarity=0.438 Sum_probs=21.5
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
|.+.+..-++|+.++|..+++++++++++-
T Consensus 4 lk~~r~~~~lt~~~~a~~~~i~~~~i~~~e 33 (64)
T PF12844_consen 4 LKELREEKGLTQKDLAEKLGISRSTISKIE 33 (64)
T ss_dssp HHHHHHHCT--HHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHH
Confidence 444555669999999999999999999863
No 199
>PRK04180 pyridoxal biosynthesis lyase PdxS; Provisional
Probab=80.01 E-value=11 Score=31.36 Aligned_cols=94 Identities=12% Similarity=0.031 Sum_probs=65.9
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEc------------------------cC-CC----------CCCHHHHHHHHhcCCC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISD------------------------VH-MP----------DMDGFKLLELVGLEMD 51 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D------------------------~~-mp----------~~dG~~l~~~l~~~~~ 51 (226)
-|++..||+..+... +|+|=+- +. +. ...++++++.+++...
T Consensus 127 d~~~l~EAlrai~~G---admI~Ttge~gtg~v~~av~h~r~~~~~i~~L~gyt~~~~~~~a~~~~~~~elL~ei~~~~~ 203 (293)
T PRK04180 127 GARNLGEALRRIAEG---AAMIRTKGEAGTGNVVEAVRHMRQINGEIRRLTSMSEDELYTAAKELQAPYELVKEVAELGR 203 (293)
T ss_pred cCCCHHHHHHHHHCC---CCeeeccCCCCCccHHHHHHHHHHHHHHHHHHhCCCHHHHHhhccccCCCHHHHHHHHHhCC
Confidence 467888888887753 6877665 11 11 1247888888876667
Q ss_pred CcEE--EEeccCCHHHHHHHHhCCcceEE-----eCCCCHHHHHHHHHHHHHHHhhhhh
Q 027234 52 LPVI--MMCAHGSKEVVMKGVTHDACDYL-----TKPVRIEELKNIWQHVVRKRKNERK 103 (226)
Q Consensus 52 ~pvI--~ls~~~~~~~~~~a~~~ga~~yl-----~KP~~~~~L~~~l~~~~~~~~~~~~ 103 (226)
+||| ...+-..++.+..++++||++++ .|.-++......+...+........
T Consensus 204 iPVV~~AeGGI~TPedaa~vme~GAdgVaVGSaI~ks~dP~~~akafv~ai~~~~~~~~ 262 (293)
T PRK04180 204 LPVVNFAAGGIATPADAALMMQLGADGVFVGSGIFKSGDPEKRARAIVEATTHYDDPEV 262 (293)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHhCCCEEEEcHHhhcCCCHHHHHHHHHHHHHHcCCHHH
Confidence 9998 56666689999999999999987 3455777777777776655444333
No 200
>PF13560 HTH_31: Helix-turn-helix domain; PDB: 3F51_C 3F52_A 3PXP_A 2OFY_A.
Probab=79.84 E-value=0.96 Score=28.33 Aligned_cols=32 Identities=22% Similarity=0.290 Sum_probs=23.6
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
|.+.....++|.+++|..+++|.++++++-.-
T Consensus 6 lr~~R~~~gls~~~lA~~~g~s~s~v~~iE~G 37 (64)
T PF13560_consen 6 LRRLRERAGLSQAQLADRLGVSQSTVSRIERG 37 (64)
T ss_dssp HHHHHHCHTS-HHHHHHHHTS-HHHHHHHHTT
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHCC
Confidence 34444466999999999999999999997443
No 201
>PRK07695 transcriptional regulator TenI; Provisional
Probab=79.34 E-value=20 Score=27.95 Aligned_cols=68 Identities=19% Similarity=0.261 Sum_probs=47.6
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC-------CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD-------MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-------~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
++.+.+++.+..+ .+.|.|++.-..|. ..|++.++.+.....+||+.+-+- +.+....++..|++++.
T Consensus 101 s~~s~e~a~~a~~---~Gadyi~~g~v~~t~~k~~~~~~g~~~l~~~~~~~~ipvia~GGI-~~~~~~~~~~~Ga~gva 175 (201)
T PRK07695 101 SVHSLEEAIQAEK---NGADYVVYGHVFPTDCKKGVPARGLEELSDIARALSIPVIAIGGI-TPENTRDVLAAGVSGIA 175 (201)
T ss_pred eCCCHHHHHHHHH---cCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHhCCCCEEEEcCC-CHHHHHHHHHcCCCEEE
Confidence 4556777665443 23899887643322 236788888876567999877665 78889999999998873
No 202
>PF03060 NMO: Nitronate monooxygenase; InterPro: IPR004136 2-Nitropropane dioxygenase (1.13.11.32 from EC) catalyses the oxidation of nitroalkanes into their corresponding carbonyl compounds and nitrite using eithr FAD or FMN as a cofactor []. This entry also includes fatty acid synthase subunit beta (2.3.1.86 from EC), which catalyses the formation of long- chain fatty acids from acetyl-CoA, malonyl-CoA and NADPH. The beta subunit contains domains for: [acyl-carrier protein] acetyltransferase and malonyltransferase, S-acyl fatty acid synthase thioesterase, enoyl-[acyl-carrier protein] reductase, and 3-hydroxypalmitoyl-[acyl-carrier protein] dehydratase. ; GO: 0018580 nitronate monooxygenase activity, 0055114 oxidation-reduction process; PDB: 2Z6I_B 2Z6J_B 3BW2_A 3BW3_A 3BW4_A 2GJL_A 2GJN_A 3BO9_A.
Probab=79.26 E-value=12 Score=31.86 Aligned_cols=72 Identities=15% Similarity=0.183 Sum_probs=49.4
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEc-cCCCC-----C-CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISD-VHMPD-----M-DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D-~~mp~-----~-dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+..+++.++|...++.. +|.|++- ..-.+ . +-+.|+..++...++|||.--+-.+...+..++.+||++.
T Consensus 140 ~~~v~s~~~A~~a~~~G---~D~iv~qG~eAGGH~g~~~~~~~~L~~~v~~~~~iPViaAGGI~dg~~iaaal~lGA~gV 216 (330)
T PF03060_consen 140 IPQVTSVREARKAAKAG---ADAIVAQGPEAGGHRGFEVGSTFSLLPQVRDAVDIPVIAAGGIADGRGIAAALALGADGV 216 (330)
T ss_dssp EEEESSHHHHHHHHHTT----SEEEEE-TTSSEE---SSG-HHHHHHHHHHH-SS-EEEESS--SHHHHHHHHHCT-SEE
T ss_pred ccccCCHHHHHHhhhcC---CCEEEEeccccCCCCCccccceeeHHHHHhhhcCCcEEEecCcCCHHHHHHHHHcCCCEe
Confidence 45789999999877643 8988865 22221 2 2466777777667799999888888999999999999998
Q ss_pred Ee
Q 027234 78 LT 79 (226)
Q Consensus 78 l~ 79 (226)
..
T Consensus 217 ~~ 218 (330)
T PF03060_consen 217 QM 218 (330)
T ss_dssp EE
T ss_pred ec
Confidence 74
No 203
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=79.08 E-value=1.7 Score=22.83 Aligned_cols=21 Identities=29% Similarity=0.298 Sum_probs=18.8
Q ss_pred CCCHHHHHHHhhhhhhhhhcc
Q 027234 189 GLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~ 209 (226)
+.+..++|.++++++..+|+.
T Consensus 21 ~~s~~~ia~~~~is~~tv~~~ 41 (42)
T cd00569 21 GESVAEIARRLGVSRSTLYRY 41 (42)
T ss_pred CCCHHHHHHHHCCCHHHHHHh
Confidence 679999999999999998864
No 204
>cd00331 IGPS Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the release of carbon dioxide and water. IGPS is active as a separate monomer in most organisms, but is also found fused to other enzymes as part of a bifunctional or multifunctional enzyme involved in tryptophan biosynthesis.
Probab=79.00 E-value=30 Score=27.28 Aligned_cols=68 Identities=16% Similarity=0.080 Sum_probs=46.1
Q ss_pred EEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE--eCCCCHHHHHHHHHHH
Q 027234 27 IVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL--TKPVRIEELKNIWQHV 94 (226)
Q Consensus 27 lVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl--~KP~~~~~L~~~l~~~ 94 (226)
|=++|...--...++.++.++...++||++...-.+...+..++..||++.+ ..-+..+.+...++..
T Consensus 48 l~v~~~~~~~~g~~~~~~~i~~~v~iPi~~~~~i~~~~~v~~~~~~Gad~v~l~~~~~~~~~~~~~~~~~ 117 (217)
T cd00331 48 ISVLTEPKYFQGSLEDLRAVREAVSLPVLRKDFIIDPYQIYEARAAGADAVLLIVAALDDEQLKELYELA 117 (217)
T ss_pred EEEEeCccccCCCHHHHHHHHHhcCCCEEECCeecCHHHHHHHHHcCCCEEEEeeccCCHHHHHHHHHHH
Confidence 3344544444456778888876678999986655666678889999999998 3334445665555544
No 205
>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene [].; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.
Probab=78.64 E-value=20 Score=28.02 Aligned_cols=70 Identities=21% Similarity=0.256 Sum_probs=49.4
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccC------CCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVH------MPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~------mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.-|++.+|++...+. ++|+|=+-+. .+....++|++.+... .+|||.=-....++.+.+++++||+..+.
T Consensus 97 ADist~ee~~~A~~~---G~D~I~TTLsGYT~~t~~~~pD~~lv~~l~~~-~~pvIaEGri~tpe~a~~al~~GA~aVVV 172 (192)
T PF04131_consen 97 ADISTLEEAINAAEL---GFDIIGTTLSGYTPYTKGDGPDFELVRELVQA-DVPVIAEGRIHTPEQAAKALELGAHAVVV 172 (192)
T ss_dssp EE-SSHHHHHHHHHT---T-SEEE-TTTTSSTTSTTSSHHHHHHHHHHHT-TSEEEEESS--SHHHHHHHHHTT-SEEEE
T ss_pred eecCCHHHHHHHHHc---CCCEEEcccccCCCCCCCCCCCHHHHHHHHhC-CCcEeecCCCCCHHHHHHHHhcCCeEEEE
Confidence 357889999988763 3899876542 2234568899988754 78988777788899999999999998875
No 206
>PHA00542 putative Cro-like protein
Probab=78.58 E-value=1.4 Score=29.29 Aligned_cols=32 Identities=13% Similarity=0.182 Sum_probs=25.4
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+...+...++|..++|..+++++..++|+..-
T Consensus 23 l~~~l~~~glTq~elA~~lgIs~~tIsr~e~g 54 (82)
T PHA00542 23 LVCALIRAGWSQEQIADATDVSQPTICRIYSG 54 (82)
T ss_pred HHHHHHHCCCCHHHHHHHHCcCHHHHHHHHcC
Confidence 44445556899999999999999999987443
No 207
>TIGR00734 hisAF_rel hisA/hisF family protein. This alignment models a family of proteins found so far in three archaeal species: Methanobacterium thermoautotrophicum, Methanococcus jannaschii, and Archaeoglobus fulgidus. This protein is homologous to phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (HisA) and, with lower similarity, to the cyclase HisF, both of which are enzymes of histidine biosynthesis. Each species with this protein also encodes HisA. The function of this protein is unknown.
Probab=78.56 E-value=19 Score=28.78 Aligned_cols=68 Identities=21% Similarity=0.219 Sum_probs=51.0
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+..+.+.... .-+|++|+.--+ +.| +++++.+.....+|+|+=-+-.+.+.+.++...||++.+.
T Consensus 142 ~~~~~~~~~~~~g--~~ii~tdI~~dGt~~G~d~eli~~i~~~~~~pvia~GGi~s~ed~~~l~~~Ga~~viv 212 (221)
T TIGR00734 142 SLEEVRDFLNSFD--YGLIVLDIHSVGTMKGPNLELLTKTLELSEHPVMLGGGISGVEDLELLKEMGVSAVLV 212 (221)
T ss_pred cHHHHHHHHHhcC--CEEEEEECCccccCCCCCHHHHHHHHhhCCCCEEEeCCCCCHHHHHHHHHCCCCEEEE
Confidence 4455566655433 579999998644 334 7788888766789998877888889998999999998875
No 208
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=78.34 E-value=14 Score=28.82 Aligned_cols=73 Identities=14% Similarity=0.094 Sum_probs=46.4
Q ss_pred CcEEEEE---CCHHHHHHHHHhCCCCceEEEEccCCCCC-CH-HHHHHHHhcC--C-CCcEEEEeccCCHHHHHHHHhCC
Q 027234 2 GFSVTKC---NRAEIALDMLRTNKNGYDIVISDVHMPDM-DG-FKLLELVGLE--M-DLPVIMMCAHGSKEVVMKGVTHD 73 (226)
Q Consensus 2 g~~V~~~---~~~~eal~~l~~~~~~~DlVl~D~~mp~~-dG-~~l~~~l~~~--~-~~pvI~ls~~~~~~~~~~a~~~g 73 (226)
||+|... -..++.++.+.+.. ||+|.+...|+.. .. -++++.+++. + .++| ++.+..-.. .-+...|
T Consensus 112 G~~vi~LG~~vp~e~~v~~~~~~~--pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i-~vGG~~~~~--~~~~~~g 186 (197)
T TIGR02370 112 GFDVIDLGRDVPIDTVVEKVKKEK--PLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKF-MVGGAPVTQ--DWADKIG 186 (197)
T ss_pred CcEEEECCCCCCHHHHHHHHHHcC--CCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEE-EEEChhcCH--HHHHHhC
Confidence 7787742 35688888988877 9999999988653 33 3445666643 2 3444 444433322 2355779
Q ss_pred cceEEe
Q 027234 74 ACDYLT 79 (226)
Q Consensus 74 a~~yl~ 79 (226)
||+|-.
T Consensus 187 ad~~~~ 192 (197)
T TIGR02370 187 ADVYGE 192 (197)
T ss_pred CcEEeC
Confidence 998864
No 209
>PF13518 HTH_28: Helix-turn-helix domain
Probab=78.18 E-value=1.6 Score=25.71 Aligned_cols=28 Identities=25% Similarity=0.253 Sum_probs=21.6
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
|++.+.. +-+..++|.++++|++.+++.
T Consensus 5 iv~~~~~-g~s~~~~a~~~gis~~tv~~w 32 (52)
T PF13518_consen 5 IVELYLE-GESVREIAREFGISRSTVYRW 32 (52)
T ss_pred HHHHHHc-CCCHHHHHHHHCCCHhHHHHH
Confidence 3444444 559999999999999998874
No 210
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=78.14 E-value=18 Score=29.58 Aligned_cols=69 Identities=14% Similarity=0.223 Sum_probs=49.4
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHH-hCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGV-THDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~-~~ga~~yl~ 79 (226)
+..+..+.+.+.. .-.++++|+.--+ +.| +++++.+++...+|||.-.+-.+.+.+.+++ ..|+++.+.
T Consensus 153 ~~~e~~~~~~~~g-~~~ii~~~i~~~G~~~G~d~~~i~~~~~~~~ipvIasGGv~s~eD~~~l~~~~GvdgViv 225 (258)
T PRK01033 153 DPLELAKEYEALG-AGEILLNSIDRDGTMKGYDLELLKSFRNALKIPLIALGGAGSLDDIVEAILNLGADAAAA 225 (258)
T ss_pred CHHHHHHHHHHcC-CCEEEEEccCCCCCcCCCCHHHHHHHHhhCCCCEEEeCCCCCHHHHHHHHHHCCCCEEEE
Confidence 4556666665542 1358888875432 233 6677888777889999888888899999998 799998763
No 211
>cd04730 NPD_like 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=78.08 E-value=30 Score=27.48 Aligned_cols=70 Identities=16% Similarity=0.109 Sum_probs=49.0
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCCC-------CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMPD-------MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp~-------~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+.+++....+ .. .|.|+++-.-++ ...+++++.++...++||++..+-...+...+++..|+++...-
T Consensus 109 v~~~~~~~~~~~-~g--ad~i~~~~~~~~G~~~~~~~~~~~~i~~i~~~~~~Pvi~~GGI~~~~~v~~~l~~GadgV~vg 185 (236)
T cd04730 109 VTSVEEARKAEA-AG--ADALVAQGAEAGGHRGTFDIGTFALVPEVRDAVDIPVIAAGGIADGRGIAAALALGADGVQMG 185 (236)
T ss_pred CCCHHHHHHHHH-cC--CCEEEEeCcCCCCCCCccccCHHHHHHHHHHHhCCCEEEECCCCCHHHHHHHHHcCCcEEEEc
Confidence 445556554433 33 788887542211 24577888887666799998888777788999999999998764
No 212
>PRK10668 DNA-binding transcriptional repressor AcrR; Provisional
Probab=78.05 E-value=3.3 Score=32.44 Aligned_cols=43 Identities=9% Similarity=0.036 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 160 LHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 160 l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
..++++.++.. +...-.-.+.|+++||++.++|+..||+-|..
T Consensus 12 ~R~~Il~AA~~----------lf~e~G~~~~t~~~Ia~~agvs~~tlY~~F~s 54 (215)
T PRK10668 12 TRQHILDAALR----------LFSQQGVSATSLADIAKAAGVTRGAIYWHFKN 54 (215)
T ss_pred HHHHHHHHHHH----------HHHHcCcccCCHHHHHHHhCCChHHHHHHCCC
Confidence 35677777777 44444566889999999999999999998764
No 213
>PRK09016 quinolinate phosphoribosyltransferase; Validated
Probab=78.03 E-value=27 Score=29.34 Aligned_cols=67 Identities=10% Similarity=0.011 Sum_probs=46.5
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+.+.+.++|.+.++.. +|+|++|-.-| -++-+.++....-..|..|+.-+.+.+.+....|+|..-
T Consensus 212 eVEv~sleea~ea~~~g---aDiI~LDn~s~----e~~~~av~~~~~~~~ieaSGGI~~~ni~~yA~tGVD~Is 278 (296)
T PRK09016 212 EVEVENLDELDQALKAG---ADIIMLDNFTT----EQMREAVKRTNGRALLEVSGNVTLETLREFAETGVDFIS 278 (296)
T ss_pred EEEeCCHHHHHHHHHcC---CCEEEeCCCCh----HHHHHHHHhhcCCeEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 45788999999999843 89999995443 333333332222235668888889999999999987543
No 214
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=78.00 E-value=1.5 Score=28.92 Aligned_cols=31 Identities=35% Similarity=0.389 Sum_probs=23.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.|.+.+...++|..++|.+|++++..++|+-
T Consensus 22 ~i~~~~~~~~ltQ~e~A~~lgisq~~vS~l~ 52 (80)
T PF13744_consen 22 AIRELREERGLTQAELAERLGISQPRVSRLE 52 (80)
T ss_dssp HHHHHHHCCT--HHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHCCChhHHHHHH
Confidence 3667777889999999999999999988864
No 215
>PRK06106 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=77.89 E-value=26 Score=29.14 Aligned_cols=66 Identities=15% Similarity=0.049 Sum_probs=46.7
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+++.+.+++.+.+.. ++|+|++|- |+--++-+.+.......++..|+.-+.+.+.+....|+|..-
T Consensus 199 VEv~tleea~ea~~~---gaDiI~LDn----~s~e~l~~av~~~~~~~~leaSGGI~~~ni~~yA~tGVD~Is 264 (281)
T PRK06106 199 VEVDTLDQLEEALEL---GVDAVLLDN----MTPDTLREAVAIVAGRAITEASGRITPETAPAIAASGVDLIS 264 (281)
T ss_pred EEeCCHHHHHHHHHc---CCCEEEeCC----CCHHHHHHHHHHhCCCceEEEECCCCHHHHHHHHhcCCCEEE
Confidence 578899999999874 389999994 444444444432222223778998999999998899987543
No 216
>PRK15435 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional
Probab=77.86 E-value=2.5 Score=36.36 Aligned_cols=34 Identities=18% Similarity=0.173 Sum_probs=27.4
Q ss_pred CCCCCHHHHHHHhhhhhhhhhcccCC-CCCCCCCC
Q 027234 187 IPGLTRENVASHLQKHRLYLSRLSGV-SPQQGNSF 220 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r~~~~-~~~~~~~~ 220 (226)
.+.++++++|.++++|+++|.|+|+- .++.+..|
T Consensus 97 ~~~lsl~eLA~~lG~S~~~L~R~Fkk~~G~TP~~y 131 (353)
T PRK15435 97 ETPVTLEALADQVAMSPFHLHRLFKATTGMTPKAW 131 (353)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHCcCHHHH
Confidence 46899999999999999999998865 45554444
No 217
>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=77.59 E-value=24 Score=29.42 Aligned_cols=65 Identities=15% Similarity=0.079 Sum_probs=47.0
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+++.+.+++.+.+.. ++|+|++| .|+--++-+.+........+-.|+.-+.+.+......|+|..
T Consensus 198 VEv~slee~~ea~~~---gaDiImLD----n~s~e~l~~av~~~~~~~~leaSGgI~~~ni~~yA~tGVD~I 262 (281)
T PRK06543 198 VEVDRLDQIEPVLAA---GVDTIMLD----NFSLDDLREGVELVDGRAIVEASGNVNLNTVGAIASTGVDVI 262 (281)
T ss_pred EEeCCHHHHHHHHhc---CCCEEEEC----CCCHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHhcCCCEE
Confidence 578999999998874 38999999 444444444443222233677899999999998888998754
No 218
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=77.59 E-value=20 Score=28.83 Aligned_cols=70 Identities=14% Similarity=0.047 Sum_probs=52.2
Q ss_pred ECCHHHHHHHHHhCCCCce-EEEEccCCCC-C--CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 8 CNRAEIALDMLRTNKNGYD-IVISDVHMPD-M--DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~D-lVl~D~~mp~-~--dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
..+..+..+.+.... +| ++++|+.--+ . .-+++++.+++...+|+++--+-.+.+.+.+++..|++..+.
T Consensus 26 ~~d~~~~a~~~~~~G--~~~i~i~d~~~~~~~~~~~~~~i~~i~~~~~~pv~~~GGI~s~~d~~~~l~~G~~~v~i 99 (243)
T cd04731 26 AGDPVELAKRYNEQG--ADELVFLDITASSEGRETMLDVVERVAEEVFIPLTVGGGIRSLEDARRLLRAGADKVSI 99 (243)
T ss_pred CCCHHHHHHHHHHCC--CCEEEEEcCCcccccCcccHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCceEEE
Confidence 347778778877653 55 8888887422 2 235677888766779999888888899999999999887664
No 219
>cd00331 IGPS Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the release of carbon dioxide and water. IGPS is active as a separate monomer in most organisms, but is also found fused to other enzymes as part of a bifunctional or multifunctional enzyme involved in tryptophan biosynthesis.
Probab=77.57 E-value=30 Score=27.22 Aligned_cols=71 Identities=13% Similarity=-0.042 Sum_probs=48.3
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCC--CCCCHHHHHHHHhcC--CCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHM--PDMDGFKLLELVGLE--MDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~m--p~~dG~~l~~~l~~~--~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
..+.+.+++.+..+. . +|.+.+--.- ....++++++.++.. .++|++...+-...+.+.++...|+++.+.
T Consensus 126 v~v~~~~e~~~~~~~-g--~~~i~~t~~~~~~~~~~~~~~~~l~~~~~~~~pvia~gGI~s~edi~~~~~~Ga~gviv 200 (217)
T cd00331 126 VEVHDEEELERALAL-G--AKIIGINNRDLKTFEVDLNTTERLAPLIPKDVILVSESGISTPEDVKRLAEAGADAVLI 200 (217)
T ss_pred EEECCHHHHHHHHHc-C--CCEEEEeCCCccccCcCHHHHHHHHHhCCCCCEEEEEcCCCCHHHHHHHHHcCCCEEEE
Confidence 345677776655542 3 7777554110 012335777777644 468999999988999999999999999884
No 220
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=77.50 E-value=27 Score=28.02 Aligned_cols=65 Identities=15% Similarity=0.169 Sum_probs=44.2
Q ss_pred HHHHHHHhCCCCce-EEEEccCC---CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhC-CcceEEe
Q 027234 13 IALDMLRTNKNGYD-IVISDVHM---PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTH-DACDYLT 79 (226)
Q Consensus 13 eal~~l~~~~~~~D-lVl~D~~m---p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~-ga~~yl~ 79 (226)
+....+.... +| +++.++.- ...-.+++++.++...++|+|..-+-.+.+.+.++++. |+++.+.
T Consensus 153 ~~~~~l~~~G--~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~~~pvia~GGi~~~~di~~~l~~~g~dgv~v 222 (243)
T cd04731 153 EWAKEVEELG--AGEILLTSMDRDGTKKGYDLELIRAVSSAVNIPVIASGGAGKPEHFVEAFEEGGADAALA 222 (243)
T ss_pred HHHHHHHHCC--CCEEEEeccCCCCCCCCCCHHHHHHHHhhCCCCEEEeCCCCCHHHHHHHHHhCCCCEEEE
Confidence 3344444433 77 55555431 11224677888876678999988888889999999987 8987774
No 221
>PF08535 KorB: KorB domain; InterPro: IPR013741 This entry contains several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This domain includes the DNA-binding HTH motif []. ; PDB: 1R71_C.
Probab=77.43 E-value=0.89 Score=30.99 Aligned_cols=26 Identities=31% Similarity=0.426 Sum_probs=17.4
Q ss_pred CCCHHHHHHHhhhhhhhhhcccCCCC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSGVSP 214 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~~~~ 214 (226)
|+|.++||..||+||+|..+.-...+
T Consensus 3 G~tq~eIA~~lGks~s~Vs~~l~Ll~ 28 (93)
T PF08535_consen 3 GWTQEEIAKRLGKSRSWVSNHLALLD 28 (93)
T ss_dssp T--HHHHHHHTT--HHHHHHHHGGGS
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHc
Confidence 78999999999999999886444433
No 222
>TIGR03384 betaine_BetI transcriptional repressor BetI. BetI is a DNA-binding transcriptional repressor of the bet (betaine) regulon. In sequence, it is related to TetR (pfam00440). Choline, through BetI, induces the expression of the betaine biosynthesis genes betA and betB by derepression. The choline porter gene betT is also part of this regulon in Escherichia coli. Note that a different transcriptional regulator, ArcA, controls the expression of bet regulon genes in response to oxygen, as BetA is an oxygen-dependent enzyme.
Probab=76.97 E-value=4.1 Score=30.94 Aligned_cols=43 Identities=14% Similarity=0.054 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 160 LHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 160 l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
..++.++++.. +...-.-.+.|++.||.+.|+++..+|+-|+.
T Consensus 9 rr~~Il~aA~~----------lf~~~G~~~~s~~~IA~~agvsk~~ly~~F~s 51 (189)
T TIGR03384 9 RRAELIDATIE----------SIGERGSLDVTIAQIARRAGVSSGIISHYFGG 51 (189)
T ss_pred HHHHHHHHHHH----------HHHhcCcccCCHHHHHHHhCCCHHHHHHHcCC
Confidence 34566777776 33333455889999999999999999998864
No 223
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=76.96 E-value=14 Score=30.76 Aligned_cols=70 Identities=13% Similarity=0.216 Sum_probs=51.3
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccC----C----CCCCHHHHHHHHhcCCCCcEEEEec-cCCHHHHHHHHhCCcceE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVH----M----PDMDGFKLLELVGLEMDLPVIMMCA-HGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~----m----p~~dG~~l~~~l~~~~~~pvI~ls~-~~~~~~~~~a~~~ga~~y 77 (226)
.+++.++|.++++... +|.+-..+. + |.. ++++++.|++..++|+++.-+ ..+.+...++++.|++..
T Consensus 151 ~~t~~eea~~f~~~tg--vD~Lavs~Gt~hg~~~~~~~l-~~e~L~~i~~~~~iPlv~hGgSGi~~e~i~~~i~~Gi~ki 227 (282)
T TIGR01859 151 ELADPDEAEQFVKETG--VDYLAAAIGTSHGKYKGEPGL-DFERLKEIKELTNIPLVLHGASGIPEEQIKKAIKLGIAKI 227 (282)
T ss_pred ccCCHHHHHHHHHHHC--cCEEeeccCccccccCCCCcc-CHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHcCCCEE
Confidence 4679999999997544 888775521 1 333 588899998767899988763 345677888999999876
Q ss_pred Ee
Q 027234 78 LT 79 (226)
Q Consensus 78 l~ 79 (226)
=.
T Consensus 228 Nv 229 (282)
T TIGR01859 228 NI 229 (282)
T ss_pred EE
Confidence 54
No 224
>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences. ThiG, together with ThiF and ThiH, is proposed to be involved in the synthesis of 4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an intermediate in the thiazole production pathway [].; GO: 0009228 thiamine biosynthetic process; PDB: 1WV2_B 1TYG_C 1XM3_B 2HTM_C 2YZR_C.
Probab=76.80 E-value=11 Score=30.46 Aligned_cols=92 Identities=17% Similarity=0.174 Sum_probs=56.3
Q ss_pred CcEEE--EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHH-----HHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCc
Q 027234 2 GFSVT--KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGF-----KLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDA 74 (226)
Q Consensus 2 g~~V~--~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~-----~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga 74 (226)
||.|. +..|..-|-++.+.. +.. ++=+.-|-..|. ..++.|....++|||+=.+-..++.+..++++|+
T Consensus 123 GF~VlPY~~~D~v~akrL~d~G---caa-vMPlgsPIGSg~Gi~n~~~l~~i~~~~~vPvIvDAGiG~pSdaa~AMElG~ 198 (247)
T PF05690_consen 123 GFVVLPYCTDDPVLAKRLEDAG---CAA-VMPLGSPIGSGRGIQNPYNLRIIIERADVPVIVDAGIGTPSDAAQAMELGA 198 (247)
T ss_dssp T-EEEEEE-S-HHHHHHHHHTT----SE-BEEBSSSTTT---SSTHHHHHHHHHHGSSSBEEES---SHHHHHHHHHTT-
T ss_pred CCEEeecCCCCHHHHHHHHHCC---CCE-EEecccccccCcCCCCHHHHHHHHHhcCCcEEEeCCCCCHHHHHHHHHcCC
Confidence 67765 344555555554432 333 444555544443 3456666556899999999999999999999999
Q ss_pred ceEEe-----CCCCHHHHHHHHHHHHHH
Q 027234 75 CDYLT-----KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 75 ~~yl~-----KP~~~~~L~~~l~~~~~~ 97 (226)
++.|. +--++-.+..+.+.....
T Consensus 199 daVLvNTAiA~A~dPv~MA~Af~~AV~A 226 (247)
T PF05690_consen 199 DAVLVNTAIAKAKDPVAMARAFKLAVEA 226 (247)
T ss_dssp SEEEESHHHHTSSSHHHHHHHHHHHHHH
T ss_pred ceeehhhHHhccCCHHHHHHHHHHHHHH
Confidence 99995 466777777777766543
No 225
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=76.53 E-value=20 Score=27.79 Aligned_cols=77 Identities=21% Similarity=0.349 Sum_probs=38.9
Q ss_pred EEEECCHHHHHHHHHhC-CCCceEEEEccC-CCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 5 VTKCNRAEIALDMLRTN-KNGYDIVISDVH-MPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~-~~~~DlVl~D~~-mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
|..+++.++|++.+++. ...|-+|-+|.. -|+.-++.-+++.-...+-|++++.+..- ....+.+ ..+||+..|+
T Consensus 84 v~~~~sle~a~~~I~~~~G~~P~~v~TsAr~~~~~is~~~lr~~l~~~~~P~LllFGTGw-GL~~ev~--~~~D~iLePI 160 (185)
T PF09936_consen 84 VRVVDSLEEAIEDIEEEEGKRPLLVATSARKYPNTISYAELRRMLEEEDRPVLLLFGTGW-GLAPEVM--EQCDYILEPI 160 (185)
T ss_dssp EEEESSHHHHHHHHHHHHSS--EEEE--SS--SS-B-HHHHHHHHHH--S-EEEEE--TT----HHHH--TT-SEEB--T
T ss_pred hccHhhHHHHHHHHHHHhCCCCEEEEecCcCCCCCcCHHHHHHHHhccCCeEEEEecCCC-CCCHHHH--HhcCeeEccc
Confidence 66789999999998762 244999999998 45555666665443345667777765332 1222222 2567999986
Q ss_pred CH
Q 027234 83 RI 84 (226)
Q Consensus 83 ~~ 84 (226)
.-
T Consensus 161 ~g 162 (185)
T PF09936_consen 161 RG 162 (185)
T ss_dssp TT
T ss_pred cc
Confidence 53
No 226
>cd04726 KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for L-ascorbate utilization in some eubacteria. HPS catalyzes the formation of D-arabino-3-hexulose-6-phosphate from D-ribulose 5-phosphate and formaldehyde in microorganisms that can use formaldehyde as a carbon source. Both catalyze reactions that involve the Mg2+-assisted formation and stabilization of 1,2-enediolate reaction intermediates.
Probab=76.15 E-value=21 Score=27.63 Aligned_cols=70 Identities=14% Similarity=-0.006 Sum_probs=46.8
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCC-C----CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHM-P----DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~m-p----~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
..+.+..+++..+. .. +|.|.+...- + ...+.+.++.++...++|+++.-+ -+.+.+.++++.||+.++.
T Consensus 111 ~~~~t~~e~~~~~~-~~--~d~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~GG-I~~~~i~~~~~~Gad~vvv 185 (202)
T cd04726 111 IGVEDPEKRAKLLK-LG--VDIVILHRGIDAQAAGGWWPEDDLKKVKKLLGVKVAVAGG-ITPDTLPEFKKAGADIVIV 185 (202)
T ss_pred eCCCCHHHHHHHHH-CC--CCEEEEcCcccccccCCCCCHHHHHHHHhhcCCCEEEECC-cCHHHHHHHHhcCCCEEEE
Confidence 35567788877433 23 7888875311 1 235567777776546778765555 4588899999999998874
No 227
>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=75.81 E-value=17 Score=31.01 Aligned_cols=66 Identities=12% Similarity=0.058 Sum_probs=46.0
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCCCCH-HHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPDMDG-FKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~~dG-~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+++.++++.. ..+|+|.+|.-.+..+. .++++.|+.. +++|||. -.-.+.+.+..+.++|++...
T Consensus 99 ~~~~~~Lv~ag-~~~d~i~iD~a~gh~~~~~e~I~~ir~~~p~~~vi~-g~V~t~e~a~~l~~aGad~i~ 166 (326)
T PRK05458 99 YDFVDQLAAEG-LTPEYITIDIAHGHSDSVINMIQHIKKHLPETFVIA-GNVGTPEAVRELENAGADATK 166 (326)
T ss_pred HHHHHHHHhcC-CCCCEEEEECCCCchHHHHHHHHHHHhhCCCCeEEE-EecCCHHHHHHHHHcCcCEEE
Confidence 35566666642 12699999999976544 6678888754 4566654 223478889999999999865
No 228
>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative. Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.
Probab=75.59 E-value=22 Score=28.67 Aligned_cols=65 Identities=20% Similarity=0.151 Sum_probs=49.0
Q ss_pred HHHHHHHhCCCCceEEEEccCCCCC--CHHHHHHHHhcCC-CCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 13 IALDMLRTNKNGYDIVISDVHMPDM--DGFKLLELVGLEM-DLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 13 eal~~l~~~~~~~DlVl~D~~mp~~--dG~~l~~~l~~~~-~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+.+.+. +.|.|.+|...|+. -.++.++.+++.. .+|||.--+-.+.+.+.+.+..||++...
T Consensus 152 ~~a~~l~~a--Gad~i~Vd~~~~g~~~a~~~~I~~i~~~~~~ipIIgNGgI~s~eda~e~l~~GAd~Vmv 219 (231)
T TIGR00736 152 IDALNLVDD--GFDGIHVDAMYPGKPYADMDLLKILSEEFNDKIIIGNNSIDDIESAKEMLKAGADFVSV 219 (231)
T ss_pred HHHHHHHHc--CCCEEEEeeCCCCCchhhHHHHHHHHHhcCCCcEEEECCcCCHHHHHHHHHhCCCeEEE
Confidence 444455553 48999999777764 2477888888665 59999888888889999999999998753
No 229
>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]
Probab=75.56 E-value=27 Score=28.92 Aligned_cols=65 Identities=18% Similarity=0.084 Sum_probs=45.3
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhc--CCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGL--EMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~--~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+++.+.+++.+.++.. +|+|++|= |+--++-+.++. ...-.++-.|+.-..+.+......|+|-+
T Consensus 193 VEvesle~~~eAl~ag---aDiImLDN----m~~e~~~~av~~l~~~~~~~lEaSGgIt~~ni~~yA~tGVD~I 259 (280)
T COG0157 193 VEVESLEEAEEALEAG---ADIIMLDN----MSPEELKEAVKLLGLAGRALLEASGGITLENIREYAETGVDVI 259 (280)
T ss_pred EEcCCHHHHHHHHHcC---CCEEEecC----CCHHHHHHHHHHhccCCceEEEEeCCCCHHHHHHHhhcCCCEE
Confidence 4688999999999854 89999994 444444333332 22333445888888999988888888744
No 230
>PRK04217 hypothetical protein; Provisional
Probab=75.46 E-value=1.9 Score=30.47 Aligned_cols=29 Identities=28% Similarity=0.356 Sum_probs=23.2
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
++..+...++|.++||..|++|+..+|+.
T Consensus 50 ai~l~~~eGlS~~EIAk~LGIS~sTV~r~ 78 (110)
T PRK04217 50 ALRLVDYEGLTQEEAGKRMGVSRGTVWRA 78 (110)
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHH
Confidence 44555556899999999999999988764
No 231
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=75.43 E-value=2.6 Score=24.95 Aligned_cols=40 Identities=18% Similarity=0.199 Sum_probs=31.7
Q ss_pred HHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 162 QQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 162 ~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.++...+++ .|++.+... .|...||..+++|-..+.|+|+
T Consensus 10 ~r~T~~~~~---------~i~~~~~~~-~s~~~vA~~~~vs~~TV~ri~~ 49 (52)
T PF13542_consen 10 CRITKRLEQ---------YILKLLRES-RSFKDVARELGVSWSTVRRIFD 49 (52)
T ss_pred CcHHHHHHH---------HHHHHHhhc-CCHHHHHHHHCCCHHHHHHHHH
Confidence 445555566 677777774 8999999999999999988864
No 232
>PRK06978 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=75.30 E-value=25 Score=29.49 Aligned_cols=65 Identities=12% Similarity=-0.016 Sum_probs=46.0
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+.+.+.+++.+.+.. ++|+|++|= |+--++-+.++....-.++-.|+.-+.+.+......|+|-.
T Consensus 210 VEvetleea~eA~~a---GaDiImLDn----mspe~l~~av~~~~~~~~lEaSGGIt~~ni~~yA~tGVD~I 274 (294)
T PRK06978 210 IEVETLAQLETALAH---GAQSVLLDN----FTLDMMREAVRVTAGRAVLEVSGGVNFDTVRAFAETGVDRI 274 (294)
T ss_pred EEcCCHHHHHHHHHc---CCCEEEECC----CCHHHHHHHHHhhcCCeEEEEECCCCHHHHHHHHhcCCCEE
Confidence 468899999999874 389999993 44444444433222234566888889999998888998854
No 233
>PRK01905 DNA-binding protein Fis; Provisional
Probab=75.11 E-value=3.3 Score=27.13 Aligned_cols=30 Identities=20% Similarity=0.109 Sum_probs=25.5
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..|+++|+.|||.
