Query 014193
Match_columns 429
No_of_seqs 293 out of 1887
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 02:44:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014193.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014193hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07598 RNA polymerase sigma 100.0 2.5E-40 5.3E-45 340.0 22.3 172 253-424 58-271 (415)
2 TIGR02997 Sig70-cyanoRpoD RNA 100.0 2.1E-38 4.6E-43 310.8 21.4 169 255-423 1-169 (298)
3 PRK07406 RNA polymerase sigma 100.0 1.5E-37 3.1E-42 316.0 21.8 172 253-424 61-232 (373)
4 PRK05949 RNA polymerase sigma 100.0 2.2E-37 4.8E-42 309.2 22.2 172 253-424 16-187 (327)
5 PRK07405 RNA polymerase sigma 100.0 2.3E-36 4.9E-41 300.3 21.9 171 254-424 7-177 (317)
6 PRK05901 RNA polymerase sigma 100.0 4E-34 8.6E-39 300.5 16.6 159 253-424 209-367 (509)
7 COG0568 RpoD DNA-directed RNA 100.0 4E-33 8.7E-38 280.3 15.8 171 254-424 8-198 (342)
8 PRK07921 RNA polymerase sigma 100.0 3.9E-32 8.4E-37 271.5 17.7 158 254-424 25-182 (324)
9 PRK09210 RNA polymerase sigma 100.0 3.9E-28 8.4E-33 245.8 16.6 135 250-424 91-225 (367)
10 PRK05658 RNA polymerase sigma 99.9 1.2E-27 2.5E-32 256.4 14.1 106 319-424 367-476 (619)
11 PRK07122 RNA polymerase sigma 99.9 1.9E-25 4E-30 216.7 12.6 98 328-425 40-137 (264)
12 TIGR02392 rpoH_proteo alternat 99.9 5.6E-25 1.2E-29 213.2 15.8 117 256-411 2-118 (270)
13 PRK06596 RNA polymerase factor 99.9 1.1E-24 2.4E-29 213.4 16.5 120 253-411 12-131 (284)
14 PRK07500 rpoH2 RNA polymerase 99.9 5.3E-24 1.1E-28 209.2 15.9 120 254-412 5-124 (289)
15 TIGR02393 RpoD_Cterm RNA polym 99.9 2.4E-23 5.3E-28 197.7 11.8 96 329-424 1-96 (238)
16 PRK05657 RNA polymerase sigma 99.9 1.9E-22 4E-27 201.7 16.3 130 253-422 51-180 (325)
17 PRK07408 RNA polymerase sigma 99.9 2.3E-22 5E-27 193.8 13.3 100 325-424 21-122 (256)
18 COG1191 FliA DNA-directed RNA 99.8 5.7E-21 1.2E-25 185.6 12.3 106 318-425 13-120 (247)
19 TIGR02394 rpoS_proteo RNA poly 99.8 2.2E-20 4.8E-25 182.2 16.5 133 249-421 7-139 (285)
20 TIGR02850 spore_sigG RNA polym 99.8 4.1E-20 9E-25 177.4 15.7 120 264-424 10-129 (254)
21 PRK05911 RNA polymerase sigma 99.8 2.2E-20 4.7E-25 180.4 13.4 97 325-424 19-119 (257)
22 PRK08215 sporulation sigma fac 99.8 7.8E-20 1.7E-24 175.6 15.6 118 264-422 13-130 (258)
23 TIGR02941 Sigma_B RNA polymera 99.8 2.2E-18 4.8E-23 164.9 15.5 98 327-424 28-125 (255)
24 TIGR02980 SigBFG RNA polymeras 99.8 1.6E-18 3.5E-23 162.4 12.6 98 327-424 2-99 (227)
25 TIGR02885 spore_sigF RNA polym 99.8 2.3E-18 4.9E-23 162.1 12.3 101 323-424 5-106 (231)
26 PRK06288 RNA polymerase sigma 99.8 7.1E-18 1.5E-22 163.1 15.0 117 264-422 6-125 (268)
27 PRK08583 RNA polymerase sigma 99.8 1.3E-17 2.8E-22 159.8 15.5 97 327-423 28-124 (257)
28 PRK05572 sporulation sigma fac 99.7 1.7E-16 3.7E-21 152.1 16.0 122 262-424 6-127 (252)
29 TIGR02895 spore_sigI RNA polym 99.7 5.6E-17 1.2E-21 155.0 11.4 101 322-422 3-108 (218)
30 PRK12427 flagellar biosynthesi 99.7 2.5E-16 5.4E-21 150.3 11.5 93 328-424 15-110 (231)
31 PRK07670 RNA polymerase sigma 99.7 4E-16 8.7E-21 149.4 12.8 105 316-423 8-117 (251)
32 TIGR02479 FliA_WhiG RNA polyme 99.6 1E-15 2.2E-20 143.7 10.9 89 333-424 1-92 (224)
33 PRK05803 sporulation sigma fac 99.6 5.8E-15 1.3E-19 139.9 13.4 107 256-402 17-123 (233)
34 PRK06986 fliA flagellar biosyn 99.6 1E-14 2.2E-19 138.2 12.0 95 325-422 5-102 (236)
35 TIGR02846 spore_sigmaK RNA pol 99.4 7.3E-12 1.6E-16 118.5 12.7 75 328-402 48-122 (227)
36 PRK08311 putative RNA polymera 99.3 8E-12 1.7E-16 120.9 11.2 92 315-406 4-98 (237)
37 PRK08301 sporulation sigma fac 99.3 7.5E-12 1.6E-16 118.2 10.2 88 315-402 38-126 (234)
38 PF04542 Sigma70_r2: Sigma-70 99.3 8.1E-12 1.8E-16 95.6 8.5 70 333-402 1-70 (71)
39 PRK08295 RNA polymerase factor 99.3 1.2E-11 2.6E-16 113.4 11.0 90 313-402 8-98 (208)
40 TIGR02859 spore_sigH RNA polym 99.3 2.2E-11 4.7E-16 110.8 10.5 87 314-400 4-91 (198)
41 TIGR02835 spore_sigmaE RNA pol 99.2 5.3E-11 1.1E-15 113.2 11.2 87 316-402 39-126 (234)
42 PRK05602 RNA polymerase sigma 99.1 2.3E-10 5E-15 103.9 9.8 88 314-402 5-93 (186)
43 PRK12513 RNA polymerase sigma 99.1 8.9E-10 1.9E-14 100.7 10.1 90 314-405 11-101 (194)
44 PRK09652 RNA polymerase sigma 99.0 6.3E-10 1.4E-14 98.6 8.5 80 323-404 4-84 (182)
45 PRK06811 RNA polymerase factor 99.0 1.4E-09 3E-14 99.6 10.5 89 314-403 3-95 (189)
46 TIGR02937 sigma70-ECF RNA poly 99.0 9.5E-10 2.1E-14 92.6 8.7 72 329-402 2-73 (158)
47 PRK09646 RNA polymerase sigma 99.0 1.3E-09 2.9E-14 100.1 9.7 87 315-402 16-103 (194)
48 TIGR02948 SigW_bacill RNA poly 99.0 1.3E-09 2.8E-14 98.1 9.3 85 316-402 5-90 (187)
49 PRK13919 putative RNA polymera 99.0 1.4E-09 3E-14 98.4 9.4 88 314-402 8-96 (186)
50 PRK09640 RNA polymerase sigma 99.0 2.6E-09 5.6E-14 97.5 10.6 88 313-402 7-98 (188)
51 PRK09641 RNA polymerase sigma 99.0 1.8E-09 3.8E-14 97.2 9.3 85 316-402 5-90 (187)
52 PRK09648 RNA polymerase sigma 99.0 2.9E-09 6.4E-14 96.9 10.8 86 317-403 12-102 (189)
53 PRK09638 RNA polymerase sigma 99.0 3.7E-09 8.1E-14 94.6 9.9 88 314-403 3-91 (176)
54 TIGR02954 Sig70_famx3 RNA poly 98.9 6.7E-09 1.5E-13 92.8 10.0 88 314-403 1-89 (169)
55 PRK11922 RNA polymerase sigma 98.9 6.7E-09 1.5E-13 98.5 10.5 90 314-405 15-105 (231)
56 TIGR02952 Sig70_famx2 RNA poly 98.9 6.8E-09 1.5E-13 91.9 9.5 83 321-404 3-86 (170)
57 PRK12524 RNA polymerase sigma 98.9 5.8E-09 1.3E-13 96.0 9.3 87 314-401 11-98 (196)
58 PRK12514 RNA polymerase sigma 98.9 7.7E-09 1.7E-13 93.2 9.4 88 314-402 4-92 (179)
59 PRK12519 RNA polymerase sigma 98.9 6.8E-09 1.5E-13 94.7 8.9 86 315-402 15-101 (194)
60 PRK06759 RNA polymerase factor 98.9 9.8E-09 2.1E-13 89.9 9.2 72 328-401 4-75 (154)
61 TIGR02939 RpoE_Sigma70 RNA pol 98.9 1.3E-08 2.8E-13 91.9 10.0 87 314-402 5-92 (190)
62 PRK11923 algU RNA polymerase s 98.8 1.6E-08 3.4E-13 92.2 9.7 86 315-402 6-92 (193)
63 PRK12526 RNA polymerase sigma 98.8 2.1E-08 4.6E-13 93.4 9.8 84 319-403 28-112 (206)
64 PRK11924 RNA polymerase sigma 98.8 2.7E-08 5.8E-13 88.0 9.9 84 319-404 3-87 (179)
65 PRK12537 RNA polymerase sigma 98.8 2.4E-08 5.1E-13 90.8 9.2 89 314-403 8-97 (182)
66 PRK12538 RNA polymerase sigma 98.8 2.5E-08 5.4E-13 95.6 9.7 87 314-401 48-135 (233)
67 PRK12534 RNA polymerase sigma 98.8 1.7E-08 3.6E-13 91.6 8.0 86 316-402 12-98 (187)
68 PRK12531 RNA polymerase sigma 98.8 2.2E-08 4.9E-13 92.0 8.8 85 317-402 15-100 (194)
69 PRK09643 RNA polymerase sigma 98.8 4.6E-08 9.9E-13 90.1 10.6 88 314-403 12-100 (192)
70 PRK12515 RNA polymerase sigma 98.8 4.4E-08 9.5E-13 89.4 9.7 87 314-402 7-94 (189)
71 PRK12536 RNA polymerase sigma 98.7 7.7E-08 1.7E-12 87.4 9.7 85 316-402 8-94 (181)
72 TIGR02984 Sig-70_plancto1 RNA 98.6 1.3E-07 2.8E-12 85.1 9.1 76 325-400 3-83 (189)
73 PRK12512 RNA polymerase sigma 98.6 2.5E-07 5.5E-12 83.7 10.6 84 318-403 11-99 (184)
74 PRK12539 RNA polymerase sigma 98.6 2.2E-07 4.7E-12 84.6 10.1 85 316-402 8-97 (184)
75 TIGR02989 Sig-70_gvs1 RNA poly 98.6 1.4E-07 3E-12 82.8 8.5 73 329-403 2-74 (159)
76 TIGR02985 Sig70_bacteroi1 RNA 98.6 1E-07 2.3E-12 82.6 7.1 72 329-402 2-73 (161)
77 PRK12522 RNA polymerase sigma 98.5 3.2E-07 7E-12 82.4 8.7 74 328-403 3-76 (173)
78 PRK12542 RNA polymerase sigma 98.5 1.7E-07 3.7E-12 85.2 7.0 78 325-402 5-83 (185)
79 PRK12518 RNA polymerase sigma 98.5 3.1E-07 6.7E-12 82.2 8.4 78 321-401 3-81 (175)
80 PRK12543 RNA polymerase sigma 98.5 6.1E-07 1.3E-11 81.4 8.7 75 325-401 3-78 (179)
81 TIGR02999 Sig-70_X6 RNA polyme 98.5 5.8E-07 1.3E-11 81.0 8.1 84 316-401 4-94 (183)
82 PRK09415 RNA polymerase factor 98.4 1.2E-06 2.6E-11 79.6 9.0 73 327-401 15-87 (179)
83 TIGR03001 Sig-70_gmx1 RNA poly 98.4 1.5E-06 3.3E-11 84.2 10.1 87 314-402 24-118 (244)
84 PRK08241 RNA polymerase factor 98.4 1.2E-06 2.7E-11 87.0 9.5 84 317-402 7-91 (339)
85 PRK09649 RNA polymerase sigma 98.4 1.1E-06 2.4E-11 80.5 8.4 82 317-401 12-94 (185)
86 COG1595 RpoE DNA-directed RNA 98.4 2.2E-06 4.9E-11 78.0 10.3 79 324-404 11-89 (182)
87 TIGR02983 SigE-fam_strep RNA p 98.4 1.7E-06 3.8E-11 76.5 8.5 74 327-402 5-78 (162)
