Query 016759
Match_columns 383
No_of_seqs 257 out of 1507
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 02:33:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016759.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016759hhsearch_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 4.6E-38 1E-42 319.0 19.5 162 220-381 57-261 (415)
2 TIGR02997 Sig70-cyanoRpoD RNA 100.0 1.9E-35 4.1E-40 286.2 19.0 157 225-381 3-160 (298)
3 PRK07406 RNA polymerase sigma 100.0 5.1E-35 1.1E-39 293.5 18.6 159 223-381 63-222 (373)
4 PRK05949 RNA polymerase sigma 100.0 2.1E-34 4.6E-39 284.1 20.1 159 223-381 18-177 (327)
5 PRK07405 RNA polymerase sigma 100.0 1.3E-33 2.9E-38 276.8 19.5 159 223-381 8-167 (317)
6 PRK05901 RNA polymerase sigma 100.0 4.6E-32 1E-36 281.2 13.4 147 222-381 210-357 (509)
7 COG0568 RpoD DNA-directed RNA 100.0 7.4E-32 1.6E-36 267.6 13.4 161 222-382 8-189 (342)
8 PRK07921 RNA polymerase sigma 100.0 9.2E-30 2E-34 251.1 15.4 146 223-381 26-172 (324)
9 PRK05658 RNA polymerase sigma 99.9 1E-25 2.2E-30 238.3 14.8 108 275-382 353-467 (619)
10 PRK09210 RNA polymerase sigma 99.9 7.6E-25 1.6E-29 218.9 13.9 120 222-381 95-215 (367)
11 PRK07122 RNA polymerase sigma 99.9 5.5E-25 1.2E-29 210.6 10.9 87 295-381 40-126 (264)
12 TIGR02393 RpoD_Cterm RNA polym 99.9 6.9E-23 1.5E-27 192.0 9.8 86 296-381 1-86 (238)
13 TIGR02392 rpoH_proteo alternat 99.9 3.2E-22 6.9E-27 191.4 13.1 84 295-378 35-118 (270)
14 PRK07500 rpoH2 RNA polymerase 99.9 5.3E-22 1.2E-26 192.5 13.5 119 222-379 5-124 (289)
15 PRK06596 RNA polymerase factor 99.9 7.1E-22 1.5E-26 191.0 13.3 84 295-378 48-131 (284)
16 PRK07408 RNA polymerase sigma 99.9 1.1E-21 2.5E-26 186.5 11.6 91 291-381 20-112 (256)
17 COG1191 FliA DNA-directed RNA 99.8 3.9E-20 8.4E-25 177.4 10.7 95 284-380 12-108 (247)
18 PRK05657 RNA polymerase sigma 99.8 1.6E-19 3.4E-24 178.3 13.2 120 221-381 51-172 (325)
19 PRK05911 RNA polymerase sigma 99.8 1.1E-19 2.4E-24 173.1 11.8 85 294-381 22-109 (257)
20 TIGR02850 spore_sigG RNA polym 99.8 2E-18 4.3E-23 163.6 12.9 86 295-381 34-119 (254)
21 TIGR02980 SigBFG RNA polymeras 99.7 8.1E-18 1.8E-22 155.7 10.9 87 294-380 2-88 (227)
22 PRK08215 sporulation sigma fac 99.7 9.2E-18 2E-22 159.2 11.3 94 286-380 27-121 (258)
23 TIGR02885 spore_sigF RNA polym 99.7 2.4E-17 5.1E-22 153.2 10.6 92 289-381 4-96 (231)
24 TIGR02941 Sigma_B RNA polymera 99.7 5.9E-17 1.3E-21 153.0 11.8 98 283-380 15-114 (255)
25 TIGR02394 rpoS_proteo RNA poly 99.7 5.8E-17 1.3E-21 156.1 11.5 99 283-381 33-132 (285)
26 TIGR02895 spore_sigI RNA polym 99.7 9.7E-17 2.1E-21 151.3 9.3 90 289-378 3-97 (218)
27 PRK06288 RNA polymerase sigma 99.7 6.9E-16 1.5E-20 147.4 13.0 84 295-381 31-117 (268)
28 PRK08583 RNA polymerase sigma 99.6 8.6E-16 1.9E-20 145.3 11.7 97 283-379 15-113 (257)
29 PRK12427 flagellar biosynthesi 99.6 2.5E-15 5.5E-20 141.4 10.4 80 296-379 16-98 (231)
30 PRK07670 RNA polymerase sigma 99.6 4.3E-15 9.4E-20 140.4 11.1 95 283-380 8-107 (251)
31 PRK05572 sporulation sigma fac 99.6 1E-14 2.2E-19 138.0 11.7 96 284-380 20-116 (252)
32 TIGR02479 FliA_WhiG RNA polyme 99.6 7.9E-15 1.7E-19 135.9 9.0 77 300-379 1-80 (224)
33 PRK06986 fliA flagellar biosyn 99.5 3.7E-14 8E-19 132.6 10.1 84 292-378 5-91 (236)
34 PRK05803 sporulation sigma fac 99.5 4.2E-13 9.1E-18 125.5 14.2 115 245-369 8-123 (233)
35 TIGR02846 spore_sigmaK RNA pol 99.3 4.1E-11 8.9E-16 111.9 14.2 113 248-369 9-122 (227)
36 PRK08311 putative RNA polymera 99.3 1.5E-11 3.2E-16 117.4 11.0 92 282-373 4-98 (237)
37 PF04542 Sigma70_r2: Sigma-70 99.3 1.1E-11 2.3E-16 93.7 7.7 70 300-369 1-70 (71)
38 PRK08295 RNA polymerase factor 99.3 2.8E-11 6.1E-16 109.5 10.6 91 280-370 8-99 (208)
39 PRK08301 sporulation sigma fac 99.2 4.1E-11 8.8E-16 111.7 10.6 87 283-369 39-126 (234)
40 TIGR02859 spore_sigH RNA polym 99.2 1E-10 2.3E-15 104.9 10.2 87 281-367 4-91 (198)
41 TIGR02835 spore_sigmaE RNA pol 99.2 1.5E-10 3.2E-15 108.6 10.7 87 283-369 39-126 (234)
42 TIGR02937 sigma70-ECF RNA poly 99.0 1.2E-09 2.5E-14 90.9 8.2 72 296-369 2-73 (158)
43 PRK09652 RNA polymerase sigma 99.0 1.1E-09 2.5E-14 95.7 8.2 81 289-371 3-84 (182)
44 PRK05602 RNA polymerase sigma 99.0 1.7E-09 3.6E-14 96.9 9.4 88 281-369 5-93 (186)
45 PRK12513 RNA polymerase sigma 99.0 2.8E-09 6.2E-14 96.0 9.9 91 281-373 11-102 (194)
46 PRK09646 RNA polymerase sigma 98.9 3.6E-09 7.9E-14 95.9 9.4 87 282-369 16-103 (194)
47 TIGR02948 SigW_bacill RNA poly 98.9 4.4E-09 9.6E-14 93.4 9.1 85 283-369 5-90 (187)
48 PRK09641 RNA polymerase sigma 98.9 4.6E-09 1E-13 93.2 9.1 86 282-369 4-90 (187)
49 PRK13919 putative RNA polymera 98.9 5.1E-09 1.1E-13 93.5 9.3 88 281-369 8-96 (186)
50 PRK09648 RNA polymerase sigma 98.9 7.7E-09 1.7E-13 92.9 10.2 88 283-371 11-103 (189)
51 PRK06811 RNA polymerase factor 98.9 7.7E-09 1.7E-13 93.4 10.2 90 281-371 3-96 (189)
52 PRK09640 RNA polymerase sigma 98.9 1.7E-08 3.7E-13 90.9 10.5 88 280-369 7-98 (188)
53 PRK09638 RNA polymerase sigma 98.8 2.1E-08 4.5E-13 88.6 9.5 88 281-370 3-91 (176)
54 PRK06759 RNA polymerase factor 98.8 1.9E-08 4.1E-13 86.8 8.7 72 295-368 4-75 (154)
55 TIGR02952 Sig70_famx2 RNA poly 98.8 2.3E-08 5.1E-13 87.3 9.2 85 287-372 2-87 (170)
56 PRK12519 RNA polymerase sigma 98.8 2.2E-08 4.7E-13 90.1 8.9 86 282-369 15-101 (194)
57 PRK11922 RNA polymerase sigma 98.8 3.1E-08 6.8E-13 92.7 10.2 91 281-373 15-106 (231)
58 PRK12524 RNA polymerase sigma 98.8 2.6E-08 5.7E-13 90.4 9.1 89 280-369 10-99 (196)
59 PRK11923 algU RNA polymerase s 98.8 3.7E-08 7.9E-13 88.6 9.9 87 282-370 6-93 (193)
60 TIGR02954 Sig70_famx3 RNA poly 98.8 4.9E-08 1.1E-12 86.0 10.0 88 281-370 1-89 (169)
61 TIGR02939 RpoE_Sigma70 RNA pol 98.8 5.8E-08 1.3E-12 86.4 10.3 87 282-370 6-93 (190)
62 PRK12514 RNA polymerase sigma 98.7 3.8E-08 8.3E-13 87.5 8.9 87 282-369 5-92 (179)
63 PRK12526 RNA polymerase sigma 98.7 5.9E-08 1.3E-12 89.2 9.6 86 284-370 26-112 (206)
64 PRK11924 RNA polymerase sigma 98.7 8.1E-08 1.8E-12 83.8 9.7 84 286-371 3-87 (179)
65 PRK12534 RNA polymerase sigma 98.7 7.2E-08 1.6E-12 86.3 8.1 86 283-369 12-98 (187)
66 PRK09643 RNA polymerase sigma 98.7 1.7E-07 3.8E-12 85.1 10.6 88 281-370 12-100 (192)
67 PRK12537 RNA polymerase sigma 98.6 1.4E-07 3E-12 84.6 9.3 89 281-370 8-97 (182)
68 PRK12531 RNA polymerase sigma 98.6 1E-07 2.2E-12 86.4 8.4 86 283-369 14-100 (194)
69 PRK12538 RNA polymerase sigma 98.6 1.5E-07 3.2E-12 89.1 9.4 87 281-368 48-135 (233)
70 PRK12515 RNA polymerase sigma 98.6 2.2E-07 4.7E-12 83.7 9.1 88 280-369 6-94 (189)
71 PRK12536 RNA polymerase sigma 98.6 2.8E-07 6.1E-12 82.5 9.3 85 283-369 8-94 (181)
72 TIGR02984 Sig-70_plancto1 RNA 98.5 2.8E-07 6.1E-12 81.8 8.2 73 295-367 7-83 (189)
73 PRK12512 RNA polymerase sigma 98.5 7.4E-07 1.6E-11 79.6 10.3 87 284-372 10-101 (184)
74 TIGR02989 Sig-70_gvs1 RNA poly 98.5 4.6E-07 9.9E-12 78.5 8.6 73 296-370 2-74 (159)
75 PRK12539 RNA polymerase sigma 98.5 7.3E-07 1.6E-11 80.1 10.0 85 283-369 8-97 (184)
76 TIGR02985 Sig70_bacteroi1 RNA 98.5 3.1E-07 6.7E-12 78.6 7.1 73 296-370 2-74 (161)
77 PRK12522 RNA polymerase sigma 98.4 9.3E-07 2E-11 78.4 8.3 73 296-370 4-76 (173)
78 PRK12518 RNA polymerase sigma 98.4 1.1E-06 2.3E-11 77.6 8.0 78 288-368 3-81 (175)
79 PRK12543 RNA polymerase sigma 98.3 1.8E-06 3.9E-11 77.2 7.9 72 295-368 7-78 (179)
80 TIGR02999 Sig-70_X6 RNA polyme 98.3 2.5E-06 5.4E-11 75.8 8.1 84 283-368 4-94 (183)
81 PRK12542 RNA polymerase sigma 98.3 1.3E-06 2.9E-11 78.3 6.4 75 295-369 9-83 (185)
82 COG1595 RpoE DNA-directed RNA 98.3 6E-06 1.3E-10 74.2 10.0 81 290-372 10-90 (182)
83 PRK09415 RNA polymerase factor 98.2 4.6E-06 9.9E-11 74.8 8.5 74 294-369 15-88 (179)
84 TIGR03001 Sig-70_gmx1 RNA poly 98.2 7.7E-06 1.7E-10 78.2 10.2 89 280-370 23-119 (244)
85 PRK09649 RNA polymerase sigma 98.2 7.5E-06 1.6E-10 74.0 8.4 84 283-369 11-95 (185)
86 PRK08241 RNA polymerase factor 98.2 9E-06 1.9E-10 79.8 9.4 84 284-369 7-91 (339)
87 TIGR02983 SigE-fam_strep RNA p 98.2 7.2E-06 1.6E-10 71.5 7.7 74 294-369 5-78 (162)
88 PRK09639 RNA polymerase sigma 98.1 1.1E-05 2.3E-10 70.5 7.9 73 295-371 3-75 (166)
89 PRK12547 RNA polymerase sigma 98.1 1.3E-05 2.9E-10 70.7 8.4 73 295-369 6-78 (164)
90 PRK09644 RNA polymerase sigma 98.1 1.6E-05 3.5E-10 69.9 8.4 71 297-370 3-73 (165)
91 PRK12541 RNA polymerase sigma 98.1 1.6E-05 3.4E-10 69.6 8.2 72 295-369 5-76 (161)
92 PRK12520 RNA polymerase sigma 98.0 1.6E-05 3.5E-10 71.7 7.8 75 296-372 3-77 (191)
93 PRK09645 RNA polymerase sigma 98.0 2.3E-05 5E-10 69.2 8.2 75 294-369 8-82 (173)
94 TIGR02947 SigH_actino RNA poly 98.0 2E-05 4.3E-10 71.2 8.0 74 295-370 11-84 (193)
95 PRK12535 RNA polymerase sigma 98.0 3.9E-05 8.4E-10 70.4 9.3 83 284-369 13-96 (196)
96 TIGR02943 Sig70_famx1 RNA poly 97.9 3.1E-05 6.6E-10 70.3 7.5 71 298-370 5-75 (188)
97 PRK12528 RNA polymerase sigma 97.9 4.1E-05 8.9E-10 67.0 7.8 71 295-368 4-74 (161)
98 PRK12516 RNA polymerase sigma 97.9 5.4E-05 1.2E-09 68.9 8.6 75 294-370 9-83 (187)
99 PRK09637 RNA polymerase sigma 97.9 6E-05 1.3E-09 68.1 8.8 76 297-374 3-78 (181)
100 TIGR02960 SigX5 RNA polymerase 97.9 4.6E-05 9.9E-10 74.0 8.5 73 295-369 5-77 (324)
101 PRK09647 RNA polymerase sigma 97.9 4.8E-05 1E-09 70.4 8.1 72 295-369 28-99 (203)
102 TIGR02950 SigM_subfam RNA poly 97.9 3E-05 6.5E-10 66.8 6.4 66 302-370 2-67 (154)
103 PRK12532 RNA polymerase sigma 97.9 4E-05 8.7E-10 69.3 7.3 71 298-370 8-79 (195)
104 PRK12533 RNA polymerase sigma 97.8 8.4E-05 1.8E-09 69.8 9.1 75 292-369 15-89 (216)
105 TIGR02959 SigZ RNA polymerase 97.8 6.6E-05 1.4E-09 66.9 7.3 71 302-374 2-72 (170)
106 PRK12523 RNA polymerase sigma 97.7 6.7E-05 1.5E-09 66.6 6.3 75 291-368 5-80 (172)
107 PRK09642 RNA polymerase sigma 97.7 5E-05 1.1E-09 66.2 5.3 65 302-369 2-66 (160)
108 PRK12544 RNA polymerase sigma 97.7 0.00015 3.3E-09 67.2 8.0 72 297-370 20-91 (206)
109 PRK12545 RNA polymerase sigma 97.7 0.00015 3.2E-09 66.5 7.6 70 299-370 12-81 (201)
110 PRK12540 RNA polymerase sigma 97.6 0.00022 4.7E-09 64.7 8.2 73 296-370 6-78 (182)
111 PRK12517 RNA polymerase sigma 97.6 0.00025 5.4E-09 64.5 8.5 76 290-367 18-93 (188)
112 PRK12546 RNA polymerase sigma 97.6 0.00031 6.7E-09 64.2 8.7 71 296-369 9-79 (188)
113 PRK12529 RNA polymerase sigma 97.6 0.00019 4.1E-09 64.4 7.1 75 294-368 12-88 (178)
114 PRK12530 RNA polymerase sigma 97.5 0.0003 6.4E-09 63.8 7.4 71 298-370 10-80 (189)
115 PRK07037 extracytoplasmic-func 97.5 0.00032 7E-09 61.2 6.7 68 299-369 2-69 (163)
116 PRK09651 RNA polymerase sigma 97.4 0.00061 1.3E-08 60.7 7.9 72 294-368 9-80 (172)
117 PRK12511 RNA polymerase sigma 97.3 0.00076 1.6E-08 61.2 7.4 73 296-370 5-77 (182)
118 PRK12527 RNA polymerase sigma 97.1 0.0012 2.6E-08 57.6 6.0 64 302-368 2-65 (159)
119 PRK12525 RNA polymerase sigma 97.0 0.003 6.4E-08 56.0 8.0 70 295-367 9-78 (168)
120 PRK09636 RNA polymerase sigma 97.0 0.0018 3.9E-08 62.9 6.7 69 296-368 5-73 (293)
121 TIGR02957 SigX4 RNA polymerase 96.8 0.0022 4.7E-08 62.1 6.1 66 299-368 1-66 (281)
122 PRK09191 two-component respons 96.6 0.0065 1.4E-07 56.1 6.9 63 296-360 2-64 (261)
123 PF00140 Sigma70_r1_2: Sigma-7 96.5 0.0013 2.8E-08 46.2 1.7 34 223-256 2-36 (37)
124 PRK06704 RNA polymerase factor 96.5 0.0079 1.7E-07 57.5 7.3 69 295-369 18-86 (228)
125 PRK09635 sigI RNA polymerase s 96.4 0.0066 1.4E-07 59.6 6.5 68 296-367 6-73 (290)
126 PF07638 Sigma70_ECF: ECF sigm 96.1 0.015 3.3E-07 53.0 6.8 90 283-372 4-99 (185)
127 PF12645 HTH_16: Helix-turn-he 96.1 0.023 5E-07 44.7 6.5 56 286-341 3-65 (65)
128 TIGR03209 P21_Cbot clostridium 96.0 0.021 4.6E-07 49.0 6.7 65 298-369 2-71 (142)
129 PF04539 Sigma70_r3: Sigma-70 95.0 0.066 1.4E-06 41.9 5.8 40 252-291 3-42 (78)
130 PRK09047 RNA polymerase factor 94.9 0.05 1.1E-06 47.1 5.3 47 320-369 5-51 (161)
131 PHA02547 55 RNA polymerase sig 89.3 1.3 2.9E-05 41.4 6.9 64 304-367 46-112 (179)
132 PRK05658 RNA polymerase sigma 74.0 3.5 7.6E-05 44.9 4.0 32 223-254 104-136 (619)
133 COG1191 FliA DNA-directed RNA 73.7 7.6 0.00017 38.1 5.9 41 253-293 110-150 (247)
134 PRK07122 RNA polymerase sigma 65.7 14 0.0003 35.8 5.8 38 254-291 128-165 (264)
135 TIGR02850 spore_sigG RNA polym 61.9 22 0.00048 33.9 6.3 39 254-292 121-159 (254)
136 TIGR02393 RpoD_Cterm RNA polym 60.3 26 0.00057 33.0 6.5 37 254-290 88-124 (238)
137 PRK07408 RNA polymerase sigma 59.9 26 0.00057 33.6 6.5 37 253-289 113-149 (256)
138 PRK14082 hypothetical protein; 57.5 37 0.00081 27.2 5.7 55 296-352 10-64 (65)
139 PRK12427 flagellar biosynthesi 56.1 30 0.00064 32.9 6.1 38 254-291 102-139 (231)
140 PRK07921 RNA polymerase sigma 56.0 30 0.00065 34.9 6.4 39 252-290 172-210 (324)
141 PRK05911 RNA polymerase sigma 55.9 28 0.00061 33.5 6.0 37 254-290 111-147 (257)
142 PRK09210 RNA polymerase sigma 52.0 34 0.00073 35.0 6.1 38 254-291 217-254 (367)
143 PRK07670 RNA polymerase sigma 46.5 50 0.0011 31.4 6.0 38 254-291 110-147 (251)
144 PRK05901 RNA polymerase sigma 45.6 46 0.00099 36.0 6.1 39 253-291 358-396 (509)
145 TIGR02885 spore_sigF RNA polym 45.5 53 0.0012 30.6 5.9 37 255-291 99-135 (231)
146 PRK07406 RNA polymerase sigma 44.9 50 0.0011 34.2 6.1 39 252-290 222-260 (373)
147 TIGR02479 FliA_WhiG RNA polyme 44.7 59 0.0013 30.2 6.0 37 254-290 84-120 (224)
148 PRK05949 RNA polymerase sigma 42.9 57 0.0012 32.9 6.0 37 254-290 179-215 (327)
149 TIGR03826 YvyF flagellar opero 41.3 66 0.0014 29.1 5.5 40 255-294 32-71 (137)
150 PRK06288 RNA polymerase sigma 41.1 69 0.0015 30.8 6.1 37 254-290 119-155 (268)
151 PRK08215 sporulation sigma fac 38.5 87 0.0019 29.9 6.3 36 255-290 125-160 (258)
152 PRK07598 RNA polymerase sigma 38.5 72 0.0016 33.7 6.1 40 252-291 261-300 (415)
153 TIGR01446 DnaD_dom DnaD and ph 37.0 95 0.0021 23.8 5.2 58 263-324 6-70 (73)
154 PRK07405 RNA polymerase sigma 36.0 87 0.0019 31.4 6.1 39 253-291 168-206 (317)
155 KOG0917 Uncharacterized conser 35.2 34 0.00073 34.7 2.9 84 45-144 10-94 (338)
156 PRK11511 DNA-binding transcrip 34.4 63 0.0014 27.7 4.2 40 253-292 9-48 (127)
157 TIGR02997 Sig70-cyanoRpoD RNA 32.1 1.1E+02 0.0024 30.0 6.1 39 253-291 161-199 (298)
158 PF01726 LexA_DNA_bind: LexA D 29.9 1.8E+02 0.004 22.7 5.7 19 264-282 20-38 (65)
159 TIGR02980 SigBFG RNA polymeras 29.1 1.2E+02 0.0026 28.1 5.4 34 257-290 94-127 (227)
160 COG0568 RpoD DNA-directed RNA 27.5 1.5E+02 0.0033 30.6 6.2 39 252-290 188-226 (342)
161 PF15545 Toxin_67: Putative to 26.0 74 0.0016 25.8 2.9 31 347-377 6-36 (70)
162 PRK05572 sporulation sigma fac 25.0 1.8E+02 0.004 27.6 6.0 35 254-288 119-153 (252)
163 PRK10219 DNA-binding transcrip 24.6 1.8E+02 0.0038 23.8 5.1 38 255-292 7-44 (107)
164 PRK07500 rpoH2 RNA polymerase 24.3 1.4E+02 0.003 29.4 5.1 24 265-288 144-167 (289)
165 TIGR02941 Sigma_B RNA polymera 22.0 1.8E+02 0.004 27.5 5.4 36 255-290 118-153 (255)
166 PRK06986 fliA flagellar biosyn 21.5 2.5E+02 0.0055 26.2 6.1 36 255-290 97-132 (236)
167 smart00342 HTH_ARAC helix_turn 21.4 2.4E+02 0.0051 20.7 4.9 23 270-292 2-24 (84)
168 cd06919 Asp_decarbox Aspartate 20.1 8.9 0.00019 33.6 -3.6 32 323-354 29-60 (111)
169 PRK05449 aspartate alpha-decar 20.0 9 0.00019 34.3 -3.7 32 323-354 30-61 (126)
No 1
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=100.00 E-value=4.6e-38 Score=318.99 Aligned_cols=162 Identities=32% Similarity=0.529 Sum_probs=149.6
Q ss_pred chhhHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHH--------------------HHHHHHHHHHHhCCcCchHHHHHH
Q 016759 220 PTIFSAERALNSRGR-RLTIARNEAEMSKGVQVVAN--------------------LERIKTTLEKESGKAASLNCWAQA 278 (383)
Q Consensus 220 p~~~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~--------------------Le~~r~~L~~~~gr~pt~~ewA~a 278 (383)
++.+.|+-|++.+|+ ||||++||++|+++||.++. |++++..|.+++|++||..+||.+
T Consensus 57 ~~~d~v~~yl~~igr~~lL~~~eEv~l~~~vq~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~g~~pt~~ewa~~ 136 (415)
T PRK07598 57 RSTDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSLERWAKT 136 (415)
T ss_pred CCCChHHHHHHhcccccCCCHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence 344667777777775 89999999999999999999 899999999999999999999954
Q ss_pred ----------------------cCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHH
Q 016759 279 ----------------------AGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQG 336 (383)
Q Consensus 279 ----------------------~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirA 336 (383)
+|+++++|.+.++.|..|+++||.+|+++|+++|++|.++|++++||||||+||||+|
T Consensus 137 ~~~~~~~l~~~l~~~~~~~~~~~~l~~~eL~~~l~~G~~A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~ra 216 (415)
T PRK07598 137 ADISLADLKPTLAEGKRRWAEIAKLTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERA 216 (415)
T ss_pred hCCcHHHHHHhhhhhhhhhhhhccCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 4566677777788898899999999999999999999999999999999999999999
Q ss_pred HHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 337 AERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 337 iekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
+++|||++|++|+|||+||||++|.+++++++++||+|.|+.+.+
T Consensus 217 vekFDp~rG~rFSTYa~wwIRqaI~r~i~~~srtIrlP~~i~e~l 261 (415)
T PRK07598 217 VEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKL 261 (415)
T ss_pred HHHcCcccCCCHHHHHHHHHHHHHHHHHHHcCCceehhHHHHHHH
Confidence 999999999999999999999999999999999999999998875
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=1.9e-35 Score=286.23 Aligned_cols=157 Identities=36% Similarity=0.628 Sum_probs=149.6
Q ss_pred HHHHhhcCC-CCCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHH
Q 016759 225 AERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKS 303 (383)
Q Consensus 225 v~~~~~~~~-~~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~ 303 (383)
+..|++..+ .|+||++||++|++.++.+..+++.+.+|+++.|++|+..+||+++|+++.+|+..++.|..|+++||..