T Consensus 41 ~i~~aL~~~~gn~s~aAr~LGIsrstL~rk 70 (77)
T PRK01905 41 LLEVVMEQAGGNQSLAAEYLGINRNTLRKK 70 (77)
T ss_pred HHHHHHHHcCCCHHHHHHHHCCCHHHHHHH
Confidence 466777777888999999999999998874
No 234
>PRK06843 inosine 5-monophosphate dehydrogenase; Validated
Probab=74.23 E-value=19 Score=31.62 Aligned_cols=54 Identities=17% Similarity=0.087 Sum_probs=41.2
Q ss_pred CceEEEEccCCCC-CCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 24 GYDIVISDVHMPD-MDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 24 ~~DlVl~D~~mp~-~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
++|+|.+|.--+. ..-.++++.++. .|++++| +......+....+.++||+...
T Consensus 165 GvDvI~iD~a~g~~~~~~~~v~~ik~~~p~~~vi-~g~V~T~e~a~~l~~aGaD~I~ 220 (404)
T PRK06843 165 HVDILVIDSAHGHSTRIIELVKKIKTKYPNLDLI-AGNIVTKEAALDLISVGADCLK 220 (404)
T ss_pred CCCEEEEECCCCCChhHHHHHHHHHhhCCCCcEE-EEecCCHHHHHHHHHcCCCEEE
Confidence 3899999998874 455678888874 4566644 5556678889999999999865
No 235
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=74.16 E-value=23 Score=29.43 Aligned_cols=71 Identities=13% Similarity=0.068 Sum_probs=52.6
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccC--C---C--CCCHHHHHHHHhcCCCCcEEEEecc-CCHHHHHHHHhCCcceEE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVH--M---P--DMDGFKLLELVGLEMDLPVIMMCAH-GSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~--m---p--~~dG~~l~~~l~~~~~~pvI~ls~~-~~~~~~~~a~~~ga~~yl 78 (226)
.+.+.++|.++++... +|.+-+.+. - | ..=|++.++.++...++|++++-+. ...+...++++.|++..=
T Consensus 151 s~t~~eea~~f~~~tg--~DyLAvaiG~~hg~~~~~~~l~~~~L~~i~~~~~iPlV~hG~SGI~~e~~~~~i~~G~~kin 228 (281)
T PRK06806 151 LLTSTTEAKRFAEETD--VDALAVAIGNAHGMYNGDPNLRFDRLQEINDVVHIPLVLHGGSGISPEDFKKCIQHGIRKIN 228 (281)
T ss_pred eeCCHHHHHHHHHhhC--CCEEEEccCCCCCCCCCCCccCHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHcCCcEEE
Confidence 4789999999987644 888877332 1 1 1248889999987778999888743 366778889999998765
Q ss_pred e
Q 027234 79 T 79 (226)
Q Consensus 79 ~ 79 (226)
.
T Consensus 229 v 229 (281)
T PRK06806 229 V 229 (281)
T ss_pred E
Confidence 4
No 236
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=74.06 E-value=2.6 Score=35.75 Aligned_cols=32 Identities=13% Similarity=0.041 Sum_probs=28.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+.+...+.++...|.+||+||+.|||+-+
T Consensus 290 ~I~~aL~~~~gn~~~aA~~LGIsR~tLyrklk 321 (326)
T PRK11608 290 LLQRSLQQAKFNQKRAAELLGLTYHQLRALLK 321 (326)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHHHH
Confidence 57788888899999999999999999998533
No 237
>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=74.00 E-value=2.7 Score=25.12 Aligned_cols=32 Identities=13% Similarity=0.118 Sum_probs=25.6
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
|.+.+...++|..++|..+++++++++++.+-
T Consensus 7 l~~~r~~~gltq~~lA~~~gvs~~~vs~~e~g 38 (58)
T TIGR03070 7 VRARRKALGLTQADLADLAGVGLRFIRDVENG 38 (58)
T ss_pred HHHHHHHcCCCHHHHHHHhCCCHHHHHHHHCC
Confidence 44445556999999999999999999987543
No 238
>TIGR03613 RutR pyrimidine utilization regulatory protein R. This protein is observed in operons extremely similar to that characterized in E. coli K-12 responsible for the import and catabolism of pyrimidines, primarily uracil. This protein is a member of the TetR family of transcriptional regulators defined by the N-teminal model pfam00440 and the C-terminal model pfam08362 (YcdC-like protein, C-terminal region).
Probab=73.45 E-value=4.8 Score=31.09 Aligned_cols=43 Identities=14% Similarity=0.099 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 160 LHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 160 l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
..++.+.++.. +...-.-.+.|++.||.+.|+|+..+|+-|+.
T Consensus 9 ~r~~Il~aA~~----------lf~e~G~~~~s~~~IA~~agvs~~~lY~hF~s 51 (202)
T TIGR03613 9 KRKAILSAALD----------TFSRFGFHGTSLEQIAELAGVSKTNLLYYFPS 51 (202)
T ss_pred HHHHHHHHHHH----------HHHHhCcccCCHHHHHHHhCCCHHHHHHHcCC
Confidence 35677777777 55555677899999999999999999998874
No 239
>PF07374 DUF1492: Protein of unknown function (DUF1492); InterPro: IPR010861 This entry is represented by Streptococcus phage 7201, Orf19. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several hypothetical, highly conserved Streptococcal and related phage proteins. The function of this family is unknown.
Probab=72.98 E-value=2.2 Score=29.53 Aligned_cols=46 Identities=26% Similarity=0.360 Sum_probs=30.5
Q ss_pred HHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 163 QFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 163 ~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.+..+++++ +...-..|+...=..+++.++||..|++|++++||+-
T Consensus 47 ei~~~I~~l--~d~~~r~iL~~~Yi~~~~~~~I~~~l~~S~~t~yr~~ 92 (100)
T PF07374_consen 47 EIRRAINKL--EDPDERLILRMRYINKLTWEQIAEELNISRRTYYRIH 92 (100)
T ss_pred HHHHHHHHc--cChhHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHH
Confidence 344444443 2222234555444458999999999999999999863
No 240
>PRK04128 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=72.93 E-value=26 Score=28.07 Aligned_cols=66 Identities=18% Similarity=0.164 Sum_probs=48.7
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..++++.+.+.. -.+|++|+.--+ +.|++ +..+...++|+|.--+-.+.+...++...|+++.+.
T Consensus 144 ~~~~~~~~~~~~~--~~ii~t~i~~dGt~~G~d--~l~~~~~~~pviasGGv~~~~Dl~~l~~~g~~gviv 210 (228)
T PRK04128 144 KVEDAYEMLKNYV--NRFIYTSIERDGTLTGIE--EIERFWGDEEFIYAGGVSSAEDVKKLAEIGFSGVII 210 (228)
T ss_pred CHHHHHHHHHHHh--CEEEEEeccchhcccCHH--HHHHhcCCCCEEEECCCCCHHHHHHHHHCCCCEEEE
Confidence 5567777776543 479999998765 47777 222222578999888888889999999999998774
No 241
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=72.93 E-value=2.3 Score=37.94 Aligned_cols=31 Identities=23% Similarity=0.286 Sum_probs=28.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.++++. +||.+++|+++++++.||-++||
T Consensus 380 ~I~~h~se-~LtL~~la~~f~in~~Ylgqlfk 410 (475)
T COG4753 380 YIHKHFSE-NLTLKDLAKVFHINPVYLGQLFK 410 (475)
T ss_pred HHHHHhcC-CCCHHHHHHHhCcCHHHHHHHHH
Confidence 67788888 99999999999999999999886
No 242
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=72.86 E-value=2.9 Score=24.38 Aligned_cols=29 Identities=28% Similarity=0.311 Sum_probs=22.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.|+..+.....+..+||.++++++..+++
T Consensus 6 ~Il~~L~~~~~~~~el~~~l~~s~~~vs~ 34 (47)
T PF01022_consen 6 RILKLLSEGPLTVSELAEELGLSQSTVSH 34 (47)
T ss_dssp HHHHHHTTSSEEHHHHHHHHTS-HHHHHH
T ss_pred HHHHHHHhCCCchhhHHHhccccchHHHH
Confidence 46666666789999999999999997664
No 243
>PRK08185 hypothetical protein; Provisional
Probab=72.68 E-value=23 Score=29.53 Aligned_cols=66 Identities=15% Similarity=0.305 Sum_probs=49.9
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccC----------CCCCCHHHHHHHHhcCCCCcEEEEeccC-CHHHHHHHHhCCcce
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVH----------MPDMDGFKLLELVGLEMDLPVIMMCAHG-SKEVVMKGVTHDACD 76 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~----------mp~~dG~~l~~~l~~~~~~pvI~ls~~~-~~~~~~~a~~~ga~~ 76 (226)
.+++++|.++++... +|.+-..+. -|+.+ +++++.|+...++|+++.-+.. ..+...++...|+.-
T Consensus 148 ~t~peea~~f~~~Tg--vD~LAvaiGt~HG~y~~~~kp~L~-~e~l~~I~~~~~iPLVlHGgsg~~~e~~~~ai~~GI~K 224 (283)
T PRK08185 148 YTDPEQAEDFVSRTG--VDTLAVAIGTAHGIYPKDKKPELQ-MDLLKEINERVDIPLVLHGGSANPDAEIAESVQLGVGK 224 (283)
T ss_pred CCCHHHHHHHHHhhC--CCEEEeccCcccCCcCCCCCCCcC-HHHHHHHHHhhCCCEEEECCCCCCHHHHHHHHHCCCeE
Confidence 568999999998754 898887441 25555 8899999876789999886654 456788899999653
No 244
>COG1309 AcrR Transcriptional regulator [Transcription]
Probab=72.56 E-value=5.2 Score=29.43 Aligned_cols=28 Identities=14% Similarity=-0.015 Sum_probs=24.8
Q ss_pred hCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 185 MNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 185 ~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
..-+++|...||++++++|..+|+-|+.
T Consensus 28 ~G~~~~t~~~Ia~~agvs~~~~Y~~f~~ 55 (201)
T COG1309 28 KGYAATTVDEIAKAAGVSKGTLYRHFPS 55 (201)
T ss_pred cCcCCCCHHHHHHHhCCCcchhHHHcCC
Confidence 5667899999999999999999998764
No 245
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=72.51 E-value=2.2 Score=24.39 Aligned_cols=22 Identities=27% Similarity=0.170 Sum_probs=18.5
Q ss_pred CCHHHHHHHhhhhhhhhhcccC
Q 027234 190 LTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 190 lt~~~va~~l~~~r~~l~r~~~ 211 (226)
+|..++|..|+++++.+++.-+
T Consensus 1 ~s~~e~a~~lgvs~~tl~~~~~ 22 (49)
T cd04762 1 LTTKEAAELLGVSPSTLRRWVK 22 (49)
T ss_pred CCHHHHHHHHCcCHHHHHHHHH
Confidence 5789999999999999887533
No 246
>PRK01381 Trp operon repressor; Provisional
Probab=72.28 E-value=1.3 Score=30.62 Aligned_cols=39 Identities=15% Similarity=0.076 Sum_probs=29.5
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCCCCCCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGVSPQQGNS 219 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~~~~~ 219 (226)
|...+-..+.+..+||.++|+|+.+..|..+.-...+++
T Consensus 47 I~~~L~~g~~sQREIa~~lGvSiaTITRgsn~Lk~~~~~ 85 (99)
T PRK01381 47 IVEELLRGELSQREIKQELGVGIATITRGSNSLKTAPPE 85 (99)
T ss_pred HHHHHHcCCcCHHHHHHHhCCceeeehhhHHHhccCCHH
Confidence 444444448999999999999999999987766554443
No 247
>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=72.07 E-value=2.7 Score=27.20 Aligned_cols=32 Identities=28% Similarity=0.325 Sum_probs=25.8
Q ss_pred HHH-HhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KIL-ELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~-~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|. ..|...++|..++|..+++++..+.++..
T Consensus 8 ~i~~~~~~~~~~t~~~lA~~~gis~~tis~~~~ 40 (78)
T TIGR02607 8 ILREEFLEPLGLSIRALAKALGVSRSTLSRIVN 40 (78)
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHc
Confidence 344 46677799999999999999999888644
No 248
>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=71.94 E-value=1.6 Score=25.32 Aligned_cols=31 Identities=35% Similarity=0.464 Sum_probs=23.8
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
|...+...+++..++|+.+++++.+++++..
T Consensus 4 l~~~~~~~~~s~~~~a~~~~~~~~~v~~~~~ 34 (58)
T cd00093 4 LKELRKEKGLTQEELAEKLGVSRSTISRIEN 34 (58)
T ss_pred HHHHHHHcCCCHHHHHHHHCCCHHHHHHHHc
Confidence 3344445689999999999999999887543
No 249
>PLN02716 nicotinate-nucleotide diphosphorylase (carboxylating)
Probab=71.40 E-value=41 Score=28.43 Aligned_cols=72 Identities=17% Similarity=-0.023 Sum_probs=46.5
Q ss_pred EEECCHHHHHHHHHh---CCCCceEEEEccC--CCCC---CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 6 TKCNRAEIALDMLRT---NKNGYDIVISDVH--MPDM---DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 6 ~~~~~~~eal~~l~~---~~~~~DlVl~D~~--mp~~---dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
++|.+.+++.+.+.. .+.++|+|++|=. -|.. +--++-+.+........+-.|+.-+.+.+......|+|-.
T Consensus 208 VEv~tleea~ea~~~~~~~~agaDiImLDnm~~~~~~~~~~~e~l~~av~~~~~~~~lEaSGGIt~~ni~~yA~tGVD~I 287 (308)
T PLN02716 208 VETRTLEEVKEVLEYLSDTKTSLTRVMLDNMVVPLENGDVDVSMLKEAVELINGRFETEASGNVTLDTVHKIGQTGVTYI 287 (308)
T ss_pred EEECCHHHHHHHHHhcccccCCCCEEEeCCCcccccccCCCHHHHHHHHHhhCCCceEEEECCCCHHHHHHHHHcCCCEE
Confidence 478899999998871 1123899999954 1221 3333333333222223477888889999988888998753
No 250
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=71.11 E-value=54 Score=27.25 Aligned_cols=57 Identities=12% Similarity=0.079 Sum_probs=42.8
Q ss_pred HHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcce------EEeCCCCHHHHHHHHHHHHHH
Q 027234 41 KLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACD------YLTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 41 ~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~------yl~KP~~~~~L~~~l~~~~~~ 97 (226)
+.+..+++..++|||...+-.+.+.+.+++..||+. ++..|.-..++..-+.+.+..
T Consensus 224 ~~v~~i~~~~~ipvi~~GGI~s~~da~~~l~~GAd~V~igr~~l~~p~~~~~i~~~l~~~~~~ 286 (300)
T TIGR01037 224 RMVYDVYKMVDIPIIGVGGITSFEDALEFLMAGASAVQVGTAVYYRGFAFKKIIEGLIAFLKA 286 (300)
T ss_pred HHHHHHHhcCCCCEEEECCCCCHHHHHHHHHcCCCceeecHHHhcCchHHHHHHHHHHHHHHH
Confidence 566677766679999988888999999999999886 556775556666666555543
No 251
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=71.04 E-value=58 Score=26.86 Aligned_cols=83 Identities=12% Similarity=0.232 Sum_probs=51.0
Q ss_pred HHHHHHHHhCCCCceEEEEccCC---CCCC----HHHHHHHHhcCCCCcEEEEeccCC------HHHHHHHHhCCcceEE
Q 027234 12 EIALDMLRTNKNGYDIVISDVHM---PDMD----GFKLLELVGLEMDLPVIMMCAHGS------KEVVMKGVTHDACDYL 78 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~m---p~~d----G~~l~~~l~~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl 78 (226)
..|.+.+.+. +..+++||.-.. ++-. -+..+..+++..+.||++=+++.. ......|..+||+|.+
T Consensus 151 ~~A~e~i~~~-Gn~~i~L~~rG~~t~~~Y~~~~vdl~~i~~lk~~~~~pV~~D~sHs~G~~~~v~~~~~aAva~Ga~Gl~ 229 (266)
T PRK13398 151 LYAAEYIMSE-GNENVVLCERGIRTFETYTRNTLDLAAVAVIKELSHLPIIVDPSHATGRRELVIPMAKAAIAAGADGLM 229 (266)
T ss_pred HHHHHHHHhc-CCCeEEEEECCCCCCCCCCHHHHHHHHHHHHHhccCCCEEEeCCCcccchhhHHHHHHHHHHcCCCEEE
Confidence 4456666643 347899988633 2322 222344555556789887455543 3567789999998765
Q ss_pred -eC-------------CCCHHHHHHHHHHHH
Q 027234 79 -TK-------------PVRIEELKNIWQHVV 95 (226)
Q Consensus 79 -~K-------------P~~~~~L~~~l~~~~ 95 (226)
.| -+++++|...++.+.
T Consensus 230 iE~H~~pd~a~~D~~~sl~p~~l~~l~~~i~ 260 (266)
T PRK13398 230 IEVHPEPEKALSDARQTLNFEEMKELVDELK 260 (266)
T ss_pred EeccCCccccCCchhhcCCHHHHHHHHHHHH
Confidence 33 266777777776653
No 252
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=70.96 E-value=48 Score=26.93 Aligned_cols=71 Identities=13% Similarity=0.025 Sum_probs=53.4
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCC---CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPD---MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~---~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.++.+..+.+.... .-.+.++|+.-.+ ..-+++++.+.+...+||++--+-.+.+.+.+++..||+..+.-
T Consensus 30 ~dp~~~a~~~~~~G-~~~l~v~Dl~~~~~~~~~n~~~i~~i~~~~~~pv~~~GGi~s~~d~~~~~~~Ga~~vivg 103 (254)
T TIGR00735 30 GDPVELAQRYDEEG-ADELVFLDITASSEGRTTMIDVVERTAETVFIPLTVGGGIKSIEDVDKLLRAGADKVSIN 103 (254)
T ss_pred CCHHHHHHHHHHcC-CCEEEEEcCCcccccChhhHHHHHHHHHhcCCCEEEECCCCCHHHHHHHHHcCCCEEEEC
Confidence 47777777776642 2468889997553 23356677777667799999888889999999999999887753
No 253
>PHA02591 hypothetical protein; Provisional
Probab=70.68 E-value=2.7 Score=27.58 Aligned_cols=24 Identities=29% Similarity=0.239 Sum_probs=20.4
Q ss_pred CCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 186 NIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 186 ~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
..-|+|+++||++||.+....++.
T Consensus 56 ~eqGlSqeqIA~~LGVsqetVrKY 79 (83)
T PHA02591 56 ARKGFTVEKIASLLGVSVRKVRRY 79 (83)
T ss_pred HHcCCCHHHHHHHhCCCHHHHHHH
Confidence 345999999999999999887764
No 254
>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=70.67 E-value=37 Score=28.41 Aligned_cols=65 Identities=12% Similarity=0.004 Sum_probs=45.7
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
+++.+.+++.+.+.. ++|+|++|= |+--++-+.+.....-.++-.|+.-+.+.+......|+|..
T Consensus 202 VEv~tleea~~a~~a---gaDiImLDn----mspe~l~~av~~~~~~~~leaSGGI~~~ni~~yA~tGVD~I 266 (290)
T PRK06559 202 VEVESLAAAEEAAAA---GADIIMLDN----MSLEQIEQAITLIAGRSRIECSGNIDMTTISRFRGLAIDYV 266 (290)
T ss_pred EECCCHHHHHHHHHc---CCCEEEECC----CCHHHHHHHHHHhcCceEEEEECCCCHHHHHHHHhcCCCEE
Confidence 467899999999874 389999993 44444444333212234566888889999988888998854
No 255
>PF02581 TMP-TENI: Thiamine monophosphate synthase/TENI; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2.5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway []. TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group [].; GO: 0004789 thiamine-phosphate diphosphorylase activity, 0009228 thiamine biosynthetic process; PDB: 3NL5_A 3NL2_A 3NM1_A 3NM3_C 3NL6_B 3NL3_A 3CEU_A 3O63_B 3QH2_C 1YAD_D ....
Probab=70.49 E-value=22 Score=27.15 Aligned_cols=68 Identities=18% Similarity=0.116 Sum_probs=47.4
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCCC-------CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPDM-------DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~-------dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.|.+.+++.+..+ .. +|.|++.-.-|.. -|++.++.+.....+||+.+-+- +.+......+.|+++.-
T Consensus 101 S~h~~~e~~~a~~-~g--~dYv~~gpvf~T~sk~~~~~~g~~~l~~~~~~~~~pv~AlGGI-~~~~i~~l~~~Ga~gvA 175 (180)
T PF02581_consen 101 SCHSLEEAREAEE-LG--ADYVFLGPVFPTSSKPGAPPLGLDGLREIARASPIPVYALGGI-TPENIPELREAGADGVA 175 (180)
T ss_dssp EESSHHHHHHHHH-CT--TSEEEEETSS--SSSSS-TTCHHHHHHHHHHHTSSCEEEESS---TTTHHHHHHTT-SEEE
T ss_pred ecCcHHHHHHhhh-cC--CCEEEECCccCCCCCccccccCHHHHHHHHHhCCCCEEEEcCC-CHHHHHHHHHcCCCEEE
Confidence 6778888665554 33 8999988765543 48998888876677999988875 45556678889998864
No 256
>PF13022 HTH_Tnp_1_2: Helix-turn-helix of insertion element transposase; PDB: 2AO9_I.
Probab=70.39 E-value=2.5 Score=31.16 Aligned_cols=21 Identities=24% Similarity=0.213 Sum_probs=16.5
Q ss_pred CCCCHHHHHHHhhhhhhhhhc
Q 027234 188 PGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 188 ~~lt~~~va~~l~~~r~~l~r 208 (226)
+..|.++||.++|++|+.|||
T Consensus 33 ~r~T~~eiAee~Gis~~tLYr 53 (142)
T PF13022_consen 33 ERRTQAEIAEEVGISRSTLYR 53 (142)
T ss_dssp --S-HHHHHHHHTS-HHHHHH
T ss_pred ccchHHHHHHHhCCCHHHHHH
Confidence 569999999999999999997
No 257
>PRK04128 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=70.30 E-value=55 Score=26.25 Aligned_cols=82 Identities=11% Similarity=0.024 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccC-CC-C-CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe--CCCC
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVH-MP-D-MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT--KPVR 83 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~-mp-~-~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~--KP~~ 83 (226)
.++.+..+.+.+.. -.++++|+. +- + ..-+++++.+.+...+|+++=-+-.+.+.+.+++..|++..+. ..++
T Consensus 30 ~dp~~~a~~~~~~~--~~l~ivDldga~~g~~~n~~~i~~i~~~~~~pv~~gGGIrs~edv~~l~~~G~~~vivGtaa~~ 107 (228)
T PRK04128 30 GDPVEIALRFSEYV--DKIHVVDLDGAFEGKPKNLDVVKNIIRETGLKVQVGGGLRTYESIKDAYEIGVENVIIGTKAFD 107 (228)
T ss_pred CCHHHHHHHHHHhC--CEEEEEECcchhcCCcchHHHHHHHHhhCCCCEEEcCCCCCHHHHHHHHHCCCCEEEECchhcC
Confidence 36777766665532 347788886 32 2 2468888888766788998777777889999999999998775 3345
Q ss_pred HHHHHHHHH
Q 027234 84 IEELKNIWQ 92 (226)
Q Consensus 84 ~~~L~~~l~ 92 (226)
++.+....+
T Consensus 108 ~~~l~~~~~ 116 (228)
T PRK04128 108 LEFLEKVTS 116 (228)
T ss_pred HHHHHHHHH
Confidence 554444433
No 258
>TIGR01303 IMP_DH_rel_1 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase and restricted to the high GC Gram-positive bacteria. All species in which a member is found so far (Corynebacterium glutamicum, Mycobacterium tuberculosis, Streptomyces coelicolor, etc.) also have IMP dehydrogenase as described by TIGRFAMs entry TIGR01302.
Probab=69.98 E-value=29 Score=31.20 Aligned_cols=67 Identities=13% Similarity=0.047 Sum_probs=46.8
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCCCC-HHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPDMD-GFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~~d-G~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+..+-+..+-... .|.|.+|...+.-. -.+++++|+. .+++|||+ -.....+....+.++||+..-
T Consensus 224 ~~~~~ra~~Lv~aG--Vd~i~~D~a~g~~~~~~~~i~~i~~~~~~~~vi~-g~~~t~~~~~~l~~~G~d~i~ 292 (475)
T TIGR01303 224 GDVGGKAKALLDAG--VDVLVIDTAHGHQVKMISAIKAVRALDLGVPIVA-GNVVSAEGVRDLLEAGANIIK 292 (475)
T ss_pred ccHHHHHHHHHHhC--CCEEEEeCCCCCcHHHHHHHHHHHHHCCCCeEEE-eccCCHHHHHHHHHhCCCEEE
Confidence 34444444444433 89999999885543 3667788874 46788776 436678889999999998764
No 259
>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]
Probab=69.88 E-value=22 Score=28.73 Aligned_cols=69 Identities=19% Similarity=0.202 Sum_probs=48.8
Q ss_pred EEEccCCCCCCHH-----HHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC-----CCCHHHHHHHHHHHHH
Q 027234 28 VISDVHMPDMDGF-----KLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK-----PVRIEELKNIWQHVVR 96 (226)
Q Consensus 28 Vl~D~~mp~~dG~-----~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K-----P~~~~~L~~~l~~~~~ 96 (226)
.++=+.-|-.+|. ..++.|..+.++|||+=.+-..++.+..++++|+|+.|.- --++-.+..+......
T Consensus 154 avMPl~aPIGSg~G~~n~~~l~iiie~a~VPviVDAGiG~pSdAa~aMElG~DaVL~NTAiA~A~DPv~MA~Af~~Av~ 232 (262)
T COG2022 154 AVMPLGAPIGSGLGLQNPYNLEIIIEEADVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFALAVE 232 (262)
T ss_pred EeccccccccCCcCcCCHHHHHHHHHhCCCCEEEeCCCCChhHHHHHHhcccceeehhhHhhccCChHHHHHHHHHHHH
Confidence 3444555544443 3456666667999999999999999999999999999854 3455555555555443
No 260
>PRK13585 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=69.67 E-value=56 Score=26.11 Aligned_cols=78 Identities=13% Similarity=0.063 Sum_probs=52.5
Q ss_pred CHHHHHHHHHhCCCCce-EEEEccCCC---CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe------
Q 027234 10 RAEIALDMLRTNKNGYD-IVISDVHMP---DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT------ 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~D-lVl~D~~mp---~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~------ 79 (226)
+..+..+.+.... ++ ++++|+..- ..-.+++++.+....++|+++..+-.+.+.+.+....|+++.+.
T Consensus 150 ~~~~~~~~~~~~G--~~~i~~~~~~~~g~~~g~~~~~i~~i~~~~~iPvia~GGI~~~~di~~~~~~Ga~gv~vgsa~~~ 227 (241)
T PRK13585 150 TPVEAAKRFEELG--AGSILFTNVDVEGLLEGVNTEPVKELVDSVDIPVIASGGVTTLDDLRALKEAGAAGVVVGSALYK 227 (241)
T ss_pred CHHHHHHHHHHcC--CCEEEEEeecCCCCcCCCCHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCCEEEEEHHHhc
Confidence 4555555555433 55 556666321 22346778888766789999888888888888899999998763
Q ss_pred CCCCHHHHHH
Q 027234 80 KPVRIEELKN 89 (226)
Q Consensus 80 KP~~~~~L~~ 89 (226)
.|+..+++..
T Consensus 228 ~~~~~~~~~~ 237 (241)
T PRK13585 228 GKFTLEEAIE 237 (241)
T ss_pred CCcCHHHHHH
Confidence 4666555543
No 261
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=69.60 E-value=4.9 Score=24.90 Aligned_cols=26 Identities=31% Similarity=0.186 Sum_probs=21.8
Q ss_pred CCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 186 NIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 186 ~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
....++..++|+.+++++..++|..+
T Consensus 22 ~~~~~s~~ela~~~g~s~~tv~r~l~ 47 (67)
T cd00092 22 VQLPLTRQEIADYLGLTRETVSRTLK 47 (67)
T ss_pred ccCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 45679999999999999999887543
No 262
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=69.57 E-value=4.3 Score=23.44 Aligned_cols=29 Identities=24% Similarity=0.208 Sum_probs=22.5
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
++...-..+++..+||..+++++..+++.
T Consensus 18 ~~~~~~~~~~~~~~ia~~~~~s~~~i~~~ 46 (55)
T cd06171 18 VILLRFGEGLSYEEIAEILGISRSTVRQR 46 (55)
T ss_pred HHHHHHhcCCCHHHHHHHHCcCHHHHHHH
Confidence 34444446899999999999999988763
No 263
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=69.19 E-value=20 Score=27.10 Aligned_cols=47 Identities=15% Similarity=0.241 Sum_probs=32.2
Q ss_pred CCceEEEEccCCCC-----CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHH
Q 027234 23 NGYDIVISDVHMPD-----MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKG 69 (226)
Q Consensus 23 ~~~DlVl~D~~mp~-----~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a 69 (226)
..+|+||+|--+.- .+--++++.|+..+.--=+++|+...++...+.
T Consensus 94 ~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~ 145 (159)
T cd00561 94 GEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEA 145 (159)
T ss_pred CCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHh
Confidence 34999999965432 344577788876666555678888877666544
No 264
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=69.13 E-value=14 Score=29.17 Aligned_cols=40 Identities=15% Similarity=0.223 Sum_probs=31.4
Q ss_pred CCCcEEEEeccC------CHHHHHHHHhCCcceEEeCCCCHHHHHH
Q 027234 50 MDLPVIMMCAHG------SKEVVMKGVTHDACDYLTKPVRIEELKN 89 (226)
Q Consensus 50 ~~~pvI~ls~~~------~~~~~~~a~~~ga~~yl~KP~~~~~L~~ 89 (226)
-.+|||+++-+. ...++..+-++||.+||.-.+.+++-..
T Consensus 94 vt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~ 139 (268)
T KOG4175|consen 94 VTCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAET 139 (268)
T ss_pred cccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHH
Confidence 358999887554 3467889999999999999888887543
No 265
>COG2070 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]
Probab=68.95 E-value=25 Score=30.04 Aligned_cols=70 Identities=23% Similarity=0.213 Sum_probs=52.8
Q ss_pred EEEECCHHHHHHHHHhCCCCceEEEEccC-CCCCCH--------HHHHHHHhcCCC-CcEEEEeccCCHHHHHHHHhCCc
Q 027234 5 VTKCNRAEIALDMLRTNKNGYDIVISDVH-MPDMDG--------FKLLELVGLEMD-LPVIMMCAHGSKEVVMKGVTHDA 74 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~~~~DlVl~D~~-mp~~dG--------~~l~~~l~~~~~-~pvI~ls~~~~~~~~~~a~~~ga 74 (226)
+..+.+..+|....+ .+.|.||+.=. -.+..| +.|+.++....+ +|||.--+-.+...+..|+.+||
T Consensus 131 ~~~v~~~~~A~~~~~---~G~d~vI~~g~eAGGH~g~~~~~~~t~~Lv~ev~~~~~~iPViAAGGI~dg~~i~AAlalGA 207 (336)
T COG2070 131 IHSVITVREALKAER---AGADAVIAQGAEAGGHRGGVDLEVSTFALVPEVVDAVDGIPVIAAGGIADGRGIAAALALGA 207 (336)
T ss_pred EEEeCCHHHHHHHHh---CCCCEEEecCCcCCCcCCCCCCCccHHHHHHHHHHHhcCCCEEEecCccChHHHHHHHHhcc
Confidence 346778888887765 34788887654 233333 778888876666 89999999999999999999999
Q ss_pred ceE
Q 027234 75 CDY 77 (226)
Q Consensus 75 ~~y 77 (226)
++.
T Consensus 208 ~gV 210 (336)
T COG2070 208 DGV 210 (336)
T ss_pred HHH
Confidence 874
No 266
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=68.87 E-value=3.2 Score=25.65 Aligned_cols=29 Identities=24% Similarity=0.259 Sum_probs=23.5
Q ss_pred HHHHhh-CCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELM-NIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~-~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.|+..+ ...+.|..+||+.+++++..+++
T Consensus 14 ~Il~~L~~~~~~t~~ela~~l~~~~~t~s~ 43 (61)
T PF12840_consen 14 RILRLLASNGPMTVSELAEELGISQSTVSY 43 (61)
T ss_dssp HHHHHHHHCSTBEHHHHHHHHTS-HHHHHH
T ss_pred HHHHHHhcCCCCCHHHHHHHHCCCHHHHHH
Confidence 466666 77799999999999999998775
No 267
>PRK13890 conjugal transfer protein TrbA; Provisional
Probab=68.82 E-value=4 Score=29.31 Aligned_cols=33 Identities=18% Similarity=0.284 Sum_probs=25.8
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGVS 213 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~ 213 (226)
|.+.+..-++|++++|..+++++++++++.+-.
T Consensus 10 l~~ll~~~Glsq~eLA~~~Gis~~~is~iE~g~ 42 (120)
T PRK13890 10 VLRLLDERHMTKKELSERSGVSISFLSDLTTGK 42 (120)
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHcCC
Confidence 445555668999999999999999999875443
No 268
>PLN02274 inosine-5'-monophosphate dehydrogenase
Probab=68.78 E-value=30 Score=31.38 Aligned_cols=67 Identities=15% Similarity=0.126 Sum_probs=43.1
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+-.+.+-+. +.|+|.+|.--.. ..-++++++|+.. ++.+|| ...-...+....+.++|||....
T Consensus 248 ~~~~r~~~l~~a--g~d~i~iD~~~g~~~~~~~~i~~ik~~~p~~~vi-~g~v~t~e~a~~a~~aGaD~i~v 316 (505)
T PLN02274 248 SDKERLEHLVKA--GVDVVVLDSSQGDSIYQLEMIKYIKKTYPELDVI-GGNVVTMYQAQNLIQAGVDGLRV 316 (505)
T ss_pred cHHHHHHHHHHc--CCCEEEEeCCCCCcHHHHHHHHHHHHhCCCCcEE-EecCCCHHHHHHHHHcCcCEEEE
Confidence 333434444443 3899999984221 1224788888854 556654 44456778899999999998754
No 269
>PRK11202 DNA-binding transcriptional repressor FabR; Provisional
Probab=68.78 E-value=6.4 Score=30.68 Aligned_cols=43 Identities=12% Similarity=0.040 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.++++.++.. .+...-.-.+.|+++||.+.++++..+|+-|+.
T Consensus 13 R~~Il~aA~~---------~l~~~~G~~~~si~~IA~~Agvs~~t~Y~hF~s 55 (203)
T PRK11202 13 RRALIDAAFS---------QLSAERSFSSLSLREVAREAGIAPTSFYRHFRD 55 (203)
T ss_pred HHHHHHHHHH---------HHHhcCCcccCCHHHHHHHhCCCcchHHHHCCC
Confidence 4566666654 133344556889999999999999999998864
No 270
>COG1342 Predicted DNA-binding proteins [General function prediction only]
Probab=68.57 E-value=2.5 Score=28.91 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=22.6
Q ss_pred HhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 183 ELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 183 ~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.+-+..+++.++-|..|++||..|.|.
T Consensus 43 RLvD~~~l~QeeAA~rMgISr~Tfwr~ 69 (99)
T COG1342 43 RLVDYEGLTQEEAALRMGISRQTFWRL 69 (99)
T ss_pred HHHhHhhccHHHHHHHhcccHHHHHHH
Confidence 344556899999999999999998874
No 271
>PF13309 HTH_22: HTH domain
Probab=68.50 E-value=2.9 Score=26.37 Aligned_cols=18 Identities=33% Similarity=0.266 Sum_probs=16.7
Q ss_pred CHHHHHHHhhhhhhhhhc
Q 027234 191 TRENVASHLQKHRLYLSR 208 (226)
Q Consensus 191 t~~~va~~l~~~r~~l~r 208 (226)
+++.||..|++||..+||
T Consensus 44 av~~vA~~L~iS~~TVY~ 61 (64)
T PF13309_consen 44 AVEYVAEKLGISRATVYR 61 (64)
T ss_pred HHHHHHHHHCCCHHHHHH
Confidence 679999999999999997
No 272
>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=68.41 E-value=4.4 Score=35.85 Aligned_cols=30 Identities=17% Similarity=0.062 Sum_probs=26.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|.+||+||+.|||+
T Consensus 430 ~i~~al~~~~gn~~~aA~~Lgisr~tL~rk 459 (463)
T TIGR01818 430 LLEAALQHTRGHKQEAAALLGWGRNTLTRK 459 (463)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 577788878999999999999999999985
No 273
>PRK13586 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=68.40 E-value=47 Score=26.72 Aligned_cols=68 Identities=6% Similarity=-0.087 Sum_probs=46.1
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+.++.+.... .=.+|++|+.--++ .| +++++.+...+ .|+|.--+-.+.+...++.+.|+++.+.
T Consensus 147 ~~~e~~~~l~~~g-~~~ii~tdI~~dGt~~G~d~el~~~~~~~~-~~viasGGv~s~~Dl~~l~~~G~~gviv 217 (232)
T PRK13586 147 EVIDGIKKVNELE-LLGIIFTYISNEGTTKGIDYNVKDYARLIR-GLKEYAGGVSSDADLEYLKNVGFDYIIV 217 (232)
T ss_pred CHHHHHHHHHhcC-CCEEEEecccccccCcCcCHHHHHHHHhCC-CCEEEECCCCCHHHHHHHHHCCCCEEEE
Confidence 5667777776643 12899999987653 45 55677776543 4555544555668888888899998875
No 274
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=68.11 E-value=5.1 Score=30.90 Aligned_cols=30 Identities=27% Similarity=0.367 Sum_probs=25.6
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.+++.+...|+|.++||..|++|...++|-
T Consensus 142 ~~v~l~~~~Gls~~EIA~~lgiS~~tV~r~ 171 (185)
T PF07638_consen 142 RVVELRFFEGLSVEEIAERLGISERTVRRR 171 (185)
T ss_pred HHHHHHHHCCCCHHHHHHHHCcCHHHHHHH
Confidence 566677677999999999999999988764
No 275
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=68.11 E-value=59 Score=25.82 Aligned_cols=83 Identities=13% Similarity=0.095 Sum_probs=53.6
Q ss_pred EEEECCHHHHHHHHHhCC-CCceEEEEccCCCCCCHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 5 VTKCNRAEIALDMLRTNK-NGYDIVISDVHMPDMDGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~-~~~DlVl~D~~mp~~dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
|....+.++|++.++... .++++|=+- +-.-++++.++.++. .+++ +|-.-.-.+.+....++++||+-.++.-+
T Consensus 20 V~r~~~~~~a~~i~~al~~~Gi~~iEit--l~~~~~~~~I~~l~~~~p~~-~IGAGTVl~~~~a~~a~~aGA~FivsP~~ 96 (212)
T PRK05718 20 VIVINKLEDAVPLAKALVAGGLPVLEVT--LRTPAALEAIRLIAKEVPEA-LIGAGTVLNPEQLAQAIEAGAQFIVSPGL 96 (212)
T ss_pred EEEcCCHHHHHHHHHHHHHcCCCEEEEe--cCCccHHHHHHHHHHHCCCC-EEEEeeccCHHHHHHHHHcCCCEEECCCC
Confidence 445667888887776542 236654333 444579999999974 4442 33344445668899999999996666666
Q ss_pred CHHHHHHH
Q 027234 83 RIEELKNI 90 (226)
Q Consensus 83 ~~~~L~~~ 90 (226)
+++-+..+
T Consensus 97 ~~~vi~~a 104 (212)
T PRK05718 97 TPPLLKAA 104 (212)
T ss_pred CHHHHHHH
Confidence 66444433
No 276
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=67.99 E-value=4.1 Score=26.52 Aligned_cols=23 Identities=17% Similarity=0.198 Sum_probs=20.1
Q ss_pred CCCCCHHHHHHHhhhhhhhhhcc
Q 027234 187 IPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
..++|..+||.+|++|....+..
