Query 014241
Match_columns 428
No_of_seqs 279 out of 1988
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 03:13:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014241.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014241hhsearch_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 2.2E-40 4.8E-45 340.0 21.6 172 253-424 58-272 (415)
2 TIGR02997 Sig70-cyanoRpoD RNA 100.0 4.1E-38 8.8E-43 308.4 21.0 169 255-423 1-170 (298)
3 PRK07406 RNA polymerase sigma 100.0 8.1E-38 1.7E-42 317.5 21.5 172 253-424 61-233 (373)
4 PRK05949 RNA polymerase sigma 100.0 7.4E-37 1.6E-41 305.1 22.0 171 253-423 16-187 (327)
5 PRK07405 RNA polymerase sigma 100.0 8.4E-36 1.8E-40 295.8 21.7 171 254-424 7-178 (317)
6 PRK05901 RNA polymerase sigma 100.0 7.3E-35 1.6E-39 305.7 16.6 159 253-424 209-368 (509)
7 COG0568 RpoD DNA-directed RNA 100.0 6.4E-34 1.4E-38 285.8 15.4 172 253-424 7-199 (342)
8 PRK07921 RNA polymerase sigma 100.0 5.3E-32 1.1E-36 270.3 18.7 159 253-424 24-183 (324)
9 PRK05658 RNA polymerase sigma 100.0 1.2E-28 2.6E-33 263.6 14.0 96 328-423 380-476 (619)
10 PRK09210 RNA polymerase sigma 100.0 3.1E-28 6.6E-33 246.2 16.1 134 250-423 91-225 (367)
11 PRK07122 RNA polymerase sigma 99.9 2.4E-26 5.2E-31 222.6 12.5 98 327-424 39-137 (264)
12 TIGR02392 rpoH_proteo alternat 99.9 1.7E-25 3.6E-30 216.5 15.6 116 256-410 2-118 (270)
13 PRK06596 RNA polymerase factor 99.9 3.5E-25 7.6E-30 216.5 16.2 119 253-410 12-131 (284)
14 PRK07500 rpoH2 RNA polymerase 99.9 4.2E-24 9.2E-29 209.6 15.8 119 254-411 5-124 (289)
15 TIGR02393 RpoD_Cterm RNA polym 99.9 8.5E-24 1.8E-28 200.4 11.6 96 329-424 1-97 (238)
16 PRK07408 RNA polymerase sigma 99.9 1.4E-22 2.9E-27 195.1 14.3 99 326-424 23-123 (256)
17 PRK05657 RNA polymerase sigma 99.9 2.7E-22 5.9E-27 200.2 16.1 130 253-422 51-181 (325)
18 COG1191 FliA DNA-directed RNA 99.9 4.2E-22 9E-27 193.3 14.3 97 326-424 22-120 (247)
19 TIGR02394 rpoS_proteo RNA poly 99.8 2.4E-20 5.2E-25 181.7 16.3 134 248-421 6-140 (285)
20 PRK05911 RNA polymerase sigma 99.8 3.7E-20 8.1E-25 178.5 12.6 96 325-423 20-119 (257)
21 TIGR02850 spore_sigG RNA polym 99.8 1.9E-19 4.2E-24 172.5 15.5 119 264-423 10-129 (254)
22 PRK08215 sporulation sigma fac 99.8 2.9E-19 6.2E-24 171.4 15.4 119 264-423 13-132 (258)
23 TIGR02941 Sigma_B RNA polymera 99.8 1.1E-17 2.5E-22 159.8 15.5 118 268-424 8-126 (255)
24 TIGR02980 SigBFG RNA polymeras 99.8 5.2E-18 1.1E-22 158.7 12.3 97 327-423 2-99 (227)
25 PRK06288 RNA polymerase sigma 99.7 1.9E-17 4.2E-22 159.9 14.9 118 264-423 6-127 (268)
26 PRK08583 RNA polymerase sigma 99.7 7.2E-17 1.6E-21 154.4 15.3 117 268-423 8-125 (257)
27 TIGR02885 spore_sigF RNA polym 99.7 5.8E-17 1.3E-21 152.3 13.0 99 324-423 7-106 (231)
28 TIGR02895 spore_sigI RNA polym 99.7 1.4E-16 3.1E-21 152.1 11.6 101 323-423 4-110 (218)
29 PRK05572 sporulation sigma fac 99.7 1.7E-15 3.6E-20 145.0 15.9 122 262-424 6-128 (252)
30 PRK12427 flagellar biosynthesi 99.7 5.4E-16 1.2E-20 147.8 11.6 92 328-423 15-110 (231)
31 PRK07670 RNA polymerase sigma 99.6 6.8E-15 1.5E-19 140.8 14.3 95 326-423 20-118 (251)
32 TIGR02479 FliA_WhiG RNA polyme 99.6 5.4E-15 1.2E-19 138.6 10.7 88 333-423 1-92 (224)
33 PRK05803 sporulation sigma fac 99.5 1.2E-13 2.6E-18 130.7 12.9 106 256-401 17-123 (233)
34 PRK06986 fliA flagellar biosyn 99.5 8.9E-14 1.9E-18 131.6 11.7 95 325-422 5-103 (236)
35 TIGR02846 spore_sigmaK RNA pol 99.1 3.7E-10 8E-15 106.8 12.2 98 264-401 24-122 (227)
36 PRK08301 sporulation sigma fac 99.1 7.7E-10 1.7E-14 104.4 12.7 76 326-401 50-126 (234)
37 PF04542 Sigma70_r2: Sigma-70 99.1 5E-10 1.1E-14 85.6 7.9 69 333-401 1-70 (71)
38 PRK08311 putative RNA polymera 99.0 1.1E-09 2.4E-14 106.0 10.6 90 316-405 5-98 (237)
39 TIGR02835 spore_sigmaE RNA pol 99.0 5.1E-09 1.1E-13 99.5 13.0 76 326-401 50-126 (234)
40 PRK08295 RNA polymerase factor 99.0 3E-09 6.6E-14 97.4 10.3 88 314-401 9-98 (208)
41 TIGR02859 spore_sigH RNA polym 98.9 1.1E-08 2.4E-13 92.9 9.9 85 314-398 4-90 (198)
42 TIGR02937 sigma70-ECF RNA poly 98.8 1.2E-08 2.5E-13 85.8 7.7 71 329-401 2-73 (158)
43 PRK09652 RNA polymerase sigma 98.7 6.7E-08 1.4E-12 85.5 8.8 77 324-402 6-83 (182)
44 PRK05602 RNA polymerase sigma 98.6 1.8E-07 3.9E-12 84.9 9.1 87 314-401 5-93 (186)
45 PRK12513 RNA polymerase sigma 98.5 4.1E-07 8.9E-12 83.0 9.4 87 315-403 12-100 (194)
46 PRK06759 RNA polymerase factor 98.5 7.4E-07 1.6E-11 77.9 10.3 72 327-400 3-75 (154)
47 PRK09641 RNA polymerase sigma 98.5 4.1E-07 8.9E-12 81.7 8.6 83 317-401 6-90 (187)
48 PRK09640 RNA polymerase sigma 98.5 8.9E-07 1.9E-11 80.8 10.4 87 313-401 7-98 (188)
49 TIGR02948 SigW_bacill RNA poly 98.5 5.2E-07 1.1E-11 81.1 8.6 81 319-401 8-90 (187)
50 PRK09648 RNA polymerase sigma 98.5 1.6E-06 3.4E-11 78.9 11.6 83 319-402 14-102 (189)
51 PRK11922 RNA polymerase sigma 98.5 1.1E-06 2.5E-11 83.2 10.7 77 326-404 28-105 (231)
52 PRK06811 RNA polymerase factor 98.4 1.1E-06 2.3E-11 80.5 9.8 88 314-402 3-95 (189)
53 PRK09646 RNA polymerase sigma 98.4 1.3E-06 2.8E-11 80.2 9.1 83 317-400 18-102 (194)
54 PRK13919 putative RNA polymera 98.4 1.3E-06 2.8E-11 79.0 8.8 86 315-401 9-96 (186)
55 PRK09638 RNA polymerase sigma 98.3 2.5E-06 5.4E-11 76.3 9.2 84 316-401 5-90 (176)
56 TIGR02952 Sig70_famx2 RNA poly 98.3 5.1E-06 1.1E-10 73.4 10.0 77 325-402 8-85 (170)
57 PRK12519 RNA polymerase sigma 98.3 2.6E-06 5.7E-11 77.6 8.3 84 316-401 16-101 (194)
58 PRK11924 RNA polymerase sigma 98.3 4.9E-06 1.1E-10 73.4 9.3 77 324-402 9-86 (179)
59 PRK11923 algU RNA polymerase s 98.2 7E-06 1.5E-10 74.8 9.2 84 316-401 7-92 (193)
60 TIGR02939 RpoE_Sigma70 RNA pol 98.2 9.3E-06 2E-10 73.2 9.4 84 316-401 7-92 (190)
61 PRK12524 RNA polymerase sigma 98.2 7.6E-06 1.6E-10 75.3 8.7 85 315-400 12-98 (196)
62 PRK12514 RNA polymerase sigma 98.2 9.3E-06 2E-10 73.1 8.7 85 316-401 6-92 (179)
63 TIGR02954 Sig70_famx3 RNA poly 98.2 1.2E-05 2.7E-10 71.7 9.4 86 315-402 2-89 (169)
64 PRK12526 RNA polymerase sigma 98.1 1.3E-05 2.9E-10 74.6 9.3 76 325-401 35-111 (206)
65 TIGR02984 Sig-70_plancto1 RNA 98.1 1.8E-05 3.8E-10 71.2 9.0 75 325-399 4-83 (189)
66 TIGR02985 Sig70_bacteroi1 RNA 98.1 1.1E-05 2.3E-10 69.9 7.0 71 329-401 2-73 (161)
67 TIGR02989 Sig-70_gvs1 RNA poly 98.0 2E-05 4.3E-10 69.1 8.0 72 329-402 2-74 (159)
68 PRK12531 RNA polymerase sigma 98.0 1.8E-05 3.9E-10 72.7 8.1 81 319-400 17-99 (194)
69 PRK09643 RNA polymerase sigma 98.0 9.6E-05 2.1E-09 68.1 12.4 85 315-401 13-99 (192)
70 PRK12538 RNA polymerase sigma 98.0 3E-05 6.6E-10 74.4 8.9 85 315-400 49-135 (233)
71 PRK12536 RNA polymerase sigma 98.0 3.8E-05 8.3E-10 69.7 9.0 79 321-401 14-94 (181)
72 PF00140 Sigma70_r1_2: Sigma-7 98.0 2.2E-06 4.8E-11 61.1 0.5 34 254-287 1-34 (37)
73 PRK12515 RNA polymerase sigma 97.9 4.2E-05 9.1E-10 69.7 9.0 85 314-400 7-93 (189)
74 PRK12537 RNA polymerase sigma 97.9 4.1E-05 8.8E-10 69.6 8.6 87 315-402 9-97 (182)
75 PRK12534 RNA polymerase sigma 97.9 3E-05 6.4E-10 70.3 7.6 77 323-400 20-97 (187)
76 PRK12512 RNA polymerase sigma 97.9 9.1E-05 2E-09 67.0 10.1 76 325-402 19-99 (184)
77 PRK12522 RNA polymerase sigma 97.8 6.6E-05 1.4E-09 67.4 8.2 71 329-401 4-75 (173)
78 PRK12539 RNA polymerase sigma 97.8 0.00014 3.1E-09 66.1 9.6 82 318-401 10-97 (184)
79 PRK12543 RNA polymerase sigma 97.8 0.00026 5.7E-09 64.1 11.0 74 325-400 4-78 (179)
80 PRK12518 RNA polymerase sigma 97.7 0.00024 5.2E-09 63.5 8.9 74 324-400 7-81 (175)
81 PRK09415 RNA polymerase factor 97.6 0.00022 4.7E-09 64.8 8.5 74 325-400 13-87 (179)
82 PRK12542 RNA polymerase sigma 97.6 0.00014 2.9E-09 66.2 6.8 78 324-401 5-83 (185)
83 TIGR02999 Sig-70_X6 RNA polyme 97.5 0.00054 1.2E-08 61.6 9.3 80 318-399 6-93 (183)
84 TIGR02983 SigE-fam_strep RNA p 97.5 0.00047 1E-08 60.9 8.3 74 325-400 3-77 (162)
85 COG1595 RpoE DNA-directed RNA 97.4 0.00094 2E-08 60.8 9.7 81 321-403 8-89 (182)
86 PRK09639 RNA polymerase sigma 97.3 0.0007 1.5E-08 59.9 7.5 71 327-401 2-73 (166)
87 PRK09644 RNA polymerase sigma 97.2 0.0028 6.1E-08 56.5 10.2 69 330-401 3-72 (165)
88 PRK08241 RNA polymerase factor 97.2 0.0015 3.2E-08 65.1 8.9 81 318-400 8-90 (339)
89 PRK12541 RNA polymerase sigma 97.2 0.0015 3.3E-08 57.9 8.0 73 326-401 3-76 (161)
90 TIGR03001 Sig-70_gmx1 RNA poly 97.2 0.0021 4.7E-08 62.4 9.6 86 314-401 24-118 (244)
91 PRK09647 RNA polymerase sigma 97.1 0.0019 4.2E-08 60.6 8.5 72 326-400 26-98 (203)
92 PRK12547 RNA polymerase sigma 97.1 0.0023 5.1E-08 57.2 8.2 73 327-401 5-78 (164)
93 PRK09649 RNA polymerase sigma 97.0 0.0025 5.4E-08 58.4 7.9 79 319-400 14-94 (185)
94 TIGR02947 SigH_actino RNA poly 97.0 0.0021 4.5E-08 58.9 7.3 73 327-401 10-83 (193)
95 PRK09645 RNA polymerase sigma 97.0 0.003 6.5E-08 56.5 8.1 75 325-400 6-81 (173)
96 TIGR02943 Sig70_famx1 RNA poly 97.0 0.0025 5.3E-08 58.7 7.4 70 331-402 5-75 (188)
97 TIGR02950 SigM_subfam RNA poly 97.0 0.0017 3.7E-08 56.6 6.0 63 335-400 2-65 (154)
98 PRK12528 RNA polymerase sigma 97.0 0.0029 6.3E-08 56.0 7.6 70 328-400 4-74 (161)
99 TIGR02959 SigZ RNA polymerase 96.9 0.0052 1.1E-07 55.5 9.1 70 335-406 2-72 (170)
100 PRK12520 RNA polymerase sigma 96.9 0.0034 7.5E-08 57.3 7.7 72 329-402 3-75 (191)
101 PRK09637 RNA polymerase sigma 96.9 0.0053 1.1E-07 56.3 8.8 74 330-405 3-77 (181)
102 PRK12532 RNA polymerase sigma 96.8 0.0031 6.7E-08 57.8 6.9 69 331-401 8-78 (195)
103 TIGR02960 SigX5 RNA polymerase 96.8 0.0046 1E-07 60.9 8.6 73 326-400 3-76 (324)
104 PRK12535 RNA polymerase sigma 96.8 0.0077 1.7E-07 56.1 9.5 73 325-400 22-95 (196)
105 PRK12516 RNA polymerase sigma 96.8 0.0065 1.4E-07 56.0 8.4 74 326-401 8-82 (187)
106 PRK12533 RNA polymerase sigma 96.7 0.0082 1.8E-07 57.2 8.9 73 325-400 15-88 (216)
107 PRK12544 RNA polymerase sigma 96.7 0.0097 2.1E-07 56.0 9.0 69 331-401 21-90 (206)
108 PRK12546 RNA polymerase sigma 96.5 0.011 2.4E-07 54.7 8.3 71 328-401 8-79 (188)
109 PRK05658 RNA polymerase sigma 96.5 0.0062 1.3E-07 66.6 7.1 34 253-286 102-135 (619)
110 PRK09642 RNA polymerase sigma 96.4 0.0047 1E-07 54.6 4.8 64 335-401 2-66 (160)
111 PRK12529 RNA polymerase sigma 96.4 0.021 4.5E-07 51.9 9.2 77 324-400 9-88 (178)
112 PRK12523 RNA polymerase sigma 96.4 0.0088 1.9E-07 53.7 6.6 72 326-400 8-80 (172)
113 PRK12540 RNA polymerase sigma 96.3 0.018 3.9E-07 52.9 8.1 72 328-401 5-77 (182)
114 PRK12517 RNA polymerase sigma 96.2 0.021 4.6E-07 52.6 8.3 75 323-399 18-93 (188)
115 PRK12545 RNA polymerase sigma 96.1 0.02 4.2E-07 53.3 7.5 69 332-402 12-81 (201)
116 PRK07037 extracytoplasmic-func 96.0 0.016 3.4E-07 51.2 6.2 66 332-400 2-68 (163)
117 PF04539 Sigma70_r3: Sigma-70 95.9 0.017 3.7E-07 45.9 5.1 39 286-324 4-42 (78)
118 PRK09651 RNA polymerase sigma 95.6 0.046 1E-06 49.3 7.5 72 326-400 8-80 (172)
119 PRK12530 RNA polymerase sigma 95.5 0.044 9.5E-07 50.4 7.2 69 331-401 10-79 (189)
120 PRK12511 RNA polymerase sigma 95.3 0.057 1.2E-06 49.7 7.2 70 330-401 6-76 (182)
121 PRK09636 RNA polymerase sigma 94.4 0.086 1.9E-06 51.9 6.1 68 329-400 5-73 (293)
122 PRK12525 RNA polymerase sigma 94.3 0.17 3.7E-06 45.4 7.4 70 327-399 8-78 (168)
123 PRK12527 RNA polymerase sigma 94.2 0.096 2.1E-06 46.3 5.5 63 335-400 2-65 (159)
124 PF12645 HTH_16: Helix-turn-he 94.1 0.22 4.7E-06 39.8 6.8 55 319-373 4-65 (65)
125 PRK06704 RNA polymerase factor 93.9 0.43 9.3E-06 46.4 9.9 78 318-401 8-86 (228)
126 TIGR02957 SigX4 RNA polymerase 93.4 0.15 3.3E-06 50.1 5.9 65 332-400 1-66 (281)
127 PF07638 Sigma70_ECF: ECF sigm 92.9 0.41 8.9E-06 44.3 7.5 88 317-404 5-99 (185)
128 PRK09191 two-component respons 92.6 0.35 7.6E-06 45.2 6.7 62 329-392 2-64 (261)
129 TIGR03209 P21_Cbot clostridium 90.9 0.87 1.9E-05 39.5 6.9 66 331-401 2-71 (142)
130 PRK09635 sigI RNA polymerase s 90.0 0.62 1.3E-05 46.5 5.9 68 328-399 5-73 (290)
131 PHA02547 55 RNA polymerase sig 86.6 2.2 4.7E-05 40.7 6.8 67 333-399 42-112 (179)
132 PRK09047 RNA polymerase factor 83.7 2.5 5.5E-05 37.0 5.5 45 353-400 5-50 (161)
133 COG0568 RpoD DNA-directed RNA 81.0 5.5 0.00012 41.5 7.6 33 253-285 65-97 (342)
134 COG1191 FliA DNA-directed RNA 75.4 5.3 0.00012 39.7 5.4 63 256-326 88-150 (247)
135 PRK07408 RNA polymerase sigma 70.1 11 0.00023 36.8 6.0 36 287-322 114-149 (256)
136 PRK07122 RNA polymerase sigma 67.8 13 0.00028 36.6 6.1 36 288-323 129-164 (264)
137 TIGR02850 spore_sigG RNA polym 67.7 13 0.00028 36.0 6.1 36 289-324 123-158 (254)
138 TIGR02393 RpoD_Cterm RNA polym 67.7 14 0.0003 35.4 6.1 36 287-322 88-123 (238)
139 PRK12427 flagellar biosynthesi 66.0 10 0.00023 36.5 5.0 36 288-323 103-138 (231)
140 PRK07921 RNA polymerase sigma 65.8 14 0.00031 37.8 6.1 36 287-322 174-209 (324)
141 PRK05911 RNA polymerase sigma 64.0 17 0.00037 35.5 6.1 36 288-323 112-147 (257)
142 PRK09210 RNA polymerase sigma 58.9 22 0.00048 36.8 6.1 37 287-323 217-253 (367)
143 PRK07406 RNA polymerase sigma 56.2 26 0.00056 36.8 6.1 36 287-322 224-259 (373)
144 PRK05901 RNA polymerase sigma 55.4 26 0.00056 38.4 6.2 37 287-323 359-395 (509)
145 TIGR02885 spore_sigF RNA polym 55.0 21 0.00046 33.7 4.9 34 290-323 101-134 (231)
146 PRK05949 RNA polymerase sigma 51.0 38 0.00083 34.7 6.3 37 287-323 179-215 (327)
147 PRK07598 RNA polymerase sigma 50.7 24 0.00053 37.7 5.0 38 287-324 263-300 (415)
148 PRK07670 RNA polymerase sigma 50.7 32 0.00069 33.2 5.4 37 288-324 111-147 (251)
149 KOG0037 Ca2+-binding protein, 50.7 1.2E+02 0.0026 30.2 9.2 98 260-377 101-204 (221)
150 TIGR02479 FliA_WhiG RNA polyme 49.4 30 0.00064 32.7 4.9 37 287-323 84-120 (224)
151 PRK07500 rpoH2 RNA polymerase 46.6 70 0.0015 32.0 7.2 63 256-321 104-167 (289)
152 PF01726 LexA_DNA_bind: LexA D 46.6 58 0.0012 25.9 5.4 20 296-315 19-38 (65)
153 PRK06288 RNA polymerase sigma 45.6 36 0.00077 33.3 4.9 37 287-323 119-155 (268)
154 PRK15044 transcriptional regul 45.5 75 0.0016 32.7 7.3 60 257-325 172-231 (295)
155 smart00342 HTH_ARAC helix_turn 45.1 48 0.001 25.0 4.7 57 302-362 1-62 (84)
156 PRK07405 RNA polymerase sigma 45.0 54 0.0012 33.3 6.2 37 287-323 169-205 (317)
157 PRK08215 sporulation sigma fac 44.7 56 0.0012 31.7 6.1 35 289-323 126-160 (258)
158 TIGR01446 DnaD_dom DnaD and ph 42.2 53 0.0011 25.7 4.6 49 306-358 22-71 (73)
159 TIGR02980 SigBFG RNA polymeras 41.6 48 0.001 31.2 5.0 33 290-322 94-126 (227)
160 TIGR02997 Sig70-cyanoRpoD RNA 41.6 68 0.0015 32.0 6.3 36 287-322 162-197 (298)
161 KOG1161 Protein involved in va 36.7 3.2E+02 0.0069 28.6 10.2 35 356-390 113-148 (310)
162 TIGR03826 YvyF flagellar opero 35.9 92 0.002 28.6 5.7 46 273-327 26-71 (137)
163 PRK11511 DNA-binding transcrip 32.2 95 0.0021 27.1 5.0 37 289-325 12-48 (127)
164 PRK05572 sporulation sigma fac 31.0 1.1E+02 0.0023 29.7 5.6 34 288-321 120-153 (252)
165 PRK06986 fliA flagellar biosyn 30.0 93 0.002 29.6 5.0 35 289-323 98-132 (236)
166 PRK10219 DNA-binding transcrip 29.4 1.1E+02 0.0023 25.5 4.7 37 289-325 8-44 (107)
167 PRK14082 hypothetical protein; 29.3 1.7E+02 0.0036 24.1 5.4 54 328-383 9-63 (65)
168 COG0122 AlkA 3-methyladenine D 29.1 2.6E+02 0.0057 28.3 8.2 142 250-392 72-273 (285)
169 TIGR02941 Sigma_B RNA polymera 28.9 93 0.002 30.0 4.8 35 288-322 118-152 (255)
170 TIGR03764 ICE_PFGI_1_parB inte 28.4 3E+02 0.0066 27.9 8.4 93 265-373 108-222 (258)
171 COG1476 Predicted transcriptio 28.1 1.9E+02 0.004 23.8 5.6 55 295-361 9-64 (68)
172 PF00427 PBS_linker_poly: Phyc 27.2 2.6E+02 0.0057 25.6 7.0 56 314-369 45-111 (131)
173 TIGR03761 ICE_PFL4669 integrat 26.7 1.4E+02 0.003 29.5 5.5 36 338-373 158-193 (216)
174 PF12324 HTH_15: Helix-turn-he 26.3 68 0.0015 27.0 2.9 25 300-324 36-60 (77)
175 PRK13239 alkylmercury lyase; P 25.3 99 0.0021 30.3 4.2 27 299-325 33-59 (206)
176 KOG0030 Myosin essential light 23.3 3.8E+02 0.0083 25.3 7.4 71 298-385 39-109 (152)
177 PRK06596 RNA polymerase factor 22.6 2.7E+02 0.0058 27.8 6.8 24 299-322 148-171 (284)
178 PF15545 Toxin_67: Putative to 22.4 80 0.0017 26.1 2.5 36 380-415 7-42 (70)
179 PRK09480 slmA division inhibit 21.9 5.6E+02 0.012 22.7 10.4 44 296-339 24-67 (194)
180 PF04218 CENP-B_N: CENP-B N-te 21.8 82 0.0018 23.9 2.4 44 267-327 4-47 (53)
181 TIGR02844 spore_III_D sporulat 20.6 3.8E+02 0.0083 22.4 6.3 37 287-326 7-43 (80)
182 PF13232 Complex1_LYR_1: Compl 20.4 3.1E+02 0.0067 20.8 5.4 52 363-422 8-59 (61)
183 PHA00657 crystallin beta/gamma 20.1 2.8E+02 0.0061 34.4 7.1 67 333-411 1257-1329(2052)
No 1
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=100.00 E-value=2.2e-40 Score=340.03 Aligned_cols=172 Identities=42% Similarity=0.683 Sum_probs=162.1
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHH--------------------HHHHHHHHHhhhCCCCcHHHHHHHh
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIR--------------------LEKEKSKLQSQFGREPTLIEWAKAI 312 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~--------------------Le~~~~~L~~~lGr~Pt~~ewA~a~ 312 (428)
.+|+++.||++|++.||||++||++|+++||+++. |++++.+|++++|++||..|||.++
T Consensus 58 ~~d~v~~yl~~igr~~lL~~~eEv~l~~~vq~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~g~~pt~~ewa~~~ 137 (415)
T PRK07598 58 STDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSLERWAKTA 137 (415)
T ss_pred CCChHHHHHHhcccccCCCHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhHHHHHHHHHHHHHHhCCCCCHHHHHHHh
Confidence 57999999999999999999999999999999999 9999999999999999999999555
Q ss_pred c----------------------CCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHH
Q 014241 313 G----------------------LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSV 369 (428)
Q Consensus 313 g----------------------~s~~eL~~~l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAV 369 (428)
| |++++|.+.++.|..|+++||.+|+++|+++|++|.++|++++|||| |++||++|+
T Consensus 138 ~~~~~~l~~~l~~~~~~~~~~~~l~~~eL~~~l~~G~~A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~rav 217 (415)
T PRK07598 138 DISLADLKPTLAEGKRRWAEIAKLTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAV 217 (415)
T ss_pred CCcHHHHHHhhhhhhhhhhhhccCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 5 55666666678899999999999999999999999999999999999 999999999
Q ss_pred HhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHHHHhh
Q 014241 370 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 370 ekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~~~Ls 424 (428)
++|||++|++|+|||+||||++|.+++++++++||+|.|+.+.+++++++...|.