T Consensus 3 ~~~yl~~~~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~Lv~~ 82 (298)
T TIGR02997 3 VRLYLQEIGRVPLLTPEEEIELARQVQQMMVLEELREELEEQLGREPSKEEWAAAAGLSEAELRQRLRQGQRAKEKMIKA 82 (298)
T ss_pred HHHHHHHccccCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHhhcCCCcHHHHHHhccCCHHHHHHHHhccHHHHHHHHHH
Confidence 345666666 4899999999999999999999999999999999999999999999999999999999998899999999
Q ss_pred hhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 304 TRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 304 nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
|+++|+++|++|.+.|.+++||+|||++|||+|+++|||++|++|+|||+||||++|.++|.+++++||+|.++...+
T Consensus 83 ~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I~r~i~~~~r~vr~p~~~~~~~ 160 (298)
T TIGR02997 83 NLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGITRAIANQSRTIRLPIHITEKL 160 (298)
T ss_pred hHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHHHHHHHhcCCCeeCcHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999987654
No 3
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=100.00 E-value=5.1e-35 Score=293.50 Aligned_cols=159 Identities=33% Similarity=0.646 Sum_probs=152.9
Q ss_pred hHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHH
Q 016759 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELI 301 (383)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI 301 (383)
+.+..|++..++ ||||++||++|+++|+.+..+++.+.+|.+..|++|+..+||+++|++..+|.+++..|..|+++||
T Consensus 63 d~l~~Yl~~i~~~~lLt~eEE~~La~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~Li 142 (373)
T PRK07406 63 DSIRVYLQEIGRIRLLRPDEEIELARKIADLLELEELREQFESELGREPSDKEWAELVDMPLPKFRRRLMLGRRAKEKMV 142 (373)
T ss_pred CHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHhhhccccHHHHHHHHhcCHHHHHHHH
Confidence 446778888885 8999999999999999999999999999999999999999999999999999999999988999999
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
..|+|+|+++|++|.++|.+++||+|||+||||+|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+.+
T Consensus 143 ~~~l~lV~~iA~ry~~~~~~~eDLiQEG~igL~~Ai~kFd~~kg~~FsTYA~wWIRqaI~~~I~~~~r~IRlP~~~~~~~ 222 (373)
T PRK07406 143 QSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI 222 (373)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhcCCceeCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998765
No 4
>PRK05949 RNA polymerase sigma factor; Validated
Probab=100.00 E-value=2.1e-34 Score=284.05 Aligned_cols=159 Identities=36% Similarity=0.591 Sum_probs=152.3
Q ss_pred hHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHH
Q 016759 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELI 301 (383)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI 301 (383)
+.+.-|++..++ ||||++||++|++.|+.++.+++.+..|+..+|+.|+..+||.++++++.+|+..++.|+.|++.||
T Consensus 18 d~~~~yl~~i~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~eL~~~~~~g~~A~~~Li 97 (327)
T PRK05949 18 DMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMSLLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGKRAKQKMI 97 (327)
T ss_pred CHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHhccCCHHHHHHHHHccHHHHHHHH
Confidence 445667777775 8999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
..|+++|+++|++|.+.+.+++||+|||+||||+|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+.+
T Consensus 98 ~~~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I~r~i~~~~r~iRlP~~~~~~~ 177 (327)
T PRK05949 98 EANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKL 177 (327)
T ss_pred HHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHHHHHHHHcCCceeCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998765
No 5
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=100.00 E-value=1.3e-33 Score=276.82 Aligned_cols=159 Identities=31% Similarity=0.547 Sum_probs=152.4
Q ss_pred hHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHH
Q 016759 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELI 301 (383)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI 301 (383)
+.+..|++..++ |+||++||++|++.|+.++.+++++..|.+++|+.|+..+||+++++++.+|+..++.|+.|+++|+
T Consensus 8 ~~~~~yl~~i~~~~lLt~eeE~~La~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~g~~A~~~L~ 87 (317)
T PRK07405 8 DLVRTYLREIGRVPLLTHEEEILYGKQVQRLVALQEIREELAEELGREPTDAEWAKAAKLSEEELRSAIAEGEAAKRKMV 87 (317)
T ss_pred cHHHHHHHHccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHhhhccCCHHHHHHHHhccHHHHHHHH
Confidence 446678887775 8999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
..|+++|+++|++|.+.+.+++||+|||++|||+|+++|||++|++|+|||+||||++|.++|.+++++||+|.|+.+.+
T Consensus 88 ~~~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~~~i~~~~~~ir~p~~~~~~~ 167 (317)
T PRK07405 88 EANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKL 167 (317)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHHHHHHhcCCCccCChHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998755
No 6
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=99.97 E-value=4.6e-32 Score=281.16 Aligned_cols=147 Identities=32% Similarity=0.511 Sum_probs=128.4
Q ss_pred hhHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHH
Q 016759 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREEL 300 (383)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~L 300 (383)
.+.++.|++..++ |+||++||++|+++++.+..++... . ....|+.. ...+|.+.+..|..|+++|
T Consensus 210 ~d~l~~YL~~i~~~~lLt~eEE~~La~~i~~g~~~~~~~---~-------~~~~~~~~---~~~~l~~~~~~g~~Ar~~L 276 (509)
T PRK05901 210 ADPVKAYLKQIGKVKLLNAEEEVELAKRIEAGLYAEELL---A-------EGEKLDPE---LRRDLQWIGRDGKRAKNHL 276 (509)
T ss_pred ccHHHHHHHHhccCCCCCHHHHHHHHHHHHhCCchhhhh---h-------hcccchhh---hhhhhhhhccchHHHHHHH
Confidence 4557788888875 8999999999999999876555422 1 11234322 4577888999999999999
Q ss_pred HHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHH
Q 016759 301 IKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLI 380 (383)
Q Consensus 301 I~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~ 380 (383)
|..|+|||++||++|.++|++++||||||+||||+||++|||++|++|+|||+||||++|.++|+++.|+||||.|+++.
T Consensus 277 I~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~~r~IRvP~~~~e~ 356 (509)
T PRK05901 277 LEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVET 356 (509)
T ss_pred HHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHcCCceecCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred h
Q 016759 381 C 381 (383)
Q Consensus 381 i 381 (383)
+
T Consensus 357 i 357 (509)
T PRK05901 357 I 357 (509)
T ss_pred H
Confidence 5
No 7
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=99.97 E-value=7.4e-32 Score=267.56 Aligned_cols=161 Identities=32% Similarity=0.554 Sum_probs=140.8
Q ss_pred hhHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHH-HhCCcCchH---------------HHHHHcCCCH-
Q 016759 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEK-ESGKAASLN---------------CWAQAAGVSE- 283 (383)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~-~~gr~pt~~---------------ewA~a~gl~~- 283 (383)
.+.+..|+...+. ++++.++|.++...++....+......|.. ..+..|+.. +|+.....++
T Consensus 8 ~d~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Ee 87 (342)
T COG0568 8 ADAVRAYLDEIGRIPLLVREAEVELAKQLEDEQLLVELGEDLTDLKLGREPSERARRPAGRLSFYIRAIEAAPLLTPEEE 87 (342)
T ss_pred hhHHHHHHHHhcchhhhhHHHHHHHHHHHhHhhhhhHHHHHHHhcccccccchhhhhhhhhHHHHHHHHhhhcccChHHH
Confidence 4556777777665 899999999999999988877777777766 667888876 5544444433
Q ss_pred HHHHHHHHhcHH---HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 284 RVLKQHLAFGWY---CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 284 eeL~~~l~~G~~---Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
..|..++..|.. |+.+||.+|++||++||++|.++|+++.||||||+||||+||++|||++||+|||||+||||++|
T Consensus 88 ~~la~~~~~g~~~~~Ak~klv~snLRlVvsIAk~Y~~rGL~~~DLIQEGniGLmkAVekFdp~rG~kFsTYA~wWIrqaI 167 (342)
T COG0568 88 KALARRLKRGERDLDAKKKLVESNLRLVVSIAKKYTGRGLPFLDLIQEGNIGLMKAVEKFDPEKGFKFSTYATWWIRQAI 167 (342)
T ss_pred HHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHhhcCCCcHHHHHhcccHHHHHHHHhcCcccCCcchhHHHHHHHHHH
Confidence 778889999953 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCCccCchhhHHHhh
Q 016759 361 SKMVARHARGIKIPVPLFLICA 382 (383)
Q Consensus 361 ~~~Ir~qsr~IRlP~~~~e~i~ 382 (383)
.++|.++.++||+|.|+++++-
T Consensus 168 ~raI~~q~rtIRipvh~~e~~n 189 (342)
T COG0568 168 TRAIADQARTIRIPVHQVELIN 189 (342)
T ss_pred HHHHHHhcchhhHhHHHHHHHH
Confidence 9999999999999999998874
No 8
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=99.96 E-value=9.2e-30 Score=251.12 Aligned_cols=146 Identities=34% Similarity=0.545 Sum_probs=127.2
Q ss_pred hHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHH
Q 016759 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELI 301 (383)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI 301 (383)
+.+..|++..++ |+||++||++|++.++.+..++.. |+..+|+... ...+|...++.|..|+++||
T Consensus 26 ~~~~~Yl~~i~~~~lLt~eeE~~La~~~~~g~~~~~~-----------~~~~~~~~~~--~~~~l~~~~~~~~~A~~~Lv 92 (324)
T PRK07921 26 DLVRVYLNGIGKTALLTAADEVELAKRIEAGLYAEHL-----------LETRKRLSEA--RKRDLAAVVRDGEAARRHLL 92 (324)
T ss_pred ChHHHHHHHhcccCCCCHHHHHHHHHHHHhhhhhhhh-----------hccccccchh--HHHHHHHHHhcCHHHHHHHH
Confidence 345667777775 899999999999999988776653 2223332111 45688999999999999999
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
..|+++|+++|++|.+.|++++||+|||+||||+|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+.+
T Consensus 93 ~~~~~lV~~iA~r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~~~r~vrlP~~~~~~~ 172 (324)
T PRK07921 93 EANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQV 172 (324)
T ss_pred HHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHcCCCccCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998764
No 9
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=99.93 E-value=1e-25 Score=238.27 Aligned_cols=108 Identities=32% Similarity=0.701 Sum_probs=96.1
Q ss_pred HHHHcCCCHHH---HHHHHHhcH----HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCc
Q 016759 275 WAQAAGVSERV---LKQHLAFGW----YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347 (383)
Q Consensus 275 wA~a~gl~~ee---L~~~l~~G~----~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~r 347 (383)
.....+++.++ +.+.++.|+ .|+++||.+|+|||++||++|.++|++++||||||+||||+||++|||++|++
T Consensus 353 ie~~~~Ls~eElk~l~~~i~~g~~~~~~a~~~Li~~nlrlV~~iA~ky~~~gl~~~DLiQeG~iGL~~Av~kfd~~~G~~ 432 (619)
T PRK05658 353 IEEETGLTIEELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 432 (619)
T ss_pred HHHHhCCCHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhcCccCCCc
Confidence 34445555544 455666775 48899999999999999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHHHHHHHHHcCCCccCchhhHHHhh
Q 016759 348 FSTYVQYWIRKSISKMVARHARGIKIPVPLFLICA 382 (383)
Q Consensus 348 FSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i~ 382 (383)
|+|||+||||++|.++|+++.|+||+|.|+.+.+.
T Consensus 433 FstYA~~wIr~aI~~~i~~~~r~irip~~~~~~~~ 467 (619)
T PRK05658 433 FSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 467 (619)
T ss_pred hHHHhHHHHHHHHHHHHHHcCCceecCHHHHHHHH
Confidence 99999999999999999999999999999987653
No 10
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=99.92 E-value=7.6e-25 Score=218.94 Aligned_cols=120 Identities=35% Similarity=0.609 Sum_probs=108.4
Q ss_pred hhHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHH
Q 016759 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREEL 300 (383)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~L 300 (383)
.++++.|++..++ |+||++||.+|++.++.+ +..|+++|
T Consensus 95 ~d~~~~yl~~i~~~~~l~~~ee~~L~~~~~~G----------------------------------------d~~A~~~L 134 (367)
T PRK09210 95 NDPVRMYLKEIGRVPLLTAEEEIELAKRIEEG----------------------------------------DEEAKQRL 134 (367)
T ss_pred CcHHHHHHHHhhccCCCCHHHHHHHHHHHHhh----------------------------------------HHHHHHHH
Confidence 4567788877774 899999999998755422 12489999
Q ss_pred HHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHHH
Q 016759 301 IKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFLI 380 (383)
Q Consensus 301 I~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~ 380 (383)
|..|+|+|+++|++|.++|.+++||+|||+||||+|+++|||++|++|+|||+|||+++|.++|+++.|.||+|.|++++
T Consensus 135 i~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~irip~~~~~~ 214 (367)
T PRK09210 135 AEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 214 (367)
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCceeccHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred h
Q 016759 381 C 381 (383)
Q Consensus 381 i 381 (383)
+
T Consensus 215 ~ 215 (367)
T PRK09210 215 I 215 (367)
T ss_pred H
Confidence 5
No 11
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=99.92 E-value=5.5e-25 Score=210.62 Aligned_cols=87 Identities=25% Similarity=0.445 Sum_probs=84.2
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
.++++||..|+|||++||++|.++|++++||||+|+|||++|+++|||++|++|+|||+|||+++|.++|+++.++||+|
T Consensus 40 ~~r~~Lv~~~l~LV~~iA~~y~~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~~~~~ir~P 119 (264)
T PRK07122 40 RQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRDNSWSVKVP 119 (264)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHcCCccccC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHh
Q 016759 375 VPLFLIC 381 (383)
Q Consensus 375 ~~~~e~i 381 (383)
.++.+++
T Consensus 120 r~~~~~~ 126 (264)
T PRK07122 120 RRLKELH 126 (264)
T ss_pred HHHHHHH
Confidence 9998764
No 12
>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=99.88 E-value=6.9e-23 Score=191.99 Aligned_cols=86 Identities=41% Similarity=0.831 Sum_probs=83.0
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCch
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPV 375 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~ 375 (383)
|+++||..|+|+|.++|++|.+.|++++||+|||+|||++|+++|||++|++|+|||.||||++|.++++++.+.+|+|.
T Consensus 1 a~~~Li~~~~~lv~~ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~~~~vrip~ 80 (238)
T TIGR02393 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80 (238)
T ss_pred CHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHcCCcEEeCH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHh
Q 016759 376 PLFLIC 381 (383)
Q Consensus 376 ~~~e~i 381 (383)
++.+++
T Consensus 81 ~~~~~~ 86 (238)
T TIGR02393 81 HMVETI 86 (238)
T ss_pred HHHHHH
Confidence 987654
No 13
>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=99.88 E-value=3.2e-22 Score=191.41 Aligned_cols=84 Identities=32% Similarity=0.642 Sum_probs=80.4
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
.|+++||..|+|+|+++|++|.+.+.+.+||+|+|++||++|+++|||++|++|+|||.|||+++|.++|+++.+++|+|
T Consensus 35 ~a~~~Lv~~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~fd~~~~~~FsTYA~~~Ir~~i~~~l~~~~~~ir~p 114 (270)
T TIGR02392 35 DAAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYILRNWRLVKVA 114 (270)
T ss_pred HHHHHHHHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCChHHhhHHHHHHHHHHHHHHcCCceecC
Confidence 49999999999999999999999999999999999999999999999999999999999999999999999987789999
Q ss_pred hhhH
Q 016759 375 VPLF 378 (383)
Q Consensus 375 ~~~~ 378 (383)
.+..
T Consensus 115 ~~~~ 118 (270)
T TIGR02392 115 TTKA 118 (270)
T ss_pred chHH
Confidence 8753
No 14
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=99.87 E-value=5.3e-22 Score=192.48 Aligned_cols=119 Identities=25% Similarity=0.385 Sum_probs=104.1
Q ss_pred hhHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHH
Q 016759 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREEL 300 (383)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~L 300 (383)
++.+..|++...+ |+||+++|.+|.+.++. ..+..|+++|
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 4556778887775 89999999988764320 0123599999
Q ss_pred HHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhHH
Q 016759 301 IKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLFL 379 (383)
Q Consensus 301 I~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e 379 (383)
|..|+|+|+++|++|.+.+.+.+||+|||++|||+|+++|||++|.+|+|||+|||+++|.++|+++.+++|+|.+..+
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 9999999999999999999999999999999999999999999999999999999999999999999999999987543
No 15
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=99.87 E-value=7.1e-22 Score=191.02 Aligned_cols=84 Identities=31% Similarity=0.631 Sum_probs=80.9
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
.|+++||..|+|+|.++|++|.+.+.+.+||+|||++||++|+++|||++|++|+|||+|||+++|.++|+++.++||+|
T Consensus 48 ~a~~~Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~~~FstYA~~~Ir~~i~~~l~~~~~~vr~p 127 (284)
T PRK06596 48 EAAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAVHWIKAEIHEYILRNWRIVKVA 127 (284)
T ss_pred HHHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHcCCeeecc
Confidence 49999999999999999999999999999999999999999999999999999999999999999999999987789999
Q ss_pred hhhH
Q 016759 375 VPLF 378 (383)
Q Consensus 375 ~~~~ 378 (383)
.+..
