Query 043479
Match_columns 534
No_of_seqs 422 out of 3108
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 05:29:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2197 CitB Response regulato 99.7 7.7E-17 1.7E-21 157.9 16.3 156 2-209 31-186 (211)
2 COG4566 TtrR Response regulato 99.7 7.6E-16 1.6E-20 147.3 14.8 146 2-207 33-178 (202)
3 PRK11475 DNA-binding transcrip 99.7 1.8E-15 3.8E-20 148.2 16.7 148 2-210 22-173 (207)
4 PLN03162 golden-2 like transcr 99.6 1.3E-16 2.8E-21 163.4 6.9 91 154-244 230-328 (526)
5 PRK10840 transcriptional regul 99.6 1.5E-14 3.2E-19 139.7 18.3 155 2-212 34-191 (216)
6 PRK09483 response regulator; P 99.6 3.8E-14 8.3E-19 134.4 17.3 159 2-213 32-190 (217)
7 PRK10046 dpiA two-component re 99.6 9.7E-14 2.1E-18 135.6 19.5 165 2-210 35-201 (225)
8 COG0745 OmpR Response regulato 99.6 4.4E-14 9.4E-19 140.5 16.1 91 2-94 29-120 (229)
9 COG4565 CitB Response regulato 99.6 2.7E-14 5.9E-19 139.0 14.1 94 2-96 31-124 (224)
10 PRK10430 DNA-binding transcrip 99.5 4.8E-13 1E-17 131.7 17.1 92 2-93 32-124 (239)
11 PRK09958 DNA-binding transcrip 99.5 1.3E-12 2.9E-17 122.7 18.4 157 2-214 30-186 (204)
12 PRK10100 DNA-binding transcrip 99.5 3.4E-13 7.4E-18 132.8 14.3 155 2-212 39-196 (216)
13 COG4753 Response regulator con 99.5 1.1E-13 2.5E-18 149.1 11.3 90 2-92 33-122 (475)
14 PRK15411 rcsA colanic acid cap 99.5 1.7E-12 3.7E-17 126.7 16.6 144 2-212 32-178 (207)
15 PRK09935 transcriptional regul 99.5 2.7E-12 5.7E-17 120.5 17.1 158 3-214 35-192 (210)
16 PRK10651 transcriptional regul 99.4 4.4E-12 9.6E-17 118.9 17.9 161 3-214 38-198 (216)
17 COG2204 AtoC Response regulato 99.4 5.1E-13 1.1E-17 144.2 12.4 93 2-95 33-125 (464)
18 PRK10360 DNA-binding transcrip 99.4 4.7E-12 1E-16 118.2 16.4 149 2-214 32-180 (196)
19 PRK10643 DNA-binding transcrip 99.4 4.3E-12 9.3E-17 120.1 16.2 168 2-214 29-201 (222)
20 PF00072 Response_reg: Respons 99.4 1.5E-12 3.3E-17 111.4 11.9 85 2-87 28-112 (112)
21 PRK10403 transcriptional regul 99.4 1E-11 2.2E-16 116.2 18.4 158 3-213 38-195 (215)
22 PRK15369 two component system 99.4 1.2E-11 2.5E-16 114.6 17.0 158 3-214 35-192 (211)
23 PRK11083 DNA-binding response 99.4 6.6E-12 1.4E-16 119.3 15.5 168 2-215 32-207 (228)
24 TIGR03787 marine_sort_RR prote 99.4 1.4E-11 3E-16 117.9 17.0 170 2-215 29-206 (227)
25 PRK10336 DNA-binding transcrip 99.4 1.7E-11 3.7E-16 116.0 17.1 168 2-214 29-201 (219)
26 TIGR01387 cztR_silR_copR heavy 99.3 3.5E-11 7.6E-16 113.5 16.1 169 2-215 27-200 (218)
27 PRK10816 DNA-binding transcrip 99.3 6E-11 1.3E-15 113.4 16.5 90 2-92 29-118 (223)
28 PRK10955 DNA-binding transcrip 99.3 2.9E-11 6.2E-16 115.6 14.2 90 2-94 30-119 (232)
29 TIGR01557 myb_SHAQKYF myb-like 99.3 3.4E-12 7.5E-17 100.8 6.4 54 159-212 1-55 (57)
30 PRK09836 DNA-binding transcrip 99.3 6.6E-11 1.4E-15 113.5 15.7 90 2-92 29-118 (227)
31 TIGR02154 PhoB phosphate regul 99.3 4.1E-11 8.8E-16 113.4 13.3 90 2-92 31-122 (226)
32 PRK09390 fixJ response regulat 99.3 7.2E-11 1.6E-15 108.8 14.6 154 2-215 32-185 (202)
33 PRK10161 transcriptional regul 99.3 4.6E-11 9.9E-16 114.7 13.5 90 2-92 31-122 (229)
34 PRK15479 transcriptional regul 99.3 2.1E-10 4.5E-15 108.4 17.8 167 2-214 29-200 (221)
35 CHL00148 orf27 Ycf27; Reviewed 99.3 1.3E-10 2.7E-15 111.8 15.8 171 3-215 36-216 (240)
36 PRK11517 transcriptional regul 99.2 1.9E-10 4.2E-15 109.3 15.8 167 2-215 29-200 (223)
37 PRK09468 ompR osmolarity respo 99.2 3.6E-10 7.9E-15 109.4 15.7 91 2-93 34-124 (239)
38 PRK10766 DNA-binding transcrip 99.2 5.2E-10 1.1E-14 106.6 16.0 90 2-93 31-120 (221)
39 PRK10710 DNA-binding transcrip 99.2 1.1E-09 2.4E-14 105.2 17.2 170 2-215 39-213 (240)
40 PRK10693 response regulator of 99.1 3.2E-10 6.9E-15 116.8 12.9 91 2-93 2-93 (303)
41 COG3437 Response regulator con 99.1 1.4E-10 3.1E-15 120.6 9.0 92 1-93 42-136 (360)
42 COG0784 CheY FOG: CheY-like re 99.1 6.7E-10 1.5E-14 97.3 12.0 89 2-91 34-125 (130)
43 COG3947 Response regulator con 99.1 8.1E-10 1.8E-14 112.2 13.3 86 2-90 29-114 (361)
44 PRK10529 DNA-binding transcrip 99.1 8.6E-10 1.9E-14 105.4 12.5 90 2-93 30-119 (225)
45 PRK11173 two-component respons 99.1 9.8E-10 2.1E-14 106.6 12.4 90 2-93 32-121 (237)
46 TIGR02875 spore_0_A sporulatio 99.1 1.5E-09 3.3E-14 107.9 12.5 90 2-92 33-124 (262)
47 PRK09581 pleD response regulat 99.0 6.2E-10 1.3E-14 117.2 9.8 90 2-92 183-274 (457)
48 COG3706 PleD Response regulato 99.0 1.3E-09 2.8E-14 117.3 11.7 93 2-95 161-255 (435)
49 PRK14084 two-component respons 99.0 2.1E-09 4.6E-14 105.4 12.3 89 2-93 31-119 (246)
50 KOG0519 Sensory transduction h 99.0 9.9E-10 2.1E-14 126.7 10.4 89 2-90 695-784 (786)
51 PRK10701 DNA-binding transcrip 99.0 3.3E-09 7.3E-14 102.9 12.6 90 2-93 30-119 (240)
52 TIGR02915 PEP_resp_reg putativ 99.0 2.2E-09 4.8E-14 115.2 12.4 90 2-92 25-119 (445)
53 PLN03029 type-a response regul 99.0 3.5E-09 7.6E-14 104.4 12.0 92 2-93 37-149 (222)
54 PRK10841 hybrid sensory kinase 99.0 2.8E-09 6E-14 125.1 13.1 91 2-93 830-920 (924)
55 COG4567 Response regulator con 99.0 1.6E-09 3.5E-14 100.9 8.3 87 2-89 38-124 (182)
56 PRK11466 hybrid sensory histid 99.0 2.7E-09 5.9E-14 123.7 12.1 92 2-93 710-801 (914)
57 PRK13856 two-component respons 99.0 5.8E-09 1.3E-13 101.8 12.6 90 2-93 30-120 (241)
58 PRK11107 hybrid sensory histid 98.9 5.5E-09 1.2E-13 120.7 12.0 90 2-92 696-787 (919)
59 PRK15115 response regulator Gl 98.9 5.4E-09 1.2E-13 112.2 11.1 91 2-93 34-124 (444)
60 PRK10923 glnG nitrogen regulat 98.9 9.8E-09 2.1E-13 111.0 12.6 90 2-92 32-121 (469)
61 TIGR01818 ntrC nitrogen regula 98.9 9.5E-09 2.1E-13 110.7 12.4 91 2-93 27-117 (463)
62 PRK10365 transcriptional regul 98.9 6.2E-09 1.3E-13 111.3 10.6 91 2-93 34-124 (441)
63 PRK15347 two component system 98.9 9.1E-09 2E-13 119.0 12.8 89 2-91 719-811 (921)
64 PRK11361 acetoacetate metaboli 98.9 8.4E-09 1.8E-13 110.9 11.5 90 2-92 33-122 (457)
65 PRK11697 putative two-componen 98.9 1.7E-08 3.7E-13 98.1 11.7 86 3-92 33-118 (238)
66 TIGR02956 TMAO_torS TMAO reduc 98.9 1.2E-08 2.5E-13 118.9 12.1 90 2-92 731-823 (968)
67 PRK10610 chemotaxis regulatory 98.8 8E-08 1.7E-12 80.6 12.6 89 3-92 36-126 (129)
68 PRK09959 hybrid sensory histid 98.8 2.1E-08 4.5E-13 119.9 12.4 89 2-91 987-1075(1197)
69 PRK09581 pleD response regulat 98.8 4.8E-08 1E-12 102.9 12.7 92 2-94 31-124 (457)
70 PRK12555 chemotaxis-specific m 98.8 5.7E-08 1.2E-12 101.2 11.9 88 2-91 31-129 (337)
71 PRK11091 aerobic respiration c 98.7 5.8E-08 1.3E-12 111.2 12.1 89 2-92 554-645 (779)
72 PRK13435 response regulator; P 98.7 1.2E-07 2.6E-12 85.3 10.8 89 2-95 35-124 (145)
73 cd00156 REC Signal receiver do 98.7 1.5E-07 3.3E-12 74.9 10.0 86 3-89 27-112 (113)
74 PRK13558 bacterio-opsin activa 98.6 1.3E-07 2.8E-12 106.5 11.3 90 2-92 36-127 (665)
75 PRK00742 chemotaxis-specific m 98.6 1.9E-07 4.2E-12 97.7 11.9 75 2-78 34-110 (354)
76 COG3707 AmiR Response regulato 98.5 4.1E-07 8.9E-12 88.0 9.7 91 3-95 36-126 (194)
77 PRK09191 two-component respons 98.5 8.2E-07 1.8E-11 87.6 11.8 87 2-92 167-254 (261)
78 COG2201 CheB Chemotaxis respon 98.5 7.2E-07 1.6E-11 93.8 10.8 75 2-78 32-108 (350)
79 PRK13557 histidine kinase; Pro 98.4 1.8E-06 3.9E-11 93.0 11.0 91 2-92 444-535 (540)
80 PRK13837 two-component VirA-li 98.3 2.4E-06 5.3E-11 99.2 11.1 89 2-93 726-815 (828)
81 COG3279 LytT Response regulato 98.2 2.8E-06 6.1E-11 85.4 7.5 87 3-92 33-119 (244)
82 PRK15029 arginine decarboxylas 97.7 0.00016 3.5E-09 83.4 10.5 90 2-92 37-133 (755)
83 COG3706 PleD Response regulato 97.5 0.00012 2.5E-09 79.5 6.0 88 3-93 18-105 (435)
84 PRK15320 transcriptional activ 95.8 0.085 1.9E-06 52.0 10.6 46 163-212 158-205 (251)
85 PF03709 OKR_DC_1_N: Orn/Lys/A 95.0 0.064 1.4E-06 47.9 6.4 90 2-92 22-114 (115)
86 PRK11107 hybrid sensory histid 94.7 0.15 3.2E-06 59.5 10.2 74 17-90 575-650 (919)
87 cd02071 MM_CoA_mut_B12_BD meth 93.4 0.75 1.6E-05 41.3 9.8 82 5-87 38-121 (122)
88 PF00196 GerE: Bacterial regul 93.2 0.2 4.3E-06 39.1 5.1 45 166-214 2-46 (58)
89 TIGR03815 CpaE_hom_Actino heli 92.8 0.21 4.6E-06 51.9 6.3 67 18-90 19-86 (322)
90 PRK00043 thiE thiamine-phospha 92.1 1.9 4.2E-05 41.5 11.6 69 3-74 111-187 (212)
91 PRK13719 conjugal transfer tra 92.0 0.54 1.2E-05 47.0 7.6 71 166-248 142-212 (217)
92 TIGR00640 acid_CoA_mut_C methy 91.5 2.2 4.8E-05 39.2 10.6 86 4-90 40-127 (132)
93 PRK02261 methylaspartate mutas 91.4 2 4.3E-05 39.8 10.3 85 5-91 42-135 (137)
94 PRK06704 RNA polymerase factor 91.0 0.76 1.6E-05 46.1 7.5 78 167-247 116-196 (228)
95 TIGR02311 HpaI 2,4-dihydroxyhe 90.1 2.2 4.7E-05 43.4 10.1 82 8-90 24-107 (249)
96 PRK13870 transcriptional regul 90.0 0.52 1.1E-05 47.3 5.4 45 166-214 172-216 (234)
97 PRK15201 fimbriae regulatory p 89.6 0.75 1.6E-05 44.8 5.8 45 164-212 130-174 (198)
98 TIGR01501 MthylAspMutase methy 89.1 4.4 9.5E-05 37.6 10.3 87 4-91 39-133 (134)
99 PRK10188 DNA-binding transcrip 88.5 0.83 1.8E-05 46.0 5.7 44 167-214 179-222 (240)
100 PF06490 FleQ: Flagellar regul 88.3 2.4 5.3E-05 37.6 7.8 67 17-89 41-107 (109)
101 COG2771 CsgD DNA-binding HTH d 88.0 1.5 3.2E-05 34.0 5.7 43 166-212 3-45 (65)
102 PF00249 Myb_DNA-binding: Myb- 87.9 1.2 2.7E-05 33.4 4.9 47 162-211 2-48 (48)
103 TIGR03239 GarL 2-dehydro-3-deo 87.8 4.2 9E-05 41.4 10.2 81 8-89 24-106 (249)
104 PRK10128 2-keto-3-deoxy-L-rham 87.8 4.1 9E-05 42.0 10.2 81 8-89 30-112 (267)
105 cd02067 B12-binding B12 bindin 87.6 2.7 5.8E-05 37.1 7.8 69 5-75 38-109 (119)
106 PRK10558 alpha-dehydro-beta-de 87.3 4.4 9.5E-05 41.4 10.0 81 8-89 31-113 (256)
107 cd04724 Tryptophan_synthase_al 84.0 11 0.00025 37.8 11.2 82 8-91 18-127 (242)
108 cd04728 ThiG Thiazole synthase 84.0 9.9 0.00022 38.9 10.5 60 34-94 164-228 (248)
109 PRK00208 thiG thiazole synthas 83.3 11 0.00023 38.7 10.4 59 34-93 164-227 (250)
110 TIGR03020 EpsA transcriptional 82.9 2.3 5.1E-05 43.3 5.6 45 166-214 189-233 (247)
111 PRK09642 RNA polymerase sigma 82.5 3.4 7.3E-05 38.0 6.1 52 166-220 105-156 (160)
112 TIGR00262 trpA tryptophan synt 82.4 13 0.00028 37.9 10.9 57 34-90 75-137 (256)
113 PRK05458 guanosine 5'-monophos 82.3 4 8.6E-05 43.3 7.3 66 7-73 100-166 (326)
114 PF03328 HpcH_HpaI: HpcH/HpaI 82.1 9.1 0.0002 37.7 9.4 84 6-90 10-107 (221)
115 PRK13111 trpA tryptophan synth 81.5 5.2 0.00011 41.0 7.6 57 34-90 77-139 (258)
116 PRK12514 RNA polymerase sigma 81.2 3.4 7.4E-05 38.7 5.8 50 166-218 128-177 (179)
117 PRK12516 RNA polymerase sigma 80.8 4.2 9E-05 39.0 6.3 53 167-222 116-168 (187)
118 TIGR03541 reg_near_HchA LuxR f 80.7 3.2 6.9E-05 41.4 5.7 45 167-215 171-215 (232)
119 PF08281 Sigma70_r4_2: Sigma-7 80.6 5.5 0.00012 30.2 5.7 44 167-213 10-53 (54)
120 PRK11923 algU RNA polymerase s 80.5 4.1 8.8E-05 38.7 6.1 51 167-220 138-188 (193)
121 TIGR00693 thiE thiamine-phosph 80.4 10 0.00023 36.2 8.9 70 2-74 102-179 (196)
122 PRK12520 RNA polymerase sigma 80.3 4.4 9.6E-05 38.5 6.3 52 167-221 131-182 (191)
123 PRK12522 RNA polymerase sigma 79.5 4.7 0.0001 37.6 6.2 51 167-220 119-169 (173)
124 PRK04217 hypothetical protein; 79.3 5.9 0.00013 35.6 6.3 53 167-222 42-94 (110)
125 TIGR00343 pyridoxal 5'-phospha 79.3 15 0.00033 38.3 10.1 60 32-92 184-250 (287)
126 PRK12540 RNA polymerase sigma 79.3 4.9 0.00011 38.3 6.3 65 166-233 110-175 (182)
127 PRK13919 putative RNA polymera 79.2 4.5 9.8E-05 38.1 6.0 51 166-219 134-184 (186)
128 cd02068 radical_SAM_B12_BD B12 78.8 10 0.00022 33.9 7.8 84 6-90 27-111 (127)
129 TIGR02983 SigE-fam_strep RNA p 78.7 4.5 9.8E-05 37.1 5.6 49 168-219 111-159 (162)
130 TIGR02999 Sig-70_X6 RNA polyme 78.6 5.1 0.00011 37.6 6.1 48 167-217 134-181 (183)
131 PRK12543 RNA polymerase sigma 78.6 5.3 0.00011 37.6 6.2 53 167-222 117-169 (179)
132 PF04545 Sigma70_r4: Sigma-70, 78.5 8.4 0.00018 28.9 6.1 46 167-215 4-49 (50)
133 PRK05718 keto-hydroxyglutarate 78.5 12 0.00026 37.2 8.9 78 3-84 23-102 (212)
134 PRK12531 RNA polymerase sigma 78.1 5.4 0.00012 38.1 6.2 53 166-221 140-192 (194)
135 PRK12515 RNA polymerase sigma 78.1 6.2 0.00013 37.5 6.5 53 167-222 131-183 (189)
136 PRK09636 RNA polymerase sigma 78.1 6.4 0.00014 40.4 7.1 81 166-249 114-198 (293)
137 cd04727 pdxS PdxS is a subunit 78.0 19 0.00042 37.5 10.4 87 3-92 119-247 (283)
138 PRK12530 RNA polymerase sigma 77.7 5.8 0.00012 37.9 6.2 52 166-220 133-184 (189)
139 PRK09047 RNA polymerase factor 77.6 6.1 0.00013 36.1 6.2 52 166-220 105-156 (161)
140 cd02072 Glm_B12_BD B12 binding 77.5 22 0.00048 32.8 9.7 82 4-87 37-127 (128)
141 PRK09647 RNA polymerase sigma 77.2 6.3 0.00014 38.4 6.4 57 166-225 137-193 (203)
142 PRK06843 inosine 5-monophospha 77.2 12 0.00025 41.0 9.0 56 17-73 164-220 (404)
143 PRK12536 RNA polymerase sigma 77.0 5.8 0.00013 37.4 6.0 50 167-219 129-178 (181)
144 PRK04841 transcriptional regul 76.8 3.9 8.4E-05 48.0 5.7 43 166-212 837-879 (903)
145 PRK12533 RNA polymerase sigma 76.8 5.3 0.00011 39.5 5.8 54 166-222 133-186 (216)
146 TIGR02959 SigZ RNA polymerase 76.7 7 0.00015 36.6 6.4 52 167-221 100-151 (170)
147 PRK05602 RNA polymerase sigma 76.6 6.5 0.00014 37.1 6.2 52 167-221 128-179 (186)
148 PRK12532 RNA polymerase sigma 76.5 6 0.00013 37.7 6.0 52 167-221 136-187 (195)
149 PRK12546 RNA polymerase sigma 76.5 6.5 0.00014 37.8 6.3 54 167-223 113-166 (188)
150 PRK09645 RNA polymerase sigma 76.5 6.5 0.00014 36.6 6.1 52 166-220 117-168 (173)
151 COG1595 RpoE DNA-directed RNA 76.5 6.4 0.00014 37.2 6.1 53 166-221 126-178 (182)
152 PRK12544 RNA polymerase sigma 76.3 6.6 0.00014 38.4 6.3 51 167-220 148-198 (206)
153 cd06171 Sigma70_r4 Sigma70, re 75.9 6.4 0.00014 28.3 4.8 44 168-214 11-54 (55)
154 PRK11924 RNA polymerase sigma 75.8 7 0.00015 36.0 6.1 50 168-220 126-175 (179)
155 PRK12542 RNA polymerase sigma 75.7 6.1 0.00013 37.3 5.8 53 166-221 121-173 (185)
156 PRK12511 RNA polymerase sigma 75.5 8 0.00017 36.9 6.5 56 166-224 110-165 (182)
157 PRK01130 N-acetylmannosamine-6 75.5 27 0.00059 34.3 10.4 70 3-75 126-202 (221)
158 cd00452 KDPG_aldolase KDPG and 75.3 16 0.00034 35.3 8.5 68 3-75 104-171 (190)
159 PRK12519 RNA polymerase sigma 75.1 6.6 0.00014 37.3 5.8 50 167-219 141-190 (194)
160 PRK07896 nicotinate-nucleotide 74.8 11 0.00023 39.5 7.6 69 1-73 204-272 (289)
161 TIGR02947 SigH_actino RNA poly 74.7 4.5 9.8E-05 38.5 4.6 52 167-221 131-182 (193)
162 PRK12547 RNA polymerase sigma 74.6 8.1 0.00018 35.8 6.2 51 166-219 111-161 (164)
163 PRK12535 RNA polymerase sigma 74.5 6.5 0.00014 38.0 5.7 55 167-224 133-187 (196)
164 PRK09644 RNA polymerase sigma 74.5 8.2 0.00018 35.7 6.2 54 166-222 107-160 (165)
165 PRK12545 RNA polymerase sigma 74.3 8.2 0.00018 37.3 6.3 51 167-220 139-189 (201)
166 PRK00118 putative DNA-binding 74.3 10 0.00022 33.8 6.3 52 167-221 17-68 (104)
167 cd00564 TMP_TenI Thiamine mono 73.8 21 0.00046 33.4 8.9 68 3-74 102-177 (196)
168 TIGR02952 Sig70_famx2 RNA poly 73.2 7.9 0.00017 35.6 5.7 49 166-217 121-169 (170)
169 PRK12517 RNA polymerase sigma 73.1 8.8 0.00019 36.7 6.2 53 166-221 127-179 (188)
170 TIGR03001 Sig-70_gmx1 RNA poly 73.1 8.4 0.00018 38.9 6.3 55 167-224 161-215 (244)
171 PRK09652 RNA polymerase sigma 73.1 9.9 0.00022 35.0 6.4 50 167-219 128-177 (182)
172 smart00421 HTH_LUXR helix_turn 73.0 12 0.00025 27.6 5.6 42 168-213 4-45 (58)
173 TIGR02943 Sig70_famx1 RNA poly 72.9 9.3 0.0002 36.5 6.3 52 166-220 130-181 (188)
174 PRK12512 RNA polymerase sigma 72.9 9 0.0002 36.0 6.1 52 166-220 130-181 (184)
175 PRK06930 positive control sigm 72.8 9.5 0.00021 36.6 6.3 53 165-220 112-164 (170)
176 TIGR01302 IMP_dehydrog inosine 72.6 16 0.00035 40.3 8.8 64 7-73 227-291 (450)
177 PRK05848 nicotinate-nucleotide 72.5 13 0.00028 38.5 7.6 67 1-74 187-256 (273)
178 PRK07037 extracytoplasmic-func 72.3 10 0.00022 34.8 6.2 51 166-219 108-158 (163)
179 PRK07428 nicotinate-nucleotide 72.3 13 0.00029 38.7 7.7 70 1-74 201-270 (288)
180 PF01729 QRPTase_C: Quinolinat 72.2 13 0.00028 35.7 7.0 70 1-74 85-154 (169)
181 TIGR02984 Sig-70_plancto1 RNA 72.2 9 0.0002 35.9 5.9 49 167-218 140-188 (189)
182 PRK06759 RNA polymerase factor 71.9 9.1 0.0002 34.7 5.7 48 166-216 105-152 (154)
183 PRK09649 RNA polymerase sigma 71.9 7.9 0.00017 36.8 5.5 49 166-217 129-177 (185)
184 PRK00748 1-(5-phosphoribosyl)- 71.8 23 0.0005 34.8 9.0 68 5-74 147-219 (233)
185 PRK12527 RNA polymerase sigma 71.7 11 0.00025 34.4 6.4 52 167-221 105-156 (159)
186 TIGR02989 Sig-70_gvs1 RNA poly 71.5 8.2 0.00018 35.2 5.4 47 167-216 111-157 (159)
187 cd00381 IMPDH IMPDH: The catal 71.5 18 0.00039 38.2 8.5 65 8-74 97-162 (325)
188 TIGR01334 modD putative molybd 71.5 14 0.0003 38.4 7.5 69 1-73 193-261 (277)
189 TIGR02948 SigW_bacill RNA poly 71.4 8.9 0.00019 35.9 5.7 51 166-219 135-185 (187)
190 PRK06811 RNA polymerase factor 71.4 8.5 0.00018 36.6 5.6 50 166-218 130-179 (189)
191 PF01081 Aldolase: KDPG and KH 71.4 10 0.00023 37.3 6.3 77 5-82 18-94 (196)
192 PRK06015 keto-hydroxyglutarate 71.3 23 0.0005 35.1 8.7 79 4-84 13-91 (201)
193 TIGR00007 phosphoribosylformim 71.2 26 0.00056 34.5 9.2 68 5-74 146-217 (230)
194 PRK09415 RNA polymerase factor 71.2 9.4 0.0002 36.0 5.8 50 167-219 127-176 (179)
195 TIGR02960 SigX5 RNA polymerase 71.1 12 0.00027 38.5 7.2 81 166-249 141-231 (324)
196 PRK09643 RNA polymerase sigma 71.1 11 0.00023 36.2 6.3 52 167-221 134-185 (192)
197 PRK07695 transcriptional regul 71.0 44 0.00096 32.3 10.6 85 2-90 101-197 (201)
198 PRK08301 sporulation sigma fac 70.8 11 0.00025 37.1 6.6 52 166-220 177-232 (234)
199 PRK12513 RNA polymerase sigma 70.6 6.5 0.00014 37.4 4.7 51 167-220 139-189 (194)
200 PRK12539 RNA polymerase sigma 70.6 10 0.00023 35.8 6.0 51 167-220 131-181 (184)
201 PRK12538 RNA polymerase sigma 70.5 9 0.0002 38.3 5.8 51 167-220 171-221 (233)
202 PLN02274 inosine-5'-monophosph 70.3 20 0.00043 40.3 9.0 66 7-74 250-316 (505)
203 TIGR01303 IMP_DH_rel_1 IMP deh 70.0 17 0.00037 40.5 8.3 66 6-73 226-292 (475)
204 PF02310 B12-binding: B12 bind 69.4 25 0.00055 30.5 7.8 68 6-75 40-111 (121)
205 PLN02591 tryptophan synthase 69.3 17 0.00037 37.1 7.6 56 34-90 67-128 (250)
206 PRK09639 RNA polymerase sigma 69.2 15 0.00033 33.7 6.7 51 167-221 112-162 (166)
207 cd04729 NanE N-acetylmannosami 69.1 27 0.00059 34.3 8.8 70 3-75 130-206 (219)
208 PRK09648 RNA polymerase sigma 68.9 12 0.00025 35.5 6.0 49 167-218 139-187 (189)
209 TIGR01305 GMP_reduct_1 guanosi 68.6 23 0.00049 38.0 8.4 57 18-75 121-178 (343)
210 PRK05567 inosine 5'-monophosph 68.5 21 0.00046 39.7 8.7 65 7-73 230-295 (486)
211 PRK12526 RNA polymerase sigma 68.5 13 0.00027 36.1 6.2 52 166-220 152-203 (206)
212 PRK08295 RNA polymerase factor 68.2 13 0.00028 35.6 6.2 50 167-220 155-204 (208)
213 PRK09426 methylmalonyl-CoA mut 68.2 35 0.00076 40.0 10.7 87 4-92 620-709 (714)
214 TIGR01182 eda Entner-Doudoroff 68.0 30 0.00064 34.4 8.7 76 4-83 17-94 (204)
215 cd06170 LuxR_C_like C-terminal 68.0 17 0.00037 26.8 5.6 40 169-212 2-41 (57)
216 PRK09646 RNA polymerase sigma 67.8 13 0.00027 35.6 6.0 52 166-220 141-192 (194)
217 PRK12534 RNA polymerase sigma 67.6 13 0.00028 35.1 5.9 50 167-219 137-186 (187)
218 PRK04180 pyridoxal biosynthesi 67.5 42 0.00091 35.2 9.9 62 32-94 190-258 (293)
219 PRK08385 nicotinate-nucleotide 67.5 23 0.00049 36.9 8.1 71 1-74 187-258 (278)
220 TIGR02954 Sig70_famx3 RNA poly 67.3 13 0.00027 34.5 5.7 49 167-218 119-167 (169)
221 PRK12537 RNA polymerase sigma 67.2 12 0.00026 35.3 5.7 48 168-218 134-181 (182)
222 PRK12524 RNA polymerase sigma 66.7 17 0.00037 34.7 6.7 53 166-221 135-187 (196)
223 cd00331 IGPS Indole-3-glycerol 66.5 68 0.0015 31.3 10.9 83 6-89 33-117 (217)
224 CHL00200 trpA tryptophan synth 66.5 19 0.00042 37.0 7.3 56 34-90 80-141 (263)
225 PRK09641 RNA polymerase sigma 66.5 14 0.0003 34.6 5.9 50 167-219 136-185 (187)
226 PRK06096 molybdenum transport 66.3 20 0.00044 37.4 7.5 70 1-74 194-263 (284)
227 PRK12541 RNA polymerase sigma 66.1 13 0.00028 34.2 5.5 49 166-217 111-159 (161)
228 TIGR02985 Sig70_bacteroi1 RNA 66.0 15 0.00033 33.0 5.9 49 166-217 112-160 (161)
229 cd04726 KGPDC_HPS 3-Keto-L-gul 65.9 32 0.00069 32.9 8.4 85 4-89 10-99 (202)
230 PRK09637 RNA polymerase sigma 65.6 17 0.00036 34.6 6.3 52 167-221 106-157 (181)
231 TIGR01306 GMP_reduct_2 guanosi 64.7 26 0.00056 37.2 8.0 56 19-75 109-165 (321)
232 TIGR00736 nifR3_rel_arch TIM-b 64.6 39 0.00085 34.2 9.0 66 8-74 152-219 (231)
233 PRK04128 1-(5-phosphoribosyl)- 64.6 64 0.0014 32.3 10.5 68 4-74 30-101 (228)
234 PF00478 IMPDH: IMP dehydrogen 64.5 26 0.00056 37.7 8.0 68 6-75 109-177 (352)
235 cd04723 HisA_HisF Phosphoribos 64.5 42 0.00091 33.6 9.2 69 4-74 146-217 (233)
236 PRK12704 phosphodiesterase; Pr 64.0 12 0.00027 42.1 5.8 46 47-92 250-297 (520)
237 PRK06552 keto-hydroxyglutarate 63.9 39 0.00084 33.6 8.7 81 4-85 22-104 (213)
238 TIGR02939 RpoE_Sigma70 RNA pol 63.9 15 0.00033 34.4 5.7 49 168-219 139-187 (190)
239 cd01573 modD_like ModD; Quinol 63.7 25 0.00054 36.3 7.6 70 1-74 188-257 (272)
240 PRK09140 2-dehydro-3-deoxy-6-p 63.6 44 0.00096 33.0 9.0 81 4-85 19-99 (206)
241 PRK09635 sigI RNA polymerase s 63.2 18 0.00039 37.5 6.4 80 167-249 118-201 (290)
242 PRK12523 RNA polymerase sigma 63.2 19 0.0004 33.6 6.0 50 166-218 118-167 (172)
243 PRK06986 fliA flagellar biosyn 63.0 19 0.00041 35.7 6.4 50 167-219 184-233 (236)
244 COG0159 TrpA Tryptophan syntha 62.8 30 0.00066 35.8 7.9 57 34-91 82-144 (265)
245 KOG4175 Tryptophan synthase al 62.7 48 0.001 33.3 8.8 50 37-86 86-141 (268)
246 cd02070 corrinoid_protein_B12- 62.7 27 0.00058 34.0 7.3 66 5-74 121-190 (201)
247 TIGR02957 SigX4 RNA polymerase 62.4 19 0.00042 36.8 6.5 80 167-249 108-191 (281)
248 PRK11922 RNA polymerase sigma 62.3 13 0.00029 36.7 5.1 51 168-221 150-200 (231)
249 PF14606 Lipase_GDSL_3: GDSL-l 62.2 11 0.00023 36.8 4.2 49 7-56 49-103 (178)
250 PRK12518 RNA polymerase sigma 62.1 9.5 0.00021 35.5 3.8 52 166-220 119-170 (175)
251 PRK13587 1-(5-phosphoribosyl)- 62.0 52 0.0011 33.1 9.3 69 5-75 149-221 (234)
252 PRK03975 tfx putative transcri 61.9 25 0.00055 33.0 6.5 50 167-220 6-55 (141)
253 cd02069 methionine_synthase_B1 61.7 22 0.00047 35.4 6.5 69 5-74 127-200 (213)
254 PRK15399 lysine decarboxylase 61.5 37 0.0008 39.9 9.1 89 2-93 35-124 (713)
255 PRK09638 RNA polymerase sigma 61.3 11 0.00023 35.2 4.0 48 168-218 127-174 (176)
256 TIGR02026 BchE magnesium-proto 61.3 34 0.00074 38.1 8.6 84 7-92 53-138 (497)
257 TIGR02835 spore_sigmaE RNA pol 60.8 22 0.00047 35.3 6.4 51 167-220 178-232 (234)
258 PRK05096 guanosine 5'-monophos 60.8 31 0.00067 37.0 7.7 54 18-72 122-176 (346)
259 PTZ00314 inosine-5'-monophosph 60.6 37 0.00079 38.1 8.7 56 17-73 252-308 (495)
260 TIGR03151 enACPred_II putative 60.1 54 0.0012 34.3 9.4 70 3-75 116-190 (307)
261 cd04824 eu_ALAD_PBGS_cysteine_ 60.1 32 0.0007 36.4 7.6 65 4-71 222-288 (320)
262 PF01729 QRPTase_C: Quinolinat 60.1 40 0.00086 32.4 7.8 58 33-91 66-123 (169)
263 PRK12525 RNA polymerase sigma 59.9 22 0.00048 33.0 5.9 48 167-217 118-165 (168)
264 PRK04128 1-(5-phosphoribosyl)- 59.9 41 0.00088 33.7 8.1 66 5-74 144-210 (228)
265 TIGR02950 SigM_subfam RNA poly 59.5 9.4 0.0002 34.5 3.3 48 168-218 106-153 (154)
266 COG2185 Sbm Methylmalonyl-CoA 59.5 1E+02 0.0022 29.2 10.0 87 3-91 49-138 (143)
267 PRK09640 RNA polymerase sigma 59.3 11 0.00023 35.9 3.7 51 168-221 135-185 (188)
268 PRK07807 inosine 5-monophospha 59.2 32 0.0007 38.4 7.9 65 7-73 229-294 (479)
269 TIGR00721 tfx DNA-binding prot 59.2 28 0.0006 32.5 6.3 46 167-216 6-51 (137)
270 PF00290 Trp_syntA: Tryptophan 59.0 22 0.00047 36.6 6.1 53 34-86 75-133 (259)
271 PRK08241 RNA polymerase factor 58.9 15 0.00033 38.3 5.1 80 167-249 153-241 (339)
272 TIGR03128 RuMP_HxlA 3-hexulose 58.9 51 0.0011 31.7 8.4 85 4-89 9-98 (206)
273 TIGR01361 DAHP_synth_Bsub phos 58.7 71 0.0015 32.7 9.8 74 5-79 147-234 (260)
274 PRK12528 RNA polymerase sigma 58.5 23 0.0005 32.5 5.7 47 166-215 112-158 (161)
275 PRK07670 RNA polymerase sigma 58.4 24 0.00052 35.4 6.2 50 167-219 201-250 (251)
276 TIGR01163 rpe ribulose-phospha 58.4 1E+02 0.0022 29.4 10.5 79 8-88 15-99 (210)
277 PRK15400 lysine decarboxylase 58.4 40 0.00088 39.6 8.8 88 2-92 35-123 (714)
278 PRK02083 imidazole glycerol ph 58.1 1.1E+02 0.0025 30.6 11.1 79 6-86 155-244 (253)
279 TIGR02937 sigma70-ECF RNA poly 58.1 25 0.00055 30.6 5.7 48 167-217 110-157 (158)
280 PF07638 Sigma70_ECF: ECF sigm 57.9 25 0.00053 33.7 6.0 48 168-218 136-183 (185)
281 TIGR00735 hisF imidazoleglycer 57.9 1.2E+02 0.0026 30.6 11.2 79 6-86 157-246 (254)
282 PRK05803 sporulation sigma fac 57.7 30 0.00064 34.3 6.7 51 167-220 175-229 (233)
283 COG3836 HpcH 2,4-dihydroxyhept 57.6 61 0.0013 33.2 8.7 75 10-86 31-108 (255)
284 cd00331 IGPS Indole-3-glycerol 57.3 78 0.0017 30.9 9.5 70 3-74 128-200 (217)
285 TIGR01037 pyrD_sub1_fam dihydr 57.2 79 0.0017 32.5 9.9 61 34-95 223-289 (300)
286 PF01408 GFO_IDH_MocA: Oxidore 56.1 23 0.0005 30.6 5.0 47 46-92 62-112 (120)
287 COG0269 SgbH 3-hexulose-6-phos 55.4 78 0.0017 31.9 9.1 88 4-92 13-105 (217)
288 PRK12529 RNA polymerase sigma 54.7 28 0.0006 32.8 5.7 47 167-216 127-173 (178)
289 PF00977 His_biosynth: Histidi 54.4 55 0.0012 32.6 8.0 69 5-74 148-219 (229)
290 PF04131 NanE: Putative N-acet 54.3 62 0.0014 32.0 8.0 69 3-75 99-173 (192)
291 TIGR01334 modD putative molybd 54.1 86 0.0019 32.7 9.5 53 35-89 177-229 (277)
292 TIGR00734 hisAF_rel hisA/hisF 54.1 88 0.0019 31.1 9.3 69 5-75 142-213 (221)
293 PRK07455 keto-hydroxyglutarate 53.9 58 0.0013 31.5 7.9 80 3-83 20-99 (187)
294 PRK05657 RNA polymerase sigma 53.8 23 0.0005 37.4 5.4 54 164-220 259-316 (325)
295 PRK06106 nicotinate-nucleotide 53.4 80 0.0017 33.0 9.2 66 1-73 199-264 (281)
296 COG0157 NadC Nicotinate-nucleo 53.3 45 0.00097 34.8 7.2 66 1-72 193-259 (280)
297 PRK09191 two-component respons 53.1 20 0.00043 35.1 4.6 51 166-219 87-137 (261)
298 cd04731 HisF The cyclase subun 52.9 86 0.0019 31.1 9.1 69 5-75 28-100 (243)
299 PF02581 TMP-TENI: Thiamine mo 52.7 60 0.0013 30.9 7.7 69 2-74 101-176 (180)
300 PRK13398 3-deoxy-7-phosphohept 52.6 1.8E+02 0.0039 30.0 11.5 68 7-75 151-232 (266)
301 PRK09651 RNA polymerase sigma 52.2 34 0.00075 31.9 5.9 47 167-216 119-165 (172)
302 PRK08583 RNA polymerase sigma 52.2 34 0.00073 34.4 6.2 50 167-219 205-254 (257)
303 PRK00278 trpC indole-3-glycero 52.2 94 0.002 31.7 9.4 70 2-74 166-239 (260)
304 PRK07239 bifunctional uroporph 51.8 1.7E+02 0.0037 31.1 11.8 49 167-215 306-357 (381)
305 PF01959 DHQS: 3-dehydroquinat 51.8 75 0.0016 34.3 8.8 71 19-91 97-169 (354)
306 CHL00162 thiG thiamin biosynth 51.8 68 0.0015 33.2 8.1 60 34-94 178-242 (267)
307 smart00448 REC cheY-homologous 51.5 22 0.00049 23.2 3.4 9 18-26 44-52 (55)
308 PF06073 DUF934: Bacterial pro 51.3 1.6E+02 0.0035 26.5 9.6 70 18-87 19-90 (110)
309 PRK07259 dihydroorotate dehydr 50.4 1.2E+02 0.0025 31.4 9.9 60 33-93 222-287 (301)
310 KOG2550 IMP dehydrogenase/GMP 50.4 48 0.001 36.5 7.1 66 5-72 251-317 (503)
311 COG1856 Uncharacterized homolo 50.3 64 0.0014 32.9 7.5 69 6-77 168-253 (275)
312 COG0352 ThiE Thiamine monophos 50.2 1.7E+02 0.0037 29.2 10.6 67 2-72 110-183 (211)
313 TIGR02941 Sigma_B RNA polymera 50.0 39 0.00084 33.9 6.2 49 167-218 205-253 (255)
314 PF02887 PK_C: Pyruvate kinase 50.0 40 0.00087 29.8 5.6 69 17-91 15-85 (117)
315 smart00426 TEA TEA domain. 49.9 15 0.00033 30.4 2.6 17 163-179 5-21 (68)
316 PRK07114 keto-hydroxyglutarate 49.9 71 0.0015 32.2 7.9 80 3-84 23-106 (222)
317 PRK05911 RNA polymerase sigma 49.5 41 0.0009 34.0 6.3 50 167-219 205-254 (257)
318 cd04732 HisA HisA. Phosphorib 49.4 1.2E+02 0.0025 29.8 9.4 68 5-74 147-218 (234)
319 PRK07408 RNA polymerase sigma 48.8 40 0.00088 34.0 6.1 50 167-219 203-252 (256)
320 TIGR03471 HpnJ hopanoid biosyn 48.4 72 0.0016 35.1 8.5 63 17-80 67-131 (472)
321 cd04740 DHOD_1B_like Dihydroor 47.3 1.7E+02 0.0038 29.9 10.6 58 34-92 220-283 (296)
322 PRK06552 keto-hydroxyglutarate 47.2 1.9E+02 0.0041 28.8 10.4 64 3-72 116-180 (213)
323 PRK02615 thiamine-phosphate py 46.9 1.6E+02 0.0034 31.7 10.4 68 2-73 246-320 (347)
324 TIGR02370 pyl_corrinoid methyl 46.8 65 0.0014 31.4 7.0 66 5-74 123-192 (197)
325 PRK01033 imidazole glycerol ph 46.7 1.3E+02 0.0027 30.6 9.4 68 5-74 153-225 (258)
326 PF04131 NanE: Putative N-acet 46.7 69 0.0015 31.7 7.0 63 4-72 52-116 (192)
327 cd04730 NPD_like 2-Nitropropan 46.6 1.4E+02 0.003 29.2 9.5 68 5-75 111-185 (236)
328 PRK07896 nicotinate-nucleotide 46.5 80 0.0017 33.1 7.9 54 34-89 187-240 (289)
329 cd01844 SGNH_hydrolase_like_6 46.4 47 0.001 30.9 5.8 46 11-57 51-104 (177)
330 PRK08072 nicotinate-nucleotide 46.1 1E+02 0.0022 32.1 8.5 66 1-74 193-259 (277)
331 PRK05286 dihydroorotate dehydr 46.0 63 0.0014 34.3 7.3 58 34-91 276-341 (344)
332 TIGR02479 FliA_WhiG RNA polyme 45.7 50 0.0011 32.3 6.1 49 166-217 174-222 (224)
333 PRK06806 fructose-bisphosphate 45.7 1.8E+02 0.0038 30.3 10.3 71 2-74 151-229 (281)
334 cd03823 GT1_ExpE7_like This fa 45.7 1.1E+02 0.0025 30.1 8.7 75 7-91 254-328 (359)
335 cd04726 KGPDC_HPS 3-Keto-L-gul 45.5 1.2E+02 0.0026 28.9 8.6 68 3-74 113-185 (202)
336 PRK07455 keto-hydroxyglutarate 45.5 1.3E+02 0.0027 29.2 8.7 64 3-72 112-177 (187)
337 PF03060 NMO: Nitronate monoox 45.4 97 0.0021 32.6 8.6 70 2-74 142-218 (330)
338 TIGR02846 spore_sigmaK RNA pol 45.3 53 0.0011 32.4 6.2 49 166-217 173-225 (227)
339 PRK09016 quinolinate phosphori 45.3 82 0.0018 33.2 7.8 54 34-89 196-249 (296)
340 PRK06512 thiamine-phosphate py 45.3 2.2E+02 0.0048 28.4 10.6 83 4-90 119-212 (221)
341 PRK09140 2-dehydro-3-deoxy-6-p 45.0 2.5E+02 0.0054 27.7 10.9 82 3-90 111-200 (206)
342 PRK09016 quinolinate phosphori 45.0 1.1E+02 0.0024 32.2 8.7 66 1-73 213-278 (296)
343 TIGR03572 WbuZ glycosyl amidat 44.3 1.5E+02 0.0033 29.1 9.4 70 4-75 30-103 (232)
344 TIGR00735 hisF imidazoleglycer 44.0 1.6E+02 0.0035 29.6 9.6 70 4-75 30-103 (254)
345 PRK11840 bifunctional sulfur c 43.8 2.7E+02 0.0058 29.9 11.3 60 33-93 237-301 (326)
346 PRK13125 trpA tryptophan synth 43.6 2.1E+02 0.0045 28.8 10.3 80 8-90 22-126 (244)
347 PRK06288 RNA polymerase sigma 43.5 59 0.0013 33.0 6.4 50 167-219 212-261 (268)
348 PRK13306 ulaD 3-keto-L-gulonat 43.4 1.2E+02 0.0026 30.1 8.4 86 4-90 13-103 (216)
349 TIGR01859 fruc_bis_ald_ fructo 43.2 2E+02 0.0044 29.8 10.3 82 3-91 152-242 (282)
350 PRK13585 1-(5-phosphoribosyl)- 43.0 2.1E+02 0.0045 28.3 10.1 78 5-84 150-237 (241)
351 PRK06543 nicotinate-nucleotide 43.0 1.5E+02 0.0032 31.0 9.2 66 1-73 198-263 (281)
352 TIGR00007 phosphoribosylformim 42.9 2.5E+02 0.0055 27.4 10.6 69 5-75 29-101 (230)
353 PRK07028 bifunctional hexulose 42.9 2.1E+02 0.0045 31.2 10.9 74 17-92 130-212 (430)
354 PRK13125 trpA tryptophan synth 42.7 1.1E+02 0.0023 30.9 8.0 68 7-76 142-215 (244)
355 PRK07764 DNA polymerase III su 42.5 76 0.0016 38.0 7.8 75 17-93 119-195 (824)
356 PF04297 UPF0122: Putative hel 42.3 1E+02 0.0022 27.5 6.8 51 167-220 17-67 (101)
357 TIGR02980 SigBFG RNA polymeras 42.2 59 0.0013 31.8 6.0 48 167-217 178-225 (227)
358 COG0157 NadC Nicotinate-nucleo 42.1 1.1E+02 0.0024 32.0 8.0 56 33-89 174-229 (280)
359 TIGR02859 spore_sigH RNA polym 41.7 49 0.0011 31.3 5.2 35 181-218 163-197 (198)
360 PRK05848 nicotinate-nucleotide 41.5 1E+02 0.0022 32.0 7.8 54 34-89 169-223 (273)
361 PRK08673 3-deoxy-7-phosphohept 41.5 2.7E+02 0.006 29.8 11.2 82 8-90 218-326 (335)
362 PRK02290 3-dehydroquinate synt 41.4 1.3E+02 0.0028 32.4 8.6 70 19-91 89-160 (344)
363 PF01022 HTH_5: Bacterial regu 41.4 60 0.0013 24.1 4.5 37 173-212 5-41 (47)
364 COG0800 Eda 2-keto-3-deoxy-6-p 41.0 1.3E+02 0.0028 30.2 8.1 78 3-83 21-100 (211)
365 PRK13397 3-deoxy-7-phosphohept 40.9 2.1E+02 0.0045 29.5 9.7 73 6-80 138-225 (250)
366 TIGR02394 rpoS_proteo RNA poly 40.9 73 0.0016 32.6 6.6 52 166-220 221-276 (285)
367 PRK13586 1-(5-phosphoribosyl)- 40.8 1.5E+02 0.0032 29.8 8.7 67 5-74 147-217 (232)
368 TIGR03879 near_KaiC_dom probab 40.7 37 0.0008 28.5 3.6 44 161-209 12-55 (73)
369 cd03316 MR_like Mandelate race 40.6 1.3E+02 0.0027 31.7 8.5 78 5-84 201-279 (357)
370 PRK05742 nicotinate-nucleotide 40.6 1.4E+02 0.003 31.1 8.6 66 1-74 194-260 (277)
371 PRK07122 RNA polymerase sigma 40.6 61 0.0013 33.0 6.0 48 167-217 215-262 (264)
372 PF13607 Succ_CoA_lig: Succiny 40.4 1.5E+02 0.0032 27.6 7.9 51 5-56 41-91 (138)
373 TIGR01588 citE citrate lyase, 40.4 2.4E+02 0.0051 29.2 10.3 81 8-89 15-107 (288)
374 cd04731 HisF The cyclase subun 40.3 1.7E+02 0.0037 29.0 9.0 66 7-74 152-222 (243)
375 cd01572 QPRTase Quinolinate ph 40.3 96 0.0021 32.0 7.4 54 35-89 170-223 (268)
376 cd00429 RPE Ribulose-5-phospha 40.2 2.9E+02 0.0063 26.2 10.4 80 7-89 15-101 (211)
377 PF13941 MutL: MutL protein 40.1 2.2E+02 0.0048 31.8 10.5 88 7-95 114-212 (457)
378 PRK07500 rpoH2 RNA polymerase 40.0 74 0.0016 32.9 6.6 51 167-220 227-279 (289)
379 cd02810 DHOD_DHPD_FMN Dihydroo 39.8 1.1E+02 0.0023 31.2 7.7 40 34-73 230-270 (289)
380 TIGR03569 NeuB_NnaB N-acetylne 39.8 2.4E+02 0.0052 30.1 10.4 86 5-93 147-255 (329)
381 PRK07428 nicotinate-nucleotide 39.8 1.3E+02 0.0027 31.6 8.2 55 34-89 183-237 (288)
382 PRK13307 bifunctional formalde 39.6 1.1E+02 0.0025 33.3 8.1 87 4-90 182-273 (391)
383 PRK06559 nicotinate-nucleotide 38.8 97 0.0021 32.5 7.1 54 34-89 184-238 (290)
384 PF02001 DUF134: Protein of un 38.8 1E+02 0.0022 27.7 6.2 54 166-222 40-93 (106)
385 TIGR00078 nadC nicotinate-nucl 38.8 1.4E+02 0.0029 30.8 8.2 66 1-74 183-249 (265)
386 cd00452 KDPG_aldolase KDPG and 38.6 1.8E+02 0.0039 27.9 8.6 79 4-86 13-93 (190)
387 cd02065 B12-binding_like B12 b 38.6 56 0.0012 28.4 4.7 48 5-53 38-87 (125)
388 cd01568 QPRTase_NadC Quinolina 38.6 1.6E+02 0.0034 30.3 8.6 68 1-74 186-254 (269)
389 PLN02716 nicotinate-nucleotide 38.5 1.8E+02 0.0039 30.9 9.1 70 1-73 208-288 (308)
390 PRK09283 delta-aminolevulinic 38.5 1E+02 0.0022 32.9 7.2 64 4-71 225-290 (323)
391 PRK07107 inosine 5-monophospha 38.4 1.4E+02 0.003 33.7 8.7 56 17-74 253-311 (502)
392 PRK14024 phosphoribosyl isomer 38.4 2.4E+02 0.0052 28.2 9.8 78 6-85 148-238 (241)
393 cd00945 Aldolase_Class_I Class 38.1 2.9E+02 0.0063 25.6 9.8 76 7-91 16-108 (201)
394 PRK08385 nicotinate-nucleotide 37.9 95 0.0021 32.3 6.9 55 35-91 171-225 (278)
395 cd02809 alpha_hydroxyacid_oxid 37.8 2E+02 0.0044 29.7 9.4 69 4-74 181-255 (299)
396 PF00534 Glycos_transf_1: Glyc 37.7 2.7E+02 0.0059 25.0 9.3 76 7-93 84-159 (172)
397 PF05690 ThiG: Thiazole biosyn 37.7 1.3E+02 0.0029 30.8 7.6 59 34-93 164-227 (247)
398 PF13412 HTH_24: Winged helix- 37.6 89 0.0019 22.9 5.0 37 172-211 5-42 (48)
399 cd01568 QPRTase_NadC Quinolina 37.4 1.4E+02 0.0031 30.6 8.1 54 35-89 169-222 (269)
400 PRK02083 imidazole glycerol ph 37.4 3.6E+02 0.0078 27.0 10.9 71 4-75 30-103 (253)
401 PRK03512 thiamine-phosphate py 37.1 3.6E+02 0.0079 26.6 10.7 68 2-72 108-183 (211)
402 TIGR03128 RuMP_HxlA 3-hexulose 37.0 3.8E+02 0.0083 25.6 10.8 57 17-74 125-185 (206)
403 PRK06096 molybdenum transport 36.8 1.3E+02 0.0028 31.4 7.7 53 35-89 178-230 (284)
404 PRK00748 1-(5-phosphoribosyl)- 36.8 2.5E+02 0.0054 27.5 9.5 71 4-76 30-104 (233)
405 PF12840 HTH_20: Helix-turn-he 36.8 86 0.0019 24.4 5.0 40 170-212 10-50 (61)
406 TIGR02393 RpoD_Cterm RNA polym 36.6 89 0.0019 31.0 6.3 49 167-218 176-228 (238)
407 cd02922 FCB2_FMN Flavocytochro 36.5 1.8E+02 0.004 31.1 9.0 40 34-75 202-241 (344)
408 PRK00994 F420-dependent methyl 36.4 1.1E+02 0.0025 31.4 6.9 62 14-78 57-118 (277)
409 cd04729 NanE N-acetylmannosami 36.4 2.1E+02 0.0046 27.9 8.9 60 11-74 86-149 (219)
410 PRK06106 nicotinate-nucleotide 36.4 1.4E+02 0.0031 31.1 7.9 54 34-89 181-235 (281)
411 TIGR00078 nadC nicotinate-nucl 36.0 1.6E+02 0.0034 30.4 8.1 54 35-89 166-219 (265)
412 PRK08649 inosine 5-monophospha 35.9 2.1E+02 0.0046 30.9 9.4 65 6-74 143-214 (368)
413 cd02809 alpha_hydroxyacid_oxid 35.9 2E+02 0.0043 29.8 9.0 64 8-74 133-199 (299)
414 cd00561 CobA_CobO_BtuR ATP:cor 35.9 1.2E+02 0.0026 28.9 6.8 46 17-63 94-144 (159)
415 COG0269 SgbH 3-hexulose-6-phos 35.8 3.2E+02 0.007 27.6 9.9 88 3-91 116-213 (217)
416 cd04823 ALAD_PBGS_aspartate_ri 35.7 1.1E+02 0.0024 32.6 6.9 64 4-71 222-287 (320)
417 TIGR00259 thylakoid_BtpA membr 35.7 4.4E+02 0.0095 27.2 11.2 83 5-89 158-252 (257)
418 PRK05581 ribulose-phosphate 3- 35.7 3.5E+02 0.0075 26.1 10.2 80 8-90 20-106 (220)
419 PF02254 TrkA_N: TrkA-N domain 35.4 1.4E+02 0.003 25.6 6.7 62 9-74 54-115 (116)
420 PRK06978 nicotinate-nucleotide 34.7 1.4E+02 0.003 31.4 7.5 53 35-89 194-246 (294)
421 cd00958 DhnA Class I fructose- 34.7 2.6E+02 0.0057 27.5 9.3 68 17-89 155-233 (235)
422 PRK12290 thiE thiamine-phospha 34.6 3E+02 0.0065 30.6 10.4 89 2-93 306-415 (437)
423 PRK08072 nicotinate-nucleotide 34.5 1.6E+02 0.0034 30.7 7.8 55 34-89 175-229 (277)
424 cd04732 HisA HisA. Phosphorib 34.3 2.8E+02 0.0061 27.0 9.4 71 4-76 29-103 (234)
425 TIGR03572 WbuZ glycosyl amidat 34.2 2.8E+02 0.006 27.3 9.4 67 6-74 155-226 (232)
426 PRK07315 fructose-bisphosphate 34.0 3.6E+02 0.0078 28.2 10.5 69 4-74 154-231 (293)
427 COG3010 NanE Putative N-acetyl 33.9 5.1E+02 0.011 26.3 10.8 83 3-89 134-225 (229)
428 cd04723 HisA_HisF Phosphoribos 33.8 3.9E+02 0.0084 26.6 10.4 84 4-90 35-120 (233)
429 PRK13585 1-(5-phosphoribosyl)- 33.7 2.3E+02 0.0051 27.9 8.8 71 4-76 32-106 (241)
430 COG2909 MalT ATP-dependent tra 33.5 44 0.00096 39.8 4.0 39 167-209 831-869 (894)
431 PF04309 G3P_antiterm: Glycero 33.5 33 0.00071 33.4 2.5 62 6-73 106-167 (175)
432 PF08279 HTH_11: HTH domain; 33.5 1.3E+02 0.0028 22.6 5.4 39 173-214 3-43 (55)
433 PRK14114 1-(5-phosphoribosyl)- 33.3 2.2E+02 0.0047 28.9 8.5 69 5-74 145-222 (241)
434 PRK01033 imidazole glycerol ph 33.0 2.7E+02 0.0059 28.2 9.3 71 4-75 30-103 (258)
435 cd00384 ALAD_PBGS Porphobilino 33.0 1.5E+02 0.0033 31.5 7.4 63 4-70 217-281 (314)
436 cd02812 PcrB_like PcrB_like pr 33.0 3.5E+02 0.0076 27.2 9.8 73 5-78 133-207 (219)
437 cd04739 DHOD_like Dihydroorota 32.9 4E+02 0.0086 28.1 10.8 61 34-95 226-293 (325)
438 PRK06978 nicotinate-nucleotide 32.9 2.2E+02 0.0048 30.0 8.7 66 1-73 210-275 (294)
439 PRK12595 bifunctional 3-deoxy- 32.9 2.9E+02 0.0062 29.8 9.8 84 6-90 241-351 (360)
440 PF07364 DUF1485: Protein of u 32.9 1.5E+02 0.0032 31.1 7.4 47 7-54 85-139 (292)
441 TIGR01949 AroFGH_arch predicte 32.7 2.8E+02 0.006 28.0 9.3 70 17-91 168-248 (258)
442 cd01827 sialate_O-acetylestera 32.7 1.4E+02 0.0031 27.6 6.8 40 17-56 66-118 (188)
443 cd01572 QPRTase Quinolinate ph 32.5 2.3E+02 0.0049 29.2 8.6 65 1-73 187-252 (268)
444 PRK08215 sporulation sigma fac 32.5 1E+02 0.0023 30.9 6.1 48 167-217 209-256 (258)
445 PRK01130 N-acetylmannosamine-6 32.4 2.4E+02 0.0052 27.5 8.6 59 10-72 81-143 (221)
446 cd03820 GT1_amsD_like This fam 32.3 2.2E+02 0.0047 27.6 8.2 67 19-92 253-319 (348)
447 PF00448 SRP54: SRP54-type pro 32.2 1.8E+02 0.0038 28.4 7.4 82 8-90 74-164 (196)
448 PLN02274 inosine-5'-monophosph 32.1 2.2E+02 0.0047 32.1 9.1 70 3-75 297-380 (505)
449 PRK06559 nicotinate-nucleotide 31.8 2.2E+02 0.0047 30.0 8.4 66 1-73 202-267 (290)
450 PF01136 Peptidase_U32: Peptid 31.6 3.7E+02 0.0081 26.2 9.8 75 6-88 4-81 (233)
451 PRK04169 geranylgeranylglycery 31.5 3.2E+02 0.0069 27.7 9.3 72 17-88 153-226 (232)
452 PLN02898 HMP-P kinase/thiamin- 31.5 3E+02 0.0065 30.7 10.0 65 2-70 396-467 (502)
453 PRK08508 biotin synthase; Prov 31.5 5.3E+02 0.012 26.4 11.2 70 4-73 40-117 (279)
454 PF03437 BtpA: BtpA family; I 31.3 3.8E+02 0.0082 27.6 9.9 81 5-89 159-252 (254)
455 cd00429 RPE Ribulose-5-phospha 31.2 1.4E+02 0.0031 28.3 6.6 66 7-75 118-194 (211)
456 PRK14949 DNA polymerase III su 30.9 1.3E+02 0.0028 36.5 7.3 74 18-93 119-194 (944)
457 PRK07565 dihydroorotate dehydr 30.8 3.1E+02 0.0068 28.8 9.6 59 35-94 229-294 (334)
458 COG0763 LpxB Lipid A disacchar 30.7 1.2E+02 0.0025 33.1 6.4 46 8-56 76-121 (381)
459 cd02911 arch_FMN Archeal FMN-b 30.4 2.6E+02 0.0057 28.0 8.5 65 5-73 153-218 (233)
460 PRK12656 fructose-6-phosphate 30.3 5.8E+02 0.013 25.7 12.4 49 19-74 82-131 (222)
461 cd01573 modD_like ModD; Quinol 30.1 1.6E+02 0.0034 30.5 7.0 54 34-89 171-224 (272)
462 TIGR01304 IMP_DH_rel_2 IMP deh 30.1 2.9E+02 0.0063 30.0 9.3 65 5-73 143-214 (369)
463 PLN02522 ATP citrate (pro-S)-l 29.9 4.1E+02 0.009 30.8 10.9 85 4-92 208-316 (608)
464 cd03319 L-Ala-DL-Glu_epimerase 29.9 2.3E+02 0.0049 29.3 8.3 82 5-88 189-271 (316)
465 PRK13384 delta-aminolevulinic 29.9 1.5E+02 0.0033 31.5 6.9 64 4-71 226-291 (322)
466 COG1411 Uncharacterized protei 29.6 2.3E+02 0.005 28.5 7.6 68 7-75 140-210 (229)
467 cd03114 ArgK-like The function 29.6 1.6E+02 0.0034 27.3 6.3 44 6-55 80-123 (148)
468 PF01993 MTD: methylene-5,6,7, 29.6 1.5E+02 0.0032 30.6 6.4 63 13-78 55-117 (276)
469 TIGR00708 cobA cob(I)alamin ad 29.3 1.4E+02 0.0031 28.9 6.1 45 17-62 96-145 (173)
470 COG2109 BtuR ATP:corrinoid ade 29.2 1.7E+02 0.0036 29.2 6.6 52 8-61 113-169 (198)
471 PRK05742 nicotinate-nucleotide 29.1 2.2E+02 0.0047 29.6 7.9 53 35-89 178-230 (277)
472 TIGR02320 PEP_mutase phosphoen 28.9 2.4E+02 0.0052 29.4 8.1 86 5-90 167-255 (285)
473 cd03818 GT1_ExpC_like This fam 28.7 2E+02 0.0044 30.2 7.8 57 29-92 310-366 (396)
474 PF00490 ALAD: Delta-aminolevu 28.7 1.3E+02 0.0029 32.0 6.2 64 4-71 227-292 (324)
475 COG4999 Uncharacterized domain 28.6 90 0.0019 28.9 4.3 69 17-85 50-120 (140)
476 cd03798 GT1_wlbH_like This fam 28.5 1.9E+02 0.0041 28.3 7.1 67 19-93 279-345 (377)
477 TIGR01769 GGGP geranylgeranylg 28.5 3.4E+02 0.0075 26.9 8.8 69 5-74 132-204 (205)
478 cd03801 GT1_YqgM_like This fam 27.9 2.5E+02 0.0055 27.2 7.9 75 7-92 267-341 (374)
479 PRK13695 putative NTPase; Prov 27.8 2.9E+02 0.0064 25.6 8.0 73 17-90 95-172 (174)
480 PRK05572 sporulation sigma fac 27.8 1.4E+02 0.0031 29.8 6.2 49 167-218 202-250 (252)
481 TIGR03586 PseI pseudaminic aci 27.7 2.3E+02 0.0049 30.3 7.8 85 5-92 148-253 (327)
482 PF13936 HTH_38: Helix-turn-he 27.7 1.1E+02 0.0023 22.6 3.9 34 172-208 9-42 (44)
483 TIGR01579 MiaB-like-C MiaB-lik 27.6 2.1E+02 0.0045 31.0 7.8 71 18-89 33-107 (414)
484 PRK08185 hypothetical protein; 27.5 2.7E+02 0.0059 29.1 8.2 82 3-91 148-240 (283)
485 cd03795 GT1_like_4 This family 27.4 4.3E+02 0.0094 26.3 9.6 69 19-93 264-333 (357)
486 smart00550 Zalpha Z-DNA-bindin 27.2 1.6E+02 0.0036 23.7 5.3 40 168-210 7-46 (68)
487 PRK14700 recombination factor 27.2 3.4E+02 0.0074 28.7 8.9 34 59-92 21-54 (300)
488 PRK06543 nicotinate-nucleotide 27.1 2.5E+02 0.0055 29.3 7.9 54 34-89 180-234 (281)
489 cd01838 Isoamyl_acetate_hydrol 27.0 2.6E+02 0.0056 25.7 7.4 40 18-57 63-118 (199)
490 PRK05581 ribulose-phosphate 3- 27.0 3.6E+02 0.0077 26.0 8.6 68 6-75 121-198 (220)
491 cd00945 Aldolase_Class_I Class 26.9 1.8E+02 0.0039 26.9 6.4 41 33-73 158-199 (201)
492 cd02940 DHPD_FMN Dihydropyrimi 26.9 2.3E+02 0.005 29.3 7.7 41 34-74 239-280 (299)
493 TIGR01919 hisA-trpF 1-(5-phosp 26.8 3.8E+02 0.0082 27.1 9.0 69 5-74 150-224 (243)
494 COG2070 Dioxygenases related t 26.8 2.1E+02 0.0046 30.5 7.5 68 3-72 134-210 (336)
495 cd00516 PRTase_typeII Phosphor 26.7 1.6E+02 0.0035 29.9 6.4 70 2-73 190-265 (281)
496 PRK15484 lipopolysaccharide 1, 26.7 2.9E+02 0.0063 29.2 8.6 67 19-92 277-344 (380)
497 cd03315 MLE_like Muconate lact 26.5 2.7E+02 0.0059 27.9 8.0 77 5-83 141-218 (265)
498 PRK04302 triosephosphate isome 26.3 1.7E+02 0.0036 29.0 6.2 55 35-89 162-218 (223)
499 KOG3841 TEF-1 and related tran 26.2 1.5E+02 0.0032 32.4 6.0 60 162-221 77-152 (455)
500 cd04737 LOX_like_FMN L-Lactate 26.0 3.4E+02 0.0074 29.2 8.9 68 5-74 231-304 (351)
No 1
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=99.73 E-value=7.7e-17 Score=157.94 Aligned_cols=156 Identities=24% Similarity=0.341 Sum_probs=127.0
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.+++++++.++. ..||+||+|+.||+++|+++++.|++..|+++||++|.+.+...+.+++++||++|+.|..++++
T Consensus 31 ~a~~~~~~l~~~~~-~~pdvvl~Dl~mP~~~G~e~~~~l~~~~p~~~vvvlt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~ 109 (211)
T COG2197 31 EASNGEEALDLARE-LKPDVVLLDLSMPGMDGLEALKQLRARGPDIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEE 109 (211)
T ss_pred EeCCHHHHHHHhhh-cCCCEEEEcCCCCCCChHHHHHHHHHHCCCCcEEEEeccCCHHHHHHHHHcCCCEEEeCCCCHHH
Confidence 46679999999877 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++.+..+.++..... +. .... . .. .+. .
T Consensus 110 l~~ai~~v~~G~~~~~~~~~~~------------------~~---~~~~-~---------------~~-~~~-------~ 144 (211)
T COG2197 110 LVEAIRAVAAGGTYLPPDIARK------------------LA---GLLP-S---------------SS-AEA-------P 144 (211)
T ss_pred HHHHHHHHHCCCeEeCHHHHHH------------------HH---hhcc-c---------------cc-ccc-------c
Confidence 9999999998876554322110 00 0000 0 00 000 0
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQK 209 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQK 209 (534)
.. ..|++|+.++++.+..+.. +|+|++.|+ +|..||+.|+..
T Consensus 145 ~~--~~LT~RE~eVL~lla~G~s-nkeIA~~L~---iS~~TVk~h~~~ 186 (211)
T COG2197 145 LA--ELLTPRELEVLRLLAEGLS-NKEIAEELN---LSEKTVKTHVSN 186 (211)
T ss_pred cc--CCCCHHHHHHHHHHHCCCC-HHHHHHHHC---CCHhHHHHHHHH
Confidence 00 4699999999999986666 999999999 999999999765
No 2
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=99.67 E-value=7.6e-16 Score=147.28 Aligned_cols=146 Identities=22% Similarity=0.309 Sum_probs=119.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.++|..... ..|-++|+|++||+++|+++.++|.+.....|||++|++.|.....++++.||.|||.||++...
T Consensus 33 ~~~s~~~fL~~~~~-~~pGclllDvrMPg~sGlelq~~L~~~~~~~PVIfiTGhgDIpmaV~AmK~GAvDFLeKP~~~q~ 111 (202)
T COG4566 33 CFASAEEFLAAAPL-DRPGCLLLDVRMPGMSGLELQDRLAERGIRLPVIFLTGHGDIPMAVQAMKAGAVDFLEKPFSEQD 111 (202)
T ss_pred eecCHHHHHhhccC-CCCCeEEEecCCCCCchHHHHHHHHhcCCCCCEEEEeCCCChHHHHHHHHcchhhHHhCCCchHH
Confidence 56788888888654 78999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|.++|+++++........... ..++ .
T Consensus 112 Lldav~~Al~~~~~~~~~~~~---------------~~~~------~--------------------------------- 137 (202)
T COG4566 112 LLDAVERALARDASRRAEADR---------------QAAI------R--------------------------------- 137 (202)
T ss_pred HHHHHHHHHHHHHHHHHhHHH---------------HHHH------H---------------------------------
Confidence 999999999764422110000 0000 0
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHL 207 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHL 207 (534)
.-...|++|+.+++..+-.+.. +|.|+..|+ ++..||+.|-
T Consensus 138 -~~l~tLT~RERqVl~~vV~G~~-NKqIA~dLg---iS~rTVe~HR 178 (202)
T COG4566 138 -ARLATLTPRERQVLDLVVRGLM-NKQIAFDLG---ISERTVELHR 178 (202)
T ss_pred -HHHHhcCHHHHHHHHHHHcCcc-cHHHHHHcC---CchhhHHHHH
Confidence 0113488999999999975555 999999999 8899999883
No 3
>PRK11475 DNA-binding transcriptional activator BglJ; Provisional
Probab=99.67 E-value=1.8e-15 Score=148.16 Aligned_cols=148 Identities=12% Similarity=0.137 Sum_probs=119.3
Q ss_pred eecCHHHHHHHHHhcCCceEEE---EeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHH-HcCCcEEEeCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVV---TDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKAL-ASGVAFYILKPL 77 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVL---LDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL-~aGA~dyL~KP~ 77 (534)
++.+++++++.+.. ..||+|| +|+.||+++|++++++|++..|.+|||++|+.++......++ ++||.+||.||.
T Consensus 22 ~~~~~~~~l~~~~~-~~pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p~~~iIvlt~~~~~~~~~~~~~~~Ga~gyl~K~~ 100 (207)
T PRK11475 22 TFSSQSSFQDAMSR-ISFSAVIFSLSAMRSERREGLSCLTELAIKFPRMRRLVIADDDIEARLIGSLSPSPLDGVLSKAS 100 (207)
T ss_pred EeCCHHHHHHHhcc-CCCCEEEeeccccCCCCCCHHHHHHHHHHHCCCCCEEEEeCCCCHHHHHHHHHHcCCeEEEecCC
Confidence 46789999998876 6799998 688899999999999999999999999999988777666655 799999999999
Q ss_pred ChHHHHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCC
Q 043479 78 NPDDLKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAP 157 (534)
Q Consensus 78 s~eeL~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~ 157 (534)
+.++|.++|+.++++......... . . . .. .
T Consensus 101 ~~~eL~~aI~~v~~G~~~~~~~~~---------------------~------~---------~-----------~~---~ 130 (207)
T PRK11475 101 TLEILQQELFLSLNGVRQATDRLN---------------------N------Q---------W-----------YI---N 130 (207)
T ss_pred CHHHHHHHHHHHHCCCcccCHHHH---------------------H------H---------h-----------hc---c
Confidence 999999999999876543321100 0 0 0 00 0
Q ss_pred CCCCccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHH
Q 043479 158 KKPKVAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKY 210 (534)
Q Consensus 158 kKprv~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKy 210 (534)
. ...|+.|+.++++.+..++. +|+|++.|+ +|..||+.|+.+.
T Consensus 131 ---~---~~~LT~RE~eVL~ll~~G~s-nkeIA~~L~---iS~~TV~~h~~~I 173 (207)
T PRK11475 131 ---Q---SRMLSPTEREILRFMSRGYS-MPQIAEQLE---RNIKTIRAHKFNV 173 (207)
T ss_pred ---C---cCCCCHHHHHHHHHHHCCCC-HHHHHHHHC---CCHHHHHHHHHHH
Confidence 0 12499999999999986655 999999999 9999999997765
No 4
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.65 E-value=1.3e-16 Score=163.44 Aligned_cols=91 Identities=44% Similarity=0.616 Sum_probs=75.0
Q ss_pred ccCCCCCCccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH----HHhhhcccCC---
Q 043479 154 ATAPKKPKVAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKR----VAEQGASAMG--- 226 (534)
Q Consensus 154 ~ss~kKprv~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr----~a~~~~~~~~--- 226 (534)
....||+|++||.+||++|+++|++||.++++||+|+++|+|+|||+++|+|||||||+++++ .+++..+...
T Consensus 230 ~~g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l~~rEaEa~swt~kr~~ 309 (526)
T PLN03162 230 APGKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHLAAREAEAASWTHRRAY 309 (526)
T ss_pred CCCCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccccchhhhhccchhhhhh
Confidence 456899999999999999999999999999999999999999999999999999999999984 4444433321
Q ss_pred -chhHhhhhhcccchHHHH
Q 043479 227 -KTLALRSSFASGHVSMML 244 (534)
Q Consensus 227 -~~~~lr~~~~sg~~~~~~ 244 (534)
..-..|+++++|.+.+|=
T Consensus 310 ~~~P~~rs~~~~g~p~~~p 328 (526)
T PLN03162 310 TQAPWPRSSRRDGLPYLVP 328 (526)
T ss_pred ccCCcccCCCCCCCccccc
Confidence 112467777877777654
No 5
>PRK10840 transcriptional regulator RcsB; Provisional
Probab=99.63 E-value=1.5e-14 Score=139.74 Aligned_cols=155 Identities=18% Similarity=0.237 Sum_probs=122.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
++.++.++++.+.. ..|||||+|+.||+ .+|++++++|++..|.+|||++|...+......+++.||++||.||.+
T Consensus 34 ~~~~~~~~~~~~~~-~~~DlvllD~~l~~~~~~~g~~~~~~l~~~~~~~~iIvls~~~~~~~~~~a~~~Ga~~yl~K~~~ 112 (216)
T PRK10840 34 EFEDSTALINNLPK-LDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGA 112 (216)
T ss_pred EECCHHHHHHHHHh-CCCCEEEEeCcCCCCCCCCHHHHHHHHHHHCCCCcEEEEEecCCHHHHHHHHHCCCeEEEECCCC
Confidence 36789999998876 68999999999999 599999999998889999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCC
Q 043479 79 PDDLKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPK 158 (534)
Q Consensus 79 ~eeL~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~k 158 (534)
.++|..+|+.++.++...+... ..++.. . . . ..
T Consensus 113 ~~~l~~ai~~v~~g~~~~~~~~------------------~~~~~~-----~-~-----~-------------~~----- 145 (216)
T PRK10840 113 PTDLPKALAALQKGKKFTPESV------------------SRLLEK-----I-S-----A-------------GG----- 145 (216)
T ss_pred HHHHHHHHHHHHCCCeecCHHH------------------HHHHHH-----h-c-----c-------------CC-----
Confidence 9999999999886654322100 000000 0 0 0 00
Q ss_pred CCCccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 159 KPKVAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 159 Kprv~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
. -...|+.|+.+++..+..+.. .|+|++.|+ +|..||++|+.+.-.
T Consensus 146 -~---~~~~Lt~rE~evl~~~~~G~s-~~eIA~~l~---iS~~TV~~h~~~i~~ 191 (216)
T PRK10840 146 -Y---GDKRLSPKESEVLRLFAEGFL-VTEIAKKLN---RSIKTISSQKKSAMM 191 (216)
T ss_pred -C---ccccCCHHHHHHHHHHHCCCC-HHHHHHHHC---CCHHHHHHHHHHHHH
Confidence 0 012499999999999985544 999999999 999999999876433
No 6
>PRK09483 response regulator; Provisional
Probab=99.60 E-value=3.8e-14 Score=134.40 Aligned_cols=159 Identities=18% Similarity=0.235 Sum_probs=124.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..++++.+.. ..||+||+|+.+++.+|+++++.+++..+.+|||+++...+......++..|+++|+.||++.++
T Consensus 32 ~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~ 110 (217)
T PRK09483 32 EACCGEDAVKWCRT-NAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQE 110 (217)
T ss_pred EeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHHCCCCeEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHH
Confidence 36788999998887 78999999999999999999999999889999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|++++++......... ........ . .. .