88 PRK09645 RNA polymerase sigma 98.3 4.4E-06 9.4E-11 74.8 9.0 76 326-402 7-82 (173)
89 PRK12541 RNA polymerase sigma 98.3 4.1E-06 8.9E-11 74.3 8.6 72 328-402 5-76 (161)
90 TIGR02947 SigH_actino RNA poly 98.3 3.1E-06 6.7E-11 77.5 7.9 74 328-403 11-84 (193)
91 PRK09639 RNA polymerase sigma 98.2 3.8E-06 8.1E-11 74.4 8.1 72 328-403 3-74 (166)
92 PRK12535 RNA polymerase sigma 98.2 5.5E-06 1.2E-10 77.1 9.6 83 317-402 13-96 (196)
93 PRK12520 RNA polymerase sigma 98.2 3.6E-06 7.9E-11 76.9 8.2 74 329-404 3-76 (191)
94 PRK09644 RNA polymerase sigma 98.2 5.3E-06 1.1E-10 74.0 8.7 71 330-403 3-73 (165)
95 PRK12547 RNA polymerase sigma 98.2 6.6E-06 1.4E-10 73.6 8.7 74 327-402 5-78 (164)
96 TIGR02960 SigX5 RNA polymerase 98.2 6.8E-06 1.5E-10 80.9 8.7 73 328-402 5-77 (324)
97 PRK09647 RNA polymerase sigma 98.1 8.8E-06 1.9E-10 76.3 8.5 72 328-402 28-99 (203)
98 PRK12516 RNA polymerase sigma 98.1 1.2E-05 2.5E-10 74.3 8.8 75 327-403 9-83 (187)
99 PRK12528 RNA polymerase sigma 98.1 1.2E-05 2.7E-10 71.2 8.1 71 328-401 4-74 (161)
100 PRK09637 RNA polymerase sigma 98.1 2E-05 4.4E-10 72.2 9.3 75 330-406 3-77 (181)
101 TIGR02943 Sig70_famx1 RNA poly 98.0 1.5E-05 3.3E-10 73.3 7.9 71 331-403 5-75 (188)
102 PRK12533 RNA polymerase sigma 98.0 2.4E-05 5.2E-10 74.4 9.4 74 326-402 16-89 (216)
103 PRK12523 RNA polymerase sigma 98.0 1.2E-05 2.5E-10 72.4 6.9 75 324-401 5-80 (172)
104 PRK12532 RNA polymerase sigma 98.0 1.4E-05 3E-10 73.4 7.4 71 331-403 8-79 (195)
105 TIGR02950 SigM_subfam RNA poly 98.0 1.1E-05 2.3E-10 70.5 6.2 65 335-402 2-66 (154)
106 PF00140 Sigma70_r1_2: Sigma-7 98.0 1.7E-06 3.6E-11 61.7 0.5 34 254-287 1-34 (37)
107 PRK12529 RNA polymerase sigma 98.0 2.2E-05 4.8E-10 71.4 7.3 78 324-401 8-88 (178)
108 PRK12540 RNA polymerase sigma 97.9 3.9E-05 8.4E-10 70.5 8.6 74 328-403 5-78 (182)
109 PRK12544 RNA polymerase sigma 97.9 4.8E-05 1E-09 71.6 9.3 73 329-403 19-91 (206)
110 PRK12517 RNA polymerase sigma 97.9 4.9E-05 1.1E-09 70.1 8.9 76 324-401 19-94 (188)
111 PRK09642 RNA polymerase sigma 97.9 1.6E-05 3.4E-10 70.4 5.3 65 335-402 2-66 (160)
112 TIGR02959 SigZ RNA polymerase 97.9 3.8E-05 8.1E-10 69.4 7.7 71 335-407 2-72 (170)
113 PRK12546 RNA polymerase sigma 97.9 6E-05 1.3E-09 69.8 8.8 72 328-402 8-79 (188)
114 PRK12545 RNA polymerase sigma 97.9 4.6E-05 1E-09 70.9 8.0 70 332-403 12-81 (201)
115 PRK12530 RNA polymerase sigma 97.8 9E-05 2E-09 68.2 7.8 71 331-403 10-80 (189)
116 PRK07037 extracytoplasmic-func 97.7 7.5E-05 1.6E-09 66.1 6.7 68 332-402 2-69 (163)
117 PRK09651 RNA polymerase sigma 97.6 0.0002 4.3E-09 64.7 7.9 72 327-401 9-80 (172)
118 PRK12511 RNA polymerase sigma 97.6 0.00019 4.1E-09 66.1 7.7 71 330-402 6-76 (182)
119 PRK12525 RNA polymerase sigma 97.4 0.00052 1.1E-08 61.7 7.9 72 327-401 8-79 (168)
120 PRK12527 RNA polymerase sigma 97.4 0.00036 7.9E-09 61.8 6.0 64 335-401 2-65 (159)
121 PRK09636 RNA polymerase sigma 97.3 0.00042 9.2E-09 68.1 6.7 69 329-401 5-73 (293)
122 TIGR02957 SigX4 RNA polymerase 97.2 0.0008 1.7E-08 66.1 6.4 66 332-401 1-66 (281)
123 PRK06704 RNA polymerase factor 97.0 0.0022 4.7E-08 62.2 8.1 75 322-402 11-86 (228)
124 PRK09635 sigI RNA polymerase s 97.0 0.0014 3E-08 65.3 6.4 69 328-400 5-73 (290)
125 PRK09191 two-component respons 96.9 0.0024 5.2E-08 59.8 7.2 64 329-394 2-65 (261)
126 TIGR03209 P21_Cbot clostridium 96.7 0.0049 1.1E-07 53.7 6.9 65 331-402 2-71 (142)
127 PRK05658 RNA polymerase sigma 96.7 0.0031 6.6E-08 69.0 6.4 34 253-286 102-135 (619)
128 PF07638 Sigma70_ECF: ECF sigm 96.3 0.013 2.7E-07 54.3 7.3 90 316-405 4-99 (185)
129 PF12645 HTH_16: Helix-turn-he 96.1 0.018 3.8E-07 46.0 6.3 56 319-374 3-65 (65)
130 PRK09047 RNA polymerase factor 95.7 0.022 4.7E-07 50.1 5.8 47 353-402 5-51 (161)
131 PF04539 Sigma70_r3: Sigma-70 95.5 0.032 6.9E-07 44.4 5.5 38 286-323 4-41 (78)
132 PHA02547 55 RNA polymerase sig 92.2 0.54 1.2E-05 44.6 7.3 66 336-401 45-113 (179)
133 COG1191 FliA DNA-directed RNA 76.9 4.8 0.0001 40.1 5.5 64 256-327 88-151 (247)
134 PRK07122 RNA polymerase sigma 66.0 15 0.00033 36.1 6.2 36 288-323 129-164 (264)
135 PRK07408 RNA polymerase sigma 65.4 16 0.00034 35.8 6.1 36 287-322 114-149 (256)
136 TIGR02850 spore_sigG RNA polym 64.1 17 0.00038 35.2 6.1 36 289-324 123-158 (254)
137 TIGR02393 RpoD_Cterm RNA polym 62.8 20 0.00043 34.4 6.2 36 287-322 88-123 (238)
138 PRK07921 RNA polymerase sigma 61.9 19 0.00041 36.9 6.2 36 287-322 174-209 (324)
139 PRK12427 flagellar biosynthesi 61.0 15 0.00033 35.4 5.1 36 288-323 103-138 (231)
140 PRK05911 RNA polymerase sigma 57.9 26 0.00056 34.3 6.2 35 288-322 112-146 (257)
141 PRK14082 hypothetical protein; 57.7 43 0.00092 27.4 6.2 56 328-385 9-64 (65)
142 PRK09210 RNA polymerase sigma 55.8 27 0.00059 36.2 6.2 37 287-323 217-253 (367)
143 PRK05901 RNA polymerase sigma 52.7 31 0.00067 37.9 6.2 37 287-323 359-395 (509)
144 PRK07406 RNA polymerase sigma 51.6 35 0.00076 35.9 6.2 36 287-322 224-259 (373)
145 PRK07670 RNA polymerase sigma 48.6 37 0.00081 32.8 5.5 37 288-324 111-147 (251)
146 PRK15044 transcriptional regul 48.3 48 0.001 34.1 6.5 60 257-325 172-231 (295)
147 TIGR02885 spore_sigF RNA polym 48.1 33 0.00071 32.5 5.0 34 290-323 101-134 (231)
148 PF01726 LexA_DNA_bind: LexA D 45.3 71 0.0015 25.4 5.7 19 297-315 20-38 (65)
149 PRK05949 RNA polymerase sigma 45.2 54 0.0012 33.6 6.4 37 287-323 179-215 (327)
150 smart00342 HTH_ARAC helix_turn 45.0 58 0.0012 24.6 5.1 24 302-325 1-24 (84)
151 PRK07598 RNA polymerase sigma 44.0 37 0.0008 36.4 5.1 38 287-324 263-300 (415)
152 TIGR02479 FliA_WhiG RNA polyme 41.7 58 0.0013 30.7 5.6 37 287-323 84-120 (224)
153 PRK10219 DNA-binding transcrip 41.4 96 0.0021 25.8 6.3 37 289-325 8-44 (107)
154 PRK07405 RNA polymerase sigma 40.8 70 0.0015 32.5 6.3 37 287-323 169-205 (317)
155 PRK08215 sporulation sigma fac 40.2 74 0.0016 30.9 6.2 35 289-323 126-160 (258)
156 PRK07500 rpoH2 RNA polymerase 40.2 1E+02 0.0022 30.9 7.3 62 256-320 104-166 (289)
157 PRK09480 slmA division inhibit 39.0 2.8E+02 0.0061 24.7 10.7 71 296-366 24-94 (194)
158 PRK06288 RNA polymerase sigma 38.8 54 0.0012 32.1 5.0 37 287-323 119-155 (268)
159 TIGR01446 DnaD_dom DnaD and ph 38.6 75 0.0016 24.8 4.9 50 305-358 21-71 (73)
160 KOG0037 Ca2+-binding protein, 35.7 3.7E+02 0.0079 26.9 10.0 97 260-377 101-203 (221)
161 TIGR02980 SigBFG RNA polymeras 35.0 72 0.0016 30.0 5.1 33 290-322 94-126 (227)
162 TIGR02997 Sig70-cyanoRpoD RNA 34.9 1E+02 0.0022 30.8 6.4 36 287-322 162-197 (298)
163 PF15545 Toxin_67: Putative to 33.5 42 0.00092 27.6 2.7 31 380-410 6-36 (70)
164 COG0568 RpoD DNA-directed RNA 33.0 1.1E+02 0.0023 32.3 6.2 36 287-322 190-225 (342)
165 TIGR03764 ICE_PFGI_1_parB inte 32.5 2.5E+02 0.0054 28.5 8.5 93 265-374 108-222 (258)
166 PRK11511 DNA-binding transcrip 28.3 1.3E+02 0.0028 26.3 5.1 37 289-325 12-48 (127)
167 PRK15186 AraC family transcrip 28.1 1.5E+02 0.0034 29.9 6.4 33 293-325 188-220 (291)
168 TIGR02941 Sigma_B RNA polymera 27.4 1.1E+02 0.0023 29.6 5.0 36 288-323 118-153 (255)
169 PRK05572 sporulation sigma fac 25.8 1.5E+02 0.0033 28.6 5.7 34 288-321 120-153 (252)
170 PF05138 PaaA_PaaC: Phenylacet 25.1 3.1E+02 0.0068 27.4 7.8 115 264-398 4-119 (263)
171 PRK06986 fliA flagellar biosyn 24.8 1.3E+02 0.0029 28.6 5.0 35 289-323 98-132 (236)
172 COG0122 AlkA 3-methyladenine D 23.5 4.1E+02 0.009 26.9 8.4 124 250-374 72-240 (285)
173 PRK08583 RNA polymerase sigma 21.4 6.1E+02 0.013 24.4 8.9 32 291-322 121-152 (257)
174 PF06991 Prp19_bind: Splicing 20.3 3.2E+02 0.0069 27.9 6.8 90 264-361 105-195 (276)
No 1
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=100.00 E-value=2.5e-40 Score=340.00 Aligned_cols=172 Identities=42% Similarity=0.681 Sum_probs=163.4
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHH--------------------HHHHHHHHHhhhCCCCcHHHHHH--
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIR--------------------LEKEKSKLQSQFGREPTLIEWAK-- 310 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~--------------------le~~~~~L~~~~Gr~Pt~~ewA~-- 310 (429)
.+|+++.||++|++.||||++||++|+++||.+++ |++++.+|++++|++||..+||.