T Consensus 128 ~~~~ 131 (284)
T PRK06596 128 TTKA 131 (284)
T ss_pred chHH
Confidence 9864
No 16
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=99.86 E-value=1.1e-21 Score=186.50 Aligned_cols=91 Identities=25% Similarity=0.415 Sum_probs=84.7
Q ss_pred HhcH-HHHHHHHHHhhHHHHHHHHHccCC-CCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 291 AFGW-YCREELIKSTRPLVLFLARNYRGL-GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 291 ~~G~-~Are~LI~~nlrLV~~IAkry~~~-gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
..|+ .|+++||..|+|+|+++|++|.+. +.+++||+|+|+||||+|+++|||++|++|+|||+|||+++|.++++++.
T Consensus 20 ~~gd~~a~~~Lv~~~~~lV~~ia~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~~ 99 (256)
T PRK07408 20 QNPSIALRNQLVELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEIQHYLRDKS 99 (256)
T ss_pred HCCCHHHHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHcC
Confidence 3554 499999999999999999999876 67799999999999999999999999999999999999999999999999
Q ss_pred CCccCchhhHHHh
Q 016759 369 RGIKIPVPLFLIC 381 (383)
Q Consensus 369 r~IRlP~~~~e~i 381 (383)
++||+|.++.+.+
T Consensus 100 ~~vr~pr~~~~~~ 112 (256)
T PRK07408 100 PTVRIPRRWQELQ 112 (256)
T ss_pred CeeeeCHHHHHHH
Confidence 9999999987654
No 17
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=99.82 E-value=3.9e-20 Score=177.38 Aligned_cols=95 Identities=34% Similarity=0.527 Sum_probs=87.0
Q ss_pred HHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCC-ChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGI-PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gl-d~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
+.+....+.|+. ++ .||+.|+|||.++|++|.+++. ++|||+|.|+|||++||++|||++|.+|+|||..+|+++|.
T Consensus 12 ~~~~~~~~~g~~~~~-~Li~~ylpLV~~ia~k~~~r~~~~~dDLiqiG~iGLi~Aieryd~~kg~kF~tyA~~~I~Gei~ 90 (247)
T COG1191 12 EKLLEYYAEGDEEAR-RLIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIKAIERYDPSKGTKFSTYAVRRIRGEIL 90 (247)
T ss_pred HHHHHHHHhcCHHHH-HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHHHcCcccCcchHHHHHHHHHHHHH
Confidence 344555666765 88 9999999999999999998887 99999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCccCchhhHHH
Q 016759 362 KMVARHARGIKIPVPLFLI 380 (383)
Q Consensus 362 ~~Ir~qsr~IRlP~~~~e~ 380 (383)
+++|+.+ .+++|+.+.+.
T Consensus 91 d~LR~~~-~v~vpR~~~~~ 108 (247)
T COG1191 91 DYLRKND-SVKVPRSLREL 108 (247)
T ss_pred HHHHhCC-CccCcHHHHHH
Confidence 9999998 99999998876
No 18
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=99.81 E-value=1.6e-19 Score=178.32 Aligned_cols=120 Identities=31% Similarity=0.584 Sum_probs=104.8
Q ss_pred hhhHHHHHhhcCC-CCCCCcHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcH-HHHH
Q 016759 221 TIFSAERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGW-YCRE 298 (383)
Q Consensus 221 ~~~~v~~~~~~~~-~~LLtaeEE~eL~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~-~Are 298 (383)
..+.+..|++..+ .|+||+++|.+|...++ .|+ .|++
T Consensus 51 ~~~~~~~y~~~~~~~~~l~~~ee~~li~~~~-----------------------------------------~Gd~~A~~ 89 (325)
T PRK05657 51 VLDATQLYLNEIGYSPLLTAEEEVYFARRAL-----------------------------------------RGDFAARQ 89 (325)
T ss_pred cccHHHHHHHHHhcCCCCCHHHHHHHHHHHH-----------------------------------------cCCHHHHH
Confidence 3455677887776 48999999887755322 233 4899
Q ss_pred HHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchhhH
Q 016759 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378 (383)
Q Consensus 299 ~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~~ 378 (383)
+||..|.|+|+++|++|.+.+.+.+||+|||+||||+++++||+++|++|+|||+||||++|.++++++.+.+|+|.|++
T Consensus 90 ~Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~fd~~rg~~Fstyatw~iR~ai~~~i~~~~r~ir~p~~~~ 169 (325)
T PRK05657 90 RMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVV 169 (325)
T ss_pred HHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHHHHHHHHHcCCccccCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred HHh
Q 016759 379 LIC 381 (383)
Q Consensus 379 e~i 381 (383)
..+
T Consensus 170 ~~l 172 (325)
T PRK05657 170 KEL 172 (325)
T ss_pred HHH
Confidence 543
No 19
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=99.81 E-value=1.1e-19 Score=173.12 Aligned_cols=85 Identities=24% Similarity=0.372 Sum_probs=77.9
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccC---CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~---~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
..|+++||..|+|+|+++|++|.. .+++++||+|+|+||||+|+++|||++|++|+|||.||||++|.++++++.|
T Consensus 22 ~~ar~~Li~~~~~lV~~ia~~~~~~~~~~~~~eDL~QeG~igL~~ai~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~~~- 100 (257)
T PRK05911 22 IEYRDVLIEFYLPLVKNVAHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAIIDDLRKQDW- 100 (257)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhcCC-
Confidence 359999999999999999999862 3678999999999999999999999999999999999999999999999876
Q ss_pred ccCchhhHHHh
Q 016759 371 IKIPVPLFLIC 381 (383)
Q Consensus 371 IRlP~~~~e~i 381 (383)
+|.++.+++
T Consensus 101 --~pr~~~~~~ 109 (257)
T PRK05911 101 --VPRSVHQKA 109 (257)
T ss_pred --CCHHHHHHH
Confidence 799887654
No 20
>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=99.78 E-value=2e-18 Score=163.62 Aligned_cols=86 Identities=29% Similarity=0.446 Sum_probs=81.2
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
.|+++|+..|.|+|.++|++|.+.+.+.+||+|||++|||+|+++|||.+|.+|+||+++||++.|.++++++ +.+|+|
T Consensus 34 ~a~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~tyl~~~irn~~~~~lr~~-~~ir~p 112 (254)
T TIGR02850 34 TAREKLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN-NPIRVS 112 (254)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHhC-CCccCc
Confidence 4899999999999999999999999999999999999999999999999999999999999999999999996 488999
Q ss_pred hhhHHHh
Q 016759 375 VPLFLIC 381 (383)
Q Consensus 375 ~~~~e~i 381 (383)
.++.+.+
T Consensus 113 ~~~~~~~ 119 (254)
T TIGR02850 113 RSLRDIA 119 (254)
T ss_pred hHHHHHH
Confidence 9987643
No 21
>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=99.74 E-value=8.1e-18 Score=155.66 Aligned_cols=87 Identities=32% Similarity=0.542 Sum_probs=82.8
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKI 373 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRl 373 (383)
..|+++|+..|.|+|.++|++|.+.+.+.+||+|||++||++|+++||+++|.+|+||+++||++.|.++++++.|.+++
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 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHH
Q 016759 374 PVPLFLI 380 (383)
Q Consensus 374 P~~~~e~ 380 (383)
|.++.++
T Consensus 82 ~~~~~~~ 88 (227)
T TIGR02980 82 PRRLKEL 88 (227)
T ss_pred CHHHHHH
Confidence 9987543
No 22
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=99.74 E-value=9.2e-18 Score=159.19 Aligned_cols=94 Identities=29% Similarity=0.426 Sum_probs=85.7
Q ss_pred HHHHHHhcH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHH
Q 016759 286 LKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMV 364 (383)
Q Consensus 286 L~~~l~~G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~I 364 (383)
|...++.|+ .++++|+..|.|+|.++|++|.+.+.+.+||+|||++|||+|+++|||++|++|+||+++||+++|.+++
T Consensus 27 l~~~~~~gd~~a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l~~~ir~~i~~~l 106 (258)
T PRK08215 27 LFERMQNGDKEAREKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYL 106 (258)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHH
Confidence 444455554 4999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCCCccCchhhHHH
Q 016759 365 ARHARGIKIPVPLFLI 380 (383)
Q Consensus 365 r~qsr~IRlP~~~~e~ 380 (383)
+++ +.+|+|.++.+.
T Consensus 107 r~~-~~vrip~~~~~~ 121 (258)
T PRK08215 107 RDN-NPIRVSRSLRDI 121 (258)
T ss_pred HhC-CceEecHHHHHH
Confidence 997 588999998764
No 23
>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=2.4e-17 Score=153.17 Aligned_cols=92 Identities=26% Similarity=0.368 Sum_probs=84.2
Q ss_pred HHHhcH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 289 HLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 289 ~l~~G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
.++.|+ .|+++|+..|.|+|.++|++|.+.+.+.+||+|+|++|||+|+++|||.+|.+|.||+++||++.|.++++++
T Consensus 4 ~~~~gd~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~i~l~~a~~~f~~~~~~~f~tyl~~~i~~~i~~~lr~~ 83 (231)
T TIGR02885 4 LAQNGDKEARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKRFLRDD 83 (231)
T ss_pred HHHcCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhC
Confidence 344555 4999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCCccCchhhHHHh
Q 016759 368 ARGIKIPVPLFLIC 381 (383)
Q Consensus 368 sr~IRlP~~~~e~i 381 (383)
. .+++|.++.+++
T Consensus 84 ~-~i~~p~~~~~~~ 96 (231)
T TIGR02885 84 G-IIKVSRSLKELA 96 (231)
T ss_pred C-CeECCHHHHHHH
Confidence 5 899999976543
No 24
>TIGR02941 Sigma_B RNA polymerase sigma-B factor. This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus, Listeria and Bacillus.
Probab=99.71 E-value=5.9e-17 Score=153.04 Aligned_cols=98 Identities=20% Similarity=0.272 Sum_probs=89.9
Q ss_pred HHHHHHHHHh-cH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 283 ERVLKQHLAF-GW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 283 ~eeL~~~l~~-G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+.+|+..++. |+ .|+++|+..|.|+|+++|++|.+.+.+.+||+|+|++|||+|+++||++.|.+|.||+++||++.|
T Consensus 15 ~~~li~~~~~~gd~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~~~~~~~~~f~tyl~~~i~n~~ 94 (255)
T TIGR02941 15 VIQWIAEFQQNQNGEAQEKLVDHYQNLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIIGEI 94 (255)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCcCCCCcHhHHHHHHHHHH
Confidence 4556777766 44 599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCCccCchhhHHH
Q 016759 361 SKMVARHARGIKIPVPLFLI 380 (383)
Q Consensus 361 ~~~Ir~qsr~IRlP~~~~e~ 380 (383)
.++++++++.+++|.++.+.
T Consensus 95 ~~~lr~~~~~iri~~~~~~~ 114 (255)
T TIGR02941 95 KRYLRDKTWSVHVPRRIKEL 114 (255)
T ss_pred HHHHHHcCCCcCCCHHHHHH
Confidence 99999999999999987653
No 25
>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=99.70 E-value=5.8e-17 Score=156.14 Aligned_cols=99 Identities=34% Similarity=0.705 Sum_probs=92.2
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
+.+|+..++.|+. |++.|+..|.++|..+|.+|.+.+.+.+||+|||+||||+|+++||+.+|++|+||+.|||+.+|.
T Consensus 33 ~~~li~~~~~gd~~a~~~L~~~y~~~v~~~a~~~~~~~~~aeDLvQe~~i~l~~a~~~fd~~~g~~f~tya~w~i~~ain 112 (285)
T TIGR02394 33 EIAYARRALAGDFEARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIE 112 (285)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCCcHhhhHHHHHHHHH
Confidence 4667778888865 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCccCchhhHHHh
Q 016759 362 KMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 362 ~~Ir~qsr~IRlP~~~~e~i 381 (383)
++++++.+.+++|.++.+.+
T Consensus 113 ~~i~~~~~~~~~p~~~~~~~ 132 (285)
T TIGR02394 113 RAIMNQARTIRLPVHVIKEL 132 (285)
T ss_pred HHHHHcCCceeCcHHHHHHH
Confidence 99999999999998876543
No 26
>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=99.68 E-value=9.7e-17 Score=151.30 Aligned_cols=90 Identities=18% Similarity=0.281 Sum_probs=82.1
Q ss_pred HHHhcHHHHHHHHHHhhHHHHHHHHHccCCC--CChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHH
Q 016759 289 HLAFGWYCREELIKSTRPLVLFLARNYRGLG--IPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAR 366 (383)
Q Consensus 289 ~l~~G~~Are~LI~~nlrLV~~IAkry~~~g--ld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~ 366 (383)
.++.|+..+++||..|.|+|.++|++|.++. .+.||++|+|+||||+|+++|||++|.+|.|||.+||+++|.+++|+
T Consensus 3 ~~~~gd~~~e~LI~~Y~plI~~~a~~~~~~~~~~e~dDlvQ~glial~eAi~~yd~~kg~~F~sya~~~Ir~~i~dylRk 82 (218)
T TIGR02895 3 PIQPGNEEREELIRQYKPFIAKIVSSVCGRYIDTKSDDELSIGLIAFNEAIESYDSNKGKSFLSFAKLIIKRRLIDYIRK 82 (218)
T ss_pred hhhcCChHHHHHHHHhHHHHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 4677887799999999999999999998774 58999999999999999999999999999999999999999999999
Q ss_pred cC---CCccCchhhH
Q 016759 367 HA---RGIKIPVPLF 378 (383)
Q Consensus 367 qs---r~IRlP~~~~ 378 (383)
.. +.+++|....
T Consensus 83 ~~k~~~~v~~~~~~~ 97 (218)
T TIGR02895 83 NQKYQNLLYLDEDYD 97 (218)
T ss_pred cccccCeeeCCchHH
Confidence 87 6778886544
No 27
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=99.66 E-value=6.9e-16 Score=147.36 Aligned_cols=84 Identities=31% Similarity=0.404 Sum_probs=75.4
Q ss_pred HHHHHHHHHhhHHHHHHHHHccC---CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCc
Q 016759 295 YCREELIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGI 371 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~---~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~I 371 (383)
.+++.++..|.|+|..+|++|.. .+.+.+||+|+|++|||+|+++||+.+|++|+||+.+||++.|.+++|+..
T Consensus 31 ~a~~~l~~~y~~lv~~~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd~~~~~~f~ty~~~~ir~~i~d~~R~~~--- 107 (268)
T PRK06288 31 KIREYLILKYSPLVKYVAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIFDELRSID--- 107 (268)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC---
Confidence 48899999999999999999862 468899999999999999999999999999999999999999999999754
Q ss_pred cCchhhHHHh
Q 016759 372 KIPVPLFLIC 381 (383)
Q Consensus 372 RlP~~~~e~i 381 (383)
++|.++..++
T Consensus 108 ~~p~~~~~~~ 117 (268)
T PRK06288 108 WIPRSVRQKA 117 (268)
T ss_pred ccCHHHHHHH
Confidence 4788876543
No 28
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=99.65 E-value=8.6e-16 Score=145.28 Aligned_cols=97 Identities=23% Similarity=0.256 Sum_probs=88.3
Q ss_pred HHHHHHHHHh-cH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 283 ERVLKQHLAF-GW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 283 ~eeL~~~l~~-G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+.+|+..++. |+ .|+++|+..|.|+|.++|++|.+.+.+.+||+|+|++|||+++++||+.+|.+|.||+++||++.|
T Consensus 15 ~~~li~~~~~~gd~~a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~l~l~~~~~~f~~~~~~~f~tyl~~~i~n~~ 94 (257)
T PRK08583 15 VNKWIAEYQENQDEEAQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEI 94 (257)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCccCCCChHHHHHHHHHHHH
Confidence 3456666653 44 599999999999999999999999999999999999999999999999999899999999999999
Q ss_pred HHHHHHcCCCccCchhhHH
Q 016759 361 SKMVARHARGIKIPVPLFL 379 (383)
Q Consensus 361 ~~~Ir~qsr~IRlP~~~~e 379 (383)
.++++++.+.++||.++.+
T Consensus 95 ~~~lr~~~~~~~i~r~~~~ 113 (257)
T PRK08583 95 KRYLRDKTWSVHVPRRIKE 113 (257)
T ss_pred HHHHHhcCCCcCCCHHHHH
Confidence 9999999999999999653
No 29
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=99.61 E-value=2.5e-15 Score=141.45 Aligned_cols=80 Identities=23% Similarity=0.254 Sum_probs=70.7
Q ss_pred HHHHHHHHhhHHHHHHHHHccCC---CCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCcc
Q 016759 296 CREELIKSTRPLVLFLARNYRGL---GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIK 372 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~---gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IR 372 (383)
.+..|+..|+|+|.++|++|... +.+.+||+|+|+||||+|+++|||.+| +|+|||+|||+++|.+++++..|
T Consensus 16 ~~~~lv~~y~~lV~~la~~~~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~-~F~tYa~~~Ir~~il~~lr~~~~--- 91 (231)
T PRK12427 16 EEGKYLNAYLPLVKKVVRQLAFQADSVIDREDMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILDELRELDW--- 91 (231)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCCCC-ChHHHHHHHHHHHHHHHHHhcCC---
Confidence 56689999999999999999754 689999999999999999999998666 89999999999999999999776
Q ss_pred CchhhHH
Q 016759 373 IPVPLFL 379 (383)
Q Consensus 373 lP~~~~e 379 (383)
+|.++.+
T Consensus 92 ~~r~vr~ 98 (231)
T PRK12427 92 RPRRLRQ 98 (231)
T ss_pred CCHHHHH
Confidence 4655544
No 30
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=99.60 E-value=4.3e-15 Score=140.44 Aligned_cols=95 Identities=25% Similarity=0.345 Sum_probs=82.9
Q ss_pred HHHHHHHHHh-cH-HHHHHHHHHhhHHHHHHHHHccC---CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHH
Q 016759 283 ERVLKQHLAF-GW-YCREELIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIR 357 (383)
Q Consensus 283 ~eeL~~~l~~-G~-~Are~LI~~nlrLV~~IAkry~~---~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr 357 (383)
+.+|+++++. |+ .|+++|+..|.|+|.++|.+|.+ .+.+.+|++|||++|||+++++||+.+|.+|+||+++||+
T Consensus 8 e~~l~~~~~~~~d~~a~~~L~~~y~~~v~~~~~~~~~~~~~~~~~eDl~Qe~~i~l~~~~~~f~~~~~~~f~tyl~~~ir 87 (251)
T PRK07670 8 EQKLWDRWKEERDPDAADELIRRYMPLVHYHVQRISVGLPKSVSKDDLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIR 87 (251)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHH
Confidence 5667776444 45 49999999999999999999965 5789999999999999999999999999999999999999
Q ss_pred HHHHHHHHHcCCCccCchhhHHH
Q 016759 358 KSISKMVARHARGIKIPVPLFLI 380 (383)
Q Consensus 358 ~aI~~~Ir~qsr~IRlP~~~~e~ 380 (383)
+.|.++++++. ++|.++.+.
T Consensus 88 n~~~d~lR~~~---~~p~~~~~~ 107 (251)
T PRK07670 88 GAIIDGLRKED---WLPRSMREK 107 (251)
T ss_pred HHHHHHHHhcC---CCCHHHHHH
Confidence 99999999875 578766543
No 31
>PRK05572 sporulation sigma factor SigF; Validated
Probab=99.58 E-value=1e-14 Score=137.96 Aligned_cols=96 Identities=25% Similarity=0.352 Sum_probs=86.5
Q ss_pred HHHHHHHHhcH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHH
Q 016759 284 RVLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (383)
Q Consensus 284 eeL~~~l~~G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~ 362 (383)
.+|+..+..|+ .|+++|+..|.|+|..+|.+|.+.+.+.+||+|||++++|+++++||+.+|.+|.||+++||++.|.+
T Consensus 20 ~~li~~~~~gd~~a~~~L~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~l~l~~~~~~f~~~~~~~f~twl~~~i~~~i~~ 99 (252)
T PRK05572 20 KELIKKSQDGDQEARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFSTYAVPMIIGEIQR 99 (252)
T ss_pred HHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHH
Confidence 44555556665 49999999999999999999999999999999999999999999999998889999999999999999
Q ss_pred HHHHcCCCccCchhhHHH
Q 016759 363 MVARHARGIKIPVPLFLI 380 (383)
Q Consensus 363 ~Ir~qsr~IRlP~~~~e~ 380 (383)
++++. ..+|+|.++.++
T Consensus 100 ~lr~~-~~~r~~~~~~~~ 116 (252)
T PRK05572 100 FLRDD-GTVKVSRSLKET 116 (252)
T ss_pred HHHhC-CCCCCCHHHHHH
Confidence 99987 578999987654
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=99.56 E-value=7.9e-15 Score=135.92 Aligned_cols=77 Identities=35% Similarity=0.496 Sum_probs=70.3
Q ss_pred HHHHhhHHHHHHHHHccC---CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCchh
Q 016759 300 LIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVP 376 (383)
Q Consensus 300 LI~~nlrLV~~IAkry~~---~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~ 376 (383)
|+..|.|+|+++|++|.+ .+.+.+||+|||++|||+|+++|||++|++|+||+.+||++.+.+++++.. ++|.+
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 578999999999999985 689999999999999999999999999999999999999999999999865 46776
Q ss_pred hHH
Q 016759 377 LFL 379 (383)
Q Consensus 377 ~~e 379 (383)
+..