T Consensus 111 l~~~i~~~~~g~~~~~~~~~---------------------~~~~~~~~-----~---------------~~-------~ 142 (217)
T PRK09483 111 VVSAIRSVHSGQRYIASDIA---------------------QQMALSQI-----E---------------PA-------T 142 (217)
T ss_pred HHHHHHHHHCCCcccCHHHH---------------------HHHHHhhc-----c---------------cC-------C
Confidence 99999998866543221100 00000000 0 00 0
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIF 213 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~ 213 (534)
-.....|+.|+.+++..+..++. .|+|++.|+ ++..||+.|+++++..
T Consensus 143 ~~~~~~Lt~rE~~vl~~~~~G~~-~~~Ia~~l~---is~~TV~~~~~~i~~K 190 (217)
T PRK09483 143 ENPFASLSERELQIMLMITKGQK-VNEISEQLN---LSPKTVNSYRYRMFSK 190 (217)
T ss_pred CccccccCHHHHHHHHHHHCCCC-HHHHHHHhC---CCHHHHHHHHHHHHHH
Confidence 01223589999999999975554 899999998 8999999998887664
No 7
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=99.59 E-value=9.7e-14 Score=135.57 Aligned_cols=165 Identities=14% Similarity=0.157 Sum_probs=119.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..|||||+|+.||+++|+++++.|++..+.++||++|+..+.....++++.||++||.||++.++
T Consensus 35 ~a~~~~~al~~~~~-~~pdlvllD~~mp~~~gle~~~~l~~~~~~~~iivls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~ 113 (225)
T PRK10046 35 LAGNLAQARMMIER-FKPGLILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYER 113 (225)
T ss_pred EECCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEEcCCCHHHHHHHHHcCccEEEECCcCHHH
Confidence 46789999999987 78999999999999999999999998777799999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+++..++......... .....+...... . . . +. +.+.
T Consensus 114 L~~~i~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~----~-~-----------------~-~~----~~~~ 155 (225)
T PRK10046 114 LGQTLTRFRQRKHMLESIDSA-----------SQKQIDEMFNAY----A-R-----------------G-EP----KDEL 155 (225)
T ss_pred HHHHHHHHHHHHHHHhccCcc-----------CHHHHHHHHhhc----c-c-----------------c-cc----cccC
Confidence 999999988776543210000 000000000000 0 0 0 00 0000
Q ss_pred ccCCchhhHHHHHHHHHhccC--CCcHHHHHHHcCCCCCCHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLE--KAVPKKILEFMNVPGLTRENVASHLQKY 210 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGle--kAvpK~ILe~M~V~GLT~~tVaSHLQKy 210 (534)
..-...|+.+ ++++.+... ....|+|++.|+ |++.||+.|+...
T Consensus 156 ~~~~~~Lt~r--~Vl~~~~~g~~g~s~~eIa~~l~---iS~~Tv~~~~~~~ 201 (225)
T PRK10046 156 PTGIDPLTLN--AVRKLFKEPGVQHTAETVAQALT---ISRTTARRYLEYC 201 (225)
T ss_pred CCCCCHHHHH--HHHHHHHcCCCCcCHHHHHHHhC---ccHHHHHHHHHHH
Confidence 0001246666 677777533 356999999999 9999999998654
No 8
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=99.58 E-value=4.4e-14 Score=140.47 Aligned_cols=91 Identities=26% Similarity=0.455 Sum_probs=84.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
++.++++|++.+.. . ||+||+|++||+++|++++++||+. ...+|||++|+..+......++++||+|||.|||++.
T Consensus 29 ~~~~~~~a~~~~~~-~-~dlviLD~~lP~~dG~~~~~~iR~~~~~~~PIi~Lta~~~~~d~v~gl~~GADDYl~KPf~~~ 106 (229)
T COG0745 29 VAADGEEALEAARE-Q-PDLVLLDLMLPDLDGLELCRRLRAKKGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPR 106 (229)
T ss_pred EECCHHHHHHHHhc-C-CCEEEEECCCCCCCHHHHHHHHHhhcCCCCcEEEEECCCcHHHHHHHHhCcCCeeeeCCCCHH
Confidence 57789999999987 6 9999999999999999999999953 5568999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhh
Q 043479 81 DLKNVWQYAMTYKK 94 (534)
Q Consensus 81 eL~~aI~~aL~~k~ 94 (534)
||...|+.++++..
T Consensus 107 EL~ARi~a~lRR~~ 120 (229)
T COG0745 107 ELLARLRALLRRNA 120 (229)
T ss_pred HHHHHHHHHHCcCc
Confidence 99999999997754
No 9
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=99.57 E-value=2.7e-14 Score=138.99 Aligned_cols=94 Identities=28% Similarity=0.366 Sum_probs=88.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
+|.+.+||...++. ..|||||+|+.||+.+|++++.+++..+..+-||++|+..+.+.+.++++.||.|||.|||..+.
T Consensus 31 ~A~~~~ea~~~i~~-~~pDLILLDiYmPd~~Gi~lL~~ir~~~~~~DVI~iTAA~d~~tI~~alr~Gv~DYLiKPf~~eR 109 (224)
T COG4565 31 TAGTLEEAKMIIEE-FKPDLILLDIYMPDGNGIELLPELRSQHYPVDVIVITAASDMETIKEALRYGVVDYLIKPFTFER 109 (224)
T ss_pred eeccHHHHHHHHHh-hCCCEEEEeeccCCCccHHHHHHHHhcCCCCCEEEEeccchHHHHHHHHhcCchhheecceeHHH
Confidence 57899999999997 78999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhc
Q 043479 82 LKNVWQYAMTYKKAK 96 (534)
Q Consensus 82 L~~aI~~aL~~k~~~ 96 (534)
|..++.+..+++...
T Consensus 110 l~~aL~~y~~~r~~l 124 (224)
T COG4565 110 LQQALTRYRQKRHAL 124 (224)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999988776543
No 10
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=99.51 E-value=4.8e-13 Score=131.68 Aligned_cols=92 Identities=25% Similarity=0.325 Sum_probs=82.3
Q ss_pred eecCHHHHHHHHHh-cCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRI-QRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~-~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.+..++++.+.. ...||+||+|+.||+++|+++++.+++..+.+|||++|+..+.....+++..|+++||.||++.+
T Consensus 32 ~~~~~~~a~~~~~~~~~~~DlvilD~~~p~~~G~eli~~l~~~~~~~~vI~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~ 111 (239)
T PRK10430 32 TASTLEQAKEIIFNSDTPIDLILLDIYMQQENGLDLLPVLHEAGCKSDVIVISSAADAATIKDSLHYGVVDYLIKPFQAS 111 (239)
T ss_pred EeCCHHHHHHHHHhcCCCCCEEEEecCCCCCCcHHHHHHHHhhCCCCCEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHH
Confidence 35678889888752 25699999999999999999999999988899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHh
Q 043479 81 DLKNVWQYAMTYK 93 (534)
Q Consensus 81 eL~~aI~~aL~~k 93 (534)
+|..+|++++...
T Consensus 112 ~l~~~i~~~~~~~ 124 (239)
T PRK10430 112 RFEEALTGWRQKK 124 (239)
T ss_pred HHHHHHHHHHHHH
Confidence 9999998876543
No 11
>PRK09958 DNA-binding transcriptional activator EvgA; Provisional
Probab=99.50 E-value=1.3e-12 Score=122.67 Aligned_cols=157 Identities=18% Similarity=0.186 Sum_probs=122.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..++++.+.. ..||+||+|+.+|+++|+++++.++...+..|||++++..+......++..|+++||.||++.++
T Consensus 30 ~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~ga~~~i~kp~~~~~ 108 (204)
T PRK09958 30 ELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNN 108 (204)
T ss_pred EeCCHHHHHHHHHc-cCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEEeCCCCHHHHHHHHHCCCCEEEecCCCHHH
Confidence 36788999998886 78999999999999999999999998888899999999999899999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++++....+. ....... ... ....+
T Consensus 109 l~~~i~~~~~~~~~~~~------------------~~~~~~~----~~~--------------------------~~~~~ 140 (204)
T PRK09958 109 IIAAIEAAKNGYCYFPF------------------SLNRFVG----SLT--------------------------SDQQK 140 (204)
T ss_pred HHHHHHHHHcCCcccCH------------------HHHHHHH----hcc--------------------------CCCcc
Confidence 99999998755322110 0000000 000 00001
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
...|+.++.+++..+.... ..++|++.++ ++..+|+.|+.+.|..+
T Consensus 141 ---~~~lt~~E~~vl~~l~~g~-~~~~I~~~l~---~s~~tv~~~~~~l~~Kl 186 (204)
T PRK09958 141 ---LDSLSKQEISVMRYILDGK-DNNDIAEKMF---ISNKTVSTYKSRLMEKL 186 (204)
T ss_pred ---cccCCHHHHHHHHHHHcCC-CHHHHHHHhC---CCHHHHHHHHHHHHHHc
Confidence 1348889999999996444 4899999998 99999999998887744
No 12
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=99.49 E-value=3.4e-13 Score=132.85 Aligned_cols=155 Identities=8% Similarity=0.121 Sum_probs=114.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHH-HHHHhhCCCCcEEEEecCCCHHHHHHHHH--cCCcEEEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQ-KEINEEFTHLPVMVMSSDDRESVIMKALA--SGVAFYILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL-~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~--aGA~dyL~KP~s 78 (534)
.+.++.++++.+. +|||||+|+.||+++|++++ +.+++..|.++||++|+.++. ...++. +||.+||.|+.+
T Consensus 39 ~~~~~~~~~~~~~---~~DvvllDi~~p~~~G~~~~~~~i~~~~p~~~vvvlt~~~~~--~~~~~~~~~Ga~G~l~K~~~ 113 (216)
T PRK10100 39 KLHNIQRSLDDIS---SGSIILLDMMEADKKLIHYWQDTLSRKNNNIKILLLNTPEDY--PYREIENWPHINGVFYAMED 113 (216)
T ss_pred EEcCHHHhhccCC---CCCEEEEECCCCCccHHHHHHHHHHHhCCCCcEEEEECCchh--HHHHHHHhcCCeEEEECCCC
Confidence 3567788887643 49999999999999999997 568888999999999998763 334454 599999999999
Q ss_pred hHHHHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCC
Q 043479 79 PDDLKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPK 158 (534)
Q Consensus 79 ~eeL~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~k 158 (534)
.++|.++|+.+++++.+.++.... .+... . ... . . ..
T Consensus 114 ~~~L~~aI~~v~~G~~~~~~~~~~-----------------~l~~~-----~-~~~---~--------------~---~~ 150 (216)
T PRK10100 114 QERVVNGLQGVLRGECYFTQKLAS-----------------YLITH-----S-GNY---R--------------Y---NS 150 (216)
T ss_pred HHHHHHHHHHHHcCCcccCHHHHH-----------------HHHHh-----h-ccc---c--------------c---CC
Confidence 999999999999876655422110 00000 0 000 0 0 00
Q ss_pred CCCccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 159 KPKVAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 159 Kprv~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
++ ...|+.|+.+++..+..+.. .|+|++.|+ ++..||+.|+.+...
T Consensus 151 ~~----~~~Lt~rE~~Vl~l~~~G~s-~~eIA~~L~---iS~~TVk~~~~~i~~ 196 (216)
T PRK10100 151 TE----SALLTHREKEILNKLRIGAS-NNEIARSLF---ISENTVKTHLYNLFK 196 (216)
T ss_pred Cc----cCCCCHHHHHHHHHHHcCCC-HHHHHHHhC---CCHHHHHHHHHHHHH
Confidence 00 12489999999999986555 999999999 999999999877644
No 13
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=99.49 E-value=1.1e-13 Score=149.14 Aligned_cols=90 Identities=30% Similarity=0.472 Sum_probs=86.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
+|.++.||++.+.+ .+|||||+|+.||+|||+++++.+++..|++.+||+|+.++.+++.+|++.|+.+||+||++.++
T Consensus 33 tA~NG~eAleli~e-~~pDiviTDI~MP~mdGLdLI~~ike~~p~~~~IILSGy~eFeYak~Am~lGV~dYLLKP~~k~e 111 (475)
T COG4753 33 TAANGKEALELIQE-TQPDIVITDINMPGMDGLDLIKAIKEQSPDTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKAE 111 (475)
T ss_pred ecccHHHHHHHHHh-cCCCEEEEecCCCCCcHHHHHHHHHHhCCCceEEEEeccchhHHHHHHHhcCchhheeCcCCHHH
Confidence 58899999999998 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHH
Q 043479 82 LKNVWQYAMTY 92 (534)
Q Consensus 82 L~~aI~~aL~~ 92 (534)
|..++.++...
T Consensus 112 L~~~L~ki~~k 122 (475)
T COG4753 112 LEEALKKIIGK 122 (475)
T ss_pred HHHHHHHHHHH
Confidence 99999998765
No 14
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=99.46 E-value=1.7e-12 Score=126.72 Aligned_cols=144 Identities=12% Similarity=0.059 Sum_probs=114.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCC--CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE-EEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLH--MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF-YILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~--mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d-yL~KP~s 78 (534)
.+.+++++++.+.. .+|||||+|+. ++..+|.+++++|++..|.++||++|+..+..... ++..++.. |+.|+.+
T Consensus 32 ~~~~~~~~~~~~~~-~~pDlvLlDl~~~l~~~~g~~~i~~i~~~~p~~~iivlt~~~~~~~~~-~~~~~~~~~~~~K~~~ 109 (207)
T PRK15411 32 DIETVDDLAIACDS-LRPSVVFINEDCFIHDASNSQRIKQIINQHPNTLFIVFMAIANIHFDE-YLLVRKNLLISSKSIK 109 (207)
T ss_pred ecCCHHHHHHHHhc-cCCCEEEEeCcccCCCCChHHHHHHHHHHCCCCeEEEEECCCchhHHH-HHHHHhhceeeeccCC
Confidence 36789999998876 68999999966 88889999999999999999999999988776543 55555544 8899999
Q ss_pred hHHHHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCC
Q 043479 79 PDDLKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPK 158 (534)
Q Consensus 79 ~eeL~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~k 158 (534)
+++|..+|+.++.++...+. . . ..
T Consensus 110 ~~~L~~aI~~v~~g~~~~~~-------------------------------~-~------------------------~~ 133 (207)
T PRK15411 110 PESLDDLLGDILKKETTITS-------------------------------F-L------------------------NL 133 (207)
T ss_pred HHHHHHHHHHHHcCCcccCc-------------------------------c-c------------------------cC
Confidence 99999999999765432210 0 0 00
Q ss_pred CCCccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 159 KPKVAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 159 Kprv~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
.+ ..|++|+.+++..+..+.. .|+|++.|+ +|..||+.|+.+...
T Consensus 134 ~~-----~~LT~RE~eVL~lla~G~s-nkeIA~~L~---iS~~TVk~h~~~I~~ 178 (207)
T PRK15411 134 PT-----LSLSRTESSMLRMWMAGQG-TIQISDQMN---IKAKTVSSHKGNIKR 178 (207)
T ss_pred Cc-----ccCCHHHHHHHHHHHcCCC-HHHHHHHcC---CCHHHHHHHHHHHHH
Confidence 00 1389999999999986666 999999999 999999999876544
No 15
>PRK09935 transcriptional regulator FimZ; Provisional
Probab=99.46 E-value=2.7e-12 Score=120.45 Aligned_cols=158 Identities=18% Similarity=0.209 Sum_probs=121.5
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.+..++++.+.. ..||+||+|+.+|+++|+++++.++...+.+|||++++..+.....++++.|+++|+.||++.++|
T Consensus 35 ~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l 113 (210)
T PRK09935 35 TDDYRITIDYLRT-RPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDI 113 (210)
T ss_pred eCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHhCCCCcEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHH
Confidence 5678888888876 789999999999999999999999988888999999999998889999999999999999999999
Q ss_pred HHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCCc
Q 043479 83 KNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPKV 162 (534)
Q Consensus 83 ~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKprv 162 (534)
..+|+.++.+...... +.+....... .. . ..
T Consensus 114 ~~~i~~~l~~~~~~~~---------------------~~~~~~~~~~--~~------------------~--------~~ 144 (210)
T PRK09935 114 FHAVQMILSGYTFFPS---------------------ETLNYIKSNK--CS------------------T--------NS 144 (210)
T ss_pred HHHHHHHHcCCceeCH---------------------HHHHHHHhcc--cc------------------c--------Cc
Confidence 9999988765321100 0000000000 00 0 00
Q ss_pred cCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 163 AWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 163 ~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
.-...|+.++++++..+..+ ...++|++.++ ++.++|+.|+.+.|..+
T Consensus 145 ~~~~~lt~re~~vl~~l~~g-~s~~eIa~~l~---~s~~tv~~~~~~~~~kl 192 (210)
T PRK09935 145 STDTVLSNREVTILRYLVSG-LSNKEIADQLL---LSNKTVSAHKSNIYGKL 192 (210)
T ss_pred cccccCCHHHHHHHHHHHcC-CCHHHHHHHhC---CCHHHHHHHHHHHHHHc
Confidence 01134889999999998544 44899999998 89999999999887754
No 16
>PRK10651 transcriptional regulator NarL; Provisional
Probab=99.45 E-value=4.4e-12 Score=118.94 Aligned_cols=161 Identities=23% Similarity=0.303 Sum_probs=123.1
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.+..+++..+.. ..||+||+|+.+++++|+++++.+++..+..|+|+++...+......+++.|+++|+.||++.++|
T Consensus 38 ~~~~~~~~~~~~~-~~~dlvl~d~~l~~~~~~~~~~~l~~~~~~~~vi~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l 116 (216)
T PRK10651 38 ASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDL 116 (216)
T ss_pred eCCHHHHHHHHHh-CCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHH
Confidence 5688899998876 689999999999999999999999988888999999999998989999999999999999999999
Q ss_pred HHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCCc
Q 043479 83 KNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPKV 162 (534)
Q Consensus 83 ~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKprv 162 (534)
..+|+.++.+....... ..+.... ...+. .. ..-
T Consensus 117 ~~~i~~~~~~~~~~~~~------------------~~~~~~~-~~~~~------~~---------------------~~~ 150 (216)
T PRK10651 117 LKALQQAAAGEMVLSEA------------------LTPVLAA-SLRAN------RA---------------------TTE 150 (216)
T ss_pred HHHHHHHHCCCcccCHH------------------HHHHHHH-Hhhcc------cC---------------------ccc
Confidence 99999988653322110 0000000 00000 00 000
Q ss_pred cCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 163 AWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 163 ~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
.....|+.++.++++.+... ...+.|++.++ ++..||+.|+.+.|..|
T Consensus 151 ~~~~~Lt~rE~~vl~~l~~g-~~~~~ia~~l~---is~~tV~~~~~~l~~Kl 198 (216)
T PRK10651 151 RDVNQLTPRERDILKLIAQG-LPNKMIARRLD---ITESTVKVHVKHMLKKM 198 (216)
T ss_pred cccccCCHHHHHHHHHHHcC-CCHHHHHHHcC---CCHHHHHHHHHHHHHHc
Confidence 11234899999999999744 34899999998 89999999999887744
No 17
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=99.44 E-value=5.1e-13 Score=144.19 Aligned_cols=93 Identities=32% Similarity=0.484 Sum_probs=88.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++++|++.+.. ..+||||+|+.||++||+++++++++..|++|||++|++.+.+.+..|++.||.|||.|||+++.
T Consensus 33 ~a~~~~~al~~i~~-~~~~lvl~Di~mp~~~Gl~ll~~i~~~~~~~pVI~~Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~ 111 (464)
T COG2204 33 TAESAEEALEALSE-SPFDLVLLDIRMPGMDGLELLKEIKSRDPDLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDLDR 111 (464)
T ss_pred EeCCHHHHHHHHhc-CCCCEEEEecCCCCCchHHHHHHHHhhCCCCCEEEEeCCCCHHHHHHHHhcCcceeeeCCCCHHH
Confidence 57899999999998 58999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhh
Q 043479 82 LKNVWQYAMTYKKA 95 (534)
Q Consensus 82 L~~aI~~aL~~k~~ 95 (534)
|..+|++++...+.
T Consensus 112 L~~~v~ral~~~~~ 125 (464)
T COG2204 112 LLAIVERALELREL 125 (464)
T ss_pred HHHHHHHHHHHhhh
Confidence 99999999987554
No 18
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=99.43 E-value=4.7e-12 Score=118.22 Aligned_cols=149 Identities=22% Similarity=0.289 Sum_probs=117.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.+++.+|+++++.++ +.+|||+++...+......+++.|+++|+.||++.++
T Consensus 32 ~~~~~~~~l~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~---~~~~vi~~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~ 107 (196)
T PRK10360 32 EFGSGREALAGLPG-RGVQVCICDISMPDISGLELLSQLP---KGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDE 107 (196)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHc---cCCCEEEEECCCCHHHHHHHHHcCCcEEEECCCCHHH
Confidence 35688999998876 6899999999999999999999886 3589999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++++...... +..... . ..
T Consensus 108 l~~~i~~~~~~~~~~~~---------------------~~~~~~----~---------------------~~-------- 133 (196)
T PRK10360 108 LIAAVHTVATGGCYLTP---------------------DIAIKL----A---------------------SG-------- 133 (196)
T ss_pred HHHHHHHHHcCCeeeCH---------------------HHHHHH----H---------------------hc--------
Confidence 99999999864321100 000000 0 00
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
....|+.++.++++.+... ...+.|++.|+ ++..+|+.|+.+.|..+
T Consensus 134 --~~~~Lt~~E~~il~~l~~g-~~~~~Ia~~l~---~s~~tv~~~~~~l~~Kl 180 (196)
T PRK10360 134 --RQDPLTKRERQVAEKLAQG-MAVKEIAAELG---LSPKTVHVHRANLMEKL 180 (196)
T ss_pred --cccCCCHHHHHHHHHHHCC-CCHHHHHHHhC---CCHHHHHHHHHHHHHHh
Confidence 0124788999999999644 45899999997 89999999998887743
No 19
>PRK10643 DNA-binding transcriptional regulator BasR; Provisional
Probab=99.43 E-value=4.3e-12 Score=120.06 Aligned_cols=168 Identities=17% Similarity=0.229 Sum_probs=120.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..++++.+.. ..||+||+|+.||+++|+++++.++...+.+|||+++...+......+++.||++|+.||++.++
T Consensus 29 ~~~~~~~~~~~~~~-~~~d~illd~~~~~~~g~~~~~~l~~~~~~~pii~ls~~~~~~~~~~~~~~ga~~~l~kp~~~~~ 107 (222)
T PRK10643 29 CASTAREAEALLES-GHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEE 107 (222)
T ss_pred EeCCHHHHHHHHHh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHhcCCCeEEeCCCCHHH
Confidence 35688899998876 67999999999999999999999998878899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+++.++++......... ...++ ......+ .. ... .+
T Consensus 108 l~~~i~~~~~~~~~~~~~~~---------------~~~~~----------~~~~~~~------~~----~~~----~~-- 146 (222)
T PRK10643 108 LHARIRALIRRHQGQGENEL---------------QVGNL----------TLNLGRQ------QV----WLD----GQ-- 146 (222)
T ss_pred HHHHHHHHHhhhccccCCce---------------EECCE----------EEEcCCC------EE----EEC----CE--
Confidence 99999988765432111000 00000 0000000 00 000 00
Q ss_pred ccCCchhhHHHHHHHHHhc--cCCCcHHHHHHH-cC--CCCCCHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIG--LEKAVPKKILEF-MN--VPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LG--lekAvpK~ILe~-M~--V~GLT~~tVaSHLQKyRl~l 214 (534)
...|+.++.+++..+. ....+.++|+.. +- ..+.+..+|+.|+.+.|..+
T Consensus 147 ---~~~Lt~~E~~il~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~tv~~~i~~lr~Kl 201 (222)
T PRK10643 147 ---ELILTPKEFALLSRLMLKAGSPVHREILYQDIYNWDDEPSSNTLEVHIHNLRDKV 201 (222)
T ss_pred ---EEecCHHHHHHHHHHHhCCCceEcHHHHHHHhcCCCCCCCcCCHHHHHHHHHHhC
Confidence 1247889999999874 556666777753 21 12367899999999988855
No 20
>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=99.43 E-value=1.5e-12 Score=111.43 Aligned_cols=85 Identities=28% Similarity=0.565 Sum_probs=80.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.++. ..||+||+|+.+++++|+++++.|+...+.+|||++|...+.....+++++|+++||.||++.++
T Consensus 28 ~~~~~~~~~~~~~~-~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kp~~~~~ 106 (112)
T PF00072_consen 28 TASSGEEALELLKK-HPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDEDDSDEVQEALRAGADDYLSKPFSPEE 106 (112)
T ss_dssp EESSHHHHHHHHHH-STESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESSTSHHHHHHHHHTTESEEEESSSSHHH
T ss_pred EECCHHHHHHHhcc-cCceEEEEEeeeccccccccccccccccccccEEEecCCCCHHHHHHHHHCCCCEEEECCCCHHH
Confidence 57899999999987 78999999999999999999999999989999999999999999999999999999999999999
Q ss_pred HHHHHH
Q 043479 82 LKNVWQ 87 (534)
Q Consensus 82 L~~aI~ 87 (534)
|.++|+
T Consensus 107 l~~~i~ 112 (112)
T PF00072_consen 107 LRAAIN 112 (112)
T ss_dssp HHHHHH
T ss_pred HHHhhC
Confidence 999875
No 21
>PRK10403 transcriptional regulator NarP; Provisional
Probab=99.43 E-value=1e-11 Score=116.18 Aligned_cols=158 Identities=18% Similarity=0.252 Sum_probs=120.1
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.+..+++..+.. ..||+||+|+.+++++|+++++.+++..+..|+|+++...+......+++.|+++|+.||++.++|
T Consensus 38 ~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~~~~~~~~l~~~~~~~~ii~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l 116 (215)
T PRK10403 38 AGDGASAIDLANR-LDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVL 116 (215)
T ss_pred eCCHHHHHHHHHh-cCCCEEEEecCCCCCcHHHHHHHHHHhCCCCeEEEEeCCCChHHHHHHHHcCCCeEEecCCCHHHH
Confidence 5688889888876 689999999999999999999999988888999999998888888899999999999999999999
Q ss_pred HHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCCc
Q 043479 83 KNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPKV 162 (534)
Q Consensus 83 ~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKprv 162 (534)
..+++.++.+...... ...+.+. .. .. . . . ..
T Consensus 117 ~~~i~~~~~~~~~~~~------------------~~~~~~~-----~~-~~--------------~---~-----~--~~ 148 (215)
T PRK10403 117 LEAIRAGAKGSKVFSE------------------RVNQYLR-----ER-EM--------------F---G-----A--EE 148 (215)
T ss_pred HHHHHHHhCCCeecCH------------------HHHHHHH-----hh-hc--------------c---C-----C--CC
Confidence 9999988744221100 0000000 00 00 0 0 0 00
Q ss_pred cCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Q 043479 163 AWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIF 213 (534)
Q Consensus 163 ~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~ 213 (534)
.-...|+.++.+++..+... ...++|++.++ ++..||+.|+.+.|..
T Consensus 149 ~~~~~Lt~~e~~vl~~~~~g-~s~~~ia~~l~---~s~~tv~~~~~~i~~k 195 (215)
T PRK10403 149 DPFSVLTERELDVLHELAQG-LSNKQIASVLN---ISEQTVKVHIRNLLRK 195 (215)
T ss_pred cccccCCHHHHHHHHHHHCC-CCHHHHHHHcC---CCHHHHHHHHHHHHHH
Confidence 00135889999999998644 55899999997 8999999999988764
No 22
>PRK15369 two component system sensor kinase SsrB; Provisional
Probab=99.40 E-value=1.2e-11 Score=114.58 Aligned_cols=158 Identities=22% Similarity=0.292 Sum_probs=119.3
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.++.++++.+.. ..||+||+|+.+++++|+++++.+++..+.+|+|+++...+......++..|+.+|+.||++.++|
T Consensus 35 ~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l 113 (211)
T PRK15369 35 VDNGLEVYNACRQ-LEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQIL 113 (211)
T ss_pred ECCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHH
Confidence 4677888888776 779999999999999999999999988888999999999998989999999999999999999999
Q ss_pred HHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCCc
Q 043479 83 KNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPKV 162 (534)
Q Consensus 83 ~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKprv 162 (534)
..+++.++++....... .. ....... . .. ...
T Consensus 114 ~~~i~~~~~~~~~~~~~------------------~~----~~~~~~~-----------------~---~~---~~~--- 145 (211)
T PRK15369 114 LAAIQTVAVGKRYIDPA------------------LN----REAILAL-----------------L---NA---DDT--- 145 (211)
T ss_pred HHHHHHHHCCCceeCHH------------------HH----HHHHHHh-----------------c---cC---CCC---
Confidence 99998876442211000 00 0000000 0 00 000
Q ss_pred cCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 163 AWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 163 ~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
-...|++++.+++..+. +....++|++.|+ ++.++|+.|+++.+..+
T Consensus 146 -~~~~lt~~e~~vl~l~~-~g~~~~~Ia~~l~---~s~~tv~~~~~~~~~kl 192 (211)
T PRK15369 146 -NPPLLTPRERQILKLIT-EGYTNRDIAEQLS---ISIKTVETHRLNMMRKL 192 (211)
T ss_pred -cccCCCHHHHHHHHHHH-CCCCHHHHHHHhC---CCHHHHHHHHHHHHHHh
Confidence 01248889999999986 4445899999998 89999999998876643
No 23
>PRK11083 DNA-binding response regulator CreB; Provisional
Probab=99.40 E-value=6.6e-12 Score=119.26 Aligned_cols=168 Identities=18% Similarity=0.299 Sum_probs=121.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..+++..+.. ..||+||+|+.+|+.+|+++++.+++..+.+|||+++...+......+++.||++||.||++.++
T Consensus 32 ~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~ 110 (228)
T PRK11083 32 WFERGLPALDKLRQ-QPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVAKPFSPRE 110 (228)
T ss_pred EEcCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEEEcCCcHHHHHHHhhcCCCeEEECCCCHHH
Confidence 35678888888876 67999999999999999999999998888899999999998888889999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++++....... .. ... ... ...... ...
T Consensus 111 l~~~i~~~~~~~~~~~~~-~~---~~~---------~~~----~~~~~~----------------------------~~~ 145 (228)
T PRK11083 111 VAARVRTILRRVKKFAAP-SP---VIR---------IGH----FELDEP----------------------------AAR 145 (228)
T ss_pred HHHHHHHHHCccccccCC-Cc---eeE---------ECC----EEEecC----------------------------ccE
Confidence 999998887653221000 00 000 000 000000 000
Q ss_pred ccC---CchhhHHHHHHHHHhccC---CCcHHHHHHHcCCCCC--CHHHHHHHHHHHHHHHH
Q 043479 162 VAW---TDSLHNRFLQAIRHIGLE---KAVPKKILEFMNVPGL--TRENVASHLQKYRIFLK 215 (534)
Q Consensus 162 v~W---t~eLh~RFleaLe~LGle---kAvpK~ILe~M~V~GL--T~~tVaSHLQKyRl~lk 215 (534)
+.| ...|+.++.++++.+... ....++|++.+..... +..+|+.|+.+.|..+.
T Consensus 146 ~~~~~~~~~Lt~~E~~il~~l~~~~~~~~s~~~i~~~l~~~~~~~~~~tv~~~i~~l~~Kl~ 207 (228)
T PRK11083 146 ISYFGTPLTLTRYEFLLLKTLLLSPGRVFSRQQLMDIVWEDAQDSYDRTVDTHIKTLRAKLR 207 (228)
T ss_pred EEECCEEeecCHHHHHHHHHHHhCCCceECHHHHHHHhcCCCCCCCccCHHHHHHHHHHHhc
Confidence 001 124899999999999532 2446889999985433 47899999988887654
No 24
>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=99.39 E-value=1.4e-11 Score=117.89 Aligned_cols=170 Identities=16% Similarity=0.206 Sum_probs=120.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.+..+++..+.. ..||+||+|+.||+ .+|+++++.++...+.+|||++|+..+......++++||++|+.||++.
T Consensus 29 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~~~g~~~~~~i~~~~~~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~ 107 (227)
T TIGR03787 29 TYADRPSAMQAFRQ-RLPDLAIIDIGLGEEIDGGFMLCQDLRSLSATLPIIFLTARDSDFDTVSGLRLGADDYLTKDISL 107 (227)
T ss_pred EecCHHHHHHHHHh-CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCH
Confidence 35688899998876 78999999999998 5899999999987788999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCC
Q 043479 80 DDLKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKK 159 (534)
Q Consensus 80 eeL~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kK 159 (534)
++|..+|+.++++........... ...... .. . .... .
T Consensus 108 ~~l~~~i~~~~~~~~~~~~~~~~~----------~~~~~~---------~~-~--~~~~--------------------~ 145 (227)
T TIGR03787 108 PHLLARITALFRRAEALQKPQKQD----------DLITRG---------PL-T--LDSD--------------------R 145 (227)
T ss_pred HHHHHHHHHHHHhhhhcccccccc----------ceEEEC---------CE-E--EEcc--------------------c
Confidence 999999999887643221100000 000000 00 0 0000 0
Q ss_pred CCccC---CchhhHHHHHHHHHhcc--CC-CcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Q 043479 160 PKVAW---TDSLHNRFLQAIRHIGL--EK-AVPKKILEFMNVPGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 160 prv~W---t~eLh~RFleaLe~LGl--ek-AvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lk 215 (534)
..+.| ...|+.++.+++..+.. ++ ...++|++... ..++..+|..|+.+.|..|.
T Consensus 146 ~~~~~~~~~~~Lt~~E~~il~~l~~~~g~v~s~~~i~~~~~-~~~~~~tv~~~v~rlr~Kl~ 206 (227)
T TIGR03787 146 MTVFWQDQPIDLTVTEFWMVHALAKHPGHVKSRQQLMDAAK-IVVDDSTITSHIKRIRKKFQ 206 (227)
T ss_pred CEEEECCEEecCCHHHHHHHHHHHhCCCccccHHHHHHHhh-hcCCccCHHHHHHHHHHHhc
Confidence 00111 12499999999999964 33 24566743322 23688999999999888654
No 25
>PRK10336 DNA-binding transcriptional regulator QseB; Provisional
Probab=99.38 E-value=1.7e-11 Score=115.97 Aligned_cols=168 Identities=17% Similarity=0.203 Sum_probs=120.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..+++..+.. ..||+||+|+.+|+++|+++++.+++..+.+|||++|...+.....+++++||++|+.||++.++
T Consensus 29 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~i~~~~~~~~ii~lt~~~~~~~~~~~~~~ga~~~i~kp~~~~~ 107 (219)
T PRK10336 29 WFTQGRQGKEALYS-APYDAVILDLTLPGMDGRDILREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIE 107 (219)
T ss_pred EeCCHHHHHHHHhh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHhCCCCeEEECCCCHHH
Confidence 35678888888876 67999999999999999999999998888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++++...... . .....+ . ...+..... . . ..
T Consensus 108 l~~~i~~~~~~~~~~~~---~------------~~~~~~---------~---~~~~~~~~~--~--~---------~~-- 145 (219)
T PRK10336 108 VAARLEALMRRTNGQAS---N------------ELRHGN---------V---MLDPGKRIA--T--L---------AG-- 145 (219)
T ss_pred HHHHHHHHHhccccCCC---C------------ceeECC---------E---EEEcccCEE--E--E---------CC--
Confidence 99999988754321100 0 000000 0 000000000 0 0 00
Q ss_pred ccCCchhhHHHHHHHHHhccCC---CcHHHHHHHcCC--CCCCHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEK---AVPKKILEFMNV--PGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlek---AvpK~ILe~M~V--~GLT~~tVaSHLQKyRl~l 214 (534)
-...|+.++.+++..+.... ...++|++.+.- ..++..+|+.|+.+.|..+
T Consensus 146 --~~~~Lt~~E~~il~~l~~~~~~~~s~~~i~~~l~~~~~~~~~~tv~~~i~~lr~Kl 201 (219)
T PRK10336 146 --EPLTLKPKEFALLELLMRNAGRVLPRKLIEEKLYTWDEEVTSNAVEVHVHHLRRKL 201 (219)
T ss_pred --EEEecCHHHHHHHHHHHhCCCccCcHHHHHHHhcCCCCCCCccCHHHHHHHHHHhc
Confidence 01248899999999995331 457889888741 2368899999998887754
No 26
>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=99.34 E-value=3.5e-11 Score=113.48 Aligned_cols=169 Identities=15% Similarity=0.236 Sum_probs=120.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..++++.+.. ..||+||+|+.||+++|+++++.++...+.+|||+++...+......++.+||++|+.||++.++
T Consensus 27 ~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~iivls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~ 105 (218)
T TIGR01387 27 AASNGRDGLHLALK-DDYDLIILDVMLPGMDGWQILQTLRRSGKQTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSE 105 (218)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHccCCCCcEEEEEcCCCHHHHHHHHHcCCCeEEECCCCHHH
Confidence 45688899998876 78999999999999999999999998888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+++.++++.......... ..+. .... ..+ .. . .
T Consensus 106 l~~~i~~~~~~~~~~~~~~~~---------------~~~~----~~~~------~~~------~~----------~---~ 141 (218)
T TIGR01387 106 LLARVRTLLRRSHSLNSTVLE---------------IADL----RMDS------VRH------RV----------S---R 141 (218)
T ss_pred HHHHHHHHhcccccCCCCeEE---------------ECCE----EEEc------ccC------EE----------E---E
Confidence 999999887654322110000 0000 0000 000 00 0 0
Q ss_pred ccCCchhhHHHHHHHHHhc--cCCCcH-HHHHHHcCCCC--CCHHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIG--LEKAVP-KKILEFMNVPG--LTRENVASHLQKYRIFLK 215 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LG--lekAvp-K~ILe~M~V~G--LT~~tVaSHLQKyRl~lk 215 (534)
-.+...|+.++.+++..+. ..+.+. ..|++.+--.. .+..+|..|+.+.|..++
T Consensus 142 ~~~~~~Lt~~E~~il~~l~~~~~~~~sr~~i~~~~~~~~~~~~~~~~~~~i~~lr~kl~ 200 (218)
T TIGR01387 142 GNIRITLTRKEFQLLWLLMRRTGEVLPRTVIASLVWGMNFDSDTNVVDVAIRRLRAKVD 200 (218)
T ss_pred CCEEEeCCHHHHHHHHHHHhCCCeeEcHHHHHHHhcCCCCCCCcCCHHHHHHHHHHhhc
Confidence 0123458999999999994 334444 45666663212 246889999999888653
No 27
>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional
Probab=99.31 E-value=6e-11 Score=113.43 Aligned_cols=90 Identities=20% Similarity=0.323 Sum_probs=83.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.+|+++|+++++.+++..+.+|||++++..+......+++.||++||.||++.++
T Consensus 29 ~~~~~~~~l~~~~~-~~~dlvild~~l~~~~g~~l~~~lr~~~~~~pii~ls~~~~~~~~~~~l~~Ga~d~l~kp~~~~e 107 (223)
T PRK10816 29 AAEDAKEADYYLNE-HLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEE 107 (223)
T ss_pred EECCHHHHHHHHhh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEEEcCCCHHHHHHHHHcCCCeeEeCCCCHHH
Confidence 46788999998876 78999999999999999999999998888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHH
Q 043479 82 LKNVWQYAMTY 92 (534)
Q Consensus 82 L~~aI~~aL~~ 92 (534)
|...++.++++
T Consensus 108 L~~~i~~~~~~ 118 (223)
T PRK10816 108 VMARMQALMRR 118 (223)
T ss_pred HHHHHHHHHhc
Confidence 99999988765
No 28
>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional
Probab=99.31 E-value=2.9e-11 Score=115.65 Aligned_cols=90 Identities=26% Similarity=0.391 Sum_probs=80.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+. ..||+||+|+.||+++|+++++.+++..+ +|||++|+..+......+++.|+++||.||++.++
T Consensus 30 ~~~~~~~~~~~~~--~~~d~vl~d~~~~~~~g~~~~~~l~~~~~-~~ii~lt~~~~~~~~~~~~~~ga~~~l~kp~~~~~ 106 (232)
T PRK10955 30 VAHDGEQALDLLD--DSIDLLLLDVMMPKKNGIDTLKELRQTHQ-TPVIMLTARGSELDRVLGLELGADDYLPKPFNDRE 106 (232)
T ss_pred EeCCHHHHHHHhh--cCCCEEEEeCCCCCCcHHHHHHHHHhcCC-CcEEEEECCCCHHHHHHHHHcCCCEEEcCCCCHHH
Confidence 3568889998875 36999999999999999999999998776 99999999998888899999999999999999999
Q ss_pred HHHHHHHHHHHhh
Q 043479 82 LKNVWQYAMTYKK 94 (534)
Q Consensus 82 L~~aI~~aL~~k~ 94 (534)
|..+++.++++..
T Consensus 107 l~~~i~~~~~~~~ 119 (232)
T PRK10955 107 LVARIRAILRRSH 119 (232)
T ss_pred HHHHHHHHHhccc
Confidence 9999999886543
No 29
>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=99.31 E-value=3.4e-12 Score=100.75 Aligned_cols=54 Identities=63% Similarity=1.073 Sum_probs=51.7
Q ss_pred CCCccCCchhhHHHHHHHHHhcc-CCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 159 KPKVAWTDSLHNRFLQAIRHIGL-EKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 159 Kprv~Wt~eLh~RFleaLe~LGl-ekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
|+|+.||.++|.+|+++++.+|. +.++||.|++.|++.+||+.+|+||+||||+
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 56899999999999999999997 8899999999999999999999999999997
No 30
>PRK09836 DNA-binding transcriptional activator CusR; Provisional
Probab=99.30 E-value=6.6e-11 Score=113.46 Aligned_cols=90 Identities=17% Similarity=0.325 Sum_probs=82.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.+|+++|+++++.+++..+.+|||+++...+.....+++++||++||.||++.++
T Consensus 29 ~~~~~~~~~~~~~~-~~~dlvild~~~~~~~g~~~~~~lr~~~~~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~ 107 (227)
T PRK09836 29 LADNGLNGYHLAMT-GDYDLIILDIMLPDVNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAE 107 (227)
T ss_pred EECCHHHHHHHHhh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEEEcCCCHHHHHHHHhCCCCEEEeCCCCHHH
Confidence 46788899988876 68999999999999999999999998878899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHH
Q 043479 82 LKNVWQYAMTY 92 (534)
Q Consensus 82 L~~aI~~aL~~ 92 (534)
|..+++.++++
T Consensus 108 l~~~i~~~~~~ 118 (227)
T PRK09836 108 LLARVRTLLRR 118 (227)
T ss_pred HHHHHHHHHhc
Confidence 99999988754
No 31
>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=99.28 E-value=4.1e-11 Score=113.44 Aligned_cols=90 Identities=24% Similarity=0.434 Sum_probs=81.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.+..+++..+.. ..||+||+|+.||+++|+++++.++.. .+.+|||++++..+.....++++.||++||.||++.
T Consensus 31 ~~~~~~~~~~~~~~-~~~d~vi~d~~~~~~~g~~~~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~ 109 (226)
T TIGR02154 31 EAGDGDEALTLINE-RGPDLILLDWMLPGTSGIELCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSP 109 (226)
T ss_pred EEcCHHHHHHHHHh-cCCCEEEEECCCCCCcHHHHHHHHHccccCCCCCEEEEecCCCHHHHHHHHhcCcceEEeCCCCH
Confidence 35688899998876 789999999999999999999999875 467999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMTY 92 (534)
Q Consensus 80 eeL~~aI~~aL~~ 92 (534)
++|..+|+.++++
T Consensus 110 ~~l~~~i~~~~~~ 122 (226)
T TIGR02154 110 RELLARIKAVLRR 122 (226)
T ss_pred HHHHHHHHHHhcc
Confidence 9999999988765
No 32
>PRK09390 fixJ response regulator FixJ; Provisional
Probab=99.28 E-value=7.2e-11 Score=108.83 Aligned_cols=154 Identities=21% Similarity=0.264 Sum_probs=118.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..++++.+.. ..||+||+|+.+++++|+++++.+++..+.+|+|+++...+......+++.|+.+|+.||+..++
T Consensus 32 ~~~~~~~~~~~~~~-~~~d~ii~d~~~~~~~~~~~~~~l~~~~~~~~ii~l~~~~~~~~~~~~~~~g~~~~l~~p~~~~~ 110 (202)
T PRK09390 32 LFESAQAFLDALPG-LRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDER 110 (202)
T ss_pred EeCCHHHHHHHhcc-CCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHcChHHHhhCCCCHHH
Confidence 35677888888876 67999999999999999999999998888899999999999899999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+++.++........ ...... ..+
T Consensus 111 l~~~l~~~~~~~~~~~~-------------------~~~~~~------------~~~----------------------- 136 (202)
T PRK09390 111 LIGAIERALAQAPEAAK-------------------SEAVAA------------DIR----------------------- 136 (202)
T ss_pred HHHHHHHHHHhhhhccc-------------------chhHHH------------HHH-----------------------
Confidence 99999887754221100 000000 000
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lk 215 (534)
.....|.+++.++++.+-. ....+.|++.|+ ++..+|+.|+.+.|..++
T Consensus 137 -~~~~~l~~~e~~vl~~~~~-~~~~~~ia~~l~---~s~~tv~~~~~~~~~kl~ 185 (202)
T PRK09390 137 -ARIASLSERERQVMDGLVA-GLSNKVIARDLD---ISPRTVEVYRANVMTKMQ 185 (202)
T ss_pred -HHHHhhhhhHHHHHHHHHc-cCchHHHHHHcC---CCHHHHHHHHHHHHHHHc
Confidence 0123467777888886532 334799999998 899999999999887653
No 33
>PRK10161 transcriptional regulator PhoB; Provisional
Probab=99.28 E-value=4.6e-11 Score=114.69 Aligned_cols=90 Identities=23% Similarity=0.372 Sum_probs=81.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.+..++++.+.. ..||+||+|+.||+++|+++++.+++. .+.+|||++++..+.....+++++||++||.||++.
T Consensus 31 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~l~~~~~~~~~pvi~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~ 109 (229)
T PRK10161 31 EAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSP 109 (229)
T ss_pred EECCHHHHHHHHhc-cCCCEEEEeCCCCCCCHHHHHHHHHhccccCCCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCH
Confidence 46788899998876 789999999999999999999999875 367999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMTY 92 (534)
Q Consensus 80 eeL~~aI~~aL~~ 92 (534)
++|..+|+.++++
T Consensus 110 ~~L~~~i~~~~~~ 122 (229)
T PRK10161 110 KELVARIKAVMRR 122 (229)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999988764
No 34
>PRK15479 transcriptional regulatory protein TctD; Provisional
Probab=99.28 E-value=2.1e-10 Score=108.45 Aligned_cols=167 Identities=17% Similarity=0.232 Sum_probs=120.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.+|+.+|+++++.++...+++|+|+++...+.....++++.|+++|+.||++.++
T Consensus 29 ~~~~~~~~~~~~~~-~~~d~vild~~~~~~~~~~~~~~i~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~i~kp~~~~~ 107 (221)
T PRK15479 29 CVFDGLAADHLLQS-EMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEE 107 (221)
T ss_pred EeCCHHHHHHHHhh-CCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHcCCCeeEeCCCCHHH
Confidence 35678888887776 67999999999999999999999998888899999999999888899999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+++.++++.........+ .. .. ....... . ..+. +
T Consensus 108 l~~~i~~~~~~~~~~~~~~~~---------------~~---------~~---~~~~~~~---~-----~~~~-----~-- 145 (221)
T PRK15479 108 LDARLRALLRRSAGQVQEVQQ---------------LG---------EL---IFHDEGY---F-----LLQG-----Q-- 145 (221)
T ss_pred HHHHHHHHHhhhccCcCccEE---------------EC---------CE---EEccCCe---E-----EECC-----E--
Confidence 999999887654321111000 00 00 0000000 0 0000 0
Q ss_pred ccCCchhhHHHHHHHHHhcc--CC-CcHHHHHHHcCC--CCCCHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGL--EK-AVPKKILEFMNV--PGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGl--ek-AvpK~ILe~M~V--~GLT~~tVaSHLQKyRl~l 214 (534)
...|+.++.+++..+.. .. ...++|++.+.- .+++..+|+.|+.+.|..+
T Consensus 146 ---~~~Lt~~E~~il~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~tv~~~i~~ir~kl 200 (221)
T PRK15479 146 ---PLALTPREQALLTVLMYRRTRPVSRQQLFEQVFSLNDEVSPESIELYIHRLRKKL 200 (221)
T ss_pred ---EEecCHHHHHHHHHHHhCCCCcCcHHHHHHHhcCCCCCCCcccHHHHHHHHHHhc
Confidence 12489999999999843 22 246778877641 2368899999999988865
No 35
>CHL00148 orf27 Ycf27; Reviewed
Probab=99.27 E-value=1.3e-10 Score=111.80 Aligned_cols=171 Identities=22% Similarity=0.281 Sum_probs=119.2
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.+..+++..+.. ..||+||+|+.+|+.+|+++++.+++. +.+|||++++..+......+++.||++||.||++.++|
T Consensus 36 ~~~~~~~l~~~~~-~~~d~illd~~~~~~~g~~~~~~l~~~-~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L 113 (240)
T CHL00148 36 ASDGEEALKLFRK-EQPDLVILDVMMPKLDGYGVCQEIRKE-SDVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKEL 113 (240)
T ss_pred eCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCcEEEEECCCCHHhHHHHHHCCCCEEEeCCCCHHHH
Confidence 5688889988876 689999999999999999999999975 67999999999998888999999999999999999999
Q ss_pred HHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCCc
Q 043479 83 KNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPKV 162 (534)
Q Consensus 83 ~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKprv 162 (534)
..+|+.++++.......... . .........+ .. .. .+..+
T Consensus 114 ~~~i~~~~~~~~~~~~~~~~-------~-~~~~~~~~~~----------~~--~~--------------------~~~~~ 153 (240)
T CHL00148 114 EARIRSVLRRTNKKSFSSKI-------P-NSSIIRIGFL----------KI--DL--------------------NKKQV 153 (240)
T ss_pred HHHHHHHHhhcccccccccc-------C-CCceEEECCE----------EE--Ec--------------------CCCEE
Confidence 99999887654321100000 0 0000000000 00 00 00001
Q ss_pred cC---CchhhHHHHHHHHHhcc---CCCcHHHHHHHcCC----CCCCHHHHHHHHHHHHHHHH
Q 043479 163 AW---TDSLHNRFLQAIRHIGL---EKAVPKKILEFMNV----PGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 163 ~W---t~eLh~RFleaLe~LGl---ekAvpK~ILe~M~V----~GLT~~tVaSHLQKyRl~lk 215 (534)
.+ ...|+.++.++++.+.. .....++|++.+-- ..++..+|..|+.+.|..|.
T Consensus 154 ~~~~~~~~Lt~~E~~il~~l~~~~~~~~s~~~i~~~l~~~~~~~~~~~~tv~~~i~~lr~KL~ 216 (240)
T CHL00148 154 YKNNERIRLTGMEFSLLELLISKSGEIFSRATILKEVWGYTPERHIDTRVVDVHISRLRAKLE 216 (240)
T ss_pred EECCEEEEcCHHHHHHHHHHHHCCCEEEcHHHHHHHhcCCCcccCCCcccHHHHHHHHHHHhc
Confidence 01 12488999999998842 12446788887731 13688899999999888654
No 36
>PRK11517 transcriptional regulatory protein YedW; Provisional
Probab=99.25 E-value=1.9e-10 Score=109.27 Aligned_cols=167 Identities=14% Similarity=0.281 Sum_probs=117.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..+++..+.. ..||+||+|+.||+++|+++++.+++. +.+|||++++..+.....+++++||++||.||++.++
T Consensus 29 ~~~~~~~~l~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~-~~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~ 106 (223)
T PRK11517 29 AVSDGRDGLYLALK-DDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSE 106 (223)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEECCCCCCCHHHHHHHHHcC-CCCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHH
Confidence 45688899988876 789999999999999999999999875 4699999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++++......... ..+. ..... ++.. . . ..
T Consensus 107 l~~~i~~~~~~~~~~~~~~~----------------~~~~----~~~~~-------~~~~--~---~---------~~-- 143 (223)
T PRK11517 107 LLARVRAQLRQHHALNSTLE----------------ISGL----RMDSV-------SQSV--S---R---------DN-- 143 (223)
T ss_pred HHHHHHHHHccccCcCCeEE----------------ECCE----EEEcC-------CCEE--E---E---------CC--
Confidence 99999988754321110000 0000 00000 0000 0 0 00
Q ss_pred ccCCchhhHHHHHHHHHhcc--CCCc-HHHHHHHc-CCC-CCCHHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGL--EKAV-PKKILEFM-NVP-GLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGl--ekAv-pK~ILe~M-~V~-GLT~~tVaSHLQKyRl~lk 215 (534)
-...|+.++.+++..+.. .+.+ -++|++.+ +.. ..+..+|..|+.+.|..++
T Consensus 144 --~~~~Lt~~E~~il~~l~~~~g~~~s~~~i~~~~w~~~~~~~~~tv~~~i~rlr~Kl~ 200 (223)
T PRK11517 144 --ISITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVD 200 (223)
T ss_pred --EEEeCCHHHHHHHHHHHhCCCccCCHHHHHHHhcCCCCCCCcCCHHHHHHHHHHhhc
Confidence 012489999999999942 3333 45566665 321 2357899999999998764
No 37
>PRK09468 ompR osmolarity response regulator; Provisional
Probab=99.21 E-value=3.6e-10 Score=109.37 Aligned_cols=91 Identities=18% Similarity=0.345 Sum_probs=83.2
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.+|+++|+++++.+++..+.+|||++++..+......+++.|+++||.||++.++
T Consensus 34 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~~~~~pii~ls~~~~~~~~~~~l~~Ga~~~l~kP~~~~~ 112 (239)
T PRK09468 34 SAANAEQMDRLLTR-ESFHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRE 112 (239)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCcHHHHHHHHhcCCCeEEECCCCHHH
Confidence 46788889988876 78999999999999999999999998778899999999999998999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|...|+.++++.
T Consensus 113 L~~~i~~~~~r~ 124 (239)
T PRK09468 113 LLARIRAVLRRQ 124 (239)
T ss_pred HHHHHHHHhccc
Confidence 999999988653
No 38
>PRK10766 DNA-binding transcriptional regulator TorR; Provisional
Probab=99.20 E-value=5.2e-10 Score=106.61 Aligned_cols=90 Identities=16% Similarity=0.289 Sum_probs=81.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.||+++|+++++.+++. +.+|||++++..+.....++++.||++||.||++.++
T Consensus 31 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~-~~~~ii~l~~~~~~~~~~~~l~~Ga~d~l~kP~~~~~ 108 (221)
T PRK10766 31 EAASGAGMREIMQN-QHVDLILLDINLPGEDGLMLTRELRSR-STVGIILVTGRTDSIDRIVGLEMGADDYVTKPLELRE 108 (221)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCCCEEEEECCCcHHHHHHHHHcCCCcEEeCCCCHHH
Confidence 46788999988876 679999999999999999999999975 5799999999999998999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|...|..++++.
T Consensus 109 L~~~i~~~~~r~ 120 (221)
T PRK10766 109 LLVRVKNLLWRI 120 (221)
T ss_pred HHHHHHHHHhhh
Confidence 999999887653
No 39
>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional
Probab=99.17 E-value=1.1e-09 Score=105.25 Aligned_cols=170 Identities=19% Similarity=0.276 Sum_probs=118.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.+++..+.. ..||+||+|+.+|+++|+++++.++. .+.+|||+++...+......++.+|+++|+.||++.++
T Consensus 39 ~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~g~~~~~~l~~-~~~~pii~l~~~~~~~~~~~~~~~ga~~~l~kp~~~~~ 116 (240)
T PRK10710 39 LLSHGDEVLPYVRQ-TPPDLILLDLMLPGTDGLTLCREIRR-FSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPRE 116 (240)
T ss_pred EeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHh-cCCCCEEEEEcCCCHHHHHHHHhcCCCeEEECCCCHHH
Confidence 35688889998876 67999999999999999999999986 45799999999988888889999999999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccccceeecCCcCCccchhhHhhhhcccccccccccchhhhccccccccccccccCCCCCC
Q 043479 82 LKNVWQYAMTYKKAKSISIDEIGSFELAGFSAGKFSLDDIVSRSSVNERNKNNKDSKRKASKKDKGKQTKQNATAPKKPK 161 (534)
Q Consensus 82 L~~aI~~aL~~k~~~s~~i~e~~~~~~~~~s~~k~sl~dii~~s~~~e~~q~~k~~Krk~~~~~~~~~~~E~~ss~kKpr 161 (534)
|..+|+.++++....... .. ......+ .... ... .. ...
T Consensus 117 L~~~i~~~~~~~~~~~~~-~~------------~~~~~~~----~~~~------~~~------~~---~~~--------- 155 (240)
T PRK10710 117 VVARVKTILRRCKPQREL-QQ------------QDAESPL----IIDE------SRF------QA---SWR--------- 155 (240)
T ss_pred HHHHHHHHHhhccccCCC-cc------------ceEeCCE----EEEc------Cce------EE---EEC---------
Confidence 999998887643211100 00 0000000 0000 000 00 000
Q ss_pred ccCCchhhHHHHHHHHHhcc--C-CCcHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGL--E-KAVPKKILEFMNV--PGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGl--e-kAvpK~ILe~M~V--~GLT~~tVaSHLQKyRl~lk 215 (534)
.....|+.++.+++..+.. . ....+.|++.|.- ..++.++|..|+.+.|..+.
T Consensus 156 -~~~~~Lt~~e~~il~~l~~~~~~~~s~~~i~~~~~~~~~~~~~~tv~~~i~~lr~kl~ 213 (240)
T PRK10710 156 -GKMLDLTPAEFRLLKTLSHEPGKVFSREQLLNHLYDDYRVVTDRTIDSHIKNLRRKLE 213 (240)
T ss_pred -CEEeecCHHHHHHHHHHHhCCCceEcHHHHHHHhcCcCcCCCccCHHHHHHHHHHHhh
Confidence 0113488899999999843 2 2334678888752 33688999999998887653
No 40
>PRK10693 response regulator of RpoS; Provisional
Probab=99.15 E-value=3.2e-10 Score=116.76 Aligned_cols=91 Identities=31% Similarity=0.426 Sum_probs=83.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-ChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-NPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s~e 80 (534)
++.++++|++.+.. ..||+||+|+.||+++|+++++++++..+.+|||++|+..+.+...++++.||++||.||+ +.+
T Consensus 2 ~a~~g~~al~~l~~-~~pDlVL~D~~mp~~~Gle~~~~ir~~~~~ipiI~lt~~~~~~~~~~al~~Ga~dyl~KP~~~~~ 80 (303)
T PRK10693 2 LAANGVDALELLGG-FTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKDLN 80 (303)
T ss_pred EeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHHCCCcEEEECCCCcHH
Confidence 57899999999987 7899999999999999999999999888889999999999999999999999999999999 589
Q ss_pred HHHHHHHHHHHHh
Q 043479 81 DLKNVWQYAMTYK 93 (534)
Q Consensus 81 eL~~aI~~aL~~k 93 (534)
+|..+|+++++..
T Consensus 81 ~L~~~i~~~l~~~ 93 (303)
T PRK10693 81 RLREMVFACLYPS 93 (303)
T ss_pred HHHHHHHHHhhhh
Confidence 9999998877543
No 41
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=99.13 E-value=1.4e-10 Score=120.63 Aligned_cols=92 Identities=26% Similarity=0.434 Sum_probs=82.4
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCC---CCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFT---HLPVMVMSSDDRESVIMKALASGVAFYILKPL 77 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p---~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~ 77 (534)
++|.+++++++.... .++|+||+|++||+|+|++++.+|+...| .+|||++|+..+.+...+++.+||++||.||+
T Consensus 42 ~~ae~g~~a~kl~~~-~~~dlvllD~~mp~mdg~ev~~~lk~~~p~t~~ip~i~lT~~~d~~~~~~~~~~g~~dyl~KP~ 120 (360)
T COG3437 42 IEAENGEEALKLLQE-EPPDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPI 120 (360)
T ss_pred eeecCchHHHHHhcc-cCCceEEeeccCCCccHHHHHHHHHhcCCcccccceEEEeecCChHHHHHHHHhhHHHHhcCCC
Confidence 367899999999887 77999999999999999999999998544 58999999999999999999999999999999
Q ss_pred ChHHHHHHHHHHHHHh
Q 043479 78 NPDDLKNVWQYAMTYK 93 (534)
Q Consensus 78 s~eeL~~aI~~aL~~k 93 (534)
++.+|...+...+..+
T Consensus 121 ~~~~l~~rv~~~~q~k 136 (360)
T COG3437 121 SPKELVARVSSHLQLK 136 (360)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 9999999997655444
No 42
>COG0784 CheY FOG: CheY-like receiver [Signal transduction mechanisms]
Probab=99.12 E-value=6.7e-10 Score=97.30 Aligned_cols=89 Identities=28% Similarity=0.455 Sum_probs=76.0
Q ss_pred eecCHH-HHHHHHHhcC-CceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPV-EALATVRIQR-DIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~-EALe~L~~~~-~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.++. +|++.++. . .||+|++|+.||+++|+++++.+++..+.+|||++|+........+++..|+++|+.||+..
T Consensus 34 ~a~~g~~~al~~~~~-~~~~dlii~D~~mp~~~G~~~~~~l~~~~~~~pvv~~t~~~~~~~~~~~~~~g~~~~l~kP~~~ 112 (130)
T COG0784 34 EAADGEEEALELLRE-LPQPDLILLDINMPGMDGIELLRRLRARGPNIPVILLTAYADEADRERALAAGADDYLTKPIFL 112 (130)
T ss_pred EeCChHHHHHHHHHh-CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCCCCEEEEEcCcCHHHHHHHHHcCCCeEEcCCCCc
Confidence 466885 99999987 6 49999999999999999999999987677888999999888777778999999999999776
Q ss_pred HH-HHHHHHHHHH
Q 043479 80 DD-LKNVWQYAMT 91 (534)
Q Consensus 80 ee-L~~aI~~aL~ 91 (534)
.+ |..++.+.+.
T Consensus 113 ~~~l~~~i~~~~~ 125 (130)
T COG0784 113 EEELLAALRRLLA 125 (130)
T ss_pred HHHHHHHHHHHHH
Confidence 66 7777775543
No 43
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=99.11 E-value=8.1e-10 Score=112.23 Aligned_cols=86 Identities=27% Similarity=0.504 Sum_probs=78.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
+|..+.||++.++. ..||||++|+.||+|+|++++++++...+.+|||++|++. ++...++..-+++||+||++++.
T Consensus 29 ~~~~~~eal~~Le~-~kpDLifldI~mp~~ngiefaeQvr~i~~~v~iifIssh~--eya~dsf~~n~~dYl~KPvt~ek 105 (361)
T COG3947 29 SCSHPVEALDLLEV-FKPDLIFLDIVMPYMNGIEFAEQVRDIESAVPIIFISSHA--EYADDSFGMNLDDYLPKPVTPEK 105 (361)
T ss_pred ccCCHHHHHHHHHh-cCCCEEEEEeecCCccHHHHHHHHHHhhccCcEEEEecch--hhhhhhcccchHhhccCCCCHHH
Confidence 46789999999997 8999999999999999999999999999999999999986 55567777788999999999999
Q ss_pred HHHHHHHHH
Q 043479 82 LKNVWQYAM 90 (534)
Q Consensus 82 L~~aI~~aL 90 (534)
|-++|.++.
T Consensus 106 LnraIdr~~ 114 (361)
T COG3947 106 LNRAIDRRL 114 (361)
T ss_pred HHHHHHHHh
Confidence 999999987
No 44
>PRK10529 DNA-binding transcriptional activator KdpE; Provisional
Probab=99.10 E-value=8.6e-10 Score=105.39 Aligned_cols=90 Identities=27% Similarity=0.481 Sum_probs=80.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+..+++..+.. ..||+||+|+.||+++|+++++.+++ .+.+|||++++..+.....+++++||++||.||++.++
T Consensus 30 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~-~~~~pvi~lt~~~~~~~~~~~~~~ga~~~l~kP~~~~~ 107 (225)
T PRK10529 30 EAETLQRGLLEAAT-RKPDLIILDLGLPDGDGIEFIRDLRQ-WSAIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGE 107 (225)
T ss_pred EeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHc-CCCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHH
Confidence 35678888888776 67999999999999999999999997 45799999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|...++.++++.
T Consensus 108 l~~~i~~~~~~~ 119 (225)
T PRK10529 108 LQARLRVALRRH 119 (225)
T ss_pred HHHHHHHHHhhc
Confidence 999999887653
No 45
>PRK11173 two-component response regulator; Provisional
Probab=99.08 E-value=9.8e-10 Score=106.60 Aligned_cols=90 Identities=28% Similarity=0.457 Sum_probs=81.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.||+++|+++++.+++. +.+|||++++..+......+++.||++||.||++.++
T Consensus 32 ~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~-~~~pii~lt~~~~~~~~~~~~~~ga~d~l~kP~~~~e 109 (237)
T PRK11173 32 EATDGAEMHQILSE-NDINLVIMDINLPGKNGLLLARELREQ-ANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRE 109 (237)
T ss_pred EECCHHHHHHHHhh-CCCCEEEEcCCCCCCCHHHHHHHHhcC-CCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHH
Confidence 46788999998876 789999999999999999999999975 5799999999999888889999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|...++.++++.
T Consensus 110 L~~~i~~~l~r~ 121 (237)
T PRK11173 110 LTIRARNLLSRT 121 (237)
T ss_pred HHHHHHHHHhcc
Confidence 999999888653
No 46
>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=99.05 E-value=1.5e-09 Score=107.90 Aligned_cols=90 Identities=27% Similarity=0.407 Sum_probs=81.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCC--CcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTH--LPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~--ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
++.++.++++.+.. ..||+||+|+.||+++|+++++.+++..+. +|||++|+..+.....++++.|+++|+.||++.
T Consensus 33 ~a~~~~eal~~l~~-~~~DlvllD~~mp~~dG~~~l~~i~~~~~~~~~~iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~ 111 (262)
T TIGR02875 33 VAHNGVDALELIKE-QQPDVVVLDIIMPHLDGIGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLKPFDL 111 (262)
T ss_pred EeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhhccccCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCH
Confidence 36789999999987 789999999999999999999999986655 899999999999989999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMTY 92 (534)
Q Consensus 80 eeL~~aI~~aL~~ 92 (534)
++|...|++++..
T Consensus 112 ~~L~~~i~~~~~~ 124 (262)
T TIGR02875 112 EILAARIRQLAWG 124 (262)
T ss_pred HHHHHHHHHHHcc
Confidence 9999999987654
No 47
>PRK09581 pleD response regulator PleD; Reviewed
Probab=99.04 E-value=6.2e-10 Score=117.15 Aligned_cols=90 Identities=21% Similarity=0.433 Sum_probs=81.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.++.+|+..+.+ .+|||||+|+.||+++|+++++.+++. .+++|||++|+..+.+.+.++++.||++||.||+++
T Consensus 183 ~~~~~~~a~~~~~~-~~~d~vi~d~~~p~~~g~~l~~~i~~~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~ 261 (457)
T PRK09581 183 VVSDPSEALFNAAE-TNYDLVIVSANFENYDPLRLCSQLRSKERTRYVPILLLVDEDDDPRLVKALELGVNDYLMRPIDK 261 (457)
T ss_pred eecChHHHHHhccc-CCCCEEEecCCCCCchHhHHHHHHHhccccCCCcEEEEeCCCChHHHHHHHHccchhhhhCCCcH
Confidence 46788899998876 789999999999999999999999974 478999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMTY 92 (534)
Q Consensus 80 eeL~~aI~~aL~~ 92 (534)
++|...|...+..
T Consensus 262 ~~l~~~i~~~~~~ 274 (457)
T PRK09581 262 NELLARVRTQIRR 274 (457)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999876654
No 48
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=99.03 E-value=1.3e-09 Score=117.29 Aligned_cols=93 Identities=29% Similarity=0.497 Sum_probs=85.8
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.++.+|+..+.+ .+||+||+|+.||++||+++++++|.. ...+|||++++.++.....+|++.|+.|||.||+..
T Consensus 161 ~a~~~~~Al~~~~e-~~~dlil~d~~mp~~dg~el~~~lr~~~~t~~ipii~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~ 239 (435)
T COG3706 161 EATDGEEALLQLAE-LPPDLVLLDANMPDMDGLELCTRLRQLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPIEE 239 (435)
T ss_pred eecCHHHHHHHHhc-CCCcEEEEecCCCccCHHHHHHHHhcccccccccEEEEecccchHHHHHHHHcCCcceEecCCCH
Confidence 57799999999988 699999999999999999999999974 456999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhh
Q 043479 80 DDLKNVWQYAMTYKKA 95 (534)
Q Consensus 80 eeL~~aI~~aL~~k~~ 95 (534)
.+|...+++.+++.+.
T Consensus 240 ~~l~~Rl~~~l~~~~~ 255 (435)
T COG3706 240 GELRARLRRQLRRKRY 255 (435)
T ss_pred HHHHHHHHHHHHhhhH
Confidence 9999999999887664
No 49
>PRK14084 two-component response regulator; Provisional
Probab=99.03 E-value=2.1e-09 Score=105.39 Aligned_cols=89 Identities=21% Similarity=0.347 Sum_probs=78.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.++++.+.. ..||+||+|+.||+++|+++++.|++..+..+||++|+.. ....++++.|+.+||.||++.++
T Consensus 31 ~~~~~~~~l~~~~~-~~~dlv~lDi~m~~~~G~~~~~~i~~~~~~~~iI~~t~~~--~~~~~~~~~~~~~yl~KP~~~~~ 107 (246)
T PRK14084 31 EAENVKETLEALLI-NQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIFATAHD--QFAVKAFELNATDYILKPFEQKR 107 (246)
T ss_pred EECCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEEecCh--HHHHHHHhcCCcEEEECCCCHHH
Confidence 46788999998876 6899999999999999999999999877778888888865 35678999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+++++++..
T Consensus 108 l~~~l~~~~~~~ 119 (246)
T PRK14084 108 IEQAVNKVRATK 119 (246)
T ss_pred HHHHHHHHHHhh
Confidence 999999987653
No 50
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.01 E-value=9.9e-10 Score=126.68 Aligned_cols=89 Identities=29% Similarity=0.492 Sum_probs=81.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
++.++.||++.+.....||+||+|++||.|||++..++||+.. .++|||.+|+..+.....+|++.|.++||.||++.+
T Consensus 695 ~~~sg~e~l~~~~~~~~y~~ifmD~qMP~mDG~e~~~~irk~~~~~~pIvAlTa~~~~~~~~~c~~~Gmd~yl~KP~~~~ 774 (786)
T KOG0519|consen 695 EVNSGQEALDKLKPPHSYDVIFMDLQMPEMDGYEATREIRKKERWHLPIVALTADADPSTEEECLEVGMDGYLSKPFTLE 774 (786)
T ss_pred eecCcHHHHHhcCCCCcccEEEEEcCCcccchHHHHHHHHHhhcCCCCEEEEecCCcHHHHHHHHHhCCceEEcccccHH
Confidence 4568999999998447899999999999999999999999743 569999999999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 043479 81 DLKNVWQYAM 90 (534)
Q Consensus 81 eL~~aI~~aL 90 (534)
.|+.++++.+
T Consensus 775 ~l~~~l~~~~ 784 (786)
T KOG0519|consen 775 KLVKILREFL 784 (786)
T ss_pred HHHHHHHHHh
Confidence 9999998876
No 51
>PRK10701 DNA-binding transcriptional regulator RstA; Provisional
Probab=99.01 E-value=3.3e-09 Score=102.89 Aligned_cols=90 Identities=24% Similarity=0.362 Sum_probs=80.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.++++.+.. ..||+||+|+.||+++|+++++.+++.. ..|||++++..+......++++|+++||.||++.++
T Consensus 30 ~~~~~~~~l~~~~~-~~~dlvild~~l~~~~g~~~~~~ir~~~-~~pii~l~~~~~~~~~~~~~~~Ga~d~l~kP~~~~~ 107 (240)
T PRK10701 30 VEPRGDRAEATILR-EQPDLVLLDIMLPGKDGMTICRDLRPKW-QGPIVLLTSLDSDMNHILALEMGACDYILKTTPPAV 107 (240)
T ss_pred EeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHH
Confidence 35688999998876 7899999999999999999999999854 589999999888888889999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+++.++++.
T Consensus 108 l~~~i~~~l~~~ 119 (240)
T PRK10701 108 LLARLRLHLRQN 119 (240)
T ss_pred HHHHHHHHHhcc
Confidence 999999887653
No 52
>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=99.01 E-value=2.2e-09 Score=115.19 Aligned_cols=90 Identities=26% Similarity=0.361 Sum_probs=83.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-----CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-----MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP 76 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-----mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP 76 (534)
++.++.+|++.+.. ..||+||+|+.||+ ++|+++++.+++..+++|||++|+..+.+...++++.||++||.||
T Consensus 25 ~a~~~~~al~~l~~-~~~dlvllD~~mp~~~~~~~~g~~~l~~i~~~~~~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP 103 (445)
T TIGR02915 25 VAADRESAIALVRR-HEPAVVTLDLGLPPDADGASEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGAYDFYQKP 103 (445)
T ss_pred EeCCHHHHHHHHhh-CCCCEEEEeCCCCCCcCCCCCHHHHHHHHHhhCCCCCEEEEecCCCHHHHHHHHHCCccEEEeCC
Confidence 56889999999987 78999999999996 8999999999998999999999999999999999999999999999
Q ss_pred CChHHHHHHHHHHHHH
Q 043479 77 LNPDDLKNVWQYAMTY 92 (534)
Q Consensus 77 ~s~eeL~~aI~~aL~~ 92 (534)
++.++|..+|++++..
T Consensus 104 ~~~~~L~~~i~~~~~~ 119 (445)
T TIGR02915 104 IDPDVLKLIVDRAFHL 119 (445)
T ss_pred CCHHHHHHHHhhhhhh
Confidence 9999999999887753
No 53
>PLN03029 type-a response regulator protein; Provisional
Probab=98.99 E-value=3.5e-09 Score=104.41 Aligned_cols=92 Identities=34% Similarity=0.540 Sum_probs=79.3
Q ss_pred eecCHHHHHHHHHhc-------------------CCceEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEEEecCCCHHH
Q 043479 2 TVTRPVEALATVRIQ-------------------RDIDLVVTDLHMPEMNGIELQKEINEEF--THLPVMVMSSDDRESV 60 (534)
Q Consensus 2 tass~~EALe~L~~~-------------------~~pDLVLLDi~mPdmdGleLL~~Lr~~~--p~ipVIVLSs~~d~~~ 60 (534)
++.++.++++.+... ..+||||+|+.||+++|+++++.|++.. +++|||++|+..+...
T Consensus 37 ~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~~mp~~~G~e~l~~ir~~~~~~~ipvIils~~~~~~~ 116 (222)
T PLN03029 37 TVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSR 116 (222)
T ss_pred EECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcCCCCCCCHHHHHHHHHhccccCCCcEEEEeCCCCHHH
Confidence 467889999888541 1367999999999999999999999753 5799999999999999
Q ss_pred HHHHHHcCCcEEEeCCCChHHHHHHHHHHHHHh
Q 043479 61 IMKALASGVAFYILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 61 ~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~k 93 (534)
..+++++|+++||.||+...+|...+.+++..+
T Consensus 117 ~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~~~ 149 (222)
T PLN03029 117 ITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTK 149 (222)
T ss_pred HHHHHHhCchheEECCCCHHHHHHHHHHHHHHH
Confidence 999999999999999999999988887776544
No 54
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=98.98 E-value=2.8e-09 Score=125.08 Aligned_cols=91 Identities=26% Similarity=0.391 Sum_probs=84.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.+|++.+.. ..||+||+|+.||+|+|+++++.|++..+.+|||++|+..+.+...+++++|+++||.||++.++
T Consensus 830 ~a~~g~eal~~l~~-~~~DlVl~D~~mP~mdG~el~~~ir~~~~~~pII~lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~ 908 (924)
T PRK10841 830 TANDGVDALNVLSK-NHIDIVLTDVNMPNMDGYRLTQRLRQLGLTLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDV 908 (924)
T ss_pred EECCHHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHH
Confidence 57899999999987 78999999999999999999999999888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+|.++....
T Consensus 909 L~~~L~~~~~~~ 920 (924)
T PRK10841 909 LKQTLTVYAERV 920 (924)
T ss_pred HHHHHHHHHHHh
Confidence 999999876543
No 55
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=98.97 E-value=1.6e-09 Score=100.90 Aligned_cols=87 Identities=22% Similarity=0.323 Sum_probs=81.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.+.+|+|..++. ..|+..++|+.|.+.+|+++++.|++..++..|||+|++.+.....+|++.||++||.||.+.++
T Consensus 38 ~a~~~~eal~~art-~~PayAvvDlkL~~gsGL~~i~~lr~~~~d~rivvLTGy~sIATAV~AvKlGA~~YLaKPAdaDd 116 (182)
T COG4567 38 TAESVEEALAAART-APPAYAVVDLKLGDGSGLAVIEALRERRADMRIVVLTGYASIATAVEAVKLGACDYLAKPADADD 116 (182)
T ss_pred eeccHHHHHHHHhc-CCCceEEEEeeecCCCchHHHHHHHhcCCcceEEEEecchHHHHHHHHHHhhhhhhcCCCCChHH
Confidence 57899999999998 88999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHH
Q 043479 82 LKNVWQYA 89 (534)
Q Consensus 82 L~~aI~~a 89 (534)
+..++.+.
