Query 017616
Match_columns 368
No_of_seqs 242 out of 1490
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 10:09:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017616.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017616hhsearch_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 4E-35 8.7E-40 295.7 17.7 145 223-367 60-247 (415)
2 TIGR02997 Sig70-cyanoRpoD RNA 100.0 7.4E-33 1.6E-37 266.1 17.2 141 227-367 5-146 (298)
3 PRK07406 RNA polymerase sigma 100.0 4E-32 8.7E-37 270.8 17.0 143 225-367 65-208 (373)
4 PRK05949 RNA polymerase sigma 100.0 3.1E-31 6.8E-36 259.7 17.9 143 225-367 20-163 (327)
5 PRK07405 RNA polymerase sigma 100.0 1.5E-30 3.3E-35 253.4 17.2 143 225-367 10-153 (317)
6 PRK05901 RNA polymerase sigma 100.0 1.7E-29 3.7E-34 260.4 12.0 132 223-367 211-343 (509)
7 COG0568 RpoD DNA-directed RNA 100.0 4.7E-29 1E-33 246.2 13.1 146 222-367 8-174 (342)
8 PRK07921 RNA polymerase sigma 99.9 5.5E-27 1.2E-31 229.8 13.4 130 225-367 28-158 (324)
9 PRK05658 RNA polymerase sigma 99.9 4.5E-23 9.8E-28 216.6 13.4 94 274-367 352-452 (619)
10 PRK07122 RNA polymerase sigma 99.9 1.1E-22 2.3E-27 193.4 9.5 73 295-367 40-112 (264)
11 PRK09210 RNA polymerase sigma 99.9 9.9E-22 2.1E-26 195.1 12.0 105 223-367 96-201 (367)
12 TIGR02392 rpoH_proteo alternat 99.8 2.5E-20 5.5E-25 177.0 11.4 84 284-367 22-107 (270)
13 TIGR02393 RpoD_Cterm RNA polym 99.8 1.6E-20 3.4E-25 174.7 8.6 72 296-367 1-72 (238)
14 PRK07500 rpoH2 RNA polymerase 99.8 8.6E-20 1.9E-24 175.8 12.1 107 222-367 5-112 (289)
15 PRK06596 RNA polymerase factor 99.8 8.2E-20 1.8E-24 175.4 11.5 84 284-367 35-120 (284)
16 COG1191 FliA DNA-directed RNA 99.8 5.6E-19 1.2E-23 168.5 10.0 83 284-367 12-96 (247)
17 PRK07408 RNA polymerase sigma 99.8 8.4E-19 1.8E-23 165.6 10.6 77 291-367 20-98 (256)
18 PRK05911 RNA polymerase sigma 99.8 2.9E-18 6.2E-23 162.3 11.0 74 294-367 22-98 (257)
19 TIGR02850 spore_sigG RNA polym 99.7 2.6E-16 5.6E-21 148.0 11.3 73 295-367 34-106 (254)
20 PRK05657 RNA polymerase sigma 99.7 4.1E-16 8.9E-21 153.0 11.6 85 283-367 73-158 (325)
21 PRK08215 sporulation sigma fac 99.7 4.5E-16 9.8E-21 146.5 11.4 73 295-367 37-109 (258)
22 TIGR02895 spore_sigI RNA polym 99.6 6.7E-16 1.5E-20 144.7 8.6 79 289-367 3-83 (218)
23 TIGR02980 SigBFG RNA polymeras 99.6 2.8E-15 6.1E-20 137.6 9.6 73 295-367 3-75 (227)
24 TIGR02394 rpoS_proteo RNA poly 99.6 8.6E-15 1.9E-19 140.0 11.7 84 283-366 33-117 (285)
25 TIGR02885 spore_sigF RNA polym 99.6 5.6E-15 1.2E-19 136.2 9.5 79 289-367 4-83 (231)
26 PRK06288 RNA polymerase sigma 99.6 2.2E-14 4.8E-19 135.9 11.5 95 267-367 7-106 (268)
27 PRK12427 flagellar biosynthesi 99.6 1.1E-14 2.4E-19 136.1 9.1 71 296-367 16-89 (231)
28 TIGR02941 Sigma_B RNA polymera 99.5 2.5E-14 5.4E-19 134.1 10.4 85 283-367 15-101 (255)
29 TIGR02479 FliA_WhiG RNA polyme 99.5 4.6E-14 1E-18 129.8 7.7 68 300-367 1-71 (224)
30 PRK07670 RNA polymerase sigma 99.5 1.1E-13 2.3E-18 130.0 9.9 85 283-367 8-97 (251)
31 PRK05803 sporulation sigma fac 99.5 9.8E-13 2.1E-17 122.0 13.6 113 245-367 8-121 (233)
32 PRK08583 RNA polymerase sigma 99.4 4.1E-13 8.9E-18 126.1 10.3 85 283-367 15-101 (257)
33 PRK06986 fliA flagellar biosyn 99.4 3E-13 6.5E-18 125.5 8.8 76 292-367 5-83 (236)
34 PRK05572 sporulation sigma fac 99.4 1.6E-12 3.4E-17 122.1 10.3 84 284-367 20-104 (252)
35 TIGR02846 spore_sigmaK RNA pol 99.2 2.4E-10 5.2E-15 105.9 13.5 85 283-367 35-120 (227)
36 PF04542 Sigma70_r2: Sigma-70 99.2 5.9E-11 1.3E-15 88.9 7.6 69 300-368 1-69 (71)
37 PRK08311 putative RNA polymera 99.2 8.8E-11 1.9E-15 111.4 10.4 86 282-367 4-92 (237)
38 PRK08295 RNA polymerase factor 99.1 3.3E-10 7.1E-15 101.7 10.2 86 281-366 9-95 (208)
39 PRK08301 sporulation sigma fac 99.1 3.2E-10 7E-15 104.8 10.4 85 283-367 39-124 (234)
40 TIGR02835 spore_sigmaE RNA pol 99.0 1.2E-09 2.7E-14 101.6 10.5 85 283-367 39-124 (234)
41 TIGR02859 spore_sigH RNA polym 99.0 1.7E-09 3.6E-14 96.3 10.3 86 281-366 4-90 (198)
42 TIGR02937 sigma70-ECF RNA poly 99.0 1.8E-09 4E-14 88.8 7.9 70 296-367 2-71 (158)
43 PRK09652 RNA polymerase sigma 98.8 8E-09 1.7E-13 89.5 7.5 77 289-367 3-80 (182)
44 PRK05602 RNA polymerase sigma 98.8 1.6E-08 3.6E-13 89.8 9.1 86 281-367 5-91 (186)
45 PRK09641 RNA polymerase sigma 98.7 4.1E-08 8.8E-13 86.4 8.8 84 282-367 4-88 (187)
46 TIGR02948 SigW_bacill RNA poly 98.7 4.9E-08 1.1E-12 85.9 8.7 83 283-367 5-88 (187)
47 PRK09646 RNA polymerase sigma 98.7 5.4E-08 1.2E-12 87.5 9.0 85 282-367 16-101 (194)
48 PRK12513 RNA polymerase sigma 98.7 6E-08 1.3E-12 86.7 9.2 85 281-367 11-96 (194)
49 PRK06811 RNA polymerase factor 98.7 7.4E-08 1.6E-12 86.3 9.7 86 281-367 3-92 (189)
50 PRK09648 RNA polymerase sigma 98.7 7.7E-08 1.7E-12 85.7 9.5 84 283-367 11-99 (189)
51 PRK13919 putative RNA polymera 98.7 7.5E-08 1.6E-12 85.2 9.0 85 282-367 9-94 (186)
52 PRK09640 RNA polymerase sigma 98.7 1.8E-07 3.9E-12 83.6 10.3 86 280-367 7-96 (188)
53 PRK06759 RNA polymerase factor 98.7 1.1E-07 2.3E-12 81.5 8.4 71 295-367 4-74 (154)
54 PRK09638 RNA polymerase sigma 98.6 2.2E-07 4.7E-12 81.4 9.2 85 281-367 3-88 (176)
55 PRK12519 RNA polymerase sigma 98.6 2.4E-07 5.3E-12 82.7 8.4 84 282-367 15-99 (194)
56 TIGR02952 Sig70_famx2 RNA poly 98.6 2.9E-07 6.3E-12 79.7 8.4 79 288-367 3-82 (170)
57 PRK11923 algU RNA polymerase s 98.5 5E-07 1.1E-11 80.6 9.5 84 282-367 6-90 (193)
58 PRK11922 RNA polymerase sigma 98.5 5.1E-07 1.1E-11 83.9 9.8 85 281-367 15-100 (231)
59 PRK11924 RNA polymerase sigma 98.5 6.8E-07 1.5E-11 77.3 9.0 80 286-367 3-83 (179)
60 TIGR02939 RpoE_Sigma70 RNA pol 98.5 7.7E-07 1.7E-11 78.5 9.6 84 282-367 6-90 (190)
61 PRK12524 RNA polymerase sigma 98.5 5.4E-07 1.2E-11 81.2 8.7 87 280-367 10-97 (196)
62 PRK12514 RNA polymerase sigma 98.5 5.9E-07 1.3E-11 79.2 8.7 85 282-367 5-90 (179)
63 PRK12526 RNA polymerase sigma 98.5 8.4E-07 1.8E-11 81.0 9.4 83 284-367 26-109 (206)
64 TIGR02954 Sig70_famx3 RNA poly 98.5 9.9E-07 2.1E-11 77.1 9.3 85 281-367 1-86 (169)
65 PRK12534 RNA polymerase sigma 98.3 1.5E-06 3.2E-11 77.2 7.7 84 283-367 12-96 (187)
66 PRK12538 RNA polymerase sigma 98.3 2.3E-06 5E-11 80.4 9.1 85 282-367 49-134 (233)
67 PRK12531 RNA polymerase sigma 98.3 1.8E-06 4E-11 77.6 8.1 84 283-367 14-98 (194)
68 PRK09643 RNA polymerase sigma 98.3 4E-06 8.7E-11 75.6 9.9 85 281-367 12-97 (192)
69 PRK12515 RNA polymerase sigma 98.3 2.9E-06 6.4E-11 75.7 8.9 86 280-367 6-92 (189)
70 TIGR02985 Sig70_bacteroi1 RNA 98.3 1.7E-06 3.7E-11 73.3 6.9 70 296-367 2-71 (161)
71 PRK12536 RNA polymerase sigma 98.3 3.3E-06 7.3E-11 75.0 9.0 82 284-367 9-92 (181)
72 TIGR02984 Sig-70_plancto1 RNA 98.3 2.6E-06 5.7E-11 74.9 8.2 73 295-367 7-83 (189)
73 TIGR02989 Sig-70_gvs1 RNA poly 98.3 3.4E-06 7.4E-11 72.4 8.3 70 296-367 2-71 (159)
74 PRK12537 RNA polymerase sigma 98.3 3.4E-06 7.4E-11 75.0 8.5 85 282-367 9-94 (182)
75 PRK12539 RNA polymerase sigma 98.2 1.2E-05 2.5E-10 71.7 9.7 83 283-367 8-95 (184)
76 PRK12512 RNA polymerase sigma 98.2 1.3E-05 2.8E-10 71.1 9.5 81 285-367 11-96 (184)
77 PRK12522 RNA polymerase sigma 98.1 9.6E-06 2.1E-10 71.3 8.0 70 296-367 4-73 (173)
78 PRK12518 RNA polymerase sigma 98.1 1.1E-05 2.4E-10 70.6 7.7 77 288-367 3-80 (175)
79 PRK12543 RNA polymerase sigma 98.0 1.7E-05 3.7E-10 70.3 7.5 70 295-366 7-76 (179)
80 PRK12542 RNA polymerase sigma 97.9 2.3E-05 5E-10 69.8 6.1 74 294-367 8-81 (185)
81 TIGR02999 Sig-70_X6 RNA polyme 97.9 5.2E-05 1.1E-09 66.8 7.9 83 283-367 4-93 (183)
82 PRK09415 RNA polymerase factor 97.9 5.5E-05 1.2E-09 67.2 7.9 72 294-367 15-86 (179)
83 COG1595 RpoE DNA-directed RNA 97.8 0.00014 3E-09 64.8 9.4 76 290-367 10-85 (182)
84 TIGR02983 SigE-fam_strep RNA p 97.8 9E-05 2E-09 64.1 7.9 72 294-367 5-76 (162)
85 PRK09639 RNA polymerase sigma 97.7 0.0001 2.2E-09 63.9 7.1 69 295-367 3-71 (166)
86 TIGR03001 Sig-70_gmx1 RNA poly 97.7 0.00022 4.7E-09 67.8 9.4 86 280-367 23-116 (244)
87 PRK08241 RNA polymerase factor 97.6 0.00021 4.5E-09 69.7 9.0 82 284-367 7-89 (339)
88 PRK09649 RNA polymerase sigma 97.6 0.00018 3.8E-09 64.6 7.7 82 283-367 11-93 (185)
89 PRK12541 RNA polymerase sigma 97.6 0.00026 5.5E-09 61.5 7.8 70 295-367 5-74 (161)
90 PRK12547 RNA polymerase sigma 97.6 0.00028 6E-09 61.8 8.0 71 295-367 6-76 (164)
91 PRK09644 RNA polymerase sigma 97.5 0.00027 5.8E-09 61.7 7.4 68 297-367 3-70 (165)
92 PRK12535 RNA polymerase sigma 97.5 0.00054 1.2E-08 62.4 8.6 81 284-367 13-94 (196)
93 PRK09647 RNA polymerase sigma 97.5 0.00051 1.1E-08 63.2 8.4 70 295-367 28-97 (203)
94 TIGR02947 SigH_actino RNA poly 97.5 0.00038 8.3E-09 62.4 7.4 71 295-367 11-81 (193)
95 PRK12528 RNA polymerase sigma 97.5 0.0004 8.7E-09 60.2 7.3 70 295-367 4-73 (161)
96 TIGR02950 SigM_subfam RNA poly 97.4 0.00026 5.7E-09 60.4 5.9 63 302-367 2-64 (154)
97 PRK09645 RNA polymerase sigma 97.4 0.00053 1.2E-08 60.0 7.9 73 294-367 8-80 (173)
98 PRK09637 RNA polymerase sigma 97.4 0.0007 1.5E-08 60.8 8.0 69 297-367 3-71 (181)
99 PRK12532 RNA polymerase sigma 97.4 0.00046 1E-08 61.9 6.8 68 298-367 8-76 (195)
100 PRK12520 RNA polymerase sigma 97.4 0.00052 1.1E-08 61.4 7.0 70 296-367 3-72 (191)
101 TIGR02943 Sig70_famx1 RNA poly 97.3 0.00053 1.1E-08 61.8 6.7 68 298-367 5-72 (188)
102 PRK12533 RNA polymerase sigma 97.2 0.0015 3.3E-08 60.9 8.9 72 293-367 16-87 (216)
103 TIGR02959 SigZ RNA polymerase 97.2 0.00076 1.7E-08 59.6 6.6 63 303-367 3-65 (170)
104 PRK12516 RNA polymerase sigma 97.2 0.0015 3.2E-08 59.1 8.3 72 294-367 9-80 (187)
105 TIGR02960 SigX5 RNA polymerase 97.2 0.0012 2.5E-08 63.8 8.0 71 295-367 5-75 (324)
106 PRK09642 RNA polymerase sigma 97.2 0.00057 1.2E-08 59.1 4.8 63 302-367 2-64 (160)
107 PRK12523 RNA polymerase sigma 97.0 0.0014 3E-08 57.7 5.9 73 292-367 6-79 (172)
108 PRK12546 RNA polymerase sigma 96.9 0.0032 7E-08 57.1 7.9 69 296-367 9-77 (188)
109 PRK12544 RNA polymerase sigma 96.9 0.0027 5.8E-08 58.5 7.4 69 297-367 20-88 (206)
110 PRK12540 RNA polymerase sigma 96.9 0.0034 7.4E-08 56.5 7.9 70 296-367 6-75 (182)
111 PRK07037 extracytoplasmic-func 96.8 0.0028 6.1E-08 54.8 6.2 66 299-367 2-67 (163)
112 PRK12529 RNA polymerase sigma 96.8 0.0038 8.2E-08 55.6 7.0 74 294-367 12-87 (178)
113 PRK12545 RNA polymerase sigma 96.8 0.0038 8.2E-08 56.8 7.0 67 299-367 12-78 (201)
114 PRK12517 RNA polymerase sigma 96.8 0.006 1.3E-07 55.1 8.1 75 290-366 18-92 (188)
115 PF00140 Sigma70_r1_2: Sigma-7 96.6 0.0012 2.7E-08 46.1 1.7 33 224-256 3-36 (37)
116 PRK12530 RNA polymerase sigma 96.6 0.0061 1.3E-07 54.9 6.6 68 298-367 10-77 (189)
117 PRK09651 RNA polymerase sigma 96.5 0.0092 2E-07 52.7 7.5 71 294-367 9-79 (172)
118 PRK12511 RNA polymerase sigma 96.5 0.0081 1.8E-07 54.1 7.0 69 297-367 6-74 (182)
119 PRK12527 RNA polymerase sigma 96.1 0.011 2.4E-07 51.2 5.6 62 303-367 3-64 (159)
120 PRK12525 RNA polymerase sigma 96.0 0.027 5.8E-07 49.5 7.4 70 295-367 9-78 (168)
121 PRK09636 RNA polymerase sigma 95.8 0.019 4.1E-07 55.3 6.2 68 296-367 5-72 (293)
122 TIGR02957 SigX4 RNA polymerase 95.7 0.019 4E-07 55.3 5.7 65 299-367 1-65 (281)
123 PF12645 HTH_16: Helix-turn-he 95.7 0.04 8.6E-07 43.1 6.4 56 286-341 3-65 (65)
124 PF04539 Sigma70_r3: Sigma-70 95.3 0.049 1.1E-06 42.3 5.6 40 252-291 3-42 (78)
125 PRK06704 RNA polymerase factor 94.9 0.064 1.4E-06 51.0 6.5 67 295-367 18-84 (228)
126 TIGR03209 P21_Cbot clostridium 94.4 0.14 2.9E-06 43.6 6.6 63 298-367 2-69 (142)
127 PRK09191 two-component respons 94.3 0.13 2.8E-06 47.1 6.8 63 296-360 2-64 (261)
128 PRK09635 sigI RNA polymerase s 94.1 0.1 2.2E-06 50.9 6.0 68 296-367 6-73 (290)
129 PF07638 Sigma70_ECF: ECF sigm 94.1 0.24 5.1E-06 44.9 7.9 84 283-367 4-94 (185)
130 PHA02547 55 RNA polymerase sig 91.0 0.65 1.4E-05 43.2 6.4 64 303-366 45-111 (179)
131 PRK05658 RNA polymerase sigma 86.6 1.4 3E-05 47.5 6.2 34 218-254 103-136 (619)
132 COG1191 FliA DNA-directed RNA 74.1 7.1 0.00015 38.1 5.8 41 253-293 110-150 (247)
133 PRK07122 RNA polymerase sigma 65.9 12 0.00025 36.1 5.3 38 254-291 128-165 (264)
134 TIGR02850 spore_sigG RNA polym 64.1 16 0.00035 34.6 5.8 39 254-292 121-159 (254)
135 TIGR02393 RpoD_Cterm RNA polym 63.9 18 0.00038 34.0 5.9 38 254-291 88-125 (238)
136 PRK07408 RNA polymerase sigma 63.4 18 0.00039 34.5 6.0 37 253-289 113-149 (256)
137 PRK07921 RNA polymerase sigma 59.7 20 0.00044 35.9 5.9 39 252-290 172-210 (324)
138 PRK12427 flagellar biosynthesi 59.3 24 0.00051 33.3 5.9 38 254-291 102-139 (231)
139 PRK05911 RNA polymerase sigma 58.5 23 0.0005 33.8 5.8 38 254-291 111-148 (257)
140 PRK09210 RNA polymerase sigma 56.5 23 0.0005 35.9 5.7 38 254-291 217-254 (367)
141 PRK07670 RNA polymerase sigma 51.1 37 0.00081 32.0 5.9 38 254-291 110-147 (251)
142 PRK05901 RNA polymerase sigma 49.3 34 0.00073 36.8 5.8 39 253-291 358-396 (509)
143 PRK07406 RNA polymerase sigma 49.0 38 0.00083 34.8 5.9 39 252-290 222-260 (373)
144 TIGR02885 spore_sigF RNA polym 48.1 45 0.00097 30.9 5.8 37 255-291 99-135 (231)
145 TIGR02479 FliA_WhiG RNA polyme 47.7 48 0.001 30.6 5.9 39 253-291 83-121 (224)
146 PRK14082 hypothetical protein; 45.9 56 0.0012 26.2 5.1 54 296-351 10-63 (65)
147 PRK05949 RNA polymerase sigma 45.4 48 0.001 33.2 5.9 37 254-290 179-215 (327)
148 PRK07598 RNA polymerase sigma 43.1 53 0.0012 34.4 6.0 40 252-291 261-300 (415)
149 PRK06288 RNA polymerase sigma 42.5 62 0.0013 30.9 6.0 37 254-290 119-155 (268)
150 PRK11511 DNA-binding transcrip 42.1 49 0.0011 28.3 4.7 40 253-292 9-48 (127)
151 PRK08215 sporulation sigma fac 40.0 69 0.0015 30.4 5.8 36 255-290 125-160 (258)
152 PRK07405 RNA polymerase sigma 39.0 71 0.0015 31.8 5.9 39 253-291 168-206 (317)
153 TIGR03826 YvyF flagellar opero 37.9 77 0.0017 28.5 5.4 40 255-294 32-71 (137)
154 TIGR02997 Sig70-cyanoRpoD RNA 35.3 90 0.0019 30.5 5.9 39 253-291 161-199 (298)
155 KOG0917 Uncharacterized conser 34.4 37 0.00079 34.3 3.0 84 45-144 10-94 (338)
156 COG0568 RpoD DNA-directed RNA 32.9 95 0.0021 31.9 5.8 39 252-290 188-226 (342)
157 PF01726 LexA_DNA_bind: LexA D 31.5 1.6E+02 0.0034 22.9 5.6 24 258-282 15-38 (65)
158 PRK10219 DNA-binding transcrip 30.8 1.2E+02 0.0025 24.7 5.1 38 255-292 7-44 (107)
159 TIGR02980 SigBFG RNA polymeras 30.5 1.1E+02 0.0024 28.2 5.3 35 256-290 93-127 (227)
160 PRK05449 aspartate alpha-decar 28.2 4.6 0.0001 35.9 -3.9 32 323-354 30-61 (126)
161 cd06919 Asp_decarbox Aspartate 27.7 4.7 0.0001 35.1 -3.8 32 323-354 29-60 (111)
162 smart00342 HTH_ARAC helix_turn 27.4 1.6E+02 0.0034 21.6 4.9 24 269-292 1-24 (84)
163 PRK07500 rpoH2 RNA polymerase 26.5 1.3E+02 0.0027 29.5 5.3 25 265-289 144-168 (289)
164 PRK05572 sporulation sigma fac 24.9 1.8E+02 0.0038 27.5 5.8 36 254-289 119-154 (252)
165 COG0853 PanD Aspartate 1-decar 24.8 7.1 0.00015 34.7 -3.3 31 323-353 29-59 (126)
166 PF02261 Asp_decarbox: Asparta 24.1 4.8 0.0001 35.3 -4.4 31 323-353 30-60 (116)
167 PRK06986 fliA flagellar biosyn 23.8 2.1E+02 0.0045 26.6 6.0 36 255-290 97-132 (236)
168 TIGR01446 DnaD_dom DnaD and ph 23.2 1.8E+02 0.0039 22.2 4.6 59 262-324 5-70 (73)
169 KOG0037 Ca2+-binding protein, 22.9 1.4E+02 0.003 29.2 4.6 108 217-345 91-204 (221)
170 TIGR02941 Sigma_B RNA polymera 22.3 1.8E+02 0.0039 27.4 5.3 37 255-291 118-154 (255)
171 TIGR03761 ICE_PFL4669 integrat 21.4 2E+02 0.0044 27.7 5.5 36 305-341 158-193 (216)