T Consensus 218 ekFDp~rG~rFSTYa~wwIRqaI~r~i~~~srtIrlP~~i~e~l~~lrk~~r~L~ 272 (415)
T PRK07598 218 EKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKIS 272 (415)
T ss_pred HHcCcccCCCHHHHHHHHHHHHHHHHHHHcCCceehhHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999887654
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=4.1e-38 Score=308.36 Aligned_cols=169 Identities=47% Similarity=0.763 Sum_probs=163.7
Q ss_pred cHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHH
Q 014241 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334 (428)
Q Consensus 255 d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI 334 (428)
|++..||++++++|+||++||.+|++++++++.+++.+..|+.++|++|+..+||+++|++..+|...+..|..|+++||
T Consensus 1 ~~~~~yl~~~~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~Lv 80 (298)
T TIGR02997 1 DLVRLYLQEIGRVPLLTPEEEIELARQVQQMMVLEELREELEEQLGREPSKEEWAAAAGLSEAELRQRLRQGQRAKEKMI 80 (298)
T ss_pred CcHHHHHHHccccCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHhhcCCCcHHHHHHhccCCHHHHHHHHhccHHHHHHHH
Confidence 46788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhh
Q 014241 335 NANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLS 413 (428)
Q Consensus 335 ~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l 413 (428)
..|+++|+++|++|.++|++++|||| |++|||+|+++|||++|++|+|||+||||++|.++|.+++++||+|.++...+
T Consensus 81 ~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I~r~i~~~~r~vr~p~~~~~~~ 160 (298)
T TIGR02997 81 KANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGITRAIANQSRTIRLPIHITEKL 160 (298)
T ss_pred HHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHHHHHHHhcCCCeeCcHHHHHHH
Confidence 99999999999999999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHh
Q 014241 414 PIYIFKFYVF 423 (428)
Q Consensus 414 ~ri~r~~~~L 423 (428)
+++++....|
T Consensus 161 ~~~rk~~~~l 170 (298)
T TIGR02997 161 NKIKKVQREL 170 (298)
T ss_pred HHHHHHHHHH
Confidence 9998876543
No 3
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=100.00 E-value=8.1e-38 Score=317.52 Aligned_cols=172 Identities=41% Similarity=0.736 Sum_probs=167.2
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~ 332 (428)
..|++..||++|+++|+||++||++|+++|++++.+++++.+|+.++|++|+..+||.++|++..+|++.+..|..|+++
T Consensus 61 ~~d~l~~Yl~~i~~~~lLt~eEE~~La~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~ 140 (373)
T PRK07406 61 TEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLELEELREQFESELGREPSDKEWAELVDMPLPKFRRRLMLGRRAKEK 140 (373)
T ss_pred CCCHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHhhhccccHHHHHHHHhcCHHHHHH
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHH
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 411 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e 411 (428)
||..|+|+|+++|++|.++|++++||+| |+|||++|+++|||++|++|+|||+||||++|.++|++++++||+|.++.+
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 9999999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhh
Q 014241 412 LSPIYIFKFYVFS 424 (428)
Q Consensus 412 ~l~ri~r~~~~Ls 424 (428)
.++++.++...|.
T Consensus 221 ~~~~i~~a~~~l~ 233 (373)
T PRK07406 221 TISRIKKTTKVLS 233 (373)
T ss_pred HHHHHHHHHHHHH
Confidence 9999998887663
No 4
>PRK05949 RNA polymerase sigma factor; Validated
Probab=100.00 E-value=7.4e-37 Score=305.08 Aligned_cols=171 Identities=42% Similarity=0.696 Sum_probs=166.8
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~ 332 (428)
..|++..||++|+++|+||++||.+|+++|+.++.+++.+..|+.++|++|+..+||.++|+++.+|...++.|..|+++
T Consensus 16 ~~d~~~~yl~~i~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~eL~~~~~~g~~A~~~ 95 (327)
T PRK05949 16 SADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMSLLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGKRAKQK 95 (327)
T ss_pred CCCHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHhccCCHHHHHHHHHccHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHH
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 411 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e 411 (428)
||..|+++|+++|++|.+.|.+.+|||| |++||++|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+
T Consensus 96 Li~~~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I~r~i~~~~r~iRlP~~~~~ 175 (327)
T PRK05949 96 MIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITE 175 (327)
T ss_pred HHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHHHHHHHHcCCceeCCHHHHH
Confidence 9999999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHh
Q 014241 412 LSPIYIFKFYVF 423 (428)
Q Consensus 412 ~l~ri~r~~~~L 423 (428)
.++++.++...|
T Consensus 176 ~~~~l~k~~~~l 187 (327)
T PRK05949 176 KLNKIKKTQREL 187 (327)
T ss_pred HHHHHHHHHHHH
Confidence 999998888765
No 5
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=100.00 E-value=8.4e-36 Score=295.82 Aligned_cols=171 Identities=43% Similarity=0.691 Sum_probs=166.4
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHH
Q 014241 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333 (428)
Q Consensus 254 ~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~L 333 (428)
.|++..||++++++|+||++||.+|+++|++++.+++++..|++++|++|+..+||.++|+++.+|...+..|..|+++|
T Consensus 7 ~~~~~~yl~~i~~~~lLt~eeE~~La~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~g~~A~~~L 86 (317)
T PRK07405 7 TDLVRTYLREIGRVPLLTHEEEILYGKQVQRLVALQEIREELAEELGREPTDAEWAKAAKLSEEELRSAIAEGEAAKRKM 86 (317)
T ss_pred CcHHHHHHHHccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHhhhccCCHHHHHHHHhccHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHh
Q 014241 334 INANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNL 412 (428)
Q Consensus 334 I~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~ 412 (428)
+..|+++|+++|++|.+.|.+.+||+| |++||++|+++|||++|++|+|||+||||++|.++|++++++||+|.++.+.
T Consensus 87 ~~~~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~~~i~~~~~~ir~p~~~~~~ 166 (317)
T PRK07405 87 VEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK 166 (317)
T ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHHHHHHhcCCCccCChHHHHH
Confidence 999999999999999999999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhh
Q 014241 413 SPIYIFKFYVFS 424 (428)
Q Consensus 413 l~ri~r~~~~Ls 424 (428)
++++.++...|.
T Consensus 167 ~~~l~~~~~~l~ 178 (317)
T PRK07405 167 LNKIKKAQRQLS 178 (317)
T ss_pred HHHHHHHHHHHH
Confidence 999988876653
No 6
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=100.00 E-value=7.3e-35 Score=305.70 Aligned_cols=159 Identities=37% Similarity=0.552 Sum_probs=140.6
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~ 332 (428)
..|+++.||++|+++|+||++||++|+++|+.+..++.. +. ...+|+. ....+|+..+..|..|+++
T Consensus 209 ~~d~l~~YL~~i~~~~lLt~eEE~~La~~i~~g~~~~~~---~~-------~~~~~~~---~~~~~l~~~~~~g~~Ar~~ 275 (509)
T PRK05901 209 TADPVKAYLKQIGKVKLLNAEEEVELAKRIEAGLYAEEL---LA-------EGEKLDP---ELRRDLQWIGRDGKRAKNH 275 (509)
T ss_pred cccHHHHHHHHhccCCCCCHHHHHHHHHHHHhCCchhhh---hh-------hcccchh---hhhhhhhhhccchHHHHHH
Confidence 468999999999999999999999999999986443331 11 1122432 2467889999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHH
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 411 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e 411 (428)
||.+|+|||++||++|.++|++++|||| ||||||+||++|||++|++|+|||+|||||+|.++|+++.++||||+|+.+
T Consensus 276 LI~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~~r~IRvP~~~~e 355 (509)
T PRK05901 276 LLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVE 355 (509)
T ss_pred HHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHcCCceecCHHHHH
Confidence 9999999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhh
Q 014241 412 LSPIYIFKFYVFS 424 (428)
Q Consensus 412 ~l~ri~r~~~~Ls 424 (428)
.++++.+....|.
T Consensus 356 ~i~kl~~~~~~L~ 368 (509)
T PRK05901 356 TINKLGRIERELL 368 (509)
T ss_pred HHHHHHHHHHHHH
Confidence 9999988876653
No 7
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=100.00 E-value=6.4e-34 Score=285.84 Aligned_cols=172 Identities=38% Similarity=0.616 Sum_probs=153.3
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh-hhCCCCcHH---------------HHHHHhcCCH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS-QFGREPTLI---------------EWAKAIGLSC 316 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~-~lGr~Pt~~---------------ewA~a~g~s~ 316 (428)
..|.+..|+.+++..++++.++|.++...+++...+......+.. .+|..|+.. +|+.....+.
T Consensus 7 ~~d~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~E 86 (342)
T COG0568 7 SADAVRAYLDEIGRIPLLVREAEVELAKQLEDEQLLVELGEDLTDLKLGREPSERARRPAGRLSFYIRAIEAAPLLTPEE 86 (342)
T ss_pred chhHHHHHHHHhcchhhhhHHHHHHHHHHHhHhhhhhHHHHHHHhcccccccchhhhhhhhhHHHHHHHHhhhcccChHH
Confidence 357899999999999999999999999999988877777777777 677888876 5554444433
Q ss_pred -HHHHHHhhccH---HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 317 -RDLKSELHSGN---SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 317 -~eL~~~l~~G~---~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
.+|...+..|. .|+.+||++||+||++||++|.|+|++|.|||| ||||||+||+||||++||+|+|||+||||++
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 66888888885 499999999999999999999999999999999 9999999999999999999999999999999
Q ss_pred HHHHHHhcCCCcccchhHHHhhHHHHHHHHHhh
Q 014241 392 IRKAIFQHSRTIRLPVMTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 392 I~raIr~qsr~IRlP~~~~e~l~ri~r~~~~Ls 424 (428)
|.++|.++.++||+|.|+.+.++++.+....|.
T Consensus 167 I~raI~~q~rtIRipvh~~e~~nkl~r~~r~l~ 199 (342)
T COG0568 167 ITRAIADQARTIRIPVHQVELINKLRRVKRELL 199 (342)
T ss_pred HHHHHHHhcchhhHhHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999998766554
No 8
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=100.00 E-value=5.3e-32 Score=270.27 Aligned_cols=159 Identities=37% Similarity=0.593 Sum_probs=141.5
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~ 332 (428)
..|++..||++++++|+||++||.+|+++|+.+..++.. |+..+|+... ...+|...++.|..++++
T Consensus 24 ~~~~~~~Yl~~i~~~~lLt~eeE~~La~~~~~g~~~~~~-----------~~~~~~~~~~--~~~~l~~~~~~~~~A~~~ 90 (324)
T PRK07921 24 AADLVRVYLNGIGKTALLTAADEVELAKRIEAGLYAEHL-----------LETRKRLSEA--RKRDLAAVVRDGEAARRH 90 (324)
T ss_pred CCChHHHHHHHhcccCCCCHHHHHHHHHHHHhhhhhhhh-----------hccccccchh--HHHHHHHHHhcCHHHHHH
Confidence 357899999999999999999999999999987666543 1222332111 456799999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHH
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 411 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e 411 (428)
||..|+++|+++|++|.+.|++.+||+| |+|||++|+++|||++|++|+|||.||||++|.++|++++++||+|.++.+
T Consensus 91 Lv~~~~~lV~~iA~r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~~~r~vrlP~~~~~ 170 (324)
T PRK07921 91 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVE 170 (324)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHcCCCccCCHHHHH
Confidence 9999999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhh
Q 014241 412 LSPIYIFKFYVFS 424 (428)
Q Consensus 412 ~l~ri~r~~~~Ls 424 (428)
.++++.++...|.
T Consensus 171 ~~~~l~~~~~~l~ 183 (324)
T PRK07921 171 QVNKLARIKRELH 183 (324)
T ss_pred HHHHHHHHHHHHH
Confidence 9999988877664
No 9
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=99.96 E-value=1.2e-28 Score=263.63 Aligned_cols=96 Identities=40% Similarity=0.761 Sum_probs=93.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccc
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 406 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP 406 (428)
.|+++||.+|+|||++||++|.++|++++|||| ||||||+||++|||++|++|+|||+|||||+|.++|+++.++||+|
T Consensus 380 ~a~~~Li~~nlrlV~~iA~ky~~~gl~~~DLiQeG~iGL~~Av~kfd~~~G~~FstYA~~wIr~aI~~~i~~~~r~irip 459 (619)
T PRK05658 380 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 459 (619)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhcCccCCCchHHHhHHHHHHHHHHHHHHcCCceecC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhHHHHHHHHHh
Q 014241 407 VMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 407 ~~~~e~l~ri~r~~~~L 423 (428)
+|+.+.++++.+....|
T Consensus 460 ~~~~~~~~k~~~~~~~~ 476 (619)
T PRK05658 460 VHMIETINKLNRISRQM 476 (619)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999998887655
No 10
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=99.96 E-value=3.1e-28 Score=246.19 Aligned_cols=134 Identities=46% Similarity=0.766 Sum_probs=124.9
Q ss_pred CCCCCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHH
Q 014241 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329 (428)
Q Consensus 250 ~~~~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~A 329 (428)
+....|+++.||++|+++|+||++||.+|+.+++. | +..|
T Consensus 91 ~~~~~d~~~~yl~~i~~~~~l~~~ee~~L~~~~~~---------------G-------------------------d~~A 130 (367)
T PRK09210 91 GVKINDPVRMYLKEIGRVPLLTAEEEIELAKRIEE---------------G-------------------------DEEA 130 (367)
T ss_pred ccccCcHHHHHHHHhhccCCCCHHHHHHHHHHHHh---------------h-------------------------HHHH
Confidence 33457899999999999999999999999988775 3 2578
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchh
Q 014241 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVM 408 (428)
Q Consensus 330 re~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~ 408 (428)
+++||..|+++|+++|++|.++|++++||+| |+|||++|+++|||++|++|+|||+||||++|.++|+++.++||+|.|
T Consensus 131 ~~~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~irip~~ 210 (367)
T PRK09210 131 KQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 210 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCceeccHH
Confidence 9999999999999999999999999999999 999999999999999999999999999999999999999999999999
Q ss_pred HHHhhHHHHHHHHHh
Q 014241 409 TFNLSPIYIFKFYVF 423 (428)
Q Consensus 409 ~~e~l~ri~r~~~~L 423 (428)
+.+.++++.++...|
T Consensus 211 ~~~~~~~~~~~~~~l 225 (367)
T PRK09210 211 MVETINKLIRVQRQL 225 (367)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999998887665
No 11
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=99.94 E-value=2.4e-26 Score=222.63 Aligned_cols=98 Identities=24% Similarity=0.413 Sum_probs=93.9
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCccc
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 405 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRl 405 (428)
..++++||..|+|||++||++|.++|++++|||| |+||||+|+++|||++|++|+|||.||||++|.++|+++.++||+
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 3589999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred chhHHHhhHHHHHHHHHhh
Q 014241 406 PVMTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 406 P~~~~e~l~ri~r~~~~Ls 424 (428)
|+++.+.++++.++...|.
T Consensus 119 Pr~~~~~~~~i~~~~~~l~ 137 (264)
T PRK07122 119 PRRLKELHLRLGRATAELS 137 (264)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 9999999999988877664
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=99.93 E-value=1.7e-25 Score=216.47 Aligned_cols=116 Identities=31% Similarity=0.663 Sum_probs=106.7
Q ss_pred HHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHH
Q 014241 256 PLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335 (428)
Q Consensus 256 ~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~ 335 (428)
++..||++++++|+|++++|.+|+.++.. .++..++++||.
T Consensus 2 ~~~~yl~~~~~~~~l~~~~e~~l~~~~~~---------------------------------------~gd~~a~~~Lv~ 42 (270)
T TIGR02392 2 SLDAYIRAVNRIPMLTPEEEYQLAKRLRE---------------------------------------HGDLDAAKKLVL 42 (270)
T ss_pred hHHHHHHHHhcCCCCCHHHHHHHHHHHHH---------------------------------------CCCHHHHHHHHH
Confidence 67889999999999999999999886432 124689999999
Q ss_pred HhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHH
Q 014241 336 ANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTF 410 (428)
Q Consensus 336 ~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~ 410 (428)
.|+|+|.++|++|.+.|++.+||+| |++||++|+++|||++|++|+|||.||||++|.++|+++.+++|+|.+..
T Consensus 43 ~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~fd~~~~~~FsTYA~~~Ir~~i~~~l~~~~~~ir~p~~~~ 118 (270)
T TIGR02392 43 SHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYILRNWRLVKVATTKA 118 (270)
T ss_pred HhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCChHHhhHHHHHHHHHHHHHHcCCceecCchHH
Confidence 9999999999999999999999999 99999999999999999999999999999999999999888899998754
No 13
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=99.93 E-value=3.5e-25 Score=216.55 Aligned_cols=119 Identities=31% Similarity=0.650 Sum_probs=109.9
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~ 332 (428)
+.+++..|+++++++|+||.++|.+|+.+++. .++..++++
T Consensus 12 ~~~~~~~y~~~~~~~~~l~~~~e~~l~~~~~~---------------------------------------~Gd~~a~~~ 52 (284)
T PRK06596 12 PEGNLDAYIQAVNKIPMLTAEEEYMLAKRLRE---------------------------------------HGDLEAAKQ 52 (284)
T ss_pred CccHHHHHHHHHhccCCCCHHHHHHHHHHHHH---------------------------------------cCCHHHHHH
Confidence 45789999999999999999999999887532 123689999
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHH
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTF 410 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~ 410 (428)
||..|+|+|.++|++|.+.|++.+||+| |++||++|+++|||++|++|+|||.||||++|.++|+++.++||+|.+..
T Consensus 53 Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~~~FstYA~~~Ir~~i~~~l~~~~~~vr~p~~~~ 131 (284)
T PRK06596 53 LVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAVHWIKAEIHEYILRNWRIVKVATTKA 131 (284)
T ss_pred HHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHcCCeeeccchHH
Confidence 9999999999999999999999999999 99999999999999999999999999999999999999988899999875
No 14
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=99.91 E-value=4.2e-24 Score=209.60 Aligned_cols=119 Identities=27% Similarity=0.565 Sum_probs=109.9
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHH
Q 014241 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333 (428)
Q Consensus 254 ~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~L 333 (428)
.+..+.||+++.++|+||+++|.+|+++++. .++..|+++|
T Consensus 5 ~~~~~~y~~~~~~~~~l~~~~e~~L~~~~~~---------------------------------------~gd~~A~~~L 45 (289)
T PRK07500 5 ASADRSMIRSAMKAPYLEREEEHALAYRWKD---------------------------------------HRDEDALHRI 45 (289)
T ss_pred hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHH---------------------------------------CCCHHHHHHH
Confidence 3567789999999999999999999998653 1246899999
Q ss_pred HHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHH
Q 014241 334 INANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 411 (428)
Q Consensus 334 I~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e 411 (428)
|..|+|+|.++|++|.+.|.+.+||+| |++||++|+++|||.+|.+|+|||.|||||+|.++|+++.+++|+|.+..+
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 999999999999999999999999999 999999999999999999999999999999999999999999999988655
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=99.90 E-value=8.5e-24 Score=200.44 Aligned_cols=96 Identities=45% Similarity=0.805 Sum_probs=91.4
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccch
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPV 407 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~ 407 (428)
|+++||..|+++|.++|++|.++|++++||+| |++||++|+++|||++|++|+|||.||||++|.++|+++.+.+|+|.