T Consensus 58 ~~d~v~~yl~~igr~~lL~~~eEv~l~~~vq~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~g~~pt~~ewa~~~ 137 (415)
T PRK07598 58 STDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSLERWAKTA 137 (415)
T ss_pred CCChHHHHHHhcccccCCCHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhHHHHHHHHHHHHHHhCCCCCHHHHHHHh
Confidence 57999999999999999999999999999999999 89999999999999999999995
Q ss_pred --------------------HhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHH
Q 014193 311 --------------------AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370 (429)
Q Consensus 311 --------------------aagm~~eeL~~~lk~G~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAI 370 (429)
++||++++|+..++.|..|+++||.+|+++|+++|++|.++|++++||||||++|||+|+
T Consensus 138 ~~~~~~l~~~l~~~~~~~~~~~~l~~~eL~~~l~~G~~A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~rav 217 (415)
T PRK07598 138 DISLADLKPTLAEGKRRWAEIAKLTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAV 217 (415)
T ss_pred CCcHHHHHHhhhhhhhhhhhhccCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 455667777778889999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhhhhHHHHHHHHh
Q 014193 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 371 eKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~l~ki~ra~~~L 424 (429)
++|||++|++|+|||+||||++|.+++++++++||+|.|+.+.++++.++...|
T Consensus 218 ekFDp~rG~rFSTYa~wwIRqaI~r~i~~~srtIrlP~~i~e~l~~lrk~~r~L 271 (415)
T PRK07598 218 EKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKI 271 (415)
T ss_pred HHcCcccCCCHHHHHHHHHHHHHHHHHHHcCCceehhHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999998887654
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=2.1e-38 Score=310.84 Aligned_cols=169 Identities=48% Similarity=0.766 Sum_probs=164.0
Q ss_pred cHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHH
Q 014193 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334 (429)
Q Consensus 255 d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LI 334 (429)
|++..||++++++|+||++||.+|+++++.++.+++.+..|+++.|++|+..+||+++||++.+|+..++.|..|+++||
T Consensus 1 ~~~~~yl~~~~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~Lv 80 (298)
T TIGR02997 1 DLVRLYLQEIGRVPLLTPEEEIELARQVQQMMVLEELREELEEQLGREPSKEEWAAAAGLSEAELRQRLRQGQRAKEKMI 80 (298)
T ss_pred CcHHHHHHHccccCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHhhcCCCcHHHHHHhccCCHHHHHHHHhccHHHHHHHH
Confidence 46788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhhh
Q 014193 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLS 414 (429)
Q Consensus 335 esnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~l 414 (429)
..|+++|+++|++|.++|.+++||||||++|||+|+++|||++|++|+|||+||||++|.++|.+++++||+|.++...+
T Consensus 81 ~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I~r~i~~~~r~vr~p~~~~~~~ 160 (298)
T TIGR02997 81 KANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGITRAIANQSRTIRLPIHITEKL 160 (298)
T ss_pred HHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHHHHHHHhcCCCeeCcHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHH
Q 014193 415 PIYIFKFYV 423 (429)
Q Consensus 415 ~ki~ra~~~ 423 (429)
+++.++...
T Consensus 161 ~~~rk~~~~ 169 (298)
T TIGR02997 161 NKIKKVQRE 169 (298)
T ss_pred HHHHHHHHH
Confidence 998877644
No 3
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=100.00 E-value=1.5e-37 Score=316.00 Aligned_cols=172 Identities=41% Similarity=0.739 Sum_probs=167.3
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~ 332 (429)
..|++..||++|+++|+||+|||++|+++|++++.+++++.+|+.+.|++|+..+||.++||+..+|..++..|..|+++
T Consensus 61 ~~d~l~~Yl~~i~~~~lLt~eEE~~La~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~A~~~ 140 (373)
T PRK07406 61 TEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLELEELREQFESELGREPSDKEWAELVDMPLPKFRRRLMLGRRAKEK 140 (373)
T ss_pred CCCHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHhhhccccHHHHHHHHhcCHHHHHH
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHh
Q 014193 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 412 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e 412 (429)
||..|+|+|+++|++|.++|++++||+|||+||||+|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+
T Consensus 141 Li~~~l~lV~~iA~ry~~~~~~~eDLiQEG~igL~~Ai~kFd~~kg~~FsTYA~wWIRqaI~~~I~~~~r~IRlP~~~~~ 220 (373)
T PRK07406 141 MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE 220 (373)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhcCCceeCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHh
Q 014193 413 LSPIYIFKFYVF 424 (429)
Q Consensus 413 ~l~ki~ra~~~L 424 (429)
.++++.++...|
T Consensus 221 ~~~~i~~a~~~l 232 (373)
T PRK07406 221 TISRIKKTTKVL 232 (373)
T ss_pred HHHHHHHHHHHH
Confidence 999998887665
No 4
>PRK05949 RNA polymerase sigma factor; Validated
Probab=100.00 E-value=2.2e-37 Score=309.23 Aligned_cols=172 Identities=42% Similarity=0.699 Sum_probs=167.3
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~ 332 (429)
..|++..||++|+++|+||++||++|+++|+.++.+++.+..|+..+|++|+..+||.+++|++.+|+..++.|+.|++.
T Consensus 16 ~~d~~~~yl~~i~~~~lLt~eeE~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~eL~~~~~~g~~A~~~ 95 (327)
T PRK05949 16 SADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMSLLEAKEALAKKLGREPSLPEWAEAVNLSETELKQTLKQGKRAKQK 95 (327)
T ss_pred CCCHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHhccCCHHHHHHHHHccHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHh
Q 014193 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 412 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e 412 (429)
||..|+++|+++|++|.++|.+++||||||++|||+|+++|||++|++|+|||+||||++|.++|++++++||+|.|+.+
T Consensus 96 Li~~~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I~r~i~~~~r~iRlP~~~~~ 175 (327)
T PRK05949 96 MIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITE 175 (327)
T ss_pred HHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHHHHHHHHcCCceeCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHh
Q 014193 413 LSPIYIFKFYVF 424 (429)
Q Consensus 413 ~l~ki~ra~~~L 424 (429)
.++++.++...+
T Consensus 176 ~~~~l~k~~~~l 187 (327)
T PRK05949 176 KLNKIKKTQREL 187 (327)
T ss_pred HHHHHHHHHHHH
Confidence 999998887654
No 5
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=100.00 E-value=2.3e-36 Score=300.29 Aligned_cols=171 Identities=43% Similarity=0.694 Sum_probs=166.6
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHH
Q 014193 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333 (429)
Q Consensus 254 ~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~L 333 (429)
.|++..||++|+++|+||+|||.+|+++|++++.+++++..|++++|++|+..+||.+++|++.+|+..++.|+.|+++|
T Consensus 7 ~~~~~~yl~~i~~~~lLt~eeE~~La~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~g~~A~~~L 86 (317)
T PRK07405 7 TDLVRTYLREIGRVPLLTHEEEILYGKQVQRLVALQEIREELAEELGREPTDAEWAKAAKLSEEELRSAIAEGEAAKRKM 86 (317)
T ss_pred CcHHHHHHHHccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHhhhccCCHHHHHHHHhccHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhh
Q 014193 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNL 413 (429)
Q Consensus 334 IesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~ 413 (429)
|..|+++|+++|++|.+.|.+++||+|||++|||+|+++|||++|++|+|||+||||++|.++|++++++||+|.++.+.