172 TIGR00223 panD L-aspartate-alp 21.0 7.8 0.00017 34.5 -3.8 32 323-354 30-61 (126)
No 1
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=100.00 E-value=4e-35 Score=295.74 Aligned_cols=145 Identities=33% Similarity=0.549 Sum_probs=131.3
Q ss_pred HHHHHHhhccCC-CCCCcHHHHHHHhhchHHHH--------------------HHHHHHHHHHHhCCCCchhHHHHHc--
Q 017616 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVAN--------------------LERIKTTLEKESGKAASLNCWAQAA-- 279 (368)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~--------------------Le~ir~~L~~~~gr~pt~~ewA~a~-- 279 (368)
+.|+-|++.+++ ||||++||++|+++||.++. |++++..|++++|++||..+||.++
T Consensus 60 d~v~~yl~~igr~~lL~~~eEv~l~~~vq~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~g~~pt~~ewa~~~~~ 139 (415)
T PRK07598 60 DLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSLERWAKTADI 139 (415)
T ss_pred ChHHHHHHhcccccCCCHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhHHHHHHHHHHHHHHhCCCCCHHHHHHHhCC
Confidence 334555556664 99999999999999999999 8999999999999999999999554
Q ss_pred --------------------CCCHHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHh
Q 017616 280 --------------------GVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAER 339 (368)
Q Consensus 280 --------------------g~~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVek 339 (368)
||++++|.+.++.|..|+++||++|+++|+++|++|.++|++++||+|||++|||+|+++
T Consensus 140 ~~~~l~~~l~~~~~~~~~~~~l~~~eL~~~l~~G~~A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~ravek 219 (415)
T PRK07598 140 SLADLKPTLAEGKRRWAEIAKLTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEK 219 (415)
T ss_pred cHHHHHHhhhhhhhhhhhhccCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHH
Confidence 556666667778898999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 340 FDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 340 FDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|||++|++|+|||+||||++|.++++++
T Consensus 220 FDp~rG~rFSTYa~wwIRqaI~r~i~~~ 247 (415)
T PRK07598 220 FDPTKGYRFSTYAYWWIRQGITRAIATQ 247 (415)
T ss_pred cCcccCCCHHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999999999999999753
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=7.4e-33 Score=266.06 Aligned_cols=141 Identities=38% Similarity=0.653 Sum_probs=134.2
Q ss_pred HHhhccC-CCCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHch
Q 017616 227 RALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTR 305 (368)
Q Consensus 227 ~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~nl 305 (368)
.|++..+ .||||++||++|++.++.+..+++++.+|+++.|++|+..+||+++|++..+|...++.|..|+++||+.|+
T Consensus 5 ~yl~~~~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~Lv~~~l 84 (298)
T TIGR02997 5 LYLQEIGRVPLLTPEEEIELARQVQQMMVLEELREELEEQLGREPSKEEWAAAAGLSEAELRQRLRQGQRAKEKMIKANL 84 (298)
T ss_pred HHHHHccccCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHhhcCCCcHHHHHHhccCCHHHHHHHHhccHHHHHHHHHHhH
Confidence 4555555 599999999999999999999999999999999999999999999999999999999999899999999999
Q ss_pred HHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 306 PLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 306 rLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
++|+++|++|.+.|.+.+||+|||++|||+|+++|||.+|++|+|||+||||++|.++|.++
T Consensus 85 rlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I~r~i~~~ 146 (298)
T TIGR02997 85 RLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGITRAIANQ 146 (298)
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999988754
No 3
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=99.98 E-value=4e-32 Score=270.83 Aligned_cols=143 Identities=33% Similarity=0.656 Sum_probs=137.4
Q ss_pred HHHHhhccCC-CCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHH
Q 017616 225 AERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKS 303 (368)
Q Consensus 225 v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~ 303 (368)
+..|++..++ ||||++||++|++.|+.++.+++++.+|+++.|++|+..+||.++|++..+|.+++..|..|+++||..
T Consensus 65 l~~Yl~~i~~~~lLt~eEE~~La~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~Li~~ 144 (373)
T PRK07406 65 IRVYLQEIGRIRLLRPDEEIELARKIADLLELEELREQFESELGREPSDKEWAELVDMPLPKFRRRLMLGRRAKEKMVQS 144 (373)
T ss_pred HHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHhhhccccHHHHHHHHhcCHHHHHHHHHH
Confidence 4566777775 999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 304 TRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 304 nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|+|+|.++|++|.++|.+++||+|||+|||++|+++|||.+|++|+|||+||||++|.++|+++
T Consensus 145 ~l~lV~~iA~ry~~~~~~~eDLiQEG~igL~~Ai~kFd~~kg~~FsTYA~wWIRqaI~~~I~~~ 208 (373)
T PRK07406 145 NLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQ 208 (373)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999999875
No 4
>PRK05949 RNA polymerase sigma factor; Validated
Probab=99.97 E-value=3.1e-31 Score=259.72 Aligned_cols=143 Identities=37% Similarity=0.604 Sum_probs=136.0
Q ss_pred HHHHhhccC-CCCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHH
Q 017616 225 AERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKS 303 (368)
Q Consensus 225 v~~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~ 303 (368)
+.-|++..+ .||||++||++|++.|+.++.+++.+..|++.+|+.|+..+||.++++++.+|...++.|+.|++.||..
T Consensus 20 ~~~yl~~i~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~eL~~~~~~g~~A~~~Li~~ 99 (327)
T PRK05949 20 VRTYLHEIGRVPLLTHEQEIVYGKQVQQMMSLLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGKRAKQKMIEA 99 (327)
T ss_pred HHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHhccCCHHHHHHHHHccHHHHHHHHHH
Confidence 445666666 5999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 304 TRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 304 nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|+++|.++|++|.+.|.+.+||+|||++|||+|+++|||++|++|+|||+||||++|.++|+++
T Consensus 100 ~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I~r~i~~~ 163 (327)
T PRK05949 100 NLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQ 163 (327)
T ss_pred HHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHHHHHHHHc
Confidence 9999999999999999999999999999999999999999999999999999999999998764
No 5
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=99.97 E-value=1.5e-30 Score=253.43 Aligned_cols=143 Identities=32% Similarity=0.563 Sum_probs=136.1
Q ss_pred HHHHhhccC-CCCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHH
Q 017616 225 AERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKS 303 (368)
Q Consensus 225 v~~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~ 303 (368)
+..|++..+ .||||++||++|++.|+.++.+++++..|++++|+.|+..+||+++++++.+|...++.|+.|+++||..
T Consensus 10 ~~~yl~~i~~~~lLt~eeE~~La~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~g~~A~~~L~~~ 89 (317)
T PRK07405 10 VRTYLREIGRVPLLTHEEEILYGKQVQRLVALQEIREELAEELGREPTDAEWAKAAKLSEEELRSAIAEGEAAKRKMVEA 89 (317)
T ss_pred HHHHHHHccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHhhhccCCHHHHHHHHhccHHHHHHHHHH
Confidence 445666666 4999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 304 TRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 304 nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|+++|.++|++|.+.+.+.+||+|||++|||+|+++|||++|++|+|||+||||++|.++|+++
T Consensus 90 ~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~~~i~~~ 153 (317)
T PRK07405 90 NLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEK 153 (317)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999998764
No 6
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=99.96 E-value=1.7e-29 Score=260.43 Aligned_cols=132 Identities=31% Similarity=0.509 Sum_probs=113.1
Q ss_pred HHHHHHhhccCC-CCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHH
Q 017616 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELI 301 (368)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI 301 (368)
+.++.|++..++ ||||++||++|+++|+.+..+++.. ++ ...|+.. ...+|++.++.|..|+++||
T Consensus 211 d~l~~YL~~i~~~~lLt~eEE~~La~~i~~g~~~~~~~---~~-------~~~~~~~---~~~~l~~~~~~g~~Ar~~LI 277 (509)
T PRK05901 211 DPVKAYLKQIGKVKLLNAEEEVELAKRIEAGLYAEELL---AE-------GEKLDPE---LRRDLQWIGRDGKRAKNHLL 277 (509)
T ss_pred cHHHHHHHHhccCCCCCHHHHHHHHHHHHhCCchhhhh---hh-------cccchhh---hhhhhhhhccchHHHHHHHH
Confidence 345667777764 9999999999999999886555422 11 1234322 45778999999999999999
Q ss_pred HHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 302 ~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..|+|||++||++|.++|++++||||||+||||+||++|||++|++|+|||+||||++|.++|+++
T Consensus 278 ~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~ 343 (509)
T PRK05901 278 EANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQ 343 (509)
T ss_pred HHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHc
Confidence 999999999999999999999999999999999999999999999999999999999999999875
No 7
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=99.96 E-value=4.7e-29 Score=246.24 Aligned_cols=146 Identities=32% Similarity=0.555 Sum_probs=126.7
Q ss_pred HHHHHHHhhccCC-CCCCcHHHHHHHhhchHHHHHHHHHHHHHH-HhCCCCchh---------------HHHHHcCCCH-
Q 017616 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEK-ESGKAASLN---------------CWAQAAGVSE- 283 (368)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~-~~gr~pt~~---------------ewA~a~g~~~- 283 (368)
.+.+..|+...+. ++++.++|.++...++....+......|.. .++..|+.. +|+.....++
T Consensus 8 ~d~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Ee 87 (342)
T COG0568 8 ADAVRAYLDEIGRIPLLVREAEVELAKQLEDEQLLVELGEDLTDLKLGREPSERARRPAGRLSFYIRAIEAAPLLTPEEE 87 (342)
T ss_pred hhHHHHHHHHhcchhhhhHHHHHHHHHHHhHhhhhhHHHHHHHhcccccccchhhhhhhhhHHHHHHHHhhhcccChHHH
Confidence 4556667766664 899999999999999988888777777776 678888876 5554444443
Q ss_pred HHHHHHHHhcHH---HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 284 RVLKQHLAFGWY---CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 284 eeL~~~l~~G~~---Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
..|..+++.|.. |+.+||++|++||++||++|.++|+++.||||||+||||+||+||||++||+|||||+|||||+|
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 678899999953 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.++|.++
T Consensus 168 ~raI~~q 174 (342)
T COG0568 168 TRAIADQ 174 (342)
T ss_pred HHHHHHh
Confidence 9999875
No 8
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=99.94 E-value=5.5e-27 Score=229.83 Aligned_cols=130 Identities=34% Similarity=0.560 Sum_probs=111.8
Q ss_pred HHHHhhccC-CCCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHH
Q 017616 225 AERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKS 303 (368)
Q Consensus 225 v~~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~ 303 (368)
+..|++..+ .||||++||++|++.++.+..++.. |+..+|+... ...+|...++.|..|+++||..
T Consensus 28 ~~~Yl~~i~~~~lLt~eeE~~La~~~~~g~~~~~~-----------~~~~~~~~~~--~~~~l~~~~~~~~~A~~~Lv~~ 94 (324)
T PRK07921 28 VRVYLNGIGKTALLTAADEVELAKRIEAGLYAEHL-----------LETRKRLSEA--RKRDLAAVVRDGEAARRHLLEA 94 (324)
T ss_pred HHHHHHHhcccCCCCHHHHHHHHHHHHhhhhhhhh-----------hccccccchh--HHHHHHHHHhcCHHHHHHHHHH
Confidence 345566666 4999999999999999988776653 2223332111 3568899999999999999999
Q ss_pred chHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 304 TRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 304 nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|+++|.++|++|.+.|.+.+||+|||+||||+|+++|||++|++|+|||+||||++|.++|+++
T Consensus 95 ~~~lV~~iA~r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~~ 158 (324)
T PRK07921 95 NLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQ 158 (324)
T ss_pred HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999999999999999999999999999999999999999999999999999875
No 9
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=99.89 E-value=4.5e-23 Score=216.59 Aligned_cols=94 Identities=31% Similarity=0.715 Sum_probs=83.0
Q ss_pred HHHHHcCCCHHH---HHHHHHhcH----HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCC
Q 017616 274 CWAQAAGVSERV---LKQHLAFGW----YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGY 346 (368)
Q Consensus 274 ewA~a~g~~~ee---L~~~l~~G~----~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~ 346 (368)
+.....+++.++ +.+.++.|+ .|+++||.+|+|||++||++|.++|++++||||||+||||+||++|||++|+
T Consensus 352 ~ie~~~~Ls~eElk~l~~~i~~g~~~~~~a~~~Li~~nlrlV~~iA~ky~~~gl~~~DLiQeG~iGL~~Av~kfd~~~G~ 431 (619)
T PRK05658 352 AIEEETGLTIEELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 431 (619)
T ss_pred HHHHHhCCCHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhcCccCCC
Confidence 334455666544 445667775 4889999999999999999999999999999999999999999999999999
Q ss_pred ccccHHHHHHHHHHHHHHHhc
Q 017616 347 KFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 347 rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+|+|||+||||++|.++|+++
T Consensus 432 ~FstYA~~wIr~aI~~~i~~~ 452 (619)
T PRK05658 432 KFSTYATWWIRQAITRSIADQ 452 (619)
T ss_pred chHHHhHHHHHHHHHHHHHHc
Confidence 999999999999999999875
No 10
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=99.88 E-value=1.1e-22 Score=193.43 Aligned_cols=73 Identities=26% Similarity=0.465 Sum_probs=71.0
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++++||.+|+|||++||++|.++|++++||+|+|+||||+|+++|||++|++|+|||.||||++|.++|+++
T Consensus 40 ~~r~~Lv~~~l~LV~~iA~~y~~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~~ 112 (264)
T PRK07122 40 RQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRDN 112 (264)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHc
Confidence 4899999999999999999999999999999999999999999999999999999999999999999999874
No 11
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=99.86 E-value=9.9e-22 Score=195.13 Aligned_cols=105 Identities=33% Similarity=0.603 Sum_probs=93.0
Q ss_pred HHHHHHhhccC-CCCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHH
Q 017616 223 FSAERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELI 301 (368)
Q Consensus 223 ~~v~~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI 301 (368)
++++.|++..+ .|+||++||.+|++.++.+ +..|+++||
T Consensus 96 d~~~~yl~~i~~~~~l~~~ee~~L~~~~~~G----------------------------------------d~~A~~~Li 135 (367)
T PRK09210 96 DPVRMYLKEIGRVPLLTAEEEIELAKRIEEG----------------------------------------DEEAKQRLA 135 (367)
T ss_pred cHHHHHHHHhhccCCCCHHHHHHHHHHHHhh----------------------------------------HHHHHHHHH
Confidence 44566776666 4999999999998755422 124899999
Q ss_pred HHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 302 ~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..|+|+|.++|++|.+.|.+++||+|||+||||+|+++|||.+|++|+|||+||||++|.++|+++
T Consensus 136 ~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~ 201 (367)
T PRK09210 136 EANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 201 (367)
T ss_pred HHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHc
Confidence 999999999999999999999999999999999999999999999999999999999999999875
No 12
>TIGR02392 rpoH_proteo alternative sigma factor RpoH. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors.
