Query 012710
Match_columns 458
No_of_seqs 286 out of 2018
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 05:30:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012710.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012710hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07598 RNA polymerase sigma 100.0 3E-39 6.5E-44 334.4 19.6 166 290-456 58-266 (415)
2 TIGR02997 Sig70-cyanoRpoD RNA 100.0 9.7E-37 2.1E-41 301.2 19.2 162 292-454 1-163 (298)
3 PRK07406 RNA polymerase sigma 100.0 1.1E-36 2.4E-41 311.7 19.7 164 291-455 62-226 (373)
4 PRK05949 RNA polymerase sigma 100.0 2.4E-35 5.3E-40 296.7 20.4 165 290-455 16-181 (327)
5 PRK07405 RNA polymerase sigma 100.0 2.1E-34 4.5E-39 288.4 19.4 164 291-455 7-171 (317)
6 PRK05901 RNA polymerase sigma 100.0 4.4E-34 9.4E-39 302.3 14.0 153 289-455 208-361 (509)
7 COG0568 RpoD DNA-directed RNA 100.0 1E-33 2.2E-38 286.6 13.4 164 291-455 8-192 (342)
8 PRK07921 RNA polymerase sigma 100.0 1.3E-31 2.9E-36 269.6 16.0 164 278-455 12-176 (324)
9 PRK09210 RNA polymerase sigma 99.9 2.8E-27 6E-32 241.3 14.4 125 290-455 94-219 (367)
10 PRK05658 RNA polymerase sigma 99.9 1.8E-27 3.8E-32 256.9 12.8 92 364-455 379-470 (619)
11 PRK07122 RNA polymerase sigma 99.9 1.1E-25 2.5E-30 219.8 10.1 92 364-455 39-130 (264)
12 TIGR02392 rpoH_proteo alternat 99.9 1.6E-24 3.5E-29 211.4 14.9 116 293-448 2-118 (270)
13 PRK06596 RNA polymerase factor 99.9 2.5E-24 5.5E-29 212.3 15.2 119 290-448 12-131 (284)
14 PRK07500 rpoH2 RNA polymerase 99.9 4.8E-23 1E-27 203.9 15.2 118 292-449 6-124 (289)
15 TIGR02393 RpoD_Cterm RNA polym 99.9 2.5E-23 5.5E-28 199.0 9.1 90 366-455 1-90 (238)
16 PRK07408 RNA polymerase sigma 99.9 6.1E-22 1.3E-26 192.2 12.5 93 363-455 23-116 (256)
17 PRK05657 RNA polymerase sigma 99.9 2.9E-21 6.4E-26 194.5 14.6 122 290-452 51-173 (325)
18 COG1191 FliA DNA-directed RNA 99.8 3.4E-20 7.3E-25 181.6 11.8 91 363-455 22-113 (247)
19 TIGR02394 rpoS_proteo RNA poly 99.8 1.6E-19 3.5E-24 177.4 14.8 126 287-453 8-134 (285)
20 PRK05911 RNA polymerase sigma 99.8 1.2E-19 2.7E-24 176.5 11.3 91 362-455 20-113 (257)
21 TIGR02850 spore_sigG RNA polym 99.8 4.4E-19 9.5E-24 171.5 13.2 113 301-454 10-122 (254)
22 PRK08215 sporulation sigma fac 99.8 1.4E-18 3.1E-23 168.1 13.0 111 302-453 14-124 (258)
23 TIGR02980 SigBFG RNA polymeras 99.7 1.3E-17 2.7E-22 157.6 10.0 90 364-453 2-91 (227)
24 TIGR02941 Sigma_B RNA polymera 99.7 3.8E-17 8.1E-22 157.6 12.8 92 363-454 27-118 (255)
25 PRK06288 RNA polymerase sigma 99.7 3.2E-17 7E-22 159.7 12.3 112 300-453 5-119 (268)
26 TIGR02885 spore_sigF RNA polym 99.7 1.5E-16 3.2E-21 150.9 10.8 93 361-454 7-99 (231)
27 PRK08583 RNA polymerase sigma 99.7 4.3E-16 9.3E-21 150.4 13.4 90 363-452 27-116 (257)
28 TIGR02895 spore_sigI RNA polym 99.6 1.4E-15 3E-20 146.6 10.2 90 360-449 4-98 (218)
29 PRK12427 flagellar biosynthesi 99.6 1.3E-15 2.8E-20 146.5 8.7 86 365-454 15-103 (231)
30 PRK05572 sporulation sigma fac 99.6 7.3E-15 1.6E-19 141.9 13.1 111 302-453 9-119 (252)
31 PRK07670 RNA polymerase sigma 99.6 1.5E-14 3.2E-19 139.7 10.6 98 354-454 9-111 (251)
32 TIGR02479 FliA_WhiG RNA polyme 99.5 9.1E-15 2E-19 138.3 8.2 82 370-454 1-85 (224)
33 PRK05803 sporulation sigma fac 99.5 2E-13 4.2E-18 130.4 13.5 105 294-439 18-123 (233)
34 PRK06986 fliA flagellar biosyn 99.5 1.8E-13 3.8E-18 130.7 9.3 86 362-450 5-93 (236)
35 TIGR02846 spore_sigmaK RNA pol 99.2 3.3E-10 7.1E-15 108.1 13.3 77 363-439 46-122 (227)
36 PRK08301 sporulation sigma fac 99.2 2.9E-10 6.2E-15 108.3 12.4 77 363-439 50-126 (234)
37 PF04542 Sigma70_r2: Sigma-70 99.1 1.9E-10 4E-15 88.7 8.4 70 370-439 1-70 (71)
38 PRK08311 putative RNA polymera 99.1 7E-10 1.5E-14 108.3 11.6 91 353-443 5-98 (237)
39 PRK08295 RNA polymerase factor 99.0 1.9E-09 4.2E-14 99.6 11.2 91 352-442 10-101 (208)
40 TIGR02835 spore_sigmaE RNA pol 99.0 2.9E-09 6.3E-14 102.1 12.5 77 363-439 50-126 (234)
41 TIGR02859 spore_sigH RNA polym 98.9 7.5E-09 1.6E-13 94.8 10.8 87 351-437 4-91 (198)
42 TIGR02937 sigma70-ECF RNA poly 98.9 5.4E-09 1.2E-13 88.6 8.5 72 366-439 2-73 (158)
43 PRK09652 RNA polymerase sigma 98.8 2.3E-08 5E-13 89.2 8.9 79 361-441 6-84 (182)
44 PRK05602 RNA polymerase sigma 98.7 1.1E-07 2.3E-12 87.2 10.2 87 352-439 6-93 (186)
45 PRK12513 RNA polymerase sigma 98.6 2.6E-07 5.6E-12 85.1 10.4 89 353-443 13-102 (194)
46 PRK09641 RNA polymerase sigma 98.6 2.4E-07 5.2E-12 84.0 9.7 84 354-439 6-90 (187)
47 PRK09646 RNA polymerase sigma 98.6 2.7E-07 5.9E-12 85.4 10.1 86 353-439 17-103 (194)
48 PRK09648 RNA polymerase sigma 98.6 3.8E-07 8.3E-12 83.7 10.9 86 355-441 13-103 (189)
49 TIGR02948 SigW_bacill RNA poly 98.6 2.6E-07 5.6E-12 83.8 9.1 82 356-439 9-90 (187)
50 PRK11922 RNA polymerase sigma 98.6 4E-07 8.8E-12 87.1 10.8 80 362-443 27-106 (231)
51 PRK09640 RNA polymerase sigma 98.5 5.7E-07 1.2E-11 82.8 10.7 87 351-439 8-98 (188)
52 PRK06811 RNA polymerase factor 98.5 5.9E-07 1.3E-11 82.9 10.7 89 351-440 3-95 (189)
53 PRK06759 RNA polymerase factor 98.5 3.1E-07 6.8E-12 81.0 8.4 73 364-438 3-75 (154)
54 PRK13919 putative RNA polymera 98.5 5.2E-07 1.1E-11 82.3 9.7 87 352-439 9-96 (186)
55 PRK09638 RNA polymerase sigma 98.5 1.2E-06 2.7E-11 79.0 10.3 86 353-440 5-91 (176)
56 TIGR02952 Sig70_famx2 RNA poly 98.4 1.5E-06 3.3E-11 77.5 10.3 80 361-441 7-86 (170)
57 PRK12519 RNA polymerase sigma 98.4 1.6E-06 3.4E-11 79.8 9.5 86 353-440 16-102 (194)
58 PRK11924 RNA polymerase sigma 98.4 3.2E-06 6.9E-11 75.3 10.3 80 360-441 8-87 (179)
59 PRK11923 algU RNA polymerase s 98.3 3.8E-06 8.1E-11 77.2 10.3 85 354-440 8-93 (193)
60 PRK12524 RNA polymerase sigma 98.3 3.2E-06 6.9E-11 78.5 9.8 87 352-439 12-99 (196)
61 TIGR02939 RpoE_Sigma70 RNA pol 98.3 4.3E-06 9.2E-11 76.1 10.4 84 354-439 8-92 (190)
62 PRK12526 RNA polymerase sigma 98.3 2.9E-06 6.3E-11 79.7 9.4 80 360-440 33-112 (206)
63 PRK12514 RNA polymerase sigma 98.3 3.8E-06 8.1E-11 76.4 9.8 86 353-439 6-92 (179)
64 TIGR02954 Sig70_famx3 RNA poly 98.3 6.3E-06 1.4E-10 74.2 10.4 86 353-440 3-89 (169)
65 TIGR02985 Sig70_bacteroi1 RNA 98.2 3.3E-06 7.2E-11 73.8 6.9 73 366-440 2-74 (161)
66 TIGR02984 Sig-70_plancto1 RNA 98.2 9.8E-06 2.1E-10 73.5 9.4 76 362-437 4-83 (189)
67 PRK12534 RNA polymerase sigma 98.2 6.8E-06 1.5E-10 75.2 8.3 82 357-439 17-98 (187)
68 PRK12531 RNA polymerase sigma 98.2 9.5E-06 2.1E-10 75.2 9.2 83 356-439 17-100 (194)
69 TIGR02989 Sig-70_gvs1 RNA poly 98.2 8.8E-06 1.9E-10 72.0 8.4 73 366-440 2-74 (159)
70 PRK09643 RNA polymerase sigma 98.1 2.4E-05 5.3E-10 72.6 11.0 87 352-440 13-100 (192)
71 PRK12538 RNA polymerase sigma 98.1 1.6E-05 3.5E-10 76.9 10.1 85 353-438 50-135 (233)
72 PRK12536 RNA polymerase sigma 98.1 2.3E-05 5E-10 71.7 10.5 82 356-439 12-94 (181)
73 PRK12515 RNA polymerase sigma 98.1 2.4E-05 5.3E-10 71.9 10.1 87 351-439 7-94 (189)
74 PRK12537 RNA polymerase sigma 98.1 2.1E-05 4.5E-10 72.1 9.5 87 353-440 10-97 (182)
75 PRK12512 RNA polymerase sigma 98.0 4.1E-05 8.9E-10 69.9 10.9 79 361-441 18-100 (184)
76 PRK12522 RNA polymerase sigma 98.0 2.2E-05 4.8E-10 71.1 8.5 73 366-440 4-76 (173)
77 PRK12539 RNA polymerase sigma 97.9 8.1E-05 1.8E-09 68.3 10.5 83 355-439 10-97 (184)
78 PRK12518 RNA polymerase sigma 97.9 7.1E-05 1.5E-09 67.5 9.2 76 360-438 6-81 (175)
79 PRK12543 RNA polymerase sigma 97.8 7E-05 1.5E-09 68.5 8.4 75 362-438 4-78 (179)
80 PRK12542 RNA polymerase sigma 97.8 5.3E-05 1.2E-09 69.5 6.8 79 362-440 6-84 (185)
81 PRK09415 RNA polymerase factor 97.8 0.00011 2.4E-09 67.4 8.7 75 363-439 14-88 (179)
82 PF00140 Sigma70_r1_2: Sigma-7 97.7 1.9E-05 4.1E-10 56.9 2.2 32 292-324 2-34 (37)
83 COG1595 RpoE DNA-directed RNA 97.7 0.00025 5.4E-09 65.1 10.0 84 357-442 7-90 (182)
84 TIGR02983 SigE-fam_strep RNA p 97.7 0.00018 4E-09 64.1 8.7 76 362-439 3-78 (162)
85 TIGR02999 Sig-70_X6 RNA polyme 97.6 0.00029 6.3E-09 64.0 8.5 82 355-438 6-94 (183)
86 PRK09639 RNA polymerase sigma 97.6 0.00027 5.9E-09 63.1 7.7 73 365-441 3-75 (166)
87 PRK12541 RNA polymerase sigma 97.5 0.00053 1.1E-08 61.3 8.3 73 364-439 4-76 (161)
88 PRK09644 RNA polymerase sigma 97.4 0.00059 1.3E-08 61.4 8.3 71 367-440 3-73 (165)
89 PRK09647 RNA polymerase sigma 97.4 0.00071 1.5E-08 64.1 8.9 73 364-439 27-99 (203)
90 PRK08241 RNA polymerase factor 97.4 0.00081 1.7E-08 67.6 9.7 82 356-439 9-91 (339)
91 TIGR03001 Sig-70_gmx1 RNA poly 97.4 0.0011 2.5E-08 64.8 10.3 89 350-440 23-119 (244)
92 PRK12547 RNA polymerase sigma 97.4 0.00087 1.9E-08 60.5 8.6 74 364-439 5-78 (164)
93 PRK09649 RNA polymerase sigma 97.3 0.00096 2.1E-08 61.7 8.8 82 355-439 13-95 (185)
94 PRK09645 RNA polymerase sigma 97.3 0.001 2.3E-08 60.0 8.5 76 363-439 7-82 (173)
95 TIGR02947 SigH_actino RNA poly 97.3 0.00078 1.7E-08 62.2 7.7 75 364-440 10-84 (193)
96 PRK12520 RNA polymerase sigma 97.3 0.00095 2.1E-08 61.5 7.9 74 366-441 3-76 (191)
97 PRK09637 RNA polymerase sigma 97.3 0.0014 3.1E-08 60.6 9.0 75 367-443 3-77 (181)
98 PRK12528 RNA polymerase sigma 97.2 0.0012 2.5E-08 59.1 7.9 71 365-438 4-74 (161)
99 TIGR02943 Sig70_famx1 RNA poly 97.2 0.001 2.2E-08 61.7 7.7 71 368-440 5-75 (188)
100 TIGR02950 SigM_subfam RNA poly 97.2 0.00072 1.6E-08 59.5 6.3 66 372-440 2-67 (154)
101 PRK12535 RNA polymerase sigma 97.2 0.0021 4.5E-08 60.4 9.8 78 359-439 19-96 (196)
102 PRK12532 RNA polymerase sigma 97.2 0.0012 2.5E-08 61.2 7.3 71 368-440 8-79 (195)
103 TIGR02960 SigX5 RNA polymerase 97.1 0.002 4.2E-08 64.1 8.8 75 363-439 3-77 (324)
104 TIGR02959 SigZ RNA polymerase 97.1 0.0016 3.4E-08 59.4 7.5 71 372-444 2-72 (170)
105 PRK12516 RNA polymerase sigma 97.1 0.0025 5.5E-08 59.3 8.8 76 363-440 8-83 (187)
106 PRK12533 RNA polymerase sigma 97.1 0.0032 6.9E-08 60.5 9.3 73 364-439 17-89 (216)
107 PRK12546 RNA polymerase sigma 96.9 0.0051 1.1E-07 57.5 8.7 72 365-439 8-79 (188)
108 PRK09642 RNA polymerase sigma 96.9 0.0017 3.6E-08 57.9 5.2 65 372-439 2-66 (160)
109 PRK12540 RNA polymerase sigma 96.8 0.0058 1.3E-07 56.7 8.4 74 365-440 5-78 (182)
110 PRK12544 RNA polymerase sigma 96.8 0.0054 1.2E-07 58.2 8.2 71 368-440 21-91 (206)
111 PRK12523 RNA polymerase sigma 96.8 0.004 8.6E-08 56.5 7.0 73 363-438 8-80 (172)
112 PRK12529 RNA polymerase sigma 96.6 0.0071 1.5E-07 55.5 7.6 78 361-438 9-88 (178)
113 PRK07037 extracytoplasmic-func 96.6 0.0054 1.2E-07 54.7 6.6 68 369-439 2-69 (163)
114 PRK12545 RNA polymerase sigma 96.6 0.0076 1.6E-07 56.6 7.8 70 369-440 12-81 (201)
115 PRK12517 RNA polymerase sigma 96.6 0.0097 2.1E-07 55.4 8.4 76 360-437 18-93 (188)
116 PRK09651 RNA polymerase sigma 96.2 0.018 3.9E-07 52.4 7.7 72 364-438 9-80 (172)
117 PRK12530 RNA polymerase sigma 96.2 0.016 3.5E-07 53.8 7.5 71 368-440 10-80 (189)
118 PRK12511 RNA polymerase sigma 96.1 0.02 4.4E-07 53.1 7.6 72 367-440 6-77 (182)
119 PRK05658 RNA polymerase sigma 96.1 0.015 3.2E-07 64.2 7.5 33 290-323 102-135 (619)
120 PRK12527 RNA polymerase sigma 95.4 0.034 7.4E-07 49.6 5.9 64 372-438 2-65 (159)
121 PRK09636 RNA polymerase sigma 95.3 0.04 8.7E-07 54.7 6.7 69 366-438 5-73 (293)
122 PRK12525 RNA polymerase sigma 95.3 0.079 1.7E-06 48.0 7.8 72 364-438 8-79 (168)
123 TIGR02957 SigX4 RNA polymerase 95.1 0.043 9.3E-07 54.5 6.2 66 369-438 1-66 (281)
124 PRK06704 RNA polymerase factor 94.8 0.09 1.9E-06 51.5 7.2 79 355-439 8-86 (228)
125 PF04539 Sigma70_r3: Sigma-70 94.7 0.062 1.3E-06 43.1 5.0 39 323-361 4-42 (78)
126 PF12645 HTH_16: Helix-turn-he 94.6 0.15 3.2E-06 41.1 7.0 57 355-411 3-65 (65)
127 PRK09191 two-component respons 94.1 0.16 3.4E-06 48.0 7.0 63 366-430 2-64 (261)
128 PRK09635 sigI RNA polymerase s 93.2 0.19 4.2E-06 50.6 6.3 70 365-438 5-74 (290)
129 PF07638 Sigma70_ECF: ECF sigm 93.1 0.5 1.1E-05 44.1 8.5 91 355-445 6-102 (185)
130 TIGR03209 P21_Cbot clostridium 92.9 0.36 7.9E-06 42.3 7.0 67 368-439 2-71 (142)
131 PRK09047 RNA polymerase factor 90.4 0.64 1.4E-05 41.1 5.8 46 391-439 6-51 (161)
132 PHA02547 55 RNA polymerase sig 90.0 1 2.3E-05 43.1 7.0 68 370-437 42-112 (179)
133 COG1191 FliA DNA-directed RNA 63.3 14 0.00031 37.1 5.5 40 324-363 111-150 (247)
134 PRK07408 RNA polymerase sigma 57.2 26 0.00056 34.5 6.0 36 324-359 114-149 (256)
135 TIGR02850 spore_sigG RNA polym 56.2 28 0.0006 34.1 6.0 38 324-361 121-158 (254)
136 TIGR02393 RpoD_Cterm RNA polym 55.2 31 0.00067 33.4 6.1 37 324-360 88-124 (238)
137 PRK07122 RNA polymerase sigma 55.1 30 0.00064 34.4 6.1 38 324-361 128-165 (264)
138 PRK07921 RNA polymerase sigma 54.8 29 0.00062 35.9 6.1 38 323-360 173-210 (324)
139 PRK12427 flagellar biosynthesi 51.9 25 0.00054 34.2 5.0 36 325-360 103-138 (231)
140 PRK09210 RNA polymerase sigma 48.5 40 0.00088 35.3 6.1 38 324-361 217-254 (367)
141 PRK05911 RNA polymerase sigma 46.3 49 0.0011 32.7 6.0 36 325-360 112-147 (257)
142 PRK05901 RNA polymerase sigma 45.3 46 0.00099 36.9 6.2 38 323-360 358-395 (509)
143 PRK07406 RNA polymerase sigma 41.5 60 0.0013 34.5 6.2 37 323-359 223-259 (373)
144 PRK14082 hypothetical protein; 40.3 95 0.0021 25.7 5.7 56 364-421 8-63 (65)
145 TIGR01446 DnaD_dom DnaD and ph 39.5 77 0.0017 25.0 5.2 49 343-395 22-71 (73)
146 TIGR02885 spore_sigF RNA polym 38.6 54 0.0012 31.3 4.9 36 326-361 100-135 (231)
147 PRK05949 RNA polymerase sigma 37.0 84 0.0018 32.5 6.3 37 324-360 179-215 (327)
148 PRK07670 RNA polymerase sigma 36.9 69 0.0015 31.2 5.4 37 325-361 111-147 (251)
149 TIGR02479 FliA_WhiG RNA polyme 36.8 73 0.0016 30.3 5.5 37 324-360 84-120 (224)
150 PF14711 Nitr_red_bet_C: Respi 36.6 80 0.0017 27.0 5.0 52 293-353 31-82 (83)
151 COG0568 RpoD DNA-directed RNA 36.0 84 0.0018 33.3 6.1 42 318-359 184-225 (342)
152 KOG0037 Ca2+-binding protein, 35.3 2.9E+02 0.0063 27.8 9.3 100 296-416 101-205 (221)
153 PRK07598 RNA polymerase sigma 34.8 67 0.0015 34.7 5.3 38 324-361 263-300 (415)
154 PRK08215 sporulation sigma fac 32.6 1.1E+02 0.0024 29.9 6.1 36 325-360 125-160 (258)
155 PRK06288 RNA polymerase sigma 30.3 84 0.0018 31.0 4.9 37 324-360 119-155 (268)
156 PF01726 LexA_DNA_bind: LexA D 30.3 1.5E+02 0.0032 23.9 5.4 23 334-356 20-43 (65)
157 PRK07405 RNA polymerase sigma 30.1 1.3E+02 0.0027 31.0 6.2 37 324-360 169-205 (317)
158 smart00342 HTH_ARAC helix_turn 28.9 1.5E+02 0.0033 22.4 5.2 24 339-362 1-24 (84)
159 TIGR02997 Sig70-cyanoRpoD RNA 28.5 1.5E+02 0.0032 29.9 6.3 37 324-360 162-198 (298)
160 PRK11511 DNA-binding transcrip 26.7 1.4E+02 0.0031 26.3 5.2 38 325-362 11-48 (127)
161 PRK10219 DNA-binding transcrip 26.3 1.4E+02 0.003 25.1 4.9 38 325-362 7-44 (107)
162 TIGR03826 YvyF flagellar opero 25.8 1.6E+02 0.0036 27.3 5.6 37 327-363 34-70 (137)
163 PRK07500 rpoH2 RNA polymerase 25.4 1.3E+02 0.0027 30.5 5.2 24 335-358 144-167 (289)
164 TIGR02980 SigBFG RNA polymeras 25.2 1.3E+02 0.0028 28.6 5.0 34 327-360 94-127 (227)
165 PRK15186 AraC family transcrip 24.5 1.8E+02 0.0038 29.8 6.1 33 330-362 188-220 (291)
166 PRK15044 transcriptional regul 24.5 2.4E+02 0.0053 29.4 7.1 88 325-425 194-281 (295)
167 COG0122 AlkA 3-methyladenine D 23.7 1.7E+02 0.0036 30.0 5.7 107 323-430 121-273 (285)
168 PRK05449 aspartate alpha-decar 20.0 7.3 0.00016 35.7 -4.3 32 393-424 30-61 (126)
No 1
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=100.00 E-value=3e-39 Score=334.39 Aligned_cols=166 Identities=43% Similarity=0.722 Sum_probs=155.7
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHH--------------------HHHHHHHHHhhcCCCCchHHHHHH
Q 012710 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLK--------------------LEGLREVLSERCGGSPTFAQWAAA 348 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~--------------------lE~lr~~L~~~~Gr~pt~~ewA~a 348 (458)
..|+++ ||++| |+.||||++||++|+++||+++. |++++..|.+++|++||..+||.+
T Consensus 58 ~~d~v~~yl~~i-gr~~lL~~~eEv~l~~~vq~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~g~~pt~~ewa~~ 136 (415)
T PRK07598 58 STDLVRLYLQEI-GRVRLLGRDEEVSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSLERWAKT 136 (415)
T ss_pred CCChHHHHHHhc-ccccCCCHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence 378999 99999 99999999999999999999999 899999999999999999999965
Q ss_pred hc----------------------CCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHH
Q 012710 349 AG----------------------VDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRG 406 (458)
Q Consensus 349 ag----------------------~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikA 406 (458)
+| ++.++|.+.++.|..|+++||.+|+++|++||++|.++|++++||||||+|||++|
T Consensus 137 ~~~~~~~l~~~l~~~~~~~~~~~~l~~~eL~~~l~~G~~A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~ra 216 (415)
T PRK07598 137 ADISLADLKPTLAEGKRRWAEIAKLTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERA 216 (415)
T ss_pred hCCcHHHHHHhhhhhhhhhhhhccCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 55 45556666677889999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhhhhccccc
Q 012710 407 AEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNLQSE 456 (458)
Q Consensus 407 IeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~inkL~E 456 (458)
+++|||++|++|+|||+||||++|.+++++++++||+|.|+.+.++++.+
T Consensus 217 vekFDp~rG~rFSTYa~wwIRqaI~r~i~~~srtIrlP~~i~e~l~~lrk 266 (415)
T PRK07598 217 VEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKK 266 (415)
T ss_pred HHHcCcccCCCHHHHHHHHHHHHHHHHHHHcCCceehhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999988753
No 2
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family. This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393).