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 57899999999999999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred hHHHhhHHHHHHHHHhh
Q 014241 408 MTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 408 ~~~e~l~ri~r~~~~Ls 424 (428)
++.+.++++.++...|.
T Consensus 81 ~~~~~~~~~~~~~~~l~ 97 (238)
T TIGR02393 81 HMVETINKLIKAERQLT 97 (238)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999888766553
No 16
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=99.89 E-value=1.4e-22 Score=195.11 Aligned_cols=99 Identities=28% Similarity=0.437 Sum_probs=93.2
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccC-CCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCc
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGR-GISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTI 403 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~r-Gld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~I 403 (428)
+..++++||..|+|+|.++|++|.++ +.+++||+| |+|||++|+++|||++|++|+|||+||||++|.++++++.++|
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 45899999999999999999999876 677999999 9999999999999999999999999999999999999999999
Q ss_pred ccchhHHHhhHHHHHHHHHhh
Q 014241 404 RLPVMTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 404 RlP~~~~e~l~ri~r~~~~Ls 424 (428)
|+|+++.+.++++.++...|.
T Consensus 103 r~pr~~~~~~~~~~~~~~~l~ 123 (256)
T PRK07408 103 RIPRRWQELQRQAKKVRQELR 123 (256)
T ss_pred eeCHHHHHHHHHHHHHHHHHH
Confidence 999999999999988877654
No 17
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=99.89 E-value=2.7e-22 Score=200.21 Aligned_cols=130 Identities=42% Similarity=0.738 Sum_probs=120.2
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~ 332 (428)
..|.++.||++|+..|+||+++|.+|+.+++. | +..|+++
T Consensus 51 ~~~~~~~y~~~~~~~~~l~~~ee~~li~~~~~---------------G-------------------------d~~A~~~ 90 (325)
T PRK05657 51 VLDATQLYLNEIGYSPLLTAEEEVYFARRALR---------------G-------------------------DFAARQR 90 (325)
T ss_pred cccHHHHHHHHHhcCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHH
Confidence 46789999999999999999999999988765 3 3678999
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHH
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 411 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e 411 (428)
||..|.++|.++|.+|.+.+.+.+||+| |++||++++++||+.+|++|+|||.||||++|.++|+++.+.||+|.++..
T Consensus 91 Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~fd~~rg~~Fstyatw~iR~ai~~~i~~~~r~ir~p~~~~~ 170 (325)
T PRK05657 91 MIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVVK 170 (325)
T ss_pred HHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHHHHHHHHHcCCccccCHHHHH
Confidence 9999999999999999999999999999 999999999999999999999999999999999999999999999999988
Q ss_pred hhHHHHHHHHH
Q 014241 412 LSPIYIFKFYV 422 (428)
Q Consensus 412 ~l~ri~r~~~~ 422 (428)
.++.+.++...
T Consensus 171 ~l~~~~R~~~~ 181 (325)
T PRK05657 171 ELNVYLRAARE 181 (325)
T ss_pred HHHHHHHHHHH
Confidence 88777666543
No 18
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=99.88 E-value=4.2e-22 Score=193.35 Aligned_cols=97 Identities=27% Similarity=0.511 Sum_probs=92.7
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCC-ChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCc
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGI-SLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTI 403 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGl-d~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~I 403 (428)
+..++ +||+.|+|||.+||++|.++|. +++||+| |||||++||++|||++|.+|+|||..+|+|+|.+++|+++ .+
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 35788 9999999999999999999988 9999999 9999999999999999999999999999999999999999 99
Q ss_pred ccchhHHHhhHHHHHHHHHhh
Q 014241 404 RLPVMTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 404 RlP~~~~e~l~ri~r~~~~Ls 424 (428)
++|+.+.+..+++..+++.|.
T Consensus 100 ~vpR~~~~~~~~i~~~~~~l~ 120 (247)
T COG1191 100 KVPRSLRELGRRIEEAIDELE 120 (247)
T ss_pred cCcHHHHHHHHHHHHHHHHHH
Confidence 999999999999999998764
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=99.85 E-value=2.4e-20 Score=181.67 Aligned_cols=134 Identities=42% Similarity=0.712 Sum_probs=122.1
Q ss_pred cCCCCCCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccH
Q 014241 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327 (428)
Q Consensus 248 ~~~~~~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~ 327 (428)
.......|.+..||.+|+.++.|+.++|.+|+..++. | +.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~---------------g-------------------------d~ 45 (285)
T TIGR02394 6 ETETRVADVTQLYLREIGFKPLLTAEEEIAYARRALA---------------G-------------------------DF 45 (285)
T ss_pred hcccCcchHHHHHHHHHhccCCCCHHHHHHHHHHHHc---------------C-------------------------CH
Confidence 3444567899999999999999999999999888765 3 36
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccc
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 406 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP 406 (428)
.++++|+..|.++|..+|.+|.+.+.+.+||+| |++||++|+++||+.+|++|+||+.|||+.+|.++++++.+.+++|
T Consensus 46 ~a~~~L~~~y~~~v~~~a~~~~~~~~~aeDLvQe~~i~l~~a~~~fd~~~g~~f~tya~w~i~~ain~~i~~~~~~~~~p 125 (285)
T TIGR02394 46 EARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERAIMNQARTIRLP 125 (285)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCCcHhhhHHHHHHHHHHHHHHcCCceeCc
Confidence 889999999999999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhHHHHHHHH
Q 014241 407 VMTFNLSPIYIFKFY 421 (428)
Q Consensus 407 ~~~~e~l~ri~r~~~ 421 (428)
.++...++.+.+...
T Consensus 126 ~~~~~~~~~~~r~~~ 140 (285)
T TIGR02394 126 VHVIKELNVYLRAAR 140 (285)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999888887766543
No 20
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=99.83 E-value=3.7e-20 Score=178.55 Aligned_cols=96 Identities=24% Similarity=0.371 Sum_probs=87.5
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHccc---CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQG---RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~---rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
++..++++||..|+|+|.++|++|.+ .+++++||+| |+|||++|+++|||++|++|+|||.||||++|.++|+++.
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 34689999999999999999999862 3578999999 9999999999999999999999999999999999999987
Q ss_pred CCcccchhHHHhhHHHHHHHHHh
Q 014241 401 RTIRLPVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 401 r~IRlP~~~~e~l~ri~r~~~~L 423 (428)
+ +|+++.+.++++.++...|
T Consensus 100 ~---~pr~~~~~~~~l~~~~~~l 119 (257)
T PRK05911 100 W---VPRSVHQKANKLADAMDSL 119 (257)
T ss_pred C---CCHHHHHHHHHHHHHHHHH
Confidence 6 7999999999998876654
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=99.82 E-value=1.9e-19 Score=172.47 Aligned_cols=119 Identities=31% Similarity=0.477 Sum_probs=108.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014241 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (428)
Q Consensus 264 i~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~s 343 (428)
.+++|+||++||.+|+..++. | +..++++|+..|+++|.+
T Consensus 10 ~~~~~~l~~~~~~~li~~~~~---------------g-------------------------d~~a~~~L~~~~~~~v~~ 49 (254)
T TIGR02850 10 TSKLPVLKNQEMRELFIRMQS---------------G-------------------------DTTAREKLINGNLRLVLS 49 (254)
T ss_pred ccCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHhHHHHHH
Confidence 478899999999998877654 3 357899999999999999
Q ss_pred HHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHHHH
Q 014241 344 VAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYV 422 (428)
Q Consensus 344 IAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~~~ 422 (428)
+|++|.+.+.+.+||+| |++||++|+++||+.+|.+|+||+++||+++|.++++++. .||+|+++.+.++++.++...
T Consensus 50 ~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~tyl~~~irn~~~~~lr~~~-~ir~p~~~~~~~~~~~~~~~~ 128 (254)
T TIGR02850 50 VIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDK 128 (254)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHhCC-CccCchHHHHHHHHHHHHHHH
Confidence 99999999999999999 9999999999999999999999999999999999999975 899999999988888776655
Q ss_pred h
Q 014241 423 F 423 (428)
Q Consensus 423 L 423 (428)
|
T Consensus 129 l 129 (254)
T TIGR02850 129 L 129 (254)
T ss_pred H
Confidence 4
No 22
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=99.81 E-value=2.9e-19 Score=171.44 Aligned_cols=119 Identities=30% Similarity=0.491 Sum_probs=106.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014241 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (428)
Q Consensus 264 i~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~s 343 (428)
..++|+|+++|+..|+.+++. | +..++++|+..|+|+|..
T Consensus 13 ~~~~~~l~~~~~~~l~~~~~~---------------g-------------------------d~~a~~~l~~~~~~~v~~ 52 (258)
T PRK08215 13 TSKLPVLKNEEMRELFERMQN---------------G-------------------------DKEAREKLINGNLRLVLS 52 (258)
T ss_pred CCCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHHHHHHHH
Confidence 467789999999988877654 2 367899999999999999
Q ss_pred HHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHHHH
Q 014241 344 VAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYV 422 (428)
Q Consensus 344 IAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~~~ 422 (428)
+|++|.+.+.+.+||+| |++||++|+++||+++|++|.||+++||+++|.++++++. .||+|+++.....++.+....
T Consensus 53 ~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l~~~ir~~i~~~lr~~~-~vrip~~~~~~~~~~~~~~~~ 131 (258)
T PRK08215 53 VIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVREK 131 (258)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhCC-ceEecHHHHHHHHHHHHHHHH
Confidence 99999999999999999 9999999999999999999999999999999999999985 889999999888887766554
Q ss_pred h
Q 014241 423 F 423 (428)
Q Consensus 423 L 423 (428)
|
T Consensus 132 l 132 (258)
T PRK08215 132 L 132 (258)
T ss_pred H
Confidence 3
No 23
>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=99.76 E-value=1.1e-17 Score=159.75 Aligned_cols=118 Identities=22% Similarity=0.362 Sum_probs=107.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHH
Q 014241 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQ 347 (428)
Q Consensus 268 ~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~sIAkr 347 (428)
+.||+++|.+|+.+++. | ++..+.++|+..|.|+|..+|++
T Consensus 8 ~~l~~~~~~~li~~~~~---------------~------------------------gd~~a~~~l~~~y~~~v~~~a~~ 48 (255)
T TIGR02941 8 TNLTKEDVIQWIAEFQQ---------------N------------------------QNGEAQEKLVDHYQNLVYSIAYK 48 (255)
T ss_pred CCCCHHHHHHHHHHHHH---------------C------------------------CCHHHHHHHHHHhHHHHHHHHHH
Confidence 66899999988887664 1 23679999999999999999999
Q ss_pred cccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHHHHhh
Q 014241 348 YQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYVFS 424 (428)
Q Consensus 348 Y~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~~~Ls 424 (428)
|.+.+.+.+||+| |++||++|+++||+++|..|.||+.+||++.|.++++++.+.+|+|.++.+..+++.+....+.
T Consensus 49 ~~~~~~~aeDlvQe~~i~l~~a~~~~~~~~~~~f~tyl~~~i~n~~~~~lr~~~~~iri~~~~~~~~~~~~~~~~~l~ 126 (255)
T TIGR02941 49 YSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIIGEIKRYLRDKTWSVHVPRRIKELGPKIKKAIDELT 126 (255)
T ss_pred HhcCCCCHHHHHHHHHHHHHHHHHHcCCcCCCCcHhHHHHHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHHHHHH
Confidence 9999999999999 9999999999999999999999999999999999999999999999999998888877766653
No 24
>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=99.76 E-value=5.2e-18 Score=158.74 Aligned_cols=97 Identities=28% Similarity=0.483 Sum_probs=91.4
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCccc
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 405 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRl 405 (428)
..|+++||..|.|+|.++|++|.+.+.+.+||+| |++||++|+++||+++|.+|.||+.+||++.|.++++++.+.+|+
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 4689999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred chhHHHhhHHHHHHHHHh
Q 014241 406 PVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 406 P~~~~e~l~ri~r~~~~L 423 (428)
|+++.++.+++.+....+
T Consensus 82 ~~~~~~~~~~~~~~~~~l 99 (227)
T TIGR02980 82 PRRLKELGLKINKATEEL 99 (227)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 999998888877766554
No 25
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=99.75 E-value=1.9e-17 Score=159.89 Aligned_cols=118 Identities=23% Similarity=0.305 Sum_probs=102.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014241 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (428)
Q Consensus 264 i~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~s 343 (428)
.+++|+||+++|.+|+..++. + ++..+++.|+..|.|+|..
T Consensus 6 ~~~~~~~~~~~e~~l~~~~~~---------------~------------------------~d~~a~~~l~~~y~~lv~~ 46 (268)
T PRK06288 6 SGKIPKYAQQDETELWREYKK---------------T------------------------GDPKIREYLILKYSPLVKY 46 (268)
T ss_pred cCCCccccchHHHHHHHHHHH---------------c------------------------CCHHHHHHHHHHHHHHHHH
Confidence 478999999999999987664 1 2467899999999999999
Q ss_pred HHHHcc-c--CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHH
Q 014241 344 VAKQYQ-G--RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFK 419 (428)
Q Consensus 344 IAkrY~-~--rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~ 419 (428)
+|++|. + .+.+.+||+| |++||++|+++||+.+|++|.||+.||||+.|.+++|+.. ++|+++....+++.++
T Consensus 47 ~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd~~~~~~f~ty~~~~ir~~i~d~~R~~~---~~p~~~~~~~~~i~~~ 123 (268)
T PRK06288 47 VAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIFDELRSID---WIPRSVRQKARQIERA 123 (268)
T ss_pred HHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC---ccCHHHHHHHHHHHHH
Confidence 999986 2 5678999999 9999999999999999999999999999999999999764 5799999887777665
Q ss_pred HHHh
Q 014241 420 FYVF 423 (428)
Q Consensus 420 ~~~L 423 (428)
...|
T Consensus 124 ~~~l 127 (268)
T PRK06288 124 IAML 127 (268)
T ss_pred HHHH
Confidence 5444
No 26
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=99.73 E-value=7.2e-17 Score=154.38 Aligned_cols=117 Identities=23% Similarity=0.350 Sum_probs=106.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHH
Q 014241 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQ 347 (428)
Q Consensus 268 ~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~sIAkr 347 (428)
|.|+++||.+|+.+++. .++..+.++|+..|.++|..+|++
T Consensus 8 ~~l~~~e~~~li~~~~~---------------------------------------~gd~~a~~~l~~~~~~~v~~~a~~ 48 (257)
T PRK08583 8 TKLTKEEVNKWIAEYQE---------------------------------------NQDEEAQEKLVKHYKNLVESLAYK 48 (257)
T ss_pred CcCChHHHHHHHHHHHH---------------------------------------cCCHHHHHHHHHHHHHHHHHHHHH
Confidence 77999999988877653 123679999999999999999999
Q ss_pred cccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHHHHh
Q 014241 348 YQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 348 Y~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~~~L 423 (428)
|.+.+.+.+||+| |++||++++++||+.+|..|.||+.+||++.|.++++++.+.++||+++.+..+++.++++.+
T Consensus 49 ~~~~~~~aeDlvQe~~l~l~~~~~~f~~~~~~~f~tyl~~~i~n~~~~~lr~~~~~~~i~r~~~~~~~~~~~~~~~~ 125 (257)
T PRK08583 49 YSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRDKTWSVHVPRRIKELGPKIKKAVDEL 125 (257)
T ss_pred HhcCCCCHHHHHHHHHHHHHHHHHHcCccCCCChHHHHHHHHHHHHHHHHHhcCCCcCCCHHHHHHHHHHHHHHHHH
Confidence 9999999999999 999999999999999999999999999999999999999999999999998888887776644
No 27
>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=99.72 E-value=5.8e-17 Score=152.34 Aligned_cols=99 Identities=27% Similarity=0.456 Sum_probs=92.3
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 324 ~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
.++..++++|+..|.|+|.++|++|.+.+.+.+||+| |++||++|+++||+.+|.+|.||+++||+++|.++++++. .
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 3456899999999999999999999999999999999 9999999999999999999999999999999999999986 8
Q ss_pred cccchhHHHhhHHHHHHHHHh
Q 014241 403 IRLPVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 403 IRlP~~~~e~l~ri~r~~~~L 423 (428)
||+|+++.+..+++.+....|
T Consensus 86 i~~p~~~~~~~~~~~~~~~~l 106 (231)
T TIGR02885 86 IKVSRSLKELARKIRYMKEEL 106 (231)
T ss_pred eECCHHHHHHHHHHHHHHHHH
Confidence 999999999999888876654
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=99.69 E-value=1.4e-16 Score=152.05 Aligned_cols=101 Identities=18% Similarity=0.261 Sum_probs=86.7
Q ss_pred hhccHHHHHHHHHHhHHHHHHHHHHcccCC--CChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 323 LHSGNSSREKLINANLRLVVHVAKQYQGRG--ISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 323 l~~G~~Are~LI~~nLrLV~sIAkrY~~rG--ld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
++.|+..+++||..|.|+|.++|++|.+++ .+.+||+| |++||++|+++||+++|..|.+||.+||+++|.+++|+.
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 445665599999999999999999998775 58999999 999999999999999999999999999999999999998
Q ss_pred C---CCcccchhHHHhhHHHHHHHHHh
Q 014241 400 S---RTIRLPVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 400 s---r~IRlP~~~~e~l~ri~r~~~~L 423 (428)
. +.+++|+...+....+..+.+++
T Consensus 84 ~k~~~~v~~~~~~~e~~~~~~~~~~~~ 110 (218)
T TIGR02895 84 QKYQNLLYLDEDYDENPLEFNKSMEEY 110 (218)
T ss_pred ccccCeeeCCchHHHHHHHHHHHHHHH
Confidence 7 68899987666444555444443
No 29
>PRK05572 sporulation sigma factor SigF; Validated
Probab=99.66 E-value=1.7e-15 Score=145.05 Aligned_cols=122 Identities=28% Similarity=0.411 Sum_probs=108.8
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHH
Q 014241 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341 (428)
Q Consensus 262 ~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV 341 (428)
+.-...|.||.+++.+|+..++. | +..+.++|+..|.++|
T Consensus 6 ~~~~~~~~l~~~~~~~li~~~~~---------------g-------------------------d~~a~~~L~~~y~~~v 45 (252)
T PRK05572 6 KNKKKKPQLKDEENKELIKKSQD---------------G-------------------------DQEARDTLVEKNLRLV 45 (252)
T ss_pred ccCcCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHhHHHH
Confidence 34567899999999888776543 2 3578999999999999
Q ss_pred HHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHH
Q 014241 342 VHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKF 420 (428)
Q Consensus 342 ~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~ 420 (428)
..+|.+|.+.+.+.+||+| |+++|++++++||+.+|.+|.||+++||+++|.+++++.. .||+|+++.+...++.+..
T Consensus 46 ~~~a~~~~~~~~~aeDl~Qe~~l~l~~~~~~f~~~~~~~f~twl~~~i~~~i~~~lr~~~-~~r~~~~~~~~~~~~~~~~ 124 (252)
T PRK05572 46 WSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDK 124 (252)
T ss_pred HHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHhCC-CCCCCHHHHHHHHHHHHHH
Confidence 9999999999999999999 9999999999999999999999999999999999999985 7899999999998888877
Q ss_pred HHhh
Q 014241 421 YVFS 424 (428)
Q Consensus 421 ~~Ls 424 (428)
..|.
T Consensus 125 ~~l~ 128 (252)
T PRK05572 125 DELS 128 (252)
T ss_pred HHHH
Confidence 6653
No 30
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=99.66 E-value=5.4e-16 Score=147.76 Aligned_cols=92 Identities=23% Similarity=0.242 Sum_probs=81.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccC---CCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCc
Q 014241 328 SSREKLINANLRLVVHVAKQYQGR---GISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTI 403 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~r---Gld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~I 403 (428)
..+..|+..|+|||.++|++|.++ +++.+||+| |++||++|+++||+.+| +|+|||.||||++|.++|++..+
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 456789999999999999999754 579999999 99999999999998666 89999999999999999999776
Q ss_pred ccchhHHHhhHHHHHHHHHh
Q 014241 404 RLPVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 404 RlP~~~~e~l~ri~r~~~~L 423 (428)
+|+++....+++.++...|
T Consensus 92 -~~r~vr~~~~~i~~~~~~l 110 (231)
T PRK12427 92 -RPRRLRQKTHKTNDAIREI 110 (231)
T ss_pred -CCHHHHHHHHHHHHHHHHH
Confidence 5999988888888777655
No 31
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=99.62 E-value=6.8e-15 Score=140.80 Aligned_cols=95 Identities=22% Similarity=0.331 Sum_probs=85.9
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHccc---CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQG---RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~---rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+..++++|+..|.|+|..+|.+|.+ .+.+.+||+| |++||++++++||+.+|.+|.||+++||++.|.++++++.
T Consensus 20 d~~a~~~L~~~y~~~v~~~~~~~~~~~~~~~~~eDl~Qe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn~~~d~lR~~~- 98 (251)
T PRK07670 20 DPDAADELIRRYMPLVHYHVQRISVGLPKSVSKDDLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIRGAIIDGLRKED- 98 (251)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC-
Confidence 4589999999999999999999965 5789999999 9999999999999999999999999999999999999876
Q ss_pred CcccchhHHHhhHHHHHHHHHh
Q 014241 402 TIRLPVMTFNLSPIYIFKFYVF 423 (428)
Q Consensus 402 ~IRlP~~~~e~l~ri~r~~~~L 423 (428)
++|.++.+.++++.++...|
T Consensus 99 --~~p~~~~~~~~~~~~~~~~~ 118 (251)
T PRK07670 99 --WLPRSMREKTKKVEAAIEKL 118 (251)
T ss_pred --CCCHHHHHHHHHHHHHHHHH
Confidence 58999988888876665544
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=99.59 E-value=5.4e-15 Score=138.65 Aligned_cols=88 Identities=24% Similarity=0.400 Sum_probs=80.2
Q ss_pred HHHHhHHHHHHHHHHccc---CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchh
Q 014241 333 LINANLRLVVHVAKQYQG---RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVM 408 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~---rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~ 408 (428)
|+..|.|+|.++|++|.+ .+.+.+||+| |++||++|+++|||++|++|+||+.+||++.|.+++++.. ++|.+
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 588999999999999986 6899999999 9999999999999999999999999999999999999865 57999
Q ss_pred HHHhhHHHHHHHHHh
Q 014241 409 TFNLSPIYIFKFYVF 423 (428)
Q Consensus 409 ~~e~l~ri~r~~~~L 423 (428)
+...++++.++...|
T Consensus 78 ~~~~~~~l~~~~~~l 92 (224)
T TIGR02479 78 LRQKARKLERAIREL 92 (224)
T ss_pred HHHHHHHHHHHHHHH
Confidence 988888887776544
No 33
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=99.52 E-value=1.2e-13 Score=130.72 Aligned_cols=106 Identities=27% Similarity=0.512 Sum_probs=96.9
Q ss_pred HHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHH
Q 014241 256 PLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335 (428)
Q Consensus 256 ~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~ 335 (428)
.+..|+.++++.++||+++|..|+..++. | +..+.+.|+.