T Consensus 78 ~~~ 80 (224)
T TIGR02479 78 LRQ 80 (224)
T ss_pred HHH
Confidence 543
No 33
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=99.53 E-value=3.7e-14 Score=132.63 Aligned_cols=84 Identities=29% Similarity=0.454 Sum_probs=76.5
Q ss_pred hcHHHHHHHHHHhhHHHHHHHHHcc---CCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 292 FGWYCREELIKSTRPLVLFLARNYR---GLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 292 ~G~~Are~LI~~nlrLV~~IAkry~---~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
.|.-++++|+..|.|+|.++|.+|. +.+.+.+||+|+|++|||+++++|||++|.+|+||+.+||++.|.++++++.
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 4666999999999999999999997 5689999999999999999999999999999999999999999999999986
Q ss_pred CCccCchhhH
Q 016759 369 RGIKIPVPLF 378 (383)
Q Consensus 369 r~IRlP~~~~ 378 (383)
+ +|.++.
T Consensus 85 ~---~~~~~~ 91 (236)
T PRK06986 85 W---VPRSVR 91 (236)
T ss_pred C---CCHHHH
Confidence 4 466543
No 34
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=99.49 E-value=4.2e-13 Score=125.49 Aligned_cols=115 Identities=22% Similarity=0.284 Sum_probs=96.9
Q ss_pred HHHHhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChH
Q 016759 245 MSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFS 323 (383)
Q Consensus 245 L~~~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~E 323 (383)
|..-+++..+|..+..++ ++.|.... .++..|+..+..|+. |.+.|+..|.|+|.++|.+|.+.+.+.+
T Consensus 8 ~~~~~~~~~~~~~~~~~~----~~~~~~~~------~~e~~l~~~~~~gd~~a~~~l~~~y~~~l~~~a~~~~~~~~dae 77 (233)
T PRK05803 8 LLYIVKEILFLVSYVKNN----SFPQPLSE------EEERKYLELMKEGDEEARNILIERNLRLVAHIVKKFENTGEDVD 77 (233)
T ss_pred HHHHHHHHHHHHHHHHHh----cccCCCCH------HHHHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHH
Confidence 455677777888877666 44444332 124567777888765 9999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 324 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 324 DLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
|++|||+|+||+++++||+++|.+|.||+++||++.+.+++|+..+
T Consensus 78 DlvQE~fi~l~~~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~~~ 123 (233)
T PRK05803 78 DLISIGTIGLIKAIESFDAGKGTKLATYAARCIENEILMHLRNLKK 123 (233)
T ss_pred HHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999989899999999999999999997654
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=99.30 E-value=4.1e-11 Score=111.89 Aligned_cols=113 Identities=21% Similarity=0.302 Sum_probs=91.5
Q ss_pred HhHHHHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHH
Q 016759 248 GVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLL 326 (383)
Q Consensus 248 ~iq~~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLi 326 (383)
-++.+.+|-.+-+ ..-|+++....- .+..|+..++.|+. |.+.|++.|.|.|.++|.+|.+...+.+|++
T Consensus 9 ~~~~~~~~~~~~~---~~~~~~~~~~~~------~~~~li~~~~~gd~~af~~l~~~y~~~v~~~~~~~~~~~~dAEDlv 79 (227)
T TIGR02846 9 IVKSLLFLVGYVT---NNGSFPQPLSEE------EEKKYLDRLKEGDEEARNVLIERNLRLVAHIVKKFSNTGEDVDDLI 79 (227)
T ss_pred HHHHHHHHHHHHH---HHHhCCCCCCHH------HHHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHhcCCCCCHHHHH
Confidence 3455555544433 223455543321 25677788888875 9999999999999999999998889999999
Q ss_pred HHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 327 QAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 327 QEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
||+++++|+++++|+++++.+|.||+++++++.+.+++|+..+
T Consensus 80 Qevfi~l~~~~~~~~~~~~~~f~twl~~i~rN~~~d~~Rk~~r 122 (227)
T TIGR02846 80 SIGTIGLIKAIDSFDPDKGTRLATYAARCIENEILMHLRALKK 122 (227)
T ss_pred HHHHHHHHHHHHhCCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999888899999999999999999998754
No 36
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=99.29 E-value=1.5e-11 Score=117.36 Aligned_cols=92 Identities=18% Similarity=0.301 Sum_probs=82.1
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCC--ChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGI--PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gl--d~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
+.++|+..++.|+. |+++|+..|.|+|.++|.++.++.. +.+|++|+|++++|+|+++||+++|..|.+|+..+|++
T Consensus 4 ~~~~Li~~~~~gD~~AfeeLi~~Y~p~I~~~a~~~~~~~~~~eaeDlvQe~fi~l~eai~~y~~~kg~sF~awl~~Iirn 83 (237)
T PRK08311 4 SLEDILEKIKNGDEELREELIEEYKPFIAKVVSSVCGRYIDWENDDELSIGLIAFNEAIDSYDEEKGKSFLSFAELVIKR 83 (237)
T ss_pred cHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhcccCCCCchHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHH
Confidence 45677888888875 9999999999999999999987765 58999999999999999999999988999999999999
Q ss_pred HHHHHHHHcCCCccC
Q 016759 359 SISKMVARHARGIKI 373 (383)
Q Consensus 359 aI~~~Ir~qsr~IRl 373 (383)
.+.+++|++.+...+
T Consensus 84 ~~iDylRk~~~~~~~ 98 (237)
T PRK08311 84 RLIDYFRKESKHNLV 98 (237)
T ss_pred HHHHHHHHhhccccc
Confidence 999999987764443
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=99.29 E-value=1.1e-11 Score=93.68 Aligned_cols=70 Identities=24% Similarity=0.375 Sum_probs=67.1
Q ss_pred HHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 300 LIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 300 LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
|++.|.|+|.++|.+|.+.+.+.+|++||++++|++++++||++++..|.+|+...+++.+.+.++++.|
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 6889999999999999999999999999999999999999999999899999999999999999998765
No 38
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=99.27 E-value=2.8e-11 Score=109.53 Aligned_cols=91 Identities=21% Similarity=0.307 Sum_probs=82.3
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 280 gl~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
.++.+.|...++.|+. +.+.|+..|.|+|..+|.+|.+...+.+|++||++++||+++.+||+.++.+|.||++.+|++
T Consensus 8 ~~~~~~l~~~~~~~d~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n 87 (208)
T PRK08295 8 ELEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITR 87 (208)
T ss_pred CCChHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHH
Confidence 4567778888888875 999999999999999999999999999999999999999999999998877999999999999
Q ss_pred HHHHHHHHcCCC
Q 016759 359 SISKMVARHARG 370 (383)
Q Consensus 359 aI~~~Ir~qsr~ 370 (383)
.+.+++++..+.
T Consensus 88 ~~~d~~r~~~r~ 99 (208)
T PRK08295 88 QIITAIKTANRQ 99 (208)
T ss_pred HHHHHHHHhhhh
Confidence 999999865443
No 39
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=99.24 E-value=4.1e-11 Score=111.72 Aligned_cols=87 Identities=28% Similarity=0.492 Sum_probs=81.0
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
+..|...++.|+. |.+.++..|.++|..+|.+|.+.+.+.+|++||+++++|+++++||+..+++|.||++.++++.+.
T Consensus 39 ~~~L~~~~~~gd~~af~~l~~~y~~~l~~~a~~~~~~~~~AeDlvQevfl~l~~~~~~f~~~~~~~f~twl~~iarn~~~ 118 (234)
T PRK08301 39 EEYLLNKLPKGDEAVRSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYASRCIENEIL 118 (234)
T ss_pred HHHHHHHHHccCHHHHHHHHHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHH
Confidence 5778888888876 999999999999999999999999999999999999999999999998888999999999999999
Q ss_pred HHHHHcCC
Q 016759 362 KMVARHAR 369 (383)
Q Consensus 362 ~~Ir~qsr 369 (383)
+++|++.+
T Consensus 119 d~lRk~~~ 126 (234)
T PRK08301 119 MYLRRNNK 126 (234)
T ss_pred HHHHHHhc
Confidence 99998654
No 40
>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=99.19 E-value=1e-10 Score=104.86 Aligned_cols=87 Identities=18% Similarity=0.291 Sum_probs=79.8
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
+++.+|+..++.|+. |.++|+..|.|.|..+|.++.+...+.+|++||+++.+|+++.+||+..+..|.||++.+|++.
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 567788888888875 9999999999999999999998889999999999999999999999988779999999999999
Q ss_pred HHHHHHHc
Q 016759 360 ISKMVARH 367 (383)
Q Consensus 360 I~~~Ir~q 367 (383)
+.++++..
T Consensus 84 ~~~~~r~~ 91 (198)
T TIGR02859 84 IITAIKTA 91 (198)
T ss_pred HHHHHHHH
Confidence 98888753
No 41
>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=99.17 E-value=1.5e-10 Score=108.62 Aligned_cols=87 Identities=28% Similarity=0.512 Sum_probs=80.5
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
++.|+..+..|+. |++.++..|.+.|..+|.+|.+.+.+.+|++||+++++|+++++|++..+++|.||++.++++.+.
T Consensus 39 ~~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~AEDlvQE~fl~l~~~~~~f~~~~~~~f~~wl~~iarN~~~ 118 (234)
T TIGR02835 39 EEALLQKLTQGDESAKSTLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGLIKAVNTFNPSKKIKLATYASRCIENEIL 118 (234)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHH
Confidence 5667777777765 999999999999999999999999999999999999999999999998888899999999999999
Q ss_pred HHHHHcCC
Q 016759 362 KMVARHAR 369 (383)
Q Consensus 362 ~~Ir~qsr 369 (383)
++++++.+
T Consensus 119 d~~Rk~~r 126 (234)
T TIGR02835 119 MYLRRNNK 126 (234)
T ss_pred HHHHHhcc
Confidence 99998665
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=99.01 E-value=1.2e-09 Score=90.88 Aligned_cols=72 Identities=29% Similarity=0.380 Sum_probs=68.4
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
|.+.++..|.|+|.++++++.+.+.+.+|++|+|+++|+++++.||+. ..|.+|+..+|++.+.++++++.+
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 678999999999999999999888999999999999999999999998 689999999999999999998765
No 43
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=99.00 E-value=1.1e-09 Score=95.65 Aligned_cols=81 Identities=17% Similarity=0.163 Sum_probs=72.7
Q ss_pred HHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 289 HLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 289 ~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
+++.|+. |.++|+..|.++|..++++|.+.+.+.+|++||++++||+++++|| .+.+|.+|++..+++.+.+.+++.
T Consensus 3 ~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~r~~ 80 (182)
T PRK09652 3 RVQRGDRAAFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFR--GGAAFYTWLYRIARNTAINYLRKQ 80 (182)
T ss_pred hhhcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHHHHHHHcc
Confidence 3556654 9999999999999999999999889999999999999999999999 445899999999999999999986
Q ss_pred CCCc
Q 016759 368 ARGI 371 (383)
Q Consensus 368 sr~I 371 (383)
.+..
T Consensus 81 ~~~~ 84 (182)
T PRK09652 81 GRRP 84 (182)
T ss_pred cCCC
Confidence 5544
No 44
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=99.00 E-value=1.7e-09 Score=96.90 Aligned_cols=88 Identities=17% Similarity=0.140 Sum_probs=80.4
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
++++.|+..+..|+. |.+.|+..|.++|..+|.+|.+.+.+.+|++||++++||+++.+||+. +..|.+|++..+++.
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 457788888888875 999999999999999999999999999999999999999999999986 458999999999999
Q ss_pred HHHHHHHcCC
Q 016759 360 ISKMVARHAR 369 (383)
Q Consensus 360 I~~~Ir~qsr 369 (383)
+.+.++++..
T Consensus 84 ~~d~~R~~~~ 93 (186)
T PRK05602 84 CYDRLRRRRE 93 (186)
T ss_pred HHHHHHhcCC
Confidence 9999997754
No 45
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=98.97 E-value=2.8e-09 Score=96.04 Aligned_cols=91 Identities=15% Similarity=0.111 Sum_probs=81.4
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
.+++.|+..+..|+. +.+.|+..|.+.|.++|.++.+...+.+|++|++++++|+++.+|++. ..|.+|++..+++.
T Consensus 11 ~~~~~l~~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~fi~l~~~~~~~~~~--~~f~~wl~~i~~n~ 88 (194)
T PRK12513 11 ASDEALMLRYRAGDAAAFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPR--ARFRTWLYQIARNL 88 (194)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHH
Confidence 457788888888875 999999999999999999999988999999999999999999999974 36999999999999
Q ss_pred HHHHHHHcCCCccC
Q 016759 360 ISKMVARHARGIKI 373 (383)
Q Consensus 360 I~~~Ir~qsr~IRl 373 (383)
+.+.++++.+..+.
T Consensus 89 ~~~~~R~~~~~~~~ 102 (194)
T PRK12513 89 LIDHWRRHGARQAP 102 (194)
T ss_pred HHHHHHHhcccccc
Confidence 99999987765443
No 46
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=98.94 E-value=3.6e-09 Score=95.85 Aligned_cols=87 Identities=21% Similarity=0.101 Sum_probs=79.5
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+.+.|+..+..|+. +.++|+..|.++|.++|.+|.+...+.+|++||+++++|+.+.+||+.+| .|.+|++..+++.+
T Consensus 16 ~~~~li~~~~~g~~~a~~~l~~~y~~~l~~~~~~~~~~~~dAeDivQe~fi~l~~~~~~~~~~~~-~~~~wl~~ia~n~~ 94 (194)
T PRK09646 16 DLDALLRRVARGDQDAFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRFDPARG-SALAWLLTLAHRRA 94 (194)
T ss_pred cHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCcccc-cHHHHHHHHHHHHH
Confidence 45677888888875 99999999999999999999999999999999999999999999998766 79999999999999
Q ss_pred HHHHHHcCC
Q 016759 361 SKMVARHAR 369 (383)
Q Consensus 361 ~~~Ir~qsr 369 (383)
.+.++++.+
T Consensus 95 ~d~~r~~~~ 103 (194)
T PRK09646 95 VDRVRSEQA 103 (194)
T ss_pred HHHHHhhcc
Confidence 999998654
No 47
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=98.93 E-value=4.4e-09 Score=93.35 Aligned_cols=85 Identities=14% Similarity=0.110 Sum_probs=76.8
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
+++|+..+..|+. +..+|+..|.|+|..+|.+|.+.+.+.+|++|++++++|+++..||+.. .|.+|+...+++.+.
T Consensus 5 ~~~li~~~~~gd~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~ 82 (187)
T TIGR02948 5 IKKRIKEVRKGDENAFADLVDLYKDKIYQLCYRMLGNVHEAEDVAQEAFIRAYTNIDTYDIQR--KFSTWLYRIATNLTI 82 (187)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCC--chHHHHHHHHHHHHH
Confidence 3557777888765 9999999999999999999999989999999999999999999999865 699999999999999
Q ss_pred HHHHHcCC
Q 016759 362 KMVARHAR 369 (383)
Q Consensus 362 ~~Ir~qsr 369 (383)
+.+++..+
T Consensus 83 ~~~rk~~~ 90 (187)
T TIGR02948 83 DRLRKRKP 90 (187)
T ss_pred HHHHhhcc
Confidence 99998654
No 48
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=98.92 E-value=4.6e-09 Score=93.23 Aligned_cols=86 Identities=16% Similarity=0.128 Sum_probs=78.1
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+.+.|+..++.|+. +.++++..|.|+|.++|.++.+...+.+|++||++++||+++.+|++.. .|.+|+...+++.+
T Consensus 4 ~~~~li~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~~--~~~~wl~~iarn~~ 81 (187)
T PRK09641 4 LIKRLIKQVKKGDQNAFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINR--KFSTWLYRIATNLT 81 (187)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhCCCc--chhHHHHHHHHHHH
Confidence 45677888888876 9999999999999999999999989999999999999999999999853 79999999999999
Q ss_pred HHHHHHcCC
Q 016759 361 SKMVARHAR 369 (383)
Q Consensus 361 ~~~Ir~qsr 369 (383)
.++++++.+
T Consensus 82 ~d~~R~~~~ 90 (187)
T PRK09641 82 IDRLRKRKP 90 (187)
T ss_pred HHHHHhcCc
Confidence 999998654
No 49
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=98.92 E-value=5.1e-09 Score=93.46 Aligned_cols=88 Identities=24% Similarity=0.229 Sum_probs=79.1
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
+++.+|...+..|+. +.+.|+..|.|.|..++++|.+.+.+.+|++||+++.+|+++++|++..+ .|.+|++..+++.
T Consensus 8 ~~~~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~~~~~~~-~~~~wl~~ia~n~ 86 (186)
T PRK13919 8 LSDEALLALVARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDPRRG-SARAWLLALAHHA 86 (186)
T ss_pred cCHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhccCcccc-chHHHHHHHHHHH
Confidence 356778888888875 99999999999999999999888899999999999999999999997654 6999999999999
Q ss_pred HHHHHHHcCC
Q 016759 360 ISKMVARHAR 369 (383)
Q Consensus 360 I~~~Ir~qsr 369 (383)
+.+.++++.+
T Consensus 87 ~~d~~rk~~~ 96 (186)
T PRK13919 87 AVDHVRRRAA 96 (186)
T ss_pred HHHHHHhhhc
Confidence 9999998654
No 50
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=98.91 E-value=7.7e-09 Score=92.89 Aligned_cols=88 Identities=20% Similarity=0.244 Sum_probs=76.8
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCC----CCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGL----GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIR 357 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~----gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr 357 (383)
...|+..+..|+. |.++|+..|.+.|..+|.++.+. +.+.+|++||++++||+++.+|++. +..|.+|++..++
T Consensus 11 ~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~~~~wl~~i~~ 89 (189)
T PRK09648 11 LDALVAEAVAGDRRALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVITALPRYRDQ-GRPFLAFVYGIAA 89 (189)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHHHHHHHhcc-CCcHHHHHHHHHH
Confidence 3567888888875 99999999999999999998654 4689999999999999999999864 4589999999999
Q ss_pred HHHHHHHHHcCCCc
Q 016759 358 KSISKMVARHARGI 371 (383)
Q Consensus 358 ~aI~~~Ir~qsr~I 371 (383)
+.+.++++++.+..
T Consensus 90 n~~~d~~r~~~r~~ 103 (189)
T PRK09648 90 HKVADAHRAAGRDK 103 (189)
T ss_pred HHHHHHHHHhCCCc
Confidence 99999999877643
No 51
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=98.91 E-value=7.7e-09 Score=93.38 Aligned_cols=90 Identities=11% Similarity=0.141 Sum_probs=79.9
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCC---CChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLG---IPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWI 356 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~g---ld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wI 356 (383)
++++.|+..+..|+. |.++|+..|.|.|.+++.++.+.+ .+.+|++|+++++||+++++|+++.+ .|.+|++.-+
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 567888999998876 999999999999999999998753 47899999999999999999997655 7999999999
Q ss_pred HHHHHHHHHHcCCCc
Q 016759 357 RKSISKMVARHARGI 371 (383)
Q Consensus 357 r~aI~~~Ir~qsr~I 371 (383)
++.+.++++++.+..
T Consensus 82 rn~~~d~~rk~~~~~ 96 (189)
T PRK06811 82 KYKAIDYKRKLTKNN 96 (189)
T ss_pred HHHHHHHHHHhcccc
Confidence 999999999876543
No 52
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=98.86 E-value=1.7e-08 Score=90.93 Aligned_cols=88 Identities=18% Similarity=0.214 Sum_probs=78.3
Q ss_pred CCCHHHHHHHHHh---cH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHH
Q 016759 280 GVSERVLKQHLAF---GW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355 (383)
Q Consensus 280 gl~~eeL~~~l~~---G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~w 355 (383)
.++++.|+..++. |+ .|.+.|+..|.|.|..+|.+|.+...+.+|++||+++.||+++++|++. ..|.+|++.+
T Consensus 7 ~~~~~~li~~~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~f~~l~~~~~~~~~~--~~~~~wl~~i 84 (188)
T PRK09640 7 ELNDEELVARVHVELFHVTRAYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEGK--SKFKTWLYSI 84 (188)
T ss_pred CCCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHHHhcCC--CcchHHHHHH
Confidence 4567788888875 34 5999999999999999999999999999999999999999999999963 3799999999
Q ss_pred HHHHHHHHHHHcCC
Q 016759 356 IRKSISKMVARHAR 369 (383)
Q Consensus 356 Ir~aI~~~Ir~qsr 369 (383)
+++.+.+.+++..+
T Consensus 85 a~n~~~d~~R~~~~ 98 (188)
T PRK09640 85 TYNECITQYRKERR 98 (188)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999997654
No 53
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=98.82 E-value=2.1e-08 Score=88.63 Aligned_cols=88 Identities=16% Similarity=0.111 Sum_probs=78.7
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
+++..++..+..|+. +.+.|+..|.|.|..+|.++.+...+.+|++||+++.+|++++.|++. .+|.+|++..+++.
T Consensus 3 ~~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~--~~~~~wl~~i~~n~ 80 (176)
T PRK09638 3 MDEKELIQKAKKGDDAALTTLFQQHYSFLYKYLLKLTLDPDLAEDLVQETMLKAIENLSSFQGR--SKFSTWLISIASRL 80 (176)
T ss_pred ccHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHH
Confidence 346677788888875 999999999999999999999888899999999999999999999974 47999999999999
Q ss_pred HHHHHHHcCCC
Q 016759 360 ISKMVARHARG 370 (383)
Q Consensus 360 I~~~Ir~qsr~ 370 (383)
+.+++++..+.
T Consensus 81 ~~d~~r~~~~~ 91 (176)
T PRK09638 81 YKDHLRKQKRE 91 (176)
T ss_pred HHHHHHHhccc
Confidence 99999986543
No 54
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=98.81 E-value=1.9e-08 Score=86.82 Aligned_cols=72 Identities=18% Similarity=0.307 Sum_probs=65.8
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
.+.++|+..|.|+|..+++++. ...+.||++||+++++|+++++||+..| .|.+|++..+++.+.++++++.