Probab=100.00 E-value=9.7e-37 Score=301.22 Aligned_cols=162 Identities=49% Similarity=0.827 Sum_probs=157.0
Q ss_pred CHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHH
Q 012710 292 DPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKM 370 (458)
Q Consensus 292 d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekL 370 (458)
|++. ||+++ ++.|+||++||.+|++++++++.++.++.+|+++.|++||..+||+++|++..+|...++.|..|+++|
T Consensus 1 ~~~~~yl~~~-~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~L 79 (298)
T TIGR02997 1 DLVRLYLQEI-GRVPLLTPEEEIELARQVQQMMVLEELREELEEQLGREPSKEEWAAAAGLSEAELRQRLRQGQRAKEKM 79 (298)
T ss_pred CcHHHHHHHc-cccCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHhhcCCCcHHHHHHhccCCHHHHHHHHhccHHHHHHH
Confidence 4566 99999 999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhhh
Q 012710 371 ITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450 (458)
Q Consensus 371 I~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~ 450 (458)
|..|+++|+++|++|.++|++++||||||++|||+|+++|||++|++|+|||+||||++|.++|.+++++||+|.++...
T Consensus 80 v~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I~r~i~~~~r~vr~p~~~~~~ 159 (298)
T TIGR02997 80 IKANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGITRAIANQSRTIRLPIHITEK 159 (298)
T ss_pred HHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHHHHHHHhcCCCeeCcHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999887
Q ss_pred hccc
Q 012710 451 GNLQ 454 (458)
Q Consensus 451 inkL 454 (458)
++++
T Consensus 160 ~~~~ 163 (298)
T TIGR02997 160 LNKI 163 (298)
T ss_pred HHHH
Confidence 7765
No 3
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=100.00 E-value=1.1e-36 Score=311.75 Aligned_cols=164 Identities=48% Similarity=0.793 Sum_probs=159.8
Q ss_pred CCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHH
Q 012710 291 SDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDK 369 (458)
Q Consensus 291 ~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Arek 369 (458)
.|++. ||++| +++|+||++||++|+++|++++.+++++.+|.++.|++|+..+||.++|++..+|++++..|..++++
T Consensus 62 ~d~l~~Yl~~i-~~~~lLt~eEE~~La~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~ 140 (373)
T PRK07406 62 EDSIRVYLQEI-GRIRLLRPDEEIELARKIADLLELEELREQFESELGREPSDKEWAELVDMPLPKFRRRLMLGRRAKEK 140 (373)
T ss_pred CCHHHHHHHHh-cccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHhhhccccHHHHHHHHhcCHHHHHH
Confidence 57888 99999 99999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhh
Q 012710 370 MITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHG 449 (458)
Q Consensus 370 LI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e 449 (458)
||..|+++|+++|++|.++|++++||+|||+|||++|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+
T Consensus 141 Li~~~l~lV~~iA~ry~~~~~~~eDLiQEG~igL~~Ai~kFd~~kg~~FsTYA~wWIRqaI~~~I~~~~r~IRlP~~~~~ 220 (373)
T PRK07406 141 MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE 220 (373)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhcCCceeCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhcccc
Q 012710 450 RGNLQS 455 (458)
Q Consensus 450 ~inkL~ 455 (458)
.++++.
T Consensus 221 ~~~~i~ 226 (373)
T PRK07406 221 TISRIK 226 (373)
T ss_pred HHHHHH
Confidence 887764
No 4
>PRK05949 RNA polymerase sigma factor; Validated
Probab=100.00 E-value=2.4e-35 Score=296.68 Aligned_cols=165 Identities=41% Similarity=0.733 Sum_probs=160.0
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHH
Q 012710 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKD 368 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Are 368 (458)
..|++. ||+++ ++.|+||++||++|+++|+.++.+++.+..|...+|+.|+..+|+.+++++.++|...++.|..|++
T Consensus 16 ~~d~~~~yl~~i-~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~eL~~~~~~g~~A~~ 94 (327)
T PRK05949 16 SADMVRTYLHEI-GRVPLLTHEQEIVYGKQVQQMMSLLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGKRAKQ 94 (327)
T ss_pred CCCHHHHHHHHc-CCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHhccCCHHHHHHHHHccHHHHH
Confidence 468898 99999 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhh
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISH 448 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~ 448 (458)
+||..|+++|+++|++|.+.|.+.+||||||++||++++++|||++|++|+|||+||||++|.++|.+++++||+|.|+.
T Consensus 95 ~Li~~~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I~r~i~~~~r~iRlP~~~~ 174 (327)
T PRK05949 95 KMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHIT 174 (327)
T ss_pred HHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHHHHHHHHcCCceeCCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccc
Q 012710 449 GRGNLQS 455 (458)
Q Consensus 449 e~inkL~ 455 (458)
+.++++.
T Consensus 175 ~~~~~l~ 181 (327)
T PRK05949 175 EKLNKIK 181 (327)
T ss_pred HHHHHHH
Confidence 8887663
No 5
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=100.00 E-value=2.1e-34 Score=288.37 Aligned_cols=164 Identities=45% Similarity=0.748 Sum_probs=159.3
Q ss_pred CCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHH
Q 012710 291 SDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDK 369 (458)
Q Consensus 291 ~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Arek 369 (458)
.|++. ||+++ ++.|+||++||.+|+++|++++.+++++..|.+++|+.|+..+||.+++++...|...++.|..|+++
T Consensus 7 ~~~~~~yl~~i-~~~~lLt~eeE~~La~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~g~~A~~~ 85 (317)
T PRK07405 7 TDLVRTYLREI-GRVPLLTHEEEILYGKQVQRLVALQEIREELAEELGREPTDAEWAKAAKLSEEELRSAIAEGEAAKRK 85 (317)
T ss_pred CcHHHHHHHHc-cccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHhhhccCCHHHHHHHHhccHHHHHH
Confidence 57888 99999 99999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhh
Q 012710 370 MITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHG 449 (458)
Q Consensus 370 LI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e 449 (458)
|+..|+++|+++|++|.+.|.+.+||+|||++||++++++|||++|++|+|||+||||++|.++|.+++++||+|.++.+
T Consensus 86 L~~~~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~~~i~~~~~~ir~p~~~~~ 165 (317)
T PRK07405 86 MVEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITE 165 (317)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHHHHHHhcCCCccCChHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhcccc
Q 012710 450 RGNLQS 455 (458)
Q Consensus 450 ~inkL~ 455 (458)
.++++.
T Consensus 166 ~~~~l~ 171 (317)
T PRK07405 166 KLNKIK 171 (317)
T ss_pred HHHHHH
Confidence 887664
No 6
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=100.00 E-value=4.4e-34 Score=302.30 Aligned_cols=153 Identities=39% Similarity=0.663 Sum_probs=133.8
Q ss_pred CCCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHH
Q 012710 289 DYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCK 367 (458)
Q Consensus 289 ~~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Ar 367 (458)
...|+++ ||+++ +++|+||++||++|+++|+.+..++. .+. ...+|+.. ...+|+..+..|..|+
T Consensus 208 ~~~d~l~~YL~~i-~~~~lLt~eEE~~La~~i~~g~~~~~---~~~-------~~~~~~~~---~~~~l~~~~~~g~~Ar 273 (509)
T PRK05901 208 ATADPVKAYLKQI-GKVKLLNAEEEVELAKRIEAGLYAEE---LLA-------EGEKLDPE---LRRDLQWIGRDGKRAK 273 (509)
T ss_pred ccccHHHHHHHHh-ccCCCCCHHHHHHHHHHHHhCCchhh---hhh-------hcccchhh---hhhhhhhhccchHHHH
Confidence 3468898 99999 99999999999999999987543322 111 11224322 4577888999999999
Q ss_pred HHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchh
Q 012710 368 DKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVIS 447 (458)
Q Consensus 368 ekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~ 447 (458)
++||.+|+|||++||++|.++|++++|||||||||||+||++|||++|++|+|||+||||++|.++|+++.++||||+|+
T Consensus 274 ~~LI~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~~r~IRvP~~~ 353 (509)
T PRK05901 274 NHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHM 353 (509)
T ss_pred HHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHcCCceecCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcccc
Q 012710 448 HGRGNLQS 455 (458)
Q Consensus 448 ~e~inkL~ 455 (458)
.+.++++.
T Consensus 354 ~e~i~kl~ 361 (509)
T PRK05901 354 VETINKLG 361 (509)
T ss_pred HHHHHHHH
Confidence 99888764
No 7
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=100.00 E-value=1e-33 Score=286.62 Aligned_cols=164 Identities=42% Similarity=0.675 Sum_probs=146.3
Q ss_pred CCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh-hcCCCCchH---------------HHHHHhcCCH
Q 012710 291 SDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSE-RCGGSPTFA---------------QWAAAAGVDQ 353 (458)
Q Consensus 291 ~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~-~~Gr~pt~~---------------ewA~aag~d~ 353 (458)
.|.++ |+.++ +..++++.++|..+...++....+..+...|.. ..+..|+.. +|+.....++
T Consensus 8 ~d~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~E 86 (342)
T COG0568 8 ADAVRAYLDEI-GRIPLLVREAEVELAKQLEDEQLLVELGEDLTDLKLGREPSERARRPAGRLSFYIRAIEAAPLLTPEE 86 (342)
T ss_pred hhHHHHHHHHh-cchhhhhHHHHHHHHHHHhHhhhhhHHHHHHHhcccccccchhhhhhhhhHHHHHHHHhhhcccChHH
Confidence 56777 99999 999999999999999999887777667777776 667888876 5555444444
Q ss_pred -HHHHHHHhccH---HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012710 354 -RELRRRLNYGI---LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 354 -eeL~r~l~~G~---~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
..|...+..|. .|+.+||.+||+||++||++|.++|++|.|||||||||||+||+||||++|++|||||+||||++
T Consensus 87 e~~la~~~~~g~~~~~Ak~klv~snLRlVvsIAk~Y~~rGL~~~DLIQEGniGLmkAVekFdp~rG~kFsTYA~wWIrqa 166 (342)
T COG0568 87 EKALARRLKRGERDLDAKKKLVESNLRLVVSIAKKYTGRGLPFLDLIQEGNIGLMKAVEKFDPEKGFKFSTYATWWIRQA 166 (342)
T ss_pred HHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHhhcCCCcHHHHHhcccHHHHHHHHhcCcccCCcchhHHHHHHHHH
Confidence 67888888774 49999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCccccCchhhhhhcccc
Q 012710 430 VRKSLSDQSRTIRLPVISHGRGNLQS 455 (458)
Q Consensus 430 I~~aIr~qsr~IRlP~~~~e~inkL~ 455 (458)
|.++|.+|.++||+|.|+.+.+|++.
T Consensus 167 I~raI~~q~rtIRipvh~~e~~nkl~ 192 (342)
T COG0568 167 ITRAIADQARTIRIPVHQVELINKLR 192 (342)
T ss_pred HHHHHHHhcchhhHhHHHHHHHHHHH
Confidence 99999999999999999999999875
No 8
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=99.97 E-value=1.3e-31 Score=269.62 Aligned_cols=164 Identities=42% Similarity=0.636 Sum_probs=139.0
Q ss_pred ccCCCCCCCCCCCCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHH
Q 012710 278 SRRKRPSVQEVDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQREL 356 (458)
Q Consensus 278 ~~~kk~~~~~~~~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL 356 (458)
+|+.+...+.....|++. ||+++ +++|+||++||.+|+++|+.+..++.. |+..+|+... ...+|
T Consensus 12 ~~~~~~~~~~~~~~~~~~~Yl~~i-~~~~lLt~eeE~~La~~~~~g~~~~~~-----------~~~~~~~~~~--~~~~l 77 (324)
T PRK07921 12 SRVDSDLDAQSPAADLVRVYLNGI-GKTALLTAADEVELAKRIEAGLYAEHL-----------LETRKRLSEA--RKRDL 77 (324)
T ss_pred hhhhhhccccCCCCChHHHHHHHh-cccCCCCHHHHHHHHHHHHhhhhhhhh-----------hccccccchh--HHHHH
Confidence 344444333334468888 99999 999999999999999999986655432 2222332111 45678
Q ss_pred HHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHh
Q 012710 357 RRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSD 436 (458)
Q Consensus 357 ~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~ 436 (458)
...++.|..++++||..|+++|+++|++|.+.|++++||+|||+|||++|+++|||++|++|+|||.||||++|.++|++
T Consensus 78 ~~~~~~~~~A~~~Lv~~~~~lV~~iA~r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~ 157 (324)
T PRK07921 78 AAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMAD 157 (324)
T ss_pred HHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccccCchhhhhhcccc
Q 012710 437 QSRTIRLPVISHGRGNLQS 455 (458)
Q Consensus 437 qsr~IRlP~~~~e~inkL~ 455 (458)
++++||+|.++.+.++++.
T Consensus 158 ~~r~vrlP~~~~~~~~~l~ 176 (324)
T PRK07921 158 QSRTIRLPVHLVEQVNKLA 176 (324)
T ss_pred cCCCccCCHHHHHHHHHHH
Confidence 9999999999998887664
No 9
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=99.95 E-value=2.8e-27 Score=241.32 Aligned_cols=125 Identities=48% Similarity=0.785 Sum_probs=117.6
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHH
Q 012710 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKD 368 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Are 368 (458)
..|+++ ||+++ ++.|+||++||.+|+.+++. ++..|++
T Consensus 94 ~~d~~~~yl~~i-~~~~~l~~~ee~~L~~~~~~----------------------------------------Gd~~A~~ 132 (367)
T PRK09210 94 INDPVRMYLKEI-GRVPLLTAEEEIELAKRIEE----------------------------------------GDEEAKQ 132 (367)
T ss_pred cCcHHHHHHHHh-hccCCCCHHHHHHHHHHHHh----------------------------------------hHHHHHH
Confidence 468999 99999 99999999999999987764 2357899
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhh
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISH 448 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~ 448 (458)
+||..|+++|+++|++|.++|++++||+|||+||||+|+++|||++|++|+|||.||||++|.++|+++.++||+|.|+.
T Consensus 133 ~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~irip~~~~ 212 (367)
T PRK09210 133 RLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMV 212 (367)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCceeccHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccc
Q 012710 449 GRGNLQS 455 (458)
Q Consensus 449 e~inkL~ 455 (458)
+.+|++.
T Consensus 213 ~~~~~~~ 219 (367)
T PRK09210 213 ETINKLI 219 (367)
T ss_pred HHHHHHH
Confidence 9988764
No 10
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=99.94 E-value=1.8e-27 Score=256.85 Aligned_cols=92 Identities=48% Similarity=0.836 Sum_probs=88.9
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcccc
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRL 443 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRl 443 (458)
..|+++||.+|+|||++||++|.++|++++|||||||||||+||++|||++|++|+|||+||||++|.++|+++.++||+
T Consensus 379 ~~a~~~Li~~nlrlV~~iA~ky~~~gl~~~DLiQeG~iGL~~Av~kfd~~~G~~FstYA~~wIr~aI~~~i~~~~r~iri 458 (619)
T PRK05658 379 RRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 458 (619)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhcCccCCCchHHHhHHHHHHHHHHHHHHcCCceec
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Cchhhhhhcccc
Q 012710 444 PVISHGRGNLQS 455 (458)
Q Consensus 444 P~~~~e~inkL~ 455 (458)
|+|+.+.++++.
T Consensus 459 p~~~~~~~~k~~ 470 (619)
T PRK05658 459 PVHMIETINKLN 470 (619)
T ss_pred CHHHHHHHHHHH
Confidence 999999888764
No 11
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=99.92 E-value=1.1e-25 Score=219.81 Aligned_cols=92 Identities=27% Similarity=0.378 Sum_probs=88.3
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcccc
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRL 443 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRl 443 (458)
..++++||..|+|||++||++|.++|++++||||+|+||||+|+++|||++|++|+|||.||||++|.++|+++.++||+
T Consensus 39 ~~~r~~Lv~~~l~LV~~iA~~y~~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~~~~~ir~ 118 (264)
T PRK07122 39 QRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRDNSWSVKV 118 (264)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHcCCcccc
Confidence 45899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Cchhhhhhcccc
Q 012710 444 PVISHGRGNLQS 455 (458)
Q Consensus 444 P~~~~e~inkL~ 455 (458)
|.++.+.++++.
T Consensus 119 Pr~~~~~~~~i~ 130 (264)
T PRK07122 119 PRRLKELHLRLG 130 (264)
T ss_pred CHHHHHHHHHHH
Confidence 999998887764
No 12
>TIGR02392 rpoH_proteo alternative sigma factor RpoH. 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 RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors.
Probab=99.92 E-value=1.6e-24 Score=211.42 Aligned_cols=116 Identities=29% Similarity=0.598 Sum_probs=105.9
Q ss_pred HHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHH
Q 012710 293 PLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMI 371 (458)
Q Consensus 293 ~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI 371 (458)
++. ||+++ ++.|+|+.++|.+|+.++.. .++..++++||
T Consensus 2 ~~~~yl~~~-~~~~~l~~~~e~~l~~~~~~---------------------------------------~gd~~a~~~Lv 41 (270)
T TIGR02392 2 SLDAYIRAV-NRIPMLTPEEEYQLAKRLRE---------------------------------------HGDLDAAKKLV 41 (270)
T ss_pred hHHHHHHHH-hcCCCCCHHHHHHHHHHHHH---------------------------------------CCCHHHHHHHH
Confidence 566 99999 99999999999998876431 13467999999
Q ss_pred HHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhh
Q 012710 372 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISH 448 (458)
Q Consensus 372 ~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~ 448 (458)
..|+++|.++|++|.+.+++.+||+|||++||++|+++|||++|++|+|||.||||++|.++|+++.+++|+|.+..
T Consensus 42 ~~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~fd~~~~~~FsTYA~~~Ir~~i~~~l~~~~~~ir~p~~~~ 118 (270)
T TIGR02392 42 LSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYILRNWRLVKVATTKA 118 (270)
T ss_pred HHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCChHHhhHHHHHHHHHHHHHHcCCceecCchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999988899998753
No 13
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=99.92 E-value=2.5e-24 Score=212.34 Aligned_cols=119 Identities=27% Similarity=0.547 Sum_probs=108.8
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHH
Q 012710 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKD 368 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Are 368 (458)
+.+++. |++++ ++.|+||.++|.+|+.+++. .++..+++
T Consensus 12 ~~~~~~~y~~~~-~~~~~l~~~~e~~l~~~~~~---------------------------------------~Gd~~a~~ 51 (284)
T PRK06596 12 PEGNLDAYIQAV-NKIPMLTAEEEYMLAKRLRE---------------------------------------HGDLEAAK 51 (284)
T ss_pred CccHHHHHHHHH-hccCCCCHHHHHHHHHHHHH---------------------------------------cCCHHHHH
Confidence 456888 99999 99999999999998876431 13467999
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhh
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISH 448 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~ 448 (458)
+||..|+|+|.++|++|.+.|++.+||+|||++||++|+++|||++|++|+|||.||||++|.++|+++.++||+|.+..
T Consensus 52 ~Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~~~FstYA~~~Ir~~i~~~l~~~~~~vr~p~~~~ 131 (284)
T PRK06596 52 QLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAVHWIKAEIHEYILRNWRIVKVATTKA 131 (284)
T ss_pred HHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHcCCeeeccchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999988899999864
No 14
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=99.90 E-value=4.8e-23 Score=203.92 Aligned_cols=118 Identities=29% Similarity=0.523 Sum_probs=107.9
Q ss_pred CHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHH
Q 012710 292 DPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKM 370 (458)
Q Consensus 292 d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekL 370 (458)
+..+ ||+++ .+.|+||.++|.+|+++++. .++..++++|
T Consensus 6 ~~~~~y~~~~-~~~~~l~~~~e~~L~~~~~~---------------------------------------~gd~~A~~~L 45 (289)
T PRK07500 6 SADRSMIRSA-MKAPYLEREEEHALAYRWKD---------------------------------------HRDEDALHRI 45 (289)
T ss_pred hHHHHHHHHH-hcCCCCCHHHHHHHHHHHHH---------------------------------------CCCHHHHHHH
Confidence 3455 99999 99999999999999987642 1347799999
Q ss_pred HHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhh
Q 012710 371 ITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHG 449 (458)
Q Consensus 371 I~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e 449 (458)
|..|+|+|.++|++|.+.+.+.+||+|||++||++|+++|||++|.+|+|||.||||++|.++|+++.+++|+|.+..+
T Consensus 46 v~~~~~lV~~~a~~~~~~~~~~eDLvQeg~i~L~~a~~~fd~~~~~~f~tya~~~Ir~~I~~~lr~~~~~iR~p~~~~~ 124 (289)
T PRK07500 46 ISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQ 124 (289)
T ss_pred HHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHCCCceecCccHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999988543
No 15
>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=99.89 E-value=2.5e-23 Score=198.96 Aligned_cols=90 Identities=50% Similarity=0.868 Sum_probs=86.3
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCc
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPV 445 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~ 445 (458)
|+++||..|+++|.++|++|.++|++++||+|||++||++|+++|||++|++|+|||.||||++|.++++++.+.+|+|.