Probab=99.83 E-value=2.5e-20 Score=176.95 Aligned_cols=84 Identities=31% Similarity=0.615 Sum_probs=76.5
Q ss_pred HHHHHH-HHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 284 RVLKQH-LAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 284 eeL~~~-l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
.+|... .+.|+ .|+++||..|+|+|.++|++|.+.+.+.+||+|+|++||++|+++|||++|++|+|||.||||++|.
T Consensus 22 ~~l~~~~~~~gd~~a~~~Lv~~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~fd~~~~~~FsTYA~~~Ir~~i~ 101 (270)
T TIGR02392 22 YQLAKRLREHGDLDAAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIH 101 (270)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCChHHhhHHHHHHHHH
Confidence 445555 44554 5999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
++|++.
T Consensus 102 ~~l~~~ 107 (270)
T TIGR02392 102 EYILRN 107 (270)
T ss_pred HHHHHc
Confidence 999853
No 13
>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=99.82 E-value=1.6e-20 Score=174.69 Aligned_cols=72 Identities=40% Similarity=0.875 Sum_probs=69.6
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|+++||..|+|+|.++|++|.+.|.+++||+|||++||++|+++|||++|++|+|||.||||++|.++|+++
T Consensus 1 a~~~Li~~~~~lv~~ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~ 72 (238)
T TIGR02393 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQ 72 (238)
T ss_pred CHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHc
Confidence 578999999999999999999999999999999999999999999999999999999999999999998764
No 14
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=99.81 E-value=8.6e-20 Score=175.79 Aligned_cols=107 Identities=27% Similarity=0.448 Sum_probs=92.5
Q ss_pred HHHHHHHhhccCC-CCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHH
Q 017616 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREEL 300 (368)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~L 300 (368)
++.+..|++..++ |+||+++|.+|.+.++.. .+..|+++|
T Consensus 5 ~~~~~~y~~~~~~~~~l~~~~e~~L~~~~~~~---------------------------------------gd~~A~~~L 45 (289)
T PRK07500 5 ASADRSMIRSAMKAPYLEREEEHALAYRWKDH---------------------------------------RDEDALHRI 45 (289)
T ss_pred hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC---------------------------------------CCHHHHHHH
Confidence 3456667777775 899999999887643200 123589999
Q ss_pred HHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 301 IKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 301 I~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|..|+|+|.++|++|.+.+.+.+||+|+|++|||+|+++|||.+|.+|+|||+||||++|.++|+++
T Consensus 46 v~~~~~lV~~~a~~~~~~~~~~eDLvQeg~i~L~~a~~~fd~~~~~~f~tya~~~Ir~~I~~~lr~~ 112 (289)
T PRK07500 46 ISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYATWWIRASIQDYILRN 112 (289)
T ss_pred HHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHC
Confidence 9999999999999999999999999999999999999999999999999999999999999999864
No 15
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=99.81 E-value=8.2e-20 Score=175.37 Aligned_cols=84 Identities=30% Similarity=0.616 Sum_probs=76.4
Q ss_pred HHHHHH-HHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 284 RVLKQH-LAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 284 eeL~~~-l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
.+|... .+.|+ .++++||..|+|+|.++|++|.+.+.+.+||+|+|++||++|+++|||++|++|+|||+||||++|.
T Consensus 35 ~~l~~~~~~~Gd~~a~~~Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~~~FstYA~~~Ir~~i~ 114 (284)
T PRK06596 35 YMLAKRLREHGDLEAAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAVHWIKAEIH 114 (284)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHH
Confidence 345555 34555 5999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
++|+++
T Consensus 115 ~~l~~~ 120 (284)
T PRK06596 115 EYILRN 120 (284)
T ss_pred HHHHHc
Confidence 999864
No 16
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=99.78 E-value=5.6e-19 Score=168.46 Aligned_cols=83 Identities=35% Similarity=0.521 Sum_probs=75.9
Q ss_pred HHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCC-ChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGI-PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~-d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
+.+....+.|+. ++ +||+.|+|||.+||++|.+++. ++|||+|.|+|||++||++|||++|.+|+|||..+|+++|.
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 344555666654 88 9999999999999999999988 99999999999999999999999999999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
++||+.
T Consensus 91 d~LR~~ 96 (247)
T COG1191 91 DYLRKN 96 (247)
T ss_pred HHHHhC
Confidence 999985
No 17
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=99.78 E-value=8.4e-19 Score=165.59 Aligned_cols=77 Identities=27% Similarity=0.455 Sum_probs=71.5
Q ss_pred HhcH-HHHHHHHHHchHHHHHHHHHccCC-CCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 291 AFGW-YCREELIKSTRPLVLFLARNYRGL-GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 291 ~~G~-~Are~LI~~nlrLV~~IAkrY~~r-g~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.|+ .++++||..|+|+|.++|++|.+. +.+.+||+|+|+||||+|+++|||++|++|+|||+||||++|.++||++
T Consensus 20 ~~gd~~a~~~Lv~~~~~lV~~ia~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~ 98 (256)
T PRK07408 20 QNPSIALRNQLVELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEIQHYLRDK 98 (256)
T ss_pred HCCCHHHHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHc
Confidence 3554 599999999999999999999876 6779999999999999999999999999999999999999999999964
No 18
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=99.76 E-value=2.9e-18 Score=162.27 Aligned_cols=74 Identities=26% Similarity=0.384 Sum_probs=69.3
Q ss_pred HHHHHHHHHHchHHHHHHHHHccC---CCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~---rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..++++||..|+|+|.++|++|.. .+++++||+|+|+|||++|+++|||++|++|+|||.||||++|.++||++
T Consensus 22 ~~ar~~Li~~~~~lV~~ia~~~~~~~~~~~~~eDL~QeG~igL~~ai~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~ 98 (257)
T PRK05911 22 IEYRDVLIEFYLPLVKNVAHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAIIDDLRKQ 98 (257)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhc
Confidence 359999999999999999999862 35789999999999999999999999999999999999999999999975
No 19
>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=99.67 E-value=2.6e-16 Score=148.00 Aligned_cols=73 Identities=30% Similarity=0.483 Sum_probs=70.7
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++++|+..|.|+|.++|++|.+.+.+.+||+|+|++||++|+++|||.+|.+|+||+.+||+++|.+++|++
T Consensus 34 ~a~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~tyl~~~irn~~~~~lr~~ 106 (254)
T TIGR02850 34 TAREKLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN 106 (254)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHhC
Confidence 4899999999999999999999999999999999999999999999999999999999999999999999975
No 20
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=99.66 E-value=4.1e-16 Score=152.99 Aligned_cols=85 Identities=33% Similarity=0.710 Sum_probs=77.8
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
+..|..+++.|+. |+++||..|.|+|.++|.+|.+.+.+.+||+|+|++|+++++++||+.+|++|+|||+||||++|.
T Consensus 73 e~~li~~~~~Gd~~A~~~Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~fd~~rg~~Fstyatw~iR~ai~ 152 (325)
T PRK05657 73 EVYFARRALRGDFAARQRMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIE 152 (325)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHHHH
Confidence 3456777777764 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
++++++
T Consensus 153 ~~i~~~ 158 (325)
T PRK05657 153 RAIMNQ 158 (325)
T ss_pred HHHHHc
Confidence 988643
No 21
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=99.66 E-value=4.5e-16 Score=146.48 Aligned_cols=73 Identities=30% Similarity=0.489 Sum_probs=70.7
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++++|+..|.|+|.++|++|.+.+.+.+||+|+|++||++|+++|||.+|.+|+||+.+||+++|.++++++
T Consensus 37 ~a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l~~~ir~~i~~~lr~~ 109 (258)
T PRK08215 37 EAREKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN 109 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999875
No 22
>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=99.63 E-value=6.7e-16 Score=144.70 Aligned_cols=79 Identities=20% Similarity=0.338 Sum_probs=74.0
Q ss_pred HHHhcHHHHHHHHHHchHHHHHHHHHccCCC--CChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 289 HLAFGWYCREELIKSTRPLVLFLARNYRGLG--IPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 289 ~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg--~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
.++.|+..+++||..|.|+|.++|++|.+++ .+.||++|+|++||++|+++|||++|.+|.|||.+||+++|.+++|+
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 68999999999999999999999999999999999999999999997
Q ss_pred c
Q 017616 367 A 367 (368)
Q Consensus 367 ~ 367 (368)
.
T Consensus 83 ~ 83 (218)
T TIGR02895 83 N 83 (218)
T ss_pred c
Confidence 5
No 23
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=99.60 E-value=2.8e-15 Score=137.60 Aligned_cols=73 Identities=36% Similarity=0.600 Sum_probs=70.8
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.|+++||..|.|+|.++|++|.+.+.+.+||+|||++||++|+++||+++|.+|+||+.+||+++|.++++++
T Consensus 3 ~a~~~lv~~y~~~v~~~a~~~~~~~~~~eDl~Qe~~i~l~~a~~~f~~~~~~~F~ty~~~~i~~~~~~~~r~~ 75 (227)
T TIGR02980 3 EAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAVPTIMGEIKRFFRDD 75 (227)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCcHHHHHHHHHHHHHHHHHHc
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999875
No 24
>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=99.59 E-value=8.6e-15 Score=140.04 Aligned_cols=84 Identities=35% Similarity=0.741 Sum_probs=78.2
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
+.+|...++.|+. |++.|+..|.++|..+|.+|.+.+.+.+||+|+|++||++|+++|||.+|++|+||+.|||+.+|.
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 4567777888764 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHh
Q 017616 362 KMVAS 366 (368)
Q Consensus 362 r~Lrr 366 (368)
+++++
T Consensus 113 ~~i~~ 117 (285)
T TIGR02394 113 RAIMN 117 (285)
T ss_pred HHHHH
Confidence 98874
No 25
>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=99.58 E-value=5.6e-15 Score=136.20 Aligned_cols=79 Identities=27% Similarity=0.402 Sum_probs=73.5
Q ss_pred HHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 289 HLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 289 ~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++.|+ .++++|+..|.|+|.++|.+|.+.+.+.+||+|+|++||++|+++|||.+|.+|.||+++||+++|.+++|++
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 344454 5999999999999999999999999999999999999999999999999999999999999999999999975
No 26
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=99.56 E-value=2.2e-14 Score=135.92 Aligned_cols=95 Identities=32% Similarity=0.390 Sum_probs=79.5
Q ss_pred CCCCchhHHHHHcCCCHHHHHHHHH-hcH-HHHHHHHHHchHHHHHHHHHccC---CCCChhHHHHHHHHHHHHHHHhcC
Q 017616 267 GKAASLNCWAQAAGVSERVLKQHLA-FGW-YCREELIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFD 341 (368)
Q Consensus 267 gr~pt~~ewA~a~g~~~eeL~~~l~-~G~-~Are~LI~~nlrLV~~IAkrY~~---rg~d~eDLiQEG~iGLirAVekFD 341 (368)
|..|-+..- .+.+|...++ .|+ .+.+.++..|.|+|..+|++|.. .+.+.+||+|+|++|||+|+++||
T Consensus 7 ~~~~~~~~~------~e~~l~~~~~~~~d~~a~~~l~~~y~~lv~~~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd 80 (268)
T PRK06288 7 GKIPKYAQQ------DETELWREYKKTGDPKIREYLILKYSPLVKYVAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFD 80 (268)
T ss_pred CCCccccch------HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 555555432 2456666654 344 59999999999999999999862 467899999999999999999999
Q ss_pred CCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 342 HTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 342 pskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|.+|++|+||+.+|||+.|.+++|+.
T Consensus 81 ~~~~~~f~ty~~~~ir~~i~d~~R~~ 106 (268)
T PRK06288 81 PEREIKFKTYAVTRIRGAIFDELRSI 106 (268)
T ss_pred cccCCCHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999874
No 27
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=99.55 E-value=1.1e-14 Score=136.15 Aligned_cols=71 Identities=23% Similarity=0.290 Sum_probs=65.2
Q ss_pred HHHHHHHHchHHHHHHHHHccCC---CCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGL---GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~r---g~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+..++..|+|+|.++|++|..+ +.+.+||+|+|++|||+|+++|||.+| +|+|||.||||++|.++|++.
T Consensus 16 ~~~~lv~~y~~lV~~la~~~~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~-~F~tYa~~~Ir~~il~~lr~~ 89 (231)
T PRK12427 16 EEGKYLNAYLPLVKKVVRQLAFQADSVIDREDMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILDELREL 89 (231)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCCCC-ChHHHHHHHHHHHHHHHHHhc
Confidence 56689999999999999999754 679999999999999999999998666 899999999999999999874
No 28
>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=99.54 E-value=2.5e-14 Score=134.10 Aligned_cols=85 Identities=22% Similarity=0.270 Sum_probs=78.0
Q ss_pred HHHHHHHHHh-c-HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 283 ERVLKQHLAF-G-WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 283 ~eeL~~~l~~-G-~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+.+|...++. | ..|.++|+..|.|+|..+|.+|.+.+.+.+||+|+|++||++|+++||+++|.+|.||+.+||++.|
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 3456666666 4 4599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+++++.
T Consensus 95 ~~~lr~~ 101 (255)
T TIGR02941 95 KRYLRDK 101 (255)
T ss_pred HHHHHHc
Confidence 9999975
No 29
>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=99.49 E-value=4.6e-14 Score=129.75 Aligned_cols=68 Identities=35% Similarity=0.518 Sum_probs=64.5
Q ss_pred HHHHchHHHHHHHHHccC---CCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 300 LIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 300 LI~~nlrLV~~IAkrY~~---rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|+..|.|+|.++|++|.+ .+.+.+||+|||++||++|+++|||++|++|+||+.+||++.+.+++|+.
T Consensus 1 L~~~~~~lv~~~a~~~~~~~~~~~~~eDl~Qe~~~~l~~a~~~fd~~~~~~f~t~~~~~i~~~~~~~lr~~ 71 (224)
T TIGR02479 1 LIRRYLPLVKRIAGRLSVGLPSSVELDDLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRL 71 (224)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHHc
Confidence 578999999999999985 68999999999999999999999999999999999999999999999874
No 30
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=99.49 E-value=1.1e-13 Score=129.98 Aligned_cols=85 Identities=27% Similarity=0.374 Sum_probs=75.7
Q ss_pred HHHHHHHHHh-cH-HHHHHHHHHchHHHHHHHHHccC---CCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHH
Q 017616 283 ERVLKQHLAF-GW-YCREELIKSTRPLVLFLARNYRG---LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIR 357 (368)
Q Consensus 283 ~eeL~~~l~~-G~-~Are~LI~~nlrLV~~IAkrY~~---rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIR 357 (368)
+.+|.++++. |+ .|.++|+..|.|+|..+|.+|.+ .+.+.+|++|+|++||++++++|||.+|.+|+||+++||+
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 4566666443 44 59999999999999999999964 5789999999999999999999999999999999999999
Q ss_pred HHHHHHHHhc
Q 017616 358 KSISKMVASA 367 (368)
Q Consensus 358 qaI~r~Lrr~ 367 (368)
+.|.+++|++
T Consensus 88 n~~~d~lR~~ 97 (251)
T PRK07670 88 GAIIDGLRKE 97 (251)
T ss_pred HHHHHHHHhc
Confidence 9999999975
No 31
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=99.45 E-value=9.8e-13 Score=122.03 Aligned_cols=113 Identities=22% Similarity=0.278 Sum_probs=94.5
Q ss_pred HHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChh
Q 017616 245 MSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFS 323 (368)
Q Consensus 245 L~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~e 323 (368)
|..-+++.+.|..+..++ ++.|+...-. +..|...++.|+. +.+.|+..|.|+|.+++.+|.+.+.+.+
T Consensus 8 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~------e~~l~~~~~~gd~~a~~~l~~~y~~~l~~~a~~~~~~~~dae 77 (233)
T PRK05803 8 LLYIVKEILFLVSYVKNN----SFPQPLSEEE------ERKYLELMKEGDEEARNILIERNLRLVAHIVKKFENTGEDVD 77 (233)
T ss_pred HHHHHHHHHHHHHHHHHh----cccCCCCHHH------HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHH
Confidence 345566667777766555 5665544321 4567777777764 9999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 324 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 324 DLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|++|||+|+|++++++||+++|.+|.||+.+|||+.+.+++|+.