T Consensus 4 ~af~~l~~~y~~~l~~~~~~~~-~~~~aeDi~Qe~~l~l~~~~~~~~~~~~-~f~~wl~~i~~n~~ld~~rk~~ 75 (154)
T PRK06759 4 ATFTEAVVLYEGLIVNQIKKLG-IYQDYEEYYQCGLIGLWHAYERYDEKKG-SFPAYAVVTVRGYILERLKKEF 75 (154)
T ss_pred ccHHHHHHHHHHHHHHHHHHhC-CcccHHHHHHHHHHHHHHHHHHhCccCC-chHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999874 4579999999999999999999998777 7999999999999999999874
No 55
>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=98.80 E-value=2.3e-08 Score=87.25 Aligned_cols=85 Identities=12% Similarity=0.035 Sum_probs=74.3
Q ss_pred HHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHH
Q 016759 287 KQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVA 365 (383)
Q Consensus 287 ~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir 365 (383)
+..+..|+. |.+.|+..|.+.+.+++.++.+...+.+|++||+++.+|+.+++|+...+ .|.+|++..+++.+.+.+|
T Consensus 2 i~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~-~~~~wl~~i~~n~~~d~~R 80 (170)
T TIGR02952 2 LERAQDREEDAFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERVLRKIDSFKEQKN-SFEAWLFTIARNVVNDYFR 80 (170)
T ss_pred hHHHHccCHHHHHHHHHHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHHHhHHhcccccc-cHHHHHHHHHHHHHHHHHH
Confidence 345556654 99999999999999999988887889999999999999999999997555 8999999999999999999
Q ss_pred HcCCCcc
Q 016759 366 RHARGIK 372 (383)
Q Consensus 366 ~qsr~IR 372 (383)
++.+...
T Consensus 81 ~~~~~~~ 87 (170)
T TIGR02952 81 GSKRHPL 87 (170)
T ss_pred hcCCCCC
Confidence 8765443
No 56
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=98.79 E-value=2.2e-08 Score=90.14 Aligned_cols=86 Identities=22% Similarity=0.176 Sum_probs=76.9
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+..+|+..+..|+. +.+.|+..|.+.|..+++++.+...+.+|++|++++.+|+. ..|++..+ .|.||++..+++.+
T Consensus 15 ~~~~l~~~~~~gd~~a~~~L~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~l~~~-~~~~~~~~-~f~~wl~~iarn~~ 92 (194)
T PRK12519 15 SDAELFSALKAGQSAALGVLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRK-SSYDPKRG-SLSSYLLTLTRSRA 92 (194)
T ss_pred cHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh-cCCCcccc-cHHHHHHHHHHHHH
Confidence 46778888888875 99999999999999999999988889999999999999975 67887665 79999999999999
Q ss_pred HHHHHHcCC
Q 016759 361 SKMVARHAR 369 (383)
Q Consensus 361 ~~~Ir~qsr 369 (383)
.+.++++.+
T Consensus 93 ~d~~Rk~~~ 101 (194)
T PRK12519 93 IDRLRSRRS 101 (194)
T ss_pred HHHHHhccc
Confidence 999998754
No 57
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=98.79 E-value=3.1e-08 Score=92.67 Aligned_cols=91 Identities=16% Similarity=0.158 Sum_probs=80.6
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
++++.|+..+..|+. +.+.|+..|.+.|.++|.++.+.+.+.+|++||++++||+.+++|++. ..|.+|++..+++.
T Consensus 15 ~~~~~l~~~~~~gd~~a~~~l~~~y~~~l~~~a~~~~~~~~~AEDlvQE~fi~l~~~~~~~~~~--~~~~~wL~~iarn~ 92 (231)
T PRK11922 15 ASDRELVARVLAGDEAAFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGD--ASLSTWLSRIVLNE 92 (231)
T ss_pred ccHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHhcCCC--chhHHHHHHHHHHH
Confidence 456778888877765 999999999999999999999998999999999999999999999985 37999999999999
Q ss_pred HHHHHHHcCCCccC
Q 016759 360 ISKMVARHARGIKI 373 (383)
Q Consensus 360 I~~~Ir~qsr~IRl 373 (383)
+.+.+|+..+..++
T Consensus 93 ~~d~~Rk~~r~~~~ 106 (231)
T PRK11922 93 ALGRLRRRRRLVNL 106 (231)
T ss_pred HHHHHHhhcccccc
Confidence 99999987665443
No 58
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=98.78 E-value=2.6e-08 Score=90.39 Aligned_cols=89 Identities=19% Similarity=0.147 Sum_probs=79.7
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 280 gl~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
.+++..|+.++..|+. |.++|+..|.|.|..+|.++.+...+.+|++||+++.+|+.+.+|++..+ .|.+|+..-+++
T Consensus 10 ~~~~~~li~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~~-~~~~wl~~ia~n 88 (196)
T PRK12524 10 DVSDEALLVLYANGDPAAARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGEA-RVSTWLYRVVCN 88 (196)
T ss_pred CcCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhccccccc-hHHHHHHHHHHH
Confidence 3467888888888865 99999999999999999999998899999999999999999999986333 799999999999
Q ss_pred HHHHHHHHcCC
Q 016759 359 SISKMVARHAR 369 (383)
Q Consensus 359 aI~~~Ir~qsr 369 (383)
.+.+.++++.+
T Consensus 89 ~~~d~~Rk~~~ 99 (196)
T PRK12524 89 LCTDRLRRRRR 99 (196)
T ss_pred HHHHHHHhhcC
Confidence 99999997543
No 59
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=98.78 E-value=3.7e-08 Score=88.62 Aligned_cols=87 Identities=13% Similarity=0.100 Sum_probs=77.5
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+++.|+..++.|+. +.++|+..|.|.|..++.++.+...+.+|++||+++.+|+++.+|++.. .|.+|+..-.++.+
T Consensus 6 ~~~~ll~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~~i~l~~~~~~~~~~~--~~~~wl~~ia~n~~ 83 (193)
T PRK11923 6 EDQQLVERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDS--AFYTWLYRIAINTA 83 (193)
T ss_pred cHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHhCcCCCC--ccHhHHHHHHHHHH
Confidence 45677888888875 9999999999999999999998888999999999999999999999864 59999999999999
Q ss_pred HHHHHHcCCC
Q 016759 361 SKMVARHARG 370 (383)
Q Consensus 361 ~~~Ir~qsr~ 370 (383)
.+.++++.+.
T Consensus 84 ~d~~rk~~~~ 93 (193)
T PRK11923 84 KNHLVSRGRR 93 (193)
T ss_pred HHHHHHhcCC
Confidence 9999876543
No 60
>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=98.76 E-value=4.9e-08 Score=86.03 Aligned_cols=88 Identities=15% Similarity=0.157 Sum_probs=79.1
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
|++++|+..+..|+. +.+.++..|.+.|++++.++.+...+.+|++||.++.+|+..++|++.. .|.+|++..+++.
T Consensus 1 ~~~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~~--~~~~wl~~i~~n~ 78 (169)
T TIGR02954 1 MNDEELVKKAKRGNKPAFESLIKKHKEKLYKTAFIYVKNEHDALDVIQETVYKAYLSIDKLKHPK--YFNTWLTRILINE 78 (169)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhccCcc--ccHHHHHHHHHHH
Confidence 356777888888875 9999999999999999999999999999999999999999999999753 6999999999999
Q ss_pred HHHHHHHcCCC
Q 016759 360 ISKMVARHARG 370 (383)
Q Consensus 360 I~~~Ir~qsr~ 370 (383)
+.+.++++.+.
T Consensus 79 ~~d~~R~~~~~ 89 (169)
T TIGR02954 79 CIDLLKKKKKV 89 (169)
T ss_pred HHHHHHhcCCc
Confidence 99999987654
No 61
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=98.75 E-value=5.8e-08 Score=86.39 Aligned_cols=87 Identities=15% Similarity=0.130 Sum_probs=78.0
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+++.|+..+..|+. +.+.|+..|.|.|..+|.++.+...+.+|++||++++||+.+.+|++. ..|.+|++...++.+
T Consensus 6 ~d~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~--~~~~~wl~~iarn~~ 83 (190)
T TIGR02939 6 LDLELVERVQRGEKQAFDLLVRKYQHKVVALVGRYVRDSSEVEDVAQEAFVKAYRALSSFRGD--SAFYTWLYRIAVNTA 83 (190)
T ss_pred cHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCC--CccHhHHHHHHHHHH
Confidence 46778888888875 999999999999999999999888999999999999999999999975 369999999999999
Q ss_pred HHHHHHcCCC
Q 016759 361 SKMVARHARG 370 (383)
Q Consensus 361 ~~~Ir~qsr~ 370 (383)
.+.++++.+.
T Consensus 84 ~~~~r~~~r~ 93 (190)
T TIGR02939 84 KNHLVAQGRR 93 (190)
T ss_pred HHHHHHhccC
Confidence 9999876543
No 62
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=98.75 E-value=3.8e-08 Score=87.47 Aligned_cols=87 Identities=14% Similarity=0.030 Sum_probs=77.7
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+...|+..+..|+. +..+|+..|.+.|..+|.++.+...+.+|++||+++.+|+++++|++..+ .|.||.+.-.++.+
T Consensus 5 ~~~~li~~~~~g~~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~fl~~~~~~~~~~~~~~-~~~~wl~~ia~n~~ 83 (179)
T PRK12514 5 DIEKLIVRVSLGDRDAFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSGL-SPMTWLITIARNHA 83 (179)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhHHhcCcccc-cHHHHHHHHHHHHH
Confidence 45667777777765 99999999999999999999998899999999999999999999997544 69999999999999
Q ss_pred HHHHHHcCC
Q 016759 361 SKMVARHAR 369 (383)
Q Consensus 361 ~~~Ir~qsr 369 (383)
.+.++++.+
T Consensus 84 ~d~~R~~~~ 92 (179)
T PRK12514 84 IDRLRARKA 92 (179)
T ss_pred HHHHHhcCC
Confidence 999998654
No 63
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=98.72 E-value=5.9e-08 Score=89.22 Aligned_cols=86 Identities=15% Similarity=0.088 Sum_probs=75.3
Q ss_pred HHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHH
Q 016759 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (383)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~ 362 (383)
..|...+..|+. +.++|+..|.+.|..++.++.+...+.+|++|++++.+|+++.+|++.++ .|.||++..+++.+.+
T Consensus 26 ~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wl~~I~rn~~~d 104 (206)
T PRK12526 26 QWLILVAISRDKQAFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYTVMRNAAFD 104 (206)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCccc-chhHHHHHHHHHHHHH
Confidence 445555666654 99999999999999999999888889999999999999999999998766 6999999999999999
Q ss_pred HHHHcCCC
Q 016759 363 MVARHARG 370 (383)
Q Consensus 363 ~Ir~qsr~ 370 (383)
.++++.+.
T Consensus 105 ~~Rk~~~~ 112 (206)
T PRK12526 105 MLRKIKAK 112 (206)
T ss_pred HHHHhccc
Confidence 99986543
No 64
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=98.71 E-value=8.1e-08 Score=83.75 Aligned_cols=84 Identities=21% Similarity=0.140 Sum_probs=74.1
Q ss_pred HHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHH
Q 016759 286 LKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMV 364 (383)
Q Consensus 286 L~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~I 364 (383)
|...+..|+. |.+.|+..|.+.|..+|+++.+...+.+|++|++++.|+++++.|+ .+..|.+|++..+++.+.+.+
T Consensus 3 ~~~~~~~~~~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDl~qe~~~~l~~~~~~~~--~~~~~~~~l~~i~~~~~~d~~ 80 (179)
T PRK11924 3 LMPVDATGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFN--GKGSARTWLLTIARNVCYDLL 80 (179)
T ss_pred HHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHHHH
Confidence 4455666654 9999999999999999999999999999999999999999999999 345899999999999999999
Q ss_pred HHcCCCc
Q 016759 365 ARHARGI 371 (383)
Q Consensus 365 r~qsr~I 371 (383)
++..+..
T Consensus 81 r~~~~~~ 87 (179)
T PRK11924 81 RRRRREK 87 (179)
T ss_pred Hhccccc
Confidence 9765543
No 65
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=98.66 E-value=7.2e-08 Score=86.30 Aligned_cols=86 Identities=19% Similarity=0.105 Sum_probs=76.0
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
...+...+..|+. +.++|+..|.+.|+.+|.++.+...+.||++||.++.+|+.+.+|++.++ .|.+|++.-+++.+.
T Consensus 12 ~~~l~~~~~~~~~~~~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~-~~~~wl~~I~~n~~~ 90 (187)
T PRK12534 12 TGRLLTATAGGDRHAFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHKAGQFDPSRA-RGLTWLAMIARNKAI 90 (187)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhhHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHHHH
Confidence 4556666666764 99999999999999999999988899999999999999999999998655 688999999999999
Q ss_pred HHHHHcCC
Q 016759 362 KMVARHAR 369 (383)
Q Consensus 362 ~~Ir~qsr 369 (383)
++++++.+
T Consensus 91 d~~R~~~~ 98 (187)
T PRK12534 91 DHLRANAP 98 (187)
T ss_pred HHHHhccc
Confidence 99998653
No 66
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=98.66 E-value=1.7e-07 Score=85.07 Aligned_cols=88 Identities=17% Similarity=0.125 Sum_probs=79.4
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
++++.++..+..|+. +.+.|+..|.|.|.+++.++.+...+.||++||.++.+|+.+++|++.. .|.+|+..-+++.
T Consensus 12 ~~~~~l~~~~~~gd~~~~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQEvfl~l~~~~~~~~~~~--~f~~wL~~i~rn~ 89 (192)
T PRK09643 12 RSDAELLAAHVAGDRYAFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGDA--AVSSWLHRIVVNA 89 (192)
T ss_pred cCHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCCC--ccHHHHHHHHHHH
Confidence 357788888888876 9999999999999999999998889999999999999999999999743 6999999999999
Q ss_pred HHHHHHHcCCC
Q 016759 360 ISKMVARHARG 370 (383)
Q Consensus 360 I~~~Ir~qsr~ 370 (383)
+.+.+|+..+.
T Consensus 90 ~~d~~Rk~~~~ 100 (192)
T PRK09643 90 CLDRLRRAKAR 100 (192)
T ss_pred HHHHHHccccC
Confidence 99999986544
No 67
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=98.64 E-value=1.4e-07 Score=84.59 Aligned_cols=89 Identities=17% Similarity=0.134 Sum_probs=79.8
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
++.++|+..+..|+. +.+.|+..|.+.|..++.++.+...+.+|++||.++.+|+.+++|++..+ .|.+|++.-+++.
T Consensus 8 ~~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wL~~iarn~ 86 (182)
T PRK12537 8 FDYEACLLACARGDRRALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPARG-SARGWIYSVTRHL 86 (182)
T ss_pred hhHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHH
Confidence 355678888888875 99999999999999999999999899999999999999999999986444 7999999999999
Q ss_pred HHHHHHHcCCC
Q 016759 360 ISKMVARHARG 370 (383)
Q Consensus 360 I~~~Ir~qsr~ 370 (383)
+.+.++++.+.
T Consensus 87 ~~d~~r~~~~~ 97 (182)
T PRK12537 87 ALNVLRDTRRE 97 (182)
T ss_pred HHHHHHhcccc
Confidence 99999988654
No 68
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=98.64 E-value=1e-07 Score=86.42 Aligned_cols=86 Identities=15% Similarity=0.053 Sum_probs=76.7
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
-.+|+..+..|+. +.+.|+..|.|.|..+|.++.+...+.+|++||.++.+|+...+|++..+ .|.+|++.-+++.+.
T Consensus 14 ~~~li~~~~~~d~~af~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQev~l~l~~~~~~~~~~~~-~~~~wL~~iarn~~l 92 (194)
T PRK12531 14 WLECMEKVKSRDKQAFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDGQKS-ALSTWIYTIIRNLCF 92 (194)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCcccc-hHHHHHHHHHHHHHH
Confidence 3456777777775 99999999999999999999988889999999999999999999997555 799999999999999
Q ss_pred HHHHHcCC
Q 016759 362 KMVARHAR 369 (383)
Q Consensus 362 ~~Ir~qsr 369 (383)
++++++.+
T Consensus 93 d~~Rk~~~ 100 (194)
T PRK12531 93 DLLRKQKG 100 (194)
T ss_pred HHHHHhcc
Confidence 99998654
No 69
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=98.62 E-value=1.5e-07 Score=89.09 Aligned_cols=87 Identities=18% Similarity=0.145 Sum_probs=78.2
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHH
Q 016759 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (383)
Q Consensus 281 l~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~a 359 (383)
.++++|+..+..|+. +.++|+..|.+.|..++.++.+...+.||++||.++.+|+..++|++..+ .|.+|++...++.
T Consensus 48 ~~d~~Li~~~~~gd~~af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN~ 126 (233)
T PRK12538 48 DEDEELLDRLATDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSNR 126 (233)
T ss_pred ccHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHHH
Confidence 356778888888875 99999999999999999999988889999999999999999999987555 7999999999999
Q ss_pred HHHHHHHcC
Q 016759 360 ISKMVARHA 368 (383)
Q Consensus 360 I~~~Ir~qs 368 (383)
+++.+|++.
T Consensus 127 ~id~~Rk~~ 135 (233)
T PRK12538 127 CIDLRRKPR 135 (233)
T ss_pred HHHHHHhhc
Confidence 999999753
No 70
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=98.59 E-value=2.2e-07 Score=83.68 Aligned_cols=88 Identities=16% Similarity=0.110 Sum_probs=79.2
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 280 gl~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
.+++++|+..+..|+. +.+.|+..|.+.|..++.++.+...+.+|++||+++.+|+...+|++. ..|.+|++.-+++
T Consensus 6 ~~~~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~l~~~~~~~~~~--~~~~~wl~~i~~n 83 (189)
T PRK12515 6 ATTDEMLLARIAQGDRTAMQTLYGRHHVRVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGR--SQVSTWLLSIARF 83 (189)
T ss_pred ccCHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CChHHHHHHHHHH
Confidence 3567888888888876 999999999999999999998888999999999999999999999963 3799999999999
Q ss_pred HHHHHHHHcCC
Q 016759 359 SISKMVARHAR 369 (383)
Q Consensus 359 aI~~~Ir~qsr 369 (383)
.+.+.++++.+
T Consensus 84 ~~~d~~r~~~~ 94 (189)
T PRK12515 84 KALSALRRRKH 94 (189)
T ss_pred HHHHHHHccCC
Confidence 99999997543
No 71
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=98.58 E-value=2.8e-07 Score=82.54 Aligned_cols=85 Identities=15% Similarity=0.098 Sum_probs=73.6
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccC-CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRG-LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~-~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
...++..+..|+. +.++|+..|.+.|..++.++.+ ...+.+|++||+++.||+.++.||+. .+|.+|++..+++.+
T Consensus 8 ~~~~~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~iarN~~ 85 (181)
T PRK12536 8 LRALLLRGLAGDAAAYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHAIARYKL 85 (181)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHHHHHHHH
Confidence 3456666666665 9999999999999999988764 47899999999999999999999974 369999999999999
Q ss_pred HHHHHHcCC
Q 016759 361 SKMVARHAR 369 (383)
Q Consensus 361 ~~~Ir~qsr 369 (383)
.+++|++.+
T Consensus 86 ~d~~Rk~~~ 94 (181)
T PRK12536 86 MDFLRSRAR 94 (181)
T ss_pred HHHHHHHhc
Confidence 999998654
No 72
>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=98.54 E-value=2.8e-07 Score=81.77 Aligned_cols=73 Identities=19% Similarity=0.233 Sum_probs=66.0
Q ss_pred HHHHHHHHHhhHHHHHHHHHccC----CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 295 YCREELIKSTRPLVLFLARNYRG----LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~----~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
.|.++|+..|.+.|..+|++|.+ ...+.+|++|++++.+|+++..|+...+.+|.+|++..+++.+.+.++++
T Consensus 7 ~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~~~~~~wl~~i~~n~~~d~~r~~ 83 (189)
T TIGR02984 7 EALGELLDRYRNYLRLLARVQLDPRLRRRVDPSDLVQETLLEAHRRFDQFRGKTEGEFAGWLRGILSNVLADALRRH 83 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCccCHHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHHHHHHHHHHHH
Confidence 49999999999999999998743 46789999999999999999999986666899999999999999999864
No 73
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=98.51 E-value=7.4e-07 Score=79.57 Aligned_cols=87 Identities=17% Similarity=0.148 Sum_probs=73.5
Q ss_pred HHHHHHHHhcH-HHHHHHHHHhhHHHHHHHHHccCC----CCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 284 RVLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGL----GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 284 eeL~~~l~~G~-~Are~LI~~nlrLV~~IAkry~~~----gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
..|+..+..|+ .|.++|++.|.+.|..+|.++.+. ..+.+|++||+++.+|+..+.|++. ..|.+|++.-+++
T Consensus 10 ~~l~~~~~~gd~~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeDlvQe~fl~l~~~~~~~~~~--~~~~~wl~~i~rn 87 (184)
T PRK12512 10 TDLMRSANAGDAAAYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDPG--APFAPWLFAIARN 87 (184)
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHhHHhcCcc--ccHHHHHHHHHHH
Confidence 34566666665 499999999999999999988753 3599999999999999999999873 3799999999999
Q ss_pred HHHHHHHHcCCCcc
Q 016759 359 SISKMVARHARGIK 372 (383)
Q Consensus 359 aI~~~Ir~qsr~IR 372 (383)
.+.++++++.+...