T Consensus 1 a~~~Li~~~~~lv~~ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~~~~vrip~ 80 (238)
T TIGR02393 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80 (238)
T ss_pred CHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHcCCcEEeCH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcccc
Q 012710 446 ISHGRGNLQS 455 (458)
Q Consensus 446 ~~~e~inkL~ 455 (458)
++.+.++++.
T Consensus 81 ~~~~~~~~~~ 90 (238)
T TIGR02393 81 HMVETINKLI 90 (238)
T ss_pred HHHHHHHHHH
Confidence 9988877654
No 16
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=99.87 E-value=6.1e-22 Score=192.23 Aligned_cols=93 Identities=31% Similarity=0.489 Sum_probs=87.3
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCC-CCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcc
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGA-GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTI 441 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~r-Gle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~I 441 (458)
+..++++||..|+|+|.++|++|.++ +.+++||+|||+|||++|+++|||++|++|+|||+|||+++|.++++++.++|
T Consensus 23 d~~a~~~Lv~~~~~lV~~ia~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~~~~v 102 (256)
T PRK07408 23 SIALRNQLVELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEIQHYLRDKSPTV 102 (256)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCee
Confidence 47899999999999999999999876 67799999999999999999999999999999999999999999999999999
Q ss_pred ccCchhhhhhcccc
Q 012710 442 RLPVISHGRGNLQS 455 (458)
Q Consensus 442 RlP~~~~e~inkL~ 455 (458)
|+|.++.+.++++.
T Consensus 103 r~pr~~~~~~~~~~ 116 (256)
T PRK07408 103 RIPRRWQELQRQAK 116 (256)
T ss_pred eeCHHHHHHHHHHH
Confidence 99999988877653
No 17
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=99.86 E-value=2.9e-21 Score=194.49 Aligned_cols=122 Identities=44% Similarity=0.742 Sum_probs=113.0
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHH
Q 012710 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKD 368 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~Are 368 (458)
..|.++ |+.++ +..|+||+++|.+|..+++. ++..+++
T Consensus 51 ~~~~~~~y~~~~-~~~~~l~~~ee~~li~~~~~----------------------------------------Gd~~A~~ 89 (325)
T PRK05657 51 VLDATQLYLNEI-GYSPLLTAEEEVYFARRALR----------------------------------------GDFAARQ 89 (325)
T ss_pred cccHHHHHHHHH-hcCCCCCHHHHHHHHHHHHc----------------------------------------CCHHHHH
Confidence 367888 99999 99999999999998877653 3467899
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhh
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISH 448 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~ 448 (458)
+||..|.++|.++|.+|.+.+.+.+||+|||++||++++++||+++|++|+|||.||||++|.++|+++.+.||+|.++.
T Consensus 90 ~Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~fd~~rg~~Fstyatw~iR~ai~~~i~~~~r~ir~p~~~~ 169 (325)
T PRK05657 90 RMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVV 169 (325)
T ss_pred HHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHHHHHHHHHcCCccccCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred hhhc
Q 012710 449 GRGN 452 (458)
Q Consensus 449 e~in 452 (458)
..++
T Consensus 170 ~~l~ 173 (325)
T PRK05657 170 KELN 173 (325)
T ss_pred HHHH
Confidence 6655
No 18
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=99.82 E-value=3.4e-20 Score=181.58 Aligned_cols=91 Identities=31% Similarity=0.502 Sum_probs=86.6
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcc
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGM-NLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTI 441 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGl-e~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~I 441 (458)
+..++ +||+.|+|||.+||++|.+++. +++||+|.|+|||++||++|||++|.+|+|||..+|+++|.+++|+++ .+
T Consensus 22 ~~~~~-~Li~~ylpLV~~ia~k~~~r~~~~~dDLiqiG~iGLi~Aieryd~~kg~kF~tyA~~~I~Gei~d~LR~~~-~v 99 (247)
T COG1191 22 DEEAR-RLIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIKAIERYDPSKGTKFSTYAVRRIRGEILDYLRKND-SV 99 (247)
T ss_pred CHHHH-HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHHHcCcccCcchHHHHHHHHHHHHHHHHHhCC-Cc
Confidence 36788 9999999999999999999888 999999999999999999999999999999999999999999999999 89
Q ss_pred ccCchhhhhhcccc
Q 012710 442 RLPVISHGRGNLQS 455 (458)
Q Consensus 442 RlP~~~~e~inkL~ 455 (458)
++|+++.+..+++.
T Consensus 100 ~vpR~~~~~~~~i~ 113 (247)
T COG1191 100 KVPRSLRELGRRIE 113 (247)
T ss_pred cCcHHHHHHHHHHH
Confidence 99999999988765
No 19
>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=99.82 E-value=1.6e-19 Score=177.44 Aligned_cols=126 Identities=44% Similarity=0.713 Sum_probs=115.2
Q ss_pred CCCCCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHH
Q 012710 287 EVDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 365 (458)
Q Consensus 287 ~~~~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ 365 (458)
+....|.++ ||.+| +.++.||.++|.+|+..++. ++..
T Consensus 8 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~li~~~~~----------------------------------------gd~~ 46 (285)
T TIGR02394 8 ETRVADVTQLYLREI-GFKPLLTAEEEIAYARRALA----------------------------------------GDFE 46 (285)
T ss_pred ccCcchHHHHHHHHH-hccCCCCHHHHHHHHHHHHc----------------------------------------CCHH
Confidence 344678999 99999 99999999999998877653 2367
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCc
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPV 445 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~ 445 (458)
+++.|+..|.++|..+|.+|.+.+.+.+||+|||++||++|+++||+.+|++|+||+.|||+.+|.+++.++.+.+++|.
T Consensus 47 a~~~L~~~y~~~v~~~a~~~~~~~~~aeDLvQe~~i~l~~a~~~fd~~~g~~f~tya~w~i~~ain~~i~~~~~~~~~p~ 126 (285)
T TIGR02394 47 ARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERAIMNQARTIRLPV 126 (285)
T ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCCcHhhhHHHHHHHHHHHHHHcCCceeCcH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcc
Q 012710 446 ISHGRGNL 453 (458)
Q Consensus 446 ~~~e~ink 453 (458)
++.+.+|.
T Consensus 127 ~~~~~~~~ 134 (285)
T TIGR02394 127 HVIKELNV 134 (285)
T ss_pred HHHHHHHH
Confidence 98766653
No 20
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=99.81 E-value=1.2e-19 Score=176.46 Aligned_cols=91 Identities=31% Similarity=0.461 Sum_probs=83.0
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcC---CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQG---AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~---rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
++..++++||..|+|+|.++|++|.+ .+++++||+|+|+|||++|+++|||++|++|+|||.||||++|.++++++.
T Consensus 20 ~~~~ar~~Li~~~~~lV~~ia~~~~~~~~~~~~~eDL~QeG~igL~~ai~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~~ 99 (257)
T PRK05911 20 QEIEYRDVLIEFYLPLVKNVAHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAIIDDLRKQD 99 (257)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhcC
Confidence 34789999999999999999999862 357899999999999999999999999999999999999999999999997
Q ss_pred CccccCchhhhhhcccc
Q 012710 439 RTIRLPVISHGRGNLQS 455 (458)
Q Consensus 439 r~IRlP~~~~e~inkL~ 455 (458)
+ +|+++.+.++++.
T Consensus 100 ~---~pr~~~~~~~~l~ 113 (257)
T PRK05911 100 W---VPRSVHQKANKLA 113 (257)
T ss_pred C---CCHHHHHHHHHHH
Confidence 6 7999988877663
No 21
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=99.80 E-value=4.4e-19 Score=171.52 Aligned_cols=113 Identities=32% Similarity=0.473 Sum_probs=101.7
Q ss_pred hcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHH
Q 012710 301 TSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVIS 380 (458)
Q Consensus 301 ~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~s 380 (458)
|++.|+||++||.+|+..++. ++..++++|+..|+++|.+
T Consensus 10 ~~~~~~l~~~~~~~li~~~~~----------------------------------------gd~~a~~~L~~~~~~~v~~ 49 (254)
T TIGR02850 10 TSKLPVLKNQEMRELFIRMQS----------------------------------------GDTTAREKLINGNLRLVLS 49 (254)
T ss_pred ccCCCCCCHHHHHHHHHHHHc----------------------------------------CCHHHHHHHHHHhHHHHHH
Confidence 477899999999888776552 2367899999999999999
Q ss_pred HHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhhhhccc
Q 012710 381 IAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNLQ 454 (458)
Q Consensus 381 IAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~inkL 454 (458)
+|++|.+.+.+.+||+|||++||++++++|||.+|.+|+||+++||++.|.++++++. .+|+|+++.+.++++
T Consensus 50 ~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~tyl~~~irn~~~~~lr~~~-~ir~p~~~~~~~~~~ 122 (254)
T TIGR02850 50 VIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKA 122 (254)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHhCC-CccCchHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999975 889999987765543
No 22
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=99.78 E-value=1.4e-18 Score=168.10 Aligned_cols=111 Identities=32% Similarity=0.489 Sum_probs=99.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHH
Q 012710 302 SSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISI 381 (458)
Q Consensus 302 ~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sI 381 (458)
.+.|+|+++|+..|+.+++. ++..++++|+..|+++|..+
T Consensus 14 ~~~~~l~~~~~~~l~~~~~~----------------------------------------gd~~a~~~l~~~~~~~v~~~ 53 (258)
T PRK08215 14 SKLPVLKNEEMRELFERMQN----------------------------------------GDKEAREKLINGNLRLVLSV 53 (258)
T ss_pred CCCCCCCHHHHHHHHHHHHc----------------------------------------CCHHHHHHHHHHHHHHHHHH
Confidence 56789999999888776552 24678999999999999999
Q ss_pred HHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhhhhcc
Q 012710 382 AKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNL 453 (458)
Q Consensus 382 AkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~ink 453 (458)
|++|.+.+.+.+||+|||++||++|+++||+.+|.+|.||+.+||+++|.++++++. .+|+|.++.....+
T Consensus 54 a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l~~~ir~~i~~~lr~~~-~vrip~~~~~~~~~ 124 (258)
T PRK08215 54 IQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYK 124 (258)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhCC-ceEecHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999985 88999998765544
No 23
>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=99.73 E-value=1.3e-17 Score=157.58 Aligned_cols=90 Identities=33% Similarity=0.498 Sum_probs=84.8
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcccc
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRL 443 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRl 443 (458)
..|++.|+..|.++|..+|++|.+.+.+.+||+|||++||++|+++||+++|.+|+||+.+||++.|.++++++.+.+|+
T Consensus 2 ~~a~~~lv~~y~~~v~~~a~~~~~~~~~~eDl~Qe~~i~l~~a~~~f~~~~~~~F~ty~~~~i~~~~~~~~r~~~~~~ri 81 (227)
T TIGR02980 2 KEAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAVPTIMGEIKRFFRDDTWAVRV 81 (227)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCcHHHHHHHHHHHHHHHHHHcCCceec
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Cchhhhhhcc
Q 012710 444 PVISHGRGNL 453 (458)
Q Consensus 444 P~~~~e~ink 453 (458)
|.++.+++++
T Consensus 82 ~~~~~~~~~~ 91 (227)
T TIGR02980 82 PRRLKELGLK 91 (227)
T ss_pred CHHHHHHHHH
Confidence 9987665444
No 24
>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=99.72 E-value=3.8e-17 Score=157.56 Aligned_cols=92 Identities=27% Similarity=0.355 Sum_probs=86.4
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccc
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIR 442 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IR 442 (458)
+..++++|+..|.++|..+|++|.+.+.+.+||+|||++||++|+++||++.|.+|.||+.+||++.|.++++++.+.+|
T Consensus 27 d~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~~~~~~~~~f~tyl~~~i~n~~~~~lr~~~~~ir 106 (255)
T TIGR02941 27 NGEAQEKLVDHYQNLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIIGEIKRYLRDKTWSVH 106 (255)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCcCCCCcHhHHHHHHHHHHHHHHHHcCCCcC
Confidence 36799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCchhhhhhccc
Q 012710 443 LPVISHGRGNLQ 454 (458)
Q Consensus 443 lP~~~~e~inkL 454 (458)
+|.++.+..+++
T Consensus 107 i~~~~~~~~~~~ 118 (255)
T TIGR02941 107 VPRRIKELGPKI 118 (255)
T ss_pred CCHHHHHHHHHH
Confidence 999887765444
No 25
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=99.72 E-value=3.2e-17 Score=159.73 Aligned_cols=112 Identities=22% Similarity=0.275 Sum_probs=97.2
Q ss_pred hhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHH
Q 012710 300 TTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVI 379 (458)
Q Consensus 300 i~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~ 379 (458)
++|++|+||.++|.+|+..++. .++..+++.|+..|+++|.
T Consensus 5 ~~~~~~~~~~~~e~~l~~~~~~---------------------------------------~~d~~a~~~l~~~y~~lv~ 45 (268)
T PRK06288 5 MSGKIPKYAQQDETELWREYKK---------------------------------------TGDPKIREYLILKYSPLVK 45 (268)
T ss_pred ccCCCccccchHHHHHHHHHHH---------------------------------------cCCHHHHHHHHHHHHHHHH
Confidence 3588999999999999887653 1236789999999999999
Q ss_pred HHHHhhcC---CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhhhhcc
Q 012710 380 SIAKNYQG---AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNL 453 (458)
Q Consensus 380 sIAkrY~~---rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~ink 453 (458)
.+|++|.. .+.+.+||+|||++||++|+++||+.+|.+|+||+.||||+.|.+++|+.. ++|.++....++
T Consensus 46 ~~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd~~~~~~f~ty~~~~ir~~i~d~~R~~~---~~p~~~~~~~~~ 119 (268)
T PRK06288 46 YVAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIFDELRSID---WIPRSVRQKARQ 119 (268)
T ss_pred HHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC---ccCHHHHHHHHH
Confidence 99999862 567899999999999999999999999999999999999999999999764 468888765543
No 26
>TIGR02885 spore_sigF RNA polymerase sigma-F factor. Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore.
Probab=99.68 E-value=1.5e-16 Score=150.92 Aligned_cols=93 Identities=37% Similarity=0.496 Sum_probs=86.5
Q ss_pred hccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 361 NYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 361 ~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.++..++++|+..|.++|..+|++|.+.+.+.+||+|||++||++++++|||.+|.+|.||+++||++.|.++++++. .
T Consensus 7 ~gd~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~i~l~~a~~~f~~~~~~~f~tyl~~~i~~~i~~~lr~~~-~ 85 (231)
T TIGR02885 7 NGDKEARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKRFLRDDG-I 85 (231)
T ss_pred cCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhCC-C
Confidence 345889999999999999999999999999999999999999999999999999999999999999999999999986 8
Q ss_pred cccCchhhhhhccc
Q 012710 441 IRLPVISHGRGNLQ 454 (458)
Q Consensus 441 IRlP~~~~e~inkL 454 (458)
||+|.++.+..+++
T Consensus 86 i~~p~~~~~~~~~~ 99 (231)
T TIGR02885 86 IKVSRSLKELARKI 99 (231)
T ss_pred eECCHHHHHHHHHH
Confidence 99999987666554
No 27
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=99.67 E-value=4.3e-16 Score=150.40 Aligned_cols=90 Identities=26% Similarity=0.368 Sum_probs=84.8
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccc
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIR 442 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IR 442 (458)
+..++++|+..|.++|..+|++|.+.+.+.+||+|+|++||++++++||+..|.+|.||+.+||++.|.++++++.+.++
T Consensus 27 d~~a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~l~l~~~~~~f~~~~~~~f~tyl~~~i~n~~~~~lr~~~~~~~ 106 (257)
T PRK08583 27 DEEAQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRDKTWSVH 106 (257)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCccCCCChHHHHHHHHHHHHHHHHHhcCCCcC
Confidence 36799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCchhhhhhc
Q 012710 443 LPVISHGRGN 452 (458)
Q Consensus 443 lP~~~~e~in 452 (458)
||.+..+..+
T Consensus 107 i~r~~~~~~~ 116 (257)
T PRK08583 107 VPRRIKELGP 116 (257)
T ss_pred CCHHHHHHHH
Confidence 9999765543
No 28
>TIGR02895 spore_sigI RNA polymerase sigma-I factor. Members of this sigma factor protein family are strictly limited to endospore-forming species in the Firmicutes lineage of bacteria, but are not universally present among such species. Sigma-I was shown to be induced by heat shock (PubMed:11157964) in Bacillus subtilis and is suggested by its phylogenetic profile to be connected to the program of sporulation (PubMed:16311624).
Probab=99.62 E-value=1.4e-15 Score=146.58 Aligned_cols=90 Identities=17% Similarity=0.217 Sum_probs=79.9
Q ss_pred HhccHHHHHHHHHHcHHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhc
Q 012710 360 LNYGILCKDKMITSNIRLVISIAKNYQGAG--MNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQ 437 (458)
Q Consensus 360 l~~G~~ArekLI~~nLrLV~sIAkrY~~rG--le~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~q 437 (458)
++.|...+++||..|+|+|.++|++|.++. .+.+||+|+|++||++|+++|||++|.+|.|||.+||+++|.+++|++
T Consensus 4 ~~~gd~~~e~LI~~Y~plI~~~a~~~~~~~~~~e~dDlvQ~glial~eAi~~yd~~kg~~F~sya~~~Ir~~i~dylRk~ 83 (218)
T TIGR02895 4 IQPGNEEREELIRQYKPFIAKIVSSVCGRYIDTKSDDELSIGLIAFNEAIESYDSNKGKSFLSFAKLIIKRRLIDYIRKN 83 (218)
T ss_pred hhcCChHHHHHHHHhHHHHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 344544499999999999999999998775 589999999999999999999999999999999999999999999998
Q ss_pred C---CccccCchhhh
Q 012710 438 S---RTIRLPVISHG 449 (458)
Q Consensus 438 s---r~IRlP~~~~e 449 (458)
. +.+++|....+
T Consensus 84 ~k~~~~v~~~~~~~e 98 (218)
T TIGR02895 84 QKYQNLLYLDEDYDE 98 (218)
T ss_pred ccccCeeeCCchHHH
Confidence 8 67788875443
No 29
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=99.61 E-value=1.3e-15 Score=146.50 Aligned_cols=86 Identities=16% Similarity=0.247 Sum_probs=74.9
Q ss_pred HHHHHHHHHcHHHHHHHHHhhcCC---CCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcc
Q 012710 365 LCKDKMITSNIRLVISIAKNYQGA---GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTI 441 (458)
Q Consensus 365 ~ArekLI~~nLrLV~sIAkrY~~r---Gle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~I 441 (458)
..+..|+..|+|||.++|++|..+ +++.+||+|||+|||++|+++||+.+| +|+||+.||||++|.+++++..+
T Consensus 15 ~~~~~lv~~y~~lV~~la~~~~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~-~F~tYa~~~Ir~~il~~lr~~~~-- 91 (231)
T PRK12427 15 QEEGKYLNAYLPLVKKVVRQLAFQADSVIDREDMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILDELRELDW-- 91 (231)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCCCC-ChHHHHHHHHHHHHHHHHHhcCC--
Confidence 356789999999999999999853 579999999999999999999998666 89999999999999999999776
Q ss_pred ccCchhhhhhccc
Q 012710 442 RLPVISHGRGNLQ 454 (458)
Q Consensus 442 RlP~~~~e~inkL 454 (458)
+|+++.+..+++
T Consensus 92 -~~r~vr~~~~~i 103 (231)
T PRK12427 92 -RPRRLRQKTHKT 103 (231)
T ss_pred -CCHHHHHHHHHH
Confidence 477766665554
No 30
>PRK05572 sporulation sigma factor SigF; Validated
Probab=99.60 E-value=7.3e-15 Score=141.89 Aligned_cols=111 Identities=31% Similarity=0.445 Sum_probs=97.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHH
Q 012710 302 SSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISI 381 (458)
Q Consensus 302 ~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sI 381 (458)
...|.||.+++.+|...++. ++..++++|+..|.++|..+
T Consensus 9 ~~~~~l~~~~~~~li~~~~~----------------------------------------gd~~a~~~L~~~y~~~v~~~ 48 (252)
T PRK05572 9 KKKPQLKDEENKELIKKSQD----------------------------------------GDQEARDTLVEKNLRLVWSV 48 (252)
T ss_pred cCCCCCCHHHHHHHHHHHHc----------------------------------------CCHHHHHHHHHHhHHHHHHH
Confidence 44788999988887665442 23678999999999999999
Q ss_pred HHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCchhhhhhcc
Q 012710 382 AKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNL 453 (458)
Q Consensus 382 AkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~ink 453 (458)
|.+|.+.+.+.+||+|||+++|++++++||+.+|.+|.||+++||++.|.+++++.. .+|+|.++.+..++
T Consensus 49 a~~~~~~~~~aeDl~Qe~~l~l~~~~~~f~~~~~~~f~twl~~~i~~~i~~~lr~~~-~~r~~~~~~~~~~~ 119 (252)
T PRK05572 49 VQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANK 119 (252)
T ss_pred HHHHccCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHhCC-CCCCCHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999885 78999987665443
No 31
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=99.56 E-value=1.5e-14 Score=139.73 Aligned_cols=98 Identities=27% Similarity=0.339 Sum_probs=85.0
Q ss_pred HHHHHH-Hhc-cHHHHHHHHHHcHHHHHHHHHhhcC---CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHH
Q 012710 354 RELRRR-LNY-GILCKDKMITSNIRLVISIAKNYQG---AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQ 428 (458)
Q Consensus 354 eeL~r~-l~~-G~~ArekLI~~nLrLV~sIAkrY~~---rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~ 428 (458)
.+|.++ ... +..+++.|+..|.++|..++.+|.+ .+.+.+||+|||++||++++++||+.+|.+|.||+++||++
T Consensus 9 ~~l~~~~~~~~d~~a~~~L~~~y~~~v~~~~~~~~~~~~~~~~~eDl~Qe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn 88 (251)
T PRK07670 9 QKLWDRWKEERDPDAADELIRRYMPLVHYHVQRISVGLPKSVSKDDLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIRG 88 (251)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHH
Confidence 445554 333 4889999999999999999999965 57899999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCccccCchhhhhhccc
Q 012710 429 AVRKSLSDQSRTIRLPVISHGRGNLQ 454 (458)
Q Consensus 429 aI~~aIr~qsr~IRlP~~~~e~inkL 454 (458)
.|.++++++. ++|.++.+.++++
T Consensus 89 ~~~d~lR~~~---~~p~~~~~~~~~~ 111 (251)
T PRK07670 89 AIIDGLRKED---WLPRSMREKTKKV 111 (251)
T ss_pred HHHHHHHhcC---CCCHHHHHHHHHH
Confidence 9999999876 5788877666554
No 32
>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=99.55 E-value=9.1e-15 Score=138.34 Aligned_cols=82 Identities=30% Similarity=0.434 Sum_probs=74.3
Q ss_pred HHHHcHHHHHHHHHhhcC---CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccCch
Q 012710 370 MITSNIRLVISIAKNYQG---AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVI 446 (458)
Q Consensus 370 LI~~nLrLV~sIAkrY~~---rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP~~ 446 (458)
|+..|+++|..+|++|.+ .+.+.+||+|||++||++|+++|||++|.+|+||+.+||++.|.+++++.. ++|.+
T Consensus 1 L~~~~~~lv~~~a~~~~~~~~~~~~~eDl~Qe~~~~l~~a~~~fd~~~~~~f~t~~~~~i~~~~~~~lr~~~---~~p~~ 77 (224)
T TIGR02479 1 LIRRYLPLVKRIAGRLSVGLPSSVELDDLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRLD---WVPRS 77 (224)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHHcC---ccCHH
Confidence 688999999999999986 689999999999999999999999999999999999999999999999875 47887
Q ss_pred hhhhhccc
Q 012710 447 SHGRGNLQ 454 (458)
Q Consensus 447 ~~e~inkL 454 (458)
+...++++
T Consensus 78 ~~~~~~~l 85 (224)
T TIGR02479 78 LRQKARKL 85 (224)
T ss_pred HHHHHHHH
Confidence 76666554
No 33
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=99.51 E-value=2e-13 Score=130.41 Aligned_cols=105 Identities=30% Similarity=0.488 Sum_probs=94.7
Q ss_pred HH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHH
Q 012710 294 LR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMIT 372 (458)
Q Consensus 294 lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~ 372 (458)
+. |+.++ +..++||+++|..|...++. ++..+.+.|+.