T Consensus 87 ~~~~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~~~i~~~~~~ir~p~~~~~~ 166 (317)
T PRK07405 87 VEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK 166 (317)
T ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHHHHHHhcCCCccCChHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHh
Q 014193 414 SPIYIFKFYVF 424 (429)
Q Consensus 414 l~ki~ra~~~L 424 (429)
++++.++...|
T Consensus 167 ~~~l~~~~~~l 177 (317)
T PRK07405 167 LNKIKKAQRQL 177 (317)
T ss_pred HHHHHHHHHHH
Confidence 99998877654
No 6
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=100.00 E-value=4e-34 Score=300.46 Aligned_cols=159 Identities=38% Similarity=0.564 Sum_probs=140.3
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~ 332 (429)
..|+++.||++|+++|+||++||++|+++|+.+..++.. +. ....|+. ....+|+..+..|..|+++
T Consensus 209 ~~d~l~~YL~~i~~~~lLt~eEE~~La~~i~~g~~~~~~---~~-------~~~~~~~---~~~~~l~~~~~~g~~Ar~~ 275 (509)
T PRK05901 209 TADPVKAYLKQIGKVKLLNAEEEVELAKRIEAGLYAEEL---LA-------EGEKLDP---ELRRDLQWIGRDGKRAKNH 275 (509)
T ss_pred cccHHHHHHHHhccCCCCCHHHHHHHHHHHHhCCchhhh---hh-------hcccchh---hhhhhhhhhccchHHHHHH
Confidence 578999999999999999999999999999986433321 11 1122432 2457788999999999999
Q ss_pred HHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHh
Q 014193 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 412 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e 412 (429)
||.+|+|||++||++|.++|++++||||||+||||+||++|||++|++|+|||+||||++|.++|+++.++||+|.|+.+
T Consensus 276 LI~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~~r~IRvP~~~~e 355 (509)
T PRK05901 276 LLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVE 355 (509)
T ss_pred HHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHcCCceecCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHh
Q 014193 413 LSPIYIFKFYVF 424 (429)
Q Consensus 413 ~l~ki~ra~~~L 424 (429)
.++++.+....|
T Consensus 356 ~i~kl~~~~~~L 367 (509)
T PRK05901 356 TINKLGRIEREL 367 (509)
T ss_pred HHHHHHHHHHHH
Confidence 999988776654
No 7
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=100.00 E-value=4e-33 Score=280.27 Aligned_cols=171 Identities=39% Similarity=0.631 Sum_probs=152.6
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh-hhCCCCcHH---------------HHHHHhcCCH-
Q 014193 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS-QFGREPTLI---------------EWAKAIGLSC- 316 (429)
Q Consensus 254 ~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~-~~Gr~Pt~~---------------ewA~aagm~~- 316 (429)
.|.+..|+.+++..++++.++|.++...++....+.....++.. .+|..|+.. +|+.....++
T Consensus 8 ~d~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Ee 87 (342)
T COG0568 8 ADAVRAYLDEIGRIPLLVREAEVELAKQLEDEQLLVELGEDLTDLKLGREPSERARRPAGRLSFYIRAIEAAPLLTPEEE 87 (342)
T ss_pred hhHHHHHHHHhcchhhhhHHHHHHHHHHHhHhhhhhHHHHHHHhcccccccchhhhhhhhhHHHHHHHHhhhcccChHHH
Confidence 57899999999999999999999999999887777667777777 677888876 5555444444
Q ss_pred HHHHHHhhccH---HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHH
Q 014193 317 RDLKSELHSGN---SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393 (429)
Q Consensus 317 eeL~~~lk~G~---~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI 393 (429)
.+|...+..|+ .|+.+||.+||+||++||++|.++|+++.||||||+||||+||+||||++|++|+|||+||||++|
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 67888999984 599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCcccchhHHhhhhHHHHHHHHh
Q 014193 394 RKAIFQHSRTIRLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 394 ~~aIrkqsr~IRlP~~~~e~l~ki~ra~~~L 424 (429)
.++|.+++++||+|.|+.++++++.+.-..|
T Consensus 168 ~raI~~q~rtIRipvh~~e~~nkl~r~~r~l 198 (342)
T COG0568 168 TRAIADQARTIRIPVHQVELINKLRRVKREL 198 (342)
T ss_pred HHHHHHhcchhhHhHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999998755443
No 8
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=100.00 E-value=3.9e-32 Score=271.54 Aligned_cols=158 Identities=38% Similarity=0.606 Sum_probs=141.2
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHH
Q 014193 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333 (429)
Q Consensus 254 ~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~L 333 (429)
+|++..||++++++|+||+|||.+|+++|+.+..++.. |+..+|+... ...+|...++.|..|+++|
T Consensus 25 ~~~~~~Yl~~i~~~~lLt~eeE~~La~~~~~g~~~~~~-----------~~~~~~~~~~--~~~~l~~~~~~~~~A~~~L 91 (324)
T PRK07921 25 ADLVRVYLNGIGKTALLTAADEVELAKRIEAGLYAEHL-----------LETRKRLSEA--RKRDLAAVVRDGEAARRHL 91 (324)
T ss_pred CChHHHHHHHhcccCCCCHHHHHHHHHHHHhhhhhhhh-----------hccccccchh--HHHHHHHHHhcCHHHHHHH
Confidence 57899999999999999999999999999987665543 1222332111 3567999999999999999
Q ss_pred HHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhh
Q 014193 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNL 413 (429)
Q Consensus 334 IesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~ 413 (429)
|..|+++|+++|++|.++|++++||+|||+||||+|+++|||++|++|+|||.||||++|.++|++++++||+|.++.+.
T Consensus 92 v~~~~~lV~~iA~r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~~~r~vrlP~~~~~~ 171 (324)
T PRK07921 92 LEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQ 171 (324)
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHcCCCccCCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHh
Q 014193 414 SPIYIFKFYVF 424 (429)
Q Consensus 414 l~ki~ra~~~L 424 (429)
++++.++...|
T Consensus 172 ~~~l~~~~~~l 182 (324)
T PRK07921 172 VNKLARIKREL 182 (324)
T ss_pred HHHHHHHHHHH
Confidence 99998877655
No 9
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=99.96 E-value=3.9e-28 Score=245.78 Aligned_cols=135 Identities=46% Similarity=0.769 Sum_probs=124.8
Q ss_pred CCCCCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHH
Q 014193 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329 (429)
Q Consensus 250 ~~~~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~A 329 (429)
+....|+++.||++|+++|+||++||.+|+.+++. | +..|
T Consensus 91 ~~~~~d~~~~yl~~i~~~~~l~~~ee~~L~~~~~~---------------G-------------------------d~~A 130 (367)
T PRK09210 91 GVKINDPVRMYLKEIGRVPLLTAEEEIELAKRIEE---------------G-------------------------DEEA 130 (367)
T ss_pred ccccCcHHHHHHHHhhccCCCCHHHHHHHHHHHHh---------------h-------------------------HHHH
Confidence 33457899999999999999999999999988765 2 1379
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchh
Q 014193 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVM 409 (429)
Q Consensus 330 re~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~ 409 (429)
+++||..|+++|+++|++|.++|.+++||+|||+||||+|+++|||++|++|+|||.||||++|.++|+++.++||+|.|
T Consensus 131 ~~~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~irip~~ 210 (367)
T PRK09210 131 KQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 210 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCceeccHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhHHHHHHHHh
Q 014193 410 TFNLSPIYIFKFYVF 424 (429)
Q Consensus 410 ~~e~l~ki~ra~~~L 424 (429)
+.+.++++.++...|
T Consensus 211 ~~~~~~~~~~~~~~l 225 (367)
T PRK09210 211 MVETINKLIRVQRQL 225 (367)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999998777654
No 10
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=99.95 E-value=1.2e-27 Score=256.43 Aligned_cols=106 Identities=38% Similarity=0.749 Sum_probs=97.6
Q ss_pred HHHHhhccH----HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHH
Q 014193 319 LKSELHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 394 (429)
Q Consensus 319 L~~~lk~G~----~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~ 394 (429)
+.+.+..|+ .|+++||.+|+|||++||++|.++|++++||||||+||||+||++|||++|++|+|||+||||++|.
T Consensus 367 l~~~i~~g~~~~~~a~~~Li~~nlrlV~~iA~ky~~~gl~~~DLiQeG~iGL~~Av~kfd~~~G~~FstYA~~wIr~aI~ 446 (619)
T PRK05658 367 INRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 446 (619)
T ss_pred HHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhcCccCCCchHHHhHHHHHHHHH
Confidence 344445553 6899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCcccchhHHhhhhHHHHHHHHh
Q 014193 395 KAIFQHSRTIRLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 395 ~aIrkqsr~IRlP~~~~e~l~ki~ra~~~L 424 (429)
++|++++++||+|.|+.+.++++.+....|
T Consensus 447 ~~i~~~~r~irip~~~~~~~~k~~~~~~~~ 476 (619)
T PRK05658 447 RSIADQARTIRIPVHMIETINKLNRISRQM 476 (619)
T ss_pred HHHHHcCCceecCHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999998876544
No 11
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=99.93 E-value=1.9e-25 Score=216.74 Aligned_cols=98 Identities=24% Similarity=0.404 Sum_probs=94.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccc
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 407 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP 407 (429)
.++++||..|+|||++||++|.++|++++||||||+||||+|+++|||++|++|+|||.||||++|.++|++++++||+|
T Consensus 40 ~~r~~Lv~~~l~LV~~iA~~y~~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~~~~~ir~P 119 (264)
T PRK07122 40 RQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRDNSWSVKVP 119 (264)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHcCCccccC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHhhhhHHHHHHHHhh
Q 014193 408 VMTFNLSPIYIFKFYVFS 425 (429)
Q Consensus 408 ~~~~e~l~ki~ra~~~Ls 425 (429)
.++.+.++++.++...|.
T Consensus 120 r~~~~~~~~i~~~~~~l~ 137 (264)
T PRK07122 120 RRLKELHLRLGRATAELS 137 (264)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999988776554
No 12
>TIGR02392 rpoH_proteo alternative sigma factor RpoH. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors.
Probab=99.93 E-value=5.6e-25 Score=213.18 Aligned_cols=117 Identities=32% Similarity=0.668 Sum_probs=106.8
Q ss_pred HHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHH
Q 014193 256 PLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335 (429)
Q Consensus 256 ~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIe 335 (429)
++..||++++++|+|++++|.+|+.++.. .| +..|++.||.
T Consensus 2 ~~~~yl~~~~~~~~l~~~~e~~l~~~~~~--------------~g-------------------------d~~a~~~Lv~ 42 (270)
T TIGR02392 2 SLDAYIRAVNRIPMLTPEEEYQLAKRLRE--------------HG-------------------------DLDAAKKLVL 42 (270)
T ss_pred hHHHHHHHHhcCCCCCHHHHHHHHHHHHH--------------CC-------------------------CHHHHHHHHH
Confidence 57789999999999999999999886432 12 2479999999
Q ss_pred HhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHH
Q 014193 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTF 411 (429)
Q Consensus 336 snL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~ 411 (429)
.|+|+|+++|++|.++|.+.+||+|||++||++|+++|||++|++|+|||.||||++|.++|+++++.+|+|.+..
T Consensus 43 ~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~fd~~~~~~FsTYA~~~Ir~~i~~~l~~~~~~ir~p~~~~ 118 (270)
T TIGR02392 43 SHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYILRNWRLVKVATTKA 118 (270)
T ss_pred HhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCChHHhhHHHHHHHHHHHHHHcCCceecCchHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999888899997753
No 13
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=99.92 E-value=1.1e-24 Score=213.40 Aligned_cols=120 Identities=32% Similarity=0.654 Sum_probs=110.0
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~ 332 (429)
+.+++..|++++++.|+||.++|.+|+.+++. .| +..|++.
T Consensus 12 ~~~~~~~y~~~~~~~~~l~~~~e~~l~~~~~~--------------~G-------------------------d~~a~~~ 52 (284)
T PRK06596 12 PEGNLDAYIQAVNKIPMLTAEEEYMLAKRLRE--------------HG-------------------------DLEAAKQ 52 (284)
T ss_pred CccHHHHHHHHHhccCCCCHHHHHHHHHHHHH--------------cC-------------------------CHHHHHH
Confidence 46789999999999999999999999886432 12 2379999
Q ss_pred HHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHH
Q 014193 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTF 411 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~ 411 (429)
||..|+|+|+++|++|.+.|++.+||+|||++||++|+++|||++|++|+|||.|||+++|.++|+++++.||+|.+..