T Consensus 117 i~aAl~~~ 124 (182)
T COG4567 117 ILAALLRR 124 (182)
T ss_pred HHHHHhhc
Confidence 98777543
No 56
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.97 E-value=2.7e-09 Score=123.66 Aligned_cols=92 Identities=17% Similarity=0.305 Sum_probs=84.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.+|++.+....+|||||+|+.||+++|+++++.|++..+.+|||++|+........++++.|+++||.||++.++
T Consensus 710 ~a~~~~~al~~~~~~~~~Dlvl~D~~mp~~~G~~~~~~lr~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~ 789 (914)
T PRK11466 710 AVGNAAQALETLQNSEPFAAALVDFDLPDYDGITLARQLAQQYPSLVLIGFSAHVIDETLRQRTSSLFRGIIPKPVPREV 789 (914)
T ss_pred EeCCHHHHHHHHHcCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEEeCCCchhhHHHHHhcCcCCEEeCCCCHHH
Confidence 47899999998864356899999999999999999999999889999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+|.++++..
T Consensus 790 L~~~i~~~~~~~ 801 (914)
T PRK11466 790 LGQLLAHYLQLQ 801 (914)
T ss_pred HHHHHHHHhhhc
Confidence 999999988653
No 57
>PRK13856 two-component response regulator VirG; Provisional
Probab=98.97 E-value=5.8e-09 Score=101.80 Aligned_cols=90 Identities=21% Similarity=0.411 Sum_probs=78.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCC-CHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDD-RESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~-d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.++.++++.+.. ..||+||+|+.||+++|+++++.++.. +.+|+|++++.. +.....+++++||++||.||++.+
T Consensus 30 ~~~~~~~~~~~~~~-~~~dlvi~d~~l~~~~g~~l~~~i~~~-~~~pii~lt~~~~~~~~~~~~l~~Ga~~yl~kP~~~~ 107 (241)
T PRK13856 30 AVADSQQFNRVLAS-ETVDVVVVDLNLGREDGLEIVRSLATK-SDVPIIIISGDRLEEADKVVALELGATDFIAKPFGTR 107 (241)
T ss_pred EECCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCcEEEEECCCCcHHHHHHHHhcCcCeEEeCCCCHH
Confidence 45788899988876 789999999999999999999999875 469999999854 566677899999999999999999
Q ss_pred HHHHHHHHHHHHh
Q 043479 81 DLKNVWQYAMTYK 93 (534)
Q Consensus 81 eL~~aI~~aL~~k 93 (534)
+|...|+.++++.
T Consensus 108 eL~~~i~~~l~~~ 120 (241)
T PRK13856 108 EFLARIRVALRVR 120 (241)
T ss_pred HHHHHHHHHHhhc
Confidence 9999999887653
No 58
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.92 E-value=5.5e-09 Score=120.66 Aligned_cols=90 Identities=22% Similarity=0.350 Sum_probs=82.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
++.++.+|++.+.. ..||+||+|+.||+++|+++++.|++. .+++|||++|+..+.....++++.|+++||.||++.
T Consensus 696 ~~~~~~~al~~~~~-~~~dlil~D~~mp~~~g~~~~~~lr~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~ 774 (919)
T PRK11107 696 LCDSGHQAVEQAKQ-RPFDLILMDIQMPGMDGIRACELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKPIDE 774 (919)
T ss_pred EECCHHHHHHHHHh-CCCCEEEEeCCCCCCcHHHHHHHHHhcccCCCCCEEEEeCCCCHHHHHHHHHcCCCeEeeCCCCH
Confidence 46799999999987 789999999999999999999999973 567999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMTY 92 (534)
Q Consensus 80 eeL~~aI~~aL~~ 92 (534)
++|..+|++++..
T Consensus 775 ~~L~~~l~~~~~~ 787 (919)
T PRK11107 775 AMLKQVLLRYKPG 787 (919)
T ss_pred HHHHHHHHHHccc
Confidence 9999999988754
No 59
>PRK15115 response regulator GlrR; Provisional
Probab=98.91 E-value=5.4e-09 Score=112.15 Aligned_cols=91 Identities=29% Similarity=0.445 Sum_probs=84.2
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.+|++.+.. ..||+||+|+.||+++|+++++.+++..+.+|||++|+..+.....+++++|+.+||.||++.++
T Consensus 34 ~~~~~~eal~~l~~-~~~dlvilD~~lp~~~g~~ll~~l~~~~~~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~ 112 (444)
T PRK15115 34 TAESGQEALRVLNR-EKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDA 112 (444)
T ss_pred EeCCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHhcChhhhccCCCCHHH
Confidence 46789999999886 78999999999999999999999999888999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+|.+++...
T Consensus 113 L~~~l~~~~~~~ 124 (444)
T PRK15115 113 LYKAIDDALEQS 124 (444)
T ss_pred HHHHHHHHHHhh
Confidence 999999887653
No 60
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=98.90 E-value=9.8e-09 Score=111.04 Aligned_cols=90 Identities=26% Similarity=0.459 Sum_probs=83.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.+++..+.. ..||+||+|+.||+++|+++++.+++..+.+|||++|+..+......+++.|+.+||.||++.++
T Consensus 32 ~~~s~~~al~~l~~-~~~DlvllD~~lp~~dgl~~l~~ir~~~~~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~ 110 (469)
T PRK10923 32 TFENGNEVLEALAS-KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110 (469)
T ss_pred EECCHHHHHHHHhc-CCCCEEEECCCCCCCCHHHHHHHHHhhCCCCeEEEEECCCCHHHHHHHHhcCcceEEecCCcHHH
Confidence 46789999999987 78999999999999999999999999888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHH
Q 043479 82 LKNVWQYAMTY 92 (534)
Q Consensus 82 L~~aI~~aL~~ 92 (534)
|...|.+++..
T Consensus 111 L~~~i~~~l~~ 121 (469)
T PRK10923 111 AVALVERAISH 121 (469)
T ss_pred HHHHHHHHHHH
Confidence 99999988764
No 61
>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=98.90 E-value=9.5e-09 Score=110.74 Aligned_cols=91 Identities=25% Similarity=0.432 Sum_probs=83.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++.+|+..+.. ..||+||+|+.||+++|+++++.+++..+.+|||++|+..+.....++++.|+.+||.||++.++
T Consensus 27 ~~~~~~~al~~~~~-~~~DlVllD~~~p~~~g~~ll~~l~~~~~~~~vIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~ 105 (463)
T TIGR01818 27 TFGNAASVLRALAR-GQPDLLITDVRMPGEDGLDLLPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDE 105 (463)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHcCcceeecCCCCHHH
Confidence 46688999998876 78999999999999999999999999888999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+|++++...
T Consensus 106 L~~~i~~~l~~~ 117 (463)
T TIGR01818 106 AVTLVERALAHA 117 (463)
T ss_pred HHHHHHHHHHHH
Confidence 999999887643
No 62
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=98.90 E-value=6.2e-09 Score=111.26 Aligned_cols=91 Identities=32% Similarity=0.480 Sum_probs=83.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.++++.+.. ..||+||+|+.||+++|+++++.+++..+.+|||++|++.+.....++++.|+.+||.||++.++
T Consensus 34 ~~~~~~~al~~l~~-~~~DlvilD~~m~~~~G~~~~~~ir~~~~~~~vi~lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~ 112 (441)
T PRK10365 34 LANSGRQALEQVRE-QVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDN 112 (441)
T ss_pred EeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEEECCCCHHHHHHHHHhhhHHHhcCCCCHHH
Confidence 46789999998876 77999999999999999999999999889999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh
Q 043479 82 LKNVWQYAMTYK 93 (534)
Q Consensus 82 L~~aI~~aL~~k 93 (534)
|..+|++++...
T Consensus 113 L~~~l~~~l~~~ 124 (441)
T PRK10365 113 LQATLEKALAHT 124 (441)
T ss_pred HHHHHHHHHHHH
Confidence 999999887643
No 63
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=98.89 E-value=9.1e-09 Score=119.05 Aligned_cols=89 Identities=22% Similarity=0.390 Sum_probs=81.8
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh----CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE----FTHLPVMVMSSDDRESVIMKALASGVAFYILKPL 77 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~----~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~ 77 (534)
++.++.+|++.++. ..||+||+|+.||+++|+++++.+++. .+.+|||++|+..+.....+++++|+++||.||+
T Consensus 719 ~a~~~~~al~~~~~-~~~dlil~D~~mp~~~G~~~~~~ir~~~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~ 797 (921)
T PRK15347 719 TAASGTEALELGRQ-HRFDLVLMDIRMPGLDGLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPV 797 (921)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhchhhcCCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCC
Confidence 57799999999987 789999999999999999999999863 3679999999999999999999999999999999
Q ss_pred ChHHHHHHHHHHHH
Q 043479 78 NPDDLKNVWQYAMT 91 (534)
Q Consensus 78 s~eeL~~aI~~aL~ 91 (534)
+.++|..++.+++.
T Consensus 798 ~~~~L~~~l~~~~~ 811 (921)
T PRK15347 798 TLAQLARALELAAE 811 (921)
T ss_pred CHHHHHHHHHHHHh
Confidence 99999999988764
No 64
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=98.89 E-value=8.4e-09 Score=110.87 Aligned_cols=90 Identities=30% Similarity=0.439 Sum_probs=83.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.++++.+.. ..||+||+|+.||+++|+++++.+++..+.+|||++|+..+.....++++.|+.+||.||++.++
T Consensus 33 ~~~~~~~al~~l~~-~~~dlillD~~~p~~~g~~ll~~i~~~~~~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~ 111 (457)
T PRK11361 33 CANNGRTALHLFAD-IHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDE 111 (457)
T ss_pred EECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEeCCCCHHHHHHHHHCCccEEEecccCHHH
Confidence 46789999999886 78999999999999999999999998888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHH
Q 043479 82 LKNVWQYAMTY 92 (534)
Q Consensus 82 L~~aI~~aL~~ 92 (534)
|...|++++..
T Consensus 112 L~~~i~~~l~~ 122 (457)
T PRK11361 112 LNLIVQRALQL 122 (457)
T ss_pred HHHHHhhhccc
Confidence 99999887654
No 65
>PRK11697 putative two-component response-regulatory protein YehT; Provisional
Probab=98.87 E-value=1.7e-08 Score=98.13 Aligned_cols=86 Identities=23% Similarity=0.396 Sum_probs=73.2
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.++.++++.+.. ..||+||+|+.||+++|+++++.++.. ...+||++|+.. +...++++.|+.+||.||++.++|
T Consensus 33 ~~~~~~~l~~~~~-~~~dlv~lDi~~~~~~G~~~~~~l~~~-~~~~ii~vt~~~--~~~~~a~~~~~~~yl~KP~~~~~l 108 (238)
T PRK11697 33 CSNAIEAIGAIHR-LKPDVVFLDIQMPRISGLELVGMLDPE-HMPYIVFVTAFD--EYAIKAFEEHAFDYLLKPIDPARL 108 (238)
T ss_pred eCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHhccc-CCCEEEEEeccH--HHHHHHHhcCCcEEEECCCCHHHH
Confidence 5788999998876 689999999999999999999998643 335678888765 466789999999999999999999
Q ss_pred HHHHHHHHHH
Q 043479 83 KNVWQYAMTY 92 (534)
Q Consensus 83 ~~aI~~aL~~ 92 (534)
..++.++...
T Consensus 109 ~~~l~~~~~~ 118 (238)
T PRK11697 109 AKTLARLRQE 118 (238)
T ss_pred HHHHHHHHHh
Confidence 9999998754
No 66
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=98.86 E-value=1.2e-08 Score=118.94 Aligned_cols=90 Identities=17% Similarity=0.309 Sum_probs=83.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCC---CcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTH---LPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~---ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
++.++.+|++.+.. ..||+||+|+.||+++|+++++.|++..+. +|||++|+..+.....++++.|+++||.||++
T Consensus 731 ~~~~~~~a~~~l~~-~~~dlvl~D~~mp~~~g~~~~~~ir~~~~~~~~~pii~lta~~~~~~~~~~~~~G~~~~l~KP~~ 809 (968)
T TIGR02956 731 LAESGQSALECFHQ-HAFDLALLDINLPDGDGVTLLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVV 809 (968)
T ss_pred EECCHHHHHHHHHC-CCCCEEEECCCCCCCCHHHHHHHHHhCccccCCCeEEEEECCCCHHHHHHHHHCCCCEEEeCCCC
Confidence 56899999999987 789999999999999999999999986655 89999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHH
Q 043479 79 PDDLKNVWQYAMTY 92 (534)
Q Consensus 79 ~eeL~~aI~~aL~~ 92 (534)
.++|..+|.+++..
T Consensus 810 ~~~L~~~l~~~~~~ 823 (968)
T TIGR02956 810 EEQLTAMIAVILAG 823 (968)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999988754
No 67
>PRK10610 chemotaxis regulatory protein CheY; Provisional
Probab=98.82 E-value=8e-08 Score=80.56 Aligned_cols=89 Identities=26% Similarity=0.503 Sum_probs=78.3
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEF--THLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~--p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
+.+..+++..+.. ..+|+|++|+.+++++++++++.+++.. +.+|+|+++...+.....++++.|+.+|+.||++.+
T Consensus 36 ~~~~~~~~~~~~~-~~~di~l~d~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~ 114 (129)
T PRK10610 36 AEDGVDALNKLQA-GGFGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAA 114 (129)
T ss_pred eCCHHHHHHHhhc-cCCCEEEEcCCCCCCCHHHHHHHHHhCCCcCCCcEEEEECCCCHHHHHHHHHhCCCeEEECCCCHH
Confidence 4578888888776 6799999999999999999999998753 568999999888888888999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 043479 81 DLKNVWQYAMTY 92 (534)
Q Consensus 81 eL~~aI~~aL~~ 92 (534)
++...+++++++
T Consensus 115 ~l~~~l~~~~~~ 126 (129)
T PRK10610 115 TLEEKLNKIFEK 126 (129)
T ss_pred HHHHHHHHHHHH
Confidence 999999887643
No 68
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.81 E-value=2.1e-08 Score=119.88 Aligned_cols=89 Identities=30% Similarity=0.524 Sum_probs=83.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
++.++.+|++.+.. ..|||||+|+.||+++|+++++.|++..+.+|||++|+..+.....++++.|+++||.||++.++
T Consensus 987 ~~~~~~~al~~~~~-~~~dlil~D~~mp~~~g~~~~~~i~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~ 1065 (1197)
T PRK09959 987 EATDGVQALHKVSM-QHYDLLITDVNMPNMDGFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDV 1065 (1197)
T ss_pred EECCHHHHHHHhhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHH
Confidence 46789999999986 78999999999999999999999999888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 043479 82 LKNVWQYAMT 91 (534)
Q Consensus 82 L~~aI~~aL~ 91 (534)
|..+|++++.
T Consensus 1066 L~~~l~~~~~ 1075 (1197)
T PRK09959 1066 LKTHLSQLHQ 1075 (1197)
T ss_pred HHHHHHHHhh
Confidence 9999988764
No 69
>PRK09581 pleD response regulator PleD; Reviewed
Probab=98.79 E-value=4.8e-08 Score=102.86 Aligned_cols=92 Identities=25% Similarity=0.405 Sum_probs=82.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEF--THLPVMVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~--p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
++.+..+++..+.. ..||+||+|+.+|+.+|+++++.+++.. +.+|||+++...+.....+++..|+++||.||++.
T Consensus 31 ~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~l~~~i~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~kp~~~ 109 (457)
T PRK09581 31 TASSGAEAIAICER-EQPDIILLDVMMPGMDGFEVCRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPIND 109 (457)
T ss_pred EeCCHHHHHHHHhh-cCCCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCH
Confidence 46788999999886 7899999999999999999999998743 46899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhh
Q 043479 80 DDLKNVWQYAMTYKK 94 (534)
Q Consensus 80 eeL~~aI~~aL~~k~ 94 (534)
++|..+++++++.+.
T Consensus 110 ~~l~~~i~~~~~~~~ 124 (457)
T PRK09581 110 VALFARVKSLTRLKM 124 (457)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999998876543
No 70
>PRK12555 chemotaxis-specific methylesterase; Provisional
Probab=98.75 E-value=5.7e-08 Score=101.15 Aligned_cols=88 Identities=22% Similarity=0.333 Sum_probs=73.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCC--HHHHHHHHHcCCcEEEeCCC--
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDR--ESVIMKALASGVAFYILKPL-- 77 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d--~~~~~~AL~aGA~dyL~KP~-- 77 (534)
.+.++.++++.+.. ..||+|++|+.||+++|++++++|++..+ +|||++++..+ .....++++.|+.+||.||+
T Consensus 31 ~a~~~~eal~~l~~-~~pDlVllD~~mp~~~G~e~l~~l~~~~~-~pvivvs~~~~~~~~~~~~al~~Ga~d~l~KP~~~ 108 (337)
T PRK12555 31 VATDGAQAVERCAA-QPPDVILMDLEMPRMDGVEATRRIMAERP-CPILIVTSLTERNASRVFEAMGAGALDAVDTPTLG 108 (337)
T ss_pred EECCHHHHHHHHhc-cCCCEEEEcCCCCCCCHHHHHHHHHHHCC-CcEEEEeCCCCcCHHHHHHHHhcCceEEEECCCCC
Confidence 36789999999987 78999999999999999999999988665 89999998754 45677899999999999999
Q ss_pred -------ChHHHHHHHHHHHH
Q 043479 78 -------NPDDLKNVWQYAMT 91 (534)
Q Consensus 78 -------s~eeL~~aI~~aL~ 91 (534)
..++|...|+.+.+
T Consensus 109 ~~~~~~~~~~~l~~~i~~~~~ 129 (337)
T PRK12555 109 IGAGLEEYAAELLAKIDQIGR 129 (337)
T ss_pred cchhHHHHHHHHHHHHHHHhh
Confidence 45566666665543
No 71
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=98.73 E-value=5.8e-08 Score=111.21 Aligned_cols=89 Identities=21% Similarity=0.378 Sum_probs=77.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhC--CC-CcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEF--TH-LPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~--p~-ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
++.++.+|++.+.. ..||+||+|+.||+++|+++++.|++.. +. +|||++|+.... ...++++.|+++||.||++
T Consensus 554 ~a~~~~eal~~~~~-~~~Dlvl~D~~mp~~~G~e~~~~ir~~~~~~~~~~ii~~ta~~~~-~~~~~~~~G~~~~l~KP~~ 631 (779)
T PRK11091 554 VAMTGKEALEMFDP-DEYDLVLLDIQLPDMTGLDIARELRERYPREDLPPLVALTANVLK-DKKEYLDAGMDDVLSKPLS 631 (779)
T ss_pred EECCHHHHHHHhhc-CCCCEEEEcCCCCCCCHHHHHHHHHhccccCCCCcEEEEECCchH-hHHHHHHCCCCEEEECCCC
Confidence 47899999999986 7899999999999999999999999865 45 488888887654 4578899999999999999
Q ss_pred hHHHHHHHHHHHHH
Q 043479 79 PDDLKNVWQYAMTY 92 (534)
Q Consensus 79 ~eeL~~aI~~aL~~ 92 (534)
.++|..+|++++..
T Consensus 632 ~~~L~~~l~~~~~~ 645 (779)
T PRK11091 632 VPALTAMIKKFWDT 645 (779)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999988754
No 72
>PRK13435 response regulator; Provisional
Probab=98.70 E-value=1.2e-07 Score=85.33 Aligned_cols=89 Identities=19% Similarity=0.332 Sum_probs=74.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCC-CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMP-EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mP-dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.+..++++.+.. ..||+||+|+.++ +.+|+++++.+++. +.+|+|+++...+. ..++..|+++|+.||++.+
T Consensus 35 ~~~~~~~~~~~~~~-~~~dliivd~~~~~~~~~~~~~~~l~~~-~~~pii~ls~~~~~---~~~~~~ga~~~l~kp~~~~ 109 (145)
T PRK13435 35 IAMSSEQAIALGRR-RQPDVALVDVHLADGPTGVEVARRLSAD-GGVEVVFMTGNPER---VPHDFAGALGVIAKPYSPR 109 (145)
T ss_pred eeCCHHHHHHHhhh-cCCCEEEEeeecCCCCcHHHHHHHHHhC-CCCCEEEEeCCHHH---HHHHhcCcceeEeCCCCHH
Confidence 46788889888876 6799999999998 58999999999764 57999999876432 4677899999999999999
Q ss_pred HHHHHHHHHHHHhhh
Q 043479 81 DLKNVWQYAMTYKKA 95 (534)
Q Consensus 81 eL~~aI~~aL~~k~~ 95 (534)
+|..+|++++.++..
T Consensus 110 ~l~~~i~~~~~~~~~ 124 (145)
T PRK13435 110 GVARALSYLSARRVG 124 (145)
T ss_pred HHHHHHHHHHhcCcc
Confidence 999999998765544
No 73
>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=98.69 E-value=1.5e-07 Score=74.88 Aligned_cols=86 Identities=27% Similarity=0.483 Sum_probs=75.7
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.+..+++..+.. ..+|+||+|..+++.+++++++.++...+.+|+++++..........++..|+.+|+.||+..++|
T Consensus 27 ~~~~~~~~~~~~~-~~~~~ii~~~~~~~~~~~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~p~~~~~l 105 (113)
T cd00156 27 AEDGEEALALLAE-EKPDLILLDIMMPGMDGLELLRRIRKRGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEEL 105 (113)
T ss_pred ecCHHHHHHHHHh-CCCCEEEEecCCCCCchHHHHHHHHHhCCCCCEEEEEecccHHHHHHHHHcChhhHccCCCCHHHH
Confidence 4567788888776 689999999999999999999999987778999999988777888889999999999999999999
Q ss_pred HHHHHHH
Q 043479 83 KNVWQYA 89 (534)
Q Consensus 83 ~~aI~~a 89 (534)
..+++++
T Consensus 106 ~~~l~~~ 112 (113)
T cd00156 106 LARIRAL 112 (113)
T ss_pred HHHHHhh
Confidence 9888754
No 74
>PRK13558 bacterio-opsin activator; Provisional
Probab=98.64 E-value=1.3e-07 Score=106.48 Aligned_cols=90 Identities=21% Similarity=0.279 Sum_probs=78.8
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCCh--
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNP-- 79 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~-- 79 (534)
.+.++.+++..+.. ..|||||+|+.||+++|+++++.|+...+.+|||++|+..+.....+++..|+.+||.||...
T Consensus 36 ~~~~~~~al~~~~~-~~~Dlvl~d~~lp~~~g~~~l~~l~~~~~~~piI~lt~~~~~~~~~~al~~Ga~dyl~k~~~~~~ 114 (665)
T PRK13558 36 QIRDFVAARDRVEA-GEIDCVVADHEPDGFDGLALLEAVRQTTAVPPVVVVPTAGDEAVARRAVDADAAAYVPAVSDDAT 114 (665)
T ss_pred eeCCHHHHHHHhhc-cCCCEEEEeccCCCCcHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHhcCcceEEeccchhHH
Confidence 46788999998876 779999999999999999999999998889999999999999999999999999999999754
Q ss_pred HHHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMTY 92 (534)
Q Consensus 80 eeL~~aI~~aL~~ 92 (534)
..+..+++.++..
T Consensus 115 ~~l~~~i~~~~~~ 127 (665)
T PRK13558 115 AAIAERIESAVPE 127 (665)
T ss_pred HHHHHHHHHhhhc
Confidence 3666667666654
No 75
>PRK00742 chemotaxis-specific methylesterase; Provisional
Probab=98.64 E-value=1.9e-07 Score=97.72 Aligned_cols=75 Identities=25% Similarity=0.413 Sum_probs=65.8
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCC--CHHHHHHHHHcCCcEEEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDD--RESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~--d~~~~~~AL~aGA~dyL~KP~s 78 (534)
.+.+..++++.+.. ..||+|++|+.||+++|++++++|++..+ +|||++++.. ......++++.|+++||.||+.
T Consensus 34 ~a~~~~~al~~~~~-~~~DlVllD~~mp~~dgle~l~~i~~~~~-~piIvls~~~~~~~~~~~~al~~Ga~d~l~kP~~ 110 (354)
T PRK00742 34 TAPDGLEAREKIKK-LNPDVITLDVEMPVMDGLDALEKIMRLRP-TPVVMVSSLTERGAEITLRALELGAVDFVTKPFL 110 (354)
T ss_pred EECCHHHHHHHHhh-hCCCEEEEeCCCCCCChHHHHHHHHHhCC-CCEEEEecCCCCCHHHHHHHHhCCCcEEEeCCcc
Confidence 45689999998876 78999999999999999999999998877 9999999754 3456678999999999999994
No 76
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=98.53 E-value=4.1e-07 Score=88.02 Aligned_cols=91 Identities=24% Similarity=0.368 Sum_probs=73.2
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.++.++.+.+.. ..||+||+|+.+|..|-.+-+ .+....+..|||++|+++++..+..++++||.+||+||++...|
T Consensus 36 ~~~~~~~~~~~~~-~~pDvVildie~p~rd~~e~~-~~~~~~~~~piv~lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl 113 (194)
T COG3707 36 AADGLEAVEVCER-LQPDVVILDIEMPRRDIIEAL-LLASENVARPIVALTAYSDPALIEAAIEAGVMAYIVKPLDESRL 113 (194)
T ss_pred ecccccchhHHHh-cCCCEEEEecCCCCccHHHHH-HHhhcCCCCCEEEEEccCChHHHHHHHHcCCeEEEecCcchhhh
Confidence 3455566667766 789999999999998833333 23334455899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhh
Q 043479 83 KNVWQYAMTYKKA 95 (534)
Q Consensus 83 ~~aI~~aL~~k~~ 95 (534)
+.++.-+..+...
T Consensus 114 ~p~L~vA~srf~~ 126 (194)
T COG3707 114 LPILDVAVSRFEE 126 (194)
T ss_pred hHHHHHHHHHHHH
Confidence 9999888766543
No 77
>PRK09191 two-component response regulator; Provisional
Probab=98.52 E-value=8.2e-07 Score=87.57 Aligned_cols=87 Identities=23% Similarity=0.421 Sum_probs=73.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.+..++++.+.. ..||+||+|+.||+ ++|+++++.++... .+|||++|+..+.... +...++.+|+.||++.+
T Consensus 167 ~~~~~~~~l~~l~~-~~~dlvi~d~~~~~~~~g~e~l~~l~~~~-~~pii~ls~~~~~~~~--~~~~~~~~~l~kP~~~~ 242 (261)
T PRK09191 167 IARTRAEAVALAKK-TRPGLILADIQLADGSSGIDAVNDILKTF-DVPVIFITAFPERLLT--GERPEPAFLITKPFQPD 242 (261)
T ss_pred EECCHHHHHHHHhc-cCCCEEEEecCCCCCCCHHHHHHHHHHhC-CCCEEEEeCCCcHHHH--HHhcccCceEECCCCHH
Confidence 35678889998876 78999999999995 89999999998876 7999999997765433 34467889999999999
Q ss_pred HHHHHHHHHHHH
Q 043479 81 DLKNVWQYAMTY 92 (534)
Q Consensus 81 eL~~aI~~aL~~ 92 (534)
+|..+|++++..
T Consensus 243 ~l~~~i~~~~~~ 254 (261)
T PRK09191 243 TVKAAISQALFF 254 (261)
T ss_pred HHHHHHHHHHhc
Confidence 999999987654
No 78
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=98.48 E-value=7.2e-07 Score=93.83 Aligned_cols=75 Identities=31% Similarity=0.438 Sum_probs=66.8
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCC--HHHHHHHHHcCCcEEEeCCCC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDR--ESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d--~~~~~~AL~aGA~dyL~KP~s 78 (534)
++.++.+|++.+.+ ..||+|.+|+.||.|||+++++.|....| +|||++|+... .+...+++++||.||+.||..
T Consensus 32 ~a~ng~~a~~~~~~-~~PDVi~ld~emp~mdgl~~l~~im~~~p-~pVimvsslt~~g~~~t~~al~~gAvD~i~kp~~ 108 (350)
T COG2201 32 TARNGREAIDKVKK-LKPDVITLDVEMPVMDGLEALRKIMRLRP-LPVIMVSSLTEEGAEATLEALELGAVDFIAKPSG 108 (350)
T ss_pred ecCCHHHHHHHHHh-cCCCEEEEecccccccHHHHHHHHhcCCC-CcEEEEeccccccHHHHHHHHhcCcceeecCCCc
Confidence 46799999999998 89999999999999999999999998855 99999987654 456788999999999999974
No 79
>PRK13557 histidine kinase; Provisional
Probab=98.37 E-value=1.8e-06 Score=92.95 Aligned_cols=91 Identities=22% Similarity=0.297 Sum_probs=80.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.+..++++.+.....||+||+|..+++ ++|+++++.|+...+.+|||+++...+......++..|+.+|+.||++.+
T Consensus 444 ~~~~~~~~~~~~~~~~~~d~vi~d~~~~~~~~~~~~~~~l~~~~~~~~ii~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~ 523 (540)
T PRK13557 444 VASNGREALEILDSHPEVDLLFTDLIMPGGMNGVMLAREARRRQPKIKVLLTTGYAEASIERTDAGGSEFDILNKPYRRA 523 (540)
T ss_pred EeCCHHHHHHHHhcCCCceEEEEeccCCCCCCHHHHHHHHHHhCCCCcEEEEcCCCchhhhhhhccccCCceeeCCCCHH
Confidence 35788899998865236999999999997 99999999999988889999999998888888889999999999999999
Q ss_pred HHHHHHHHHHHH
Q 043479 81 DLKNVWQYAMTY 92 (534)
Q Consensus 81 eL~~aI~~aL~~ 92 (534)
+|..+++.++..
T Consensus 524 ~l~~~l~~~~~~ 535 (540)
T PRK13557 524 ELARRVRMVLDG 535 (540)
T ss_pred HHHHHHHHHhcC
Confidence 999999887643
No 80
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=98.32 E-value=2.4e-06 Score=99.21 Aligned_cols=89 Identities=17% Similarity=0.194 Sum_probs=79.7
Q ss_pred eecCHHHHHHHHHhc-CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 2 TVTRPVEALATVRIQ-RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~-~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.++.++++.+... ..||+||+ .||+++|+++++.|+...+.+|||+++...+.....+++..| ++||.||++.+
T Consensus 726 ~~~s~~~al~~l~~~~~~~DlVll--~~~~~~g~~l~~~l~~~~~~ipIIvls~~~~~~~~~~~~~~G-~d~L~KP~~~~ 802 (828)
T PRK13837 726 GFSTLAAAIAWISKGPERFDLVLV--DDRLLDEEQAAAALHAAAPTLPIILGGNSKTMALSPDLLASV-AEILAKPISSR 802 (828)
T ss_pred EeCCHHHHHHHHHhCCCCceEEEE--CCCCCCHHHHHHHHHhhCCCCCEEEEeCCCchhhhhhHhhcc-CcEEeCCCCHH
Confidence 467899999998753 34799999 689999999999999989999999999999988889999999 99999999999
Q ss_pred HHHHHHHHHHHHh
Q 043479 81 DLKNVWQYAMTYK 93 (534)
Q Consensus 81 eL~~aI~~aL~~k 93 (534)
+|..+|+++++..
T Consensus 803 ~L~~~l~~~l~~~ 815 (828)
T PRK13837 803 TLAYALRTALATA 815 (828)
T ss_pred HHHHHHHHHHccc
Confidence 9999999988643
No 81
>COG3279 LytT Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]
Probab=98.22 E-value=2.8e-06 Score=85.44 Aligned_cols=87 Identities=26% Similarity=0.401 Sum_probs=76.2
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.++.++++.++. ..+|++++|+.||+++|+++...|+...+..+|+++|++. +.+..+++..|.+||.||+..+.|
T Consensus 33 ~~~~~~~~~~~~~-~~~~~~fldI~~~~~~G~ela~~i~~~~~~~~Ivfvt~~~--~~a~~afev~a~d~i~kp~~~~~l 109 (244)
T COG3279 33 AENGEEALQLLQG-LRPDLVFLDIAMPDINGIELAARIRKGDPRPAIVFVTAHD--EYAVAAFEVEALDYLLKPISEERL 109 (244)
T ss_pred eccchhhHHHHhc-cCCCeEEEeeccCccchHHHHHHhcccCCCCeEEEEEehH--HHHHHHHhHHHHhhhcCcchHHHH
Confidence 5677888888887 6899999999999999999999999887778899999976 556677889999999999999999
Q ss_pred HHHHHHHHHH
Q 043479 83 KNVWQYAMTY 92 (534)
Q Consensus 83 ~~aI~~aL~~ 92 (534)
...+.+..+.
T Consensus 110 ~~~l~~~~~~ 119 (244)
T COG3279 110 AKTLERLRRY 119 (244)
T ss_pred HHHHHHHHHH
Confidence 9999876543
No 82
>PRK15029 arginine decarboxylase; Provisional
Probab=97.70 E-value=0.00016 Score=83.40 Aligned_cols=90 Identities=17% Similarity=0.178 Sum_probs=67.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHH----HHHHHHHhhCCCCcEEEEecCCC--HHHHHHHHHcCCcEEEeC
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGI----ELQKEINEEFTHLPVMVMSSDDR--ESVIMKALASGVAFYILK 75 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGl----eLL~~Lr~~~p~ipVIVLSs~~d--~~~~~~AL~aGA~dyL~K 75 (534)
.+.++++|++.+.....||+||+|+.||+++|+ +++++||+..+++|||++|+..+ +......+ --+.+|+.+
T Consensus 37 ~a~s~~dAl~~l~~~~~~DlVLLD~~LPd~dG~~~~~ell~~IR~~~~~iPIIlLTar~~~~~~~~~~~~-~~~~~~~~~ 115 (755)
T PRK15029 37 KSTSFDDGFAILSSNEAIDCLMFSYQMEHPDEHQNVRQLIGKLHERQQNVPVFLLGDREKALAAMDRDLL-ELVDEFAWI 115 (755)
T ss_pred EECCHHHHHHHHHhcCCCcEEEEECCCCCCccchhHHHHHHHHHhhCCCCCEEEEEcCCcccccCCHHHH-HhhheEEEe
Confidence 577899999999752479999999999999997 89999998888899999999986 33333322 336788887
Q ss_pred CCChHHH-HHHHHHHHHH
Q 043479 76 PLNPDDL-KNVWQYAMTY 92 (534)
Q Consensus 76 P~s~eeL-~~aI~~aL~~ 92 (534)
-.+..++ ...|...+++
T Consensus 116 ~~~~~~~~~~~~~~~~~~ 133 (755)
T PRK15029 116 LEDTADFIAGRAVAAMTR 133 (755)
T ss_pred cCCCHHHHHHHHHHHHHH
Confidence 6554444 3445555444
No 83
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=97.54 E-value=0.00012 Score=79.53 Aligned_cols=88 Identities=24% Similarity=0.334 Sum_probs=76.1
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+..+.+++..+.. +++|.+++|+.||+++|+++++.+++.-. .++++|...+.....+.+++|++++|.||+....+
T Consensus 18 a~~g~~~l~~~~~-~~~~~~lld~~m~~~~~~~~~~~lk~~~~--~~v~~t~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 94 (435)
T COG3706 18 AKKGLIALAILLD-HKPDYKLLDVMMPGMDGFELCRRLKAEPA--TVVMVTALDDSAPRVRGLKAGADDFLTKPVNDSQL 94 (435)
T ss_pred ccchHHHHHHHhc-CCCCeEEeecccCCcCchhHHHHHhcCCc--ceEEEEecCCCCcchhHHhhhhhhhccCCCChHHH
Confidence 5678888988887 89999999999999999999999987532 38888888888888899999999999999999888
Q ss_pred HHHHHHHHHHh
Q 043479 83 KNVWQYAMTYK 93 (534)
Q Consensus 83 ~~aI~~aL~~k 93 (534)
......+.+.+
T Consensus 95 ~~r~~~l~~~k 105 (435)
T COG3706 95 FLRAKSLVRLK 105 (435)
T ss_pred HHhhhhhccch
Confidence 88777766543
No 84
>PRK15320 transcriptional activator SprB; Provisional
Probab=95.82 E-value=0.085 Score=52.02 Aligned_cols=46 Identities=9% Similarity=0.091 Sum_probs=38.7
Q ss_pred cCC--chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 163 AWT--DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 163 ~Wt--~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
.|. +.|++++.+++..|..+.. .++|++.|+ ++..+|+.|+.+.+.
T Consensus 158 ~~~~~~~LSdREIEVL~LLAkG~S-NKEIAekL~---LS~KTVSTYKnRLLe 205 (251)
T PRK15320 158 WWNLPPGVTQAKYALLILLSSGHP-AIELAKKFG---LGTKTVSIYRKKVMY 205 (251)
T ss_pred eecCCCCCCHHHHHHHHHHHcCCC-HHHHHHHhc---cchhhHHHHHHHHHH
Confidence 454 4599999999999985555 999999999 999999999777655
No 85
>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=95.01 E-value=0.064 Score=47.95 Aligned_cols=90 Identities=20% Similarity=0.172 Sum_probs=66.7
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-C
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-N 78 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s 78 (534)
.+.+.+|++..++....++.||+||. ++ ....++++.++.....+||.+++.....+.+-..+-.-+++|+.... +
T Consensus 22 ~~~~~dd~~~~i~~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~~iPVFl~~~~~~~~~l~~~~l~~v~~~i~l~~~t 100 (115)
T PF03709_consen 22 DADSTDDALAIIESFTDIAAVVISWD-GEEEDEAQELLDKIRERNFGIPVFLLAERDTTEDLPAEVLGEVDGFIWLFEDT 100 (115)
T ss_dssp EESSHHHHHHHHHCTTTEEEEEEECH-HHHHHHHHHHHHHHHHHSTT-EEEEEESCCHHHCCCHHHHCCESEEEETTTTT
T ss_pred EeCChHHHHHHHHhCCCeeEEEEEcc-cccchhHHHHHHHHHHhCCCCCEEEEecCCCcccCCHHHHhhccEEEEecCCC
Confidence 46788999999987567889999987 21 23567999999999999999999877555444455566889987764 5
Q ss_pred hHHHHHHHHHHHHH
Q 043479 79 PDDLKNVWQYAMTY 92 (534)
Q Consensus 79 ~eeL~~aI~~aL~~ 92 (534)
++.+...|..+.++
T Consensus 101 ~~fia~rI~~Aa~~ 114 (115)
T PF03709_consen 101 AEFIARRIEAAARR 114 (115)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh
Confidence 56666777776643
No 86
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=94.71 E-value=0.15 Score=59.53 Aligned_cols=74 Identities=11% Similarity=0.062 Sum_probs=59.5
Q ss_pred CCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHH
Q 043479 17 RDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL 90 (534)
..||++|+|+.+|+..+...+...... ....++|+++...+......+.+.|+++|+.||+...+|..++....
T Consensus 575 ~~~d~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~ 650 (919)
T PRK11107 575 AHYDILLLGLPVTFREPLTMLHERLAKAKSMTDFLILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPALLEPC 650 (919)
T ss_pred CCCCEEEecccCCCCCCHHHHHHHHHhhhhcCCcEEEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHHHHhh
Confidence 579999999999987776655554432 22356778888888888889999999999999999999998887654
No 87
>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=93.36 E-value=0.75 Score=41.32 Aligned_cols=82 Identities=12% Similarity=-0.071 Sum_probs=59.4
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEM--NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdm--dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
..++.++.+.+ ..+|+|.+-..+... .--++++.|++..+....|++.+....+...++.++|++.|+..-.+.+++
T Consensus 38 p~e~~~~~a~~-~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~~~~~~~~~~~G~d~~~~~~~~~~~~ 116 (122)
T cd02071 38 TPEEIVEAAIQ-EDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIPPEDYELLKEMGVAEIFGPGTSIEEI 116 (122)
T ss_pred CHHHHHHHHHH-cCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEECCCCCHHHH
Confidence 46777888877 789999998776532 234567777776554444556655556667788899999999988888888
Q ss_pred HHHHH
Q 043479 83 KNVWQ 87 (534)
Q Consensus 83 ~~aI~ 87 (534)
...|+
T Consensus 117 ~~~~~ 121 (122)
T cd02071 117 IDKIR 121 (122)
T ss_pred HHHHh
Confidence 76654
No 88
>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=93.20 E-value=0.2 Score=39.10 Aligned_cols=45 Identities=27% Similarity=0.327 Sum_probs=36.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
..|++++.+++..+..+.. +++|++.|+ ++..+|..|+.+.+..+
T Consensus 2 ~~LT~~E~~vl~~l~~G~~-~~eIA~~l~---is~~tV~~~~~~i~~Kl 46 (58)
T PF00196_consen 2 PSLTERELEVLRLLAQGMS-NKEIAEELG---ISEKTVKSHRRRIMKKL 46 (58)
T ss_dssp GSS-HHHHHHHHHHHTTS--HHHHHHHHT---SHHHHHHHHHHHHHHHH
T ss_pred CccCHHHHHHHHHHHhcCC-cchhHHhcC---cchhhHHHHHHHHHHHh
Confidence 3589999999999976666 999999999 89999999988776643
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=92.84 E-value=0.21 Score=51.92 Aligned_cols=67 Identities=16% Similarity=0.086 Sum_probs=46.9
Q ss_pred CceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe-cCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHH
Q 043479 18 DIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMS-SDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 18 ~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLS-s~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL 90 (534)
.-.+||+|..+-. .++......++ .++++. ...+......++++|+.+||.+|++.++|.+++.++.
T Consensus 19 ~~~~v~~~~~~~~----~~~~~~~p~~~--~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~P~~~~~l~~~l~~~~ 86 (322)
T TIGR03815 19 RAPLVLVDADMAE----ACAAAGLPRRR--RVVLVGGGEPGGALWRAAAAVGAEHVAVLPEAEGWLVELLADLD 86 (322)
T ss_pred cCCeEEECchhhh----HHHhccCCCCC--CEEEEeCCCCCHHHHHHHHHhChhheeeCCCCHHHHHHHHHhhc
Confidence 3688999864411 12222222233 355444 4557888999999999999999999999999998764
No 90
>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed
Probab=92.14 E-value=1.9 Score=41.48 Aligned_cols=69 Identities=19% Similarity=0.215 Sum_probs=52.3
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCC--------CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEM--------NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdm--------dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+..|+.+... ..+|+|.+....|.. .|++.++++++..+++||++..+- +.+.+..++++||+++..
T Consensus 111 ~~t~~e~~~a~~--~gaD~v~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~v~a~GGI-~~~~i~~~~~~Ga~gv~~ 187 (212)
T PRK00043 111 THTLEEAAAALA--AGADYVGVGPIFPTPTKKDAKAPQGLEGLREIRAAVGDIPIVAIGGI-TPENAPEVLEAGADGVAV 187 (212)
T ss_pred CCCHHHHHHHhH--cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEEEE
Confidence 456677777665 468999987555532 358999999887766998887766 577788999999999874
No 91
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=92.02 E-value=0.54 Score=47.01 Aligned_cols=71 Identities=7% Similarity=0.029 Sum_probs=52.4
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccCCchhHhhhhhcccchHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAMGKTLALRSSFASGHVSMMLQ 245 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~~~~~~lr~~~~sg~~~~~~~ 245 (534)
..|++|+.++++.++.+.. .++|++.|+ ++..||+.|+.+... |.. ...+....+-++..|-+.++++
T Consensus 142 ~~LS~RE~eVL~Lia~G~S-nkEIA~~L~---IS~~TVk~hvs~I~~---KLg-----v~sR~eLv~~A~~~gli~~~~~ 209 (217)
T PRK13719 142 NKVTKYQNDVFILYSFGFS-HEYIAQLLN---ITVGSSKNKISEILK---FFG-----ISSRDELLIILHTSEMIFYLYK 209 (217)
T ss_pred CCCCHHHHHHHHHHHCCCC-HHHHHHHhC---CCHHHHHHHHHHHHH---HhC-----CCCHHHHHHHHHHcCChHHHHH
Confidence 5699999999999986655 999999999 999999999776533 221 2233345566666677777776
Q ss_pred Hhh
Q 043479 246 EAH 248 (534)
Q Consensus 246 ~~~ 248 (534)
.+-
T Consensus 210 ~~~ 212 (217)
T PRK13719 210 KVF 212 (217)
T ss_pred HHH
Confidence 653
No 92
>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=91.52 E-value=2.2 Score=39.24 Aligned_cols=86 Identities=13% Similarity=-0.036 Sum_probs=59.0
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCC-CC-HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPE-MN-GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPd-md-GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+++++++.+.+ ..+|+|.+-..+.. +. --++++.|++.......|++-+....+...+..++|+++|+..-.+..+
T Consensus 40 ~s~e~~v~aa~e-~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~~~~~~~l~~~Gvd~~~~~gt~~~~ 118 (132)
T TIGR00640 40 QTPEEIARQAVE-ADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIPPQDFDELKEMGVAEIFGPGTPIPE 118 (132)
T ss_pred CCHHHHHHHHHH-cCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCChHhHHHHHHCCCCEEECCCCCHHH
Confidence 467888888877 78999888665543 22 2345666666544333344454444555677889999999988888888
Q ss_pred HHHHHHHHH
Q 043479 82 LKNVWQYAM 90 (534)
Q Consensus 82 L~~aI~~aL 90 (534)
+...+...+
T Consensus 119 i~~~l~~~~ 127 (132)
T TIGR00640 119 SAIFLLKKL 127 (132)
T ss_pred HHHHHHHHH
Confidence 888887754
No 93
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=91.44 E-value=2 Score=39.78 Aligned_cols=85 Identities=12% Similarity=0.069 Sum_probs=62.1
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCC--CHHHHHHHHHhh-CCCCcEEEEecCC------CHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEM--NGIELQKEINEE-FTHLPVMVMSSDD------RESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdm--dGleLL~~Lr~~-~p~ipVIVLSs~~------d~~~~~~AL~aGA~dyL~K 75 (534)
..++.++.+.+ ..+|+|.+-..+... .-.++++.|++. .++++|+ +.+.. ..+...++.+.|++.++..
T Consensus 42 p~e~i~~~a~~-~~~d~V~lS~~~~~~~~~~~~~~~~L~~~~~~~~~i~-vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~ 119 (137)
T PRK02261 42 SQEEFIDAAIE-TDADAILVSSLYGHGEIDCRGLREKCIEAGLGDILLY-VGGNLVVGKHDFEEVEKKFKEMGFDRVFPP 119 (137)
T ss_pred CHHHHHHHHHH-cCCCEEEEcCccccCHHHHHHHHHHHHhcCCCCCeEE-EECCCCCCccChHHHHHHHHHcCCCEEECc
Confidence 56788888877 789999999877642 345677788776 3455544 44432 2345567889999999998
Q ss_pred CCChHHHHHHHHHHHH
Q 043479 76 PLNPDDLKNVWQYAMT 91 (534)
Q Consensus 76 P~s~eeL~~aI~~aL~ 91 (534)
..+.+++...|++.+.
T Consensus 120 ~~~~~~i~~~l~~~~~ 135 (137)
T PRK02261 120 GTDPEEAIDDLKKDLN 135 (137)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 8999999998888763
No 94
>PRK06704 RNA polymerase factor sigma-70; Validated
Probab=90.97 E-value=0.76 Score=46.15 Aligned_cols=78 Identities=15% Similarity=0.121 Sum_probs=61.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccC---CchhHhhhhhcccchHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAM---GKTLALRSSFASGHVSMM 243 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~---~~~~~lr~~~~sg~~~~~ 243 (534)
.|..+..+++...-.+...-++|++.|+ ++..+|+++|.+-|..|+...+.+-... ....++-.+|+...|.++
T Consensus 116 ~Lp~~~R~v~lL~~~eg~S~~EIAe~Lg---iS~~tVksrL~Rark~Lr~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (228)
T PRK06704 116 SLNVQQSAILLLKDVFQYSIADIAKVCS---VSEGAVKASLFRSRNRLKTVSEEGIEIVEFTDDMEVVVTSIREERPELL 192 (228)
T ss_pred hCCHHHhhHhhhHHhhCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHhcCCCCCccccHHHHHHHHHhcCHHHH
Confidence 4677777777776555666899999999 8999999999999999998887643322 224578888999999988
Q ss_pred HHHh
Q 043479 244 LQEA 247 (534)
Q Consensus 244 ~~~~ 247 (534)
++-+
T Consensus 193 ~~~~ 196 (228)
T PRK06704 193 TKLL 196 (228)
T ss_pred HHHh
Confidence 8755
No 95
>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=90.15 E-value=2.2 Score=43.37 Aligned_cols=82 Identities=9% Similarity=-0.042 Sum_probs=61.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHcCCcEEE-eCCCChHHHHHH
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALASGVAFYI-LKPLNPDDLKNV 85 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL-~KP~s~eeL~~a 85 (534)
..++.+.. ..+|.|++|++....+.-++...++.. ...+.++|=....+...+.++++.|+++++ +|--+.+++.++
T Consensus 24 ~~~e~~~~-~g~D~v~iDlEH~~~~~~~~~~~~~a~~~~g~~~~VRv~~~~~~~i~~~Ld~Ga~gIivP~v~s~e~a~~~ 102 (249)
T TIGR02311 24 YAAEICAG-AGFDWLLIDGEHAPNDVRTILSQLQALAPYPSSPVVRPAIGDPVLIKQLLDIGAQTLLVPMIETAEQAEAA 102 (249)
T ss_pred HHHHHHHh-cCCCEEEEeccCCCCCHHHHHHHHHHHHhcCCCcEEECCCCCHHHHHHHhCCCCCEEEecCcCCHHHHHHH
Confidence 44555555 569999999998888888887777653 223455666666777889999999999986 666788888877
Q ss_pred HHHHH
Q 043479 86 WQYAM 90 (534)
Q Consensus 86 I~~aL 90 (534)
++.+.
T Consensus 103 v~~~~ 107 (249)
T TIGR02311 103 VAATR 107 (249)
T ss_pred HHHcC
Confidence 77654
No 96
>PRK13870 transcriptional regulator TraR; Provisional
Probab=89.98 E-value=0.52 Score=47.29 Aligned_cols=45 Identities=16% Similarity=0.143 Sum_probs=40.4
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
..|+.|+.|+|.....+|. .++|+..|+ +|.+||+-||...|..|
T Consensus 172 ~~LT~RE~E~L~W~A~GKT-~~EIa~ILg---ISe~TV~~Hl~na~~KL 216 (234)
T PRK13870 172 AWLDPKEATYLRWIAVGKT-MEEIADVEG---VKYNSVRVKLREAMKRF 216 (234)
T ss_pred CCCCHHHHHHHHHHHcCCC-HHHHHHHHC---CCHHHHHHHHHHHHHHc
Confidence 3599999999999987777 999999999 99999999999887743
No 97
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=89.56 E-value=0.75 Score=44.84 Aligned_cols=45 Identities=11% Similarity=0.015 Sum_probs=38.4
Q ss_pred CCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 164 WTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 164 Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
.+..|++|+.+++..++.++. .++|++.|+ ++.+||+.|+.+...
T Consensus 130 ~~~~LSpRErEVLrLLAqGkT-nKEIAe~L~---IS~rTVkth~srImk 174 (198)
T PRK15201 130 TTRHFSVTERHLLKLIASGYH-LSETAALLS---LSEEQTKSLRRSIMR 174 (198)
T ss_pred CCCCCCHHHHHHHHHHHCCCC-HHHHHHHhC---CCHHHHHHHHHHHHH
Confidence 345599999999999986666 999999999 999999999876544
No 98
>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=89.05 E-value=4.4 Score=37.63 Aligned_cols=87 Identities=8% Similarity=-0.001 Sum_probs=61.0
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCC-CC-HHHHHHHHHhhCCCCcEEEEecCC---CHH---HHHHHHHcCCcEEEeC
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPE-MN-GIELQKEINEEFTHLPVMVMSSDD---RES---VIMKALASGVAFYILK 75 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPd-md-GleLL~~Lr~~~p~ipVIVLSs~~---d~~---~~~~AL~aGA~dyL~K 75 (534)
.++++.++.+.+ ..+|+|.+...|.. +. --++.+.|++....-++|++-+.. ..+ ...++.+.|++..+..
T Consensus 39 v~~e~~v~aa~~-~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~~vi~~~d~~~~~~~l~~~Gv~~vF~p 117 (134)
T TIGR01501 39 SPQEEFIKAAIE-TKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGNLVVGKQDFPDVEKRFKEMGFDRVFAP 117 (134)
T ss_pred CCHHHHHHHHHH-cCCCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCCcCcChhhhHHHHHHHHHcCCCEEECc
Confidence 467888888887 78999999887754 22 334666777655434455565531 112 2446788999999998
Q ss_pred CCChHHHHHHHHHHHH
Q 043479 76 PLNPDDLKNVWQYAMT 91 (534)
Q Consensus 76 P~s~eeL~~aI~~aL~ 91 (534)
...++++...|++.++
T Consensus 118 gt~~~~iv~~l~~~~~ 133 (134)
T TIGR01501 118 GTPPEVVIADLKKDLN 133 (134)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 8899999999988763
No 99
>PRK10188 DNA-binding transcriptional activator SdiA; Provisional
Probab=88.54 E-value=0.83 Score=45.98 Aligned_cols=44 Identities=11% Similarity=0.196 Sum_probs=39.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
.|+.|+.+++..+..++. .++|++.|+ ++.+||+.|+.+.+..|
T Consensus 179 ~LT~rE~evl~~~a~G~t-~~eIa~~l~---is~~TV~~h~~~~~~KL 222 (240)
T PRK10188 179 NFSKREKEILKWTAEGKT-SAEIAMILS---ISENTVNFHQKNMQKKF 222 (240)
T ss_pred CCCHHHHHHHHHHHcCCC-HHHHHHHhC---CCHHHHHHHHHHHHHHh
Confidence 599999999999976666 999999999 99999999999877643
No 100
>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=88.28 E-value=2.4 Score=37.56 Aligned_cols=67 Identities=21% Similarity=0.227 Sum_probs=48.3
Q ss_pred CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 17 RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
...+.+++-..-.. ...++++.+.+..|.+||+++......... ..+.+-|..|++..+|.++++++
T Consensus 41 ~~~~~~~v~~g~~~-~~~~~l~~l~~~~~~~Pvlllg~~~~~~~~-----~nvvg~Le~Pl~Y~qLt~~L~~c 107 (109)
T PF06490_consen 41 SPWEACAVILGSCS-KLAELLKELLKWAPHIPVLLLGEHDSPEEL-----PNVVGELEEPLNYPQLTDALHRC 107 (109)
T ss_pred cCCcEEEEEecCch-hHHHHHHHHHhhCCCCCEEEECCCCccccc-----cCeeEecCCCCCHHHHHHHHHHh
Confidence 34454444332222 556788999999999999999887765111 12778899999999999999886
No 101
>COG2771 CsgD DNA-binding HTH domain-containing proteins [Transcription]
Probab=88.03 E-value=1.5 Score=33.95 Aligned_cols=43 Identities=23% Similarity=0.352 Sum_probs=36.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
..|+.++.+++..+..++. +++|+..++ ++..+|..|+.+...
T Consensus 3 ~~Lt~rE~~v~~l~~~G~s-~~eia~~l~---is~~tV~~h~~~i~~ 45 (65)
T COG2771 3 ADLTPREREILRLVAQGKS-NKEIARILG---ISEETVKTHLRNIYR 45 (65)
T ss_pred ccCCHHHHHHHHHHHCCCC-HHHHHHHHC---CCHHHHHHHHHHHHH
Confidence 3578999999999976644 999999999 999999999877544
No 102
>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=87.94 E-value=1.2 Score=33.36 Aligned_cols=47 Identities=28% Similarity=0.386 Sum_probs=39.1
Q ss_pred ccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHH
Q 043479 162 VAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYR 211 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyR 211 (534)
-.|+.+-...|++++..+|.. .-+.|++.|. .+-|...+++|.++|+
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 369999999999999999854 3588999987 7889999999988773
No 103
>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=87.78 E-value=4.2 Score=41.41 Aligned_cols=81 Identities=7% Similarity=0.075 Sum_probs=60.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-ChHHHHHH
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-NPDDLKNV 85 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s~eeL~~a 85 (534)
.+.+.+.. ..+|.|++|++....+--++...++.. ...++.+|=....+...+.++++.|+++++.--+ +.++.+++
T Consensus 24 ~~~e~~a~-~G~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~VRvp~~~~~~i~r~LD~Ga~gIivP~v~taeea~~~ 102 (249)
T TIGR03239 24 ITTEVLGL-AGFDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVVRPPWNEPVIIKRLLDIGFYNFLIPFVESAEEAERA 102 (249)
T ss_pred HHHHHHHh-cCCCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhcCCCCEEEecCcCCHHHHHHH
Confidence 45555655 569999999999988887777777653 2335566667777889999999999999987444 56777766
Q ss_pred HHHH
Q 043479 86 WQYA 89 (534)
Q Consensus 86 I~~a 89 (534)
++.+
T Consensus 103 v~a~ 106 (249)
T TIGR03239 103 VAAT 106 (249)
T ss_pred HHHc
Confidence 6554
No 104
>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional
Probab=87.78 E-value=4.1 Score=41.96 Aligned_cols=81 Identities=9% Similarity=0.075 Sum_probs=59.4
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-ChHHHHHH
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-NPDDLKNV 85 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s~eeL~~a 85 (534)
.+.+.+.. ..||.|++|++....+--++...++.. ...+..++-....+...+.++++.||.+++.--+ +.++.+.+
T Consensus 30 ~~~E~~a~-~GfD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~lVRvp~~~~~~i~r~LD~GA~GIivP~V~saeeA~~~ 108 (267)
T PRK10128 30 YMAEIAAT-SGYDWLLIDGEHAPNTIQDLYHQLQAIAPYASQPVIRPVEGSKPLIKQVLDIGAQTLLIPMVDTAEQARQV 108 (267)
T ss_pred HHHHHHHH-cCCCEEEEccccCCCCHHHHHHHHHHHHhcCCCeEEECCCCCHHHHHHHhCCCCCeeEecCcCCHHHHHHH
Confidence 44555555 569999999999888877777777653 2335556666777888999999999999998655 55666666
Q ss_pred HHHH
Q 043479 86 WQYA 89 (534)
Q Consensus 86 I~~a 89 (534)
++.+
T Consensus 109 V~a~ 112 (267)
T PRK10128 109 VSAT 112 (267)
T ss_pred HHhc
Confidence 6554
No 105
>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=87.64 E-value=2.7 Score=37.10 Aligned_cols=69 Identities=17% Similarity=0.126 Sum_probs=48.2
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.++.++.+.+ .+||+|.+-..+.. ....++++.+++..+ +++|+ +.+..-......+.+.|++.|+..
T Consensus 38 ~~~~l~~~~~~-~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~-vGG~~~~~~~~~~~~~G~D~~~~~ 109 (119)
T cd02067 38 PPEEIVEAAKE-EDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVL-VGGAIVTRDFKFLKEIGVDAYFGP 109 (119)
T ss_pred CHHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEE-EECCCCChhHHHHHHcCCeEEECC
Confidence 46677888877 78999999877554 345678888888776 56554 455444444457788999877763
No 106
>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional
Probab=87.28 E-value=4.4 Score=41.42 Aligned_cols=81 Identities=9% Similarity=0.084 Sum_probs=60.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-ChHHHHHH
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-NPDDLKNV 85 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s~eeL~~a 85 (534)
.+.+.+.. ..+|.|++|++....|--++...++.. ...++.+|=....+...+.++++.|+.+++.--+ +.++.+.+
T Consensus 31 ~~~e~~a~-~G~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~lVRvp~~~~~~i~r~LD~Ga~giivP~v~tae~a~~~ 109 (256)
T PRK10558 31 ITTEVLGL-AGFDWLVLDGEHAPNDVSTFIPQLMALKGSASAPVVRVPTNEPVIIKRLLDIGFYNFLIPFVETAEEARRA 109 (256)
T ss_pred HHHHHHHh-cCCCEEEEccccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhCCCCCeeeecCcCCHHHHHHH
Confidence 45555655 569999999999988877777777653 2335666667777889999999999999986443 56777766
Q ss_pred HHHH
Q 043479 86 WQYA 89 (534)
Q Consensus 86 I~~a 89 (534)
++.+
T Consensus 110 v~a~ 113 (256)
T PRK10558 110 VAST 113 (256)
T ss_pred HHHc
Confidence 6655
No 107
>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=84.03 E-value=11 Score=37.83 Aligned_cols=82 Identities=23% Similarity=0.355 Sum_probs=55.8
Q ss_pred HHHHHHHhcCCceEEEEeCCC--CCCC--------------------HHHHHHHHHhhCCCCcEEEEecCCC------HH
Q 043479 8 EALATVRIQRDIDLVVTDLHM--PEMN--------------------GIELQKEINEEFTHLPVMVMSSDDR------ES 59 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~m--Pdmd--------------------GleLL~~Lr~~~p~ipVIVLSs~~d------~~ 59 (534)
+.++.+.+ ...|++=+|+=. |-+| ++++++++|+.. ++|+++|+-... ..
T Consensus 18 ~~~~~l~~-~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~-~~pv~lm~y~n~~~~~G~~~ 95 (242)
T cd04724 18 EILKALVE-AGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKN-TIPIVLMGYYNPILQYGLER 95 (242)
T ss_pred HHHHHHHH-CCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcC-CCCEEEEEecCHHHHhCHHH
Confidence 44444554 468888888522 1233 456666666554 689888877543 56
Q ss_pred HHHHHHHcCCcEEEeCCCChHHHHHHHHHHHH
Q 043479 60 VIMKALASGVAFYILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 60 ~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~ 91 (534)
.+.++.++|+++++.-.+.++++...+..+.+
T Consensus 96 fi~~~~~aG~~giiipDl~~ee~~~~~~~~~~ 127 (242)
T cd04724 96 FLRDAKEAGVDGLIIPDLPPEEAEEFREAAKE 127 (242)
T ss_pred HHHHHHHCCCcEEEECCCCHHHHHHHHHHHHH
Confidence 68889999999999977778877766666643
No 108
>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=84.01 E-value=9.9 Score=38.87 Aligned_cols=60 Identities=18% Similarity=0.198 Sum_probs=48.6
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE-----eCCCChHHHHHHHHHHHHHhh
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI-----LKPLNPDDLKNVWQYAMTYKK 94 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL-----~KP~s~eeL~~aI~~aL~~k~ 94 (534)
.++++.|++. .++|||+=..-..++.+.++++.||++++ .|.-++..+.+++..++...+
T Consensus 164 ~~~I~~I~e~-~~vpVI~egGI~tpeda~~AmelGAdgVlV~SAIt~a~dP~~ma~af~~Av~aGr 228 (248)
T cd04728 164 PYNLRIIIER-ADVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAFKLAVEAGR 228 (248)
T ss_pred HHHHHHHHHh-CCCcEEEeCCCCCHHHHHHHHHcCCCEEEEChHhcCCCCHHHHHHHHHHHHHHHH
Confidence 6888988887 56999998888999999999999999996 455567777777777765443
No 109
>PRK00208 thiG thiazole synthase; Reviewed
Probab=83.31 E-value=11 Score=38.69 Aligned_cols=59 Identities=17% Similarity=0.153 Sum_probs=48.0
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE-----eCCCChHHHHHHHHHHHHHh
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI-----LKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL-----~KP~s~eeL~~aI~~aL~~k 93 (534)
.++++.|++. .++|||+=..-..++.+.++++.|+++++ .|.-++..+.+++..++...
T Consensus 164 ~~~i~~i~e~-~~vpVIveaGI~tpeda~~AmelGAdgVlV~SAItka~dP~~ma~af~~Av~aG 227 (250)
T PRK00208 164 PYNLRIIIEQ-ADVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAVAGDPVAMARAFKLAVEAG 227 (250)
T ss_pred HHHHHHHHHh-cCCeEEEeCCCCCHHHHHHHHHcCCCEEEEChHhhCCCCHHHHHHHHHHHHHHH
Confidence 6788888887 57999999999999999999999999996 45556777777777766543
No 110
>TIGR03020 EpsA transcriptional regulator EpsA. Proteins in this family include a C-terminal LuxR transcriptional regulator domain (pfam00196). These proteins are positioned proximal to either EpsH-containing exopolysaccharide biosynthesis operons of the Methylobacillus type, or the associated PEP-CTERM-containing genes.
Probab=82.86 E-value=2.3 Score=43.26 Aligned_cols=45 Identities=18% Similarity=0.190 Sum_probs=38.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
..|++|+.+++..+..++. .++|++.|+ ++..||+.|+.+.+..+
T Consensus 189 ~~LT~RE~evl~l~a~G~s-~~eIA~~L~---IS~~TVk~hl~~i~~KL 233 (247)
T TIGR03020 189 GLITAREAEILAWVRDGKT-NEEIAAILG---ISSLTVKNHLQHIFKKL 233 (247)
T ss_pred cCCCHHHHHHHHHHHCCCC-HHHHHHHHC---cCHHHHHHHHHHHHHHh
Confidence 4689999999999864444 999999999 99999999998876643
No 111
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=82.47 E-value=3.4 Score=37.98 Aligned_cols=52 Identities=15% Similarity=0.162 Sum_probs=43.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++...-.+....++|++.|+ ++..+|++||.+-|..|++..+.
T Consensus 105 ~~Lp~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~ 156 (160)
T PRK09642 105 RELPENYRDVVLAHYLEEKSYQEIALQEK---IEVKTVEMKLYRARKWIKKHWKE 156 (160)
T ss_pred HhCCHHHHHHHHHHHHhCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHhh
Confidence 34777778888776556666899999999 99999999999999998887643
No 112
>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=82.44 E-value=13 Score=37.93 Aligned_cols=57 Identities=18% Similarity=0.266 Sum_probs=44.0
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL 90 (534)
+++++++|+...++|+++|+-... ...+.++.++|+++++.-....++....+..+.
T Consensus 75 ~~~v~~ir~~~~~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~ 137 (256)
T TIGR00262 75 FELLKKVRQKHPNIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAK 137 (256)
T ss_pred HHHHHHHHhcCCCCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHH
Confidence 566777776556789887776654 567888999999999998888888877666654
No 113
>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=82.31 E-value=4 Score=43.33 Aligned_cols=66 Identities=8% Similarity=-0.020 Sum_probs=48.0
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
+++.++++....+|+|.+|+..+.. .-.+++++|++.+|+++||+= ...+.+.+..+.++||+..+
T Consensus 100 ~~~~~Lv~ag~~~d~i~iD~a~gh~~~~~e~I~~ir~~~p~~~vi~g-~V~t~e~a~~l~~aGad~i~ 166 (326)
T PRK05458 100 DFVDQLAAEGLTPEYITIDIAHGHSDSVINMIQHIKKHLPETFVIAG-NVGTPEAVRELENAGADATK 166 (326)
T ss_pred HHHHHHHhcCCCCCEEEEECCCCchHHHHHHHHHHHhhCCCCeEEEE-ecCCHHHHHHHHHcCcCEEE
Confidence 4445555431135999999998764 456789999999988877652 23367788899999999875
No 114
>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=82.05 E-value=9.1 Score=37.67 Aligned_cols=84 Identities=18% Similarity=0.146 Sum_probs=54.0
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCC---------CCHHHHHHHHHh-hCCCCcEEEEecCCCHHHHHH---HHHcCCcEE
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPE---------MNGIELQKEINE-EFTHLPVMVMSSDDRESVIMK---ALASGVAFY 72 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPd---------mdGleLL~~Lr~-~~p~ipVIVLSs~~d~~~~~~---AL~aGA~dy 72 (534)
-.+.++.+.. ..+|.|++|++-.. .+-.+++..++. ......+++=....+.....+ +++.|++++
T Consensus 10 ~~~~~~~a~~-~g~D~vilDlEd~~~~~~K~~ar~~~~~~~~~~~~~~~~~~~~~VRvn~~~~~~~~~Dl~~l~~g~~gI 88 (221)
T PF03328_consen 10 SPKMLEKAAA-SGADFVILDLEDGVPPDEKDEAREDLAEALRSIRAARAAGSEIIVRVNSLDSPHIERDLEALDAGADGI 88 (221)
T ss_dssp SHHHHHHHHT-TCSSEEEEESSTTSSGGGHHHHHHHHHHHHHHHHHHTTSSSEEEEE-SSTTCHHHHHHHHHHHTTSSEE
T ss_pred CHHHHHHHHh-cCCCEEEEeCcccCCcccchhhHHHHHHHHHhhcccccccccceecCCCCCcchhhhhhhhcccCCCee
Confidence 3455666665 68999999998755 334455555554 222356666666666666666 999999998
Q ss_pred Ee-CCCChHHHHHHHHHHH
Q 043479 73 IL-KPLNPDDLKNVWQYAM 90 (534)
Q Consensus 73 L~-KP~s~eeL~~aI~~aL 90 (534)
+. |--+.+++..+++.+.
T Consensus 89 ~lP~ves~~~~~~~~~~~~ 107 (221)
T PF03328_consen 89 VLPKVESAEDARQAVAALR 107 (221)
T ss_dssp EETT--SHHHHHHHHHHHS
T ss_pred eccccCcHHHHHHHHHHHh
Confidence 75 4446777777766553
No 115
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=81.53 E-value=5.2 Score=41.00 Aligned_cols=57 Identities=26% Similarity=0.391 Sum_probs=44.7
Q ss_pred HHHHHHHHhhCCCCcEEEEecCC------CHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDD------RESVIMKALASGVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~------d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL 90 (534)
+++++++|+..+++|+|+|+=.. -+....+|.++|+++.|.-.+.+++....+..+.
T Consensus 77 ~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~~ 139 (258)
T PRK13111 77 FELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAAK 139 (258)
T ss_pred HHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHH
Confidence 66777777666789999888443 3456888999999999998898888887776664
No 116
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=81.18 E-value=3.4 Score=38.74 Aligned_cols=50 Identities=18% Similarity=0.202 Sum_probs=41.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
..|..+..+++...-++....++|++.|+ ++..+|+++|.+-|..|++..
T Consensus 128 ~~L~~~~r~i~~l~~~~g~s~~eIA~~lg---is~~tV~~~l~Rar~~Lr~~l 177 (179)
T PRK12514 128 EELEKDRAAAVRRAYLEGLSYKELAERHD---VPLNTMRTWLRRSLLKLRECL 177 (179)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---CChHHHHHHHHHHHHHHHHHh
Confidence 34777888877777566667899999999 999999999999999888764
No 117
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=80.77 E-value=4.2 Score=39.00 Aligned_cols=53 Identities=15% Similarity=0.147 Sum_probs=44.9
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|++||.+-|..|++......
T Consensus 116 ~Lp~~~r~i~~L~~~~g~s~~EIA~~Lg---is~~tVk~~l~Rar~~Lr~~l~~~~ 168 (187)
T PRK12516 116 QLPDDQREAIILVGASGFAYEEAAEICG---CAVGTIKSRVNRARQRLQEILQIEG 168 (187)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4778888888886556666899999999 9999999999999999998887643
No 118
>TIGR03541 reg_near_HchA LuxR family transcriptional regulatory, chaperone HchA-associated. Members of this protein family belong to the LuxR transcriptional regulator family, and contain both autoinducer binding (pfam03472) and transcriptional regulator (pfam00196) domains. Members, however, occur only in a few members of the Gammaproteobacteria that have the chaperone/aminopeptidase HchA, and are always encoded by the adjacent gene.
Probab=80.71 E-value=3.2 Score=41.40 Aligned_cols=45 Identities=20% Similarity=0.254 Sum_probs=38.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lk 215 (534)
.|+.|+.+++..+..+ ...++|++.|+ ++..||+.||.+.+..|.
T Consensus 171 ~Lt~re~evl~~~a~G-~t~~eIa~~l~---is~~Tv~~~l~~~~~kl~ 215 (232)
T TIGR03541 171 VLSEREREVLAWTALG-RRQADIAAILG---ISERTVENHLRSARRKLG 215 (232)
T ss_pred cCCHHHHHHHHHHHCC-CCHHHHHHHHC---cCHHHHHHHHHHHHHHHC
Confidence 5899999999998644 44999999999 999999999998876543
No 119
>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=80.63 E-value=5.5 Score=30.19 Aligned_cols=44 Identities=16% Similarity=0.143 Sum_probs=33.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIF 213 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~ 213 (534)
.|+++..+++...-++...-++|++.|+ +|..+|+.|+.+-|..
T Consensus 10 ~L~~~~r~i~~l~~~~g~s~~eIa~~l~---~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 10 QLPERQREIFLLRYFQGMSYAEIAEILG---ISESTVKRRLRRARKK 53 (54)
T ss_dssp CS-HHHHHHHHHHHTS---HHHHHHHCT---S-HHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHCcCHHHHHHHHC---cCHHHHHHHHHHHHhh
Confidence 4778888888887666777899999998 9999999999987764
No 120
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=80.53 E-value=4.1 Score=38.72 Aligned_cols=51 Identities=14% Similarity=0.134 Sum_probs=42.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++...-++....++|++.|+ ++..+|++++.+-|..|++..+.
T Consensus 138 ~L~~~~r~v~~l~~~~g~s~~eIA~~lg---is~~tv~~~l~Rar~~Lr~~l~~ 188 (193)
T PRK11923 138 QLPEDLRTALTLREFDGLSYEDIASVMQ---CPVGTVRSRIFRAREAIDKALQP 188 (193)
T ss_pred hCCHHHhHHHhhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 3677777777775456666899999999 89999999999999999988764
No 121
>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=80.36 E-value=10 Score=36.18 Aligned_cols=70 Identities=17% Similarity=0.199 Sum_probs=51.1
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC--------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE--------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd--------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
++.+.+|+.+..+ ..+|+|.++-..+. ..|++.++++.+..+++||+++.+- +.+.+.++++.|++++.
T Consensus 102 s~h~~~e~~~a~~--~g~dyi~~~~v~~t~~k~~~~~~~g~~~l~~~~~~~~~~pv~a~GGI-~~~~~~~~~~~G~~gva 178 (196)
T TIGR00693 102 STHNLEELAEAEA--EGADYIGFGPIFPTPTKKDPAPPAGVELLREIAATSIDIPIVAIGGI-TLENAAEVLAAGADGVA 178 (196)
T ss_pred eCCCHHHHHHHhH--cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEEE
Confidence 4566777766444 46899998765542 2378999999877667898877665 57778888899999875
Q ss_pred e
Q 043479 74 L 74 (534)
Q Consensus 74 ~ 74 (534)
.
T Consensus 179 ~ 179 (196)
T TIGR00693 179 V 179 (196)
T ss_pred E
Confidence 4
No 122
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=80.30 E-value=4.4 Score=38.53 Aligned_cols=52 Identities=15% Similarity=0.077 Sum_probs=43.0
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++..+++...-++...-++|++.|+ ++..+|+++|.+-|..|++...+.
T Consensus 131 ~Lp~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~ 182 (191)
T PRK12520 131 RLPPRTGRVFMMREWLELETEEICQELQ---ITATNAWVLLYRARMRLRECLDLH 182 (191)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3777777887776556666899999999 999999999999999888876654
No 123
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=79.54 E-value=4.7 Score=37.62 Aligned_cols=51 Identities=16% Similarity=0.161 Sum_probs=41.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+.+..+++...-.+....++|++.|+ ++..+|++||.+-|..|++....
T Consensus 119 ~L~~~~r~i~~l~~~~~~s~~EIA~~lg---is~~tV~~~l~Ra~~~Lr~~l~~ 169 (173)
T PRK12522 119 LLNEKYKTVLVLYYYEQYSYKEMSEILN---IPIGTVKYRLNYAKKQMREHLEG 169 (173)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 3667777777776555666899999999 89999999999999988876654
No 124
>PRK04217 hypothetical protein; Provisional
Probab=79.35 E-value=5.9 Score=35.63 Aligned_cols=53 Identities=17% Similarity=0.175 Sum_probs=44.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
.|.....+++..+..+...-++|++.|+ ++..+|..+|.+.+..|+.......
T Consensus 42 ~Lt~eereai~l~~~eGlS~~EIAk~LG---IS~sTV~r~L~RArkkLre~L~~~~ 94 (110)
T PRK04217 42 FMTYEEFEALRLVDYEGLTQEEAGKRMG---VSRGTVWRALTSARKKVAQMLVEGR 94 (110)
T ss_pred cCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4677777888888777777999999999 9999999999999998887765543
No 125
>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=79.29 E-value=15 Score=38.31 Aligned_cols=60 Identities=22% Similarity=0.156 Sum_probs=46.8
Q ss_pred CHHHHHHHHHhhCCCCcEE--EEecCCCHHHHHHHHHcCCcEEE-----eCCCChHHHHHHHHHHHHH
Q 043479 32 NGIELQKEINEEFTHLPVM--VMSSDDRESVIMKALASGVAFYI-----LKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 32 dGleLL~~Lr~~~p~ipVI--VLSs~~d~~~~~~AL~aGA~dyL-----~KP~s~eeL~~aI~~aL~~ 92 (534)
.++++++++++.. .+||| ....-.+++.+..++++||++++ .|.-++.+..+.+..++..