T Consensus 30 ~eGlS~kEIAe~LGIS~~TVk~~ 52 (73)
T TIGR03879 30 EAGKTASEIAEELGRTEQTVRNH 52 (73)
T ss_pred HcCCCHHHHHHHHCcCHHHHHHH
Confidence 46999999999999999987754
No 277
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=67.77 E-value=5.5 Score=28.13 Aligned_cols=49 Identities=12% Similarity=0.083 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 161 HQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 161 ~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
...|-...+..|+....-..+..+...+++|..+||..+++++..+.|.
T Consensus 14 ~~~~~~~l~~~~lt~~q~~iL~~l~~~~~~t~~ela~~~~~~~~tvs~~ 62 (118)
T TIGR02337 14 MSFFRPILAQHGLTEQQWRILRILAEQGSMEFTQLANQACILRPSLTGI 62 (118)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHcCCcCHHHHHHHhCCCchhHHHH
Confidence 4455555666676544444444455677899999999999999987663
No 278
>PF05930 Phage_AlpA: Prophage CP4-57 regulatory protein (AlpA); InterPro: IPR010260 This entry is represents phage P4, Orf88. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. In Escherichia coli phage P4 Orf 88 is similar to AlpA of the CP4-57 cryptic prophage []. AlpA acts as a positive transcriptional regulator of slpA, a gene linked to alpA and necessary for suppression of lon mutants [, ]. The sequence of slpA suggests that it encodes an integrase gene closely related to phage P4 int and that both alpA and slpA are part of a cryptic P4-like prophage. Increase in alpA expression increases SlpA synthesis. Increased SlpA leads, in turn, to the excision and loss of the cryptic prophage. ; PDB: 1Z4H_A.
Probab=67.75 E-value=2.5 Score=25.24 Aligned_cols=22 Identities=32% Similarity=0.246 Sum_probs=17.2
Q ss_pred CCHHHHHHHhhhhhhhhhcccC
Q 027234 190 LTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 190 lt~~~va~~l~~~r~~l~r~~~ 211 (226)
++..+|+..+++||+.+|+.-+
T Consensus 4 l~~~ev~~~~g~s~~ti~~~~k 25 (51)
T PF05930_consen 4 LRIKEVAELLGVSRSTIYRLIK 25 (51)
T ss_dssp E-HHHHHHHHSS-HHHHHHHHH
T ss_pred ccHHHHHHHHCCCHHHHHHHHh
Confidence 5678999999999999998644
No 279
>PLN02274 inosine-5'-monophosphate dehydrogenase
Probab=67.45 E-value=38 Score=30.77 Aligned_cols=70 Identities=13% Similarity=0.129 Sum_probs=51.9
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEcc--------------CCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDV--------------HMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTH 72 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~--------------~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ 72 (226)
-+.+.++|...++. +.|.|.+-+ ..|...-+..+..+.....+|||.=.+-.....+.+|+.+
T Consensus 296 ~v~t~e~a~~a~~a---GaD~i~vg~g~G~~~~t~~~~~~g~~~~~~i~~~~~~~~~~~vpVIadGGI~~~~di~kAla~ 372 (505)
T PLN02274 296 NVVTMYQAQNLIQA---GVDGLRVGMGSGSICTTQEVCAVGRGQATAVYKVASIAAQHGVPVIADGGISNSGHIVKALTL 372 (505)
T ss_pred cCCCHHHHHHHHHc---CcCEEEECCCCCccccCccccccCCCcccHHHHHHHHHHhcCCeEEEeCCCCCHHHHHHHHHc
Confidence 46788888888763 379887642 1233345555666655567999999999999999999999
Q ss_pred CcceEEe
Q 027234 73 DACDYLT 79 (226)
Q Consensus 73 ga~~yl~ 79 (226)
||+....
T Consensus 373 GA~~V~v 379 (505)
T PLN02274 373 GASTVMM 379 (505)
T ss_pred CCCEEEE
Confidence 9998774
No 280
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=67.42 E-value=7 Score=26.81 Aligned_cols=30 Identities=17% Similarity=0.021 Sum_probs=25.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-+....|..||++|+.|||.
T Consensus 59 ~i~~aL~~~~gn~s~AAr~LGIsRsTL~rK 88 (95)
T PRK00430 59 LLDMVMQYTRGNQTRAALMLGINRGTLRKK 88 (95)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 466666666888999999999999999874
No 281
>PF00977 His_biosynth: Histidine biosynthesis protein; InterPro: IPR006062 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes. Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in one family. These enzymes are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. HisA is a phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (5.3.1.16 from EC), involved in the fourth step of histidine biosynthesis. The bacterial HisF protein is a cyclase which catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate during the sixth step of histidine biosynthesis. The yeast His7 protein is a bifunctional protein which catalyzes an amido-transferase reaction that generates imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide. The latter is the ribonucleotide used for purine biosynthesis. The enzyme also catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate, and is involved in the fifth and sixth steps in histidine biosynthesis.; GO: 0000105 histidine biosynthetic process; PDB: 2VEP_A 2X30_A 1VZW_A 2WJZ_A 2LLE_A 2A0N_A 1THF_D 1GPW_E 1VH7_A 1KA9_F ....
Probab=67.31 E-value=30 Score=27.70 Aligned_cols=70 Identities=19% Similarity=0.187 Sum_probs=51.0
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
-+..+.++.+.+.. .-.++++|+.--+ +.| +++++.++....+|+|.--+-.+.+...++.+.|+++.+.
T Consensus 147 ~~~~~~~~~~~~~g-~~~ii~tdi~~dGt~~G~d~~~~~~l~~~~~~~viasGGv~~~~Dl~~l~~~G~~gviv 219 (229)
T PF00977_consen 147 IDLEEFAKRLEELG-AGEIILTDIDRDGTMQGPDLELLKQLAEAVNIPVIASGGVRSLEDLRELKKAGIDGVIV 219 (229)
T ss_dssp EEHHHHHHHHHHTT--SEEEEEETTTTTTSSS--HHHHHHHHHHHSSEEEEESS--SHHHHHHHHHTTECEEEE
T ss_pred cCHHHHHHHHHhcC-CcEEEEeeccccCCcCCCCHHHHHHHHHHcCCCEEEecCCCCHHHHHHHHHCCCcEEEE
Confidence 35677777776652 3479999997654 344 5667778655689999888888899999999999998875
No 282
>PRK15115 response regulator GlrR; Provisional
Probab=67.28 E-value=2.5 Score=37.29 Aligned_cols=32 Identities=16% Similarity=0.147 Sum_probs=27.5
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+.+...+-++...|..||+||+.|||+-+
T Consensus 402 ~i~~al~~~~gn~~~aA~~Lgisr~tL~rkl~ 433 (444)
T PRK15115 402 YLRKLLQITKGNVTHAARMAGRNRTEFYKLLS 433 (444)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHHHH
Confidence 57777888889999999999999999998533
No 283
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=67.23 E-value=2.1 Score=27.58 Aligned_cols=22 Identities=36% Similarity=0.397 Sum_probs=19.8
Q ss_pred CCCHHHHHHHhhhhhhhhhccc
Q 027234 189 GLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.+|.+++|+.+++||.++.|..
T Consensus 28 ~lt~~~iA~~~g~sr~tv~r~l 49 (76)
T PF13545_consen 28 PLTQEEIADMLGVSRETVSRIL 49 (76)
T ss_dssp ESSHHHHHHHHTSCHHHHHHHH
T ss_pred cCCHHHHHHHHCCCHHHHHHHH
Confidence 6899999999999999988754
No 284
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=66.99 E-value=3.3 Score=35.05 Aligned_cols=32 Identities=31% Similarity=0.329 Sum_probs=25.7
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
+-.+|=.+++|+.+||++|++||....|+-+-
T Consensus 21 vA~lYY~~g~tQ~eIA~~lgiSR~~VsRlL~~ 52 (318)
T PRK15418 21 IAWFYYHDGLTQSEIGERLGLTRLKVSRLLEK 52 (318)
T ss_pred HHHHHHhcCCCHHHHHHHhCCCHHHHHHHHHH
Confidence 44455567999999999999999998886443
No 285
>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase. This model describes a rather tightly conserved cluster of IMP dehydrogenase sequences, many of which are characterized. The model excludes two related families of proteins proposed also to be IMP dehydrogenases, but without characterized members. These are related families are the subject of separate models.
Probab=66.90 E-value=27 Score=31.16 Aligned_cols=64 Identities=16% Similarity=0.149 Sum_probs=45.8
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+.+..+++. ++|+|.+|..-+. ....+++++++.. +++||++ ..-...+.+..+..+||+...
T Consensus 226 ~~r~~~L~~a---G~d~I~vd~a~g~~~~~~~~i~~i~~~~~~~~vi~-G~v~t~~~a~~l~~aGad~i~ 291 (450)
T TIGR01302 226 KERAEALVKA---GVDVIVIDSSHGHSIYVIDSIKEIKKTYPDLDIIA-GNVATAEQAKALIDAGADGLR 291 (450)
T ss_pred HHHHHHHHHh---CCCEEEEECCCCcHhHHHHHHHHHHHhCCCCCEEE-EeCCCHHHHHHHHHhCCCEEE
Confidence 3455555543 3899999985543 3457778888755 6788876 455677889999999998873
No 286
>cd04722 TIM_phosphate_binding TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate comes either from the substrate, as in the case of inosine monophosphate dehydrogenase (IMPDH), or from ribulose-5-phosphate 3-epimerase (RPE) or from cofactors, like FMN.
Probab=66.51 E-value=25 Score=26.46 Aligned_cols=55 Identities=20% Similarity=0.019 Sum_probs=40.2
Q ss_pred ceEEEEccCCCCCCH-------HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 25 YDIVISDVHMPDMDG-------FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG-------~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.|.|.++-..+...+ ...+..++....+|++...+-...+.+.+++..||+++..
T Consensus 137 ~d~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pi~~~GGi~~~~~~~~~~~~Gad~v~v 198 (200)
T cd04722 137 VDEVGLGNGGGGGGGRDAVPIADLLLILAKRGSKVPVIAGGGINDPEDAAEALALGADGVIV 198 (200)
T ss_pred CCEEEEcCCcCCCCCccCchhHHHHHHHHHhcCCCCEEEECCCCCHHHHHHHHHhCCCEEEe
Confidence 788888877765432 2334444556779999888887778888999999988753
No 287
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=66.47 E-value=2.7 Score=25.08 Aligned_cols=24 Identities=25% Similarity=0.126 Sum_probs=19.6
Q ss_pred CCCCCHHHHHHHhhhhhhhhhccc
Q 027234 187 IPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.++++..+||.+++++|+..+|+-
T Consensus 16 ~~~~t~~eia~~~gl~~stv~r~L 39 (52)
T PF09339_consen 16 GGPLTLSEIARALGLPKSTVHRLL 39 (52)
T ss_dssp BSCEEHHHHHHHHTS-HHHHHHHH
T ss_pred CCCCCHHHHHHHHCcCHHHHHHHH
Confidence 345799999999999999999864
No 288
>PRK14114 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=66.35 E-value=45 Score=27.05 Aligned_cols=69 Identities=13% Similarity=0.135 Sum_probs=50.3
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhC-----C-cceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTH-----D-ACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~-----g-a~~yl~ 79 (226)
+..+.++.+.... .=.+|++|+.--++ .| +++++.+.+..++|||.--+-.+.+...++... | +++.|.
T Consensus 145 ~~~e~~~~~~~~g-~~~ii~tdI~rdGt~~G~d~el~~~l~~~~~~pviasGGv~s~~Dl~~l~~~~~~~~g~v~gviv 222 (241)
T PRK14114 145 DPVSLLKRLKEYG-LEEIVHTEIEKDGTLQEHDFSLTRKIAIEAEVKVFAAGGISSENSLKTAQRVHRETNGLLKGVIV 222 (241)
T ss_pred CHHHHHHHHHhcC-CCEEEEEeechhhcCCCcCHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHhcccccCCcEEEEEE
Confidence 4566666665532 24899999976553 44 567888876678999988888888888888876 5 887774
No 289
>TIGR01306 GMP_reduct_2 guanosine monophosphate reductase, bacterial. A deep split separates two families of GMP reductase. The other (TIGR01305) is found in eukaryotic and some proteobacterial lineages, including E. coli, while this family is found in a variety of bacterial lineages.
Probab=66.26 E-value=35 Score=29.01 Aligned_cols=56 Identities=9% Similarity=0.052 Sum_probs=42.3
Q ss_pred ceEEEEccCCCCC-CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 25 YDIVISDVHMPDM-DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 25 ~DlVl~D~~mp~~-dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+|+|++|.--... .-++.++.++.....|.|+.-.-...+.+..+++.||++...-
T Consensus 109 ~d~i~~D~ahg~s~~~~~~i~~i~~~~p~~~vi~GnV~t~e~a~~l~~aGad~I~V~ 165 (321)
T TIGR01306 109 PEYITIDIAHGHSNSVINMIKHIKTHLPDSFVIAGNVGTPEAVRELENAGADATKVG 165 (321)
T ss_pred CCEEEEeCccCchHHHHHHHHHHHHhCCCCEEEEecCCCHHHHHHHHHcCcCEEEEC
Confidence 6999999865543 4467788888655566666665678899999999999998643
No 290
>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]
Probab=66.26 E-value=64 Score=26.21 Aligned_cols=70 Identities=20% Similarity=0.169 Sum_probs=52.3
Q ss_pred HHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh---cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHH
Q 027234 14 ALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG---LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEE 86 (226)
Q Consensus 14 al~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~---~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~ 86 (226)
..|.+.... ||-+++|.+-...|.-.++..|+ ..+..|||=. .-.++..+.+.+..||...|..=++.-+
T Consensus 30 ~~Ei~A~aG--fDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvVR~-p~g~~~~Ikq~LD~GAqtlliPmV~s~e 102 (255)
T COG3836 30 MAEILATAG--FDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVVRP-PVGDPVMIKQLLDIGAQTLLIPMVDTAE 102 (255)
T ss_pred HHHHHHhcC--CCEEEecccccCccHHHHHHHHHHhhccCCCCeeeC-CCCCHHHHHHHHccccceeeeeccCCHH
Confidence 346666644 99999999998899988888885 2344565544 4467888999999999999987655433
No 291
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=66.20 E-value=36 Score=27.50 Aligned_cols=53 Identities=19% Similarity=0.254 Sum_probs=33.1
Q ss_pred HHHHHhcCCCCcEEEEe-----ccCCHHHHHHHHhCCcceEEeC--CCC-HHHHHHHHHHH
Q 027234 42 LLELVGLEMDLPVIMMC-----AHGSKEVVMKGVTHDACDYLTK--PVR-IEELKNIWQHV 94 (226)
Q Consensus 42 l~~~l~~~~~~pvI~ls-----~~~~~~~~~~a~~~ga~~yl~K--P~~-~~~L~~~l~~~ 94 (226)
+++.++...++|+++++ ..........+...|+++++.- |+. .+++...++.+
T Consensus 65 ~v~~vr~~~~~Pl~lM~y~n~~~~~~~~~i~~~~~~Gadgvii~dlp~e~~~~~~~~~~~~ 125 (244)
T PRK13125 65 LLEEVRKDVSVPIILMTYLEDYVDSLDNFLNMARDVGADGVLFPDLLIDYPDDLEKYVEII 125 (244)
T ss_pred HHHHHhccCCCCEEEEEecchhhhCHHHHHHHHHHcCCCEEEECCCCCCcHHHHHHHHHHH
Confidence 55556655678987664 2223345778899999999986 343 45554444443
No 292
>cd04732 HisA HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene.
Probab=66.12 E-value=48 Score=26.25 Aligned_cols=68 Identities=13% Similarity=0.126 Sum_probs=48.3
Q ss_pred CHHHHHHHHHhCCCCce-EEEEccCCCCC---CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYD-IVISDVHMPDM---DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~D-lVl~D~~mp~~---dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+..+.+.+.. ++ ++++|+..-++ -.+++++.+++...+|++.-.+-.+.+.+.++++.|+++.+.
T Consensus 147 ~~~~~~~~~~~~g--a~~iii~~~~~~g~~~g~~~~~i~~i~~~~~ipvi~~GGi~~~~di~~~~~~Ga~gv~v 218 (234)
T cd04732 147 SLEELAKRFEELG--VKAIIYTDISRDGTLSGPNFELYKELAAATGIPVIASGGVSSLDDIKALKELGVAGVIV 218 (234)
T ss_pred CHHHHHHHHHHcC--CCEEEEEeecCCCccCCCCHHHHHHHHHhcCCCEEEecCCCCHHHHHHHHHCCCCEEEE
Confidence 4555666665542 44 55677644221 236778888766689999888888889899999999999774
No 293
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=66.04 E-value=38 Score=27.91 Aligned_cols=49 Identities=14% Similarity=0.228 Sum_probs=35.2
Q ss_pred HHHHHHHh-cCCCCcEEEEeccCCH------HHHHHHHhCCcceEEeCCCCHHHHH
Q 027234 40 FKLLELVG-LEMDLPVIMMCAHGSK------EVVMKGVTHDACDYLTKPVRIEELK 88 (226)
Q Consensus 40 ~~l~~~l~-~~~~~pvI~ls~~~~~------~~~~~a~~~ga~~yl~KP~~~~~L~ 88 (226)
+++++.++ ....+|+++|+-.... ....++.+.|+++.|.--+.+++-.
T Consensus 82 lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee~~ 137 (265)
T COG0159 82 LELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEESD 137 (265)
T ss_pred HHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEeCCCChHHHH
Confidence 44455555 4467899999866542 4577899999999999876666644
No 294
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=65.83 E-value=29 Score=28.98 Aligned_cols=67 Identities=16% Similarity=0.266 Sum_probs=50.1
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccC--------CCCCCHHHHHHHHhcCCCCcEEEEeccC-CHHHHHHHHhCCcceE
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVH--------MPDMDGFKLLELVGLEMDLPVIMMCAHG-SKEVVMKGVTHDACDY 77 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~--------mp~~dG~~l~~~l~~~~~~pvI~ls~~~-~~~~~~~a~~~ga~~y 77 (226)
.+++++|.++++... +|.+=.-+. -|..| +++++.|+...++|+++=-+.. ..+...++.+.|+.-.
T Consensus 154 ~T~peea~~Fv~~Tg--vD~LAvaiGt~HG~Y~~~p~Ld-fd~l~~I~~~~~vPLVLHGgSG~~~e~~~kai~~GI~Ki 229 (286)
T PRK12738 154 LTDPQEAKRFVELTG--VDSLAVAIGTAHGLYSKTPKID-FQRLAEIREVVDVPLVLHGASDVPDEFVRRTIELGVTKV 229 (286)
T ss_pred CCCHHHHHHHHHHhC--CCEEEeccCcccCCCCCCCcCC-HHHHHHHHHHhCCCEEEeCCCCCCHHHHHHHHHcCCeEE
Confidence 568999999999865 998877773 24444 7888898866789988754433 3577888999997643
No 295
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=65.82 E-value=53 Score=26.13 Aligned_cols=68 Identities=21% Similarity=0.127 Sum_probs=51.8
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCC-------CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMP-------DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp-------~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+.+.+++.+..+. ++|-|.+---.| .-.|++.++.++....+|++.+-+ .+.+.+...+..||++.-
T Consensus 110 S~h~~eea~~A~~~---g~DYv~~GpifpT~tK~~~~~~G~~~l~~~~~~~~iP~vAIGG-i~~~nv~~v~~~Ga~gVA 184 (211)
T COG0352 110 STHDLEEALEAEEL---GADYVGLGPIFPTSTKPDAPPLGLEGLREIRELVNIPVVAIGG-INLENVPEVLEAGADGVA 184 (211)
T ss_pred ecCCHHHHHHHHhc---CCCEEEECCcCCCCCCCCCCccCHHHHHHHHHhCCCCEEEEcC-CCHHHHHHHHHhCCCeEE
Confidence 45588888877653 289888766444 457999999888666699887776 567888899999999764
No 296
>PF04309 G3P_antiterm: Glycerol-3-phosphate responsive antiterminator; InterPro: IPR006699 Glycerol enters bacterial cells via facilitated diffusion, an energy-independent transport process catalysed by the glycerol transport facilitator GlpF, an integral membrane protein of the aquaporin family. Intracellular glycerol is usually converted to glycerol-3-P in an ATP-requiring phosphorylation reaction catalysed by glycerol kinase (GlpK). Glycerol-3-P, the inducer of the glpFK operon, is not a substrate for GlpF and hence remains entrapped in the cell where it is metabolized further. In some bacterial species, for example Bacillus firmus, glycerol-3-P activates the antiterminator GlpP []. In B. subtilis, glpF and glpK are organised in an operon followed by the glycerol-3-P dehydrogenase-encoding glpD gene and preceded by glpP coding for an antiterminator regulating the expression of glpFK, glpD and glpTQ. Their induction requires the inducer glycerol-3-P, which activates the antiterminator GlpP by allowing it to bind to the leader region of glpD and presumably also of glpFK and glpTQ mRNAs.; GO: 0006355 regulation of transcription, DNA-dependent, 0009607 response to biotic stimulus; PDB: 1VKF_A 3KTS_G.
Probab=65.62 E-value=12 Score=28.76 Aligned_cols=61 Identities=21% Similarity=0.208 Sum_probs=42.8
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
.+.+++.+++.. ||.|=+ ||+ ---.+++.+++..++|+|.=---.+.+.+.++++.||.+.
T Consensus 106 l~~~~~~i~~~~--PD~vEi---lPg-~~p~vi~~i~~~~~~PiIAGGLI~~~e~v~~al~aGa~aV 166 (175)
T PF04309_consen 106 LETGIKQIEQSK--PDAVEI---LPG-VMPKVIKKIREETNIPIIAGGLIRTKEDVEEALKAGADAV 166 (175)
T ss_dssp HHHHHHHHHHHT---SEEEE---ESC-CHHHHHCCCCCCCSS-EEEESS--SHHHHHHHCCTTCEEE
T ss_pred HHHHHHHHhhcC--CCEEEE---chH-HHHHHHHHHHHhcCCCEEeecccCCHHHHHHHHHcCCEEE
Confidence 456778888877 999854 788 4446777777667789875555567788999999999875
No 297
>PLN02617 imidazole glycerol phosphate synthase hisHF
Probab=65.56 E-value=98 Score=28.41 Aligned_cols=69 Identities=23% Similarity=0.313 Sum_probs=52.2
Q ss_pred ceEEEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHh-CCcceEE------eCCCCHHHHHHHHHH
Q 027234 25 YDIVISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVT-HDACDYL------TKPVRIEELKNIWQH 93 (226)
Q Consensus 25 ~DlVl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~-~ga~~yl------~KP~~~~~L~~~l~~ 93 (226)
=.++++|+..-+ +.| +++++.+.....+|||.-.+..+.+...+++. .||++-+ -+-++..+++..+..
T Consensus 453 geil~t~id~DGt~~G~d~~l~~~v~~~~~ipviasGG~g~~~d~~~~~~~~~~~a~~aa~~fh~~~~~~~~~k~~l~~ 531 (538)
T PLN02617 453 GEILLNCIDCDGQGKGFDIELVKLVSDAVTIPVIASSGAGTPEHFSDVFSKTNASAALAAGIFHRKEVPISSVKEHLLE 531 (538)
T ss_pred CEEEEeeccccccccCcCHHHHHHHHhhCCCCEEEECCCCCHHHHHHHHhcCCccEEEEEeeeccCCCCHHHHHHHHHH
Confidence 379999998765 456 45678888778899999999999999999997 4566654 356777777665553
No 298
>PRK09283 delta-aminolevulinic acid dehydratase; Validated
Probab=65.50 E-value=25 Score=29.71 Aligned_cols=65 Identities=20% Similarity=0.284 Sum_probs=48.1
Q ss_pred CCHHHHHHHHHh-CCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcce
Q 027234 9 NRAEIALDMLRT-NKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 9 ~~~~eal~~l~~-~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
.|..||+..+.. ...+-|+|++= |++.=+++++.++....+|+..+-...+..-+..|.+.|..|
T Consensus 225 ~n~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~~~PvaaYqVSGEYaMikaAa~~G~~D 290 (323)
T PRK09283 225 ANRREALREVALDIEEGADMVMVK---PALPYLDIIRRVKDEFNLPVAAYQVSGEYAMIKAAAQNGWID 290 (323)
T ss_pred CCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHhcCCCCEEEEEccHHHHHHHHHHHcCCCC
Confidence 467788766543 22457998876 788888999999987889999987766666666677777654
No 299
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=65.47 E-value=5 Score=24.21 Aligned_cols=24 Identities=17% Similarity=-0.038 Sum_probs=19.3
Q ss_pred CCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 186 NIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 186 ~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.....+..+|++++++++..+++.
T Consensus 7 ~~~~~~~~~i~~~l~is~~~v~~~ 30 (66)
T smart00418 7 AEGELCVCELAEILGLSQSTVSHH 30 (66)
T ss_pred hcCCccHHHHHHHHCCCHHHHHHH
Confidence 355789999999999998877663
No 300
>TIGR01163 rpe ribulose-phosphate 3-epimerase. This family consists of Ribulose-phosphate 3-epimerase, also known as pentose-5-phosphate 3-epimerase (PPE). PPE converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. It has been found in a wide range of bacteria, archebacteria, fungi and plants.
Probab=65.04 E-value=63 Score=24.99 Aligned_cols=77 Identities=17% Similarity=0.187 Sum_probs=47.6
Q ss_pred HHHHHHHhCCCCceEEEEc---cCC-CC-CCHHHHHHHHhcCCCCcEEE-EeccCCHHHHHHHHhCCcceEEeCCCCHHH
Q 027234 13 IALDMLRTNKNGYDIVISD---VHM-PD-MDGFKLLELVGLEMDLPVIM-MCAHGSKEVVMKGVTHDACDYLTKPVRIEE 86 (226)
Q Consensus 13 eal~~l~~~~~~~DlVl~D---~~m-p~-~dG~~l~~~l~~~~~~pvI~-ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~ 86 (226)
+.++.+.+.. .|.|=+| -.. |+ ..|++.++.++.....|+.+ +...+....+..+...|+++.+.-....++
T Consensus 15 ~~~~~~~~~g--~d~i~~~~~Dg~~~~~~~~~~~~v~~i~~~~~~~v~v~lm~~~~~~~~~~~~~~gadgv~vh~~~~~~ 92 (210)
T TIGR01163 15 EEVKAVEEAG--ADWIHVDVMDGHFVPNLTFGPPVLEALRKYTDLPIDVHLMVENPDRYIEDFAEAGADIITVHPEASEH 92 (210)
T ss_pred HHHHHHHHcC--CCEEEEcCCCCCCCCCcccCHHHHHHHHhcCCCcEEEEeeeCCHHHHHHHHHHcCCCEEEEccCCchh
Confidence 4455555432 5665554 222 33 36888899998656677633 445455677888889999998876655455
Q ss_pred HHHHH
Q 027234 87 LKNIW 91 (226)
Q Consensus 87 L~~~l 91 (226)
....+
T Consensus 93 ~~~~~ 97 (210)
T TIGR01163 93 IHRLL 97 (210)
T ss_pred HHHHH
Confidence 54444
No 301
>PF13941 MutL: MutL protein
Probab=65.01 E-value=76 Score=28.45 Aligned_cols=89 Identities=15% Similarity=0.193 Sum_probs=57.4
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCCCCH---HHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHh-CCcceEEeCC--
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPDMDG---FKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVT-HDACDYLTKP-- 81 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG---~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~-~ga~~yl~KP-- 81 (226)
.-.++-++.+.+.+ ||+||+-=.-.+.+. +...+.|. ....+|||+-......+.+.+.+. .|..-++.-.
T Consensus 111 ~l~~~~l~~i~~~~--PDiILLaGGtDgG~~~~il~nA~~La~~~~~~pVIyAGN~~a~~~v~~il~~~~~~~~~~~NV~ 188 (457)
T PF13941_consen 111 ELTEEDLEEIREIR--PDIILLAGGTDGGNKEVILHNAEMLAEANLRIPVIYAGNKAAQDEVEEILEKAGKEVVITENVM 188 (457)
T ss_pred CCCHHHHHHHhccC--CCEEEEeCCccCCchHHHHHHHHHHHhCCCCCcEEEECCHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence 34466677788876 999998533333332 33445554 446788887776666778888888 6666666553
Q ss_pred -----CCHHHHHHHHHHHHHHHh
Q 027234 82 -----VRIEELKNIWQHVVRKRK 99 (226)
Q Consensus 82 -----~~~~~L~~~l~~~~~~~~ 99 (226)
++.+-.+..|+.++..+-
T Consensus 189 P~i~~ln~~paR~~I~~~F~~~I 211 (457)
T PF13941_consen 189 PKIDVLNVEPAREAIREVFLRHI 211 (457)
T ss_pred CCCCCcChHHHHHHHHHHHHHHH
Confidence 455666777777765444
No 302
>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ. This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr
Probab=64.59 E-value=60 Score=25.78 Aligned_cols=70 Identities=14% Similarity=0.096 Sum_probs=52.0
Q ss_pred CCHHHHHHHHHhCCCCc-eEEEEccCCCC---CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 9 NRAEIALDMLRTNKNGY-DIVISDVHMPD---MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~-DlVl~D~~mp~---~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.++.++.+.+.... + .++++|+.--+ ..-+++++.+.+...+|+++=.+-.+.+.+.+++..|++..+.-
T Consensus 30 ~dp~~~a~~~~~~g--~~~i~i~dl~~~~~~~~~n~~~~~~i~~~~~~pv~~~ggi~~~~d~~~~~~~G~~~vilg 103 (232)
T TIGR03572 30 GDPVNAARIYNAKG--ADELIVLDIDASKRGREPLFELISNLAEECFMPLTVGGGIRSLEDAKKLLSLGADKVSIN 103 (232)
T ss_pred CCHHHHHHHHHHcC--CCEEEEEeCCCcccCCCCCHHHHHHHHHhCCCCEEEECCCCCHHHHHHHHHcCCCEEEEC
Confidence 47778887776643 5 48899997653 23466777877666789988777778888888899998887754
No 303
>PF01959 DHQS: 3-dehydroquinate synthase (EC 4.6.1.3); InterPro: IPR002812 3-Dehydroquinate synthase (4.2.3.4 from EC) is an enzyme in the common pathway of aromatic amino acid biosynthesis that catalyses the conversion of 3-deoxy-D-arabino-heptulosonic acid 7-phosphate (DAHP) into 3-dehydroquinic acid []. This synthesis of aromatic amino acids is an essential metabolic function for most prokaryotic as well as lower eukaryotic cells, including plants. The pathway is absent in humans; therefore, DHQS represents a potential target for the development of novel and selective antimicrobial agents. Owing to the threat posed by the spread of pathogenic bacteria resistant to many currently used antimicrobial drugs, there is clearly a need to develop new anti-infective drugs acting at novel targets. A further potential use for DHQS inhibitors is as herbicides [].; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process
Probab=64.50 E-value=33 Score=29.51 Aligned_cols=71 Identities=14% Similarity=0.108 Sum_probs=47.4
Q ss_pred ceEEEEccCCCCCCHHHHH-HHHhcCCCCcEEEE-eccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKLL-ELVGLEMDLPVIMM-CAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l~-~~l~~~~~~pvI~l-s~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
.+.++++..-+..--+|.+ -.+ +.....++.. ....+...+...++.|+++.+.+|-++.+++.....+-.
T Consensus 97 ~~~~iv~~~Dw~iIPlEnliA~~-~~~~~~i~a~v~~~~eA~~~~~~LE~G~dGVll~~~d~~ei~~~~~~~~~ 169 (354)
T PF01959_consen 97 ADYVIVEFRDWTIIPLENLIAAL-QGSSTKIIAVVADAEEARVALEVLEKGVDGVLLDPDDPAEIKALVALLKE 169 (354)
T ss_pred CCeEEEEcCCCcEecHHHHHHHh-cCCCceEEEEeCCHHHHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhh
Confidence 5667777665554444432 233 2334555543 333445667889999999999999999999988776644
No 304
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=63.65 E-value=6.7 Score=33.38 Aligned_cols=30 Identities=13% Similarity=0.077 Sum_probs=27.3
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..||+||+.|||+
T Consensus 296 ~I~~aL~~~~gn~~~aA~~LGisr~tL~rk 325 (329)
T TIGR02974 296 LLQQALAEAQFNQRKAAELLGLTYHQLRGL 325 (329)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHH
Confidence 677888888999999999999999999985
No 305
>cd01573 modD_like ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and eukaryotes. They catalyse the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide.
Probab=63.11 E-value=63 Score=26.70 Aligned_cols=69 Identities=17% Similarity=0.069 Sum_probs=46.7
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
..|.+.+++.+.+.. ++|.|.+|-.-|. +--++.+.++.. +++|++ .++.-+.+.+.+..+.|++.+..
T Consensus 188 Vev~t~eea~~A~~~---gaD~I~ld~~~p~-~l~~~~~~~~~~~~~i~i~-AsGGI~~~ni~~~~~~Gvd~I~v 257 (272)
T cd01573 188 VEVDSLEEALAAAEA---GADILQLDKFSPE-ELAELVPKLRSLAPPVLLA-AAGGINIENAAAYAAAGADILVT 257 (272)
T ss_pred EEcCCHHHHHHHHHc---CCCEEEECCCCHH-HHHHHHHHHhccCCCceEE-EECCCCHHHHHHHHHcCCcEEEE
Confidence 467888999888753 3899999955553 112333444433 467755 55556888888999999998753
No 306
>PF07688 KaiA: KaiA domain; InterPro: IPR011648 KaiA is a component of the kaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. The kaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction. In the complex, KaiA enhances the phosphorylation status of kaiC. In contrast, the presence of kaiB in the complex decreases the phosphorylation status of kaiC, suggesting that kaiB acts by antagonising the interaction between kaiA and kaiC. The activity of KaiA activates kaiBC expression, while KaiC represses it. The overall fold of the KaiA monomer is that of a four-helix bundle, which forms a dimer in the known structure []. KaiA functions as a homodimer. Each monomer is composed of three functional domains: the N-terminal amplitude-amplifier domain, the central period-adjuster domain and the C-termianl clock-oscillator domain. The N-terminal domain of KaiA, from cyanobacteria, acts as a psuedo-receiver domain, but lacks the conserved aspartyl residue required for phosphotransfer in response regulators []. The C-terminal domain is responsible for dimer formation, binding to KaiC, enhancing KaiC phosphorylation and generating the circadian oscillations []. The KaiA protein from Anabaena sp. (strain PCC 7120) lacks the N-terminal CheY-like domain.; GO: 0006468 protein phosphorylation, 0007623 circadian rhythm; PDB: 1V2Z_A 1Q6B_B 1Q6A_A 1SV1_B 1SUY_B 1R5Q_A 1M2E_A 1R8J_B 1M2F_A.
Probab=63.08 E-value=23 Score=29.00 Aligned_cols=92 Identities=12% Similarity=0.147 Sum_probs=53.2
Q ss_pred cEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHH--HHHHHHhCCcceEEe
Q 027234 3 FSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKE--VVMKGVTHDACDYLT 79 (226)
Q Consensus 3 ~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~--~~~~a~~~ga~~yl~ 79 (226)
|.+..+.++++.+++++++...+|++++.... .-..+...+. +..-.|+|++....... .....+-......-.
T Consensus 25 Y~l~~~~s~~ef~~~le~~~e~iDCLvle~~~---~~~~~~~~L~e~g~LLPaVil~~~~s~~~~~~~~~~~YH~aEV~L 101 (283)
T PF07688_consen 25 YELVQVDSPEEFLEFLEQHREQIDCLVLEQSP---LLPPLFNQLYEQGILLPAVILGSSESASTTSESGTVLYHSAEVHL 101 (283)
T ss_dssp EEEEEESSCHHHHHHHCCTTTT-SEEEEETTS---TTHHHHHHHHHCT----EEEES---S--TTS--SSGSSBTT-EEE
T ss_pred eEEEEcCcHHHHHHHHHhchhccCEEEEecCC---CcHHHHHHHHHcCccccEEEEecCcccccCCCCCceeeehHheEc
Confidence 78888999999999999877779999998543 4455666775 44567999886632210 111222333344445
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 027234 80 KPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 80 KP~~~~~L~~~l~~~~~~ 97 (226)
+.-..++|...|.+++.+
T Consensus 102 ~~~qL~ql~~~ID~AIsr 119 (283)
T PF07688_consen 102 PIDQLEQLSYNIDQAISR 119 (283)
T ss_dssp -CCGTTCHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHH
Confidence 555667777777666654
No 307
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=62.83 E-value=15 Score=22.21 Aligned_cols=35 Identities=29% Similarity=0.526 Sum_probs=24.7
Q ss_pred HHHHHHHHHhCCCCCCchHHHHhhCCC-CCCHHHHHHHhhhhhhhhh
Q 027234 162 QQFVSAVKELGFDKAGPKKILELMNIP-GLTRENVASHLQKHRLYLS 207 (226)
Q Consensus 162 ~~Fi~~~~~~g~~~~~p~~I~~~~~~~-~lt~~~va~~l~~~r~~l~ 207 (226)
...+..|-..|. ++.| +.|.++||+.|++|++.+.
T Consensus 6 ~e~L~~A~~~GY-----------fd~PR~~tl~elA~~lgis~st~~ 41 (53)
T PF04967_consen 6 REILKAAYELGY-----------FDVPRRITLEELAEELGISKSTVS 41 (53)
T ss_pred HHHHHHHHHcCC-----------CCCCCcCCHHHHHHHhCCCHHHHH
Confidence 345555555553 4444 6899999999999998654
No 308
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=62.66 E-value=3.9 Score=35.92 Aligned_cols=30 Identities=23% Similarity=0.191 Sum_probs=26.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+.++...|..||+||+.|||+
T Consensus 409 ~i~~~l~~~~gn~~~aa~~Lgisr~tl~rk 438 (441)
T PRK10365 409 VILAALEKTGGNKTEAARQLGITRKTLLAK 438 (441)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHH
Confidence 577777777899999999999999999985
No 309
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=62.66 E-value=6.6 Score=34.68 Aligned_cols=30 Identities=23% Similarity=0.120 Sum_probs=26.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..||+||+.|||+
T Consensus 421 ~i~~al~~~~gn~~~aA~~LGisr~tL~rk 450 (457)
T PRK11361 421 IIMEVLEQQEGNRTRTALMLGISRRALMYK 450 (457)
T ss_pred HHHHHHHHhCCCHHHHHHHHCCCHHHHHHH
Confidence 677788888899999999999999999985
No 310
>PRK15008 HTH-type transcriptional regulator RutR; Provisional
Probab=62.60 E-value=11 Score=29.43 Aligned_cols=43 Identities=14% Similarity=0.091 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 160 LHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 160 l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
..++.+.++.+ +...-.-.+.|+++||...|+|+..+|+-|+.