T Consensus 17 ~~~~~~~~~~~~~~~~~~~e~~l~~~~~~---------------g-------------------------d~~a~~~l~~ 56 (233)
T PRK05803 17 FLVSYVKNNSFPQPLSEEEERKYLELMKE---------------G-------------------------DEEARNILIE 56 (233)
T ss_pred HHHHHHHHhcccCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHH
Confidence 57889999999999999999988776543 2 3678999999
Q ss_pred HhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 336 ANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 336 ~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
.|.++|.+++.+|.+.+.+.+||+| |++||++++++||+++|.+|.+|+.+|||+.+.+++|+..+
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 9999999999999999999999999 99999999999999999999999999999999999997643
No 34
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=99.51 E-value=8.9e-14 Score=131.62 Aligned_cols=95 Identities=19% Similarity=0.332 Sum_probs=84.3
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcc---cCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQ---GRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~---~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.|.-++++|+..|.|+|..+|.+|. +.+.+.+||+| |++||++++++||+++|.+|.||+.+||++.|.++++++.
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 5678999999999999999999997 56899999999 9999999999999999999999999999999999999986
Q ss_pred CCcccchhHHHhhHHHHHHHHH
Q 014241 401 RTIRLPVMTFNLSPIYIFKFYV 422 (428)
Q Consensus 401 r~IRlP~~~~e~l~ri~r~~~~ 422 (428)
+ +|..+.....++.+....
T Consensus 85 ~---~~~~~~~~~~~~~~~~~~ 103 (236)
T PRK06986 85 W---VPRSVRRNAREVAQAIRQ 103 (236)
T ss_pred C---CCHHHHHHHHHHHHHHHH
Confidence 4 688877776666555443
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=99.15 E-value=3.7e-10 Score=106.79 Aligned_cols=98 Identities=30% Similarity=0.590 Sum_probs=87.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014241 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (428)
Q Consensus 264 i~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~s 343 (428)
-+..+.|++.+|.+|+..++. | +..+.+.|+..|.|+|.+
T Consensus 24 ~~~~~~~~~~~~~~li~~~~~---------------g-------------------------d~~af~~l~~~y~~~v~~ 63 (227)
T TIGR02846 24 GSFPQPLSEEEEKKYLDRLKE---------------G-------------------------DEEARNVLIERNLRLVAH 63 (227)
T ss_pred HhCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHhHHHHHH
Confidence 355567899998888777654 3 357899999999999999
Q ss_pred HHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 344 VAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 344 IAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+|.+|.+...+.+|++| +.+++++++++|+++.|..|.||+.+++++.+.+++|+..+
T Consensus 64 ~~~~~~~~~~dAEDlvQevfi~l~~~~~~~~~~~~~~f~twl~~i~rN~~~d~~Rk~~r 122 (227)
T TIGR02846 64 IVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAARCIENEILMHLRALKK 122 (227)
T ss_pred HHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 99999988899999999 99999999999999999999999999999999999998654
No 36
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=99.11 E-value=7.7e-10 Score=104.41 Aligned_cols=76 Identities=33% Similarity=0.640 Sum_probs=71.5
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+..+.+.|+..|.++|..+|.+|.+.+.+.+|++| +++++++++++||+..+++|.||+..++++.+.+++|++.+
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 35789999999999999999999999999999999 99999999999999988899999999999999999997654
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=99.08 E-value=5e-10 Score=85.56 Aligned_cols=69 Identities=22% Similarity=0.421 Sum_probs=66.1
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
|++.|.|+|..++.+|.+.+.+.+|++| +.++|++++++||+++|..|.+|+...+++.+.+.++++.+
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 6889999999999999999999999999 99999999999999999999999999999999999998764
No 38
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=99.04 E-value=1.1e-09 Score=106.04 Aligned_cols=90 Identities=20% Similarity=0.344 Sum_probs=77.6
Q ss_pred HHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCC--ChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 316 CRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGI--SLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 316 ~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGl--d~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
.++|...+..| ..++++|+..|.|+|.++|.+|.++.. +.+|++| |.+++++|+++||+++|..|.+|+..+|++.
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 34455555555 579999999999999999999988765 5899999 9999999999999999989999999999999
Q ss_pred HHHHHHhcCCCccc
Q 014241 392 IRKAIFQHSRTIRL 405 (428)
Q Consensus 392 I~raIr~qsr~IRl 405 (428)
+.+++|++.+...+
T Consensus 85 ~iDylRk~~~~~~~ 98 (237)
T PRK08311 85 LIDYFRKESKHNLV 98 (237)
T ss_pred HHHHHHHhhccccc
Confidence 99999987654333
No 39
>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=99.00 E-value=5.1e-09 Score=99.47 Aligned_cols=76 Identities=33% Similarity=0.642 Sum_probs=71.8
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+..+.+.|+..|.+.|..++.+|.+.+.+-+||+| +++++++++++|++..+++|.||++.++++.+.++++++.+
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 36789999999999999999999999999999999 99999999999999888899999999999999999998654
No 40
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=98.98 E-value=3e-09 Score=97.43 Aligned_cols=88 Identities=25% Similarity=0.323 Sum_probs=76.9
Q ss_pred CCHHHHHHHhh-ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 314 LSCRDLKSELH-SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 314 ~s~~eL~~~l~-~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
++.+.|...+. ++..+.+.|+..|.++|..+|.+|.+.+.+.+||+| ++++|++++.+||+.+|.+|.||++.+|++.
T Consensus 9 ~~~~~l~~~~~~~d~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n~ 88 (208)
T PRK08295 9 LEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITRQ 88 (208)
T ss_pred CChHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHH
Confidence 34455555554 445899999999999999999999999999999999 9999999999999999889999999999999
Q ss_pred HHHHHHhcCC
Q 014241 392 IRKAIFQHSR 401 (428)
Q Consensus 392 I~raIr~qsr 401 (428)
+.+++++..+
T Consensus 89 ~~d~~r~~~r 98 (208)
T PRK08295 89 IITAIKTANR 98 (208)
T ss_pred HHHHHHHhhh
Confidence 9999886433
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=98.87 E-value=1.1e-08 Score=92.87 Aligned_cols=85 Identities=29% Similarity=0.406 Sum_probs=75.8
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 314 ~s~~eL~~~l~~G~-~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
|+..+|...+..|+ .+.++|+..|.|.|..+|.+|.+...+.+||+| +.+.+++++.+|++..|..|.||++.+|++.
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 44566666766655 899999999999999999999988899999999 9999999999999998889999999999998
Q ss_pred HHHHHHh
Q 014241 392 IRKAIFQ 398 (428)
Q Consensus 392 I~raIr~ 398 (428)
+.++++.
T Consensus 84 ~~~~~r~ 90 (198)
T TIGR02859 84 IITAIKT 90 (198)
T ss_pred HHHHHHH
Confidence 8877774
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=98.83 E-value=1.2e-08 Score=85.81 Aligned_cols=71 Identities=24% Similarity=0.455 Sum_probs=67.4
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+.+.|+..|.++|.+++++|.+.+.+.+|++| |+++|+++++.|++. ..|.+|+..+|++.+.++++++.+
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 57899999999999999999988999999999 999999999999998 789999999999999999998864
No 43
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=98.70 E-value=6.7e-08 Score=85.49 Aligned_cols=77 Identities=16% Similarity=0.243 Sum_probs=70.3
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 324 ~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
.++..+.++|+..|.++|..++.+|.+.+.+.+|++| ++++|++++++|| .+..|.+|+...+++.+.+.+++..+.
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 3456899999999999999999999988899999999 9999999999999 556899999999999999999986543
No 44
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=98.61 E-value=1.8e-07 Score=84.88 Aligned_cols=87 Identities=15% Similarity=0.226 Sum_probs=76.4
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 314 ~s~~eL~~~l~~G~-~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
++.++|...+..|+ .+.+.|+..|.++|..+|.+|.+.+.+.+|++| ++++|++++.+||+. +..|.+|++.-+++.
T Consensus 5 ~~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~f~~wl~~ia~n~ 83 (186)
T PRK05602 5 DPDEELLARVAAGDPAAFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWKQAPSWRPG-EARFDTWLHRVVLNL 83 (186)
T ss_pred ccHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCC-CCcHHHHHHHHHHHH
Confidence 34556666655554 899999999999999999999998899999999 999999999999986 568999999999999
Q ss_pred HHHHHHhcCC
Q 014241 392 IRKAIFQHSR 401 (428)
Q Consensus 392 I~raIr~qsr 401 (428)
+.++++++..
T Consensus 84 ~~d~~R~~~~ 93 (186)
T PRK05602 84 CYDRLRRRRE 93 (186)
T ss_pred HHHHHHhcCC
Confidence 9999997753
No 45
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=98.53 E-value=4.1e-07 Score=83.04 Aligned_cols=87 Identities=15% Similarity=0.221 Sum_probs=75.6
Q ss_pred CHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
++..|...+..| ..+.+.|+..|.+.|.++|.+|.+...+.+|++| ++++|++++++|++. ..|.+|++..+++.+
T Consensus 12 ~~~~l~~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~fi~l~~~~~~~~~~--~~f~~wl~~i~~n~~ 89 (194)
T PRK12513 12 SDEALMLRYRAGDAAAFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPR--ARFRTWLYQIARNLL 89 (194)
T ss_pred CHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHHH
Confidence 445566666655 5899999999999999999999988889999999 999999999999974 369999999999999
Q ss_pred HHHHHhcCCCc
Q 014241 393 RKAIFQHSRTI 403 (428)
Q Consensus 393 ~raIr~qsr~I 403 (428)
.+.+++..+..
T Consensus 90 ~~~~R~~~~~~ 100 (194)
T PRK12513 90 IDHWRRHGARQ 100 (194)
T ss_pred HHHHHHhcccc
Confidence 99999876543
No 46
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=98.52 E-value=7.4e-07 Score=77.89 Aligned_cols=72 Identities=21% Similarity=0.269 Sum_probs=64.9
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
..+.++|+..|.++|..+++++. ...+.+|++| |.+++++++++||+..| .|.+|+..-+++.+.++++++.
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 4568999999 99999999999998777 6999999999999999999873
No 47
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=98.51 E-value=4.1e-07 Score=81.74 Aligned_cols=83 Identities=10% Similarity=0.217 Sum_probs=72.6
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHH
Q 014241 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 394 (428)
Q Consensus 317 ~eL~~~l~~G~-~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~r 394 (428)
+.|...++.|+ .+.++|+..|.|+|..+|.+|.+.+.+.+|++| ++++|++++.+|++.. .|.+|+..-+++.+.+
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 44445555454 899999999999999999999998899999999 9999999999999853 7999999999999999
Q ss_pred HHHhcCC
Q 014241 395 AIFQHSR 401 (428)
Q Consensus 395 aIr~qsr 401 (428)
++++..+
T Consensus 84 ~~R~~~~ 90 (187)
T PRK09641 84 RLRKRKP 90 (187)
T ss_pred HHHhcCc
Confidence 9998653
No 48
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=98.49 E-value=8.9e-07 Score=80.79 Aligned_cols=87 Identities=17% Similarity=0.277 Sum_probs=77.2
Q ss_pred cCCHHHHHHHhhc----cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHH
Q 014241 313 GLSCRDLKSELHS----GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWW 387 (428)
Q Consensus 313 g~s~~eL~~~l~~----G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~w 387 (428)
.+++++|...++. +..+.++|+..|.|.|..++.+|.+...+.+|++| +++.|++.+++|++ ...|.+|+...
T Consensus 7 ~~~~~~li~~~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~f~~l~~~~~~~~~--~~~~~~wl~~i 84 (188)
T PRK09640 7 ELNDEELVARVHVELFHVTRAYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEG--KSKFKTWLYSI 84 (188)
T ss_pred CCCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHH
Confidence 4567777777764 56899999999999999999999998899999999 99999999999985 34799999999
Q ss_pred HHHHHHHHHHhcCC
Q 014241 388 VRQTIRKAIFQHSR 401 (428)
Q Consensus 388 IR~aI~raIr~qsr 401 (428)
+++.+.+.+++..+
T Consensus 85 a~n~~~d~~R~~~~ 98 (188)
T PRK09640 85 TYNECITQYRKERR 98 (188)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999997543
No 49
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=98.49 E-value=5.2e-07 Score=81.08 Aligned_cols=81 Identities=10% Similarity=0.179 Sum_probs=71.4
Q ss_pred HHHHhh-ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHH
Q 014241 319 LKSELH-SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 396 (428)
Q Consensus 319 L~~~l~-~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raI 396 (428)
|...+. ++..+.++|+..|.|+|..+|.+|.+.+.+.+|++| ++++|++++..||+.. .|.+|+..-+++.+.+++
T Consensus 8 li~~~~~gd~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~~~~ 85 (187)
T TIGR02948 8 RIKEVRKGDENAFADLVDLYKDKIYQLCYRMLGNVHEAEDVAQEAFIRAYTNIDTYDIQR--KFSTWLYRIATNLTIDRL 85 (187)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCC--chHHHHHHHHHHHHHHHH
Confidence 444444 445899999999999999999999998899999999 9999999999999875 699999999999999999
Q ss_pred HhcCC
Q 014241 397 FQHSR 401 (428)
Q Consensus 397 r~qsr 401 (428)
++..+
T Consensus 86 rk~~~ 90 (187)
T TIGR02948 86 RKRKP 90 (187)
T ss_pred Hhhcc
Confidence 98643
No 50
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=98.48 E-value=1.6e-06 Score=78.89 Aligned_cols=83 Identities=20% Similarity=0.351 Sum_probs=69.8
Q ss_pred HHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccC----CCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 319 LKSELHSG-NSSREKLINANLRLVVHVAKQYQGR----GISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 319 L~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~r----Gld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
|...+..| ..+.++|+..|.++|..+|.+|.+. +.+.+|++| ++++|++.+.+|+.. +..|.+|++.-+++.+
T Consensus 14 l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~~~~wl~~i~~n~~ 92 (189)
T PRK09648 14 LVAEAVAGDRRALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVITALPRYRDQ-GRPFLAFVYGIAAHKV 92 (189)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHHHHHHHhcc-CCcHHHHHHHHHHHHH
Confidence 33333333 5899999999999999999988643 468999999 999999999999864 5689999999999999
Q ss_pred HHHHHhcCCC
Q 014241 393 RKAIFQHSRT 402 (428)
Q Consensus 393 ~raIr~qsr~ 402 (428)
.++++++.+.
T Consensus 93 ~d~~r~~~r~ 102 (189)
T PRK09648 93 ADAHRAAGRD 102 (189)
T ss_pred HHHHHHhCCC
Confidence 9999987653
No 51
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=98.46 E-value=1.1e-06 Score=83.23 Aligned_cols=77 Identities=12% Similarity=0.199 Sum_probs=69.3
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcc
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 404 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IR 404 (428)
+..+.+.|+..|.++|..+|.++.+.+-+-+||+| ++++|++.+++|++. ..|.+|+...+++.+.+++|+..+..+
T Consensus 28 d~~a~~~l~~~y~~~l~~~a~~~~~~~~~AEDlvQE~fi~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~Rk~~r~~~ 105 (231)
T PRK11922 28 DEAAFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGD--ASLSTWLSRIVLNEALGRLRRRRRLVN 105 (231)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHhcCCC--chhHHHHHHHHHHHHHHHHHhhccccc
Confidence 46789999999999999999999988889999999 999999999999986 479999999999999999998765433
No 52
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=98.45 E-value=1.1e-06 Score=80.48 Aligned_cols=88 Identities=13% Similarity=0.194 Sum_probs=75.1
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCC---CChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHH
Q 014241 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRG---ISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWV 388 (428)
Q Consensus 314 ~s~~eL~~~l~~G~-~Are~LI~~nLrLV~sIAkrY~~rG---ld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wI 388 (428)
++.+.|...+..|+ .+.++|+..|.++|..++.+|.+.+ .+.+|++| +.++|++++++|+++.+ .|.+|++.-.
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 44566666666655 7999999999999999999998753 46899999 99999999999997655 7999999999
Q ss_pred HHHHHHHHHhcCCC
Q 014241 389 RQTIRKAIFQHSRT 402 (428)
Q Consensus 389 R~aI~raIr~qsr~ 402 (428)
++.+.++++++.+.
T Consensus 82 rn~~~d~~rk~~~~ 95 (189)
T PRK06811 82 KYKAIDYKRKLTKN 95 (189)
T ss_pred HHHHHHHHHHhccc
Confidence 99999999986643
No 53
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=98.40 E-value=1.3e-06 Score=80.19 Aligned_cols=83 Identities=10% Similarity=0.114 Sum_probs=73.3
Q ss_pred HHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHH
Q 014241 317 RDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 394 (428)
Q Consensus 317 ~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~r 394 (428)
.+|...+..| ..+.++|+..|.++|..++.+|.+...+-+|++| +++++++.+++||+.+| .|.+|++.-+++.+.+
T Consensus 18 ~~li~~~~~g~~~a~~~l~~~y~~~l~~~~~~~~~~~~dAeDivQe~fi~l~~~~~~~~~~~~-~~~~wl~~ia~n~~~d 96 (194)
T PRK09646 18 DALLRRVARGDQDAFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRFDPARG-SALAWLLTLAHRRAVD 96 (194)
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCcccc-cHHHHHHHHHHHHHHH
Confidence 4455554444 5899999999999999999999999899999999 99999999999999766 6999999999999999
Q ss_pred HHHhcC
Q 014241 395 AIFQHS 400 (428)
Q Consensus 395 aIr~qs 400 (428)
.++++.
T Consensus 97 ~~r~~~ 102 (194)
T PRK09646 97 RVRSEQ 102 (194)
T ss_pred HHHhhc
Confidence 999864
No 54
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=98.39 E-value=1.3e-06 Score=78.97 Aligned_cols=86 Identities=13% Similarity=0.169 Sum_probs=74.1
Q ss_pred CHHHHHHHhhc-cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHS-GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~-G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
++++|...+.. +..+.+.|+..|.+.|..++.+|.+.+.+.+|++| +++.|++++++|++..+ .|.+|++.-+++.+
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 45556555544 45899999999999999999999888899999999 99999999999997653 59999999999999
Q ss_pred HHHHHhcCC
Q 014241 393 RKAIFQHSR 401 (428)
Q Consensus 393 ~raIr~qsr 401 (428)
.+++++..+
T Consensus 88 ~d~~rk~~~ 96 (186)
T PRK13919 88 VDHVRRRAA 96 (186)
T ss_pred HHHHHhhhc
Confidence 999998653
No 55
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=98.34 E-value=2.5e-06 Score=76.29 Aligned_cols=84 Identities=10% Similarity=0.185 Sum_probs=72.7
Q ss_pred HHHHHHHhhc-cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHH
Q 014241 316 CRDLKSELHS-GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 393 (428)
Q Consensus 316 ~~eL~~~l~~-G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~ 393 (428)
...+...+.. +..+.+.|+..|.|.|..++.+|.+...+-+|++| ++++|++++++|++. ..|.+|+..-+++.+.
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 4445444444 45899999999999999999999988889999999 999999999999874 4899999999999999
Q ss_pred HHHHhcCC
Q 014241 394 KAIFQHSR 401 (428)
Q Consensus 394 raIr~qsr 401 (428)
+++++..+
T Consensus 83 d~~r~~~~ 90 (176)
T PRK09638 83 DHLRKQKR 90 (176)
T ss_pred HHHHHhcc
Confidence 99998654
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=98.29 E-value=5.1e-06 Score=73.43 Aligned_cols=77 Identities=13% Similarity=0.170 Sum_probs=69.7
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
++..+.+.|+..|.+.+..++.++.+...+.+|++| +++.+++.+++|+...+ .|.+|+...+++.+.++++.+.+.
T Consensus 8 ~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~-~~~~wl~~i~~n~~~d~~R~~~~~ 85 (170)
T TIGR02952 8 REEDAFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERVLRKIDSFKEQKN-SFEAWLFTIARNVVNDYFRGSKRH 85 (170)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHHHhHHhcccccc-cHHHHHHHHHHHHHHHHHHhcCCC
Confidence 456899999999999999999888877789999999 99999999999997655 899999999999999999987644
No 57
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=98.29 E-value=2.6e-06 Score=77.63 Aligned_cols=84 Identities=20% Similarity=0.246 Sum_probs=71.5
Q ss_pred HHHHHHHhhc-cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHH
Q 014241 316 CRDLKSELHS-GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 393 (428)
Q Consensus 316 ~~eL~~~l~~-G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~ 393 (428)
..+|...+.. +..+.+.|+..|.+.|..++.++.+...+.+|++| ++++|++. ..|++..+ .|.||++..+++.+.
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 4455555454 45899999999999999999999988889999999 99999975 67887665 799999999999999
Q ss_pred HHHHhcCC
Q 014241 394 KAIFQHSR 401 (428)
Q Consensus 394 raIr~qsr 401 (428)
++++++.+
T Consensus 94 d~~Rk~~~ 101 (194)
T PRK12519 94 DRLRSRRS 101 (194)
T ss_pred HHHHhccc
Confidence 99998654
No 58
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=98.27 E-value=4.9e-06 Score=73.40 Aligned_cols=77 Identities=10% Similarity=0.120 Sum_probs=69.5
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 324 ~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
.++..+.+.|+..|.+.|..+|.++.+.+.+.+|++| +.+.|++++++|+ .+..|.+|+...+++.+.+++++..+.
T Consensus 9 ~~~~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDl~qe~~~~l~~~~~~~~--~~~~~~~~l~~i~~~~~~d~~r~~~~~ 86 (179)
T PRK11924 9 TGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFN--GKGSARTWLLTIARNVCYDLLRRRRRE 86 (179)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHHHHHhcccc
Confidence 3456899999999999999999999988899999999 9999999999998 456899999999999999999976543
No 59
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=98.21 E-value=7e-06 Score=74.79 Aligned_cols=84 Identities=12% Similarity=0.241 Sum_probs=71.4
Q ss_pred HHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHH
Q 014241 316 CRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 393 (428)
Q Consensus 316 ~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~ 393 (428)
.+.|...++.| ..+.++|+..|.+.|..++.+|.+..-+.+|++| +++.+++++.+|++.. .|.+|+..-.++...
T Consensus 7 ~~~ll~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~~i~l~~~~~~~~~~~--~~~~wl~~ia~n~~~ 84 (193)
T PRK11923 7 DQQLVERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDS--AFYTWLYRIAINTAK 84 (193)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHhCcCCCC--ccHhHHHHHHHHHHH
Confidence 34455555554 5899999999999999999999888789999999 9999999999999874 499999988899999
Q ss_pred HHHHhcCC
Q 014241 394 KAIFQHSR 401 (428)
Q Consensus 394 raIr~qsr 401 (428)
++++++.+
T Consensus 85 d~~rk~~~ 92 (193)
T PRK11923 85 NHLVSRGR 92 (193)
T ss_pred HHHHHhcC
Confidence 99986543
No 60
>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=98.18 E-value=9.3e-06 Score=73.16 Aligned_cols=84 Identities=15% Similarity=0.283 Sum_probs=72.1
Q ss_pred HHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHH
Q 014241 316 CRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 393 (428)
Q Consensus 316 ~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~ 393 (428)
...|...+..| ..+.+.|+..|.+.|..+|.++.+...+.+|++| +.++|++.+.+|++. ..|.+|+..-.++.+.