T Consensus 184 ~~~elLkei~~~~-~iPVV~fAiGGI~TPedAa~~melGAdGVaVGSaI~ks~dP~~~akafv~ai~~ 250 (287)
T TIGR00343 184 VPVELLLEVLKLG-KLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSSNPEKLAKAIVEATTH 250 (287)
T ss_pred CCHHHHHHHHHhC-CCCEEEeccCCCCCHHHHHHHHHcCCCEEEEhHHhhcCCCHHHHHHHHHHHHHH
Confidence 5789999998865 48998 56666689999999999999985 4555677777777776654
No 126
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=79.27 E-value=4.9 Score=38.30 Aligned_cols=65 Identities=14% Similarity=0.132 Sum_probs=50.1
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcc-cCCchhHhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGAS-AMGKTLALRS 233 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~-~~~~~~~lr~ 233 (534)
..|+++..+++...-++....++|++.|+ ++..+|++||.+-|..|++....... +.+.....|+
T Consensus 110 ~~Lp~~~R~v~~L~~~~g~s~~EIA~~Lg---is~~tV~~~l~RAr~~Lr~~l~~~~~~~~~~~~~~~~ 175 (182)
T PRK12540 110 DKLPQDQREALILVGASGFSYEDAAAICG---CAVGTIKSRVNRARSKLSALLYVDGAEDFGPDDTVRA 175 (182)
T ss_pred HhCCHHHHHHhhHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHhccccccCCCccccc
Confidence 34788888888886556666899999999 99999999999999999988776432 2344444444
No 127
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=79.20 E-value=4.5 Score=38.09 Aligned_cols=51 Identities=12% Similarity=0.111 Sum_probs=42.5
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
..|+++..+++...-++....++|++.|+ +|..+|+++|.+-|..|+...+
T Consensus 134 ~~L~~~~r~vl~l~~~~~~s~~eIA~~lg---is~~~V~~~l~ra~~~Lr~~l~ 184 (186)
T PRK13919 134 KALSPEERRVIEVLYYQGYTHREAAQLLG---LPLGTLKTRARRALSRLKEVLR 184 (186)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHhc
Confidence 45888888888876556666899999999 8999999999999998887653
No 128
>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=78.76 E-value=10 Score=33.85 Aligned_cols=84 Identities=12% Similarity=0.079 Sum_probs=51.6
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHH
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKN 84 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~ 84 (534)
.++.++.+....+||+|.+.+..... ...++++.+|+..|+++||+--.+.... ....+.....||+.+--....+.+
T Consensus 27 ~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~GG~~~t~~-p~~~~~~~~~D~vv~GEgE~~~~~ 105 (127)
T cd02068 27 ADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVVVGGPHATFF-PEEILEEPGVDFVVIGEGEETFLK 105 (127)
T ss_pred HHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEECCcchhhC-HHHHhcCCCCCEEEECCcHHHHHH
Confidence 44556666432579999999865543 4667899999999987777655443322 222234444567776554455555
Q ss_pred HHHHHH
Q 043479 85 VWQYAM 90 (534)
Q Consensus 85 aI~~aL 90 (534)
.++.+.
T Consensus 106 l~~~l~ 111 (127)
T cd02068 106 LLEELE 111 (127)
T ss_pred HHHHHH
Confidence 555544
No 129
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=78.66 E-value=4.5 Score=37.14 Aligned_cols=49 Identities=18% Similarity=0.150 Sum_probs=40.1
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
|+++..+++...-.+....++|++.|+ ++..+|++|+.+-|..|++...
T Consensus 111 L~~~~r~i~~l~~~~g~s~~eIA~~lg---is~~tV~~~l~ra~~~Lr~~l~ 159 (162)
T TIGR02983 111 LPARQRAVVVLRYYEDLSEAQVAEALG---ISVGTVKSRLSRALARLRELLE 159 (162)
T ss_pred CCHHHHHHhhhHHHhcCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHhc
Confidence 667777777665455666899999999 9999999999999998887654
No 130
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=78.60 E-value=5.1 Score=37.56 Aligned_cols=48 Identities=13% Similarity=0.142 Sum_probs=41.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|+++|.+-|..|++.
T Consensus 134 ~Lp~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tVk~~l~Rar~~Lr~~ 181 (183)
T TIGR02999 134 QVDPRQAEVVELRFFAGLTVEEIAELLG---VSVRTVERDWRFARAWLADE 181 (183)
T ss_pred cCCHHHHHHHHHHHHcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHH
Confidence 3888888888887666677899999999 99999999999999988875
No 131
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=78.60 E-value=5.3 Score=37.64 Aligned_cols=53 Identities=15% Similarity=0.124 Sum_probs=44.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
.|+++..+++...-++....++|++.|+ ++..+|++|+.+-|..|++......
T Consensus 117 ~Lp~~~r~i~~l~~~e~~s~~EIA~~lg---is~~tV~~~l~ra~~~Lr~~l~~~~ 169 (179)
T PRK12543 117 KLPYKLRQVIILRYLHDYSQEEIAQLLQ---IPIGTVKSRIHAALKKLRQKEQIEE 169 (179)
T ss_pred hCCHHHHHHHHHHHHccCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777888888886556666899999999 9999999999999999988776653
No 132
>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=78.54 E-value=8.4 Score=28.87 Aligned_cols=46 Identities=24% Similarity=0.205 Sum_probs=36.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lk 215 (534)
.|.+++.+++...=.+...-++|++.|+ +|..+|..++.+-...||
T Consensus 4 ~L~~~er~vi~~~y~~~~t~~eIa~~lg---~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 4 QLPPREREVIRLRYFEGLTLEEIAERLG---ISRSTVRRILKRALKKLR 49 (50)
T ss_dssp TS-HHHHHHHHHHHTST-SHHHHHHHHT---SCHHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcCCCCHHHHHHHHC---CcHHHHHHHHHHHHHHhc
Confidence 4788888898888666667899999999 999999998877665554
No 133
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=78.54 E-value=12 Score=37.25 Aligned_cols=78 Identities=13% Similarity=0.230 Sum_probs=51.5
Q ss_pred ecCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 3 VTRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 3 ass~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
..+.+++++.++.- ..+++| ++.+..-++++.++.+++.+|++. |-.-.--+.+.+..++++||+-.+..-++.
T Consensus 23 ~~~~~~a~~i~~al~~~Gi~~i--Eitl~~~~~~~~I~~l~~~~p~~~-IGAGTVl~~~~a~~a~~aGA~FivsP~~~~- 98 (212)
T PRK05718 23 INKLEDAVPLAKALVAGGLPVL--EVTLRTPAALEAIRLIAKEVPEAL-IGAGTVLNPEQLAQAIEAGAQFIVSPGLTP- 98 (212)
T ss_pred cCCHHHHHHHHHHHHHcCCCEE--EEecCCccHHHHHHHHHHHCCCCE-EEEeeccCHHHHHHHHHcCCCEEECCCCCH-
Confidence 34677777766542 335544 444555589999999999988643 334444566788899999998666544555
Q ss_pred HHHH
Q 043479 81 DLKN 84 (534)
Q Consensus 81 eL~~ 84 (534)
++.+
T Consensus 99 ~vi~ 102 (212)
T PRK05718 99 PLLK 102 (212)
T ss_pred HHHH
Confidence 4443
No 134
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=78.08 E-value=5.4 Score=38.14 Aligned_cols=53 Identities=17% Similarity=0.201 Sum_probs=44.3
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
..|+.+..+++...-++....++|++.|+ ++..+|+++|.+-|..|++...+.
T Consensus 140 ~~Lp~~~r~v~~l~~~eg~s~~EIA~~lg---is~~tVk~rl~ra~~~Lr~~l~~~ 192 (194)
T PRK12531 140 DRLPKAQRDVLQAVYLEELPHQQVAEMFD---IPLGTVKSRLRLAVEKLRHSMDAE 192 (194)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHhC---cCHHHHHHHHHHHHHHHHHHhhhc
Confidence 44778888888876666777899999999 999999999999999888876553
No 135
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=78.07 E-value=6.2 Score=37.45 Aligned_cols=53 Identities=11% Similarity=0.121 Sum_probs=44.9
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
.|.++..+++...-+++...++|++.|+ +|..+|+++|.+-|..|++..+...
T Consensus 131 ~L~~~~r~vl~l~~~~~~s~~eIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~~ 183 (189)
T PRK12515 131 KLSPAHREIIDLVYYHEKSVEEVGEIVG---IPESTVKTRMFYARKKLAELLKAAG 183 (189)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4788888888776566777899999999 8999999999999999998876643
No 136
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=78.06 E-value=6.4 Score=40.42 Aligned_cols=81 Identities=10% Similarity=-0.008 Sum_probs=60.4
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccCC----chhHhhhhhcccchH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAMG----KTLALRSSFASGHVS 241 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~~----~~~~lr~~~~sg~~~ 241 (534)
..|+++..+++...-.+....++|++.|+ +|..+|+++|++-|..|++.......... -......++.+|.+.
T Consensus 114 ~~L~~~~R~v~~L~~~~g~s~~EIA~~lg---~s~~tVk~~l~RAr~~Lr~~~~~~~~~~~~~~~~v~~f~~A~~~gD~~ 190 (293)
T PRK09636 114 ERLSPLERAAFLLHDVFGVPFDEIASTLG---RSPAACRQLASRARKHVRAARPRFPVSDEEGAELVEAFFAALASGDLD 190 (293)
T ss_pred HhCCHHHHHHHHHHHHhCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHhhCCCCCCCchHHHHHHHHHHHHHHhCCHH
Confidence 34778888888877556666899999999 99999999999999999886543222211 124566788888888
Q ss_pred HHHHHhhh
Q 043479 242 MMLQEAHE 249 (534)
Q Consensus 242 ~~~~~~~~ 249 (534)
-++.-+.+
T Consensus 191 ~l~~Lla~ 198 (293)
T PRK09636 191 ALVALLAP 198 (293)
T ss_pred HHHHHHhh
Confidence 88876665
No 137
>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=78.03 E-value=19 Score=37.52 Aligned_cols=87 Identities=20% Similarity=0.107 Sum_probs=61.6
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCC---------------------------------C--CCCCHHHHHHHHHhhCCCC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLH---------------------------------M--PEMNGIELQKEINEEFTHL 47 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~---------------------------------m--PdmdGleLL~~Lr~~~p~i 47 (534)
+.+.+||+..++. .+|+|=+-+. . ....++++++++++... +
T Consensus 119 ~stleEal~a~~~--Gad~I~TTl~gyT~~~~~~~~~~~~i~~~i~~~~gyt~~t~~~~~~~~~~d~elLk~l~~~~~-i 195 (283)
T cd04727 119 ARNLGEALRRISE--GAAMIRTKGEAGTGNVVEAVRHMRAVNGEIRKLQSMSEEELYAVAKEIQAPYELVKETAKLGR-L 195 (283)
T ss_pred CCCHHHHHHHHHC--CCCEEEecCCCCCCcHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcccCCCHHHHHHHHHhcC-C
Confidence 4678888888875 5788766541 0 12347889999988654 8
Q ss_pred cEE--EEecCCCHHHHHHHHHcCCcEEEe-----CCCChHHHHHHHHHHHHH
Q 043479 48 PVM--VMSSDDRESVIMKALASGVAFYIL-----KPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 48 pVI--VLSs~~d~~~~~~AL~aGA~dyL~-----KP~s~eeL~~aI~~aL~~ 92 (534)
||| ....-.+++.+..+++.||++++. +.-++.+....+..++..
T Consensus 196 PVV~iAeGGI~Tpena~~v~e~GAdgVaVGSAI~~a~dP~~~tk~f~~ai~~ 247 (283)
T cd04727 196 PVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSENPEKRARAIVEAVTH 247 (283)
T ss_pred CeEEEEeCCCCCHHHHHHHHHcCCCEEEEcHHhhcCCCHHHHHHHHHHHHHh
Confidence 997 566666899999999999999864 333566666666666544
No 138
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=77.71 E-value=5.8 Score=37.92 Aligned_cols=52 Identities=12% Similarity=0.123 Sum_probs=42.1
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++..--.+...-++|++.|+ ++..+|++||.+-|..|++....
T Consensus 133 ~~Lp~~~R~v~~L~~~~g~s~~EIA~~lg---is~~tVk~~l~RAr~~Lr~~l~~ 184 (189)
T PRK12530 133 NHLPAQQARVFMMREYLELSSEQICQECD---ISTSNLHVLLYRARLQLQACLSK 184 (189)
T ss_pred HhCCHHHHHHHhHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 34777777877776445566899999999 99999999999999988877653
No 139
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=77.61 E-value=6.1 Score=36.06 Aligned_cols=52 Identities=17% Similarity=0.077 Sum_probs=42.8
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++...-++...-++|++.|+ ++..+|++|+.+-|..|++....
T Consensus 105 ~~Lp~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~ra~~~Lr~~l~~ 156 (161)
T PRK09047 105 QKLPARQREAFLLRYWEDMDVAETAAAMG---CSEGSVKTHCSRATHALAKALEA 156 (161)
T ss_pred HhCCHHHHHHHHHHHHhcCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHh
Confidence 34778888888886555666899999999 99999999999999988877653
No 140
>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=77.49 E-value=22 Score=32.78 Aligned_cols=82 Identities=11% Similarity=0.049 Sum_probs=56.0
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCC-CCH-HHHHHHHHhhCC-CCcEEEEecCC-----C-HHHHHHHHHcCCcEEEe
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPE-MNG-IELQKEINEEFT-HLPVMVMSSDD-----R-ESVIMKALASGVAFYIL 74 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPd-mdG-leLL~~Lr~~~p-~ipVIVLSs~~-----d-~~~~~~AL~aGA~dyL~ 74 (534)
.++++.++.+.+ ..+|+|.+...|.. +.. -++++.|++... +++|+ +.+.. + .+...+..++|++..+.
T Consensus 37 v~~e~~v~aa~~-~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vi-vGG~~~i~~~d~~~~~~~L~~~Gv~~vf~ 114 (128)
T cd02072 37 SPQEEFIDAAIE-TDADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLY-VGGNLVVGKQDFEDVEKRFKEMGFDRVFA 114 (128)
T ss_pred CCHHHHHHHHHH-cCCCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEE-EECCCCCChhhhHHHHHHHHHcCCCEEEC
Confidence 357788888877 78999999877754 333 356777776543 55544 44331 1 23445688899999998
Q ss_pred CCCChHHHHHHHH
Q 043479 75 KPLNPDDLKNVWQ 87 (534)
Q Consensus 75 KP~s~eeL~~aI~ 87 (534)
...+++++...|+
T Consensus 115 pgt~~~~i~~~l~ 127 (128)
T cd02072 115 PGTPPEEAIADLK 127 (128)
T ss_pred cCCCHHHHHHHHh
Confidence 8888888877664
No 141
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=77.19 E-value=6.3 Score=38.43 Aligned_cols=57 Identities=21% Similarity=0.197 Sum_probs=45.1
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccC
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAM 225 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~ 225 (534)
..|.++..+++...-++...-++|++.|+ ++..+|++||.+-|..|++..+...++.
T Consensus 137 ~~L~~~~r~v~~L~~~~g~s~~EIA~~Lg---is~~tV~~~l~RArk~Lr~~l~~~~~~~ 193 (203)
T PRK09647 137 DSLPPEFRAAVVLCDIEGLSYEEIAATLG---VKLGTVRSRIHRGRQQLRAALAAHAPHA 193 (203)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHhchhc
Confidence 34677777777665445555899999999 9999999999999999999887765543
No 142
>PRK06843 inosine 5-monophosphate dehydrogenase; Validated
Probab=77.18 E-value=12 Score=40.99 Aligned_cols=56 Identities=18% Similarity=0.280 Sum_probs=45.2
Q ss_pred CCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 17 RDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 17 ~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
..+|+|++|...+. ..-.+++++|++.+|+++|| +....+.+.+..++++||+.+.
T Consensus 164 aGvDvI~iD~a~g~~~~~~~~v~~ik~~~p~~~vi-~g~V~T~e~a~~l~~aGaD~I~ 220 (404)
T PRK06843 164 AHVDILVIDSAHGHSTRIIELVKKIKTKYPNLDLI-AGNIVTKEAALDLISVGADCLK 220 (404)
T ss_pred cCCCEEEEECCCCCChhHHHHHHHHHhhCCCCcEE-EEecCCHHHHHHHHHcCCCEEE
Confidence 46999999998875 45668999999999988744 4555677888899999999875
No 143
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=77.01 E-value=5.8 Score=37.44 Aligned_cols=50 Identities=18% Similarity=0.151 Sum_probs=41.9
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|+.+..+++...-++....++|++.|+ ++..+|+++|.+-|..|++...
T Consensus 129 ~L~~~~r~v~~l~~~~g~s~~EIA~~l~---is~~tV~~~l~rar~~Lr~~l~ 178 (181)
T PRK12536 129 QLPDRQRLPIVHVKLEGLSVAETAQLTG---LSESAVKVGIHRGLKALAAKIR 178 (181)
T ss_pred HCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHhc
Confidence 4777788887776566677899999999 9999999999999998887654
No 144
>PRK04841 transcriptional regulator MalT; Provisional
Probab=76.81 E-value=3.9 Score=47.97 Aligned_cols=43 Identities=14% Similarity=0.179 Sum_probs=37.4
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
..|+.++.++++.+..+.. +|+|++.|+ +|..||+.||.+...
T Consensus 837 ~~lt~~e~~v~~~~~~g~~-~~~ia~~l~---~s~~tv~~h~~~~~~ 879 (903)
T PRK04841 837 SPLTQREWQVLGLIYSGYS-NEQIAGELD---VAATTIKTHIRNLYQ 879 (903)
T ss_pred CCCCHHHHHHHHHHHcCCC-HHHHHHHhC---CCHHHHHHHHHHHHH
Confidence 4599999999999975555 999999999 999999999988544
No 145
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=76.75 E-value=5.3 Score=39.53 Aligned_cols=54 Identities=17% Similarity=0.161 Sum_probs=44.5
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
..|.++..+++...-++...-++|++.|+ ++..+|++||.+-|..|++.....+
T Consensus 133 ~~Lp~~~R~v~~L~y~eg~s~~EIAe~Lg---iS~~tVk~~L~RAr~~Lr~~l~~~~ 186 (216)
T PRK12533 133 AKLPVEYREVLVLRELEDMSYREIAAIAD---VPVGTVMSRLARARRRLAALLGGAS 186 (216)
T ss_pred HcCCHHHHhHhhhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHcccc
Confidence 34777788888876556677899999999 9999999999999999998764443
No 146
>TIGR02959 SigZ RNA polymerase sigma factor, SigZ family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded).
Probab=76.65 E-value=7 Score=36.61 Aligned_cols=52 Identities=29% Similarity=0.321 Sum_probs=43.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|..+..+++...-++.-..++|++.|+ ++..+|+++|.+-|..|++.....
T Consensus 100 ~L~~~~r~v~~l~~~~g~s~~eIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~ 151 (170)
T TIGR02959 100 ELPDEYREAIRLTELEGLSQQEIAEKLG---LSLSGAKSRVQRGRKKLKELLETC 151 (170)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4777888888876556666899999999 999999999999999988877654
No 147
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=76.55 E-value=6.5 Score=37.13 Aligned_cols=52 Identities=17% Similarity=0.089 Sum_probs=43.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++..+++...-++....++|++.|+ ++..+|++++.+-|..|++.....
T Consensus 128 ~L~~~~r~i~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~ 179 (186)
T PRK05602 128 ALPERQREAIVLQYYQGLSNIEAAAVMD---ISVDALESLLARGRRALRAQLADL 179 (186)
T ss_pred hCCHHHHHHhhHHHhcCCCHHHHHHHhC---cCHHHHHHHHHHHHHHHHHHHHhc
Confidence 4777788888776566777899999999 999999999999999988877654
No 148
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=76.55 E-value=6 Score=37.73 Aligned_cols=52 Identities=10% Similarity=0.111 Sum_probs=42.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|..+..+++...-.+....++|++.|+ ++..+|++||.+-|..|++.....
T Consensus 136 ~L~~~~r~i~~L~~~~g~s~~EIA~~lg---is~~tVk~~l~Rar~~Lr~~l~~~ 187 (195)
T PRK12532 136 NLPENTARVFTLKEILGFSSDEIQQMCG---ISTSNYHTIMHRARESLRQCLQIK 187 (195)
T ss_pred hCCHHHHHHhhhHHHhCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677777777765445566899999999 999999999999999999877643
No 149
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=76.53 E-value=6.5 Score=37.78 Aligned_cols=54 Identities=15% Similarity=0.130 Sum_probs=45.6
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGAS 223 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~ 223 (534)
.|+.+..+++...-++...-++|++.|+ +|..+|++||.+-|..|++.......
T Consensus 113 ~Lp~~~r~v~~L~~~~g~s~~EIA~~Lg---iS~~tVk~~l~Rar~~Lr~~l~~~~~ 166 (188)
T PRK12546 113 QLPDEQREALILVGASGFSYEEAAEMCG---VAVGTVKSRANRARARLAELLQLEEG 166 (188)
T ss_pred hCCHHHhHHhhhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHhcccC
Confidence 4788888888887666777899999999 99999999999999999988765433
No 150
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=76.50 E-value=6.5 Score=36.56 Aligned_cols=52 Identities=12% Similarity=0.024 Sum_probs=43.3
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|.++..+++...-.+....++|++.|+ ++..+|++++.+-|..|++..+.
T Consensus 117 ~~L~~~~r~vl~L~~~~g~s~~EIA~~lg---is~~tV~~~l~ra~~~Lr~~l~~ 168 (173)
T PRK09645 117 AQLSPEHRAVLVRSYYRGWSTAQIAADLG---IPEGTVKSRLHYALRALRLALQE 168 (173)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHhhc
Confidence 34778888888886556666899999999 99999999999999988887653
No 151
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=76.46 E-value=6.4 Score=37.24 Aligned_cols=53 Identities=25% Similarity=0.211 Sum_probs=45.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
..|+.++.+++...-++.-..++|++.|+ ++..+|++||.+-|..+++.....
T Consensus 126 ~~Lp~~~R~~~~l~~~~gls~~EIA~~l~---i~~~tVks~l~ra~~~l~~~l~~~ 178 (182)
T COG1595 126 ARLPPRQREAFLLRYLEGLSYEEIAEILG---ISVGTVKSRLHRARKKLREQLEEA 178 (182)
T ss_pred HhCCHHHhHHhhhHhhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHhhc
Confidence 45888899999888777888999999999 999999999999999888776543
No 152
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=76.31 E-value=6.6 Score=38.37 Aligned_cols=51 Identities=16% Similarity=0.219 Sum_probs=42.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++..--.+...-++|++.|+ +|..+|++||.+-|..|++..+.
T Consensus 148 ~L~~~~r~v~~L~~~~g~s~~EIAe~lg---is~~tV~~~l~RAr~~Lr~~l~~ 198 (206)
T PRK12544 148 GLPAKYARVFMMREFIELETNEICHAVD---LSVSNLNVLLYRARLRLRECLEN 198 (206)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777777776555666799999999 99999999999999999887653
No 153
>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=75.91 E-value=6.4 Score=28.34 Aligned_cols=44 Identities=23% Similarity=0.136 Sum_probs=33.5
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
|.....+++..+-++....+.|++.|+ ++..+|..++.+.+..+
T Consensus 11 l~~~~~~~~~~~~~~~~~~~~ia~~~~---~s~~~i~~~~~~~~~~l 54 (55)
T cd06171 11 LPEREREVILLRFGEGLSYEEIAEILG---ISRSTVRQRLHRALKKL 54 (55)
T ss_pred CCHHHHHHHHHHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHc
Confidence 455556666666556666899999999 89999999998876643
No 154
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=75.76 E-value=7 Score=35.97 Aligned_cols=50 Identities=20% Similarity=0.201 Sum_probs=40.8
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
|+.+..+++...-++....++|++.|+ +|+.+|..++.+.|..+++....
T Consensus 126 L~~~~r~i~~l~~~~~~~~~eIA~~lg---is~~tv~~~~~ra~~~lr~~l~~ 175 (179)
T PRK11924 126 LPVKQREVFLLRYVEGLSYREIAEILG---VPVGTVKSRLRRARQLLRECLEA 175 (179)
T ss_pred CCHHHHHHhhHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 667777777766455666899999999 99999999999999988876654
No 155
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=75.74 E-value=6.1 Score=37.35 Aligned_cols=53 Identities=15% Similarity=0.134 Sum_probs=42.8
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
..|+++..+++..--++....++|++.|+ ++..+|+++|.+-|..|++.....
T Consensus 121 ~~L~~~~r~i~~l~~~~g~s~~EIA~~lg---is~~tVk~~l~Rar~~Lr~~l~~~ 173 (185)
T PRK12542 121 KELNESNRQVFKYKVFYNLTYQEISSVMG---ITEANVRKQFERARKRVQNMIGGI 173 (185)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHccc
Confidence 34777788888775455666899999999 999999999999999888866443
No 156
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=75.54 E-value=8 Score=36.92 Aligned_cols=56 Identities=14% Similarity=0.155 Sum_probs=46.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhccc
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASA 224 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~ 224 (534)
..|+++..+++...-++...-++|++.|+ ++..+|++++.+-|..|++......++
T Consensus 110 ~~Lp~~~R~v~~L~~~eg~s~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~~~~~~~~ 165 (182)
T PRK12511 110 FDLPEEQRAALHLVAIEGLSYQEAAAVLG---IPIGTLMSRIGRARAALRAFEEGTGPA 165 (182)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHhC---cCHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 35888888888886556666899999999 999999999999999998887755433
No 157
>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional
Probab=75.48 E-value=27 Score=34.26 Aligned_cols=70 Identities=24% Similarity=0.270 Sum_probs=50.0
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCC-------CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLH-------MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~-------mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.+.+++..... ..+|+|.+... ......+++++++++.. ++||+...+-.+.+.+.++++.||++++.=
T Consensus 126 v~t~ee~~~a~~--~G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~-~iPvia~GGI~t~~~~~~~l~~GadgV~iG 202 (221)
T PRK01130 126 CSTLEEGLAAQK--LGFDFIGTTLSGYTEETKKPEEPDFALLKELLKAV-GCPVIAEGRINTPEQAKKALELGAHAVVVG 202 (221)
T ss_pred CCCHHHHHHHHH--cCCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhC-CCCEEEECCCCCHHHHHHHHHCCCCEEEEc
Confidence 346677655443 45888765321 12233578889998765 599999888888999999999999998754
No 158
>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=75.30 E-value=16 Score=35.27 Aligned_cols=68 Identities=19% Similarity=0.152 Sum_probs=52.8
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.+.+|+.+.++ ..+|+|-++- .+.. |.++++.++...+.+|++.+.+- +.+.+.+.+++|++.+..-
T Consensus 104 v~t~~e~~~A~~--~Gad~i~~~p-~~~~-g~~~~~~l~~~~~~~p~~a~GGI-~~~n~~~~~~~G~~~v~v~ 171 (190)
T cd00452 104 VATPTEIMQALE--LGADIVKLFP-AEAV-GPAYIKALKGPFPQVRFMPTGGV-SLDNAAEWLAAGVVAVGGG 171 (190)
T ss_pred cCCHHHHHHHHH--CCCCEEEEcC-Cccc-CHHHHHHHHhhCCCCeEEEeCCC-CHHHHHHHHHCCCEEEEEc
Confidence 457888888875 4689998863 2333 89999999988888888776665 7788889999998887654
No 159
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=75.05 E-value=6.6 Score=37.31 Aligned_cols=50 Identities=12% Similarity=0.091 Sum_probs=41.7
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|..+..+++...-++....++|++.|+ ++..+|++++.+-|..|++...
T Consensus 141 ~L~~~~~~v~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Ra~~~Lr~~l~ 190 (194)
T PRK12519 141 QLPESQRQVLELAYYEGLSQSEIAKRLG---IPLGTVKARARQGLLKLRELLQ 190 (194)
T ss_pred hCCHHHhhhhhhhhhcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHH
Confidence 4677777888776556666899999999 8999999999999998887654
No 160
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=74.81 E-value=11 Score=39.50 Aligned_cols=69 Identities=14% Similarity=0.133 Sum_probs=47.3
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+|+.+.+.. .+|+|++| +|.-.+--+.++.++...+++ .|..|+--+.+.+.+..+.|++.+.
T Consensus 204 VEv~tl~ea~eal~~--gaDiI~LD-nm~~e~vk~av~~~~~~~~~v-~ieaSGGI~~~ni~~yA~tGvD~Is 272 (289)
T PRK07896 204 VEVDSLEQLDEVLAE--GAELVLLD-NFPVWQTQEAVQRRDARAPTV-LLESSGGLTLDTAAAYAETGVDYLA 272 (289)
T ss_pred EEcCCHHHHHHHHHc--CCCEEEeC-CCCHHHHHHHHHHHhccCCCE-EEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467889999999864 68999999 333222223333334344543 5677888888888888899988764
No 161
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=74.67 E-value=4.5 Score=38.53 Aligned_cols=52 Identities=27% Similarity=0.236 Sum_probs=42.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++..+++...-++....++|++.|+ ++..+|++||.+-|..|++.....
T Consensus 131 ~Lp~~~r~i~~L~~~~g~s~~EIA~~lg---is~~tVk~~l~Rar~~Lr~~l~~~ 182 (193)
T TIGR02947 131 GLPEEFRQAVYLADVEGFAYKEIAEIMG---TPIGTVMSRLHRGRKQLRKQLVDV 182 (193)
T ss_pred hCCHHHhhheeehhhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3666666777665556666899999999 999999999999999998877643
No 162
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=74.59 E-value=8.1 Score=35.83 Aligned_cols=51 Identities=16% Similarity=0.105 Sum_probs=42.8
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
..|+++..+++...-.+...-++|++.|+ ++..+|+++|.+-|..|+....
T Consensus 111 ~~L~~~~r~v~~l~~~~g~s~~eIA~~lg---is~~tV~~~l~Rar~~Lr~~l~ 161 (164)
T PRK12547 111 NLLSADQREAIILIGASGFSYEDAAAICG---CAVGTIKSRVSRARNRLQELLK 161 (164)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHh
Confidence 34788888888887666666899999999 9999999999999998887653
No 163
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=74.53 E-value=6.5 Score=38.02 Aligned_cols=55 Identities=11% Similarity=0.078 Sum_probs=45.7
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhccc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASA 224 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~ 224 (534)
.|+.+..+++...-.+...-++|++.|+ ++..+|++||.+-|..|++.......+
T Consensus 133 ~Lp~~~r~v~~l~~~~g~s~~EIAe~lg---is~~tV~~~l~Rar~~Lr~~l~~~~~~ 187 (196)
T PRK12535 133 ALPPERREALILTQVLGYTYEEAAKIAD---VRVGTIRSRVARARADLIAATATGQAS 187 (196)
T ss_pred cCCHHHHHHhhhHHHhCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHhccccch
Confidence 4777788888777656666899999999 999999999999999999887776544
No 164
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=74.51 E-value=8.2 Score=35.70 Aligned_cols=54 Identities=20% Similarity=0.140 Sum_probs=44.6
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
..|+.+..+++...-++....++|++.|+ ++..+|+++|.+.|..|++..+...
T Consensus 107 ~~L~~~~r~v~~l~~~~g~s~~eIA~~lg---is~~tv~~~l~Rar~~Lr~~l~~~~ 160 (165)
T PRK09644 107 HTLPVIEAQAILLCDVHELTYEEAASVLD---LKLNTYKSHLFRGRKRLKALLKEEK 160 (165)
T ss_pred HhCCHHHHHHHHhHHHhcCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34778888888876555666899999999 8999999999999999998876553
No 165
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=74.31 E-value=8.2 Score=37.31 Aligned_cols=51 Identities=14% Similarity=0.073 Sum_probs=42.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|+++|.+-|..|++....
T Consensus 139 ~Lp~~~r~v~~L~~~eg~s~~EIA~~lg---is~~tVk~~l~RAr~~Lr~~l~~ 189 (201)
T PRK12545 139 HLPEQIGRVFMMREFLDFEIDDICTELT---LTANHCSVLLYRARTRLRTCLSE 189 (201)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777777776555666899999999 99999999999999999887754
No 166
>PRK00118 putative DNA-binding protein; Validated
Probab=74.26 E-value=10 Score=33.84 Aligned_cols=52 Identities=17% Similarity=0.176 Sum_probs=43.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++..+++...-.+...-++|++.|+ +|+.+|..++.+-|..++...+..
T Consensus 17 ~L~ekqRevl~L~y~eg~S~~EIAe~lG---IS~~TV~r~L~RArkkLr~~~~~~ 68 (104)
T PRK00118 17 LLTEKQRNYMELYYLDDYSLGEIAEEFN---VSRQAVYDNIKRTEKLLEDYEEKL 68 (104)
T ss_pred cCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677778888777666777899999999 999999999999999888766554
No 167
>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=73.79 E-value=21 Score=33.36 Aligned_cols=68 Identities=25% Similarity=0.248 Sum_probs=48.6
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCC--------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPE--------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPd--------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+..++.+... ..+|.|+++...|. ..+++.++++++. .++||++..+- +.+.+.++++.|++++..
T Consensus 102 ~~t~~~~~~~~~--~g~d~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~pv~a~GGi-~~~~i~~~~~~Ga~~i~~ 177 (196)
T cd00564 102 THSLEEALRAEE--LGADYVGFGPVFPTPTKPGAGPPLGLELLREIAEL-VEIPVVAIGGI-TPENAAEVLAAGADGVAV 177 (196)
T ss_pred CCCHHHHHHHhh--cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHh-CCCCEEEECCC-CHHHHHHHHHcCCCEEEE
Confidence 345667666654 35899998755442 3467888888765 56898888766 467788899999998854
No 168
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=73.20 E-value=7.9 Score=35.58 Aligned_cols=49 Identities=12% Similarity=-0.070 Sum_probs=41.7
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
..|+++..+++...-.+....++|++.|+ ++..+|++++.+-|..|++.
T Consensus 121 ~~L~~~~r~vl~l~~~~g~s~~eIA~~l~---is~~tv~~~l~ra~~~Lr~~ 169 (170)
T TIGR02952 121 KILTPKQQHVIALRFGQNLPIAEVARILG---KTEGAVKILQFRAIKKLARQ 169 (170)
T ss_pred HhCCHHHHHHHHHHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHh
Confidence 45888888888886556666899999999 89999999999999888764
No 169
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=73.13 E-value=8.8 Score=36.72 Aligned_cols=53 Identities=19% Similarity=0.238 Sum_probs=44.1
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
..|+++..+++...-++...-++|++.|+ ++..+|..||.+.|..|++.....
T Consensus 127 ~~Lp~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~ 179 (188)
T PRK12517 127 AKLDPEYREPLLLQVIGGFSGEEIAEILD---LNKNTVMTRLFRARNQLKEALEKP 179 (188)
T ss_pred HhCCHHHHHHHHHHHHhCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788888888776556666899999999 999999999999999988877654
No 170
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired.
Probab=73.09 E-value=8.4 Score=38.89 Aligned_cols=55 Identities=15% Similarity=0.112 Sum_probs=45.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhccc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASA 224 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~ 224 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|++||.+-|..|++..++....
T Consensus 161 ~Lp~~~R~v~~L~~~eg~S~~EIA~~Lg---is~~TVk~rl~RAr~~Lr~~l~~~~~~ 215 (244)
T TIGR03001 161 ALSERERHLLRLHFVDGLSMDRIGAMYQ---VHRSTVSRWVAQARERLLERTRRRLAE 215 (244)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777888777666677899999999 999999999999999988877665433
No 171
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=73.07 E-value=9.9 Score=35.05 Aligned_cols=50 Identities=24% Similarity=0.193 Sum_probs=41.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|+.+..+++...-++....++|++.|+ ++..+|.+++.+-+..|++...
T Consensus 128 ~L~~~~r~vl~l~~~~~~s~~eIA~~lg---is~~tV~~~l~ra~~~Lr~~l~ 177 (182)
T PRK09652 128 SLPEELRTAITLREIEGLSYEEIAEIMG---CPIGTVRSRIFRAREALRAKLQ 177 (182)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHH
Confidence 4778888888876556667899999999 8999999999998888887654
No 172
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=73.05 E-value=12 Score=27.60 Aligned_cols=42 Identities=24% Similarity=0.296 Sum_probs=31.2
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIF 213 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~ 213 (534)
|+++..+++..+. .....++|++.|+ +++.+|..|+.+.+..
T Consensus 4 l~~~e~~i~~~~~-~g~s~~eia~~l~---is~~tv~~~~~~~~~k 45 (58)
T smart00421 4 LTPREREVLRLLA-EGLTNKEIAERLG---ISEKTVKTHLSNIMRK 45 (58)
T ss_pred CCHHHHHHHHHHH-cCCCHHHHHHHHC---CCHHHHHHHHHHHHHH
Confidence 4556666666653 3445899999998 8999999998876543
No 173
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=72.93 E-value=9.3 Score=36.50 Aligned_cols=52 Identities=12% Similarity=0.068 Sum_probs=42.8
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|..+..+++...-++...-++|++.|+ ++..+|+++|.+-|..|++....
T Consensus 130 ~~L~~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tvk~rl~Rar~~Lr~~l~~ 181 (188)
T TIGR02943 130 YHLPEQTARVFMMREVLGFESDEICQELE---ISTSNCHVLLYRARLSLRACLSI 181 (188)
T ss_pred HhCCHHHHHHHHHHHHhCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 34677777777776556666899999999 99999999999999999887754
No 174
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=72.88 E-value=9 Score=36.04 Aligned_cols=52 Identities=17% Similarity=0.161 Sum_probs=43.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++...-++....++|++.|+ ++..+|++++.+-|..|++....
T Consensus 130 ~~L~~~~r~v~~l~~~~g~s~~eIA~~l~---is~~tV~~~l~ra~~~Lr~~l~~ 181 (184)
T PRK12512 130 ETLPPRQRDVVQSISVEGASIKETAAKLS---MSEGAVRVALHRGLAALAAKFRS 181 (184)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHhhc
Confidence 35888888888887666666899999999 99999999999999988876654
No 175
>PRK06930 positive control sigma-like factor; Validated
Probab=72.79 E-value=9.5 Score=36.62 Aligned_cols=53 Identities=13% Similarity=0.120 Sum_probs=43.7
Q ss_pred CchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 165 TDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 165 t~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
...|+++..+++...-.+....++|++.|+ +|..+|++|+.+.+..+++....
T Consensus 112 l~~L~~rer~V~~L~~~eg~s~~EIA~~lg---iS~~tVk~~l~Ra~~kLr~~l~~ 164 (170)
T PRK06930 112 LSVLTEREKEVYLMHRGYGLSYSEIADYLN---IKKSTVQSMIERAEKKIARQINE 164 (170)
T ss_pred HHhCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 345889999999885445555899999999 99999999999999888876654
No 176
>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=72.61 E-value=16 Score=40.28 Aligned_cols=64 Identities=19% Similarity=0.227 Sum_probs=48.3
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
+.+.++++ ..+|+|.+|..... ....+.+++|++.+|+++||+ ..-.+.+.+..+.++||+.+.
T Consensus 227 ~r~~~L~~--aG~d~I~vd~a~g~~~~~~~~i~~i~~~~~~~~vi~-G~v~t~~~a~~l~~aGad~i~ 291 (450)
T TIGR01302 227 ERAEALVK--AGVDVIVIDSSHGHSIYVIDSIKEIKKTYPDLDIIA-GNVATAEQAKALIDAGADGLR 291 (450)
T ss_pred HHHHHHHH--hCCCEEEEECCCCcHhHHHHHHHHHHHhCCCCCEEE-EeCCCHHHHHHHHHhCCCEEE
Confidence 44444444 46999999986543 456788999999888888876 455677888899999999874
No 177
>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=72.49 E-value=13 Score=38.50 Aligned_cols=67 Identities=19% Similarity=0.203 Sum_probs=45.8
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHH---hhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEIN---EEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr---~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+.+.+||++.++. .+|+|.+|- ++--++.+.++ ...+.+ +|..++.-+.+.+.+..+.|++.+..
T Consensus 187 VEv~tleea~~A~~~--GaDiI~LDn----~~~e~l~~~v~~~~~~~~~~-~ieAsGgIt~~ni~~ya~~GvD~Isv 256 (273)
T PRK05848 187 IECESLEEAKNAMNA--GADIVMCDN----MSVEEIKEVVAYRNANYPHV-LLEASGNITLENINAYAKSGVDAISS 256 (273)
T ss_pred EEeCCHHHHHHHHHc--CCCEEEECC----CCHHHHHHHHHHhhccCCCe-EEEEECCCCHHHHHHHHHcCCCEEEe
Confidence 357889999999874 589999984 22222222222 223443 46677777899999999999987754
No 178
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=72.35 E-value=10 Score=34.80 Aligned_cols=51 Identities=14% Similarity=0.127 Sum_probs=41.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
..|+++..+++...-.+....++|++.|+ ++..+|++++.+-+..+++...
T Consensus 108 ~~L~~~~r~v~~l~~~~~~s~~EIA~~lg---is~~tV~~~l~ra~~~lr~~l~ 158 (163)
T PRK07037 108 SELPARTRYAFEMYRLHGETQKDIARELG---VSPTLVNFMIRDALVHCRKCLD 158 (163)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHh
Confidence 34777778888776545556899999999 9999999999998888887653
No 179
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=72.30 E-value=13 Score=38.71 Aligned_cols=70 Identities=11% Similarity=0.054 Sum_probs=46.8
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+++.+.+|+.+.+.. .+|+|.+|-.-| .+--+.++.+++..++++ |..++--+.+.+.+..+.|++.+..
T Consensus 201 VEv~tleea~eA~~~--GaD~I~LDn~~~-e~l~~av~~~~~~~~~i~-leAsGGIt~~ni~~ya~tGvD~Isv 270 (288)
T PRK07428 201 VETETLEQVQEALEY--GADIIMLDNMPV-DLMQQAVQLIRQQNPRVK-IEASGNITLETIRAVAETGVDYISS 270 (288)
T ss_pred EECCCHHHHHHHHHc--CCCEEEECCCCH-HHHHHHHHHHHhcCCCeE-EEEECCCCHHHHHHHHHcCCCEEEE
Confidence 357889999998864 699999993222 222223444444456665 5556666788888888999987643
No 180
>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=72.20 E-value=13 Score=35.74 Aligned_cols=70 Identities=20% Similarity=0.132 Sum_probs=48.9
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+++.+.+|+.+.++. .+|+|.+|-.-| .+--++++.++...+. ..|.+|+--+.+.+.+..+.|++.+..
T Consensus 85 VEv~~~ee~~ea~~~--g~d~I~lD~~~~-~~~~~~v~~l~~~~~~-v~ie~SGGI~~~ni~~ya~~gvD~isv 154 (169)
T PF01729_consen 85 VEVENLEEAEEALEA--GADIIMLDNMSP-EDLKEAVEELRELNPR-VKIEASGGITLENIAEYAKTGVDVISV 154 (169)
T ss_dssp EEESSHHHHHHHHHT--T-SEEEEES-CH-HHHHHHHHHHHHHTTT-SEEEEESSSSTTTHHHHHHTT-SEEEE
T ss_pred EEcCCHHHHHHHHHh--CCCEEEecCcCH-HHHHHHHHHHhhcCCc-EEEEEECCCCHHHHHHHHhcCCCEEEc
Confidence 357788999998875 599999996544 2333455555566665 567788888888888888999887643
No 181
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=72.20 E-value=9 Score=35.87 Aligned_cols=49 Identities=16% Similarity=0.102 Sum_probs=41.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.|+++..+++...-++...-++|++.|+ +|..+|+.++.+.|..|++..
T Consensus 140 ~L~~~~r~vi~l~~~~g~s~~eIA~~lg---is~~~v~~~l~Ra~~~Lr~~l 188 (189)
T TIGR02984 140 KLPEDYREVILLRHLEGLSFAEVAERMD---RSEGAVSMLWVRGLARLRQIL 188 (189)
T ss_pred cCCHHHHHHHHHHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHh
Confidence 4788888888885455666899999999 999999999999999888754
No 182
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=71.88 E-value=9.1 Score=34.71 Aligned_cols=48 Identities=10% Similarity=-0.119 Sum_probs=39.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKR 216 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr 216 (534)
..|+.+..+++...-++....++|++.|+ ++..+|++++.+-+..|++
T Consensus 105 ~~L~~~~r~ii~l~~~~~~s~~EIA~~l~---is~~tV~~~~~ra~~~Lr~ 152 (154)
T PRK06759 105 SVLDEKEKYIIFERFFVGKTMGEIALETE---MTYYQVRWIYRQALEKMRN 152 (154)
T ss_pred HhCCHHHHHHHHHHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHhh
Confidence 34788888888776556666899999999 9999999999998887765
No 183
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=71.85 E-value=7.9 Score=36.82 Aligned_cols=49 Identities=12% Similarity=-0.040 Sum_probs=40.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
..|+++..+++...-.+...-++|++.|+ ++..+|++||.+-|..|++.
T Consensus 129 ~~Lp~~~r~v~~L~~~~g~s~~EIA~~lg---is~~tVk~~l~Rar~~Lr~~ 177 (185)
T PRK09649 129 ADLTTDQREALLLTQLLGLSYADAAAVCG---CPVGTIRSRVARARDALLAD 177 (185)
T ss_pred HhCCHHHhHHhhhHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHhh
Confidence 34778888888776555666899999999 99999999999999988873
No 184
>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated
Probab=71.76 E-value=23 Score=34.77 Aligned_cols=68 Identities=16% Similarity=0.240 Sum_probs=50.4
Q ss_pred CHHHHHHHHHhcCCce-EEEEeCCCCC-CCH--HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcC-CcEEEe
Q 043479 5 RPVEALATVRIQRDID-LVVTDLHMPE-MNG--IELQKEINEEFTHLPVMVMSSDDRESVIMKALASG-VAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pD-LVLLDi~mPd-mdG--leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aG-A~dyL~ 74 (534)
+..|..+.+.+ ..++ +++.|....+ ..| +++++++++..+ +|||.-.+-.+.+.+.++++.| |++++.
T Consensus 147 ~~~e~~~~~~~-~g~~~ii~~~~~~~g~~~G~d~~~i~~l~~~~~-ipvia~GGi~~~~di~~~~~~g~~~gv~v 219 (233)
T PRK00748 147 TAEDLAKRFED-AGVKAIIYTDISRDGTLSGPNVEATRELAAAVP-IPVIASGGVSSLDDIKALKGLGAVEGVIV 219 (233)
T ss_pred CHHHHHHHHHh-cCCCEEEEeeecCcCCcCCCCHHHHHHHHHhCC-CCEEEeCCCCCHHHHHHHHHcCCccEEEE
Confidence 34566666665 4566 7788775432 233 688899987655 8999988888999999999988 998875
No 185
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=71.67 E-value=11 Score=34.45 Aligned_cols=52 Identities=17% Similarity=0.111 Sum_probs=43.5
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|++||.+-+..|+....+.
T Consensus 105 ~L~~~~r~v~~l~~~~~~s~~eIA~~lg---is~~tv~~~l~ra~~~Lr~~l~~~ 156 (159)
T PRK12527 105 ELPPACRDSFLLRKLEGLSHQQIAEHLG---ISRSLVEKHIVNAMKHCRVRMRQW 156 (159)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHHhc
Confidence 4778888888887666666899999999 999999999999998888876643
No 186
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=71.52 E-value=8.2 Score=35.16 Aligned_cols=47 Identities=17% Similarity=0.127 Sum_probs=39.5
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKR 216 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr 216 (534)
.|+++..+++...-++....++|++.|+ +|..+|+.++.+-|..|+.
T Consensus 111 ~L~~~~r~v~~l~~~~g~~~~eIA~~l~---is~~tv~~~l~Rar~~Lr~ 157 (159)
T TIGR02989 111 KLPERQRELLQLRYQRGVSLTALAEQLG---RTVNAVYKALSRLRVRLRD 157 (159)
T ss_pred HCCHHHHHHHHHHHhcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHh
Confidence 4788888888885556666899999999 9999999999998887765
No 187
>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=71.51 E-value=18 Score=38.22 Aligned_cols=65 Identities=15% Similarity=0.181 Sum_probs=46.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 8 EALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.++.+.+ ..+|+|.+|..... ....+++++|++..|+++|++ ....+.+.+..+.++||+....
T Consensus 97 ~~~~~l~e-agv~~I~vd~~~G~~~~~~~~i~~ik~~~p~v~Vi~-G~v~t~~~A~~l~~aGaD~I~v 162 (325)
T cd00381 97 ERAEALVE-AGVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVIA-GNVVTAEAARDLIDAGADGVKV 162 (325)
T ss_pred HHHHHHHh-cCCCEEEEECCCCCcHHHHHHHHHHHHHCCCceEEE-CCCCCHHHHHHHHhcCCCEEEE
Confidence 33444444 57999999985533 345788999998877777665 4445677888899999998864
No 188
>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=71.48 E-value=14 Score=38.43 Aligned_cols=69 Identities=13% Similarity=0.154 Sum_probs=48.5
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+||.+.+.. .+|+|++| .|+-.+-.+.++.++...+.+ +|-.|+--+.+.+....+.|++-+.
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-KFTPQQLHHLHERLKFFDHIP-TLAAAGGINPENIADYIEAGIDLFI 261 (277)
T ss_pred EECCCHHHHHHHHHc--CcCEEEEC-CCCHHHHHHHHHHHhccCCCE-EEEEECCCCHHHHHHHHhcCCCEEE
Confidence 356788999999874 59999999 344334444455554434543 5677888888888888889988754
No 189
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=71.42 E-value=8.9 Score=35.92 Aligned_cols=51 Identities=20% Similarity=0.246 Sum_probs=41.6
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
..|+++..+++...-++....++|++.|+ ++..+|+++|.+-|..|+....
T Consensus 135 ~~L~~~~r~v~~l~~~~g~s~~eIA~~lg---is~~~v~~~l~Rar~~Lr~~l~ 185 (187)
T TIGR02948 135 QALPPKYRMVIVLKYMEDLSLKEISEILD---LPVGTVKTRIHRGREALRKQLR 185 (187)
T ss_pred HhCCHHHhHHhhhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHhh
Confidence 34777777888775445666899999999 8999999999999998887654
No 190
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=71.39 E-value=8.5 Score=36.65 Aligned_cols=50 Identities=18% Similarity=0.122 Sum_probs=40.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
..|+++..+++...-++....++|++.|+ +|..+|++++++-|..|++..
T Consensus 130 ~~L~~~~r~i~~l~~~~g~s~~EIAe~lg---is~~~V~~~l~Ra~~~Lr~~~ 179 (189)
T PRK06811 130 NDLEKLDREIFIRRYLLGEKIEEIAKKLG---LTRSAIDNRLSRGRKKLQKNK 179 (189)
T ss_pred HhCCHHHHHHHHHHHHccCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHcc
Confidence 34788888888765445565899999999 999999999999999887754
No 191
>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=71.36 E-value=10 Score=37.33 Aligned_cols=77 Identities=16% Similarity=0.276 Sum_probs=46.0
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
+.+++++.++.-..-.+=++++.+..-+.++.++.+++++|++ +|=.-.--+.+.+.+|+++||.-.+..-++++-+
T Consensus 18 ~~~~a~~~~~al~~gGi~~iEiT~~t~~a~~~I~~l~~~~p~~-~vGAGTV~~~e~a~~a~~aGA~FivSP~~~~~v~ 94 (196)
T PF01081_consen 18 DPEDAVPIAEALIEGGIRAIEITLRTPNALEAIEALRKEFPDL-LVGAGTVLTAEQAEAAIAAGAQFIVSPGFDPEVI 94 (196)
T ss_dssp SGGGHHHHHHHHHHTT--EEEEETTSTTHHHHHHHHHHHHTTS-EEEEES--SHHHHHHHHHHT-SEEEESS--HHHH
T ss_pred CHHHHHHHHHHHHHCCCCEEEEecCCccHHHHHHHHHHHCCCC-eeEEEeccCHHHHHHHHHcCCCEEECCCCCHHHH
Confidence 4444544433211123445666666778999999999988874 3445555678889999999999666644544433
No 192
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=71.31 E-value=23 Score=35.10 Aligned_cols=79 Identities=11% Similarity=0.130 Sum_probs=51.2
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLK 83 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~ 83 (534)
.+.+++++.++.-..--+=++++.|..-+.++.+++++++++++ +|=.-.--+.+.+.++.++||.-++. |.-..++.
T Consensus 13 ~~~~~a~~ia~al~~gGi~~iEit~~tp~a~~~I~~l~~~~~~~-~vGAGTVl~~e~a~~ai~aGA~FivS-P~~~~~vi 90 (201)
T PRK06015 13 DDVEHAVPLARALAAGGLPAIEITLRTPAALDAIRAVAAEVEEA-IVGAGTILNAKQFEDAAKAGSRFIVS-PGTTQELL 90 (201)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEEeCCCccHHHHHHHHHHHCCCC-EEeeEeCcCHHHHHHHHHcCCCEEEC-CCCCHHHH
Confidence 45666666554321123335566666777999999999888753 34444556778899999999985554 55444444
Q ss_pred H
Q 043479 84 N 84 (534)
Q Consensus 84 ~ 84 (534)
+
T Consensus 91 ~ 91 (201)
T PRK06015 91 A 91 (201)
T ss_pred H
Confidence 3
No 193
>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=71.25 E-value=26 Score=34.49 Aligned_cols=68 Identities=18% Similarity=0.204 Sum_probs=49.5
Q ss_pred CHHHHHHHHHhcCCce-EEEEeCCCCCC---CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDID-LVVTDLHMPEM---NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pD-LVLLDi~mPdm---dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+..+.++.+.+ ..+| +++.|+.--++ --+++++++++. .++||++-.+..+.+.+.++++.||++++.
T Consensus 146 ~~~~~~~~~~~-~g~~~ii~~~~~~~g~~~g~~~~~i~~i~~~-~~ipvia~GGi~~~~di~~~~~~Gadgv~i 217 (230)
T TIGR00007 146 SLEELAKRLEE-LGLEGIIYTDISRDGTLSGPNFELTKELVKA-VNVPVIASGGVSSIDDLIALKKLGVYGVIV 217 (230)
T ss_pred CHHHHHHHHHh-CCCCEEEEEeecCCCCcCCCCHHHHHHHHHh-CCCCEEEeCCCCCHHHHHHHHHCCCCEEEE
Confidence 44555665655 4566 77788754321 226788888876 458999888888999999999999999875
No 194
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=71.16 E-value=9.4 Score=36.01 Aligned_cols=50 Identities=26% Similarity=0.298 Sum_probs=41.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|+.+..+++...-.+....++|++.|+ ++..+|++|+.+-|..|++...
T Consensus 127 ~L~~~~r~v~~l~~~~g~s~~EIA~~l~---is~~tv~~~l~Ra~~~Lr~~l~ 176 (179)
T PRK09415 127 SLPIKYREVIYLFYYEELSIKEIAEVTG---VNENTVKTRLKKAKELLKKGLE 176 (179)
T ss_pred hCCHHHhhHhHhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHh
Confidence 4777777887776556666899999999 8999999999999998887654
No 195
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=71.11 E-value=12 Score=38.52 Aligned_cols=81 Identities=17% Similarity=0.105 Sum_probs=55.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccC----C------chhHhhhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAM----G------KTLALRSSF 235 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~----~------~~~~lr~~~ 235 (534)
..|+++..+++...-.+...-++|++.|+ ++..+|++||.+-|..|++......... . .....-.++
T Consensus 141 ~~Lp~~~R~v~~L~~~~g~s~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~~~~~~~~~~~~~~~~~v~~~~~a~ 217 (324)
T TIGR02960 141 QYLPPRQRAVLLLRDVLGWRAAETAELLG---TSTASVNSALQRARATLDEVGPSARDDQLAQPPSPEEQDLLERYIAAF 217 (324)
T ss_pred HhCCHHHhhHhhhHHHhCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHH
Confidence 34777777777776555566899999999 9999999999999999998876542211 0 012344555
Q ss_pred cccchHHHHHHhhh
Q 043479 236 ASGHVSMMLQEAHE 249 (534)
Q Consensus 236 ~sg~~~~~~~~~~~ 249 (534)
.+|....+..-+.+
T Consensus 218 ~~gD~~~l~~Lla~ 231 (324)
T TIGR02960 218 ESYDLDALTALLHE 231 (324)
T ss_pred HcCCHHHHHHHhcC
Confidence 66665555544443
No 196
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=71.06 E-value=11 Score=36.16 Aligned_cols=52 Identities=12% Similarity=0.047 Sum_probs=42.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++-.+++...-++....++|++.|+ ++..+|+++|.+-|..|++..+..
T Consensus 134 ~Lp~~~r~i~~l~~~~g~s~~EIA~~lg---~s~~tV~~rl~rar~~Lr~~l~~~ 185 (192)
T PRK09643 134 RLPVEQRAALVAVDMQGYSVADAARMLG---VAEGTVKSRCARGRARLAELLGYL 185 (192)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677777777765455666899999999 999999999999999888877654
No 197
>PRK07695 transcriptional regulator TenI; Provisional
Probab=70.96 E-value=44 Score=32.29 Aligned_cols=85 Identities=21% Similarity=0.302 Sum_probs=54.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE-
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI- 73 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL- 73 (534)
++.+.+++.+..+ ...|.|++.-..+. ..|++.++++.+.. .+||+++-+- +.+.+.++++.|++++.
T Consensus 101 s~~s~e~a~~a~~--~Gadyi~~g~v~~t~~k~~~~~~g~~~l~~~~~~~-~ipvia~GGI-~~~~~~~~~~~Ga~gvav 176 (201)
T PRK07695 101 SVHSLEEAIQAEK--NGADYVVYGHVFPTDCKKGVPARGLEELSDIARAL-SIPVIAIGGI-TPENTRDVLAAGVSGIAV 176 (201)
T ss_pred eCCCHHHHHHHHH--cCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHhC-CCCEEEEcCC-CHHHHHHHHHcCCCEEEE
Confidence 3456667655443 46899887643332 23678888887654 4899988777 77888899999998873
Q ss_pred ----eCCCChHHHHHHHHHHH
Q 043479 74 ----LKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 74 ----~KP~s~eeL~~aI~~aL 90 (534)
.+.-++.+....+.+++
T Consensus 177 ~s~i~~~~~p~~~~~~~~~~~ 197 (201)
T PRK07695 177 MSGIFSSANPYSKAKRYAESI 197 (201)
T ss_pred EHHHhcCCCHHHHHHHHHHHH
Confidence 23233444444444443
No 198
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=70.75 E-value=11 Score=37.07 Aligned_cols=52 Identities=13% Similarity=0.153 Sum_probs=42.9
Q ss_pred chhhHHHHHHHHHhc----cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIG----LEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LG----lekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++...- .+...-++|++.|+ ++..+|++++.+-|..||+....
T Consensus 177 ~~Lp~~~R~v~~L~y~l~~~eg~s~~EIA~~lg---is~~tVk~~~~rA~~~Lr~~l~~ 232 (234)
T PRK08301 177 KKLSDREKQIMELRFGLNGGEEKTQKEVADMLG---ISQSYISRLEKRIIKRLKKEINK 232 (234)
T ss_pred HhCCHHHHHHHHHHhccCCCCCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHh
Confidence 348888888888753 46666899999999 99999999999999988887654
No 199
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=70.64 E-value=6.5 Score=37.40 Aligned_cols=51 Identities=16% Similarity=0.107 Sum_probs=41.7
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+.+..+++...-++....++|++.|+ ++..+|+++|.+-|..|++....
T Consensus 139 ~L~~~~r~i~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~ra~~~Lr~~l~~ 189 (194)
T PRK12513 139 TLPDEQREVFLLREHGDLELEEIAELTG---VPEETVKSRLRYALQKLRELLAE 189 (194)
T ss_pred hCCHhHhhheeeehccCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 4677777777776556677899999999 99999999999999888887653
No 200
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=70.58 E-value=10 Score=35.80 Aligned_cols=51 Identities=14% Similarity=0.109 Sum_probs=42.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++...-++...-++|++.|+ ++..+|+++|.+-|..|++....
T Consensus 131 ~L~~~~r~v~~l~~~~g~s~~eIA~~lg---is~~tV~~~l~ra~~~Lr~~l~~ 181 (184)
T PRK12539 131 RLPEKMRLAIQAVKLEGLSVAEAATRSG---MSESAVKVSVHRGLKALAALIGR 181 (184)
T ss_pred hCCHHHHHHHHHHHHcCCcHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHhh
Confidence 4788888888876555666899999999 89999999999999988876643
No 201
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=70.53 E-value=9 Score=38.28 Aligned_cols=51 Identities=24% Similarity=0.150 Sum_probs=41.7
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|.++..+++...-++....++|++.|+ ++..+|+++|.+-|..|++....
T Consensus 171 ~Lp~~~R~v~~L~~~eg~s~~EIA~~Lg---is~~tVk~~l~RAr~kLr~~l~~ 221 (233)
T PRK12538 171 RLPEQQRIAVILSYHENMSNGEIAEVMD---TTVAAVESLLKRGRQQLRDLLRR 221 (233)
T ss_pred hCCHHHHHHhhhHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 3677777777666556666899999999 99999999999999988887653
No 202
>PLN02274 inosine-5'-monophosphate dehydrogenase
Probab=70.32 E-value=20 Score=40.29 Aligned_cols=66 Identities=20% Similarity=0.206 Sum_probs=46.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.|-.+.|.+ ...|+|.+|..-.. ..-++++++||+.+|+++||+ ....+.+....+.++||+.+..
T Consensus 250 ~~r~~~l~~-ag~d~i~iD~~~g~~~~~~~~i~~ik~~~p~~~vi~-g~v~t~e~a~~a~~aGaD~i~v 316 (505)
T PLN02274 250 KERLEHLVK-AGVDVVVLDSSQGDSIYQLEMIKYIKKTYPELDVIG-GNVVTMYQAQNLIQAGVDGLRV 316 (505)
T ss_pred HHHHHHHHH-cCCCEEEEeCCCCCcHHHHHHHHHHHHhCCCCcEEE-ecCCCHHHHHHHHHcCcCEEEE
Confidence 344444444 56999999985322 223589999999998877653 4445677888999999998854
No 203
>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=69.95 E-value=17 Score=40.48 Aligned_cols=66 Identities=12% Similarity=0.082 Sum_probs=49.5
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
..+-++.|.+ ...|+|++|..... ..-.+++++|++.+|++|||+ -...+.+....+.++||+.+-
T Consensus 226 ~~~ra~~Lv~-aGVd~i~~D~a~g~~~~~~~~i~~i~~~~~~~~vi~-g~~~t~~~~~~l~~~G~d~i~ 292 (475)
T TIGR01303 226 VGGKAKALLD-AGVDVLVIDTAHGHQVKMISAIKAVRALDLGVPIVA-GNVVSAEGVRDLLEAGANIIK 292 (475)
T ss_pred HHHHHHHHHH-hCCCEEEEeCCCCCcHHHHHHHHHHHHHCCCCeEEE-eccCCHHHHHHHHHhCCCEEE
Confidence 3444445544 56999999998754 345678999999899898876 436678888899999998764
No 204
>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=69.38 E-value=25 Score=30.51 Aligned_cols=68 Identities=21% Similarity=0.355 Sum_probs=41.6
Q ss_pred HHHHHHHHHhcCCceEEEEeCCC-CC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHH--cCCcEEEeC
Q 043479 6 PVEALATVRIQRDIDLVVTDLHM-PE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALA--SGVAFYILK 75 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~m-Pd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~--aGA~dyL~K 75 (534)
.++..+.+++ .+||+|.+...+ +. ....++++.+++..|+++|++=-.+.. .....+++ .|++..+.-
T Consensus 40 ~~~l~~~~~~-~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~~~t-~~~~~~l~~~~~~D~vv~G 111 (121)
T PF02310_consen 40 PEELVEALRA-ERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGPHAT-ADPEEILREYPGIDYVVRG 111 (121)
T ss_dssp HHHHHHHHHH-TTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEESSSG-HHHHHHHHHHHTSEEEEEE
T ss_pred HHHHHHHHhc-CCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECCchh-cChHHHhccCcCcceecCC
Confidence 4566677776 689999888733 33 234667777777778776665544433 33344444 566665543
No 205
>PLN02591 tryptophan synthase
Probab=69.35 E-value=17 Score=37.13 Aligned_cols=56 Identities=14% Similarity=0.254 Sum_probs=43.4
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL 90 (534)
+++++++|+. .++|+|+|+=... +....+|.++|+++.|.-++.++|....+..+.
T Consensus 67 ~~~~~~~r~~-~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~~ 128 (250)
T PLN02591 67 ISMLKEVAPQ-LSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEAA 128 (250)
T ss_pred HHHHHHHhcC-CCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHH
Confidence 6677777743 5689988876543 345778899999999999999988887777764
No 206
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=69.16 E-value=15 Score=33.66 Aligned_cols=51 Identities=16% Similarity=0.129 Sum_probs=42.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+++..+++...- +....++|++.|+ ++..+|++++.+-|..|++.....
T Consensus 112 ~L~~~~r~il~l~~-~g~s~~eIA~~lg---is~~tV~~~i~ra~~~Lr~~l~~~ 162 (166)
T PRK09639 112 KMTERDRTVLLLRF-SGYSYKEIAEALG---IKESSVGTTLARAKKKFRKIYEQM 162 (166)
T ss_pred cCCHHHHHHHHHHH-cCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHh
Confidence 36777777777766 6666999999999 999999999999999888876543
No 207
>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=69.13 E-value=27 Score=34.25 Aligned_cols=70 Identities=24% Similarity=0.320 Sum_probs=50.4
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCC-------CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLH-------MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~-------mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.+.+++..... ..+|+|.+... ......+++++.+++.. ++||++..+-.+.+.+.++++.||++++.-
T Consensus 130 v~t~~ea~~a~~--~G~d~i~~~~~g~t~~~~~~~~~~~~~l~~i~~~~-~ipvia~GGI~~~~~~~~~l~~GadgV~vG 206 (219)
T cd04729 130 ISTLEEALNAAK--LGFDIIGTTLSGYTEETAKTEDPDFELLKELRKAL-GIPVIAEGRINSPEQAAKALELGADAVVVG 206 (219)
T ss_pred CCCHHHHHHHHH--cCCCEEEccCccccccccCCCCCCHHHHHHHHHhc-CCCEEEeCCCCCHHHHHHHHHCCCCEEEEc
Confidence 456677765554 35888755321 11234578899998766 599999888888999999999999998764
No 208
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=68.91 E-value=12 Score=35.50 Aligned_cols=49 Identities=10% Similarity=-0.035 Sum_probs=40.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.|+++..+++...-++...-++|++.|+ ++..+|++++.+-|..|++..
T Consensus 139 ~L~~~~r~i~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Ra~~~Lr~~l 187 (189)
T PRK09648 139 TLPEKQREILILRVVVGLSAEETAEAVG---STPGAVRVAQHRALARLRAEI 187 (189)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHh
Confidence 4788888888886545566899999998 999999999999988888754
No 209
>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=68.56 E-value=23 Score=37.97 Aligned_cols=57 Identities=12% Similarity=0.187 Sum_probs=44.1
Q ss_pred CceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 18 DIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 18 ~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.+|+|++|+-.... .-++.+++||+.+|..+ |+--.-.+.+.+..++++||+...+-
T Consensus 121 ~~d~iviD~AhGhs~~~i~~ik~ir~~~p~~~-viaGNV~T~e~a~~Li~aGAD~ikVg 178 (343)
T TIGR01305 121 QLKFICLDVANGYSEHFVEFVKLVREAFPEHT-IMAGNVVTGEMVEELILSGADIVKVG 178 (343)
T ss_pred CCCEEEEECCCCcHHHHHHHHHHHHhhCCCCe-EEEecccCHHHHHHHHHcCCCEEEEc
Confidence 58999999976653 45678999999988643 44444677888999999999998643
No 210
>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed
Probab=68.54 E-value=21 Score=39.72 Aligned_cols=65 Identities=11% Similarity=0.171 Sum_probs=49.0
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
.++.+.+.+ ..+|+|++|..... ..-++.+++|+...|++|||+ -.-.+.+.+..+.++||+.+.
T Consensus 230 ~e~a~~L~~-agvdvivvD~a~g~~~~vl~~i~~i~~~~p~~~vi~-g~v~t~e~a~~l~~aGad~i~ 295 (486)
T PRK05567 230 EERAEALVE-AGVDVLVVDTAHGHSEGVLDRVREIKAKYPDVQIIA-GNVATAEAARALIEAGADAVK 295 (486)
T ss_pred HHHHHHHHH-hCCCEEEEECCCCcchhHHHHHHHHHhhCCCCCEEE-eccCCHHHHHHHHHcCCCEEE
Confidence 345555554 56899999975333 456778999998888888776 666678888999999998874
No 211
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=68.54 E-value=13 Score=36.13 Aligned_cols=52 Identities=13% Similarity=0.142 Sum_probs=43.2
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++...-++....++|++.|+ ++..+|+++|.+-+..|++..+.
T Consensus 152 ~~L~~~~r~vl~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Ra~~~Lr~~l~~ 203 (206)
T PRK12526 152 EKLPEAQQTVVKGVYFQELSQEQLAQQLN---VPLGTVKSRLRLALAKLKVQMGE 203 (206)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHhh
Confidence 45788888888876556666899999999 89999999999998888887653
No 212
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=68.21 E-value=13 Score=35.58 Aligned_cols=50 Identities=18% Similarity=0.149 Sum_probs=41.0
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|.++..+++.. -.+....++|++.|+ ++..+|++++.+-|..|++....
T Consensus 155 ~L~~~~r~vl~l-~~e~~s~~EIA~~lg---is~~tV~~~l~rar~~Lr~~l~~ 204 (208)
T PRK08295 155 LLSELEKEVLEL-YLDGKSYQEIAEELN---RHVKSIDNALQRVKRKLEKYLEN 204 (208)
T ss_pred hCCHHHHHHHHH-HHccCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHh
Confidence 466777778877 456677899999998 99999999999999988876543
No 213
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=68.18 E-value=35 Score=40.04 Aligned_cols=87 Identities=13% Similarity=-0.068 Sum_probs=58.4
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCC-C-CHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPE-M-NGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPd-m-dGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
.+.+++.+.+.+ ..+|+|++-..+.. + ..-++++.|++... +++ |++.+...++......++|+++|+..-.+..
T Consensus 620 ~s~e~~v~aa~~-~~a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~-vl~GG~~~~~~~~~l~~aGvD~~i~~g~d~~ 697 (714)
T PRK09426 620 QTPEEAARQAVE-NDVHVVGVSSLAAGHKTLVPALIEALKKLGREDIM-VVVGGVIPPQDYDFLYEAGVAAIFGPGTVIA 697 (714)
T ss_pred CCHHHHHHHHHH-cCCCEEEEeccchhhHHHHHHHHHHHHhcCCCCcE-EEEeCCCChhhHHHHHhCCCCEEECCCCCHH
Confidence 467788888876 67898887544433 2 24467777777643 233 4455442334445678899999998888888
Q ss_pred HHHHHHHHHHHH
Q 043479 81 DLKNVWQYAMTY 92 (534)
Q Consensus 81 eL~~aI~~aL~~ 92 (534)
++...+++.+..
T Consensus 698 ~~L~~l~~~l~~ 709 (714)
T PRK09426 698 DAAIDLLELLSA 709 (714)
T ss_pred HHHHHHHHHHHH
Confidence 888888777643
No 214
>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=67.97 E-value=30 Score=34.41 Aligned_cols=76 Identities=12% Similarity=0.144 Sum_probs=49.5
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+++++.++.- ..+++|=+.+ ..-+.++.++++++.++++. |-.-.--+.+.+.++.++||...+. |....+
T Consensus 17 ~~~e~a~~~~~al~~~Gi~~iEit~--~t~~a~~~i~~l~~~~~~~~-vGAGTVl~~~~a~~a~~aGA~Fivs-P~~~~~ 92 (204)
T TIGR01182 17 DDVDDALPLAKALIEGGLRVLEVTL--RTPVALDAIRLLRKEVPDAL-IGAGTVLNPEQLRQAVDAGAQFIVS-PGLTPE 92 (204)
T ss_pred CCHHHHHHHHHHHHHcCCCEEEEeC--CCccHHHHHHHHHHHCCCCE-EEEEeCCCHHHHHHHHHcCCCEEEC-CCCCHH
Confidence 4566666554431 4466555555 44568999999999888643 3334445778889999999985554 544444
Q ss_pred HH
Q 043479 82 LK 83 (534)
Q Consensus 82 L~ 83 (534)
+.
T Consensus 93 v~ 94 (204)
T TIGR01182 93 LA 94 (204)
T ss_pred HH
Confidence 44
No 215
>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=67.97 E-value=17 Score=26.85 Aligned_cols=40 Identities=20% Similarity=0.350 Sum_probs=28.9
Q ss_pred hHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 169 HNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 169 h~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
+++..+++..+. .....++|++.|+ ++..+|..|+.+.+.
T Consensus 2 ~~~e~~i~~~~~-~~~s~~eia~~l~---~s~~tv~~~~~~~~~ 41 (57)
T cd06170 2 TPREREVLRLLA-EGKTNKEIADILG---ISEKTVKTHLRNIMR 41 (57)
T ss_pred CHHHHHHHHHHH-cCCCHHHHHHHHC---CCHHHHHHHHHHHHH
Confidence 344555555553 3445899999998 899999999887654
No 216
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=67.80 E-value=13 Score=35.61 Aligned_cols=52 Identities=12% Similarity=0.098 Sum_probs=42.6
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|.++..+++...-++....++|++.|+ ++..+|++++.+-|..|++...+
T Consensus 141 ~~L~~~~r~vl~l~~~~~~s~~EIA~~Lg---is~~tVk~~l~ra~~~Lr~~l~~ 192 (194)
T PRK09646 141 DALTDTQRESVTLAYYGGLTYREVAERLA---VPLGTVKTRMRDGLIRLRDCLGV 192 (194)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHhC---CChHhHHHHHHHHHHHHHHHhcc
Confidence 35888888888775445566899999999 89999999999999988877654
No 217
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=67.58 E-value=13 Score=35.12 Aligned_cols=50 Identities=18% Similarity=0.066 Sum_probs=40.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|.++..+++...-++....++|++.|+ ++..+|.++|.+-|..|+...+
T Consensus 137 ~L~~~~r~i~~l~~~~g~s~~eIA~~lg---is~~~v~~~l~Rar~~Lr~~l~ 186 (187)
T PRK12534 137 ELEPPRSELIRTAFFEGITYEELAARTD---TPIGTVKSWIRRGLAKLKACLE 186 (187)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHhC---CChhHHHHHHHHHHHHHHHHHc
Confidence 3666666666665456666899999999 9999999999999998887654
No 218
>PRK04180 pyridoxal biosynthesis lyase PdxS; Provisional
Probab=67.47 E-value=42 Score=35.22 Aligned_cols=62 Identities=21% Similarity=0.123 Sum_probs=47.5
Q ss_pred CHHHHHHHHHhhCCCCcEE--EEecCCCHHHHHHHHHcCCcEEE-----eCCCChHHHHHHHHHHHHHhh
Q 043479 32 NGIELQKEINEEFTHLPVM--VMSSDDRESVIMKALASGVAFYI-----LKPLNPDDLKNVWQYAMTYKK 94 (534)
Q Consensus 32 dGleLL~~Lr~~~p~ipVI--VLSs~~d~~~~~~AL~aGA~dyL-----~KP~s~eeL~~aI~~aL~~k~ 94 (534)
.++++++++++... +||| ....-.+++.+..++++||++++ .|.-++.+..+.+..++..+.
T Consensus 190 ~~~elL~ei~~~~~-iPVV~~AeGGI~TPedaa~vme~GAdgVaVGSaI~ks~dP~~~akafv~ai~~~~ 258 (293)
T PRK04180 190 APYELVKEVAELGR-LPVVNFAAGGIATPADAALMMQLGADGVFVGSGIFKSGDPEKRARAIVEATTHYD 258 (293)
T ss_pred CCHHHHHHHHHhCC-CCEEEEEeCCCCCHHHHHHHHHhCCCEEEEcHHhhcCCCHHHHHHHHHHHHHHcC
Confidence 47889999988654 8998 56666689999999999999985 445577777777777765543
No 219
>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=67.46 E-value=23 Score=36.88 Aligned_cols=71 Identities=20% Similarity=0.147 Sum_probs=48.5
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
|++.+.+|+.+.+.. .+|+|++|-..|+ +--++++.++... +.-..|..|+--+.+.+.+..+.|++.+..
T Consensus 187 VEv~~leea~~a~~a--gaDiI~LDn~~~e-~l~~~v~~l~~~~~~~~~~leaSGGI~~~ni~~yA~tGvD~Is~ 258 (278)
T PRK08385 187 VEVESLEDALKAAKA--GADIIMLDNMTPE-EIREVIEALKREGLRERVKIEVSGGITPENIEEYAKLDVDVISL 258 (278)
T ss_pred EEeCCHHHHHHHHHc--CcCEEEECCCCHH-HHHHHHHHHHhcCcCCCEEEEEECCCCHHHHHHHHHcCCCEEEe
Confidence 467899999999874 6899999954332 2233444444433 113356777788888888888999887643
No 220
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=67.32 E-value=13 Score=34.54 Aligned_cols=49 Identities=24% Similarity=0.220 Sum_probs=40.7
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.|.++..+++...-++....++|++.|+ +|..+|.+++.+-|..|++..
T Consensus 119 ~L~~~~r~i~~l~~~~g~s~~eiA~~lg---is~~tv~~~l~Ra~~~Lr~~l 167 (169)
T TIGR02954 119 TLNDKYQTAIILRYYHDLTIKEIAEVMN---KPEGTVKTYLHRALKKLKKRL 167 (169)
T ss_pred hCCHHHhHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHh
Confidence 4777777888766555666899999999 899999999999999888764
No 221
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=67.21 E-value=12 Score=35.30 Aligned_cols=48 Identities=13% Similarity=0.095 Sum_probs=38.8
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
|+++..+++...-++...-++|++.|+ +|..+|++++.+-+..|++..
T Consensus 134 L~~~~r~i~~l~~~~~~s~~eIA~~lg---is~~tV~~~l~ra~~~Lr~~l 181 (182)
T PRK12537 134 LEPARRNCILHAYVDGCSHAEIAQRLG---APLGTVKAWIKRSLKALRECM 181 (182)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHHC---CChhhHHHHHHHHHHHHHHHh
Confidence 666777777665455666899999999 999999999999988887654
No 222
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=66.68 E-value=17 Score=34.72 Aligned_cols=53 Identities=23% Similarity=0.147 Sum_probs=43.3
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
..|+++..+++...-.+...-++|++.|+ ++..+|+++|.+-|..|++.....
T Consensus 135 ~~L~~~~r~i~~L~~~~g~s~~eIA~~lg---is~~tV~~~l~Ra~~~Lr~~l~~~ 187 (196)
T PRK12524 135 AALPERQRQAVVLRHIEGLSNPEIAEVME---IGVEAVESLTARGKRALAALLAGQ 187 (196)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHhc
Confidence 35777777888776555666899999999 999999999999999998877553
No 223
>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=66.51 E-value=68 Score=31.30 Aligned_cols=83 Identities=20% Similarity=0.214 Sum_probs=51.7
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE--eCCCChHHHH
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI--LKPLNPDDLK 83 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL--~KP~s~eeL~ 83 (534)
..+..+.+.+..---|-++|...--...++.++.+++.. ++||++...-.+...+..++++||+.++ ...+..+++.