T Consensus 53 Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~~~FstYA~~~Ir~~i~~~l~~~~~~vr~p~~~~ 131 (284)
T PRK06596 53 LVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAVHWIKAEIHEYILRNWRIVKVATTKA 131 (284)
T ss_pred HHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHcCCeeeccchHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999988899999874
No 14
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=99.91 E-value=5.3e-24 Score=209.20 Aligned_cols=120 Identities=27% Similarity=0.552 Sum_probs=110.0
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHH
Q 014193 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333 (429)
Q Consensus 254 ~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~L 333 (429)
.+..+.||+++.++|+||+++|.+|+++++. .| +..|+++|
T Consensus 5 ~~~~~~y~~~~~~~~~l~~~~e~~L~~~~~~--------------~g-------------------------d~~A~~~L 45 (289)
T PRK07500 5 ASADRSMIRSAMKAPYLEREEEHALAYRWKD--------------HR-------------------------DEDALHRI 45 (289)
T ss_pred hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--------------CC-------------------------CHHHHHHH
Confidence 3567789999999999999999999987642 02 24899999
Q ss_pred HHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHh
Q 014193 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 412 (429)
Q Consensus 334 IesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e 412 (429)
|..|+|+|+++|++|.+.+.+.+||+|||++|||+|+++|||++|.+|+|||.||||++|.++|+++++++|+|.+...
T Consensus 46 v~~~~~lV~~~a~~~~~~~~~~eDLvQeg~i~L~~a~~~fd~~~~~~f~tya~~~Ir~~I~~~lr~~~~~iR~p~~~~~ 124 (289)
T PRK07500 46 ISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQ 124 (289)
T ss_pred HHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHCCCceecCccHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999988654
No 15
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain. This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc.
Probab=99.89 E-value=2.4e-23 Score=197.67 Aligned_cols=96 Identities=46% Similarity=0.812 Sum_probs=91.4
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccch
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPV 408 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~ 408 (429)
|+++||..|+++|+++|++|.++|++++||+|||++||++|+++|||++|++|+|||.||||++|.++++++.+.+|+|.
T Consensus 1 a~~~Li~~~~~lv~~ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~~~~vrip~ 80 (238)
T TIGR02393 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80 (238)
T ss_pred CHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHcCCcEEeCH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhhhhHHHHHHHHh
Q 014193 409 MTFNLSPIYIFKFYVF 424 (429)
Q Consensus 409 ~~~e~l~ki~ra~~~L 424 (429)
++.+.++++.++...|
T Consensus 81 ~~~~~~~~~~~~~~~l 96 (238)
T TIGR02393 81 HMVETINKLIKAERQL 96 (238)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999998888766544
No 16
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=99.89 E-value=1.9e-22 Score=201.66 Aligned_cols=130 Identities=43% Similarity=0.752 Sum_probs=119.6
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHH
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~ 332 (429)
..|.++.|+.+|+..|+||+++|.+|+.+++. |+ ..|++.
T Consensus 51 ~~~~~~~y~~~~~~~~~l~~~ee~~li~~~~~---------------Gd-------------------------~~A~~~ 90 (325)
T PRK05657 51 VLDATQLYLNEIGYSPLLTAEEEVYFARRALR---------------GD-------------------------FAARQR 90 (325)
T ss_pred cccHHHHHHHHHhcCCCCCHHHHHHHHHHHHc---------------CC-------------------------HHHHHH
Confidence 46889999999999999999999999887654 22 379999
Q ss_pred HHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHh
Q 014193 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFN 412 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e 412 (429)
||..|.++|+++|.+|.+++.+.+||+|||++||++++++||+++|++|+||+.||||++|.++++++.+.+|+|.++..
T Consensus 91 Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~fd~~rg~~Fstyatw~iR~ai~~~i~~~~r~ir~p~~~~~ 170 (325)
T PRK05657 91 MIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVVK 170 (325)
T ss_pred HHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHHHHHHHHHcCCccccCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred hhhHHHHHHH
Q 014193 413 LSPIYIFKFY 422 (429)
Q Consensus 413 ~l~ki~ra~~ 422 (429)
.++.+.++..
T Consensus 171 ~l~~~~R~~~ 180 (325)
T PRK05657 171 ELNVYLRAAR 180 (325)
T ss_pred HHHHHHHHHH
Confidence 8776666654
No 17
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=99.88 E-value=2.3e-22 Score=193.80 Aligned_cols=100 Identities=28% Similarity=0.435 Sum_probs=93.3
Q ss_pred ccH-HHHHHHHHHhHHHHHHHHHHcccC-CCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 325 SGN-SSREKLINANLRLVVHVAKQYQGR-GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 325 ~G~-~Are~LIesnL~LV~sIAkrY~~r-Gld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.|+ .|+++||..|+|+|+++|++|.++ +.+++||+|||+||||+|+++|||++|++|+|||+|||+++|.++++++.+
T Consensus 21 ~gd~~a~~~Lv~~~~~lV~~ia~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~~~ 100 (256)
T PRK07408 21 NPSIALRNQLVELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEIQHYLRDKSP 100 (256)
T ss_pred CCCHHHHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHcCC
Confidence 444 899999999999999999999876 677999999999999999999999999999999999999999999999999
Q ss_pred CcccchhHHhhhhHHHHHHHHh
Q 014193 403 TIRLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 403 ~IRlP~~~~e~l~ki~ra~~~L 424 (429)
+||+|+++.+.++++.++...|
T Consensus 101 ~vr~pr~~~~~~~~~~~~~~~l 122 (256)
T PRK07408 101 TVRIPRRWQELQRQAKKVRQEL 122 (256)
T ss_pred eeeeCHHHHHHHHHHHHHHHHH
Confidence 9999999999999988876654
No 18
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=99.85 E-value=5.7e-21 Score=185.60 Aligned_cols=106 Identities=26% Similarity=0.482 Sum_probs=97.8
Q ss_pred HHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCC-CHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHH
Q 014193 318 DLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGI-SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395 (429)
Q Consensus 318 eL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGl-d~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~ 395 (429)
.+....+.|+ .++ +||+.|+|||.++|++|.++|. +++||+|.|+|||++||++|||++|.+|+|||..+|+++|.+
T Consensus 13 ~~~~~~~~g~~~~~-~Li~~ylpLV~~ia~k~~~r~~~~~dDLiqiG~iGLi~Aieryd~~kg~kF~tyA~~~I~Gei~d 91 (247)
T COG1191 13 KLLEYYAEGDEEAR-RLIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIKAIERYDPSKGTKFSTYAVRRIRGEILD 91 (247)
T ss_pred HHHHHHHhcCHHHH-HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHHHcCcccCcchHHHHHHHHHHHHHH
Confidence 3455556677 788 9999999999999999998888 999999999999999999999999999999999999999999
Q ss_pred HHHhcCCCcccchhHHhhhhHHHHHHHHhh
Q 014193 396 AIFQHSRTIRLPVMTFNLSPIYIFKFYVFS 425 (429)
Q Consensus 396 aIrkqsr~IRlP~~~~e~l~ki~ra~~~Ls 425 (429)
++|+++ .+++|+.+.+..+++..+...|.
T Consensus 92 ~LR~~~-~v~vpR~~~~~~~~i~~~~~~l~ 120 (247)
T COG1191 92 YLRKND-SVKVPRSLRELGRRIEEAIDELE 120 (247)
T ss_pred HHHhCC-CccCcHHHHHHHHHHHHHHHHHH
Confidence 999999 99999999999999998888653
No 19
>TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393).
Probab=99.85 E-value=2.2e-20 Score=182.22 Aligned_cols=133 Identities=43% Similarity=0.729 Sum_probs=120.7
Q ss_pred CCCCCCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHH
Q 014193 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328 (429)
Q Consensus 249 ~~~~~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~ 328 (429)
......|.++.||.+|+.++.||.++|.+|+..++. |+ ..
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~---------------gd-------------------------~~ 46 (285)
T TIGR02394 7 TETRVADVTQLYLREIGFKPLLTAEEEIAYARRALA---------------GD-------------------------FE 46 (285)
T ss_pred cccCcchHHHHHHHHHhccCCCCHHHHHHHHHHHHc---------------CC-------------------------HH
Confidence 344567899999999999999999999999887654 22 37
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccch
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPV 408 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~ 408 (429)
|++.|+..|.++|+.+|.+|.+.+.+.+||+|||+|||++|+++||+.+|++|+||+.|||+.+|.++++++.+.+++|.
T Consensus 47 a~~~L~~~y~~~v~~~a~~~~~~~~~aeDLvQe~~i~l~~a~~~fd~~~g~~f~tya~w~i~~ain~~i~~~~~~~~~p~ 126 (285)
T TIGR02394 47 ARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERAIMNQARTIRLPV 126 (285)
T ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCCcHhhhHHHHHHHHHHHHHHcCCceeCcH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhhhhHHHHHH
Q 014193 409 MTFNLSPIYIFKF 421 (429)
Q Consensus 409 ~~~e~l~ki~ra~ 421 (429)
++....+.+.+..
T Consensus 127 ~~~~~~~~~~r~~ 139 (285)
T TIGR02394 127 HVIKELNVYLRAA 139 (285)
T ss_pred HHHHHHHHHHHHH
Confidence 9988877765554
No 20
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=99.84 E-value=4.1e-20 Score=177.38 Aligned_cols=120 Identities=31% Similarity=0.467 Sum_probs=107.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014193 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (429)
Q Consensus 264 i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV~s 343 (429)
.+++|+||++||.+|+..++. | +..|+++|+..|+++|++
T Consensus 10 ~~~~~~l~~~~~~~li~~~~~---------------g-------------------------d~~a~~~L~~~~~~~v~~ 49 (254)
T TIGR02850 10 TSKLPVLKNQEMRELFIRMQS---------------G-------------------------DTTAREKLINGNLRLVLS 49 (254)
T ss_pred ccCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHhHHHHHH
Confidence 467899999999888876553 2 237999999999999999
Q ss_pred HHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhhhhHHHHHHHH
Q 014193 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYV 423 (429)
Q Consensus 344 IAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~l~ki~ra~~~ 423 (429)
+|++|.+.+.+.+||+|||++||++++++|||.+|.+|+||+++||++.|.++++++. .+|+|+++.+.+.++.++...
T Consensus 50 ~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~tyl~~~irn~~~~~lr~~~-~ir~p~~~~~~~~~~~~~~~~ 128 (254)
T TIGR02850 50 VIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDK 128 (254)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHhCC-CccCchHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999975 889999999888887766554
Q ss_pred h
Q 014193 424 F 424 (429)
Q Consensus 424 L 424 (429)
+
T Consensus 129 l 129 (254)
T TIGR02850 129 L 129 (254)
T ss_pred H
Confidence 3
No 21
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=99.84 E-value=2.2e-20 Score=180.42 Aligned_cols=97 Identities=24% Similarity=0.384 Sum_probs=88.0
Q ss_pred ccH-HHHHHHHHHhHHHHHHHHHHccc---CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhc
Q 014193 325 SGN-SSREKLINANLRLVVHVAKQYQG---RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400 (429)
Q Consensus 325 ~G~-~Are~LIesnL~LV~sIAkrY~~---rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkq 400 (429)
.|+ .|+++||..|+|+|+++|++|.+ .+++++||+|+|+|||++|+++|||++|++|+|||.||||++|.+++|++
T Consensus 19 ~~~~~ar~~Li~~~~~lV~~ia~~~~~~~~~~~~~eDL~QeG~igL~~ai~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~ 98 (257)
T PRK05911 19 TQEIEYRDVLIEFYLPLVKNVAHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAIIDDLRKQ 98 (257)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHhc
Confidence 344 89999999999999999999862 45789999999999999999999999999999999999999999999998
Q ss_pred CCCcccchhHHhhhhHHHHHHHHh
Q 014193 401 SRTIRLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 401 sr~IRlP~~~~e~l~ki~ra~~~L 424 (429)
.+ +|+++.+.++++.++...|
T Consensus 99 ~~---~pr~~~~~~~~l~~~~~~l 119 (257)
T PRK05911 99 DW---VPRSVHQKANKLADAMDSL 119 (257)
T ss_pred CC---CCHHHHHHHHHHHHHHHHH
Confidence 76 7999999999987776544
No 22
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=99.83 E-value=7.8e-20 Score=175.61 Aligned_cols=118 Identities=31% Similarity=0.489 Sum_probs=105.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014193 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (429)
Q Consensus 264 i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV~s 343 (429)
..++|+|+++|+..|+.+++. | +..++++|+..|+|+|++
T Consensus 13 ~~~~~~l~~~~~~~l~~~~~~---------------g-------------------------d~~a~~~l~~~~~~~v~~ 52 (258)
T PRK08215 13 TSKLPVLKNEEMRELFERMQN---------------G-------------------------DKEAREKLINGNLRLVLS 52 (258)
T ss_pred CCCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHHHHHHHH
Confidence 456789999999888876553 2 247899999999999999
Q ss_pred HHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhhhhHHHHHHH
Q 014193 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFY 422 (429)
Q Consensus 344 IAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~l~ki~ra~~ 422 (429)
+|++|.+.+.+.+||+|||++||++|+++||+++|.+|+||+++||+++|.++++++. .+|+|+++.....++.++..