T Consensus 88 ~~~d~~Rr~~~~~~ 101 (184)
T PRK12512 88 KLIDALRRRGRRVF 101 (184)
T ss_pred HHHHHHHhhccccc
Confidence 99999998765433
No 74
>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=98.51 E-value=4.6e-07 Score=78.47 Aligned_cols=73 Identities=15% Similarity=0.149 Sum_probs=67.8
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
+.+.++..|.|.|..+|+++.+...+.||++|++++.+++.+++||+.. .|.+|++.-+++.+.+.++++.+.
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 6789999999999999999999999999999999999999999999753 699999999999999999987654
No 75
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=98.50 E-value=7.3e-07 Score=80.06 Aligned_cols=85 Identities=12% Similarity=0.065 Sum_probs=74.0
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHH----HccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLAR----NYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIR 357 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAk----ry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr 357 (383)
..+|+..+..|+. ++++|+..|.+.|..+|+ ++.+...+.+|++||.++.+|+....|++.. .|.+|++.-++
T Consensus 8 ~~~l~~~~~~gd~~af~~l~~~~~~~l~~~~~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~--~f~~wl~~i~~ 85 (184)
T PRK12539 8 LKALMLASLDGDAAAHRALLERLSGHLRAYYKGKLARIGRGAEEAEDLVQEALMAIHTRRHTYDPEQ--PLTPWVYAIAR 85 (184)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhhcCCCC--ChHHHHHHHHH
Confidence 5667777777865 999999999999999986 4556678999999999999999999999753 69999999999
Q ss_pred HHHHHHHHHcCC
Q 016759 358 KSISKMVARHAR 369 (383)
Q Consensus 358 ~aI~~~Ir~qsr 369 (383)
+.+.+++++..+
T Consensus 86 n~~~d~~R~~~~ 97 (184)
T PRK12539 86 YKLIDHLRRTRA 97 (184)
T ss_pred HHHHHHHHHHhc
Confidence 999999998654
No 76
>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=98.50 E-value=3.1e-07 Score=78.61 Aligned_cols=73 Identities=15% Similarity=0.163 Sum_probs=66.8
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
|.++|+..|.|.|..+++++.+...+.+|++||+++++++.+.+|++. .+|.+|++..+++.+.+.++++.+.
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~~--~~~~~wl~~i~r~~~~d~~r~~~~~ 74 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEEV--ESFKAYLFTIVKNRSLNYLRHKQVE 74 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc--ccHHHHHHHHHHHHHHHHHHHHHhH
Confidence 678999999999999999999888899999999999999999999863 3799999999999999999987543
No 77
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=98.42 E-value=9.3e-07 Score=78.37 Aligned_cols=73 Identities=12% Similarity=0.155 Sum_probs=67.5
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
..++|+..|.++|..+|.+|.+...+.+|++||+++.||+.+++|++.. +|.+|+..-+++.+.+.++++.+.
T Consensus 4 ~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~Rk~~~~ 76 (173)
T PRK12522 4 KVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVE--NYKKWITTICVRTFYDFYRKKKRW 76 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCcc--chHHHHHHHHHHHHHHHHHHhccc
Confidence 5789999999999999999999999999999999999999999999854 799999999999999999987654
No 78
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=98.39 E-value=1.1e-06 Score=77.65 Aligned_cols=78 Identities=17% Similarity=0.088 Sum_probs=68.2
Q ss_pred HHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHH
Q 016759 288 QHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAR 366 (383)
Q Consensus 288 ~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~ 366 (383)
..++.|+. +.+.++..|.|.|..++.++.+. .+.+|++||.++.+|+.++.|++. ..|.+|++.-+++.+.+.+|+
T Consensus 3 ~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~-~~aeDivQe~~l~l~~~~~~~~~~--~~~~~wl~~ia~n~~~d~~R~ 79 (175)
T PRK12518 3 LRCQRGDRQSFRQLYRRYQQKVRSTLYQLCGR-ELLDDLVQEVFLRVWKGLPKLRNP--AYFSTWLYRITWNVATDARRQ 79 (175)
T ss_pred hHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCH-hHHHHHHHHHHHHHHHhHHhhCCc--ccHHHHHHHHHHHHHHHHHHH
Confidence 34556654 99999999999999999998754 688999999999999999999974 379999999999999999997
Q ss_pred cC
Q 016759 367 HA 368 (383)
Q Consensus 367 qs 368 (383)
+.
T Consensus 80 ~~ 81 (175)
T PRK12518 80 FA 81 (175)
T ss_pred hh
Confidence 54
No 79
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=98.32 E-value=1.8e-06 Score=77.22 Aligned_cols=72 Identities=13% Similarity=0.077 Sum_probs=66.4
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
.+.+.|+..|.|.|..++.+|.+...+.+|++|++++.+|+++.+|++.. .|.+|+..-+++.+.+++++..
T Consensus 7 ~af~~l~~~~~~~l~~~~~~~~~~~~daeDl~Qevfl~l~~~~~~~~~~~--~f~~wl~~iarn~~~~~~r~~~ 78 (179)
T PRK12543 7 EAFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNR--PFRFWLIGLVIKQIHSWRRKRW 78 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--ChHHHHHHHHHHHHHHHHHhhc
Confidence 49999999999999999999999889999999999999999999999864 6999999999999999887654
No 80
>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=98.29 E-value=2.5e-06 Score=75.84 Aligned_cols=84 Identities=14% Similarity=0.129 Sum_probs=73.3
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCC-----ChHHHHHHHHHHHHH-HHHccCCCCCCccchHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGI-----PFSDLLQAGNVGVLQ-GAERFDHTRGYKFSTYVQYW 355 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gl-----d~EDLiQEG~IGLir-AiekFDpsrG~rFSTYA~~w 355 (383)
.+.|+..+..|+. +.++|+..|.+.|..+|.+|.+... +.+|++||.++.+|+ ...+|++. + .|.+|+..+
T Consensus 4 ~~~li~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~AeDlvQevfl~~~~~~~~~~~~~-~-~~~~wl~~i 81 (183)
T TIGR02999 4 VTELLQQWQNGDAAARDQLFPQLYQELRRIARRQLRRERSGQTLQTTALVHEAYLRLSDQDEQKWDDR-A-HFFAAAAKA 81 (183)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhcccCCCCch-H-HHHHHHHHH
Confidence 4567778888875 9999999999999999999987766 899999999999998 78888753 3 699999999
Q ss_pred HHHHHHHHHHHcC
Q 016759 356 IRKSISKMVARHA 368 (383)
Q Consensus 356 Ir~aI~~~Ir~qs 368 (383)
+++.+.+.++++.
T Consensus 82 ~~n~~~d~~R~~~ 94 (183)
T TIGR02999 82 MRRILVDHARRRR 94 (183)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998754
No 81
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=98.29 E-value=1.3e-06 Score=78.33 Aligned_cols=75 Identities=13% Similarity=0.104 Sum_probs=69.1
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.+.+.|+..|.+.|..+|.++.+...+.+|++||.++.+|+.+.+|++..+..|.||+..-+++.+.+.++++.+
T Consensus 9 ~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~Rk~~~ 83 (185)
T PRK12542 9 EKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYRKNKR 83 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 499999999999999999999988889999999999999999999997554589999999999999999998754
No 82
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=98.27 E-value=6e-06 Score=74.20 Aligned_cols=81 Identities=22% Similarity=0.232 Sum_probs=71.0
Q ss_pred HHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 290 LAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 290 l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
......+.++++..|.+.+...+.++.+...+.|||+||.++.+++++..| ...+ .|.||.+.-+++.+++.+|++.+
T Consensus 10 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~-~~~~-~~~~wl~~Ia~n~~iD~~R~~~r 87 (182)
T COG1595 10 LRGDRAAFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF-RGRS-SFKAWLYRIARNLAIDRLRKRKR 87 (182)
T ss_pred HhcchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc-CCCC-chHHHHHHHHHHHHHHHHHHhcc
Confidence 344455999999999999999999999887899999999999999999999 4444 79999999999999999998766
Q ss_pred Ccc
Q 016759 370 GIK 372 (383)
Q Consensus 370 ~IR 372 (383)
...
T Consensus 88 ~~~ 90 (182)
T COG1595 88 RRA 90 (182)
T ss_pred ccc
Confidence 443
No 83
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=98.23 E-value=4.6e-06 Score=74.75 Aligned_cols=74 Identities=14% Similarity=0.047 Sum_probs=67.7
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
..|.++|+..|.|.|.++|.++.+..-+.+|++|++++.||+++.+|++. + .|.+|++..+++.+.+.+|+..+
T Consensus 15 ~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~-~-~~~awl~~ia~n~~~d~~Rk~~~ 88 (179)
T PRK09415 15 EDLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK-S-SLKTWLYRIAINHCKDYLKSWHN 88 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC-c-ccHHHHHHHHHHHHHHHHHhhcc
Confidence 45999999999999999999999888899999999999999999999974 3 69999999999999999998543
No 84
>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=98.22 E-value=7.7e-06 Score=78.22 Aligned_cols=89 Identities=13% Similarity=0.030 Sum_probs=78.6
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHH-------HHHHccCCCCCCccchH
Q 016759 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVL-------QGAERFDHTRGYKFSTY 351 (383)
Q Consensus 280 gl~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLi-------rAiekFDpsrG~rFSTY 351 (383)
+.++..|+..++.|+. |..+|+..|.+.|..++.++.+...+.||++||.++-+| +.+.+|++. ..|.||
T Consensus 23 ~~~d~~Li~~~~~gd~~Af~~L~~~y~~~l~~~~~~~~~~~~dAEDivQEvFlkl~~~~~~~~~~~~~~~~~--~~~~tW 100 (244)
T TIGR03001 23 HAADLYLACACAQGEPAALAALERHVLSKVPARLAGLRPPTAFVDEVLQRLRQRLLVPRAERPPRIAEYSGR--GPLLSW 100 (244)
T ss_pred cccHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccchhhhhhccCCC--CchHhH
Confidence 3467889999999886 999999999999999999998888999999999999999 478899963 379999
Q ss_pred HHHHHHHHHHHHHHHcCCC
Q 016759 352 VQYWIRKSISKMVARHARG 370 (383)
Q Consensus 352 A~~wIr~aI~~~Ir~qsr~ 370 (383)
.+.-.++.+.++++++.+.
T Consensus 101 L~~Ia~N~~id~lRk~~r~ 119 (244)
T TIGR03001 101 VRIVATRIALELQAQERRH 119 (244)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 9999999999999976543
No 85
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=98.16 E-value=7.5e-06 Score=74.00 Aligned_cols=84 Identities=19% Similarity=0.110 Sum_probs=72.9
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
...|+..+..|+. +.++|+..|.+.+..++. +.+...+.+|++||.++.+|+..++|++. ..|.+|++.-.++.+.
T Consensus 11 ~~~l~~~~~~gd~~af~~l~~~~~~~l~~~~~-~~~~~~~AeDivQe~flkl~~~~~~~~~~--~~~~~Wl~~Iarn~~~ 87 (185)
T PRK09649 11 VTALALSAAKGNGRALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIARHVVA 87 (185)
T ss_pred HHHHHHHHHccCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHhccccCcc--chHHHHHHHHHHHHHH
Confidence 4566777777775 999999999999999995 56667899999999999999999999964 3799999999999999
Q ss_pred HHHHHcCC
Q 016759 362 KMVARHAR 369 (383)
Q Consensus 362 ~~Ir~qsr 369 (383)
+.+|++.+
T Consensus 88 d~~Rk~~~ 95 (185)
T PRK09649 88 DHIRHVRS 95 (185)
T ss_pred HHHHHhcc
Confidence 99997543
No 86
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=98.15 E-value=9e-06 Score=79.83 Aligned_cols=84 Identities=18% Similarity=0.137 Sum_probs=75.9
Q ss_pred HHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHH
Q 016759 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (383)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~ 362 (383)
.+|+..+..|+. +.++|+..|.+.|..+|.++.+...+.+|++||.++.+|+.+++|++. ..|.+|++.-.++.+.+
T Consensus 7 ~~l~~~~~~gd~~af~~l~~~y~~~l~~~~~~~~~~~~dAEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d 84 (339)
T PRK08241 7 AALLARAAAGDRDAFAALVEPHRRELLAHCYRMLGSVHDAEDAVQETLLRAWRGYDRFEGR--SSLRTWLYRIATNVCLD 84 (339)
T ss_pred HHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhhhccccc--cchHHHHHHHHHHHHHH
Confidence 567888888875 999999999999999999999888899999999999999999999853 36999999999999999
Q ss_pred HHHHcCC
Q 016759 363 MVARHAR 369 (383)
Q Consensus 363 ~Ir~qsr 369 (383)
++|++.+
T Consensus 85 ~~Rk~~~ 91 (339)
T PRK08241 85 ALEGRAR 91 (339)
T ss_pred HHHhhcc
Confidence 9997654
No 87
>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=98.15 E-value=7.2e-06 Score=71.51 Aligned_cols=74 Identities=16% Similarity=0.021 Sum_probs=67.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
..+.+.|+..|.+.|..+|.++.+...+.+|++||+++.+|+..++|+. . ..|.+|++.-+++.+.+.++++.+
T Consensus 5 ~~~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~-~-~~~~~wl~~i~~n~~~d~~rk~~~ 78 (162)
T TIGR02983 5 EEEFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD-P-DAPDAYVRRVLVNLARSRWRRRRL 78 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC-c-ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 4599999999999999999999988899999999999999999999964 3 479999999999999999997654
No 88
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=98.10 E-value=1.1e-05 Score=70.52 Aligned_cols=73 Identities=14% Similarity=-0.018 Sum_probs=65.1
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCc
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGI 371 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~I 371 (383)
.+.++|+..|.+.|..+|.++.+...+.+|++||+++.+|+. .|+. +..|.+|++..+++.+.+.+++..+..
T Consensus 3 ~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~~--~~~~~~wl~~i~rn~~~d~~rk~~~~~ 75 (166)
T PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFKG--IENEKGWLIKSARNVAYNYLRSEKRRR 75 (166)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hccc--ccchHHHHHHHHHHHHHHHHHHhcccc
Confidence 478999999999999999999988899999999999999999 6764 347999999999999999999876543
No 89
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=98.10 E-value=1.3e-05 Score=70.70 Aligned_cols=73 Identities=11% Similarity=0.109 Sum_probs=66.9
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
..+.+++..|.+.|..+|.++.+...+.||++||.++.+|+...+|++.. .|.+|++.-+++.+.+.++++.+
T Consensus 6 ~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~R~~~~ 78 (164)
T PRK12547 6 KNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMGT--NLKAWLFTILRNEFYSQMRKRGR 78 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCcc--cHHHHHHHHHHHHHHHHHHhhcc
Confidence 47889999999999999999999999999999999999999999998643 59999999999999999997654
No 90
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=98.07 E-value=1.6e-05 Score=69.93 Aligned_cols=71 Identities=17% Similarity=0.057 Sum_probs=65.1
Q ss_pred HHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 297 re~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
.+.|++.|.|.|..+|.++.+...+.+|++|+.++.+|+.++.|++. .|.+|++.-+++.+.+.+++..+.
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wL~~i~~n~~~d~~R~~~~~ 73 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKEKKV 73 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc---chHHHHHHHHHHHHHHHHHhhhhc
Confidence 46799999999999999999988999999999999999999999863 599999999999999999987654
No 91
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=98.06 E-value=1.6e-05 Score=69.57 Aligned_cols=72 Identities=10% Similarity=0.051 Sum_probs=66.6
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.+.++++..|.+.|..++.++.+...+.+|++||+++.+++..++|++. .|.||++.-+++.+.+.++++.+
T Consensus 5 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~~ 76 (161)
T PRK12541 5 QSLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKEKK 76 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhccc
Confidence 4889999999999999999999988999999999999999999999863 59999999999999999998654
No 92
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=98.03 E-value=1.6e-05 Score=71.65 Aligned_cols=75 Identities=20% Similarity=0.233 Sum_probs=67.7
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCcc
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIK 372 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IR 372 (383)
+.++|+..|.+.|..+|.++.+...+.+|++||.++.+|+.+++|+.. .+|.+|++.-+++.+.+.++++.+...
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~~r~~~ 77 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSGRREVR 77 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhhcCcCc
Confidence 578999999999999999999888899999999999999999999854 369999999999999999998765443
No 93
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=98.01 E-value=2.3e-05 Score=69.21 Aligned_cols=75 Identities=12% Similarity=-0.019 Sum_probs=67.4
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
..+.+.|+..|.+.|..+|.++.+...+.||++||.++.+|+..++|++.. ..|.+|+..-+++.+.+.++++.+
T Consensus 8 ~~~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~~~ 82 (173)
T PRK09645 8 AALMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSARA 82 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 358999999999999999999988878999999999999999999998533 379999999999999999997544
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=98.01 E-value=2e-05 Score=71.18 Aligned_cols=74 Identities=9% Similarity=-0.012 Sum_probs=67.6
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
.++++|+..|.+.|..+|.++.+...+.+|++||.++.+|+...+|++. ..|.+|++.-+++.+.+.++++.+.
T Consensus 11 ~~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk~~~~ 84 (193)
T TIGR02947 11 QRFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRKAQRR 84 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHHhcCC
Confidence 4899999999999999999999888899999999999999999999864 3699999999999999999986543
No 95
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=97.97 E-value=3.9e-05 Score=70.43 Aligned_cols=83 Identities=19% Similarity=0.095 Sum_probs=71.4
Q ss_pred HHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHH
Q 016759 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (383)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~ 362 (383)
.+|+..+..|+. +.++|+..|.+.+..+++ +.+...+.+|++||.++.||+..++|++. + .|.+|++.-+++.+.+
T Consensus 13 ~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~-~~~~~~~AEDivQevflkl~~~~~~~~~~-~-~~~~WL~~Iarn~~id 89 (196)
T PRK12535 13 TDLALAAGRGDRAALTEFIRETQDDVWRLLA-HLGGHDIADDLTQETYLRVMSALPRFAAR-S-SARTWLLSLARRVWVD 89 (196)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHHhhhcCCc-c-cHHHHHHHHHHHHHHH
Confidence 456666666765 999999999999999975 55677899999999999999999999963 3 7999999999999999
Q ss_pred HHHHcCC
Q 016759 363 MVARHAR 369 (383)
Q Consensus 363 ~Ir~qsr 369 (383)
.+|++.+
T Consensus 90 ~~Rk~~~ 96 (196)
T PRK12535 90 NIRHDMA 96 (196)
T ss_pred HHHhhcc
Confidence 9998644
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=97.92 E-value=3.1e-05 Score=70.32 Aligned_cols=71 Identities=15% Similarity=0.112 Sum_probs=64.4
Q ss_pred HHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 298 e~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
.+.|..|.+.|..++.++.+...+.+|++|+.++.+|+...+|++. .+|.+|++..+++.+.++++++.+.
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 3577889999999999999988999999999999999999999964 4799999999999999999987654
No 97
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=97.90 E-value=4.1e-05 Score=66.96 Aligned_cols=71 Identities=17% Similarity=0.079 Sum_probs=64.5
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
.+.++|+..|.+.|..++.++.+...+.+|++||.++.+|+....|++ + .|.+|.+.++++.+.+.+|++.
T Consensus 4 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~flk~~~~~~~~~~--~-~~~~wl~~i~~n~~~d~~R~~~ 74 (161)
T PRK12528 4 ATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQI--I-EPRAFLTTIAKRVLCNHYRRQD 74 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHhccccccc--c-CHHHHHHHHHHHHHHHHHHHHH
Confidence 378899999999999999999988889999999999999999888764 2 6899999999999999999754
No 98
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=97.89 E-value=5.4e-05 Score=68.89 Aligned_cols=75 Identities=12% Similarity=0.098 Sum_probs=68.0
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
+.+..+|+..|.+.+..+|.++.+...+.+|++||.++.+|+...+|+... .|.+|++.-.++.+.+.++++.+.
T Consensus 9 ~~~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~~--~~~awL~~Ia~n~~~d~~R~~~~~ 83 (187)
T PRK12516 9 TPPFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVGT--NMKAWLFTILRNEFYSQMRKRGRE 83 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCcc--cHHHHHHHHHHHHHHHHHHhhcCC
Confidence 458999999999999999999998888999999999999999999998643 699999999999999999987553
No 99
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=97.89 E-value=6e-05 Score=68.14 Aligned_cols=76 Identities=11% Similarity=0.123 Sum_probs=67.8
Q ss_pred HHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 297 re~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
.++|+..|.+.|..+|.++.+...+.+|++||.++.+|+.+..|++. ..|.+|++.-+++.+.+.++++.+...++
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~aeDi~QEvflkl~~~~~~~~~~--~~~~~wL~~i~~n~~~d~~Rk~~~~~~~~ 78 (181)
T PRK09637 3 LESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKDG--SSIKSWLYQIANNTIIDFYRKKNRSEELP 78 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHhHHHhccc--cchHHHHHHHHHHHHHHHHHhccccCCcc
Confidence 46889999999999999999999999999999999999999999853 37999999999999999999876654443
No 100
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=97.88 E-value=4.6e-05 Score=74.04 Aligned_cols=73 Identities=15% Similarity=0.117 Sum_probs=67.2
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.+.++|+..|.+.|+.+|.++.+...+.||++||.++.+|+.+.+|+.. ..|.+|++.-.++.+.+.+|++.+
T Consensus 5 ~af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~~ 77 (324)
T TIGR02960 5 AAFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEARQR 77 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhccC
Confidence 4899999999999999999999888899999999999999999999964 369999999999999999997644
No 101
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=97.88 E-value=4.8e-05 Score=70.39 Aligned_cols=72 Identities=25% Similarity=0.304 Sum_probs=66.9
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.+.++|+..|.+.+..++.++.+...+.+|++||.++.+|+.+.+|++ + .|.+|++.-+++.+.+++++..+
T Consensus 28 ~a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~~~ 99 (203)
T PRK09647 28 PSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRRAR 99 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhccc
Confidence 499999999999999999999988889999999999999999999985 3 69999999999999999998653
No 102
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=97.88 E-value=3e-05 Score=66.78 Aligned_cols=66 Identities=11% Similarity=-0.002 Sum_probs=59.8
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
..|.|.|..++.++.+.-.+.+|++||.++.+++.+++|++ .+|.+|++..+++.+.+.++++.+.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~~~~ 67 (154)
T TIGR02950 2 REYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKDKKI 67 (154)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHhhhh
Confidence 46889999999999888789999999999999999999997 3799999999999999999976543
No 103
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=97.86 E-value=4e-05 Score=69.32 Aligned_cols=71 Identities=15% Similarity=0.192 Sum_probs=62.7
Q ss_pred HHHHHHhhHHHHHHHHHccCCCCC-hHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 298 EELIKSTRPLVLFLARNYRGLGIP-FSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 298 e~LI~~nlrLV~~IAkry~~~gld-~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
++.+..|.+.|..+|.++.+...+ .+|++||.++.+|+...+|+.. + .|.+|++.-+++.+.+++|++.+.