T Consensus 19 ~r~~IL~AA~~----------lf~e~Gy~~~s~~dIA~~aGvs~gtiY~hF~s 61 (212)
T PRK15008 19 KKKAILSAALD----------TFSQFGFHGTRLEQIAELAGVSKTNLLYYFPS 61 (212)
T ss_pred HHHHHHHHHHH----------HHHHhCcccCCHHHHHHHhCcCHHHHHHHCCC
Confidence 35677788877 44444566899999999999999999988764
No 311
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=62.50 E-value=38 Score=29.30 Aligned_cols=68 Identities=12% Similarity=0.171 Sum_probs=40.5
Q ss_pred CHHHHHHHHHhCCCCceEEEEc-cCC----CCCC--HHHHHHHHhcCCCCcEEEEeccCC------HHHHHHHHhCCcce
Q 027234 10 RAEIALDMLRTNKNGYDIVISD-VHM----PDMD--GFKLLELVGLEMDLPVIMMCAHGS------KEVVMKGVTHDACD 76 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D-~~m----p~~d--G~~l~~~l~~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~ 76 (226)
+...|++.+.+. +..+++||. -.. |+.+ -+..+..+++.+++||++=+.+.. ......|..+||+|
T Consensus 240 e~~~Ave~i~~~-Gn~~i~L~erg~s~yp~~~~~~ldl~~i~~lk~~~~~PV~~d~~Hs~G~r~~~~~~a~aAva~GAdg 318 (360)
T PRK12595 240 EFIYAAEYIMSQ-GNGQIILCERGIRTYEKATRNTLDISAVPILKQETHLPVMVDVTHSTGRRDLLLPTAKAALAIGADG 318 (360)
T ss_pred HHHHHHHHHHHC-CCCCEEEECCccCCCCCCCCCCcCHHHHHHHHHHhCCCEEEeCCCCCcchhhHHHHHHHHHHcCCCe
Confidence 345677787754 347899997 211 1222 233345555556789876245543 22456689999997
Q ss_pred EE
Q 027234 77 YL 78 (226)
Q Consensus 77 yl 78 (226)
.+
T Consensus 319 ~~ 320 (360)
T PRK12595 319 VM 320 (360)
T ss_pred EE
Confidence 65
No 312
>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=62.17 E-value=83 Score=26.84 Aligned_cols=71 Identities=11% Similarity=0.092 Sum_probs=50.1
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCC-----------CCC--HHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMP-----------DMD--GFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHD 73 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp-----------~~d--G~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~g 73 (226)
.+.+.++|..+... ++|.|.+-..-. +.. ++..+..+.....+|||.-.+-.....+.+|+.+|
T Consensus 147 ~V~t~e~a~~l~~a---Gad~i~vg~~~G~~~~t~~~~g~~~~~w~l~ai~~~~~~~~ipVIAdGGI~~~~Di~KaLa~G 223 (326)
T PRK05458 147 NVGTPEAVRELENA---GADATKVGIGPGKVCITKIKTGFGTGGWQLAALRWCAKAARKPIIADGGIRTHGDIAKSIRFG 223 (326)
T ss_pred ecCCHHHHHHHHHc---CcCEEEECCCCCcccccccccCCCCCccHHHHHHHHHHHcCCCEEEeCCCCCHHHHHHHHHhC
Confidence 46688888877763 378876432111 122 45557777654579999888888999999999999
Q ss_pred cceEEeC
Q 027234 74 ACDYLTK 80 (226)
Q Consensus 74 a~~yl~K 80 (226)
|+.+..=
T Consensus 224 A~aV~vG 230 (326)
T PRK05458 224 ATMVMIG 230 (326)
T ss_pred CCEEEec
Confidence 9987753
No 313
>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=62.11 E-value=3.8 Score=36.11 Aligned_cols=30 Identities=17% Similarity=0.006 Sum_probs=26.6
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+.++...|..||+||+.|||+
T Consensus 409 ~i~~al~~~~gn~~~aA~~Lgisr~tl~rk 438 (445)
T TIGR02915 409 AVRKAIARVDGNIARAAELLGITRPTLYDL 438 (445)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHH
Confidence 577777888899999999999999999985
No 314
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=62.02 E-value=77 Score=24.99 Aligned_cols=83 Identities=11% Similarity=0.079 Sum_probs=51.7
Q ss_pred EEEECCHHHHHHHHHhCC-CCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCC
Q 027234 5 VTKCNRAEIALDMLRTNK-NGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVR 83 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~-~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~ 83 (226)
|.-..+.+++++.++... .++. .+.+.|-.-+.++.++.++....--+|=.-.-.+.+...++...||.-.++.-++
T Consensus 9 Vir~~~~~~a~~ia~al~~gGi~--~iEit~~tp~a~~~I~~l~~~~~~~~vGAGTVl~~e~a~~ai~aGA~FivSP~~~ 86 (201)
T PRK06015 9 VLLIDDVEHAVPLARALAAGGLP--AIEITLRTPAALDAIRAVAAEVEEAIVGAGTILNAKQFEDAAKAGSRFIVSPGTT 86 (201)
T ss_pred EEEcCCHHHHHHHHHHHHHCCCC--EEEEeCCCccHHHHHHHHHHHCCCCEEeeEeCcCHHHHHHHHHcCCCEEECCCCC
Confidence 344567777776665431 2344 4555666677999999987433222222444557789999999999855555555
Q ss_pred HHHHHH
Q 027234 84 IEELKN 89 (226)
Q Consensus 84 ~~~L~~ 89 (226)
++-+..
T Consensus 87 ~~vi~~ 92 (201)
T PRK06015 87 QELLAA 92 (201)
T ss_pred HHHHHH
Confidence 555443
No 315
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=61.88 E-value=55 Score=23.22 Aligned_cols=84 Identities=11% Similarity=0.110 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHh-CCCCceEEEEccCCCCC-CHHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHH
Q 027234 9 NRAEIALDMLRT-NKNGYDIVISDVHMPDM-DGFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIE 85 (226)
Q Consensus 9 ~~~~eal~~l~~-~~~~~DlVl~D~~mp~~-dG~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~ 85 (226)
...++.++.+.. .. ||+|.+...-+.. ...++++.+|+ .++++||+=-.+.. ......+.....||+..--...
T Consensus 25 ~~~~~~~~~~~~~~~--pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~GG~~~t-~~p~~~~~~~~~D~vv~GEgE~ 101 (127)
T cd02068 25 LSADDIVEDIKELLK--PDVVGISLMTSAIYEALELAKIAKEVLPNVIVVVGGPHAT-FFPEEILEEPGVDFVVIGEGEE 101 (127)
T ss_pred CCHHHHHHHHHHhcC--CCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEECCcchh-hCHHHHhcCCCCCEEEECCcHH
Confidence 345666777765 45 9999999855544 34667788874 56666654332222 1222223444557887765556
Q ss_pred HHHHHHHHHH
Q 027234 86 ELKNIWQHVV 95 (226)
Q Consensus 86 ~L~~~l~~~~ 95 (226)
-+...++.+.
T Consensus 102 ~~~~l~~~l~ 111 (127)
T cd02068 102 TFLKLLEELE 111 (127)
T ss_pred HHHHHHHHHH
Confidence 6666666543
No 316
>COG1476 Predicted transcriptional regulators [Transcription]
Probab=61.81 E-value=4.5 Score=25.94 Aligned_cols=29 Identities=28% Similarity=0.302 Sum_probs=22.9
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
+.+.....++|++++|..+++||.....+
T Consensus 6 ~k~~R~~~~ltQ~elA~~vgVsRQTi~~i 34 (68)
T COG1476 6 LKELRAELGLTQEELAKLVGVSRQTIIAI 34 (68)
T ss_pred HHHHHHHhCcCHHHHHHHcCcCHHHHHHH
Confidence 44555566999999999999999976643
No 317
>COG1411 Uncharacterized protein related to proFAR isomerase (HisA) [General function prediction only]
Probab=61.79 E-value=52 Score=26.04 Aligned_cols=58 Identities=17% Similarity=0.177 Sum_probs=44.8
Q ss_pred CCceEEEEccCCCC-CCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 23 NGYDIVISDVHMPD-MDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 23 ~~~DlVl~D~~mp~-~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
..+++|++|+.-=+ +.| .+++..+.....-||++=-+-...+....+..+|+.+.|.-
T Consensus 150 ~~~~lIvLDi~aVGt~~G~~~E~l~~~~~~s~~pVllGGGV~g~Edlel~~~~Gv~gvLva 210 (229)
T COG1411 150 RDPGLIVLDIGAVGTKSGPDYELLTKVLELSEHPVLLGGGVGGMEDLELLLGMGVSGVLVA 210 (229)
T ss_pred CCCCeEEEEccccccccCCCHHHHHHHHHhccCceeecCCcCcHHHHHHHhcCCCceeeeh
Confidence 45899999998644 454 66777776556668887777777888888999999998853
No 318
>PRK13413 mpi multiple promoter invertase; Provisional
Probab=61.74 E-value=4.7 Score=31.53 Aligned_cols=30 Identities=27% Similarity=0.420 Sum_probs=25.0
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
|.+.+.. +.|...||..|++||+.+||+.+
T Consensus 165 i~~~~~~-g~s~~~iak~lgis~~Tv~r~~k 194 (200)
T PRK13413 165 IKKLLDK-GTSKSEIARKLGVSRTTLARFLK 194 (200)
T ss_pred HHHHHHC-CCCHHHHHHHHCCCHHHHHHHHH
Confidence 5555544 89999999999999999999765
No 319
>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=61.74 E-value=32 Score=23.86 Aligned_cols=45 Identities=13% Similarity=0.294 Sum_probs=32.9
Q ss_pred CcEEEEecc--CCHHHHHHHHhCCcceEEeCCC--CHHHHHHHHHHHHH
Q 027234 52 LPVIMMCAH--GSKEVVMKGVTHDACDYLTKPV--RIEELKNIWQHVVR 96 (226)
Q Consensus 52 ~pvI~ls~~--~~~~~~~~a~~~ga~~yl~KP~--~~~~L~~~l~~~~~ 96 (226)
+-+++++.. ...+....+++.|..=++.||+ +.+++...++..-+
T Consensus 63 ~D~V~I~tp~~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~ 111 (120)
T PF01408_consen 63 VDAVIIATPPSSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKE 111 (120)
T ss_dssp ESEEEEESSGGGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHH
T ss_pred CCEEEEecCCcchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHH
Confidence 334444433 3457789999999999999998 88888877766543
No 320
>cd03823 GT1_ExpE7_like This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II).
Probab=61.49 E-value=84 Score=25.64 Aligned_cols=76 Identities=18% Similarity=0.244 Sum_probs=50.1
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHH
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIW 91 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l 91 (226)
++..+++.. .|+.++=-...+.-|+.+++.+. ..+|+|. |.... ..+.+..|..+++.+|-+.+++...+
T Consensus 254 ~~~~~~~~~----ad~~i~ps~~~e~~~~~~~Ea~a--~G~Pvi~-~~~~~---~~e~i~~~~~g~~~~~~d~~~l~~~i 323 (359)
T cd03823 254 EEIDDFYAE----IDVLVVPSIWPENFPLVIREALA--AGVPVIA-SDIGG---MAELVRDGVNGLLFPPGDAEDLAAAL 323 (359)
T ss_pred HHHHHHHHh----CCEEEEcCcccCCCChHHHHHHH--CCCCEEE-CCCCC---HHHHhcCCCcEEEECCCCHHHHHHHH
Confidence 555556554 57766533223445666777764 4578775 33222 33445667789999999999999999
Q ss_pred HHHHHH
Q 027234 92 QHVVRK 97 (226)
Q Consensus 92 ~~~~~~ 97 (226)
..++..
T Consensus 324 ~~l~~~ 329 (359)
T cd03823 324 ERLIDD 329 (359)
T ss_pred HHHHhC
Confidence 998863
No 321
>PRK13698 plasmid-partitioning protein; Provisional
Probab=61.45 E-value=5.7 Score=33.62 Aligned_cols=32 Identities=16% Similarity=0.011 Sum_probs=25.7
Q ss_pred hhCCCCCCHHHHHHHhhhhhhhhhcccCCCCC
Q 027234 184 LMNIPGLTRENVASHLQKHRLYLSRLSGVSPQ 215 (226)
Q Consensus 184 ~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~~ 215 (226)
+++.-+.|.+++|..+|+||+++.|..+..+-
T Consensus 171 L~~~~~~tQeeLA~~lG~SRs~Vsn~Lrla~L 202 (323)
T PRK13698 171 LQNEFAGNISALADAENISRKIITRCINTAKL 202 (323)
T ss_pred HHHhcCCCHHHHHHHHCCCHHHHHHHHHHHcC
Confidence 45566789999999999999998886665544
No 322
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=61.40 E-value=7.1 Score=34.66 Aligned_cols=30 Identities=17% Similarity=0.059 Sum_probs=27.2
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..||+||+.|||+
T Consensus 433 ~i~~aL~~~~gn~~~aA~~Lgisr~tL~rk 462 (469)
T PRK10923 433 LLTTALRHTQGHKQEAARLLGWGRNTLTRK 462 (469)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHH
Confidence 577788888999999999999999999985
No 323
>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed
Probab=61.29 E-value=47 Score=29.93 Aligned_cols=64 Identities=13% Similarity=0.070 Sum_probs=44.7
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.++.+.+.+.. +|++++|..-.. ..-++.++.++.. +++|||+ -.....+.+..+.++||+...
T Consensus 230 ~e~a~~L~~ag--vdvivvD~a~g~~~~vl~~i~~i~~~~p~~~vi~-g~v~t~e~a~~l~~aGad~i~ 295 (486)
T PRK05567 230 EERAEALVEAG--VDVLVVDTAHGHSEGVLDRVREIKAKYPDVQIIA-GNVATAEAARALIEAGADAVK 295 (486)
T ss_pred HHHHHHHHHhC--CCEEEEECCCCcchhHHHHHHHHHhhCCCCCEEE-eccCCHHHHHHHHHcCCCEEE
Confidence 34454444433 899999975433 3446677888744 5788876 666678889999999998774
No 324
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=61.28 E-value=5 Score=34.04 Aligned_cols=27 Identities=37% Similarity=0.493 Sum_probs=22.8
Q ss_pred hhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 184 LMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 184 ~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
++=.+++|+.+||++|++||....|+-
T Consensus 21 lYY~~gltQ~eIA~~LgiSR~~v~rlL 47 (321)
T COG2390 21 LYYVEGLTQSEIAERLGISRATVSRLL 47 (321)
T ss_pred HHHhcCCCHHHHHHHhCCCHHHHHHHH
Confidence 344669999999999999999888843
No 325
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=61.26 E-value=16 Score=30.10 Aligned_cols=49 Identities=16% Similarity=0.274 Sum_probs=36.0
Q ss_pred HHHHHHHh-cCCCCcEEEEeccCC------HHHHHHHHhCCcceEEeCCCCHHHHH
Q 027234 40 FKLLELVG-LEMDLPVIMMCAHGS------KEVVMKGVTHDACDYLTKPVRIEELK 88 (226)
Q Consensus 40 ~~l~~~l~-~~~~~pvI~ls~~~~------~~~~~~a~~~ga~~yl~KP~~~~~L~ 88 (226)
+++++.++ ...++|+|+|+-.+. .....++-+.|+++.|.--+..++-.
T Consensus 75 ~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIipDLP~ee~~ 130 (259)
T PF00290_consen 75 FELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLIIPDLPPEESE 130 (259)
T ss_dssp HHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEETTSBGGGHH
T ss_pred HHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEEcCCChHHHH
Confidence 55667777 678999999986543 24677788999999999876665543
No 326
>PRK09726 antitoxin HipB; Provisional
Probab=61.13 E-value=5 Score=26.90 Aligned_cols=31 Identities=13% Similarity=0.197 Sum_probs=23.0
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
|.+.+...++|.+++|..+++++++++++-+
T Consensus 17 lk~~R~~~gltq~elA~~~gvs~~tis~~e~ 47 (88)
T PRK09726 17 MKLVRQQNGWTQSELAKKIGIKQATISNFEN 47 (88)
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHC
Confidence 3334445588999999999999998887644
No 327
>PRK08673 3-deoxy-7-phosphoheptulonate synthase; Reviewed
Probab=61.12 E-value=1.1e+02 Score=26.31 Aligned_cols=84 Identities=13% Similarity=0.252 Sum_probs=55.2
Q ss_pred HHHHHHHHHhCCCCceEEEEcc---CCCC--CCHHHH--HHHHhcCCCCcEEEEeccCCH------HHHHHHHhCCcceE
Q 027234 11 AEIALDMLRTNKNGYDIVISDV---HMPD--MDGFKL--LELVGLEMDLPVIMMCAHGSK------EVVMKGVTHDACDY 77 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~---~mp~--~dG~~l--~~~l~~~~~~pvI~ls~~~~~------~~~~~a~~~ga~~y 77 (226)
...|.+.+... +..+++||.- .-|. .+-+++ +..+++..+.|||+-+++..- .....|..+||++.
T Consensus 216 ~l~A~e~i~~~-GN~~viL~erG~~tf~~~~~~~ldl~ai~~lk~~~~lPVi~d~sH~~G~~~~v~~~a~AAvA~GAdGl 294 (335)
T PRK08673 216 WLMAAEYILAE-GNPNVILCERGIRTFETATRNTLDLSAVPVIKKLTHLPVIVDPSHATGKRDLVEPLALAAVAAGADGL 294 (335)
T ss_pred HHHHHHHHHHc-CCCeEEEEECCCCCCCCcChhhhhHHHHHHHHHhcCCCEEEeCCCCCccccchHHHHHHHHHhCCCEE
Confidence 34566677654 3478999985 2222 333333 345566678999998877654 55678999999976
Q ss_pred Ee-C-------------CCCHHHHHHHHHHHH
Q 027234 78 LT-K-------------PVRIEELKNIWQHVV 95 (226)
Q Consensus 78 l~-K-------------P~~~~~L~~~l~~~~ 95 (226)
+. | .+++++|...++.+.
T Consensus 295 iIE~H~~pd~alsD~~~sl~p~e~~~lv~~i~ 326 (335)
T PRK08673 295 IVEVHPDPEKALSDGPQSLTPEEFEELMKKLR 326 (335)
T ss_pred EEEecCCcccCCCcchhcCCHHHHHHHHHHHH
Confidence 63 2 267778877777664
No 328
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=61.10 E-value=6 Score=23.26 Aligned_cols=22 Identities=23% Similarity=0.294 Sum_probs=18.3
Q ss_pred CCCCCHHHHHHHhhhhhhhhhc
Q 027234 187 IPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r 208 (226)
..+.+..+||..|++|+..+++
T Consensus 16 ~~g~s~~eia~~l~is~~tv~~ 37 (58)
T smart00421 16 AEGLTNKEIAERLGISEKTVKT 37 (58)
T ss_pred HcCCCHHHHHHHHCCCHHHHHH
Confidence 3488999999999999987664
No 329
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=61.07 E-value=7.8 Score=23.36 Aligned_cols=30 Identities=17% Similarity=0.294 Sum_probs=20.9
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
|++.+.. |-+...||..+++++++++.+.+
T Consensus 15 iI~~~e~-g~s~~~ia~~fgv~~sTv~~I~K 44 (53)
T PF04218_consen 15 IIKRLEE-GESKRDIAREFGVSRSTVSTILK 44 (53)
T ss_dssp HHHHHHC-TT-HHHHHHHHT--CCHHHHHHH
T ss_pred HHHHHHc-CCCHHHHHHHhCCCHHHHHHHHH
Confidence 4555555 56999999999999999987654
No 330
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=61.02 E-value=10 Score=23.16 Aligned_cols=22 Identities=9% Similarity=0.170 Sum_probs=19.6
Q ss_pred CCCCCHHHHHHHhhhhhhhhhc
Q 027234 187 IPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r 208 (226)
...++.+++|+++++|....+|
T Consensus 12 ~~~~s~~ela~~~~VS~~TiRR 33 (57)
T PF08220_consen 12 KGKVSVKELAEEFGVSEMTIRR 33 (57)
T ss_pred cCCEEHHHHHHHHCcCHHHHHH
Confidence 4568999999999999998887
No 331
>cd04823 ALAD_PBGS_aspartate_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. All of PBGS_aspartate_rich contain an aspartate rich metal binding site with the general sequence DXALDX(Y/F)X3G(H/Q)DG. They also contain an allosteric magnesiu
Probab=60.69 E-value=35 Score=28.85 Aligned_cols=66 Identities=18% Similarity=0.263 Sum_probs=48.5
Q ss_pred CCHHHHHHHHHhC-CCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 9 NRAEIALDMLRTN-KNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 9 ~~~~eal~~l~~~-~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
.|..||+..+... ..+-|+|++= |.+-=+++++.++...++|+..+-...+..-+..|-+.|..|+
T Consensus 222 ~n~~eAlre~~~Di~EGAD~lMVK---Pal~YLDIi~~~k~~~~lPvaaYqVSGEYaMikaAa~~G~~d~ 288 (320)
T cd04823 222 ANSREALREVALDIAEGADMVMVK---PGMPYLDIIRRVKDEFGVPTFAYQVSGEYAMLKAAAQNGWLDE 288 (320)
T ss_pred CCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHHhcCCCEEEEEccHHHHHHHHHHHcCCCcH
Confidence 4677888665432 2457998876 7777888999998778899999887777666667777776543
No 332
>PRK14024 phosphoribosyl isomerase A; Provisional
Probab=60.39 E-value=89 Score=25.17 Aligned_cols=79 Identities=16% Similarity=0.110 Sum_probs=51.7
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCCC---CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHh---CCcceEEe-----
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPDM---DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVT---HDACDYLT----- 79 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~~---dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~---~ga~~yl~----- 79 (226)
..+..+.+.+.. --.++++|+..-++ ..+++++.+++...+|+|.-.+-.+.+.+.++.. .|+++.+.
T Consensus 148 ~~~~~~~l~~~G-~~~iiv~~~~~~g~~~G~d~~~i~~i~~~~~ipviasGGi~s~~D~~~l~~~~~~GvdgV~igra~~ 226 (241)
T PRK14024 148 LWEVLERLDSAG-CSRYVVTDVTKDGTLTGPNLELLREVCARTDAPVVASGGVSSLDDLRALAELVPLGVEGAIVGKALY 226 (241)
T ss_pred HHHHHHHHHhcC-CCEEEEEeecCCCCccCCCHHHHHHHHhhCCCCEEEeCCCCCHHHHHHHhhhccCCccEEEEeHHHH
Confidence 345555555432 12588888865332 2477788887667899988777777788777753 59998763
Q ss_pred -CCCCHHHHHHH
Q 027234 80 -KPVRIEELKNI 90 (226)
Q Consensus 80 -KP~~~~~L~~~ 90 (226)
.+++.+++...
T Consensus 227 ~g~~~~~~~~~~ 238 (241)
T PRK14024 227 AGAFTLPEALAV 238 (241)
T ss_pred cCCCCHHHHHHH
Confidence 46777766543
No 333
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=60.35 E-value=60 Score=25.92 Aligned_cols=67 Identities=10% Similarity=0.002 Sum_probs=47.1
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCC------CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMP------DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp------~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+.+.+++.+..+ .+.|.|.+--.-+ .--|+++++++.+...+||+.+-+- +.+.+..+...||+++-
T Consensus 118 ~~s~~~a~~A~~---~gaDYv~~Gpv~t~tK~~~~p~gl~~l~~~~~~~~iPvvAIGGI-~~~n~~~~~~~GA~giA 190 (221)
T PRK06512 118 LRDRHGAMEIGE---LRPDYLFFGKLGADNKPEAHPRNLSLAEWWAEMIEIPCIVQAGS-DLASAVEVAETGAEFVA 190 (221)
T ss_pred CCCHHHHHHhhh---cCCCEEEECCCCCCCCCCCCCCChHHHHHHHHhCCCCEEEEeCC-CHHHHHHHHHhCCCEEE
Confidence 446666666433 3378887754331 1247888888876678999988864 67888889999999875
No 334
>PRK13397 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=60.19 E-value=43 Score=27.37 Aligned_cols=66 Identities=15% Similarity=0.232 Sum_probs=40.5
Q ss_pred HHHHHHHHHhCCCCceEEEEcc-----CCCCCCH--HHHHHHHhcCCCCcEEE-EeccCCH------HHHHHHHhCCcce
Q 027234 11 AEIALDMLRTNKNGYDIVISDV-----HMPDMDG--FKLLELVGLEMDLPVIM-MCAHGSK------EVVMKGVTHDACD 76 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~-----~mp~~dG--~~l~~~l~~~~~~pvI~-ls~~~~~------~~~~~a~~~ga~~ 76 (226)
...|.+.+... +..+++||.- ..+..+- +..+..+++..++|||+ .| +..- .....|..+||++
T Consensus 138 ~~~A~e~i~~~-Gn~~i~L~eRg~~~Y~~~~~n~~dl~ai~~lk~~~~lPVivd~S-Hs~G~r~~v~~~a~AAvA~GAdG 215 (250)
T PRK13397 138 YLGALSYLQDT-GKSNIILCERGVRGYDVETRNMLDIMAVPIIQQKTDLPIIVDVS-HSTGRRDLLLPAAKIAKAVGANG 215 (250)
T ss_pred HHHHHHHHHHc-CCCeEEEEccccCCCCCccccccCHHHHHHHHHHhCCCeEECCC-CCCcccchHHHHHHHHHHhCCCE
Confidence 45677777754 3478999971 1121111 22233444446789998 66 5433 5678899999998
Q ss_pred EE
Q 027234 77 YL 78 (226)
Q Consensus 77 yl 78 (226)
.+
T Consensus 216 l~ 217 (250)
T PRK13397 216 IM 217 (250)
T ss_pred EE
Confidence 66
No 335
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=59.99 E-value=84 Score=25.62 Aligned_cols=72 Identities=11% Similarity=0.105 Sum_probs=53.3
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCCCC---CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMPDM---DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp~~---dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
..++.+..+.+.... --.++++|+.--++ .-+++++.+.....+|+++=.+-...+.+.+.+..|++..+.-
T Consensus 29 ~~dp~~~a~~~~~~g-~~~l~i~Dl~~~~~~~~~n~~~i~~i~~~~~~pv~~gGGi~s~~d~~~l~~~G~~~vvig 103 (258)
T PRK01033 29 IGDPINAVRIFNEKE-VDELIVLDIDASKRGSEPNYELIENLASECFMPLCYGGGIKTLEQAKKIFSLGVEKVSIN 103 (258)
T ss_pred CCCHHHHHHHHHHcC-CCEEEEEECCCCcCCCcccHHHHHHHHHhCCCCEEECCCCCCHHHHHHHHHCCCCEEEEC
Confidence 347777776666542 23689999987642 3378888887667889887777778888989999999987754
No 336
>PLN02775 Probable dihydrodipicolinate reductase
Probab=59.98 E-value=65 Score=26.91 Aligned_cols=74 Identities=18% Similarity=0.275 Sum_probs=43.5
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHh-CCcceEEeCCCCHHH
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVT-HDACDYLTKPVRIEE 86 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~-~ga~~yl~KP~~~~~ 86 (226)
++.++++..+.... ||+|++|+..|.. -.+.++.... ..+|+|+=|..-+.+....... .++--++.-.|+..-
T Consensus 66 ~dl~~~l~~~~~~~--~~~VvIDFT~P~a-~~~~~~~~~~-~g~~~VvGTTG~~~e~l~~~~~~~~i~vv~apNfSiGv 140 (286)
T PLN02775 66 SEREAVLSSVKAEY--PNLIVVDYTLPDA-VNDNAELYCK-NGLPFVMGTTGGDRDRLLKDVEESGVYAVIAPQMGKQV 140 (286)
T ss_pred ccHHHHHHHhhccC--CCEEEEECCChHH-HHHHHHHHHH-CCCCEEEECCCCCHHHHHHHHhcCCccEEEECcccHHH
Confidence 78888887776655 9999999999873 2223333222 3466666444334444333333 355556666676644
No 337
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=59.94 E-value=2.8 Score=25.67 Aligned_cols=20 Identities=30% Similarity=0.418 Sum_probs=16.9
Q ss_pred CCHHHHHHHhhhhhhhhhcc
Q 027234 190 LTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 190 lt~~~va~~l~~~r~~l~r~ 209 (226)
+|..+||..++++++.+.|+
T Consensus 22 ~t~~~la~~l~~~~~~vs~~ 41 (62)
T PF12802_consen 22 LTQSELAERLGISKSTVSRI 41 (62)
T ss_dssp EEHHHHHHHHTS-HHHHHHH
T ss_pred cCHHHHHHHHCcCHHHHHHH
Confidence 99999999999999987764
No 338
>COG4999 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]
Probab=59.89 E-value=12 Score=26.95 Aligned_cols=66 Identities=17% Similarity=0.149 Sum_probs=42.0
Q ss_pred ceEEEEccCCCCCCHHHHHH-HH-hc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKLLE-LV-GL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNI 90 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l~~-~l-~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~ 90 (226)
+|.+++.+-.+-.+...+-+ ++ +. ...--+|+--.+.....+.+..+-|+.++|.||++...|.-.
T Consensus 52 YD~~Ll~vavtfr~n~tm~~~~l~~Al~mtd~vilalPs~~qv~AeqLkQ~g~~~CllKPls~~rLlpt 120 (140)
T COG4999 52 YDMMLLGVAVTFRENLTMQHERLAKALSMTDFVILALPSHAQVNAEQLKQDGAGACLLKPLSSTRLLPT 120 (140)
T ss_pred hceeeecccccccCCchHHHHHHHHHHhhhcceEEecCcHHHHhHHHHhhcchHhHhhCcchhhhhHHH
Confidence 89999998777655554432 22 21 111123333333344556677888999999999999888663
No 339
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=59.86 E-value=4.1 Score=37.87 Aligned_cols=35 Identities=20% Similarity=0.097 Sum_probs=28.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCCCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGVSP 214 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~~ 214 (226)
.|.+.+...+-++...|..||+||+.|||.-+--+
T Consensus 595 ~i~~al~~~~gn~~~aA~~LGisR~TLyrklk~~~ 629 (638)
T PRK11388 595 AIINAAQVCGGRIQEMAALLGIGRTTLWRKMKQHG 629 (638)
T ss_pred HHHHHHHHhCCCHHHHHHHHCCCHHHHHHHHHHcC
Confidence 57777888889999999999999999998544333
No 340
>PRK02615 thiamine-phosphate pyrophosphorylase; Provisional
Probab=59.62 E-value=66 Score=27.69 Aligned_cols=69 Identities=14% Similarity=0.154 Sum_probs=49.2
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC-------CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD-------MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-------~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.|.+.+++.+.... ++|.|.+--.-|. .-|++.++.+.....+|++.+-+- +.+.+...+..|++++-.
T Consensus 246 S~Hs~~e~~~A~~~---GaDYI~lGPvf~T~tKp~~~~~Gle~l~~~~~~~~iPv~AiGGI-~~~ni~~l~~~Ga~gVAv 321 (347)
T PRK02615 246 STTNPEEMAKAIAE---GADYIGVGPVFPTPTKPGKAPAGLEYLKYAAKEAPIPWFAIGGI-DKSNIPEVLQAGAKRVAV 321 (347)
T ss_pred ecCCHHHHHHHHHc---CCCEEEECCCcCCCCCCCCCCCCHHHHHHHHHhCCCCEEEECCC-CHHHHHHHHHcCCcEEEE
Confidence 45677777766553 3899887554432 357888888876667999888664 577788888999988753
No 341
>TIGR00721 tfx DNA-binding protein, Tfx family. Tfx from Methanobacterium thermoautotrophicum is associated with the operon for molybdenum formyl-methanofuran dehydrogenase and binds a DNA sequence near its promoter.
Probab=59.61 E-value=5.1 Score=29.53 Aligned_cols=28 Identities=36% Similarity=0.541 Sum_probs=22.3
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.++.++ ..|+|.++||..|++|++.+++
T Consensus 13 ~VL~Lr-~~GlTq~EIAe~LgiS~stV~~ 40 (137)
T TIGR00721 13 KVLELR-EKGLSQKEIAKELKTTRANVSA 40 (137)
T ss_pred HHHHHH-HcCCCHHHHHHHHCcCHHHHHH
Confidence 456665 4699999999999999997653
No 342
>TIGR01919 hisA-trpF 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase/N-(5'phosphoribosyl)anthranilate isomerase. This model represents a bifunctional protein posessing both hisA (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) and trpF (N-(5'phosphoribosyl)anthranilate isomerase) activities. Thus, it is involved in both the histidine and tryptophan biosynthetic pathways. Enzymes with this property have been described only in the Actinobacteria (High-GC gram-positive). The enzyme is closely related to the monofunctional HisA proteins (TIGR00007) and in Actinobacteria, the classical monofunctional TrpF is generally absent.
Probab=59.23 E-value=78 Score=25.65 Aligned_cols=69 Identities=16% Similarity=0.106 Sum_probs=48.6
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHH---hCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGV---THDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~---~~ga~~yl~ 79 (226)
+..++++.+.... .-.+|++|+.--++ .| +++++.++...++|+|.--+-.+.+...+.. ..|+++.+.
T Consensus 150 ~~~~~~~~~~~~g-~~~ii~tdI~~dGt~~G~d~~l~~~l~~~~~~pviasGGv~s~eDl~~l~~l~~~Gv~gviv 224 (243)
T TIGR01919 150 DLEVLERLLDSGG-CSRVVVTDSKKDGLSGGPNELLLEVVAARTDAIVAASGGSSLLDDLRAIKYLDEGGVSVAIG 224 (243)
T ss_pred cHHHHHHHHHhCC-CCEEEEEecCCcccCCCcCHHHHHHHHhhCCCCEEEECCcCCHHHHHHHHhhccCCeeEEEE
Confidence 5566666666542 23899999987664 55 5567888766789999877777777776653 458888774
No 343
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=58.80 E-value=40 Score=27.33 Aligned_cols=62 Identities=23% Similarity=0.229 Sum_probs=42.0
Q ss_pred HHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCC
Q 027234 17 MLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKP 81 (226)
Q Consensus 17 ~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP 81 (226)
++++.. ||++|.=-=-|..-|-.-.|.+-...++|.|++|........ ++++..-.|||.-+
T Consensus 55 ~~~~~~--pDf~i~isPN~a~PGP~~ARE~l~~~~iP~IvI~D~p~~K~~-d~l~~~g~GYIivk 116 (277)
T PRK00994 55 MLEEWK--PDFVIVISPNPAAPGPKKAREILKAAGIPCIVIGDAPGKKVK-DAMEEQGLGYIIVK 116 (277)
T ss_pred HHHhhC--CCEEEEECCCCCCCCchHHHHHHHhcCCCEEEEcCCCccchH-HHHHhcCCcEEEEe
Confidence 445555 999887554455666666666655567899999976655433 77777777887654
No 344
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=58.68 E-value=29 Score=27.23 Aligned_cols=81 Identities=11% Similarity=0.051 Sum_probs=46.2
Q ss_pred ECCHHHHHHHHHhCC-CCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHH
Q 027234 8 CNRAEIALDMLRTNK-NGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIE 85 (226)
Q Consensus 8 ~~~~~eal~~l~~~~-~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~ 85 (226)
..+.+++++.++... .++.+ +.+.+-.-+.++.++.++ +.+++ +|=.-.-.+.+....|+++||.-.++.-++++
T Consensus 16 ~~~~~~a~~~~~al~~gGi~~--iEiT~~t~~a~~~I~~l~~~~p~~-~vGAGTV~~~e~a~~a~~aGA~FivSP~~~~~ 92 (196)
T PF01081_consen 16 GDDPEDAVPIAEALIEGGIRA--IEITLRTPNALEAIEALRKEFPDL-LVGAGTVLTAEQAEAAIAAGAQFIVSPGFDPE 92 (196)
T ss_dssp TSSGGGHHHHHHHHHHTT--E--EEEETTSTTHHHHHHHHHHHHTTS-EEEEES--SHHHHHHHHHHT-SEEEESS--HH
T ss_pred cCCHHHHHHHHHHHHHCCCCE--EEEecCCccHHHHHHHHHHHCCCC-eeEEEeccCHHHHHHHHHcCCCEEECCCCCHH
Confidence 345555555544321 22444 555555668999999887 44442 33344556788999999999996666666666
Q ss_pred HHHHHH
Q 027234 86 ELKNIW 91 (226)
Q Consensus 86 ~L~~~l 91 (226)
-+..+.
T Consensus 93 v~~~~~ 98 (196)
T PF01081_consen 93 VIEYAR 98 (196)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 554443
No 345
>COG3311 AlpA Predicted transcriptional regulator [Transcription]
Probab=58.01 E-value=5.5 Score=25.68 Aligned_cols=27 Identities=22% Similarity=-0.010 Sum_probs=21.9
Q ss_pred hCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 185 MNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 185 ~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
..+.-|...+|+..+|+||..+||+-+
T Consensus 9 ~~~r~lrl~ev~~~~GlSrstiYr~i~ 35 (70)
T COG3311 9 HTDRLLRLPEVAQLTGLSRSTIYRLIK 35 (70)
T ss_pred ccchhhhHHHHHHHHCccHHHHHHHHc
Confidence 345557889999999999999999543
No 346
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=58.00 E-value=5.9 Score=23.75 Aligned_cols=33 Identities=12% Similarity=0.297 Sum_probs=22.2
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.-+..|..-+++..++|..++.||.-.++..+.
T Consensus 11 aqid~m~qlG~s~~~isr~i~RSr~~Ir~yl~d 43 (50)
T PF11427_consen 11 AQIDVMHQLGMSLREISRRIGRSRTCIRRYLKD 43 (50)
T ss_dssp HHHHHHHHTT--HHHHHHHHT--HHHHHHHHHS
T ss_pred HHHHHHHHhchhHHHHHHHhCccHHHHHHHhcC
Confidence 345667777999999999999999987775443
No 347
>PRK08359 transcription factor; Validated
Probab=57.85 E-value=5.8 Score=30.54 Aligned_cols=30 Identities=20% Similarity=0.330 Sum_probs=24.5
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.-..-++|++++|..+++++++++++
T Consensus 89 rIkeaRe~kglSQeeLA~~lgvs~stI~~i 118 (176)
T PRK08359 89 RVYEAIQKSGLSYEELSHEVGLSVNDLRRI 118 (176)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 355555566999999999999999999876
No 348
>PRK08072 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=57.52 E-value=69 Score=26.62 Aligned_cols=66 Identities=9% Similarity=-0.089 Sum_probs=45.0
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcE-EEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPV-IMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pv-I~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.+|.+.+++.+... .++|.|.+|- -|.+.++++......|+ +..++.-+.+........|+++.-.