T Consensus 7 d~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~--~~~~~wl~~iarn~~~ 84 (190)
T TIGR02939 7 DLELVERVQRGEKQAFDLLVRKYQHKVVALVGRYVRDSSEVEDVAQEAFVKAYRALSSFRGD--SAFYTWLYRIAVNTAK 84 (190)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCC--CccHhHHHHHHHHHHH
Confidence 34555555554 4799999999999999999999888889999999 999999999999975 4699999999999999
Q ss_pred HHHHhcCC
Q 014241 394 KAIFQHSR 401 (428)
Q Consensus 394 raIr~qsr 401 (428)
+.+++..+
T Consensus 85 ~~~r~~~r 92 (190)
T TIGR02939 85 NHLVAQGR 92 (190)
T ss_pred HHHHHhcc
Confidence 99986543
No 61
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=98.17 E-value=7.6e-06 Score=75.30 Aligned_cols=85 Identities=15% Similarity=0.158 Sum_probs=74.5
Q ss_pred CHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
++..|...+..| ..+.++|+..|.+.|..+|.+|.+...+.+|++| +.+.|++.+.+|++.. ..|.+|+..-+++.+
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 456677766665 4899999999999999999999988899999999 9999999999998533 469999999999999
Q ss_pred HHHHHhcC
Q 014241 393 RKAIFQHS 400 (428)
Q Consensus 393 ~raIr~qs 400 (428)
.+.++++.
T Consensus 91 ~d~~Rk~~ 98 (196)
T PRK12524 91 TDRLRRRR 98 (196)
T ss_pred HHHHHhhc
Confidence 99999754
No 62
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=98.15 E-value=9.3e-06 Score=73.11 Aligned_cols=85 Identities=9% Similarity=0.053 Sum_probs=72.5
Q ss_pred HHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHH
Q 014241 316 CRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 393 (428)
Q Consensus 316 ~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~ 393 (428)
...|...+..| ..+..+|+..|.+.|..+|.+|.+...+-+|++| +++++++.+++|++..+ .|.+|...-.++.+.
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 34444544444 5899999999999999999999988899999999 99999999999997543 599999999999999
Q ss_pred HHHHhcCC
Q 014241 394 KAIFQHSR 401 (428)
Q Consensus 394 raIr~qsr 401 (428)
+++++..+
T Consensus 85 d~~R~~~~ 92 (179)
T PRK12514 85 DRLRARKA 92 (179)
T ss_pred HHHHhcCC
Confidence 99997653
No 63
>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=98.15 E-value=1.2e-05 Score=71.68 Aligned_cols=86 Identities=15% Similarity=0.152 Sum_probs=74.0
Q ss_pred CHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
++++|...+..| ..+.+.|+..|.+.|.+++.+|.+...+.+|++| ..+.+++..++|++. ..|.+|...-+++.+
T Consensus 2 ~~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~--~~~~~wl~~i~~n~~ 79 (169)
T TIGR02954 2 NDEELVKKAKRGNKPAFESLIKKHKEKLYKTAFIYVKNEHDALDVIQETVYKAYLSIDKLKHP--KYFNTWLTRILINEC 79 (169)
T ss_pred CHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhccCc--cccHHHHHHHHHHHH
Confidence 344555555544 5899999999999999999999998899999999 999999999999975 369999999999999
Q ss_pred HHHHHhcCCC
Q 014241 393 RKAIFQHSRT 402 (428)
Q Consensus 393 ~raIr~qsr~ 402 (428)
.+++++..+.
T Consensus 80 ~d~~R~~~~~ 89 (169)
T TIGR02954 80 IDLLKKKKKV 89 (169)
T ss_pred HHHHHhcCCc
Confidence 9999987643
No 64
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=98.12 E-value=1.3e-05 Score=74.63 Aligned_cols=76 Identities=9% Similarity=0.123 Sum_probs=69.0
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
++..+.++|+..|.+.|..++.+|.+...+-+|++| +.+.+++++.+|++.+| .|.+|++..+|+.+.++++++.+
T Consensus 35 ~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wl~~I~rn~~~d~~Rk~~~ 111 (206)
T PRK12526 35 RDKQAFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYTVMRNAAFDMLRKIKA 111 (206)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCccc-chhHHHHHHHHHHHHHHHHHhcc
Confidence 456899999999999999999999887788999999 99999999999998776 49999999999999999998654
No 65
>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=98.08 E-value=1.8e-05 Score=71.16 Aligned_cols=75 Identities=15% Similarity=0.243 Sum_probs=66.6
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHccc----CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQG----RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~----rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
++..+.++|+..|.+.|..+|.+|.+ ...+.+|++| +++.|++++.+|+...+..|.+|+..-+++.+.+++++.
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 45689999999999999999998743 4578999999 999999999999987777899999999999999988864
No 66
>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=98.06 E-value=1.1e-05 Score=69.90 Aligned_cols=71 Identities=15% Similarity=0.141 Sum_probs=64.7
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+.++|+..|.+.|..+++++.+...+.+|++| +.+++++.+.+|++ +.+|.+|++..+|+.+.+++++..+
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~--~~~~~~wl~~i~r~~~~d~~r~~~~ 73 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEE--VESFKAYLFTIVKNRSLNYLRHKQV 73 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhccc--cccHHHHHHHHHHHHHHHHHHHHHh
Confidence 57889999999999999999888888999999 99999999999986 3479999999999999999987753
No 67
>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=98.02 E-value=2e-05 Score=69.06 Aligned_cols=72 Identities=15% Similarity=0.197 Sum_probs=66.3
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
+.+.++..|.|.|..+|+++.+...+.+|++| +.+.+++.+++||+.. .|.+|+..-+++.+.++++++.+.
T Consensus 2 ~~~~~~~~~~~~l~~~~~~~~~~~~~aEDivQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~r~~~~~ 74 (159)
T TIGR02989 2 AFAALLQRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPGT--DFGAWARGIARNKVLNHRRKLGRD 74 (159)
T ss_pred HHHHHHHHhHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHHhCCCCC--chHHHHHHHHHHHHHHHHHHhccc
Confidence 56889999999999999999999999999999 9999999999999764 699999999999999999987653
No 68
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=98.02 E-value=1.8e-05 Score=72.67 Aligned_cols=81 Identities=10% Similarity=0.108 Sum_probs=70.9
Q ss_pred HHHHhhc-cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHH
Q 014241 319 LKSELHS-GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 396 (428)
Q Consensus 319 L~~~l~~-G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raI 396 (428)
|...+.. +..+.+.|+..|.+.|..+|.+|.+..-+-+|++| .++.+++...+|++..+ .|.+|...-+++.+.+++
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 4444444 45899999999999999999999888778999999 99999999999997554 699999999999999999
Q ss_pred HhcC
Q 014241 397 FQHS 400 (428)
Q Consensus 397 r~qs 400 (428)
++..
T Consensus 96 Rk~~ 99 (194)
T PRK12531 96 RKQK 99 (194)
T ss_pred HHhc
Confidence 9865
No 69
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=98.00 E-value=9.6e-05 Score=68.06 Aligned_cols=85 Identities=16% Similarity=0.162 Sum_probs=73.9
Q ss_pred CHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
+.+++...+..| ..+.+.|+..|.+.|..++.++.+...+-+|++| .++.+++.+++|+.. ..|.+|+..-+++.+
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 455565555554 4899999999999999999999988889999999 999999999999975 369999999999999
Q ss_pred HHHHHhcCC
Q 014241 393 RKAIFQHSR 401 (428)
Q Consensus 393 ~raIr~qsr 401 (428)
.+++|+..+
T Consensus 91 ~d~~Rk~~~ 99 (192)
T PRK09643 91 LDRLRRAKA 99 (192)
T ss_pred HHHHHcccc
Confidence 999997654
No 70
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=97.97 E-value=3e-05 Score=74.40 Aligned_cols=85 Identities=12% Similarity=0.187 Sum_probs=73.1
Q ss_pred CHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
+..+|...+..| ..+.++|+..|.+.|..++.++.+...+-+|++| +.+.+++..++|++..+ .|.+|...-.++.+
T Consensus 49 ~d~~Li~~~~~gd~~af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN~~ 127 (233)
T PRK12538 49 EDEELLDRLATDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSNRC 127 (233)
T ss_pred cHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHHHH
Confidence 344555555554 5899999999999999999999888788999999 99999999999987555 69999999999999
Q ss_pred HHHHHhcC
Q 014241 393 RKAIFQHS 400 (428)
Q Consensus 393 ~raIr~qs 400 (428)
.+++|++.
T Consensus 128 id~~Rk~~ 135 (233)
T PRK12538 128 IDLRRKPR 135 (233)
T ss_pred HHHHHhhc
Confidence 99998753
No 71
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=97.97 E-value=3.8e-05 Score=69.69 Aligned_cols=79 Identities=8% Similarity=0.089 Sum_probs=68.3
Q ss_pred HHhhccHHHHHHHHHHhHHHHHHHHHHccc-CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHh
Q 014241 321 SELHSGNSSREKLINANLRLVVHVAKQYQG-RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQ 398 (428)
Q Consensus 321 ~~l~~G~~Are~LI~~nLrLV~sIAkrY~~-rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~ 398 (428)
....++..+.++|+..|.+.|..++.++.+ ...+.+||+| +++.|++.++.||+. ..|.+|++.-+++.+.+++|+
T Consensus 14 ~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~iarN~~~d~~Rk 91 (181)
T PRK12536 14 RGLAGDAAAYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHAIARYKLMDFLRS 91 (181)
T ss_pred HHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHHHHHHHHHHHHHH
Confidence 334455689999999999999999987654 5679999999 999999999999974 479999999999999999998
Q ss_pred cCC
Q 014241 399 HSR 401 (428)
Q Consensus 399 qsr 401 (428)
..+
T Consensus 92 ~~~ 94 (181)
T PRK12536 92 RAR 94 (181)
T ss_pred Hhc
Confidence 643
No 72
>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=97.95 E-value=2.2e-06 Score=61.15 Aligned_cols=34 Identities=41% Similarity=0.464 Sum_probs=30.1
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHH
Q 014241 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIR 287 (428)
Q Consensus 254 ~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~ 287 (428)
+|+++.||++|+++|+||++||++|+++|+.+..
T Consensus 1 ~D~l~~Yl~ei~~~~LLt~eeE~~LA~~i~~g~~ 34 (37)
T PF00140_consen 1 SDSLRLYLKEIGRYPLLTAEEEIELARRIRKGDE 34 (37)
T ss_dssp HHHHHHHHHHHHHS-EETTHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhHH
Confidence 3789999999999999999999999999998643
No 73
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=97.95 E-value=4.2e-05 Score=69.74 Aligned_cols=85 Identities=11% Similarity=0.126 Sum_probs=74.3
Q ss_pred CCHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 314 LSCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 314 ~s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
+++++|...+..| ..+.+.|+..|.+.+..++.+|.+...+-+|++| +++.|++..++|++. ..|.+|++.-+++.
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 4566666666655 4799999999999999999999888889999999 999999999999964 47999999999999
Q ss_pred HHHHHHhcC
Q 014241 392 IRKAIFQHS 400 (428)
Q Consensus 392 I~raIr~qs 400 (428)
+.+.+++..
T Consensus 85 ~~d~~r~~~ 93 (189)
T PRK12515 85 ALSALRRRK 93 (189)
T ss_pred HHHHHHccC
Confidence 999999764
No 74
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=97.93 E-value=4.1e-05 Score=69.57 Aligned_cols=87 Identities=13% Similarity=0.175 Sum_probs=74.7
Q ss_pred CHHHHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 315 SCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 315 s~~eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
+..+|...+..| ..+.+.|+..|.+.|..++.++.+...+-+|++| ..+.+++..++|++..+ .|.+|...-+++.+
T Consensus 9 ~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wL~~iarn~~ 87 (182)
T PRK12537 9 DYEACLLACARGDRRALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPARG-SARGWIYSVTRHLA 87 (182)
T ss_pred hHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHHH
Confidence 344555555554 4899999999999999999999988889999999 99999999999987544 69999999999999
Q ss_pred HHHHHhcCCC
Q 014241 393 RKAIFQHSRT 402 (428)
Q Consensus 393 ~raIr~qsr~ 402 (428)
.++++++.+.
T Consensus 88 ~d~~r~~~~~ 97 (182)
T PRK12537 88 LNVLRDTRRE 97 (182)
T ss_pred HHHHHhcccc
Confidence 9999988643
No 75
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=97.93 E-value=3e-05 Score=70.34 Aligned_cols=77 Identities=12% Similarity=0.077 Sum_probs=68.7
Q ss_pred hhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 323 l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
..++..+.++|+..|.++|..+|.+|.+...+-+|++| +++.+++.+++|++.++ .|.+|.+.-.++.+.+++++..
T Consensus 20 ~~~~~~~~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~-~~~~wl~~I~~n~~~d~~R~~~ 97 (187)
T PRK12534 20 AGGDRHAFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHKAGQFDPSRA-RGLTWLAMIARNKAIDHLRANA 97 (187)
T ss_pred HcCCHHHHHHHHHHhhHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHHHHHHHHhcc
Confidence 34456899999999999999999999888889999999 99999999999998755 5889999999999999999764
No 76
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=97.89 E-value=9.1e-05 Score=67.01 Aligned_cols=76 Identities=16% Similarity=0.249 Sum_probs=66.4
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccC----CCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGR----GISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~r----Gld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
++..+.++|++.|.+.|..+|.++.+. ..+.+|++| +.+.+++..++|+.. ..|.+|++.-+|+.+.++++++
T Consensus 19 gd~~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeDlvQe~fl~l~~~~~~~~~~--~~~~~wl~~i~rn~~~d~~Rr~ 96 (184)
T PRK12512 19 GDAAAYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDPG--APFAPWLFAIARNKLIDALRRR 96 (184)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHhHHhcCcc--ccHHHHHHHHHHHHHHHHHHhh
Confidence 456899999999999999999988752 358999999 999999999999873 4799999999999999999987
Q ss_pred CCC
Q 014241 400 SRT 402 (428)
Q Consensus 400 sr~ 402 (428)
.+.
T Consensus 97 ~~~ 99 (184)
T PRK12512 97 GRR 99 (184)
T ss_pred ccc
Confidence 543
No 77
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=97.84 E-value=6.6e-05 Score=67.38 Aligned_cols=71 Identities=11% Similarity=0.108 Sum_probs=65.3
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
..++|+..|.++|..++.+|.+...+.+|++| +++.|++.+++|++.. +|.+|+..-+++.+.++++++.+
T Consensus 4 ~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~Rk~~~ 75 (173)
T PRK12522 4 KVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVE--NYKKWITTICVRTFYDFYRKKKR 75 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCcc--chHHHHHHHHHHHHHHHHHHhcc
Confidence 46889999999999999999998899999999 9999999999999854 79999999999999999998654
No 78
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=97.79 E-value=0.00014 Score=66.10 Aligned_cols=82 Identities=12% Similarity=0.135 Sum_probs=68.1
Q ss_pred HHHHHhh-ccHHHHHHHHHHhHHHHHHHHHH----cccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHH
Q 014241 318 DLKSELH-SGNSSREKLINANLRLVVHVAKQ----YQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 391 (428)
Q Consensus 318 eL~~~l~-~G~~Are~LI~~nLrLV~sIAkr----Y~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~a 391 (428)
+|...+. ++..+.++|+..|.+.|..++.+ |.+...+-+|++| .++.|++.+..|++.. .|.+|++.-+++.
T Consensus 10 ~l~~~~~~gd~~af~~l~~~~~~~l~~~~~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~--~f~~wl~~i~~n~ 87 (184)
T PRK12539 10 ALMLASLDGDAAAHRALLERLSGHLRAYYKGKLARIGRGAEEAEDLVQEALMAIHTRRHTYDPEQ--PLTPWVYAIARYK 87 (184)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhhcCCCC--ChHHHHHHHHHHH
Confidence 3434444 44589999999999999999864 4466688999999 9999999999999753 6999999999999
Q ss_pred HHHHHHhcCC
Q 014241 392 IRKAIFQHSR 401 (428)
Q Consensus 392 I~raIr~qsr 401 (428)
+.+++++..+
T Consensus 88 ~~d~~R~~~~ 97 (184)
T PRK12539 88 LIDHLRRTRA 97 (184)
T ss_pred HHHHHHHHhc
Confidence 9999998643
No 79
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=97.77 E-value=0.00026 Score=64.11 Aligned_cols=74 Identities=11% Similarity=0.111 Sum_probs=66.2
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
++..+.++|+..|.+.|..++..|.+..-+.+|++| +.+.|++++.+|++.. .|.+|...-+++.+.++++...
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 445899999999999999999999988889999999 9999999999999874 6999999888888888887643
No 80
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=97.67 E-value=0.00024 Score=63.50 Aligned_cols=74 Identities=22% Similarity=0.214 Sum_probs=65.1
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 324 ~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.++..+.++|+..|.+.|..++.++.+. .+.+|++| +++.+++.++.|++. ..|.+|+..-+++.+.+++|+..
T Consensus 7 ~gd~~a~~~l~~~~~~~l~~~~~~~~~~-~~aeDivQe~~l~l~~~~~~~~~~--~~~~~wl~~ia~n~~~d~~R~~~ 81 (175)
T PRK12518 7 RGDRQSFRQLYRRYQQKVRSTLYQLCGR-ELLDDLVQEVFLRVWKGLPKLRNP--AYFSTWLYRITWNVATDARRQFA 81 (175)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHcCH-hHHHHHHHHHHHHHHHhHHhhCCc--ccHHHHHHHHHHHHHHHHHHHhh
Confidence 3456899999999999999999998754 67899999 999999999999974 47999999999999999988753
No 81
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=97.65 E-value=0.00022 Score=64.79 Aligned_cols=74 Identities=14% Similarity=0.151 Sum_probs=67.0
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.+..+.++|+..|.+.|..++.+|.+..-+-+|++| +.+.|++++.+|+.. ..|.+|...-+++.+.+++|+..
T Consensus 13 ~~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~--~~~~awl~~ia~n~~~d~~Rk~~ 87 (179)
T PRK09415 13 DKEDLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK--SSLKTWLYRIAINHCKDYLKSWH 87 (179)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--cccHHHHHHHHHHHHHHHHHhhc
Confidence 446899999999999999999999888788999999 999999999999874 36999999999999999998753
No 82
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=97.62 E-value=0.00014 Score=66.19 Aligned_cols=78 Identities=17% Similarity=0.120 Sum_probs=70.1
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 324 ~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
.++..+.++|+..|.+.|..+|.++.+...+-+|++| ..+.+++.+.+|+...+..|.+|...-+++.+.++++++.+
T Consensus 5 ~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~Rk~~~ 83 (185)
T PRK12542 5 NNDYEKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYRKNKR 83 (185)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3456899999999999999999999888788999999 99999999999997655689999999999999999998754
No 83
>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=97.53 E-value=0.00054 Score=61.65 Aligned_cols=80 Identities=15% Similarity=0.223 Sum_probs=66.4
Q ss_pred HHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCC-----ChhHHHH-HHHHHHH-HHHhcCCCCCCchhcHHHHHHH
Q 014241 318 DLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGI-----SLHDLLQ-GSMGLMK-SVEKFKPQAGCRFASYAYWWVR 389 (428)
Q Consensus 318 eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGl-----d~eDLIQ-G~IGLik-AVekFDpskG~rFSTYA~~wIR 389 (428)
.|...+..| ..+.++|+..|.+.|..++.+|.+... +-+|++| ..+.+++ ...+|++. ..|.+|+..+++
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 344455544 479999999999999999999987655 7999999 9999998 77778654 369999999999
Q ss_pred HHHHHHHHhc
Q 014241 390 QTIRKAIFQH 399 (428)
Q Consensus 390 ~aI~raIr~q 399 (428)
+.+.+.+++.
T Consensus 84 n~~~d~~R~~ 93 (183)
T TIGR02999 84 RILVDHARRR 93 (183)
T ss_pred HHHHHHHHHH
Confidence 9999998874
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=97.50 E-value=0.00047 Score=60.87 Aligned_cols=74 Identities=11% Similarity=0.067 Sum_probs=67.1
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
++..+.+.|+..|.+.|..++..+.+...+.+|++| +++-+++..++|+. ...|.+|...-+++.+.+++++..
T Consensus 3 ~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~--~~~~~~wl~~i~~n~~~d~~rk~~ 77 (162)
T TIGR02983 3 ATEEEFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD--PDAPDAYVRRVLVNLARSRWRRRR 77 (162)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC--cccHHHHHHHHHHHHHHHHHHhhc
Confidence 456899999999999999999999988889999999 99999999999964 347999999999999999999764
No 85
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=97.44 E-value=0.00094 Score=60.79 Aligned_cols=81 Identities=16% Similarity=0.273 Sum_probs=70.5
Q ss_pred HHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 321 ~~l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
.....+..+.++++..|.+.+...+.++.|...+-+||+| .++.+++++..| ..+..|.||.+.-+++...+.+|+.
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~--~~~~~~~~wl~~Ia~n~~iD~~R~~ 85 (182)
T COG1595 8 EALRGDRAAFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF--RGRSSFKAWLYRIARNLAIDRLRKR 85 (182)
T ss_pred HHHhcchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc--CCCCchHHHHHHHHHHHHHHHHHHh
Confidence 3445566889999999999999999999988779999999 999999999999 3344799999999999999999977
Q ss_pred CCCc
Q 014241 400 SRTI 403 (428)
Q Consensus 400 sr~I 403 (428)
.+..
T Consensus 86 ~r~~ 89 (182)
T COG1595 86 KRRR 89 (182)
T ss_pred cccc
Confidence 6543
No 86
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=97.34 E-value=0.0007 Score=59.86 Aligned_cols=71 Identities=18% Similarity=0.066 Sum_probs=63.1
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+.+.++|+..|.+.|..+|.++.+...+.+|++| +++.+++. .|+. +..|.+|+..-+++.+.+++++..+
T Consensus 2 ~~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~~--~~~~~~wl~~i~rn~~~d~~rk~~~ 73 (166)
T PRK09639 2 DETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFKG--IENEKGWLIKSARNVAYNYLRSEKR 73 (166)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hccc--ccchHHHHHHHHHHHHHHHHHHhcc
Confidence 3568899999999999999999988889999999 99999998 5653 4579999999999999999998654
No 87
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=97.24 E-value=0.0028 Score=56.49 Aligned_cols=69 Identities=13% Similarity=0.106 Sum_probs=62.9
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 330 re~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
.+.|++.|.+.|..++.+|.+...+-+|++| ..+.+++.++.|++. .|.+|...-.++.+.+++++..+
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wL~~i~~n~~~d~~R~~~~ 72 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKEKK 72 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc---chHHHHHHHHHHHHHHHHHhhhh
Confidence 4679999999999999999988889999999 999999999999863 59999999999999999998654
No 88
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=97.20 E-value=0.0015 Score=65.12 Aligned_cols=81 Identities=12% Similarity=0.179 Sum_probs=70.3
Q ss_pred HHHHHhhcc-HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHH
Q 014241 318 DLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKA 395 (428)
Q Consensus 318 eL~~~l~~G-~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~ra 395 (428)
+|...+..| ..+.++|+..|.+.|..++.++.+...+-+|++| ..+-+++.+++|++ ...|.+|.+.-.++.+.++
T Consensus 8 ~l~~~~~~gd~~af~~l~~~y~~~l~~~~~~~~~~~~dAEDivQevfl~~~~~~~~~~~--~~~~~~wL~~Ia~n~~~d~ 85 (339)
T PRK08241 8 ALLARAAAGDRDAFAALVEPHRRELLAHCYRMLGSVHDAEDAVQETLLRAWRGYDRFEG--RSSLRTWLYRIATNVCLDA 85 (339)
T ss_pred HHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhhhcccc--ccchHHHHHHHHHHHHHHH
Confidence 455555554 4899999999999999999999888788999999 99999999999984 3469999999999999999
Q ss_pred HHhcC
Q 014241 396 IFQHS 400 (428)
Q Consensus 396 Ir~qs 400 (428)
+|++.