T Consensus 78 DlvQE~fi~l~~~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~ 121 (233)
T PRK05803 78 DLISIGTIGLIKAIESFDAGKGTKLATYAARCIENEILMHLRNL 121 (233)
T ss_pred HHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999864
No 32
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=99.44 E-value=4.1e-13 Score=126.06 Aligned_cols=85 Identities=25% Similarity=0.261 Sum_probs=77.0
Q ss_pred HHHHHHHHHh-cH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 283 ERVLKQHLAF-GW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 283 ~eeL~~~l~~-G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+.+|...++. |+ .|.++|+..|.|+|..+|++|.+.+.+.+||+|+|+++|++++++||+.+|.+|.||+.+||++.+
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 599999999999999999999998999999999999999999999999999999999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.++++++
T Consensus 95 ~~~lr~~ 101 (257)
T PRK08583 95 KRYLRDK 101 (257)
T ss_pred HHHHHhc
Confidence 9999975
No 33
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=99.44 E-value=3e-13 Score=125.51 Aligned_cols=76 Identities=32% Similarity=0.490 Sum_probs=71.7
Q ss_pred hcHHHHHHHHHHchHHHHHHHHHcc---CCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 292 FGWYCREELIKSTRPLVLFLARNYR---GLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 292 ~G~~Are~LI~~nlrLV~~IAkrY~---~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.|.-++++|+..|.|+|..+|.+|. +.+.+.+||+|+|++|||+++++|||++|.+|+||+.+||++.|.+++|++
T Consensus 5 ~~~~~~~~L~~~~~~~v~~~a~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn~~~~~lR~~ 83 (236)
T PRK06986 5 EGKMDQDELVEQYAPLVKRIALRLKARLPASVDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSL 83 (236)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHc
Confidence 4667999999999999999999997 558999999999999999999999999999999999999999999999975
No 34
>PRK05572 sporulation sigma factor SigF; Validated
Probab=99.39 E-value=1.6e-12 Score=122.14 Aligned_cols=84 Identities=26% Similarity=0.389 Sum_probs=76.4
Q ss_pred HHHHHHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHH
Q 017616 284 RVLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (368)
Q Consensus 284 eeL~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r 362 (368)
.+|...++.|+ .+.++|+..|.++|..+|.+|.+.+.+.+|++|+|++++++++++||+.+|.+|.||+.+||+++|.+
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 59999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhc
Q 017616 363 MVASA 367 (368)
Q Consensus 363 ~Lrr~ 367 (368)
++++.
T Consensus 100 ~lr~~ 104 (252)
T PRK05572 100 FLRDD 104 (252)
T ss_pred HHHhC
Confidence 99863
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=99.20 E-value=2.4e-10 Score=105.88 Aligned_cols=85 Identities=24% Similarity=0.418 Sum_probs=78.5
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
+..|..+++.|+. +.+.|+..|.|.|.+++.+|.+...+.+|++||+.+++++++++|+++++.+|.||+.+++++.+.
T Consensus 35 ~~~li~~~~~gd~~af~~l~~~y~~~v~~~~~~~~~~~~dAEDlvQevfi~l~~~~~~~~~~~~~~f~twl~~i~rN~~~ 114 (227)
T TIGR02846 35 EKKYLDRLKEGDEEARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAARCIENEIL 114 (227)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCcccCCChHHHHHHHHHHHHH
Confidence 5667777788765 999999999999999999998888899999999999999999999999998999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+.+|+.
T Consensus 115 d~~Rk~ 120 (227)
T TIGR02846 115 MHLRAL 120 (227)
T ss_pred HHHHHH
Confidence 999864
No 36
>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=99.20 E-value=5.9e-11 Score=88.91 Aligned_cols=69 Identities=23% Similarity=0.343 Sum_probs=66.0
Q ss_pred HHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhcC
Q 017616 300 LIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASAN 368 (368)
Q Consensus 300 LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~n 368 (368)
|++.|.|+|..++.+|.+.+.+.+|++||+.++|++++++||+++|..|.+|+...+++.+.+.+++++
T Consensus 1 L~~~~~~~l~~~~~~~~~~~~~~eD~~qe~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~r~~~ 69 (71)
T PF04542_consen 1 LYERYYPLLYRYARRYTGDPEDAEDLVQEAFIKLWRAIDSYDPDRGDSFRAWLFRIARNRILDYLRKRR 69 (71)
T ss_dssp HHHHTHHHHHHHHHTCTTCSSHHHHHHHHHHHHHHHHHHHTSTTSSSHHHHHHHHHHHHHHHHHHHCSS
T ss_pred CHHHHHHHHHHHHHHHhCCHhhHHHHhhHHHHHHHhhhhcccccccCCHHHHHHHHHHHHHHHHHHHhc
Confidence 688999999999999999889999999999999999999999999989999999999999999999763
No 37
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=99.19 E-value=8.8e-11 Score=111.39 Aligned_cols=86 Identities=20% Similarity=0.308 Sum_probs=78.1
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCC--ChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGI--PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~--d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRq 358 (368)
+.++|...++.|+. |.++|+..|.|+|.++|.+|.+... +.+|++|+|.+++++|+++||+.+|..|.+|+..+|++
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 45667788888865 9999999999999999999987765 58999999999999999999999998899999999999
Q ss_pred HHHHHHHhc
Q 017616 359 SISKMVASA 367 (368)
Q Consensus 359 aI~r~Lrr~ 367 (368)
.+.+++|+.
T Consensus 84 ~~iDylRk~ 92 (237)
T PRK08311 84 RLIDYFRKE 92 (237)
T ss_pred HHHHHHHHh
Confidence 999999974
No 38
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=99.12 E-value=3.3e-10 Score=101.70 Aligned_cols=86 Identities=21% Similarity=0.325 Sum_probs=79.1
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
++.+.|...++.|+. +.+.|+..|.|+|..+|.+|.+...+.+|++|+++++|++++.+||+.+|.+|.||++.+|++.
T Consensus 9 ~~~~~l~~~~~~~d~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n~ 88 (208)
T PRK08295 9 LEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITRQ 88 (208)
T ss_pred CChHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHH
Confidence 456777777877765 9999999999999999999998899999999999999999999999999889999999999999
Q ss_pred HHHHHHh
Q 017616 360 ISKMVAS 366 (368)
Q Consensus 360 I~r~Lrr 366 (368)
+.+++++
T Consensus 89 ~~d~~r~ 95 (208)
T PRK08295 89 IITAIKT 95 (208)
T ss_pred HHHHHHH
Confidence 9999875
No 39
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=99.12 E-value=3.2e-10 Score=104.84 Aligned_cols=85 Identities=27% Similarity=0.469 Sum_probs=79.1
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
+..|...++.|+. +.+.++..|.++|..+|.+|.+.+.+.+|++||+.+++++++.+||+.++++|.||+..++++.+.
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 5677888888865 999999999999999999999888999999999999999999999999888999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+++|++
T Consensus 119 d~lRk~ 124 (234)
T PRK08301 119 MYLRRN 124 (234)
T ss_pred HHHHHH
Confidence 999964
No 40
>TIGR02835 spore_sigmaE RNA polymerase sigma-E factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active.
Probab=99.04 E-value=1.2e-09 Score=101.58 Aligned_cols=85 Identities=27% Similarity=0.489 Sum_probs=78.5
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
++.|...++.|+. +.+.++..|.+.|..++.+|.+.+.+-+|++||+.+++++++++|++..+++|.||+..++++.+.
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 5667777777764 999999999999999999999999999999999999999999999998888999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+++|+.
T Consensus 119 d~~Rk~ 124 (234)
T TIGR02835 119 MYLRRN 124 (234)
T ss_pred HHHHHh
Confidence 999974
No 41
>TIGR02859 spore_sigH RNA polymerase sigma-H factor. Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt.
Probab=99.03 E-value=1.7e-09 Score=96.25 Aligned_cols=86 Identities=19% Similarity=0.304 Sum_probs=78.6
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
|+..+|...++.|+. +.++|+..|.|.|..+|.++.+...+.+|++||+.+.+++++.+||+..|..|.||++.+|++.
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 457788888888875 9999999999999999999988889999999999999999999999998889999999999999
Q ss_pred HHHHHHh
Q 017616 360 ISKMVAS 366 (368)
Q Consensus 360 I~r~Lrr 366 (368)
+.+++++
T Consensus 84 ~~~~~r~ 90 (198)
T TIGR02859 84 IITAIKT 90 (198)
T ss_pred HHHHHHH
Confidence 8887763
No 42
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=98.97 E-value=1.8e-09 Score=88.78 Aligned_cols=70 Identities=27% Similarity=0.344 Sum_probs=66.7
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.+.++..|.|+|.++++++...+.+.+|++|+|+++|+++++.||+. ..|.+|+..+|++.+.++++++
T Consensus 2 a~~~l~~~~~~~v~~~~~~~~~~~~~~~D~~qe~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~rk~ 71 (158)
T TIGR02937 2 AFEELYERYLPLLYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRK 71 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCCc--chHHHHHHHHHHHHHHHHHHHh
Confidence 578999999999999999999888999999999999999999999998 6899999999999999999875
No 43
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=98.84 E-value=8e-09 Score=89.50 Aligned_cols=77 Identities=17% Similarity=0.146 Sum_probs=69.7
Q ss_pred HHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 289 HLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 289 ~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+++.|+ .|.++|+..|.++|..++.+|.+.+.+.+|++|+++++|++++++|| .+.+|.+|++..+++.+.+.+|+.
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 355565 49999999999999999999998889999999999999999999999 456899999999999999999864
No 44
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=98.83 E-value=1.6e-08 Score=89.77 Aligned_cols=86 Identities=16% Similarity=0.120 Sum_probs=78.3
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
++.+.|...++.|+. +.+.|+..|.++|..+|.+|.+.+.+.+|++||+.+++++++.+||+. +..|.+|++..+++.
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 456778888888865 999999999999999999999988999999999999999999999986 457999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+.+|++
T Consensus 84 ~~d~~R~~ 91 (186)
T PRK05602 84 CYDRLRRR 91 (186)
T ss_pred HHHHHHhc
Confidence 99999865
No 45
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=98.74 E-value=4.1e-08 Score=86.42 Aligned_cols=84 Identities=17% Similarity=0.121 Sum_probs=75.9
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+.+.|...++.|+. +.++++..|.|+|.++|.+|.+...+.+|++|+++++|++++.+|++.. .|.+|+..-+++.+
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 35677778888875 9999999999999999999998889999999999999999999999853 79999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|+.
T Consensus 82 ~d~~R~~ 88 (187)
T PRK09641 82 IDRLRKR 88 (187)
T ss_pred HHHHHhc
Confidence 9999875
No 46
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=98.72 E-value=4.9e-08 Score=85.93 Aligned_cols=83 Identities=14% Similarity=0.102 Sum_probs=74.9
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
.++|...++.|+. +.++|+..|.|+|..+|.+|.+.+.+.+|++|++++.+++++..||+.. .|.+|+...+++.+.
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 3457777777765 9999999999999999999998888999999999999999999999875 599999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+.+|+.
T Consensus 83 ~~~rk~ 88 (187)
T TIGR02948 83 DRLRKR 88 (187)
T ss_pred HHHHhh
Confidence 999864
No 47
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=98.72 E-value=5.4e-08 Score=87.50 Aligned_cols=85 Identities=22% Similarity=0.115 Sum_probs=77.3
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+...|...+..|+. +.++|+..|.++|.+++.+|.+...+-+|++||+.+.+++.+.+||+.+| .|.+|++..+++.+
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 35677777777764 99999999999999999999998899999999999999999999999877 69999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|++
T Consensus 95 ~d~~r~~ 101 (194)
T PRK09646 95 VDRVRSE 101 (194)
T ss_pred HHHHHhh
Confidence 9999874
No 48
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=98.72 E-value=6e-08 Score=86.75 Aligned_cols=85 Identities=14% Similarity=0.096 Sum_probs=76.7
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
.+++.|...++.|+. +.+.|+..|.+.|.++|.+|.+...+.+|++|+++++++++..+|++. ..|.+|+...+++.
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 356778888888865 999999999999999999999888899999999999999999999974 36999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+.+|+.
T Consensus 89 ~~~~~R~~ 96 (194)
T PRK12513 89 LIDHWRRH 96 (194)
T ss_pred HHHHHHHh
Confidence 99999864
No 49
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=98.71 E-value=7.4e-08 Score=86.30 Aligned_cols=86 Identities=12% Similarity=0.137 Sum_probs=76.6
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCC---CChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLG---IPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWI 356 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg---~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wI 356 (368)
++++.|...+..|+. +.++|+..|.|.|.+++.++.+.+ .+.+|++|++.++|++++++|+++.+ .|.||+..-.
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 457788888888875 999999999999999999997643 46899999999999999999998766 7999999999
Q ss_pred HHHHHHHHHhc
Q 017616 357 RKSISKMVASA 367 (368)
Q Consensus 357 RqaI~r~Lrr~ 367 (368)
++.+.+++|++
T Consensus 82 rn~~~d~~rk~ 92 (189)
T PRK06811 82 KYKAIDYKRKL 92 (189)
T ss_pred HHHHHHHHHHh
Confidence 99999999874
No 50
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=98.71 E-value=7.7e-08 Score=85.71 Aligned_cols=84 Identities=21% Similarity=0.263 Sum_probs=73.3
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCC----CCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGL----GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIR 357 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~r----g~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIR 357 (368)
...|...++.|+. +.++|+..|.+.|..+|.++.+. +.+.+|++||+.++|++++.+|++. +..|.+|+..-++
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 3467777888865 99999999999999999988643 4689999999999999999999874 4579999999999
Q ss_pred HHHHHHHHhc
Q 017616 358 KSISKMVASA 367 (368)
Q Consensus 358 qaI~r~Lrr~ 367 (368)
+.+.+++|++
T Consensus 90 n~~~d~~r~~ 99 (189)
T PRK09648 90 HKVADAHRAA 99 (189)
T ss_pred HHHHHHHHHh
Confidence 9999999975
No 51
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=98.69 E-value=7.5e-08 Score=85.24 Aligned_cols=85 Identities=22% Similarity=0.199 Sum_probs=76.6
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
++.+|...++.|+. +.+.++..|.|.|..++.+|.+.+.+.+|++||+.+.+++++.+|++..+ .|.+|+..-+++.+
T Consensus 9 ~~~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~~~~~~~-~~~~wl~~ia~n~~ 87 (186)
T PRK13919 9 SDEALLALVARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDPRRG-SARAWLLALAHHAA 87 (186)
T ss_pred CHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhccCcccc-chHHHHHHHHHHHH
Confidence 56778888877765 99999999999999999999888889999999999999999999998654 59999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|+.
T Consensus 88 ~d~~rk~ 94 (186)
T PRK13919 88 VDHVRRR 94 (186)
T ss_pred HHHHHhh
Confidence 9999864
No 52
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=98.65 E-value=1.8e-07 Score=83.61 Aligned_cols=86 Identities=17% Similarity=0.191 Sum_probs=76.7
Q ss_pred CCCHHHHHHHHHhc----HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHH
Q 017616 280 GVSERVLKQHLAFG----WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355 (368)
Q Consensus 280 g~~~eeL~~~l~~G----~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~w 355 (368)
.++.++|...++.| ..+.++|+..|.|.|..++.+|.+...+.+|++||+++.+++++.+|++. ..|.+|+...
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 45677888888753 45999999999999999999999888999999999999999999999963 4799999999
Q ss_pred HHHHHHHHHHhc
Q 017616 356 IRKSISKMVASA 367 (368)
Q Consensus 356 IRqaI~r~Lrr~ 367 (368)
+++.+.+.+|+.
T Consensus 85 a~n~~~d~~R~~ 96 (188)
T PRK09640 85 TYNECITQYRKE 96 (188)
T ss_pred HHHHHHHHHHHh
Confidence 999999999863
No 53
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=98.65 E-value=1.1e-07 Score=81.51 Aligned_cols=71 Identities=18% Similarity=0.308 Sum_probs=64.7
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.|+|..+++++. ...+.||++||+.+++++++++||+..| .|.+|+...+++.+.+.+|++
T Consensus 4 ~af~~l~~~y~~~l~~~~~~~~-~~~~aeDi~Qe~~l~l~~~~~~~~~~~~-~f~~wl~~i~~n~~ld~~rk~ 74 (154)
T PRK06759 4 ATFTEAVVLYEGLIVNQIKKLG-IYQDYEEYYQCGLIGLWHAYERYDEKKG-SFPAYAVVTVRGYILERLKKE 74 (154)
T ss_pred ccHHHHHHHHHHHHHHHHHHhC-CcccHHHHHHHHHHHHHHHHHHhCccCC-chHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999999874 4578999999999999999999998777 699999999999999999975
No 54
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=98.60 E-value=2.2e-07 Score=81.44 Aligned_cols=85 Identities=15% Similarity=0.086 Sum_probs=75.9
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
|++..+...++.|+. +.+.|+..|.|.|..++.+|.+...+-+|++||+.+.++++++.|++. .+|.+|+...+++.
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 345677777777765 999999999999999999998888889999999999999999999974 47999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+++|+.
T Consensus 81 ~~d~~r~~ 88 (176)
T PRK09638 81 YKDHLRKQ 88 (176)
T ss_pred HHHHHHHh
Confidence 99999974
No 55
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=98.56 E-value=2.4e-07 Score=82.66 Aligned_cols=84 Identities=24% Similarity=0.188 Sum_probs=74.5
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+..+|...++.|+. +.+.|+..|.+.|..++.++.+...+-+|++|++.+.+++. ..|++.++ .|.||+...+++.+
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 45677887887765 99999999999999999999888889999999999999975 67888666 79999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|+.
T Consensus 93 ~d~~Rk~ 99 (194)
T PRK12519 93 IDRLRSR 99 (194)
T ss_pred HHHHHhc
Confidence 9999874
No 56
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=98.55 E-value=2.9e-07 Score=79.66 Aligned_cols=79 Identities=11% Similarity=0.065 Sum_probs=70.2
Q ss_pred HHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 288 QHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 288 ~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
..++.|+ .+.+.|+..|.+.+..++.++.+...+.+|++||+++.+++.+++|+...+ .|.+|+...+++.+.+.+|+
T Consensus 3 ~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~-~~~~wl~~i~~n~~~d~~R~ 81 (170)
T TIGR02952 3 ERAQDREEDAFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERVLRKIDSFKEQKN-SFEAWLFTIARNVVNDYFRG 81 (170)
T ss_pred HHHHccCHHHHHHHHHHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHHHhHHhcccccc-cHHHHHHHHHHHHHHHHHHh
Confidence 3455555 499999999999999999888777789999999999999999999998666 89999999999999999997
Q ss_pred c
Q 017616 367 A 367 (368)
Q Consensus 367 ~ 367 (368)
+
T Consensus 82 ~ 82 (170)
T TIGR02952 82 S 82 (170)
T ss_pred c
Confidence 5
No 57
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=98.53 E-value=5e-07 Score=80.58 Aligned_cols=84 Identities=13% Similarity=0.092 Sum_probs=74.4
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+.+.|...++.|+. +.++|+..|.|.|..++.+|.+..-+.+|++|++++.+++++.+|++.. .|.+|+..-.++.+
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 35677777888765 9999999999999999999988778999999999999999999999874 49999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|++
T Consensus 84 ~d~~rk~ 90 (193)
T PRK11923 84 KNHLVSR 90 (193)
T ss_pred HHHHHHh
Confidence 9998864
No 58
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=98.52 E-value=5.1e-07 Score=83.89 Aligned_cols=85 Identities=15% Similarity=0.120 Sum_probs=76.3
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
++.+.|...+..|+. +.+.|+..|.+.|.+++.++.+.+.+-+|++||+.++|++.+++|++. ..|.+|+...+++.