T Consensus 18 ~~~~~~~~-~~~~~~~~~~e~~l~~~~~~----------------------------------------gd~~a~~~l~~ 56 (233)
T PRK05803 18 LVSYVKNN-SFPQPLSEEEERKYLELMKE----------------------------------------GDEEARNILIE 56 (233)
T ss_pred HHHHHHHh-cccCCCCHHHHHHHHHHHHc----------------------------------------CCHHHHHHHHH
Confidence 45 99999 88999999999887765542 24678999999
Q ss_pred HcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 373 SNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 373 ~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
.|.++|.+++.+|.+.+.+.+||+|||+|+|++++++||+++|.+|.||+.+|||+.+.+++++..+
T Consensus 57 ~y~~~l~~~a~~~~~~~~daeDlvQE~fi~l~~~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~~~ 123 (233)
T PRK05803 57 RNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYAARCIENEILMHLRNLKK 123 (233)
T ss_pred HhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999999997754
No 34
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=99.46 E-value=1.8e-13 Score=130.74 Aligned_cols=86 Identities=29% Similarity=0.444 Sum_probs=77.6
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhc---CCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQ---GAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~---~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
.|.-++++|+..|.++|..+|.+|. +.+.+.+||+|||++||++++++|||++|.+|.||+.+||++.|.++++++.
T Consensus 5 ~~~~~~~~L~~~~~~~v~~~a~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn~~~~~lR~~~ 84 (236)
T PRK06986 5 EGKMDQDELVEQYAPLVKRIALRLKARLPASVDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSLD 84 (236)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHcC
Confidence 4667899999999999999999997 5688999999999999999999999999999999999999999999999986
Q ss_pred CccccCchhhhh
Q 012710 439 RTIRLPVISHGR 450 (458)
Q Consensus 439 r~IRlP~~~~e~ 450 (458)
+ +|.++.+.
T Consensus 85 ~---~~~~~~~~ 93 (236)
T PRK06986 85 W---VPRSVRRN 93 (236)
T ss_pred C---CCHHHHHH
Confidence 4 46655443
No 35
>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=99.17 E-value=3.3e-10 Score=108.11 Aligned_cols=77 Identities=29% Similarity=0.535 Sum_probs=72.7
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+..+.+.|+..|.++|..++.+|.+...+.+|++||+.++|++++++|+++.+.+|.||+.+++++.+.+++++..+
T Consensus 46 d~~af~~l~~~y~~~v~~~~~~~~~~~~dAEDlvQevfi~l~~~~~~~~~~~~~~f~twl~~i~rN~~~d~~Rk~~r 122 (227)
T TIGR02846 46 DEEARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAARCIENEILMHLRALKK 122 (227)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 46789999999999999999999988889999999999999999999999999999999999999999999998754
No 36
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=99.16 E-value=2.9e-10 Score=108.31 Aligned_cols=77 Identities=29% Similarity=0.564 Sum_probs=72.8
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+..+.+.|+..|.++|..++.+|.+.+.+-+|++||++++|++++++|++..+++|.||+..++++.+.++++++.+
T Consensus 50 d~~af~~l~~~y~~~l~~~a~~~~~~~~~AeDlvQevfl~l~~~~~~f~~~~~~~f~twl~~iarn~~~d~lRk~~~ 126 (234)
T PRK08301 50 DEAVRSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYASRCIENEILMYLRRNNK 126 (234)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 47799999999999999999999998899999999999999999999999888899999999999999999998754
No 37
>PF04542 Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR007627 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 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core-binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime [, ]. The aromatic residues of the recognition helix, found at the C terminus of this domain are thought to mediate strand separation, thereby allowing transcription initiation [, ].; 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: 1OR7_B 1H3L_B 2Z2S_C 2Q1Z_C 2O7G_B 1SMY_F 1IW7_P 2BE5_F 2A6E_F 2CW0_F ....
Probab=99.15 E-value=1.9e-10 Score=88.74 Aligned_cols=70 Identities=23% Similarity=0.377 Sum_probs=67.2
Q ss_pred HHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 370 MITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 370 LI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
|++.|.++|..++.+|.+.+.+.+|++||+.++|++++++||++++..|.+|+...+++.+.+.++++.+
T Consensus 1 L~~~~~~~l~~~~~~~~~~~~~~eD~~qe~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~r~~~r 70 (71)
T PF04542_consen 1 LYERYYPLLYRYARRYTGDPEDAEDLVQEAFIKLWRAIDSYDPDRGDSFRAWLFRIARNRILDYLRKRRR 70 (71)
T ss_dssp HHHHTHHHHHHHHHTCTTCSSHHHHHHHHHHHHHHHHHHHTSTTSSSHHHHHHHHHHHHHHHHHHHCSSS
T ss_pred CHHHHHHHHHHHHHHHhCCHhhHHHHhhHHHHHHHhhhhcccccccCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 6889999999999999999999999999999999999999999999899999999999999999998865
No 38
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=99.09 E-value=7e-10 Score=108.26 Aligned_cols=91 Identities=14% Similarity=0.261 Sum_probs=79.0
Q ss_pred HHHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012710 353 QRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGM--NLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 353 ~eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGl--e~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
.+.|...++.| ..+++.|+..|.|+|.++|.+|.++.. +.+|++|+|.++|++++++||+++|..|.+|+..+|++.
T Consensus 5 ~~~Li~~~~~gD~~AfeeLi~~Y~p~I~~~a~~~~~~~~~~eaeDlvQe~fi~l~eai~~y~~~kg~sF~awl~~Iirn~ 84 (237)
T PRK08311 5 LEDILEKIKNGDEELREELIEEYKPFIAKVVSSVCGRYIDWENDDELSIGLIAFNEAIDSYDEEKGKSFLSFAELVIKRR 84 (237)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhcccCCCCchHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHH
Confidence 34455555544 889999999999999999999987765 589999999999999999999999988999999999999
Q ss_pred HHHHHHhcCCcccc
Q 012710 430 VRKSLSDQSRTIRL 443 (458)
Q Consensus 430 I~~aIr~qsr~IRl 443 (458)
+.+++|++.+...+
T Consensus 85 ~iDylRk~~~~~~~ 98 (237)
T PRK08311 85 LIDYFRKESKHNLV 98 (237)
T ss_pred HHHHHHHhhccccc
Confidence 99999988764443
No 39
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=99.03 E-value=1.9e-09 Score=99.61 Aligned_cols=91 Identities=22% Similarity=0.311 Sum_probs=79.2
Q ss_pred CHHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHH
Q 012710 352 DQRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV 430 (458)
Q Consensus 352 d~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI 430 (458)
+.+.|...+. ++..+.+.|+..|.++|..++.+|.+...+.+||+||+++.|++++.+||+.++.+|.||++.+|++.+
T Consensus 10 ~~~~l~~~~~~~d~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n~~ 89 (208)
T PRK08295 10 EDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITRQI 89 (208)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHH
Confidence 4445555554 458899999999999999999999999999999999999999999999999988899999999999999
Q ss_pred HHHHHhcCCccc
Q 012710 431 RKSLSDQSRTIR 442 (458)
Q Consensus 431 ~~aIr~qsr~IR 442 (458)
.+++++..+..+
T Consensus 90 ~d~~r~~~r~~~ 101 (208)
T PRK08295 90 ITAIKTANRQKH 101 (208)
T ss_pred HHHHHHhhhhcc
Confidence 999986554333
No 40
>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=99.02 E-value=2.9e-09 Score=102.06 Aligned_cols=77 Identities=31% Similarity=0.569 Sum_probs=73.2
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+..+.+.|+..|.+.|..++.+|.+.+.+-+|++||+++++++++++|++..+++|.||+..++++.+.++++++.+
T Consensus 50 d~~a~~~l~~~y~~~l~~~~~~~~~~~~~AEDlvQE~fl~l~~~~~~f~~~~~~~f~~wl~~iarN~~~d~~Rk~~r 126 (234)
T TIGR02835 50 DESAKSTLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGLIKAVNTFNPSKKIKLATYASRCIENEILMYLRRNNK 126 (234)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 47899999999999999999999999999999999999999999999999888899999999999999999998765
No 41
>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=98.92 E-value=7.5e-09 Score=94.82 Aligned_cols=87 Identities=20% Similarity=0.340 Sum_probs=76.4
Q ss_pred CCHHHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012710 351 VDQRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 351 ~d~eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
++.+.|...+..| ..+.+.|+..|.+.|..+|.+|.+...+.+|++||+.+.+++.+.+|++..+..|.||++.+|++.
T Consensus 4 ~~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~a~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~~~f~~wl~~~~~~~ 83 (198)
T TIGR02859 4 LEDEEIVELARQGNTHALEYLINKYKNFVRAKARSYFLIGADKEDIIQEGMIGLYKAIRDFRPDKLSSFKAFAELCVTRQ 83 (198)
T ss_pred cchHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHccccCcHHHHHHHHHHHHHHHHHHhCcccCCChHHHHHHHHHHH
Confidence 3445555665555 889999999999999999999998889999999999999999999999988889999999999998
Q ss_pred HHHHHHhc
Q 012710 430 VRKSLSDQ 437 (458)
Q Consensus 430 I~~aIr~q 437 (458)
+.++++..
T Consensus 84 ~~~~~r~~ 91 (198)
T TIGR02859 84 IITAIKTA 91 (198)
T ss_pred HHHHHHHH
Confidence 88877743
No 42
>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=98.91 E-value=5.4e-09 Score=88.63 Aligned_cols=72 Identities=21% Similarity=0.362 Sum_probs=68.7
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+.+.|+..|.++|.+++++|.+.+.+.+|++|+|+++|+++++.|++. ..|.+|+..+|++.+.++++++.+
T Consensus 2 a~~~l~~~~~~~v~~~~~~~~~~~~~~~D~~qe~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~rk~~~ 73 (158)
T TIGR02937 2 AFEELYERYLPLLYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRKRR 73 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCCc--chHHHHHHHHHHHHHHHHHHHhcc
Confidence 678999999999999999999998999999999999999999999998 789999999999999999999875
No 43
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=98.79 E-value=2.3e-08 Score=89.25 Aligned_cols=79 Identities=18% Similarity=0.119 Sum_probs=72.1
Q ss_pred hccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 361 NYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 361 ~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.++..+.++|+..|.++|..++.+|.+.+.+.+|++||++++|++++++|+ .+.+|.+|+...+++.+.+.+++..+.
T Consensus 6 ~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~r~~~~~ 83 (182)
T PRK09652 6 RGDRAAFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFR--GGAAFYTWLYRIARNTAINYLRKQGRR 83 (182)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHHHHHHHcccCC
Confidence 345889999999999999999999999889999999999999999999999 556899999999999999999987654
Q ss_pred c
Q 012710 441 I 441 (458)
Q Consensus 441 I 441 (458)
.
T Consensus 84 ~ 84 (182)
T PRK09652 84 P 84 (182)
T ss_pred C
Confidence 3
No 44
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=98.69 E-value=1.1e-07 Score=87.17 Aligned_cols=87 Identities=15% Similarity=0.219 Sum_probs=76.7
Q ss_pred CHHHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHH
Q 012710 352 DQRELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV 430 (458)
Q Consensus 352 d~eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI 430 (458)
+.+.|...+.. +..+.+.|+..|.++|..+|.+|.+.+.+-+|++||++++|++.+.+||+. +..|.+|.+.-+++.+
T Consensus 6 ~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~f~~wl~~ia~n~~ 84 (186)
T PRK05602 6 PDEELLARVAAGDPAAFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWKQAPSWRPG-EARFDTWLHRVVLNLC 84 (186)
T ss_pred cHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCC-CCcHHHHHHHHHHHHH
Confidence 44555555554 489999999999999999999999988999999999999999999999986 5679999999999999
Q ss_pred HHHHHhcCC
Q 012710 431 RKSLSDQSR 439 (458)
Q Consensus 431 ~~aIr~qsr 439 (458)
.+.++++..
T Consensus 85 ~d~~R~~~~ 93 (186)
T PRK05602 85 YDRLRRRRE 93 (186)
T ss_pred HHHHHhcCC
Confidence 999997754
No 45
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=98.61 E-value=2.6e-07 Score=85.14 Aligned_cols=89 Identities=9% Similarity=0.067 Sum_probs=76.8
Q ss_pred HHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
.+.|...+. ++..+.+.|+..|.+.|..++.+|.+...+.+|++||++++|++++++|++. ..|.+|++..+++.+.
T Consensus 13 ~~~l~~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~fi~l~~~~~~~~~~--~~f~~wl~~i~~n~~~ 90 (194)
T PRK12513 13 DEALMLRYRAGDAAAFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPR--ARFRTWLYQIARNLLI 90 (194)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHHHH
Confidence 444555555 4589999999999999999999999888899999999999999999999964 4799999999999999
Q ss_pred HHHHhcCCcccc
Q 012710 432 KSLSDQSRTIRL 443 (458)
Q Consensus 432 ~aIr~qsr~IRl 443 (458)
+.++++.+..+.
T Consensus 91 ~~~R~~~~~~~~ 102 (194)
T PRK12513 91 DHWRRHGARQAP 102 (194)
T ss_pred HHHHHhcccccc
Confidence 999988765443
No 46
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=98.60 E-value=2.4e-07 Score=84.03 Aligned_cols=84 Identities=14% Similarity=0.183 Sum_probs=73.8
Q ss_pred HHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHH
Q 012710 354 RELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK 432 (458)
Q Consensus 354 eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~ 432 (458)
+.|...++.| ..+.+.|+..|.++|..++.+|.+...+.+|++||++++|++++++|++.. .|.+|+..-+++.+.+
T Consensus 6 ~~li~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~~--~~~~wl~~iarn~~~d 83 (187)
T PRK09641 6 KRLIKQVKKGDQNAFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINR--KFSTWLYRIATNLTID 83 (187)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhCCCc--chhHHHHHHHHHHHHH
Confidence 3444444444 889999999999999999999999888999999999999999999999753 7999999999999999
Q ss_pred HHHhcCC
Q 012710 433 SLSDQSR 439 (458)
Q Consensus 433 aIr~qsr 439 (458)
+++++.+
T Consensus 84 ~~R~~~~ 90 (187)
T PRK09641 84 RLRKRKP 90 (187)
T ss_pred HHHhcCc
Confidence 9998754
No 47
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=98.60 E-value=2.7e-07 Score=85.45 Aligned_cols=86 Identities=14% Similarity=0.123 Sum_probs=76.0
Q ss_pred HHHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
...|...+..| ..+.++|+..|.++|..++.+|.+...+-+|++||+.+.+++.+++||+.+| .|.+|++.-+++.+.
T Consensus 17 ~~~li~~~~~g~~~a~~~l~~~y~~~l~~~~~~~~~~~~dAeDivQe~fi~l~~~~~~~~~~~~-~~~~wl~~ia~n~~~ 95 (194)
T PRK09646 17 LDALLRRVARGDQDAFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRFDPARG-SALAWLLTLAHRRAV 95 (194)
T ss_pred HHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCcccc-cHHHHHHHHHHHHHH
Confidence 34555555544 8999999999999999999999999899999999999999999999998766 599999999999999
Q ss_pred HHHHhcCC
Q 012710 432 KSLSDQSR 439 (458)
Q Consensus 432 ~aIr~qsr 439 (458)
+.++++.+
T Consensus 96 d~~r~~~~ 103 (194)
T PRK09646 96 DRVRSEQA 103 (194)
T ss_pred HHHHhhcc
Confidence 99998754
No 48
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=98.59 E-value=3.8e-07 Score=83.67 Aligned_cols=86 Identities=16% Similarity=0.235 Sum_probs=73.5
Q ss_pred HHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCC----CCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012710 355 ELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGA----GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 355 eL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~r----Gle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
.|...+..| ..+.++|+..|.++|..++.+|.+. +.+.+|++||++++|++.+.+|+.. +..|.+|++.-+++.
T Consensus 13 ~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~~~~wl~~i~~n~ 91 (189)
T PRK09648 13 ALVAEAVAGDRRALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVITALPRYRDQ-GRPFLAFVYGIAAHK 91 (189)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHHHHHHHhcc-CCcHHHHHHHHHHHH
Confidence 455555544 8999999999999999999988653 3689999999999999999999864 567999999999999
Q ss_pred HHHHHHhcCCcc
Q 012710 430 VRKSLSDQSRTI 441 (458)
Q Consensus 430 I~~aIr~qsr~I 441 (458)
+.++++++.+..
T Consensus 92 ~~d~~r~~~r~~ 103 (189)
T PRK09648 92 VADAHRAAGRDK 103 (189)
T ss_pred HHHHHHHhCCCc
Confidence 999999887643
No 49
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=98.57 E-value=2.6e-07 Score=83.82 Aligned_cols=82 Identities=12% Similarity=0.118 Sum_probs=72.7
Q ss_pred HHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHH
Q 012710 356 LRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLS 435 (458)
Q Consensus 356 L~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr 435 (458)
+.....++..+.++|+..|.++|..++.+|.+.+.+.+|++|++++.|++++.+||+.. .|.+|+..-+++.+.++++
T Consensus 9 i~~~~~gd~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~~~~r 86 (187)
T TIGR02948 9 IKEVRKGDENAFADLVDLYKDKIYQLCYRMLGNVHEAEDVAQEAFIRAYTNIDTYDIQR--KFSTWLYRIATNLTIDRLR 86 (187)
T ss_pred HHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCC--chHHHHHHHHHHHHHHHHH
Confidence 33444445889999999999999999999998888999999999999999999999865 6999999999999999998
Q ss_pred hcCC
Q 012710 436 DQSR 439 (458)
Q Consensus 436 ~qsr 439 (458)
+..+
T Consensus 87 k~~~ 90 (187)
T TIGR02948 87 KRKP 90 (187)
T ss_pred hhcc
Confidence 8654
No 50
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=98.57 E-value=4e-07 Score=87.07 Aligned_cols=80 Identities=16% Similarity=0.170 Sum_probs=72.0
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcc
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTI 441 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~I 441 (458)
++..+.+.|+..|.++|..++.++.+.+-+-+|++||+.++|++.+++|++. ..|.+|+..-+++.+.+.+++..+..
T Consensus 27 gd~~a~~~l~~~y~~~l~~~a~~~~~~~~~AEDlvQE~fi~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~Rk~~r~~ 104 (231)
T PRK11922 27 GDEAAFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGD--ASLSTWLSRIVLNEALGRLRRRRRLV 104 (231)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHhcCCC--chhHHHHHHHHHHHHHHHHHhhcccc
Confidence 3477899999999999999999999888899999999999999999999975 57999999999999999999877654
Q ss_pred cc
Q 012710 442 RL 443 (458)
Q Consensus 442 Rl 443 (458)
++
T Consensus 105 ~~ 106 (231)
T PRK11922 105 NL 106 (231)
T ss_pred cc
Confidence 44
No 51
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=98.55 E-value=5.7e-07 Score=82.77 Aligned_cols=87 Identities=17% Similarity=0.269 Sum_probs=76.9
Q ss_pred CCHHHHHHHHhc----cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHH
Q 012710 351 VDQRELRRRLNY----GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWI 426 (458)
Q Consensus 351 ~d~eeL~r~l~~----G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wI 426 (458)
++.+.|...++. +..+.+.|+..|.+.|..++.+|.+...+-+|++||+++.|++.+++|++ ...|.+|+...+
T Consensus 8 ~~~~~li~~~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~f~~l~~~~~~~~~--~~~~~~wl~~ia 85 (188)
T PRK09640 8 LNDEELVARVHVELFHVTRAYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEG--KSKFKTWLYSIT 85 (188)
T ss_pred CCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHHH
Confidence 455666666653 58999999999999999999999998889999999999999999999985 357999999999
Q ss_pred HHHHHHHHHhcCC
Q 012710 427 KQAVRKSLSDQSR 439 (458)
Q Consensus 427 R~aI~~aIr~qsr 439 (458)
++.+.+.+++..+
T Consensus 86 ~n~~~d~~R~~~~ 98 (188)
T PRK09640 86 YNECITQYRKERR 98 (188)
T ss_pred HHHHHHHHHHhcc
Confidence 9999999997654
No 52
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=98.54 E-value=5.9e-07 Score=82.89 Aligned_cols=89 Identities=15% Similarity=0.185 Sum_probs=76.0
Q ss_pred CCHHHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCC---CCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHH
Q 012710 351 VDQRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAG---MNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWI 426 (458)
Q Consensus 351 ~d~eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rG---le~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wI 426 (458)
++.+.|...+..| ..+.+.|+..|.++|..++.+|.+.+ .+.+|++||++++|++.+++|+++.+ .|.+|++.-.
T Consensus 3 ~~~~~li~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~~~daeDi~Qe~~i~l~~~~~~~~~~~~-~~~~wl~~ia 81 (189)
T PRK06811 3 INEDNFIKELKKKNEKALEFIVDTYGNLVKKIVHKVLGTVNYSQLIEECVNDIFLSIWNNIDKFDEEKG-SFKKWIAAIS 81 (189)
T ss_pred CcHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHcccCchhHHHHHHHHHHHHHHHhHHHhccccc-cHHHHHHHHH
Confidence 3455566666655 88999999999999999999998753 46899999999999999999997655 6999999999
Q ss_pred HHHHHHHHHhcCCc
Q 012710 427 KQAVRKSLSDQSRT 440 (458)
Q Consensus 427 R~aI~~aIr~qsr~ 440 (458)
++.+.++++++.+.
T Consensus 82 rn~~~d~~rk~~~~ 95 (189)
T PRK06811 82 KYKAIDYKRKLTKN 95 (189)
T ss_pred HHHHHHHHHHhccc
Confidence 99999999987654
No 53
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=98.54 E-value=3.1e-07 Score=80.97 Aligned_cols=73 Identities=19% Similarity=0.246 Sum_probs=65.8
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
..+.++|+..|.++|..+++++. ...+.+|++||+.++|++++++|++..| .|.+|+..-+++.+.+.++++.