T Consensus 193 vsv~tleea~~A~~---~gaDyI~lD~-----~~~e~l~~~~~~~~~~i~i~AiGGIt~~ni~~~a~~Gvd~IAv 259 (277)
T PRK08072 193 VETETEEQVREAVA---AGADIIMFDN-----RTPDEIREFVKLVPSAIVTEASGGITLENLPAYGGTGVDYISL 259 (277)
T ss_pred EEeCCHHHHHHHHH---cCCCEEEECC-----CCHHHHHHHHHhcCCCceEEEECCCCHHHHHHHHHcCCCEEEE
Confidence 46788999888875 3389999983 34455655543222232 4466677888899999999987653
No 349
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=57.47 E-value=42 Score=26.30 Aligned_cols=56 Identities=20% Similarity=0.218 Sum_probs=37.0
Q ss_pred HHHHHHHHhCCCCceEEEEccCCC-----CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHH
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMP-----DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKG 69 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp-----~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a 69 (226)
+.|.+.+.+.. +|+||+|-... -.+--++...|+..|.---|++|+...+..+.+.
T Consensus 112 ~~a~~~l~~~~--ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~ 172 (198)
T COG2109 112 EHAKEALADGK--YDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELIEL 172 (198)
T ss_pred HHHHHHHhCCC--CCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHHHH
Confidence 34566666655 99999996432 2455566677776666556678888777665444
No 350
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=57.47 E-value=27 Score=27.30 Aligned_cols=47 Identities=17% Similarity=0.333 Sum_probs=32.4
Q ss_pred CCceEEEEccCCCC-----CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHH
Q 027234 23 NGYDIVISDVHMPD-----MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKG 69 (226)
Q Consensus 23 ~~~DlVl~D~~mp~-----~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a 69 (226)
..+|+||+|--+.- .+--++++.|+..|.--=|++|+...++.+.+.
T Consensus 114 ~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie~ 165 (191)
T PRK05986 114 ESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIEA 165 (191)
T ss_pred CCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHHh
Confidence 34999999965442 456677788876665555678988877665443
No 351
>PRK13695 putative NTPase; Provisional
Probab=57.46 E-value=80 Score=23.70 Aligned_cols=72 Identities=19% Similarity=0.206 Sum_probs=39.3
Q ss_pred CCceEEEEcc--CCCCCCHHHHHHHHh--cCCCCcEEEEeccCCHHHHHHHHhCCcce--EEeCCCCHHHHHHHHHHHH
Q 027234 23 NGYDIVISDV--HMPDMDGFKLLELVG--LEMDLPVIMMCAHGSKEVVMKGVTHDACD--YLTKPVRIEELKNIWQHVV 95 (226)
Q Consensus 23 ~~~DlVl~D~--~mp~~dG~~l~~~l~--~~~~~pvI~ls~~~~~~~~~~a~~~ga~~--yl~KP~~~~~L~~~l~~~~ 95 (226)
..+|++++|- .+...+ -.+.+.+. .....|+|+++..........-+..-.++ |-..|-+.++|...+...+
T Consensus 95 ~~~~~lllDE~~~~e~~~-~~~~~~l~~~~~~~~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~~~~r~~~~~~~~~~~ 172 (174)
T PRK13695 95 EEADVIIIDEIGKMELKS-PKFVKAVEEVLDSEKPVIATLHRRSVHPFVQEIKSRPGGRVYELTPENRDSLPFEILNRL 172 (174)
T ss_pred CCCCEEEEECCCcchhhh-HHHHHHHHHHHhCCCeEEEEECchhhHHHHHHHhccCCcEEEEEcchhhhhHHHHHHHHH
Confidence 3589999996 222222 22333332 13457888777654433333333333333 4456888888877766543
No 352
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=57.33 E-value=7.5 Score=25.81 Aligned_cols=31 Identities=26% Similarity=0.284 Sum_probs=23.5
Q ss_pred HHHhhCC--CCCCHHHHHHHhhhhhhhhhcccC
Q 027234 181 ILELMNI--PGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 181 I~~~~~~--~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
|++.+.. +.++..+||.+++++++.++|..+
T Consensus 10 Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~ 42 (91)
T smart00346 10 VLRALAEEPGGLTLAELAERLGLSKSTAHRLLN 42 (91)
T ss_pred HHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHH
Confidence 4444433 479999999999999998887543
No 353
>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=57.31 E-value=21 Score=25.38 Aligned_cols=34 Identities=24% Similarity=0.232 Sum_probs=28.9
Q ss_pred CCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 176 AGPKKILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 176 ~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
..|..|.......++|..++|..+++++..+.|.
T Consensus 65 ~~~~~i~~~r~~~gltq~~lA~~lg~~~~tis~~ 98 (127)
T TIGR03830 65 LTPPEIRRIRKKLGLSQREAAELLGGGVNAFSRY 98 (127)
T ss_pred cCHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 4566777777778999999999999999999885
No 354
>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ. This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr
Probab=57.24 E-value=96 Score=24.60 Aligned_cols=67 Identities=15% Similarity=0.186 Sum_probs=45.1
Q ss_pred HHHHHHHHHhCCCCce-EEEEccCCCC-C--CHHHHHHHHhcCCCCcEEEEeccCCHHHHHH-HHhCCcceEEe
Q 027234 11 AEIALDMLRTNKNGYD-IVISDVHMPD-M--DGFKLLELVGLEMDLPVIMMCAHGSKEVVMK-GVTHDACDYLT 79 (226)
Q Consensus 11 ~~eal~~l~~~~~~~D-lVl~D~~mp~-~--dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~-a~~~ga~~yl~ 79 (226)
..+....+.+.. .| +++.++.--+ . -.+++++.++...++||+..-+-.+.+.+.+ ....||++.+.
T Consensus 155 ~~~~~~~~~~~G--~d~i~i~~i~~~g~~~g~~~~~~~~i~~~~~ipvia~GGi~s~~di~~~l~~~gadgV~v 226 (232)
T TIGR03572 155 PVEWAREAEQLG--AGEILLNSIDRDGTMKGYDLELIKTVSDAVSIPVIALGGAGSLDDLVEVALEAGASAVAA 226 (232)
T ss_pred HHHHHHHHHHcC--CCEEEEeCCCccCCcCCCCHHHHHHHHhhCCCCEEEECCCCCHHHHHHHHHHcCCCEEEE
Confidence 345555555533 66 5566642211 1 2377888887667899998888888888888 67789998764
No 355
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=57.24 E-value=43 Score=27.93 Aligned_cols=66 Identities=15% Similarity=0.336 Sum_probs=48.3
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCC--------CCCCHHHHHHHHhcCCCCcEEEEeccC-CHHHHHHHHhCCcce
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHM--------PDMDGFKLLELVGLEMDLPVIMMCAHG-SKEVVMKGVTHDACD 76 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~m--------p~~dG~~l~~~l~~~~~~pvI~ls~~~-~~~~~~~a~~~ga~~ 76 (226)
.+++++|.++++... +|.+=+.+.- |.. -+++++.|+...++|+++=-+.. ..+...++...|+.-
T Consensus 154 ~T~peea~~Fv~~Tg--vD~LAvaiGt~HG~y~~~p~L-d~~~L~~I~~~~~vPLVLHGgSG~~~e~~~~ai~~Gi~K 228 (284)
T PRK09195 154 YTDPAQAREFVEATG--IDSLAVAIGTAHGMYKGEPKL-DFDRLENIRQWVNIPLVLHGASGLPTKDIQQTIKLGICK 228 (284)
T ss_pred CCCHHHHHHHHHHHC--cCEEeeccCccccccCCCCcC-CHHHHHHHHHHhCCCeEEecCCCCCHHHHHHHHHcCCeE
Confidence 578999999999865 8987777742 322 27788888766689988754433 456788899999653
No 356
>PRK06843 inosine 5-monophosphate dehydrogenase; Validated
Probab=56.98 E-value=72 Score=28.08 Aligned_cols=70 Identities=17% Similarity=0.148 Sum_probs=47.6
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCC--------------CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHM--------------PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTH 72 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~m--------------p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ 72 (226)
-+.+.++|..+++. +.|.|.+-+.- |...-+..+..+.....+|||.=.+......+.+|+.+
T Consensus 201 ~V~T~e~a~~l~~a---GaD~I~vG~g~Gs~c~tr~~~g~g~p~ltai~~v~~~~~~~~vpVIAdGGI~~~~Di~KALal 277 (404)
T PRK06843 201 NIVTKEAALDLISV---GADCLKVGIGPGSICTTRIVAGVGVPQITAICDVYEVCKNTNICIIADGGIRFSGDVVKAIAA 277 (404)
T ss_pred ecCCHHHHHHHHHc---CCCEEEECCCCCcCCcceeecCCCCChHHHHHHHHHHHhhcCCeEEEeCCCCCHHHHHHHHHc
Confidence 46788888888763 37888754311 11122222333333457899988888899999999999
Q ss_pred CcceEEe
Q 027234 73 DACDYLT 79 (226)
Q Consensus 73 ga~~yl~ 79 (226)
||+....
T Consensus 278 GA~aVmv 284 (404)
T PRK06843 278 GADSVMI 284 (404)
T ss_pred CCCEEEE
Confidence 9998774
No 357
>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=56.87 E-value=57 Score=27.99 Aligned_cols=53 Identities=11% Similarity=-0.037 Sum_probs=39.0
Q ss_pred CceEEEEccCCCCCCH-HHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 24 GYDIVISDVHMPDMDG-FKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 24 ~~DlVl~D~~mp~~dG-~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
.+|+|++|.--..... +++++.|+. .|+++|| .-.-...+.....+.+|||..
T Consensus 122 g~D~iviD~AhGhs~~~i~~ik~ik~~~P~~~vI-aGNV~T~e~a~~Li~aGAD~v 176 (346)
T PRK05096 122 ALNFICIDVANGYSEHFVQFVAKAREAWPDKTIC-AGNVVTGEMVEELILSGADIV 176 (346)
T ss_pred CCCEEEEECCCCcHHHHHHHHHHHHHhCCCCcEE-EecccCHHHHHHHHHcCCCEE
Confidence 4899999997765444 677888884 4666644 455556778888899999975
No 358
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=56.76 E-value=5.7 Score=36.16 Aligned_cols=31 Identities=23% Similarity=0.122 Sum_probs=27.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.|.+.+...+-++...|..||+||+.|||.-
T Consensus 494 ~I~~aL~~~~Gn~~~aA~~LGIsRtTL~Rkl 524 (526)
T TIGR02329 494 AVRAALERFGGDRDAAAKALGISRTTLWRRL 524 (526)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHH
Confidence 5777888889999999999999999999853
No 359
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=56.52 E-value=25 Score=28.53 Aligned_cols=64 Identities=16% Similarity=0.172 Sum_probs=41.9
Q ss_pred HHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 16 DMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 16 ~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
+++.... ||++|.=-=.|..-|-.-.|.+-...++|.|++|...... ..++++..-.|||.-+.
T Consensus 53 ~~~~~~~--pdf~I~isPN~~~PGP~~ARE~l~~~~iP~IvI~D~p~~k-~kd~l~~~g~GYIivk~ 116 (276)
T PF01993_consen 53 KMLKEWD--PDFVIVISPNAAAPGPTKAREMLSAKGIPCIVISDAPTKK-AKDALEEEGFGYIIVKA 116 (276)
T ss_dssp HHHHHH----SEEEEE-S-TTSHHHHHHHHHHHHSSS-EEEEEEGGGGG-GHHHHHHTT-EEEEETT
T ss_pred HHHHhhC--CCEEEEECCCCCCCCcHHHHHHHHhCCCCEEEEcCCCchh-hHHHHHhcCCcEEEEec
Confidence 4445655 9999886666677888888877666789999999755443 35677777788886653
No 360
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=56.51 E-value=35 Score=26.34 Aligned_cols=47 Identities=13% Similarity=0.123 Sum_probs=32.7
Q ss_pred CCceEEEEccCCC-----CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHH
Q 027234 23 NGYDIVISDVHMP-----DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKG 69 (226)
Q Consensus 23 ~~~DlVl~D~~mp-----~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a 69 (226)
..+|+||+|-.+. =.+--+++..|+..|.--=|++|+...++...+.
T Consensus 114 ~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~p~~Lie~ 165 (178)
T PRK07414 114 GRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEMPESLLAI 165 (178)
T ss_pred CCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCCCHHHHHh
Confidence 3499999996543 2466677788876665555678988877666544
No 361
>PF13551 HTH_29: Winged helix-turn helix
Probab=56.49 E-value=8.4 Score=26.51 Aligned_cols=31 Identities=29% Similarity=0.263 Sum_probs=23.0
Q ss_pred HHHhhCCCCC-CHHHHHHHhhhhhhhhhcccCC
Q 027234 181 ILELMNIPGL-TRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 181 I~~~~~~~~l-t~~~va~~l~~~r~~l~r~~~~ 212 (226)
|+.++.. +. |..++|..+++|+.++||.-+-
T Consensus 4 ~l~l~~~-g~~~~~~ia~~lg~s~~Tv~r~~~~ 35 (112)
T PF13551_consen 4 ILLLLAE-GVSTIAEIARRLGISRRTVYRWLKR 35 (112)
T ss_pred HHHHHHc-CCCcHHHHHHHHCcCHHHHHHHHHH
Confidence 3344444 66 6999999999999999875443
No 362
>cd01568 QPRTase_NadC Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide. QPRTase functions as a homodimer with two active sites, each formed by the C-terminal region of one subunit and the N-terminal region of the other.
Probab=56.17 E-value=73 Score=26.25 Aligned_cols=68 Identities=18% Similarity=0.108 Sum_probs=46.9
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHH-HHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFK-LLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~-l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
..+.+.+++.+.+.. ++|.|.+|-.-| +.+. +.+.++..+++| |..++.-+.+.+......||+.+-.
T Consensus 186 vev~t~eea~~A~~~---gaD~I~ld~~~~--e~l~~~v~~i~~~~~i~-i~asGGIt~~ni~~~a~~Gad~Isv 254 (269)
T cd01568 186 VEVETLEEAEEALEA---GADIIMLDNMSP--EELKEAVKLLKGLPRVL-LEASGGITLENIRAYAETGVDVIST 254 (269)
T ss_pred EecCCHHHHHHHHHc---CCCEEEECCCCH--HHHHHHHHHhccCCCeE-EEEECCCCHHHHHHHHHcCCCEEEE
Confidence 467889999988764 389999997555 2222 223333223555 5577778889999999999998753
No 363
>PRK07028 bifunctional hexulose-6-phosphate synthase/ribonuclease regulator; Validated
Probab=56.07 E-value=95 Score=27.40 Aligned_cols=72 Identities=19% Similarity=0.230 Sum_probs=48.2
Q ss_pred ceEEEEccCC----CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE-----eCCCCHHHHHHHHHHHH
Q 027234 25 YDIVISDVHM----PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL-----TKPVRIEELKNIWQHVV 95 (226)
Q Consensus 25 ~DlVl~D~~m----p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl-----~KP~~~~~L~~~l~~~~ 95 (226)
.|.|.+...- ....+++.++.++...++||++..+- ..+....++..||+++. .+.-++.+....+++.+
T Consensus 132 aD~I~~~pg~~~~~~~~~~~~~l~~l~~~~~iPI~a~GGI-~~~n~~~~l~aGAdgv~vGsaI~~~~d~~~~~~~l~~~i 210 (430)
T PRK07028 132 VDYINVHVGIDQQMLGKDPLELLKEVSEEVSIPIAVAGGL-DAETAAKAVAAGADIVIVGGNIIKSADVTEAARKIREAI 210 (430)
T ss_pred CCEEEEEeccchhhcCCChHHHHHHHHhhCCCcEEEECCC-CHHHHHHHHHcCCCEEEEChHHcCCCCHHHHHHHHHHHH
Confidence 7888665321 12466788888876556888776654 67888899999999655 45556666666565555
Q ss_pred HH
Q 027234 96 RK 97 (226)
Q Consensus 96 ~~ 97 (226)
+.
T Consensus 211 ~~ 212 (430)
T PRK07028 211 DS 212 (430)
T ss_pred hc
Confidence 43
No 364
>PF10237 N6-adenineMlase: Probable N6-adenine methyltransferase; InterPro: IPR019369 This family of proteins, which are of approximately 200 residues in length, contain a highly conserved Glu-Phe-Trp (QFW) motif close to the N terminus and an Asp/Asn-Pro-Pro-Tyr/Phe motif in the centre. This latter motif is characteristic of N-6 adenine-specific DNA methylases and could be involved in substrate binding or in the catalytic activity (, ).
Probab=56.01 E-value=22 Score=26.94 Aligned_cols=54 Identities=19% Similarity=0.334 Sum_probs=34.1
Q ss_pred CCceEEEEccCCCCCCHHHH-------HHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 23 NGYDIVISDVHMPDMDGFKL-------LELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 23 ~~~DlVl~D~~mp~~dG~~l-------~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+|+||+| |-.=.-++ ++.|. .+..++|+.|+......+.+.+..-..+|.++
T Consensus 85 ~~~d~vv~D---PPFl~~ec~~k~a~ti~~L~-k~~~kii~~Tg~~~~~~~~~ll~~~~~~f~p~ 145 (162)
T PF10237_consen 85 GKFDVVVID---PPFLSEECLTKTAETIRLLL-KPGGKIILCTGEEMEELIKKLLGLRMCDFQPE 145 (162)
T ss_pred CCceEEEEC---CCCCCHHHHHHHHHHHHHHh-CccceEEEecHHHHHHHHHHHhCeeEEeEEec
Confidence 348999999 43322222 23332 24678899998887778887776656666543
No 365
>PRK00118 putative DNA-binding protein; Validated
Probab=55.87 E-value=8.3 Score=26.99 Aligned_cols=28 Identities=14% Similarity=0.205 Sum_probs=21.9
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
++...-..++|..+||..+|+|+..+++
T Consensus 25 vl~L~y~eg~S~~EIAe~lGIS~~TV~r 52 (104)
T PRK00118 25 YMELYYLDDYSLGEIAEEFNVSRQAVYD 52 (104)
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHH
Confidence 3444445699999999999999998776
No 366
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=55.82 E-value=8.7 Score=28.47 Aligned_cols=28 Identities=32% Similarity=0.444 Sum_probs=21.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.|+.++ ..++|..+||..|++|+.+.++
T Consensus 13 eVL~lr-~~GlTq~EIAe~LGiS~~tVs~ 40 (141)
T PRK03975 13 EVLRLR-ERGLTQQEIADILGTSRANVSS 40 (141)
T ss_pred HHHHHH-HcCCCHHHHHHHHCCCHHHHHH
Confidence 455665 4599999999999999976543
No 367
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=55.75 E-value=69 Score=22.45 Aligned_cols=74 Identities=12% Similarity=0.064 Sum_probs=42.5
Q ss_pred HHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCC--HHHHHHHH
Q 027234 14 ALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVR--IEELKNIW 91 (226)
Q Consensus 14 al~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~--~~~L~~~l 91 (226)
|.+...... ...|++-- .+|......-+-.|..||+++|.... ....-.+-.|+..++.++.. .+++....
T Consensus 8 a~~~A~~~~--ak~Ivv~T----~sG~ta~~isk~RP~~pIiavt~~~~-~~r~l~l~~GV~p~~~~~~~~~~~~~~~~a 80 (117)
T PF02887_consen 8 AVELAEDLN--AKAIVVFT----ESGRTARLISKYRPKVPIIAVTPNES-VARQLSLYWGVYPVLIEEFDKDTEELIAEA 80 (117)
T ss_dssp HHHHHHHHT--ESEEEEE-----SSSHHHHHHHHT-TSSEEEEEESSHH-HHHHGGGSTTEEEEECSSHSHSHHHHHHHH
T ss_pred HHHHHHhcC--CCEEEEEC----CCchHHHHHHhhCCCCeEEEEcCcHH-HHhhhhcccceEEEEeccccccHHHHHHHH
Confidence 334444433 55666542 34544333334568899999997543 33444688899998877766 55544444
Q ss_pred HHH
Q 027234 92 QHV 94 (226)
Q Consensus 92 ~~~ 94 (226)
...
T Consensus 81 ~~~ 83 (117)
T PF02887_consen 81 LEY 83 (117)
T ss_dssp HHH
T ss_pred HHH
Confidence 433
No 368
>PRK10072 putative transcriptional regulator; Provisional
Probab=55.20 E-value=9 Score=26.36 Aligned_cols=33 Identities=15% Similarity=0.096 Sum_probs=26.6
Q ss_pred CchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 177 GPKKILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 177 ~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.+..|.++...-++|+.++|..++++.+.+++-
T Consensus 34 ~~~eik~LR~~~glTQ~elA~~lGvS~~TVs~W 66 (96)
T PRK10072 34 SFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEW 66 (96)
T ss_pred ChHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 344577777777999999999999999987753
No 369
>PRK11572 copper homeostasis protein CutC; Provisional
Probab=55.17 E-value=75 Score=25.96 Aligned_cols=70 Identities=19% Similarity=0.131 Sum_probs=50.7
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+.|..+|++.+.... +|=||+.=.-+. .+|++.++.+.....-.+|+..+.-..+.+......|+..|-
T Consensus 126 ~~~d~~~al~~l~~lG--~~rILTSGg~~~a~~g~~~L~~lv~~a~~~~Im~GgGV~~~Nv~~l~~tG~~~~H 196 (248)
T PRK11572 126 MCANPLNALKQLADLG--VARILTSGQQQDAEQGLSLIMELIAASDGPIIMAGAGVRLSNLHKFLDAGVREVH 196 (248)
T ss_pred ccCCHHHHHHHHHHcC--CCEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEeCCCCCHHHHHHHHHcCCCEEe
Confidence 3568999999998865 999999876664 689999988853333345666666666666555678887776
No 370
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=55.10 E-value=1.1e+02 Score=27.61 Aligned_cols=83 Identities=13% Similarity=0.147 Sum_probs=51.5
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCCCC-HHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHh-CCcceEEeCCCCHHHHH
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPDMD-GFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVT-HDACDYLTKPVRIEELK 88 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~~d-G~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~-~ga~~yl~KP~~~~~L~ 88 (226)
++..+.+.... ||+|.+...-|... ..++++.++ ..++++||+=-.+... ...+.+. ....||+..--....+.
T Consensus 53 ~~~~~~l~~~~--pdvVgis~~t~~~~~a~~~~~~~k~~~P~~~iV~GG~h~t~-~~~~~l~~~p~vD~Vv~GEGE~~~~ 129 (497)
T TIGR02026 53 EKLVERLRAHC--PDLVLITAITPAIYIACETLKFARERLPNAIIVLGGIHPTF-MFHQVLTEAPWIDFIVRGEGEETVV 129 (497)
T ss_pred HHHHHHHHhcC--cCEEEEecCcccHHHHHHHHHHHHHHCCCCEEEEcCCCcCc-CHHHHHhcCCCccEEEeCCcHHHHH
Confidence 44556666655 99999987656543 456777777 4577766643333222 2233343 34567888887778787
Q ss_pred HHHHHHHHH
Q 027234 89 NIWQHVVRK 97 (226)
Q Consensus 89 ~~l~~~~~~ 97 (226)
..++.+..+
T Consensus 130 ~Ll~~l~~g 138 (497)
T TIGR02026 130 KLIAALENH 138 (497)
T ss_pred HHHHHHHcC
Confidence 777776543
No 371
>PRK06801 hypothetical protein; Provisional
Probab=55.02 E-value=64 Score=26.93 Aligned_cols=70 Identities=11% Similarity=0.114 Sum_probs=50.5
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCC-----CC--CCHHHHHHHHhcCCCCcEEEEecc-CCHHHHHHHHhCCcceEEe
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHM-----PD--MDGFKLLELVGLEMDLPVIMMCAH-GSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~m-----p~--~dG~~l~~~l~~~~~~pvI~ls~~-~~~~~~~~a~~~ga~~yl~ 79 (226)
.+++++|.++++... +|.+=+-+.- ++ .-+++.++.++...++|+++.-+. ...+...++.+.|+...=.
T Consensus 155 ~T~pe~a~~f~~~tg--vD~LAvaiGt~Hg~y~~~~~l~~e~l~~i~~~~~~PLVlHGGSgi~~e~~~~~i~~Gi~KINv 232 (286)
T PRK06801 155 FTDPQLARDFVDRTG--IDALAVAIGNAHGKYKGEPKLDFARLAAIHQQTGLPLVLHGGSGISDADFRRAIELGIHKINF 232 (286)
T ss_pred CCCHHHHHHHHHHHC--cCEEEeccCCCCCCCCCCCCCCHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHcCCcEEEe
Confidence 557899999997755 8877764421 11 247888999886667998877653 3456788999999987643
No 372
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=55.01 E-value=9.4 Score=27.78 Aligned_cols=29 Identities=14% Similarity=0.119 Sum_probs=16.0
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
|.+.+...++|..++|..+++++++++++
T Consensus 10 lk~~R~~~gltq~~lA~~~gvs~~~is~~ 38 (135)
T PRK09706 10 IRYRRKQLKLSQRSLAKAVKVSHVSISQW 38 (135)
T ss_pred HHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 33334444566666666666666665553
No 373
>PRK00230 orotidine 5'-phosphate decarboxylase; Reviewed
Probab=55.01 E-value=64 Score=25.85 Aligned_cols=83 Identities=11% Similarity=0.029 Sum_probs=54.9
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCC--CCHHHHHHHHhcCCCCcEEE---E--eccCCHHHHHHHHhCCcceEEeCC
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPD--MDGFKLLELVGLEMDLPVIM---M--CAHGSKEVVMKGVTHDACDYLTKP 81 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~--~dG~~l~~~l~~~~~~pvI~---l--s~~~~~~~~~~a~~~ga~~yl~KP 81 (226)
.+..++++.+.... .++..+|+.+|- .-|.++++.|++. +.++++ + .+.........+.+.|++.+..-+
T Consensus 12 ~~~~~~l~~~~~~~--~~~~~ikvg~~~f~~~G~~~i~~l~~~-~~~i~~D~Kl~Di~~t~~~~i~~~~~~gad~itvH~ 88 (230)
T PRK00230 12 PSKEEALAFLDQLD--PAVLFVKVGMELFTAGGPQFVRELKQR-GFKVFLDLKLHDIPNTVAKAVRALAKLGVDMVNVHA 88 (230)
T ss_pred CCHHHHHHHHHhcC--CcccEEEEcHHHHHhcCHHHHHHHHhc-CCCEEEEeehhhccccHHHHHHHHHHcCCCEEEEcc
Confidence 46789999998865 778889998875 3578888888754 334432 1 122223445567889999888888
Q ss_pred CCHHHHHHHHHHH
Q 027234 82 VRIEELKNIWQHV 94 (226)
Q Consensus 82 ~~~~~L~~~l~~~ 94 (226)
..-.+........
T Consensus 89 ~ag~~~i~~~~~~ 101 (230)
T PRK00230 89 SGGPRMMKAAREA 101 (230)
T ss_pred cCCHHHHHHHHHH
Confidence 7665544444333
No 374
>COG2522 Predicted transcriptional regulator [General function prediction only]
Probab=54.93 E-value=14 Score=26.58 Aligned_cols=38 Identities=16% Similarity=0.245 Sum_probs=30.0
Q ss_pred HHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 162 QQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 162 ~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
+.|++++.. .+-..|...|+++..||..||.+..-.++
T Consensus 4 ~~vlPaiRa---------~lA~~L~eeG~Sq~~iA~LLGltqaAVS~ 41 (119)
T COG2522 4 EEVLPAIRA---------LLAKELIEEGLSQYRIAKLLGLTQAAVSQ 41 (119)
T ss_pred HHHHHHHHH---------HHHHHHHHcCCcHHHHHHHhCCCHHHHHH
Confidence 567778777 46666666799999999999999986554
No 375
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=54.89 E-value=25 Score=19.99 Aligned_cols=22 Identities=14% Similarity=0.006 Sum_probs=16.2
Q ss_pred CCCCCHHHHHHHhhhhhhhhhc
Q 027234 187 IPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r 208 (226)
+...+..+||..+++|...+.+
T Consensus 15 d~r~s~~~la~~lglS~~~v~~ 36 (42)
T PF13404_consen 15 DGRRSYAELAEELGLSESTVRR 36 (42)
T ss_dssp -TTS-HHHHHHHHTS-HHHHHH
T ss_pred cCCccHHHHHHHHCcCHHHHHH
Confidence 6778999999999999987653
No 376
>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated
Probab=54.85 E-value=1e+02 Score=24.29 Aligned_cols=71 Identities=13% Similarity=0.065 Sum_probs=50.6
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCC---CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHM---PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~m---p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.++.+..+.+.+.. .-.+.++|+.- ....-+++++.+.+...+|+++=.+-.+.+.+.+++..||+..+.-
T Consensus 30 ~~~~~~a~~~~~~g-~~~i~v~dld~~~~g~~~~~~~i~~i~~~~~~pv~~~GGI~~~ed~~~~~~~Ga~~vilg 103 (233)
T PRK00748 30 DDPVAQAKAWEDQG-AKWLHLVDLDGAKAGKPVNLELIEAIVKAVDIPVQVGGGIRSLETVEALLDAGVSRVIIG 103 (233)
T ss_pred CCHHHHHHHHHHcC-CCEEEEEeCCccccCCcccHHHHHHHHHHCCCCEEEcCCcCCHHHHHHHHHcCCCEEEEC
Confidence 47777777776542 13577888742 1124477888887667789988777778899999999999887754
No 377
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=54.77 E-value=36 Score=26.15 Aligned_cols=47 Identities=13% Similarity=0.135 Sum_probs=31.7
Q ss_pred CCceEEEEccCCC-----CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHH
Q 027234 23 NGYDIVISDVHMP-----DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKG 69 (226)
Q Consensus 23 ~~~DlVl~D~~mp-----~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a 69 (226)
..+|+||+|--+. -.+--++++.|+..|.--=+++|+...++...+.
T Consensus 96 ~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~ 147 (173)
T TIGR00708 96 PELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLEL 147 (173)
T ss_pred CCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHh
Confidence 3499999996542 2455577788876665545668888777665443
No 378
>PRK07259 dihydroorotate dehydrogenase 1B; Reviewed
Probab=54.63 E-value=1.2e+02 Score=25.24 Aligned_cols=57 Identities=16% Similarity=0.180 Sum_probs=40.8
Q ss_pred HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE------eCCCCHHHHHHHHHHHHH
Q 027234 40 FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL------TKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 40 ~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl------~KP~~~~~L~~~l~~~~~ 96 (226)
++.+..+++..++|||...+-.+.+.+.+.+..||+..- ..|.-...+..-+.+.+.
T Consensus 223 l~~v~~i~~~~~ipvi~~GGI~~~~da~~~l~aGAd~V~igr~ll~~P~~~~~i~~~l~~~~~ 285 (301)
T PRK07259 223 LRMVYQVYQAVDIPIIGMGGISSAEDAIEFIMAGASAVQVGTANFYDPYAFPKIIEGLEAYLD 285 (301)
T ss_pred HHHHHHHHHhCCCCEEEECCCCCHHHHHHHHHcCCCceeEcHHHhcCcHHHHHHHHHHHHHHH
Confidence 567777776668999999999999999999999986532 345545555555544443
No 379
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=54.61 E-value=7.9 Score=29.47 Aligned_cols=53 Identities=19% Similarity=0.171 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHhCCCC-CCchHHHHhhCCCC---CCHHHHHHHhhhhhhhhhcccCC
Q 027234 160 LHQQFVSAVKELGFDK-AGPKKILELMNIPG---LTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 160 l~~~Fi~~~~~~g~~~-~~p~~I~~~~~~~~---lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
....|+....-+|--+ .+...|+++|+..+ .|...||..+++|+..++|-++.
T Consensus 42 ~~~ni~~~l~l~g~k~~~Vl~~il~~~d~~N~v~~t~~~ia~~l~iS~~Tv~r~ik~ 98 (165)
T PF05732_consen 42 YLENIIKVLDLIGNKAFRVLMYILENMDKDNAVVATQKEIAEKLGISKPTVSRAIKE 98 (165)
T ss_pred HHHHHHHHhhhhchhHHHHHHHHHHhcCCCCeEEeeHHHHHHHhCCCHHHHHHHHHH
Confidence 3445555554444322 34667888998766 47799999999999999986654
No 380
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.60 E-value=48 Score=32.41 Aligned_cols=73 Identities=18% Similarity=0.265 Sum_probs=47.2
Q ss_pred CceEEEEc-cCCCCCCHHHHH-HHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHH
Q 027234 24 GYDIVISD-VHMPDMDGFKLL-ELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 24 ~~DlVl~D-~~mp~~dG~~l~-~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~~ 97 (226)
.+-++|+| ++|-..+.+..+ +.|. .+...++++....+...+...+...+.-|-.+|++.+++...|.+++..
T Consensus 119 k~KViIIDEAh~LT~eAqNALLKtLE-EPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~ 193 (944)
T PRK14949 119 RFKVYLIDEVHMLSRSSFNALLKTLE-EPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQ 193 (944)
T ss_pred CcEEEEEechHhcCHHHHHHHHHHHh-ccCCCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHH
Confidence 36788888 566555555544 4443 3333333333344455555666666788999999999999999887754
No 381
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=54.59 E-value=1.1e+02 Score=24.26 Aligned_cols=80 Identities=15% Similarity=0.101 Sum_probs=49.9
Q ss_pred EEEECCHHHHHHHHHhCC-CCceEEEEccCCCCCCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 5 VTKCNRAEIALDMLRTNK-NGYDIVISDVHMPDMDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~-~~~DlVl~D~~mp~~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
|....+.+++++.++... .++.++=+.++ .-+.++.++.++.. +++ +|-.-.-.+.+....+..+||+-.++.-+
T Consensus 13 Vlr~~~~e~a~~~~~al~~~Gi~~iEit~~--t~~a~~~i~~l~~~~~~~-~vGAGTVl~~~~a~~a~~aGA~FivsP~~ 89 (204)
T TIGR01182 13 VIRIDDVDDALPLAKALIEGGLRVLEVTLR--TPVALDAIRLLRKEVPDA-LIGAGTVLNPEQLRQAVDAGAQFIVSPGL 89 (204)
T ss_pred EEecCCHHHHHHHHHHHHHcCCCEEEEeCC--CccHHHHHHHHHHHCCCC-EEEEEeCCCHHHHHHHHHcCCCEEECCCC
Confidence 445567777776665421 34666555554 45688889988743 432 22244445778899999999986555545
Q ss_pred CHHHH
Q 027234 83 RIEEL 87 (226)
Q Consensus 83 ~~~~L 87 (226)
+++.+
T Consensus 90 ~~~v~ 94 (204)
T TIGR01182 90 TPELA 94 (204)
T ss_pred CHHHH
Confidence 55443
No 382
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=54.34 E-value=3.1 Score=27.10 Aligned_cols=23 Identities=26% Similarity=0.212 Sum_probs=16.8
Q ss_pred HHHHhhhhhhhhhcccCC-CCCCC
Q 027234 195 VASHLQKHRLYLSRLSGV-SPQQG 217 (226)
Q Consensus 195 va~~l~~~r~~l~r~~~~-~~~~~ 217 (226)
||+++++|+.+|+|+|+- .++++
T Consensus 1 lA~~~~~s~~~l~~~f~~~~g~s~ 24 (81)
T PF12833_consen 1 LADELGMSERYLSRIFKKETGMSF 24 (81)
T ss_dssp HHHHCTS-HHHHHHHHHHHHSS-H
T ss_pred ChHHhCcCHHHHHHHHHHHHCcCH
Confidence 689999999999998765 55443
No 383
>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=54.30 E-value=12 Score=26.72 Aligned_cols=23 Identities=17% Similarity=0.114 Sum_probs=20.8
Q ss_pred CCCHHHHHHHhhhhhhhhhcccC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
+-+..++|.++++|+..+||.++
T Consensus 18 g~s~~eaa~~F~VS~~Tv~~W~k 40 (119)
T PF01710_consen 18 GKSIREAAKRFGVSRNTVYRWLK 40 (119)
T ss_pred cchHHHHHHHhCcHHHHHHHHHH
Confidence 77999999999999999998666
No 384
>cd00381 IMPDH IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine nucleotides. There is often a CBS domain inserted in the middle of this domain, which is proposed to play a regulatory role. IMPDH is a key enzyme in the regulation of cell proliferation and differentiation. It has been identified as an attractive target for developing chemotherapeutic agents.
Probab=53.74 E-value=92 Score=26.45 Aligned_cols=55 Identities=13% Similarity=0.144 Sum_probs=38.6
Q ss_pred CceEEEEccCCCC-CCHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 24 GYDIVISDVHMPD-MDGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 24 ~~DlVl~D~~mp~-~dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
++|+|.+|..-.. ..-.++++.++.. +++||++ ..-...+.+..+.+.||+....
T Consensus 106 gv~~I~vd~~~G~~~~~~~~i~~ik~~~p~v~Vi~-G~v~t~~~A~~l~~aGaD~I~v 162 (325)
T cd00381 106 GVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVIA-GNVVTAEAARDLIDAGADGVKV 162 (325)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHHHCCCceEEE-CCCCCHHHHHHHHhcCCCEEEE
Confidence 3899999885433 2346778888743 4466664 4446678889999999998764
No 385
>cd03818 GT1_ExpC_like This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II).
Probab=53.62 E-value=1.3e+02 Score=25.83 Aligned_cols=59 Identities=15% Similarity=0.125 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHH
Q 027234 34 MPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 34 mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~~~ 98 (226)
.|..-|+.+++.+. ..+|||. |.... ..+.+..|..+++..|.++++|...+..++...
T Consensus 309 ~~e~~~~~llEAmA--~G~PVIa-s~~~g---~~e~i~~~~~G~lv~~~d~~~la~~i~~ll~~~ 367 (396)
T cd03818 309 YPFVLSWSLLEAMA--CGCLVVG-SDTAP---VREVITDGENGLLVDFFDPDALAAAVIELLDDP 367 (396)
T ss_pred cccccchHHHHHHH--CCCCEEE-cCCCC---chhhcccCCceEEcCCCCHHHHHHHHHHHHhCH
Confidence 34445556666553 4578875 33332 334456688899999999999999999987643
No 386
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=53.62 E-value=11 Score=21.69 Aligned_cols=23 Identities=17% Similarity=0.138 Sum_probs=19.6
Q ss_pred CCCCCHHHHHHHhhhhhhhhhcc
Q 027234 187 IPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
...++..++|..+++++..+++.
T Consensus 12 ~~~~s~~~l~~~l~~s~~tv~~~ 34 (53)
T smart00420 12 QGKVSVEELAELLGVSEMTIRRD 34 (53)
T ss_pred cCCcCHHHHHHHHCCCHHHHHHH
Confidence 35789999999999999988763
No 387
>cd00384 ALAD_PBGS Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. They either contain a cysteine-rich zinc binding site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an aspartate-rich magnesium binding site (consensus DXALDX(Y/F)X3G(H/Q)DG). The cyste
Probab=53.51 E-value=59 Score=27.43 Aligned_cols=64 Identities=19% Similarity=0.294 Sum_probs=46.9
Q ss_pred CCHHHHHHHHHhC-CCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 9 NRAEIALDMLRTN-KNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 9 ~~~~eal~~l~~~-~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
.|..||+..+... ..+-|+|++= |++-=+++++.++...++|+..+-...+..-+..|.+.|..