T Consensus 53 ~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l~~~ir~~i~~~lr~~~-~vrip~~~~~~~~~~~~~~~ 130 (258)
T PRK08215 53 VIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRE 130 (258)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhCC-ceEecHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999985 88999999988877766654
No 23
>TIGR02941 Sigma_B RNA polymerase sigma-B factor. This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus, Listeria and Bacillus.
Probab=99.79 E-value=2.2e-18 Score=164.88 Aligned_cols=98 Identities=21% Similarity=0.348 Sum_probs=91.8
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCccc
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRl 406 (429)
..|+++|+..|.|+|+++|++|.+.+.+.+||+|||++|||+|+++||+++|.+|.||+.+||++.|.++++++.+.+++
T Consensus 28 ~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~~~~~~~~~f~tyl~~~i~n~~~~~lr~~~~~iri 107 (255)
T TIGR02941 28 GEAQEKLVDHYQNLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIIGEIKRYLRDKTWSVHV 107 (255)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCcCCCCcHhHHHHHHHHHHHHHHHHcCCCcCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHhhhhHHHHHHHHh
Q 014193 407 PVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 407 P~~~~e~l~ki~ra~~~L 424 (429)
|.++.+..+++.+....+
T Consensus 108 ~~~~~~~~~~~~~~~~~l 125 (255)
T TIGR02941 108 PRRIKELGPKIKKAIDEL 125 (255)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 999998887776665544
No 24
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=99.78 E-value=1.6e-18 Score=162.44 Aligned_cols=98 Identities=28% Similarity=0.471 Sum_probs=91.1
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCccc
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRl 406 (429)
..|+++||..|.|+|+++|++|.+++.+.+||+|||++||++|+++||+++|.+|+||+.+||++.|.++++++.+.+|+
T Consensus 2 ~~a~~~lv~~y~~~v~~~a~~~~~~~~~~eDl~Qe~~i~l~~a~~~f~~~~~~~F~ty~~~~i~~~~~~~~r~~~~~~ri 81 (227)
T TIGR02980 2 KEAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAVPTIMGEIKRFFRDDTWAVRV 81 (227)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCcHHHHHHHHHHHHHHHHHHcCCceec
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHhhhhHHHHHHHHh
Q 014193 407 PVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 407 P~~~~e~l~ki~ra~~~L 424 (429)
|.++.++++++.++...+
T Consensus 82 ~~~~~~~~~~~~~~~~~l 99 (227)
T TIGR02980 82 PRRLKELGLKINKATEEL 99 (227)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 999988877776655443
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=99.77 E-value=2.3e-18 Score=162.11 Aligned_cols=101 Identities=28% Similarity=0.462 Sum_probs=93.0
Q ss_pred hhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 323 LHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 323 lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
++.|+ .++++|+..|.|+|+++|++|.+.+.+.+||+|||++||++++++||+++|.+|.||+++||++.|.+++|++.
T Consensus 5 ~~~gd~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~i~l~~a~~~f~~~~~~~f~tyl~~~i~~~i~~~lr~~~ 84 (231)
T TIGR02885 5 AQNGDKEARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKRFLRDDG 84 (231)
T ss_pred HHcCCHHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhCC
Confidence 34455 89999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred CCcccchhHHhhhhHHHHHHHHh
Q 014193 402 RTIRLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 402 r~IRlP~~~~e~l~ki~ra~~~L 424 (429)
.+|+|+++.+.+.++.+....|
T Consensus 85 -~i~~p~~~~~~~~~~~~~~~~l 106 (231)
T TIGR02885 85 -IIKVSRSLKELARKIRYMKEEL 106 (231)
T ss_pred -CeECCHHHHHHHHHHHHHHHHH
Confidence 8999999999988887766543
No 26
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=99.76 E-value=7.1e-18 Score=163.15 Aligned_cols=117 Identities=23% Similarity=0.289 Sum_probs=100.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHH
Q 014193 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343 (429)
Q Consensus 264 i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV~s 343 (429)
.|++|+||.++|.+|+..++. + .+..+++.|+..|+|+|+.
T Consensus 6 ~~~~~~~~~~~e~~l~~~~~~---------------~------------------------~d~~a~~~l~~~y~~lv~~ 46 (268)
T PRK06288 6 SGKIPKYAQQDETELWREYKK---------------T------------------------GDPKIREYLILKYSPLVKY 46 (268)
T ss_pred cCCCccccchHHHHHHHHHHH---------------c------------------------CCHHHHHHHHHHHHHHHHH
Confidence 478999999999999987654 1 1247899999999999999
Q ss_pred HHHHcc-c--CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhhhhHHHHH
Q 014193 344 VAKQYQ-G--RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFK 420 (429)
Q Consensus 344 IAkrY~-~--rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~l~ki~ra 420 (429)
+|++|. + .+.+.+||+|||++|||+|+++||+.+|.+|+||+.+|||+.|.+++|+.. ++|+++......+.++
T Consensus 47 ~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd~~~~~~f~ty~~~~ir~~i~d~~R~~~---~~p~~~~~~~~~i~~~ 123 (268)
T PRK06288 47 VAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIFDELRSID---WIPRSVRQKARQIERA 123 (268)
T ss_pred HHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC---ccCHHHHHHHHHHHHH
Confidence 999986 2 567899999999999999999999999999999999999999999999864 4799998777666554
Q ss_pred HH
Q 014193 421 FY 422 (429)
Q Consensus 421 ~~ 422 (429)
..
T Consensus 124 ~~ 125 (268)
T PRK06288 124 IA 125 (268)
T ss_pred HH
Confidence 43
No 27
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=99.76 E-value=1.3e-17 Score=159.83 Aligned_cols=97 Identities=22% Similarity=0.339 Sum_probs=91.1
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCccc
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRl 406 (429)
..|+++|+..|.|+|+++|++|.+.+.+.+||+|||++||++++++||+++|.+|.||+.+||++.|.++++++.+.+++
T Consensus 28 ~~a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~l~l~~~~~~f~~~~~~~f~tyl~~~i~n~~~~~lr~~~~~~~i 107 (257)
T PRK08583 28 EEAQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRDKTWSVHV 107 (257)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCccCCCChHHHHHHHHHHHHHHHHHhcCCCcCC
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHhhhhHHHHHHHH
Q 014193 407 PVMTFNLSPIYIFKFYV 423 (429)
Q Consensus 407 P~~~~e~l~ki~ra~~~ 423 (429)
|++..+..+++.+++..
T Consensus 108 ~r~~~~~~~~~~~~~~~ 124 (257)
T PRK08583 108 PRRIKELGPKIKKAVDE 124 (257)
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 99998888777666554
No 28
>PRK05572 sporulation sigma factor SigF; Validated
Probab=99.71 E-value=1.7e-16 Score=152.07 Aligned_cols=122 Identities=27% Similarity=0.397 Sum_probs=107.4
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHH
Q 014193 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341 (429)
Q Consensus 262 ~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV 341 (429)
+.-...|.||.+++.+|+..++. | +..++++|+..|.++|
T Consensus 6 ~~~~~~~~l~~~~~~~li~~~~~---------------g-------------------------d~~a~~~L~~~y~~~v 45 (252)
T PRK05572 6 KNKKKKPQLKDEENKELIKKSQD---------------G-------------------------DQEARDTLVEKNLRLV 45 (252)
T ss_pred ccCcCCCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHHHhHHHH
Confidence 44567899999988888765432 2 2379999999999999
Q ss_pred HHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchhHHhhhhHHHHHH
Q 014193 342 VHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVMTFNLSPIYIFKF 421 (429)
Q Consensus 342 ~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~~e~l~ki~ra~ 421 (429)
+.+|.+|.+.+.+.+||+|||++++++++++||+.+|.+|.||+++||++.|.+++++.. .+|+|+++.+...++.++.
T Consensus 46 ~~~a~~~~~~~~~aeDl~Qe~~l~l~~~~~~f~~~~~~~f~twl~~~i~~~i~~~lr~~~-~~r~~~~~~~~~~~~~~~~ 124 (252)
T PRK05572 46 WSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDK 124 (252)
T ss_pred HHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHhCC-CCCCCHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999889999999999999999999985 7899999999888887776
Q ss_pred HHh
Q 014193 422 YVF 424 (429)
Q Consensus 422 ~~L 424 (429)
..+
T Consensus 125 ~~l 127 (252)
T PRK05572 125 DEL 127 (252)
T ss_pred HHH
Confidence 654
No 29
>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=99.71 E-value=5.6e-17 Score=155.00 Aligned_cols=101 Identities=18% Similarity=0.240 Sum_probs=87.1
Q ss_pred HhhccHHHHHHHHHHhHHHHHHHHHHcccCC--CCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHh
Q 014193 322 ELHSGNSSREKLINANLRLVVHVAKQYQGRG--ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQ 399 (429)
Q Consensus 322 ~lk~G~~Are~LIesnL~LV~sIAkrY~~rG--ld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrk 399 (429)
.++.|+..+++||..|.|+|.++|.+|.+++ .+.+|++|+|++||++|+++||+++|.+|.+||.+||+++|.+++|+
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 4577886699999999999999999998775 58999999999999999999999999999999999999999999999
Q ss_pred cC---CCcccchhHHhhhhHHHHHHH
Q 014193 400 HS---RTIRLPVMTFNLSPIYIFKFY 422 (429)
Q Consensus 400 qs---r~IRlP~~~~e~l~ki~ra~~ 422 (429)
+. +.+++|....+....+..+..