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 356777777877764 999999999999999999998888899999999999999999999986 47999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+.+|+.
T Consensus 93 ~~d~~Rk~ 100 (231)
T PRK11922 93 ALGRLRRR 100 (231)
T ss_pred HHHHHHhh
Confidence 99999864
No 59
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=98.49 E-value=6.8e-07 Score=77.26 Aligned_cols=80 Identities=20% Similarity=0.114 Sum_probs=71.1
Q ss_pred HHHHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHH
Q 017616 286 LKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMV 364 (368)
Q Consensus 286 L~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~L 364 (368)
|...+..|+ .+.+.++..|.+.|..++.++.+...+.+|++|++.+.|+++...|+ .+..|.+|+...+++.+.+.+
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 445566665 49999999999999999999998889999999999999999999999 345899999999999999998
Q ss_pred Hhc
Q 017616 365 ASA 367 (368)
Q Consensus 365 rr~ 367 (368)
++.
T Consensus 81 r~~ 83 (179)
T PRK11924 81 RRR 83 (179)
T ss_pred Hhc
Confidence 863
No 60
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=98.49 E-value=7.7e-07 Score=78.52 Aligned_cols=84 Identities=14% Similarity=0.120 Sum_probs=74.9
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+.+.|...+..|+. +.+.|+..|.+.|..+|.++.+...+.+|++||+.+.|++.+.+|++. ..|.+|+..-.++.+
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 45678888888765 999999999999999999998888899999999999999999999975 369999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+++.
T Consensus 84 ~~~~r~~ 90 (190)
T TIGR02939 84 KNHLVAQ 90 (190)
T ss_pred HHHHHHh
Confidence 9988753
No 61
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=98.48 E-value=5.4e-07 Score=81.16 Aligned_cols=87 Identities=17% Similarity=0.101 Sum_probs=77.6
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHH
Q 017616 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (368)
Q Consensus 280 g~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRq 358 (368)
.++...|..++..|+. +.++|+..|.|.|..+|.++.+...+.+|++||+.+.+++...+|++.. ..|.||+..-+++
T Consensus 10 ~~~~~~li~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~-~~~~~wl~~ia~n 88 (196)
T PRK12524 10 DVSDEALLVLYANGDPAAARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGE-ARVSTWLYRVVCN 88 (196)
T ss_pred CcCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhcccccc-chHHHHHHHHHHH
Confidence 3467788888888864 9999999999999999999988889999999999999999999998644 4699999999999
Q ss_pred HHHHHHHhc
Q 017616 359 SISKMVASA 367 (368)
Q Consensus 359 aI~r~Lrr~ 367 (368)
.+.+.+|+.
T Consensus 89 ~~~d~~Rk~ 97 (196)
T PRK12524 89 LCTDRLRRR 97 (196)
T ss_pred HHHHHHHhh
Confidence 999999863
No 62
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=98.48 E-value=5.9e-07 Score=79.23 Aligned_cols=85 Identities=14% Similarity=0.037 Sum_probs=75.4
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+...|...+..|+. +.++|+..|.+.|..+|.+|.+...+-+|++||+.+.+++++++|++..+ .|.||...-.++.+
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 99999999999999999999988899999999999999999999997654 59999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|+.
T Consensus 84 ~d~~R~~ 90 (179)
T PRK12514 84 IDRLRAR 90 (179)
T ss_pred HHHHHhc
Confidence 9999864
No 63
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=98.46 E-value=8.4e-07 Score=80.96 Aligned_cols=83 Identities=16% Similarity=0.096 Sum_probs=72.8
Q ss_pred HHHHHHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHH
Q 017616 284 RVLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (368)
Q Consensus 284 eeL~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r 362 (368)
..|...+..|+ .+.++|+..|.+.|..++.++.+...+-+|++|++.+.+++++..|++.++ .|.||+...+|+.+.+
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 34555556565 499999999999999999999887788999999999999999999998776 4999999999999999
Q ss_pred HHHhc
Q 017616 363 MVASA 367 (368)
Q Consensus 363 ~Lrr~ 367 (368)
.+|+.
T Consensus 105 ~~Rk~ 109 (206)
T PRK12526 105 MLRKI 109 (206)
T ss_pred HHHHh
Confidence 99874
No 64
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=98.45 E-value=9.9e-07 Score=77.11 Aligned_cols=85 Identities=15% Similarity=0.134 Sum_probs=76.2
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
|++++|...+..|+. +.+.++..|.+.|.+++.++.+...+.+|++||..+.+++...+|++. ..|.||+..-+++.
T Consensus 1 ~~~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~--~~~~~wl~~i~~n~ 78 (169)
T TIGR02954 1 MNDEELVKKAKRGNKPAFESLIKKHKEKLYKTAFIYVKNEHDALDVIQETVYKAYLSIDKLKHP--KYFNTWLTRILINE 78 (169)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhccCc--cccHHHHHHHHHHH
Confidence 456677777777765 999999999999999999999888999999999999999999999975 36999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+.+|+.
T Consensus 79 ~~d~~R~~ 86 (169)
T TIGR02954 79 CIDLLKKK 86 (169)
T ss_pred HHHHHHhc
Confidence 99999874
No 65
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=98.34 E-value=1.5e-06 Score=77.16 Aligned_cols=84 Identities=18% Similarity=0.101 Sum_probs=73.7
Q ss_pred HHHHHHHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
...+...+..|+ .+.++++..|.+.|..++.+|.+...+-+|++||..+.+++...+|++.++ .|.||.+.-.++.+.
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 455666666665 599999999999999999999888889999999999999999999998765 588999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+.+|+.
T Consensus 91 d~~R~~ 96 (187)
T PRK12534 91 DHLRAN 96 (187)
T ss_pred HHHHhc
Confidence 998864
No 66
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=98.33 E-value=2.3e-06 Score=80.42 Aligned_cols=85 Identities=19% Similarity=0.158 Sum_probs=76.0
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+.++|...++.|+. +.++|+..|.+.|..++.++.+...+-+|++||..+.+++..++|++..+ .|.+|...-.++.+
T Consensus 49 ~d~~Li~~~~~gd~~af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN~~ 127 (233)
T PRK12538 49 EDEELLDRLATDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSNRC 127 (233)
T ss_pred cHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHHHH
Confidence 45677778888765 99999999999999999999887788999999999999999999997655 69999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|++
T Consensus 128 id~~Rk~ 134 (233)
T PRK12538 128 IDLRRKP 134 (233)
T ss_pred HHHHHhh
Confidence 9999874
No 67
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=98.33 E-value=1.8e-06 Score=77.63 Aligned_cols=84 Identities=15% Similarity=0.044 Sum_probs=74.6
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
-.+|...+..|+. +.+.|+..|.|.|..+|.++.+...+-+|++|+.++.+++...+|++.++ .|.+|+..-+++.+.
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 3456677777765 99999999999999999999887778999999999999999999998655 699999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+.+|+.
T Consensus 93 d~~Rk~ 98 (194)
T PRK12531 93 DLLRKQ 98 (194)
T ss_pred HHHHHh
Confidence 999874
No 68
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=98.31 E-value=4e-06 Score=75.58 Aligned_cols=85 Identities=18% Similarity=0.125 Sum_probs=76.6
Q ss_pred CCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 281 VSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 281 ~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
++.+.+...+..|+. +.+.++..|.+.|..++.++.+...+-+|++||..+.+++.+++|++. ..|.+|+..-+++.
T Consensus 12 ~~~~~l~~~~~~gd~~~~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQEvfl~l~~~~~~~~~~--~~f~~wL~~i~rn~ 89 (192)
T PRK09643 12 RSDAELLAAHVAGDRYAFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGD--AAVSSWLHRIVVNA 89 (192)
T ss_pred cCHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCC--CccHHHHHHHHHHH
Confidence 356778888888865 999999999999999999998888899999999999999999999975 35999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+.+|+.
T Consensus 90 ~~d~~Rk~ 97 (192)
T PRK09643 90 CLDRLRRA 97 (192)
T ss_pred HHHHHHcc
Confidence 99999864
No 69
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=98.31 E-value=2.9e-06 Score=75.71 Aligned_cols=86 Identities=15% Similarity=0.088 Sum_probs=77.0
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHH
Q 017616 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (368)
Q Consensus 280 g~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRq 358 (368)
.++.++|...++.|+. +.+.|+..|.+.|..++.++.+...+-+|++||+++.+++...+|++. ..|.+|+..-+++
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 3467788888888865 999999999999999999998888899999999999999999999974 4799999999999
Q ss_pred HHHHHHHhc
Q 017616 359 SISKMVASA 367 (368)
Q Consensus 359 aI~r~Lrr~ 367 (368)
.+.+.+++.
T Consensus 84 ~~~d~~r~~ 92 (189)
T PRK12515 84 KALSALRRR 92 (189)
T ss_pred HHHHHHHcc
Confidence 999999864
No 70
>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=98.30 E-value=1.7e-06 Score=73.31 Aligned_cols=70 Identities=16% Similarity=0.176 Sum_probs=64.3
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
|.++|+..|.|.|..++.++.+...+.+|++|++.+.+++.+.+|++. .+|.+|+...+|+.+.+.+++.
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~~--~~~~~wl~~i~r~~~~d~~r~~ 71 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEEV--ESFKAYLFTIVKNRSLNYLRHK 71 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc--ccHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999998888889999999999999999999874 4799999999999999998864
No 71
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=98.30 E-value=3.3e-06 Score=75.01 Aligned_cols=82 Identities=15% Similarity=0.089 Sum_probs=71.0
Q ss_pred HHHHHHHHhcH-HHHHHHHHHchHHHHHHHHHccC-CCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 284 RVLKQHLAFGW-YCREELIKSTRPLVLFLARNYRG-LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 284 eeL~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~-rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
..+...+..|+ .+.++++..|.+.|..++.++.+ ...+.+|++||+++.|++.++.||+. ..|.+|++.-+++.+.
T Consensus 9 ~~~~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~iarN~~~ 86 (181)
T PRK12536 9 RALLLRGLAGDAAAYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHAIARYKLM 86 (181)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHHHHHHHHH
Confidence 44566666665 49999999999999999988764 46799999999999999999999984 4699999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+++|+.
T Consensus 87 d~~Rk~ 92 (181)
T PRK12536 87 DFLRSR 92 (181)
T ss_pred HHHHHH
Confidence 999974
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=98.29 E-value=2.6e-06 Score=74.91 Aligned_cols=73 Identities=16% Similarity=0.180 Sum_probs=65.5
Q ss_pred HHHHHHHHHchHHHHHHHHHccC----CCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRG----LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~----rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.+.|..+|.+|.+ ...+.+|++|++++.+++++..|++..+..|.+|+...+++.+.+.++++
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 59999999999999999998742 35789999999999999999999987767899999999999999998853
No 73
>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=98.28 E-value=3.4e-06 Score=72.40 Aligned_cols=70 Identities=14% Similarity=0.121 Sum_probs=65.3
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.+.++..|.|.|..+|.++.+...+.||++|++.+.+++++++||+.. .|.+|+..-+++.+.+.+|+.
T Consensus 2 ~~~~~~~~~~~~l~~~~~~~~~~~~~aEDivQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~r~~ 71 (159)
T TIGR02989 2 AFAALLQRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPGT--DFGAWARGIARNKVLNHRRKL 71 (159)
T ss_pred HHHHHHHHhHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHHhCCCCC--chHHHHHHHHHHHHHHHHHHh
Confidence 5688999999999999999999899999999999999999999999763 599999999999999999974
No 74
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=98.27 E-value=3.4e-06 Score=75.02 Aligned_cols=85 Identities=16% Similarity=0.133 Sum_probs=76.4
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+..+|...++.|+. +.+.|+..|.+.|..++.++.+...+-+|++||..+.+++..++|++..+ .|.+|...-+++.+
T Consensus 9 ~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wL~~iarn~~ 87 (182)
T PRK12537 9 DYEACLLACARGDRRALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPARG-SARGWIYSVTRHLA 87 (182)
T ss_pred hHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHHH
Confidence 45677888887765 99999999999999999999888889999999999999999999987554 69999999999999
Q ss_pred HHHHHhc
Q 017616 361 SKMVASA 367 (368)
Q Consensus 361 ~r~Lrr~ 367 (368)
.+.+|+.
T Consensus 88 ~d~~r~~ 94 (182)
T PRK12537 88 LNVLRDT 94 (182)
T ss_pred HHHHHhc
Confidence 9999875
No 75
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=98.17 E-value=1.2e-05 Score=71.74 Aligned_cols=83 Identities=11% Similarity=0.056 Sum_probs=71.6
Q ss_pred HHHHHHHHHhcH-HHHHHHHHHchHHHHHHHH----HccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHH
Q 017616 283 ERVLKQHLAFGW-YCREELIKSTRPLVLFLAR----NYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIR 357 (368)
Q Consensus 283 ~eeL~~~l~~G~-~Are~LI~~nlrLV~~IAk----rY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIR 357 (368)
..+|...++.|+ .+.++|+..|.+.|..+|. +|.+...+-+|++|+..+.+++....|++.. .|.+|+..-++
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 566777777776 4999999999999999887 4445678999999999999999999999853 59999999999
Q ss_pred HHHHHHHHhc
Q 017616 358 KSISKMVASA 367 (368)
Q Consensus 358 qaI~r~Lrr~ 367 (368)
+.+.+.+|+.
T Consensus 86 n~~~d~~R~~ 95 (184)
T PRK12539 86 YKLIDHLRRT 95 (184)
T ss_pred HHHHHHHHHH
Confidence 9999999874
No 76
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=98.15 E-value=1.3e-05 Score=71.05 Aligned_cols=81 Identities=16% Similarity=0.118 Sum_probs=69.6
Q ss_pred HHHHHHHhcH-HHHHHHHHHchHHHHHHHHHccCC----CCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 285 VLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGL----GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 285 eL~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~r----g~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
.|...+..|+ .+.++|++.|.+.|..+|.++.+. ..+.+|++||+.+.+++..+.|++. ..|.+|+..-+|+.
T Consensus 11 ~l~~~~~~gd~~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeDlvQe~fl~l~~~~~~~~~~--~~~~~wl~~i~rn~ 88 (184)
T PRK12512 11 DLMRSANAGDAAAYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDPG--APFAPWLFAIARNK 88 (184)
T ss_pred HHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHhHHhcCcc--ccHHHHHHHHHHHH
Confidence 4566666665 599999999999999999988753 3589999999999999999999873 47999999999999
Q ss_pred HHHHHHhc
Q 017616 360 ISKMVASA 367 (368)
Q Consensus 360 I~r~Lrr~ 367 (368)
+.+.+|+.
T Consensus 89 ~~d~~Rr~ 96 (184)
T PRK12512 89 LIDALRRR 96 (184)
T ss_pred HHHHHHhh
Confidence 99999864
No 77
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=98.12 E-value=9.6e-06 Score=71.31 Aligned_cols=70 Identities=11% Similarity=0.143 Sum_probs=65.1
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..++|+..|.++|..++.+|.+...+.+|++|+.++.|++.+++|++.. +|.+|+..-+++.+.+.+|++
T Consensus 4 ~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~Rk~ 73 (173)
T PRK12522 4 KVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVE--NYKKWITTICVRTFYDFYRKK 73 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCcc--chHHHHHHHHHHHHHHHHHHh
Confidence 4688999999999999999998889999999999999999999999854 799999999999999999874
No 78
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=98.09 E-value=1.1e-05 Score=70.57 Aligned_cols=77 Identities=16% Similarity=0.064 Sum_probs=66.7
Q ss_pred HHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 288 QHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 288 ~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
..++.|+ .+.++++..|.|.|..++.++.+. .+.+|++||.++.+++.++.|++. ..|.+|+..-+++.+.+.+|+
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 3445555 499999999999999999998653 688999999999999999999974 469999999999999999886
Q ss_pred c
Q 017616 367 A 367 (368)
Q Consensus 367 ~ 367 (368)
.
T Consensus 80 ~ 80 (175)
T PRK12518 80 F 80 (175)
T ss_pred h
Confidence 4
No 79
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=98.01 E-value=1.7e-05 Score=70.34 Aligned_cols=70 Identities=13% Similarity=0.081 Sum_probs=64.5
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
.+.+.|+..|.|.|..++..|.+..-+-+|++|++.+.+++++.+|++.. .|.+|...-+++.+.+++++
T Consensus 7 ~af~~l~~~~~~~l~~~~~~~~~~~~daeDl~Qevfl~l~~~~~~~~~~~--~f~~wl~~iarn~~~~~~r~ 76 (179)
T PRK12543 7 EAFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNR--PFRFWLIGLVIKQIHSWRRK 76 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--ChHHHHHHHHHHHHHHHHHh
Confidence 48999999999999999999988888999999999999999999999874 69999999999998888765
No 80
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=97.89 E-value=2.3e-05 Score=69.77 Aligned_cols=74 Identities=12% Similarity=0.086 Sum_probs=67.5
Q ss_pred HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..+.+.|+..|.+.|..+|.++.+...+-+|++||..+.+++.+.+|++..+..|.||...-+++.+.+.+|+.
T Consensus 8 ~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~Rk~ 81 (185)
T PRK12542 8 YEKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYRKN 81 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35899999999999999999998877889999999999999999999986556899999999999999999874
No 81
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=97.87 E-value=5.2e-05 Score=66.85 Aligned_cols=83 Identities=13% Similarity=0.097 Sum_probs=71.0
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCC-----ChhHHHHHHHHHHHH-HHHhcCCCCCCccccHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGI-----PFSDLLQAGNVGVLQ-GAERFDHTRGYKFSTYVQYW 355 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~-----d~eDLiQEG~iGLir-AVekFDpskG~rFSTYA~~w 355 (368)
.+.|...++.|+. +.++|+..|.+.|..++.+|.+... +-+|++||..+.+++ ...+|++. ..|.+|+..+
T Consensus 4 ~~~li~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~AeDlvQevfl~~~~~~~~~~~~~--~~~~~wl~~i 81 (183)
T TIGR02999 4 VTELLQQWQNGDAAARDQLFPQLYQELRRIARRQLRRERSGQTLQTTALVHEAYLRLSDQDEQKWDDR--AHFFAAAAKA 81 (183)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhcccCCCCch--HHHHHHHHHH
Confidence 4567777888875 9999999999999999999976555 799999999999998 77788754 3699999999
Q ss_pred HHHHHHHHHHhc
Q 017616 356 IRKSISKMVASA 367 (368)
Q Consensus 356 IRqaI~r~Lrr~ 367 (368)
+++.+.+.+|++
T Consensus 82 ~~n~~~d~~R~~ 93 (183)
T TIGR02999 82 MRRILVDHARRR 93 (183)
T ss_pred HHHHHHHHHHHH
Confidence 999999998863
No 82
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=97.85 E-value=5.5e-05 Score=67.25 Aligned_cols=72 Identities=15% Similarity=0.039 Sum_probs=66.0
Q ss_pred HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..|.++|+..|.|.|..++.++.+..-+-+|++|++.+.|+++..+|++. ..|.+|...-+++.+.+.+|+.