T Consensus 217 an~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~~~PvaaYqVSGEYaMikaAa~~G~i 281 (314)
T cd00384 217 ANRREALREVELDIEEGADILMVK---PALAYLDIIRDVRERFDLPVAAYNVSGEYAMIKAAAKNGWI 281 (314)
T ss_pred CCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHHhcCCCEEEEEccHHHHHHHHHHHcCCc
Confidence 4677888666432 2447998876 78888899999998789999998776666666666666654
No 388
>PRK08999 hypothetical protein; Provisional
Probab=53.50 E-value=93 Score=25.92 Aligned_cols=68 Identities=18% Similarity=0.153 Sum_probs=48.2
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC-------CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD-------MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-------~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.|.+.+++.+... .. +|.|++--.-|. --|++.++.+....++||+.+-+- +.+.+....+.|++++-
T Consensus 232 S~h~~~~~~~a~~-~~--~dyi~~gpvf~t~tk~~~~~~g~~~~~~~~~~~~~Pv~AiGGI-~~~~~~~~~~~g~~gva 306 (312)
T PRK08999 232 SCHDAEELARAQR-LG--VDFAVLSPVQPTASHPGAAPLGWEGFAALIAGVPLPVYALGGL-GPGDLEEAREHGAQGIA 306 (312)
T ss_pred ecCCHHHHHHHHh-cC--CCEEEECCCcCCCCCCCCCCCCHHHHHHHHHhCCCCEEEECCC-CHHHHHHHHHhCCCEEE
Confidence 4567777655433 23 888887654432 247888888877778999999875 67777788899998764
No 389
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=53.41 E-value=52 Score=25.09 Aligned_cols=55 Identities=11% Similarity=0.008 Sum_probs=38.7
Q ss_pred HHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHH
Q 027234 40 FKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVV 95 (226)
Q Consensus 40 ~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~ 95 (226)
-+.++.+++ .+..+.|.+ ...+.+...++++.|++....--+++++++..++.+.
T Consensus 67 ~~av~~~~~~~~~~~~I~V-Ev~~~ee~~ea~~~g~d~I~lD~~~~~~~~~~v~~l~ 122 (169)
T PF01729_consen 67 EEAVKAARQAAPEKKKIEV-EVENLEEAEEALEAGADIIMLDNMSPEDLKEAVEELR 122 (169)
T ss_dssp HHHHHHHHHHSTTTSEEEE-EESSHHHHHHHHHTT-SEEEEES-CHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCceEEE-EcCCHHHHHHHHHhCCCEEEecCcCHHHHHHHHHHHh
Confidence 445566653 344443333 3345788999999999999999999999999998773
No 390
>cd00381 IMPDH IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine nucleotides. There is often a CBS domain inserted in the middle of this domain, which is proposed to play a regulatory role. IMPDH is a key enzyme in the regulation of cell proliferation and differentiation. It has been identified as an attractive target for developing chemotherapeutic agents.
Probab=53.27 E-value=63 Score=27.44 Aligned_cols=69 Identities=20% Similarity=0.200 Sum_probs=43.5
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC------------CCHHHHHHHH---hcCCCCcEEEEeccCCHHHHHHHHh
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD------------MDGFKLLELV---GLEMDLPVIMMCAHGSKEVVMKGVT 71 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~------------~dG~~l~~~l---~~~~~~pvI~ls~~~~~~~~~~a~~ 71 (226)
.+.+.+.|...++. +.|.|.+.+ -|+ ..-+.++..+ .....+|||.--+..+...+.+++.
T Consensus 142 ~v~t~~~A~~l~~a---GaD~I~vg~-g~G~~~~t~~~~g~g~p~~~~i~~v~~~~~~~~vpVIA~GGI~~~~di~kAla 217 (325)
T cd00381 142 NVVTAEAARDLIDA---GADGVKVGI-GPGSICTTRIVTGVGVPQATAVADVAAAARDYGVPVIADGGIRTSGDIVKALA 217 (325)
T ss_pred CCCCHHHHHHHHhc---CCCEEEECC-CCCcCcccceeCCCCCCHHHHHHHHHHHHhhcCCcEEecCCCCCHHHHHHHHH
Confidence 35667777776653 378887632 111 1123333333 2234689886667778899999999
Q ss_pred CCcceEEe
Q 027234 72 HDACDYLT 79 (226)
Q Consensus 72 ~ga~~yl~ 79 (226)
+||++...
T Consensus 218 ~GA~~Vmi 225 (325)
T cd00381 218 AGADAVML 225 (325)
T ss_pred cCCCEEEe
Confidence 99998765
No 391
>PRK08649 inosine 5-monophosphate dehydrogenase; Validated
Probab=53.03 E-value=1.3e+02 Score=26.19 Aligned_cols=66 Identities=17% Similarity=0.199 Sum_probs=44.9
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCC-------CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHM-------PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~m-------p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+..+-.+.+.+.. +|+|.++.+. +..+...+.+.++. .++|||. ..-...+.+.++++.||+..+.
T Consensus 142 ~~~e~a~~l~eaG--vd~I~vhgrt~~~~h~~~~~~~~~i~~~ik~-~~ipVIa-G~V~t~e~A~~l~~aGAD~V~V 214 (368)
T PRK08649 142 RAQELAPTVVEAG--VDLFVIQGTVVSAEHVSKEGEPLNLKEFIYE-LDVPVIV-GGCVTYTTALHLMRTGAAGVLV 214 (368)
T ss_pred CHHHHHHHHHHCC--CCEEEEeccchhhhccCCcCCHHHHHHHHHH-CCCCEEE-eCCCCHHHHHHHHHcCCCEEEE
Confidence 4556666666644 9999997532 22255666666654 5788876 5556678888899999999854
No 392
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=52.98 E-value=49 Score=25.38 Aligned_cols=47 Identities=17% Similarity=0.246 Sum_probs=27.7
Q ss_pred CCceEEEEccCC-----CCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHH
Q 027234 23 NGYDIVISDVHM-----PDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKG 69 (226)
Q Consensus 23 ~~~DlVl~D~~m-----p~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a 69 (226)
..+|+||+|--+ .-.+--++++.|+..+.--=+++|+...+....+.
T Consensus 95 ~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~~~~l~e~ 146 (172)
T PF02572_consen 95 GEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNAPEELIEA 146 (172)
T ss_dssp TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS--HHHHHH
T ss_pred CCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCCCHHHHHh
Confidence 349999999543 23566677788876665556679998887766554
No 393
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=52.98 E-value=1.2e+02 Score=24.25 Aligned_cols=71 Identities=20% Similarity=0.265 Sum_probs=54.5
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEcc-------CCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDV-------HMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~-------~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.-|++.+|++...+ .++|+|=+-+ .-|...-+++++.+.. ..+++|.=-....++.+.+++..||+...
T Consensus 132 AD~St~ee~l~a~~---~G~D~IGTTLsGYT~~~~~~~~pDf~lvk~l~~-~~~~vIAEGr~~tP~~Ak~a~~~Ga~aVv 207 (229)
T COG3010 132 ADCSTFEEGLNAHK---LGFDIIGTTLSGYTGYTEKPTEPDFQLVKQLSD-AGCRVIAEGRYNTPEQAKKAIEIGADAVV 207 (229)
T ss_pred eccCCHHHHHHHHH---cCCcEEecccccccCCCCCCCCCcHHHHHHHHh-CCCeEEeeCCCCCHHHHHHHHHhCCeEEE
Confidence 35788888887765 3388875543 2345667889988865 77889988888999999999999999887
Q ss_pred eC
Q 027234 79 TK 80 (226)
Q Consensus 79 ~K 80 (226)
.-
T Consensus 208 VG 209 (229)
T COG3010 208 VG 209 (229)
T ss_pred EC
Confidence 54
No 394
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=52.91 E-value=7.1 Score=35.64 Aligned_cols=32 Identities=16% Similarity=0.013 Sum_probs=27.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+.+...+-++...|..||+||+.|||.-+
T Consensus 501 ~I~~~L~~~~Gn~~~aA~~LGIsRtTL~RkLk 532 (538)
T PRK15424 501 TLQQALERFNGDKTAAANYLGISRTTLWRRLK 532 (538)
T ss_pred HHHHHHHHhCCCHHHHHHHhCCCHHHHHHHHH
Confidence 57777778889999999999999999998544
No 395
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=52.70 E-value=51 Score=22.96 Aligned_cols=53 Identities=21% Similarity=0.193 Sum_probs=33.8
Q ss_pred CcEEEEE---CCHHHHHHHHHhCCCCceEEEEccCCCCCC-HHHHHHHHh-cCC-CCcEEE
Q 027234 2 GFSVTKC---NRAEIALDMLRTNKNGYDIVISDVHMPDMD-GFKLLELVG-LEM-DLPVIM 56 (226)
Q Consensus 2 g~~V~~~---~~~~eal~~l~~~~~~~DlVl~D~~mp~~d-G~~l~~~l~-~~~-~~pvI~ 56 (226)
||++... ....+..+.+.... ||+|.+...+.... .+..+..++ ..+ ++++++
T Consensus 27 G~~v~~l~~~~~~~~~~~~i~~~~--pdiV~iS~~~~~~~~~~~~~~~~~~~~p~~~~ivv 85 (125)
T cd02065 27 GFEVIDLGVDVPPEEIVEAAKEED--ADVVGLSALSTTHMEAMKLVIEALKELGIDIPVVV 85 (125)
T ss_pred CCEEEEcCCCCCHHHHHHHHHHcC--CCEEEEecchHhHHHHHHHHHHHHHhcCCCCeEEE
Confidence 5666533 35566777777765 99999998776543 455555554 445 566654
No 396
>TIGR02684 dnstrm_HI1420 probable addiction module antidote protein. gene pairs, when found on the bacterial chromosome, are located often with prophage regions, but also both in integrated plasmid regions and in housekeeping gene regions. Analysis suggests that the gene pair may serve as an addiction module.
Probab=52.35 E-value=9.8 Score=25.77 Aligned_cols=29 Identities=17% Similarity=0.109 Sum_probs=21.6
Q ss_pred HhhCCCCCCHHHHHHHhhhhhhhhhcccCCC
Q 027234 183 ELMNIPGLTRENVASHLQKHRLYLSRLSGVS 213 (226)
Q Consensus 183 ~~~~~~~lt~~~va~~l~~~r~~l~r~~~~~ 213 (226)
+.+..-++| ++|...++++++++|+..-.
T Consensus 39 ~~r~~~glS--qLAe~~GIs~stLs~iE~g~ 67 (89)
T TIGR02684 39 YIARARGMT--QLARKTGLSRESLYKALSGK 67 (89)
T ss_pred HHHHHCChH--HHHHHHCCCHHHHHHHHcCC
Confidence 344444666 69999999999999986443
No 397
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=52.25 E-value=57 Score=24.09 Aligned_cols=44 Identities=14% Similarity=0.316 Sum_probs=26.7
Q ss_pred HHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEecc
Q 027234 11 AEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAH 60 (226)
Q Consensus 11 ~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~ 60 (226)
..++++.++... +|+||+|. ++..... ...+ ...+..+|+++..
T Consensus 80 ~~~~~~~~~~~~--~D~iiIDt--aG~~~~~-~~~~-~~Ad~~ivv~tpe 123 (148)
T cd03114 80 TPEVIRVLDAAG--FDVIIVET--VGVGQSE-VDIA-SMADTTVVVMAPG 123 (148)
T ss_pred HHHHHHHHHhcC--CCEEEEEC--CccChhh-hhHH-HhCCEEEEEECCC
Confidence 355666666544 99999998 6654322 2333 3345567767665
No 398
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=52.22 E-value=1.1e+02 Score=29.02 Aligned_cols=91 Identities=18% Similarity=0.170 Sum_probs=62.0
Q ss_pred CCcEEEE--ECCHHHHHHHHHhCCCCceEEEEccCCC-C----CCHHHHHHHHh---cCCCCcEEEEeccCCHHHHHHHH
Q 027234 1 MGFSVTK--CNRAEIALDMLRTNKNGYDIVISDVHMP-D----MDGFKLLELVG---LEMDLPVIMMCAHGSKEVVMKGV 70 (226)
Q Consensus 1 lg~~V~~--~~~~~eal~~l~~~~~~~DlVl~D~~mp-~----~dG~~l~~~l~---~~~~~pvI~ls~~~~~~~~~~a~ 70 (226)
+||.+.. +.++-..+..+.... ||.|=+|-.+- + ...-.+++.+. ...++.+ +..+-++.+....+.
T Consensus 690 ~G~~i~ld~fg~~~~~~~~l~~l~--~d~iKid~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v-ia~gVe~~~~~~~l~ 766 (799)
T PRK11359 690 MGVGLSVDDFGTGFSGLSRLVSLP--VTEIKIDKSFVDRCLTEKRILALLEAITSIGQSLNLTV-VAEGVETKEQFEMLR 766 (799)
T ss_pred CCCEEEEECCCCchhhHHHHhhCC--CCEEEECHHHHhhcccChhHHHHHHHHHHHHHHCCCeE-EEEcCCCHHHHHHHH
Confidence 4677654 456777788888766 99999887542 1 12334455442 3345554 467778888888899
Q ss_pred hCCcc---e-EEeCCCCHHHHHHHHHHH
Q 027234 71 THDAC---D-YLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 71 ~~ga~---~-yl~KP~~~~~L~~~l~~~ 94 (226)
++|++ | |+.||...++|...++..
T Consensus 767 ~~g~~~~QG~~~~~p~~~~~~~~~~~~~ 794 (799)
T PRK11359 767 KIHCRVIQGYFFSRPLPAEEIPGWMSSV 794 (799)
T ss_pred hcCCCEEeeCeecCCCCHHHHHHHHHhc
Confidence 99986 3 678999999998865543
No 399
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=52.21 E-value=1.2e+02 Score=23.98 Aligned_cols=82 Identities=13% Similarity=0.096 Sum_probs=51.2
Q ss_pred EEEECCHHHHHHHHHhC-CCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEE-EeccCCHHHHHHHHhCCcceEEeCCC
Q 027234 5 VTKCNRAEIALDMLRTN-KNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIM-MCAHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~-~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~-ls~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
|....+.+++++.++.- ..++. ++.+.+-.-++.+.++.++.....++++ .-.-.+.+.+..++.+||+..++ |.
T Consensus 15 v~r~~~~~~~~~~~~a~~~gGi~--~iEvt~~~~~~~~~i~~l~~~~~~~~~iGaGTV~~~~~~~~a~~aGA~fivs-p~ 91 (206)
T PRK09140 15 ILRGITPDEALAHVGALIEAGFR--AIEIPLNSPDPFDSIAALVKALGDRALIGAGTVLSPEQVDRLADAGGRLIVT-PN 91 (206)
T ss_pred EEeCCCHHHHHHHHHHHHHCCCC--EEEEeCCCccHHHHHHHHHHHcCCCcEEeEEecCCHHHHHHHHHcCCCEEEC-CC
Confidence 44455777777766542 13344 4566666678999999887544434332 44445678889999999975555 54
Q ss_pred CHHHHHH
Q 027234 83 RIEELKN 89 (226)
Q Consensus 83 ~~~~L~~ 89 (226)
...++..
T Consensus 92 ~~~~v~~ 98 (206)
T PRK09140 92 TDPEVIR 98 (206)
T ss_pred CCHHHHH
Confidence 4444433
No 400
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=52.21 E-value=1.2e+02 Score=24.48 Aligned_cols=66 Identities=9% Similarity=-0.024 Sum_probs=40.1
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCCCC------HHHHHHHHhcCC-CCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPDMD------GFKLLELVGLEM-DLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~~d------G~~l~~~l~~~~-~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
.+.++.+.... ..++++ -.+|+.. -.+.++++++.. ..|+++=.+-.+.+.+..+...||++++.-
T Consensus 142 ~e~l~~~~~~~--~~~l~m-sv~~~~g~~~~~~~~~~i~~lr~~~~~~~i~v~gGI~~~e~i~~~~~~gaD~vvvG 214 (244)
T PRK13125 142 DLLIHRLSKLS--PLFIYY-GLRPATGVPLPVSVERNIKRVRNLVGNKYLVVGFGLDSPEDARDALSAGADGVVVG 214 (244)
T ss_pred HHHHHHHHHhC--CCEEEE-EeCCCCCCCchHHHHHHHHHHHHhcCCCCEEEeCCcCCHHHHHHHHHcCCCEEEEC
Confidence 34444444433 566766 4556532 233555665433 467654444447888888899999999976
No 401
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=52.14 E-value=9.2 Score=22.39 Aligned_cols=23 Identities=17% Similarity=0.143 Sum_probs=19.5
Q ss_pred CHHHHHHHhhhhhhhhhcccCCC
Q 027234 191 TRENVASHLQKHRLYLSRLSGVS 213 (226)
Q Consensus 191 t~~~va~~l~~~r~~l~r~~~~~ 213 (226)
|+.+||...|+|....+|.+.-.
T Consensus 1 Ti~dIA~~agvS~~TVSr~ln~~ 23 (46)
T PF00356_consen 1 TIKDIAREAGVSKSTVSRVLNGP 23 (46)
T ss_dssp CHHHHHHHHTSSHHHHHHHHTTC
T ss_pred CHHHHHHHHCcCHHHHHHHHhCC
Confidence 67899999999999999976554
No 402
>PLN02898 HMP-P kinase/thiamin-monophosphate pyrophosphorylase
Probab=51.92 E-value=1.5e+02 Score=26.83 Aligned_cols=65 Identities=22% Similarity=0.204 Sum_probs=44.2
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCC-------CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPD-------MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~-------~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
.|.+.+++..... .++|.|.+--.-|. .-|++.++.+.....+||+.+-+ .+.+.+.+.+..|++
T Consensus 396 S~h~~~e~~~a~~---~gadyi~~gpif~t~tk~~~~~~g~~~~~~~~~~~~~Pv~aiGG-I~~~~~~~~~~~G~~ 467 (502)
T PLN02898 396 SCKTPEQAEQAWK---DGADYIGCGGVFPTNTKANNKTIGLDGLREVCEASKLPVVAIGG-ISASNAASVMESGAP 467 (502)
T ss_pred eCCCHHHHHHHhh---cCCCEEEECCeecCCCCCCCCCCCHHHHHHHHHcCCCCEEEECC-CCHHHHHHHHHcCCC
Confidence 4567777665544 23898875333322 22788888887667899988755 457778888898888
No 403
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=51.90 E-value=12 Score=22.65 Aligned_cols=26 Identities=19% Similarity=0.406 Sum_probs=20.3
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhh
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYL 206 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l 206 (226)
.|+..+.. |.+..+||..|++|...+
T Consensus 10 ~vl~~l~~-G~~~~eIA~~l~is~~tV 35 (58)
T PF00196_consen 10 EVLRLLAQ-GMSNKEIAEELGISEKTV 35 (58)
T ss_dssp HHHHHHHT-TS-HHHHHHHHTSHHHHH
T ss_pred HHHHHHHh-cCCcchhHHhcCcchhhH
Confidence 46677777 999999999999987743
No 404
>cd04726 KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for L-ascorbate utilization in some eubacteria. HPS catalyzes the formation of D-arabino-3-hexulose-6-phosphate from D-ribulose 5-phosphate and formaldehyde in microorganisms that can use formaldehyde as a carbon source. Both catalyze reactions that involve the Mg2+-assisted formation and stabilization of 1,2-enediolate reaction intermediates.
Probab=51.88 E-value=68 Score=24.68 Aligned_cols=74 Identities=14% Similarity=0.058 Sum_probs=47.2
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCCC--CCHHHHHHHHhcC-CCCcEEEEe--ccCCHHHHHHHHhCCcceEEeCCC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMPD--MDGFKLLELVGLE-MDLPVIMMC--AHGSKEVVMKGVTHDACDYLTKPV 82 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp~--~dG~~l~~~l~~~-~~~pvI~ls--~~~~~~~~~~a~~~ga~~yl~KP~ 82 (226)
..+.++++++++..... +-.+.+.+|- ..|++.++.+++. ++.|+++.. ..........+.++|++..+.-..
T Consensus 9 ~~~~~~~~~~~~~l~~~--i~~ieig~~~~~~~g~~~i~~i~~~~~~~~i~~~~~v~~~~~~~~~~~~~aGad~i~~h~~ 86 (202)
T cd04726 9 LLDLEEALELAKKVPDG--VDIIEAGTPLIKSEGMEAVRALREAFPDKIIVADLKTADAGALEAEMAFKAGADIVTVLGA 86 (202)
T ss_pred CCCHHHHHHHHHHhhhc--CCEEEcCCHHHHHhCHHHHHHHHHHCCCCEEEEEEEeccccHHHHHHHHhcCCCEEEEEee
Confidence 34678888888765422 3345554443 4578889888754 678887632 222223467789999998886544
Q ss_pred C
Q 027234 83 R 83 (226)
Q Consensus 83 ~ 83 (226)
.
T Consensus 87 ~ 87 (202)
T cd04726 87 A 87 (202)
T ss_pred C
Confidence 3
No 405
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=51.85 E-value=1.3e+02 Score=24.35 Aligned_cols=72 Identities=11% Similarity=0.033 Sum_probs=52.8
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCC---CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMP---DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp---~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
..++.+..+.+.... .-.+.+.|+.-- ...-+++++.+++...+|+++--+-.+.+.+.+++..|++..+.-
T Consensus 29 ~~d~~~~a~~~~~~G-~~~i~i~dl~~~~~~~~~~~~~i~~i~~~~~ipv~~~GGi~s~~~~~~~l~~Ga~~Viig 103 (253)
T PRK02083 29 AGDPVELAKRYNEEG-ADELVFLDITASSEGRDTMLDVVERVAEQVFIPLTVGGGIRSVEDARRLLRAGADKVSIN 103 (253)
T ss_pred cCCHHHHHHHHHHcC-CCEEEEEeCCcccccCcchHHHHHHHHHhCCCCEEeeCCCCCHHHHHHHHHcCCCEEEEC
Confidence 347777777766542 235788888742 233466788887667899998888889999999999998887754
No 406
>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional
Probab=51.85 E-value=76 Score=28.74 Aligned_cols=54 Identities=9% Similarity=0.099 Sum_probs=38.2
Q ss_pred CceEEEEccCCCCC-CHHHHHHHHhcC-CCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 24 GYDIVISDVHMPDM-DGFKLLELVGLE-MDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 24 ~~DlVl~D~~mp~~-dG~~l~~~l~~~-~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+.|+|.+|..-... .-++.+++|+.. ++++|++ ..-.+.+.+..+.++||+...
T Consensus 253 g~d~i~id~a~G~s~~~~~~i~~ik~~~~~~~v~a-G~V~t~~~a~~~~~aGad~I~ 308 (495)
T PTZ00314 253 GVDVLVVDSSQGNSIYQIDMIKKLKSNYPHVDIIA-GNVVTADQAKNLIDAGADGLR 308 (495)
T ss_pred CCCEEEEecCCCCchHHHHHHHHHHhhCCCceEEE-CCcCCHHHHHHHHHcCCCEEE
Confidence 48999999853222 236788888854 5666554 344567888999999999774
No 407
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=51.84 E-value=5.8 Score=31.52 Aligned_cols=23 Identities=30% Similarity=0.359 Sum_probs=20.8
Q ss_pred CCCHHHHHHHhhhhhhhhhcccC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.+|+++||+.||++|.++.|+.+
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~ 206 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLG 206 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHH
Confidence 58999999999999999999654
No 408
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=51.76 E-value=29 Score=26.82 Aligned_cols=46 Identities=13% Similarity=0.214 Sum_probs=28.2
Q ss_pred HHHHHHHHhCCCCceEEEEccCCCCCC-------HHHHHHHHh-cCCCCcEEEEecc
Q 027234 12 EIALDMLRTNKNGYDIVISDVHMPDMD-------GFKLLELVG-LEMDLPVIMMCAH 60 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~mp~~d-------G~~l~~~l~-~~~~~pvI~ls~~ 60 (226)
.+..+++.+.. .|++++|+..- ++ -..+++.|+ .+|++|||+++..
T Consensus 49 ~~~a~~ia~~~--a~~~~ld~~~N-~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~~ 102 (178)
T PF14606_consen 49 PEVADLIAEID--ADLIVLDCGPN-MSPEEFRERLDGFVKTIREAHPDTPILLVSPI 102 (178)
T ss_dssp HHHHHHHHHS----SEEEEEESHH-CCTTTHHHHHHHHHHHHHTT-SSS-EEEEE--
T ss_pred HHHHHHHhcCC--CCEEEEEeecC-CCHHHHHHHHHHHHHHHHHhCCCCCEEEEecC
Confidence 45567777765 89999998532 22 234566776 6789999999954
No 409
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=51.62 E-value=1.1e+02 Score=27.20 Aligned_cols=74 Identities=7% Similarity=0.118 Sum_probs=40.2
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCC---C--HHHHHHHH-hc----CCCCcEEEEeccCCHHHHHHHHh
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDM---D--GFKLLELV-GL----EMDLPVIMMCAHGSKEVVMKGVT 71 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~---d--G~~l~~~l-~~----~~~~pvI~ls~~~~~~~~~~a~~ 71 (226)
|..+..+.+..++.+.+.... +|+||+|. |+. + -++-+..+ +. .+.-.++++++.........+..
T Consensus 279 gvp~~~~~~~~~l~~~l~~~~--~D~VLIDT--aGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~ 354 (432)
T PRK12724 279 GMPFYPVKDIKKFKETLARDG--SELILIDT--AGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLK 354 (432)
T ss_pred CCCeeehHHHHHHHHHHHhCC--CCEEEEeC--CCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHH
Confidence 334444455666677776544 99999996 332 2 23223222 21 12235677887776655444332
Q ss_pred ----CCcceEEe
Q 027234 72 ----HDACDYLT 79 (226)
Q Consensus 72 ----~ga~~yl~ 79 (226)
.|.++.|.
T Consensus 355 ~f~~~~~~glIl 366 (432)
T PRK12724 355 AYESLNYRRILL 366 (432)
T ss_pred HhcCCCCCEEEE
Confidence 56677663
No 410
>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=51.53 E-value=8.2 Score=23.34 Aligned_cols=25 Identities=20% Similarity=0.041 Sum_probs=20.5
Q ss_pred CCCHHHHHHHhhhhhhhhhcccCCC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSGVS 213 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~~~ 213 (226)
.+..++.|..|+++.+.|+|++.--
T Consensus 15 hlp~~eAA~~Lgv~~T~LKr~CR~~ 39 (52)
T PF02042_consen 15 HLPIKEAAKELGVSVTTLKRRCRRL 39 (52)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHc
Confidence 5788999999999999988876533
No 411
>cd04824 eu_ALAD_PBGS_cysteine_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. The eukaryotic PBGSs represented by this model, which contain a cysteine-rich zinc binding motif (DXCXCX(Y/F)X3G(H/Q)CG), require zinc for their activity, they
Probab=51.35 E-value=70 Score=27.06 Aligned_cols=65 Identities=17% Similarity=0.288 Sum_probs=47.5
Q ss_pred CCHHHHHHHHHh-CCCCceEEEEccCCCCCCHHHHHHHHhcCC-CCcEEEEeccCCHHHHHHHHhCCcce
Q 027234 9 NRAEIALDMLRT-NKNGYDIVISDVHMPDMDGFKLLELVGLEM-DLPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 9 ~~~~eal~~l~~-~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~-~~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
.|..||+..+.. ...+-|+|++= |.+-=+++++.++... ++|+..+-...+..-+..|-+.|..|
T Consensus 222 ~n~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~~~~PvaaYqVSGEYaMikaAa~~G~iD 288 (320)
T cd04824 222 GARGLALRAVERDVSEGADMIMVK---PGTPYLDIVREAKDKHPDLPLAVYHVSGEYAMLHAAAEAGAFD 288 (320)
T ss_pred cCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHHhccCCCEEEEEccHHHHHHHHHHHcCCCc
Confidence 467788866542 22447998876 7788889999998665 99999987776666666677777654
No 412
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=51.33 E-value=1.1e+02 Score=24.00 Aligned_cols=65 Identities=11% Similarity=0.046 Sum_probs=43.2
Q ss_pred HHHHHHHHhCCCCceEEEEccCC----C-CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhC-CcceEE
Q 027234 12 EIALDMLRTNKNGYDIVISDVHM----P-DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTH-DACDYL 78 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~m----p-~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~-ga~~yl 78 (226)
.+..+.+... +.|.|.+.-.. + ..-.++.++.+++..++||+.--+-.+.+.+.+++.. |++...
T Consensus 141 ~~~~~~l~~~--Gvd~i~v~~~~~~~~~~~~~~~~~~~~i~~~~~ipvi~~Ggi~~~~d~~~~l~~~gad~V~ 211 (231)
T cd02801 141 LELAKALEDA--GASALTVHGRTREQRYSGPADWDYIAEIKEAVSIPVIANGDIFSLEDALRCLEQTGVDGVM 211 (231)
T ss_pred HHHHHHHHHh--CCCEEEECCCCHHHcCCCCCCHHHHHHHHhCCCCeEEEeCCCCCHHHHHHHHHhcCCCEEE
Confidence 3444445543 37777654431 1 2234677788887788999887777788899999987 677644
No 413
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=51.31 E-value=11 Score=25.07 Aligned_cols=30 Identities=10% Similarity=-0.046 Sum_probs=24.3
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
|++.+.....|+.+||..+|+|++..+|.+
T Consensus 11 I~e~l~~~~~ti~dvA~~~gvS~~TVsr~L 40 (80)
T TIGR02844 11 IGKYIVETKATVRETAKVFGVSKSTVHKDV 40 (80)
T ss_pred HHHHHHHCCCCHHHHHHHhCCCHHHHHHHh
Confidence 445444467899999999999999999965
No 414
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=51.31 E-value=9.5 Score=22.64 Aligned_cols=29 Identities=21% Similarity=0.269 Sum_probs=18.3
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.++...-..|++..+||..+++|.+..++
T Consensus 17 ~i~~l~~~~g~s~~eIa~~l~~s~~~v~~ 45 (54)
T PF08281_consen 17 EIFLLRYFQGMSYAEIAEILGISESTVKR 45 (54)
T ss_dssp HHHHHHHTS---HHHHHHHCTS-HHHHHH
T ss_pred HHHHHHHHHCcCHHHHHHHHCcCHHHHHH
Confidence 34555556699999999999999886553
No 415
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=51.24 E-value=7.1 Score=29.37 Aligned_cols=32 Identities=16% Similarity=0.275 Sum_probs=26.1
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+....-++|++++|..++++++++.++-.
T Consensus 73 ~Ir~~Re~~glSqeeLA~~lgvs~s~IsriE~ 104 (154)
T TIGR00270 73 IIRREREKRGWSQEQLAKKIQEKESLIKKIEN 104 (154)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHC
Confidence 35555666799999999999999999998743
No 416
>cd03316 MR_like Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues, a Lys-X-Lys motif and a conserved histidine-aspartate dyad. Members of the MR subgroup are mandelate racemase, D-glucarate/L-idarate dehydratase (GlucD), D-altronate/D-mannonate dehydratase , D-galactonate dehydratase (GalD) , D-gluconate dehydratase (GlcD), and L-rhamnonate dehydratase (RhamD).
Probab=51.21 E-value=98 Score=26.34 Aligned_cols=81 Identities=12% Similarity=0.140 Sum_probs=49.9
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE-eCCCCHHHHH
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL-TKPVRIEELK 88 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl-~KP~~~~~L~ 88 (226)
+.++|+++++... ..++.++.--+|. +.++.++.+++...+||++=-...+.....++++.|+.|++ .||....=+.
T Consensus 201 ~~~~a~~~~~~l~-~~~i~~iEqP~~~-~~~~~~~~l~~~~~ipi~~dE~~~~~~~~~~~i~~~~~d~v~~k~~~~GGi~ 278 (357)
T cd03316 201 DLAEAIRLARALE-EYDLFWFEEPVPP-DDLEGLARLRQATSVPIAAGENLYTRWEFRDLLEAGAVDIIQPDVTKVGGIT 278 (357)
T ss_pred CHHHHHHHHHHhC-ccCCCeEcCCCCc-cCHHHHHHHHHhCCCCEEeccccccHHHHHHHHHhCCCCEEecCccccCCHH
Confidence 5677777776542 2445444433332 34566677776667887765555567888889988877776 6766654444
Q ss_pred HHHH
Q 027234 89 NIWQ 92 (226)
Q Consensus 89 ~~l~ 92 (226)
..++
T Consensus 279 ~~~~ 282 (357)
T cd03316 279 EAKK 282 (357)
T ss_pred HHHH
Confidence 4443
No 417
>cd02809 alpha_hydroxyacid_oxid_FMN Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO). In green plants, glycolate oxidase is one of the key enzymes in photorespiration where it oxidizes glycolate to glyoxylate. LMO catalyzes the oxidation of L-lactate to acetate and carbon dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate. It is an enzyme in the mandelate pathway that occurs in several strains of Pseudomonas which converts (R)-mandelate to benzoate.
Probab=51.12 E-value=1.4e+02 Score=24.83 Aligned_cols=70 Identities=17% Similarity=0.064 Sum_probs=48.9
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCC-----CCCCHHHHHHHHhcC--CCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHM-----PDMDGFKLLELVGLE--MDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~m-----p~~dG~~l~~~l~~~--~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+.++|....+ .+.|.|.+.-+- .+...++++..++.. ..+|||.-.+-.+...+.+++.+||++...=
T Consensus 180 v~s~~~a~~a~~---~G~d~I~v~~~gG~~~~~g~~~~~~l~~i~~~~~~~ipvia~GGI~~~~d~~kal~lGAd~V~ig 256 (299)
T cd02809 180 ILTPEDALRAVD---AGADGIVVSNHGGRQLDGAPATIDALPEIVAAVGGRIEVLLDGGIRRGTDVLKALALGADAVLIG 256 (299)
T ss_pred cCCHHHHHHHHH---CCCCEEEEcCCCCCCCCCCcCHHHHHHHHHHHhcCCCeEEEeCCCCCHHHHHHHHHcCCCEEEEc
Confidence 456777765554 338888775432 123456677766532 2599998888889999999999999987743
No 418
>TIGR02129 hisA_euk phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase, eukaryotic type. This enzyme acts in the biosynthesis of histidine and has been characterized in S. cerevisiae and Arabidopsis where it complements the E. coli HisA gene. In eukaryotes the gene is known as HIS6. In bacteria, this gene is found in Fibrobacter succinogenes, presumably due to lateral gene transfer from plants in the rumen gut.
Probab=50.96 E-value=1.2e+02 Score=24.81 Aligned_cols=57 Identities=14% Similarity=0.116 Sum_probs=42.4
Q ss_pred HHHHHHHhCCCCceEEEEccCCCCC-CH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHh
Q 027234 13 IALDMLRTNKNGYDIVISDVHMPDM-DG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVT 71 (226)
Q Consensus 13 eal~~l~~~~~~~DlVl~D~~mp~~-dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~ 71 (226)
++++.+.... -.++++|+.--+| .| +++++.+.+..++|||.--+-.+.+...++..
T Consensus 162 e~~~~~~~~~--~~il~TdI~rDGtl~G~dlel~~~l~~~~~ipVIASGGv~s~eDi~~l~~ 221 (253)
T TIGR02129 162 ETLEELSKYC--DEFLIHAADVEGLCKGIDEELVSKLGEWSPIPITYAGGAKSIDDLDLVDE 221 (253)
T ss_pred HHHHHHHhhC--CEEEEeeecccCccccCCHHHHHHHHhhCCCCEEEECCCCCHHHHHHHHH
Confidence 5556665433 5899999987764 55 56778888778899998888888888877644
No 419
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=50.66 E-value=10 Score=22.58 Aligned_cols=23 Identities=17% Similarity=0.209 Sum_probs=19.2
Q ss_pred CC-CHHHHHHHhhhhhhhhhcccC
Q 027234 189 GL-TRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 189 ~l-t~~~va~~l~~~r~~l~r~~~ 211 (226)
.+ |..++|+++++||..++|..+
T Consensus 19 ~l~s~~~la~~~~vs~~tv~~~l~ 42 (60)
T smart00345 19 KLPSERELAAQLGVSRTTVREALS 42 (60)
T ss_pred cCcCHHHHHHHHCCCHHHHHHHHH
Confidence 46 899999999999998887544
No 420
>cd04949 GT1_gtfA_like This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltra
Probab=50.57 E-value=1.2e+02 Score=25.42 Aligned_cols=58 Identities=21% Similarity=0.228 Sum_probs=39.6
Q ss_pred CCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHH
Q 027234 36 DMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 36 ~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~~~ 98 (226)
+.-|+.+++.+. ..+|||....... ....+..|..|++..|-+.++|...+..++...
T Consensus 289 Eg~~~~~lEAma--~G~PvI~~~~~~g---~~~~v~~~~~G~lv~~~d~~~la~~i~~ll~~~ 346 (372)
T cd04949 289 EGFGLSLMEALS--HGLPVISYDVNYG---PSEIIEDGENGYLVPKGDIEALAEAIIELLNDP 346 (372)
T ss_pred cccChHHHHHHh--CCCCEEEecCCCC---cHHHcccCCCceEeCCCcHHHHHHHHHHHHcCH
Confidence 344565666553 5678876432211 223456688999999999999999999988654
No 421
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=50.48 E-value=8.6 Score=24.50 Aligned_cols=21 Identities=24% Similarity=0.184 Sum_probs=18.2
Q ss_pred CHHHHHHHhhhhhhhhhcccC
Q 027234 191 TRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 191 t~~~va~~l~~~r~~l~r~~~ 211 (226)
|..+||.++++|+..++|++.
T Consensus 2 t~~~iA~~~gvS~~TVSr~ln 22 (70)
T smart00354 2 TIKDVARLAGVSKATVSRVLN 22 (70)
T ss_pred CHHHHHHHHCCCHHHHHHHHC
Confidence 678999999999999998753
No 422
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=50.30 E-value=80 Score=26.34 Aligned_cols=68 Identities=15% Similarity=0.235 Sum_probs=50.2
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCC-------CCCCHHHHHHHHhcCCCCcEEEEeccC-CHHHHHHHHhCCcceEE
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHM-------PDMDGFKLLELVGLEMDLPVIMMCAHG-SKEVVMKGVTHDACDYL 78 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~m-------p~~dG~~l~~~l~~~~~~pvI~ls~~~-~~~~~~~a~~~ga~~yl 78 (226)
.+++++|.++++... +|.+=+.+.- |+. -++.++.|+...++|+++=-+.. ..+...++++.|+...=
T Consensus 152 ~T~pe~a~~Fv~~Tg--vD~LAvaiGt~HG~Y~~p~l-~~~~l~~I~~~~~vPLVlHGgSG~~~e~~~~ai~~Gi~KiN 227 (283)
T PRK07998 152 KTEPEKVKDFVERTG--CDMLAVSIGNVHGLEDIPRI-DIPLLKRIAEVSPVPLVIHGGSGIPPEILRSFVNYKVAKVN 227 (283)
T ss_pred cCCHHHHHHHHHHhC--cCeeehhccccccCCCCCCc-CHHHHHHHHhhCCCCEEEeCCCCCCHHHHHHHHHcCCcEEE
Confidence 579999999999865 9988777732 332 25888888866789988765444 44678889999987654
No 423
>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=50.17 E-value=20 Score=26.82 Aligned_cols=32 Identities=13% Similarity=0.140 Sum_probs=25.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|......-|+|..++|..+++|+.++.++-+
T Consensus 29 ~Ir~~R~~lGmTq~eLAerlGVS~~tIs~iE~ 60 (150)
T TIGR02612 29 WVRAIRKALGMSGAQLAGRLGVTPQRVEALEK 60 (150)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHc
Confidence 56666667799999999999999999888643
No 424
>COG2169 Ada Adenosine deaminase [Nucleotide transport and metabolism]
Probab=49.74 E-value=8.4 Score=29.92 Aligned_cols=29 Identities=24% Similarity=0.028 Sum_probs=24.8
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
|.++ .+..+.+.+|+.|++|-.|+.|+||
T Consensus 91 ie~~--~~~~~le~la~~lg~sp~~~~R~FK 119 (187)
T COG2169 91 IEQN--PEKRWLEELADELGVSPSTLHRLFK 119 (187)
T ss_pred HHcC--CCcccHHHHHHHhCCChHHHHHHHH
Confidence 5555 6689999999999999999999765
No 425
>PRK05742 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=49.60 E-value=1.5e+02 Score=24.61 Aligned_cols=65 Identities=9% Similarity=-0.045 Sum_probs=43.8
Q ss_pred EEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHH-h-cCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 6 TKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELV-G-LEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 6 ~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l-~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.++.+.+++.+.+.. .+|.|.+|-. |.+.++.+ + ..+.+|+. .++.-+.+.+......|++.+-.