T Consensus 86 ~Rk~~ 90 (339)
T PRK08241 86 LEGRA 90 (339)
T ss_pred HHhhc
Confidence 99754
No 89
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=97.20 E-value=0.0015 Score=57.86 Aligned_cols=73 Identities=10% Similarity=0.154 Sum_probs=65.6
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
...+.++++..|.+.|..++.++.+..-+-+|++| +.+.+++..++|++. .|.||...-+++.+.++++++.+
T Consensus 3 ~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~~ 76 (161)
T PRK12541 3 RKQSLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKEKK 76 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhccc
Confidence 35688999999999999999999988889999999 999999999999863 59999999999999999998653
No 90
>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=97.18 E-value=0.0021 Score=62.38 Aligned_cols=86 Identities=13% Similarity=0.052 Sum_probs=73.9
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHH-------HHHHhcCCCCCCchhcHH
Q 014241 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLM-------KSVEKFKPQAGCRFASYA 384 (428)
Q Consensus 314 ~s~~eL~~~l~~G~-~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLi-------kAVekFDpskG~rFSTYA 384 (428)
.++..|...+..|+ .+..+|+..|.+.|..++.++.+...+-+|++| ..+-++ +.+.+|++. ..|.||.
T Consensus 24 ~~d~~Li~~~~~gd~~Af~~L~~~y~~~l~~~~~~~~~~~~dAEDivQEvFlkl~~~~~~~~~~~~~~~~~--~~~~tWL 101 (244)
T TIGR03001 24 AADLYLACACAQGEPAALAALERHVLSKVPARLAGLRPPTAFVDEVLQRLRQRLLVPRAERPPRIAEYSGR--GPLLSWV 101 (244)
T ss_pred ccHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccchhhhhhccCCC--CchHhHH
Confidence 45677777777666 799999999999999999999888889999999 999998 478889863 3799999
Q ss_pred HHHHHHHHHHHHHhcCC
Q 014241 385 YWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 385 ~~wIR~aI~raIr~qsr 401 (428)
+.-.++.+.++++++.+
T Consensus 102 ~~Ia~N~~id~lRk~~r 118 (244)
T TIGR03001 102 RIVATRIALELQAQERR 118 (244)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 99999999999997653
No 91
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=97.13 E-value=0.0019 Score=60.55 Aligned_cols=72 Identities=18% Similarity=0.297 Sum_probs=66.4
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
+..+.++|+..|.+.+..++.+|.+...+-+|++| +++.+++...+|++ + .|.+|+..-+|+.+.+++++..
T Consensus 26 d~~a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~~ 98 (203)
T PRK09647 26 TMPSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRRA 98 (203)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhcc
Confidence 45899999999999999999999988889999999 99999999999985 3 6999999999999999999875
No 92
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=97.09 E-value=0.0023 Score=57.17 Aligned_cols=73 Identities=12% Similarity=0.148 Sum_probs=65.7
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
.....+++..|.+.|..+|.++.+...+-+|++| ..+.+++...+|+... .|.+|++.-+++.+.+.+++..+
T Consensus 5 ~~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~R~~~~ 78 (164)
T PRK12547 5 SKNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMGT--NLKAWLFTILRNEFYSQMRKRGR 78 (164)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCcc--cHHHHHHHHHHHHHHHHHHhhcc
Confidence 4567899999999999999999998899999999 9999999999998543 69999999999999999997643
No 93
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=97.03 E-value=0.0025 Score=58.41 Aligned_cols=79 Identities=16% Similarity=0.158 Sum_probs=66.6
Q ss_pred HHHHhh-ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHH
Q 014241 319 LKSELH-SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 396 (428)
Q Consensus 319 L~~~l~-~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raI 396 (428)
|...+. ++..+.++|+..|.+.+..++. +.+...+-+|++| .++.+++..++|++. ..|.+|...-.++.+.+++
T Consensus 14 l~~~~~~gd~~af~~l~~~~~~~l~~~~~-~~~~~~~AeDivQe~flkl~~~~~~~~~~--~~~~~Wl~~Iarn~~~d~~ 90 (185)
T PRK09649 14 LALSAAKGNGRALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIARHVVADHI 90 (185)
T ss_pred HHHHHHccCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHhccccCcc--chHHHHHHHHHHHHHHHHH
Confidence 434444 4558999999999999999995 5566678999999 999999999999864 4799999999999999999
Q ss_pred HhcC
Q 014241 397 FQHS 400 (428)
Q Consensus 397 r~qs 400 (428)
|+..
T Consensus 91 Rk~~ 94 (185)
T PRK09649 91 RHVR 94 (185)
T ss_pred HHhc
Confidence 9754
No 94
>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=97.02 E-value=0.0021 Score=58.88 Aligned_cols=73 Identities=18% Similarity=0.184 Sum_probs=66.1
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
..+.++|+..|.+.|..++.++.+...+-+|++| ..+.+++.+.+|++. ..|.+|...-+++.+.++++++.+
T Consensus 10 ~~~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk~~~ 83 (193)
T TIGR02947 10 AQRFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRKAQR 83 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHHhcC
Confidence 4789999999999999999999887788999999 999999999999864 469999999999999999998654
No 95
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=97.01 E-value=0.003 Score=56.46 Aligned_cols=75 Identities=9% Similarity=0.050 Sum_probs=66.6
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.+..+.+.|+..|.+.|..++.++.+...+-+|++| ..+-+++..++|++.. ..|.+|+..-.++.+.++++++.
T Consensus 6 ~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~~ 81 (173)
T PRK09645 6 AEAALMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSAR 81 (173)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhhc
Confidence 356899999999999999999999887778999999 9999999999997533 46999999999999999999754
No 96
>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=96.97 E-value=0.0025 Score=58.69 Aligned_cols=70 Identities=11% Similarity=0.143 Sum_probs=63.0
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 331 e~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
.+.|..|.+.|..++.++.+...+-+|++| ..+.+++...+|+.. ..|.+|++.-+++.+.++++++.+.
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 467889999999999999988889999999 999999999999975 4899999999999999999986543
No 97
>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=96.96 E-value=0.0017 Score=56.57 Aligned_cols=63 Identities=13% Similarity=0.100 Sum_probs=56.9
Q ss_pred HHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 335 NANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 335 ~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
..|.|.|..++.++.+.--+-+|++| ..+.|++.+++|++ .+|.+|+..-+++.+.++++++.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~~ 65 (154)
T TIGR02950 2 REYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKDK 65 (154)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHhh
Confidence 46889999999999877778999999 99999999999997 47999999999999999998764
No 98
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=96.96 E-value=0.0029 Score=56.02 Aligned_cols=70 Identities=13% Similarity=0.066 Sum_probs=62.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.+.++|+..|.+.|..++.++.+...+-+|++| .++.+++..+.|++ ..|.+|...++++.+.+.+|++.
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 578899999999999999999988889999999 99999998887764 36999999999999999999753
No 99
>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=96.93 E-value=0.0052 Score=55.46 Aligned_cols=70 Identities=23% Similarity=0.288 Sum_probs=60.9
Q ss_pred HHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccc
Q 014241 335 NANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 406 (428)
Q Consensus 335 ~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP 406 (428)
..|.+.+..++.++.+...+.+|++| ..+.+++++.+|+. +..|.+|+..-+++.+.+++++..+...++
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 35788888999999888889999999 99999999999996 458999999999999999999987654443
No 100
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=96.90 E-value=0.0034 Score=57.32 Aligned_cols=72 Identities=15% Similarity=0.148 Sum_probs=64.7
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
+.++|+..|.+.|..+|.++.+...+-+|++| ..+.+++.+++|+.. ..|.+|.+.-+++.+.++++++.+.
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~~r~ 75 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSGRRE 75 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhhcCc
Confidence 46789999999999999999888889999999 999999999999854 3699999999999999999987543
No 101
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=96.88 E-value=0.0053 Score=56.29 Aligned_cols=74 Identities=18% Similarity=0.172 Sum_probs=65.5
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCccc
Q 014241 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 405 (428)
Q Consensus 330 re~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRl 405 (428)
.++|+..|.+.|..++.++.+...+.+|++| ..+.+++.+..|+. +..|.+|+..-+++.+.++++++.+...+
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 4678999999999999999988899999999 99999999999985 34799999999999999999987654433
No 102
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=96.85 E-value=0.0031 Score=57.83 Aligned_cols=69 Identities=17% Similarity=0.231 Sum_probs=60.9
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCC-hhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 331 EKLINANLRLVVHVAKQYQGRGIS-LHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 331 e~LI~~nLrLV~sIAkrY~~rGld-~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
++.+..|.+.|..+|.++.+...+ -+|++| .++.+++..++|+.. ..|.+|++.-+++.+.+++|++.+
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~ 78 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR--ALVNSWLFAILKNKIIDALRQIGR 78 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc--chHHHHHHHHHHHHHHHHHHHhcc
Confidence 456778999999999999887777 999999 999999999999864 479999999999999999998754
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=96.84 E-value=0.0046 Score=60.91 Aligned_cols=73 Identities=12% Similarity=0.165 Sum_probs=66.4
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
+..+.++|+..|.+.+..+|.++.+...+-+|++| ..+.+++.+++|+.. ..|.+|.+.-.++.+.+++|++.
T Consensus 3 d~~af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~ 76 (324)
T TIGR02960 3 DGAAFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEARQ 76 (324)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhcc
Confidence 45789999999999999999999988888999999 999999999999864 46999999999999999999764
No 104
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=96.82 E-value=0.0077 Score=56.08 Aligned_cols=73 Identities=14% Similarity=0.130 Sum_probs=63.7
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
++..+.++|+..|.+.+..++. +.+...+-+|++| -++.|++..++|++. ..|.+|.+.-+++.+.+++|+..
T Consensus 22 ~d~~a~~~l~~~y~~~l~~~~~-~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~ 95 (196)
T PRK12535 22 GDRAALTEFIRETQDDVWRLLA-HLGGHDIADDLTQETYLRVMSALPRFAAR--SSARTWLLSLARRVWVDNIRHDM 95 (196)
T ss_pred CCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHHhhhcCCc--ccHHHHHHHHHHHHHHHHHHhhc
Confidence 4458899999999999999975 5566678999999 999999999999863 37999999999999999999764
No 105
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=96.76 E-value=0.0065 Score=56.05 Aligned_cols=74 Identities=18% Similarity=0.216 Sum_probs=66.6
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+..+..+|+..|.+.+..+|.++.+..-+-+|++| ..+-+++..++|+.. ..|.+|.+.-.++.+.++++++.+
T Consensus 8 ~~~~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~awL~~Ia~n~~~d~~R~~~~ 82 (187)
T PRK12516 8 GTPPFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVG--TNMKAWLFTILRNEFYSQMRKRGR 82 (187)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCc--ccHHHHHHHHHHHHHHHHHHhhcC
Confidence 45789999999999999999999988888999999 999999999999854 369999999999999999998654
No 106
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=96.70 E-value=0.0082 Score=57.21 Aligned_cols=73 Identities=15% Similarity=0.206 Sum_probs=65.4
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 325 ~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
....+.+.|+..|.+.+..++.++.+...+-+|++| .++-+++.+.+|++. .|.+|.+.-.++.+.+.++++.
T Consensus 15 ~~~~~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~~---~~~aWL~~IarN~~~d~~Rk~~ 88 (216)
T PRK12533 15 ARGERFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRGD---NARPWLLAIVRHTWYSEWRRRA 88 (216)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCcc---chHhHHHHHHHHHHHHHHHhhc
Confidence 346789999999999999999999888788999999 999999999999853 4999999999999999998764
No 107
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=96.67 E-value=0.0097 Score=56.00 Aligned_cols=69 Identities=14% Similarity=0.239 Sum_probs=62.6
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 331 e~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
..+++.|.+.|..++.++.+..-+-+|++| .++.+++.+.+|+.. .+|.+|.+.-+++.+.+++++..+
T Consensus 21 ~~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~~ 90 (206)
T PRK12544 21 PVFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQKKR 90 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 568888999999999999988889999999 999999999999854 469999999999999999998654
No 108
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=96.53 E-value=0.011 Score=54.74 Aligned_cols=71 Identities=18% Similarity=0.267 Sum_probs=61.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+..+.|.. |.+.|..+|..+.+...+-+|++| ..+.+++.+..|+.. ..|.+|+..-+++.+.+++++..+
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 779999999999998899999999 999999999999863 479999999999999999998754
No 109
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=96.45 E-value=0.0062 Score=66.56 Aligned_cols=34 Identities=32% Similarity=0.493 Sum_probs=31.9
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~ 286 (428)
.+||+++||++||+.||||.|+|++++++|..+.
T Consensus 102 t~DPVRMYLREMG~V~LLTREgEIeIAKRIE~G~ 135 (619)
T PRK05658 102 TDDPVRMYLREMGTVELLTREGEIEIAKRIEAGE 135 (619)
T ss_pred CCChHHHHHHHhccCcCCCcHHHHHHHHHHHHHH
Confidence 5899999999999999999999999999999853
No 110
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=96.41 E-value=0.0047 Score=54.56 Aligned_cols=64 Identities=8% Similarity=0.033 Sum_probs=57.5
Q ss_pred HHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 335 NANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 335 ~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
+.|.+.|..++.++.+..-+-+|++| ..+.+++..++|++. .|.+|...-+++.+.++++++.+
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 56889999999999888789999999 999999999999863 49999999999999999998643
No 111
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=96.40 E-value=0.021 Score=51.92 Aligned_cols=77 Identities=10% Similarity=-0.069 Sum_probs=63.9
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHccc--CCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 324 HSGNSSREKLINANLRLVVHVAKQYQG--RGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 324 ~~G~~Are~LI~~nLrLV~sIAkrY~~--rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.++..+.+.|+..|.+.|..++..+.+ ..-+-+|++| ..+-+++..++|+......|.+|...-.++.+.++++++.
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 455689999999999999997654444 2467999999 9999999999998655567999999999999999988753
No 112
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=96.40 E-value=0.0088 Score=53.75 Aligned_cols=72 Identities=7% Similarity=-0.031 Sum_probs=62.4
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
+..+..+|+..|.+.|..++.++.+...+-+|++| .++.+++. ..|+.. ..|.+|.....++.+.+++|++.
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 34899999999999999999999888889999999 99999976 445532 46999999999999999999754
No 113
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=96.27 E-value=0.018 Score=52.89 Aligned_cols=72 Identities=19% Similarity=0.299 Sum_probs=63.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
.+...++..|.+.|..++.++.+...+-+|++| ..+.+++..++|++.. .|.+|...-+++.+.+.++++.+
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~~--~~~~WL~~Ia~n~~~d~~Rk~~~ 77 (182)
T PRK12540 5 DSLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPGS--NLPAWLFTILRNLFRSDYRKRRR 77 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCc--hHHHHHHHHHHHHHHHHHHhccc
Confidence 345678999999999999999888889999999 9999999999998653 69999999999999999998654
No 114
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=96.24 E-value=0.021 Score=52.62 Aligned_cols=75 Identities=15% Similarity=0.074 Sum_probs=65.1
Q ss_pred hhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 323 l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
+..+..+.+.++..|.+.|..+|.++.+..-+-+|++| ..+-+++.+..|++. ..|.+|+..-+++...+..++.
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 34567899999999999999999999888788999999 999999999999865 3699999999999876666553
No 115
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=96.11 E-value=0.02 Score=53.31 Aligned_cols=69 Identities=12% Similarity=0.136 Sum_probs=61.4
Q ss_pred HHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCC
Q 014241 332 KLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 402 (428)
Q Consensus 332 ~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~ 402 (428)
.++..|.+.|..++.++.+..-+-+|++| ..+.+++.+++|++. ..|.+|.+.-+++.+.++++++.+.
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 35888999999999999988789999999 999999999999976 3699999999999999999987643
No 116
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=96.04 E-value=0.016 Score=51.22 Aligned_cols=66 Identities=15% Similarity=0.201 Sum_probs=56.4
Q ss_pred HHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 332 KLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 332 ~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.++..|.+.+..+|.++.+...+-+|++| ..+.+++....|++. .|.+|...-+++.+.++++++.
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~~ 68 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQA 68 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhhc
Confidence 35778889999999999888888999999 999999888777653 4789999999999999998764
No 117
>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=95.85 E-value=0.017 Score=45.86 Aligned_cols=39 Identities=31% Similarity=0.607 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014241 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (428)
Q Consensus 286 ~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~ 324 (428)
.++.++..+|..++||+||.+|.|+..|++.+++...+.
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 456778899999999999999999999999888865543
No 118
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=95.60 E-value=0.046 Score=49.31 Aligned_cols=72 Identities=11% Similarity=0.066 Sum_probs=61.2
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 326 G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
+..+.+.++..|.+.+..++.++.+...+-+||+| .++-+++. ..|++- ..|.+|...-+++.+.++++++.
T Consensus 8 ~~~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~--~~~~~wL~~iarn~~~d~~R~~~ 80 (172)
T PRK09651 8 ASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTI--RDPRSFLCTIAKRVMVDLFRRNA 80 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-cccccc--cCHHHHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999999999888889999999 99999987 345433 25889999999999999988653
No 119
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=95.54 E-value=0.044 Score=50.42 Aligned_cols=69 Identities=16% Similarity=0.147 Sum_probs=60.8
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 331 e~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
++-|..|.+.+..+|.+|.+..-+-+|++| ..+-+++...+|++. ..|.+|.+.-.++.+.+++|++.+
T Consensus 10 ~~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~ 79 (189)
T PRK12530 10 SLEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQ--SALKTWIFAILKNKIIDLIRYRKR 79 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCC--ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 445778889999999999888789999999 999999999999865 369999999999999999998654
No 120
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=95.33 E-value=0.057 Score=49.73 Aligned_cols=70 Identities=7% Similarity=0.097 Sum_probs=61.6
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 330 re~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
++..+..+.+.|..++.++.+..-+-+|++| ..+-+++....|+.. ..|.+|...-+++.+.++++++.+
T Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~~ 76 (182)
T PRK12511 6 KRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG--GNLRTWLMSILHNAFIDELRRRRV 76 (182)
T ss_pred hhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc--cchHHHHHHHHHHHHHHHHHhhcc
Confidence 4556788999999999999888888999999 999999999999864 379999999999999999998653
No 121
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=94.38 E-value=0.086 Score=51.91 Aligned_cols=68 Identities=9% Similarity=-0.004 Sum_probs=57.7
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
...++++.|.+.+..+|.++.+...+-+|++| ..+.+. ....|+ ...|.+|.+.-+++.+.+++|++.
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 45688999999999999999988889999999 998844 445665 457999999999999999999754
No 122
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=94.31 E-value=0.17 Score=45.36 Aligned_cols=70 Identities=7% Similarity=-0.005 Sum_probs=58.7
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 327 ~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
+.+..+++..|.+.+...+.+|.+...+-+|++| ..+-+++-.+.++ ...|.+|...-.++.+.+++++.
T Consensus 8 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~aeDlvQevf~~l~~~~~~~~---~~~~~~wl~~Iarn~~~d~~Rr~ 78 (168)
T PRK12525 8 NTLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPAS---IREPRALLTTIARRLMYEGWRRQ 78 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhCCCccc---ccCHHHHHHHHHHHHHHHHHHHH
Confidence 3677889999999999999999988889999999 9999997444443 23799999998999999888864
No 123
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=94.20 E-value=0.096 Score=46.26 Aligned_cols=63 Identities=10% Similarity=0.087 Sum_probs=52.9
Q ss_pred HHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 335 NANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 335 ~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
..|.+.+...+.++.+...+-+|++| .++.|++..+.|++ .+|.+|...-+++.+.++++++.
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 45677777778777777778999999 99999999998875 37999999999999999998753
No 124
>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=94.10 E-value=0.22 Score=39.82 Aligned_cols=55 Identities=20% Similarity=0.347 Sum_probs=44.5
Q ss_pred HHHHhhccHHHHHHHHHHhHHHHHHHHHH--c--cc--CCCChhHHHH-HHHHHHHHHHhcC
Q 014241 319 LKSELHSGNSSREKLINANLRLVVHVAKQ--Y--QG--RGISLHDLLQ-GSMGLMKSVEKFK 373 (428)
Q Consensus 319 L~~~l~~G~~Are~LI~~nLrLV~sIAkr--Y--~~--rGld~eDLIQ-G~IGLikAVekFD 373 (428)
+.++.+++..|.+++++.|-|+|.+.+.+ | .| .|.-=+||-| =..-||+||.+|+
T Consensus 4 I~~A~~GD~~A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDedl~q~l~~kLi~~I~~F~ 65 (65)
T PF12645_consen 4 IKAAKQGDPEAMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDEDLKQRLEIKLIEAILKFE 65 (65)
T ss_pred HHHHHcCCHHHHHHHHHHHHHHHHHHHHhhcccccCCcCceeCHHHHHHHHHHHHHHHHccC
Confidence 44556666799999999999999999876 2 12 2445589999 9999999999996
No 125
>PRK06704 RNA polymerase factor sigma-70; Validated
Probab=93.94 E-value=0.43 Score=46.39 Aligned_cols=78 Identities=17% Similarity=0.095 Sum_probs=60.6
Q ss_pred HHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHH
Q 014241 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 396 (428)
Q Consensus 318 eL~~~l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raI 396 (428)
.|.+.+..+..+.+.+++.| +.+..++.++.+..-+-+||+| ..+-+++ +|+.. ..|.+|...-.++.+.+.+
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 34555555667777777766 7899999888887789999999 9887765 57643 3599999999999999999
Q ss_pred HhcCC
Q 014241 397 FQHSR 401 (428)
Q Consensus 397 r~qsr 401 (428)
+++.+
T Consensus 82 Rk~k~ 86 (228)
T PRK06704 82 KSKSV 86 (228)
T ss_pred hcccc
Confidence 97653
No 126
>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=93.43 E-value=0.15 Score=50.15 Aligned_cols=65 Identities=12% Similarity=0.013 Sum_probs=55.0
Q ss_pred HHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 332 KLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 332 ~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
+++..|.+.+..+|.++.+...+-+|++| ..+-+.+. .|+ ....|.+|.+.-+++.+.+++++..