T Consensus 15 ~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~--~~~~awl~~ia~n~~~d~~Rk~ 86 (179)
T PRK09415 15 EDLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK--SSLKTWLYRIAINHCKDYLKSW 86 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--cccHHHHHHHHHHHHHHHHHhh
Confidence 45899999999999999999998888899999999999999999999874 3699999999999999999863
No 83
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=97.79 E-value=0.00014 Score=64.83 Aligned_cols=76 Identities=22% Similarity=0.218 Sum_probs=67.2
Q ss_pred HHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 290 LAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 290 l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
......+.++++..|.+.+...+.++.+...+-|||+||.++.+++++..| +.. ..|.||.+.-+++...+.+|+.
T Consensus 10 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~-~~~-~~~~~wl~~Ia~n~~iD~~R~~ 85 (182)
T COG1595 10 LRGDRAAFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF-RGR-SSFKAWLYRIARNLAIDRLRKR 85 (182)
T ss_pred HhcchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc-CCC-CchHHHHHHHHHHHHHHHHHHh
Confidence 344456889999999999999999999877799999999999999999999 444 4799999999999999999965
No 84
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=97.79 E-value=9e-05 Score=64.06 Aligned_cols=72 Identities=15% Similarity=0.003 Sum_probs=65.6
Q ss_pred HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..+.+.|+..|.+.|..++..+.+...+-+|++|++++-+++..++|+. ...|.+|...-+++.+.+.+|+.
T Consensus 5 ~~~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~--~~~~~~wl~~i~~n~~~d~~rk~ 76 (162)
T TIGR02983 5 EEEFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD--PDAPDAYVRRVLVNLARSRWRRR 76 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC--cccHHHHHHHHHHHHHHHHHHhh
Confidence 4589999999999999999999988889999999999999999999964 34799999999999999999864
No 85
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=97.72 E-value=0.0001 Score=63.85 Aligned_cols=69 Identities=14% Similarity=-0.014 Sum_probs=62.0
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++++..|.+.|..+|.++.+...+.+|++||+.+.+++. .|+. +..|.+|+..-+++.+.+.+|+.
T Consensus 3 ~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~~--~~~~~~wl~~i~rn~~~d~~rk~ 71 (166)
T PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFKG--IENEKGWLIKSARNVAYNYLRSE 71 (166)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hccc--ccchHHHHHHHHHHHHHHHHHHh
Confidence 467899999999999999999888899999999999999999 5664 45799999999999999999874
No 86
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired.
Probab=97.68 E-value=0.00022 Score=67.84 Aligned_cols=86 Identities=13% Similarity=0.014 Sum_probs=75.4
Q ss_pred CCCHHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHH-------HHHHhcCCCCCCccccH
Q 017616 280 GVSERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVL-------QGAERFDHTRGYKFSTY 351 (368)
Q Consensus 280 g~~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLi-------rAVekFDpskG~rFSTY 351 (368)
+.++..|...++.|+. +.++|+..|.+.|..++.++.+...+-+|++||..+-++ +.+.+|++. ..|.||
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 3467788888998875 999999999999999999987777899999999999999 478889974 369999
Q ss_pred HHHHHHHHHHHHHHhc
Q 017616 352 VQYWIRKSISKMVASA 367 (368)
Q Consensus 352 A~~wIRqaI~r~Lrr~ 367 (368)
.+.-.++.+.+.+|+.
T Consensus 101 L~~Ia~N~~id~lRk~ 116 (244)
T TIGR03001 101 VRIVATRIALELQAQE 116 (244)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 9999999999999864
No 87
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=97.65 E-value=0.00021 Score=69.66 Aligned_cols=82 Identities=16% Similarity=0.112 Sum_probs=73.6
Q ss_pred HHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHH
Q 017616 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (368)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r 362 (368)
.+|...++.|+. +.++|+..|.+.|..++.++.+...+-+|++||..+-+++.+.+|++. ..|.+|...-.++.+.+
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 567888888765 999999999999999999998877889999999999999999999853 46999999999999999
Q ss_pred HHHhc
Q 017616 363 MVASA 367 (368)
Q Consensus 363 ~Lrr~ 367 (368)
.+|++
T Consensus 85 ~~Rk~ 89 (339)
T PRK08241 85 ALEGR 89 (339)
T ss_pred HHHhh
Confidence 99874
No 88
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=97.64 E-value=0.00018 Score=64.62 Aligned_cols=82 Identities=20% Similarity=0.121 Sum_probs=70.3
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
...|..+++.|+. +.+.|+..|.+.+..++. +.+...+-+|++||..+.+++...+|++. ..|.+|...-.++.+.
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 3456677777765 999999999999999995 55556899999999999999999999974 3699999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+.+|+.
T Consensus 88 d~~Rk~ 93 (185)
T PRK09649 88 DHIRHV 93 (185)
T ss_pred HHHHHh
Confidence 999864
No 89
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=97.59 E-value=0.00026 Score=61.46 Aligned_cols=70 Identities=10% Similarity=0.028 Sum_probs=64.3
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++++..|.+.|..++.++.+..-+-+|++||+.+.+++..++|++. .|.||...-+++.+.+.+|+.
T Consensus 5 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~ 74 (161)
T PRK12541 5 QSLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKE 74 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhc
Confidence 4788999999999999999999888899999999999999999999863 599999999999999999874
No 90
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=97.59 E-value=0.00028 Score=61.79 Aligned_cols=71 Identities=10% Similarity=0.069 Sum_probs=64.6
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
....+++..|.+.|..+|.++.+...+-||++||..+.+++...+|++.. .|.+|++.-+++.+.+.+|+.
T Consensus 6 ~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~R~~ 76 (164)
T PRK12547 6 KNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMGT--NLKAWLFTILRNEFYSQMRKR 76 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCcc--cHHHHHHHHHHHHHHHHHHhh
Confidence 46788999999999999999998889999999999999999999998643 599999999999999999864
No 91
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=97.55 E-value=0.00027 Score=61.73 Aligned_cols=68 Identities=18% Similarity=0.049 Sum_probs=62.4
Q ss_pred HHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 297 re~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.|+..|.|.|..++.+|.+...+-+|++|+..+.+++.++.|++. .|.+|...-.++.+.+.+|++
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wL~~i~~n~~~d~~R~~ 70 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKE 70 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc---chHHHHHHHHHHHHHHHHHhh
Confidence 36789999999999999998888899999999999999999999973 599999999999999999874
No 92
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=97.47 E-value=0.00054 Score=62.43 Aligned_cols=81 Identities=20% Similarity=0.087 Sum_probs=68.8
Q ss_pred HHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHH
Q 017616 284 RVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISK 362 (368)
Q Consensus 284 eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r 362 (368)
.+|...+..|+. +.++++..|.+.+..++. +.+...+-+|++|+..+-+++..++|++. ..|.+|...-+++.+.+
T Consensus 13 ~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~-~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~WL~~Iarn~~id 89 (196)
T PRK12535 13 TDLALAAGRGDRAALTEFIRETQDDVWRLLA-HLGGHDIADDLTQETYLRVMSALPRFAAR--SSARTWLLSLARRVWVD 89 (196)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHHhhhcCCc--ccHHHHHHHHHHHHHHH
Confidence 456666666654 899999999999999975 45556799999999999999999999973 36999999999999999
Q ss_pred HHHhc
Q 017616 363 MVASA 367 (368)
Q Consensus 363 ~Lrr~ 367 (368)
.+|+.
T Consensus 90 ~~Rk~ 94 (196)
T PRK12535 90 NIRHD 94 (196)
T ss_pred HHHhh
Confidence 99974
No 93
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=97.47 E-value=0.00051 Score=63.15 Aligned_cols=70 Identities=21% Similarity=0.250 Sum_probs=65.2
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++++..|.+.+..++.+|.+...+-+|++||..+.+++...+|++ + .|.+|+..-.|+.+.+++|+.
T Consensus 28 ~a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~ 97 (203)
T PRK09647 28 PSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRR 97 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhc
Confidence 488999999999999999999988889999999999999999999986 3 699999999999999999875
No 94
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=97.46 E-value=0.00038 Score=62.37 Aligned_cols=71 Identities=10% Similarity=-0.027 Sum_probs=65.0
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.+.|..++.++.+...+-+|++||..+-+++...+|++. ..|.+|...-.++.+.+.+|++
T Consensus 11 ~~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk~ 81 (193)
T TIGR02947 11 QRFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRKA 81 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHHh
Confidence 4889999999999999999998777889999999999999999999874 4699999999999999999875
No 95
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=97.46 E-value=0.0004 Score=60.23 Aligned_cols=70 Identities=16% Similarity=0.069 Sum_probs=63.0
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.+.|..++.++.+...+-+|++|+.++-+++....|++ ..|.+|...++++.+.+.+|+.
T Consensus 4 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~flk~~~~~~~~~~---~~~~~wl~~i~~n~~~d~~R~~ 73 (161)
T PRK12528 4 ATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQI---IEPRAFLTTIAKRVLCNHYRRQ 73 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHhccccccc---cCHHHHHHHHHHHHHHHHHHHH
Confidence 477899999999999999999988789999999999999998887765 2699999999999999999864
No 96
>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=97.45 E-value=0.00026 Score=60.40 Aligned_cols=63 Identities=11% Similarity=-0.008 Sum_probs=56.7
Q ss_pred HHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 302 ~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..|.|.|..++.++.+..-+-+|++|+..+.+++.+++|++ .+|.+|+..-+++.+.+.+++.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~ 64 (154)
T TIGR02950 2 REYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKD 64 (154)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHh
Confidence 46789999999999877778999999999999999999998 4799999999999999999864
No 97
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=97.44 E-value=0.00053 Score=60.03 Aligned_cols=73 Identities=15% Similarity=0.012 Sum_probs=65.4
Q ss_pred HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..+.+.|+..|.+.|..++.++.+...+-+|++|+..+-+++..++|++.. ..|.+|+..-.++.+.+.+|++
T Consensus 8 ~~~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~ 80 (173)
T PRK09645 8 AALMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSA 80 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhh
Confidence 358899999999999999999987777899999999999999999998533 4699999999999999999864
No 98
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=97.38 E-value=0.0007 Score=60.76 Aligned_cols=69 Identities=9% Similarity=0.052 Sum_probs=63.1
Q ss_pred HHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 297 re~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++|+..|.+.|..++.++.+...+.+|++||..+.+++.+..|++. ..|.+|+..-+++.+.+.+|+.
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~aeDi~QEvflkl~~~~~~~~~~--~~~~~wL~~i~~n~~~d~~Rk~ 71 (181)
T PRK09637 3 LESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKDG--SSIKSWLYQIANNTIIDFYRKK 71 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHhHHHhccc--cchHHHHHHHHHHHHHHHHHhc
Confidence 46789999999999999998888999999999999999999999853 4799999999999999999875
No 99
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=97.37 E-value=0.00046 Score=61.92 Aligned_cols=68 Identities=15% Similarity=0.168 Sum_probs=59.6
Q ss_pred HHHHHHchHHHHHHHHHccCCCCC-hhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 298 EELIKSTRPLVLFLARNYRGLGIP-FSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 298 e~LI~~nlrLV~~IAkrY~~rg~d-~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
++.+..|.+.|..+|.++.+...+ -+|++||..+.+++...+|++. ..|.+|+..-+++.+.+++|++
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~ 76 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR--ALVNSWLFAILKNKIIDALRQI 76 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc--chHHHHHHHHHHHHHHHHHHHh
Confidence 355677889999999999877666 8999999999999999999874 3799999999999999999874
No 100
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=97.36 E-value=0.00052 Score=61.38 Aligned_cols=70 Identities=21% Similarity=0.226 Sum_probs=63.8
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.++|+..|.+.|..+|.++.+...+-+|++||..+.+++.+.+|++. .+|.||...-+++.+.+.+|++
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~ 72 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSG 72 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhh
Confidence 467899999999999999998877899999999999999999999864 3699999999999999999974
No 101
>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=97.34 E-value=0.00053 Score=61.80 Aligned_cols=68 Identities=15% Similarity=0.099 Sum_probs=61.8
Q ss_pred HHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 298 e~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.|..|.+.|..++.++.+...+-+|++|+..+.+++...+|++. .+|.+|++.-+++.+.+++|++
T Consensus 5 ~~~~~~~~~~l~~~~~~~~~~~~dAeDivQevfl~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~R~~ 72 (188)
T TIGR02943 5 PQELEQLRRDLLRFARLQLRDRDLAEDAVQETLLAALSHRDSFAGR--SALKTWLFAILKNKIIDALRAK 72 (188)
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHhh
Confidence 3567889999999999998888899999999999999999999975 4799999999999999999874
No 102
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=97.24 E-value=0.0015 Score=60.88 Aligned_cols=72 Identities=14% Similarity=0.036 Sum_probs=64.9
Q ss_pred cHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 293 G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
...+.+.|+..|.+.+..++.++.+...+-+|++||..+-+++.+.+|++. .|.+|...-.++.+.+.++++
T Consensus 16 ~~~~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~~---~~~aWL~~IarN~~~d~~Rk~ 87 (216)
T PRK12533 16 RGERFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRGD---NARPWLLAIVRHTWYSEWRRR 87 (216)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCcc---chHhHHHHHHHHHHHHHHHhh
Confidence 345889999999999999999998877889999999999999999999863 499999999999999998864
No 103
>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=97.24 E-value=0.00076 Score=59.61 Aligned_cols=63 Identities=14% Similarity=0.123 Sum_probs=56.8
Q ss_pred HchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 303 STRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 303 ~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.|.+.+..++.++.+...+-+|++|+..+.+++++.+|++. .+|.+|+..-+++.+.+++|+.
T Consensus 3 ~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~l~~~~~~~~~~--~~f~~wl~~iarn~~~d~~Rk~ 65 (170)
T TIGR02959 3 EFRSELKAFIKSRVSDASDVEDLLQEVFIKIHRNLPSLKDG--QKIQSWLYQIARNTIIDFYRSK 65 (170)
T ss_pred hHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhc
Confidence 57778888888888888899999999999999999999973 5799999999999999999975
No 104
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=97.21 E-value=0.0015 Score=59.06 Aligned_cols=72 Identities=11% Similarity=0.056 Sum_probs=65.0
Q ss_pred HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.+.++++..|.+.+..+|.++.+..-+-+|++||..+-+++...+|+.. ..|.+|...-.++.+.+.+|+.
T Consensus 9 ~~~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~awL~~Ia~n~~~d~~R~~ 80 (187)
T PRK12516 9 TPPFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVG--TNMKAWLFTILRNEFYSQMRKR 80 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCc--ccHHHHHHHHHHHHHHHHHHhh
Confidence 35889999999999999999998887899999999999999999999864 3599999999999999999874
No 105
>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=97.21 E-value=0.0012 Score=63.75 Aligned_cols=71 Identities=14% Similarity=0.102 Sum_probs=65.3
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.+.|..+|.++.+...+-+|++||..+-+++...+|++. ..|.+|...-.++.+.+.+|++
T Consensus 5 ~af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~ 75 (324)
T TIGR02960 5 AAFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEAR 75 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhc
Confidence 4889999999999999999998877889999999999999999999974 4699999999999999999864
No 106
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=97.16 E-value=0.00057 Score=59.11 Aligned_cols=63 Identities=8% Similarity=0.020 Sum_probs=57.0
Q ss_pred HHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 302 KSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 302 ~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.|.+.|..++.++.+...+-+|++||..+.+++...+|++. .|.+|...-+++.+.+.+|++
T Consensus 2 ~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wl~~ia~n~~~d~~Rk~ 64 (160)
T PRK09642 2 QTYRHYIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFR---GLKTWMARIATNHAIDYKRKK 64 (160)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcccccccc---hhHHHHHHHHHHHHHHHHHHh
Confidence 468899999999998877899999999999999999999973 499999999999999999874
No 107
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=97.01 E-value=0.0014 Score=57.69 Aligned_cols=73 Identities=14% Similarity=0.011 Sum_probs=62.7
Q ss_pred hcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 292 FGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 292 ~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.|+ .+..+|+..|.+.|..++.++.+...+-+|++|+..+.+++. ..|+.. ..|.+|.....++.+.+++|++
T Consensus 6 ~~~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQevflk~~~~-~~~~~~--~~~~~wL~~Iarn~~~d~~Rk~ 79 (172)
T PRK12523 6 SPHSELVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRRA 79 (172)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHcc-cccCcc--hhHHHHHHHHHHHHHHHHHHHH
Confidence 444 489999999999999999999887889999999999999986 345543 3699999999999999999874
No 108
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=96.95 E-value=0.0032 Score=57.12 Aligned_cols=69 Identities=16% Similarity=0.163 Sum_probs=60.5
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..+.|.. |.|.|..+|..+.+...+-+|++||..+.+++.+..|+.. ..|.+|+..-+++.+.+.+|+.
T Consensus 9 ~~~~l~~-~~~~l~~~a~~~l~~~~~AEDivQevfl~l~~~~~~~~~~--~~~~awL~~ia~n~~~d~~Rk~ 77 (188)
T PRK12546 9 PRDELVE-HLPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEG--TNLRAWLFTILRNTFYSDRRKH 77 (188)
T ss_pred HHHHHHH-HHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhccCCC--cchHHHHHHHHHHHHHHHHHHh
Confidence 4455544 7799999999998888999999999999999999999973 4699999999999999999874
No 109
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=96.94 E-value=0.0027 Score=58.52 Aligned_cols=69 Identities=17% Similarity=0.199 Sum_probs=62.6
Q ss_pred HHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 297 re~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
-..+++.|.+.|..++.++.+-..+-+|++||.++.+++.+.+|++. .+|.+|...-+++.+.+.+|+.
T Consensus 20 ~~~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~ 88 (206)
T PRK12544 20 DPVFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQK 88 (206)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhh
Confidence 35788889999999999998888899999999999999999999864 4699999999999999999964
No 110
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=96.94 E-value=0.0034 Score=56.46 Aligned_cols=70 Identities=16% Similarity=0.166 Sum_probs=62.8
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+-..++..|.+.|..++.++.+...+-+|++|+..+.+++..++|++.. .|.+|...-+++.+.+.++++
T Consensus 6 ~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~~--~~~~WL~~Ia~n~~~d~~Rk~ 75 (182)
T PRK12540 6 SLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPGS--NLPAWLFTILRNLFRSDYRKR 75 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCc--hHHHHHHHHHHHHHHHHHHhc
Confidence 4567888999999999999988888999999999999999999998763 599999999999999999874
No 111
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=96.83 E-value=0.0028 Score=54.80 Aligned_cols=66 Identities=12% Similarity=0.145 Sum_probs=56.6
Q ss_pred HHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 299 ~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++..|.+.+.++|.++.+...+-+|++|+..+.+++....|++. .|.+|...-.++.+.+++|+.