T Consensus 194 VEv~tleea~eA~~~---gaD~I~LD~~-----~~e~l~~~v~~~~~~i~le-AsGGIt~~ni~~~a~tGvD~Isv 260 (277)
T PRK05742 194 VEVESLDELRQALAA---GADIVMLDEL-----SLDDMREAVRLTAGRAKLE-ASGGINESTLRVIAETGVDYISI 260 (277)
T ss_pred EEeCCHHHHHHHHHc---CCCEEEECCC-----CHHHHHHHHHHhCCCCcEE-EECCCCHHHHHHHHHcCCCEEEE
Confidence 467889999888864 3899999832 33344433 2 12456654 66667788888888999987653
No 426
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=49.54 E-value=81 Score=30.60 Aligned_cols=72 Identities=22% Similarity=0.340 Sum_probs=48.0
Q ss_pred CceEEEEc-cCCCCCCHHHH-HHHHhcCC-CCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHH
Q 027234 24 GYDIVISD-VHMPDMDGFKL-LELVGLEM-DLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 24 ~~DlVl~D-~~mp~~dG~~l-~~~l~~~~-~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~~ 97 (226)
.+.|+|+| .+|-...+... ++.|.+-+ .+-+|++| .+.+.+...+..-+.-|-.++++.++|...|.+++..
T Consensus 120 ~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~t--t~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~ 194 (824)
T PRK07764 120 RYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFAT--TEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQ 194 (824)
T ss_pred CceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEe--CChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHH
Confidence 36788877 55555566554 45555433 34445555 4455566777777788888999999999888887643
No 427
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=49.53 E-value=11 Score=23.26 Aligned_cols=21 Identities=19% Similarity=0.218 Sum_probs=18.5
Q ss_pred CCCCHHHHHHHhhhhhhhhhc
Q 027234 188 PGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 188 ~~lt~~~va~~l~~~r~~l~r 208 (226)
.|.+..+||.+|+++++.+|.
T Consensus 12 ~G~~~~eIA~~Lg~~~~TV~~ 32 (58)
T PF06056_consen 12 QGWSIKEIAEELGVPRSTVYS 32 (58)
T ss_pred cCCCHHHHHHHHCCChHHHHH
Confidence 399999999999999988774
No 428
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=49.52 E-value=5.5 Score=25.03 Aligned_cols=20 Identities=15% Similarity=0.042 Sum_probs=15.1
Q ss_pred CCCCHHHHHHHhhhhhhhhh
Q 027234 188 PGLTRENVASHLQKHRLYLS 207 (226)
Q Consensus 188 ~~lt~~~va~~l~~~r~~l~ 207 (226)
.+++..+||+.+++|+.+.+
T Consensus 14 ~p~~T~eiA~~~gls~~~aR 33 (62)
T PF04703_consen 14 GPLKTREIADALGLSIYQAR 33 (62)
T ss_dssp S-EEHHHHHHHHTS-HHHHH
T ss_pred CCCCHHHHHHHhCCCHHHHH
Confidence 47999999999999987543
No 429
>smart00426 TEA TEA domain.
Probab=49.52 E-value=16 Score=23.37 Aligned_cols=17 Identities=35% Similarity=0.651 Sum_probs=11.8
Q ss_pred eeeHhhHHHHHHHHHHh
Q 027234 155 VWSVELHQQFVSAVKEL 171 (226)
Q Consensus 155 ~~~~~l~~~Fi~~~~~~ 171 (226)
.|..++.+.|++++...
T Consensus 5 vWp~~lE~Af~~aL~~~ 21 (68)
T smart00426 5 VWSPDIEQAFQEALAIY 21 (68)
T ss_pred cCcHHHHHHHHHHHHHc
Confidence 46667777787777654
No 430
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=49.51 E-value=7 Score=29.85 Aligned_cols=24 Identities=25% Similarity=0.448 Sum_probs=21.2
Q ss_pred CCCHHHHHHHhhhhhhhhhcccCC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.+|+++||+.++.+|..+.|..+-
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~ 166 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGD 166 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHH
Confidence 689999999999999999996543
No 431
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=49.23 E-value=1.5e+02 Score=24.53 Aligned_cols=82 Identities=12% Similarity=0.289 Sum_probs=51.5
Q ss_pred HHHHHHHhCCCCceEEEEccCCCCC-----CHHHH--HHHHhcCCCCcEEEE-eccCCH-----HHHHHHHhCCcceEEe
Q 027234 13 IALDMLRTNKNGYDIVISDVHMPDM-----DGFKL--LELVGLEMDLPVIMM-CAHGSK-----EVVMKGVTHDACDYLT 79 (226)
Q Consensus 13 eal~~l~~~~~~~DlVl~D~~mp~~-----dG~~l--~~~l~~~~~~pvI~l-s~~~~~-----~~~~~a~~~ga~~yl~ 79 (226)
.|-+++-++ ..+++|||.-..-.. +-+++ .-.+++..++|||+= |..... .....|+..|||+.+.
T Consensus 170 ~AAEYI~s~-GN~~vILCERGIRtfe~~TRntLDi~aV~~~kq~THLPVivDpSH~~Grr~lv~pla~AA~AaGAdglmi 248 (286)
T COG2876 170 NAAEYILSH-GNGNVILCERGIRTFEKATRNTLDISAVPILKQETHLPVIVDPSHATGRRDLVEPLAKAAIAAGADGLMI 248 (286)
T ss_pred HHHHHHHhC-CCCcEEEEecccccccccccceechHHHHHHHhhcCCCEEECCCCcccchhhHHHHHHHHHhccCCeeEE
Confidence 355677655 458999998654332 22333 345566678999983 332222 3456788999999883
Q ss_pred ----CC----------CCHHHHHHHHHHHH
Q 027234 80 ----KP----------VRIEELKNIWQHVV 95 (226)
Q Consensus 80 ----KP----------~~~~~L~~~l~~~~ 95 (226)
+| ++++++...++.+.
T Consensus 249 EVHp~P~~AlsD~~Qql~~~~f~~l~~~~~ 278 (286)
T COG2876 249 EVHPDPEKALSDAKQQLTPEEFEELVKELR 278 (286)
T ss_pred EecCCcccccCcccccCCHHHHHHHHHHHH
Confidence 33 66777766666553
No 432
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=49.12 E-value=1e+02 Score=25.93 Aligned_cols=63 Identities=14% Similarity=0.140 Sum_probs=43.4
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
....+.++.+.+.. +++|.+....|. +++++++.. .++++.. ..+.+....+.+.|+|..+..
T Consensus 74 ~~~~~~~~~~~~~~--v~~v~~~~g~p~----~~i~~lk~~-g~~v~~~--v~s~~~a~~a~~~GaD~Ivv~ 136 (307)
T TIGR03151 74 PFVDELVDLVIEEK--VPVVTTGAGNPG----KYIPRLKEN-GVKVIPV--VASVALAKRMEKAGADAVIAE 136 (307)
T ss_pred CCHHHHHHHHHhCC--CCEEEEcCCCcH----HHHHHHHHc-CCEEEEE--cCCHHHHHHHHHcCCCEEEEE
Confidence 35566777776655 899998766653 577777643 4555443 245677888999999988863
No 433
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=49.04 E-value=42 Score=28.37 Aligned_cols=65 Identities=20% Similarity=0.220 Sum_probs=48.1
Q ss_pred CCHHHHHHHHHhC-CCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcce
Q 027234 9 NRAEIALDMLRTN-KNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 9 ~~~~eal~~l~~~-~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
.|..||+..+... ..+-|+|++= |++-=+++++.++...++|+..+-...+..-+..|-+.|..|
T Consensus 226 ~n~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~~lPvaaYqVSGEYaMikaAa~~G~~d 291 (322)
T PRK13384 226 ANGRQALLEALLDEAEGADILMVK---PGTPYLDVLSRLRQETHLPLAAYQVGGEYAMIKFAALAGALD 291 (322)
T ss_pred CCHHHHHHHHHhhHhhCCCEEEEc---CCchHHHHHHHHHhccCCCEEEEEchHHHHHHHHHHHcCCcc
Confidence 4677887665432 2457998876 788888999999988899999987766666666677777654
No 434
>PRK06424 transcription factor; Provisional
Probab=49.00 E-value=23 Score=26.37 Aligned_cols=32 Identities=3% Similarity=0.145 Sum_probs=27.2
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.|.+.+..-++|++++|..++++++++.++-.
T Consensus 88 ~Ir~lRe~~GLSQ~eLA~~iGvs~stIskiE~ 119 (144)
T PRK06424 88 LVKNARERLSMSQADLAAKIFERKNVIASIER 119 (144)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHC
Confidence 46667777899999999999999999988744
No 435
>cd02809 alpha_hydroxyacid_oxid_FMN Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO). In green plants, glycolate oxidase is one of the key enzymes in photorespiration where it oxidizes glycolate to glyoxylate. LMO catalyzes the oxidation of L-lactate to acetate and carbon dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate. It is an enzyme in the mandelate pathway that occurs in several strains of Pseudomonas which converts (R)-mandelate to benzoate.
Probab=48.99 E-value=1.2e+02 Score=25.30 Aligned_cols=64 Identities=16% Similarity=0.144 Sum_probs=44.4
Q ss_pred HHHHHHHhCCCCceEEEEccCCCCC---CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 13 IALDMLRTNKNGYDIVISDVHMPDM---DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 13 eal~~l~~~~~~~DlVl~D~~mp~~---dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
++++.+.... +|.|.+.+.-|.. ...+.++.++....+||++=. ....+.+..+.+.|++....
T Consensus 133 ~~i~~~~~~g--~~~i~l~~~~p~~~~~~~~~~i~~l~~~~~~pvivK~-v~s~~~a~~a~~~G~d~I~v 199 (299)
T cd02809 133 DLLRRAEAAG--YKALVLTVDTPVLGRRLTWDDLAWLRSQWKGPLILKG-ILTPEDALRAVDAGADGIVV 199 (299)
T ss_pred HHHHHHHHcC--CCEEEEecCCCCCCCCCCHHHHHHHHHhcCCCEEEee-cCCHHHHHHHHHCCCCEEEE
Confidence 3444445444 8999988887752 125677888766568887642 25567889999999998876
No 436
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=48.90 E-value=32 Score=20.76 Aligned_cols=19 Identities=16% Similarity=0.202 Sum_probs=16.4
Q ss_pred CHHHHHHHhhhhhhhhhcc
Q 027234 191 TRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 191 t~~~va~~l~~~r~~l~r~ 209 (226)
+..++|++++.||..+++.
T Consensus 27 ~~~~la~~~~is~~~v~~~ 45 (66)
T cd07377 27 SERELAEELGVSRTTVREA 45 (66)
T ss_pred CHHHHHHHHCCCHHHHHHH
Confidence 5899999999999987763
No 437
>cd04736 MDH_FMN Mandelate dehydrogenase (MDH)-like FMN-binding domain. MDH is part of a widespread family of homologous FMN-dependent a-hydroxy acid oxidizing enzymes that oxidizes (S)-mandelate to phenylglyoxalate. MDH is an enzyme in the mandelate pathway that occurs in several strains of Pseudomonas which converts (R)-mandelate to benzoate. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO).
Probab=48.86 E-value=1.2e+02 Score=26.19 Aligned_cols=69 Identities=22% Similarity=0.143 Sum_probs=49.1
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccC-CCCCC----HHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVH-MPDMD----GFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~-mp~~d----G~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
+-+.++|...+.. ++|.|++--+ -...| .++.+..+.....+|||+=.+-.....+.+|+.+||+....
T Consensus 244 V~~~eda~~a~~~---G~d~I~VSnhGGrqld~~~~~~~~L~ei~~~~~~~vi~dGGIr~g~Dv~KALaLGA~aV~i 317 (361)
T cd04736 244 IVTAEDAKRCIEL---GADGVILSNHGGRQLDDAIAPIEALAEIVAATYKPVLIDSGIRRGSDIVKALALGANAVLL 317 (361)
T ss_pred CCCHHHHHHHHHC---CcCEEEECCCCcCCCcCCccHHHHHHHHHHHhCCeEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence 4577888877763 3777764432 22233 37777777654468988888888899999999999998764
No 438
>PF05043 Mga: Mga helix-turn-helix domain; InterPro: IPR007737 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions []. The family also contains VirR like proteins which match only at the C terminus of the alignment.; PDB: 3SQN_A.
Probab=48.68 E-value=8.4 Score=25.55 Aligned_cols=29 Identities=24% Similarity=0.111 Sum_probs=21.2
Q ss_pred HHhhCCCCCCHHHHHHHhhhhhhhhhccc
Q 027234 182 LELMNIPGLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 182 ~~~~~~~~lt~~~va~~l~~~r~~l~r~~ 210 (226)
...+..+..+.+++|..+.+|++.++|..
T Consensus 23 ~~ll~~~~~s~~~la~~~~iS~sti~~~i 51 (87)
T PF05043_consen 23 KLLLNNEYVSIEDLAEELFISRSTIYRDI 51 (87)
T ss_dssp HHHHH-SEEEHHHHHHHHT--HHHHHHHH
T ss_pred HHHHcCCCcCHHHHHHHHCCCHHHHHHHH
Confidence 34556779999999999999999988743
No 439
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=48.66 E-value=7.1 Score=30.11 Aligned_cols=23 Identities=17% Similarity=0.255 Sum_probs=20.5
Q ss_pred CCCHHHHHHHhhhhhhhhhcccC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.+|+++||+.+|++|..+.|+.+
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~ 171 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIG 171 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHH
Confidence 68999999999999999998543
No 440
>cd03820 GT1_amsD_like This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be responsible for the formation of galactose alpha-1,6 linkages in amylovoran.
Probab=48.65 E-value=1.4e+02 Score=23.95 Aligned_cols=68 Identities=16% Similarity=0.168 Sum_probs=43.5
Q ss_pred ceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVRKR 98 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~~~ 98 (226)
.|+++.-... +.-|..+++.+. ..+|+|+.......+. ....+..+++.++.+.+++...+..++...
T Consensus 253 ad~~i~ps~~-e~~~~~~~Ea~a--~G~Pvi~~~~~~~~~~---~~~~~~~g~~~~~~~~~~~~~~i~~ll~~~ 320 (348)
T cd03820 253 ASIFVLTSRF-EGFPMVLLEAMA--FGLPVISFDCPTGPSE---IIEDGVNGLLVPNGDVEALAEALLRLMEDE 320 (348)
T ss_pred CCEEEeCccc-cccCHHHHHHHH--cCCCEEEecCCCchHh---hhccCcceEEeCCCCHHHHHHHHHHHHcCH
Confidence 5676665433 223555666654 4678775432233332 345566899999999999999999987543
No 441
>cd02922 FCB2_FMN Flavocytochrome b2 (FCB2) FMN-binding domain. FCB2 (AKA L-lactate:cytochrome c oxidoreductase) is a respiratory enzyme located in the intermembrane space of fungal mitochondria which catalyzes the oxidation of L-lactate to pyruvate. FCB2 also participates in a short electron-transport chain involving cytochrome c and cytochrome oxidase which ultimately directs the reducing equivalents gained from L-lactate oxidation to oxygen, yielding one molecule of ATP for every L-lactate molecule consumed. FCB2 is composed of 2 domains: a C-terminal flavin-binding domain, which includes the active site for lacate oxidation, and an N-terminal b2-cytochrome domain, required for efficient cytochrome c reduction. FCB2 is a homotetramer and contains two noncovalently bound cofactors, FMN and heme per subunit.
Probab=48.63 E-value=1.3e+02 Score=25.94 Aligned_cols=39 Identities=8% Similarity=0.092 Sum_probs=28.9
Q ss_pred HHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 41 KLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 41 ~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+++++....+|||+=.. ...+.+..+.+.|+++.+.-
T Consensus 203 ~~i~~l~~~~~~PvivKgv-~~~~dA~~a~~~G~d~I~vs 241 (344)
T cd02922 203 DDIKWLRKHTKLPIVLKGV-QTVEDAVLAAEYGVDGIVLS 241 (344)
T ss_pred HHHHHHHHhcCCcEEEEcC-CCHHHHHHHHHcCCCEEEEE
Confidence 4455666556789887644 56888999999999998743
No 442
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=48.48 E-value=1.1e+02 Score=25.70 Aligned_cols=68 Identities=12% Similarity=0.180 Sum_probs=49.9
Q ss_pred CCHHHHHHHHHhCCCCceEEEEccC-----CCC---CCHHHHHHHHhcCC-CCcEEEEecc-CCHHHHHHHHhCCcceEE
Q 027234 9 NRAEIALDMLRTNKNGYDIVISDVH-----MPD---MDGFKLLELVGLEM-DLPVIMMCAH-GSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 9 ~~~~eal~~l~~~~~~~DlVl~D~~-----mp~---~dG~~l~~~l~~~~-~~pvI~ls~~-~~~~~~~~a~~~ga~~yl 78 (226)
++.++|.++.+ .. +|.+-+-+. -+. .=+++.++.|+... ++|+++.-+. ...+...++++.|+...=
T Consensus 154 t~peea~~f~~-tg--vD~LAv~iG~vHG~y~t~~k~l~~e~L~~i~~~~~~iPlVlhGGSGi~~e~~~~~i~~Gi~KiN 230 (293)
T PRK07315 154 APIEDAKAMVE-TG--IDFLAAGIGNIHGPYPENWEGLDLDHLEKLTEAVPGFPIVLHGGSGIPDDQIQEAIKLGVAKVN 230 (293)
T ss_pred CCHHHHHHHHH-cC--CCEEeeccccccccCCCCCCcCCHHHHHHHHHhccCCCEEEECCCCCCHHHHHHHHHcCCCEEE
Confidence 79999999984 33 898887732 222 24688999998655 5999877653 356778889999998765
Q ss_pred e
Q 027234 79 T 79 (226)
Q Consensus 79 ~ 79 (226)
.
T Consensus 231 v 231 (293)
T PRK07315 231 V 231 (293)
T ss_pred E
Confidence 4
No 443
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=48.18 E-value=1.5e+02 Score=24.20 Aligned_cols=74 Identities=16% Similarity=0.111 Sum_probs=49.1
Q ss_pred CcE-EEEECCHHHHHHHHHhCCCCceEEEEccC---CCCCCHHHHHHHHh-cCC-CCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 2 GFS-VTKCNRAEIALDMLRTNKNGYDIVISDVH---MPDMDGFKLLELVG-LEM-DLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 2 g~~-V~~~~~~~eal~~l~~~~~~~DlVl~D~~---mp~~dG~~l~~~l~-~~~-~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
|.+ +..+.+.+|+...... ++|+|-+.-. ....| ++....+. ..+ ..++|..++-.+.+.+..+...|++
T Consensus 160 Gl~~lvevh~~~E~~~A~~~---gadiIgin~rdl~~~~~d-~~~~~~l~~~~p~~~~vIaegGI~t~ed~~~~~~~Gad 235 (260)
T PRK00278 160 GLDVLVEVHDEEELERALKL---GAPLIGINNRNLKTFEVD-LETTERLAPLIPSDRLVVSESGIFTPEDLKRLAKAGAD 235 (260)
T ss_pred CCeEEEEeCCHHHHHHHHHc---CCCEEEECCCCcccccCC-HHHHHHHHHhCCCCCEEEEEeCCCCHHHHHHHHHcCCC
Confidence 444 3467788888665542 3788765421 11223 55555554 334 3588889999999999999999999
Q ss_pred eEEe
Q 027234 76 DYLT 79 (226)
Q Consensus 76 ~yl~ 79 (226)
+++.
T Consensus 236 ~vlV 239 (260)
T PRK00278 236 AVLV 239 (260)
T ss_pred EEEE
Confidence 9874
No 444
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=48.15 E-value=30 Score=29.61 Aligned_cols=49 Identities=24% Similarity=0.392 Sum_probs=33.2
Q ss_pred CcEEEEECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEec
Q 027234 2 GFSVTKCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCA 59 (226)
Q Consensus 2 g~~V~~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~ 59 (226)
+..|.++.+..+|...+.....++|+||+| ||++- .+-..++-|+++-+
T Consensus 127 ~~~V~V~~dR~~aa~~l~~~~~~~dviIlD------DGfQH---~~L~RDleIvl~D~ 175 (338)
T PRK01906 127 DAPVWVCPDRVAAAQALLAAHPGVDVIVSD------DGLQH---YRLARDVEIVVFDH 175 (338)
T ss_pred CCeEEEeCcHHHHHHHHHHhCCCCCEEEEC------CCCcc---chhcCCcEEEEEcC
Confidence 456888999999877665432348999999 77642 22334677777754
No 445
>PF04358 DsrC: DsrC like protein; InterPro: IPR007453 DsrC (P45573 from SWISSPROT) has been observed to co-purify with Desulphovibrio vulgaris dissimilatory sulphite reductase []. However, DsrC appears to be only loosely associated to the sulphite reductase, which suggests that it may not be an integral part of the dissimilatory sulphite reductase. Many proteins in this entry are found in organisms such as Escherichia coli and Haemophilus influenzae which do not contain dissimilatory sulphite reductases but can synthesise assimilatory sirohaem sulphite and nitrite reductases. It is speculated that DsrC may be involved in the assembly, folding or stabilisation of sirohaem proteins []. The strictly conserved cysteine in the C terminus suggests that DsrC may have a catalytic function in the metabolism of sulphur compounds []. Also included in this entry is TusE, a partner to TusBCD in a sulphur relay system for 2-thiouridine biosynthesis, a tRNA base modification process. Many proteins in this entry are annotated as the third (gamma) subunit of dissimilatory sulphite reductase ; PDB: 2V4J_F 2A5W_C 1SAU_A 1JI8_A 1YX3_A.
Probab=48.06 E-value=45 Score=23.53 Aligned_cols=44 Identities=14% Similarity=0.086 Sum_probs=31.7
Q ss_pred HhhHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhh-------hhhhhcccCC
Q 027234 158 VELHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKH-------RLYLSRLSGV 212 (226)
Q Consensus 158 ~~l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~-------r~~l~r~~~~ 212 (226)
++-|.+.|..+.. ...++=. --++..++..+++. +.|||++|..
T Consensus 40 td~HW~vI~flR~---------~y~~~~~--~P~~R~l~K~~~~~~g~~~~~~k~L~~LFP~ 90 (109)
T PF04358_consen 40 TDEHWEVIRFLRD---------YYQEYGV--SPAIRMLIKALGEDLGEDKGNSKYLYQLFPG 90 (109)
T ss_dssp -HHHHHHHHHHHH---------HHHHHSS-----HHHHHHHHHHHCSTT---HHHHHHHSTT
T ss_pred CHHHHHHHHHHHH---------HHHHHCC--CCcHHHHHHHHhhhcCCCchhHHHHHHHcCC
Confidence 5778888888877 4444422 34788999999999 9999999974
No 446
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=48.00 E-value=14 Score=30.16 Aligned_cols=28 Identities=21% Similarity=0.164 Sum_probs=22.0
Q ss_pred CCHHHHHHHhhhhhhhhhcccCC-CCCCC
Q 027234 190 LTRENVASHLQKHRLYLSRLSGV-SPQQG 217 (226)
Q Consensus 190 lt~~~va~~l~~~r~~l~r~~~~-~~~~~ 217 (226)
.+.+.+|++.++|+.||.|+|+- +++.+
T Consensus 189 ~~l~~lA~~~~~s~~~l~r~fk~~~G~t~ 217 (278)
T PRK10296 189 SALENMVRLSGKSQEYLTRATRRYYGKTP 217 (278)
T ss_pred hhHHHHHHHhCCCHHHHHHHHHHHHCcCH
Confidence 47899999999999999997753 34443
No 447
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=47.89 E-value=85 Score=26.48 Aligned_cols=64 Identities=19% Similarity=0.306 Sum_probs=47.4
Q ss_pred CCHHHHHHHHHhC-CCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 9 NRAEIALDMLRTN-KNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 9 ~~~~eal~~l~~~-~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
.|..||+..+... ..+-|+|++= |.+-=+++++.++...++|+.......+..-...|.+.|-.
T Consensus 230 aN~~EAlrE~~lD~~EGAD~lMVK---Pal~YLDIi~~vk~~~~lP~~AYqVSGEYaMikAAa~nGwi 294 (330)
T COG0113 230 ANRREALREIELDIEEGADILMVK---PALPYLDIIRRVKEEFNLPVAAYQVSGEYAMIKAAAQNGWI 294 (330)
T ss_pred cCHHHHHHHHHhhHhcCCcEEEEc---CCchHHHHHHHHHHhcCCCeEEEecchHHHHHHHHHHcCCc
Confidence 4678888766532 2447888876 77778889999998888999998877777666666666654
No 448
>PRK14994 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional
Probab=47.87 E-value=1.5e+02 Score=24.75 Aligned_cols=51 Identities=12% Similarity=0.176 Sum_probs=35.8
Q ss_pred ceEEEE-ccCCCCC--CHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcce
Q 027234 25 YDIVIS-DVHMPDM--DGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 25 ~DlVl~-D~~mp~~--dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
-+++++ |..+|.. .|..+.+.++.. +++|.++.+-+....+..+.......
T Consensus 85 ~~ValvSdaGdP~I~dpg~~Lv~~~~~~-gi~v~vIPGiSA~~aA~a~sG~~~~~ 138 (287)
T PRK14994 85 QNIALVSDAGTPLINDPGYHLVRTCREA-GIRVVPLPGPCAAITALSAAGLPSDR 138 (287)
T ss_pred CeEEEEccCCCCceeCCHHHHHHHHHHC-CCCEEEeCCHHHHHHHHHHcCCCCCc
Confidence 577776 9999984 588888888753 78888888876665555554443333
No 449
>PLN02591 tryptophan synthase
Probab=47.74 E-value=47 Score=27.16 Aligned_cols=42 Identities=17% Similarity=0.024 Sum_probs=34.9
Q ss_pred HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCC
Q 027234 40 FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKP 81 (226)
Q Consensus 40 ~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP 81 (226)
.++++.+++..++|+++=.+-.+.+.+.+..+.|||+.+.-.
T Consensus 178 ~~~i~~vk~~~~~Pv~vGFGI~~~e~v~~~~~~GADGvIVGS 219 (250)
T PLN02591 178 ESLLQELKEVTDKPVAVGFGISKPEHAKQIAGWGADGVIVGS 219 (250)
T ss_pred HHHHHHHHhcCCCceEEeCCCCCHHHHHHHHhcCCCEEEECH
Confidence 445777777788999987777789999999999999999764
No 450
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=47.40 E-value=16 Score=21.43 Aligned_cols=21 Identities=19% Similarity=0.184 Sum_probs=17.5
Q ss_pred CCCCHHHHHHHhhhhhhhhhc
Q 027234 188 PGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 188 ~~lt~~~va~~l~~~r~~l~r 208 (226)
.+.+..+||..+++++..+++
T Consensus 14 ~~~s~~eia~~l~~s~~tv~~ 34 (57)
T cd06170 14 EGKTNKEIADILGISEKTVKT 34 (57)
T ss_pred cCCCHHHHHHHHCCCHHHHHH
Confidence 588999999999998886554
No 451
>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]
Probab=47.35 E-value=3.2 Score=33.89 Aligned_cols=55 Identities=18% Similarity=0.068 Sum_probs=0.0
Q ss_pred ccccCCCCCCccchHHHHHHhccCCceeeeHhhHHHHHHHHHHhCCCCCCchHHHHh
Q 027234 128 YSVNEGTSNSRKDEEEEAEKRLKKPRLVWSVELHQQFVSAVKELGFDKAGPKKILEL 184 (226)
Q Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Fi~~~~~~g~~~~~p~~I~~~ 184 (226)
+.++.....++...+.|++.||.+|..+ ...|..|++.+++.|+....-..+++.
T Consensus 20 ~yQPiv~~~~~~~~g~EaL~R~~~~~~g--~i~p~~Fi~~aE~~gli~~l~~~v~~~ 74 (256)
T COG2200 20 YYQPIVDLATGRIVGYEALLRWRHPDGG--LISPGEFIPLAEETGLIVELGRWVLEE 74 (256)
T ss_pred EecceEEcCCCCEEEEEEEEeecCCCCC--cCCHHHHHHHHHHcCCHHHHHHHHHHH
No 452
>PRK15484 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional
Probab=47.34 E-value=1.6e+02 Score=25.19 Aligned_cols=67 Identities=15% Similarity=0.249 Sum_probs=41.2
Q ss_pred ceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceE-EeCCCCHHHHHHHHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDY-LTKPVRIEELKNIWQHVVRK 97 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y-l~KP~~~~~L~~~l~~~~~~ 97 (226)
.|+.++=-...+.-|+.+++.+. ..+|||.... .. ..+.+..|..|| +..|.++++|...+.+++..
T Consensus 277 aDv~v~pS~~~E~f~~~~lEAma--~G~PVI~s~~-gg---~~Eiv~~~~~G~~l~~~~d~~~la~~I~~ll~d 344 (380)
T PRK15484 277 ADLVVVPSQVEEAFCMVAVEAMA--AGKPVLASTK-GG---ITEFVLEGITGYHLAEPMTSDSIISDINRTLAD 344 (380)
T ss_pred CCEEEeCCCCccccccHHHHHHH--cCCCEEEeCC-CC---cHhhcccCCceEEEeCCCCHHHHHHHHHHHHcC
Confidence 46665532222333455555543 4678875433 32 223455678888 56799999999999998754
No 453
>KOG3040 consensus Predicted sugar phosphatase (HAD superfamily) [General function prediction only]
Probab=47.30 E-value=38 Score=27.08 Aligned_cols=53 Identities=23% Similarity=0.330 Sum_probs=38.9
Q ss_pred CCcEEE---EECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 027234 1 MGFSVT---KCNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMC 58 (226)
Q Consensus 1 lg~~V~---~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls 58 (226)
+||+|. ..++...|.++++++...|-+++-|--|++.+|++. +.|+.-||-+.
T Consensus 63 lgf~v~eeei~tsl~aa~~~~~~~~lrP~l~v~d~a~~dF~gidT-----s~pn~VVigla 118 (262)
T KOG3040|consen 63 LGFDVSEEEIFTSLPAARQYLEENQLRPYLIVDDDALEDFDGIDT-----SDPNCVVIGLA 118 (262)
T ss_pred hCCCccHHHhcCccHHHHHHHHhcCCCceEEEcccchhhCCCccC-----CCCCeEEEecC
Confidence 466664 466778888999887777999999999999999752 45665555443
No 454
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=47.22 E-value=71 Score=25.46 Aligned_cols=62 Identities=21% Similarity=0.219 Sum_probs=43.4
Q ss_pred HHHHhCCCCceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 16 DMLRTNKNGYDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 16 ~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+.+++.. ||.|+.=--.|..-|-.-.|.+-+..+.|.|+++.-... ...+.++-.-.|||.-
T Consensus 54 ~~~e~~~--pDfvi~isPNpaaPGP~kARE~l~~s~~PaiiigDaPg~-~vkdeleeqGlGYIiv 115 (277)
T COG1927 54 EMLEEFN--PDFVIYISPNPAAPGPKKAREILSDSDVPAIIIGDAPGL-KVKDELEEQGLGYIIV 115 (277)
T ss_pred HHHHhcC--CCEEEEeCCCCCCCCchHHHHHHhhcCCCEEEecCCccc-hhHHHHHhcCCeEEEe
Confidence 5666666 999988766677888888888766778999999876533 3444555555566643
No 455
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=47.04 E-value=7.7 Score=23.27 Aligned_cols=28 Identities=18% Similarity=0.215 Sum_probs=23.2
Q ss_pred HhhCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 183 ELMNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 183 ~~~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
..+.- +++.+++|...++|++..+|+|.
T Consensus 14 ~~LR~-~~~~~~La~~FgIs~stvsri~~ 41 (53)
T PF13613_consen 14 MYLRL-NLTFQDLAYRFGISQSTVSRIFH 41 (53)
T ss_pred HHHHc-CCcHhHHhhheeecHHHHHHHHH
Confidence 33444 89999999999999999998764
No 456
>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=46.96 E-value=16 Score=25.98 Aligned_cols=23 Identities=22% Similarity=0.140 Sum_probs=19.9
Q ss_pred CCCCCHHHHHHHhhhhhhhhhcc
Q 027234 187 IPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|++|..++|.+|++|.+.+++.
T Consensus 69 ~pd~tl~Ela~~l~Vs~~ti~~~ 91 (119)
T PF01710_consen 69 NPDATLRELAERLGVSPSTIWRA 91 (119)
T ss_pred CCCcCHHHHHHHcCCCHHHHHHH
Confidence 78999999999999999876653
No 457
>cd02911 arch_FMN Archeal FMN-binding domain. This family of archaeal proteins are part of the NAD(P)H-dependent flavin oxidoreductase (oxidored) FMN-binding family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN. The specific function of this group is unknown.
Probab=46.94 E-value=1.5e+02 Score=23.80 Aligned_cols=65 Identities=15% Similarity=0.064 Sum_probs=46.0
Q ss_pred CHHHHHHHHHhCCCCceEEEEccCCCC-CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVHMPD-MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~mp~-~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+..+..+.+.... .|.+-.+-..++ .--++.++.++ .++|||..-+-.+.+.+.+.+..||++..
T Consensus 153 ~~~~la~~l~~aG--~d~ihv~~~~~g~~ad~~~I~~i~--~~ipVIgnGgI~s~eda~~~l~~GaD~Vm 218 (233)
T cd02911 153 DDEELARLIEKAG--ADIIHVDAMDPGNHADLKKIRDIS--TELFIIGNNSVTTIESAKEMFSYGADMVS 218 (233)
T ss_pred CHHHHHHHHHHhC--CCEEEECcCCCCCCCcHHHHHHhc--CCCEEEEECCcCCHHHHHHHHHcCCCEEE
Confidence 4555556666543 888777765554 22356666665 57899988888889999999999988765
No 458
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=46.87 E-value=12 Score=21.25 Aligned_cols=22 Identities=36% Similarity=0.333 Sum_probs=18.7
Q ss_pred CCCHHHHHHHhhhhhhhhhccc
Q 027234 189 GLTRENVASHLQKHRLYLSRLS 210 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~ 210 (226)
.++..++|+.+++++..++|..
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l 29 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTL 29 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHH
Confidence 6789999999999999887743
No 459
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=46.82 E-value=17 Score=25.90 Aligned_cols=22 Identities=27% Similarity=0.123 Sum_probs=19.6
Q ss_pred CCCCCHHHHHHHhhhhhhhhhc
Q 027234 187 IPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r 208 (226)
.++.++.+||..++++...+|+
T Consensus 27 ~~g~sv~evA~e~gIs~~tl~~ 48 (121)
T PRK09413 27 EPGMTVSLVARQHGVAASQLFL 48 (121)
T ss_pred cCCCCHHHHHHHHCcCHHHHHH
Confidence 4599999999999999998885
No 460
>PF00478 IMPDH: IMP dehydrogenase / GMP reductase domain; InterPro: IPR001093 Synonym(s): Inosine-5'-monophosphate dehydrogenase, Inosinic acid dehydrogenase; Synonym(s): Guanosine 5'-monophosphate oxidoreductase This entry contains two related enzymes IMP dehydrogenase and GMP reducatase. These enzymes adopt a TIM barrel structure. IMP dehydrogenase (1.1.1.205 from EC) (IMPDH) catalyzes the rate-limiting reaction of de novo GTP biosynthesis, the NAD-dependent reduction of IMP into XMP []. Inosine 5-phosphate + NAD+ + H2O = xanthosine 5-phosphate + NADH IMP dehydrogenase is associated with cell proliferation and is a possible target for cancer chemotherapy. Mammalian and bacterial IMPDHs are tetramers of identical chains. There are two IMP dehydrogenase isozymes in humans []. IMP dehydrogenase nearly always contains a long insertion that has two CBS domains within it. GMP reductase (1.7.1.7 from EC) catalyzes the irreversible and NADPH-dependent reductive deamination of GMP into IMP []. NADPH + guanosine 5-phosphate = NADP+ + inosine 5-phosphate + NH3 It converts nucleobase, nucleoside and nucleotide derivatives of G to A nucleotides, and maintains intracellular balance of A and G nucleotides.; GO: 0003824 catalytic activity, 0055114 oxidation-reduction process; PDB: 3FFS_D 1VRD_A 1JCN_B 1EEP_B 3TSB_B 3USB_B 3TSD_A 4FF0_A 4FEZ_A 3KHJ_D ....