T Consensus 33 ~~~~A~~~~~~GA~~l~v~~~~~~~~g~~~~~~~i~~~v-~iPi~~~~~i~~~~~v~~~~~~Gad~v~l~~~~~~~~~~~ 111 (217)
T cd00331 33 PVEIAKAYEKAGAAAISVLTEPKYFQGSLEDLRAVREAV-SLPVLRKDFIIDPYQIYEARAAGADAVLLIVAALDDEQLK 111 (217)
T ss_pred HHHHHHHHHHcCCCEEEEEeCccccCCCHHHHHHHHHhc-CCCEEECCeecCHHHHHHHHHcCCCEEEEeeccCCHHHHH
Confidence 444444444322223445555444445678888888763 6999986555566678889999999997 3334445666
Q ss_pred HHHHHH
Q 043479 84 NVWQYA 89 (534)
Q Consensus 84 ~aI~~a 89 (534)
+.++.+
T Consensus 112 ~~~~~~ 117 (217)
T cd00331 112 ELYELA 117 (217)
T ss_pred HHHHHH
Confidence 665554
No 224
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=66.48 E-value=19 Score=36.98 Aligned_cols=56 Identities=18% Similarity=0.276 Sum_probs=43.1
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL 90 (534)
+++++++|+. +++|+|+|+=... +..+.+|.++|+++++.-.+..++....+..+.
T Consensus 80 ~~~~~~~r~~-~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~~~ 141 (263)
T CHL00200 80 LSILSEVNGE-IKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISVCN 141 (263)
T ss_pred HHHHHHHhcC-CCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHH
Confidence 6777777744 6789888886642 456888999999999999998888776666653
No 225
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=66.45 E-value=14 Score=34.57 Aligned_cols=50 Identities=20% Similarity=0.258 Sum_probs=40.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|+.+..+++...-++....++|++.|+ +|..+|.+++.+-|..|++...
T Consensus 136 ~L~~~~r~il~l~~~~~~s~~eIA~~lg---is~~~v~~~l~Rar~~Lr~~l~ 185 (187)
T PRK09641 136 QLPEKYRTVIVLKYIEDLSLKEISEILD---LPVGTVKTRIHRGREALRKQLR 185 (187)
T ss_pred hCCHHHHHHhhhHHhhCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHh
Confidence 3777777777665445566899999999 8999999999999998887654
No 226
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=66.28 E-value=20 Score=37.36 Aligned_cols=70 Identities=17% Similarity=0.258 Sum_probs=47.9
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
|++.+.+|+.+.++. .+|+|++|- |+..+--++++.+++..+. .++-.|+--+.+.+....+.|++-+..
T Consensus 194 VEv~tleqa~ea~~a--gaDiI~LDn-~~~e~l~~av~~~~~~~~~-~~leaSGGI~~~ni~~yA~tGvD~Is~ 263 (284)
T PRK06096 194 VEADTPKEAIAALRA--QPDVLQLDK-FSPQQATEIAQIAPSLAPH-CTLSLAGGINLNTLKNYADCGIRLFIT 263 (284)
T ss_pred EECCCHHHHHHHHHc--CCCEEEECC-CCHHHHHHHHHHhhccCCC-eEEEEECCCCHHHHHHHHhcCCCEEEE
Confidence 457789999999875 599999994 3332333344444433443 356778888888888888999887643
No 227
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=66.10 E-value=13 Score=34.20 Aligned_cols=49 Identities=20% Similarity=0.070 Sum_probs=39.8
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
..|+.+-.+++..--++....++|++.|+ +|..+|++||.+-|..|++.
T Consensus 111 ~~L~~~~r~v~~l~~~~~~s~~eIA~~lg---is~~tv~~~l~Rar~~L~~~ 159 (161)
T PRK12541 111 SSLPLERRNVLLLRDYYGFSYKEIAEMTG---LSLAKVKIELHRGRKETKSI 159 (161)
T ss_pred HHCCHHHHHHhhhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHhh
Confidence 34777777777775556666899999999 99999999999998887754
No 228
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=65.96 E-value=15 Score=32.96 Aligned_cols=49 Identities=18% Similarity=0.169 Sum_probs=39.8
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
..|.++..+++...-++....++|++.|+ +|..+|++++.+-|..|++.
T Consensus 112 ~~L~~~~r~il~l~~~~~~~~~eIA~~lg---is~~tv~~~~~ra~~~Lr~~ 160 (161)
T TIGR02985 112 EKLPEQCRKIFILSRFEGKSYKEIAEELG---ISVKTVEYHISKALKELRKE 160 (161)
T ss_pred HHCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHhh
Confidence 35777888888875445666899999999 89999999999988877753
No 229
>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=65.90 E-value=32 Score=32.89 Aligned_cols=85 Identities=18% Similarity=0.199 Sum_probs=52.1
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEEEe--cCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP--EMNGIELQKEINEEFTHLPVMVMS--SDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP--dmdGleLL~~Lr~~~p~ipVIVLS--s~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.+++++.++.-.+. +-.+.+.+| -..|++.++.+++..++.+|++.. ..........+.++|++.++.-....
T Consensus 10 ~~~~~~~~~~~~l~~~-i~~ieig~~~~~~~g~~~i~~i~~~~~~~~i~~~~~v~~~~~~~~~~~~~aGad~i~~h~~~~ 88 (202)
T cd04726 10 LDLEEALELAKKVPDG-VDIIEAGTPLIKSEGMEAVRALREAFPDKIIVADLKTADAGALEAEMAFKAGADIVTVLGAAP 88 (202)
T ss_pred CCHHHHHHHHHHhhhc-CCEEEcCCHHHHHhCHHHHHHHHHHCCCCEEEEEEEeccccHHHHHHHHhcCCCEEEEEeeCC
Confidence 3567777766552222 444555444 245789999999887788887643 22223346778899999888654432
Q ss_pred -HHHHHHHHHH
Q 043479 80 -DDLKNVWQYA 89 (534)
Q Consensus 80 -eeL~~aI~~a 89 (534)
+.+.+.++.+
T Consensus 89 ~~~~~~~i~~~ 99 (202)
T cd04726 89 LSTIKKAVKAA 99 (202)
T ss_pred HHHHHHHHHHH
Confidence 3444444443
No 230
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=65.62 E-value=17 Score=34.62 Aligned_cols=52 Identities=29% Similarity=0.370 Sum_probs=43.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
.|+.+..+++...-++....++|++.|+ ++..+|++++.+-|..|++.....
T Consensus 106 ~L~~~~r~i~~l~~~~g~~~~EIA~~lg---is~~tV~~~l~Rar~~Lr~~l~~~ 157 (181)
T PRK09637 106 ALPEKYAEALRLTELEGLSQKEIAEKLG---LSLSGAKSRVQRGRVKLKELLEGC 157 (181)
T ss_pred hCCHHHHHHHHHHHhcCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHHHc
Confidence 4777788888776556666899999999 899999999999999998877664
No 231
>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=64.65 E-value=26 Score=37.20 Aligned_cols=56 Identities=9% Similarity=0.107 Sum_probs=43.4
Q ss_pred ceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 19 IDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 19 pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.|+|++|.-... ..-++.+++|++.+| .|+|+.-...+.+.+..++++||+.+..-
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 PEYITIDIAHGHSNSVINMIKHIKTHLP-DSFVIAGNVGTPEAVRELENAGADATKVG 165 (321)
T ss_pred CCEEEEeCccCchHHHHHHHHHHHHhCC-CCEEEEecCCCHHHHHHHHHcCcCEEEEC
Confidence 699999986554 345678899998887 45555555678889999999999998643
No 232
>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=64.63 E-value=39 Score=34.17 Aligned_cols=66 Identities=20% Similarity=0.195 Sum_probs=51.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEM--NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdm--dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+..+.+++ ...|.|.+|...++. -.++.++++++..+.+|||..-+-.+.+.+.+.++.||+++..
T Consensus 152 ~~a~~l~~-aGad~i~Vd~~~~g~~~a~~~~I~~i~~~~~~ipIIgNGgI~s~eda~e~l~~GAd~Vmv 219 (231)
T TIGR00736 152 IDALNLVD-DGFDGIHVDAMYPGKPYADMDLLKILSEEFNDKIIIGNNSIDDIESAKEMLKAGADFVSV 219 (231)
T ss_pred HHHHHHHH-cCCCEEEEeeCCCCCchhhHHHHHHHHHhcCCCcEEEECCcCCHHHHHHHHHhCCCeEEE
Confidence 44455555 678988889777654 3588899998876569999888888889999999999998754
No 233
>PRK04128 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=64.60 E-value=64 Score=32.32 Aligned_cols=68 Identities=28% Similarity=0.251 Sum_probs=51.1
Q ss_pred cCHHHHHHHHHhcCCce-EEEEeCC-CC-C-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 4 TRPVEALATVRIQRDID-LVVTDLH-MP-E-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 4 ss~~EALe~L~~~~~pD-LVLLDi~-mP-d-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.++.+..+.+.+ . ++ ++++|++ +- + ..-+++++++.+. ..+||++=-+-.+.+.+.+++..|++..+.
T Consensus 30 ~dp~~~a~~~~~-~-~~~l~ivDldga~~g~~~n~~~i~~i~~~-~~~pv~~gGGIrs~edv~~l~~~G~~~viv 101 (228)
T PRK04128 30 GDPVEIALRFSE-Y-VDKIHVVDLDGAFEGKPKNLDVVKNIIRE-TGLKVQVGGGLRTYESIKDAYEIGVENVII 101 (228)
T ss_pred CCHHHHHHHHHH-h-CCEEEEEECcchhcCCcchHHHHHHHHhh-CCCCEEEcCCCCCHHHHHHHHHCCCCEEEE
Confidence 367777777766 4 55 7788886 22 2 2457889998876 558988877788888999999999998875
No 234
>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=64.53 E-value=26 Score=37.69 Aligned_cols=68 Identities=16% Similarity=0.209 Sum_probs=47.4
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
..|-.+.|.+ ...|+|++|.-... ..-++.+++|++.+|+++|| .-...+.+.....+++||+...+=
T Consensus 109 ~~er~~~L~~-agvD~ivID~a~g~s~~~~~~ik~ik~~~~~~~vi-aGNV~T~e~a~~L~~aGad~vkVG 177 (352)
T PF00478_consen 109 DFERAEALVE-AGVDVIVIDSAHGHSEHVIDMIKKIKKKFPDVPVI-AGNVVTYEGAKDLIDAGADAVKVG 177 (352)
T ss_dssp HHHHHHHHHH-TT-SEEEEE-SSTTSHHHHHHHHHHHHHSTTSEEE-EEEE-SHHHHHHHHHTT-SEEEES
T ss_pred HHHHHHHHHH-cCCCEEEccccCccHHHHHHHHHHHHHhCCCceEE-ecccCCHHHHHHHHHcCCCEEEEe
Confidence 3455555554 56899999986544 33567899999999988877 455567788888999999998654
No 235
>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=64.46 E-value=42 Score=33.57 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=53.2
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCCC---CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPEM---NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPdm---dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.++.+.++.+.. ..-.++++|+..-++ ..+++++.+.+. ..+||++-.+..+.+.+.++++.|+++.+.
T Consensus 146 ~~~~~~~~~~~~-~~~~li~~di~~~G~~~g~~~~~~~~i~~~-~~ipvi~~GGi~s~edi~~l~~~G~~~viv 217 (233)
T cd04723 146 IGPEELLRRLAK-WPEELIVLDIDRVGSGQGPDLELLERLAAR-ADIPVIAAGGVRSVEDLELLKKLGASGALV 217 (233)
T ss_pred CCHHHHHHHHHH-hCCeEEEEEcCccccCCCcCHHHHHHHHHh-cCCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence 457778888876 422589999976442 336778888775 458999988899999999999999999875
No 236
>PRK12704 phosphodiesterase; Provisional
Probab=63.98 E-value=12 Score=42.07 Aligned_cols=46 Identities=13% Similarity=0.036 Sum_probs=39.5
Q ss_pred CcEEEEecCCCHH--HHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHH
Q 043479 47 LPVMVMSSDDRES--VIMKALASGVAFYILKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 47 ipVIVLSs~~d~~--~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~ 92 (534)
..+|++|+.+... ....++..++.|+..||+.++++...++.-+..
T Consensus 250 p~~v~ls~~~~~rre~a~~~l~~l~~dg~i~P~~iee~~~~~~~~~~~ 297 (520)
T PRK12704 250 PEAVILSGFDPIRREIARLALEKLVQDGRIHPARIEEMVEKARKEVDE 297 (520)
T ss_pred CCeEEEecCChhhHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHHHH
Confidence 4588899987765 788899999999999999999999999877654
No 237
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=63.92 E-value=39 Score=33.64 Aligned_cols=81 Identities=16% Similarity=0.135 Sum_probs=52.3
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCc-E-EEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLP-V-MVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ip-V-IVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.++++..++.-..--+=++++.+..-+.++.++.|++++++-| + |=.-.--+.+.+.++.++||...+ -|....+
T Consensus 22 ~~~~~a~~~~~al~~~Gi~~iEit~~~~~a~~~i~~l~~~~~~~p~~~vGaGTV~~~~~~~~a~~aGA~Fiv-sP~~~~~ 100 (213)
T PRK06552 22 ESKEEALKISLAVIKGGIKAIEVTYTNPFASEVIKELVELYKDDPEVLIGAGTVLDAVTARLAILAGAQFIV-SPSFNRE 100 (213)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEEECCCccHHHHHHHHHHHcCCCCCeEEeeeeCCCHHHHHHHHHcCCCEEE-CCCCCHH
Confidence 456666665543222234456666667779999999998875422 3 334445577888999999998555 5655555
Q ss_pred HHHH
Q 043479 82 LKNV 85 (534)
Q Consensus 82 L~~a 85 (534)
+.+.
T Consensus 101 v~~~ 104 (213)
T PRK06552 101 TAKI 104 (213)
T ss_pred HHHH
Confidence 5543
No 238
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=63.87 E-value=15 Score=34.38 Aligned_cols=49 Identities=20% Similarity=0.121 Sum_probs=39.4
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
|.++..+++...-++...-++|++.|+ +|..+|+++|.+-|..|++...
T Consensus 139 L~~~~r~v~~l~~~~~~s~~EIA~~lg---is~~tv~~~l~rar~~Lr~~l~ 187 (190)
T TIGR02939 139 LPEDLRTAITLRELEGLSYEDIARIMD---CPVGTVRSRIFRAREAIAIRLR 187 (190)
T ss_pred CCHHHhhhhhhhhhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHhh
Confidence 666666777665445566899999999 9999999999999998887764
No 239
>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=63.73 E-value=25 Score=36.30 Aligned_cols=70 Identities=20% Similarity=0.157 Sum_probs=48.2
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+++.+.+|+.+.++ ...|.|.+|-..|. +--++++.++...+++|++++ +--+.+.+.+..+.|++.+..
T Consensus 188 Vev~t~eea~~A~~--~gaD~I~ld~~~p~-~l~~~~~~~~~~~~~i~i~As-GGI~~~ni~~~~~~Gvd~I~v 257 (272)
T cd01573 188 VEVDSLEEALAAAE--AGADILQLDKFSPE-ELAELVPKLRSLAPPVLLAAA-GGINIENAAAYAAAGADILVT 257 (272)
T ss_pred EEcCCHHHHHHHHH--cCCCEEEECCCCHH-HHHHHHHHHhccCCCceEEEE-CCCCHHHHHHHHHcCCcEEEE
Confidence 35778889888875 46899999965553 222345545554466776654 445778888889999998854
No 240
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=63.64 E-value=44 Score=32.98 Aligned_cols=81 Identities=10% Similarity=0.105 Sum_probs=52.4
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLK 83 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~ 83 (534)
.+.+++++.++....-.+=++.+.+...++.+.++.|++.++..-+|=.-.--+.+.+..++++||+..+. |....++.
T Consensus 19 ~~~~~~~~~~~a~~~gGi~~iEvt~~~~~~~~~i~~l~~~~~~~~~iGaGTV~~~~~~~~a~~aGA~fivs-p~~~~~v~ 97 (206)
T PRK09140 19 ITPDEALAHVGALIEAGFRAIEIPLNSPDPFDSIAALVKALGDRALIGAGTVLSPEQVDRLADAGGRLIVT-PNTDPEVI 97 (206)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEEeCCCccHHHHHHHHHHHcCCCcEEeEEecCCHHHHHHHHHcCCCEEEC-CCCCHHHH
Confidence 45666666554422223446677777778999999999888742233333445677888999999975555 65555555
Q ss_pred HH
Q 043479 84 NV 85 (534)
Q Consensus 84 ~a 85 (534)
++
T Consensus 98 ~~ 99 (206)
T PRK09140 98 RR 99 (206)
T ss_pred HH
Confidence 44
No 241
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=63.22 E-value=18 Score=37.50 Aligned_cols=80 Identities=9% Similarity=-0.014 Sum_probs=55.5
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccCC----chhHhhhhhcccchHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAMG----KTLALRSSFASGHVSM 242 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~~----~~~~lr~~~~sg~~~~ 242 (534)
.|+.+..+++...-.+...-++|++.|+ +|..+|++++++-|..|++...+...... -......++.+|....
T Consensus 118 ~L~p~~R~vf~L~~~~g~s~~EIA~~Lg---is~~tVr~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~f~~a~~~gd~~~ 194 (290)
T PRK09635 118 RLGPAERVVFVLHEIFGLPYQQIATTIG---SQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDLDT 194 (290)
T ss_pred hCCHHHHHHhhHHHHhCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHhhCCCCCCChHHHHHHHHHHHHHHHhCCHHH
Confidence 4677777777665555566899999999 99999999999999988875432111111 1235566777777777
Q ss_pred HHHHhhh
Q 043479 243 MLQEAHE 249 (534)
Q Consensus 243 ~~~~~~~ 249 (534)
++.=|.+
T Consensus 195 l~~ll~~ 201 (290)
T PRK09635 195 LLEVLDP 201 (290)
T ss_pred HHHHhhh
Confidence 6655543
No 242
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=63.19 E-value=19 Score=33.64 Aligned_cols=50 Identities=14% Similarity=-0.028 Sum_probs=40.1
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
..|+++..+++...-++...-++|++.|+ ++..+|+++|.+-+..++...
T Consensus 118 ~~Lp~~~r~v~~L~~~~g~s~~EIA~~lg---is~~tV~~~l~ra~~~~~~~l 167 (172)
T PRK12523 118 GKLSSKARAAFLYNRLDGMGHAEIAERLG---VSVSRVRQYLAQGLRQCYIAL 167 (172)
T ss_pred HhCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHh
Confidence 34777888888876556666899999999 999999999998877776544
No 243
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=63.00 E-value=19 Score=35.68 Aligned_cols=50 Identities=16% Similarity=0.024 Sum_probs=41.5
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|+.++.+-+..|++...
T Consensus 184 ~L~~~~r~vl~l~~~~g~s~~EIA~~lg---is~~tV~~~~~ra~~~Lr~~l~ 233 (236)
T PRK06986 184 SLPEREQLVLSLYYQEELNLKEIGAVLG---VSESRVSQIHSQAIKRLRARLG 233 (236)
T ss_pred hCCHHHHHHHHhHhccCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHh
Confidence 4778888888877556666899999999 9999999999998888877654
No 244
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=62.81 E-value=30 Score=35.77 Aligned_cols=57 Identities=23% Similarity=0.366 Sum_probs=42.6
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAFYILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~ 91 (534)
+++++++|+....+|+++|+=... .....+|.+.|++++|.-.+.+++-.. +....+
T Consensus 82 lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee~~~-~~~~~~ 144 (265)
T COG0159 82 LELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEESDE-LLKAAE 144 (265)
T ss_pred HHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEeCCCChHHHHH-HHHHHH
Confidence 677778887888999999986653 335678999999999998887766554 444433
No 245
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=62.71 E-value=48 Score=33.26 Aligned_cols=50 Identities=22% Similarity=0.318 Sum_probs=36.4
Q ss_pred HHHHHhhCCCCcEEEEecCC------CHHHHHHHHHcCCcEEEeCCCChHHHHHHH
Q 043479 37 QKEINEEFTHLPVMVMSSDD------RESVIMKALASGVAFYILKPLNPDDLKNVW 86 (534)
Q Consensus 37 L~~Lr~~~p~ipVIVLSs~~------d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI 86 (534)
+++.|...-.+|||+|+-+. +..++..+..+||.+||.-.+.+||-...-
T Consensus 86 vk~ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~~R 141 (268)
T KOG4175|consen 86 VKEARPQGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAETLR 141 (268)
T ss_pred HHHhcccCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHHHH
Confidence 33333333458999987553 456788899999999999988888765443
No 246
>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=62.69 E-value=27 Score=34.05 Aligned_cols=66 Identities=20% Similarity=0.112 Sum_probs=46.0
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCC--CCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFT--HLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p--~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
..++.++.+.+ ..||+|.+-..+.. ....++++.|++..+ +++|++=-..-..+ .+-..||+.|-.
T Consensus 121 p~~~l~~~~~~-~~~d~v~lS~~~~~~~~~~~~~i~~lr~~~~~~~~~i~vGG~~~~~~---~~~~~GaD~~~~ 190 (201)
T cd02070 121 PPEEFVEAVKE-HKPDILGLSALMTTTMGGMKEVIEALKEAGLRDKVKVMVGGAPVNQE---FADEIGADGYAE 190 (201)
T ss_pred CHHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHHCCCCcCCeEEEECCcCCHH---HHHHcCCcEEEC
Confidence 46777888877 78999999887764 234567788887766 67766555444433 456679998865
No 247
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=62.40 E-value=19 Score=36.79 Aligned_cols=80 Identities=10% Similarity=-0.018 Sum_probs=56.5
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhcccC----CchhHhhhhhcccchHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGASAM----GKTLALRSSFASGHVSM 242 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~~~~----~~~~~lr~~~~sg~~~~ 242 (534)
.|+.+..+++...-.+....++|++.|+ +|..+|++++.+-|..|+....+..... .-......++.+|....
T Consensus 108 ~L~~~~R~v~~L~~~~g~s~~EIA~~lg---~s~~tVr~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~f~~a~~~gD~~~ 184 (281)
T TIGR02957 108 RLSPLERAVFVLREVFDYPYEEIASIVG---KSEANCRQLVSRARRHLDARRPRFEVSREESRQLLERFVEAAQTGDLDG 184 (281)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHhhCCCCCCChHHHHHHHHHHHHHHHhCCHHH
Confidence 4777777887776555666899999999 9999999999999998887644321111 11234556777777776
Q ss_pred HHHHhhh
Q 043479 243 MLQEAHE 249 (534)
Q Consensus 243 ~~~~~~~ 249 (534)
+..-|.+
T Consensus 185 l~~lL~~ 191 (281)
T TIGR02957 185 LLELLAE 191 (281)
T ss_pred HHHHHhh
Confidence 6655554
No 248
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=62.26 E-value=13 Score=36.69 Aligned_cols=51 Identities=18% Similarity=0.235 Sum_probs=41.8
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
|+++..+++...-.+....++|++.|+ ++..+|++++.+.|..|++.....
T Consensus 150 L~~~~r~i~~l~~~~g~s~~EIAe~lg---is~~tVk~~l~Rar~kLr~~l~~~ 200 (231)
T PRK11922 150 LPDAFRAVFVLRVVEELSVEETAQALG---LPEETVKTRLHRARRLLRESLARE 200 (231)
T ss_pred CCHHHhhhheeehhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHHh
Confidence 677777777664445566899999999 899999999999999999987653
No 249
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=62.16 E-value=11 Score=36.82 Aligned_cols=49 Identities=22% Similarity=0.192 Sum_probs=30.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCC-C-----CCHHHHHHHHHhhCCCCcEEEEecCC
Q 043479 7 VEALATVRIQRDIDLVVTDLHMP-E-----MNGIELQKEINEEFTHLPVMVMSSDD 56 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mP-d-----mdGleLL~~Lr~~~p~ipVIVLSs~~ 56 (534)
.+..++|.+ .+.|++++|+..- . ..-..+++.||+.+|++|||+++...
T Consensus 49 ~~~a~~ia~-~~a~~~~ld~~~N~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~~~ 103 (178)
T PF14606_consen 49 PEVADLIAE-IDADLIVLDCGPNMSPEEFRERLDGFVKTIREAHPDTPILLVSPIP 103 (178)
T ss_dssp HHHHHHHHH-S--SEEEEEESHHCCTTTHHHHHHHHHHHHHTT-SSS-EEEEE---
T ss_pred HHHHHHHhc-CCCCEEEEEeecCCCHHHHHHHHHHHHHHHHHhCCCCCEEEEecCC
Confidence 345566766 5779999998532 1 12356888899999999999998643
No 250
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=62.11 E-value=9.5 Score=35.46 Aligned_cols=52 Identities=25% Similarity=0.240 Sum_probs=41.3
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++..+++...-++....++|++.|+ +|..+|++++.+-|..|++..+.
T Consensus 119 ~~L~~~~r~vl~l~~~~g~s~~eIA~~lg---~s~~tv~~~l~Rar~~L~~~l~~ 170 (175)
T PRK12518 119 QTLSLEHRAVLVLHDLEDLPQKEIAEILN---IPVGTVKSRLFYARRQLRKFLQQ 170 (175)
T ss_pred HhCCHHHeeeeeehHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHh
Confidence 34666777777765445555899999999 99999999999999988887654
No 251
>PRK13587 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=62.01 E-value=52 Score=33.08 Aligned_cols=69 Identities=14% Similarity=0.136 Sum_probs=51.9
Q ss_pred CHHHHHHHHHhcCC-ceEEEEeCCCCCC---CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRD-IDLVVTDLHMPEM---NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~-pDLVLLDi~mPdm---dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+..+.++.+.. .. -.+|++|+..-++ -.+++++++.+. ..+|||+-.+..+.+.+.++++.|+++.+.=
T Consensus 149 ~~~~~~~~~~~-~g~~~ii~tdi~~dGt~~G~~~~li~~l~~~-~~ipvi~~GGi~s~edi~~l~~~G~~~vivG 221 (234)
T PRK13587 149 NLFSFVRQLSD-IPLGGIIYTDIAKDGKMSGPNFELTGQLVKA-TTIPVIASGGIRHQQDIQRLASLNVHAAIIG 221 (234)
T ss_pred CHHHHHHHHHH-cCCCEEEEecccCcCCCCccCHHHHHHHHHh-CCCCEEEeCCCCCHHHHHHHHHcCCCEEEEh
Confidence 34666666655 33 3699999976542 236778888775 4689999888889999999999999999863
No 252
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=61.89 E-value=25 Score=32.97 Aligned_cols=50 Identities=20% Similarity=0.284 Sum_probs=40.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++.... .....++|++.|+ +|+.+|+++..+.+..+++.-..
T Consensus 6 ~Lt~rqreVL~lr~-~GlTq~EIAe~LG---iS~~tVs~ie~ra~kkLr~~~~t 55 (141)
T PRK03975 6 FLTERQIEVLRLRE-RGLTQQEIADILG---TSRANVSSIEKRARENIEKARET 55 (141)
T ss_pred CCCHHHHHHHHHHH-cCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 47889999998874 5555899999999 89999999998877766654433
No 253
>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=61.70 E-value=22 Score=35.35 Aligned_cols=69 Identities=12% Similarity=0.179 Sum_probs=47.1
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-C-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHH---HHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-M-NGIELQKEINEEFTHLPVMVMSSDDRESVIMK---ALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-m-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~---AL~aGA~dyL~ 74 (534)
..++.++.+.+ .+||+|.+-..|+. + .--++++.|++..++++|++--..-+.+...+ +-..||+.|-.
T Consensus 127 p~e~~v~~~~~-~~~~~V~lS~~~~~~~~~~~~~i~~L~~~~~~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~~ 200 (213)
T cd02069 127 PIEKILEAAKE-HKADIIGLSGLLVPSLDEMVEVAEEMNRRGIKIPLLIGGAATSRKHTAVKIAPEYDGPVVYVK 200 (213)
T ss_pred CHHHHHHHHHH-cCCCEEEEccchhccHHHHHHHHHHHHhcCCCCeEEEEChhcCHHHHhhhhccccCCCceEec
Confidence 46777888887 78999999988764 2 33457888887777777666555445444432 23578988754
No 254
>PRK15399 lysine decarboxylase LdcC; Provisional
Probab=61.50 E-value=37 Score=39.87 Aligned_cols=89 Identities=13% Similarity=0.074 Sum_probs=58.4
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-ChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-NPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s~e 80 (534)
.+.+..+++..++.....+.|++|+... ..++++.+++...++||+++........+....-.-+++|+..-. +.+
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~Pv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 111 (713)
T PRK15399 35 WPQNSVDLLKFIEHNPRICGVIFDWDEY---SLDLCSDINQLNEYLPLYAFINTHSTMDVSVQDMRMALWFFEYALGAAE 111 (713)
T ss_pred EecCHHHHHHHHhcccceeEEEEecccc---hHHHHHHHHHhCCCCCEEEEcCccccccCChhHhhhcceeeeeccCCHH
Confidence 4567788888887546788999996433 356899999999999999987655333322233334666765443 345
Q ss_pred HHHHHHHHHHHHh
Q 043479 81 DLKNVWQYAMTYK 93 (534)
Q Consensus 81 eL~~aI~~aL~~k 93 (534)
.+...|.++.+..
T Consensus 112 ~~a~~i~~~~~~y 124 (713)
T PRK15399 112 DIAIRIRQYTNEY 124 (713)
T ss_pred HHHHHHHHHHHHH
Confidence 5555566655543
No 255
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=61.29 E-value=11 Score=35.16 Aligned_cols=48 Identities=15% Similarity=0.105 Sum_probs=38.8
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
|+++..+++...-++....++|++.|+ ++..+|++++.+-|..|++..
T Consensus 127 L~~~~r~v~~l~~~~g~s~~eIA~~l~---is~~~V~~~l~ra~~~l~~~l 174 (176)
T PRK09638 127 LDPEFRAPVILKHYYGYTYEEIAKMLN---IPEGTVKSRVHHGIKQLRKEW 174 (176)
T ss_pred CCHHHhheeeehhhcCCCHHHHHHHHC---CChhHHHHHHHHHHHHHHHHh
Confidence 666666766665456666899999999 899999999999988887754
No 256
>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=61.29 E-value=34 Score=38.09 Aligned_cols=84 Identities=12% Similarity=0.085 Sum_probs=54.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHH-cCCcEEEeCCCChHHHHH
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALA-SGVAFYILKPLNPDDLKN 84 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~-aGA~dyL~KP~s~eeL~~ 84 (534)
++..+.+++ ..||+|.+-...+.. ...++++.+|+..|+++||+=-.+... ...+++. ....||++.--..+.+.+
T Consensus 53 ~~~~~~l~~-~~pdvVgis~~t~~~~~a~~~~~~~k~~~P~~~iV~GG~h~t~-~~~~~l~~~p~vD~Vv~GEGE~~~~~ 130 (497)
T TIGR02026 53 EKLVERLRA-HCPDLVLITAITPAIYIACETLKFARERLPNAIIVLGGIHPTF-MFHQVLTEAPWIDFIVRGEGEETVVK 130 (497)
T ss_pred HHHHHHHHh-cCcCEEEEecCcccHHHHHHHHHHHHHHCCCCEEEEcCCCcCc-CHHHHHhcCCCccEEEeCCcHHHHHH
Confidence 445556665 689999998765543 355788888888998877655444432 2334453 455678887766666777
Q ss_pred HHHHHHHH
Q 043479 85 VWQYAMTY 92 (534)
Q Consensus 85 aI~~aL~~ 92 (534)
.++.+..+
T Consensus 131 Ll~~l~~g 138 (497)
T TIGR02026 131 LIAALENH 138 (497)
T ss_pred HHHHHHcC
Confidence 77665443
No 257
>TIGR02835 spore_sigmaE RNA polymerase sigma-E factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active.
Probab=60.80 E-value=22 Score=35.31 Aligned_cols=51 Identities=10% Similarity=0.131 Sum_probs=41.9
Q ss_pred hhhHHHHHHHHHhc----cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIG----LEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LG----lekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++...- .+...-++|++.|+ ++..+|+.|+.+-+..|++...+
T Consensus 178 ~Lp~~~R~ii~L~~~l~~~eg~s~~EIA~~Lg---is~~tV~~~l~ra~~~LR~~l~~ 232 (234)
T TIGR02835 178 KLNDREKKIMELRFGLVGGTEKTQKEVADMLG---ISQSYISRLEKRILKRLKKEINR 232 (234)
T ss_pred hCCHHHHHHHHHHHccCCCCCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHhhc
Confidence 48888888888753 25566899999999 99999999999998888887654
No 258
>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=60.79 E-value=31 Score=36.97 Aligned_cols=54 Identities=7% Similarity=0.146 Sum_probs=42.9
Q ss_pred CceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 18 DIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 18 ~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
.+|+|++|+-.... .-++++++||+.+|+++|| .-.-.+.+.+...+++||+..
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 68999999976653 3567899999999987744 556667788888899999976
No 259
>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional
Probab=60.62 E-value=37 Score=38.10 Aligned_cols=56 Identities=13% Similarity=0.263 Sum_probs=42.2
Q ss_pred CCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 17 RDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 17 ~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
...|+|.+|..-.. ...++.+++|++.+|+++|++ -.-.+.+.+..+.++||+.+.
T Consensus 252 ag~d~i~id~a~G~s~~~~~~i~~ik~~~~~~~v~a-G~V~t~~~a~~~~~aGad~I~ 308 (495)
T PTZ00314 252 AGVDVLVVDSSQGNSIYQIDMIKKLKSNYPHVDIIA-GNVVTADQAKNLIDAGADGLR 308 (495)
T ss_pred CCCCEEEEecCCCCchHHHHHHHHHHhhCCCceEEE-CCcCCHHHHHHHHHcCCCEEE
Confidence 46999999985332 234789999999888777655 344566788899999999875
No 260
>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=60.15 E-value=54 Score=34.35 Aligned_cols=70 Identities=16% Similarity=0.165 Sum_probs=52.2
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCC-----CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHM-----PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~m-----PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.+.++|.+..+ ..+|.|++.-.- ....-+++++++++.. ++|||+--+-.+...+..++..||+++..=
T Consensus 116 v~s~~~a~~a~~--~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~-~iPviaaGGI~~~~~~~~al~~GA~gV~iG 190 (307)
T TIGR03151 116 VASVALAKRMEK--AGADAVIAEGMESGGHIGELTTMALVPQVVDAV-SIPVIAAGGIADGRGMAAAFALGAEAVQMG 190 (307)
T ss_pred cCCHHHHHHHHH--cCCCEEEEECcccCCCCCCCcHHHHHHHHHHHh-CCCEEEECCCCCHHHHHHHHHcCCCEeecc
Confidence 456777766655 468998885432 2234588999998765 489998888888888999999999998653
No 261
>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=60.13 E-value=32 Score=36.42 Aligned_cols=65 Identities=17% Similarity=0.259 Sum_probs=51.1
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF 71 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d 71 (534)
.+..||++.+... ..-|+|++- |.+.-+++++.+++.+|++||.+.-...+-..+..|.+.|..+
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 4677888876543 458999886 7778899999999999889999988777666666777777654
No 262
>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=60.09 E-value=40 Score=32.41 Aligned_cols=58 Identities=17% Similarity=0.168 Sum_probs=44.1
Q ss_pred HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHH
Q 043479 33 GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 33 GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~ 91 (534)
-.+.++.+++..|..+.|.+ ..++.+.+.+++++|++...+--+++++++++++.+..
T Consensus 66 i~~av~~~~~~~~~~~~I~V-Ev~~~ee~~ea~~~g~d~I~lD~~~~~~~~~~v~~l~~ 123 (169)
T PF01729_consen 66 IEEAVKAARQAAPEKKKIEV-EVENLEEAEEALEAGADIIMLDNMSPEDLKEAVEELRE 123 (169)
T ss_dssp HHHHHHHHHHHSTTTSEEEE-EESSHHHHHHHHHTT-SEEEEES-CHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCCCceEEE-EcCCHHHHHHHHHhCCCEEEecCcCHHHHHHHHHHHhh
Confidence 46788888888887764333 33456778899999999999999999999999998743
No 263
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=59.92 E-value=22 Score=33.01 Aligned_cols=48 Identities=13% Similarity=-0.030 Sum_probs=38.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|++||.+-+..++..
T Consensus 118 ~L~~~~r~v~~L~~~eg~s~~EIA~~l~---is~~tV~~~l~ra~~~~~~~ 165 (168)
T PRK12525 118 GLSGKARAAFLMSQLEGLTYVEIGERLG---VSLSRIHQYMVEAFKCCYQG 165 (168)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHh
Confidence 4778888888886556666899999999 99999999998877766543
No 264
>PRK04128 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=59.87 E-value=41 Score=33.72 Aligned_cols=66 Identities=15% Similarity=0.163 Sum_probs=49.4
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
++.|+++.+++ ..-.+|++|+.--+ +.|++ .+.+..+++|||.--+-.+.+.+.++.+.|+++.+.
T Consensus 144 ~~~~~~~~~~~-~~~~ii~t~i~~dGt~~G~d---~l~~~~~~~pviasGGv~~~~Dl~~l~~~g~~gviv 210 (228)
T PRK04128 144 KVEDAYEMLKN-YVNRFIYTSIERDGTLTGIE---EIERFWGDEEFIYAGGVSSAEDVKKLAEIGFSGVII 210 (228)
T ss_pred CHHHHHHHHHH-HhCEEEEEeccchhcccCHH---HHHHhcCCCCEEEECCCCCHHHHHHHHHCCCCEEEE
Confidence 45677777765 33478999997765 57777 444444579999988888888888888999998765
No 265
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=59.49 E-value=9.4 Score=34.54 Aligned_cols=48 Identities=25% Similarity=0.289 Sum_probs=36.8
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
|+++..+++...-++....++|++.|+ ++..+|.+++.+.|..|++..
T Consensus 106 L~~~~r~i~~l~~~~g~s~~eIA~~lg---is~~tv~~~l~Ra~~~Lr~~l 153 (154)
T TIGR02950 106 LPENYRTVLILREFKEFSYKEIAELLN---LSLAKVKSNLFRARKELKKLL 153 (154)
T ss_pred CCHhheeeeeehhhccCcHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHh
Confidence 555555666544334555899999999 899999999999999888753
No 266
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=59.46 E-value=1e+02 Score=29.17 Aligned_cols=87 Identities=11% Similarity=-0.008 Sum_probs=54.3
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEE-EEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFTHLPVM-VMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p~ipVI-VLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
..+++|+++..-+ ...|+|.+-..-.. ...-++++.+++...+ .|+ +.-+.-..+...+..+.|++.++.--...
T Consensus 49 ~~tp~e~v~aA~~-~dv~vIgvSsl~g~h~~l~~~lve~lre~G~~-~i~v~~GGvip~~d~~~l~~~G~~~if~pgt~~ 126 (143)
T COG2185 49 FQTPEEAVRAAVE-EDVDVIGVSSLDGGHLTLVPGLVEALREAGVE-DILVVVGGVIPPGDYQELKEMGVDRIFGPGTPI 126 (143)
T ss_pred cCCHHHHHHHHHh-cCCCEEEEEeccchHHHHHHHHHHHHHHhCCc-ceEEeecCccCchhHHHHHHhCcceeeCCCCCH
Confidence 3578888887755 57888776543222 2233456666665543 333 45555555556667789999999876777
Q ss_pred HHHHHHHHHHHH
Q 043479 80 DDLKNVWQYAMT 91 (534)
Q Consensus 80 eeL~~aI~~aL~ 91 (534)
.+....+...+.
T Consensus 127 ~~~~~~v~~~l~ 138 (143)
T COG2185 127 EEALSDLLTRLG 138 (143)
T ss_pred HHHHHHHHHHHH
Confidence 776666655543
No 267
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=59.33 E-value=11 Score=35.87 Aligned_cols=51 Identities=6% Similarity=-0.098 Sum_probs=37.8
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
|+.+..+++...-.+....++|++.|+ +|..+|++++.+-|..|++.....
T Consensus 135 L~~~~r~v~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Ra~~~Lr~~l~~~ 185 (188)
T PRK09640 135 VNPIDREILVLRFVAELEFQEIADIMH---MGLSATKMRYKRALDKLREKFAGL 185 (188)
T ss_pred cChhheeeeeeHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555443334455799999999 899999999999999888876554
No 268
>PRK07807 inosine 5-monophosphate dehydrogenase; Validated
Probab=59.23 E-value=32 Score=38.41 Aligned_cols=65 Identities=9% Similarity=0.095 Sum_probs=47.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCCC-CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 7 VEALATVRIQRDIDLVVTDLHMP-EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mP-dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
.+.++.+.+ ...|+|++|.... ...-++++++|++.+|+++||. ....+.+....++++||+.+-
T Consensus 229 ~~~a~~Lv~-aGvd~i~~D~a~~~~~~~~~~i~~ik~~~p~~~v~a-gnv~t~~~a~~l~~aGad~v~ 294 (479)
T PRK07807 229 AAKARALLE-AGVDVLVVDTAHGHQEKMLEALRAVRALDPGVPIVA-GNVVTAEGTRDLVEAGADIVK 294 (479)
T ss_pred HHHHHHHHH-hCCCEEEEeccCCccHHHHHHHHHHHHHCCCCeEEe-eccCCHHHHHHHHHcCCCEEE
Confidence 344444444 5689999998654 4567789999999998876553 355567788889999999874
No 269
>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=59.17 E-value=28 Score=32.55 Aligned_cols=46 Identities=17% Similarity=0.174 Sum_probs=39.6
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKR 216 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr 216 (534)
-|+++..+++..+. .....++|++.|+ +|+.+|+.++.+.+..|++
T Consensus 6 ~Lte~qr~VL~Lr~-~GlTq~EIAe~Lg---iS~stV~~~e~ra~kkLr~ 51 (137)
T TIGR00721 6 FLTERQIKVLELRE-KGLSQKEIAKELK---TTRANVSAIEKRAMENIEK 51 (137)
T ss_pred CCCHHHHHHHHHHH-cCCCHHHHHHHHC---cCHHHHHHHHHhHHHHHHH
Confidence 47888889998874 4556899999999 9999999999998888875
No 270
>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=58.97 E-value=22 Score=36.62 Aligned_cols=53 Identities=26% Similarity=0.432 Sum_probs=40.3
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcEEEeCCCChHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAFYILKPLNPDDLKNVW 86 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~dyL~KP~s~eeL~~aI 86 (534)
+++++++|+..+++|+|+|+=... +....+|.++|++++|.-.+..++-....
T Consensus 75 ~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIipDLP~ee~~~~~ 133 (259)
T PF00290_consen 75 FELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLIIPDLPPEESEELR 133 (259)
T ss_dssp HHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEETTSBGGGHHHHH
T ss_pred HHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 577788887788999999986543 34677788999999999888877665443
No 271
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=58.93 E-value=15 Score=38.31 Aligned_cols=80 Identities=15% Similarity=0.082 Sum_probs=52.6
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh-----hcccCC----chhHhhhhhcc
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ-----GASAMG----KTLALRSSFAS 237 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~-----~~~~~~----~~~~lr~~~~s 237 (534)
.|+.+..+++...-.+....++|++.|+ ++..+|++||.+-|..|++...+ ...... .....-.++.+
T Consensus 153 ~Lp~~~R~v~~L~~~~g~s~~EIA~~lg---is~~tVk~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~~~v~~~~~A~~~ 229 (339)
T PRK08241 153 HLPPRQRAVLILRDVLGWSAAEVAELLD---TSVAAVNSALQRARATLAERGPSAADTLREPDDPEERALLARYVAAFEA 229 (339)
T ss_pred hCCHHHhhhhhhHHhhCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHhhcCCCcccccCCCCChHHHHHHHHHHHHHhc
Confidence 3666677777765555666899999999 99999999999999988873211 000100 11234456677
Q ss_pred cchHHHHHHhhh
Q 043479 238 GHVSMMLQEAHE 249 (534)
Q Consensus 238 g~~~~~~~~~~~ 249 (534)
|.+.-|+.-+.+
T Consensus 230 gD~~~l~~lla~ 241 (339)
T PRK08241 230 YDVDALVALLTE 241 (339)
T ss_pred CCHHHHHHHhcC
Confidence 776666655544
No 272
>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase. at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin. In these species, the enzyme is viewed as a lyase rather than a synthase and is called D-arabino 3-hexulose 6-phosphate formaldehyde lyase. Note that there is some overlap in specificity with the Escherichia coli enzyme 3-keto-L-gulonate 6-phosphate decarboxylase.
Probab=58.89 E-value=51 Score=31.75 Aligned_cols=85 Identities=21% Similarity=0.187 Sum_probs=54.0
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCC--CCCCCHHHHHHHHHhhCCCCcEEEEe--cCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLH--MPEMNGIELQKEINEEFTHLPVMVMS--SDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~--mPdmdGleLL~~Lr~~~p~ipVIVLS--s~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.+++++.++. ....+-++.+. +-...|.+.++.|++.+++..+++=+ .......+..+.++||+.++.-....
T Consensus 9 ~~~~~a~~~~~~-l~~~v~~iev~~~l~~~~g~~~i~~l~~~~~~~~i~~d~k~~d~~~~~~~~~~~~Gad~i~vh~~~~ 87 (206)
T TIGR03128 9 LDIEEALELAEK-VADYVDIIEIGTPLIKNEGIEAVKEMKEAFPDRKVLADLKTMDAGEYEAEQAFAAGADIVTVLGVAD 87 (206)
T ss_pred CCHHHHHHHHHH-cccCeeEEEeCCHHHHHhCHHHHHHHHHHCCCCEEEEEEeeccchHHHHHHHHHcCCCEEEEeccCC
Confidence 467888888876 35667677775 44456889999999887765555211 12222347788999999776544433
Q ss_pred -HHHHHHHHHH
Q 043479 80 -DDLKNVWQYA 89 (534)
Q Consensus 80 -eeL~~aI~~a 89 (534)
..+.+.++.+
T Consensus 88 ~~~~~~~i~~~ 98 (206)
T TIGR03128 88 DATIKGAVKAA 98 (206)
T ss_pred HHHHHHHHHHH
Confidence 2344555444
No 273
>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=58.72 E-value=71 Score=32.74 Aligned_cols=74 Identities=16% Similarity=0.173 Sum_probs=47.0
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCC----CC---CCHHHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcE
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHM----PE---MNGIELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAF 71 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~m----Pd---mdGleLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~d 71 (534)
+...|++.++.....+|+|+..-. |. .-.+..+..+++.+ ++||++-+++.. ......|..+||++
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 EWLYAAEYILSSGNGNVILCERGIRTFEKATRNTLDLSAVPVLKKET-HLPIIVDPSHAAGRRDLVIPLAKAAIAAGADG 225 (260)
T ss_pred HHHHHHHHHHHcCCCcEEEEECCCCCCCCCCcCCcCHHHHHHHHHhh-CCCEEEcCCCCCCccchHHHHHHHHHHcCCCE
Confidence 345567777654556899998622 21 22455666777655 589887565532 34556788999998
Q ss_pred -EEeCCCCh
Q 043479 72 -YILKPLNP 79 (534)
Q Consensus 72 -yL~KP~s~ 79 (534)
+|.|-+++
T Consensus 226 l~iE~H~t~ 234 (260)
T TIGR01361 226 LMIEVHPDP 234 (260)
T ss_pred EEEEeCCCc
Confidence 66775544
No 274
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=58.46 E-value=23 Score=32.51 Aligned_cols=47 Identities=15% Similarity=0.029 Sum_probs=38.1
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lk 215 (534)
..|+++..+++...-.+...-++|++.|+ ++..+|+++|.+-+..++
T Consensus 112 ~~L~~~~r~v~~L~~~~g~s~~EIA~~l~---is~~tV~~~l~ra~~~~~ 158 (161)
T PRK12528 112 DGLPPLVKRAFLLAQVDGLGYGEIATELG---ISLATVKRYLNKAAMRCY 158 (161)
T ss_pred HHCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHH
Confidence 45778888888776555666899999999 999999999998776554
No 275
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=58.43 E-value=24 Score=35.41 Aligned_cols=50 Identities=20% Similarity=0.168 Sum_probs=41.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|.++..+++...-.+...-++|++.|+ +|..+|+.++.+-|..|++...
T Consensus 201 ~L~~~~r~vl~l~~~~~~s~~EIA~~lg---is~~tV~~~~~ra~~~Lr~~l~ 250 (251)
T PRK07670 201 QLSEKEQLVISLFYKEELTLTEIGQVLN---LSTSRISQIHSKALFKLKKLLE 250 (251)
T ss_pred cCCHHHHHHHHHHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHhh
Confidence 3777888888876556666899999999 9999999999998888877543
No 276
>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=58.41 E-value=1e+02 Score=29.40 Aligned_cols=79 Identities=19% Similarity=0.329 Sum_probs=48.3
Q ss_pred HHHHHHHhcCCceEEEEe---CCC-CC-CCHHHHHHHHHhhCCCCcEEE-EecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 8 EALATVRIQRDIDLVVTD---LHM-PE-MNGIELQKEINEEFTHLPVMV-MSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLD---i~m-Pd-mdGleLL~~Lr~~~p~ipVIV-LSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
+.++.+.+ ...|.|=+| -.. +. .-+++.+++|++. +..|+.+ +...+....+..+.+.|+++++......++
T Consensus 15 ~~~~~~~~-~g~d~i~~~~~Dg~~~~~~~~~~~~v~~i~~~-~~~~v~v~lm~~~~~~~~~~~~~~gadgv~vh~~~~~~ 92 (210)
T TIGR01163 15 EEVKAVEE-AGADWIHVDVMDGHFVPNLTFGPPVLEALRKY-TDLPIDVHLMVENPDRYIEDFAEAGADIITVHPEASEH 92 (210)
T ss_pred HHHHHHHH-cCCCEEEEcCCCCCCCCCcccCHHHHHHHHhc-CCCcEEEEeeeCCHHHHHHHHHHcCCCEEEEccCCchh
Confidence 44555554 445555444 222 33 3578899999864 4567532 444455567778889999998876655555
Q ss_pred HHHHHHH
Q 043479 82 LKNVWQY 88 (534)
Q Consensus 82 L~~aI~~ 88 (534)
....++.
T Consensus 93 ~~~~~~~ 99 (210)
T TIGR01163 93 IHRLLQL 99 (210)
T ss_pred HHHHHHH
Confidence 5555533
No 277
>PRK15400 lysine decarboxylase CadA; Provisional
Probab=58.35 E-value=40 Score=39.55 Aligned_cols=88 Identities=15% Similarity=0.091 Sum_probs=56.8
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCC-ChH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPL-NPD 80 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~-s~e 80 (534)
.+.+..+++..++.....+.|++|+.. . ..++++.+++...++||+++........+-...-.-+++|+..-. +.+
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~Pv~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 111 (714)
T PRK15400 35 YPNDRDDLLKLIENNARLCGVIFDWDK--Y-NLELCEEISKMNENLPLYAFANTYSTLDVSLNDLRLQVSFFEYALGAAD 111 (714)
T ss_pred EeCCHHHHHHHHhcccceeEEEEecch--h-hHHHHHHHHHhCCCCCEEEEccccccccCChHHhhhccceeeeccCCHH
Confidence 466788888888754678899999643 2 255899999998999999987754333222222233566665432 355
Q ss_pred HHHHHHHHHHHH
Q 043479 81 DLKNVWQYAMTY 92 (534)
Q Consensus 81 eL~~aI~~aL~~ 92 (534)
.+...|.++.+.
T Consensus 112 ~~a~~i~~~~~~ 123 (714)
T PRK15400 112 DIANKIKQTTDE 123 (714)
T ss_pred HHHHHHHHHHHH
Confidence 555556655544
No 278
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=58.14 E-value=1.1e+02 Score=30.58 Aligned_cols=79 Identities=15% Similarity=0.245 Sum_probs=51.9
Q ss_pred HHHHHHHHHhcCCce-EEEEeCCC---CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHc-CCcEEEe------
Q 043479 6 PVEALATVRIQRDID-LVVTDLHM---PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALAS-GVAFYIL------ 74 (534)
Q Consensus 6 ~~EALe~L~~~~~pD-LVLLDi~m---PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~a-GA~dyL~------ 74 (534)
..+..+.+.+ ..++ +++.|+.- ...-.+++++++++.. .+|||+-.+..+.+.+.++++. ||++.+.
T Consensus 155 ~~~~~~~~~~-~g~~~ii~~~i~~~g~~~g~d~~~i~~~~~~~-~ipvia~GGv~s~~d~~~~~~~~G~~gvivg~al~~ 232 (253)
T PRK02083 155 AVEWAKEVEE-LGAGEILLTSMDRDGTKNGYDLELTRAVSDAV-NVPVIASGGAGNLEHFVEAFTEGGADAALAASIFHF 232 (253)
T ss_pred HHHHHHHHHH-cCCCEEEEcCCcCCCCCCCcCHHHHHHHHhhC-CCCEEEECCCCCHHHHHHHHHhCCccEEeEhHHHHc
Confidence 3455555554 4565 66756542 1222367888888765 4899998888888888888875 9988876
Q ss_pred CCCChHHHHHHH
Q 043479 75 KPLNPDDLKNVW 86 (534)
Q Consensus 75 KP~s~eeL~~aI 86 (534)
.-++.++++..+
T Consensus 233 ~~~~~~~~~~~~ 244 (253)
T PRK02083 233 GEITIGELKAYL 244 (253)
T ss_pred CCCCHHHHHHHH
Confidence 335555554444
No 279
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=58.13 E-value=25 Score=30.63 Aligned_cols=48 Identities=23% Similarity=0.228 Sum_probs=36.7
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
.|+++..+++...-......++|++.|+ +++.+|..++.+.+..+++.
T Consensus 110 ~L~~~~~~ii~~~~~~g~s~~eIA~~l~---~s~~~v~~~~~~~~~kl~~~ 157 (158)
T TIGR02937 110 KLPEREREVLVLRYLEGLSYKEIAEILG---ISVGTVKRRLKRARKKLREL 157 (158)
T ss_pred hCCHHHHHHHhhHHhcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHhh
Confidence 3667777777665334555899999999 89999999999988777653
No 280
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=57.94 E-value=25 Score=33.71 Aligned_cols=48 Identities=21% Similarity=0.272 Sum_probs=39.1
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
+.++..++++..-.+....++|++.|+ +|..+|...|...|..+++..
T Consensus 136 l~~~~~~~v~l~~~~Gls~~EIA~~lg---iS~~tV~r~l~~aR~~l~~~l 183 (185)
T PF07638_consen 136 LDPRQRRVVELRFFEGLSVEEIAERLG---ISERTVRRRLRRARAWLRREL 183 (185)
T ss_pred cCHHHHHHHHHHHHCCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHh
Confidence 556667777776555667899999998 999999999999998887754
No 281
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=57.92 E-value=1.2e+02 Score=30.58 Aligned_cols=79 Identities=15% Similarity=0.238 Sum_probs=50.9
Q ss_pred HHHHHHHHHhcCCceEEEE-eCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcC-CcEEEe------
Q 043479 6 PVEALATVRIQRDIDLVVT-DLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASG-VAFYIL------ 74 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLL-Di~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aG-A~dyL~------ 74 (534)
..+..+.+.+ ..+|.|++ |+.--+ .-.+++++++++.. .+|||...+..+.+.+.++++.| +++.+.
T Consensus 157 ~~~~~~~l~~-~G~~~iivt~i~~~g~~~g~~~~~~~~i~~~~-~ipvia~GGi~s~~di~~~~~~g~~dgv~~g~a~~~ 234 (254)
T TIGR00735 157 AVEWAKEVEK-LGAGEILLTSMDKDGTKSGYDLELTKAVSEAV-KIPVIASGGAGKPEHFYEAFTKGKADAALAASVFHY 234 (254)
T ss_pred HHHHHHHHHH-cCCCEEEEeCcCcccCCCCCCHHHHHHHHHhC-CCCEEEeCCCCCHHHHHHHHHcCCcceeeEhHHHhC
Confidence 4455556655 56775444 432211 12367888888765 59999998899999999999988 888543
Q ss_pred CCCChHHHHHHH
Q 043479 75 KPLNPDDLKNVW 86 (534)
Q Consensus 75 KP~s~eeL~~aI 86 (534)
+-++.+++++.+
T Consensus 235 ~~~~~~~~~~~~ 246 (254)
T TIGR00735 235 REITIGEVKEYL 246 (254)
T ss_pred CCCCHHHHHHHH
Confidence 334555544333
No 282
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=57.72 E-value=30 Score=34.27 Aligned_cols=51 Identities=14% Similarity=0.051 Sum_probs=41.4
Q ss_pred hhhHHHHHHHHHhc----cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIG----LEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LG----lekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|+++..+++...- .+....++|++.|+ +|..+|+.|+.+-+..|++...+
T Consensus 175 ~Lp~~~R~i~~l~y~~~~~e~~S~~EIA~~lg---is~~tV~~~~~rA~~kLr~~l~~ 229 (233)
T PRK05803 175 ILDEREKEVIEMRYGLGNGKEKTQREIAKALG---ISRSYVSRIEKRALKKLFKELYR 229 (233)
T ss_pred hCCHHHHHHHHHHhCCCCCCCcCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 37788888888842 45666899999999 99999999999888888877654
No 283
>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]
Probab=57.59 E-value=61 Score=33.23 Aligned_cols=75 Identities=11% Similarity=0.152 Sum_probs=55.0
Q ss_pred HHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC-hHHHHHHH
Q 043479 10 LATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN-PDDLKNVW 86 (534)
Q Consensus 10 Le~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s-~eeL~~aI 86 (534)
.+.+.. ..||-+++|.+....|.-.++..|+.. ++..|||=. ...+...+.++++.||..+|..=++ .++-+..+
T Consensus 31 ~Ei~A~-aGfDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvVR~-p~g~~~~Ikq~LD~GAqtlliPmV~s~eqAr~~V 108 (255)
T COG3836 31 AEILAT-AGFDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVVRP-PVGDPVMIKQLLDIGAQTLLIPMVDTAEQARQAV 108 (255)
T ss_pred HHHHHh-cCCCEEEecccccCccHHHHHHHHHHhhccCCCCeeeC-CCCCHHHHHHHHccccceeeeeccCCHHHHHHHH
Confidence 345544 679999999999888998999999864 444565543 4457788899999999999985554 44444444
No 284
>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=57.32 E-value=78 Score=30.88 Aligned_cols=70 Identities=6% Similarity=0.007 Sum_probs=48.8
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCC-C-CCCHHHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHM-P-EMNGIELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~m-P-dmdGleLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+.+|+.+..+ ..+|.+.+--.- . ....+++++++++.. .++|||...+-.+.+.+.+++++||++++.
T Consensus 128 v~~~~e~~~~~~--~g~~~i~~t~~~~~~~~~~~~~~~~l~~~~~~~~pvia~gGI~s~edi~~~~~~Ga~gviv 200 (217)
T cd00331 128 VHDEEELERALA--LGAKIIGINNRDLKTFEVDLNTTERLAPLIPKDVILVSESGISTPEDVKRLAEAGADAVLI 200 (217)
T ss_pred ECCHHHHHHHHH--cCCCEEEEeCCCccccCcCHHHHHHHHHhCCCCCEEEEEcCCCCHHHHHHHHHcCCCEEEE
Confidence 456666555544 457877654111 0 123457888888765 468999999998989999999999999864
No 285
>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=57.15 E-value=79 Score=32.52 Aligned_cols=61 Identities=5% Similarity=0.055 Sum_probs=46.3
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE------EEeCCCChHHHHHHHHHHHHHhhh
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF------YILKPLNPDDLKNVWQYAMTYKKA 95 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d------yL~KP~s~eeL~~aI~~aL~~k~~ 95 (534)
++.+.++++.. ++|||....-.+.+.+.+++..||+. ++.+|.-..++.+-+.+.+..+-.
T Consensus 223 l~~v~~i~~~~-~ipvi~~GGI~s~~da~~~l~~GAd~V~igr~~l~~p~~~~~i~~~l~~~~~~~g~ 289 (300)
T TIGR01037 223 LRMVYDVYKMV-DIPIIGVGGITSFEDALEFLMAGASAVQVGTAVYYRGFAFKKIIEGLIAFLKAEGF 289 (300)
T ss_pred HHHHHHHHhcC-CCCEEEECCCCCHHHHHHHHHcCCCceeecHHHhcCchHHHHHHHHHHHHHHHcCC
Confidence 36677777654 48999999999999999999999887 466786667777777777665543
No 286
>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=56.08 E-value=23 Score=30.59 Aligned_cols=47 Identities=17% Similarity=0.306 Sum_probs=35.2
Q ss_pred CCcEEEEecCCC--HHHHHHHHHcCCcEEEeCCC--ChHHHHHHHHHHHHH
Q 043479 46 HLPVMVMSSDDR--ESVIMKALASGVAFYILKPL--NPDDLKNVWQYAMTY 92 (534)
Q Consensus 46 ~ipVIVLSs~~d--~~~~~~AL~aGA~dyL~KP~--s~eeL~~aI~~aL~~ 92 (534)
++-+++++.... .+.+..+++.|..-|+.||+ +.+++.+.++.+-+.
T Consensus 62 ~~D~V~I~tp~~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~~ 112 (120)
T PF01408_consen 62 DVDAVIIATPPSSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKEK 112 (120)
T ss_dssp TESEEEEESSGGGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHHH
T ss_pred cCCEEEEecCCcchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHHh
Confidence 355555555543 45788899999999999998 788888888776544
No 287
>COG0269 SgbH 3-hexulose-6-phosphate synthase and related proteins [Carbohydrate transport and metabolism]
Probab=55.39 E-value=78 Score=31.89 Aligned_cols=88 Identities=15% Similarity=0.231 Sum_probs=61.8
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEEE--ecCCCHHHHHHHHHcCCcEEEe-CCCC
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP--EMNGIELQKEINEEFTHLPVMVM--SSDDRESVIMKALASGVAFYIL-KPLN 78 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP--dmdGleLL~~Lr~~~p~ipVIVL--Ss~~d~~~~~~AL~aGA~dyL~-KP~s 78 (534)
.+.++|++.+++-... +.++++-.| -..|++.++.||+.+|+..|+.= |.....-....++++||+-.-. --.+
T Consensus 13 ~~l~~Ai~~a~~v~~~-~diiEvGTpLik~eG~~aV~~lr~~~pd~~IvAD~Kt~D~G~~e~~ma~~aGAd~~tV~g~A~ 91 (217)
T COG0269 13 LDLEEAIEIAEEVADY-VDIIEVGTPLIKAEGMRAVRALRELFPDKIIVADLKTADAGAIEARMAFEAGADWVTVLGAAD 91 (217)
T ss_pred cCHHHHHHHHHHhhhc-ceEEEeCcHHHHHhhHHHHHHHHHHCCCCeEEeeeeecchhHHHHHHHHHcCCCEEEEEecCC
Confidence 4677888888763233 677777666 46789999999999998777643 3444445677899999988743 3345
Q ss_pred hHHHHHHHHHHHHH
Q 043479 79 PDDLKNVWQYAMTY 92 (534)
Q Consensus 79 ~eeL~~aI~~aL~~ 92 (534)
.+.+..+++.+-..
T Consensus 92 ~~TI~~~i~~A~~~ 105 (217)
T COG0269 92 DATIKKAIKVAKEY 105 (217)
T ss_pred HHHHHHHHHHHHHc
Confidence 67777777776543
No 288
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=54.72 E-value=28 Score=32.82 Aligned_cols=47 Identities=17% Similarity=0.166 Sum_probs=38.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKR 216 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr 216 (534)
.|+++..+++...-++.-.-++|++.|+ ++..+|++||.+-+..+..
T Consensus 127 ~Lp~~~R~v~~L~~~~g~s~~EIA~~lg---is~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 127 TLRPRVKQAFLMATLDGMKQKDIAQALD---IALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHH
Confidence 4788888888886666666899999999 9999999999887665543
No 289
>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=54.36 E-value=55 Score=32.63 Aligned_cols=69 Identities=17% Similarity=0.226 Sum_probs=50.8
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-CC--HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-MN--GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-md--GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+..++++.+.+..--.+|++|+.--+ +. .+++++++++.. ++|||+--+-.+.+.+.++.+.|+++.+.
T Consensus 148 ~~~~~~~~~~~~g~~~ii~tdi~~dGt~~G~d~~~~~~l~~~~-~~~viasGGv~~~~Dl~~l~~~G~~gviv 219 (229)
T PF00977_consen 148 DLEEFAKRLEELGAGEIILTDIDRDGTMQGPDLELLKQLAEAV-NIPVIASGGVRSLEDLRELKKAGIDGVIV 219 (229)
T ss_dssp EHHHHHHHHHHTT-SEEEEEETTTTTTSSS--HHHHHHHHHHH-SSEEEEESS--SHHHHHHHHHTTECEEEE
T ss_pred CHHHHHHHHHhcCCcEEEEeeccccCCcCCCCHHHHHHHHHHc-CCCEEEecCCCCHHHHHHHHHCCCcEEEE
Confidence 56777777766333469999997654 33 357788888766 69999888888999999999999998875
No 290
>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=54.33 E-value=62 Score=31.99 Aligned_cols=69 Identities=20% Similarity=0.288 Sum_probs=45.9
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCC------CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLH------MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~------mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.+.+|++...+. .+|+|=.-+. ..+...++|+++|.+. .+|||.=-...+++.+.+++++||+..++=
T Consensus 99 ist~ee~~~A~~~--G~D~I~TTLsGYT~~t~~~~pD~~lv~~l~~~--~~pvIaEGri~tpe~a~~al~~GA~aVVVG 173 (192)
T PF04131_consen 99 ISTLEEAINAAEL--GFDIIGTTLSGYTPYTKGDGPDFELVRELVQA--DVPVIAEGRIHTPEQAAKALELGAHAVVVG 173 (192)
T ss_dssp -SSHHHHHHHHHT--T-SEEE-TTTTSSTTSTTSSHHHHHHHHHHHT--TSEEEEESS--SHHHHHHHHHTT-SEEEE-
T ss_pred cCCHHHHHHHHHc--CCCEEEcccccCCCCCCCCCCCHHHHHHHHhC--CCcEeecCCCCCHHHHHHHHhcCCeEEEEC
Confidence 3566677766653 4777655431 1134578999999875 689887777788999999999999999864
No 291
>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=54.11 E-value=86 Score=32.65 Aligned_cols=53 Identities=11% Similarity=0.179 Sum_probs=43.0
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
+.++.+|+..|..+|.| ...+.+.+.+++++|++-.+..-++++++.++++.+
T Consensus 177 ~av~~~r~~~~~~kIeV--Ev~tleea~ea~~~GaDiI~lDn~~~e~l~~~v~~l 229 (277)
T TIGR01334 177 GAIGRLKQTAPERKITV--EADTIEQALTVLQASPDILQLDKFTPQQLHHLHERL 229 (277)
T ss_pred HHHHHHHHhCCCCCEEE--ECCCHHHHHHHHHcCcCEEEECCCCHHHHHHHHHHH
Confidence 56777777777766543 334778889999999999999999999999999865
No 292
>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=54.05 E-value=88 Score=31.15 Aligned_cols=69 Identities=22% Similarity=0.168 Sum_probs=50.9
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-CC--HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-MN--GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-md--GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+..+..+.+.. ....+|++|+.--+ +. .+++++++.+.. .+|||+--+-.+.+.+.++.+.||++.+.-
T Consensus 142 ~~~~~~~~~~~-~g~~ii~tdI~~dGt~~G~d~eli~~i~~~~-~~pvia~GGi~s~ed~~~l~~~Ga~~vivg 213 (221)
T TIGR00734 142 SLEEVRDFLNS-FDYGLIVLDIHSVGTMKGPNLELLTKTLELS-EHPVMLGGGISGVEDLELLKEMGVSAVLVA 213 (221)
T ss_pred cHHHHHHHHHh-cCCEEEEEECCccccCCCCCHHHHHHHHhhC-CCCEEEeCCCCCHHHHHHHHHCCCCEEEEh
Confidence 34555555554 33479999997643 22 478899998764 589998888888888888889999998763
No 293
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=53.86 E-value=58 Score=31.54 Aligned_cols=80 Identities=11% Similarity=0.111 Sum_probs=51.1
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHH
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDL 82 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL 82 (534)
..+.+++++.++...+-.+=++.+++...+..++++.+++..+.+.+=.-+-. ..+.+..|+++||++++.--++.+.+
T Consensus 20 ~~~~~~~~~~~~~~~~~Gv~~vqlr~k~~~~~e~~~~~~~~~~~~~~g~gtvl-~~d~~~~A~~~gAdgv~~p~~~~~~~ 98 (187)
T PRK07455 20 APDLELGLQMAEAVAAGGMRLIEITWNSDQPAELISQLREKLPECIIGTGTIL-TLEDLEEAIAAGAQFCFTPHVDPELI 98 (187)
T ss_pred cCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHHHHHHHHHhCCCcEEeEEEEE-cHHHHHHHHHcCCCEEECCCCCHHHH
Confidence 34667777666542222345566677788899999999887765432111221 23677889999999887765665544
Q ss_pred H
Q 043479 83 K 83 (534)
Q Consensus 83 ~ 83 (534)
.
T Consensus 99 ~ 99 (187)
T PRK07455 99 E 99 (187)
T ss_pred H
Confidence 3
No 294
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=53.80 E-value=23 Score=37.37 Aligned_cols=54 Identities=20% Similarity=0.303 Sum_probs=44.1
Q ss_pred CCchhhHHHHHHHHH---h-ccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 164 WTDSLHNRFLQAIRH---I-GLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 164 Wt~eLh~RFleaLe~---L-GlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
|-..|.++...++.. | ..+...-++|++.|+ +|+.+|++++.+-+..||+....
T Consensus 259 aL~~L~~~~R~vl~lrygL~~~e~~s~~EIA~~Lg---is~~tV~~~~~rAl~kLr~~l~~ 316 (325)
T PRK05657 259 WLFELNDKQREVLARRFGLLGYEAATLEDVAREIG---LTRERVRQIQVEALRRLREILQT 316 (325)
T ss_pred HHHcCCHHHHHHHHHHhccCCCCCcCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHHh
Confidence 444588888889884 2 456677899999999 99999999999999988887654
No 295
>PRK06106 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=53.36 E-value=80 Score=32.98 Aligned_cols=66 Identities=18% Similarity=0.132 Sum_probs=45.9
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+|+.+.++. .+|+|++|-.-| -++-+.+....... ++..|+--+.+.+.+..+.|++.+.
T Consensus 199 VEv~tleea~ea~~~--gaDiI~LDn~s~----e~l~~av~~~~~~~-~leaSGGI~~~ni~~yA~tGVD~Is 264 (281)
T PRK06106 199 VEVDTLDQLEEALEL--GVDAVLLDNMTP----DTLREAVAIVAGRA-ITEASGRITPETAPAIAASGVDLIS 264 (281)
T ss_pred EEeCCHHHHHHHHHc--CCCEEEeCCCCH----HHHHHHHHHhCCCc-eEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467899999999864 699999994333 33333333222223 4778888888888888899988653
No 296
>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]
Probab=53.35 E-value=45 Score=34.81 Aligned_cols=66 Identities=20% Similarity=0.194 Sum_probs=44.6
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHh-hCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINE-EFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~-~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
|++.+.+|+.+.++. .+|+|++|=.-| -++-+.+.. ....-.++=.|+.-+.+.+......|++-+
T Consensus 193 VEvesle~~~eAl~a--gaDiImLDNm~~----e~~~~av~~l~~~~~~~lEaSGgIt~~ni~~yA~tGVD~I 259 (280)
T COG0157 193 VEVESLEEAEEALEA--GADIIMLDNMSP----EELKEAVKLLGLAGRALLEASGGITLENIREYAETGVDVI 259 (280)
T ss_pred EEcCCHHHHHHHHHc--CCCEEEecCCCH----HHHHHHHHHhccCCceEEEEeCCCCHHHHHHHhhcCCCEE
Confidence 467899999999875 699999995433 233333322 122234566778888888888888888755
No 297
>PRK09191 two-component response regulator; Provisional
Probab=53.15 E-value=20 Score=35.13 Aligned_cols=51 Identities=18% Similarity=0.108 Sum_probs=41.9
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
..|.++..+++...-.+...-++|++.|+ ++..+|++++.+.|..+++...
T Consensus 87 ~~L~~~~r~v~~l~~~~~~s~~eIA~~l~---~s~~tV~~~l~ra~~~l~~~~~ 137 (261)
T PRK09191 87 AGLTPLPRQAFLLTALEGFSVEEAAEILG---VDPAEAEALLDDARAEIARQVA 137 (261)
T ss_pred HhCCHHHhHHHHHHHHhcCCHHHHHHHHC---CCHHHHHHHHHHHHHHHhccCC
Confidence 34777888888877666777899999999 9999999999999888876543
No 298
>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=52.89 E-value=86 Score=31.14 Aligned_cols=69 Identities=19% Similarity=0.238 Sum_probs=51.7
Q ss_pred CHHHHHHHHHhcCCce-EEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRDID-LVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~pD-LVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
++.+..+.+.+ ..+| |+++|+.-.+ ..-+++++++++.. .+||++--+-.+.+.+.+++..|++..+.=
T Consensus 28 d~~~~a~~~~~-~G~~~i~i~d~~~~~~~~~~~~~~i~~i~~~~-~~pv~~~GGI~s~~d~~~~l~~G~~~v~ig 100 (243)
T cd04731 28 DPVELAKRYNE-QGADELVFLDITASSEGRETMLDVVERVAEEV-FIPLTVGGGIRSLEDARRLLRAGADKVSIN 100 (243)
T ss_pred CHHHHHHHHHH-CCCCEEEEEcCCcccccCcccHHHHHHHHHhC-CCCEEEeCCCCCHHHHHHHHHcCCceEEEC
Confidence 67777777776 4565 8888887421 23467888888765 489999888888999999999998877643
No 299
>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=52.70 E-value=60 Score=30.88 Aligned_cols=69 Identities=17% Similarity=0.145 Sum_probs=48.9
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
++.+.+|+.+..+ ..+|.|++.-..|. .-|++.++++.+..+ +||+.+-+-. .+.+..+.+.|++++-.
T Consensus 101 S~h~~~e~~~a~~--~g~dYv~~gpvf~T~sk~~~~~~g~~~l~~~~~~~~-~pv~AlGGI~-~~~i~~l~~~Ga~gvAv 176 (180)
T PF02581_consen 101 SCHSLEEAREAEE--LGADYVFLGPVFPTSSKPGAPPLGLDGLREIARASP-IPVYALGGIT-PENIPELREAGADGVAV 176 (180)
T ss_dssp EESSHHHHHHHHH--CTTSEEEEETSS--SSSSS-TTCHHHHHHHHHHHTS-SCEEEESS---TTTHHHHHHTT-SEEEE
T ss_pred ecCcHHHHHHhhh--cCCCEEEECCccCCCCCccccccCHHHHHHHHHhCC-CCEEEEcCCC-HHHHHHHHHcCCCEEEE
Confidence 4678888666554 46899999876553 348999999988776 9999988764 55566888999998743
No 300
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=52.65 E-value=1.8e+02 Score=30.02 Aligned_cols=68 Identities=18% Similarity=0.196 Sum_probs=41.0
Q ss_pred HHHHHHHHhcCCceEEEEeCCC---CCCC----HHHHHHHHHhhCCCCcEEEEecCCC------HHHHHHHHHcCCcEEE
Q 043479 7 VEALATVRIQRDIDLVVTDLHM---PEMN----GIELQKEINEEFTHLPVMVMSSDDR------ESVIMKALASGVAFYI 73 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~m---Pdmd----GleLL~~Lr~~~p~ipVIVLSs~~d------~~~~~~AL~aGA~dyL 73 (534)
..|.+.+......+++||..-. +.-. .+..+..+++.. ++||++-+++.. ......|+.+||++.+
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 LYAAEYIMSEGNENVVLCERGIRTFETYTRNTLDLAAVAVIKELS-HLPIIVDPSHATGRRELVIPMAKAAIAAGADGLM 229 (266)
T ss_pred HHHHHHHHhcCCCeEEEEECCCCCCCCCCHHHHHHHHHHHHHhcc-CCCEEEeCCCcccchhhHHHHHHHHHHcCCCEEE
Confidence 3455566544567999998733 2222 334455555444 589887566643 3456778899998754
Q ss_pred -eC
Q 043479 74 -LK 75 (534)
Q Consensus 74 -~K 75 (534)
.|
T Consensus 230 iE~ 232 (266)
T PRK13398 230 IEV 232 (266)
T ss_pred Eec
Confidence 44
No 301
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=52.24 E-value=34 Score=31.93 Aligned_cols=47 Identities=13% Similarity=0.040 Sum_probs=37.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKR 216 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr 216 (534)
.|..+..+++...-++...-++|++.|+ ++..+|++|+.+-+..++.
T Consensus 119 ~L~~~~r~i~~l~~~~g~s~~EIA~~lg---is~~tV~~~l~Ra~~~~~~ 165 (172)
T PRK09651 119 GLNGKTREAFLLSQLDGLTYSEIAHKLG---VSVSSVKKYVAKATEHCLL 165 (172)
T ss_pred hCCHHHhHHhhhhhccCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHH
Confidence 4677777887776555666899999999 9999999999887776554
No 302
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=52.24 E-value=34 Score=34.35 Aligned_cols=50 Identities=18% Similarity=0.094 Sum_probs=40.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|+.++.+-+..|++...
T Consensus 205 ~L~~~~r~vl~l~~~~g~s~~eIA~~l~---is~~tV~~~~~ra~~kLr~~l~ 254 (257)
T PRK08583 205 VLSDREKSIIQCTFIENLSQKETGERLG---ISQMHVSRLQRQAIKKLREAAF 254 (257)
T ss_pred hCCHHHHHHHHHHHhCCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHhc
Confidence 3778888888886445556899999999 9999999999988887776543
No 303
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=52.20 E-value=94 Score=31.71 Aligned_cols=70 Identities=11% Similarity=0.062 Sum_probs=50.0
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeC-C--CCCCCHHHHHHHHHhhCCC-CcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDL-H--MPEMNGIELQKEINEEFTH-LPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi-~--mPdmdGleLL~~Lr~~~p~-ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.+.+.+|+.+... ..+|+|-+.- + .-..+ ++.+.++....|. .++|..++-.+.+.+.+++++|+++++.