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~-~-~~~~wL~~Ia~n~~~d~~Rk~~~~ 79 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR-A-LVNSWLFAILKNKIIDALRQIGRQ 79 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc-c-hHHHHHHHHHHHHHHHHHHHhccc
Confidence 356677899999999999888777 9999999999999999999863 3 799999999999999999987653
No 104
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=97.83 E-value=8.4e-05 Score=69.76 Aligned_cols=75 Identities=16% Similarity=0.064 Sum_probs=67.7
Q ss_pred hcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 292 FGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 292 ~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
....+.+.|+..|.+.++.++.++.+...+.+|++||.++-+|+.+.+|++. .|.+|++.-+++.+.+.++++.+
T Consensus 15 ~~~~~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~~---~~~aWL~~IarN~~~d~~Rk~~~ 89 (216)
T PRK12533 15 ARGERFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRGD---NARPWLLAIVRHTWYSEWRRRAN 89 (216)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCcc---chHhHHHHHHHHHHHHHHHhhcc
Confidence 3456899999999999999999999888999999999999999999999852 48999999999999999997654
No 105
>TIGR02959 SigZ RNA polymerase sigma factor, SigZ family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded).
Probab=97.79 E-value=6.6e-05 Score=66.87 Aligned_cols=71 Identities=14% Similarity=0.203 Sum_probs=62.7
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
..|.+.++.++.++.+...+.+|++|+.++.+|+++.+|++. .+|.+|+...+++.+.++++++.+...++
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~l~~~~~~~~~~--~~f~~wl~~iarn~~~d~~Rk~~~~~~~~ 72 (170)
T TIGR02959 2 DEFRSELKAFIKSRVSDASDVEDLLQEVFIKIHRNLPSLKDG--QKIQSWLYQIARNTIIDFYRSKSRSVELP 72 (170)
T ss_pred chHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhccCccccc
Confidence 357888999999999888999999999999999999999963 48999999999999999999987655444
No 106
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=97.73 E-value=6.7e-05 Score=66.57 Aligned_cols=75 Identities=15% Similarity=0.028 Sum_probs=65.1
Q ss_pred HhcH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 291 AFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 291 ~~G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
+.|+ .+..+|+..|.+.|..++.++.+...+.+|++||.++.+|+. ..|+.. ..|.+|.+...++.+.+++|++.
T Consensus 5 ~~~~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQevflk~~~~-~~~~~~--~~~~~wL~~Iarn~~~d~~Rk~~ 80 (172)
T PRK12523 5 QSPHSELVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRRAA 80 (172)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHcc-cccCcc--hhHHHHHHHHHHHHHHHHHHHHH
Confidence 3455 499999999999999999999988899999999999999986 446543 36999999999999999999864
No 107
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=97.72 E-value=5e-05 Score=66.24 Aligned_cols=65 Identities=11% Similarity=0.074 Sum_probs=59.4
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
+.|.+.|..+|.++.+...+.+|++||.++.+|+...+|++. .|.+|+..-+++.+.+.++++.+
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 578999999999999888899999999999999999999963 49999999999999999998654
No 108
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=97.67 E-value=0.00015 Score=67.25 Aligned_cols=72 Identities=18% Similarity=0.215 Sum_probs=65.3
Q ss_pred HHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 297 re~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
-..+++.|.+.|..+|.++.+...+.+|++||.++.+|+.+.+|+.. .+|.+|++.-+++.+.++++++.+.
T Consensus 20 ~~~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~~~ 91 (206)
T PRK12544 20 DPVFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQKKRH 91 (206)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhhccc
Confidence 46788899999999999999998999999999999999999999864 3699999999999999999986653
No 109
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=97.65 E-value=0.00015 Score=66.53 Aligned_cols=70 Identities=19% Similarity=0.130 Sum_probs=63.1
Q ss_pred HHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 299 ~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
.++..|.+-|..+|.++.+...+.+|++|+.++.+|+.+++|++.. .|.+|++.-+++.+.++++++.+.
T Consensus 12 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQe~fl~~~~~~~~~~~~~--~~~~WL~~IarN~~~d~~Rk~~r~ 81 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQS--AHKTWVFGILRNKLIDTLRARQRT 81 (201)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhccccc--hHHHHHHHHHHHHHHHHHHhhccc
Confidence 3478899999999999999888999999999999999999999753 699999999999999999987654
No 110
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=97.63 E-value=0.00022 Score=64.68 Aligned_cols=73 Identities=16% Similarity=0.192 Sum_probs=65.9
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
+...++..|.+.|..+|.++.+...+.+|++|+.++.+|+..++|++.. .|.+|+..-+++.+.+.++++.+.
T Consensus 6 ~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~~--~~~~WL~~Ia~n~~~d~~Rk~~~~ 78 (182)
T PRK12540 6 SLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPGS--NLPAWLFTILRNLFRSDYRKRRRE 78 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCc--hHHHHHHHHHHHHHHHHHHhcccc
Confidence 5678899999999999999998889999999999999999999998653 589999999999999999986543
No 111
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=97.62 E-value=0.00025 Score=64.49 Aligned_cols=76 Identities=12% Similarity=0.037 Sum_probs=67.1
Q ss_pred HHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 290 LAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 290 l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
+.....+.++++..|.+.|..+|.++.+...+.+|++|+.++.+|+.+..|++. ..|.+|++..+++...+..+++
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 344566999999999999999999999988899999999999999999999864 3699999999999987777654
No 112
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=97.59 E-value=0.00031 Score=64.20 Aligned_cols=71 Identities=18% Similarity=0.223 Sum_probs=62.8
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.++.|.. |.|.|..+|..+.+...+.+|++||.++.+|+.+..|+.. ..|.+|++.-+++.+.+.++++.+
T Consensus 9 ~~~~l~~-~~~~l~~~a~~~l~~~~~AEDivQevfl~l~~~~~~~~~~--~~~~awL~~ia~n~~~d~~Rk~~r 79 (188)
T PRK12546 9 PRDELVE-HLPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEG--TNLRAWLFTILRNTFYSDRRKHKR 79 (188)
T ss_pred HHHHHHH-HHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhccCCC--cchHHHHHHHHHHHHHHHHHHhcc
Confidence 4555544 7799999999999999999999999999999999999963 369999999999999999998764
No 113
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=97.59 E-value=0.00019 Score=64.42 Aligned_cols=75 Identities=8% Similarity=-0.104 Sum_probs=63.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccC--CCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRG--LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~--~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
..+.+.|++.|.+.|..++.++.+ ...+.+|++||.++-+|+...+|+......|.||.+.-.++.+.++++++.
T Consensus 12 ~~af~~ly~~~~~~l~~~~~~~~~~~~~~~AeDivQevFl~~~~~~~~~~~~~~~~~~~wL~~ia~n~~~d~~Rk~~ 88 (178)
T PRK12529 12 RDKVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDIFLRILASRDGGQREAIRQPRAYLARIANCVLVSWRRRQS 88 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcccccccccccCHHHHHHHHHHHHHHHHHHHHH
Confidence 359999999999999997554444 346899999999999999999998544457999999999999999999753
No 114
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=97.51 E-value=0.0003 Score=63.84 Aligned_cols=71 Identities=17% Similarity=0.139 Sum_probs=62.8
Q ss_pred HHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 298 e~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
++.|..|.+.+..+|.++.+...+.+|++||.++.+|+.+..|++.. +|.+|++.-.++.+.+++|++.+.
T Consensus 10 ~~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~~--~~~~wL~~Ia~n~~~d~~Rk~~~~ 80 (189)
T PRK12530 10 SLEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQS--ALKTWIFAILKNKIIDLIRYRKRF 80 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCCc--cHHHHHHHHHHHHHHHHHHhhccC
Confidence 34567788999999999998888999999999999999999998643 699999999999999999987553
No 115
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=97.45 E-value=0.00032 Score=61.20 Aligned_cols=68 Identities=15% Similarity=0.173 Sum_probs=59.6
Q ss_pred HHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 299 ~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.++..|.+.++++|.++.+...+.+|++||.++.+|+....|++. .|.+|+..-+++.+.++++++.+
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~~~ 69 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQAL 69 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhhcc
Confidence 357788999999999999888899999999999999988877753 47899999999999999997654
No 116
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=97.40 E-value=0.00061 Score=60.68 Aligned_cols=72 Identities=13% Similarity=0.096 Sum_probs=63.0
Q ss_pred HHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
..+.++++..|.+.+..++.++.+...+.+|++||.++.+|+. ..|++-. .|.+|+...+++.+.+.++++.
T Consensus 9 ~~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~~--~~~~wL~~iarn~~~d~~R~~~ 80 (172)
T PRK09651 9 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTIR--DPRSFLCTIAKRVMVDLFRRNA 80 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-ccccccc--CHHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999999999999999988899999999999999987 3565432 5889999999999999999754
No 117
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=97.30 E-value=0.00076 Score=61.25 Aligned_cols=73 Identities=14% Similarity=0.123 Sum_probs=64.2
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~ 370 (383)
.++..+..+.+.|...|.++.+...+.+|++||.++.+|+....|+.. + .|.+|...-+++.+.++++++.+.
T Consensus 5 ~~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~-~-~~~~WL~~Iarn~~id~~Rk~~~~ 77 (182)
T PRK12511 5 SKRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG-G-NLRTWLMSILHNAFIDELRRRRVE 77 (182)
T ss_pred chhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc-c-chHHHHHHHHHHHHHHHHHhhccc
Confidence 345567789999999999999888899999999999999999999863 3 799999999999999999986543
No 118
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=97.07 E-value=0.0012 Score=57.62 Aligned_cols=64 Identities=9% Similarity=0.015 Sum_probs=55.6
Q ss_pred HHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 302 ~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
+.|.+.+...+.++.+...+.+|++||.++.||+....|++ + +|.||+..-+++.+.+.++++.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeDi~Qevf~~l~~~~~~~~~--~-~~~~wL~~ia~n~~~d~~R~~~ 65 (159)
T PRK12527 2 ENYYRELVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQI--E-HPRAFLYRTALNLVVDRHRRHR 65 (159)
T ss_pred hhHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHhccccccc--c-chHHHHHHHHHHHHHHHHHHHh
Confidence 45777788888888887788999999999999999999875 2 7899999999999999999754
No 119
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=97.01 E-value=0.003 Score=55.98 Aligned_cols=70 Identities=9% Similarity=-0.043 Sum_probs=61.2
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
.+..+++..|.+.+...+.++.+...+.+|++|+.++.+|+-.+.++. ..|.+|.+.-.++.+.+.+++.
T Consensus 9 ~~~~~~~~~~~~~l~~~~~~~~~~~~~aeDlvQevf~~l~~~~~~~~~---~~~~~wl~~Iarn~~~d~~Rr~ 78 (168)
T PRK12525 9 TLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASI---REPRALLTTIARRLMYEGWRRQ 78 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhCCCcccc---cCHHHHHHHHHHHHHHHHHHHH
Confidence 478899999999999999999988889999999999999985555442 3699999999999999999865
No 120
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=96.96 E-value=0.0018 Score=62.86 Aligned_cols=69 Identities=13% Similarity=0.077 Sum_probs=60.0
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
...++++.|.+.+..+|.++.+...+.||++||.++. |.....|+ ...|.+|++.-+++.+++.+|++.
T Consensus 5 ~~~~l~~~~~~~l~~~a~~~~~~~~dAEDlvQe~fl~-~~~~~~~~---~~~~~~WL~~Ia~n~~~d~lR~~~ 73 (293)
T PRK09636 5 DAAAEFEPLRPHLLSVAYRMLGSVADAEDIVQEAWLR-WNNADRAQ---IRDPRAWLTRVVTRLCLDRLRSAR 73 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHhccccc---ccCHHHHHHHHHHHHHHHHHHhhh
Confidence 4568899999999999999999888999999999999 55556775 347999999999999999999754
No 121
>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=96.82 E-value=0.0022 Score=62.15 Aligned_cols=66 Identities=15% Similarity=0.122 Sum_probs=57.0
Q ss_pred HHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 299 ~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
+++..|.+.+..+|.++.+...+.||++||.++.+++. .|+. ...|.+|.+..+++.+.+.++++.
T Consensus 1 ~l~~~~~~~l~~~a~r~lg~~~dAEDvvQE~flk~~~~--~~~~--~~~~~awL~~Ia~n~~ld~lR~~~ 66 (281)
T TIGR02957 1 EEFEALRPLLFSLAYRMLGSVADAEDIVQETFLRWQEA--DRAQ--IENPKAYLTKVVTRRCIDVLRSAR 66 (281)
T ss_pred ChHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhC--Cccc--ccCHHHHHHHHHHHHHHHHHHHhh
Confidence 36789999999999999999899999999999997765 4543 237999999999999999999754
No 122
>PRK09191 two-component response regulator; Provisional
Probab=96.55 E-value=0.0065 Score=56.13 Aligned_cols=63 Identities=13% Similarity=0.027 Sum_probs=56.0
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+..+++..|.+.|.+.|.++.+...+.+|++|+.++-+|+....|++. ..|.+|++.++++-.
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~ 64 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLW 64 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHh
Confidence 467899999999999999999888999999999999999999999874 358899998887654
No 123
>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=96.53 E-value=0.0013 Score=46.18 Aligned_cols=34 Identities=21% Similarity=0.157 Sum_probs=26.7
Q ss_pred hHHHHHhhcCC-CCCCCcHHHHHHHHHhHHHHHHH
Q 016759 223 FSAERALNSRG-RRLTIARNEAEMSKGVQVVANLE 256 (383)
Q Consensus 223 ~~v~~~~~~~~-~~LLtaeEE~eL~~~iq~~~~Le 256 (383)
+.++.|++..+ .||||++||++|+++|+.+...+
T Consensus 2 D~l~~Yl~ei~~~~LLt~eeE~~LA~~i~~g~~~a 36 (37)
T PF00140_consen 2 DSLRLYLKEIGRYPLLTAEEEIELARRIRKGDEAA 36 (37)
T ss_dssp HHHHHHHHHHHHS-EETTHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhHHhc
Confidence 45677777777 49999999999999999876543
No 124
>PRK06704 RNA polymerase factor sigma-70; Validated
Probab=96.50 E-value=0.0079 Score=57.49 Aligned_cols=69 Identities=16% Similarity=-0.022 Sum_probs=57.4
Q ss_pred HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.+.+.+++.| +.+...+.++.+...+.||++||.++.+|+. |+.. + .|.+|++.-.++.+.+.++++.+
T Consensus 18 ~~~~~l~~~y-~~L~r~~~~~~~d~~dAEDlvQE~flk~~~~---~~~~-~-~~~~WL~~IarN~~id~~Rk~k~ 86 (228)
T PRK06704 18 SNINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQK---YSNK-D-ICMTLVYKIARNRWLDQIKSKSV 86 (228)
T ss_pred HHHHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH---cCcc-c-cHHHHHHHHHHHHHHHHHhcccc
Confidence 3667666666 7899999999888899999999999998875 6643 2 58999999999999999997654
No 125
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=96.42 E-value=0.0066 Score=59.61 Aligned_cols=68 Identities=10% Similarity=-0.062 Sum_probs=60.0
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
...++++.|.+.+..+|.++.+...+.||++||.++.+|++...+ . ..|.+|.+.-.++.+.+.++++
T Consensus 6 ~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~---~-~~~~aWL~~Ia~n~~id~lRk~ 73 (290)
T PRK09635 6 PVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD---I-DDERGWLIVVTSRLCLDHIKSA 73 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc---c-ccHHHHHHHHHHHHHHHHHhhh
Confidence 567889999999999999999998999999999999999876442 1 2689999999999999999974
No 126
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=96.14 E-value=0.015 Score=53.00 Aligned_cols=90 Identities=13% Similarity=0.110 Sum_probs=66.8
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCC---CCChHHH--HHHHHHHHHHHHHccCCCCCCccchHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGL---GIPFSDL--LQAGNVGVLQGAERFDHTRGYKFSTYVQYWI 356 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~---gld~EDL--iQEG~IGLirAiekFDpsrG~rFSTYA~~wI 356 (383)
..+|+..++.|+. |.++|+..|.+-++.+|+++... +.+.+|. +++.++-++..-...+.+.-..|-.|+..-+
T Consensus 4 it~ll~~~~~GD~~A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~lv~ea~lrl~~~~~~~~~~~~~~f~~~~~~~~ 83 (185)
T PF07638_consen 4 ITELLDRWRQGDEAALDQLFERYYPELRRLARRRLRRERRGHDLQDTALVHEAFLRLARRGRFVQFSDRRHFWALLARIM 83 (185)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHHHHHHHHHHhccccccCCCCHHHHHHHHHHHH
Confidence 4678888999986 99999999999999999977533 4566665 4555555544222224433347999999999
Q ss_pred HHHHHHHHHHcCCCcc
Q 016759 357 RKSISKMVARHARGIK 372 (383)
Q Consensus 357 r~aI~~~Ir~qsr~IR 372 (383)
++.+.+.+|.+...+|
T Consensus 84 rr~lid~~R~~~a~KR 99 (185)
T PF07638_consen 84 RRKLIDHARRRQAQKR 99 (185)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999998777665
No 127
>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=96.06 E-value=0.023 Score=44.66 Aligned_cols=56 Identities=21% Similarity=0.261 Sum_probs=45.9
Q ss_pred HHHHHHhcHH-HHHHHHHHhhHHHHHHHHHc----cC--CCCChHHHHHHHHHHHHHHHHccC
Q 016759 286 LKQHLAFGWY-CREELIKSTRPLVLFLARNY----RG--LGIPFSDLLQAGNVGVLQGAERFD 341 (383)
Q Consensus 286 L~~~l~~G~~-Are~LI~~nlrLV~~IAkry----~~--~gld~EDLiQEG~IGLirAiekFD 341 (383)
++.++..|+. |.+++++.|.|+|.+.+.+- .+ .+.-=+|+-|+=...|++||.+|+
T Consensus 3 vI~~A~~GD~~A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDedl~q~l~~kLi~~I~~F~ 65 (65)
T PF12645_consen 3 VIKAAKQGDPEAMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDEDLKQRLEIKLIEAILKFE 65 (65)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHhhcccccCCcCceeCHHHHHHHHHHHHHHHHccC
Confidence 4556777775 99999999999999998862 22 245559999999999999999996
No 128
>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=96.01 E-value=0.021 Score=48.98 Aligned_cols=65 Identities=12% Similarity=0.229 Sum_probs=53.8
Q ss_pred HHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHc-----cCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAER-----FDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 298 e~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiek-----FDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
++++..|.+++..+|++|.. -+| +|+.++.+|+...+ |++. ..|.||.+.-.++.+.+.++++.+
T Consensus 2 ~~~~~~y~~~l~~~~~~~~~----~~~-~qdvf~~~w~~~~~~~~~~~~~~--~~~~~wL~~iarN~~id~~Rk~~~ 71 (142)
T TIGR03209 2 EEIYMNFKNTIDIFTRKYNL----YYD-YNDILYHLWIILKKIDLNKFNTE--NDLEKYISTSLKRYCLDICNKKNR 71 (142)
T ss_pred hHHHHHHHHHHHHHHHHhcc----hhh-HHHHHHHHHHHHHHhhhhhcCch--hHHHHHHHHHHHHHHHHHHHHHhh
Confidence 57899999999999999955 234 49999999999865 5542 479999999999999999997654
No 129
>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=95.03 E-value=0.066 Score=41.90 Aligned_cols=40 Identities=25% Similarity=0.401 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 252 ~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
+.++.+++.+|...+||.||.++.|+..|++.+++...+.
T Consensus 3 l~~i~~a~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~ 42 (78)
T PF04539_consen 3 LRKIERARRELEQELGREPTDEEIAEELGISVEEVRELLQ 42 (78)
T ss_dssp HHHHHHHHHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHH
Confidence 3467788999999999999999999999999998876554
No 130
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=94.92 E-value=0.05 Score=47.09 Aligned_cols=47 Identities=11% Similarity=0.106 Sum_probs=40.0
Q ss_pred CChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 320 IPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 320 ld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.+.+|++||.++.+|+.... ++ +..|.+|++.-+++.+.+++|++.+
T Consensus 5 ~~AeDivQe~fl~~~~~~~~-~~--~~~~~~wl~~ia~n~~~d~~Rk~~~ 51 (161)
T PRK09047 5 DAALDIVQDAMIKLAEKYGD-RP--AAEWPPLFQRILQNRIHDWFRRQKV 51 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhh-cc--cCchHHHHHHHHHHHHHHHHHhhcc
Confidence 46899999999999998876 33 3479999999999999999998654
No 131
>PHA02547 55 RNA polymerase sigma factor; Provisional
Probab=89.27 E-value=1.3 Score=41.43 Aligned_cols=64 Identities=16% Similarity=0.184 Sum_probs=52.3
Q ss_pred hhHHHHHHHHHccCCCCC---hHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 304 TRPLVLFLARNYRGLGIP---FSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 304 nlrLV~~IAkry~~~gld---~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
-+.++..++++|.-+|.. -+|+|.+|.-..++.+.+|||++...+-.|.+..+-++..+-|...