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~ 67 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQ 67 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhh
Confidence 356778899999999998877889999999999999988877663 478999999999999999864
No 112
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=96.80 E-value=0.0038 Score=55.57 Aligned_cols=74 Identities=7% Similarity=-0.139 Sum_probs=62.2
Q ss_pred HHHHHHHHHHchHHHHHHHHHccC--CCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRG--LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~--rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..+.+.|+..|.+.|..++..+.+ ..-+-+|++||..+-+++...+|++.....|.||...-.++.+.+.+|+.
T Consensus 12 ~~af~~ly~~~~~~l~~~~~~~~~~~~~~~AeDivQevFl~~~~~~~~~~~~~~~~~~~wL~~ia~n~~~d~~Rk~ 87 (178)
T PRK12529 12 RDKVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDIFLRILASRDGGQREAIRQPRAYLARIANCVLVSWRRRQ 87 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcccccccccccCHHHHHHHHHHHHHHHHHHHH
Confidence 358899999999999997655544 24679999999999999999999865456799999999999999998864
No 113
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=96.79 E-value=0.0038 Score=56.84 Aligned_cols=67 Identities=18% Similarity=0.113 Sum_probs=59.8
Q ss_pred HHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 299 ~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.++..|.+-|..++.++.+..-+-+|++|+..+.+++..++|++. ..|.+|...-+++.+.+++|++
T Consensus 12 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~ 78 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQ--SAHKTWVFGILRNKLIDTLRAR 78 (201)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhcccc--chHHHHHHHHHHHHHHHHHHhh
Confidence 347778889999999998877899999999999999999999986 3599999999999999999875
No 114
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=96.77 E-value=0.006 Score=55.07 Aligned_cols=75 Identities=11% Similarity=0.013 Sum_probs=65.0
Q ss_pred HHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 290 LAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 290 l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
+.....+.++++..|.+.|..+|.++.+..-+-+|++|+..+-+++.+..|++. ..|.+|+..-+++...+..++
T Consensus 18 ~~~~~~~f~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQdvflkl~~~~~~~~~~--~~~~~wL~~Iarn~~~~~~r~ 92 (188)
T PRK12517 18 MLSKQRRYEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDE--KAAKAWLITILRRENARRFER 92 (188)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhhcCc--cchHHHHHHHHHHHHHHHHHH
Confidence 344567999999999999999999998887889999999999999999999875 369999999999987666554
No 115
>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=96.57 E-value=0.0012 Score=46.12 Aligned_cols=33 Identities=21% Similarity=0.207 Sum_probs=25.2
Q ss_pred HHHHHhhccC-CCCCCcHHHHHHHhhchHHHHHH
Q 017616 224 SAERALNSRG-RRLTIARNEAEMSKGVQVVANLE 256 (368)
Q Consensus 224 ~v~~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le 256 (368)
.++-|++..+ .||||++||++|+++|+.+...+
T Consensus 3 ~l~~Yl~ei~~~~LLt~eeE~~LA~~i~~g~~~a 36 (37)
T PF00140_consen 3 SLRLYLKEIGRYPLLTAEEEIELARRIRKGDEAA 36 (37)
T ss_dssp HHHHHHHHHHHS-EETTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHhHHhc
Confidence 3555666666 59999999999999999886643
No 116
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=96.56 E-value=0.0061 Score=54.89 Aligned_cols=68 Identities=16% Similarity=0.135 Sum_probs=59.5
Q ss_pred HHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 298 e~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
++.|..|.+-+..+|.+|.+...+-+|++||..+-+++....|++. .+|.+|...-.++.+.+.+|++
T Consensus 10 ~~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~ 77 (189)
T PRK12530 10 SLEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQ--SALKTWIFAILKNKIIDLIRYR 77 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCC--ccHHHHHHHHHHHHHHHHHHhh
Confidence 3456678888999999998777899999999999999999999875 3699999999999999999864
No 117
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=96.53 E-value=0.0092 Score=52.74 Aligned_cols=71 Identities=10% Similarity=0.056 Sum_probs=60.9
Q ss_pred HHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 294 ~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
..+.+.++..|.+.+..++.++.+...+-+|++||..+-+++. ..|++-. .|.+|...-.++.+.+.+|+.
T Consensus 9 ~~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~~--~~~~wL~~iarn~~~d~~R~~ 79 (172)
T PRK09651 9 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTIR--DPRSFLCTIAKRVMVDLFRRN 79 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-ccccccc--CHHHHHHHHHHHHHHHHHHHH
Confidence 3588999999999999999999888889999999999999987 3455432 588999999999999998863
No 118
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=96.50 E-value=0.0081 Score=54.15 Aligned_cols=69 Identities=12% Similarity=0.065 Sum_probs=61.1
Q ss_pred HHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 297 re~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
++..+..+.+-|..++.++.+...+-+|++|+..+-+++....|++. ..|.+|...-+++.+.+.+|++
T Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~ 74 (182)
T PRK12511 6 KRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG--GNLRTWLMSILHNAFIDELRRR 74 (182)
T ss_pred hhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc--cchHHHHHHHHHHHHHHHHHhh
Confidence 44557788899999999998877889999999999999999999864 3699999999999999999874
No 119
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=96.14 E-value=0.011 Score=51.19 Aligned_cols=62 Identities=6% Similarity=-0.047 Sum_probs=51.6
Q ss_pred HchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 303 STRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 303 ~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.|.+-+...+.++.+...+-+|++|+..+.+++....|++. +|.||...-+++.+.+.+|++
T Consensus 3 ~~~~~l~~~~~~~~~~~~~aeDi~Qevf~~l~~~~~~~~~~---~~~~wL~~ia~n~~~d~~R~~ 64 (159)
T PRK12527 3 NYYRELVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQIE---HPRAFLYRTALNLVVDRHRRH 64 (159)
T ss_pred hHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHhcccccccc---chHHHHHHHHHHHHHHHHHHH
Confidence 45566666677776666788999999999999999988752 799999999999999999864
No 120
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=95.98 E-value=0.027 Score=49.50 Aligned_cols=70 Identities=7% Similarity=-0.072 Sum_probs=59.1
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+..+++..|.+.+...+.+|.+...+-+|++|+..+-+++-...++. ..|.+|...-.++.+.+.+|+.
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 467789999999999999999888789999999999999975444432 3699999999999999988863
No 121
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=95.81 E-value=0.019 Score=55.31 Aligned_cols=68 Identities=16% Similarity=0.109 Sum_probs=58.0
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
...+++..|.+.+..+|.++.+...+-||++||..+. +.....|+ ...|.+|...-.++.+.+.+|+.
T Consensus 5 ~~~~l~~~~~~~l~~~a~~~~~~~~dAEDlvQe~fl~-~~~~~~~~---~~~~~~WL~~Ia~n~~~d~lR~~ 72 (293)
T PRK09636 5 DAAAEFEPLRPHLLSVAYRMLGSVADAEDIVQEAWLR-WNNADRAQ---IRDPRAWLTRVVTRLCLDRLRSA 72 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHhccccc---ccCHHHHHHHHHHHHHHHHHHhh
Confidence 3567899999999999999988888999999999998 44456665 35799999999999999999863
No 122
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=95.72 E-value=0.019 Score=55.31 Aligned_cols=65 Identities=18% Similarity=0.156 Sum_probs=55.4
Q ss_pred HHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 299 ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 299 ~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+++..|.+.+..+|.++.+...+-||++||..+-+++. .|+. ...|.+|.+..+++.+.+.+|+.
T Consensus 1 ~l~~~~~~~l~~~a~r~lg~~~dAEDvvQE~flk~~~~--~~~~--~~~~~awL~~Ia~n~~ld~lR~~ 65 (281)
T TIGR02957 1 EEFEALRPLLFSLAYRMLGSVADAEDIVQETFLRWQEA--DRAQ--IENPKAYLTKVVTRRCIDVLRSA 65 (281)
T ss_pred ChHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhC--Cccc--ccCHHHHHHHHHHHHHHHHHHHh
Confidence 36788999999999999988889999999999997764 4443 34799999999999999999864
No 123
>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=95.68 E-value=0.04 Score=43.12 Aligned_cols=56 Identities=21% Similarity=0.259 Sum_probs=45.0
Q ss_pred HHHHHHhcH-HHHHHHHHHchHHHHHHHHH----ccC--CCCChhHHHHHHHHHHHHHHHhcC
Q 017616 286 LKQHLAFGW-YCREELIKSTRPLVLFLARN----YRG--LGIPFSDLLQAGNVGVLQGAERFD 341 (368)
Q Consensus 286 L~~~l~~G~-~Are~LI~~nlrLV~~IAkr----Y~~--rg~d~eDLiQEG~iGLirAVekFD 341 (368)
+..+++.|+ .|.+++++.|.|+|.+.+.+ ..+ .+.--+|+-|+=...||+||.+|+
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 345566666 59999999999999998876 122 245559999999999999999996
No 124
>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=95.25 E-value=0.049 Score=42.34 Aligned_cols=40 Identities=25% Similarity=0.401 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 252 ~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
+.++.+.+.+|+.++||.||.++.|+..|++.+++...+.
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 3467788899999999999999999999999998876654
No 125
>PRK06704 RNA polymerase factor sigma-70; Validated
Probab=94.92 E-value=0.064 Score=51.01 Aligned_cols=67 Identities=18% Similarity=-0.026 Sum_probs=53.7
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.+.+++.| +.+...+.++.+...+-+|++||..+-+++. |+.. ..|.+|...-.++.+.+.+|++
T Consensus 18 ~~~~~l~~~y-~~L~r~~~~~~~d~~dAEDlvQE~flk~~~~---~~~~--~~~~~WL~~IarN~~id~~Rk~ 84 (228)
T PRK06704 18 SNINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQK---YSNK--DICMTLVYKIARNRWLDQIKSK 84 (228)
T ss_pred HHHHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH---cCcc--ccHHHHHHHHHHHHHHHHHhcc
Confidence 3566666666 7888888888777789999999999888764 6653 2489999999999999999874
No 126
>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=94.38 E-value=0.14 Score=43.63 Aligned_cols=63 Identities=10% Similarity=0.106 Sum_probs=51.8
Q ss_pred HHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHh-----cCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAER-----FDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 298 e~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVek-----FDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
++++..|.+++..++++|.. +|.+|+-.+.+++...+ |++. ..|.||...-.++...+.+|+.
T Consensus 2 ~~~~~~y~~~l~~~~~~~~~-----~~~~qdvf~~~w~~~~~~~~~~~~~~--~~~~~wL~~iarN~~id~~Rk~ 69 (142)
T TIGR03209 2 EEIYMNFKNTIDIFTRKYNL-----YYDYNDILYHLWIILKKIDLNKFNTE--NDLEKYISTSLKRYCLDICNKK 69 (142)
T ss_pred hHHHHHHHHHHHHHHHHhcc-----hhhHHHHHHHHHHHHHHhhhhhcCch--hHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999954 23459999999999865 4432 4699999999999999999864
No 127
>PRK09191 two-component response regulator; Provisional
Probab=94.32 E-value=0.13 Score=47.10 Aligned_cols=63 Identities=13% Similarity=0.027 Sum_probs=54.4
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHH
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI 360 (368)
+..+++..|.+.|...+.++.+...+-+|++|+..+-+++....|++. ..|.+|...++++-.
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~ 64 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLW 64 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHh
Confidence 356899999999999999998877889999999999999999999874 458999888776643
No 128
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=94.11 E-value=0.1 Score=50.94 Aligned_cols=68 Identities=13% Similarity=-0.045 Sum_probs=58.2
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
...++++.|.+.+..+|.++.+...+-||++||..+-++++...+ -..|.+|.+.-.++.+.+.+|+.
T Consensus 6 ~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~----~~~~~aWL~~Ia~n~~id~lRk~ 73 (290)
T PRK09635 6 PVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD----IDDERGWLIVVTSRLCLDHIKSA 73 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc----cccHHHHHHHHHHHHHHHHHhhh
Confidence 567889999999999999999888899999999999988875432 23689999999999999999863
No 129
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=94.11 E-value=0.24 Score=44.91 Aligned_cols=84 Identities=18% Similarity=0.135 Sum_probs=61.9
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCC---CCChhHHHHHHHHHHHHHHH--hc-CCCCCCccccHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGL---GIPFSDLLQAGNVGVLQGAE--RF-DHTRGYKFSTYVQYW 355 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~r---g~d~eDLiQEG~iGLirAVe--kF-DpskG~rFSTYA~~w 355 (368)
..+|..+++.|+. |.++|+..|.+-++.+|+++... +.+.+|..+ ..-++++.+. .| +.+.-..|-.++..-
T Consensus 4 it~ll~~~~~GD~~A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~l-v~ea~lrl~~~~~~~~~~~~~~f~~~~~~~ 82 (185)
T PF07638_consen 4 ITELLDRWRQGDEAALDQLFERYYPELRRLARRRLRRERRGHDLQDTAL-VHEAFLRLARRGRFVQFSDRRHFWALLARI 82 (185)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHH-HHHHHHHHhccccccCCCCHHHHHHHHHHH
Confidence 4578888999986 99999999999999999976522 456777655 4455555555 23 444334688888889
Q ss_pred HHHHHHHHHHhc
Q 017616 356 IRKSISKMVASA 367 (368)
Q Consensus 356 IRqaI~r~Lrr~ 367 (368)
+++.+.+..|++
T Consensus 83 ~rr~lid~~R~~ 94 (185)
T PF07638_consen 83 MRRKLIDHARRR 94 (185)
T ss_pred HHHHHHHHHHHH
Confidence 999999988864
No 130
>PHA02547 55 RNA polymerase sigma factor; Provisional
Probab=91.02 E-value=0.65 Score=43.25 Aligned_cols=64 Identities=16% Similarity=0.174 Sum_probs=52.7
Q ss_pred HchHHHHHHHHHccCCCCC---hhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 303 STRPLVLFLARNYRGLGIP---FSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 303 ~nlrLV~~IAkrY~~rg~d---~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
+.+.++..++++|.-+|.+ .+|+|.+|.-..++.+..|||++...+-.|.+..+-++..+-|.+
T Consensus 45 ~imkIa~glS~r~nF~~Yt~~wKedMI~DgIe~~i~ylhNFD~~k~~Np~aYiT~~~~~AF~~RI~k 111 (179)
T PHA02547 45 AIMKIAEGLSRRPNFSGYTQTWKEDMIADGIEACIKGLHNFDETKYKNPHAYITQACFNAFVQRIKK 111 (179)
T ss_pred HHHHHHhccccCCccccchHHHHHHHHHHHHHHHHHHhhcCCcccccChHHHHHHHHHHHHHHHHHH
Confidence 3466666677777666776 799999999999999999999999888889888888887776653
No 131
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=86.57 E-value=1.4 Score=47.54 Aligned_cols=34 Identities=18% Similarity=0.205 Sum_probs=29.3
Q ss_pred CCchHHHHHHHhhccCCCCCCcHHHHHHHhhchHHHH
Q 017616 218 KQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVAN 254 (368)
Q Consensus 218 ~~~~~~~v~~~~~~~~~~LLtaeEE~eL~~~Iq~~~~ 254 (368)
.||++-|+++ ++..||||.++|++++++|+.+..
T Consensus 103 ~DPVRMYLRE---MG~V~LLTREgEIeIAKRIE~G~~ 136 (619)
T PRK05658 103 DDPVRMYLRE---MGTVELLTREGEIEIAKRIEAGEN 136 (619)
T ss_pred CChHHHHHHH---hccCcCCCcHHHHHHHHHHHHHHH
Confidence 7898887764 777899999999999999998755
No 132
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=74.14 E-value=7.1 Score=38.07 Aligned_cols=41 Identities=20% Similarity=0.204 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhc
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFG 293 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G 293 (368)
.+++.+..+|+.++|++||..+.|+..|++.++....+-.+
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 35667788899999999999999999999999877665554
No 133
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=65.89 E-value=12 Score=36.11 Aligned_cols=38 Identities=21% Similarity=0.305 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
++.+...+|...+|+.||.++.|+..|++.+++...+.
T Consensus 128 ~i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~~ 165 (264)
T PRK07122 128 RLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLV 165 (264)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 35556677888889999999999999999988877554
No 134
>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=64.11 E-value=16 Score=34.58 Aligned_cols=39 Identities=15% Similarity=0.148 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
.+.+.+.++..++|++|+.++.|+..|++.+++...+..
T Consensus 121 ~~~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~~ 159 (254)
T TIGR02850 121 KALQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALDA 159 (254)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHHh
Confidence 344556677788899999999999999999888766543
No 135
>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=63.93 E-value=18 Score=33.97 Aligned_cols=38 Identities=16% Similarity=0.246 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
.+.+....|...+|++||.++.|+..|++.+++....+
T Consensus 88 ~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~~~ 125 (238)
T TIGR02393 88 KLIKAERQLTQELGREPTDEELAERMGMPAEKVREIKK 125 (238)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 45556678888899999999999999999988876543
No 136
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=63.39 E-value=18 Score=34.51 Aligned_cols=37 Identities=19% Similarity=0.240 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHH
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQH 289 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~ 289 (368)
.++.+.+.+|...+|++|+.++.|+..|++.+++...
T Consensus 113 ~~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~ 149 (256)
T PRK07408 113 RQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI 149 (256)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHH
Confidence 3456677888889999999999999999999887664
No 137
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=59.67 E-value=20 Score=35.88 Aligned_cols=39 Identities=31% Similarity=0.466 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 252 ~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
..++.+++.+|...+|++|+.++.|+..|++.+++...+
T Consensus 172 ~~~l~~~~~~l~~~lgr~pt~~EiA~~lgi~~~~v~~~~ 210 (324)
T PRK07921 172 VNKLARIKRELHQQLGREATDEELAEESGIPEEKIADLL 210 (324)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 345667778888899999999999999999998877654
No 138
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=59.29 E-value=24 Score=33.31 Aligned_cols=38 Identities=8% Similarity=0.120 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
++.+....+...+|+.|+.++.|+..|++.+++...+.
T Consensus 102 ~i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~~ 139 (231)
T PRK12427 102 KTNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYLL 139 (231)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 34556677878889999999999999999988766543
No 139
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=58.53 E-value=23 Score=33.85 Aligned_cols=38 Identities=16% Similarity=0.206 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
++.+....|...+|++|+.++.|+..|++.+++...+.