T Consensus 3 ~~af~~l~~~y~~~l~~~~~~~~-~~~~aeDi~Qe~~l~l~~~~~~~~~~~~-~f~~wl~~i~~n~~ld~~rk~~ 75 (154)
T PRK06759 3 PATFTEAVVLYEGLIVNQIKKLG-IYQDYEEYYQCGLIGLWHAYERYDEKKG-SFPAYAVVTVRGYILERLKKEF 75 (154)
T ss_pred cccHHHHHHHHHHHHHHHHHHhC-CcccHHHHHHHHHHHHHHHHHHhCccCC-chHHHHHHHHHHHHHHHHHHHH
Confidence 35788999999999999999874 4468999999999999999999998777 6999999999999999999874
No 54
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=98.52 E-value=5.2e-07 Score=82.28 Aligned_cols=87 Identities=14% Similarity=0.144 Sum_probs=75.2
Q ss_pred CHHHHHHHH-hccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHH
Q 012710 352 DQRELRRRL-NYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV 430 (458)
Q Consensus 352 d~eeL~r~l-~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI 430 (458)
+.+.|...+ .++..+.+.|+..|.+.|..++.+|.+.+.+-+|++||+.+.|++++++|++..+ .|.+|++.-+++.+
T Consensus 9 ~~~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~~~~~~~-~~~~wl~~ia~n~~ 87 (186)
T PRK13919 9 SDEALLALVARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDPRRG-SARAWLLALAHHAA 87 (186)
T ss_pred CHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhccCcccc-chHHHHHHHHHHHH
Confidence 344555554 4458999999999999999999999888889999999999999999999997654 59999999999999
Q ss_pred HHHHHhcCC
Q 012710 431 RKSLSDQSR 439 (458)
Q Consensus 431 ~~aIr~qsr 439 (458)
.++++++.+
T Consensus 88 ~d~~rk~~~ 96 (186)
T PRK13919 88 VDHVRRRAA 96 (186)
T ss_pred HHHHHhhhc
Confidence 999998654
No 55
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=98.46 E-value=1.2e-06 Score=78.97 Aligned_cols=86 Identities=17% Similarity=0.155 Sum_probs=74.7
Q ss_pred HHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
...|...+. ++..+.+.|+..|.+.|..++.+|.+...+-+|++||+.+.|++++++|++. .+|.+|+..-+++.+.
T Consensus 5 ~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~--~~~~~wl~~i~~n~~~ 82 (176)
T PRK09638 5 EKELIQKAKKGDDAALTTLFQQHYSFLYKYLLKLTLDPDLAEDLVQETMLKAIENLSSFQGR--SKFSTWLISIASRLYK 82 (176)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHH
Confidence 444444444 4488999999999999999999999888889999999999999999999864 5899999999999999
Q ss_pred HHHHhcCCc
Q 012710 432 KSLSDQSRT 440 (458)
Q Consensus 432 ~aIr~qsr~ 440 (458)
+++++..+.
T Consensus 83 d~~r~~~~~ 91 (176)
T PRK09638 83 DHLRKQKRE 91 (176)
T ss_pred HHHHHhccc
Confidence 999987653
No 56
>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=98.44 E-value=1.5e-06 Score=77.46 Aligned_cols=80 Identities=14% Similarity=0.142 Sum_probs=72.1
Q ss_pred hccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 361 NYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 361 ~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.++..+.+.|+..|.+.+..++..+.+...+.+|++||+++.|++.+++|+...+ .|.+|+...+++.+.++++++.+.
T Consensus 7 ~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~-~~~~wl~~i~~n~~~d~~R~~~~~ 85 (170)
T TIGR02952 7 DREEDAFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERVLRKIDSFKEQKN-SFEAWLFTIARNVVNDYFRGSKRH 85 (170)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHHHhHHhcccccc-cHHHHHHHHHHHHHHHHHHhcCCC
Confidence 3458899999999999999999888877789999999999999999999997655 899999999999999999988654
Q ss_pred c
Q 012710 441 I 441 (458)
Q Consensus 441 I 441 (458)
.
T Consensus 86 ~ 86 (170)
T TIGR02952 86 P 86 (170)
T ss_pred C
Confidence 3
No 57
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=98.39 E-value=1.6e-06 Score=79.81 Aligned_cols=86 Identities=21% Similarity=0.229 Sum_probs=73.1
Q ss_pred HHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
...|...+. ++..+.+.|+..|.+.|..++.++.+...+-+|++|++++.|++. ..|++..+ .|.||++..+++.+.
T Consensus 16 ~~~l~~~~~~gd~~a~~~L~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~l~~~-~~~~~~~~-~f~~wl~~iarn~~~ 93 (194)
T PRK12519 16 DAELFSALKAGQSAALGVLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRK-SSYDPKRG-SLSSYLLTLTRSRAI 93 (194)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh-cCCCcccc-cHHHHHHHHHHHHHH
Confidence 344544444 458999999999999999999999988888999999999999975 67887665 799999999999999
Q ss_pred HHHHhcCCc
Q 012710 432 KSLSDQSRT 440 (458)
Q Consensus 432 ~aIr~qsr~ 440 (458)
+.++++.+.
T Consensus 94 d~~Rk~~~~ 102 (194)
T PRK12519 94 DRLRSRRSR 102 (194)
T ss_pred HHHHhcccc
Confidence 999987653
No 58
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=98.36 E-value=3.2e-06 Score=75.30 Aligned_cols=80 Identities=15% Similarity=0.059 Sum_probs=72.0
Q ss_pred HhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 360 LNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 360 l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
..++..+.+.|+..|.+.|..++.++.+...+.+|++|++.+.|++.+++|+ .+..|.+|+...+++.+.+.+++..+
T Consensus 8 ~~~~~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDl~qe~~~~l~~~~~~~~--~~~~~~~~l~~i~~~~~~d~~r~~~~ 85 (179)
T PRK11924 8 ATGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFN--GKGSARTWLLTIARNVCYDLLRRRRR 85 (179)
T ss_pred HccCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHHHHHhccc
Confidence 3445889999999999999999999998888999999999999999999998 45689999999999999999988765
Q ss_pred cc
Q 012710 440 TI 441 (458)
Q Consensus 440 ~I 441 (458)
..
T Consensus 86 ~~ 87 (179)
T PRK11924 86 EK 87 (179)
T ss_pred cc
Confidence 43
No 59
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=98.32 E-value=3.8e-06 Score=77.24 Aligned_cols=85 Identities=15% Similarity=0.201 Sum_probs=72.5
Q ss_pred HHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHH
Q 012710 354 RELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK 432 (458)
Q Consensus 354 eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~ 432 (458)
+.|...++. +..+.+.|+..|.+.|..++.+|.+..-+-+|++||+++.+++++.+|++.. .|.+|+..-.++...+
T Consensus 8 ~~ll~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~~i~l~~~~~~~~~~~--~~~~wl~~ia~n~~~d 85 (193)
T PRK11923 8 QQLVERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDS--AFYTWLYRIAINTAKN 85 (193)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHhCcCCCC--ccHhHHHHHHHHHHHH
Confidence 344444444 4889999999999999999999998878999999999999999999999863 5999999999999999
Q ss_pred HHHhcCCc
Q 012710 433 SLSDQSRT 440 (458)
Q Consensus 433 aIr~qsr~ 440 (458)
.++++.+.
T Consensus 86 ~~rk~~~~ 93 (193)
T PRK11923 86 HLVSRGRR 93 (193)
T ss_pred HHHHhcCC
Confidence 99876543
No 60
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=98.32 E-value=3.2e-06 Score=78.50 Aligned_cols=87 Identities=16% Similarity=0.140 Sum_probs=75.5
Q ss_pred CHHHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHH
Q 012710 352 DQRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV 430 (458)
Q Consensus 352 d~eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI 430 (458)
+...|...+..| ..+.+.|+..|.+.|..++.+|.+...+-+|++||+.+.|++.+.+|++.. ..|.+|+..-+++.+
T Consensus 12 ~~~~li~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~-~~~~~wl~~ia~n~~ 90 (196)
T PRK12524 12 SDEALLVLYANGDPAAARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGE-ARVSTWLYRVVCNLC 90 (196)
T ss_pred CHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhcccccc-chHHHHHHHHHHHHH
Confidence 445566655555 899999999999999999999998888999999999999999999998533 469999999999999
Q ss_pred HHHHHhcCC
Q 012710 431 RKSLSDQSR 439 (458)
Q Consensus 431 ~~aIr~qsr 439 (458)
.+.++++.+
T Consensus 91 ~d~~Rk~~~ 99 (196)
T PRK12524 91 TDRLRRRRR 99 (196)
T ss_pred HHHHHhhcC
Confidence 999997543
No 61
>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=98.32 E-value=4.3e-06 Score=76.07 Aligned_cols=84 Identities=19% Similarity=0.229 Sum_probs=72.9
Q ss_pred HHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHH
Q 012710 354 RELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK 432 (458)
Q Consensus 354 eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~ 432 (458)
..|...+.. +..+.+.|+..|.+.|..++.++.+...+-+|++||+.+.|++.+.+|++. ..|.+|...-.++.+.+
T Consensus 8 ~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~--~~~~~wl~~iarn~~~~ 85 (190)
T TIGR02939 8 LELVERVQRGEKQAFDLLVRKYQHKVVALVGRYVRDSSEVEDVAQEAFVKAYRALSSFRGD--SAFYTWLYRIAVNTAKN 85 (190)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCC--CccHhHHHHHHHHHHHH
Confidence 445555554 488999999999999999999998888899999999999999999999965 46999999999999999
Q ss_pred HHHhcCC
Q 012710 433 SLSDQSR 439 (458)
Q Consensus 433 aIr~qsr 439 (458)
.++++.+
T Consensus 86 ~~r~~~r 92 (190)
T TIGR02939 86 HLVAQGR 92 (190)
T ss_pred HHHHhcc
Confidence 9986654
No 62
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=98.31 E-value=2.9e-06 Score=79.74 Aligned_cols=80 Identities=15% Similarity=0.138 Sum_probs=71.6
Q ss_pred HhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 360 LNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 360 l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
..++..+.++|+..|.++|..++.+|.+...+-+|++||+++.+++.+.+|++.++ .|.+|++..+|+.+.++++++.+
T Consensus 33 ~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wl~~I~rn~~~d~~Rk~~~ 111 (206)
T PRK12526 33 ISRDKQAFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYTVMRNAAFDMLRKIKA 111 (206)
T ss_pred HcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCccc-chhHHHHHHHHHHHHHHHHHhcc
Confidence 33558899999999999999999999887778999999999999999999998766 49999999999999999998754
Q ss_pred c
Q 012710 440 T 440 (458)
Q Consensus 440 ~ 440 (458)
.
T Consensus 112 ~ 112 (206)
T PRK12526 112 K 112 (206)
T ss_pred c
Confidence 3
No 63
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=98.31 E-value=3.8e-06 Score=76.37 Aligned_cols=86 Identities=10% Similarity=0.015 Sum_probs=73.7
Q ss_pred HHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
...|...+. ++..+...|+..|.+.+..++.+|.+...+-+|++||+.+.+++.+++|++..+ .|.||...-.++.+.
T Consensus 6 ~~~li~~~~~g~~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~fl~~~~~~~~~~~~~~-~~~~wl~~ia~n~~~ 84 (179)
T PRK12514 6 IEKLIVRVSLGDRDAFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSGL-SPMTWLITIARNHAI 84 (179)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhHHhcCcccc-cHHHHHHHHHHHHHH
Confidence 334444444 448899999999999999999999988889999999999999999999997544 599999999999999
Q ss_pred HHHHhcCC
Q 012710 432 KSLSDQSR 439 (458)
Q Consensus 432 ~aIr~qsr 439 (458)
+.+++..+
T Consensus 85 d~~R~~~~ 92 (179)
T PRK12514 85 DRLRARKA 92 (179)
T ss_pred HHHHhcCC
Confidence 99988654
No 64
>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=98.28 E-value=6.3e-06 Score=74.24 Aligned_cols=86 Identities=14% Similarity=0.130 Sum_probs=74.6
Q ss_pred HHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
.+.|...+. ++..+.+.|+..|.+.|..++.+|.+..-+-+|++||..+-+++..++|++. ..|.+|...-+++.+.
T Consensus 3 ~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~--~~~~~wl~~i~~n~~~ 80 (169)
T TIGR02954 3 DEELVKKAKRGNKPAFESLIKKHKEKLYKTAFIYVKNEHDALDVIQETVYKAYLSIDKLKHP--KYFNTWLTRILINECI 80 (169)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhccCc--cccHHHHHHHHHHHHH
Confidence 344444444 4489999999999999999999999988899999999999999999999964 3699999999999999
Q ss_pred HHHHhcCCc
Q 012710 432 KSLSDQSRT 440 (458)
Q Consensus 432 ~aIr~qsr~ 440 (458)
+.+++..+.
T Consensus 81 d~~R~~~~~ 89 (169)
T TIGR02954 81 DLLKKKKKV 89 (169)
T ss_pred HHHHhcCCc
Confidence 999987653
No 65
>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=98.21 E-value=3.3e-06 Score=73.76 Aligned_cols=73 Identities=15% Similarity=0.147 Sum_probs=66.4
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
+.++|+..|.+.|..+++++.+...+.+|++||..+.+++.+.+|++ +.+|.+|+...+|+.+.+.++++.+.
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~--~~~~~~wl~~i~r~~~~d~~r~~~~~ 74 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEE--VESFKAYLFTIVKNRSLNYLRHKQVE 74 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhccc--cccHHHHHHHHHHHHHHHHHHHHHhH
Confidence 67899999999999999999888888999999999999999999986 44799999999999999999887643
No 66
>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=98.17 E-value=9.8e-06 Score=73.47 Aligned_cols=76 Identities=13% Similarity=0.119 Sum_probs=67.8
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcC----CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhc
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQG----AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQ 437 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~----rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~q 437 (458)
++..+.+.|+..|.+.|..++.+|.+ ...+-+|++||+++.|++++.+|+...+.+|.+|+..-+++.+.+.++++
T Consensus 4 ~~~~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~~~~~~wl~~i~~n~~~d~~r~~ 83 (189)
T TIGR02984 4 GDQEALGELLDRYRNYLRLLARVQLDPRLRRRVDPSDLVQETLLEAHRRFDQFRGKTEGEFAGWLRGILSNVLADALRRH 83 (189)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccCHHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHHHHHHHHHHHH
Confidence 34789999999999999999998743 45689999999999999999999987777899999999999999999865
No 67
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=98.17 E-value=6.8e-06 Score=75.19 Aligned_cols=82 Identities=9% Similarity=0.056 Sum_probs=71.8
Q ss_pred HHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHh
Q 012710 357 RRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSD 436 (458)
Q Consensus 357 ~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~ 436 (458)
.....++..+.+.|+..|.++|..++.+|.+...+-+|++||.++.+++.+++|++.++ .|.+|.+.-.++.+.+++++
T Consensus 17 ~~~~~~~~~~~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~-~~~~wl~~I~~n~~~d~~R~ 95 (187)
T PRK12534 17 TATAGGDRHAFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHKAGQFDPSRA-RGLTWLAMIARNKAIDHLRA 95 (187)
T ss_pred HHHHcCCHHHHHHHHHHhhHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHHHHHHHHh
Confidence 33344558899999999999999999999988888999999999999999999998655 58899999999999999988
Q ss_pred cCC
Q 012710 437 QSR 439 (458)
Q Consensus 437 qsr 439 (458)
..+
T Consensus 96 ~~~ 98 (187)
T PRK12534 96 NAP 98 (187)
T ss_pred ccc
Confidence 653
No 68
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=98.16 E-value=9.5e-06 Score=75.21 Aligned_cols=83 Identities=17% Similarity=0.106 Sum_probs=72.6
Q ss_pred HHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHH
Q 012710 356 LRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSL 434 (458)
Q Consensus 356 L~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aI 434 (458)
|...+. ++..+.+.|+..|.+.|..++.+|.+..-+-+|++||.++.+++...+|++..+ .|.+|...-+++.+.+++
T Consensus 17 li~~~~~~d~~af~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQev~l~l~~~~~~~~~~~~-~~~~wL~~iarn~~ld~~ 95 (194)
T PRK12531 17 CMEKVKSRDKQAFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDGQKS-ALSTWIYTIIRNLCFDLL 95 (194)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCcccc-hHHHHHHHHHHHHHHHHH
Confidence 334444 458899999999999999999999988778999999999999999999997554 699999999999999999
Q ss_pred HhcCC
Q 012710 435 SDQSR 439 (458)
Q Consensus 435 r~qsr 439 (458)
++..+
T Consensus 96 Rk~~~ 100 (194)
T PRK12531 96 RKQKG 100 (194)
T ss_pred HHhcc
Confidence 98654
No 69
>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=98.15 E-value=8.8e-06 Score=71.97 Aligned_cols=73 Identities=15% Similarity=0.185 Sum_probs=67.4
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
+.+.++..|.++|..+++++.+...+.+|++|++.+.+++.+++||+. ..|.+|+..-+++.+.+.++++.+.
T Consensus 2 ~~~~~~~~~~~~l~~~~~~~~~~~~~aEDivQe~~l~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~r~~~~~ 74 (159)
T TIGR02989 2 AFAALLQRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPG--TDFGAWARGIARNKVLNHRRKLGRD 74 (159)
T ss_pred HHHHHHHHhHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHHhCCCC--CchHHHHHHHHHHHHHHHHHHhccc
Confidence 578899999999999999999988999999999999999999999975 3699999999999999999987654
No 70
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=98.12 E-value=2.4e-05 Score=72.65 Aligned_cols=87 Identities=16% Similarity=0.172 Sum_probs=75.6
Q ss_pred CHHHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHH
Q 012710 352 DQRELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV 430 (458)
Q Consensus 352 d~eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI 430 (458)
+.+.|...+.. +..+.+.|+..|.+.|..++.++.+...+-+|++||..+-+++.+++|++. ..|.+|+..-+++.+
T Consensus 13 ~~~~l~~~~~~gd~~~~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQEvfl~l~~~~~~~~~~--~~f~~wL~~i~rn~~ 90 (192)
T PRK09643 13 SDAELLAAHVAGDRYAFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGD--AAVSSWLHRIVVNAC 90 (192)
T ss_pred CHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCC--CccHHHHHHHHHHHH
Confidence 45555555544 489999999999999999999999888899999999999999999999964 469999999999999
Q ss_pred HHHHHhcCCc
Q 012710 431 RKSLSDQSRT 440 (458)
Q Consensus 431 ~~aIr~qsr~ 440 (458)
.+.+|+..+.
T Consensus 91 ~d~~Rk~~~~ 100 (192)
T PRK09643 91 LDRLRRAKAR 100 (192)
T ss_pred HHHHHccccC
Confidence 9999987643
No 71
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=98.11 E-value=1.6e-05 Score=76.94 Aligned_cols=85 Identities=18% Similarity=0.186 Sum_probs=73.5
Q ss_pred HHHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
.+.|...+.. +..+.+.|+..|.+.|..++.++.+...+-+|++||..+.+++.+++|++..+ .|.+|...-.++.+.
T Consensus 50 d~~Li~~~~~gd~~af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN~~i 128 (233)
T PRK12538 50 DEELLDRLATDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSNRCI 128 (233)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHHHHH
Confidence 4445555444 48899999999999999999999988788999999999999999999987555 699999999999999
Q ss_pred HHHHhcC
Q 012710 432 KSLSDQS 438 (458)
Q Consensus 432 ~aIr~qs 438 (458)
+.++++.
T Consensus 129 d~~Rk~~ 135 (233)
T PRK12538 129 DLRRKPR 135 (233)
T ss_pred HHHHhhc
Confidence 9998753
No 72
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=98.11 E-value=2.3e-05 Score=71.75 Aligned_cols=82 Identities=15% Similarity=0.135 Sum_probs=71.2
Q ss_pred HHHHHhccHHHHHHHHHHcHHHHHHHHHhhcC-CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHH
Q 012710 356 LRRRLNYGILCKDKMITSNIRLVISIAKNYQG-AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSL 434 (458)
Q Consensus 356 L~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~-rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aI 434 (458)
+.....++..+.+.|+..|.+.|..++.++.+ ..-+.+|++||+++.|++.++.|++. ..|.+|++.-+++.+.+++
T Consensus 12 ~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~iarN~~~d~~ 89 (181)
T PRK12536 12 LLRGLAGDAAAYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHAIARYKLMDFL 89 (181)
T ss_pred HHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHHHHHHHHHHHH
Confidence 34445556889999999999999999988764 46799999999999999999999974 5799999999999999999
Q ss_pred HhcCC
Q 012710 435 SDQSR 439 (458)
Q Consensus 435 r~qsr 439 (458)
+++.+
T Consensus 90 Rk~~~ 94 (181)
T PRK12536 90 RSRAR 94 (181)
T ss_pred HHHhc
Confidence 98654
No 73
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=98.08 E-value=2.4e-05 Score=71.94 Aligned_cols=87 Identities=15% Similarity=0.091 Sum_probs=75.1
Q ss_pred CCHHHHHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012710 351 VDQRELRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 351 ~d~eeL~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
++.+.|...+. ++..+.+.|+..|.+.+..++.+|.+...+-+|++||+++.|++...+|++. ..|.+|++.-+++.
T Consensus 7 ~~~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~l~~~~~~~~~~--~~~~~wl~~i~~n~ 84 (189)
T PRK12515 7 TTDEMLLARIAQGDRTAMQTLYGRHHVRVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGR--SQVSTWLLSIARFK 84 (189)
T ss_pred cCHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CChHHHHHHHHHHH
Confidence 34555555555 4588999999999999999999998888899999999999999999999963 47999999999999
Q ss_pred HHHHHHhcCC
Q 012710 430 VRKSLSDQSR 439 (458)
Q Consensus 430 I~~aIr~qsr 439 (458)
+.+.+++..+
T Consensus 85 ~~d~~r~~~~ 94 (189)
T PRK12515 85 ALSALRRRKH 94 (189)
T ss_pred HHHHHHccCC
Confidence 9999987653
No 74
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=98.07 E-value=2.1e-05 Score=72.11 Aligned_cols=87 Identities=13% Similarity=0.133 Sum_probs=75.3
Q ss_pred HHHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 012710 353 QRELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 431 (458)
Q Consensus 353 ~eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~ 431 (458)
..+|...+.. +..+.+.|+..|.+.|..++.++.+...+-+|++||..+.+++.+++|++..+ .|.+|...-+++.+.
T Consensus 10 ~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wL~~iarn~~~ 88 (182)
T PRK12537 10 YEACLLACARGDRRALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPARG-SARGWIYSVTRHLAL 88 (182)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHHHH
Confidence 3445555444 48999999999999999999999988889999999999999999999986444 699999999999999
Q ss_pred HHHHhcCCc
Q 012710 432 KSLSDQSRT 440 (458)
Q Consensus 432 ~aIr~qsr~ 440 (458)
+.++++.+.
T Consensus 89 d~~r~~~~~ 97 (182)
T PRK12537 89 NVLRDTRRE 97 (182)
T ss_pred HHHHhcccc
Confidence 999988654
No 75
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=98.05 E-value=4.1e-05 Score=69.89 Aligned_cols=79 Identities=13% Similarity=0.161 Sum_probs=68.8
Q ss_pred hccHHHHHHHHHHcHHHHHHHHHhhcCC----CCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHh
Q 012710 361 NYGILCKDKMITSNIRLVISIAKNYQGA----GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSD 436 (458)
Q Consensus 361 ~~G~~ArekLI~~nLrLV~sIAkrY~~r----Gle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~ 436 (458)
.++..+.+.|+..|.+.|..++.++.+. ..+.+|++||+.+.+++..++|+. +..|.+|++.-+|+.+.+++++
T Consensus 18 ~gd~~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeDlvQe~fl~l~~~~~~~~~--~~~~~~wl~~i~rn~~~d~~Rr 95 (184)
T PRK12512 18 AGDAAAYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDP--GAPFAPWLFAIARNKLIDALRR 95 (184)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHhHHhcCc--cccHHHHHHHHHHHHHHHHHHh
Confidence 3458999999999999999999988752 258999999999999999999986 3579999999999999999998
Q ss_pred cCCcc
Q 012710 437 QSRTI 441 (458)
Q Consensus 437 qsr~I 441 (458)
+.+..