T Consensus 46 imkIa~glS~r~nF~~Yt~~wKedMI~DgIe~~i~ylhNFD~~k~~Np~aYiT~~~~~AF~~RI~kE 112 (179)
T PHA02547 46 IMKIAEGLSRRPNFSGYTQTWKEDMIADGIEACIKGLHNFDETKYKNPHAYITQACFNAFVQRIKKE 112 (179)
T ss_pred HHHHHhccccCCccccchHHHHHHHHHHHHHHHHHHhhcCCcccccChHHHHHHHHHHHHHHHHHHH
Confidence 355666666676555655 7999999999999999999999988888999988888888777654
No 132
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=73.98 E-value=3.5 Score=44.86 Aligned_cols=32 Identities=19% Similarity=0.140 Sum_probs=24.1
Q ss_pred hHHHHHhhc-CCCCCCCcHHHHHHHHHhHHHHH
Q 016759 223 FSAERALNS-RGRRLTIARNEAEMSKGVQVVAN 254 (383)
Q Consensus 223 ~~v~~~~~~-~~~~LLtaeEE~eL~~~iq~~~~ 254 (383)
++|+=|++. +.-||||.|+|++++++|+.+..
T Consensus 104 DPVRMYLREMG~V~LLTREgEIeIAKRIE~G~~ 136 (619)
T PRK05658 104 DPVRMYLREMGTVELLTREGEIEIAKRIEAGEN 136 (619)
T ss_pred ChHHHHHHHhccCcCCCcHHHHHHHHHHHHHHH
Confidence 334555544 44689999999999999998654
No 133
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=73.74 E-value=7.6 Score=38.08 Aligned_cols=41 Identities=20% Similarity=0.204 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhc
Q 016759 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFG 293 (383)
Q Consensus 253 ~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G 293 (383)
..++.+..+|..++|++||..+.|+..|++.++....+..+
T Consensus 110 ~~i~~~~~~l~~el~r~pt~~EIA~~L~i~~ee~~~~~~~~ 150 (247)
T COG1191 110 RRIEEAIDELEQELGREPTDEEIAEELGIDKEEYIEALLAI 150 (247)
T ss_pred HHHHHHHHHHHHHhCCCCcHHHHHHHhCCCHHHHHHHHHHh
Confidence 34667788899999999999999999999999887765554
No 134
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=65.69 E-value=14 Score=35.84 Aligned_cols=38 Identities=21% Similarity=0.305 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
.+.+...+|...+|+.||.++.|+..|++.+++...+.
T Consensus 128 ~i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~~ 165 (264)
T PRK07122 128 RLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLV 165 (264)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 35556677888889999999999999999988876554
No 135
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=61.90 E-value=22 Score=33.93 Aligned_cols=39 Identities=15% Similarity=0.148 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
.+.+.+.++..++|++||.++.|+..|++.+.+...+..
T Consensus 121 ~~~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~~ 159 (254)
T TIGR02850 121 KALQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALDA 159 (254)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHHh
Confidence 344556677788899999999999999999887665543
No 136
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain. This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc.
Probab=60.27 E-value=26 Score=33.04 Aligned_cols=37 Identities=16% Similarity=0.256 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
.+.+...+|...+|++||.++.|+..|++.+.+....
T Consensus 88 ~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~~ 124 (238)
T TIGR02393 88 KLIKAERQLTQELGREPTDEELAERMGMPAEKVREIK 124 (238)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 4555667788889999999999999999998886643
No 137
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=59.88 E-value=26 Score=33.63 Aligned_cols=37 Identities=19% Similarity=0.240 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHH
Q 016759 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQH 289 (383)
Q Consensus 253 ~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~ 289 (383)
..+.+.+.+|...+|++|+..+.|+..|++.+++...
T Consensus 113 ~~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~ 149 (256)
T PRK07408 113 RQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI 149 (256)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHH
Confidence 3456677888889999999999999999999887654
No 138
>PRK14082 hypothetical protein; Provisional
Probab=57.52 E-value=37 Score=27.22 Aligned_cols=55 Identities=18% Similarity=0.121 Sum_probs=43.9
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHH
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYV 352 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA 352 (383)
..+.+|..+.|.|.+--.+- .--+.+||.||=-|-+++-+..++-..+-.|-.|.
T Consensus 10 e~e~ii~~FepkIkKsL~~T--~yqeREDLeQElk~Ki~eK~~~~~~~e~PGF~efi 64 (65)
T PRK14082 10 EIEHLIENFSPMIKKKLSNT--SYQEREDLEQELKIKIIEKADMLLCQEVPGFWEFI 64 (65)
T ss_pred HHHHHHHHccHHHHHHHhcC--ChhhHHHHHHHHHHHHHHHHHHhhcccCCcHHHhh
Confidence 55789999999988766543 33577999999999999999999988776666553
No 139
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=56.15 E-value=30 Score=32.87 Aligned_cols=38 Identities=8% Similarity=0.120 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
.+.+....|...+|+.|+..+.|+..|++.+++...+.
T Consensus 102 ~i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~~ 139 (231)
T PRK12427 102 KTNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYLL 139 (231)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 34556677888889999999999999999888766543
No 140
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=56.04 E-value=30 Score=34.95 Aligned_cols=39 Identities=31% Similarity=0.466 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 252 ~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
...+.+++.+|...+|+.||..+.|+..|++.+.+...+
T Consensus 172 ~~~l~~~~~~l~~~lgr~pt~~EiA~~lgi~~~~v~~~~ 210 (324)
T PRK07921 172 VNKLARIKRELHQQLGREATDEELAEESGIPEEKIADLL 210 (324)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 335666778888889999999999999999998876653
No 141
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=55.88 E-value=28 Score=33.49 Aligned_cols=37 Identities=16% Similarity=0.202 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
.+.+....|...+|++|+.++.|+..|++.+++...+
T Consensus 111 ~l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~~ 147 (257)
T PRK05911 111 KLADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWF 147 (257)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHH
Confidence 3445556677788999999999999999998876544
No 142
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=52.04 E-value=34 Score=34.98 Aligned_cols=38 Identities=18% Similarity=0.279 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
.+.++..+|...+|+.||..+.|+..|++.+.+...+.
T Consensus 217 ~~~~~~~~l~~~lgr~pt~~EiA~~l~~~~~~v~~~~~ 254 (367)
T PRK09210 217 KLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREILK 254 (367)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 45667778888899999999999999999988776543
No 143
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=46.50 E-value=50 Score=31.37 Aligned_cols=38 Identities=16% Similarity=0.190 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
.+.+....+...+|+.|+..++|+..|++.+.+...+.
T Consensus 110 ~~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~ 147 (251)
T PRK07670 110 KVEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMN 147 (251)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 34555666777889999999999999999988877654
No 144
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=45.65 E-value=46 Score=36.01 Aligned_cols=39 Identities=21% Similarity=0.302 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 253 ~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
..+.+++.+|...+|+.||.++.|+..|++.+.+....+
T Consensus 358 ~kl~~~~~~L~~~lgr~PT~eELAe~Lgis~e~V~~~~~ 396 (509)
T PRK05901 358 NKLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQK 396 (509)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 346667788888999999999999999999988776543
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=45.52 E-value=53 Score=30.56 Aligned_cols=37 Identities=32% Similarity=0.439 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
+.+....|...+|+.||..+.|+..|++.+++...+.
T Consensus 99 ~~~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~~ 135 (231)
T TIGR02885 99 IRYMKEELSKELGREPTINELAEALGVSPEEIVMALE 135 (231)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHH
Confidence 4445667777889999999999999999888765543
No 146
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=44.87 E-value=50 Score=34.19 Aligned_cols=39 Identities=13% Similarity=0.214 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 252 ~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
...+.+....|...+|+.||..+.|+..|++.+.+....
T Consensus 222 ~~~i~~a~~~l~~~lgr~Pt~~EIA~~lg~~~e~v~~~~ 260 (373)
T PRK07406 222 ISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIA 260 (373)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 344566677888889999999999999999998876543
No 147
>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=44.72 E-value=59 Score=30.20 Aligned_cols=37 Identities=27% Similarity=0.344 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
.+.+.+.+|...+|+.|+.++.|+..|++.+.+...+
T Consensus 84 ~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~ 120 (224)
T TIGR02479 84 KLERAIRELEARLGREPTEEEIAEELGMDLKEYRQAL 120 (224)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHH
Confidence 4556677788888999999999999999988877655
No 148
>PRK05949 RNA polymerase sigma factor; Validated
Probab=42.88 E-value=57 Score=32.89 Aligned_cols=37 Identities=14% Similarity=0.276 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
++.+.+.++...+|++|+..+.|+..|++.+.+...+
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 4555666777788999999999999999988877654
No 149
>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=41.31 E-value=66 Score=29.06 Aligned_cols=40 Identities=23% Similarity=0.403 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhcH
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGW 294 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G~ 294 (383)
.++++.-|.+..++..|..+.+++.|++.+.+.+-++.|.
T Consensus 32 f~kV~~yLr~~p~~~ati~eV~e~tgVs~~~I~~~IreGR 71 (137)
T TIGR03826 32 FEKVYKFLRKHENRQATVSEIVEETGVSEKLILKFIREGR 71 (137)
T ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHCcCHHHHHHHHHcCC
Confidence 4556777777778888999999999999999999998884
No 150
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=41.08 E-value=69 Score=30.81 Aligned_cols=37 Identities=27% Similarity=0.287 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
.+.+.+..|+..+|+.||..+.|+..|++.+.+....
T Consensus 119 ~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~ 155 (268)
T PRK06288 119 QIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLL 155 (268)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 4566677888889999999999999999988776654
No 151
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=38.54 E-value=87 Score=29.89 Aligned_cols=36 Identities=17% Similarity=0.173 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
+.+...++....|+.|+..+.|+..|++.+++...+
T Consensus 125 ~~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~ 160 (258)
T PRK08215 125 ALQVREKLINENSKEPTVEEIAKELEVPREEVVFAL 160 (258)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 444566777788999999999999999998876654
No 152
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=38.49 E-value=72 Score=33.66 Aligned_cols=40 Identities=13% Similarity=0.328 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 252 ~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
.-++.+.+.+|...+|+.|+..+.|+..|++.+.+...+.
T Consensus 261 l~~lrk~~r~L~~~lgR~pt~~EiA~~l~is~~~vr~~l~ 300 (415)
T PRK07598 261 LNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLL 300 (415)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 3456677788888899999999999999999998877654
No 153
>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=37.04 E-value=95 Score=23.84 Aligned_cols=58 Identities=24% Similarity=0.374 Sum_probs=39.2
Q ss_pred HHHhCCcCc------hHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCC-ChHH
Q 016759 263 EKESGKAAS------LNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI-PFSD 324 (383)
Q Consensus 263 ~~~~gr~pt------~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gl-d~ED 324 (383)
+...||.|| ...|....|++.+.+..++.. |... -..+.+.|.+|++++...|+ +.+|
T Consensus 6 e~~~gr~ls~~e~~~i~~~~~~~~~~~evI~~ai~~---a~~~-~~~~~~Yi~~Il~~W~~~gi~T~e~ 70 (73)
T TIGR01446 6 EENFGRMLSPFEMEDLKYWLDEFGNSPELIKEALKE---AVSN-NKANYKYIDAILNNWKNNGIKTVED 70 (73)
T ss_pred HHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHH---HHHc-CCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 444577777 357788888887777766664 2221 23467899999999988875 4444
No 154
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=36.01 E-value=87 Score=31.36 Aligned_cols=39 Identities=15% Similarity=0.362 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 253 ~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
..+.+.+..+...+|+.|+..+.|+..|++.+.+.....
T Consensus 168 ~~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~~ 206 (317)
T PRK07405 168 NKIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYLE 206 (317)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 345666777888889999999999999999888776543
No 155
>KOG0917 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.17 E-value=34 Score=34.69 Aligned_cols=84 Identities=30% Similarity=0.364 Sum_probs=57.8
Q ss_pred HHhHHhhhccccccCCcccccccccccchhhccccchhHHhhhhhcccccccccccchH-HHHHhhHHHHHhcccchhhh
Q 016759 45 SFLSTISEDSASYFQDPVKAYTCSFVNTQTVENDYSETEEIRQKSTSCIGQDASSRSDF-RLLMENLDVLESTFADSDAL 123 (383)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~ss~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ll~~nl~~le~~~~~~d~l 123 (383)
|.++.|..--+-..+||+-++-|-=-++|+- +|+-+...| .-+| .-||.-|+.|+..++|.|++
T Consensus 10 si~~~l~~a~e~~k~dpvvayycrlyamq~g-----------mKid~qT~e----~rk~lsgLm~~lealkkqlaDneai 74 (338)
T KOG0917|consen 10 SIQHHLRTAQEHDKRDPVVAYYCRLYAMQTG-----------MKIDSQTPE----CRKFLSGLMDQLEALKKQLADNEAI 74 (338)
T ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHHHhc-----------ccCCccCHH----HHHHHHHHHHHHHHHHHHhcchhhh
Confidence 5566665555555559998888865555542 222222222 2233 46999999999999999999
Q ss_pred HHHHHHHHHhhhhhhhhhhhh
Q 016759 124 RLEREILQQLGKLGALKLFNS 144 (383)
Q Consensus 124 rLer~IL~~~~~lgal~~fn~ 144 (383)
.+|-+-=-|+|.. |+++|+-
T Consensus 75 tne~~aqaHiE~f-AlklF~~ 94 (338)
T KOG0917|consen 75 TNEIVAQAHIENF-ALKLFLY 94 (338)
T ss_pred hhchHHHHHHHHH-HHHHHHh
Confidence 9988877787765 9999764
No 156
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=34.44 E-value=63 Score=27.75 Aligned_cols=40 Identities=18% Similarity=0.165 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 253 ~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
..+.++..-+...+...++.+++|+..|++...|.+..+.
T Consensus 9 ~~i~~~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 9 ITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3445566667777788899999999999999988877765
No 157
>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=32.13 E-value=1.1e+02 Score=30.01 Aligned_cols=39 Identities=15% Similarity=0.291 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHH
Q 016759 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (383)
Q Consensus 253 ~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~ 291 (383)
.++.+.+.++...+|+.|+..+.|+..|++.+.+.....
T Consensus 161 ~~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~~~ 199 (298)
T TIGR02997 161 NKIKKVQRELSQKLGRTPSEAEIAEALELEPEQVRELLQ 199 (298)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 345555667777889999999999999999988766543
No 158
>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=29.89 E-value=1.8e+02 Score=22.66 Aligned_cols=19 Identities=26% Similarity=0.412 Sum_probs=13.7
Q ss_pred HHhCCcCchHHHHHHcCCC
Q 016759 264 KESGKAASLNCWAQAAGVS 282 (383)
Q Consensus 264 ~~~gr~pt~~ewA~a~gl~ 282 (383)
.+.|.+||..|.|+..|+.
T Consensus 20 ~~~G~~Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 20 EENGYPPTVREIAEALGLK 38 (65)
T ss_dssp HHHSS---HHHHHHHHTSS
T ss_pred HHcCCCCCHHHHHHHhCCC
Confidence 3469999999999999995
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=29.06 E-value=1.2e+02 Score=28.12 Aligned_cols=34 Identities=24% Similarity=0.370 Sum_probs=27.1
Q ss_pred HHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 257 RIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 257 ~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
+....+....|+.|+..+.|+..|++.+.+....
T Consensus 94 ~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~~ 127 (227)
T TIGR02980 94 KATEELTQRLGRSPTIAEIAEELGVSEEEVVEAL 127 (227)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 3455666777999999999999999988876543
No 160
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=27.47 E-value=1.5e+02 Score=30.63 Aligned_cols=39 Identities=28% Similarity=0.422 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 252 ~~~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
.-+|-+++.+|...+|++|+.++.|+..|++.+++....
T Consensus 188 ~nkl~r~~r~l~q~~~r~p~~eeia~~l~~~~~~V~~m~ 226 (342)
T COG0568 188 INKLRRVKRELLQELGREPTPEEIAEELGVSPDKVREML 226 (342)
T ss_pred HHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCHHHHHHHH
Confidence 345667788888889999999999999999876655433
No 161
>PF15545 Toxin_67: Putative toxin 67
Probab=25.97 E-value=74 Score=25.80 Aligned_cols=31 Identities=23% Similarity=0.561 Sum_probs=25.4
Q ss_pred ccchHHHHHHHHHHHHHHHHcCCCccCchhh
Q 016759 347 KFSTYVQYWIRKSISKMVARHARGIKIPVPL 377 (383)
Q Consensus 347 rFSTYA~~wIr~aI~~~Ir~qsr~IRlP~~~ 377 (383)
+-+.+..-||++.|.+.-+.....||+|..+
T Consensus 6 kq~~~vRGwiknEi~~i~~~~r~~iRlPpG~ 36 (70)
T PF15545_consen 6 KQPSWVRGWIKNEINRIKTGRRKSIRLPPGK 36 (70)
T ss_pred cchHHHHHHHHHHHHHHHhCccceecCCCch
Confidence 3457888999999999888877899999654
No 162
>PRK05572 sporulation sigma factor SigF; Validated
Probab=24.95 E-value=1.8e+02 Score=27.59 Aligned_cols=35 Identities=23% Similarity=0.332 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHH
Q 016759 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQ 288 (383)
Q Consensus 254 ~Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~ 288 (383)
.+.+....+..+.|+.|+..+.|+..|++.+.+..
T Consensus 119 ~~~~~~~~l~~~~~r~p~~~eia~~l~~~~~~v~~ 153 (252)
T PRK05572 119 KIRKDKDELSKELGREPTIEELAEYLGVTPEEVVL 153 (252)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHH
Confidence 45555667777789999999999999998887654
No 163
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=24.58 E-value=1.8e+02 Score=23.77 Aligned_cols=38 Identities=11% Similarity=0.239 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
++++..-+...+...++.++.|..+|++...|.+..+.
T Consensus 7 ~~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~f~~ 44 (107)
T PRK10219 7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRT 44 (107)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 45556666777788899999999999999988877765
No 164
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=24.31 E-value=1.4e+02 Score=29.44 Aligned_cols=24 Identities=29% Similarity=0.101 Sum_probs=21.3
Q ss_pred HhCCcCchHHHHHHcCCCHHHHHH
Q 016759 265 ESGKAASLNCWAQAAGVSERVLKQ 288 (383)
Q Consensus 265 ~~gr~pt~~ewA~a~gl~~eeL~~ 288 (383)
.+|+.|+.++.|+..|++.+++..
T Consensus 144 ~l~~~pt~~eiA~~l~~~~~~v~~ 167 (289)
T PRK07500 144 ELTKQEIHREIATALGVSLSDVEM 167 (289)
T ss_pred ccCCCCCHHHHHHHhCcCHHHHHH
Confidence 579999999999999999888654
No 165
>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=21.98 E-value=1.8e+02 Score=27.51 Aligned_cols=36 Identities=14% Similarity=0.195 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
+......+...+|+.|+..+.|...|++.+++....
T Consensus 118 ~~~~~~~l~~~~~r~p~~~eia~~l~i~~~~~~~~~ 153 (255)
T TIGR02941 118 IKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIM 153 (255)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 444556677778999999999999999988776543
No 166
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=21.45 E-value=2.5e+02 Score=26.24 Aligned_cols=36 Identities=22% Similarity=0.267 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
+.+....+...+|++|+..+.|+..|++.+.+...+
T Consensus 97 ~~~~~~~~~~~~~~~~~~~ela~~l~i~~~~v~~~~ 132 (236)
T PRK06986 97 VAQAIRQLEQELGREPTDTEVAEKLGLSLEEYREML 132 (236)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 334556666678999999999999999988765443
No 167
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=21.41 E-value=2.4e+02 Score=20.74 Aligned_cols=23 Identities=30% Similarity=0.329 Sum_probs=19.4
Q ss_pred CchHHHHHHcCCCHHHHHHHHHh
Q 016759 270 ASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 270 pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
++..++|+..|++...|.+.+..
T Consensus 2 ~~~~~la~~~~~s~~~l~~~f~~ 24 (84)
T smart00342 2 LTLEDLAEALGMSPRHLQRLFKK 24 (84)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHH
Confidence 67889999999999888887764
No 168
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=20.10 E-value=8.9 Score=33.62 Aligned_cols=32 Identities=28% Similarity=0.364 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHccCCCCCCccchHHHH
Q 016759 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354 (383)
Q Consensus 323 EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~ 354 (383)
+||+-.+-|--.+-|+-||.+.|.||+||+..
T Consensus 29 ~~Ll~aagi~~~E~V~I~Nv~NG~Rf~TYvI~ 60 (111)
T cd06919 29 EDLLEAAGILPYEKVLVVNVNNGARFETYVIP 60 (111)
T ss_pred HHHHHhcCCCCCCEEEEEECCCCcEEEEEEEE
Confidence 46776666667777888999999999999854
No 169
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=20.01 E-value=9 Score=34.27 Aligned_cols=32 Identities=28% Similarity=0.375 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHccCCCCCCccchHHHH
Q 016759 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354 (383)
Q Consensus 323 EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~ 354 (383)
+||+-.+-|--.+-|+-||.+.|.||+||+..
T Consensus 30 ~~Ll~aagi~p~E~V~V~Nv~NG~Rf~TYvI~ 61 (126)
T PRK05449 30 EDLLDAAGILENEKVQIVNVNNGARFETYVIA 61 (126)
T ss_pred HHHHHhcCCCCCCEEEEEECCCCcEEEEEEEE
Confidence 46777666667777888999999999999854
Done!