T Consensus 83 ~~k~~~~v~~~~~~~e~~~~~~~~~~ 108 (218)
T TIGR02895 83 NQKYQNLLYLDEDYDENPLEFNKSME 108 (218)
T ss_pred cccccCeeeCCchHHHHHHHHHHHHH
Confidence 87 677998766554444444333
No 30
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=99.67 E-value=2.5e-16 Score=150.27 Aligned_cols=93 Identities=23% Similarity=0.224 Sum_probs=81.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHccc---CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCc
Q 014193 328 SSREKLINANLRLVVHVAKQYQG---RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTI 404 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~---rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~I 404 (429)
.....|+..|+|+|.++|++|.. .+++.+||+|||+||||+|+++||+.+| +|+||+.|||||+|.++|++..+
T Consensus 15 ~~~~~lv~~y~~lV~~la~~~~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~-~F~tYa~~~Ir~~il~~lr~~~~-- 91 (231)
T PRK12427 15 QEEGKYLNAYLPLVKKVVRQLAFQADSVIDREDMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILDELRELDW-- 91 (231)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCCCC-ChHHHHHHHHHHHHHHHHHhcCC--
Confidence 45668999999999999999985 3579999999999999999999998666 89999999999999999999776
Q ss_pred ccchhHHhhhhHHHHHHHHh
Q 014193 405 RLPVMTFNLSPIYIFKFYVF 424 (429)
Q Consensus 405 RlP~~~~e~l~ki~ra~~~L 424 (429)
+|+++....+++.++...|
T Consensus 92 -~~r~vr~~~~~i~~~~~~l 110 (231)
T PRK12427 92 -RPRRLRQKTHKTNDAIREI 110 (231)
T ss_pred -CCHHHHHHHHHHHHHHHHH
Confidence 4888888777777666544
No 31
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=99.67 E-value=4e-16 Score=149.44 Aligned_cols=105 Identities=21% Similarity=0.292 Sum_probs=90.9
Q ss_pred HHHHHHHhh-ccH-HHHHHHHHHhHHHHHHHHHHccc---CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHH
Q 014193 316 CRDLKSELH-SGN-SSREKLINANLRLVVHVAKQYQG---RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390 (429)
Q Consensus 316 ~eeL~~~lk-~G~-~Are~LIesnL~LV~sIAkrY~~---rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR 390 (429)
+.+|++.+. .|+ .|++.|+..|.|+|+.+|.+|.+ .+.+.+||+|||++|||+++++||+++|.+|.||+++||+
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 455666633 445 89999999999999999999965 5789999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCcccchhHHhhhhHHHHHHHH
Q 014193 391 QTIRKAIFQHSRTIRLPVMTFNLSPIYIFKFYV 423 (429)
Q Consensus 391 ~aI~~aIrkqsr~IRlP~~~~e~l~ki~ra~~~ 423 (429)
+.|.+++|++. ++|.++.+.++++.++...
T Consensus 88 n~~~d~lR~~~---~~p~~~~~~~~~~~~~~~~ 117 (251)
T PRK07670 88 GAIIDGLRKED---WLPRSMREKTKKVEAAIEK 117 (251)
T ss_pred HHHHHHHHhcC---CCCHHHHHHHHHHHHHHHH
Confidence 99999999976 5799888888777555543
No 32
>TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family. Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium.
Probab=99.64 E-value=1e-15 Score=143.75 Aligned_cols=89 Identities=24% Similarity=0.395 Sum_probs=79.9
Q ss_pred HHHHhHHHHHHHHHHccc---CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccchh
Q 014193 333 LINANLRLVVHVAKQYQG---RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPVM 409 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~---rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~ 409 (429)
|+..|.|+|+++|++|.+ .+.+.+||+|||++||++|+++|||++|.+|+||+.+||++.|.+++|+.. ++|.+
T Consensus 1 L~~~~~~lv~~~a~~~~~~~~~~~~~eDl~Qe~~~~l~~a~~~fd~~~~~~f~t~~~~~i~~~~~~~lr~~~---~~p~~ 77 (224)
T TIGR02479 1 LIRRYLPLVKRIAGRLSVGLPSSVELDDLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRLD---WVPRS 77 (224)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHHcC---ccCHH
Confidence 688999999999999986 689999999999999999999999999999999999999999999999875 47998
Q ss_pred HHhhhhHHHHHHHHh
Q 014193 410 TFNLSPIYIFKFYVF 424 (429)
Q Consensus 410 ~~e~l~ki~ra~~~L 424 (429)
+...++++.++...|
T Consensus 78 ~~~~~~~l~~~~~~l 92 (224)
T TIGR02479 78 LRQKARKLERAIREL 92 (224)
T ss_pred HHHHHHHHHHHHHHH
Confidence 888877776665433
No 33
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=99.61 E-value=5.8e-15 Score=139.86 Aligned_cols=107 Identities=27% Similarity=0.499 Sum_probs=96.8
Q ss_pred HHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHH
Q 014193 256 PLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335 (429)
Q Consensus 256 ~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIe 335 (429)
.+..|+.+++..++||+++|..|+..++. | +..|++.|+.
T Consensus 17 ~~~~~~~~~~~~~~~~~~~e~~l~~~~~~---------------g-------------------------d~~a~~~l~~ 56 (233)
T PRK05803 17 FLVSYVKNNSFPQPLSEEEERKYLELMKE---------------G-------------------------DEEARNILIE 56 (233)
T ss_pred HHHHHHHHhcccCCCCHHHHHHHHHHHHc---------------C-------------------------CHHHHHHHHH
Confidence 57889999999999999999887766443 2 2479999999
Q ss_pred HhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 336 snL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.|.|+|++++.+|.+.+.+.+|++|||++||++++++||+++|.+|.+|+.+|+++.+.+++|++.+
T Consensus 57 ~y~~~l~~~a~~~~~~~~daeDlvQE~fi~l~~~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~~~ 123 (233)
T PRK05803 57 RNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYAARCIENEILMHLRNLKK 123 (233)
T ss_pred HhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999989999999999999999999998654
No 34
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=99.58 E-value=1e-14 Score=138.25 Aligned_cols=95 Identities=19% Similarity=0.338 Sum_probs=83.6
Q ss_pred ccHHHHHHHHHHhHHHHHHHHHHcc---cCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 325 SGNSSREKLINANLRLVVHVAKQYQ---GRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 325 ~G~~Are~LIesnL~LV~sIAkrY~---~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
.|.-++++|+..|.|+|+.+|.+|. +.+.+.+||+|||++|||+++++||+++|.+|+||+.+||++.|.+++|++.
T Consensus 5 ~~~~~~~~L~~~~~~~v~~~a~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn~~~~~lR~~~ 84 (236)
T PRK06986 5 EGKMDQDELVEQYAPLVKRIALRLKARLPASVDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSLD 84 (236)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHcC
Confidence 4677999999999999999999997 5689999999999999999999999999999999999999999999999986
Q ss_pred CCcccchhHHhhhhHHHHHHH
Q 014193 402 RTIRLPVMTFNLSPIYIFKFY 422 (429)
Q Consensus 402 r~IRlP~~~~e~l~ki~ra~~ 422 (429)
+ +|..+.....++.+++.
T Consensus 85 ~---~~~~~~~~~~~~~~~~~ 102 (236)
T PRK06986 85 W---VPRSVRRNAREVAQAIR 102 (236)
T ss_pred C---CCHHHHHHHHHHHHHHH
Confidence 5 57777666555544433
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=99.36 E-value=7.3e-12 Score=118.51 Aligned_cols=75 Identities=33% Similarity=0.641 Sum_probs=71.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.|++.|+..|.|+|+++|.+|.+...+.+|++||+++++++++++|++++|..|.||+.+++++.+.+++|+..+
T Consensus 48 ~af~~l~~~y~~~v~~~~~~~~~~~~dAEDlvQevfi~l~~~~~~~~~~~~~~f~twl~~i~rN~~~d~~Rk~~r 122 (227)
T TIGR02846 48 EARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAARCIENEILMHLRALKK 122 (227)
T ss_pred HHHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCcccCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 899999999999999999999998899999999999999999999999988899999999999999999998754
No 36
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=99.33 E-value=8e-12 Score=120.89 Aligned_cols=92 Identities=21% Similarity=0.340 Sum_probs=82.5
Q ss_pred CHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCC--CHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHH
Q 014193 315 SCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGI--SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391 (429)
Q Consensus 315 ~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGl--d~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~ 391 (429)
+.++|+..++.|+ .|++.|+..|.|+|+++|.+|.++.. +.+|++|+|++++++++++||+++|..|.+|+..+|++
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 4567788888887 89999999999999999999988765 58999999999999999999999998899999999999
Q ss_pred HHHHHHHhcCCCccc
Q 014193 392 TIRKAIFQHSRTIRL 406 (429)
Q Consensus 392 aI~~aIrkqsr~IRl 406 (429)
.+.+++|++.+...+
T Consensus 84 ~~iDylRk~~~~~~~ 98 (237)
T PRK08311 84 RLIDYFRKESKHNLV 98 (237)
T ss_pred HHHHHHHHhhccccc
Confidence 999999997764443
No 37
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=99.32 E-value=7.5e-12 Score=118.22 Aligned_cols=88 Identities=32% Similarity=0.579 Sum_probs=81.6
Q ss_pred CHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHH
Q 014193 315 SCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393 (429)
Q Consensus 315 ~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI 393 (429)
++.+|+..++.|+ .+++.|+..|.++|+.+|.+|.+.+.+.+|++||+++++++++++||+.++++|.||+..++++.+
T Consensus 38 ~~~~L~~~~~~gd~~af~~l~~~y~~~l~~~a~~~~~~~~~AeDlvQevfl~l~~~~~~f~~~~~~~f~twl~~iarn~~ 117 (234)
T PRK08301 38 EEEYLLNKLPKGDEAVRSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYASRCIENEI 117 (234)
T ss_pred HHHHHHHHHHccCHHHHHHHHHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHH
Confidence 3567788888888 899999999999999999999999999999999999999999999999888899999999999999
Q ss_pred HHHHHhcCC
Q 014193 394 RKAIFQHSR 402 (429)
Q Consensus 394 ~~aIrkqsr 402 (429)
.+++|++.+
T Consensus 118 ~d~lRk~~~ 126 (234)
T PRK08301 118 LMYLRRNNK 126 (234)
T ss_pred HHHHHHHhc
Confidence 999998754
No 38
>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=99.32 E-value=8.1e-12 Score=95.62 Aligned_cols=70 Identities=23% Similarity=0.432 Sum_probs=67.3
Q ss_pred HHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 333 LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
|++.|.|+|+.++.+|.+.+.+.+|++||++++|++++++||+++|..|.+|+...+++.+.+.++++.+
T Consensus 1 L~~~~~~~l~~~~~~~~~~~~~~eD~~qe~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~r~~~r 70 (71)
T PF04542_consen 1 LYERYYPLLYRYARRYTGDPEDAEDLVQEAFIKLWRAIDSYDPDRGDSFRAWLFRIARNRILDYLRKRRR 70 (71)
T ss_dssp HHHHTHHHHHHHHHTCTTCSSHHHHHHHHHHHHHHHHHHHTSTTSSSHHHHHHHHHHHHHHHHHHHCSSS
T ss_pred CHHHHHHHHHHHHHHHhCCHhhHHHHhhHHHHHHHhhhhcccccccCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 6899999999999999999999999999999999999999999999889999999999999999999765
No 39
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=99.31 E-value=1.2e-11 Score=113.42 Aligned_cols=90 Identities=28% Similarity=0.362 Sum_probs=82.3
Q ss_pred cCCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHH
Q 014193 313 GLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391 (429)
Q Consensus 313 gm~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~ 391 (429)
.+++++|+..+..|+ .+++.|+..|.++|+.+|.+|.+.+.+.+|++||++++|++++.+||+.+|.+|.||++.+|++
T Consensus 8 ~~~~~~l~~~~~~~d~~a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n 87 (208)
T PRK08295 8 ELEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITR 87 (208)
T ss_pred CCChHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHH
Confidence 356678888888888 8999999999999999999999999999999999999999999999999878999999999999
Q ss_pred HHHHHHHhcCC
Q 014193 392 TIRKAIFQHSR 402 (429)
Q Consensus 392 aI~~aIrkqsr 402 (429)
.+.+++++..+
T Consensus 88 ~~~d~~r~~~r 98 (208)
T PRK08295 88 QIITAIKTANR 98 (208)
T ss_pred HHHHHHHHhhh
Confidence 99999986543
No 40
>TIGR02859 spore_sigH RNA polymerase sigma-H factor. Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt.