T Consensus 96 ~~~~~ 100 (184)
T PRK12512 96 RGRRV 100 (184)
T ss_pred hcccc
Confidence 76543
No 76
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=98.02 E-value=2.2e-05 Score=71.09 Aligned_cols=73 Identities=8% Similarity=0.097 Sum_probs=67.0
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
..++|+..|.++|..++.+|.+...+.+|++||..+.|++.+++|++.. +|.+|+..-+++.+.++++++.+.
T Consensus 4 ~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~Rk~~~~ 76 (173)
T PRK12522 4 KVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVE--NYKKWITTICVRTFYDFYRKKKRW 76 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCcc--chHHHHHHHHHHHHHHHHHHhccc
Confidence 4788999999999999999999889999999999999999999999753 799999999999999999987654
No 77
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=97.92 E-value=8.1e-05 Score=68.35 Aligned_cols=83 Identities=11% Similarity=0.045 Sum_probs=69.5
Q ss_pred HHHHHHh-ccHHHHHHHHHHcHHHHHHHHH----hhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012710 355 ELRRRLN-YGILCKDKMITSNIRLVISIAK----NYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 355 eL~r~l~-~G~~ArekLI~~nLrLV~sIAk----rY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
.|...+. ++..+.+.|+..|.+.|..++. +|.+...+-+|++||.++.|++.+.+|++. ..|.+|++.-+++.
T Consensus 10 ~l~~~~~~gd~~af~~l~~~~~~~l~~~~~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~--~~f~~wl~~i~~n~ 87 (184)
T PRK12539 10 ALMLASLDGDAAAHRALLERLSGHLRAYYKGKLARIGRGAEEAEDLVQEALMAIHTRRHTYDPE--QPLTPWVYAIARYK 87 (184)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhhcCCC--CChHHHHHHHHHHH
Confidence 3434444 4588999999999999999986 444566789999999999999999999975 36999999999999
Q ss_pred HHHHHHhcCC
Q 012710 430 VRKSLSDQSR 439 (458)
Q Consensus 430 I~~aIr~qsr 439 (458)
+.+++++..+
T Consensus 88 ~~d~~R~~~~ 97 (184)
T PRK12539 88 LIDHLRRTRA 97 (184)
T ss_pred HHHHHHHHhc
Confidence 9999998654
No 78
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=97.88 E-value=7.1e-05 Score=67.51 Aligned_cols=76 Identities=18% Similarity=0.059 Sum_probs=67.0
Q ss_pred HhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 360 LNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 360 l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
..++..+.+.|+..|.+.|..++.++.+. .+.+|++||..+.|++.+++|++. ..|.+|+..-+++.+.+.++++.
T Consensus 6 ~~gd~~a~~~l~~~~~~~l~~~~~~~~~~-~~aeDivQe~~l~l~~~~~~~~~~--~~~~~wl~~ia~n~~~d~~R~~~ 81 (175)
T PRK12518 6 QRGDRQSFRQLYRRYQQKVRSTLYQLCGR-ELLDDLVQEVFLRVWKGLPKLRNP--AYFSTWLYRITWNVATDARRQFA 81 (175)
T ss_pred HcCCHHHHHHHHHHHHHHHHHHHHHHcCH-hHHHHHHHHHHHHHHHhHHhhCCc--ccHHHHHHHHHHHHHHHHHHHhh
Confidence 34558899999999999999999998754 578999999999999999999974 57999999999999999998764
No 79
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=97.83 E-value=7e-05 Score=68.48 Aligned_cols=75 Identities=12% Similarity=0.084 Sum_probs=67.3
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
++..+.+.|+..|.+.|..++..|.+..-+-+|++|+..+.|++.+.+|++.. .|.+|...-+++.+.+++++..
T Consensus 4 ~d~~af~~l~~~~~~~l~~~~~~~~~~~~daeDl~Qevfl~l~~~~~~~~~~~--~f~~wl~~iarn~~~~~~r~~~ 78 (179)
T PRK12543 4 GDQEAFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNR--PFRFWLIGLVIKQIHSWRRKRW 78 (179)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--ChHHHHHHHHHHHHHHHHHhhc
Confidence 34678999999999999999999998888999999999999999999999864 6999999989998888887654
No 80
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=97.78 E-value=5.3e-05 Score=69.48 Aligned_cols=79 Identities=16% Similarity=0.083 Sum_probs=71.4
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
++..+...|+..|.+.+..++.++.+...+-+|++||..+.+++.+.+|+...+..|.||...-+++.+.+.++++.+.
T Consensus 6 gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~Rk~~~~ 84 (185)
T PRK12542 6 NDYEKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYRKNKRH 84 (185)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 4578999999999999999999999887889999999999999999999976556899999999999999999987643
No 81
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=97.78 E-value=0.00011 Score=67.35 Aligned_cols=75 Identities=12% Similarity=0.061 Sum_probs=68.2
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+..+.++|+..|.+.|..++.+|.+..-+-+|++|++.+.|++.+.+|+.. ..|.+|...-+++.+.+++|+..+
T Consensus 14 ~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~--~~~~awl~~ia~n~~~d~~Rk~~~ 88 (179)
T PRK09415 14 KEDLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK--SSLKTWLYRIAINHCKDYLKSWHN 88 (179)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--cccHHHHHHHHHHHHHHHHHhhcc
Confidence 478999999999999999999999887889999999999999999999864 369999999999999999988543
No 82
>PF00140 Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPro: IPR009042 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 [, ]. ; 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: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P ....
Probab=97.72 E-value=1.9e-05 Score=56.87 Aligned_cols=32 Identities=41% Similarity=0.549 Sum_probs=28.2
Q ss_pred CHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHH
Q 012710 292 DPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLK 324 (458)
Q Consensus 292 d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~ 324 (458)
|+++ ||++| +++|+||++||++|+++|+.+..
T Consensus 2 D~l~~Yl~ei-~~~~LLt~eeE~~LA~~i~~g~~ 34 (37)
T PF00140_consen 2 DSLRLYLKEI-GRYPLLTAEEEIELARRIRKGDE 34 (37)
T ss_dssp HHHHHHHHHH-HHS-EETTHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHhHH
Confidence 6888 99999 99999999999999999997643
No 83
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=97.71 E-value=0.00025 Score=65.14 Aligned_cols=84 Identities=15% Similarity=0.149 Sum_probs=72.9
Q ss_pred HHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHh
Q 012710 357 RRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSD 436 (458)
Q Consensus 357 ~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~ 436 (458)
......+..+.+.++..|.+.+...+.++.+...+-+||+||.++.+++++..| . .+..|.||.+.-+++...+.+++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~-~-~~~~~~~wl~~Ia~n~~iD~~R~ 84 (182)
T COG1595 7 AEALRGDRAAFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF-R-GRSSFKAWLYRIARNLAIDRLRK 84 (182)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc-C-CCCchHHHHHHHHHHHHHHHHHH
Confidence 344455678899999999999999999999877799999999999999999999 3 44569999999999999999998
Q ss_pred cCCccc
Q 012710 437 QSRTIR 442 (458)
Q Consensus 437 qsr~IR 442 (458)
+.+...
T Consensus 85 ~~r~~~ 90 (182)
T COG1595 85 RKRRRA 90 (182)
T ss_pred hccccc
Confidence 776544
No 84
>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=97.70 E-value=0.00018 Score=64.05 Aligned_cols=76 Identities=12% Similarity=0.015 Sum_probs=68.7
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 362 YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
++..+.+.|+..|.+.|..++..+.+...+-+|++||.++-+++..++|+. ...|.+|...-+++.+.+.+++..+
T Consensus 3 ~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~--~~~~~~wl~~i~~n~~~d~~rk~~~ 78 (162)
T TIGR02983 3 ATEEEFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD--PDAPDAYVRRVLVNLARSRWRRRRL 78 (162)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC--cccHHHHHHHHHHHHHHHHHHhhcc
Confidence 457899999999999999999999988889999999999999999999963 4579999999999999999997754
No 85
>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=97.59 E-value=0.00029 Score=63.99 Aligned_cols=82 Identities=17% Similarity=0.189 Sum_probs=68.3
Q ss_pred HHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCC-----CHHHHHHHHHHHHHH-HHHhcCCCCCCchhhhHHHHHH
Q 012710 355 ELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGM-----NLQDLVQEGCRGLVR-GAEKFDASKGFKFSTYAHWWIK 427 (458)
Q Consensus 355 eL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGl-----e~eDLIQEG~IGLik-AIeKFDpskG~rFSTYA~~wIR 427 (458)
.|...+..| ..+.+.|+..|.+.+..++.+|.+... +-+|++||..+.+++ ...+|++. ..|.+|+..+++
T Consensus 6 ~li~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~AeDlvQevfl~~~~~~~~~~~~~--~~~~~wl~~i~~ 83 (183)
T TIGR02999 6 ELLQQWQNGDAAARDQLFPQLYQELRRIARRQLRRERSGQTLQTTALVHEAYLRLSDQDEQKWDDR--AHFFAAAAKAMR 83 (183)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhcccCCCCch--HHHHHHHHHHHH
Confidence 344444444 789999999999999999999987655 789999999999998 77788653 469999999999
Q ss_pred HHHHHHHHhcC
Q 012710 428 QAVRKSLSDQS 438 (458)
Q Consensus 428 ~aI~~aIr~qs 438 (458)
+.+.+.++++.
T Consensus 84 n~~~d~~R~~~ 94 (183)
T TIGR02999 84 RILVDHARRRR 94 (183)
T ss_pred HHHHHHHHHHH
Confidence 99999988754
No 86
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=97.56 E-value=0.00027 Score=63.08 Aligned_cols=73 Identities=14% Similarity=0.007 Sum_probs=64.8
Q ss_pred HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcc
Q 012710 365 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTI 441 (458)
Q Consensus 365 ~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~I 441 (458)
.+.++|+..|.+.+..++.++.+...+-+|++||+.+.+++. .|+ .+..|.+|+..-+++.+.+.+++..+..
T Consensus 3 ~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~--~~~~~~~wl~~i~rn~~~d~~rk~~~~~ 75 (166)
T PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFK--GIENEKGWLIKSARNVAYNYLRSEKRRR 75 (166)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hcc--cccchHHHHHHHHHHHHHHHHHHhcccc
Confidence 478899999999999999999988889999999999999998 565 3457999999999999999999876543
No 87
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=97.47 E-value=0.00053 Score=61.33 Aligned_cols=73 Identities=8% Similarity=0.111 Sum_probs=66.5
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
..+.+.++..|.+.|..++.++.+..-+-+|++||..+-+++..++|++. .|.||...-+++.+.++++++.+
T Consensus 4 ~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~~ 76 (161)
T PRK12541 4 KQSLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKEKK 76 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhccc
Confidence 56789999999999999999999888899999999999999999999863 59999999999999999998764
No 88
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=97.43 E-value=0.00059 Score=61.39 Aligned_cols=71 Identities=13% Similarity=0.068 Sum_probs=64.6
Q ss_pred HHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 367 KDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 367 rekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.+.|+..|.+.|..++.+|.+...+-+|++|+..+.+++.++.|++. .|.+|...-.++.+.+++++..+.
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wL~~i~~n~~~d~~R~~~~~ 73 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKEKKV 73 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc---chHHHHHHHHHHHHHHHHHhhhhc
Confidence 46799999999999999999888899999999999999999999863 599999999999999999987654
No 89
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=97.41 E-value=0.00071 Score=64.07 Aligned_cols=73 Identities=16% Similarity=0.296 Sum_probs=67.7
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
..+.++|+..|.+.+..++.+|.+...+-+|++||.++.+++.+.+|++ + .|.+|+..-.|+.+.+++++..+
T Consensus 27 ~~a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~~~ 99 (203)
T PRK09647 27 MPSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRRAR 99 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhccc
Confidence 7899999999999999999999988889999999999999999999985 3 69999999999999999998754
No 90
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=97.41 E-value=0.00081 Score=67.60 Aligned_cols=82 Identities=17% Similarity=0.169 Sum_probs=71.3
Q ss_pred HHHH-HhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHH
Q 012710 356 LRRR-LNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSL 434 (458)
Q Consensus 356 L~r~-l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aI 434 (458)
|... ..++..+.++|+..|.+.|..++.++.+...+-+|++||..+-+++.+++|++ ...|.+|.+.-.++.+.+++
T Consensus 9 l~~~~~~gd~~af~~l~~~y~~~l~~~~~~~~~~~~dAEDivQevfl~~~~~~~~~~~--~~~~~~wL~~Ia~n~~~d~~ 86 (339)
T PRK08241 9 LLARAAAGDRDAFAALVEPHRRELLAHCYRMLGSVHDAEDAVQETLLRAWRGYDRFEG--RSSLRTWLYRIATNVCLDAL 86 (339)
T ss_pred HHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhhhcccc--ccchHHHHHHHHHHHHHHHH
Confidence 4444 44458899999999999999999999988788999999999999999999984 35699999999999999999
Q ss_pred HhcCC
Q 012710 435 SDQSR 439 (458)
Q Consensus 435 r~qsr 439 (458)
+++.+
T Consensus 87 Rk~~~ 91 (339)
T PRK08241 87 EGRAR 91 (339)
T ss_pred Hhhcc
Confidence 97654
No 91
>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=97.39 E-value=0.0011 Score=64.84 Aligned_cols=89 Identities=7% Similarity=-0.001 Sum_probs=75.1
Q ss_pred cCCHHHHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHH-------HHHHhcCCCCCCchhhh
Q 012710 350 GVDQRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV-------RGAEKFDASKGFKFSTY 421 (458)
Q Consensus 350 g~d~eeL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLi-------kAIeKFDpskG~rFSTY 421 (458)
+.+...|...++.| ..+...|+..|.+.|..++.++.+...+-+|++||..+-++ +.+.+|++. ..|.||
T Consensus 23 ~~~d~~Li~~~~~gd~~Af~~L~~~y~~~l~~~~~~~~~~~~dAEDivQEvFlkl~~~~~~~~~~~~~~~~~--~~~~tW 100 (244)
T TIGR03001 23 HAADLYLACACAQGEPAALAALERHVLSKVPARLAGLRPPTAFVDEVLQRLRQRLLVPRAERPPRIAEYSGR--GPLLSW 100 (244)
T ss_pred cccHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccchhhhhhccCCC--CchHhH
Confidence 34556676666655 88999999999999999999998777899999999999999 478889863 479999
Q ss_pred HHHHHHHHHHHHHHhcCCc
Q 012710 422 AHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 422 A~~wIR~aI~~aIr~qsr~ 440 (458)
.+.-.++.+.++++++.+.
T Consensus 101 L~~Ia~N~~id~lRk~~r~ 119 (244)
T TIGR03001 101 VRIVATRIALELQAQERRH 119 (244)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 9999999999999976543
No 92
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=97.37 E-value=0.00087 Score=60.47 Aligned_cols=74 Identities=9% Similarity=0.105 Sum_probs=66.7
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
......|+..|.+.|..+|.++.+...+-+|++||..+.|++...+|+.. ..|.+|.+.-+++.+.+.+++..+
T Consensus 5 ~~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~~~ 78 (164)
T PRK12547 5 SKNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMG--TNLKAWLFTILRNEFYSQMRKRGR 78 (164)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCc--ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 35678899999999999999999988999999999999999999999753 369999999999999999997654
No 93
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=97.35 E-value=0.00096 Score=61.68 Aligned_cols=82 Identities=15% Similarity=0.079 Sum_probs=68.8
Q ss_pred HHHHHH-hccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHH
Q 012710 355 ELRRRL-NYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKS 433 (458)
Q Consensus 355 eL~r~l-~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~a 433 (458)
.|...+ .++..+.+.|+..|.+.+..++. +.+...+-+|++||.++.+++..++|++. ..|.+|...-.++.+.+.
T Consensus 13 ~l~~~~~~gd~~af~~l~~~~~~~l~~~~~-~~~~~~~AeDivQe~flkl~~~~~~~~~~--~~~~~Wl~~Iarn~~~d~ 89 (185)
T PRK09649 13 ALALSAAKGNGRALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIARHVVADH 89 (185)
T ss_pred HHHHHHHccCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHhccccCcc--chHHHHHHHHHHHHHHHH
Confidence 344444 44588999999999999999995 56656789999999999999999999863 479999999999999999
Q ss_pred HHhcCC
Q 012710 434 LSDQSR 439 (458)
Q Consensus 434 Ir~qsr 439 (458)
++++.+
T Consensus 90 ~Rk~~~ 95 (185)
T PRK09649 90 IRHVRS 95 (185)
T ss_pred HHHhcc
Confidence 997643
No 94
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=97.32 E-value=0.001 Score=59.97 Aligned_cols=76 Identities=11% Similarity=0.007 Sum_probs=67.9
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+..+.+.|+..|.+.+..++.++.+...+-+|++||-.+-+++..++|++.. ..|.+|...-.++.+.+.++++.+
T Consensus 7 ~~~~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~~~ 82 (173)
T PRK09645 7 EAALMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSARA 82 (173)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 4779999999999999999999988777899999999999999999998533 569999999999999999997654
No 95
>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=97.31 E-value=0.00078 Score=62.23 Aligned_cols=75 Identities=12% Similarity=0.104 Sum_probs=67.8
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
..+.+.|+..|.+.|..++.++.+...+-+|++||..+-+++.+.+|++. ..|.+|...-.++.+.+.++++.+.
T Consensus 10 ~~~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk~~~~ 84 (193)
T TIGR02947 10 AQRFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRKAQRR 84 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHHhcCC
Confidence 67899999999999999999998877789999999999999999999853 4799999999999999999987643
No 96
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=97.28 E-value=0.00095 Score=61.55 Aligned_cols=74 Identities=14% Similarity=0.148 Sum_probs=66.6
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcc
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTI 441 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~I 441 (458)
+.++|+..|.+.+..++.++.+...+-+|++||-.+.+++.+++|+.. .+|.+|.+.-+++.+.+.++++.+..
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~~r~~ 76 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSGRREV 76 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhhcCcC
Confidence 578899999999999999999887899999999999999999999854 36999999999999999999876543
No 97
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=97.27 E-value=0.0014 Score=60.57 Aligned_cols=75 Identities=9% Similarity=0.089 Sum_probs=66.9
Q ss_pred HHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCcccc
Q 012710 367 KDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRL 443 (458)
Q Consensus 367 rekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRl 443 (458)
.+.|+..|.+.|..++.++.+...+-+|++||..+.+++.+..|++ +..|.+|+..-+++.+.+.++++.+...+
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~aeDi~QEvflkl~~~~~~~~~--~~~~~~wL~~i~~n~~~d~~Rk~~~~~~~ 77 (181)
T PRK09637 3 LESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKD--GSSIKSWLYQIANNTIIDFYRKKNRSEEL 77 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHhHHHhcc--ccchHHHHHHHHHHHHHHHHHhccccCCc
Confidence 4678999999999999999988899999999999999999999985 35799999999999999999987655443
No 98
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=97.25 E-value=0.0012 Score=59.14 Aligned_cols=71 Identities=10% Similarity=0.097 Sum_probs=63.9
Q ss_pred HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 365 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 365 ~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
.+.++|+..|.+.|..++.++.+..-+-+|++||.++-+++..+.|++ ..|.+|...++++.+.+.++++.
T Consensus 4 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~flk~~~~~~~~~~---~~~~~wl~~i~~n~~~d~~R~~~ 74 (161)
T PRK12528 4 ATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQI---IEPRAFLTTIAKRVLCNHYRRQD 74 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHhccccccc---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 478899999999999999999988789999999999999998888764 36999999999999999998764
No 99
>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=97.23 E-value=0.001 Score=61.74 Aligned_cols=71 Identities=15% Similarity=0.133 Sum_probs=64.3
Q ss_pred HHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 368 DKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 368 ekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.++|..|.+.|..++.++.+...+-+|++|+..+.+++...+|++. .+|.+|++.-+++.+.++++++.+.
T Consensus 5 ~~~~~~~~~~l~~~~~~~~~~~~dAeDivQevfl~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~R~~~r~ 75 (188)
T TIGR02943 5 PQELEQLRRDLLRFARLQLRDRDLAEDAVQETLLAALSHRDSFAGR--SALKTWLFAILKNKIIDALRAKGRE 75 (188)
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4578899999999999999888899999999999999999999964 5899999999999999999987654
No 100
>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=97.23 E-value=0.00072 Score=59.50 Aligned_cols=66 Identities=11% Similarity=0.028 Sum_probs=58.9
Q ss_pred HHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 372 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 372 ~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
..|.+.|..++.++.+.--+-+|++||..+.|++.+++|++ .+|.+|+..-+++.+.+.++++.+.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~~~~ 67 (154)
T TIGR02950 2 REYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKDKKI 67 (154)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHhhhh
Confidence 46889999999999877678999999999999999999997 4799999999999999999876643
No 101
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=97.23 E-value=0.0021 Score=60.39 Aligned_cols=78 Identities=13% Similarity=0.028 Sum_probs=66.8
Q ss_pred HHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 359 RLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 359 ~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
...++..+.+.|+..|.+.+..++. +.+...+-+|++||-++-|++..++|++. ..|.+|.+.-+++.+.+.+++..
T Consensus 19 ~~~~d~~a~~~l~~~y~~~l~~~~~-~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~ 95 (196)
T PRK12535 19 AGRGDRAALTEFIRETQDDVWRLLA-HLGGHDIADDLTQETYLRVMSALPRFAAR--SSARTWLLSLARRVWVDNIRHDM 95 (196)
T ss_pred HHcCCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHHhhhcCCc--ccHHHHHHHHHHHHHHHHHHhhc
Confidence 3344588999999999999999975 55666789999999999999999999863 46999999999999999999865
Q ss_pred C
Q 012710 439 R 439 (458)
Q Consensus 439 r 439 (458)
+
T Consensus 96 ~ 96 (196)
T PRK12535 96 A 96 (196)
T ss_pred c
Confidence 4
No 102
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=97.18 E-value=0.0012 Score=61.19 Aligned_cols=71 Identities=17% Similarity=0.221 Sum_probs=62.4
Q ss_pred HHHHHHcHHHHHHHHHhhcCCCCC-HHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 368 DKMITSNIRLVISIAKNYQGAGMN-LQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 368 ekLI~~nLrLV~sIAkrY~~rGle-~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
+..+..|.+.|..+|.++.+...+ -+|++||.++.+++..++|+.. ..|.+|.+.-+++.+.++++++.+.