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 36789999999999999998889999999 99987664 443 3347999999999999999999753
No 127
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=92.88 E-value=0.41 Score=44.28 Aligned_cols=88 Identities=14% Similarity=0.191 Sum_probs=62.0
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHccc---CCCChhHHHHHHHHHHHHHH--hc-CCCCCCchhcHHHHHHH
Q 014241 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQG---RGISLHDLLQGSMGLMKSVE--KF-KPQAGCRFASYAYWWVR 389 (428)
Q Consensus 317 ~eL~~~l~~G~-~Are~LI~~nLrLV~sIAkrY~~---rGld~eDLIQG~IGLikAVe--kF-DpskG~rFSTYA~~wIR 389 (428)
.+|...++.|+ .|.++|+..|.+-++.+|+++.+ .+.+.+|..+..-++++.+. .| +.+.-..|..|+..-++
T Consensus 5 t~ll~~~~~GD~~A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~lv~ea~lrl~~~~~~~~~~~~~~f~~~~~~~~r 84 (185)
T PF07638_consen 5 TELLDRWRQGDEAALDQLFERYYPELRRLARRRLRRERRGHDLQDTALVHEAFLRLARRGRFVQFSDRRHFWALLARIMR 84 (185)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHHHHHHHHHHhccccccCCCCHHHHHHHHHHHHH
Confidence 34555566555 89999999999999999987653 24566665443444555554 33 44444569999999999
Q ss_pred HHHHHHHHhcCCCcc
Q 014241 390 QTIRKAIFQHSRTIR 404 (428)
Q Consensus 390 ~aI~raIr~qsr~IR 404 (428)
+.+.+.+|.+...+|
T Consensus 85 r~lid~~R~~~a~KR 99 (185)
T PF07638_consen 85 RKLIDHARRRQAQKR 99 (185)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999997766555
No 128
>PRK09191 two-component response regulator; Provisional
Probab=92.58 E-value=0.35 Score=45.21 Aligned_cols=62 Identities=15% Similarity=0.073 Sum_probs=53.6
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHH
Q 014241 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 392 (428)
Q Consensus 329 Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI 392 (428)
+..+|+..|.+.|..++.++.+..-+-+|++| .++-+++....|++. ..|.+|.+.++++-.
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~ 64 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLW 64 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHh
Confidence 35789999999999999999887788999999 999999999999874 458888888776654
No 129
>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=90.87 E-value=0.87 Score=39.53 Aligned_cols=66 Identities=9% Similarity=-0.016 Sum_probs=51.5
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCC---CCCCchhcHHHHHHHHHHHHHHHhcCC
Q 014241 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKP---QAGCRFASYAYWWVRQTIRKAIFQHSR 401 (428)
Q Consensus 331 e~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDp---skG~rFSTYA~~wIR~aI~raIr~qsr 401 (428)
++|+..|.+++..++++|.+. |.+| -.+.+++...+|+. ..+..|.||...-.++.+.+.++++.+
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 578999999999999999653 3348 88888888765432 123479999999999999999997643
No 130
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=89.99 E-value=0.62 Score=46.53 Aligned_cols=68 Identities=12% Similarity=-0.053 Sum_probs=57.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
....++++.|.+.+..+|.++.|...+-+|++| ..+-++++...+ ...|.+|.+.-.++.+.+++++.
T Consensus 5 ~~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~----~~~~~aWL~~Ia~n~~id~lRk~ 73 (290)
T PRK09635 5 DPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD----IDDERGWLIVVTSRLCLDHIKSA 73 (290)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc----cccHHHHHHHHHHHHHHHHHhhh
Confidence 456788999999999999999998889999999 999988775432 23699999999999999999874
No 131
>PHA02547 55 RNA polymerase sigma factor; Provisional
Probab=86.64 E-value=2.2 Score=40.66 Aligned_cols=67 Identities=12% Similarity=0.112 Sum_probs=53.2
Q ss_pred HHHHhHHHHHHHHHHcccCCCC---hhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhc
Q 014241 333 LINANLRLVVHVAKQYQGRGIS---LHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 399 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld---~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~q 399 (428)
|-.+.+..+..++++|.-+|.. -+|.|. |.-..++.+.+||+++...+-.|.+..+-++..+-|...
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 4445666677777777656655 789999 999999999999999988888888888888777776654
No 132
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=83.73 E-value=2.5 Score=36.96 Aligned_cols=45 Identities=9% Similarity=0.129 Sum_probs=37.2
Q ss_pred CChhHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcC
Q 014241 353 ISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 400 (428)
Q Consensus 353 ld~eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qs 400 (428)
.+-+|++| ..+.+++.... + .+..|.+|.+.-+++.+.+++|++.
T Consensus 5 ~~AeDivQe~fl~~~~~~~~-~--~~~~~~~wl~~ia~n~~~d~~Rk~~ 50 (161)
T PRK09047 5 DAALDIVQDAMIKLAEKYGD-R--PAAEWPPLFQRILQNRIHDWFRRQK 50 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhh-c--ccCchHHHHHHHHHHHHHHHHHhhc
Confidence 35789999 99999887775 2 2457999999999999999999865
No 133
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=81.01 E-value=5.5 Score=41.51 Aligned_cols=33 Identities=24% Similarity=0.326 Sum_probs=28.0
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHH
Q 014241 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDL 285 (428)
Q Consensus 253 ~~d~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l 285 (428)
..+.+..|+..+...++|+++||.+|+..++.+
T Consensus 65 ~~~~~~~~~~~~~~~~~l~~~Ee~~la~~~~~g 97 (342)
T COG0568 65 PAGRLSFYIRAIEAAPLLTPEEEKALARRLKRG 97 (342)
T ss_pred hhhhHHHHHHHHhhhcccChHHHHHHHHHHHcC
Confidence 345788899999999999999999999888664
No 134
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=75.43 E-value=5.3 Score=39.74 Aligned_cols=63 Identities=24% Similarity=0.297 Sum_probs=43.8
Q ss_pred HHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhcc
Q 014241 256 PLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326 (428)
Q Consensus 256 ~l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G 326 (428)
.+..||++-. ..--|.-=+++.. +++.+..+|+.++|++||..|.|+..|++.+++...+..+
T Consensus 88 ei~d~LR~~~--~v~vpR~~~~~~~------~i~~~~~~l~~el~r~pt~~EIA~~L~i~~ee~~~~~~~~ 150 (247)
T COG1191 88 EILDYLRKND--SVKVPRSLRELGR------RIEEAIDELEQELGREPTDEEIAEELGIDKEEYIEALLAI 150 (247)
T ss_pred HHHHHHHhCC--CccCcHHHHHHHH------HHHHHHHHHHHHhCCCCcHHHHHHHhCCCHHHHHHHHHHh
Confidence 5566888766 2112222233333 4556788899999999999999999999988886555443
No 135
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=70.15 E-value=11 Score=36.84 Aligned_cols=36 Identities=28% Similarity=0.458 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
++.+...+|...+|++|+.+|.|+..|++.+++...
T Consensus 114 ~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~ 149 (256)
T PRK07408 114 QAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI 149 (256)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHH
Confidence 345567788889999999999999999998887654
No 136
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=67.83 E-value=13 Score=36.58 Aligned_cols=36 Identities=28% Similarity=0.525 Sum_probs=29.9
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 288 Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
+.+...++...+|++||.+|.|+..|++.+++...+
T Consensus 129 i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~ 164 (264)
T PRK07122 129 LGRATAELSQRLGRAPTASELAAELGMDREEVVEGL 164 (264)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 444667788889999999999999999988886544
No 137
>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=67.71 E-value=13 Score=36.00 Aligned_cols=36 Identities=28% Similarity=0.340 Sum_probs=29.0
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014241 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (428)
Q Consensus 289 e~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~ 324 (428)
.+...++...+|++|+.+|.|+..|++.+++...+.
T Consensus 123 ~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~ 158 (254)
T TIGR02850 123 LQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALD 158 (254)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 335567778899999999999999999888765543
No 138
>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=67.70 E-value=14 Score=35.43 Aligned_cols=36 Identities=31% Similarity=0.533 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
++.++..++...+|++||.+|.|+..|++.+++...
T Consensus 88 ~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~ 123 (238)
T TIGR02393 88 KLIKAERQLTQELGREPTDEELAERMGMPAEKVREI 123 (238)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 345567778889999999999999999998888654
No 139
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=66.04 E-value=10 Score=36.47 Aligned_cols=36 Identities=17% Similarity=0.383 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 288 Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
+.+....+...+|++|+.+|.|+..|++.+++....
T Consensus 103 i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~ 138 (231)
T PRK12427 103 TNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYL 138 (231)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 445567788889999999999999999988875543
No 140
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=65.82 E-value=14 Score=37.79 Aligned_cols=36 Identities=31% Similarity=0.413 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
++.++..+|...+|++||.+|.|+..|++.+++...
T Consensus 174 ~l~~~~~~l~~~lgr~pt~~EiA~~lgi~~~~v~~~ 209 (324)
T PRK07921 174 KLARIKRELHQQLGREATDEELAEESGIPEEKIADL 209 (324)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHH
Confidence 455677788889999999999999999998877544
No 141
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=64.02 E-value=17 Score=35.54 Aligned_cols=36 Identities=25% Similarity=0.378 Sum_probs=28.8
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 288 Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
+.+....|...+|++|+.+|.|+..|++.+++....
T Consensus 112 l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~~ 147 (257)
T PRK05911 112 LADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWF 147 (257)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHH
Confidence 344556678889999999999999999988875543
No 142
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=58.88 E-value=22 Score=36.84 Aligned_cols=37 Identities=27% Similarity=0.442 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
++.+...+|...+|++||.+|.|...|++.+++...+
T Consensus 217 ~~~~~~~~l~~~lgr~pt~~EiA~~l~~~~~~v~~~~ 253 (367)
T PRK09210 217 KLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREIL 253 (367)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 3556677888899999999999999999988876543
No 143
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=56.23 E-value=26 Score=36.81 Aligned_cols=36 Identities=31% Similarity=0.501 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
++.+....|...+|++||.+|.|+..|++.+++...
T Consensus 224 ~i~~a~~~l~~~lgr~Pt~~EIA~~lg~~~e~v~~~ 259 (373)
T PRK07406 224 RIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFI 259 (373)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 455667788889999999999999999998877543
No 144
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=55.37 E-value=26 Score=38.44 Aligned_cols=37 Identities=30% Similarity=0.485 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
++.+++.+|...+|++|+.+|.|+..|++.+.+....
T Consensus 359 kl~~~~~~L~~~lgr~PT~eELAe~Lgis~e~V~~~~ 395 (509)
T PRK05901 359 KLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQ 395 (509)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 4556778888999999999999999999988876543
No 145
>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=55.00 E-value=21 Score=33.73 Aligned_cols=34 Identities=38% Similarity=0.584 Sum_probs=27.8
Q ss_pred HHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 290 KEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 290 ~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
+....+...+|++|+.+|.|+..|++.+++...+
T Consensus 101 ~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~ 134 (231)
T TIGR02885 101 YMKEELSKELGREPTINELAEALGVSPEEIVMAL 134 (231)
T ss_pred HHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHH
Confidence 3456677888999999999999999988876543
No 146
>PRK05949 RNA polymerase sigma factor; Validated
Probab=50.99 E-value=38 Score=34.69 Aligned_cols=37 Identities=27% Similarity=0.448 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
++.+...++...+|++|+..|.|+..|++.+.+...+
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 4455666777889999999999999999988876653
No 147
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=50.75 E-value=24 Score=37.66 Aligned_cols=38 Identities=21% Similarity=0.448 Sum_probs=32.8
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~ 324 (428)
++.+.+.++...+|+.|+..|.|++.|++.+.++..+.
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 56677888888999999999999999999988877644
No 148
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=50.70 E-value=32 Score=33.22 Aligned_cols=37 Identities=22% Similarity=0.380 Sum_probs=30.0
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014241 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (428)
Q Consensus 288 Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~ 324 (428)
+++...++...+|++|+..|+|+..|++.+++...+.
T Consensus 111 ~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~ 147 (251)
T PRK07670 111 VEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMN 147 (251)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 4445566777899999999999999999988876544
No 149
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=50.68 E-value=1.2e+02 Score=30.21 Aligned_cols=98 Identities=12% Similarity=0.174 Sum_probs=61.2
Q ss_pred HHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHH
Q 014241 260 FLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLR 339 (428)
Q Consensus 260 YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLr 339 (428)
+|-+..+...+..+|=.+|+..|+.+..+=+--. +..-| .++..||+.++..=-. .-.--
T Consensus 101 ~mfd~~~~G~i~f~EF~~Lw~~i~~Wr~vF~~~D--~D~SG------------~I~~sEL~~Al~~~Gy------~Lspq 160 (221)
T KOG0037|consen 101 SMFDRDNSGTIGFKEFKALWKYINQWRNVFRTYD--RDRSG------------TIDSSELRQALTQLGY------RLSPQ 160 (221)
T ss_pred HHhcCCCCCccCHHHHHHHHHHHHHHHHHHHhcc--cCCCC------------cccHHHHHHHHHHcCc------CCCHH
Confidence 5567777888999999999999998754422111 01112 1455666655542110 00122
Q ss_pred HHHHHHHHcc---cCCCChhHHHH---HHHHHHHHHHhcCCCCC
Q 014241 340 LVVHVAKQYQ---GRGISLHDLLQ---GSMGLMKSVEKFKPQAG 377 (428)
Q Consensus 340 LV~sIAkrY~---~rGld~eDLIQ---G~IGLikAVekFDpskG 377 (428)
++-.|++||. +..+.++|.|| ...+|.++..++|....
T Consensus 161 ~~~~lv~kyd~~~~g~i~FD~FI~ccv~L~~lt~~Fr~~D~~q~ 204 (221)
T KOG0037|consen 161 FYNLLVRKYDRFGGGRIDFDDFIQCCVVLQRLTEAFRRRDTAQQ 204 (221)
T ss_pred HHHHHHHHhccccCCceeHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 3455667776 33489999999 45567788889998663
No 150
>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=49.38 E-value=30 Score=32.67 Aligned_cols=37 Identities=32% Similarity=0.636 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
++.+...++...+|++|+.+|.|+..|++.+++...+
T Consensus 84 ~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~ 120 (224)
T TIGR02479 84 KLERAIRELEARLGREPTEEEIAEELGMDLKEYRQAL 120 (224)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHH
Confidence 4555667788889999999999999999988876654
No 151
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=46.56 E-value=70 Score=32.01 Aligned_cols=63 Identities=14% Similarity=0.168 Sum_probs=36.9
Q ss_pred HHHHHHccCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHH
Q 014241 256 PLRLFLWGPETRK-LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321 (428)
Q Consensus 256 ~l~~YL~ei~~~~-LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~ 321 (428)
.+..||++-.... ..+...++.+..+++. ++....++...+|++|+.+|.|+..|++.+++..
T Consensus 104 ~I~~~lr~~~~~iR~p~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~pt~~eiA~~l~~~~~~v~~ 167 (289)
T PRK07500 104 SIQDYILRNWSIVRGGTSSAQKALFFNLRR---LRARLAQADEELTKQEIHREIATALGVSLSDVEM 167 (289)
T ss_pred HHHHHHHHCCCceecCccHHHHHHHHHHHH---HHHHHHhhhcccCCCCCHHHHHHHhCcCHHHHHH
Confidence 4555665433322 2233444555555443 2222222334689999999999999999887643
No 152
>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=46.56 E-value=58 Score=25.94 Aligned_cols=20 Identities=40% Similarity=0.534 Sum_probs=14.4
Q ss_pred HhhhCCCCcHHHHHHHhcCC
Q 014241 296 QSQFGREPTLIEWAKAIGLS 315 (428)
Q Consensus 296 ~~~lGr~Pt~~ewA~a~g~s 315 (428)
....|.+||..|.|++.|+.
T Consensus 19 ~~~~G~~Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 19 IEENGYPPTVREIAEALGLK 38 (65)
T ss_dssp HHHHSS---HHHHHHHHTSS
T ss_pred HHHcCCCCCHHHHHHHhCCC
Confidence 34569999999999999995
No 153
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=45.64 E-value=36 Score=33.29 Aligned_cols=37 Identities=30% Similarity=0.514 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
++.+....|+..+|++|+.+|.|...|++.+.+....
T Consensus 119 ~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~ 155 (268)
T PRK06288 119 QIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLL 155 (268)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 4555667788899999999999999999987776543
No 154
>PRK15044 transcriptional regulator SirC; Provisional
Probab=45.49 E-value=75 Score=32.74 Aligned_cols=60 Identities=22% Similarity=0.198 Sum_probs=43.3
Q ss_pred HHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014241 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (428)
Q Consensus 257 l~~YL~ei~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~ 325 (428)
+..|++..+..+.|..+..... ++++..-+.+.++++++.++||+.+|++...|.+..+.
T Consensus 172 Ls~~l~~~~~~~~L~~~~~is~---------~~kV~~~I~~nl~~~~SLeeLA~~lgmS~~tL~R~Fk~ 231 (295)
T PRK15044 172 ISAFVRKPGGFDFLERAIKITT---------KEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAA 231 (295)
T ss_pred HHHHHhcccchhhHHHHhhhhH---------HHHHHHHHHhCcccCCCHHHHHHHhCCCHHHHHHHHHH
Confidence 5667777676666555544332 33444556677889999999999999999999887764
No 155
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=45.06 E-value=48 Score=24.98 Aligned_cols=57 Identities=23% Similarity=0.340 Sum_probs=33.3
Q ss_pred CCcHHHHHHHhcCCHHHHHHHhhccH--HHHHHHHHHhHHHHHHHHHHccc-CCCChhHHHH--HH
Q 014241 302 EPTLIEWAKAIGLSCRDLKSELHSGN--SSREKLINANLRLVVHVAKQYQG-RGISLHDLLQ--GS 362 (428)
Q Consensus 302 ~Pt~~ewA~a~g~s~~eL~~~l~~G~--~Are~LI~~nLrLV~sIAkrY~~-rGld~eDLIQ--G~ 362 (428)
+++..++|+..|++...|.+.+..-. ...+.+-. .+ ...|..|.. ..++++|+.+ |+
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~~~~~s~~~~~~~--~r--~~~a~~~l~~~~~~~~~ia~~~g~ 62 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKKETGTTPKQYLRD--RR--LERARRLLRDTDLSVTEIALRVGF 62 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHhCcCHHHHHHH--HH--HHHHHHHHHcCCCCHHHHHHHhCC
Confidence 46889999999999988887776322 22221111 11 122333322 2578888877 55
No 156
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=45.02 E-value=54 Score=33.34 Aligned_cols=37 Identities=27% Similarity=0.494 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
++.+...++...+|++|+.+|.|++.|++.+.+....
T Consensus 169 ~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~ 205 (317)
T PRK07405 169 KIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYL 205 (317)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 4556677788889999999999999999987776554
No 157
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=44.71 E-value=56 Score=31.70 Aligned_cols=35 Identities=26% Similarity=0.327 Sum_probs=28.5
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 289 e~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
.+...++...+|++|+..|.|...|++.+++...+
T Consensus 126 ~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~ 160 (258)
T PRK08215 126 LQVREKLINENSKEPTVEEIAKELEVPREEVVFAL 160 (258)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 33456677788999999999999999988876544
No 158
>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=42.18 E-value=53 Score=25.73 Aligned_cols=49 Identities=20% Similarity=0.383 Sum_probs=31.5
Q ss_pred HHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCC-ChhHH
Q 014241 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI-SLHDL 358 (428)
Q Consensus 306 ~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~sIAkrY~~rGl-d~eDL 358 (428)
.+|....|++.+.+..+++.. ... -..+.++|.+|++++...|+ +.+|+
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 456666677666665555432 111 12468999999999998886 45554
No 159
>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=41.62 E-value=48 Score=31.20 Aligned_cols=33 Identities=30% Similarity=0.558 Sum_probs=27.1
Q ss_pred HHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 290 KEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 290 ~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
+....+...+|++|+..|.|...|++.+++...
T Consensus 94 ~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~ 126 (227)
T TIGR02980 94 KATEELTQRLGRSPTIAEIAEELGVSEEEVVEA 126 (227)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHH
Confidence 345667778899999999999999998877543
No 160
>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=41.56 E-value=68 Score=32.01 Aligned_cols=36 Identities=25% Similarity=0.457 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
++.+.+.++...+|++|+..|.|...|++.+++...
T Consensus 162 ~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~ 197 (298)
T TIGR02997 162 KIKKVQRELSQKLGRTPSEAEIAEALELEPEQVREL 197 (298)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 445556677788999999999999999998877544
No 161
>KOG1161 consensus Protein involved in vacuolar polyphosphate accumulation, contains SPX domain [Inorganic ion transport and metabolism]
Probab=36.74 E-value=3.2e+02 Score=28.56 Aligned_cols=35 Identities=17% Similarity=0.309 Sum_probs=28.8
Q ss_pred hHHHH-HHHHHHHHHHhcCCCCCCchhcHHHHHHHH
Q 014241 356 HDLLQ-GSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 390 (428)
Q Consensus 356 eDLIQ-G~IGLikAVekFDpskG~rFSTYA~~wIR~ 390 (428)
+-.+- -.+||.+.+.|||-..|++|..|....+.+
T Consensus 113 ~~fs~LN~tGf~KILKK~DKrtg~~l~~~f~~~l~~ 148 (310)
T KOG1161|consen 113 ENFSRLNYTGFAKILKKHDKRTGYRLRPYFQVRLLH 148 (310)
T ss_pred HHHHHHhHHHHHHHHHHHhcccccccccHHHHHHHh
Confidence 33445 789999999999999999999888776655
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=35.86 E-value=92 Score=28.62 Aligned_cols=46 Identities=20% Similarity=0.282 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccH
Q 014241 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327 (428)
Q Consensus 273 EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~ 327 (428)
++|-+.+..|++. |++.-|+.-|..|.+++.|++.+.+.+.|+.|.
T Consensus 26 ~~~e~~f~kV~~y---------Lr~~p~~~ati~eV~e~tgVs~~~I~~~IreGR 71 (137)
T TIGR03826 26 EEEEREFEKVYKF---------LRKHENRQATVSEIVEETGVSEKLILKFIREGR 71 (137)
T ss_pred HHHHHHHHHHHHH---------HHHCCCCCCCHHHHHHHHCcCHHHHHHHHHcCC
Confidence 4445556666554 334446667899999999999999999999884
No 163
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=32.16 E-value=95 Score=27.11 Aligned_cols=37 Identities=11% Similarity=0.081 Sum_probs=28.7
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014241 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (428)
Q Consensus 289 e~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~ 325 (428)
+++..-+...+..+++.+++|+.+|++...|.+..+.
T Consensus 12 ~~~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 12 HSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3444456667778899999999999999888776664
No 164
>PRK05572 sporulation sigma factor SigF; Validated
Probab=31.04 E-value=1.1e+02 Score=29.69 Aligned_cols=34 Identities=32% Similarity=0.609 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHH
Q 014241 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321 (428)
Q Consensus 288 Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~ 321 (428)
+.+....+...+|++|+..|.|++.|++.+.+..
T Consensus 120 ~~~~~~~l~~~~~r~p~~~eia~~l~~~~~~v~~ 153 (252)
T PRK05572 120 IRKDKDELSKELGREPTIEELAEYLGVTPEEVVL 153 (252)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHH
Confidence 3445566777789999999999999998877643
No 165
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=30.02 E-value=93 Score=29.64 Aligned_cols=35 Identities=34% Similarity=0.544 Sum_probs=27.4
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014241 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (428)
Q Consensus 289 e~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l 323 (428)
.+....+...+|++|+..|+|+..|++.+++...+
T Consensus 98 ~~~~~~~~~~~~~~~~~~ela~~l~i~~~~v~~~~ 132 (236)
T PRK06986 98 AQAIRQLEQELGREPTDTEVAEKLGLSLEEYREML 132 (236)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 34455666788999999999999999987765433
No 166
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=29.44 E-value=1.1e+02 Score=25.49 Aligned_cols=37 Identities=14% Similarity=0.064 Sum_probs=28.5
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014241 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (428)
Q Consensus 289 e~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~ 325 (428)
+++..-+...+..+++.++.|+.+|++...|.+..+.