T Consensus 166 evh~~~E~~~A~~--~gadiIgin~rdl~~~~~d-~~~~~~l~~~~p~~~~vIaegGI~t~ed~~~~~~~Gad~vlV 239 (260)
T PRK00278 166 EVHDEEELERALK--LGAPLIGINNRNLKTFEVD-LETTERLAPLIPSDRLVVSESGIFTPEDLKRLAKAGADAVLV 239 (260)
T ss_pred EeCCHHHHHHHHH--cCCCEEEECCCCcccccCC-HHHHHHHHHhCCCCCEEEEEeCCCCHHHHHHHHHcCCCEEEE
Confidence 4667788766554 4688877542 1 11222 6777777776664 5888889998999999999999999864
No 304
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=51.85 E-value=1.7e+02 Score=31.11 Aligned_cols=49 Identities=16% Similarity=0.236 Sum_probs=34.5
Q ss_pred hhhHHHHHHHHHh--ccCCCcH-HHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHI--GLEKAVP-KKILEFMNVPGLTRENVASHLQKYRIFLK 215 (534)
Q Consensus 167 eLh~RFleaLe~L--GlekAvp-K~ILe~M~V~GLT~~tVaSHLQKyRl~lk 215 (534)
.|+.++.+++..+ ...+.+. .+|++.+--.+.+.++|..|+.+.|..++
T Consensus 306 ~Lt~~E~~lL~~L~~~~~~vvsr~~L~~~vw~~~~~~~~l~~~I~rLRkkl~ 357 (381)
T PRK07239 306 PLSPAPMALLRALAARPGRVVSREDLLAALPGGGTDEHAVETAVARLRTALG 357 (381)
T ss_pred EcCHHHHHHHHHHHhCCCceEeHHHHHHHhcCCCCCccHHHHHHHHHHHhcC
Confidence 4889999999998 3445554 45666553222368889999999888664
No 305
>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=51.77 E-value=75 Score=34.26 Aligned_cols=71 Identities=17% Similarity=0.308 Sum_probs=46.9
Q ss_pred ceEEEEeCCCCCCCHHH-HHHHHHhhCCCCcEEEEec-CCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHH
Q 043479 19 IDLVVTDLHMPEMNGIE-LQKEINEEFTHLPVMVMSS-DDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 19 pDLVLLDi~mPdmdGle-LL~~Lr~~~p~ipVIVLSs-~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~ 91 (534)
.|.+|++..-+..=-+| ++..+.. ....|+.... .++...+..+++.|+++.+.+|-++.++++....+-.
T Consensus 97 ~~~~iv~~~Dw~iIPlEnliA~~~~--~~~~i~a~v~~~~eA~~~~~~LE~G~dGVll~~~d~~ei~~~~~~~~~ 169 (354)
T PF01959_consen 97 ADYVIVEFRDWTIIPLENLIAALQG--SSTKIIAVVADAEEARVALEVLEKGVDGVLLDPDDPAEIKALVALLKE 169 (354)
T ss_pred CCeEEEEcCCCcEecHHHHHHHhcC--CCceEEEEeCCHHHHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhh
Confidence 57777766544433344 4444432 2355554443 3445567788999999999999999999988776654
No 306
>CHL00162 thiG thiamin biosynthesis protein G; Validated
Probab=51.75 E-value=68 Score=33.21 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=48.8
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE-----eCCCChHHHHHHHHHHHHHhh
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI-----LKPLNPDDLKNVWQYAMTYKK 94 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL-----~KP~s~eeL~~aI~~aL~~k~ 94 (534)
-..++.|++. +++|||+=.+-...+.+..+++.|+++.+ .|--++.++.++++.++.-.+
T Consensus 178 ~~~l~~i~e~-~~vpVivdAGIgt~sDa~~AmElGaDgVL~nSaIakA~dP~~mA~a~~~AV~AGR 242 (267)
T CHL00162 178 LLNLQIIIEN-AKIPVIIDAGIGTPSEASQAMELGASGVLLNTAVAQAKNPEQMAKAMKLAVQAGR 242 (267)
T ss_pred HHHHHHHHHc-CCCcEEEeCCcCCHHHHHHHHHcCCCEEeecceeecCCCHHHHHHHHHHHHHHHH
Confidence 3566777665 45999999999999999999999999985 577788999999988876543
No 307
>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=51.54 E-value=22 Score=23.21 Aligned_cols=9 Identities=33% Similarity=0.656 Sum_probs=4.2
Q ss_pred CceEEEEeC
Q 043479 18 DIDLVVTDL 26 (534)
Q Consensus 18 ~pDLVLLDi 26 (534)
.+|+|++|+
T Consensus 44 ~~~~vi~~~ 52 (55)
T smart00448 44 KPDLILLDI 52 (55)
T ss_pred CCCEEEEec
Confidence 344444444
No 308
>PF06073 DUF934: Bacterial protein of unknown function (DUF934); InterPro: IPR008318 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=51.30 E-value=1.6e+02 Score=26.55 Aligned_cols=70 Identities=13% Similarity=0.220 Sum_probs=49.4
Q ss_pred CceEEEEeCC-CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC-CChHHHHHHHH
Q 043479 18 DIDLVVTDLH-MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP-LNPDDLKNVWQ 87 (534)
Q Consensus 18 ~pDLVLLDi~-mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP-~s~eeL~~aI~ 87 (534)
..++|.++.- ..|.-|+...+.||+..--.--|-.++.--.+.+....+.|.+.|..+. .+++...+++.
T Consensus 19 ~l~lI~i~FP~F~DGRgfS~ArlLR~r~gy~GelRA~Gdvl~DQl~~l~R~GFdsf~l~~~~~~~~~~~~l~ 90 (110)
T PF06073_consen 19 RLPLIAIDFPKFTDGRGFSQARLLRERYGYTGELRAVGDVLRDQLFYLRRCGFDSFELREDQDPEDALAALS 90 (110)
T ss_pred CCCEEEEECCCcCCchHhHHHHHHHHHcCCCCcEEEeccchHHHHHHHHHcCCCEEEeCCCCCHHHHHHHHh
Confidence 4566666642 2367799999999976544555667777777888888999999998875 55555554443
No 309
>PRK07259 dihydroorotate dehydrogenase 1B; Reviewed
Probab=50.38 E-value=1.2e+02 Score=31.36 Aligned_cols=60 Identities=7% Similarity=0.150 Sum_probs=43.6
Q ss_pred HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE------EeCCCChHHHHHHHHHHHHHh
Q 043479 33 GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY------ILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 33 GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy------L~KP~s~eeL~~aI~~aL~~k 93 (534)
.++.++++++.. ++|||....-.+.+.+.+++.+||+.+ +..|.-+.++++-+.+.+..+
T Consensus 222 ~l~~v~~i~~~~-~ipvi~~GGI~~~~da~~~l~aGAd~V~igr~ll~~P~~~~~i~~~l~~~~~~~ 287 (301)
T PRK07259 222 ALRMVYQVYQAV-DIPIIGMGGISSAEDAIEFIMAGASAVQVGTANFYDPYAFPKIIEGLEAYLDKY 287 (301)
T ss_pred cHHHHHHHHHhC-CCCEEEECCCCCHHHHHHHHHcCCCceeEcHHHhcCcHHHHHHHHHHHHHHHHc
Confidence 367788887755 599999999999999999999998764 334555555665555555443
No 310
>KOG2550 consensus IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]
Probab=50.37 E-value=48 Score=36.52 Aligned_cols=66 Identities=18% Similarity=0.243 Sum_probs=47.0
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
+.++-++++.+ ...|+|++|..-.. .--+++++++++.+|++.||. ...-..+.+...+.+||++.
T Consensus 251 ~dK~rl~ll~~-aGvdvviLDSSqGnS~~qiemik~iK~~yP~l~Via-GNVVT~~qa~nLI~aGaDgL 317 (503)
T KOG2550|consen 251 DDKERLDLLVQ-AGVDVVILDSSQGNSIYQLEMIKYIKETYPDLQIIA-GNVVTKEQAANLIAAGADGL 317 (503)
T ss_pred chhHHHHHhhh-cCCcEEEEecCCCcchhHHHHHHHHHhhCCCceeec-cceeeHHHHHHHHHccCcee
Confidence 34556777766 67999999975432 335688999999999988762 22233456667788999875
No 311
>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]
Probab=50.30 E-value=64 Score=32.95 Aligned_cols=69 Identities=23% Similarity=0.295 Sum_probs=48.8
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCC----C---------CHHHHHHHHHhhCCCCcEEEEecCCCHH----HHHHHHHcC
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPE----M---------NGIELQKEINEEFTHLPVMVMSSDDRES----VIMKALASG 68 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPd----m---------dGleLL~~Lr~~~p~ipVIVLSs~~d~~----~~~~AL~aG 68 (534)
..+|++++.+ .+||.+++++-||- | ..+.+++..|+.+|. ||++=.++..-+ ....+..+|
T Consensus 168 e~kaIdiL~~-~~~DalVl~vliPtpGtkm~~~~pp~~eE~i~v~~~AR~~f~~-pv~iGCmrP~Ge~rvk~d~~av~~g 245 (275)
T COG1856 168 EFKAIDILVN-YEPDALVLVVLIPTPGTKMGNSPPPPVEEAIKVVKYARKKFPN-PVSIGCMRPRGEWRVKLDKEAVLAG 245 (275)
T ss_pred hHHHHHHHhc-CCCCeEEEEEEecCCchhccCCCCcCHHHHHHHHHHHHHhCCC-CeeEeecCcCchhHHHHHHHHHHcC
Confidence 4578999987 78999999998873 1 245677777888997 888777766543 334566677
Q ss_pred CcEEEeCCC
Q 043479 69 VAFYILKPL 77 (534)
Q Consensus 69 A~dyL~KP~ 77 (534)
++. |.+|.
T Consensus 246 Vd~-It~P~ 253 (275)
T COG1856 246 VDR-ITFPP 253 (275)
T ss_pred Cce-eecCC
Confidence 664 45553
No 312
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=50.15 E-value=1.7e+02 Score=29.22 Aligned_cols=67 Identities=22% Similarity=0.236 Sum_probs=52.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCC-------CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMP-------EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mP-------dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
++.+.+|+.+..+. .+|-|.+---.| ...|++.++++++... +|++.+-+- +.+.+...++.||++.
T Consensus 110 S~h~~eea~~A~~~--g~DYv~~GpifpT~tK~~~~~~G~~~l~~~~~~~~-iP~vAIGGi-~~~nv~~v~~~Ga~gV 183 (211)
T COG0352 110 STHDLEEALEAEEL--GADYVGLGPIFPTSTKPDAPPLGLEGLREIRELVN-IPVVAIGGI-NLENVPEVLEAGADGV 183 (211)
T ss_pred ecCCHHHHHHHHhc--CCCEEEECCcCCCCCCCCCCccCHHHHHHHHHhCC-CCEEEEcCC-CHHHHHHHHHhCCCeE
Confidence 45688888887764 499999876554 3568999999988765 898887765 5677889999999987
No 313
>TIGR02941 Sigma_B RNA polymerase sigma-B factor. This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus, Listeria and Bacillus.
Probab=50.04 E-value=39 Score=33.87 Aligned_cols=49 Identities=20% Similarity=0.070 Sum_probs=39.9
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|+.++.+-+..|++.+
T Consensus 205 ~L~~~~r~ii~l~~~~g~s~~eIA~~lg---is~~~V~~~~~ra~~~Lr~~~ 253 (255)
T TIGR02941 205 ILSEREKSIIHCTFEENLSQKETGERLG---ISQMHVSRLQRQAISKLKEAA 253 (255)
T ss_pred cCCHHHHHHHHHHHcCCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHh
Confidence 4788888888877556666899999999 899999999988888777643
No 314
>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=50.04 E-value=40 Score=29.78 Aligned_cols=69 Identities=12% Similarity=0.153 Sum_probs=42.5
Q ss_pred CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC--hHHHHHHHHHHHH
Q 043479 17 RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN--PDDLKNVWQYAMT 91 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s--~eeL~~aI~~aL~ 91 (534)
.....|++-.. +| ...+.+.+..|.+|||++|...... ..-.+-.|+..++.++.. .+++.......+.
T Consensus 15 ~~ak~Ivv~T~----sG-~ta~~isk~RP~~pIiavt~~~~~~-r~l~l~~GV~p~~~~~~~~~~~~~~~~a~~~~~ 85 (117)
T PF02887_consen 15 LNAKAIVVFTE----SG-RTARLISKYRPKVPIIAVTPNESVA-RQLSLYWGVYPVLIEEFDKDTEELIAEALEYAK 85 (117)
T ss_dssp HTESEEEEE-S----SS-HHHHHHHHT-TSSEEEEEESSHHHH-HHGGGSTTEEEEECSSHSHSHHHHHHHHHHHHH
T ss_pred cCCCEEEEECC----Cc-hHHHHHHhhCCCCeEEEEcCcHHHH-hhhhcccceEEEEeccccccHHHHHHHHHHHHH
Confidence 34566666432 33 4566777778999999999865432 223467899998877765 5555544444443
No 315
>smart00426 TEA TEA domain.
Probab=49.95 E-value=15 Score=30.40 Aligned_cols=17 Identities=18% Similarity=0.544 Sum_probs=16.1
Q ss_pred cCCchhhHHHHHHHHHh
Q 043479 163 AWTDSLHNRFLQAIRHI 179 (534)
Q Consensus 163 ~Wt~eLh~RFleaLe~L 179 (534)
.|.+++..-|+++++.+
T Consensus 5 vWp~~lE~Af~~aL~~~ 21 (68)
T smart00426 5 VWSPDIEQAFQEALAIY 21 (68)
T ss_pred cCcHHHHHHHHHHHHHc
Confidence 69999999999999998
No 316
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=49.89 E-value=71 Score=32.15 Aligned_cols=80 Identities=14% Similarity=0.077 Sum_probs=48.6
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh----CCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE----FTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~----~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
..+.++|++.++.-..--+=++++.+..-+.++.++.|++. +|++ +|=.-.--+.+.+..++++||.-++. |..
T Consensus 23 ~~~~~~a~~~~~al~~gGi~~iEiT~~tp~a~~~i~~l~~~~~~~~p~~-~vGaGTVl~~e~a~~a~~aGA~FiVs-P~~ 100 (222)
T PRK07114 23 HADVEVAKKVIKACYDGGARVFEFTNRGDFAHEVFAELVKYAAKELPGM-ILGVGSIVDAATAALYIQLGANFIVT-PLF 100 (222)
T ss_pred cCCHHHHHHHHHHHHHCCCCEEEEeCCCCcHHHHHHHHHHHHHhhCCCe-EEeeEeCcCHHHHHHHHHcCCCEEEC-CCC
Confidence 34667777665432112333556666666788988888643 3432 33344455778889999999985555 544
Q ss_pred hHHHHH
Q 043479 79 PDDLKN 84 (534)
Q Consensus 79 ~eeL~~ 84 (534)
..++.+
T Consensus 101 ~~~v~~ 106 (222)
T PRK07114 101 NPDIAK 106 (222)
T ss_pred CHHHHH
Confidence 444443
No 317
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=49.48 E-value=41 Score=34.02 Aligned_cols=50 Identities=16% Similarity=0.151 Sum_probs=41.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|.++..+++...-.+...-++|++.|+ +|..+|+.++.+-+..|++...
T Consensus 205 ~L~~~er~vi~l~y~e~~t~~EIA~~lg---is~~~V~~~~~ral~kLr~~l~ 254 (257)
T PRK05911 205 ALEEKERKVMALYYYEELVLKEIGKILG---VSESRVSQIHSKALLKLRATLS 254 (257)
T ss_pred cCCHHHHHHHHHHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHH
Confidence 4788888888887556666899999999 8999999999998888877654
No 318
>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=49.43 E-value=1.2e+02 Score=29.76 Aligned_cols=68 Identities=21% Similarity=0.160 Sum_probs=48.1
Q ss_pred CHHHHHHHHHhcCCce-EEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDID-LVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pD-LVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+..+.++.+.+ ..++ +++.|+..-+ .-.+++++++++.. .+||++-.+..+.+.+.++++.||++++.
T Consensus 147 ~~~~~~~~~~~-~ga~~iii~~~~~~g~~~g~~~~~i~~i~~~~-~ipvi~~GGi~~~~di~~~~~~Ga~gv~v 218 (234)
T cd04732 147 SLEELAKRFEE-LGVKAIIYTDISRDGTLSGPNFELYKELAAAT-GIPVIASGGVSSLDDIKALKELGVAGVIV 218 (234)
T ss_pred CHHHHHHHHHH-cCCCEEEEEeecCCCccCCCCHHHHHHHHHhc-CCCEEEecCCCCHHHHHHHHHCCCCEEEE
Confidence 45566666655 4455 5566664322 13368888888765 48999988888888889999999999865
No 319
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=48.83 E-value=40 Score=34.04 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=40.8
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|.++..+++...-.+....++|++.|+ ++..+|+.++.+-+..|++...
T Consensus 203 ~L~~~~r~vl~l~y~~~~s~~eIA~~lg---vs~~~V~~~~~ra~~kLr~~l~ 252 (256)
T PRK07408 203 QLEERTREVLEFVFLHDLTQKEAAERLG---ISPVTVSRRVKKGLDQLKKLLQ 252 (256)
T ss_pred cCCHHHHHHHHHHHHCCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHhh
Confidence 3778888887776445666899999999 9999999999998888887654
No 320
>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ. One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.
Probab=48.41 E-value=72 Score=35.14 Aligned_cols=63 Identities=14% Similarity=0.150 Sum_probs=43.3
Q ss_pred CCceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHH-cCCcEEEeCCCChH
Q 043479 17 RDIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALA-SGVAFYILKPLNPD 80 (534)
Q Consensus 17 ~~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~-aGA~dyL~KP~s~e 80 (534)
..||||.+-...+.. ..+++++.+|+..|+++||+--.+.... ..++++ ....||++.--...
T Consensus 67 ~~~Dlv~is~~t~~~~~~~~ia~~iK~~~p~~~vv~GG~h~t~~-pe~~l~~~~~vD~Vv~GEgE~ 131 (472)
T TIGR03471 67 KDYDLVVLHTSTPSFPSDVKTAEALKEQNPATKIGFVGAHVAVL-PEKTLKQGPAIDFVCRREFDY 131 (472)
T ss_pred cCCCEEEEECCCcchHHHHHHHHHHHHhCCCCEEEEECCCcccC-HHHHHhcCCCeeEEEeCchHH
Confidence 358999998766653 5788999999999988877666554432 234454 35678888754333
No 321
>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=47.26 E-value=1.7e+02 Score=29.86 Aligned_cols=58 Identities=7% Similarity=0.139 Sum_probs=41.5
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE------eCCCChHHHHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI------LKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL------~KP~s~eeL~~aI~~aL~~ 92 (534)
+++++++++.. ++|||....-.+.+.+.+++.+||+.+. .-|.-+.++.+-+.+.++.
T Consensus 220 ~~~i~~i~~~~-~ipii~~GGI~~~~da~~~l~~GAd~V~igra~l~~p~~~~~i~~~l~~~~~~ 283 (296)
T cd04740 220 LRMVYQVYKAV-EIPIIGVGGIASGEDALEFLMAGASAVQVGTANFVDPEAFKEIIEGLEAYLDE 283 (296)
T ss_pred HHHHHHHHHhc-CCCEEEECCCCCHHHHHHHHHcCCCEEEEchhhhcChHHHHHHHHHHHHHHHH
Confidence 57788887765 5999999888899999999999998763 2344445555555554443
No 322
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=47.20 E-value=1.9e+02 Score=28.82 Aligned_cols=64 Identities=17% Similarity=0.226 Sum_probs=49.5
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCC-CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMP-EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mP-dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
+.++.|+.+.++ ...|+|=+ .| +.-|.+.++.++...|++|++. ++--+.+.+.+.+++|++.+
T Consensus 116 ~~T~~E~~~A~~--~Gad~vkl---FPa~~~G~~~ik~l~~~~p~ip~~a-tGGI~~~N~~~~l~aGa~~v 180 (213)
T PRK06552 116 CMTVTEIVTALE--AGSEIVKL---FPGSTLGPSFIKAIKGPLPQVNVMV-TGGVNLDNVKDWFAAGADAV 180 (213)
T ss_pred cCCHHHHHHHHH--cCCCEEEE---CCcccCCHHHHHHHhhhCCCCEEEE-ECCCCHHHHHHHHHCCCcEE
Confidence 457888888875 46888876 34 4457899999999999999774 55556788889999998776
No 323
>PRK02615 thiamine-phosphate pyrophosphorylase; Provisional
Probab=46.89 E-value=1.6e+02 Score=31.70 Aligned_cols=68 Identities=21% Similarity=0.262 Sum_probs=49.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
++.+.+|+.+... ..+|.|++--..+. .-|++.++.+.+..+ +||+.+-+- +.+.+.+++.+|++++-
T Consensus 246 S~Hs~~e~~~A~~--~GaDYI~lGPvf~T~tKp~~~~~Gle~l~~~~~~~~-iPv~AiGGI-~~~ni~~l~~~Ga~gVA 320 (347)
T PRK02615 246 STTNPEEMAKAIA--EGADYIGVGPVFPTPTKPGKAPAGLEYLKYAAKEAP-IPWFAIGGI-DKSNIPEVLQAGAKRVA 320 (347)
T ss_pred ecCCHHHHHHHHH--cCCCEEEECCCcCCCCCCCCCCCCHHHHHHHHHhCC-CCEEEECCC-CHHHHHHHHHcCCcEEE
Confidence 4567778777665 36899987654432 357899999887654 899888665 46777788999999874
No 324
>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=46.75 E-value=65 Score=31.42 Aligned_cols=66 Identities=15% Similarity=0.091 Sum_probs=42.6
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-C-CHHHHHHHHHhh--CCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-M-NGIELQKEINEE--FTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-m-dGleLL~~Lr~~--~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
..++.++.+++ ..||+|.+-+.|.. + .-.++++.|++. .++++|++=-..-.. ..+.+.||+.|-.
T Consensus 123 p~e~~v~~~~~-~~pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG~~~~~---~~~~~~gad~~~~ 192 (197)
T TIGR02370 123 PIDTVVEKVKK-EKPLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMVGGAPVTQ---DWADKIGADVYGE 192 (197)
T ss_pred CHHHHHHHHHH-cCCCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEEEChhcCH---HHHHHhCCcEEeC
Confidence 45778888887 78999999987764 2 234567777776 234555543333333 2355779998864
No 325
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=46.75 E-value=1.3e+02 Score=30.61 Aligned_cols=68 Identities=13% Similarity=0.231 Sum_probs=48.7
Q ss_pred CHHHHHHHHHhcCCc-eEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHH-HcCCcEEEe
Q 043479 5 RPVEALATVRIQRDI-DLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKAL-ASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~p-DLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL-~aGA~dyL~ 74 (534)
+..+.++.+.+ ..+ .+++.|+.--+ .--+++++++++. ..+|||.-.+..+.+.+.+++ ..|+++.+.
T Consensus 153 ~~~e~~~~~~~-~g~~~ii~~~i~~~G~~~G~d~~~i~~~~~~-~~ipvIasGGv~s~eD~~~l~~~~GvdgViv 225 (258)
T PRK01033 153 DPLELAKEYEA-LGAGEILLNSIDRDGTMKGYDLELLKSFRNA-LKIPLIALGGAGSLDDIVEAILNLGADAAAA 225 (258)
T ss_pred CHHHHHHHHHH-cCCCEEEEEccCCCCCcCCCCHHHHHHHHhh-CCCCEEEeCCCCCHHHHHHHHHHCCCCEEEE
Confidence 35566666665 344 47778775432 2246778888876 459999988888989999988 799998753
No 326
>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=46.68 E-value=69 Score=31.69 Aligned_cols=63 Identities=21% Similarity=0.176 Sum_probs=45.1
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
.+.+|+.+.++. ..|+|=+|...-. .+-.++++++++.+ +++|....+.+....|.++|++-.
T Consensus 52 PT~~ev~~l~~a--GadIIAlDaT~R~Rp~~l~~li~~i~~~~----~l~MADist~ee~~~A~~~G~D~I 116 (192)
T PF04131_consen 52 PTLKEVDALAEA--GADIIALDATDRPRPETLEELIREIKEKY----QLVMADISTLEEAINAAELGFDII 116 (192)
T ss_dssp -SHHHHHHHHHC--T-SEEEEE-SSSS-SS-HHHHHHHHHHCT----SEEEEE-SSHHHHHHHHHTT-SEE
T ss_pred CCHHHHHHHHHc--CCCEEEEecCCCCCCcCHHHHHHHHHHhC----cEEeeecCCHHHHHHHHHcCCCEE
Confidence 456777777764 6899999986522 67778899998865 678888899999999999997644
No 327
>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=46.61 E-value=1.4e+02 Score=29.16 Aligned_cols=68 Identities=19% Similarity=0.153 Sum_probs=47.4
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+.+++.+.. + ...|.|+++-.-.+ ...+++++++++.. ++||++.-+-...+.+.+++..|++++..-
T Consensus 111 ~~~~~~~~~-~-~gad~i~~~~~~~~G~~~~~~~~~~~~i~~i~~~~-~~Pvi~~GGI~~~~~v~~~l~~GadgV~vg 185 (236)
T cd04730 111 SVEEARKAE-A-AGADALVAQGAEAGGHRGTFDIGTFALVPEVRDAV-DIPVIAAGGIADGRGIAAALALGADGVQMG 185 (236)
T ss_pred CHHHHHHHH-H-cCCCEEEEeCcCCCCCCCccccCHHHHHHHHHHHh-CCCEEEECCCCCHHHHHHHHHcCCcEEEEc
Confidence 445554443 3 45898888653211 24577888888654 489998888777788899999999998764
No 328
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=46.51 E-value=80 Score=33.10 Aligned_cols=54 Identities=17% Similarity=0.191 Sum_probs=44.1
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++++++..|..+|.|-. ++.+.+.+++++||+..+.-.++++++++++..+
T Consensus 187 ~~ai~~~r~~~~~~kIeVEv--~tl~ea~eal~~gaDiI~LDnm~~e~vk~av~~~ 240 (289)
T PRK07896 187 VAALRAVRAAAPDLPCEVEV--DSLEQLDEVLAEGAELVLLDNFPVWQTQEAVQRR 240 (289)
T ss_pred HHHHHHHHHhCCCCCEEEEc--CCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence 46777888777878866655 4566888999999999999999999999999854
No 329
>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=46.43 E-value=47 Score=30.91 Aligned_cols=46 Identities=20% Similarity=0.204 Sum_probs=31.5
Q ss_pred HHHHhcCCceEEEEeCCCCCCCHH--------HHHHHHHhhCCCCcEEEEecCCC
Q 043479 11 ATVRIQRDIDLVVTDLHMPEMNGI--------ELQKEINEEFTHLPVMVMSSDDR 57 (534)
Q Consensus 11 e~L~~~~~pDLVLLDi~mPdmdGl--------eLL~~Lr~~~p~ipVIVLSs~~d 57 (534)
+.+.. .+||+||+.+-.-|.... +++++|++..|.++|++++....
T Consensus 51 ~~~~~-~~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~p~~~iil~~~~~~ 104 (177)
T cd01844 51 ELLRD-VPADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETHPDTPILLVSPRYC 104 (177)
T ss_pred HHHHh-cCCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHCcCCCEEEEecCCC
Confidence 33444 679999998766654322 45666677788899999886543
No 330
>PRK08072 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=46.08 E-value=1e+02 Score=32.12 Aligned_cols=66 Identities=14% Similarity=0.078 Sum_probs=46.6
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+++.+.+|+.+.+. ..+|.|.+|- -+.+.++++.+... .++ |+.++--+.+.+....+.|++.+-.
T Consensus 193 vsv~tleea~~A~~--~gaDyI~lD~-----~~~e~l~~~~~~~~~~i~-i~AiGGIt~~ni~~~a~~Gvd~IAv 259 (277)
T PRK08072 193 VETETEEQVREAVA--AGADIIMFDN-----RTPDEIREFVKLVPSAIV-TEASGGITLENLPAYGGTGVDYISL 259 (277)
T ss_pred EEeCCHHHHHHHHH--cCCCEEEECC-----CCHHHHHHHHHhcCCCce-EEEECCCCHHHHHHHHHcCCCEEEE
Confidence 36788889888875 4689999973 34566777766433 233 4455666788888899999988743
No 331
>PRK05286 dihydroorotate dehydrogenase 2; Reviewed
Probab=45.99 E-value=63 Score=34.32 Aligned_cols=58 Identities=14% Similarity=0.251 Sum_probs=42.0
Q ss_pred HHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEE------EeC-CCChHHHHHHHHHHHH
Q 043479 34 IELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFY------ILK-PLNPDDLKNVWQYAMT 91 (534)
Q Consensus 34 leLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dy------L~K-P~s~eeL~~aI~~aL~ 91 (534)
++.++++++..+ ++|||...+-.+.+.+.+.+.+||+.+ +.+ |.-..++.+.+.+.++
T Consensus 276 l~~v~~l~~~~~~~ipIig~GGI~s~eda~e~l~aGAd~V~v~~~~~~~gP~~~~~i~~~L~~~l~ 341 (344)
T PRK05286 276 TEVIRRLYKELGGRLPIIGVGGIDSAEDAYEKIRAGASLVQIYSGLIYEGPGLVKEIVRGLARLLR 341 (344)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCCHHHHHHHHHcCCCHHHHHHHHHHhCchHHHHHHHHHHHHHH
Confidence 446677766543 699999999999999999999998764 344 6555666666655554
No 332
>TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family. Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium.
Probab=45.72 E-value=50 Score=32.33 Aligned_cols=49 Identities=22% Similarity=0.122 Sum_probs=39.3
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
..|.++..+++...-.+...-++|++.|+ ++..+|+.++.+-+..|++.
T Consensus 174 ~~L~~~~r~il~l~y~~~~s~~eIA~~lg---is~~tV~~~~~ra~~~Lr~~ 222 (224)
T TIGR02479 174 ESLSEREQLVLSLYYYEELNLKEIGEVLG---LTESRVSQIHSQALKKLRAK 222 (224)
T ss_pred HhCCHHHHHHHHHHHhCCCCHHHHHHHhC---CCHHHHHHHHHHHHHHHHHH
Confidence 34778888888876555666899999999 89999999998887777654
No 333
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=45.69 E-value=1.8e+02 Score=30.29 Aligned_cols=71 Identities=17% Similarity=0.212 Sum_probs=51.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeC--CCC-----CCCHHHHHHHHHhhCCCCcEEEEecC-CCHHHHHHHHHcCCcEEE
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDL--HMP-----EMNGIELQKEINEEFTHLPVMVMSSD-DRESVIMKALASGVAFYI 73 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi--~mP-----dmdGleLL~~Lr~~~p~ipVIVLSs~-~d~~~~~~AL~aGA~dyL 73 (534)
++.+++||.+.++. ..+|.+-+.+ ..+ ..=+++.+++|++.. .+|++++-+. -..+.+.++++.|++.+=
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 LLTSTTEAKRFAEE-TDVDALAVAIGNAHGMYNGDPNLRFDRLQEINDVV-HIPLVLHGGSGISPEDFKKCIQHGIRKIN 228 (281)
T ss_pred eeCCHHHHHHHHHh-hCCCEEEEccCCCCCCCCCCCccCHHHHHHHHHhc-CCCEEEECCCCCCHHHHHHHHHcCCcEEE
Confidence 46799999998865 4688877733 211 134789999999865 4898887633 356678889999999874
Q ss_pred e
Q 043479 74 L 74 (534)
Q Consensus 74 ~ 74 (534)
.
T Consensus 229 v 229 (281)
T PRK06806 229 V 229 (281)
T ss_pred E
Confidence 4
No 334
>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=45.65 E-value=1.1e+02 Score=30.11 Aligned_cols=75 Identities=19% Similarity=0.232 Sum_probs=50.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHH
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVW 86 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI 86 (534)
++..+++.. .|++|+=....+.-+..+++.+.. .+|||+ |... ...+.+..+..+++.++.+.+++.++|
T Consensus 254 ~~~~~~~~~---ad~~i~ps~~~e~~~~~~~Ea~a~---G~Pvi~-~~~~---~~~e~i~~~~~g~~~~~~d~~~l~~~i 323 (359)
T cd03823 254 EEIDDFYAE---IDVLVVPSIWPENFPLVIREALAA---GVPVIA-SDIG---GMAELVRDGVNGLLFPPGDAEDLAAAL 323 (359)
T ss_pred HHHHHHHHh---CCEEEEcCcccCCCChHHHHHHHC---CCCEEE-CCCC---CHHHHhcCCCcEEEECCCCHHHHHHHH
Confidence 455555544 588776433334556677777653 477765 3222 234456677789999999999999999
Q ss_pred HHHHH
Q 043479 87 QYAMT 91 (534)
Q Consensus 87 ~~aL~ 91 (534)
..++.
T Consensus 324 ~~l~~ 328 (359)
T cd03823 324 ERLID 328 (359)
T ss_pred HHHHh
Confidence 99886
No 335
>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=45.53 E-value=1.2e+02 Score=28.92 Aligned_cols=68 Identities=13% Similarity=0.144 Sum_probs=45.6
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCC-C----CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHM-P----EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~m-P----dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+..++++.+. ...|.|.+...- + ...+.+.++++++. +++||++.-+- +.+.+.++++.||+.++.
T Consensus 113 ~~t~~e~~~~~~--~~~d~v~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~i~~~GGI-~~~~i~~~~~~Gad~vvv 185 (202)
T cd04726 113 VEDPEKRAKLLK--LGVDIVILHRGIDAQAAGGWWPEDDLKKVKKL-LGVKVAVAGGI-TPDTLPEFKKAGADIVIV 185 (202)
T ss_pred CCCHHHHHHHHH--CCCCEEEEcCcccccccCCCCCHHHHHHHHhh-cCCCEEEECCc-CHHHHHHHHhcCCCEEEE
Confidence 347777777443 468888875211 1 23456777777754 56887765555 578888999999998864
No 336
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=45.49 E-value=1.3e+02 Score=29.24 Aligned_cols=64 Identities=14% Similarity=0.238 Sum_probs=48.5
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMPE--MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mPd--mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
+.+..|+.+..+. ..|.|-+ .|. .-|.+.++.++...+++|++.+-+- +.+.+.+.+++|++++
T Consensus 112 ~~t~~e~~~A~~~--Gadyv~~---Fpt~~~~G~~~l~~~~~~~~~ipvvaiGGI-~~~n~~~~l~aGa~~v 177 (187)
T PRK07455 112 ALTPTEIVTAWQA--GASCVKV---FPVQAVGGADYIKSLQGPLGHIPLIPTGGV-TLENAQAFIQAGAIAV 177 (187)
T ss_pred cCCHHHHHHHHHC--CCCEEEE---CcCCcccCHHHHHHHHhhCCCCcEEEeCCC-CHHHHHHHHHCCCeEE
Confidence 4577787777653 5788776 443 4589999999998888997766554 6677888999999876
No 337
>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=45.43 E-value=97 Score=32.63 Aligned_cols=70 Identities=21% Similarity=0.234 Sum_probs=48.6
Q ss_pred eecCHHHHHHHHHhcCCceEEEEe-CCCC-----CC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTD-LHMP-----EM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLD-i~mP-----dm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.+.+.++|.+.++. .+|+|++. .+-. +. +-+.|+.++++... +|||.--+-.+...+..++.+||++...
T Consensus 142 ~v~s~~~A~~a~~~--G~D~iv~qG~eAGGH~g~~~~~~~~L~~~v~~~~~-iPViaAGGI~dg~~iaaal~lGA~gV~~ 218 (330)
T PF03060_consen 142 QVTSVREARKAAKA--GADAIVAQGPEAGGHRGFEVGSTFSLLPQVRDAVD-IPVIAAGGIADGRGIAAALALGADGVQM 218 (330)
T ss_dssp EESSHHHHHHHHHT--T-SEEEEE-TTSSEE---SSG-HHHHHHHHHHH-S-S-EEEESS--SHHHHHHHHHCT-SEEEE
T ss_pred ccCCHHHHHHhhhc--CCCEEEEeccccCCCCCccccceeeHHHHHhhhcC-CcEEEecCcCCHHHHHHHHHcCCCEeec
Confidence 46789999887764 58988876 3221 22 35778888887665 9999988888999999999999999864
No 338
>TIGR02846 spore_sigmaK RNA polymerase sigma-K factor. The sporulation-specific transcription factor sigma-K (also called sigma-27) is expressed in the mother cell compartment of endospore-forming bacteria such as Bacillus subtilis. Like its close homolog sigma-E (sigma-29) (see TIGR02835), also specific to the mother cell compartment, it must be activated by a proteolytic cleavage. Note that in Bacillus subtilis (and apparently also Clostridium tetani), but not in other endospore forming species such as Bacillus anthracis, the sigK gene is generated by a non-germline (mother cell only) chromosomal rearrangement that recombines coding regions for the N-terminal and C-terminal regions of sigma-K.
Probab=45.26 E-value=53 Score=32.41 Aligned_cols=49 Identities=14% Similarity=0.141 Sum_probs=38.6
Q ss_pred chhhHHHHHHHHHhc----cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 166 DSLHNRFLQAIRHIG----LEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 166 ~eLh~RFleaLe~LG----lekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
..|.++..+++...- .+...-++|++.|+ ++..+|++++.+-+..|++.
T Consensus 173 ~~L~~~~r~il~l~y~~~~~e~~S~~EIAe~lg---is~~tV~~~~~rAl~~Lr~~ 225 (227)
T TIGR02846 173 SVLDGREREVIEMRYGLGDGRRKTQREIAKILG---ISRSYVSRIEKRALMKLYKE 225 (227)
T ss_pred HhCCHHHHHHHHHHHcCCCCCCcCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHH
Confidence 357788888888853 25556899999998 99999999998877777653
No 339
>PRK09016 quinolinate phosphoribosyltransferase; Validated
Probab=45.26 E-value=82 Score=33.18 Aligned_cols=54 Identities=13% Similarity=0.172 Sum_probs=43.7
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.+++++...|..+|.|=.. +.+.+.+++++|++-.+.--++++++++++..+
T Consensus 196 ~~av~~~r~~~~~~kIeVEv~--sleea~ea~~~gaDiI~LDn~s~e~~~~av~~~ 249 (296)
T PRK09016 196 RQAVEKAFWLHPDVPVEVEVE--NLDELDQALKAGADIIMLDNFTTEQMREAVKRT 249 (296)
T ss_pred HHHHHHHHHhCCCCCEEEEeC--CHHHHHHHHHcCCCEEEeCCCChHHHHHHHHhh
Confidence 456777777788788655443 578889999999999999999999999999854
No 340
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=45.25 E-value=2.2e+02 Score=28.42 Aligned_cols=83 Identities=11% Similarity=0.095 Sum_probs=54.0
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC------CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE-----
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP------EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY----- 72 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP------dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy----- 72 (534)
.+.+++.+..+ ...|.|.+.-..+ .--|+++++++++.. .+||+.+-+- +.+.+..++++||+++
T Consensus 119 ~s~~~a~~A~~--~gaDYv~~Gpv~t~tK~~~~p~gl~~l~~~~~~~-~iPvvAIGGI-~~~n~~~~~~~GA~giAvisa 194 (221)
T PRK06512 119 RDRHGAMEIGE--LRPDYLFFGKLGADNKPEAHPRNLSLAEWWAEMI-EIPCIVQAGS-DLASAVEVAETGAEFVALERA 194 (221)
T ss_pred CCHHHHHHhhh--cCCCEEEECCCCCCCCCCCCCCChHHHHHHHHhC-CCCEEEEeCC-CHHHHHHHHHhCCCEEEEhHH
Confidence 35666665443 4689888764431 124788888887654 5999988876 6677788999999997
Q ss_pred EeCCCChHHHHHHHHHHH
Q 043479 73 ILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 73 L~KP~s~eeL~~aI~~aL 90 (534)
|.+.-++.+-...+..++
T Consensus 195 i~~~~dp~~a~~~~~~~~ 212 (221)
T PRK06512 195 VFDAHDPPLAVAQANALL 212 (221)
T ss_pred hhCCCCHHHHHHHHHHHH
Confidence 344444544444444444
No 341
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=45.02 E-value=2.5e+02 Score=27.69 Aligned_cols=82 Identities=18% Similarity=0.246 Sum_probs=56.5
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCCCC-CCCHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEE-----eC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLHMP-EMNGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYI-----LK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~mP-dmdGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL-----~K 75 (534)
+.+..|+.+..+ ...|.|-+ .| +.-|.+.++.++...+ ++|++.+.+- +.+.+.+.+++|++.+- .+
T Consensus 111 ~~t~~E~~~A~~--~Gad~vk~---Fpa~~~G~~~l~~l~~~~~~~ipvvaiGGI-~~~n~~~~~~aGa~~vav~s~l~~ 184 (206)
T PRK09140 111 VATPTEAFAALR--AGAQALKL---FPASQLGPAGIKALRAVLPPDVPVFAVGGV-TPENLAPYLAAGAAGFGLGSALYR 184 (206)
T ss_pred cCCHHHHHHHHH--cCCCEEEE---CCCCCCCHHHHHHHHhhcCCCCeEEEECCC-CHHHHHHHHHCCCeEEEEehHhcc
Confidence 457788777765 35788865 34 3457899999998886 6998776655 67788899999998875 32
Q ss_pred -CCChHHHHHHHHHHH
Q 043479 76 -PLNPDDLKNVWQYAM 90 (534)
Q Consensus 76 -P~s~eeL~~aI~~aL 90 (534)
..+.+++....+.++
T Consensus 185 ~~~~~~~i~~~a~~~~ 200 (206)
T PRK09140 185 PGQSAEEVAERARAFV 200 (206)
T ss_pred cccChHHHHHHHHHHH
Confidence 123355655555543
No 342
>PRK09016 quinolinate phosphoribosyltransferase; Validated
Probab=44.96 E-value=1.1e+02 Score=32.24 Aligned_cols=66 Identities=14% Similarity=0.184 Sum_probs=45.5
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+|+.+.++. .+|+|++|-.-| -++-+.++.... -.+|..|+--+.+.+.+..+.|++.+.
T Consensus 213 VEv~sleea~ea~~~--gaDiI~LDn~s~----e~~~~av~~~~~-~~~ieaSGGI~~~ni~~yA~tGVD~Is 278 (296)
T PRK09016 213 VEVENLDELDQALKA--GADIIMLDNFTT----EQMREAVKRTNG-RALLEVSGNVTLETLREFAETGVDFIS 278 (296)
T ss_pred EEeCCHHHHHHHHHc--CCCEEEeCCCCh----HHHHHHHHhhcC-CeEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467899999999875 589999995443 233333332222 235667777888888888899988664
No 343
>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=44.25 E-value=1.5e+02 Score=29.10 Aligned_cols=70 Identities=23% Similarity=0.249 Sum_probs=52.0
Q ss_pred cCHHHHHHHHHhcCCce-EEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 4 TRPVEALATVRIQRDID-LVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 4 ss~~EALe~L~~~~~pD-LVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.++.++++.+.. ..++ ++++|+.--. ..-+++++++.+.. .+||++=....+.+.+.+++..|++..+.-
T Consensus 30 ~dp~~~a~~~~~-~g~~~i~i~dl~~~~~~~~~n~~~~~~i~~~~-~~pv~~~ggi~~~~d~~~~~~~G~~~vilg 103 (232)
T TIGR03572 30 GDPVNAARIYNA-KGADELIVLDIDASKRGREPLFELISNLAEEC-FMPLTVGGGIRSLEDAKKLLSLGADKVSIN 103 (232)
T ss_pred CCHHHHHHHHHH-cCCCEEEEEeCCCcccCCCCCHHHHHHHHHhC-CCCEEEECCCCCHHHHHHHHHcCCCEEEEC
Confidence 367787887765 4555 8889987643 23467788887765 489888777788888888899999888764
No 344
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=43.96 E-value=1.6e+02 Score=29.62 Aligned_cols=70 Identities=19% Similarity=0.209 Sum_probs=52.6
Q ss_pred cCHHHHHHHHHhcCCc-eEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 4 TRPVEALATVRIQRDI-DLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 4 ss~~EALe~L~~~~~p-DLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.++.+..+.+.. ..+ .|+++|+.-.. ..-++++++|++.. .+||++--+-.+.+.+.+++.+||+..+.-
T Consensus 30 ~dp~~~a~~~~~-~G~~~l~v~Dl~~~~~~~~~n~~~i~~i~~~~-~~pv~~~GGi~s~~d~~~~~~~Ga~~vivg 103 (254)
T TIGR00735 30 GDPVELAQRYDE-EGADELVFLDITASSEGRTTMIDVVERTAETV-FIPLTVGGGIKSIEDVDKLLRAGADKVSIN 103 (254)
T ss_pred CCHHHHHHHHHH-cCCCEEEEEcCCcccccChhhHHHHHHHHHhc-CCCEEEECCCCCHHHHHHHHHcCCCEEEEC
Confidence 377777777765 334 58888987543 33456777777654 489999888899999999999999988754
No 345
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=43.80 E-value=2.7e+02 Score=29.88 Aligned_cols=60 Identities=18% Similarity=0.112 Sum_probs=48.6
Q ss_pred HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE-----eCCCChHHHHHHHHHHHHHh
Q 043479 33 GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI-----LKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 33 GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL-----~KP~s~eeL~~aI~~aL~~k 93 (534)
--+.++.+.+. +++|||+=.+-...+.+..++++|+++.| .|--++..+.++++.+....
T Consensus 237 ~p~~i~~~~e~-~~vpVivdAGIg~~sda~~AmelGadgVL~nSaIa~a~dPv~Ma~A~~~av~aG 301 (326)
T PRK11840 237 NPYTIRLIVEG-ATVPVLVDAGVGTASDAAVAMELGCDGVLMNTAIAEAKNPVLMARAMKLAVEAG 301 (326)
T ss_pred CHHHHHHHHHc-CCCcEEEeCCCCCHHHHHHHHHcCCCEEEEcceeccCCCHHHHHHHHHHHHHHH
Confidence 45677777766 56999999999999999999999999985 46678888888888876543
No 346
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=43.59 E-value=2.1e+02 Score=28.77 Aligned_cols=80 Identities=18% Similarity=0.315 Sum_probs=47.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCCC--CCHH---------------HHHHHHHhhCCCCcEEEEe-----cCCCHHHHHHHH
Q 043479 8 EALATVRIQRDIDLVVTDLHMPE--MNGI---------------ELQKEINEEFTHLPVMVMS-----SDDRESVIMKAL 65 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPd--mdGl---------------eLL~~Lr~~~p~ipVIVLS-----s~~d~~~~~~AL 65 (534)
++++.+.+ . .|+|=+.+-.++ .||. ++++.+++. .++|+++|+ ...-...+..+.
T Consensus 22 ~~~~~l~~-~-ad~iElgip~sdp~adG~~i~~~~~~a~~~g~~~~v~~vr~~-~~~Pl~lM~y~n~~~~~~~~~i~~~~ 98 (244)
T PRK13125 22 EFIIGLVE-L-VDILELGIPPKYPKYDGPVIRKSHRKVKGLDIWPLLEEVRKD-VSVPIILMTYLEDYVDSLDNFLNMAR 98 (244)
T ss_pred HHHHHHHh-h-CCEEEECCCCCCCCCCCHHHHHHHHHHHHcCcHHHHHHHhcc-CCCCEEEEEecchhhhCHHHHHHHHH
Confidence 34444444 4 777666665544 3453 356666643 568987664 222334577788
Q ss_pred HcCCcEEEeCC--CC-hHHHHHHHHHHH
Q 043479 66 ASGVAFYILKP--LN-PDDLKNVWQYAM 90 (534)
Q Consensus 66 ~aGA~dyL~KP--~s-~eeL~~aI~~aL 90 (534)
++|+++++... +. .+++...+..+.
T Consensus 99 ~~Gadgvii~dlp~e~~~~~~~~~~~~~ 126 (244)
T PRK13125 99 DVGADGVLFPDLLIDYPDDLEKYVEIIK 126 (244)
T ss_pred HcCCCEEEECCCCCCcHHHHHHHHHHHH
Confidence 99999999863 33 356655555543
No 347
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=43.47 E-value=59 Score=32.96 Aligned_cols=50 Identities=16% Similarity=0.113 Sum_probs=40.1
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAE 219 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~ 219 (534)
.|.++..+++...-.+...-++|++.|+ +|..+|+.++.+-+..|++...
T Consensus 212 ~L~~~~r~vl~l~~~~~~s~~eIA~~lg---is~~tV~~~~~ra~~~Lr~~l~ 261 (268)
T PRK06288 212 TLPEREKKVLILYYYEDLTLKEIGKVLG---VTESRISQLHTKAVLQLRAKLA 261 (268)
T ss_pred hCCHHHHHHHHHHHHcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHHH
Confidence 3777777777776555666899999999 9999999999888887777654
No 348
>PRK13306 ulaD 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=43.42 E-value=1.2e+02 Score=30.13 Aligned_cols=86 Identities=8% Similarity=0.084 Sum_probs=56.5
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEE--EecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP--EMNGIELQKEINEEFTHLPVMV--MSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP--dmdGleLL~~Lr~~~p~ipVIV--LSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.++|++++++ ....+-++.+-+| -.-|.++++.|++.+++.+|++ .+..........+.++||+.+.......
T Consensus 13 ~~~~~a~~l~~~-l~~~v~~~kvG~~l~~~~G~~~i~~lk~~~~~~~v~~DLK~~Di~~~v~~~~~~~Gad~vTvH~~a~ 91 (216)
T PRK13306 13 QDLESAIEDAKK-VAEEVDIIEVGTILLLAEGMKAVRVLRALYPDKIIVADTKIADAGKILAKMAFEAGADWVTVICAAH 91 (216)
T ss_pred CCHHHHHHHHHH-ccccCCEEEEChHHHHHhCHHHHHHHHHHCCCCEEEEEEeecCCcHHHHHHHHHCCCCEEEEeCCCC
Confidence 467899998876 3333445666655 3567889999999877777653 3333333334357899999988887665
Q ss_pred HH-HHHHHHHHH
Q 043479 80 DD-LKNVWQYAM 90 (534)
Q Consensus 80 ee-L~~aI~~aL 90 (534)
.+ +..+++.+.
T Consensus 92 ~~~i~~~~~~~~ 103 (216)
T PRK13306 92 IPTIKAALKVAK 103 (216)
T ss_pred HHHHHHHHHHHH
Confidence 55 555555443
No 349
>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=43.20 E-value=2e+02 Score=29.81 Aligned_cols=82 Identities=26% Similarity=0.362 Sum_probs=56.4
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeC---C-----CCCCCHHHHHHHHHhhCCCCcEEEEec-CCCHHHHHHHHHcCCcEEE
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDL---H-----MPEMNGIELQKEINEEFTHLPVMVMSS-DDRESVIMKALASGVAFYI 73 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi---~-----mPdmdGleLL~~Lr~~~p~ipVIVLSs-~~d~~~~~~AL~aGA~dyL 73 (534)
+++++||.+.+++ ..+|.+-+.+ + -|.. +++++++|++... +|+++.-+ .-+.+.+.++++.|++.+=
T Consensus 152 ~t~~eea~~f~~~-tgvD~Lavs~Gt~hg~~~~~~~l-~~e~L~~i~~~~~-iPlv~hGgSGi~~e~i~~~i~~Gi~kiN 228 (282)
T TIGR01859 152 LADPDEAEQFVKE-TGVDYLAAAIGTSHGKYKGEPGL-DFERLKEIKELTN-IPLVLHGASGIPEEQIKKAIKLGIAKIN 228 (282)
T ss_pred cCCHHHHHHHHHH-HCcCEEeeccCccccccCCCCcc-CHHHHHHHHHHhC-CCEEEECCCCCCHHHHHHHHHcCCCEEE
Confidence 5689999999875 4688877542 1 1233 5899999988664 89887763 3455678889999999885
Q ss_pred eCCCChHHHHHHHHHHHH
Q 043479 74 LKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 74 ~KP~s~eeL~~aI~~aL~ 91 (534)
.- .+|..++...++
T Consensus 229 v~----T~l~~a~~~~~~ 242 (282)
T TIGR01859 229 ID----TDCRIAFTAAIR 242 (282)
T ss_pred EC----cHHHHHHHHHHH
Confidence 53 355555555543
No 350
>PRK13585 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=43.04 E-value=2.1e+02 Score=28.27 Aligned_cols=78 Identities=17% Similarity=0.199 Sum_probs=52.0
Q ss_pred CHHHHHHHHHhcCCce-EEEEeCCCC---CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe------
Q 043479 5 RPVEALATVRIQRDID-LVVTDLHMP---EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL------ 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pD-LVLLDi~mP---dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~------ 74 (534)
+..+..+.+.. ..++ +++.|+... ....+++++++++.. ++||++..+-.+.+.+.+++..||++++.
T Consensus 150 ~~~~~~~~~~~-~G~~~i~~~~~~~~g~~~g~~~~~i~~i~~~~-~iPvia~GGI~~~~di~~~~~~Ga~gv~vgsa~~~ 227 (241)
T PRK13585 150 TPVEAAKRFEE-LGAGSILFTNVDVEGLLEGVNTEPVKELVDSV-DIPVIASGGVTTLDDLRALKEAGAAGVVVGSALYK 227 (241)
T ss_pred CHHHHHHHHHH-cCCCEEEEEeecCCCCcCCCCHHHHHHHHHhC-CCCEEEeCCCCCHHHHHHHHHcCCCEEEEEHHHhc
Confidence 44555555554 4455 556566321 223568888888765 48999988888888888889999998754
Q ss_pred CCCChHHHHH
Q 043479 75 KPLNPDDLKN 84 (534)
Q Consensus 75 KP~s~eeL~~ 84 (534)
.|+..++++.
T Consensus 228 ~~~~~~~~~~ 237 (241)
T PRK13585 228 GKFTLEEAIE 237 (241)
T ss_pred CCcCHHHHHH
Confidence 4555554443
No 351
>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=42.97 E-value=1.5e+02 Score=31.02 Aligned_cols=66 Identities=14% Similarity=0.120 Sum_probs=45.6
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+|+.+.+.. .+|+|++|=. +--++-+.+... +...+|-.|+.-+.+.+.+..+.|++-..
T Consensus 198 VEv~slee~~ea~~~--gaDiImLDn~----s~e~l~~av~~~-~~~~~leaSGgI~~~ni~~yA~tGVD~Is 263 (281)
T PRK06543 198 VEVDRLDQIEPVLAA--GVDTIMLDNF----SLDDLREGVELV-DGRAIVEASGNVNLNTVGAIASTGVDVIS 263 (281)
T ss_pred EEeCCHHHHHHHHhc--CCCEEEECCC----CHHHHHHHHHHh-CCCeEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467889999998864 6899999943 333333333322 22346788888888888888889987653
No 352
>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=42.92 E-value=2.5e+02 Score=27.43 Aligned_cols=69 Identities=26% Similarity=0.215 Sum_probs=49.5
Q ss_pred CHHHHHHHHHhcCCc-eEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 5 RPVEALATVRIQRDI-DLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 5 s~~EALe~L~~~~~p-DLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
++.+..+.+.+ ..+ .+.++|+.--. ..-+++++++++.. .+||.+=-.-.+.+.+.+++..||+..+.-
T Consensus 29 dp~~~a~~~~~-~g~~~l~v~dl~~~~~g~~~~~~~i~~i~~~~-~~pi~~ggGI~~~ed~~~~~~~Ga~~vvlg 101 (230)
T TIGR00007 29 DPVEAAKKWEE-EGAERIHVVDLDGAKEGGPVNLPVIKKIVRET-GVPVQVGGGIRSLEDVEKLLDLGVDRVIIG 101 (230)
T ss_pred CHHHHHHHHHH-cCCCEEEEEeCCccccCCCCcHHHHHHHHHhc-CCCEEEeCCcCCHHHHHHHHHcCCCEEEEC
Confidence 67777777765 333 57778876532 22468888888765 478887666677888999999999988764
No 353
>PRK07028 bifunctional hexulose-6-phosphate synthase/ribonuclease regulator; Validated
Probab=42.86 E-value=2.1e+02 Score=31.24 Aligned_cols=74 Identities=22% Similarity=0.324 Sum_probs=49.3
Q ss_pred CCceEEEEeCCC----CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE-----EeCCCChHHHHHHHH
Q 043479 17 RDIDLVVTDLHM----PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY-----ILKPLNPDDLKNVWQ 87 (534)
Q Consensus 17 ~~pDLVLLDi~m----PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy-----L~KP~s~eeL~~aI~ 87 (534)
...|.|.+..-. ....+++.++++++... +||++..+- ..+.+..++++||+.+ |.+.-++.+..+.++
T Consensus 130 ~GaD~I~~~pg~~~~~~~~~~~~~l~~l~~~~~-iPI~a~GGI-~~~n~~~~l~aGAdgv~vGsaI~~~~d~~~~~~~l~ 207 (430)
T PRK07028 130 LGVDYINVHVGIDQQMLGKDPLELLKEVSEEVS-IPIAVAGGL-DAETAAKAVAAGADIVIVGGNIIKSADVTEAARKIR 207 (430)
T ss_pred cCCCEEEEEeccchhhcCCChHHHHHHHHhhCC-CcEEEECCC-CHHHHHHHHHcCCCEEEEChHHcCCCCHHHHHHHHH
Confidence 457888765321 12456788888887644 888776655 5677888999999976 445556666666666
Q ss_pred HHHHH
Q 043479 88 YAMTY 92 (534)
Q Consensus 88 ~aL~~ 92 (534)
..+++
T Consensus 208 ~~i~~ 212 (430)
T PRK07028 208 EAIDS 212 (430)
T ss_pred HHHhc
Confidence 65543
No 354
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=42.71 E-value=1.1e+02 Score=30.88 Aligned_cols=68 Identities=10% Similarity=-0.063 Sum_probs=43.3
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCC------CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEM------NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP 76 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdm------dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP 76 (534)
.+.++.+.. ....++++ ...|+. +-.+.++++|+..++.||++=.+-.+.+.+..++++||++++.-.
T Consensus 142 ~e~l~~~~~-~~~~~l~m-sv~~~~g~~~~~~~~~~i~~lr~~~~~~~i~v~gGI~~~e~i~~~~~~gaD~vvvGS 215 (244)
T PRK13125 142 DLLIHRLSK-LSPLFIYY-GLRPATGVPLPVSVERNIKRVRNLVGNKYLVVGFGLDSPEDARDALSAGADGVVVGT 215 (244)
T ss_pred HHHHHHHHH-hCCCEEEE-EeCCCCCCCchHHHHHHHHHHHHhcCCCCEEEeCCcCCHHHHHHHHHcCCCEEEECH
Confidence 444454443 34566666 334431 224577777776666776654555577888888999999998864
No 355
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=42.45 E-value=76 Score=37.98 Aligned_cols=75 Identities=16% Similarity=0.285 Sum_probs=49.2
Q ss_pred CCceEEEEe-CCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHHh
Q 043479 17 RDIDLVVTD-LHMPEMNGIELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 17 ~~pDLVLLD-i~mPdmdGleLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~k 93 (534)
.++.|||+| +++-...+...|.++.+.. .++.+|++|. +.+.+...++.-+..|-.+++..++|...|.+++..+
T Consensus 119 ~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt--~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~E 195 (824)
T PRK07764 119 SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATT--EPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQE 195 (824)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeC--ChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHc
Confidence 357788887 4544445555443443433 3455555553 3344666777778888888999999999998887554
No 356
>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=42.33 E-value=1e+02 Score=27.47 Aligned_cols=51 Identities=16% Similarity=0.152 Sum_probs=39.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
-|+++..++++.+-.+...-.+|++.++ +|+..|..++.+-+..|..+-.+
T Consensus 17 LLT~kQ~~~l~lyy~eDlSlsEIAe~~~---iSRqaV~d~ikr~~~~L~~yE~k 67 (101)
T PF04297_consen 17 LLTEKQREILELYYEEDLSLSEIAEELG---ISRQAVYDSIKRAEKKLEEYEEK 67 (101)
T ss_dssp GS-HHHHHHHHHHCTS---HHHHHHHCT---S-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HCCHHHHHHHHHHHccCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999878888999999999 89999999999988777655433
No 357
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=42.23 E-value=59 Score=31.82 Aligned_cols=48 Identities=17% Similarity=0.140 Sum_probs=39.2
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
.|+++..+++...-.+...-++|++.|+ ++..+|..++.+-+..|++.
T Consensus 178 ~L~~~~r~vl~l~y~~~~s~~eIA~~lg---is~~~v~~~~~ra~~~Lr~~ 225 (227)
T TIGR02980 178 ALPERERRILLLRFFEDKTQSEIAERLG---ISQMHVSRLLRRALKKLREQ 225 (227)
T ss_pred cCCHHHHHHHHHHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHH
Confidence 4888888888886445556899999999 89999999998887777654
No 358
>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]
Probab=42.14 E-value=1.1e+02 Score=32.04 Aligned_cols=56 Identities=14% Similarity=0.188 Sum_probs=45.5
Q ss_pred HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 33 GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 33 GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
--+.++++|+..|..+.|-+ ..++.+...+|+++||+-.+.-.+++++++++++.+
T Consensus 174 i~~Av~~aR~~~~~~~kIEV-Evesle~~~eAl~agaDiImLDNm~~e~~~~av~~l 229 (280)
T COG0157 174 ITEAVRRARAAAPFTKKIEV-EVESLEEAEEALEAGADIIMLDNMSPEELKEAVKLL 229 (280)
T ss_pred HHHHHHHHHHhCCCCceEEE-EcCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHh
Confidence 44578888888777764443 345678889999999999999999999999999886
No 359
>TIGR02859 spore_sigH RNA polymerase sigma-H factor. Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt.
Probab=41.68 E-value=49 Score=31.26 Aligned_cols=35 Identities=17% Similarity=0.165 Sum_probs=29.7
Q ss_pred cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 181 LEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 181 lekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.+...-++|++.|+ ++..+|++++.+-|..|++..
T Consensus 163 ~~~~s~~eIA~~l~---~s~~tV~~~l~r~r~~L~~~l 197 (198)
T TIGR02859 163 LDGKSYQEIACDLN---RHVKSIDNALQRVKRKLEKYL 197 (198)
T ss_pred HcCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHhc
Confidence 45566899999999 899999999999998888754
No 360
>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=41.52 E-value=1e+02 Score=32.01 Aligned_cols=54 Identities=11% Similarity=0.200 Sum_probs=42.8
Q ss_pred HHHHHHHHhhCCC-CcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTH-LPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~-ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.++++++++..|. .+|. ...++.+.+.+++++|++-.+.-.+++++|+++++.+
T Consensus 169 ~~~v~~~k~~~p~~~~I~--VEv~tleea~~A~~~GaDiI~LDn~~~e~l~~~v~~~ 223 (273)
T PRK05848 169 KEFIQHARKNIPFTAKIE--IECESLEEAKNAMNAGADIVMCDNMSVEEIKEVVAYR 223 (273)
T ss_pred HHHHHHHHHhCCCCceEE--EEeCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 4577788877774 4433 3555788899999999999999899999999999754
No 361
>PRK08673 3-deoxy-7-phosphoheptulonate synthase; Reviewed
Probab=41.48 E-value=2.7e+02 Score=29.77 Aligned_cols=82 Identities=18% Similarity=0.261 Sum_probs=50.4
Q ss_pred HHHHHHHhcCCceEEEEeC---CCCC--CC--HHHHHHHHHhhCCCCcEEEEecCCCH------HHHHHHHHcCCcEEE-
Q 043479 8 EALATVRIQRDIDLVVTDL---HMPE--MN--GIELQKEINEEFTHLPVMVMSSDDRE------SVIMKALASGVAFYI- 73 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi---~mPd--md--GleLL~~Lr~~~p~ipVIVLSs~~d~------~~~~~AL~aGA~dyL- 73 (534)
.|.+.+......+++||.. ..+. .+ .+..+..+++.. ++|||+.+++..- .....|..+||++.+
T Consensus 218 ~A~e~i~~~GN~~viL~erG~~tf~~~~~~~ldl~ai~~lk~~~-~lPVi~d~sH~~G~~~~v~~~a~AAvA~GAdGliI 296 (335)
T PRK08673 218 MAAEYILAEGNPNVILCERGIRTFETATRNTLDLSAVPVIKKLT-HLPVIVDPSHATGKRDLVEPLALAAVAAGADGLIV 296 (335)
T ss_pred HHHHHHHHcCCCeEEEEECCCCCCCCcChhhhhHHHHHHHHHhc-CCCEEEeCCCCCccccchHHHHHHHHHhCCCEEEE
Confidence 4556665445679999985 2221 22 233455555544 5999999888754 456778899999764
Q ss_pred eCC-------------CChHHHHHHHHHHH
Q 043479 74 LKP-------------LNPDDLKNVWQYAM 90 (534)
Q Consensus 74 ~KP-------------~s~eeL~~aI~~aL 90 (534)
.|- +++++|...++.+.
T Consensus 297 E~H~~pd~alsD~~~sl~p~e~~~lv~~i~ 326 (335)
T PRK08673 297 EVHPDPEKALSDGPQSLTPEEFEELMKKLR 326 (335)
T ss_pred EecCCcccCCCcchhcCCHHHHHHHHHHHH
Confidence 442 44555655555543
No 362
>PRK02290 3-dehydroquinate synthase; Provisional
Probab=41.39 E-value=1.3e+02 Score=32.38 Aligned_cols=70 Identities=17% Similarity=0.294 Sum_probs=45.8
Q ss_pred ceEEEEeCCCCCCCHHH-HHHHHHhhCCCCcEEEEecC-CCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHH
Q 043479 19 IDLVVTDLHMPEMNGIE-LQKEINEEFTHLPVMVMSSD-DRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 19 pDLVLLDi~mPdmdGle-LL~~Lr~~~p~ipVIVLSs~-~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~ 91 (534)
.|.+|++..-...=.+| ++..+ . ....|+..... ++.......++.|+++.+.+|-++.++++....+-.
T Consensus 89 ~~~viv~~~dW~iIPlEnlIA~~-~--~~~~l~a~v~~~~eA~~a~~~LE~G~dGVvl~~~d~~ei~~~~~~~~~ 160 (344)
T PRK02290 89 VDYVIVEGRDWTIIPLENLIADL-G--QSGKIIAGVADAEEAKLALEILEKGVDGVLLDPDDPNEIKAIVALIEE 160 (344)
T ss_pred CCEEEEECCCCcEecHHHHHhhh-c--CCceEEEEeCCHHHHHHHHHHhccCCCeEEECCCCHHHHHHHHHHHhc
Confidence 47777765544333333 45555 2 23555544433 345567788999999999999999999987776643
No 363
>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=41.36 E-value=60 Score=24.08 Aligned_cols=37 Identities=22% Similarity=0.351 Sum_probs=28.4
Q ss_pred HHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 173 LQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 173 leaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
++++..+........+|++.++ +++.+|..||.+.+.
T Consensus 5 ~~Il~~L~~~~~~~~el~~~l~---~s~~~vs~hL~~L~~ 41 (47)
T PF01022_consen 5 LRILKLLSEGPLTVSELAEELG---LSQSTVSHHLKKLRE 41 (47)
T ss_dssp HHHHHHHTTSSEEHHHHHHHHT---S-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCchhhHHHhcc---ccchHHHHHHHHHHH
Confidence 4566666556677899999998 999999999987653
No 364
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=41.01 E-value=1.3e+02 Score=30.23 Aligned_cols=78 Identities=19% Similarity=0.263 Sum_probs=51.2
Q ss_pred ecCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 3 VTRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 3 ass~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
..+.++|+...+.- .-+++| ++.+..-...+.++.+++.+|++ +|=--.--+.+...++.++|+.-.+.--++++
T Consensus 21 ~~~~e~a~~~a~Ali~gGi~~I--EITl~sp~a~e~I~~l~~~~p~~-lIGAGTVL~~~q~~~a~~aGa~fiVsP~~~~e 97 (211)
T COG0800 21 GDDVEEALPLAKALIEGGIPAI--EITLRTPAALEAIRALAKEFPEA-LIGAGTVLNPEQARQAIAAGAQFIVSPGLNPE 97 (211)
T ss_pred eCCHHHHHHHHHHHHHcCCCeE--EEecCCCCHHHHHHHHHHhCccc-EEccccccCHHHHHHHHHcCCCEEECCCCCHH
Confidence 46778887765431 345555 44445556899999999998832 23233334678888999999986666556665
Q ss_pred HHH
Q 043479 81 DLK 83 (534)
Q Consensus 81 eL~ 83 (534)
-++
T Consensus 98 v~~ 100 (211)
T COG0800 98 VAK 100 (211)
T ss_pred HHH
Confidence 444
No 365
>PRK13397 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=40.90 E-value=2.1e+02 Score=29.50 Aligned_cols=73 Identities=19% Similarity=0.206 Sum_probs=43.1
Q ss_pred HHHHHHHHHhcCCceEEEEe-C----CCCC--CCHHHHHHHHHhhCCCCcEEE-EecCCCH------HHHHHHHHcCCcE
Q 043479 6 PVEALATVRIQRDIDLVVTD-L----HMPE--MNGIELQKEINEEFTHLPVMV-MSSDDRE------SVIMKALASGVAF 71 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLD-i----~mPd--mdGleLL~~Lr~~~p~ipVIV-LSs~~d~------~~~~~AL~aGA~d 71 (534)
-..|++++......+|+||. . ..+. .-.+..+..+++.. ++|||+ .| |..- .....|+.+||++
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 YLGALSYLQDTGKSNIILCERGVRGYDVETRNMLDIMAVPIIQQKT-DLPIIVDVS-HSTGRRDLLLPAAKIAKAVGANG 215 (250)
T ss_pred HHHHHHHHHHcCCCeEEEEccccCCCCCccccccCHHHHHHHHHHh-CCCeEECCC-CCCcccchHHHHHHHHHHhCCCE
Confidence 34566777654557899998 2 1111 11233445555544 589988 55 5433 5677788999997
Q ss_pred EE-eCCCChH
Q 043479 72 YI-LKPLNPD 80 (534)
Q Consensus 72 yL-~KP~s~e 80 (534)
++ .|-++++
T Consensus 216 l~IE~H~~P~ 225 (250)
T PRK13397 216 IMMEVHPDPD 225 (250)
T ss_pred EEEEecCCcc
Confidence 64 5544443
No 366
>TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393).
Probab=40.86 E-value=73 Score=32.64 Aligned_cols=52 Identities=25% Similarity=0.276 Sum_probs=43.1
Q ss_pred chhhHHHHHHHHHh----ccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 166 DSLHNRFLQAIRHI----GLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 166 ~eLh~RFleaLe~L----GlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
..|+++...++... ..+...-++|++.|+ ++..+|++++.+-+..|++....
T Consensus 221 ~~Lp~~~R~Vl~l~ygL~~~e~~s~~EIA~~Lg---is~~tVk~~l~rAlkkLr~~l~~ 276 (285)
T TIGR02394 221 AELNERQREVLARRFGLLGYEPATLEEVAAEVG---LTRERVRQIQVEALKKLRRILER 276 (285)
T ss_pred HcCCHHHHHHHHHHhCCCCCCCccHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHH
Confidence 34888888888864 366777899999999 99999999999988888887654
No 367
>PRK13586 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=40.77 E-value=1.5e+02 Score=29.82 Aligned_cols=67 Identities=6% Similarity=0.050 Sum_probs=46.2
Q ss_pred CHHHHHHHHHhcCCc-eEEEEeCCCCCC-C--HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDI-DLVVTDLHMPEM-N--GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~p-DLVLLDi~mPdm-d--GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+..|.++.+++ ..+ .+|++|+.--++ . .+++++.+++. + .++|+--+-.+.+.+.++.+.|+++.+.
T Consensus 147 ~~~e~~~~l~~-~g~~~ii~tdI~~dGt~~G~d~el~~~~~~~-~-~~viasGGv~s~~Dl~~l~~~G~~gviv 217 (232)
T PRK13586 147 EVIDGIKKVNE-LELLGIIFTYISNEGTTKGIDYNVKDYARLI-R-GLKEYAGGVSSDADLEYLKNVGFDYIIV 217 (232)
T ss_pred CHHHHHHHHHh-cCCCEEEEecccccccCcCcCHHHHHHHHhC-C-CCEEEECCCCCHHHHHHHHHCCCCEEEE
Confidence 55677777765 344 799999976653 3 35678887764 4 3566544556667788888899998875
No 368
>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=40.74 E-value=37 Score=28.46 Aligned_cols=44 Identities=25% Similarity=0.374 Sum_probs=29.6
Q ss_pred CccCCchhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHH
Q 043479 161 KVAWTDSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQK 209 (534)
Q Consensus 161 rv~Wt~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQK 209 (534)
|+.|.+++.+.-+.....+ +...-++|++.|+ +|..+|++|+.+
T Consensus 12 ~l~~l~~~~r~af~L~R~~--eGlS~kEIAe~LG---IS~~TVk~~l~~ 55 (73)
T TIGR03879 12 RLTWVDSLAEAAAALAREE--AGKTASEIAEELG---RTEQTVRNHLKG 55 (73)
T ss_pred HHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHC---cCHHHHHHHHhc
Confidence 4555555444444433222 4455899999999 999999999875
No 369
>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=40.59 E-value=1.3e+02 Score=31.68 Aligned_cols=78 Identities=14% Similarity=0.134 Sum_probs=47.5
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE-eCCCChHHHH
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI-LKPLNPDDLK 83 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL-~KP~s~eeL~ 83 (534)
+.++|++.++.-...++.+++--++. +.++.++.|++.. .+||++--+..+...+.++++.++.+++ .|+...--|.
T Consensus 201 ~~~~a~~~~~~l~~~~i~~iEqP~~~-~~~~~~~~l~~~~-~ipi~~dE~~~~~~~~~~~i~~~~~d~v~~k~~~~GGi~ 278 (357)
T cd03316 201 DLAEAIRLARALEEYDLFWFEEPVPP-DDLEGLARLRQAT-SVPIAAGENLYTRWEFRDLLEAGAVDIIQPDVTKVGGIT 278 (357)
T ss_pred CHHHHHHHHHHhCccCCCeEcCCCCc-cCHHHHHHHHHhC-CCCEEeccccccHHHHHHHHHhCCCCEEecCccccCCHH
Confidence 56677776654334555555543332 3466677777664 3787664455567788888888877776 6665443333
Q ss_pred H
Q 043479 84 N 84 (534)
Q Consensus 84 ~ 84 (534)
.
T Consensus 279 ~ 279 (357)
T cd03316 279 E 279 (357)
T ss_pred H
Confidence 3
No 370
>PRK05742 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=40.58 E-value=1.4e+02 Score=31.11 Aligned_cols=66 Identities=18% Similarity=0.144 Sum_probs=45.0
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+++.+.+|+.+.+.. .+|+|.+|-. +.+.++++.+. .+.+|++ .++--+.+.+.+..+.|++.+-.
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 357788998888864 6999999843 34445554442 2456655 45556777788888999987743
No 371
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=40.56 E-value=61 Score=33.01 Aligned_cols=48 Identities=19% Similarity=0.125 Sum_probs=39.0
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
.|.++..+++...-.+...-++|++.|+ +|..+|..++.+-+..|++.
T Consensus 215 ~L~~rer~vl~l~y~~~~t~~EIA~~lg---is~~~V~~~~~ral~kLr~~ 262 (264)
T PRK07122 215 ALPERERTVLVLRFFESMTQTQIAERVG---ISQMHVSRLLAKTLARLRDQ 262 (264)
T ss_pred cCCHHHHHHHHHHhcCCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHH
Confidence 3778888888887556666899999998 89999999988887777764
No 372
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=40.39 E-value=1.5e+02 Score=27.57 Aligned_cols=51 Identities=16% Similarity=0.177 Sum_probs=31.6
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCC
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDD 56 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~ 56 (534)
+..|.++++.+.....+|++-++ .-.|+-+|++.+++.....|||++-.-.
T Consensus 41 ~~~d~l~~~~~D~~t~~I~ly~E-~~~d~~~f~~~~~~a~~~KPVv~lk~Gr 91 (138)
T PF13607_consen 41 DFADLLEYLAEDPDTRVIVLYLE-GIGDGRRFLEAARRAARRKPVVVLKAGR 91 (138)
T ss_dssp -HHHHHHHHCT-SS--EEEEEES---S-HHHHHHHHHHHCCCS-EEEEE---
T ss_pred CHHHHHHHHhcCCCCCEEEEEcc-CCCCHHHHHHHHHHHhcCCCEEEEeCCC
Confidence 56788999876444677777665 3356889999999877668999886654
No 373
>TIGR01588 citE citrate lyase, beta subunit. This is a model of the beta subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The beta subunit catalyzes the reaction (3S)-citryl-CoA = acetyl-CoA + oxaloacetate. The seed contains an experimentally characterized member from Leuconostoc mesenteroides. The model covers a wide range of Gram positive bacteria. For Gram negative bacteria, it appears that only gamma proteobacteria hit this model. The model is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in-between the noise cutoff and trusted cutoff.