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~ 79 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR--ALVNSWLFAILKNKIIDALRQIGRQ 79 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc--chHHHHHHHHHHHHHHHHHHHhccc
Confidence 456778899999999999887777 8999999999999999999863 4799999999999999999987653
No 103
>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=97.12 E-value=0.002 Score=64.12 Aligned_cols=75 Identities=17% Similarity=0.162 Sum_probs=67.9
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+..+.+.|+..|.+.+..++.++.+...+-+|++||-.+-+++.+++|+.. ..|.+|.+.-.++.+.+.++++.+
T Consensus 3 d~~af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~~ 77 (324)
T TIGR02960 3 DGAAFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEARQR 77 (324)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhccC
Confidence 467899999999999999999999887889999999999999999999863 469999999999999999997654
No 104
>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=97.12 E-value=0.0016 Score=59.41 Aligned_cols=71 Identities=17% Similarity=0.223 Sum_probs=62.0
Q ss_pred HHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccC
Q 012710 372 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLP 444 (458)
Q Consensus 372 ~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP 444 (458)
..|.+.+..++.++.+...+-+|++||..+.+++.+.+|+. +.+|.+|+..-+++.+.+++++..+...++
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~l~~~~~~~~~--~~~f~~wl~~iarn~~~d~~Rk~~~~~~~~ 72 (170)
T TIGR02959 2 DEFRSELKAFIKSRVSDASDVEDLLQEVFIKIHRNLPSLKD--GQKIQSWLYQIARNTIIDFYRSKSRSVELP 72 (170)
T ss_pred chHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCC--cccHHHHHHHHHHHHHHHHHHhccCccccc
Confidence 35778888899999888889999999999999999999996 468999999999999999999987655443
No 105
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=97.09 E-value=0.0025 Score=59.30 Aligned_cols=76 Identities=12% Similarity=0.162 Sum_probs=68.0
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
+..+..+|+..|.+.+..++.++.+..-+-+|++||..+-+++..++|+.. ..|.+|.+.-.++.+.+.++++.+.
T Consensus 8 ~~~~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~awL~~Ia~n~~~d~~R~~~~~ 83 (187)
T PRK12516 8 GTPPFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVG--TNMKAWLFTILRNEFYSQMRKRGRE 83 (187)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCc--ccHHHHHHHHHHHHHHHHHHhhcCC
Confidence 367899999999999999999999887889999999999999999999854 3699999999999999999987653
No 106
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=97.05 E-value=0.0032 Score=60.55 Aligned_cols=73 Identities=12% Similarity=0.177 Sum_probs=66.1
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
..+.+.|+..|.+.+..++.++.+..-+-+|++||.++-+++.+.+|++. .|.+|.+.-.++.+.+.++++.+
T Consensus 17 ~~~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~~---~~~aWL~~IarN~~~d~~Rk~~~ 89 (216)
T PRK12533 17 GERFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRGD---NARPWLLAIVRHTWYSEWRRRAN 89 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCcc---chHhHHHHHHHHHHHHHHHhhcc
Confidence 56899999999999999999999887889999999999999999999852 49999999999999999987654
No 107
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=96.87 E-value=0.0051 Score=57.55 Aligned_cols=72 Identities=13% Similarity=0.154 Sum_probs=62.9
Q ss_pred HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 365 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 365 ~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+.++.|.. |.+.|..++..+.+...+-+|++||..+.+++.+..|+.. ..|.+|+..-+++.+.+.++++.+
T Consensus 8 ~~~~~l~~-~~~~l~~~a~~~l~~~~~AEDivQevfl~l~~~~~~~~~~--~~~~awL~~ia~n~~~d~~Rk~~r 79 (188)
T PRK12546 8 DPRDELVE-HLPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEG--TNLRAWLFTILRNTFYSDRRKHKR 79 (188)
T ss_pred hHHHHHHH-HHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhccCCC--cchHHHHHHHHHHHHHHHHHHhcc
Confidence 45555554 7799999999999988899999999999999999999863 479999999999999999998764
No 108
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=96.86 E-value=0.0017 Score=57.91 Aligned_cols=65 Identities=8% Similarity=0.057 Sum_probs=58.5
Q ss_pred HHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 372 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 372 ~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
..|.+.|..++.++.+..-+-+|++||..+.+++.+++|++. .|.+|...-+++.+.++++++.+
T Consensus 2 ~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wl~~ia~n~~~d~~Rk~~~ 66 (160)
T PRK09642 2 QTYRHYIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFR---GLKTWMARIATNHAIDYKRKKAR 66 (160)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcccccccc---hhHHHHHHHHHHHHHHHHHHhcc
Confidence 568899999999998887889999999999999999999863 49999999999999999998654
No 109
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=96.80 E-value=0.0058 Score=56.69 Aligned_cols=74 Identities=16% Similarity=0.210 Sum_probs=65.6
Q ss_pred HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 365 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 365 ~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.....++..|.+.+..++.++.+...+-+|++||..+.+++..++|++. ..|.+|...-+++.+.+.++++.+.
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~~~ 78 (182)
T PRK12540 5 DSLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPG--SNLPAWLFTILRNLFRSDYRKRRRE 78 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCC--chHHHHHHHHHHHHHHHHHHhcccc
Confidence 3567889999999999999999888899999999999999999999865 3699999999999999999887653
No 110
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=96.77 E-value=0.0054 Score=58.22 Aligned_cols=71 Identities=20% Similarity=0.222 Sum_probs=64.0
Q ss_pred HHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 368 DKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 368 ekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
..++..|.+.|..++.++.+..-+-+|++||.++.+++.+.+|+.. .+|.+|.+.-+++.+.++++++.+.
T Consensus 21 ~~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~~~ 91 (206)
T PRK12544 21 PVFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQKKRH 91 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhhccc
Confidence 4678889999999999999888899999999999999999999854 5699999999999999999987653
No 111
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=96.77 E-value=0.004 Score=56.52 Aligned_cols=73 Identities=7% Similarity=0.004 Sum_probs=63.9
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
+..+...|+..|.+.|..++.++.+...+-+|++||.++-+++. ..|+.. ..|.+|.....++.+.++++++.
T Consensus 8 ~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQevflk~~~~-~~~~~~--~~~~~wL~~Iarn~~~d~~Rk~~ 80 (172)
T PRK12523 8 HSELVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRRAA 80 (172)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHcc-cccCcc--hhHHHHHHHHHHHHHHHHHHHHH
Confidence 37899999999999999999999888789999999999999986 445532 46999999999999999999864
No 112
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=96.63 E-value=0.0071 Score=55.50 Aligned_cols=78 Identities=8% Similarity=-0.132 Sum_probs=65.3
Q ss_pred hccHHHHHHHHHHcHHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 361 NYGILCKDKMITSNIRLVISIAKNYQG--AGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 361 ~~G~~ArekLI~~nLrLV~sIAkrY~~--rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
.++..+.+.|+..|.+.|..++..+.+ ..-+-+|++||..+-+++..++|+......|.||...-.++.+.++++++.
T Consensus 9 ~~d~~af~~ly~~~~~~l~~~~~~~~~~~~~~~AeDivQevFl~~~~~~~~~~~~~~~~~~~wL~~ia~n~~~d~~Rk~~ 88 (178)
T PRK12529 9 SADRDKVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDIFLRILASRDGGQREAIRQPRAYLARIANCVLVSWRRRQS 88 (178)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcccccccccccCHHHHHHHHHHHHHHHHHHHHH
Confidence 345789999999999999997655544 235789999999999999999998655567999999999999999998764
No 113
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=96.62 E-value=0.0054 Score=54.73 Aligned_cols=68 Identities=16% Similarity=0.224 Sum_probs=58.3
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+++..|.+.+..++.++.+...+-+|++||..+.+++....|++. .|.+|...-.++.+.++++++.+
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~~~ 69 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQAL 69 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhhcc
Confidence 367788899999999999887889999999999999888777653 47899999999999999997764
No 114
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=96.60 E-value=0.0076 Score=56.56 Aligned_cols=70 Identities=16% Similarity=0.149 Sum_probs=62.5
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
.++..|.+.+..++.++.+..-+-+|++||..+.+++.+++|++. ..|.+|.+.-.++.+.++++++.+.
T Consensus 12 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~r~ 81 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQ--SAHKTWVFGILRNKLIDTLRARQRT 81 (201)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhcccc--chHHHHHHHHHHHHHHHHHHhhccc
Confidence 348889999999999999887899999999999999999999975 4699999999999999999987654
No 115
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=96.60 E-value=0.0097 Score=55.37 Aligned_cols=76 Identities=9% Similarity=-0.013 Sum_probs=65.9
Q ss_pred HhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhc
Q 012710 360 LNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQ 437 (458)
Q Consensus 360 l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~q 437 (458)
+..+..+.+.++..|.+.|..++.++.+..-+-+|++|+..+-+++.+..|++. ..|.+|...-+++...+..++.
T Consensus 18 ~~~~~~~f~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQdvflkl~~~~~~~~~~--~~~~~wL~~Iarn~~~~~~r~~ 93 (188)
T PRK12517 18 MLSKQRRYEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDE--KAAKAWLITILRRENARRFERK 93 (188)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhhcCc--cchHHHHHHHHHHHHHHHHHHh
Confidence 344688999999999999999999999887889999999999999999999864 4699999999999876666543
No 116
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=96.23 E-value=0.018 Score=52.45 Aligned_cols=72 Identities=8% Similarity=0.062 Sum_probs=62.2
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
..+.+.++..|.+.+..++.++.+...+-+|++||-.+-+++. ..|++- ..|.+|...-.++.+.+.++++.
T Consensus 9 ~~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~--~~~~~wL~~iarn~~~d~~R~~~ 80 (172)
T PRK09651 9 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTI--RDPRSFLCTIAKRVMVDLFRRNA 80 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-cccccc--cCHHHHHHHHHHHHHHHHHHHHH
Confidence 6689999999999999999999988888999999999999987 345433 36899999999999999998754
No 117
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=96.22 E-value=0.016 Score=53.79 Aligned_cols=71 Identities=15% Similarity=0.111 Sum_probs=62.1
Q ss_pred HHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 368 DKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 368 ekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
+.-|..|.+.+..++.+|.+..-+-+|++||..+-+++.+.+|++. .+|.+|.+.-.++.+.+.++++.+.
T Consensus 10 ~~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~ 80 (189)
T PRK12530 10 SLEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQ--SALKTWIFAILKNKIIDLIRYRKRF 80 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCC--ccHHHHHHHHHHHHHHHHHHhhccC
Confidence 3457788889999999998887899999999999999999999864 3699999999999999999987653
No 118
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=96.10 E-value=0.02 Score=53.15 Aligned_cols=72 Identities=13% Similarity=0.123 Sum_probs=63.3
Q ss_pred HHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012710 367 KDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 367 rekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
++..+..+.+.|..++.++.+..-+-+|++||..+-+++....|+.. ..|.+|...-+++.+.++++++.+.
T Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~~~ 77 (182)
T PRK12511 6 KRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG--GNLRTWLMSILHNAFIDELRRRRVE 77 (182)
T ss_pred hhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc--cchHHHHHHHHHHHHHHHHHhhccc
Confidence 45568889999999999998887889999999999999999999863 4699999999999999999987643
No 119
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=96.07 E-value=0.015 Score=64.25 Aligned_cols=33 Identities=33% Similarity=0.537 Sum_probs=30.7
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHH
Q 012710 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLL 323 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~ 323 (458)
..||+| ||++| |+.||||.|+|++++++|..+.
T Consensus 102 t~DPVRMYLREM-G~V~LLTREgEIeIAKRIE~G~ 135 (619)
T PRK05658 102 TDDPVRMYLREM-GTVELLTREGEIEIAKRIEAGE 135 (619)
T ss_pred CCChHHHHHHHh-ccCcCCCcHHHHHHHHHHHHHH
Confidence 489999 99999 9999999999999999999754
No 120
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=95.41 E-value=0.034 Score=49.59 Aligned_cols=64 Identities=6% Similarity=0.015 Sum_probs=53.6
Q ss_pred HHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 372 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 372 ~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
..|.+.+...+..+.+...+-+|++||.++.|++..+.|++ .+|.+|...-+++.+.++++++.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeDi~Qevf~~l~~~~~~~~~---~~~~~wL~~ia~n~~~d~~R~~~ 65 (159)
T PRK12527 2 ENYYRELVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQI---EHPRAFLYRTALNLVVDRHRRHR 65 (159)
T ss_pred hhHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHhccccccc---cchHHHHHHHHHHHHHHHHHHHh
Confidence 35666777777777777678899999999999999998874 37999999999999999998764
No 121
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=95.31 E-value=0.04 Score=54.71 Aligned_cols=69 Identities=13% Similarity=0.063 Sum_probs=58.7
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
....|+..|.+.+..++.++.+...+-+|++||..+.+. ....|+ ...|.+|.+.-.++.+.+.++++.
T Consensus 5 ~~~~l~~~~~~~l~~~a~~~~~~~~dAEDlvQe~fl~~~-~~~~~~---~~~~~~WL~~Ia~n~~~d~lR~~~ 73 (293)
T PRK09636 5 DAAAEFEPLRPHLLSVAYRMLGSVADAEDIVQEAWLRWN-NADRAQ---IRDPRAWLTRVVTRLCLDRLRSAR 73 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-hccccc---ccCHHHHHHHHHHHHHHHHHHhhh
Confidence 356789999999999999999888899999999998844 445664 457999999999999999999764
No 122
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=95.26 E-value=0.079 Score=47.99 Aligned_cols=72 Identities=7% Similarity=-0.023 Sum_probs=60.6
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
.....+++..|.+.+...+.+|.+...+-+|++|+-.+-+++-.+.++ ...|.+|...-.++.+.+.+++..
T Consensus 8 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~aeDlvQevf~~l~~~~~~~~---~~~~~~wl~~Iarn~~~d~~Rr~~ 79 (168)
T PRK12525 8 NTLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPAS---IREPRALLTTIARRLMYEGWRRQD 79 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhCCCccc---ccCHHHHHHHHHHHHHHHHHHHHH
Confidence 457888999999999999999998888999999999999997544443 237999999999999999888653
No 123
>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=95.13 E-value=0.043 Score=54.47 Aligned_cols=66 Identities=15% Similarity=0.082 Sum_probs=56.3
Q ss_pred HHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 369 KMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 369 kLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
+++..|.+.+..++.++.+...+-+|++||..+-+++. .|+ ....|.+|.+...++.+.+.++++.
T Consensus 1 ~l~~~~~~~l~~~a~r~lg~~~dAEDvvQE~flk~~~~--~~~--~~~~~~awL~~Ia~n~~ld~lR~~~ 66 (281)
T TIGR02957 1 EEFEALRPLLFSLAYRMLGSVADAEDIVQETFLRWQEA--DRA--QIENPKAYLTKVVTRRCIDVLRSAR 66 (281)
T ss_pred ChHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhC--Ccc--cccCHHHHHHHHHHHHHHHHHHHhh
Confidence 36889999999999999998889999999999987764 443 3347999999999999999998764
No 124
>PRK06704 RNA polymerase factor sigma-70; Validated
Probab=94.77 E-value=0.09 Score=51.53 Aligned_cols=79 Identities=11% Similarity=0.038 Sum_probs=62.0
Q ss_pred HHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHH
Q 012710 355 ELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSL 434 (458)
Q Consensus 355 eL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aI 434 (458)
.|.+.+..+..+.+.+++.| +.+..++.++.+..-+-+||+||..+-+++ +|+.. ..|.+|...-.++.+.+.+
T Consensus 8 ~~~~~~~~~~~~~~~l~~~y-~~L~r~~~~~~~d~~dAEDlvQE~flk~~~---~~~~~--~~~~~WL~~IarN~~id~~ 81 (228)
T PRK06704 8 ILKNHIDMNHSNINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQ---KYSNK--DICMTLVYKIARNRWLDQI 81 (228)
T ss_pred HHhcccCCCHHHHHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHHH---HcCcc--ccHHHHHHHHHHHHHHHHH
Confidence 34555555667777777777 788888988888778999999999988765 56643 3599999999999999999
Q ss_pred HhcCC
Q 012710 435 SDQSR 439 (458)
Q Consensus 435 r~qsr 439 (458)
+++.+
T Consensus 82 Rk~k~ 86 (228)
T PRK06704 82 KSKSV 86 (228)
T ss_pred hcccc
Confidence 97754
No 125
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=94.72 E-value=0.062 Score=43.05 Aligned_cols=39 Identities=31% Similarity=0.410 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 323 LKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 323 ~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
.++.+.+.+|..++||.||.++.|+..|++.+.+...+.
T Consensus 4 ~~i~~a~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~ 42 (78)
T PF04539_consen 4 RKIERARRELEQELGREPTDEEIAEELGISVEEVRELLQ 42 (78)
T ss_dssp HHHHHHHHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHH
Confidence 457788899999999999999999999999988776554
No 126
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=94.63 E-value=0.15 Score=41.11 Aligned_cols=57 Identities=14% Similarity=0.113 Sum_probs=46.8
Q ss_pred HHHHHHhccHHHHHHHHHHcHHHHHHHHHh----hcC--CCCCHHHHHHHHHHHHHHHHHhcC
Q 012710 355 ELRRRLNYGILCKDKMITSNIRLVISIAKN----YQG--AGMNLQDLVQEGCRGLVRGAEKFD 411 (458)
Q Consensus 355 eL~r~l~~G~~ArekLI~~nLrLV~sIAkr----Y~~--rGle~eDLIQEG~IGLikAIeKFD 411 (458)
.+.++.+++..|.+++++.|-|+|.+.+.+ ..+ .+.--+||-|+=..-||++|-+|+
T Consensus 3 vI~~A~~GD~~A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDedl~q~l~~kLi~~I~~F~ 65 (65)
T PF12645_consen 3 VIKAAKQGDPEAMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDEDLKQRLEIKLIEAILKFE 65 (65)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHhhcccccCCcCceeCHHHHHHHHHHHHHHHHccC
Confidence 355666777999999999999999999876 112 244569999999999999999996
No 127
>PRK09191 two-component response regulator; Provisional
Probab=94.08 E-value=0.16 Score=48.00 Aligned_cols=63 Identities=10% Similarity=0.043 Sum_probs=54.4
Q ss_pred HHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHH
Q 012710 366 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAV 430 (458)
Q Consensus 366 ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI 430 (458)
+..+|+..|.+.+...+.++.+..-+-+|++|+.++-+++...+|++. ..|.+|.+.++++-.
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~ 64 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLW 64 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHh
Confidence 367899999999999999998877888999999999999999999864 468888888776644
No 128
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=93.21 E-value=0.19 Score=50.56 Aligned_cols=70 Identities=13% Similarity=-0.021 Sum_probs=58.9
Q ss_pred HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012710 365 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 365 ~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
.....+++.|.+.+..++.++.+...+-+|++||..+-+++....+ ...|.+|.+.-.++.+.+.+++..
T Consensus 5 ~~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~----~~~~~aWL~~Ia~n~~id~lRk~~ 74 (290)
T PRK09635 5 DPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD----IDDERGWLIVVTSRLCLDHIKSAS 74 (290)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc----cccHHHHHHHHHHHHHHHHHhhhh
Confidence 3567889999999999999999988889999999988888765432 236999999999999999998753
No 129
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=93.06 E-value=0.5 Score=44.11 Aligned_cols=91 Identities=19% Similarity=0.143 Sum_probs=63.8
Q ss_pred HHHHHHhcc-HHHHHHHHHHcHHHHHHHHHhhcC---CCCCHHHH--HHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHH
Q 012710 355 ELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQG---AGMNLQDL--VQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQ 428 (458)
Q Consensus 355 eL~r~l~~G-~~ArekLI~~nLrLV~sIAkrY~~---rGle~eDL--IQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~ 428 (458)
+|...++.| ..|.++|+..|.+-++.+|+++.. .+.+.+|. +++.++-+++.-...+.+....|-.|+..-+++
T Consensus 6 ~ll~~~~~GD~~A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~lv~ea~lrl~~~~~~~~~~~~~~f~~~~~~~~rr 85 (185)
T PF07638_consen 6 ELLDRWRQGDEAALDQLFERYYPELRRLARRRLRRERRGHDLQDTALVHEAFLRLARRGRFVQFSDRRHFWALLARIMRR 85 (185)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHHHHHHHHHHhccccccCCCCHHHHHHHHHHHHHH
Confidence 344445554 899999999999999999987653 24456665 555555444422233455545699999999999
Q ss_pred HHHHHHHhcCCccccCc
Q 012710 429 AVRKSLSDQSRTIRLPV 445 (458)
Q Consensus 429 aI~~aIr~qsr~IRlP~ 445 (458)
.+.+.+|.+...+|-..
T Consensus 86 ~lid~~R~~~a~KRg~~ 102 (185)
T PF07638_consen 86 KLIDHARRRQAQKRGGD 102 (185)
T ss_pred HHHHHHHHHHHHhcCCC
Confidence 99999998887777533
No 130
>TIGR03209 P21_Cbot clostridium toxin-associated regulator BotR. Similarly, tetanus toxin production of Clostridium tetani is regulated by TetR which is a very close relative of BotR. Both BotR and TetR are members of the TIGR02937 subfamily of sigma-70 RNA polymerase sigma factors. Functional complementation experiments have been done for botR and tetR in highly transformable strain of Clostridium perfringens host cells to assess functional interchangeability of sigma factors and it has been confirmed that they are interchangeable in vivo.
Probab=92.95 E-value=0.36 Score=42.31 Aligned_cols=67 Identities=10% Similarity=0.010 Sum_probs=53.9
Q ss_pred HHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCC---CCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 368 DKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA---SKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 368 ekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDp---skG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+.|+..|.+++..++++|... |.+|+-.+.+++...+|+. .....|.||...-.++.+.+.++++.+
T Consensus 2 ~~~~~~y~~~l~~~~~~~~~~-----~~~qdvf~~~w~~~~~~~~~~~~~~~~~~~wL~~iarN~~id~~Rk~~~ 71 (142)
T TIGR03209 2 EEIYMNFKNTIDIFTRKYNLY-----YDYNDILYHLWIILKKIDLNKFNTENDLEKYISTSLKRYCLDICNKKNR 71 (142)
T ss_pred hHHHHHHHHHHHHHHHHhcch-----hhHHHHHHHHHHHHHHhhhhhcCchhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 578999999999999999652 3459999999999876432 223579999999999999999987654
No 131
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=90.44 E-value=0.64 Score=41.12 Aligned_cols=46 Identities=11% Similarity=0.117 Sum_probs=38.6
Q ss_pred CHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012710 391 NLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 391 e~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
+-+|++||..+.+++.... + .+..|.+|.+.-+++.+.++++++.+
T Consensus 6 ~AeDivQe~fl~~~~~~~~-~--~~~~~~~wl~~ia~n~~~d~~Rk~~~ 51 (161)
T PRK09047 6 AALDIVQDAMIKLAEKYGD-R--PAAEWPPLFQRILQNRIHDWFRRQKV 51 (161)
T ss_pred HHHHHHHHHHHHHHHHHhh-c--ccCchHHHHHHHHHHHHHHHHHhhcc
Confidence 5689999999999888776 2 35679999999999999999998764
No 132
>PHA02547 55 RNA polymerase sigma factor; Provisional
Probab=89.97 E-value=1 Score=43.11 Aligned_cols=68 Identities=13% Similarity=0.238 Sum_probs=54.7
Q ss_pred HHHHcHHHHHHHHHhhcCCCCC---HHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhc
Q 012710 370 MITSNIRLVISIAKNYQGAGMN---LQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQ 437 (458)
Q Consensus 370 LI~~nLrLV~sIAkrY~~rGle---~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~q 437 (458)
+=.+.|.++..++++|.-+|.. .+|+|.+|.-..++.+.+|||++...+-.|.+..+-++..+-|...