T Consensus 8 ~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~f~~ 44 (107)
T PRK10219 8 QTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRT 44 (107)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 3444455666788899999999999998888776664
No 167
>PRK14082 hypothetical protein; Provisional
Probab=29.30 E-value=1.7e+02 Score=24.06 Aligned_cols=54 Identities=15% Similarity=0.083 Sum_probs=42.3
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHHHHHHHHHhcCCCCCCchhcH
Q 014241 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSMGLMKSVEKFKPQAGCRFASY 383 (428)
Q Consensus 328 ~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~IGLikAVekFDpskG~rFSTY 383 (428)
...+.+|..+.|.|.+--.+ ..--+.+||.| =-|-+++=++.++...+-.|.-|
T Consensus 9 ~e~e~ii~~FepkIkKsL~~--T~yqeREDLeQElk~Ki~eK~~~~~~~e~PGF~ef 63 (65)
T PRK14082 9 EEIEHLIENFSPMIKKKLSN--TSYQEREDLEQELKIKIIEKADMLLCQEVPGFWEF 63 (65)
T ss_pred HHHHHHHHHccHHHHHHHhc--CChhhHHHHHHHHHHHHHHHHHHhhcccCCcHHHh
Confidence 45677999999988775543 12245699999 99999999999999888777655
No 168
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=29.11 E-value=2.6e+02 Score=28.32 Aligned_cols=142 Identities=23% Similarity=0.230 Sum_probs=77.4
Q ss_pred CCCCCcHHHHHHccCCCCCCCCH---------HHHHHHHHHHH----HHHHHHHHHHHHHhhhCC-------CCcHHHHH
Q 014241 250 GFDRNDPLRLFLWGPETRKLLTA---------DEEFELIAQIQ----DLIRLEKEKSKLQSQFGR-------EPTLIEWA 309 (428)
Q Consensus 250 ~~~~~d~l~~YL~ei~~~~LLT~---------EEE~eL~~~Iq----~l~~Le~~~~~L~~~lGr-------~Pt~~ewA 309 (428)
.++.++.+...+...+..+++.. +-=..|++.|- ......++...+.+.+|. .||.++++
T Consensus 72 ~~~lD~~l~~i~~~~~~~~~~~~~g~~~~~~~d~fe~lv~aI~~QqvS~~~A~~i~~rl~~~~g~~~~~~~~fptpe~l~ 151 (285)
T COG0122 72 LFDLDPDLAPIIDALGPLPLLRAPGLRLPLAPDPFEALVRAILSQQVSVAAAAKIWARLVSLYGNALEIYHSFPTPEQLA 151 (285)
T ss_pred HHhcCCcHHHHHHhcCccccccccCcccCCCCCHHHHHHHHHHHhHhhHHHHHHHHHHHHHHhCCccccccCCCCHHHHH
Confidence 33445556666666666666552 21122333331 234677888899999997 49999987
Q ss_pred HH-------hcCCH------HHHHHHhhccH------------HHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-HHH
Q 014241 310 KA-------IGLSC------RDLKSELHSGN------------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-GSM 363 (428)
Q Consensus 310 ~a-------~g~s~------~eL~~~l~~G~------------~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G~I 363 (428)
+. +|++. ..+.+.+.+|. ++++.|+. ..+.=...|.-|.-+|+...|.+- |=+
T Consensus 152 ~~~~~~l~~~g~s~~Ka~yi~~~A~~~~~g~~~~~~l~~~~~e~a~e~L~~-i~GIG~WTAe~~llf~lgr~dvfP~~D~ 230 (285)
T COG0122 152 AADEEALRRCGLSGRKAEYIISLARAAAEGELDLSELKPLSDEEAIEELTA-LKGIGPWTAEMFLLFGLGRPDVFPADDL 230 (285)
T ss_pred hcCHHHHHHhCCcHHHHHHHHHHHHHHHcCCccHHHhccCCHHHHHHHHHc-CCCcCHHHHHHHHHHcCCCCCCCChHHH
Confidence 54 34432 22222333331 22333322 111112333334445777788888 899
Q ss_pred HHHHHHHhcC-CCC-------------CCchhcHHHHHHHHHH
Q 014241 364 GLMKSVEKFK-PQA-------------GCRFASYAYWWVRQTI 392 (428)
Q Consensus 364 GLikAVekFD-psk-------------G~rFSTYA~~wIR~aI 392 (428)
||-+|+.+|. ..+ -..|.+||.+++-...
T Consensus 231 ~lr~~~~~~~~~~~~~~~~~~~~~~e~w~p~rs~A~~yLw~~~ 273 (285)
T COG0122 231 GLRRAIKKLYRLPTRPTEKEVRELAERWGPYRSYAALYLWRYA 273 (285)
T ss_pred HHHHHHHHHhcCCCCchHHHHHHHHhcccCHHHHHHHHHHHhh
Confidence 9999999984 112 1245666666665543
No 169
>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=28.87 E-value=93 Score=29.98 Aligned_cols=35 Identities=29% Similarity=0.474 Sum_probs=28.1
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 288 Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
+......+...+|+.|+..|.|...|++.+++...
T Consensus 118 ~~~~~~~l~~~~~r~p~~~eia~~l~i~~~~~~~~ 152 (255)
T TIGR02941 118 IKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEI 152 (255)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 34456677788899999999999999998877543
No 170
>TIGR03764 ICE_PFGI_1_parB integrating conjugative element, PFGI_1 class, ParB family protein. Members of this protein family carry the ParB-type nuclease domain and are found in integrating conjugative elements (ICE) in the same class as PFGI-1 of Pseudomonas fluorescens Pf-5.
Probab=28.44 E-value=3e+02 Score=27.91 Aligned_cols=93 Identities=19% Similarity=0.258 Sum_probs=48.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcC-----CHHHH--------------HHHhhc
Q 014241 265 ETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-----SCRDL--------------KSELHS 325 (428)
Q Consensus 265 ~~~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~-----s~~eL--------------~~~l~~ 325 (428)
....-||+=||..-..++.+ -+++.+|...|.+|.|+..|. +...+ ...+..
T Consensus 108 ~qR~dLsfIE~A~~~~~l~~---------l~e~~~g~~ltq~ela~~lgk~g~~isrs~Isn~lrll~~L~~~i~~~l~~ 178 (258)
T TIGR03764 108 DLRGDLTFIEKALGVQKARA---------LYEKELGESLSQRELARRLSADGYPISQSHISRMGDTVEYLYPAIPNLLYS 178 (258)
T ss_pred HhhcCCCHHHHHHHHHHHHH---------HHHhhccCCCCHHHHHHHhcccCCCCCHHHHHHHHHHHHhChHHHHHHHHc
Confidence 33455788887655444433 233445667777777777765 43222 222222
Q ss_pred cH--HHHHHHHHHhHHHHHHHHHHcc-cCCCChhHHHHHHHHHHHHHHhcC
Q 014241 326 GN--SSREKLINANLRLVVHVAKQYQ-GRGISLHDLLQGSMGLMKSVEKFK 373 (428)
Q Consensus 326 G~--~Are~LI~~nLrLV~sIAkrY~-~rGld~eDLIQG~IGLikAVekFD 373 (428)
|- .-...|.. -.+-..++..+|. +..++|++++|. ...+||
T Consensus 179 glGr~~~~~L~~-L~~~a~~~w~~~~~~~~~~f~~~f~~------~~~~~d 222 (258)
T TIGR03764 179 GLGRPQIEKLLS-LRKAAEKIWNRYSSGVEVDFEEVFQE------VLARFD 222 (258)
T ss_pred cCChHHHHHHHH-HHHHHHHHHHHHccccCCCHHHHHHH------HHHhcC
Confidence 22 11112211 2223344555554 446899999982 235677
No 171
>COG1476 Predicted transcriptional regulators [Transcription]
Probab=28.10 E-value=1.9e+02 Score=23.81 Aligned_cols=55 Identities=27% Similarity=0.506 Sum_probs=37.9
Q ss_pred HHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHH-H
Q 014241 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-G 361 (428)
Q Consensus 295 L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQ-G 361 (428)
++..+| -|-+|.|..+|++...+. .+..|.. .-.+.|..+||+-|. ..++|+++ +
T Consensus 9 ~R~~~~--ltQ~elA~~vgVsRQTi~-~iEkgky------~Psl~La~kia~~f~---~~iedIF~~~ 64 (68)
T COG1476 9 LRAELG--LTQEELAKLVGVSRQTII-AIEKGKY------NPSLELALKIARVFG---KTIEDIFQLE 64 (68)
T ss_pred HHHHhC--cCHHHHHHHcCcCHHHHH-HHHcCCC------CchHHHHHHHHHHhC---CCHHHHHhhh
Confidence 344455 478899999999977765 3444421 124667788888774 88999998 5
No 172
>PF00427 PBS_linker_poly: Phycobilisome Linker polypeptide; InterPro: IPR001297 Phycobilisomes (PBSs) are the major light-harvesting systems in cyanobacteria and red algae. PBS is a supercomplex that is composed of a core complex and multiple peripheral rod complexes. Typically, the core consists of two or five cylinders lying on the membrane with, in most cases, multiple rods radiating from the core to form a hemidiscoidal structure. The building units of the core cylinders and the peripheral rods are trimeric and hexameric discs, in which a monomer consists of a pair of related phycobiliproteins (PBPs), such as phycorerythrins, phycoerythrocyanins, phycocyanins, and allophycocyanins. The discs are connected to each other via specific linker polypeptides to form peripheral rods or core cylinders. Linker polypeptides share a conserved domain of ~180 residues, which can be present in one or multiple copies [, , , , ].; GO: 0015979 photosynthesis, 0030089 phycobilisome; PDB: 2L8V_A 2KY4_A 3OSJ_D 2L06_A 3NPH_B 2L3W_A 3PRU_C 3OHW_A.
Probab=27.20 E-value=2.6e+02 Score=25.57 Aligned_cols=56 Identities=20% Similarity=0.370 Sum_probs=41.5
Q ss_pred CCHHHHHHHhhccHHHHHHHHH--HhHHHHHHHHHHcccCCCC-------hhHHHH--HHHHHHHHH
Q 014241 314 LSCRDLKSELHSGNSSREKLIN--ANLRLVVHVAKQYQGRGIS-------LHDLLQ--GSMGLMKSV 369 (428)
Q Consensus 314 ~s~~eL~~~l~~G~~Are~LI~--~nLrLV~sIAkrY~~rGld-------~eDLIQ--G~IGLikAV 369 (428)
++++++++.+...+.-++.+.. .|.+.|-..-+++-||... +-+++. |.-|++.++
T Consensus 45 IsVreFVr~La~S~~yr~~f~~~~~~~R~iEl~~khlLGR~p~~~~Ei~~~~~i~a~~G~~a~Id~l 111 (131)
T PF00427_consen 45 ISVREFVRALAKSELYRKRFFEPNSNYRFIELAFKHLLGRAPYNQAEISAYSQILASQGFEAFIDAL 111 (131)
T ss_dssp S-HHHHHHHHHTSHHHHHHHTTTS-HHHHHHHHHHHHCSS--SSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHcCHHHHHHHcccccchHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcChHHHHHHH
Confidence 6788888888888999999998 8899999999999998643 334444 777777664
No 173
>TIGR03761 ICE_PFL4669 integrating conjugative element protein, PFL_4669 family. Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=26.75 E-value=1.4e+02 Score=29.46 Aligned_cols=36 Identities=22% Similarity=0.480 Sum_probs=29.0
Q ss_pred HHHHHHHHHHcccCCCChhHHHHHHHHHHHHHHhcC
Q 014241 338 LRLVVHVAKQYQGRGISLHDLLQGSMGLMKSVEKFK 373 (428)
Q Consensus 338 LrLV~sIAkrY~~rGld~eDLIQG~IGLikAVekFD 373 (428)
++-|..++.+|+..|++.+|+..++----+|+++|-
T Consensus 158 vR~vf~~~~~yr~~gvtR~D~~~~n~~a~~Aie~~G 193 (216)
T TIGR03761 158 IRRLFGLAQRYRHSGVTRDDFAANNARARKAIERFG 193 (216)
T ss_pred HHHHHHHHHhhhcCCCCHHHHHhCCHHHHHHHHHcC
Confidence 445677889999999999999886666668999984
No 174
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=26.33 E-value=68 Score=26.99 Aligned_cols=25 Identities=24% Similarity=0.452 Sum_probs=18.8
Q ss_pred CCCCcHHHHHHHhcCCHHHHHHHhh
Q 014241 300 GREPTLIEWAKAIGLSCRDLKSELH 324 (428)
Q Consensus 300 Gr~Pt~~ewA~a~g~s~~eL~~~l~ 324 (428)
|++.+..+.|.+.|.+.+++...+.
T Consensus 36 G~PVt~~~LA~a~g~~~e~v~~~L~ 60 (77)
T PF12324_consen 36 GQPVTVEQLAAALGWPVEEVRAALA 60 (77)
T ss_dssp TS-B-HHHHHHHHT--HHHHHHHHH
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 9999999999999999998887765
No 175
>PRK13239 alkylmercury lyase; Provisional
Probab=25.26 E-value=99 Score=30.29 Aligned_cols=27 Identities=22% Similarity=0.395 Sum_probs=23.8
Q ss_pred hCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014241 299 FGREPTLIEWAKAIGLSCRDLKSELHS 325 (428)
Q Consensus 299 lGr~Pt~~ewA~a~g~s~~eL~~~l~~ 325 (428)
.|++|+..+.|++.|.+.+++++.++.
T Consensus 33 ~G~pvt~~~lA~~~~~~~~~v~~~L~~ 59 (206)
T PRK13239 33 KGRPVSVTTLAAALGWPVEEVEAVLEA 59 (206)
T ss_pred cCCCCCHHHHHHHhCCCHHHHHHHHHh
Confidence 499999999999999999998876664
No 176
>KOG0030 consensus Myosin essential light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=23.35 E-value=3.8e+02 Score=25.30 Aligned_cols=71 Identities=20% Similarity=0.200 Sum_probs=45.9
Q ss_pred hhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCChhHHHHHHHHHHHHHHhcCCCCC
Q 014241 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQGSMGLMKSVEKFKPQAG 377 (428)
Q Consensus 298 ~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLrLV~sIAkrY~~rGld~eDLIQG~IGLikAVekFDpskG 377 (428)
.+|..||.++.-...|--... -...+.-=++.++|+.-.+|++ ..+..++| +++++.-||.+..
T Consensus 39 alG~nPT~aeV~k~l~~~~~~-------~~~~~rl~FE~fLpm~q~vakn--k~q~t~ed-------fvegLrvFDkeg~ 102 (152)
T KOG0030|consen 39 ALGQNPTNAEVLKVLGQPKRR-------EMNVKRLDFEEFLPMYQQVAKN--KDQGTYED-------FVEGLRVFDKEGN 102 (152)
T ss_pred HhcCCCcHHHHHHHHcCcccc-------hhhhhhhhHHHHHHHHHHHHhc--cccCcHHH-------HHHHHHhhcccCC
Confidence 358888877766555431100 0012334578899999999998 56678888 4577899997654
Q ss_pred CchhcHHH
Q 014241 378 CRFASYAY 385 (428)
Q Consensus 378 ~rFSTYA~ 385 (428)
-+..||.
T Consensus 103 -G~i~~ae 109 (152)
T KOG0030|consen 103 -GTIMGAE 109 (152)
T ss_pred -cceeHHH
Confidence 4555554
No 177
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=22.63 E-value=2.7e+02 Score=27.76 Aligned_cols=24 Identities=13% Similarity=0.178 Sum_probs=20.6
Q ss_pred hCCCCcHHHHHHHhcCCHHHHHHH
Q 014241 299 FGREPTLIEWAKAIGLSCRDLKSE 322 (428)
Q Consensus 299 lGr~Pt~~ewA~a~g~s~~eL~~~ 322 (428)
.+++|+.+|.|+..|++.+++...
T Consensus 148 ~~~~~t~~eiA~~l~~~~~~v~~~ 171 (284)
T PRK06596 148 WLNPEEVEMVAEELGVSEEEVREM 171 (284)
T ss_pred cCCCCCHHHHHHHhCcCHHHHHHH
Confidence 359999999999999998888654
No 178
>PF15545 Toxin_67: Putative toxin 67
Probab=22.38 E-value=80 Score=26.12 Aligned_cols=36 Identities=19% Similarity=0.222 Sum_probs=27.0
Q ss_pred hhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHH
Q 014241 380 FASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPI 415 (428)
Q Consensus 380 FSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~r 415 (428)
-+.+..-||++.|.+.-+.....||+|....-.-.+
T Consensus 7 q~~~vRGwiknEi~~i~~~~r~~iRlPpG~~LAH~r 42 (70)
T PF15545_consen 7 QPSWVRGWIKNEINRIKTGRRKSIRLPPGKELAHWR 42 (70)
T ss_pred chHHHHHHHHHHHHHHHhCccceecCCCchhhhhhh
Confidence 345668899999999888888899999765443333
No 179
>PRK09480 slmA division inhibitor protein; Provisional
Probab=21.88 E-value=5.6e+02 Score=22.67 Aligned_cols=44 Identities=25% Similarity=0.151 Sum_probs=31.7
Q ss_pred HhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHH
Q 014241 296 QSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLR 339 (428)
Q Consensus 296 ~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~~Are~LI~~nLr 339 (428)
..+-|...|..+.|+.+|++...+-.--.+-++....++..+..
T Consensus 24 ~~~~G~~~ti~~Ia~~agvs~gt~Y~~F~~K~~L~~~v~~~~~~ 67 (194)
T PRK09480 24 ESPPGERITTAKLAARVGVSEAALYRHFPSKARMFEGLIEFIEE 67 (194)
T ss_pred HhcCCCccCHHHHHHHhCCCHhHHHHHCCCHHHHHHHHHHHHHH
Confidence 34446788999999999999888877777655555555555444
No 180
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=21.84 E-value=82 Score=23.94 Aligned_cols=44 Identities=27% Similarity=0.493 Sum_probs=28.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccH
Q 014241 267 RKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327 (428)
Q Consensus 267 ~~LLT~EEE~eL~~~Iq~l~~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G~ 327 (428)
...||.+|-.+++..+.. | ++..+.|...|+...++...++.-+
T Consensus 4 R~~LTl~eK~~iI~~~e~---------------g--~s~~~ia~~fgv~~sTv~~I~K~k~ 47 (53)
T PF04218_consen 4 RKSLTLEEKLEIIKRLEE---------------G--ESKRDIAREFGVSRSTVSTILKNKD 47 (53)
T ss_dssp SSS--HHHHHHHHHHHHC---------------T--T-HHHHHHHHT--CCHHHHHHHCHH
T ss_pred CccCCHHHHHHHHHHHHc---------------C--CCHHHHHHHhCCCHHHHHHHHHhHH
Confidence 356899998888887665 3 3788888889988888877776543
No 181
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=20.60 E-value=3.8e+02 Score=22.42 Aligned_cols=37 Identities=19% Similarity=0.211 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhcc
Q 014241 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326 (428)
Q Consensus 287 ~Le~~~~~L~~~lGr~Pt~~ewA~a~g~s~~eL~~~l~~G 326 (428)
+++.+.+-|.. | .++..+.|+.+|++...+.+.+..+
T Consensus 7 R~~~I~e~l~~--~-~~ti~dvA~~~gvS~~TVsr~L~~~ 43 (80)
T TIGR02844 7 RVLEIGKYIVE--T-KATVRETAKVFGVSKSTVHKDVTER 43 (80)
T ss_pred HHHHHHHHHHH--C-CCCHHHHHHHhCCCHHHHHHHhcCC
Confidence 34445555555 5 4789999999999999999998865
No 182
>PF13232 Complex1_LYR_1: Complex1_LYR-like
Probab=20.44 E-value=3.1e+02 Score=20.81 Aligned_cols=52 Identities=19% Similarity=0.241 Sum_probs=31.7
Q ss_pred HHHHHHHHhcCCCCCCchhcHHHHHHHHHHHHHHHhcCCCcccchhHHHhhHHHHHHHHH
Q 014241 363 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYV 422 (428)
Q Consensus 363 IGLikAVekFDpskG~rFSTYA~~wIR~aI~raIr~qsr~IRlP~~~~e~l~ri~r~~~~ 422 (428)
-.|++....|- +. .|-+|+..+||.... .+ ..+.=|..+...+.+..+.+..
T Consensus 8 R~lLR~~~~~~-~~--~~r~~~~~~ir~~Fr----~~-~~~td~~~i~~~l~~~~~~L~~ 59 (61)
T PF13232_consen 8 RQLLREASKFP-DY--NFRSYFRRRIRDRFR----RN-KNVTDPEKIAKLLKEGRKELEL 59 (61)
T ss_pred HHHHHHhhhcC-Cc--chHHHHHHHHHHHHH----Hc-CCCCCHHHHHHHHHHHHHHHHH
Confidence 35666666653 21 233777777777665 33 3466688888887766665543
No 183
>PHA00657 crystallin beta/gamma motif-containing protein
Probab=20.06 E-value=2.8e+02 Score=34.45 Aligned_cols=67 Identities=19% Similarity=0.313 Sum_probs=42.2
Q ss_pred HHHHhHHHHHHHHHHcccCCCChhHHHHHHHHHHHHHHhcCCCCCCchh------cHHHHHHHHHHHHHHHhcCCCcccc
Q 014241 333 LINANLRLVVHVAKQYQGRGISLHDLLQGSMGLMKSVEKFKPQAGCRFA------SYAYWWVRQTIRKAIFQHSRTIRLP 406 (428)
Q Consensus 333 LI~~nLrLV~sIAkrY~~rGld~eDLIQG~IGLikAVekFDpskG~rFS------TYA~~wIR~aI~raIr~qsr~IRlP 406 (428)
-|+.+++++.+++.+..+.|.||-|-+-|. +++||..+|.... .|+. ||+ .++++.+..-+|
T Consensus 1257 evek~~~~l~k~~~~~k~~~~Dy~dqi~~l------Lek~d~rk~~Sl~~vdrr~~la~-~Le-----~q~eag~d~~ip 1324 (2052)
T PHA00657 1257 EVERGLRYLGKFAGDIKGIDVDYADQIANL------LERFDLRKGQSLKAVDKRTALAD-WLR-----SQREAGFEPDIP 1324 (2052)
T ss_pred HHHHHHHHHHHhcCccccCCccHHHHHHHH------HHHhcccccchhHHHhhHhhHHH-HHH-----HHHhcCCCCCCh
Confidence 467788888888888778889988844354 4678887766433 3333 333 344555565666
Q ss_pred hhHHH
Q 014241 407 VMTFN 411 (428)
Q Consensus 407 ~~~~e 411 (428)
..+..
T Consensus 1325 ael~n 1329 (2052)
T PHA00657 1325 AELEN 1329 (2052)
T ss_pred HHHHH
Confidence 55443
Done!