Probab=40.35 E-value=2.4e+02 Score=29.23 Aligned_cols=81 Identities=14% Similarity=0.079 Sum_probs=48.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCC--CHHH----HHHHHHhhC-CCCcEEEEecCCCH----HHHHHHHHcCCcEEE-eC
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEM--NGIE----LQKEINEEF-THLPVMVMSSDDRE----SVIMKALASGVAFYI-LK 75 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdm--dGle----LL~~Lr~~~-p~ipVIVLSs~~d~----~~~~~AL~aGA~dyL-~K 75 (534)
+.++.... ..+|.|++|++-.-. +--+ +...|+... ....++|=....+. ..+..++..|+++++ +|
T Consensus 15 ~~~~ka~~-~gaD~vilDLEDav~~~~k~~AR~~v~~~l~~~~~~~~~~~VRIn~~~~~~~~~di~~~l~~g~~givlPK 93 (288)
T TIGR01588 15 AMISDAFI-YGADSVMFDLEDAVSLAEKDSARLLVYEALQTPDYGDTETVVRINGLDTPFGLADIKAVVKAGVDVVRLPK 93 (288)
T ss_pred HHHHhhhh-cCCCEEEEecccCCCcchHHHHHHHHHHHHhccCCCCCEEEEEECCCCChhHHHHHHHHHhcCCCEEEeCC
Confidence 33444433 579999999976432 3333 334443322 22445554444443 567778889998875 77
Q ss_pred CCChHHHHHHHHHH
Q 043479 76 PLNPDDLKNVWQYA 89 (534)
Q Consensus 76 P~s~eeL~~aI~~a 89 (534)
--+.+++..+...+
T Consensus 94 v~s~~~v~~~~~~l 107 (288)
T TIGR01588 94 TDTAEDIHELEKLI 107 (288)
T ss_pred CCCHHHHHHHHHHH
Confidence 77777777665444
No 374
>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=40.30 E-value=1.7e+02 Score=29.03 Aligned_cols=66 Identities=15% Similarity=0.261 Sum_probs=44.9
Q ss_pred HHHHHHHHhcCCce-EEEEeCCC---CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHc-CCcEEEe
Q 043479 7 VEALATVRIQRDID-LVVTDLHM---PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALAS-GVAFYIL 74 (534)
Q Consensus 7 ~EALe~L~~~~~pD-LVLLDi~m---PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~a-GA~dyL~ 74 (534)
.+..+.+.+ ..+| +++.++.- ...-.+++++++++.. .+|||+.-...+.+.+.++++. |+++.+.
T Consensus 152 ~~~~~~l~~-~G~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~-~~pvia~GGi~~~~di~~~l~~~g~dgv~v 222 (243)
T cd04731 152 VEWAKEVEE-LGAGEILLTSMDRDGTKKGYDLELIRAVSSAV-NIPVIASGGAGKPEHFVEAFEEGGADAALA 222 (243)
T ss_pred HHHHHHHHH-CCCCEEEEeccCCCCCCCCCCHHHHHHHHhhC-CCCEEEeCCCCCHHHHHHHHHhCCCCEEEE
Confidence 344455554 5677 55545432 1123467888887754 5999988888888999999987 8988765
No 375
>cd01572 QPRTase 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=40.27 E-value=96 Score=31.96 Aligned_cols=54 Identities=13% Similarity=0.244 Sum_probs=41.6
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
..++.+|+..+...+|.++.+. .+.+.++.+.||+.+..-|+.+++|.+++..+
T Consensus 170 ~~v~~~r~~~~~~~~Igvev~s-~eea~~A~~~gaDyI~ld~~~~e~l~~~~~~~ 223 (268)
T cd01572 170 EAVRRARAAAPFTLKIEVEVET-LEQLKEALEAGADIIMLDNMSPEELREAVALL 223 (268)
T ss_pred HHHHHHHHhCCCCCeEEEEECC-HHHHHHHHHcCCCEEEECCcCHHHHHHHHHHc
Confidence 3567777777655566677664 56678899999998889999999998888754
No 376
>cd00429 RPE Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose phosphate pathway. In the Calvin cycle Ru5P is phosphorylated by phosphoribulose kinase to ribulose-1,5-bisphosphate, which in turn is used by RubisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) to incorporate CO2 as the central step in carbohydrate synthesis.
Probab=40.22 E-value=2.9e+02 Score=26.17 Aligned_cols=80 Identities=20% Similarity=0.262 Sum_probs=46.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCC----CCC-CHHHHHHHHHhhCCCCcE--EEEecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 7 VEALATVRIQRDIDLVVTDLHM----PEM-NGIELQKEINEEFTHLPV--MVMSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~m----Pdm-dGleLL~~Lr~~~p~ipV--IVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.++++.+.+ ...|.|=+|+.- +.. -+++++++|++.. ..++ -+++. +....+..+.++|+++.+.--...
T Consensus 15 ~~~~~~~~~-~G~~~i~l~~~d~~~~~~~~~~~~~~~~i~~~~-~~~~~v~l~~~-d~~~~~~~~~~~g~dgv~vh~~~~ 91 (211)
T cd00429 15 GEELKRLEE-AGADWIHIDVMDGHFVPNLTFGPPVVKALRKHT-DLPLDVHLMVE-NPERYIEAFAKAGADIITFHAEAT 91 (211)
T ss_pred HHHHHHHHH-cCCCEEEEecccCCCCCccccCHHHHHHHHhhC-CCcEEEEeeeC-CHHHHHHHHHHcCCCEEEECccch
Confidence 344555554 457777765421 111 3568899998765 3443 24443 334567778899999976654444
Q ss_pred HHHHHHHHHH
Q 043479 80 DDLKNVWQYA 89 (534)
Q Consensus 80 eeL~~aI~~a 89 (534)
++....++.+
T Consensus 92 ~~~~~~~~~~ 101 (211)
T cd00429 92 DHLHRTIQLI 101 (211)
T ss_pred hhHHHHHHHH
Confidence 5555554444
No 377
>PF13941 MutL: MutL protein
Probab=40.11 E-value=2.2e+02 Score=31.82 Aligned_cols=88 Identities=14% Similarity=0.139 Sum_probs=57.9
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCCC---HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHH-cCCcEEEeCCC-----
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEMN---GIELQKEINEEFTHLPVMVMSSDDRESVIMKALA-SGVAFYILKPL----- 77 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdmd---GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~-aGA~dyL~KP~----- 77 (534)
++-++.|++ .+||+||+-=-..+.+ .++..+.|.+....+|||+-....-.+.+.+.+. .+..-++...+
T Consensus 114 ~~~l~~i~~-~~PDiILLaGGtDgG~~~~il~nA~~La~~~~~~pVIyAGN~~a~~~v~~il~~~~~~~~~~~NV~P~i~ 192 (457)
T PF13941_consen 114 EEDLEEIRE-IRPDIILLAGGTDGGNKEVILHNAEMLAEANLRIPVIYAGNKAAQDEVEEILEKAGKEVVITENVMPKID 192 (457)
T ss_pred HHHHHHHhc-cCCCEEEEeCCccCCchHHHHHHHHHHHhCCCCCcEEEECCHHHHHHHHHHHHhCCCCEEEeCCCCCCCC
Confidence 455677776 7899999942222222 2556666666666789887777666777888888 66666665533
Q ss_pred --ChHHHHHHHHHHHHHhhh
Q 043479 78 --NPDDLKNVWQYAMTYKKA 95 (534)
Q Consensus 78 --s~eeL~~aI~~aL~~k~~ 95 (534)
.++-.+++|+.+..++-.
T Consensus 193 ~ln~~paR~~I~~~F~~~Ii 212 (457)
T PF13941_consen 193 VLNVEPAREAIREVFLRHII 212 (457)
T ss_pred CcChHHHHHHHHHHHHHHHh
Confidence 456677788777655443
No 378
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=40.03 E-value=74 Score=32.89 Aligned_cols=51 Identities=22% Similarity=0.188 Sum_probs=41.3
Q ss_pred hhhHHHHHHHHHh--ccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q 043479 167 SLHNRFLQAIRHI--GLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQ 220 (534)
Q Consensus 167 eLh~RFleaLe~L--GlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~ 220 (534)
.|.++..+++... ..+...-++|++.|+ +|+++|+.++.+-+..|+.....
T Consensus 227 ~L~~rer~vl~lr~~~~~~~t~~EIa~~lg---vs~~~V~q~~~~Al~kLr~~l~~ 279 (289)
T PRK07500 227 TLNERELRIIRERRLREDGATLEALGEELG---ISKERVRQIEARALEKLRRALLS 279 (289)
T ss_pred cCCHHHHHHHHHHhcCCCCCCHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHh
Confidence 4888888888885 235566899999999 99999999999888888776553
No 379
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) 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. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=39.83 E-value=1.1e+02 Score=31.18 Aligned_cols=40 Identities=10% Similarity=0.268 Sum_probs=33.2
Q ss_pred HHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 34 IELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 34 leLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
++.++++++..+ ++|||....-.+.+.+.+++.+||+.+.
T Consensus 230 ~~~v~~i~~~~~~~ipiia~GGI~~~~da~~~l~~GAd~V~ 270 (289)
T cd02810 230 LRWVARLAARLQLDIPIIGVGGIDSGEDVLEMLMAGASAVQ 270 (289)
T ss_pred HHHHHHHHHhcCCCCCEEEECCCCCHHHHHHHHHcCccHhe
Confidence 567788887765 7999999999999999999999987653
No 380
>TIGR03569 NeuB_NnaB N-acetylneuraminate synthase. This family is a subset of the Pfam model pfam03102 and is believed to include only authentic NeuB N-acetylneuraminate (sialic acid) synthase enzymes. The majority of the genes identified by this model are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine.
Probab=39.82 E-value=2.4e+02 Score=30.12 Aligned_cols=86 Identities=24% Similarity=0.287 Sum_probs=55.4
Q ss_pred CHHHHHHHHHhcCCc--eEEEEeCCC--C---CCCHHHHHHHHHhhCCCCcEEEEecCCCH-HHHHHHHHcCCcEEEeCC
Q 043479 5 RPVEALATVRIQRDI--DLVVTDLHM--P---EMNGIELQKEINEEFTHLPVMVMSSDDRE-SVIMKALASGVAFYILKP 76 (534)
Q Consensus 5 s~~EALe~L~~~~~p--DLVLLDi~m--P---dmdGleLL~~Lr~~~p~ipVIVLSs~~d~-~~~~~AL~aGA~dyL~KP 76 (534)
..++|++.++..... +|+|+-+.. | ..--+..+..|++.+. +||.+ |++... .....|..+||+ +|.|-
T Consensus 147 Ei~~Av~~i~~~G~~~~~i~llhC~s~YP~~~~~~nL~~I~~Lk~~f~-~pVG~-SdHt~G~~~~~aAvalGA~-iIEkH 223 (329)
T TIGR03569 147 EIEAAVGVLRDAGTPDSNITLLHCTTEYPAPFEDVNLNAMDTLKEAFD-LPVGY-SDHTLGIEAPIAAVALGAT-VIEKH 223 (329)
T ss_pred HHHHHHHHHHHcCCCcCcEEEEEECCCCCCCcccCCHHHHHHHHHHhC-CCEEE-CCCCccHHHHHHHHHcCCC-EEEeC
Confidence 345677888753334 488866543 2 2335677888888774 88775 766543 445668889999 77773
Q ss_pred ---------------CChHHHHHHHHHHHHHh
Q 043479 77 ---------------LNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 77 ---------------~s~eeL~~aI~~aL~~k 93 (534)
+++++|.+.++.+..-+
T Consensus 224 ~tldk~~~G~D~~~Sl~p~el~~lv~~ir~~~ 255 (329)
T TIGR03569 224 FTLDKNLPGPDHKASLEPDELKEMVQGIRNVE 255 (329)
T ss_pred CChhhcCCCCChhhcCCHHHHHHHHHHHHHHH
Confidence 44677777776664433
No 381
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=39.79 E-value=1.3e+02 Score=31.57 Aligned_cols=55 Identities=15% Similarity=0.155 Sum_probs=41.4
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++.+|+..+....|.+.. ++.+.+.+++++||+.+..-++++++|++++..+
T Consensus 183 ~~av~~~r~~~~~~~~I~VEv-~tleea~eA~~~GaD~I~LDn~~~e~l~~av~~~ 237 (288)
T PRK07428 183 GEAITRIRQRIPYPLTIEVET-ETLEQVQEALEYGADIIMLDNMPVDLMQQAVQLI 237 (288)
T ss_pred HHHHHHHHHhCCCCCEEEEEC-CCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHH
Confidence 356667777666434454444 4667778999999999999999999999999754
No 382
>PRK13307 bifunctional formaldehyde-activating enzyme/3-hexulose-6-phosphate synthase; Provisional
Probab=39.58 E-value=1.1e+02 Score=33.31 Aligned_cols=87 Identities=14% Similarity=0.110 Sum_probs=57.7
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEE--EecCCCHHHHHHHHHcCCcEEEeCCCCh
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP--EMNGIELQKEINEEFTHLPVMV--MSSDDRESVIMKALASGVAFYILKPLNP 79 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP--dmdGleLL~~Lr~~~p~ipVIV--LSs~~d~~~~~~AL~aGA~dyL~KP~s~ 79 (534)
.+.++|++.+++-...++.++.+-+| -.-|.++++.|++..++.+|++ .+.......+..+.++||+.+..-....
T Consensus 182 ~~~~~A~~i~~~l~~~~~~~iKvG~~L~~~~G~~iVk~Lr~~~~~~~I~~DLK~~Di~~~vv~~~a~aGAD~vTVH~ea~ 261 (391)
T PRK13307 182 PDLEEVERVLSQLPKSDHIIIEAGTPLIKKFGLEVISKIREVRPDAFIVADLKTLDTGNLEARMAADATADAVVISGLAP 261 (391)
T ss_pred CCHHHHHHHHHhcccccceEEEECHHHHHHhCHHHHHHHHHhCCCCeEEEEecccChhhHHHHHHHhcCCCEEEEeccCC
Confidence 47889999988732334566777666 3457899999998877766653 2333333335678899999888776544
Q ss_pred H-HHHHHHHHHH
Q 043479 80 D-DLKNVWQYAM 90 (534)
Q Consensus 80 e-eL~~aI~~aL 90 (534)
. .+..+++.+.
T Consensus 262 ~~ti~~ai~~ak 273 (391)
T PRK13307 262 ISTIEKAIHEAQ 273 (391)
T ss_pred HHHHHHHHHHHH
Confidence 3 4666665553
No 383
>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=38.83 E-value=97 Score=32.54 Aligned_cols=54 Identities=11% Similarity=0.075 Sum_probs=42.0
Q ss_pred HHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++++|+..| ..+|.| ..++.+.+.+++++||+-.+.-.++++++++++..+
T Consensus 184 ~~av~~~r~~~~~~~kIeV--Ev~tleea~~a~~agaDiImLDnmspe~l~~av~~~ 238 (290)
T PRK06559 184 QKAIAQARAYAPFVKMVEV--EVESLAAAEEAAAAGADIIMLDNMSLEQIEQAITLI 238 (290)
T ss_pred HHHHHHHHHhCCCCCeEEE--ECCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 456777777766 344443 335678889999999999999999999999999754
No 384
>PF02001 DUF134: Protein of unknown function DUF134; InterPro: IPR002852 The bacterial and archaeal proteins in this family have no known function.
Probab=38.81 E-value=1e+02 Score=27.73 Aligned_cols=54 Identities=22% Similarity=0.202 Sum_probs=44.7
Q ss_pred chhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhhhc
Q 043479 166 DSLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVAEQGA 222 (534)
Q Consensus 166 ~eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a~~~~ 222 (534)
..|+-.++|++.+...+...-.+-++.|+ +|+.|+-..|..-|..+......++
T Consensus 40 V~L~~dElEAiRL~D~egl~QeeaA~~Mg---VSR~T~~ril~~ARkKiA~ALv~Gk 93 (106)
T PF02001_consen 40 VVLTVDELEAIRLVDYEGLSQEEAAERMG---VSRPTFQRILESARKKIADALVEGK 93 (106)
T ss_pred EEeeHHHHHHHHHHHHcCCCHHHHHHHcC---CcHHHHHHHHHHHHHHHHHHHHCCC
Confidence 45888999999999888888899999999 8999999999888875555555554
No 385
>TIGR00078 nadC nicotinate-nucleotide pyrophosphorylase. Synonym: quinolinate phosphoribosyltransferase (decarboxylating)
Probab=38.77 E-value=1.4e+02 Score=30.83 Aligned_cols=66 Identities=20% Similarity=0.123 Sum_probs=45.6
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+++.+.+|+++.++ ..+|.|.+|-.-| +-++++.+.. ..+|| +.++--+.+.+....+.|++.+-.
T Consensus 183 vev~t~eea~~A~~--~gaDyI~ld~~~~-----e~lk~~v~~~~~~ipi-~AsGGI~~~ni~~~a~~Gvd~Isv 249 (265)
T TIGR00078 183 VEVESLEEAEEAAE--AGADIIMLDNMKP-----EEIKEAVQLLKGRVLL-EASGGITLDNLEEYAETGVDVISS 249 (265)
T ss_pred EEeCCHHHHHHHHH--cCCCEEEECCCCH-----HHHHHHHHHhcCCCcE-EEECCCCHHHHHHHHHcCCCEEEe
Confidence 36788999998876 4689999986444 3444444322 23665 456666788888889999988754
No 386
>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=38.63 E-value=1.8e+02 Score=27.94 Aligned_cols=79 Identities=16% Similarity=0.165 Sum_probs=50.9
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.+.+++++.++.- ..+++|-+++. ..+..+.++.+++.++++.|- ...-.+.+.+..++.+|++.+.. |-...+
T Consensus 13 ~~~~~~~~~~~~l~~~G~~~vev~~~--~~~~~~~i~~l~~~~~~~~iG-ag~v~~~~~~~~a~~~Ga~~i~~-p~~~~~ 88 (190)
T cd00452 13 DDAEDALALAEALIEGGIRAIEITLR--TPGALEAIRALRKEFPEALIG-AGTVLTPEQADAAIAAGAQFIVS-PGLDPE 88 (190)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEEeCC--ChhHHHHHHHHHHHCCCCEEE-EEeCCCHHHHHHHHHcCCCEEEc-CCCCHH
Confidence 3455555544331 46788877765 445888999999988765433 33344567788999999987754 555455
Q ss_pred HHHHH
Q 043479 82 LKNVW 86 (534)
Q Consensus 82 L~~aI 86 (534)
+.++.
T Consensus 89 ~~~~~ 93 (190)
T cd00452 89 VVKAA 93 (190)
T ss_pred HHHHH
Confidence 44443
No 387
>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=38.63 E-value=56 Score=28.36 Aligned_cols=48 Identities=23% Similarity=0.290 Sum_probs=31.1
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCC-CHHHHHHHHHhhCC-CCcEEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEM-NGIELQKEINEEFT-HLPVMVMS 53 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdm-dGleLL~~Lr~~~p-~ipVIVLS 53 (534)
..++.++.+.+ .+||+|.+...+... ..++.+..+++..| +++|++--
T Consensus 38 ~~~~~~~~i~~-~~pdiV~iS~~~~~~~~~~~~~~~~~~~~p~~~~ivvGG 87 (125)
T cd02065 38 PPEEIVEAAKE-EDADVVGLSALSTTHMEAMKLVIEALKELGIDIPVVVGG 87 (125)
T ss_pred CHHHHHHHHHH-cCCCEEEEecchHhHHHHHHHHHHHHHhcCCCCeEEEeC
Confidence 34555666665 678888888766542 35566677777776 66665543
No 388
>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=38.57 E-value=1.6e+02 Score=30.35 Aligned_cols=68 Identities=19% Similarity=0.144 Sum_probs=45.7
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHH-HHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIE-LQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGle-LL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+.+.+|+.+.+.. .+|+|.+|-.-|+ .+. +++.++.. +++| |+.++--+.+.+.+..+.||+.+..
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--GADIIMLDNMSPE--ELKEAVKLLKGL-PRVL-LEASGGITLENIRAYAETGVDVIST 254 (269)
T ss_pred EecCCHHHHHHHHHc--CCCEEEECCCCHH--HHHHHHHHhccC-CCeE-EEEECCCCHHHHHHHHHcCCCEEEE
Confidence 356788999888864 5899999975541 121 23333322 4565 4556667788888899999998753
No 389
>PLN02716 nicotinate-nucleotide diphosphorylase (carboxylating)
Probab=38.52 E-value=1.8e+02 Score=30.87 Aligned_cols=70 Identities=14% Similarity=0.032 Sum_probs=46.1
Q ss_pred CeecCHHHHHHHHH------hcCCceEEEEeCC--CCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCC
Q 043479 1 VTVTRPVEALATVR------IQRDIDLVVTDLH--MPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGV 69 (534)
Q Consensus 1 vtass~~EALe~L~------~~~~pDLVLLDi~--mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA 69 (534)
|++.+.+|+.+.+. . .+|+|++|=. -|+ .+--++-+.+..... ...|-.|+--+.+.+.+....|+
T Consensus 208 VEv~tleea~ea~~~~~~~~a--gaDiImLDnm~~~~~~~~~~~e~l~~av~~~~~-~~~lEaSGGIt~~ni~~yA~tGV 284 (308)
T PLN02716 208 VETRTLEEVKEVLEYLSDTKT--SLTRVMLDNMVVPLENGDVDVSMLKEAVELING-RFETEASGNVTLDTVHKIGQTGV 284 (308)
T ss_pred EEECCHHHHHHHHHhcccccC--CCCEEEeCCCcccccccCCCHHHHHHHHHhhCC-CceEEEECCCCHHHHHHHHHcCC
Confidence 46788999999887 4 5899999954 121 133333333332222 33477788888888888888898
Q ss_pred cEEE
Q 043479 70 AFYI 73 (534)
Q Consensus 70 ~dyL 73 (534)
+-+.
T Consensus 285 D~Is 288 (308)
T PLN02716 285 TYIS 288 (308)
T ss_pred CEEE
Confidence 7653
No 390
>PRK09283 delta-aminolevulinic acid dehydratase; Validated
Probab=38.51 E-value=1e+02 Score=32.91 Aligned_cols=64 Identities=23% Similarity=0.399 Sum_probs=49.3
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF 71 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d 71 (534)
.+..||++.+... +.-|+|++- |.+.-+++++.+++.++ +||.+.-...+-..+..|.+.|..+
T Consensus 225 ~n~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~~-~PvaaYqVSGEYaMikaAa~~G~~D 290 (323)
T PRK09283 225 ANRREALREVALDIEEGADMVMVK---PALPYLDIIRRVKDEFN-LPVAAYQVSGEYAMIKAAAQNGWID 290 (323)
T ss_pred CCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHhcCC-CCEEEEEccHHHHHHHHHHHcCCCC
Confidence 4677888776553 468999886 77888999999999875 9999888777666666677777553
No 391
>PRK07107 inosine 5-monophosphate dehydrogenase; Validated
Probab=38.45 E-value=1.4e+02 Score=33.74 Aligned_cols=56 Identities=14% Similarity=0.112 Sum_probs=38.9
Q ss_pred CCceEEEEeCCCCCCC--HHHHHHHHHhhCCCCcEEE-EecCCCHHHHHHHHHcCCcEEEe
Q 043479 17 RDIDLVVTDLHMPEMN--GIELQKEINEEFTHLPVMV-MSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmd--GleLL~~Lr~~~p~ipVIV-LSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
..+|+|++| .-++-+ -++.+++|++.++. ++.+ ...-.+.+.+..++++||+.+.+
T Consensus 253 aGvd~i~vd-~a~g~~~~~~~~i~~ir~~~~~-~~~V~aGnV~t~e~a~~li~aGAd~I~v 311 (502)
T PRK07107 253 AGADVLCID-SSEGYSEWQKRTLDWIREKYGD-SVKVGAGNVVDREGFRYLAEAGADFVKV 311 (502)
T ss_pred hCCCeEeec-CcccccHHHHHHHHHHHHhCCC-CceEEeccccCHHHHHHHHHcCCCEEEE
Confidence 469999999 444432 37889999988873 2333 33345667788899999998744
No 392
>PRK14024 phosphoribosyl isomerase A; Provisional
Probab=38.44 E-value=2.4e+02 Score=28.22 Aligned_cols=78 Identities=19% Similarity=0.143 Sum_probs=51.4
Q ss_pred HHHHHHHHHhcCCc-eEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHH---cCCcEEEe----
Q 043479 6 PVEALATVRIQRDI-DLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALA---SGVAFYIL---- 74 (534)
Q Consensus 6 ~~EALe~L~~~~~p-DLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~---aGA~dyL~---- 74 (534)
..+.++.+.+ ... .+++.|+..-+ ...+++++++++.. .+|||.-....+.+.+.++.+ .||++.+.
T Consensus 148 ~~~~~~~l~~-~G~~~iiv~~~~~~g~~~G~d~~~i~~i~~~~-~ipviasGGi~s~~D~~~l~~~~~~GvdgV~igra~ 225 (241)
T PRK14024 148 LWEVLERLDS-AGCSRYVVTDVTKDGTLTGPNLELLREVCART-DAPVVASGGVSSLDDLRALAELVPLGVEGAIVGKAL 225 (241)
T ss_pred HHHHHHHHHh-cCCCEEEEEeecCCCCccCCCHHHHHHHHhhC-CCCEEEeCCCCCHHHHHHHhhhccCCccEEEEeHHH
Confidence 3455566655 344 47888875432 22478888888764 589988777778777777653 48998754
Q ss_pred --CCCChHHHHHH
Q 043479 75 --KPLNPDDLKNV 85 (534)
Q Consensus 75 --KP~s~eeL~~a 85 (534)
.+++.++++..
T Consensus 226 ~~g~~~~~~~~~~ 238 (241)
T PRK14024 226 YAGAFTLPEALAV 238 (241)
T ss_pred HcCCCCHHHHHHH
Confidence 45666666544
No 393
>cd00945 Aldolase_Class_I Class I aldolases. The class I aldolases use an active-site lysine which stablilzes a reaction intermediates via Schiff base formation, and have TIM beta/alpha barrel fold. The members of this family include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-4-hydroxyglutarate (KHG) aldolases, transaldolase, dihydrodipicolinate synthase sub-family, Type I 3-dehydroquinate dehydratase, DeoC and DhnA proteins, and metal-independent fructose-1,6-bisphosphate aldolase. Although structurally similar, the class II aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=38.13 E-value=2.9e+02 Score=25.57 Aligned_cols=76 Identities=8% Similarity=0.039 Sum_probs=47.6
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCC--CCcEEEEecCCC--------HHHHHHHHHcCCcEEEeCC
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFT--HLPVMVMSSDDR--------ESVIMKALASGVAFYILKP 76 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p--~ipVIVLSs~~d--------~~~~~~AL~aGA~dyL~KP 76 (534)
++.++.+.+ ..+|-|++-- ++++.+++... .+||++-.+... .+.+.++.+.||+..+.-|
T Consensus 16 ~~~~~~~~~-~gv~gi~~~g--------~~i~~~~~~~~~~~~~v~~~v~~~~~~~~~~~~~~~a~~a~~~Gad~i~v~~ 86 (201)
T cd00945 16 AKLCDEAIE-YGFAAVCVNP--------GYVRLAADALAGSDVPVIVVVGFPTGLTTTEVKVAEVEEAIDLGADEIDVVI 86 (201)
T ss_pred HHHHHHHHH-hCCcEEEECH--------HHHHHHHHHhCCCCCeEEEEecCCCCCCcHHHHHHHHHHHHHcCCCEEEEec
Confidence 344455444 4577777652 77887776554 488877665543 2456778899999987653
Q ss_pred -CC------hHHHHHHHHHHHH
Q 043479 77 -LN------PDDLKNVWQYAMT 91 (534)
Q Consensus 77 -~s------~eeL~~aI~~aL~ 91 (534)
+. .+++.+.++.+.+
T Consensus 87 ~~~~~~~~~~~~~~~~~~~i~~ 108 (201)
T cd00945 87 NIGSLKEGDWEEVLEEIAAVVE 108 (201)
T ss_pred cHHHHhCCCHHHHHHHHHHHHH
Confidence 21 3555666655554
No 394
>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=37.86 E-value=95 Score=32.33 Aligned_cols=55 Identities=18% Similarity=0.210 Sum_probs=42.8
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~ 91 (534)
+.++.+|...|..+|.| ..++.+.+.+++++|++-.+.--++++++++++..+..
T Consensus 171 ~av~~~r~~~~~~kIeV--Ev~~leea~~a~~agaDiI~LDn~~~e~l~~~v~~l~~ 225 (278)
T PRK08385 171 EAIRRAKEFSVYKVVEV--EVESLEDALKAAKAGADIIMLDNMTPEEIREVIEALKR 225 (278)
T ss_pred HHHHHHHHhCCCCcEEE--EeCCHHHHHHHHHcCcCEEEECCCCHHHHHHHHHHHHh
Confidence 45666777777777544 33467888999999999998989999999999987643
No 395
>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=37.77 E-value=2e+02 Score=29.73 Aligned_cols=69 Identities=25% Similarity=0.271 Sum_probs=50.0
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCC-----CCCCHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHM-----PEMNGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~m-----PdmdGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.+.++|....+ ..+|.|.+.-+- .+...++++.++++..+ ++|||.-.+-.+...+.+++.+||+.+..
T Consensus 181 ~s~~~a~~a~~--~G~d~I~v~~~gG~~~~~g~~~~~~l~~i~~~~~~~ipvia~GGI~~~~d~~kal~lGAd~V~i 255 (299)
T cd02809 181 LTPEDALRAVD--AGADGIVVSNHGGRQLDGAPATIDALPEIVAAVGGRIEVLLDGGIRRGTDVLKALALGADAVLI 255 (299)
T ss_pred CCHHHHHHHHH--CCCCEEEEcCCCCCCCCCCcCHHHHHHHHHHHhcCCCeEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence 35566655544 468888775432 12346778888876543 69999988888999999999999999864
No 396
>PF00534 Glycos_transf_1: Glycosyl transferases group 1; InterPro: IPR001296 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Proteins containign this domain transfer UDP, ADP, GDP or CMP linked sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. The bacterial enzymes are involved in various biosynthetic processes that include exopolysaccharide biosynthesis, lipopolysaccharide core biosynthesis and the biosynthesis of the slime polysaccaride colanic acid. Mutations in this domain of the human N-acetylglucosaminyl-phosphatidylinositol biosynthetic protein are the cause of paroxysmal nocturnal hemoglobinuria (PNH), an acquired hemolytic blood disorder characterised by venous thrombosis, erythrocyte hemolysis, infections and defective hematopoiesis.; GO: 0009058 biosynthetic process; PDB: 2L7C_A 2IV3_B 2IUY_B 2XA9_A 2XA1_B 2X6R_A 2XMP_B 2XA2_B 2X6Q_A 3QHP_B ....
Probab=37.72 E-value=2.7e+02 Score=25.03 Aligned_cols=76 Identities=17% Similarity=0.185 Sum_probs=50.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHH
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVW 86 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI 86 (534)
++..++++. .|++|+=... +.-|..+++.+.. .+|||+ +.. ....+.+..+..+++..+.+.+++.++|
T Consensus 84 ~~l~~~~~~---~di~v~~s~~-e~~~~~~~Ea~~~---g~pvI~-~~~---~~~~e~~~~~~~g~~~~~~~~~~l~~~i 152 (172)
T PF00534_consen 84 DELDELYKS---SDIFVSPSRN-EGFGLSLLEAMAC---GCPVIA-SDI---GGNNEIINDGVNGFLFDPNDIEELADAI 152 (172)
T ss_dssp HHHHHHHHH---TSEEEE-BSS-BSS-HHHHHHHHT---T-EEEE-ESS---THHHHHSGTTTSEEEESTTSHHHHHHHH
T ss_pred ccccccccc---ceeccccccc-ccccccccccccc---ccceee-ccc---cCCceeeccccceEEeCCCCHHHHHHHH
Confidence 355555554 5777775444 4556667776653 366653 332 3345667788899999999999999999
Q ss_pred HHHHHHh
Q 043479 87 QYAMTYK 93 (534)
Q Consensus 87 ~~aL~~k 93 (534)
.+++...
T Consensus 153 ~~~l~~~ 159 (172)
T PF00534_consen 153 EKLLNDP 159 (172)
T ss_dssp HHHHHHH
T ss_pred HHHHCCH
Confidence 9998765
No 397
>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=37.67 E-value=1.3e+02 Score=30.79 Aligned_cols=59 Identities=19% Similarity=0.187 Sum_probs=44.5
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe-----CCCChHHHHHHHHHHHHHh
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL-----KPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~-----KP~s~eeL~~aI~~aL~~k 93 (534)
...++.|++.. ++|||+=.+-..+..+..+++.|+++.|. |--++..+.++.+.+..-.
T Consensus 164 ~~~l~~i~~~~-~vPvIvDAGiG~pSdaa~AMElG~daVLvNTAiA~A~dPv~MA~Af~~AV~AG 227 (247)
T PF05690_consen 164 PYNLRIIIERA-DVPVIVDAGIGTPSDAAQAMELGADAVLVNTAIAKAKDPVAMARAFKLAVEAG 227 (247)
T ss_dssp HHHHHHHHHHG-SSSBEEES---SHHHHHHHHHTT-SEEEESHHHHTSSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhc-CCcEEEeCCCCCHHHHHHHHHcCCceeehhhHHhccCCHHHHHHHHHHHHHHH
Confidence 46788888776 69999999999999999999999999986 4567778888887776543
No 398
>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=37.60 E-value=89 Score=22.93 Aligned_cols=37 Identities=16% Similarity=0.234 Sum_probs=25.5
Q ss_pred HHHHHHHhc-cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHH
Q 043479 172 FLQAIRHIG-LEKAVPKKILEFMNVPGLTRENVASHLQKYR 211 (534)
Q Consensus 172 FleaLe~LG-lekAvpK~ILe~M~V~GLT~~tVaSHLQKyR 211 (534)
...++..+- -.....++|++.++ +|..+|..||++..
T Consensus 5 ~~~Il~~l~~~~~~t~~ela~~~~---is~~tv~~~l~~L~ 42 (48)
T PF13412_consen 5 QRKILNYLRENPRITQKELAEKLG---ISRSTVNRYLKKLE 42 (48)
T ss_dssp HHHHHHHHHHCTTS-HHHHHHHHT---S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCHHHHHHHhC---CCHHHHHHHHHHHH
Confidence 344555552 23577899999999 99999999988753
No 399
>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=37.38 E-value=1.4e+02 Score=30.63 Aligned_cols=54 Identities=17% Similarity=0.232 Sum_probs=41.3
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
..++.+|+..+....|.++.+ +.+.+.+++..||+.+..-|+.+++++++++.+
T Consensus 169 ~~v~~~r~~~~~~~~I~vev~-t~eea~~A~~~gaD~I~ld~~~~e~l~~~v~~i 222 (269)
T cd01568 169 EAVKRARAAAPFEKKIEVEVE-TLEEAEEALEAGADIIMLDNMSPEELKEAVKLL 222 (269)
T ss_pred HHHHHHHHhCCCCCeEEEecC-CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 356778877764445666664 567788899999999999999999999877654
No 400
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=37.38 E-value=3.6e+02 Score=26.99 Aligned_cols=71 Identities=15% Similarity=0.188 Sum_probs=51.8
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC---CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP---EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP---dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.++.+..+.+....--.+.|.|+.-. ...-+++++++++.. .+||++-.+-.+.+.+.+++..|++..+.-
T Consensus 30 ~d~~~~a~~~~~~G~~~i~i~dl~~~~~~~~~~~~~i~~i~~~~-~ipv~~~GGi~s~~~~~~~l~~Ga~~Viig 103 (253)
T PRK02083 30 GDPVELAKRYNEEGADELVFLDITASSEGRDTMLDVVERVAEQV-FIPLTVGGGIRSVEDARRLLRAGADKVSIN 103 (253)
T ss_pred CCHHHHHHHHHHcCCCEEEEEeCCcccccCcchHHHHHHHHHhC-CCCEEeeCCCCCHHHHHHHHHcCCCEEEEC
Confidence 36777777766522235788888743 234567888887754 489998888889999999999999888654
No 401
>PRK03512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=37.14 E-value=3.6e+02 Score=26.59 Aligned_cols=68 Identities=13% Similarity=0.149 Sum_probs=47.3
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC--------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE--------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd--------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
++.+.+|+.+..+ ..+|.|++--..+. .-|++.++++.+...++||+.+-+-. .+.+.++++.|++++
T Consensus 108 S~H~~~e~~~A~~--~gaDYi~lgpvf~T~tK~~~~~~~G~~~l~~~~~~~~~~PV~AiGGI~-~~ni~~l~~~Ga~Gi 183 (211)
T PRK03512 108 STHDDMEIDVALA--ARPSYIALGHVFPTQTKQMPSAPQGLAQLARHVERLADYPTVAIGGIS-LERAPAVLATGVGSI 183 (211)
T ss_pred eCCCHHHHHHHhh--cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCCC-HHHHHHHHHcCCCEE
Confidence 4556667655543 46899988765432 24677777777665569999887654 666778889998887
No 402
>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase. at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin. In these species, the enzyme is viewed as a lyase rather than a synthase and is called D-arabino 3-hexulose 6-phosphate formaldehyde lyase. Note that there is some overlap in specificity with the Escherichia coli enzyme 3-keto-L-gulonate 6-phosphate decarboxylase.
Probab=36.98 E-value=3.8e+02 Score=25.61 Aligned_cols=57 Identities=12% Similarity=0.072 Sum_probs=38.1
Q ss_pred CCceEEEEeCCCC----CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 17 RDIDLVVTDLHMP----EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 17 ~~pDLVLLDi~mP----dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
..+|+|-++-... ....++.++++++..+.++ |++++-.+.+.+.++++.||+.++.
T Consensus 125 ~g~d~v~~~pg~~~~~~~~~~~~~i~~l~~~~~~~~-i~v~GGI~~~n~~~~~~~Ga~~v~v 185 (206)
T TIGR03128 125 LGADYIGVHTGLDEQAKGQNPFEDLQTILKLVKEAR-VAVAGGINLDTIPDVIKLGPDIVIV 185 (206)
T ss_pred cCCCEEEEcCCcCcccCCCCCHHHHHHHHHhcCCCc-EEEECCcCHHHHHHHHHcCCCEEEE
Confidence 3688887752111 1235667788877666554 4545666788888999999998765
No 403
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=36.82 E-value=1.3e+02 Score=31.43 Aligned_cols=53 Identities=15% Similarity=0.199 Sum_probs=42.3
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
+.++.+|+..|..+|.| ..++.+.+.+++++||+-.+.--++++++.+++..+
T Consensus 178 ~av~~~r~~~~~~kIeV--Ev~tleqa~ea~~agaDiI~LDn~~~e~l~~av~~~ 230 (284)
T PRK06096 178 GAINQLRRHAPEKKIVV--EADTPKEAIAALRAQPDVLQLDKFSPQQATEIAQIA 230 (284)
T ss_pred HHHHHHHHhCCCCCEEE--ECCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 46677777777666443 335778889999999999999999999999999754
No 404
>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated
Probab=36.77 E-value=2.5e+02 Score=27.46 Aligned_cols=71 Identities=21% Similarity=0.192 Sum_probs=51.5
Q ss_pred cCHHHHHHHHHhcCCc-eEEEEeCCCC--C-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC
Q 043479 4 TRPVEALATVRIQRDI-DLVVTDLHMP--E-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP 76 (534)
Q Consensus 4 ss~~EALe~L~~~~~p-DLVLLDi~mP--d-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP 76 (534)
.++.+..+.+.+ ..+ .+.++|+.-- + ..-+++++++++.. .+||++-..-.+.+.+.+++..||+..+.--
T Consensus 30 ~~~~~~a~~~~~-~g~~~i~v~dld~~~~g~~~~~~~i~~i~~~~-~~pv~~~GGI~~~ed~~~~~~~Ga~~vilg~ 104 (233)
T PRK00748 30 DDPVAQAKAWED-QGAKWLHLVDLDGAKAGKPVNLELIEAIVKAV-DIPVQVGGGIRSLETVEALLDAGVSRVIIGT 104 (233)
T ss_pred CCHHHHHHHHHH-cCCCEEEEEeCCccccCCcccHHHHHHHHHHC-CCCEEEcCCcCCHHHHHHHHHcCCCEEEECc
Confidence 367777777765 445 4777887432 1 24577888887764 5899987777888899999999999887554
No 405
>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=36.77 E-value=86 Score=24.40 Aligned_cols=40 Identities=18% Similarity=0.248 Sum_probs=30.9
Q ss_pred HHHHHHHHHh-ccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHH
Q 043479 170 NRFLQAIRHI-GLEKAVPKKILEFMNVPGLTRENVASHLQKYRI 212 (534)
Q Consensus 170 ~RFleaLe~L-GlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl 212 (534)
..-+.++..+ ..+.....+|++.++ ++..+|.-||.+.+.
T Consensus 10 p~R~~Il~~L~~~~~~t~~ela~~l~---~~~~t~s~hL~~L~~ 50 (61)
T PF12840_consen 10 PTRLRILRLLASNGPMTVSELAEELG---ISQSTVSYHLKKLEE 50 (61)
T ss_dssp HHHHHHHHHHHHCSTBEHHHHHHHHT---S-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHC---CCHHHHHHHHHHHHH
Confidence 3345677777 667788899999998 999999999988753
No 406
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain. This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc.
Probab=36.63 E-value=89 Score=31.02 Aligned_cols=49 Identities=20% Similarity=0.160 Sum_probs=40.3
Q ss_pred hhhHHHHHHHHHh-c---cCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHI-G---LEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 167 eLh~RFleaLe~L-G---lekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.|.+++..++... | .+...-++|++.|+ +|.++|+....+-...||...
T Consensus 176 ~L~~~er~vl~l~ygl~~~~~~t~~EIA~~lg---is~~~V~q~~~~al~kLr~~~ 228 (238)
T TIGR02393 176 TLTERERKVLRMRYGLLDGRPHTLEEVGKEFN---VTRERIRQIESKALRKLRHPS 228 (238)
T ss_pred hCCHHHHHHHHHHhCCCCCCCccHHHHHHHHC---CCHHHHHHHHHHHHHHHhhhH
Confidence 4888888888875 3 45667899999998 999999999888877777654
No 407
>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=36.55 E-value=1.8e+02 Score=31.09 Aligned_cols=40 Identities=18% Similarity=0.150 Sum_probs=29.4
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
++.+++|++..+ +|||+-.. ...+.+..+.++|++.+++-
T Consensus 202 ~~~i~~l~~~~~-~PvivKgv-~~~~dA~~a~~~G~d~I~vs 241 (344)
T cd02922 202 WDDIKWLRKHTK-LPIVLKGV-QTVEDAVLAAEYGVDGIVLS 241 (344)
T ss_pred HHHHHHHHHhcC-CcEEEEcC-CCHHHHHHHHHcCCCEEEEE
Confidence 456777776653 78887644 56788889999999998743
No 408
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=36.41 E-value=1.1e+02 Score=31.39 Aligned_cols=62 Identities=19% Similarity=0.220 Sum_probs=41.1
Q ss_pred HhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 14 RIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 14 ~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
++ ..||+||+=.--|...|-.-.+++.+.. .+|.|+++........ ++++..-.+||.-+.+
T Consensus 57 ~~-~~pDf~i~isPN~a~PGP~~ARE~l~~~-~iP~IvI~D~p~~K~~-d~l~~~g~GYIivk~D 118 (277)
T PRK00994 57 EE-WKPDFVIVISPNPAAPGPKKAREILKAA-GIPCIVIGDAPGKKVK-DAMEEQGLGYIIVKAD 118 (277)
T ss_pred Hh-hCCCEEEEECCCCCCCCchHHHHHHHhc-CCCEEEEcCCCccchH-HHHHhcCCcEEEEecC
Confidence 44 6899888754444455666566665432 4799999988776654 7777777777654443
No 409
>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=36.37 E-value=2.1e+02 Score=27.94 Aligned_cols=60 Identities=20% Similarity=0.212 Sum_probs=34.3
Q ss_pred HHHHhcCCceEEEEeCCC---CC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 11 ATVRIQRDIDLVVTDLHM---PE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 11 e~L~~~~~pDLVLLDi~m---Pd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+.+ ...|+|++|... |+ ..-.++++.+++.. ++++++ ...+.+.+..+.+.|++.+..
T Consensus 86 ~~a~~-aGad~I~~~~~~~~~p~~~~~~~~i~~~~~~g-~~~iiv--~v~t~~ea~~a~~~G~d~i~~ 149 (219)
T cd04729 86 DALAA-AGADIIALDATDRPRPDGETLAELIKRIHEEY-NCLLMA--DISTLEEALNAAKLGFDIIGT 149 (219)
T ss_pred HHHHH-cCCCEEEEeCCCCCCCCCcCHHHHHHHHHHHh-CCeEEE--ECCCHHHHHHHHHcCCCEEEc
Confidence 44443 456777777654 33 24556777776655 444443 334455567777778765533
No 410
>PRK06106 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=36.35 E-value=1.4e+02 Score=31.12 Aligned_cols=54 Identities=19% Similarity=0.219 Sum_probs=42.5
Q ss_pred HHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++++|+..| ..+|.|=.. +.+.+.+++++|++-.+.-.++++++++++..+
T Consensus 181 ~~ai~~~r~~~~~~~kIeVEv~--tleea~ea~~~gaDiI~LDn~s~e~l~~av~~~ 235 (281)
T PRK06106 181 REAIRRARAGVGHLVKIEVEVD--TLDQLEEALELGVDAVLLDNMTPDTLREAVAIV 235 (281)
T ss_pred HHHHHHHHHhCCCCCcEEEEeC--CHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHh
Confidence 356777777766 355655444 667888999999999999999999999999854
No 411
>TIGR00078 nadC nicotinate-nucleotide pyrophosphorylase. Synonym: quinolinate phosphoribosyltransferase (decarboxylating)
Probab=36.03 E-value=1.6e+02 Score=30.39 Aligned_cols=54 Identities=13% Similarity=0.184 Sum_probs=41.2
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
..++.+|+..+....|.++.+ +.+.+.+|.+.||+.+..-|+.+++++++++.+
T Consensus 166 ~av~~~r~~~~~~~~Igvev~-t~eea~~A~~~gaDyI~ld~~~~e~lk~~v~~~ 219 (265)
T TIGR00078 166 KAVKRARAAAPFALKIEVEVE-SLEEAEEAAEAGADIIMLDNMKPEEIKEAVQLL 219 (265)
T ss_pred HHHHHHHHhCCCCCeEEEEeC-CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 356777776664455666665 556788899999998889999999999888763
No 412
>PRK08649 inosine 5-monophosphate dehydrogenase; Validated
Probab=35.89 E-value=2.1e+02 Score=30.92 Aligned_cols=65 Identities=23% Similarity=0.262 Sum_probs=44.0
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCC-------CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMP-------EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mP-------dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
..|..+.+.+ ..+|+|.++.+.. ..+..++.+.+++ . ++|||+ ....+.+.+.+++++||+.++.
T Consensus 143 ~~e~a~~l~e-aGvd~I~vhgrt~~~~h~~~~~~~~~i~~~ik~-~-~ipVIa-G~V~t~e~A~~l~~aGAD~V~V 214 (368)
T PRK08649 143 AQELAPTVVE-AGVDLFVIQGTVVSAEHVSKEGEPLNLKEFIYE-L-DVPVIV-GGCVTYTTALHLMRTGAAGVLV 214 (368)
T ss_pred HHHHHHHHHH-CCCCEEEEeccchhhhccCCcCCHHHHHHHHHH-C-CCCEEE-eCCCCHHHHHHHHHcCCCEEEE
Confidence 4455566665 6799999976431 1245555555554 3 588876 4556777888899999999854
No 413
>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=35.89 E-value=2e+02 Score=29.81 Aligned_cols=64 Identities=9% Similarity=0.127 Sum_probs=45.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCC---CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEM---NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdm---dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
++++.+.. ..+|.|.+.+..|.. ...+.+++|++..+ +||++-. ....+.+..+.++|++.+.+
T Consensus 133 ~~i~~~~~-~g~~~i~l~~~~p~~~~~~~~~~i~~l~~~~~-~pvivK~-v~s~~~a~~a~~~G~d~I~v 199 (299)
T cd02809 133 DLLRRAEA-AGYKALVLTVDTPVLGRRLTWDDLAWLRSQWK-GPLILKG-ILTPEDALRAVDAGADGIVV 199 (299)
T ss_pred HHHHHHHH-cCCCEEEEecCCCCCCCCCCHHHHHHHHHhcC-CCEEEee-cCCHHHHHHHHHCCCCEEEE
Confidence 34444454 568999998887741 23578888887655 7877653 24567788899999999876
No 414
>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=35.89 E-value=1.2e+02 Score=28.91 Aligned_cols=46 Identities=15% Similarity=0.207 Sum_probs=29.3
Q ss_pred CCceEEEEeCCCC-----CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHH
Q 043479 17 RDIDLVVTDLHMP-----EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMK 63 (534)
Q Consensus 17 ~~pDLVLLDi~mP-----dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~ 63 (534)
..+|+||+|=-+. -.+--++++.|+.+.+.+- +|+|++.-++...+
T Consensus 94 ~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~e-vIlTGr~~p~~l~e 144 (159)
T cd00561 94 GEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLE-LVLTGRNAPKELIE 144 (159)
T ss_pred CCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCE-EEEECCCCCHHHHH
Confidence 5799999995432 2445567777766555444 55777766655443
No 415
>COG0269 SgbH 3-hexulose-6-phosphate synthase and related proteins [Carbohydrate transport and metabolism]
Probab=35.81 E-value=3.2e+02 Score=27.60 Aligned_cols=88 Identities=11% Similarity=0.050 Sum_probs=65.1
Q ss_pred ecCHHHHHHHHHhcCCceEEEE----eCCCCCCCH-HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE-----
Q 043479 3 VTRPVEALATVRIQRDIDLVVT----DLHMPEMNG-IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY----- 72 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLL----Di~mPdmdG-leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy----- 72 (534)
..+..++.+++++ ..+|.+++ |..+.+.+. .+.+..+++.....-.|.+++--+++.+..+...|++-|
T Consensus 116 ~~~~~~~~~~l~~-~gvd~~~~H~g~D~q~~G~~~~~~~l~~ik~~~~~g~~vAVaGGI~~~~i~~~~~~~~~ivIvGra 194 (217)
T COG0269 116 VWDPEQRAKWLKE-LGVDQVILHRGRDAQAAGKSWGEDDLEKIKKLSDLGAKVAVAGGITPEDIPLFKGIGADIVIVGRA 194 (217)
T ss_pred CCCHHHHHHHHHH-hCCCEEEEEecccHhhcCCCccHHHHHHHHHhhccCceEEEecCCCHHHHHHHhcCCCCEEEECch
Confidence 4578888999986 67999886 445556555 788888888765445677888889999999999997776
Q ss_pred EeCCCChHHHHHHHHHHHH
Q 043479 73 ILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 73 L~KP~s~eeL~~aI~~aL~ 91 (534)
|.+.-++.+-.+.++..+.
T Consensus 195 It~a~dp~~~a~~~~~~i~ 213 (217)
T COG0269 195 ITGAKDPAEAARKFKEEID 213 (217)
T ss_pred hcCCCCHHHHHHHHHHHHh
Confidence 4566676666666666553
No 416
>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=35.75 E-value=1.1e+02 Score=32.55 Aligned_cols=64 Identities=20% Similarity=0.374 Sum_probs=49.2
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF 71 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d 71 (534)
.+..||++.+... +.-|+|++- |.+.-+++++.+++.+ ++||.++-...+-..+..|.+.|..+
T Consensus 222 ~n~~eAlre~~~Di~EGAD~lMVK---Pal~YLDIi~~~k~~~-~lPvaaYqVSGEYaMikaAa~~G~~d 287 (320)
T cd04823 222 ANSREALREVALDIAEGADMVMVK---PGMPYLDIIRRVKDEF-GVPTFAYQVSGEYAMLKAAAQNGWLD 287 (320)
T ss_pred CCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHHhc-CCCEEEEEccHHHHHHHHHHHcCCCc
Confidence 4677888776553 458999886 7777899999999887 59999988777666666777777654
No 417
>TIGR00259 thylakoid_BtpA membrane complex biogenesis protein, BtpA family. Members of this family are found in C. elegans, Synechocystis sp., E. coli, and several of the Archaea. Members in Cyanobacteria have been shown to play a role in protein complex biogenesis, and designated BtpA (biogenesis of thylakoid protein). Homologs in non-photosynthetic species, where thylakoid intracytoplasmic membranes are lacking, are likely to act elsewhere in membrane protein biogenesis.
Probab=35.67 E-value=4.4e+02 Score=27.22 Aligned_cols=83 Identities=13% Similarity=0.021 Sum_probs=47.2
Q ss_pred CHHHHHHHHHhcCCceEEEEeC-CCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC--------
Q 043479 5 RPVEALATVRIQRDIDLVVTDL-HMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK-------- 75 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi-~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K-------- 75 (534)
+.+|+++.......+|-||+.= .....-.++.++.+++..+++||+ +.+--+.+-+.++++. ++++++-
T Consensus 158 ~~~e~a~~~~~~~~aDavivtG~~TG~~~d~~~l~~vr~~~~~~Pvl-lggGvt~eNv~e~l~~-adGviVgS~~K~~G~ 235 (257)
T TIGR00259 158 DLESIALDTVERGLADAVILSGKTTGTEVDLELLKLAKETVKDTPVL-AGSGVNLENVEELLSI-ADGVIVATTIKKDGV 235 (257)
T ss_pred CHHHHHHHHHHhcCCCEEEECcCCCCCCCCHHHHHHHHhccCCCeEE-EECCCCHHHHHHHHhh-CCEEEECCCcccCCc
Confidence 4455444333224477666542 222233477788887766677864 4555566667777765 6665431
Q ss_pred ---CCChHHHHHHHHHH
Q 043479 76 ---PLNPDDLKNVWQYA 89 (534)
Q Consensus 76 ---P~s~eeL~~aI~~a 89 (534)
|.+++.+++.++.+
T Consensus 236 ~~n~~D~~rV~~Fm~~v 252 (257)
T TIGR00259 236 FNNFVDQARVSQFVEKV 252 (257)
T ss_pred cCCCcCHHHHHHHHHHH
Confidence 56666666666555
No 418
>PRK05581 ribulose-phosphate 3-epimerase; Validated
Probab=35.67 E-value=3.5e+02 Score=26.07 Aligned_cols=80 Identities=15% Similarity=0.280 Sum_probs=46.7
Q ss_pred HHHHHHHhcCCceEEEEeCCC----CCCC-HHHHHHHHHhhCCCCcE-E-EEecCCCHHHHHHHHHcCCcEEEeCCCChH
Q 043479 8 EALATVRIQRDIDLVVTDLHM----PEMN-GIELQKEINEEFTHLPV-M-VMSSDDRESVIMKALASGVAFYILKPLNPD 80 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~m----Pdmd-GleLL~~Lr~~~p~ipV-I-VLSs~~d~~~~~~AL~aGA~dyL~KP~s~e 80 (534)
+.++.+.+ ...|.|=+|+.- |... +++.++++++..+ .++ + +++. +....+..+.++|++.+..--...+
T Consensus 20 ~~~~~~~~-~G~~~i~l~~~d~~~~~~~~~~~~~~~~i~~~~~-~~~~v~l~v~-d~~~~i~~~~~~g~d~v~vh~~~~~ 96 (220)
T PRK05581 20 EEVKAVEA-AGADWIHVDVMDGHFVPNLTIGPPVVEAIRKVTK-LPLDVHLMVE-NPDRYVPDFAKAGADIITFHVEASE 96 (220)
T ss_pred HHHHHHHH-cCCCEEEEeCccCCcCCCcCcCHHHHHHHHhcCC-CcEEEEeeeC-CHHHHHHHHHHcCCCEEEEeeccch
Confidence 44455544 457777776422 1212 6888999987654 333 3 4444 3444667778999998666544445
Q ss_pred HHHHHHHHHH
Q 043479 81 DLKNVWQYAM 90 (534)
Q Consensus 81 eL~~aI~~aL 90 (534)
+....++.+.
T Consensus 97 ~~~~~~~~~~ 106 (220)
T PRK05581 97 HIHRLLQLIK 106 (220)
T ss_pred hHHHHHHHHH
Confidence 5555554443
No 419
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=35.40 E-value=1.4e+02 Score=25.56 Aligned_cols=62 Identities=15% Similarity=0.090 Sum_probs=37.7
Q ss_pred HHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 9 ALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 9 ALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
.|+.+.- ...+.||+... .+..-+.++..+++..+..+||+.... ........++|++..+.
T Consensus 54 ~l~~a~i-~~a~~vv~~~~-~d~~n~~~~~~~r~~~~~~~ii~~~~~--~~~~~~l~~~g~d~vi~ 115 (116)
T PF02254_consen 54 VLERAGI-EKADAVVILTD-DDEENLLIALLARELNPDIRIIARVND--PENAELLRQAGADHVIS 115 (116)
T ss_dssp HHHHTTG-GCESEEEEESS-SHHHHHHHHHHHHHHTTTSEEEEEESS--HHHHHHHHHTT-SEEEE
T ss_pred HHhhcCc-cccCEEEEccC-CHHHHHHHHHHHHHHCCCCeEEEEECC--HHHHHHHHHCCcCEEEC
Confidence 3444332 45777777654 224455677777888888887766653 44455566788887664
No 420
>PRK06978 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=34.69 E-value=1.4e+02 Score=31.45 Aligned_cols=53 Identities=15% Similarity=0.122 Sum_probs=42.1
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
++++++++..+..+|. ...++.+.+.+++++||+-.+.-.++++++++++..+
T Consensus 194 ~av~~~r~~~~~~kIe--VEvetleea~eA~~aGaDiImLDnmspe~l~~av~~~ 246 (294)
T PRK06978 194 AALDAAFALNAGVPVQ--IEVETLAQLETALAHGAQSVLLDNFTLDMMREAVRVT 246 (294)
T ss_pred HHHHHHHHhCCCCcEE--EEcCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHhh
Confidence 5777887766655543 3445678889999999999999999999999998754
No 421
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=34.68 E-value=2.6e+02 Score=27.46 Aligned_cols=68 Identities=22% Similarity=0.297 Sum_probs=42.5
Q ss_pred CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecC--CCH----HHHHHHHHcCCcEEEe-----CCCChHHHHHH
Q 043479 17 RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSD--DRE----SVIMKALASGVAFYIL-----KPLNPDDLKNV 85 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~--~d~----~~~~~AL~aGA~dyL~-----KP~s~eeL~~a 85 (534)
..+|+|-+.. + .+++.++++.+..+ +||+++-+. .+. +.+.++++.||.++.. +.-++.+..+.
T Consensus 155 ~GaD~Ik~~~--~--~~~~~~~~i~~~~~-~pvv~~GG~~~~~~~~~l~~~~~~~~~Ga~gv~vg~~i~~~~dp~~~~~~ 229 (235)
T cd00958 155 LGADIVKTKY--T--GDAESFKEVVEGCP-VPVVIAGGPKKDSEEEFLKMVYDAMEAGAAGVAVGRNIFQRPDPVAMLRA 229 (235)
T ss_pred HCCCEEEecC--C--CCHHHHHHHHhcCC-CCEEEeCCCCCCCHHHHHHHHHHHHHcCCcEEEechhhhcCCCHHHHHHH
Confidence 4688888853 2 26788888877654 887554432 222 3477889999998853 33345555555
Q ss_pred HHHH
Q 043479 86 WQYA 89 (534)
Q Consensus 86 I~~a 89 (534)
++++
T Consensus 230 ~~~~ 233 (235)
T cd00958 230 ISAV 233 (235)
T ss_pred HHHH
Confidence 5543
No 422
>PRK12290 thiE thiamine-phosphate pyrophosphorylase; Reviewed
Probab=34.63 E-value=3e+02 Score=30.64 Aligned_cols=89 Identities=15% Similarity=0.147 Sum_probs=60.0
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC--------CCHHHHHHHHHhhC--------CCCcEEEEecCCCHHHHHHHH
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE--------MNGIELQKEINEEF--------THLPVMVMSSDDRESVIMKAL 65 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd--------mdGleLL~~Lr~~~--------p~ipVIVLSs~~d~~~~~~AL 65 (534)
++.+.+|+++... ..+|.|.+---.|. .-|++.++++++.. ..+||+.+-+- +.+.+..++
T Consensus 306 StHs~eEl~~A~~--~gaDYI~lGPIFpT~TK~~~~~p~Gl~~L~~~~~l~~~~~~~~~~~iPVVAIGGI-~~~Ni~~vl 382 (437)
T PRK12290 306 STHGYYELLRIVQ--IQPSYIALGHIFPTTTKQMPSKPQGLVRLALYQKLIDTIPYQGQTGFPTVAIGGI-DQSNAEQVW 382 (437)
T ss_pred ecCCHHHHHHHhh--cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHHhhhccccccCCCCEEEECCc-CHHHHHHHH
Confidence 4567778766654 46899988654432 24788887776644 26899988775 566677889
Q ss_pred HcCCcEE-----EeCCCChHHHHHHHHHHHHHh
Q 043479 66 ASGVAFY-----ILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 66 ~aGA~dy-----L~KP~s~eeL~~aI~~aL~~k 93 (534)
+.||+++ |.+.-++.+-.+.+++++..+
T Consensus 383 ~aGa~GVAVVSAI~~A~DP~aa~~~l~~~~~~~ 415 (437)
T PRK12290 383 QCGVSSLAVVRAITLAEDPQLVIEFFDQVMAEN 415 (437)
T ss_pred HcCCCEEEEehHhhcCCCHHHHHHHHHHHHhhc
Confidence 9999887 344455666666666555443
No 423
>PRK08072 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=34.48 E-value=1.6e+02 Score=30.71 Aligned_cols=55 Identities=15% Similarity=0.372 Sum_probs=42.2
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++.+|+..+...+|-++.+ +.+.+.++.+.||+.+...++.++.|.++++.+
T Consensus 175 ~~~v~~aR~~~~~~~~Igvsv~-tleea~~A~~~gaDyI~lD~~~~e~l~~~~~~~ 229 (277)
T PRK08072 175 TKAVTSVREKLGHMVKIEVETE-TEEQVREAVAAGADIIMFDNRTPDEIREFVKLV 229 (277)
T ss_pred HHHHHHHHHhCCCCCEEEEEeC-CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHhc
Confidence 3566777777665566777776 456677889999999999999999998887653
No 424
>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=34.33 E-value=2.8e+02 Score=27.02 Aligned_cols=71 Identities=28% Similarity=0.257 Sum_probs=50.8
Q ss_pred cCHHHHHHHHHhcCCce-EEEEeCCCC---CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC
Q 043479 4 TRPVEALATVRIQRDID-LVVTDLHMP---EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP 76 (534)
Q Consensus 4 ss~~EALe~L~~~~~pD-LVLLDi~mP---dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP 76 (534)
.++.+..+.+.+ ..+| |.|.|+.-- ...-+++++++++.. .+||++-..-.+.+.+.++++.||+..+.--
T Consensus 29 ~dp~~~a~~~~~-~g~d~l~v~dl~~~~~~~~~~~~~i~~i~~~~-~~pv~~~GgI~~~e~~~~~~~~Gad~vvigs 103 (234)
T cd04732 29 DDPVEVAKKWEE-AGAKWLHVVDLDGAKGGEPVNLELIEEIVKAV-GIPVQVGGGIRSLEDIERLLDLGVSRVIIGT 103 (234)
T ss_pred CCHHHHHHHHHH-cCCCEEEEECCCccccCCCCCHHHHHHHHHhc-CCCEEEeCCcCCHHHHHHHHHcCCCEEEECc
Confidence 366676677765 4444 666676432 233577888888765 4899988888888999999999988877543
No 425
>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=34.23 E-value=2.8e+02 Score=27.29 Aligned_cols=67 Identities=16% Similarity=0.278 Sum_probs=45.6
Q ss_pred HHHHHHHHHhcCCce-EEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHH-HHHcCCcEEEe
Q 043479 6 PVEALATVRIQRDID-LVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMK-ALASGVAFYIL 74 (534)
Q Consensus 6 ~~EALe~L~~~~~pD-LVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~-AL~aGA~dyL~ 74 (534)
..+..+.+.+ ...| +++.++.-.+ .-.+++++++++.. ++|||..-...+.+.+.+ +...||++++.
T Consensus 155 ~~~~~~~~~~-~G~d~i~i~~i~~~g~~~g~~~~~~~~i~~~~-~ipvia~GGi~s~~di~~~l~~~gadgV~v 226 (232)
T TIGR03572 155 PVEWAREAEQ-LGAGEILLNSIDRDGTMKGYDLELIKTVSDAV-SIPVIALGGAGSLDDLVEVALEAGASAVAA 226 (232)
T ss_pred HHHHHHHHHH-cCCCEEEEeCCCccCCcCCCCHHHHHHHHhhC-CCCEEEECCCCCHHHHHHHHHHcCCCEEEE
Confidence 4455566655 4566 5555643211 12378888888765 589998888888888888 66789998864
No 426
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=33.99 E-value=3.6e+02 Score=28.19 Aligned_cols=69 Identities=20% Similarity=0.288 Sum_probs=51.2
Q ss_pred cCHHHHHHHHHhcCCceEEEEeC--C---CCC---CCHHHHHHHHHhhCCCCcEEEEecC-CCHHHHHHHHHcCCcEEEe
Q 043479 4 TRPVEALATVRIQRDIDLVVTDL--H---MPE---MNGIELQKEINEEFTHLPVMVMSSD-DRESVIMKALASGVAFYIL 74 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi--~---mPd---mdGleLL~~Lr~~~p~ipVIVLSs~-~d~~~~~~AL~aGA~dyL~ 74 (534)
++++||.+.++ ..+|.+-+.+ . -+. .=+++.+++|++..+++|+++.-+. ...+.+.++++.|+..+=.
T Consensus 154 t~peea~~f~~--tgvD~LAv~iG~vHG~y~t~~k~l~~e~L~~i~~~~~~iPlVlhGGSGi~~e~~~~~i~~Gi~KiNv 231 (293)
T PRK07315 154 APIEDAKAMVE--TGIDFLAAGIGNIHGPYPENWEGLDLDHLEKLTEAVPGFPIVLHGGSGIPDDQIQEAIKLGVAKVNV 231 (293)
T ss_pred CCHHHHHHHHH--cCCCEEeeccccccccCCCCCCcCCHHHHHHHHHhccCCCEEEECCCCCCHHHHHHHHHcCCCEEEE
Confidence 68999999884 4689887773 1 121 2468999999988766998877663 3456688899999988744
No 427
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=33.88 E-value=5.1e+02 Score=26.29 Aligned_cols=83 Identities=17% Similarity=0.272 Sum_probs=58.0
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeC-------CCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDL-------HMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi-------~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
+++.+|++-..+. .+|+|=.-+ ..|....+++++.+.+ ..++||.=--...++.+.++++.||+..++-
T Consensus 134 ~St~ee~l~a~~~--G~D~IGTTLsGYT~~~~~~~~pDf~lvk~l~~--~~~~vIAEGr~~tP~~Ak~a~~~Ga~aVvVG 209 (229)
T COG3010 134 CSTFEEGLNAHKL--GFDIIGTTLSGYTGYTEKPTEPDFQLVKQLSD--AGCRVIAEGRYNTPEQAKKAIEIGADAVVVG 209 (229)
T ss_pred cCCHHHHHHHHHc--CCcEEecccccccCCCCCCCCCcHHHHHHHHh--CCCeEEeeCCCCCHHHHHHHHHhCCeEEEEC
Confidence 4566777766553 477664322 2345667999999987 5688988888889999999999999998765
Q ss_pred C--CChHHHHHHHHHH
Q 043479 76 P--LNPDDLKNVWQYA 89 (534)
Q Consensus 76 P--~s~eeL~~aI~~a 89 (534)
. ..++++......+
T Consensus 210 sAITRp~~It~~F~~~ 225 (229)
T COG3010 210 SAITRPEEITQWFVDA 225 (229)
T ss_pred cccCCHHHHHHHHHHH
Confidence 4 2345555444433
No 428
>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=33.82 E-value=3.9e+02 Score=26.64 Aligned_cols=84 Identities=13% Similarity=0.066 Sum_probs=56.6
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMP--EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mP--dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
.++.+..+.+.+...-.+.|+|+.-- ...-+++++.|.+... +|+.+=.+-.+.+.+.+++.+||+-.+.-......
T Consensus 35 ~dp~~~a~~~~~~g~~~l~i~DLd~~~~~~~n~~~i~~i~~~~~-~~v~vgGGir~~edv~~~l~~Ga~~viigt~~~~~ 113 (233)
T cd04723 35 SDPLDVARAYKELGFRGLYIADLDAIMGRGDNDEAIRELAAAWP-LGLWVDGGIRSLENAQEWLKRGASRVIVGTETLPS 113 (233)
T ss_pred CCHHHHHHHHHHCCCCEEEEEeCccccCCCccHHHHHHHHHhCC-CCEEEecCcCCHHHHHHHHHcCCCeEEEcceeccc
Confidence 36777777666522234778888642 2345778888876543 78888888888899999999999988876544433
Q ss_pred HHHHHHHHH
Q 043479 82 LKNVWQYAM 90 (534)
Q Consensus 82 L~~aI~~aL 90 (534)
+.+..++
T Consensus 114 --~~~~~~~ 120 (233)
T cd04723 114 --DDDEDRL 120 (233)
T ss_pred --hHHHHHH
Confidence 3344444
No 429
>PRK13585 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=33.70 E-value=2.3e+02 Score=27.88 Aligned_cols=71 Identities=23% Similarity=0.135 Sum_probs=49.8
Q ss_pred cCHHHHHHHHHhcCCc-eEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC
Q 043479 4 TRPVEALATVRIQRDI-DLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP 76 (534)
Q Consensus 4 ss~~EALe~L~~~~~p-DLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP 76 (534)
.++.+.++.+.+ ..+ .+.+.|..... ..-.+.+++|.+... +|+++=.+-.+.+.+..++.+||+..+.--
T Consensus 32 ~~~~e~a~~~~~-~G~~~l~i~dl~~~~~~~~~~~~~i~~i~~~~~-~~l~v~GGi~~~~~~~~~~~~Ga~~v~iGs 106 (241)
T PRK13585 32 GDPVEVAKRWVD-AGAETLHLVDLDGAFEGERKNAEAIEKIIEAVG-VPVQLGGGIRSAEDAASLLDLGVDRVILGT 106 (241)
T ss_pred CCHHHHHHHHHH-cCCCEEEEEechhhhcCCcccHHHHHHHHHHcC-CcEEEcCCcCCHHHHHHHHHcCCCEEEECh
Confidence 366777777665 334 46777887532 344567777776654 888886667778888999999999887643
No 430
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=33.53 E-value=44 Score=39.80 Aligned_cols=39 Identities=18% Similarity=0.279 Sum_probs=34.3
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQK 209 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQK 209 (534)
.|+.|+.+++..+..+-. +++|.+.++ ++..|||+|+..
T Consensus 831 ~Ls~RE~eVL~Lia~G~S-N~eIa~~L~---isl~TVKtH~rn 869 (894)
T COG2909 831 PLSQRELEVLGLIAQGLS-NEEIAQELF---ISLTTVKTHIRN 869 (894)
T ss_pred CccHHHHHHHHHHHccCC-HHHHHHHHH---HHHHHHHHHHHH
Confidence 589999999999975555 999999999 899999999764
No 431
>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=33.48 E-value=33 Score=33.39 Aligned_cols=62 Identities=18% Similarity=0.192 Sum_probs=42.7
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
.+.+++.++. .+||.|=+ ||+ --..+++++++.. .+|||.=---.+.+.+.+++++||.+.=
T Consensus 106 l~~~~~~i~~-~~PD~vEi---lPg-~~p~vi~~i~~~~-~~PiIAGGLI~~~e~v~~al~aGa~aVS 167 (175)
T PF04309_consen 106 LETGIKQIEQ-SKPDAVEI---LPG-VMPKVIKKIREET-NIPIIAGGLIRTKEDVEEALKAGADAVS 167 (175)
T ss_dssp HHHHHHHHHH-HT-SEEEE---ESC-CHHHHHCCCCCCC-SS-EEEESS--SHHHHHHHCCTTCEEEE
T ss_pred HHHHHHHHhh-cCCCEEEE---chH-HHHHHHHHHHHhc-CCCEEeecccCCHHHHHHHHHcCCEEEE
Confidence 3456677776 68998866 687 4456777777655 4888766566788899999999998864
No 432
>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=33.46 E-value=1.3e+02 Score=22.64 Aligned_cols=39 Identities=15% Similarity=0.294 Sum_probs=27.9
Q ss_pred HHHHHHh--ccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 043479 173 LQAIRHI--GLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFL 214 (534)
Q Consensus 173 leaLe~L--GlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~l 214 (534)
.+++..| ..+....++|++.++ +|+.+|..++...+...
T Consensus 3 ~~il~~L~~~~~~it~~eLa~~l~---vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 3 KQILKLLLESKEPITAKELAEELG---VSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHTTTSBEHHHHHHHCT---S-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCCcCHHHHHHHhC---CCHHHHHHHHHHHHHCC
Confidence 4455555 223367899999999 89999999998876643
No 433
>PRK14114 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=33.27 E-value=2.2e+02 Score=28.89 Aligned_cols=69 Identities=19% Similarity=0.231 Sum_probs=49.7
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCC-C--HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHc-----C-CcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEM-N--GIELQKEINEEFTHLPVMVMSSDDRESVIMKALAS-----G-VAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdm-d--GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~a-----G-A~dyL~ 74 (534)
++.|.++.+....--.+|++|+.--++ . .+++++++++. .++|||.--+-.+.+.+.++.+. | +.+.|.
T Consensus 145 ~~~e~~~~~~~~g~~~ii~tdI~rdGt~~G~d~el~~~l~~~-~~~pviasGGv~s~~Dl~~l~~~~~~~~g~v~gviv 222 (241)
T PRK14114 145 DPVSLLKRLKEYGLEEIVHTEIEKDGTLQEHDFSLTRKIAIE-AEVKVFAAGGISSENSLKTAQRVHRETNGLLKGVIV 222 (241)
T ss_pred CHHHHHHHHHhcCCCEEEEEeechhhcCCCcCHHHHHHHHHH-CCCCEEEECCCCCHHHHHHHHhcccccCCcEEEEEE
Confidence 456667777652224799999876543 3 46788888876 46999988888888888888776 5 887765
No 434
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=33.05 E-value=2.7e+02 Score=28.20 Aligned_cols=71 Identities=17% Similarity=0.216 Sum_probs=52.2
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCC---CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPE---MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPd---mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.++.+..+.+....--.|+++|+.--. ..-++++++|.+. ..+||++=....+.+.+.+++..|++.++.-
T Consensus 30 ~dp~~~a~~~~~~g~~~l~i~Dl~~~~~~~~~n~~~i~~i~~~-~~~pv~~gGGi~s~~d~~~l~~~G~~~vvig 103 (258)
T PRK01033 30 GDPINAVRIFNEKEVDELIVLDIDASKRGSEPNYELIENLASE-CFMPLCYGGGIKTLEQAKKIFSLGVEKVSIN 103 (258)
T ss_pred CCHHHHHHHHHHcCCCEEEEEECCCCcCCCcccHHHHHHHHHh-CCCCEEECCCCCCHHHHHHHHHCCCCEEEEC
Confidence 366777777665222358999997653 3347889888876 4589887777788888888999999988754
No 435
>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=32.98 E-value=1.5e+02 Score=31.47 Aligned_cols=63 Identities=22% Similarity=0.429 Sum_probs=48.3
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCc
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVA 70 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~ 70 (534)
.+..||++.+... ..-|+|++- |.+.-+++++.+++.+ ++||.+.-...+-..+..|.+.|..
T Consensus 217 an~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~-~~PvaaYqVSGEYaMikaAa~~G~i 281 (314)
T cd00384 217 ANRREALREVELDIEEGADILMVK---PALAYLDIIRDVRERF-DLPVAAYNVSGEYAMIKAAAKNGWI 281 (314)
T ss_pred CCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHHhc-CCCEEEEEccHHHHHHHHHHHcCCc
Confidence 4678888876553 458999886 7778899999999887 6999988877666666666666654
No 436
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=32.97 E-value=3.5e+02 Score=27.22 Aligned_cols=73 Identities=11% Similarity=0.123 Sum_probs=50.1
Q ss_pred CHHHHHHHHHh--cCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 5 RPVEALATVRI--QRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 5 s~~EALe~L~~--~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
+.+++..+... .--..+|-+| .-...-..++++++++....+|+++=-+-.+.+.+.+++++||+.++.-..-
T Consensus 133 ~~e~~~ayA~aae~~g~~ivyLe-~SG~~~~~e~I~~v~~~~~~~pl~vGGGIrs~e~a~~l~~aGAD~VVVGsai 207 (219)
T cd02812 133 KPEDAAAYALAAEYLGMPIVYLE-YSGAYGPPEVVRAVKKVLGDTPLIVGGGIRSGEQAKEMAEAGADTIVVGNIV 207 (219)
T ss_pred CHHHHHHHHHHHHHcCCeEEEeC-CCCCcCCHHHHHHHHHhcCCCCEEEeCCCCCHHHHHHHHHcCCCEEEECchh
Confidence 44555444322 2236777777 2222345788999988654689888777778899999999999999887643
No 437
>cd04739 DHOD_like Dihydroorotate dehydrogenase (DHOD) like proteins. 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. This subgroup has the conserved FMN binding site, but lacks some catalytic residues and may therefore be inactive.
Probab=32.95 E-value=4e+02 Score=28.06 Aligned_cols=61 Identities=10% Similarity=0.025 Sum_probs=43.2
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC-------CCChHHHHHHHHHHHHHhhh
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK-------PLNPDDLKNVWQYAMTYKKA 95 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K-------P~s~eeL~~aI~~aL~~k~~ 95 (534)
++.+.++++.. ++|||...+-.+.+.+.+.+.+||+..-.- |.-..++.+.|...+..+..
T Consensus 226 l~~v~~v~~~~-~ipIig~GGI~s~~Da~e~l~aGA~~Vqv~ta~~~~gp~~~~~i~~~L~~~l~~~g~ 293 (325)
T cd04739 226 LRWIAILSGRV-KASLAASGGVHDAEDVVKYLLAGADVVMTTSALLRHGPDYIGTLLAGLEAWMEEHGY 293 (325)
T ss_pred HHHHHHHHccc-CCCEEEECCCCCHHHHHHHHHcCCCeeEEehhhhhcCchHHHHHHHHHHHHHHHcCC
Confidence 35556665543 699999999999999999999999887322 55555666666666655443
No 438
>PRK06978 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=32.94 E-value=2.2e+02 Score=29.97 Aligned_cols=66 Identities=11% Similarity=0.035 Sum_probs=45.2
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+|+.+.+.. .+|+|++|=.-| -++-+.+... +.-.+|-.|+.-+.+.+.+..+.|++-+.