T Consensus 42 ig~~imkIa~glS~r~nF~~Yt~~wKedMI~DgIe~~i~ylhNFD~~k~~Np~aYiT~~~~~AF~~RI~kE 112 (179)
T PHA02547 42 IGLAIMKIAEGLSRRPNFSGYTQTWKEDMIADGIEACIKGLHNFDETKYKNPHAYITQACFNAFVQRIKKE 112 (179)
T ss_pred HHHHHHHHHhccccCCccccchHHHHHHHHHHHHHHHHHHhhcCCcccccChHHHHHHHHHHHHHHHHHHH
Confidence 3345566666677777666766 7999999999999999999999998888898888888877777544
No 133
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=63.28 E-value=14 Score=37.12 Aligned_cols=40 Identities=25% Similarity=0.288 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhcc
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYG 363 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G 363 (458)
+++.+..+|...+|++||..+.|+..|++.+++...+..+
T Consensus 111 ~i~~~~~~l~~el~r~pt~~EIA~~L~i~~ee~~~~~~~~ 150 (247)
T COG1191 111 RIEEAIDELEQELGREPTDEEIAEELGIDKEEYIEALLAI 150 (247)
T ss_pred HHHHHHHHHHHHhCCCCcHHHHHHHhCCCHHHHHHHHHHh
Confidence 3456778888999999999999999999998876655433
No 134
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=57.25 E-value=26 Score=34.54 Aligned_cols=36 Identities=22% Similarity=0.284 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRR 359 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~ 359 (458)
++.+.+.+|...+|++||.++.|+..|++.+.+...
T Consensus 114 ~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~ 149 (256)
T PRK07408 114 QAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI 149 (256)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHH
Confidence 455677788889999999999999999999887654
No 135
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=56.16 E-value=28 Score=34.10 Aligned_cols=38 Identities=26% Similarity=0.254 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
++.+...++...+|++||.++.|+..|++.+.+...+.
T Consensus 121 ~~~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~ 158 (254)
T TIGR02850 121 KALQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALD 158 (254)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 34445667778899999999999999999888766544
No 136
>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=55.19 E-value=31 Score=33.37 Aligned_cols=37 Identities=24% Similarity=0.293 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
++.+...+|...+|++||.++.|+..|++.+.+....
T Consensus 88 ~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~~ 124 (238)
T TIGR02393 88 KLIKAERQLTQELGREPTDEELAERMGMPAEKVREIK 124 (238)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 3455667788889999999999999999988876643
No 137
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=55.06 E-value=30 Score=34.44 Aligned_cols=38 Identities=34% Similarity=0.460 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
++.+...+|...+|++||.++.|+..|++.+.+...+.
T Consensus 128 ~i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~~ 165 (264)
T PRK07122 128 RLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLV 165 (264)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 34556677888899999999999999999888766543
No 138
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=54.76 E-value=29 Score=35.94 Aligned_cols=38 Identities=21% Similarity=0.329 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 323 LKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 323 ~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
.++.+.+.+|...+|++||.++.|+..|++.+.+...+
T Consensus 173 ~~l~~~~~~l~~~lgr~pt~~EiA~~lgi~~~~v~~~~ 210 (324)
T PRK07921 173 NKLARIKRELHQQLGREATDEELAEESGIPEEKIADLL 210 (324)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 34566778888899999999999999999988776543
No 139
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=51.94 E-value=25 Score=34.19 Aligned_cols=36 Identities=19% Similarity=0.332 Sum_probs=29.4
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
+.+....|...+|++||.++.|+..|++.+++...+
T Consensus 103 i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~ 138 (231)
T PRK12427 103 TNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYL 138 (231)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 445567777889999999999999999988876554
No 140
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=48.52 E-value=40 Score=35.26 Aligned_cols=38 Identities=24% Similarity=0.296 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
++.+...+|...+|+.||..+.|+..|++.+.+...+.
T Consensus 217 ~~~~~~~~l~~~lgr~pt~~EiA~~l~~~~~~v~~~~~ 254 (367)
T PRK09210 217 KLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREILK 254 (367)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 45667788888999999999999999999888766543
No 141
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=46.32 E-value=49 Score=32.69 Aligned_cols=36 Identities=22% Similarity=0.294 Sum_probs=28.4
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
+.+....|...+|++|+.++.|+..|++.+.+...+
T Consensus 112 l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~~ 147 (257)
T PRK05911 112 LADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWF 147 (257)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHH
Confidence 334455677788999999999999999988876544
No 142
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=45.34 E-value=46 Score=36.89 Aligned_cols=38 Identities=24% Similarity=0.282 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 323 LKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 323 ~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
.++.+.+.+|...+|++||.++.|+..|++.+.+...+
T Consensus 358 ~kl~~~~~~L~~~lgr~PT~eELAe~Lgis~e~V~~~~ 395 (509)
T PRK05901 358 NKLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQ 395 (509)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 35667788888899999999999999999988876654
No 143
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=41.49 E-value=60 Score=34.46 Aligned_cols=37 Identities=24% Similarity=0.293 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHH
Q 012710 323 LKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRR 359 (458)
Q Consensus 323 ~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~ 359 (458)
.++.+....|...+|+.||.++.|+..|++.+.+...
T Consensus 223 ~~i~~a~~~l~~~lgr~Pt~~EIA~~lg~~~e~v~~~ 259 (373)
T PRK07406 223 SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFI 259 (373)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 3455667778888999999999999999998877654
No 144
>PRK14082 hypothetical protein; Provisional
Probab=40.26 E-value=95 Score=25.68 Aligned_cols=56 Identities=14% Similarity=0.051 Sum_probs=43.5
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhh
Q 012710 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTY 421 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTY 421 (458)
....+.+|..+.|.|.+--.+ ..--+.+||.||=.|-+++=++.++-..+..|--|
T Consensus 8 ~~e~e~ii~~FepkIkKsL~~--T~yqeREDLeQElk~Ki~eK~~~~~~~e~PGF~ef 63 (65)
T PRK14082 8 TEEIEHLIENFSPMIKKKLSN--TSYQEREDLEQELKIKIIEKADMLLCQEVPGFWEF 63 (65)
T ss_pred HHHHHHHHHHccHHHHHHHhc--CChhhHHHHHHHHHHHHHHHHHHhhcccCCcHHHh
Confidence 345677899999988765432 12246799999999999999999999888877655
No 145
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=39.55 E-value=77 Score=25.04 Aligned_cols=49 Identities=16% Similarity=0.378 Sum_probs=32.0
Q ss_pred HHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCC-CHHHH
Q 012710 343 AQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGM-NLQDL 395 (458)
Q Consensus 343 ~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGl-e~eDL 395 (458)
..|....|++.+.+..+++.. ..+ =..+.++|..|.+++...|+ +.+|+
T Consensus 22 ~~~~~~~~~~~evI~~ai~~a---~~~-~~~~~~Yi~~Il~~W~~~gi~T~e~~ 71 (73)
T TIGR01446 22 KYWLDEFGNSPELIKEALKEA---VSN-NKANYKYIDAILNNWKNNGIKTVEDV 71 (73)
T ss_pred HHHHHHhCCCHHHHHHHHHHH---HHc-CCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 356666677766666655532 211 23567999999999998887 45554
No 146
>TIGR02885 spore_sigF RNA polymerase sigma-F factor. Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore.
Probab=38.62 E-value=54 Score=31.32 Aligned_cols=36 Identities=33% Similarity=0.453 Sum_probs=28.6
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 326 EGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 326 E~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
.+....|...+|+.||.++.|+..|++.+.+...+.
T Consensus 100 ~~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~~ 135 (231)
T TIGR02885 100 RYMKEELSKELGREPTINELAEALGVSPEEIVMALE 135 (231)
T ss_pred HHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHH
Confidence 345566777889999999999999999887765543
No 147
>PRK05949 RNA polymerase sigma factor; Validated
Probab=36.97 E-value=84 Score=32.55 Aligned_cols=37 Identities=27% Similarity=0.352 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
.+.+.+.++...+|++||..+.|+..|++.+.+...+
T Consensus 179 ~l~k~~~~l~~~lgr~pt~~eiA~~l~i~~~~v~~~~ 215 (327)
T PRK05949 179 KIKKTQRELSQKLGRSATPAEIAKELELEPSQIREYL 215 (327)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 3455666777788999999999999999988876654
No 148
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=36.95 E-value=69 Score=31.21 Aligned_cols=37 Identities=27% Similarity=0.288 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
+++....+...+|+.|+..++|+..|++.+.+...+.
T Consensus 111 ~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~ 147 (251)
T PRK07670 111 VEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMN 147 (251)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 4455566777889999999999999999888776654
No 149
>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=36.83 E-value=73 Score=30.32 Aligned_cols=37 Identities=38% Similarity=0.473 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
++.+...+|...+|++|+.++.|+..|++.+.+...+
T Consensus 84 ~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~ 120 (224)
T TIGR02479 84 KLERAIRELEARLGREPTEEEIAEELGMDLKEYRQAL 120 (224)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHH
Confidence 4556667788889999999999999999988877665
No 150
>PF14711 Nitr_red_bet_C: Respiratory nitrate reductase beta C-terminal; PDB: 3IR7_B 1Y5N_B 1R27_D 3EGW_B 1Y5I_B 1Q16_B 1Y4Z_B 1Y5L_B 3IR6_B 3IR5_B ....
Probab=36.57 E-value=80 Score=27.03 Aligned_cols=52 Identities=25% Similarity=0.466 Sum_probs=31.0
Q ss_pred HHHHHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCH
Q 012710 293 PLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQ 353 (458)
Q Consensus 293 ~lrYL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~ 353 (458)
|++||-.+ ||+-.|...-..++.++.+....+.. ..|..+ .+++.+.+|++.
T Consensus 31 Pi~YLAnL------ftAGd~~~V~~~L~rL~AmR~ymR~~--~v~~~~-~~~~l~~~glt~ 82 (83)
T PF14711_consen 31 PIEYLANL------FTAGDEEPVRRALKRLLAMRSYMRAK--NVGGEP-DEEVLEAVGLTE 82 (83)
T ss_dssp -HHHHHHH------HSTT-HHHHHHHHHHHHHHHHHHHHH--HTT-S----HHHHHTT--H
T ss_pred cHHHHHHH------HccCChHHHHHHHHHHHHHHHHHHHH--HhCCCC-cHHHHHHcCCCC
Confidence 78899887 88888888877777766555444432 345544 377788888875
No 151
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=35.96 E-value=84 Score=33.29 Aligned_cols=42 Identities=24% Similarity=0.329 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHH
Q 012710 318 GIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRR 359 (458)
Q Consensus 318 ~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~ 359 (458)
.+.-+.+|.+++.+|...+|++|+.++.|+..|++..+++..
T Consensus 184 ~~e~~nkl~r~~r~l~q~~~r~p~~eeia~~l~~~~~~V~~m 225 (342)
T COG0568 184 QVELINKLRRVKRELLQELGREPTPEEIAEELGVSPDKVREM 225 (342)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCHHHHHHH
Confidence 344455677888999999999999999999999987655543
No 152
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=35.29 E-value=2.9e+02 Score=27.82 Aligned_cols=100 Identities=15% Similarity=0.144 Sum_probs=62.2
Q ss_pred HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcH
Q 012710 296 YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNI 375 (458)
Q Consensus 296 YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nL 375 (458)
++-+. .....+..+|=.+|+..|+.+..+ .... .+.= .-.++..+|+.++..-.. .-.-
T Consensus 101 ~mfd~-~~~G~i~f~EF~~Lw~~i~~Wr~v---F~~~----D~D~-------SG~I~~sEL~~Al~~~Gy------~Lsp 159 (221)
T KOG0037|consen 101 SMFDR-DNSGTIGFKEFKALWKYINQWRNV---FRTY----DRDR-------SGTIDSSELRQALTQLGY------RLSP 159 (221)
T ss_pred HHhcC-CCCCccCHHHHHHHHHHHHHHHHH---HHhc----ccCC-------CCcccHHHHHHHHHHcCc------CCCH
Confidence 45454 556779999999999999986543 2211 1110 112567777776654210 0112
Q ss_pred HHHHHHHHhhc---CCCCCHHHHHHHH--HHHHHHHHHhcCCCCCC
Q 012710 376 RLVISIAKNYQ---GAGMNLQDLVQEG--CRGLVRGAEKFDASKGF 416 (458)
Q Consensus 376 rLV~sIAkrY~---~rGle~eDLIQEG--~IGLikAIeKFDpskG~ 416 (458)
-++-.|+++|. +..+.++|.||-. ..+|.++.+++|.....
T Consensus 160 q~~~~lv~kyd~~~~g~i~FD~FI~ccv~L~~lt~~Fr~~D~~q~G 205 (221)
T KOG0037|consen 160 QFYNLLVRKYDRFGGGRIDFDDFIQCCVVLQRLTEAFRRRDTAQQG 205 (221)
T ss_pred HHHHHHHHHhccccCCceeHHHHHHHHHHHHHHHHHHHHhccccce
Confidence 23445556665 3358999999964 46889999999986643
No 153
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=34.83 E-value=67 Score=34.74 Aligned_cols=38 Identities=21% Similarity=0.315 Sum_probs=32.7
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHh
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 361 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~ 361 (458)
++.+.+..|...+|+.|+..+.|+..|++.+.++..+.
T Consensus 263 ~lrk~~r~L~~~lgR~pt~~EiA~~l~is~~~vr~~l~ 300 (415)
T PRK07598 263 KIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLL 300 (415)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 46677888888999999999999999999988877654
No 154
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=32.58 E-value=1.1e+02 Score=29.93 Aligned_cols=36 Identities=25% Similarity=0.214 Sum_probs=29.2
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
+.+...++...+|++|+..+.|...|++.+.+...+
T Consensus 125 ~~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~ 160 (258)
T PRK08215 125 ALQVREKLINENSKEPTVEEIAKELEVPREEVVFAL 160 (258)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 445566777889999999999999999988876544
No 155
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=30.28 E-value=84 Score=30.99 Aligned_cols=37 Identities=24% Similarity=0.355 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
++.+.+..|+..+|++||.++.|+..|++.+.+...+
T Consensus 119 ~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~ 155 (268)
T PRK06288 119 QIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLL 155 (268)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 4556677788889999999999999999987766544
No 156
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=30.28 E-value=1.5e+02 Score=23.88 Aligned_cols=23 Identities=30% Similarity=0.417 Sum_probs=15.6
Q ss_pred hhcCCCCchHHHHHHhcCC-HHHH
Q 012710 334 ERCGGSPTFAQWAAAAGVD-QREL 356 (458)
Q Consensus 334 ~~~Gr~pt~~ewA~aag~d-~eeL 356 (458)
...|.+||..|.++..|+. ...+
T Consensus 20 ~~~G~~Pt~rEIa~~~g~~S~~tv 43 (65)
T PF01726_consen 20 EENGYPPTVREIAEALGLKSTSTV 43 (65)
T ss_dssp HHHSS---HHHHHHHHTSSSHHHH
T ss_pred HHcCCCCCHHHHHHHhCCCChHHH
Confidence 3579999999999999995 4433
No 157
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=30.05 E-value=1.3e+02 Score=30.97 Aligned_cols=37 Identities=22% Similarity=0.368 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
++.+.+.++...+|+.||..+.|+..|++.+.+...+
T Consensus 169 ~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~ 205 (317)
T PRK07405 169 KIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYL 205 (317)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 4556677777889999999999999999987776654
No 158
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=28.86 E-value=1.5e+02 Score=22.37 Aligned_cols=24 Identities=29% Similarity=0.400 Sum_probs=19.7
Q ss_pred CCchHHHHHHhcCCHHHHHHHHhc
Q 012710 339 SPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 339 ~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
+++..++|...|++...|.+.+..
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~ 24 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKK 24 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHH
Confidence 367889999999999888887763
No 159
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family. This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393).
Probab=28.55 E-value=1.5e+02 Score=29.95 Aligned_cols=37 Identities=27% Similarity=0.447 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 324 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 324 ~lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
++.+.+..+...+|+.||..+.|+..|++.+.+...+
T Consensus 162 ~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~~ 198 (298)
T TIGR02997 162 KIKKVQRELSQKLGRTPSEAEIAEALELEPEQVRELL 198 (298)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 3455566777789999999999999999988776543
No 160
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=26.67 E-value=1.4e+02 Score=26.27 Aligned_cols=38 Identities=8% Similarity=0.230 Sum_probs=29.4
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
++++..-+...+..+++.+++|+..|++...|.+.++.
T Consensus 11 i~~~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 34455556667778899999999999999888777664
No 161
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=26.27 E-value=1.4e+02 Score=25.08 Aligned_cols=38 Identities=16% Similarity=0.159 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
++++..-+.+.+..+++.++.|...|++...|.+.++.
T Consensus 7 ~~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~f~~ 44 (107)
T PRK10219 7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRT 44 (107)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 34455556667788899999999999999888777664
No 162
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=25.79 E-value=1.6e+02 Score=27.25 Aligned_cols=37 Identities=14% Similarity=0.238 Sum_probs=29.7
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhcc
Q 012710 327 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYG 363 (458)
Q Consensus 327 ~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G 363 (458)
+++.-|.+.-++..|..+.+++.|++.+.+.+.++.|
T Consensus 34 kV~~yLr~~p~~~ati~eV~e~tgVs~~~I~~~IreG 70 (137)
T TIGR03826 34 KVYKFLRKHENRQATVSEIVEETGVSEKLILKFIREG 70 (137)
T ss_pred HHHHHHHHCCCCCCCHHHHHHHHCcCHHHHHHHHHcC
Confidence 3444455556777899999999999999999988887
No 163
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=25.38 E-value=1.3e+02 Score=30.49 Aligned_cols=24 Identities=17% Similarity=0.156 Sum_probs=21.1
Q ss_pred hcCCCCchHHHHHHhcCCHHHHHH
Q 012710 335 RCGGSPTFAQWAAAAGVDQRELRR 358 (458)
Q Consensus 335 ~~Gr~pt~~ewA~aag~d~eeL~r 358 (458)
.+|+.||.++.|+..|++.+.+..
T Consensus 144 ~l~~~pt~~eiA~~l~~~~~~v~~ 167 (289)
T PRK07500 144 ELTKQEIHREIATALGVSLSDVEM 167 (289)
T ss_pred ccCCCCCHHHHHHHhCcCHHHHHH
Confidence 689999999999999999887653
No 164
>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=25.20 E-value=1.3e+02 Score=28.61 Aligned_cols=34 Identities=38% Similarity=0.509 Sum_probs=26.8
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHH
Q 012710 327 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRL 360 (458)
Q Consensus 327 ~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l 360 (458)
+....+....|+.|+..+.|+..|++.+.+...+
T Consensus 94 ~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~~ 127 (227)
T TIGR02980 94 KATEELTQRLGRSPTIAEIAEELGVSEEEVVEAL 127 (227)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 3445666778999999999999999988776543
No 165
>PRK15186 AraC family transcriptional regulator; Provisional
Probab=24.48 E-value=1.8e+02 Score=29.76 Aligned_cols=33 Identities=9% Similarity=0.132 Sum_probs=27.1
Q ss_pred HHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012710 330 EVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 330 ~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
..+........+.++||+.+||+...|.+.++.
T Consensus 188 ~~I~~~~~~~~sl~~lA~~~gmS~stl~R~Fk~ 220 (291)
T PRK15186 188 NIIISDISRKWALKDISDSLYMSCSTLKRKLKQ 220 (291)
T ss_pred HHHHhCccCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 344556678899999999999999999888765
No 166
>PRK15044 transcriptional regulator SirC; Provisional
Probab=24.48 E-value=2.4e+02 Score=29.38 Aligned_cols=88 Identities=15% Similarity=0.087 Sum_probs=52.9
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 012710 325 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV 404 (458)
Q Consensus 325 lE~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLi 404 (458)
++++..-+.+..+++++.++||+..|++...|.+.++.-.....+.+. ..|+ ..|+ +|++.+.+-+-
T Consensus 194 ~~kV~~~I~~nl~~~~SLeeLA~~lgmS~~tL~R~Fk~eg~T~~~y~~-~~RL--~~A~----------~LL~~t~~sIs 260 (295)
T PRK15044 194 KEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSKIYL-DARM--NQAI----------KLLRMGAGNIS 260 (295)
T ss_pred HHHHHHHHHhCcccCCCHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHH-HHHH--HHHH----------HHHHcCCCCHH
Confidence 456666677778899999999999999999998877642111111221 1121 2222 44455555555
Q ss_pred HHHHhcCCCCCCchhhhHHHH
Q 012710 405 RGAEKFDASKGFKFSTYAHWW 425 (458)
Q Consensus 405 kAIeKFDpskG~rFSTYA~~w 425 (458)
+.+.+...+....|+.....|
T Consensus 261 eIA~~~GFss~S~FsRaFKk~ 281 (295)
T PRK15044 261 QVATMCGYDTPSYFIAIFKRH 281 (295)
T ss_pred HHHHHhCCCChHHHHHHHHHH
Confidence 566666655555565554444
No 167
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=23.68 E-value=1.7e+02 Score=30.05 Aligned_cols=107 Identities=20% Similarity=0.170 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHhhcCC-------CCchHHHHHH-------hcCCH------HHHHHHHhcc------------HHHHHHH
Q 012710 323 LKLEGLREVLSERCGG-------SPTFAQWAAA-------AGVDQ------RELRRRLNYG------------ILCKDKM 370 (458)
Q Consensus 323 ~~lE~lr~~L~~~~Gr-------~pt~~ewA~a-------ag~d~------eeL~r~l~~G------------~~ArekL 370 (458)
....++...|....|. .||.++++.. +|++. ..+.+.+..| +++++.|
T Consensus 121 ~~A~~i~~rl~~~~g~~~~~~~~fptpe~l~~~~~~~l~~~g~s~~Ka~yi~~~A~~~~~g~~~~~~l~~~~~e~a~e~L 200 (285)
T COG0122 121 AAAAKIWARLVSLYGNALEIYHSFPTPEQLAAADEEALRRCGLSGRKAEYIISLARAAAEGELDLSELKPLSDEEAIEEL 200 (285)
T ss_pred HHHHHHHHHHHHHhCCccccccCCCCHHHHHhcCHHHHHHhCCcHHHHHHHHHHHHHHHcCCccHHHhccCCHHHHHHHH
Confidence 3456677778888886 5999888764 23321 1112222222 2233333
Q ss_pred HHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcC--CCC------------CCchhhhHHHHHHHHH
Q 012710 371 ITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD--ASK------------GFKFSTYAHWWIKQAV 430 (458)
Q Consensus 371 I~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFD--psk------------G~rFSTYA~~wIR~aI 430 (458)
+. ..+.=...|.-|.-+|+...|.+-.|=+||-+|+.+|. +.+ --.|.+||.+++-...
T Consensus 201 ~~-i~GIG~WTAe~~llf~lgr~dvfP~~D~~lr~~~~~~~~~~~~~~~~~~~~~~e~w~p~rs~A~~yLw~~~ 273 (285)
T COG0122 201 TA-LKGIGPWTAEMFLLFGLGRPDVFPADDLGLRRAIKKLYRLPTRPTEKEVRELAERWGPYRSYAALYLWRYA 273 (285)
T ss_pred Hc-CCCcCHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHhcCCCCchHHHHHHHHhcccCHHHHHHHHHHHhh
Confidence 32 22222222333334567788889999999999999995 211 2246677777665543
No 168
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=20.02 E-value=7.3 Score=35.73 Aligned_cols=32 Identities=19% Similarity=0.228 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCchhhhHHH
Q 012710 393 QDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 424 (458)
Q Consensus 393 eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~ 424 (458)
.||+...-|--.+-|+-||-+.|.||+||+..
T Consensus 30 ~~Ll~aagi~p~E~V~V~Nv~NG~Rf~TYvI~ 61 (126)
T PRK05449 30 EDLLDAAGILENEKVQIVNVNNGARFETYVIA 61 (126)
T ss_pred HHHHHhcCCCCCCEEEEEECCCCcEEEEEEEE
Confidence 56777777777777888999999999999865
Done!