T Consensus 111 ~l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~~~ 148 (257)
T PRK05911 111 KLADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFS 148 (257)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHHH
Confidence 34445566777889999999999999999988766543
No 140
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=56.48 E-value=23 Score=35.88 Aligned_cols=38 Identities=18% Similarity=0.279 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
.+.+...+|...+|+.||.++.|+..|++.+++...++
T Consensus 217 ~~~~~~~~l~~~lgr~pt~~EiA~~l~~~~~~v~~~~~ 254 (367)
T PRK09210 217 KLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREILK 254 (367)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 45567778888899999999999999999988876543
No 141
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=51.14 E-value=37 Score=32.04 Aligned_cols=38 Identities=16% Similarity=0.190 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
.+.+....+...+|+.|+..++|+..|++.+++...+.
T Consensus 110 ~~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~ 147 (251)
T PRK07670 110 KVEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMN 147 (251)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 34555667777889999999999999999988877654
No 142
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=49.29 E-value=34 Score=36.79 Aligned_cols=39 Identities=21% Similarity=0.302 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
.++.+++.+|...+|+.|+.++.|+..|++.+.+...++
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 143
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=48.96 E-value=38 Score=34.81 Aligned_cols=39 Identities=13% Similarity=0.214 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 252 ~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
...+.+....|...+|+.||.++.|+..|++.+.+...+
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 344566677888889999999999999999998876553
No 144
>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=48.15 E-value=45 Score=30.85 Aligned_cols=37 Identities=32% Similarity=0.439 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
+.+....|...+|+.|+..+.|+..|++.+++...+.
T Consensus 99 ~~~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~~ 135 (231)
T TIGR02885 99 IRYMKEELSKELGREPTINELAEALGVSPEEIVMALE 135 (231)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHH
Confidence 4445567777889999999999999999888766544
No 145
>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=47.65 E-value=48 Score=30.56 Aligned_cols=39 Identities=26% Similarity=0.319 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
..+.+...+|...+|+.|+.++.|+..|++.+++...+.
T Consensus 83 ~~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~~ 121 (224)
T TIGR02479 83 RKLERAIRELEARLGREPTEEEIAEELGMDLKEYRQALN 121 (224)
T ss_pred HHHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHHH
Confidence 345566777888899999999999999999888777653
No 146
>PRK14082 hypothetical protein; Provisional
Probab=45.88 E-value=56 Score=26.17 Aligned_cols=54 Identities=19% Similarity=0.104 Sum_probs=42.1
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccH
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTY 351 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTY 351 (368)
..+.+|..+.|.|.+-..+- ..-+.+||.||=.|-+++-++.++-..+..|=-|
T Consensus 10 e~e~ii~~FepkIkKsL~~T--~yqeREDLeQElk~Ki~eK~~~~~~~e~PGF~ef 63 (65)
T PRK14082 10 EIEHLIENFSPMIKKKLSNT--SYQEREDLEQELKIKIIEKADMLLCQEVPGFWEF 63 (65)
T ss_pred HHHHHHHHccHHHHHHHhcC--ChhhHHHHHHHHHHHHHHHHHHhhcccCCcHHHh
Confidence 45679999999988766532 2357799999999999999999988777656443
No 147
>PRK05949 RNA polymerase sigma factor; Validated
Probab=45.36 E-value=48 Score=33.21 Aligned_cols=37 Identities=14% Similarity=0.276 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
++.+.+.++..++|++|+.++.|+..|++.+.+...+
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 4555666777888999999999999999988877654
No 148
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=43.14 E-value=53 Score=34.43 Aligned_cols=40 Identities=13% Similarity=0.328 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 252 ~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
.-++.+.+..|...+|+.|+..+.|++.|++.+.+...+.
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 149
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=42.52 E-value=62 Score=30.93 Aligned_cols=37 Identities=27% Similarity=0.287 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
.+.+.+..|+..+|++||.++.|...|++.+.+...+
T Consensus 119 ~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~ 155 (268)
T PRK06288 119 QIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLL 155 (268)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 4556677888889999999999999999988776654
No 150
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=42.08 E-value=49 Score=28.28 Aligned_cols=40 Identities=18% Similarity=0.165 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
..+.++..-+...+..+++.++.|+.+|++...|.+..+.
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 3455666777778888999999999999999988887765
No 151
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=40.00 E-value=69 Score=30.36 Aligned_cols=36 Identities=17% Similarity=0.173 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
+.+...++..++|+.|+..+.|...|++.+++...+
T Consensus 125 ~~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~ 160 (258)
T PRK08215 125 ALQVREKLINENSKEPTVEEIAKELEVPREEVVFAL 160 (258)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 444566777788999999999999999998877654
No 152
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=39.00 E-value=71 Score=31.78 Aligned_cols=39 Identities=15% Similarity=0.362 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
..+.+.+..+...+|+.|+.++.|++.|++.+.+...+.
T Consensus 168 ~~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~~ 206 (317)
T PRK07405 168 NKIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYLE 206 (317)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 345666777888899999999999999999888776543
No 153
>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=37.91 E-value=77 Score=28.49 Aligned_cols=40 Identities=23% Similarity=0.403 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHhcH
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGW 294 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~G~ 294 (368)
.++++.-|.+.-++..|..+.+++.|++.+.+.+-|+.|.
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 4567777777777888999999999999999999999884
No 154
>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=35.32 E-value=90 Score=30.47 Aligned_cols=39 Identities=15% Similarity=0.291 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 253 ~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
.++.+.+..+...+|+.|+..+.|+..|++.+.+...+.
T Consensus 161 ~~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~~~ 199 (298)
T TIGR02997 161 NKIKKVQRELSQKLGRTPSEAEIAEALELEPEQVRELLQ 199 (298)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 345555667777889999999999999999988776554
No 155
>KOG0917 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.43 E-value=37 Score=34.31 Aligned_cols=84 Identities=30% Similarity=0.364 Sum_probs=57.6
Q ss_pred HHhHHhhhccccccCCcccccccccccchhhccccchhHHhhhhhcccccccccccchH-HHHHhhHHHHHhcccchhhh
Q 017616 45 SFLSTISEDSASYFQDPVKAYTCSFVNTQTVENDYSETEEIRQKSTSCIGQDASSRSDF-RLLMENLDVLESTFADSDAL 123 (368)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~ss~~~~~~en~~~~~~~~~~~~~~~~~~~~~s~~~~-~ll~~nl~~le~~~~~~d~l 123 (368)
+.++.|..--+-..+||+-++-|-=-++|+- +|+-+...| .-+| .-||.-|+.|+..++|.|++
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 017616 124 RLEREILQQLGKLGALKLFNS 144 (368)
Q Consensus 124 rLer~IL~~~~~lgal~~fn~ 144 (368)
.+|-+-=-|+|.. |+++|+-
T Consensus 75 tne~~aqaHiE~f-AlklF~~ 94 (338)
T KOG0917|consen 75 TNEIVAQAHIENF-ALKLFLY 94 (338)
T ss_pred hhchHHHHHHHHH-HHHHHHh
Confidence 9988777777765 9999764
No 156
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=32.92 E-value=95 Score=31.93 Aligned_cols=39 Identities=28% Similarity=0.422 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 252 VANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 252 ~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
.-+|-+++.+|...+|++|+.++.|+..|++.+++....
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 345667888888889999999999999999977665543
No 157
>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=31.49 E-value=1.6e+02 Score=22.94 Aligned_cols=24 Identities=25% Similarity=0.430 Sum_probs=15.7
Q ss_pred HHHHHHHHhCCCCchhHHHHHcCCC
Q 017616 258 IKTTLEKESGKAASLNCWAQAAGVS 282 (368)
Q Consensus 258 ir~~L~~~~gr~pt~~ewA~a~g~~ 282 (368)
|+..+ .+.|.+||..|.|++.|+.
T Consensus 15 I~~~~-~~~G~~Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 15 IREYI-EENGYPPTVREIAEALGLK 38 (65)
T ss_dssp HHHHH-HHHSS---HHHHHHHHTSS
T ss_pred HHHHH-HHcCCCCCHHHHHHHhCCC
Confidence 33333 3469999999999999995
No 158
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=30.80 E-value=1.2e+02 Score=24.66 Aligned_cols=38 Identities=11% Similarity=0.239 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
++++...+...+..+++.++.|..+|++...|.+..+.
T Consensus 7 ~~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~f~~ 44 (107)
T PRK10219 7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRT 44 (107)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 45566677777888999999999999999988887765
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=30.47 E-value=1.1e+02 Score=28.15 Aligned_cols=35 Identities=23% Similarity=0.368 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 256 ERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 256 e~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
.+....+....|+.|+..+.|+..|++.+++...+
T Consensus 93 ~~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~~ 127 (227)
T TIGR02980 93 NKATEELTQRLGRSPTIAEIAEELGVSEEEVVEAL 127 (227)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 33455667777999999999999999988876544
No 160
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=28.18 E-value=4.6 Score=35.92 Aligned_cols=32 Identities=28% Similarity=0.375 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCCCccccHHHH
Q 017616 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354 (368)
Q Consensus 323 eDLiQEG~iGLirAVekFDpskG~rFSTYA~~ 354 (368)
+||+-.+-|--++-|+-||-+.|.||+||+..
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 46777777777777889999999999999853
No 161
>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=27.69 E-value=4.7 Score=35.15 Aligned_cols=32 Identities=28% Similarity=0.364 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCCCccccHHHH
Q 017616 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354 (368)
Q Consensus 323 eDLiQEG~iGLirAVekFDpskG~rFSTYA~~ 354 (368)
+||+-.+-|--++-|+-||-+.|.||+||+..
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 46777777777777889999999999999853
No 162
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=27.36 E-value=1.6e+02 Score=21.56 Aligned_cols=24 Identities=29% Similarity=0.319 Sum_probs=19.8
Q ss_pred CCchhHHHHHcCCCHHHHHHHHHh
Q 017616 269 AASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 269 ~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
+++..++|+.+|++...|.+.++.
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~ 24 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKK 24 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHH
Confidence 367889999999999888887764
No 163
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=26.53 E-value=1.3e+02 Score=29.53 Aligned_cols=25 Identities=28% Similarity=0.080 Sum_probs=21.7
Q ss_pred HhCCCCchhHHHHHcCCCHHHHHHH
Q 017616 265 ESGKAASLNCWAQAAGVSERVLKQH 289 (368)
Q Consensus 265 ~~gr~pt~~ewA~a~g~~~eeL~~~ 289 (368)
.+|+.|+.++.|+..|++.+++...
T Consensus 144 ~l~~~pt~~eiA~~l~~~~~~v~~~ 168 (289)
T PRK07500 144 ELTKQEIHREIATALGVSLSDVEMM 168 (289)
T ss_pred ccCCCCCHHHHHHHhCcCHHHHHHH
Confidence 5799999999999999998887543
No 164
>PRK05572 sporulation sigma factor SigF; Validated
Probab=24.95 E-value=1.8e+02 Score=27.49 Aligned_cols=36 Identities=22% Similarity=0.315 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHH
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQH 289 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~ 289 (368)
++.+....+..+.|+.|+..+.|++.|++.+.+...
T Consensus 119 ~~~~~~~~l~~~~~r~p~~~eia~~l~~~~~~v~~~ 154 (252)
T PRK05572 119 KIRKDKDELSKELGREPTIEELAEYLGVTPEEVVLA 154 (252)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHH
Confidence 455556677777899999999999999988776543
No 165
>COG0853 PanD Aspartate 1-decarboxylase [Coenzyme metabolism]
Probab=24.77 E-value=7.1 Score=34.71 Aligned_cols=31 Identities=32% Similarity=0.443 Sum_probs=24.8
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCCCccccHHH
Q 017616 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353 (368)
Q Consensus 323 eDLiQEG~iGLirAVekFDpskG~rFSTYA~ 353 (368)
+||+..+-|==.+-|+-++-+.|.||+||+.
T Consensus 29 ~dlldaagile~EkV~I~N~nNGaRf~TYvI 59 (126)
T COG0853 29 EDLLDAAGILENEKVDIVNVNNGARFSTYVI 59 (126)
T ss_pred HHHHhhcCCCCCceEEEEECCCCcEEEEEEE
Confidence 5677666555667788899999999999974
No 166
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=24.08 E-value=4.8 Score=35.34 Aligned_cols=31 Identities=29% Similarity=0.444 Sum_probs=22.9
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCCCccccHHH
Q 017616 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353 (368)
Q Consensus 323 eDLiQEG~iGLirAVekFDpskG~rFSTYA~ 353 (368)
.||+..+-|--++-|+-|+-+.|.||+||+.
T Consensus 30 ~~Ll~aagi~p~E~V~V~Nv~nG~Rf~TYvI 60 (116)
T PF02261_consen 30 EDLLDAAGILPYEQVQVVNVNNGERFETYVI 60 (116)
T ss_dssp HHHHHHCT--TTBEEEEEETTT--EEEEEEE
T ss_pred HHHHHHcCCCcCCEEEEEECCCCcEEEEEEE
Confidence 5788877777788888999999999999973
No 167
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=23.79 E-value=2.1e+02 Score=26.65 Aligned_cols=36 Identities=22% Similarity=0.267 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
+.+....+...+|++|+..+.|+..|++.+++...+
T Consensus 97 ~~~~~~~~~~~~~~~~~~~ela~~l~i~~~~v~~~~ 132 (236)
T PRK06986 97 VAQAIRQLEQELGREPTDTEVAEKLGLSLEEYREML 132 (236)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 334556666778999999999999999988766544
No 168
>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=23.23 E-value=1.8e+02 Score=22.17 Aligned_cols=59 Identities=24% Similarity=0.379 Sum_probs=38.5
Q ss_pred HHHHhCCCCc------hhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCC-ChhH
Q 017616 262 LEKESGKAAS------LNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI-PFSD 324 (368)
Q Consensus 262 L~~~~gr~pt------~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~-d~eD 324 (368)
++..+||+|| ...|....|++.+.+..+++.. ... =..+.+.|..|++.+...|+ +.+|
T Consensus 5 ~e~~~gr~ls~~e~~~i~~~~~~~~~~~evI~~ai~~a---~~~-~~~~~~Yi~~Il~~W~~~gi~T~e~ 70 (73)
T TIGR01446 5 FEENFGRMLSPFEMEDLKYWLDEFGNSPELIKEALKEA---VSN-NKANYKYIDAILNNWKNNGIKTVED 70 (73)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHH---HHc-CCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 3445677776 4567777788777766666542 221 12467899999999988775 4444
No 169
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=22.90 E-value=1.4e+02 Score=29.16 Aligned_cols=108 Identities=18% Similarity=0.162 Sum_probs=67.9
Q ss_pred CCCchHHHHHHHhhccCCCCCCcHHHHHHHhhchHHHHHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh-cHH
Q 017616 217 LKQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF-GWY 295 (368)
Q Consensus 217 ~~~~~~~~v~~~~~~~~~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~-G~~ 295 (368)
++.-+...+-.-.+......+..+|=++|...|+.+... -... .+.-+ -.++..||..++.. |-.
T Consensus 91 Fs~~TcrlmI~mfd~~~~G~i~f~EF~~Lw~~i~~Wr~v---F~~~----D~D~S-------G~I~~sEL~~Al~~~Gy~ 156 (221)
T KOG0037|consen 91 FSIETCRLMISMFDRDNSGTIGFKEFKALWKYINQWRNV---FRTY----DRDRS-------GTIDSSELRQALTQLGYR 156 (221)
T ss_pred CCHHHHHHHHHHhcCCCCCccCHHHHHHHHHHHHHHHHH---HHhc----ccCCC-------CcccHHHHHHHHHHcCcC
Confidence 344444545444565667789999999999988877553 2222 22111 12466777776654 321
Q ss_pred HHHHHHHHchHHHHHHHHHcc---CCCCChhHHHHH--HHHHHHHHHHhcCCCCC
Q 017616 296 CREELIKSTRPLVLFLARNYR---GLGIPFSDLLQA--GNVGVLQGAERFDHTRG 345 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~---~rg~d~eDLiQE--G~iGLirAVekFDpskG 345 (368)
. .--++..|++||- +..+.+||.||. ...+|.++.+++|...-
T Consensus 157 L-------spq~~~~lv~kyd~~~~g~i~FD~FI~ccv~L~~lt~~Fr~~D~~q~ 204 (221)
T KOG0037|consen 157 L-------SPQFYNLLVRKYDRFGGGRIDFDDFIQCCVVLQRLTEAFRRRDTAQQ 204 (221)
T ss_pred C-------CHHHHHHHHHHhccccCCceeHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 1 1123345566775 346999999995 45789999999999764
No 170
>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=22.33 E-value=1.8e+02 Score=27.39 Aligned_cols=37 Identities=14% Similarity=0.189 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHH
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~ 291 (368)
+......+...+|+.|+..+-|...|++.+++...+.
T Consensus 118 ~~~~~~~l~~~~~r~p~~~eia~~l~i~~~~~~~~~~ 154 (255)
T TIGR02941 118 IKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIME 154 (255)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 4445566777789999999999999999888765443
No 171
>TIGR03761 ICE_PFL4669 integrating conjugative element protein, PFL_4669 family. Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=21.41 E-value=2e+02 Score=27.69 Aligned_cols=36 Identities=31% Similarity=0.400 Sum_probs=28.3
Q ss_pred hHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcC
Q 017616 305 RPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFD 341 (368)
Q Consensus 305 lrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFD 341 (368)
++=|..++.+|...|++.+|+. +++-.--+|+++|-
T Consensus 158 vR~vf~~~~~yr~~gvtR~D~~-~~n~~a~~Aie~~G 193 (216)
T TIGR03761 158 IRRLFGLAQRYRHSGVTRDDFA-ANNARARKAIERFG 193 (216)
T ss_pred HHHHHHHHHhhhcCCCCHHHHH-hCCHHHHHHHHHcC
Confidence 3445566789999999999997 66777778999874
No 172
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=20.96 E-value=7.8 Score=34.51 Aligned_cols=32 Identities=28% Similarity=0.373 Sum_probs=25.1
Q ss_pred hHHHHHHHHHHHHHHHhcCCCCCCccccHHHH
Q 017616 323 SDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354 (368)
Q Consensus 323 eDLiQEG~iGLirAVekFDpskG~rFSTYA~~ 354 (368)
+||+-.+-|--++-|+-||-+.|.||+||+..
T Consensus 30 ~~Lm~aagi~p~E~V~V~Nv~NG~Rf~TYvI~ 61 (126)
T TIGR00223 30 EDLLDAAGILENEKVDIVNVNNGKRFSTYAIA 61 (126)
T ss_pred HHHHHhcCCCCCCEEEEEECCCCcEEEEEEEE
Confidence 46666666666677888999999999999753
Done!