T Consensus 210 VEvetleea~eA~~a--GaDiImLDnmsp----e~l~~av~~~-~~~~~lEaSGGIt~~ni~~yA~tGVD~IS 275 (294)
T PRK06978 210 IEVETLAQLETALAH--GAQSVLLDNFTL----DMMREAVRVT-AGRAVLEVSGGVNFDTVRAFAETGVDRIS 275 (294)
T ss_pred EEcCCHHHHHHHHHc--CCCEEEECCCCH----HHHHHHHHhh-cCCeEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467889999999874 689999994333 2333333322 22346777888888888888888988653
No 439
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=32.93 E-value=2.9e+02 Score=29.83 Aligned_cols=84 Identities=17% Similarity=0.109 Sum_probs=49.3
Q ss_pred HHHHHHHHHhcCCceEEEEe-CCC----C--CCCHHHHHHHHHhhCCCCcEEEEecCCCH------HHHHHHHHcCCcEE
Q 043479 6 PVEALATVRIQRDIDLVVTD-LHM----P--EMNGIELQKEINEEFTHLPVMVMSSDDRE------SVIMKALASGVAFY 72 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLD-i~m----P--dmdGleLL~~Lr~~~p~ipVIVLSs~~d~------~~~~~AL~aGA~dy 72 (534)
-..|++.+......+|+||. ... + ..-.+..+..+++.+ ++||++=+++... .....|+.+||++.
T Consensus 241 ~~~Ave~i~~~Gn~~i~L~erg~s~yp~~~~~~ldl~~i~~lk~~~-~~PV~~d~~Hs~G~r~~~~~~a~aAva~GAdg~ 319 (360)
T PRK12595 241 FIYAAEYIMSQGNGQIILCERGIRTYEKATRNTLDISAVPILKQET-HLPVMVDVTHSTGRRDLLLPTAKAALAIGADGV 319 (360)
T ss_pred HHHHHHHHHHCCCCCEEEECCccCCCCCCCCCCcCHHHHHHHHHHh-CCCEEEeCCCCCcchhhHHHHHHHHHHcCCCeE
Confidence 34566777654557899997 322 1 112455666677654 4897763555431 24556889999865
Q ss_pred -EeCC-------------CChHHHHHHHHHHH
Q 043479 73 -ILKP-------------LNPDDLKNVWQYAM 90 (534)
Q Consensus 73 -L~KP-------------~s~eeL~~aI~~aL 90 (534)
|.|- +++++|...++.+.
T Consensus 320 ~iE~H~dp~~a~~D~~~sl~p~el~~l~~~i~ 351 (360)
T PRK12595 320 MAEVHPDPAVALSDSAQQMDIPEFDRFLDELK 351 (360)
T ss_pred EEEecCCCCCCCCchhhhCCHHHHHHHHHHHH
Confidence 4442 44566666665543
No 440
>PF07364 DUF1485: Protein of unknown function (DUF1485); InterPro: IPR015995 Proteins in this entry are involved in degradation of the cyanobacterial heptapeptide hepatotoxin microcystin LR, and are encoded in the mlr gene cluster []. MlrC from Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273) is believed to mediate the last step of peptidolytic degradation of the tetrapeptide. It is suspected to be a metallopeptidase based on homology to known peptidases and its inhibition by metal chelators. The proteins encoded by the mlr cluster may be involved in cell wall peptidoglycan cycling and subsequently act fortuitously in hydrolysis of microcystin LR. This entry represents the N-terminal region of these proteins.; PDB: 3IUU_A.
Probab=32.88 E-value=1.5e+02 Score=31.13 Aligned_cols=47 Identities=21% Similarity=0.250 Sum_probs=29.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCC-------CCCCHHHHHHHHHh-hCCCCcEEEEec
Q 043479 7 VEALATVRIQRDIDLVVTDLHM-------PEMNGIELQKEINE-EFTHLPVMVMSS 54 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~m-------PdmdGleLL~~Lr~-~~p~ipVIVLSs 54 (534)
.+.++.++...++|-|+++++= +|.+ -+++++||+ ..|++||++--.
T Consensus 85 ~eil~~l~~agp~Dgv~L~LHGAmv~e~~~D~E-G~Ll~rvR~~vGp~vpI~~tlD 139 (292)
T PF07364_consen 85 DEILDRLRAAGPLDGVLLDLHGAMVAEGYDDGE-GDLLRRVRAIVGPDVPIAATLD 139 (292)
T ss_dssp HHHHHHHHHS---SEEEEEE-S---BSS-SSHH-HHHHHHHHHHHTTTSEEEEEE-
T ss_pred HHHHHHHHhcCCcCEEEEeccCcEeecCCCCch-HHHHHHHHHHhCCCCeEEEEeC
Confidence 3456666664679999999963 2333 369999998 567788776543
No 441
>TIGR01949 AroFGH_arch predicted phospho-2-dehydro-3-deoxyheptonate aldolase. Together these two genes appear to perform the synthesis of 3-dehydroquinate. It is presumed that the substrates and the chemical transformations involved are identical, but this has not yet been proven experimentally.
Probab=32.72 E-value=2.8e+02 Score=28.01 Aligned_cols=70 Identities=17% Similarity=0.210 Sum_probs=46.0
Q ss_pred CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCC--C----HHHHHHHHHcCCcEEE-----eCCCChHHHHHH
Q 043479 17 RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDD--R----ESVIMKALASGVAFYI-----LKPLNPDDLKNV 85 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~--d----~~~~~~AL~aGA~dyL-----~KP~s~eeL~~a 85 (534)
...|.|-+... .+++.++++.+..+ +||+++-+.. + .+.+.+++++||.++. .+.-++.+..++
T Consensus 168 ~GADyikt~~~----~~~~~l~~~~~~~~-iPVva~GGi~~~~~~~~~~~i~~~~~aGa~Gia~g~~i~~~~dp~~~~~~ 242 (258)
T TIGR01949 168 LGADIVKTPYT----GDIDSFRDVVKGCP-APVVVAGGPKTNSDREFLQMIKDAMEAGAAGVAVGRNIFQHDDPVGITKA 242 (258)
T ss_pred HCCCEEeccCC----CCHHHHHHHHHhCC-CcEEEecCCCCCCHHHHHHHHHHHHHcCCcEEehhhHhhcCCCHHHHHHH
Confidence 45788887642 36788888876544 8997765554 2 4456677899998863 344456666666
Q ss_pred HHHHHH
Q 043479 86 WQYAMT 91 (534)
Q Consensus 86 I~~aL~ 91 (534)
+++++.
T Consensus 243 l~~~i~ 248 (258)
T TIGR01949 243 VCKIVH 248 (258)
T ss_pred HHHHHh
Confidence 666553
No 442
>cd01827 sialate_O-acetylesterase_like1 sialate O-acetylesterase_like family of the SGNH hydrolases, 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=32.67 E-value=1.4e+02 Score=27.56 Aligned_cols=40 Identities=5% Similarity=0.007 Sum_probs=27.2
Q ss_pred CCceEEEEeCCCCCCC-----HH--------HHHHHHHhhCCCCcEEEEecCC
Q 043479 17 RDIDLVVTDLHMPEMN-----GI--------ELQKEINEEFTHLPVMVMSSDD 56 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmd-----Gl--------eLL~~Lr~~~p~ipVIVLSs~~ 56 (534)
..||+|++-+-.-|.. .. .+++.+++..+..+||+++...
T Consensus 66 ~~pd~Vii~~G~ND~~~~~~~~~~~~~~~l~~li~~i~~~~~~~~iil~t~~p 118 (188)
T cd01827 66 FNPNIVIIKLGTNDAKPQNWKYKDDFKKDYETMIDSFQALPSKPKIYICYPIP 118 (188)
T ss_pred cCCCEEEEEcccCCCCCCCCccHHHHHHHHHHHHHHHHHHCCCCeEEEEeCCc
Confidence 5799999988665532 11 3566666677778888887653
No 443
>cd01572 QPRTase 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=32.49 E-value=2.3e+02 Score=29.22 Aligned_cols=65 Identities=15% Similarity=0.086 Sum_probs=46.1
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
+++.+.+|+.+.+.. .+|.|.+|-.- .+.++++.+..+ ++|++ .++--+.+.+.+..+.|++.+-
T Consensus 187 vev~s~eea~~A~~~--gaDyI~ld~~~-----~e~l~~~~~~~~~~ipi~-AiGGI~~~ni~~~a~~Gvd~Ia 252 (268)
T cd01572 187 VEVETLEQLKEALEA--GADIIMLDNMS-----PEELREAVALLKGRVLLE-ASGGITLENIRAYAETGVDYIS 252 (268)
T ss_pred EEECCHHHHHHHHHc--CCCEEEECCcC-----HHHHHHHHHHcCCCCcEE-EECCCCHHHHHHHHHcCCCEEE
Confidence 467889998888764 68999999542 456666655443 46755 4555677888888899988763
No 444
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=32.47 E-value=1e+02 Score=30.91 Aligned_cols=48 Identities=8% Similarity=0.081 Sum_probs=38.4
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRV 217 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~ 217 (534)
.|.++..+++...-.+....++|++.|+ +|..+|..+..+....|++.
T Consensus 209 ~L~~~er~vi~~~~~~~~t~~eIA~~lg---is~~~V~~~~~~al~kLr~~ 256 (258)
T PRK08215 209 KLNDREKLILNLRFFQGKTQMEVAEEIG---ISQAQVSRLEKAALKHMRKY 256 (258)
T ss_pred cCCHHHHHHHHHHHhcCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHH
Confidence 4888888888887445666899999998 99999988888777666654
No 445
>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional
Probab=32.36 E-value=2.4e+02 Score=27.53 Aligned_cols=59 Identities=20% Similarity=0.220 Sum_probs=37.5
Q ss_pred HHHHHhcCCceEEEEeCCC---CC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 10 LATVRIQRDIDLVVTDLHM---PE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 10 Le~L~~~~~pDLVLLDi~m---Pd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
++.+.+ ...|+|++|+.+ |. ..-.++++.+++. +.+++++ ...+.+.+.++.+.|++.+
T Consensus 81 v~~a~~-aGad~I~~d~~~~~~p~~~~~~~~i~~~~~~-~~i~vi~--~v~t~ee~~~a~~~G~d~i 143 (221)
T PRK01130 81 VDALAA-AGADIIALDATLRPRPDGETLAELVKRIKEY-PGQLLMA--DCSTLEEGLAAQKLGFDFI 143 (221)
T ss_pred HHHHHH-cCCCEEEEeCCCCCCCCCCCHHHHHHHHHhC-CCCeEEE--eCCCHHHHHHHHHcCCCEE
Confidence 344444 457888888765 32 4556777777765 5566553 3345566678888887654
No 446
>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=32.34 E-value=2.2e+02 Score=27.62 Aligned_cols=67 Identities=15% Similarity=0.135 Sum_probs=43.7
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHH
Q 043479 19 IDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 19 pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~ 92 (534)
.|++|+-... +.-|..+++.+.. .+|||+....... ......+..+++.++.+.+++.++|..++..
T Consensus 253 ad~~i~ps~~-e~~~~~~~Ea~a~---G~Pvi~~~~~~~~---~~~~~~~~~g~~~~~~~~~~~~~~i~~ll~~ 319 (348)
T cd03820 253 ASIFVLTSRF-EGFPMVLLEAMAF---GLPVISFDCPTGP---SEIIEDGVNGLLVPNGDVEALAEALLRLMED 319 (348)
T ss_pred CCEEEeCccc-cccCHHHHHHHHc---CCCEEEecCCCch---HhhhccCcceEEeCCCCHHHHHHHHHHHHcC
Confidence 5777765444 3335666666653 4777653222222 2344556788999999999999999998753
No 447
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=32.25 E-value=1.8e+02 Score=28.41 Aligned_cols=82 Identities=23% Similarity=0.185 Sum_probs=43.2
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHh----hCCCCcEEEEecCCCHHHHHHH---HH-cCCcEEE-eCCCC
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEMNGIELQKEINE----EFTHLPVMVMSSDDRESVIMKA---LA-SGVAFYI-LKPLN 78 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~----~~p~ipVIVLSs~~d~~~~~~A---L~-aGA~dyL-~KP~s 78 (534)
++++..+. ..+|+||+|.-=-...-.+.++++++ ..+.-.++++++....+....+ .+ .+..++| +|=-.
T Consensus 74 ~~l~~~~~-~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~~lIlTKlDe 152 (196)
T PF00448_consen 74 EALEKFRK-KGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGIDGLILTKLDE 152 (196)
T ss_dssp HHHHHHHH-TTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTCEEEEESTTS
T ss_pred HHHHHHhh-cCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcccCceEEEEeecC
Confidence 34455544 57999999973222223344444443 3455566777777665543332 23 3566654 66433
Q ss_pred hHHHHHHHHHHH
Q 043479 79 PDDLKNVWQYAM 90 (534)
Q Consensus 79 ~eeL~~aI~~aL 90 (534)
...+-.++..+.
T Consensus 153 t~~~G~~l~~~~ 164 (196)
T PF00448_consen 153 TARLGALLSLAY 164 (196)
T ss_dssp SSTTHHHHHHHH
T ss_pred CCCcccceeHHH
Confidence 344444554444
No 448
>PLN02274 inosine-5'-monophosphate dehydrogenase
Probab=32.14 E-value=2.2e+02 Score=32.15 Aligned_cols=70 Identities=16% Similarity=0.203 Sum_probs=50.5
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeC--------C------CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcC
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDL--------H------MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASG 68 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi--------~------mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aG 68 (534)
+.+.++|..+++. ..|.|.+-+ + .|....+..+.++.+.. .+|||.=........+.+|+.+|
T Consensus 297 v~t~e~a~~a~~a--GaD~i~vg~g~G~~~~t~~~~~~g~~~~~~i~~~~~~~~~~-~vpVIadGGI~~~~di~kAla~G 373 (505)
T PLN02274 297 VVTMYQAQNLIQA--GVDGLRVGMGSGSICTTQEVCAVGRGQATAVYKVASIAAQH-GVPVIADGGISNSGHIVKALTLG 373 (505)
T ss_pred CCCHHHHHHHHHc--CcCEEEECCCCCccccCccccccCCCcccHHHHHHHHHHhc-CCeEEEeCCCCCHHHHHHHHHcC
Confidence 4577788877764 588886642 1 12334555666666544 48999999999999999999999
Q ss_pred CcEEEeC
Q 043479 69 VAFYILK 75 (534)
Q Consensus 69 A~dyL~K 75 (534)
|+.++.=
T Consensus 374 A~~V~vG 380 (505)
T PLN02274 374 ASTVMMG 380 (505)
T ss_pred CCEEEEc
Confidence 9998753
No 449
>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=31.81 E-value=2.2e+02 Score=30.00 Aligned_cols=66 Identities=12% Similarity=0.073 Sum_probs=44.8
Q ss_pred CeecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 1 VTVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 1 vtass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
|++.+.+|+.+.+.. .+|+|++|=.-| -++-+.+... +.-.++-.|+.-+.+.+......|++...
T Consensus 202 VEv~tleea~~a~~a--gaDiImLDnmsp----e~l~~av~~~-~~~~~leaSGGI~~~ni~~yA~tGVD~Is 267 (290)
T PRK06559 202 VEVESLAAAEEAAAA--GADIIMLDNMSL----EQIEQAITLI-AGRSRIECSGNIDMTTISRFRGLAIDYVS 267 (290)
T ss_pred EECCCHHHHHHHHHc--CCCEEEECCCCH----HHHHHHHHHh-cCceEEEEECCCCHHHHHHHHhcCCCEEE
Confidence 467889999999874 689999994333 2333333222 22346677888888888888889988653
No 450
>PF01136 Peptidase_U32: Peptidase family U32 This is family U32 in the peptidase classification. ; InterPro: IPR001539 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belonging to MEROPS peptidase family U32 (clan U-). The type example is collagenase (gene prtC) from Porphyromonas gingivalis (Bacteroides gingivalis) [], which is an enzyme that degrades type I collagen and that seems to require a metal cofactor. The product of PrtC is evolutionary related to a number of uncharacterised proteins with a well conserved region containing two cysteines.; GO: 0008233 peptidase activity, 0006508 proteolysis
Probab=31.62 E-value=3.7e+02 Score=26.24 Aligned_cols=75 Identities=15% Similarity=0.094 Sum_probs=53.4
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecC--CCHHHHHHHHHcCCcEEEeCC-CChHHH
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSD--DRESVIMKALASGVAFYILKP-LNPDDL 82 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~--~d~~~~~~AL~aGA~dyL~KP-~s~eeL 82 (534)
.++.++.+.+ ..+|-|++. .+.+++.+++..|+++|++=+.. .....+....+.|+..+++-| ++.++|
T Consensus 4 ~~~~l~~l~~-~g~dgi~v~-------~~g~~~~~k~~~~~~~i~~~~~~nv~N~~s~~~~~~~G~~~i~ls~EL~~~ei 75 (233)
T PF01136_consen 4 LEKYLDKLKE-LGVDGILVS-------NPGLLELLKELGPDLKIIADYSLNVFNSESARFLKELGASRITLSPELSLEEI 75 (233)
T ss_pred HHHHHHHHHh-CCCCEEEEc-------CHHHHHHHHHhCCCCcEEEecCccCCCHHHHHHHHHcCCCEEEECccCCHHHH
Confidence 3556777776 678877764 36788899999898998765443 345667777788999987655 677777
Q ss_pred HHHHHH
Q 043479 83 KNVWQY 88 (534)
Q Consensus 83 ~~aI~~ 88 (534)
.+..+.
T Consensus 76 ~~i~~~ 81 (233)
T PF01136_consen 76 KEIAEN 81 (233)
T ss_pred HHHHHh
Confidence 765444
No 451
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=31.53 E-value=3.2e+02 Score=27.75 Aligned_cols=72 Identities=11% Similarity=0.108 Sum_probs=49.8
Q ss_pred CCceEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHH
Q 043479 17 RDIDLVVTDLHMP--EMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQY 88 (534)
Q Consensus 17 ~~pDLVLLDi~mP--dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~ 88 (534)
..+.++.++..-. +....++++++++....+|+++=.+-.+.+.+.+++..||+.++.-..-.++..+.++.
T Consensus 153 ~g~~~vYle~gs~~g~~~~~e~I~~v~~~~~~~pvivGGGIrs~e~a~~~l~~GAD~VVVGSai~~d~~~~~~~ 226 (232)
T PRK04169 153 LGMPIVYLEYGGGAGDPVPPEMVKAVKKALDITPLIYGGGIRSPEQARELMAAGADTIVVGNIIEEDPKKTVKA 226 (232)
T ss_pred cCCCeEEEECCCCCCCCCCHHHHHHHHHhcCCCcEEEECCCCCHHHHHHHHHhCCCEEEEChHHhhCHHHHHHH
Confidence 3456777775432 23347899999986553488887777788888898999999999876544444333333
No 452
>PLN02898 HMP-P kinase/thiamin-monophosphate pyrophosphorylase
Probab=31.51 E-value=3e+02 Score=30.69 Aligned_cols=65 Identities=20% Similarity=0.296 Sum_probs=44.5
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCc
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPE-------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVA 70 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPd-------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~ 70 (534)
.+.+.+|+.+..+ ..+|.|.+--..|. .-|++.++++.+. .++||+.+-+- +.+.+.++++.|++
T Consensus 396 S~h~~~e~~~a~~--~gadyi~~gpif~t~tk~~~~~~g~~~~~~~~~~-~~~Pv~aiGGI-~~~~~~~~~~~G~~ 467 (502)
T PLN02898 396 SCKTPEQAEQAWK--DGADYIGCGGVFPTNTKANNKTIGLDGLREVCEA-SKLPVVAIGGI-SASNAASVMESGAP 467 (502)
T ss_pred eCCCHHHHHHHhh--cCCCEEEECCeecCCCCCCCCCCCHHHHHHHHHc-CCCCEEEECCC-CHHHHHHHHHcCCC
Confidence 3567777666554 46898875433322 2278888888764 45998888655 57777889999988
No 453
>PRK08508 biotin synthase; Provisional
Probab=31.48 E-value=5.3e+02 Score=26.41 Aligned_cols=70 Identities=9% Similarity=0.151 Sum_probs=43.2
Q ss_pred cCHHHHHHHHHhc---CCceEEEEeCC--CCCCC---HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 4 TRPVEALATVRIQ---RDIDLVVTDLH--MPEMN---GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 4 ss~~EALe~L~~~---~~pDLVLLDi~--mPdmd---GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
-+.++.++.++.. .--.+++++-. .++.. -.++++.|++..|.+.+....+..+.+...+..++|++.|-
T Consensus 40 ~s~eeI~~~a~~a~~~g~~~~~lv~sg~~~~~~~~e~~~ei~~~ik~~~p~l~i~~s~G~~~~e~l~~Lk~aGld~~~ 117 (279)
T PRK08508 40 KDIEQIVQEAKMAKANGALGFCLVTSGRGLDDKKLEYVAEAAKAVKKEVPGLHLIACNGTASVEQLKELKKAGIFSYN 117 (279)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEEEeccCCCCcccHHHHHHHHHHHHhhCCCcEEEecCCCCCHHHHHHHHHcCCCEEc
Confidence 3667777766541 12345554322 22221 24566677777677776666677778888888899998886
No 454
>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA [], Ycf3 [, ], and Ycf4 (IPR003359 from INTERPRO) []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions.
Probab=31.32 E-value=3.8e+02 Score=27.61 Aligned_cols=81 Identities=20% Similarity=0.163 Sum_probs=49.8
Q ss_pred CHHHHHHHH-HhcCCceEEEEeC-CCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE----------
Q 043479 5 RPVEALATV-RIQRDIDLVVTDL-HMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY---------- 72 (534)
Q Consensus 5 s~~EALe~L-~~~~~pDLVLLDi-~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy---------- 72 (534)
+.+++.+.. +. ..+|.|++-= ........+.++++|+..+ +||++=|+. +.+-+.+.++. |+++
T Consensus 159 ~~~~~~~~a~~~-~~aDaviVtG~~TG~~~~~~~l~~vr~~~~-~PVlvGSGv-t~~Ni~~~l~~-ADG~IVGS~~K~~G 234 (254)
T PF03437_consen 159 DLEEAAKDAVER-GGADAVIVTGKATGEPPDPEKLKRVREAVP-VPVLVGSGV-TPENIAEYLSY-ADGAIVGSYFKKDG 234 (254)
T ss_pred CHHHHHHHHHHh-cCCCEEEECCcccCCCCCHHHHHHHHhcCC-CCEEEecCC-CHHHHHHHHHh-CCEEEEeeeeeeCC
Confidence 345555443 43 5678666643 3233456788888988888 898865554 45555555543 3333
Q ss_pred -EeCCCChHHHHHHHHHH
Q 043479 73 -ILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 73 -L~KP~s~eeL~~aI~~a 89 (534)
+..|++++.+++.++.+
T Consensus 235 ~~~n~VD~~Rv~~fm~~v 252 (254)
T PF03437_consen 235 KWENPVDPERVRRFMEAV 252 (254)
T ss_pred EeCCcCCHHHHHHHHHHh
Confidence 34488888888777665
No 455
>cd00429 RPE Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose phosphate pathway. In the Calvin cycle Ru5P is phosphorylated by phosphoribulose kinase to ribulose-1,5-bisphosphate, which in turn is used by RubisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) to incorporate CO2 as the central step in carbohydrate synthesis.
Probab=31.17 E-value=1.4e+02 Score=28.31 Aligned_cols=66 Identities=20% Similarity=0.183 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCCC-------HHHHHHHHHhhCC----CCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEMN-------GIELQKEINEEFT----HLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdmd-------GleLL~~Lr~~~p----~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.+.++.+.. .+|.|+++...|+.+ +.+.++++++... ++||++.-+ -+.+.+.++.+.|+++++.-
T Consensus 118 ~~~~~~~~~--~~d~i~~~~~~~g~tg~~~~~~~~~~i~~~~~~~~~~~~~~pi~v~GG-I~~env~~~~~~gad~iivg 194 (211)
T cd00429 118 VEVLEPYLD--EVDLVLVMSVNPGFGGQKFIPEVLEKIRKLRELIPENNLNLLIEVDGG-INLETIPLLAEAGADVLVAG 194 (211)
T ss_pred HHHHHHHHh--hCCEEEEEEECCCCCCcccCHHHHHHHHHHHHHHHhcCCCeEEEEECC-CCHHHHHHHHHcCCCEEEEC
Confidence 444444443 378887776555433 3445556555432 477765544 44577888999999998753
No 456
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.95 E-value=1.3e+02 Score=36.54 Aligned_cols=74 Identities=16% Similarity=0.222 Sum_probs=48.7
Q ss_pred CceEEEEe-CCCCCCCHHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHHh
Q 043479 18 DIDLVVTD-LHMPEMNGIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 18 ~pDLVLLD-i~mPdmdGleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~k 93 (534)
++-|+|+| +++-..+.+..+.++-+..| ++.+|+.|. +...+...+...+.-|-.||++.+++...|++++..+
T Consensus 119 k~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTT--e~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~E 194 (944)
T PRK14949 119 RFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATT--DPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQE 194 (944)
T ss_pred CcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECC--CchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHc
Confidence 46799998 55554455554444444433 344555443 3344555666677889999999999999999988653
No 457
>PRK07565 dihydroorotate dehydrogenase 2; Reviewed
Probab=30.81 E-value=3.1e+02 Score=28.80 Aligned_cols=59 Identities=8% Similarity=0.025 Sum_probs=39.7
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE------eC-CCChHHHHHHHHHHHHHhh
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI------LK-PLNPDDLKNVWQYAMTYKK 94 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL------~K-P~s~eeL~~aI~~aL~~k~ 94 (534)
+.+.++++.. .+|||...+-.+.+.+.+++.+||+.+- .+ |--..++.+-|+..+..+.
T Consensus 229 ~~v~~~~~~~-~ipIig~GGI~s~~Da~e~l~aGA~~V~v~t~~~~~g~~~~~~i~~~L~~~l~~~g 294 (334)
T PRK07565 229 RWIAILSGRV-GADLAATTGVHDAEDVIKMLLAGADVVMIASALLRHGPDYIGTILRGLEDWMERHG 294 (334)
T ss_pred HHHHHHHhhc-CCCEEEECCCCCHHHHHHHHHcCCCceeeehHHhhhCcHHHHHHHHHHHHHHHHcC
Confidence 4455555444 5999999999999999999999998763 22 4334445555555554433
No 458
>COG0763 LpxB Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]
Probab=30.72 E-value=1.2e+02 Score=33.15 Aligned_cols=46 Identities=13% Similarity=0.314 Sum_probs=33.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCC
Q 043479 8 EALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDD 56 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~ 56 (534)
+.++.+.. .+||++|+ ++-||.+ +.+.+++|+..|++|||-+.+..
T Consensus 76 ~~~~~i~~-~kpD~~i~-IDsPdFn-l~vak~lrk~~p~i~iihYV~Ps 121 (381)
T COG0763 76 ELVRYILA-NKPDVLIL-IDSPDFN-LRVAKKLRKAGPKIKIIHYVSPS 121 (381)
T ss_pred HHHHHHHh-cCCCEEEE-eCCCCCc-hHHHHHHHHhCCCCCeEEEECcc
Confidence 44555554 68997665 4457665 67899999999999999877654
No 459
>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=30.35 E-value=2.6e+02 Score=28.03 Aligned_cols=65 Identities=14% Similarity=0.126 Sum_probs=45.6
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
+..+..+.+.+ ...|.|-.+...++ .-.++.+++++ .++|||..-.-.+.+.+.+++..||+.+.
T Consensus 153 ~~~~la~~l~~-aG~d~ihv~~~~~g~~ad~~~I~~i~---~~ipVIgnGgI~s~eda~~~l~~GaD~Vm 218 (233)
T cd02911 153 DDEELARLIEK-AGADIIHVDAMDPGNHADLKKIRDIS---TELFIIGNNSVTTIESAKEMFSYGADMVS 218 (233)
T ss_pred CHHHHHHHHHH-hCCCEEEECcCCCCCCCcHHHHHHhc---CCCEEEEECCcCCHHHHHHHHHcCCCEEE
Confidence 34455556655 56787777655543 22356666665 46899988888899999999999998875
No 460
>PRK12656 fructose-6-phosphate aldolase; Reviewed
Probab=30.28 E-value=5.8e+02 Score=25.69 Aligned_cols=49 Identities=16% Similarity=0.203 Sum_probs=30.9
Q ss_pred ceEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 19 IDLVVTDLHMPE-MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 19 pDLVLLDi~mPd-mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.++| .+|- ..|++.++.|.+. .+++- +|..-+......|.++|| +|+.
T Consensus 82 ~nv~V---KIP~T~~Gl~Ai~~L~~~--Gi~vn-~T~ifs~~Qa~~Aa~aGa-~yvs 131 (222)
T PRK12656 82 DDVYI---KVPVTPAGLAAIKTLKAE--GYHIT-ATAIYTVFQGLLAIEAGA-DYLA 131 (222)
T ss_pred CCEEE---EeCCCHHHHHHHHHHHHC--CCceE-EeeeCCHHHHHHHHHCCC-CEEe
Confidence 44554 4453 4688888888765 35544 344445566677778888 6665
No 461
>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=30.11 E-value=1.6e+02 Score=30.49 Aligned_cols=54 Identities=13% Similarity=0.216 Sum_probs=40.6
Q ss_pred HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++.+|+..+.. +|.++.+ +.+.+.++.+.|++.+..-|+.++++...++.+
T Consensus 171 ~~av~~~R~~~~~~-~IgVev~-t~eea~~A~~~gaD~I~ld~~~p~~l~~~~~~~ 224 (272)
T cd01573 171 LKALARLRATAPEK-KIVVEVD-SLEEALAAAEAGADILQLDKFSPEELAELVPKL 224 (272)
T ss_pred HHHHHHHHHhCCCC-eEEEEcC-CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHH
Confidence 56777888777655 4555554 556677888999998889999999988776644
No 462
>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=30.09 E-value=2.9e+02 Score=29.95 Aligned_cols=65 Identities=20% Similarity=0.247 Sum_probs=43.3
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCC-------CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHM-------PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~m-------PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
+..|..+.+.+ ...|+|.++-.. ...+..++.+.+ +.. ++|||+ ....+.+.+.++++.||+.++
T Consensus 143 ~~~e~a~~l~e-AGad~I~ihgrt~~q~~~sg~~~p~~l~~~i-~~~-~IPVI~-G~V~t~e~A~~~~~aGaDgV~ 214 (369)
T TIGR01304 143 NAREIAPIVVK-AGADLLVIQGTLVSAEHVSTSGEPLNLKEFI-GEL-DVPVIA-GGVNDYTTALHLMRTGAAGVI 214 (369)
T ss_pred CHHHHHHHHHH-CCCCEEEEeccchhhhccCCCCCHHHHHHHH-HHC-CCCEEE-eCCCCHHHHHHHHHcCCCEEE
Confidence 44566666665 678999987432 233444444444 333 588886 566677888899999999987
No 463
>PLN02522 ATP citrate (pro-S)-lyase
Probab=29.91 E-value=4.1e+02 Score=30.84 Aligned_cols=85 Identities=13% Similarity=0.109 Sum_probs=57.1
Q ss_pred cCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCH-----------------------HH
Q 043479 4 TRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRE-----------------------SV 60 (534)
Q Consensus 4 ss~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~-----------------------~~ 60 (534)
.+..|.|+++.++...++|++=.+....++.++++.+++.....|||++-+-... ..
T Consensus 208 ~~~~D~L~~~~~Dp~Tk~IvlygEiGg~~e~~f~ea~~~a~~~KPVVa~kaGrsa~~~~~~aa~gHtGAiag~~~~ta~~ 287 (608)
T PLN02522 208 STLSDHVLRFNNIPQIKMIVVLGELGGRDEYSLVEALKQGKVSKPVVAWVSGTCARLFKSEVQFGHAGAKSGGDMESAQA 287 (608)
T ss_pred CCHHHHHHHHhcCCCCCEEEEEEecCchhHHHHHHHHHHhcCCCCEEEEeccCCCccCccccccccccccccCCCccHHH
Confidence 3577889988765556777777777778899999999886566898887432211 11
Q ss_pred HHHH-HHcCCcEEEeCCCChHHHHHHHHHHHHH
Q 043479 61 IMKA-LASGVAFYILKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 61 ~~~A-L~aGA~dyL~KP~s~eeL~~aI~~aL~~ 92 (534)
...+ .++|+. -+-++++|.++++.++..
T Consensus 288 k~aAlr~aGv~----vv~s~~El~~~~~~~~~~ 316 (608)
T PLN02522 288 KNKALKDAGAI----VPTSFEALEAAIKETFEK 316 (608)
T ss_pred HHHHHHHCCCe----EeCCHHHHHHHHHHHHHH
Confidence 2222 234432 246788999998888754
No 464
>cd03319 L-Ala-DL-Glu_epimerase L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of the murein peptide of peptidoglycan, of which L-Ala-D-Glu is a component. L-Ala-D/L-Glu epimerase is a member of the enolase-superfamily, which is characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion.
Probab=29.89 E-value=2.3e+02 Score=29.32 Aligned_cols=82 Identities=15% Similarity=0.167 Sum_probs=47.6
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCc-EEEeCCCChHHHH
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVA-FYILKPLNPDDLK 83 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~-dyL~KP~s~eeL~ 83 (534)
+.++|++.++.-.+.++..++--++ .+.++.+++|++... +||+.==...+.....++++.++. .+..||...--+.
T Consensus 189 ~~~~A~~~~~~l~~~~l~~iEeP~~-~~d~~~~~~L~~~~~-ipIa~~E~~~~~~~~~~~~~~~~~d~v~~~~~~~GGi~ 266 (316)
T cd03319 189 TPEEAVELLRELAELGVELIEQPVP-AGDDDGLAYLRDKSP-LPIMADESCFSAADAARLAGGGAYDGINIKLMKTGGLT 266 (316)
T ss_pred CHHHHHHHHHHHHhcCCCEEECCCC-CCCHHHHHHHHhcCC-CCEEEeCCCCCHHHHHHHHhcCCCCEEEEeccccCCHH
Confidence 3466666655423456766664444 345777788877543 786543333355667777886654 5558886644444
Q ss_pred HHHHH
Q 043479 84 NVWQY 88 (534)
Q Consensus 84 ~aI~~ 88 (534)
.+++.
T Consensus 267 ~~~~~ 271 (316)
T cd03319 267 EALRI 271 (316)
T ss_pred HHHHH
Confidence 44433
No 465
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=29.86 E-value=1.5e+02 Score=31.50 Aligned_cols=64 Identities=17% Similarity=0.264 Sum_probs=48.7
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF 71 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d 71 (534)
.+..||++.+... +.-|+|++- |.+.-+++++.+++.. ++||.+.-...+-..+..|.+.|..+
T Consensus 226 ~n~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~-~lPvaaYqVSGEYaMikaAa~~G~~d 291 (322)
T PRK13384 226 ANGRQALLEALLDEAEGADILMVK---PGTPYLDVLSRLRQET-HLPLAAYQVGGEYAMIKFAALAGALD 291 (322)
T ss_pred CCHHHHHHHHHhhHhhCCCEEEEc---CCchHHHHHHHHHhcc-CCCEEEEEchHHHHHHHHHHHcCCcc
Confidence 4678888876553 458999886 7778899999999865 69999888777666666677777654
No 466
>COG1411 Uncharacterized protein related to proFAR isomerase (HisA) [General function prediction only]
Probab=29.60 E-value=2.3e+02 Score=28.52 Aligned_cols=68 Identities=21% Similarity=0.225 Sum_probs=47.4
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCC-CC--HHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPE-MN--GIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPd-md--GleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
.|.++.+.....++||++|+.--+ +. -.+++..+..... -||++=-+-...+....+...|+.+.|.-
T Consensus 140 le~Vk~l~~~~~~~lIvLDi~aVGt~~G~~~E~l~~~~~~s~-~pVllGGGV~g~Edlel~~~~Gv~gvLva 210 (229)
T COG1411 140 LETVKDLNYRRDPGLIVLDIGAVGTKSGPDYELLTKVLELSE-HPVLLGGGVGGMEDLELLLGMGVSGVLVA 210 (229)
T ss_pred HHHHHHHhccCCCCeEEEEccccccccCCCHHHHHHHHHhcc-CceeecCCcCcHHHHHHHhcCCCceeeeh
Confidence 333333332356899999997654 33 3678888876543 57887777777788888888999998864
No 467
>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=29.58 E-value=1.6e+02 Score=27.32 Aligned_cols=44 Identities=11% Similarity=0.175 Sum_probs=25.3
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecC
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSD 55 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~ 55 (534)
..++++.++. ..+|+||+|. ++.. ...+..+.. .+..||+++..
T Consensus 80 ~~~~~~~~~~-~~~D~iiIDt--aG~~-~~~~~~~~~--Ad~~ivv~tpe 123 (148)
T cd03114 80 TPEVIRVLDA-AGFDVIIVET--VGVG-QSEVDIASM--ADTTVVVMAPG 123 (148)
T ss_pred HHHHHHHHHh-cCCCEEEEEC--CccC-hhhhhHHHh--CCEEEEEECCC
Confidence 3456666655 5799999998 5433 222333332 24566666665
No 468
>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=29.57 E-value=1.5e+02 Score=30.59 Aligned_cols=63 Identities=19% Similarity=0.211 Sum_probs=39.5
Q ss_pred HHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCC
Q 043479 13 VRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLN 78 (534)
Q Consensus 13 L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s 78 (534)
+++ ..||+||+=---+..-|-.-.+++... .++|.|+++...... ..++++..-.+||.-+.+
T Consensus 55 ~~~-~~pdf~I~isPN~~~PGP~~ARE~l~~-~~iP~IvI~D~p~~k-~kd~l~~~g~GYIivk~D 117 (276)
T PF01993_consen 55 LKE-WDPDFVIVISPNAAAPGPTKAREMLSA-KGIPCIVISDAPTKK-AKDALEEEGFGYIIVKAD 117 (276)
T ss_dssp HHH-H--SEEEEE-S-TTSHHHHHHHHHHHH-SSS-EEEEEEGGGGG-GHHHHHHTT-EEEEETTS
T ss_pred HHh-hCCCEEEEECCCCCCCCcHHHHHHHHh-CCCCEEEEcCCCchh-hHHHHHhcCCcEEEEecC
Confidence 344 679988875544556677777777644 359999999877655 357788777888765544
No 469
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=29.33 E-value=1.4e+02 Score=28.92 Aligned_cols=45 Identities=16% Similarity=0.223 Sum_probs=28.8
Q ss_pred CCceEEEEeCCCC-----CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHH
Q 043479 17 RDIDLVVTDLHMP-----EMNGIELQKEINEEFTHLPVMVMSSDDRESVIM 62 (534)
Q Consensus 17 ~~pDLVLLDi~mP-----dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~ 62 (534)
..+|+||+|=-+. =.+--++++.|+.+.+.+- ||+|++.-++.+.
T Consensus 96 ~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~e-vVlTGR~~p~~l~ 145 (173)
T TIGR00708 96 PELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQH-VIITGRGCPQDLL 145 (173)
T ss_pred CCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCE-EEEECCCCCHHHH
Confidence 6799999995432 2455577777765544444 5678876655443
No 470
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=29.18 E-value=1.7e+02 Score=29.15 Aligned_cols=52 Identities=13% Similarity=0.077 Sum_probs=31.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-----CCCHHHHHHHHHhhCCCCcEEEEecCCCHHHH
Q 043479 8 EALATVRIQRDIDLVVTDLHMP-----EMNGIELQKEINEEFTHLPVMVMSSDDRESVI 61 (534)
Q Consensus 8 EALe~L~~~~~pDLVLLDi~mP-----dmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~ 61 (534)
.|.+.+.. ..+|+||+|--.. =.+--++++.|..+-++.- ||+|++..+..+
T Consensus 113 ~a~~~l~~-~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~-vIiTGr~ap~~l 169 (198)
T COG2109 113 HAKEALAD-GKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTH-VIITGRGAPPEL 169 (198)
T ss_pred HHHHHHhC-CCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcE-EEEECCCCCHHH
Confidence 34555555 6799999995322 2445566666665544444 556776654443
No 471
>PRK05742 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=29.12 E-value=2.2e+02 Score=29.64 Aligned_cols=53 Identities=17% Similarity=0.258 Sum_probs=39.5
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
..++.+|+..+..+ |.++.+ +.+.+.++++.|++.+..-+++++++.++++.+
T Consensus 178 ~av~~~r~~~~~~~-I~VEv~-tleea~eA~~~gaD~I~LD~~~~e~l~~~v~~~ 230 (277)
T PRK05742 178 QAVAAAHRIAPGKP-VEVEVE-SLDELRQALAAGADIVMLDELSLDDMREAVRLT 230 (277)
T ss_pred HHHHHHHHhCCCCe-EEEEeC-CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence 44666676655544 444544 577788999999999999999999999888643
No 472
>TIGR02320 PEP_mutase phosphoenolpyruvate phosphomutase. A closely related enzyme, phosphonopyruvate hydrolase from Variovorax sp. Pal2, is excluded from this model.
Probab=28.85 E-value=2.4e+02 Score=29.43 Aligned_cols=86 Identities=9% Similarity=0.095 Sum_probs=48.1
Q ss_pred CHHHHHHHHHhc--CCceEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHH
Q 043479 5 RPVEALATVRIQ--RDIDLVVTDLHMPEM-NGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDD 81 (534)
Q Consensus 5 s~~EALe~L~~~--~~pDLVLLDi~mPdm-dGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~ee 81 (534)
..+||++.++.- -.-|+|++...+++. .-.++.+.++..+|.+|++++-.........+..++|+.-.+.-+.....
T Consensus 167 ~~~eAi~Ra~ay~eAGAD~ifv~~~~~~~~ei~~~~~~~~~~~p~~pl~~~~~~~~~~~~~eL~~lG~~~v~~~~~~~~a 246 (285)
T TIGR02320 167 GMEDALKRAEAYAEAGADGIMIHSRKKDPDEILEFARRFRNHYPRTPLVIVPTSYYTTPTDEFRDAGISVVIYANHLLRA 246 (285)
T ss_pred CHHHHHHHHHHHHHcCCCEEEecCCCCCHHHHHHHHHHhhhhCCCCCEEEecCCCCCCCHHHHHHcCCCEEEEhHHHHHH
Confidence 456777765441 347999987423332 22345555555566788865432212223567778898877765554444
Q ss_pred HHHHHHHHH
Q 043479 82 LKNVWQYAM 90 (534)
Q Consensus 82 L~~aI~~aL 90 (534)
...+++.++
T Consensus 247 a~~a~~~~~ 255 (285)
T TIGR02320 247 AYAAMQQVA 255 (285)
T ss_pred HHHHHHHHH
Confidence 445554444
No 473
>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=28.68 E-value=2e+02 Score=30.18 Aligned_cols=57 Identities=14% Similarity=0.130 Sum_probs=38.5
Q ss_pred CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHH
Q 043479 29 PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 29 PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~ 92 (534)
+..-++.+++.+. ..+|||. |... ...+.+..|..+++..|.++++|.++|.+++..
T Consensus 310 ~e~~~~~llEAmA---~G~PVIa-s~~~---g~~e~i~~~~~G~lv~~~d~~~la~~i~~ll~~ 366 (396)
T cd03818 310 PFVLSWSLLEAMA---CGCLVVG-SDTA---PVREVITDGENGLLVDFFDPDALAAAVIELLDD 366 (396)
T ss_pred ccccchHHHHHHH---CCCCEEE-cCCC---CchhhcccCCceEEcCCCCHHHHHHHHHHHHhC
Confidence 3344455555554 3477765 3322 234556678899999999999999999998854
No 474
>PF00490 ALAD: Delta-aminolevulinic acid dehydratase; InterPro: IPR001731 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents porphobilinogen (PBG) synthase (PBGS, or 5-aminoaevulinic acid dehydratase, or ALAD, 4.2.1.24 from EC), which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses a Knorr-type condensation reaction between two molecules of ALA to generate porphobilinogen, the pyrrolic building block used in later steps []. The structure of the enzyme is based on a TIM barrel topology made up of eight identical subunits, where each subunit binds to a metal ion that is essential for activity, usually zinc (in yeast, mammals and certain bacteria) or magnesium (in plants and other bacteria). A lysine has been implicated in the catalytic mechanism []. The lack of PBGS enzyme causes a rare porphyric disorder known as ALAD porphyria, which appears to involve conformational changes in the enzyme [.; GO: 0004655 porphobilinogen synthase activity, 0046872 metal ion binding, 0033014 tetrapyrrole biosynthetic process; PDB: 2C1H_A 1W1Z_A 1GZG_B 1W5O_B 1W5Q_B 2C18_A 1B4K_A 2C19_B 1W56_B 2C13_B ....
Probab=28.68 E-value=1.3e+02 Score=32.00 Aligned_cols=64 Identities=20% Similarity=0.366 Sum_probs=46.6
Q ss_pred cCHHHHHHHHHhc--CCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcE
Q 043479 4 TRPVEALATVRIQ--RDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAF 71 (534)
Q Consensus 4 ss~~EALe~L~~~--~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~d 71 (534)
.+..||++.+... +.-|+|++- |.+.-+++++.+++.. ++||...-...+-..+..|.+.|..+
T Consensus 227 ~N~~EAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~-~~P~~aYqVSGEYaMikaAa~~G~~d 292 (324)
T PF00490_consen 227 ANRREALREAELDIEEGADILMVK---PALPYLDIIRRVKERF-DLPVAAYQVSGEYAMIKAAAQNGWID 292 (324)
T ss_dssp T-HHHHHHHHHHHHHTT-SEEEEE---SSGGGHHHHHHHHHHC-TS-EEEEETHHHHHHHHHHHHTTSS-
T ss_pred ccHHHHHHHhhhhHhhCCCEEEee---cchhHHHHHHHHHHhc-CCCEEEEEehHHHHHHHHHHHCCCcc
Confidence 4678888776543 568999987 7777899999999987 69999988776666676777777653
No 475
>COG4999 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]
Probab=28.62 E-value=90 Score=28.93 Aligned_cols=69 Identities=13% Similarity=0.268 Sum_probs=40.7
Q ss_pred CCceEEEEeCCCCCCCHHHHHHH-HHhhCCCCcEEEEe-cCCCHHHHHHHHHcCCcEEEeCCCChHHHHHH
Q 043479 17 RDIDLVVTDLHMPEMNGIELQKE-INEEFTHLPVMVMS-SDDRESVIMKALASGVAFYILKPLNPDDLKNV 85 (534)
Q Consensus 17 ~~pDLVLLDi~mPdmdGleLL~~-Lr~~~p~ipVIVLS-s~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~a 85 (534)
..+|.+|+.+-.+-.+-..+.+. +.+...-.-.+++. ....-..+.+..+.|+.++|.||++...|...
T Consensus 50 ~hYD~~Ll~vavtfr~n~tm~~~~l~~Al~mtd~vilalPs~~qv~AeqLkQ~g~~~CllKPls~~rLlpt 120 (140)
T COG4999 50 AHYDMMLLGVAVTFRENLTMQHERLAKALSMTDFVILALPSHAQVNAEQLKQDGAGACLLKPLSSTRLLPT 120 (140)
T ss_pred hhhceeeecccccccCCchHHHHHHHHHHhhhcceEEecCcHHHHhHHHHhhcchHhHhhCcchhhhhHHH
Confidence 45899999987664433332221 11111112223333 33333446677889999999999999888763
No 476
>cd03798 GT1_wlbH_like This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (band B), generates band A LPS.
Probab=28.52 E-value=1.9e+02 Score=28.27 Aligned_cols=67 Identities=19% Similarity=0.226 Sum_probs=42.0
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHHh
Q 043479 19 IDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 19 pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~k 93 (534)
.|++|+-... +.-+..+++.+.. .+|||+ +.... ..+.+..+..+++.++.+.+++.++|..++...
T Consensus 279 ad~~i~~~~~-~~~~~~~~Ea~~~---G~pvI~-~~~~~---~~~~~~~~~~g~~~~~~~~~~l~~~i~~~~~~~ 345 (377)
T cd03798 279 ADVFVLPSLR-EGFGLVLLEAMAC---GLPVVA-TDVGG---IPEIITDGENGLLVPPGDPEALAEAILRLLADP 345 (377)
T ss_pred cCeeecchhh-ccCChHHHHHHhc---CCCEEE-ecCCC---hHHHhcCCcceeEECCCCHHHHHHHHHHHhcCc
Confidence 4665543222 3334555555543 467764 33222 234566777789999999999999999987543
No 477
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=28.50 E-value=3.4e+02 Score=26.95 Aligned_cols=69 Identities=12% Similarity=0.060 Sum_probs=48.3
Q ss_pred CHHHHHHHHHh--cCCceEEEEeCC--CCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRI--QRDIDLVVTDLH--MPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~--~~~pDLVLLDi~--mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.+++..+... ....++|.++.- ....-..++++++++.. ++|+++=-+-.+.+.+.++++.||+.++.
T Consensus 132 ~~e~~~~~a~aa~~~G~~~i~Le~~sGa~~~v~~e~i~~Vk~~~-~~Pv~vGGGIrs~e~a~~l~~~GAD~VVV 204 (205)
T TIGR01769 132 KPEIAAAYCLAAKYFGMKWVYLEAGSGASYPVNPETISLVKKAS-GIPLIVGGGIRSPEIAYEIVLAGADAIVT 204 (205)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEEcCCCCCCCCCHHHHHHHHHhh-CCCEEEeCCCCCHHHHHHHHHcCCCEEEe
Confidence 44555544322 245778877652 12223478999998866 68999888888899998888999998874
No 478
>cd03801 GT1_YqgM_like This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. 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 glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold.
Probab=27.95 E-value=2.5e+02 Score=27.17 Aligned_cols=75 Identities=19% Similarity=0.205 Sum_probs=47.1
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHH
Q 043479 7 VEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVW 86 (534)
Q Consensus 7 ~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI 86 (534)
+|..+.+.. .|++|+-... +.-+..+++.+.. .+|||+..... ..+.+..+..+++..+.+.+++.++|
T Consensus 267 ~~~~~~~~~---~di~i~~~~~-~~~~~~~~Ea~~~---g~pvI~~~~~~----~~~~~~~~~~g~~~~~~~~~~l~~~i 335 (374)
T cd03801 267 EDLPALYAA---ADVFVLPSLY-EGFGLVLLEAMAA---GLPVVASDVGG----IPEVVEDGETGLLVPPGDPEALAEAI 335 (374)
T ss_pred hhHHHHHHh---cCEEEecchh-ccccchHHHHHHc---CCcEEEeCCCC----hhHHhcCCcceEEeCCCCHHHHHHHH
Confidence 445555543 5777764433 3445566666543 46766533322 23344557888999999999999999
Q ss_pred HHHHHH
Q 043479 87 QYAMTY 92 (534)
Q Consensus 87 ~~aL~~ 92 (534)
..++..
T Consensus 336 ~~~~~~ 341 (374)
T cd03801 336 LRLLDD 341 (374)
T ss_pred HHHHcC
Confidence 998654
No 479
>PRK13695 putative NTPase; Provisional
Probab=27.84 E-value=2.9e+02 Score=25.65 Aligned_cols=73 Identities=21% Similarity=0.258 Sum_probs=39.0
Q ss_pred CCceEEEEeC--CCCCCCHHHHHHHHHhh-CCCCcEEEEecCCCHHHHHHHHHc--CCcEEEeCCCChHHHHHHHHHHH
Q 043479 17 RDIDLVVTDL--HMPEMNGIELQKEINEE-FTHLPVMVMSSDDRESVIMKALAS--GVAFYILKPLNPDDLKNVWQYAM 90 (534)
Q Consensus 17 ~~pDLVLLDi--~mPdmdGleLL~~Lr~~-~p~ipVIVLSs~~d~~~~~~AL~a--GA~dyL~KP~s~eeL~~aI~~aL 90 (534)
..+|++|+|- .+...+ ..+.+.|... ....++|+++-..........+.. ++.-|-..|-+.++|...|...+
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 4689999995 222222 2334444332 234677766665433222222222 33334567788888888776654
No 480
>PRK05572 sporulation sigma factor SigF; Validated
Probab=27.81 E-value=1.4e+02 Score=29.79 Aligned_cols=49 Identities=10% Similarity=0.050 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Q 043479 167 SLHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKYRIFLKRVA 218 (534)
Q Consensus 167 eLh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKyRl~lkr~a 218 (534)
.|+++..+++...-.+....++|++.|+ +|..+|..+..+-...|++..
T Consensus 202 ~L~~~~~~v~~l~~~~~~s~~eIA~~lg---is~~~V~~~~~ral~kLr~~l 250 (252)
T PRK05572 202 ELDERERLIVYLRYFKDKTQSEVAKRLG---ISQVQVSRLEKKILKQMKEKL 250 (252)
T ss_pred cCCHHHHHHHHHHHhCCCCHHHHHHHHC---cCHHHHHHHHHHHHHHHHHHh
Confidence 4888888888887556666899999999 899999888877766666543
No 481
>TIGR03586 PseI pseudaminic acid synthase.
Probab=27.68 E-value=2.3e+02 Score=30.27 Aligned_cols=85 Identities=26% Similarity=0.294 Sum_probs=54.0
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCC--C---CCCHHHHHHHHHhhCCCCcEEEEecCCC-HHHHHHHHHcCCcEEEeCC--
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHM--P---EMNGIELQKEINEEFTHLPVMVMSSDDR-ESVIMKALASGVAFYILKP-- 76 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~m--P---dmdGleLL~~Lr~~~p~ipVIVLSs~~d-~~~~~~AL~aGA~dyL~KP-- 76 (534)
....|++.+......+|+||-+.- | ..-.+..+..|++.+ ++||-+ |.+.. ......|..+||+ +|.|-
T Consensus 148 Ei~~Av~~i~~~g~~~i~LlhC~s~YP~~~~~~nL~~i~~lk~~f-~~pVG~-SDHt~G~~~~~aAva~GA~-iIEkH~t 224 (327)
T TIGR03586 148 EIQEAVEACREAGCKDLVLLKCTSSYPAPLEDANLRTIPDLAERF-NVPVGL-SDHTLGILAPVAAVALGAC-VIEKHFT 224 (327)
T ss_pred HHHHHHHHHHHCCCCcEEEEecCCCCCCCcccCCHHHHHHHHHHh-CCCEEe-eCCCCchHHHHHHHHcCCC-EEEeCCC
Confidence 345677787653456899976532 2 223466777777777 478654 55553 3456678899997 77773
Q ss_pred -------------CChHHHHHHHHHHHHH
Q 043479 77 -------------LNPDDLKNVWQYAMTY 92 (534)
Q Consensus 77 -------------~s~eeL~~aI~~aL~~ 92 (534)
+++++|...++.+..-
T Consensus 225 ld~~l~G~D~~~Sl~p~e~~~lv~~ir~~ 253 (327)
T TIGR03586 225 LDRSDGGVDSAFSLEPDEFKALVKEVRNA 253 (327)
T ss_pred hhhcCCCCChhccCCHHHHHHHHHHHHHH
Confidence 4556666666665443
No 482
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=27.66 E-value=1.1e+02 Score=22.64 Aligned_cols=34 Identities=15% Similarity=0.127 Sum_probs=16.8
Q ss_pred HHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHH
Q 043479 172 FLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQ 208 (534)
Q Consensus 172 FleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQ 208 (534)
....++.+=......++|++.|+ .++.||..+|.
T Consensus 9 eR~~I~~l~~~G~s~~~IA~~lg---~s~sTV~relk 42 (44)
T PF13936_consen 9 ERNQIEALLEQGMSIREIAKRLG---RSRSTVSRELK 42 (44)
T ss_dssp ---HHHHHHCS---HHHHHHHTT-----HHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHC---cCcHHHHHHHh
Confidence 33344444223444788888888 77888866654
No 483
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.
Probab=27.56 E-value=2.1e+02 Score=30.96 Aligned_cols=71 Identities=7% Similarity=0.026 Sum_probs=47.6
Q ss_pred CceEEEEeCCCCC----CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 18 DIDLVVTDLHMPE----MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 18 ~pDLVLLDi~mPd----mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+|||++...... ...+++++.+++..|+++||+.-.+.. ....++++....|++..+-....+.+.+...
T Consensus 33 ~aD~v~intctv~~~a~~~~~~~i~~~k~~~p~~~vvvgGc~a~-~~~ee~~~~~~vD~vv~~e~~~~~~~ll~~~ 107 (414)
T TIGR01579 33 KADVYIINTCTVTAKADSKARRAIRRARRQNPTAKIIVTGCYAQ-SNPKELADLKDVDLVLGNKEKDKINKLLSLG 107 (414)
T ss_pred cCCEEEEeccccchHHHHHHHHHHHHHHhhCCCcEEEEECCccc-cCHHHHhcCCCCcEEECCCCHHHHHHHHHHH
Confidence 5799999865443 236788888888888777665544443 3333445566677888887777777777654
No 484
>PRK08185 hypothetical protein; Provisional
Probab=27.55 E-value=2.7e+02 Score=29.08 Aligned_cols=82 Identities=23% Similarity=0.383 Sum_probs=56.8
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCC----------CCCCCHHHHHHHHHhhCCCCcEEEEecCC-CHHHHHHHHHcCCcE
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLH----------MPEMNGIELQKEINEEFTHLPVMVMSSDD-RESVIMKALASGVAF 71 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~----------mPdmdGleLL~~Lr~~~p~ipVIVLSs~~-d~~~~~~AL~aGA~d 71 (534)
.++++||.+.++. ..+|.+-+.+- -|..+ ++++++|++.. ++|+++.-+.. ..+...+|.+.|+.-
T Consensus 148 ~t~peea~~f~~~-TgvD~LAvaiGt~HG~y~~~~kp~L~-~e~l~~I~~~~-~iPLVlHGgsg~~~e~~~~ai~~GI~K 224 (283)
T PRK08185 148 YTDPEQAEDFVSR-TGVDTLAVAIGTAHGIYPKDKKPELQ-MDLLKEINERV-DIPLVLHGGSANPDAEIAESVQLGVGK 224 (283)
T ss_pred CCCHHHHHHHHHh-hCCCEEEeccCcccCCcCCCCCCCcC-HHHHHHHHHhh-CCCEEEECCCCCCHHHHHHHHHCCCeE
Confidence 4689999999986 56898877331 24444 89999998765 59988886654 455678899999776
Q ss_pred EEeCCCChHHHHHHHHHHHH
Q 043479 72 YILKPLNPDDLKNVWQYAMT 91 (534)
Q Consensus 72 yL~KP~s~eeL~~aI~~aL~ 91 (534)
+=. -.+|+.+..+.++
T Consensus 225 iNi----~T~l~~a~~~~~~ 240 (283)
T PRK08185 225 INI----SSDMKYAFFKKVR 240 (283)
T ss_pred EEe----ChHHHHHHHHHHH
Confidence 522 2456655555553
No 485
>cd03795 GT1_like_4 This family is most closely related to the GT1 family of glycosyltransferases. 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 glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=27.39 E-value=4.3e+02 Score=26.29 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=42.8
Q ss_pred ceEEEEeCCC-CCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHHh
Q 043479 19 IDLVVTDLHM-PEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYAMTYK 93 (534)
Q Consensus 19 pDLVLLDi~m-PdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~k 93 (534)
.|++++-... .+.-|+.+++.+.. .+|||+.-.....+.+.. .+..+++..+-+.+++.++|..++...
T Consensus 264 ad~~i~ps~~~~e~~g~~~~Ea~~~---g~Pvi~~~~~~~~~~i~~---~~~~g~~~~~~d~~~~~~~i~~l~~~~ 333 (357)
T cd03795 264 CDVFVFPSVERSEAFGIVLLEAMAF---GKPVISTEIGTGGSYVNL---HGVTGLVVPPGDPAALAEAIRRLLEDP 333 (357)
T ss_pred CCEEEeCCcccccccchHHHHHHHc---CCCEEecCCCCchhHHhh---CCCceEEeCCCCHHHHHHHHHHHHHCH
Confidence 5666653221 23446667777654 477775322222222221 478899999999999999999998643
No 486
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=27.18 E-value=1.6e+02 Score=23.67 Aligned_cols=40 Identities=18% Similarity=0.311 Sum_probs=29.6
Q ss_pred hhHHHHHHHHHhccCCCcHHHHHHHcCCCCCCHHHHHHHHHHH
Q 043479 168 LHNRFLQAIRHIGLEKAVPKKILEFMNVPGLTRENVASHLQKY 210 (534)
Q Consensus 168 Lh~RFleaLe~LGlekAvpK~ILe~M~V~GLT~~tVaSHLQKy 210 (534)
..++.++.+..-|......++|++.++ ++..+|..||.+.
T Consensus 7 ~~~~IL~~L~~~g~~~~ta~eLa~~lg---l~~~~v~r~L~~L 46 (68)
T smart00550 7 LEEKILEFLENSGDETSTALQLAKNLG---LPKKEVNRVLYSL 46 (68)
T ss_pred HHHHHHHHHHHCCCCCcCHHHHHHHHC---CCHHHHHHHHHHH
Confidence 445556666665543366899999999 9999999998764
No 487
>PRK14700 recombination factor protein RarA; Provisional
Probab=27.17 E-value=3.4e+02 Score=28.73 Aligned_cols=34 Identities=21% Similarity=0.151 Sum_probs=29.8
Q ss_pred HHHHHHHHcCCcEEEeCCCChHHHHHHHHHHHHH
Q 043479 59 SVIMKALASGVAFYILKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 59 ~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~aL~~ 92 (534)
-.+..|+...+.-|..||++.++|...+++++..
T Consensus 21 f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~ 54 (300)
T PRK14700 21 YYLNDALVSRLFILRLKRLSLVATQKLIEKALSQ 54 (300)
T ss_pred ceecHhhhhhhheeeecCCCHHHHHHHHHHHHHh
Confidence 3466788888899999999999999999999965
No 488
>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=27.13 E-value=2.5e+02 Score=29.32 Aligned_cols=54 Identities=28% Similarity=0.347 Sum_probs=41.8
Q ss_pred HHHHHHHHhhCCC-CcEEEEecCCCHHHHHHHHHcCCcEEEeCCCChHHHHHHHHHH
Q 043479 34 IELQKEINEEFTH-LPVMVMSSDDRESVIMKALASGVAFYILKPLNPDDLKNVWQYA 89 (534)
Q Consensus 34 leLL~~Lr~~~p~-ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP~s~eeL~~aI~~a 89 (534)
.+.++++|+..|. .+|.| ..++.+.+.+++++||+-.+.-.++++++++++..+
T Consensus 180 ~~av~~~r~~~~~~~kIeV--Ev~slee~~ea~~~gaDiImLDn~s~e~l~~av~~~ 234 (281)
T PRK06543 180 TEALRHVRAQLGHTTHVEV--EVDRLDQIEPVLAAGVDTIMLDNFSLDDLREGVELV 234 (281)
T ss_pred HHHHHHHHHhCCCCCcEEE--EeCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHh
Confidence 4566777777663 45443 344677888999999999999999999999999854
No 489
>cd01838 Isoamyl_acetate_hydrolase_like Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is 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=27.01 E-value=2.6e+02 Score=25.72 Aligned_cols=40 Identities=10% Similarity=0.068 Sum_probs=26.4
Q ss_pred CceEEEEeCCCCCCC---------H-------HHHHHHHHhhCCCCcEEEEecCCC
Q 043479 18 DIDLVVTDLHMPEMN---------G-------IELQKEINEEFTHLPVMVMSSDDR 57 (534)
Q Consensus 18 ~pDLVLLDi~mPdmd---------G-------leLL~~Lr~~~p~ipVIVLSs~~d 57 (534)
.||+||+-+-.-|.. . -.+++++++..+.++||+++....
T Consensus 63 ~pd~vii~~G~ND~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ii~~t~~~~ 118 (199)
T cd01838 63 QPDLVTIFFGANDAALPGQPQHVPLDEYKENLRKIVSHLKSLSPKTKVILITPPPV 118 (199)
T ss_pred CceEEEEEecCccccCCCCCCcccHHHHHHHHHHHHHHHHhhCCCCeEEEeCCCCC
Confidence 699999966443321 1 235666666668899999987653
No 490
>PRK05581 ribulose-phosphate 3-epimerase; Validated
Probab=26.99 E-value=3.6e+02 Score=25.97 Aligned_cols=68 Identities=19% Similarity=0.255 Sum_probs=39.8
Q ss_pred HHHHHHHHHhcCCceEEEEeCCCCCCC-------HHHHHHHHHhhCCC--C-cEEEEecCCCHHHHHHHHHcCCcEEEeC
Q 043479 6 PVEALATVRIQRDIDLVVTDLHMPEMN-------GIELQKEINEEFTH--L-PVMVMSSDDRESVIMKALASGVAFYILK 75 (534)
Q Consensus 6 ~~EALe~L~~~~~pDLVLLDi~mPdmd-------GleLL~~Lr~~~p~--i-pVIVLSs~~d~~~~~~AL~aGA~dyL~K 75 (534)
..+.++.+.. .+|.|+++...|+.+ +++.++++++..+. + ++|++.+--+.+.+.++.+.|++.++.-
T Consensus 121 ~~e~~~~~~~--~~d~i~~~~~~~g~tg~~~~~~~~~~i~~~~~~~~~~~~~~~i~v~GGI~~~nv~~l~~~GaD~vvvg 198 (220)
T PRK05581 121 PLEPLEDVLD--LLDLVLLMSVNPGFGGQKFIPEVLEKIRELRKLIDERGLDILIEVDGGINADNIKECAEAGADVFVAG 198 (220)
T ss_pred CHHHHHHHHh--hCCEEEEEEECCCCCcccccHHHHHHHHHHHHHHHhcCCCceEEEECCCCHHHHHHHHHcCCCEEEEC
Confidence 3455554432 368777776545433 33455555443221 2 4555666666778888888999987543
No 491
>cd00945 Aldolase_Class_I Class I aldolases. The class I aldolases use an active-site lysine which stablilzes a reaction intermediates via Schiff base formation, and have TIM beta/alpha barrel fold. The members of this family include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-4-hydroxyglutarate (KHG) aldolases, transaldolase, dihydrodipicolinate synthase sub-family, Type I 3-dehydroquinate dehydratase, DeoC and DhnA proteins, and metal-independent fructose-1,6-bisphosphate aldolase. Although structurally similar, the class II aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=26.88 E-value=1.8e+02 Score=26.94 Aligned_cols=41 Identities=15% Similarity=0.037 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhCC-CCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 33 GIELQKEINEEFT-HLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 33 GleLL~~Lr~~~p-~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
.++.++.+++..+ .++|++..+..+.+.+..++..|+++++
T Consensus 158 ~~~~~~~i~~~~~~~~~v~~~gg~~~~~~~~~~~~~Ga~g~~ 199 (201)
T cd00945 158 TVEDVKLMKEAVGGRVGVKAAGGIKTLEDALAAIEAGADGIG 199 (201)
T ss_pred CHHHHHHHHHhcccCCcEEEECCCCCHHHHHHHHHhccceee
Confidence 4556666665543 5678777777667777888888888765
No 492
>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.
Probab=26.86 E-value=2.3e+02 Score=29.29 Aligned_cols=41 Identities=12% Similarity=0.093 Sum_probs=34.7
Q ss_pred HHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 34 IELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 34 leLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
++.+.++++.. +++|||...+-.+.+.+.+++.+||+.+..
T Consensus 239 l~~v~~~~~~~~~~ipIig~GGI~~~~da~~~l~aGA~~V~i 280 (299)
T cd02940 239 LRAVSQIARAPEPGLPISGIGGIESWEDAAEFLLLGASVVQV 280 (299)
T ss_pred HHHHHHHHHhcCCCCcEEEECCCCCHHHHHHHHHcCCChheE
Confidence 67888888765 369999999999999999999999987643
No 493
>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=26.83 E-value=3.8e+02 Score=27.12 Aligned_cols=69 Identities=16% Similarity=0.014 Sum_probs=47.7
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCC-CH--HHHHHHHHhhCCCCcEEEEecCCCHHHHHHHH---HcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEM-NG--IELQKEINEEFTHLPVMVMSSDDRESVIMKAL---ASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdm-dG--leLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL---~aGA~dyL~ 74 (534)
+..++++.+....--.+|++|+.--++ .| +++++++++. .++|||.--+-.+.+.+.+.. ..|+++.+.
T Consensus 150 ~~~~~~~~~~~~g~~~ii~tdI~~dGt~~G~d~~l~~~l~~~-~~~pviasGGv~s~eDl~~l~~l~~~Gv~gviv 224 (243)
T TIGR01919 150 DLEVLERLLDSGGCSRVVVTDSKKDGLSGGPNELLLEVVAAR-TDAIVAASGGSSLLDDLRAIKYLDEGGVSVAIG 224 (243)
T ss_pred cHHHHHHHHHhCCCCEEEEEecCCcccCCCcCHHHHHHHHhh-CCCCEEEECCcCCHHHHHHHHhhccCCeeEEEE
Confidence 456777777652223799999987653 34 5678888876 568999887777777766543 458887765
No 494
>COG2070 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]
Probab=26.79 E-value=2.1e+02 Score=30.49 Aligned_cols=68 Identities=24% Similarity=0.205 Sum_probs=51.3
Q ss_pred ecCHHHHHHHHHhcCCceEEEEeCC-CCC--------CCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE
Q 043479 3 VTRPVEALATVRIQRDIDLVVTDLH-MPE--------MNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY 72 (534)
Q Consensus 3 ass~~EALe~L~~~~~pDLVLLDi~-mPd--------mdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy 72 (534)
+.+..+|.+..+ ...|.||..-. -.+ ..-+.|+.++++....+|||.--+-.+...+..++.+||++.
T Consensus 134 v~~~~~A~~~~~--~G~d~vI~~g~eAGGH~g~~~~~~~t~~Lv~ev~~~~~~iPViAAGGI~dg~~i~AAlalGA~gV 210 (336)
T COG2070 134 VITVREALKAER--AGADAVIAQGAEAGGHRGGVDLEVSTFALVPEVVDAVDGIPVIAAGGIADGRGIAAALALGADGV 210 (336)
T ss_pred eCCHHHHHHHHh--CCCCEEEecCCcCCCcCCCCCCCccHHHHHHHHHHHhcCCCEEEecCccChHHHHHHHHhccHHH
Confidence 456777777765 35788877643 222 233788889888765589999999999999999999999875
No 495
>cd00516 PRTase_typeII Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate phosphoribosyltransferase (NAPRTase), to be used in the synthesis of NAD. QAPRTase 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, an important step in the de novo synthesis of NAD. NAPRTase catalyses a similar reaction leading to NAMN and pyrophosphate, using nicotinic acid an PPRP as substrates, used in the NAD salvage pathway.
Probab=26.73 E-value=1.6e+02 Score=29.91 Aligned_cols=70 Identities=19% Similarity=0.034 Sum_probs=43.2
Q ss_pred eecCHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhh------CCCCcEEEEecCCCHHHHHHHHHcCCcEEE
Q 043479 2 TVTRPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEE------FTHLPVMVMSSDDRESVIMKALASGVAFYI 73 (534)
Q Consensus 2 tass~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~------~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL 73 (534)
.+.+..++++.+.. ..+|+|.+|-.-|+ ++-..+..++.. .+.-.+|++|+.-+.+.+....+.|++.|-
T Consensus 190 e~~~~~~~~~~~~~-~~~d~irlDs~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~Sggi~~~~i~~~~~~gvd~~g 265 (281)
T cd00516 190 EVDTLEEALEAAKA-GGADGIRLDSGSPE-ELDPAVLILKARAHLDGKGLPRVKIEASGGLDEENIRAYAETGVDVFG 265 (281)
T ss_pred EeCCHHHHHHHHhc-CCCCEEEeCCCChH-HHHHHHHHHHHHHhhhhcCCCceEEEEeCCCCHHHHHHHHHcCCCEEE
Confidence 34567788887765 34999999965442 222222222221 122346777887788888887888876653
No 496
>PRK15484 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional
Probab=26.66 E-value=2.9e+02 Score=29.16 Aligned_cols=67 Identities=18% Similarity=0.282 Sum_probs=41.4
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEE-EeCCCChHHHHHHHHHHHHH
Q 043479 19 IDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFY-ILKPLNPDDLKNVWQYAMTY 92 (534)
Q Consensus 19 pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dy-L~KP~s~eeL~~aI~~aL~~ 92 (534)
.|++++-....+.-|..+++.+. ..+|||.. .... ..+.+..|..+| +..|.+.++|.++|.+++..
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---AGKPVLAS-TKGG---ITEFVLEGITGYHLAEPMTSDSIISDINRTLAD 344 (380)
T ss_pred CCEEEeCCCCccccccHHHHHHH---cCCCEEEe-CCCC---cHhhcccCCceEEEeCCCCHHHHHHHHHHHHcC
Confidence 47766643332333445555544 34787653 3222 234456678888 56789999999999998753
No 497
>cd03315 MLE_like Muconate lactonizing enzyme (MLE) like subgroup 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 residues that can function as general acid/base catalysts, a Lys-X-Lys motif and another conserved lysine. Despite these conserved residues, the members of the MLE subgroup, like muconate lactonizing enzyme, o-succinylbenzoate synthase (OSBS) and N-acylamino acid racemase (NAAAR), catalyze different reactions.
Probab=26.52 E-value=2.7e+02 Score=27.93 Aligned_cols=77 Identities=19% Similarity=0.280 Sum_probs=43.9
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcC-CcEEEeCCCChHHHH
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHMPEMNGIELQKEINEEFTHLPVMVMSSDDRESVIMKALASG-VAFYILKPLNPDDLK 83 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~mPdmdGleLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aG-A~dyL~KP~s~eeL~ 83 (534)
+.++|++.++.-...++..++--++. +.++.+++|++.. .+||+.-=...+.....++++.+ ++.+..||...--|.
T Consensus 141 ~~~~a~~~~~~l~~~~i~~iEeP~~~-~d~~~~~~l~~~~-~ipia~dE~~~~~~~~~~~i~~~~~d~v~~k~~~~GGi~ 218 (265)
T cd03315 141 TPKQAIRALRALEDLGLDYVEQPLPA-DDLEGRAALARAT-DTPIMADESAFTPHDAFRELALGAADAVNIKTAKTGGLT 218 (265)
T ss_pred CHHHHHHHHHHHHhcCCCEEECCCCc-ccHHHHHHHHhhC-CCCEEECCCCCCHHHHHHHHHhCCCCEEEEecccccCHH
Confidence 45666666554233556556543432 3467777777654 37766433334556667777776 455568886543333
No 498
>PRK04302 triosephosphate isomerase; Provisional
Probab=26.35 E-value=1.7e+02 Score=28.96 Aligned_cols=55 Identities=11% Similarity=0.101 Sum_probs=37.8
Q ss_pred HHHHHHHhhCCCCcEEEEecCCCHHHHHHHHHcCCcEEEeCC--CChHHHHHHHHHH
Q 043479 35 ELQKEINEEFTHLPVMVMSSDDRESVIMKALASGVAFYILKP--LNPDDLKNVWQYA 89 (534)
Q Consensus 35 eLL~~Lr~~~p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~KP--~s~eeL~~aI~~a 89 (534)
++++.+++...++|||.-.+-.+.+.+.++++.|+++++.-. +..+++...++.+
T Consensus 162 ~~~~~ir~~~~~~pvi~GggI~~~e~~~~~~~~gadGvlVGsa~l~~~~~~~~~~~~ 218 (223)
T PRK04302 162 DAVEAVKKVNPDVKVLCGAGISTGEDVKAALELGADGVLLASGVVKAKDPEAALRDL 218 (223)
T ss_pred HHHHHHHhccCCCEEEEECCCCCHHHHHHHHcCCCCEEEEehHHhCCcCHHHHHHHH
Confidence 455566665556899988888888999999999999997543 2234444444433
No 499
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=26.17 E-value=1.5e+02 Score=32.36 Aligned_cols=60 Identities=22% Similarity=0.316 Sum_probs=38.4
Q ss_pred ccCCchhhHHHHHHHHHh---ccCC----------CcHHHHHHHcCC---CCCCHHHHHHHHHHHHHHHHHHHhhh
Q 043479 162 VAWTDSLHNRFLQAIRHI---GLEK----------AVPKKILEFMNV---PGLTRENVASHLQKYRIFLKRVAEQG 221 (534)
Q Consensus 162 v~Wt~eLh~RFleaLe~L---Glek----------AvpK~ILe~M~V---~GLT~~tVaSHLQKyRl~lkr~a~~~ 221 (534)
-+|.+++...|.+|+..| |.-| -.+.-|+.+... +--|+++|.||+|-......|.....
T Consensus 77 gvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~k 152 (455)
T KOG3841|consen 77 GVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAK 152 (455)
T ss_pred cccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhh
Confidence 379999999999999998 3211 113345554443 33469999999995444333443333
No 500
>cd04737 LOX_like_FMN L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. 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=25.99 E-value=3.4e+02 Score=29.19 Aligned_cols=68 Identities=24% Similarity=0.260 Sum_probs=48.5
Q ss_pred CHHHHHHHHHhcCCceEEEEeCCC-----CCCCHHHHHHHHHhhC-CCCcEEEEecCCCHHHHHHHHHcCCcEEEe
Q 043479 5 RPVEALATVRIQRDIDLVVTDLHM-----PEMNGIELQKEINEEF-THLPVMVMSSDDRESVIMKALASGVAFYIL 74 (534)
Q Consensus 5 s~~EALe~L~~~~~pDLVLLDi~m-----PdmdGleLL~~Lr~~~-p~ipVIVLSs~~d~~~~~~AL~aGA~dyL~ 74 (534)
+.++|...++ ..+|.|++.=+- .....++.+.++++.. .++|||+-.+-.....+.+++.+||+....
T Consensus 231 ~~~dA~~a~~--~G~d~I~vsnhGGr~ld~~~~~~~~l~~i~~a~~~~i~vi~dGGIr~g~Di~kaLalGA~~V~i 304 (351)
T cd04737 231 SPEDADVAIN--AGADGIWVSNHGGRQLDGGPASFDSLPEIAEAVNHRVPIIFDSGVRRGEHVFKALASGADAVAV 304 (351)
T ss_pred CHHHHHHHHH--cCCCEEEEeCCCCccCCCCchHHHHHHHHHHHhCCCCeEEEECCCCCHHHHHHHHHcCCCEEEE
Confidence 5666666654 458887774221 1123467777776644 369999999999999999999999998865
Done!