Probab=46.73 E-value=1.3e+02 Score=26.08 Aligned_cols=71 Identities=13% Similarity=0.038 Sum_probs=44.9
Q ss_pred EECCHHHHHHHHHhCCCCceEEEEccCCCCCC-HHHHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeC
Q 027234 7 KCNRAEIALDMLRTNKNGYDIVISDVHMPDMD-GFKLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 7 ~~~~~~eal~~l~~~~~~~DlVl~D~~mp~~d-G~~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
+..+..+-.+.+-+.. .|++++|.--.... =+++++.|++ .+++||| .-.-...+.....+..||++...=
T Consensus 105 ~~~~~~er~~~L~~ag--vD~ivID~a~g~s~~~~~~ik~ik~~~~~~~vi-aGNV~T~e~a~~L~~aGad~vkVG 177 (352)
T PF00478_consen 105 TRDDDFERAEALVEAG--VDVIVIDSAHGHSEHVIDMIKKIKKKFPDVPVI-AGNVVTYEGAKDLIDAGADAVKVG 177 (352)
T ss_dssp SSTCHHHHHHHHHHTT---SEEEEE-SSTTSHHHHHHHHHHHHHSTTSEEE-EEEE-SHHHHHHHHHTT-SEEEES
T ss_pred CCHHHHHHHHHHHHcC--CCEEEccccCccHHHHHHHHHHHHHhCCCceEE-ecccCCHHHHHHHHHcCCCEEEEe
Confidence 3334455555555533 89999998665433 3667888874 4567776 444556788888999999987654
No 461
>PHA00675 hypothetical protein
Probab=46.70 E-value=15 Score=24.08 Aligned_cols=29 Identities=17% Similarity=0.392 Sum_probs=24.3
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
|.....-++.+...||..+++||+.+++|
T Consensus 31 IR~l~~r~G~s~~~IA~~fGVsrstV~~I 59 (78)
T PHA00675 31 IRELHEVEGMSYAVLAEKFEQSKGAIAKI 59 (78)
T ss_pred HHHHHHhcCccHHHHHHHhCCCHHHHHHH
Confidence 66666455889999999999999998876
No 462
>PRK13523 NADPH dehydrogenase NamA; Provisional
Probab=46.66 E-value=88 Score=26.73 Aligned_cols=66 Identities=9% Similarity=0.091 Sum_probs=45.2
Q ss_pred HHHHHH---HHHhCCCCceEEEEccCC------CCCCH--HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 11 AEIALD---MLRTNKNGYDIVISDVHM------PDMDG--FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 11 ~~eal~---~l~~~~~~~DlVl~D~~m------p~~dG--~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
.+++++ .+... ++|.|=+...+ +...| .++.+.+++...+||+......+.+.+.+++..|..|++
T Consensus 226 ~~e~~~i~~~l~~~--gvD~i~vs~g~~~~~~~~~~~~~~~~~~~~ik~~~~ipVi~~G~i~~~~~a~~~l~~g~~D~V 302 (337)
T PRK13523 226 VQDYVQYAKWMKEQ--GVDLIDVSSGAVVPARIDVYPGYQVPFAEHIREHANIATGAVGLITSGAQAEEILQNNRADLI 302 (337)
T ss_pred HHHHHHHHHHHHHc--CCCEEEeCCCCCCCCCCCCCccccHHHHHHHHhhcCCcEEEeCCCCCHHHHHHHHHcCCCChH
Confidence 455544 44443 37888776543 11234 567788887778999988888889999999998866654
No 463
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=46.64 E-value=33 Score=26.32 Aligned_cols=45 Identities=16% Similarity=0.253 Sum_probs=30.3
Q ss_pred HHHHHHHHhCCCCCCchHH-HHhhCCCCCCHHHHHHHhhhhhhhhh
Q 027234 163 QFVSAVKELGFDKAGPKKI-LELMNIPGLTRENVASHLQKHRLYLS 207 (226)
Q Consensus 163 ~Fi~~~~~~g~~~~~p~~I-~~~~~~~~lt~~~va~~l~~~r~~l~ 207 (226)
.|-+....+|....+=... +-.|+...+|.++++..+|+||+.++
T Consensus 14 ~fae~m~r~G~nrtVG~iYgilyls~~Pmtl~Ei~E~lg~Sks~vS 59 (177)
T COG1510 14 HFAETMSRWGINRTVGQIYGILYLSRKPLTLDEIAEALGMSKSNVS 59 (177)
T ss_pred HHHHHHHHhCCcchHHHHhhhheecCCCccHHHHHHHHCCCcchHH
Confidence 3444455566654443221 23567889999999999999999754
No 464
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=46.61 E-value=1e+02 Score=25.76 Aligned_cols=40 Identities=13% Similarity=0.091 Sum_probs=32.7
Q ss_pred EEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 54 VIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 54 vI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
.|-+.. .+.+.+.+|++.|||....-++++++++..+..+
T Consensus 198 ~I~VEv-~tleea~eA~~~GaD~I~LDn~~~e~l~~av~~~ 237 (288)
T PRK07428 198 TIEVET-ETLEQVQEALEYGADIIMLDNMPVDLMQQAVQLI 237 (288)
T ss_pred EEEEEC-CCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHH
Confidence 344444 5678888999999999999999999999998754
No 465
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=46.53 E-value=7.7 Score=30.12 Aligned_cols=23 Identities=17% Similarity=0.258 Sum_probs=20.9
Q ss_pred CCCHHHHHHHhhhhhhhhhcccC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
.+|+++||+.+|++|..++|+.+
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~ 190 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLK 190 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHH
Confidence 68999999999999999999654
No 466
>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional
Probab=46.42 E-value=82 Score=28.55 Aligned_cols=70 Identities=14% Similarity=0.087 Sum_probs=44.5
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEcc--------------CCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCC
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDV--------------HMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHD 73 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~--------------~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~g 73 (226)
+.+.+.|..++.. +.|.|.+.+ ..|...-+.-+........+|+|.=.+......+.+|+.+|
T Consensus 290 V~t~~~a~~~~~a---Gad~I~vg~g~Gs~~~t~~~~~~g~p~~~ai~~~~~~~~~~~v~vIadGGi~~~~di~kAla~G 366 (495)
T PTZ00314 290 VVTADQAKNLIDA---GADGLRIGMGSGSICITQEVCAVGRPQASAVYHVARYARERGVPCIADGGIKNSGDICKALALG 366 (495)
T ss_pred cCCHHHHHHHHHc---CCCEEEECCcCCcccccchhccCCCChHHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHcC
Confidence 5566677766653 368776543 22333322223333233568887766888889999999999
Q ss_pred cceEEeC
Q 027234 74 ACDYLTK 80 (226)
Q Consensus 74 a~~yl~K 80 (226)
|+....=
T Consensus 367 A~~Vm~G 373 (495)
T PTZ00314 367 ADCVMLG 373 (495)
T ss_pred CCEEEEC
Confidence 9987753
No 467
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=46.21 E-value=11 Score=21.25 Aligned_cols=27 Identities=37% Similarity=0.447 Sum_probs=20.8
Q ss_pred hCCCCCCHHHHHHHhhhhhhhhhcccC
Q 027234 185 MNIPGLTRENVASHLQKHRLYLSRLSG 211 (226)
Q Consensus 185 ~~~~~lt~~~va~~l~~~r~~l~r~~~ 211 (226)
+...+++..++|..++++..+++++-.
T Consensus 6 ~~~~~~s~~~la~~~~i~~~~i~~~~~ 32 (56)
T smart00530 6 REEKGLTQEELAEKLGVSRSTLSRIEN 32 (56)
T ss_pred HHHcCCCHHHHHHHhCCCHHHHHHHHC
Confidence 344578899999999999888877533
No 468
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=46.21 E-value=1.8e+02 Score=25.29 Aligned_cols=65 Identities=17% Similarity=0.251 Sum_probs=43.5
Q ss_pred CHHHHHHHHHhCCCCceEEEEccC-------CCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE
Q 027234 10 RAEIALDMLRTNKNGYDIVISDVH-------MPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL 78 (226)
Q Consensus 10 ~~~eal~~l~~~~~~~DlVl~D~~-------mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl 78 (226)
+..+..+.+.+.. .|+|.++-. -+..+-.++.+.++ ..++|||. ....+.+.+.++++.||++.+
T Consensus 143 ~~~e~a~~l~eAG--ad~I~ihgrt~~q~~~sg~~~p~~l~~~i~-~~~IPVI~-G~V~t~e~A~~~~~aGaDgV~ 214 (369)
T TIGR01304 143 NAREIAPIVVKAG--ADLLVIQGTLVSAEHVSTSGEPLNLKEFIG-ELDVPVIA-GGVNDYTTALHLMRTGAAGVI 214 (369)
T ss_pred CHHHHHHHHHHCC--CCEEEEeccchhhhccCCCCCHHHHHHHHH-HCCCCEEE-eCCCCHHHHHHHHHcCCCEEE
Confidence 4556666666644 899998732 12334444444443 45789885 566778889999999999987
No 469
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=46.06 E-value=89 Score=26.06 Aligned_cols=67 Identities=15% Similarity=0.236 Sum_probs=48.5
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCC-C------CCHHHHHHHHhcCCCCcEEEEeccC-CHHHHHHHHhCCcce
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMP-D------MDGFKLLELVGLEMDLPVIMMCAHG-SKEVVMKGVTHDACD 76 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp-~------~dG~~l~~~l~~~~~~pvI~ls~~~-~~~~~~~a~~~ga~~ 76 (226)
.+++++|.++++... +|.+=+-+.-- + .=-+++++.|+...++|+++=-+.. ..+...++...|+.-
T Consensus 152 ~T~peea~~Fv~~Tg--vD~LAvaiGt~HG~yk~~p~Ldf~~L~~I~~~~~iPLVlHGgSG~~~e~~~~ai~~Gi~K 226 (282)
T TIGR01858 152 YTDPQEAKEFVEATG--VDSLAVAIGTAHGLYKKTPKLDFDRLAEIREVVDVPLVLHGASDVPDEDVRRTIELGICK 226 (282)
T ss_pred cCCHHHHHHHHHHHC--cCEEecccCccccCcCCCCccCHHHHHHHHHHhCCCeEEecCCCCCHHHHHHHHHcCCeE
Confidence 578999999999865 89887777431 1 1247788888866689988754433 457788899999754
No 470
>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=46.04 E-value=1e+02 Score=25.63 Aligned_cols=53 Identities=11% Similarity=0.011 Sum_probs=38.7
Q ss_pred HHHHHHhc-CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHH
Q 027234 41 KLLELVGL-EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHV 94 (226)
Q Consensus 41 ~l~~~l~~-~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~ 94 (226)
+.++.++. .+.. ..+....++.+.+..|.++|+|-.+.-.+++++|+..++.+
T Consensus 170 ~~v~~~k~~~p~~-~~I~VEv~tleea~~A~~~GaDiI~LDn~~~e~l~~~v~~~ 223 (273)
T PRK05848 170 EFIQHARKNIPFT-AKIEIECESLEEAKNAMNAGADIVMCDNMSVEEIKEVVAYR 223 (273)
T ss_pred HHHHHHHHhCCCC-ceEEEEeCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 34455553 2322 22344556889999999999999999999999999998753
No 471
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=45.83 E-value=11 Score=34.02 Aligned_cols=30 Identities=23% Similarity=0.147 Sum_probs=26.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..||++|+.|||.
T Consensus 472 ~I~~aL~~~~gn~~~aA~~LGisr~tL~rk 501 (509)
T PRK05022 472 LIRQALAQHQGNWAAAARALELDRANLHRL 501 (509)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHH
Confidence 577888888999999999999999999974
No 472
>smart00351 PAX Paired Box domain.
Probab=45.81 E-value=16 Score=26.33 Aligned_cols=28 Identities=21% Similarity=0.348 Sum_probs=21.8
Q ss_pred HHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 181 ILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 181 I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
|+..+. .+.+..+||..+++|+...||+
T Consensus 26 iv~~~~-~G~s~~~iA~~~gvs~~tV~kw 53 (125)
T smart00351 26 IVELAQ-NGVRPCDISRQLCVSHGCVSKI 53 (125)
T ss_pred HHHHHH-cCCCHHHHHHHHCcCHHHHHHH
Confidence 334444 4889999999999999988874
No 473
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=45.60 E-value=12 Score=30.58 Aligned_cols=34 Identities=29% Similarity=0.257 Sum_probs=28.4
Q ss_pred CCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 176 AGPKKILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 176 ~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.-.+.|+.++=-.++|..+||..||+|.++.+|+
T Consensus 199 EREk~Vl~l~y~eelt~kEI~~~LgISes~VSql 232 (247)
T COG1191 199 EREKLVLVLRYKEELTQKEIAEVLGISESRVSRL 232 (247)
T ss_pred HHHHHHHHHHHHhccCHHHHHHHhCccHHHHHHH
Confidence 3345677777777999999999999999998885
No 474
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=45.43 E-value=12 Score=24.97 Aligned_cols=24 Identities=17% Similarity=0.120 Sum_probs=18.0
Q ss_pred hCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 185 MNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 185 ~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
...+..+..++|.++++++..+++
T Consensus 20 ~~~~~~~~~~la~~~~~s~~~i~~ 43 (101)
T smart00347 20 YEEGPLSVSELAKRLGVSPSTVTR 43 (101)
T ss_pred HHcCCcCHHHHHHHHCCCchhHHH
Confidence 345678888888888888776665
No 475
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=45.42 E-value=19 Score=32.67 Aligned_cols=29 Identities=10% Similarity=0.054 Sum_probs=23.0
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+ +...+|.+||+||+.|||+
T Consensus 478 ~i~~~l~~~~-~~~~aA~~LGisr~tL~rk 506 (520)
T PRK10820 478 VLTRLYRNYP-STRKLAKRLGVSHTAIANK 506 (520)
T ss_pred HHHHHHHHCC-CHHHHHHHhCCCHHHHHHH
Confidence 4556666544 7889999999999999974
No 476
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=45.22 E-value=1.4e+02 Score=23.01 Aligned_cols=65 Identities=9% Similarity=0.033 Sum_probs=0.0
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcceE
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDACDY 77 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~~y 77 (226)
|.+..|+.+... .++|.|-+ +--+..-|.+.++.++ ..+++| ++-++.-+.+.....++.|+++.
T Consensus 112 ~~t~~e~~~A~~---~Gadyv~~-Fpt~~~~G~~~l~~~~~~~~~ip-vvaiGGI~~~n~~~~l~aGa~~v 177 (187)
T PRK07455 112 ALTPTEIVTAWQ---AGASCVKV-FPVQAVGGADYIKSLQGPLGHIP-LIPTGGVTLENAQAFIQAGAIAV 177 (187)
T ss_pred cCCHHHHHHHHH---CCCCEEEE-CcCCcccCHHHHHHHHhhCCCCc-EEEeCCCCHHHHHHHHHCCCeEE
No 477
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=44.95 E-value=1.7e+02 Score=25.85 Aligned_cols=78 Identities=13% Similarity=0.188 Sum_probs=49.0
Q ss_pred CCcEEEEECCHHHHHHHHHhCCCCceEEEEcc-CCCCCCHHHHHH---HHhcCCCCc-EEEEeccCCHHHHHHHHh----
Q 027234 1 MGFSVTKCNRAEIALDMLRTNKNGYDIVISDV-HMPDMDGFKLLE---LVGLEMDLP-VIMMCAHGSKEVVMKGVT---- 71 (226)
Q Consensus 1 lg~~V~~~~~~~eal~~l~~~~~~~DlVl~D~-~mp~~dG~~l~~---~l~~~~~~p-vI~ls~~~~~~~~~~a~~---- 71 (226)
||..+..+.++.+..+.+... ..+|+||+|. .++..|...+-+ .+....++- -+++|+......+.+.+.
T Consensus 259 m~vp~~vv~~~~el~~ai~~l-~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~ 337 (407)
T COG1419 259 MGVPLEVVYSPKELAEAIEAL-RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSL 337 (407)
T ss_pred hCCceEEecCHHHHHHHHHHh-hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhcc
Confidence 567788889998888877765 3479999997 355566654432 222223343 355777766655544433
Q ss_pred CCcceEEe
Q 027234 72 HDACDYLT 79 (226)
Q Consensus 72 ~ga~~yl~ 79 (226)
.+.+++|.
T Consensus 338 ~~i~~~I~ 345 (407)
T COG1419 338 FPIDGLIF 345 (407)
T ss_pred CCcceeEE
Confidence 56777763
No 478
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=44.64 E-value=83 Score=26.31 Aligned_cols=67 Identities=16% Similarity=0.314 Sum_probs=48.4
Q ss_pred ECCHHHHHHHHHhCCCCceEEEEccCC-CCC------CHHHHHHHHhcCCCCcEEEEeccC-CHHHHHHHHhCCcce
Q 027234 8 CNRAEIALDMLRTNKNGYDIVISDVHM-PDM------DGFKLLELVGLEMDLPVIMMCAHG-SKEVVMKGVTHDACD 76 (226)
Q Consensus 8 ~~~~~eal~~l~~~~~~~DlVl~D~~m-p~~------dG~~l~~~l~~~~~~pvI~ls~~~-~~~~~~~a~~~ga~~ 76 (226)
.+++++|.++++... +|.+=+.+.- -++ =-++.++.|+...++|+++=-+.. ..+...+++..|+.-
T Consensus 155 yT~peea~~Fv~~Tg--vD~LAvaiGt~HG~Y~~~p~Ld~~~L~~I~~~~~vPLVLHGgSG~~~e~~~~ai~~GI~K 229 (286)
T PRK08610 155 YADPKECQELVEKTG--IDALAPALGSVHGPYKGEPKLGFKEMEEIGLSTGLPLVLHGGTGIPTKDIQKAIPFGTAK 229 (286)
T ss_pred cCCHHHHHHHHHHHC--CCEEEeeccccccccCCCCCCCHHHHHHHHHHHCCCEEEeCCCCCCHHHHHHHHHCCCeE
Confidence 579999999999865 8988777732 111 137788888766689988765444 447788899999753
No 479
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=44.59 E-value=11 Score=34.32 Aligned_cols=30 Identities=10% Similarity=0.152 Sum_probs=26.7
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
.|.+.+...+-++...|..||++|+.|||.
T Consensus 494 ~i~~aL~~~~gn~~~aA~~LGisr~tLy~k 523 (534)
T TIGR01817 494 RLIAALEQAGWVQAKAARLLGMTPRQVGYA 523 (534)
T ss_pred HHHHHHHHhCCCHHHHHHHHCCCHHHHHHH
Confidence 577788888999999999999999999874
No 480
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=44.52 E-value=1.6e+02 Score=23.37 Aligned_cols=83 Identities=14% Similarity=0.033 Sum_probs=52.3
Q ss_pred EEEECCHHHHHHHHHhCC-CCceEEEEccCCCCCCHHHHHHHHhcCC-CCc-EEE-EeccCCHHHHHHHHhCCcceEEeC
Q 027234 5 VTKCNRAEIALDMLRTNK-NGYDIVISDVHMPDMDGFKLLELVGLEM-DLP-VIM-MCAHGSKEVVMKGVTHDACDYLTK 80 (226)
Q Consensus 5 V~~~~~~~eal~~l~~~~-~~~DlVl~D~~mp~~dG~~l~~~l~~~~-~~p-vI~-ls~~~~~~~~~~a~~~ga~~yl~K 80 (226)
|....+.++++..++... .++ =++.+.|-.-++++.++.++... +-| +++ .-.-.+.+.+..+.++||.-.++.
T Consensus 18 vir~~~~~~a~~~~~al~~~Gi--~~iEit~~~~~a~~~i~~l~~~~~~~p~~~vGaGTV~~~~~~~~a~~aGA~FivsP 95 (213)
T PRK06552 18 VVRGESKEEALKISLAVIKGGI--KAIEVTYTNPFASEVIKELVELYKDDPEVLIGAGTVLDAVTARLAILAGAQFIVSP 95 (213)
T ss_pred EEECCCHHHHHHHHHHHHHCCC--CEEEEECCCccHHHHHHHHHHHcCCCCCeEEeeeeCCCHHHHHHHHHcCCCEEECC
Confidence 445667788777765431 223 34555566677999999997443 222 333 444557788999999999865555
Q ss_pred CCCHHHHHH
Q 027234 81 PVRIEELKN 89 (226)
Q Consensus 81 P~~~~~L~~ 89 (226)
-++++.+..
T Consensus 96 ~~~~~v~~~ 104 (213)
T PRK06552 96 SFNRETAKI 104 (213)
T ss_pred CCCHHHHHH
Confidence 455555443
No 481
>KOG2794 consensus Delta-aminolevulinic acid dehydratase [Coenzyme transport and metabolism]
Probab=44.34 E-value=1.2e+02 Score=25.25 Aligned_cols=65 Identities=18% Similarity=0.302 Sum_probs=42.1
Q ss_pred ECCHHHHHHHHH-hCCCCceEEEEccCCCCCCHHHHHHHHh-cCCCCcEEEEeccCCHHHHHHHHhCCcc
Q 027234 8 CNRAEIALDMLR-TNKNGYDIVISDVHMPDMDGFKLLELVG-LEMDLPVIMMCAHGSKEVVMKGVTHDAC 75 (226)
Q Consensus 8 ~~~~~eal~~l~-~~~~~~DlVl~D~~mp~~dG~~l~~~l~-~~~~~pvI~ls~~~~~~~~~~a~~~ga~ 75 (226)
++...-|++.++ ....+-|++++- |++--+++++.++ ..++.|+-..-...+..-+..+-.+|+.
T Consensus 237 ~~~R~la~rA~erD~aEGAD~lmVK---Pg~pyLDIir~~kd~~~dlpi~ayqVSGEyaMi~aaa~~g~~ 303 (340)
T KOG2794|consen 237 ANSRGLALRARERDVAEGADILMVK---PGLPYLDIIRLLKDKTPDLPIAAYQVSGEYAMIKAAALAGMF 303 (340)
T ss_pred CchHHHHHHHHHhhhhccCceEEec---CCCcHHHHHHHHHhcCCCCceEEEEecchHHHHHHHHhcccc
Confidence 334444555554 222447888876 5666677777776 5678999887666666666666666665
No 482
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=44.33 E-value=19 Score=26.34 Aligned_cols=42 Identities=17% Similarity=0.109 Sum_probs=28.0
Q ss_pred HHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcc
Q 027234 168 VKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 168 ~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
++..|+....-..+..+...+++|..+||..+++++..+.|.
T Consensus 33 l~~~glt~~q~~vL~~l~~~~~~t~~eLa~~l~i~~~tvsr~ 74 (144)
T PRK11512 33 LSPLDITAAQFKVLCSIRCAACITPVELKKVLSVDLGALTRM 74 (144)
T ss_pred hcccCCCHHHHHHHHHHHHcCCCCHHHHHHHHCCCHHHHHHH
Confidence 334454433333344444567899999999999999977664
No 483
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=44.21 E-value=93 Score=21.43 Aligned_cols=41 Identities=22% Similarity=0.427 Sum_probs=18.9
Q ss_pred HHHHHHHHhCCCCceEEEEccC--CCCCCHHHHHHHHhcCCCCcEE
Q 027234 12 EIALDMLRTNKNGYDIVISDVH--MPDMDGFKLLELVGLEMDLPVI 55 (226)
Q Consensus 12 ~eal~~l~~~~~~~DlVl~D~~--mp~~dG~~l~~~l~~~~~~pvI 55 (226)
.+..+++++.. +|+||.-.. .+.-+|+.+ ++......+|++
T Consensus 57 ~~i~~~i~~~~--id~vIn~~~~~~~~~~~~~i-RR~Av~~~ipl~ 99 (110)
T cd01424 57 PNIVDLIKNGE--IQLVINTPSGKRAIRDGFSI-RRAALEYKVPYF 99 (110)
T ss_pred hhHHHHHHcCC--eEEEEECCCCCccCccHHHH-HHHHHHhCCCEE
Confidence 34555555544 677665322 112245533 333333455654
No 484
>COG2739 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.95 E-value=19 Score=24.95 Aligned_cols=28 Identities=11% Similarity=0.014 Sum_probs=21.9
Q ss_pred HHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 180 KILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 180 ~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
++...+.+ +++..+||...++||+-.|-
T Consensus 25 Y~~lyy~d-DlSl~EIAee~~VSRqAIyD 52 (105)
T COG2739 25 YLELYYLD-DLSLSEIAEEFNVSRQAIYD 52 (105)
T ss_pred HHHHHHHh-hccHHHHHHHhCccHHHHHH
Confidence 34444444 99999999999999997663
No 485
>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=43.94 E-value=1.8e+02 Score=23.96 Aligned_cols=56 Identities=14% Similarity=0.175 Sum_probs=39.2
Q ss_pred HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEE------eCCCCHHHHHHHHHHHH
Q 027234 40 FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYL------TKPVRIEELKNIWQHVV 95 (226)
Q Consensus 40 ~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl------~KP~~~~~L~~~l~~~~ 95 (226)
+++++.++...++|||...+-.+.+.+.+++..||+..- .-|.-..++..-+.+.+
T Consensus 220 ~~~i~~i~~~~~ipii~~GGI~~~~da~~~l~~GAd~V~igra~l~~p~~~~~i~~~l~~~~ 281 (296)
T cd04740 220 LRMVYQVYKAVEIPIIGVGGIASGEDALEFLMAGASAVQVGTANFVDPEAFKEIIEGLEAYL 281 (296)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCHHHHHHHHHcCCCEEEEchhhhcChHHHHHHHHHHHHHH
Confidence 467777776668999998888899999999999987643 23444444444444433
No 486
>cd04733 OYE_like_2_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=43.75 E-value=1.2e+02 Score=25.68 Aligned_cols=40 Identities=10% Similarity=0.214 Sum_probs=33.1
Q ss_pred HHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEe
Q 027234 40 FKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLT 79 (226)
Q Consensus 40 ~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~ 79 (226)
.++.+.+++..++||++.....+.+.+.+++..|..|++.
T Consensus 281 ~~~~~~ik~~v~iPVi~~G~i~t~~~a~~~l~~g~aD~V~ 320 (338)
T cd04733 281 LEFAEKIRKVTKTPLMVTGGFRTRAAMEQALASGAVDGIG 320 (338)
T ss_pred HHHHHHHHHHcCCCEEEeCCCCCHHHHHHHHHcCCCCeee
Confidence 4677788877789999888888899999999999777763
No 487
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=43.70 E-value=16 Score=23.21 Aligned_cols=21 Identities=19% Similarity=0.145 Sum_probs=17.6
Q ss_pred CCCHHHHHHHhhhhhhhhhcc
Q 027234 189 GLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~ 209 (226)
+++..+||..|+++++..+|.
T Consensus 22 ~~ta~eLa~~lgl~~~~v~r~ 42 (68)
T smart00550 22 TSTALQLAKNLGLPKKEVNRV 42 (68)
T ss_pred CcCHHHHHHHHCCCHHHHHHH
Confidence 499999999999999866553
No 488
>PRK11552 putative DNA-binding transcriptional regulator; Provisional
Probab=43.55 E-value=36 Score=26.98 Aligned_cols=43 Identities=14% Similarity=0.180 Sum_probs=32.8
Q ss_pred hhHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhcccCC
Q 027234 159 ELHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 159 ~l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.-.++.+.++.+ +.-...-. .|+++||.+-|+|+..+|+-|+.
T Consensus 13 ~~r~~Il~aA~~----------lF~~~Gy~-~s~~~IA~~AGvsk~tiy~~F~s 55 (225)
T PRK11552 13 QAKQQLIAAALA----------QFGEYGLH-ATTRDIAAQAGQNIAAITYYFGS 55 (225)
T ss_pred HHHHHHHHHHHH----------HHHHhCcc-CCHHHHHHHhCCCHHHHHHHcCC
Confidence 445677888777 33344555 89999999999999999987764
No 489
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=43.48 E-value=44 Score=21.39 Aligned_cols=24 Identities=21% Similarity=0.084 Sum_probs=16.4
Q ss_pred CCCHHHHHHHhhhhhhhhhcccCC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSGV 212 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~~ 212 (226)
.-|.++||.+|+++...++++...
T Consensus 20 ~Pt~eEiA~~lgis~~~v~~~l~~ 43 (78)
T PF04539_consen 20 EPTDEEIAEELGISVEEVRELLQA 43 (78)
T ss_dssp --BHHHHHHHHTS-HHHHHHHHHH
T ss_pred CCCHHHHHHHHcccHHHHHHHHHh
Confidence 678899999999988877765443
No 490
>PRK04435 hypothetical protein; Provisional
Probab=43.48 E-value=40 Score=25.04 Aligned_cols=40 Identities=13% Similarity=0.113 Sum_probs=28.3
Q ss_pred hhHHHHHHHHHHhCCCCCCchHHHHhhCCCCCCHHHHHHHhhhhhhhhhc
Q 027234 159 ELHQQFVSAVKELGFDKAGPKKILELMNIPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 159 ~l~~~Fi~~~~~~g~~~~~p~~I~~~~~~~~lt~~~va~~l~~~r~~l~r 208 (226)
.+|+-|...++. |.+++ +..--|+.+....+|+||+.+|+
T Consensus 14 ~lp~~~~k~~~~--------k~ll~--~~~~~~~~ea~~~~gisrs~~yk 53 (147)
T PRK04435 14 VLPEAVEKTLKA--------KELLK--SGKVKSINEAVKQVGISRSAFYK 53 (147)
T ss_pred cChHHHHHHHHH--------HHHHH--cCCCCcHHHHHHHhCcCHHHHhc
Confidence 467777766554 12332 35567899999999999998886
No 491
>PRK10870 transcriptional repressor MprA; Provisional
Probab=43.47 E-value=27 Score=26.68 Aligned_cols=48 Identities=13% Similarity=0.170 Sum_probs=31.9
Q ss_pred HHHHHHHHHhCCCCCCchHHHHhhC--CCCCCHHHHHHHhhhhhhhhhcc
Q 027234 162 QQFVSAVKELGFDKAGPKKILELMN--IPGLTRENVASHLQKHRLYLSRL 209 (226)
Q Consensus 162 ~~Fi~~~~~~g~~~~~p~~I~~~~~--~~~lt~~~va~~l~~~r~~l~r~ 209 (226)
..|-..++..|+....-..+..+.. .+++|..+||.++++++..+.|+
T Consensus 42 ~~~~~~l~~~gLt~~q~~iL~~L~~~~~~~it~~eLa~~l~l~~~tvsr~ 91 (176)
T PRK10870 42 ENRNKMLKAQGINETLFMALITLESQENHSIQPSELSCALGSSRTNATRI 91 (176)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHhcCCCCCcCHHHHHHHHCCCHHHHHHH
Confidence 3455556677766443333333332 45689999999999999987764
No 492
>PRK02290 3-dehydroquinate synthase; Provisional
Probab=43.33 E-value=2.2e+02 Score=24.56 Aligned_cols=70 Identities=13% Similarity=0.053 Sum_probs=45.7
Q ss_pred ceEEEEccCCCCCCHHHH-HHHHhcCCCCcEEEEe-ccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKL-LELVGLEMDLPVIMMC-AHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l-~~~l~~~~~~pvI~ls-~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
.+.+|++..-...--+|- +-.+ .....++... ...+...+...++.|+++.+.+|-++.+++.....+-.
T Consensus 89 ~~~viv~~~dW~iIPlEnlIA~~--~~~~~l~a~v~~~~eA~~a~~~LE~G~dGVvl~~~d~~ei~~~~~~~~~ 160 (344)
T PRK02290 89 VDYVIVEGRDWTIIPLENLIADL--GQSGKIIAGVADAEEAKLALEILEKGVDGVLLDPDDPNEIKAIVALIEE 160 (344)
T ss_pred CCEEEEECCCCcEecHHHHHhhh--cCCceEEEEeCCHHHHHHHHHHhccCCCeEEECCCCHHHHHHHHHHHhc
Confidence 467777765544433332 2333 2344444433 33445667889999999999999999999887776543
No 493
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=43.33 E-value=9.5 Score=30.40 Aligned_cols=26 Identities=19% Similarity=0.121 Sum_probs=22.0
Q ss_pred CCCHHHHHHHhhhhhhhhhcccCCCC
Q 027234 189 GLTRENVASHLQKHRLYLSRLSGVSP 214 (226)
Q Consensus 189 ~lt~~~va~~l~~~r~~l~r~~~~~~ 214 (226)
.+|+++||+.|+++|..+.|+.+.-.
T Consensus 179 ~lt~~~IA~~lGisretlsR~L~~L~ 204 (230)
T PRK09391 179 PMSRRDIADYLGLTIETVSRALSQLQ 204 (230)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 68999999999999999999655433
No 494
>KOG1601 consensus GATA-4/5/6 transcription factors [Transcription]
Probab=43.32 E-value=8.1 Score=31.39 Aligned_cols=69 Identities=30% Similarity=0.362 Sum_probs=50.4
Q ss_pred ceEEEEccCCCCCCHHHHHHHHhc---CCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKLLELVGL---EMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQH 93 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l~~~l~~---~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~ 93 (226)
+|+++.+..||++.|+.++..+.. ..+.++++++...........+..++.+|+.+|....++......
T Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~ 135 (340)
T KOG1601|consen 64 IDLSVPSLDMPGLEGFSLFVSENNPNSLRHPPVPSMPSSNSSSSSSSSVSPSASLELTKPDRKNRLKRSRQH 135 (340)
T ss_pred ccccccccccccccccccccccccCCCCCCCCcccccccccchhhhcccCCcccccccccccCCCcccCCcc
Confidence 899999999999999999887753 234555556655555556777777899999999885554444443
No 495
>TIGR00642 mmCoA_mut_beta methylmalonyl-CoA mutase, heterodimeric type, beta chain. The adenosylcobalamin-binding, catalytic chain of methylmalonyl-CoA mutase may form homodimers, as in mitochondrion and E. coli, or heterodimers with a shorter, homologous chain that does not bind adenosylcobalamin. This model describes this non-catalytic beta chain, as found in the enzyme from Propionibacterium freudenreichii, for which the 3-dimensional structure has been solved.
Probab=43.19 E-value=2.7e+02 Score=26.14 Aligned_cols=87 Identities=7% Similarity=0.045 Sum_probs=53.6
Q ss_pred CcEEEE---ECCHHHHHHHHHhCCCCceEEEEccCCCC--CCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcce
Q 027234 2 GFSVTK---CNRAEIALDMLRTNKNGYDIVISDVHMPD--MDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACD 76 (226)
Q Consensus 2 g~~V~~---~~~~~eal~~l~~~~~~~DlVl~D~~mp~--~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~ 76 (226)
||++.. +.+.+++.+...... .+++++--.-.. ..+-++++.|+..... .|++.+.... .......|+++
T Consensus 523 G~~~~~~~~~~~~~~~~~a~~~sg--a~i~viCssD~~Y~~~a~~~~~al~~ag~~-~v~lAG~p~~--~~~~~~aGvd~ 597 (619)
T TIGR00642 523 GIDTIQVEGGTTAEIVVEAFKKAG--AQVAVLCSSDKVYAQQGLEVAKALKAAGAK-ALYLAGAFKE--FGDDAAEAIDG 597 (619)
T ss_pred ceeeccCCCCCCHHHHHHHHHhcC--CCEEEEeCCCcchHHHHHHHHHHHHhCCCC-EEEEeCCCcc--hhhHHhcCCcc
Confidence 455542 355677777776654 666554432222 3466778888754433 6667776643 33367789999
Q ss_pred EEeCCCCHHHHHHHHHH
Q 027234 77 YLTKPVRIEELKNIWQH 93 (226)
Q Consensus 77 yl~KP~~~~~L~~~l~~ 93 (226)
||.--.+.-++...+++
T Consensus 598 fi~~g~d~~~~L~~~~~ 614 (619)
T TIGR00642 598 RLFMKMNVVDTLSSTLD 614 (619)
T ss_pred eeEcCCcHHHHHHHHHH
Confidence 99888777665555444
No 496
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=43.07 E-value=67 Score=24.07 Aligned_cols=44 Identities=18% Similarity=0.224 Sum_probs=27.4
Q ss_pred HHHHhCCCCceEEEEccCCCCCCHH-H-------HHHHHh-cCCCCcEEEEeccC
Q 027234 16 DMLRTNKNGYDIVISDVHMPDMDGF-K-------LLELVG-LEMDLPVIMMCAHG 61 (226)
Q Consensus 16 ~~l~~~~~~~DlVl~D~~mp~~dG~-~-------l~~~l~-~~~~~pvI~ls~~~ 61 (226)
+.+.... ||+|++.+..-+.... + +++.++ ..+..||++++...
T Consensus 51 ~~~~~~~--pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~p~~~iil~~~~~ 103 (177)
T cd01844 51 ELLRDVP--ADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETHPDTPILLVSPRY 103 (177)
T ss_pred HHHHhcC--CCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHCcCCCEEEEecCC
Confidence 4444444 9999998776654322 2 334444 35678999888644
No 497
>KOG0538 consensus Glycolate oxidase [Energy production and conversion]
Probab=42.87 E-value=79 Score=26.82 Aligned_cols=51 Identities=20% Similarity=0.280 Sum_probs=37.2
Q ss_pred HHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeC----------CCCHHHHHHHHHHH
Q 027234 43 LELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTK----------PVRIEELKNIWQHV 94 (226)
Q Consensus 43 ~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~K----------P~~~~~L~~~l~~~ 94 (226)
+++|+..-.+|||+ -+--..+.+..|.+.|+.|.+.- |-+.+.|.+++..+
T Consensus 215 i~wLr~~T~LPIvv-KGilt~eDA~~Ave~G~~GIIVSNHGgRQlD~vpAtI~~L~Evv~aV 275 (363)
T KOG0538|consen 215 IKWLRSITKLPIVV-KGVLTGEDARKAVEAGVAGIIVSNHGGRQLDYVPATIEALPEVVKAV 275 (363)
T ss_pred hHHHHhcCcCCeEE-EeecccHHHHHHHHhCCceEEEeCCCccccCcccchHHHHHHHHHHh
Confidence 44555556788875 44445678899999999999976 67777777777665
No 498
>cd03819 GT1_WavL_like This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core.
Probab=42.80 E-value=1.9e+02 Score=23.79 Aligned_cols=66 Identities=26% Similarity=0.304 Sum_probs=42.1
Q ss_pred ceEEEEccCCCCCCHHHHHHHHhcCCCCcEEEEeccCCHHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHH
Q 027234 25 YDIVISDVHMPDMDGFKLLELVGLEMDLPVIMMCAHGSKEVVMKGVTHDACDYLTKPVRIEELKNIWQHVVR 96 (226)
Q Consensus 25 ~DlVl~D~~mp~~dG~~l~~~l~~~~~~pvI~ls~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~l~~~~~ 96 (226)
.|+.++=-.-++.-|..+++.+. ..+|+|+... ... .+.+..+..+++..|-+.+++...+..++.
T Consensus 264 ad~~i~ps~~~e~~~~~l~EA~a--~G~PvI~~~~-~~~---~e~i~~~~~g~~~~~~~~~~l~~~i~~~~~ 329 (355)
T cd03819 264 ADIVVSASTEPEAFGRTAVEAQA--MGRPVIASDH-GGA---RETVRPGETGLLVPPGDAEALAQALDQILS 329 (355)
T ss_pred CCEEEecCCCCCCCchHHHHHHh--cCCCEEEcCC-CCc---HHHHhCCCceEEeCCCCHHHHHHHHHHHHh
Confidence 46655432234445666666664 4578875433 322 334556678999999999999999976554
No 499
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. 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; PDB: 2JN6_A 2RN7_A.
Probab=42.79 E-value=8.2 Score=24.68 Aligned_cols=22 Identities=18% Similarity=0.037 Sum_probs=18.3
Q ss_pred CCCCCHHHHHHHhhhhhhhhhc
Q 027234 187 IPGLTRENVASHLQKHRLYLSR 208 (226)
Q Consensus 187 ~~~lt~~~va~~l~~~r~~l~r 208 (226)
.++.|+.+||..++++.+.||+
T Consensus 21 ~~g~sv~~va~~~gi~~~~l~~ 42 (76)
T PF01527_consen 21 ESGESVSEVAREYGISPSTLYN 42 (76)
T ss_dssp HHHCHHHHHHHHHTS-HHHHHH
T ss_pred HCCCceEeeecccccccccccH
Confidence 4489999999999999998885
No 500
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=42.69 E-value=55 Score=22.82 Aligned_cols=41 Identities=32% Similarity=0.453 Sum_probs=21.8
Q ss_pred HHHHHHHHh-CCCCceEEEE--ccCC---CCCCHHHHHHHHhcCCCCcEE
Q 027234 12 EIALDMLRT-NKNGYDIVIS--DVHM---PDMDGFKLLELVGLEMDLPVI 55 (226)
Q Consensus 12 ~eal~~l~~-~~~~~DlVl~--D~~m---p~~dG~~l~~~l~~~~~~pvI 55 (226)
.+..+++.+ .. +|+||. |-.. ...||+.+.+. .....+|++
T Consensus 57 ~~i~~~i~~~g~--idlVIn~~~~~~~~~~~~dg~~iRR~-A~~~~Ip~~ 103 (112)
T cd00532 57 PTVDAAIAEKGK--FDVVINLRDPRRDRCTDEDGTALLRL-ARLYKIPVT 103 (112)
T ss_pred cHHHHHHhCCCC--EEEEEEcCCCCcccccCCChHHHHHH-HHHcCCCEE
Confidence 346677776 56 787776 3122 34456654433 223456654
Done!