Probab=99.28 E-value=2.2e-11 Score=110.76 Aligned_cols=87 Identities=30% Similarity=0.407 Sum_probs=80.7
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
|++++|+..++.|+ .|++.|+..|.|.|+.+|.++.+...+.+|++||+++++++++.+|++..|..|.||++.+|++.
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 67788999999988 89999999999999999999999889999999999999999999999988789999999999999
Q ss_pred HHHHHHhc
Q 014193 393 IRKAIFQH 400 (429)
Q Consensus 393 I~~aIrkq 400 (429)
+.+++++.
T Consensus 84 ~~~~~r~~ 91 (198)
T TIGR02859 84 IITAIKTA 91 (198)
T ss_pred HHHHHHHH
Confidence 88888743
No 41
>TIGR02835 spore_sigmaE RNA polymerase sigma-E factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active.
Probab=99.24 E-value=5.3e-11 Score=113.17 Aligned_cols=87 Identities=32% Similarity=0.597 Sum_probs=80.8
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 394 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~ 394 (429)
+++|+..++.|+ .+++.|+..|.+.|+.++.+|.+.+.+.+|++||+++++++++++|++..+++|.||+..++++.+.
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 456777777777 9999999999999999999999999999999999999999999999998888899999999999999
Q ss_pred HHHHhcCC
Q 014193 395 KAIFQHSR 402 (429)
Q Consensus 395 ~aIrkqsr 402 (429)
+++|++.+
T Consensus 119 d~~Rk~~r 126 (234)
T TIGR02835 119 MYLRRNNK 126 (234)
T ss_pred HHHHHhcc
Confidence 99998664
No 42
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=99.14 E-value=2.3e-10 Score=103.86 Aligned_cols=88 Identities=16% Similarity=0.237 Sum_probs=81.5
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
|++++|+..+..|+ .+++.|+..|.++|+.+|.+|.+.+.+.+|++||++++|++++.+||++ +..|.+|++..+++.
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 56788999999888 9999999999999999999999999999999999999999999999986 457999999999999
Q ss_pred HHHHHHhcCC
Q 014193 393 IRKAIFQHSR 402 (429)
Q Consensus 393 I~~aIrkqsr 402 (429)
+.+++|++..
T Consensus 84 ~~d~~R~~~~ 93 (186)
T PRK05602 84 CYDRLRRRRE 93 (186)
T ss_pred HHHHHHhcCC
Confidence 9999998764
No 43
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=99.05 E-value=8.9e-10 Score=100.67 Aligned_cols=90 Identities=16% Similarity=0.229 Sum_probs=81.8
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++++|+..+..|+ .+++.|+..|.+.|+++|.++.+...+.+|++||+++++++++++|++. ..|.+|++..+++.
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 46788899999888 9999999999999999999999988899999999999999999999975 46999999999999
Q ss_pred HHHHHHhcCCCcc
Q 014193 393 IRKAIFQHSRTIR 405 (429)
Q Consensus 393 I~~aIrkqsr~IR 405 (429)
+.+.+|++.+..+
T Consensus 89 ~~~~~R~~~~~~~ 101 (194)
T PRK12513 89 LIDHWRRHGARQA 101 (194)
T ss_pred HHHHHHHhccccc
Confidence 9999998775443
No 44
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=99.05 E-value=6.3e-10 Score=98.61 Aligned_cols=80 Identities=18% Similarity=0.281 Sum_probs=72.3
Q ss_pred hhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 323 LHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 323 lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
++.|+ .|+++|+..|.++|+.++.+|.+.+.+.+|++||++++|++++++|+ .+.+|.+|+...+++.+.+.+++..
T Consensus 4 ~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~r~~~ 81 (182)
T PRK09652 4 VQRGDRAAFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFR--GGAAFYTWLYRIARNTAINYLRKQG 81 (182)
T ss_pred hhcCCHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHHHHHHHccc
Confidence 45566 89999999999999999999999889999999999999999999999 3458999999999999999999876
Q ss_pred CCc
Q 014193 402 RTI 404 (429)
Q Consensus 402 r~I 404 (429)
+..
T Consensus 82 ~~~ 84 (182)
T PRK09652 82 RRP 84 (182)
T ss_pred CCC
Confidence 543
No 45
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=99.04 E-value=1.4e-09 Score=99.56 Aligned_cols=89 Identities=12% Similarity=0.202 Sum_probs=80.3
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCC---CCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRG---ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWV 389 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rG---ld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wI 389 (429)
|++++|+..+..|+ .++++|+..|.+.|++++.++.+.+ .+.+|++||++++|++++++|+++.+ .|.+|++..+
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 57788999999988 8999999999999999999998753 46899999999999999999997655 7999999999
Q ss_pred HHHHHHHHHhcCCC
Q 014193 390 RQTIRKAIFQHSRT 403 (429)
Q Consensus 390 R~aI~~aIrkqsr~ 403 (429)
++.+.+++|++.+.
T Consensus 82 rn~~~d~~rk~~~~ 95 (189)
T PRK06811 82 KYKAIDYKRKLTKN 95 (189)
T ss_pred HHHHHHHHHHhccc
Confidence 99999999987644
No 46
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=99.03 E-value=9.5e-10 Score=92.60 Aligned_cols=72 Identities=25% Similarity=0.465 Sum_probs=68.6
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
|++.|+..|.++|.+++++|.+.+.+.+|++|||+++|+++++.|++. ..|.+|+..++++.+.++++++.+
T Consensus 2 a~~~l~~~~~~~v~~~~~~~~~~~~~~~D~~qe~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~rk~~~ 73 (158)
T TIGR02937 2 AFEELYERYLPLLYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRKRR 73 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCCc--chHHHHHHHHHHHHHHHHHHHhcc
Confidence 678999999999999999999998999999999999999999999998 689999999999999999999875
No 47
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=99.02 E-value=1.3e-09 Score=100.08 Aligned_cols=87 Identities=10% Similarity=0.122 Sum_probs=79.6
Q ss_pred CHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHH
Q 014193 315 SCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393 (429)
Q Consensus 315 ~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI 393 (429)
+..+|+..+..|+ .++++|+..|.++|+.++.+|.+...+.+|++||+++++++++++||+.+| .|.+|++..+++.+
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 3467788888887 999999999999999999999999999999999999999999999998776 69999999999999
Q ss_pred HHHHHhcCC
Q 014193 394 RKAIFQHSR 402 (429)
Q Consensus 394 ~~aIrkqsr 402 (429)
.+.+|++.+
T Consensus 95 ~d~~r~~~~ 103 (194)
T PRK09646 95 VDRVRSEQA 103 (194)
T ss_pred HHHHHhhcc
Confidence 999998753
No 48
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=99.01 E-value=1.3e-09 Score=98.05 Aligned_cols=85 Identities=12% Similarity=0.223 Sum_probs=77.7
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 394 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~ 394 (429)
+++|+..++.|+ .++++|+..|.|+|+.+|.+|.+.+.+.+|++||+++++++++.+||+.. .|.+|+...+++.+.
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 356778888888 89999999999999999999999989999999999999999999999874 699999999999999
Q ss_pred HHHHhcCC
Q 014193 395 KAIFQHSR 402 (429)
Q Consensus 395 ~aIrkqsr 402 (429)
+++|+..+
T Consensus 83 ~~~rk~~~ 90 (187)
T TIGR02948 83 DRLRKRKP 90 (187)
T ss_pred HHHHhhcc
Confidence 99998654
No 49
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=99.01 E-value=1.4e-09 Score=98.42 Aligned_cols=88 Identities=16% Similarity=0.221 Sum_probs=80.2
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++++|+..+..|+ .+++.|+..|.+.|+.++.+|.+.+.+.+|++||+++++++++++|++..+ .|.+|++..+++.
T Consensus 8 ~~~~~l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~~~~~~~-~~~~wl~~ia~n~ 86 (186)
T PRK13919 8 LSDEALLALVARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDPRRG-SARAWLLALAHHA 86 (186)
T ss_pred cCHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhccCcccc-chHHHHHHHHHHH
Confidence 46778888888888 999999999999999999999988899999999999999999999997654 5999999999999
Q ss_pred HHHHHHhcCC
Q 014193 393 IRKAIFQHSR 402 (429)
Q Consensus 393 I~~aIrkqsr 402 (429)
+.+++|++.+
T Consensus 87 ~~d~~rk~~~ 96 (186)
T PRK13919 87 AVDHVRRRAA 96 (186)
T ss_pred HHHHHHhhhc
Confidence 9999998653
No 50
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=99.00 E-value=2.6e-09 Score=97.53 Aligned_cols=88 Identities=18% Similarity=0.295 Sum_probs=79.8
Q ss_pred cCCHHHHHHHhhc---cH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHH
Q 014193 313 GLSCRDLKSELHS---GN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388 (429)
Q Consensus 313 gm~~eeL~~~lk~---G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~w 388 (429)
.|++++|+..++. |+ .|++.|+..|.|.|+.++.+|.+...+.+|++||+++.+++++++|++. ..|.+|+..+
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 4778889988885 35 9999999999999999999999998999999999999999999999964 4799999999
Q ss_pred HHHHHHHHHHhcCC
Q 014193 389 VRQTIRKAIFQHSR 402 (429)
Q Consensus 389 IR~aI~~aIrkqsr 402 (429)
+++.+.+.+|+..+
T Consensus 85 a~n~~~d~~R~~~~ 98 (188)
T PRK09640 85 TYNECITQYRKERR 98 (188)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999998654
No 51
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=98.99 E-value=1.8e-09 Score=97.21 Aligned_cols=85 Identities=11% Similarity=0.215 Sum_probs=78.2
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 394 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~ 394 (429)
.+.|+..++.|+ .+++.|+..|.|+|+++|.+|.+.+.+.+|++||++++|++++.+|++. ..|.+|+...+++.+.
T Consensus 5 ~~~li~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~--~~~~~wl~~iarn~~~ 82 (187)
T PRK09641 5 IKRLIKQVKKGDQNAFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDIN--RKFSTWLYRIATNLTI 82 (187)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhCCC--cchhHHHHHHHHHHHH
Confidence 467788888888 8999999999999999999999998999999999999999999999985 3799999999999999
Q ss_pred HHHHhcCC
Q 014193 395 KAIFQHSR 402 (429)
Q Consensus 395 ~aIrkqsr 402 (429)
+++|++.+
T Consensus 83 d~~R~~~~ 90 (187)
T PRK09641 83 DRLRKRKP 90 (187)
T ss_pred HHHHhcCc
Confidence 99998754
No 52
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=98.99 E-value=2.9e-09 Score=96.88 Aligned_cols=86 Identities=21% Similarity=0.358 Sum_probs=76.4
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccC----CCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHH
Q 014193 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGR----GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391 (429)
Q Consensus 317 eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~r----Gld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~ 391 (429)
++|+..+..|+ .++++|+..|.+.|+.+|.++.+. +.+.+|++||++++|++++.+|+.. +..|.+|++..+++
T Consensus 12 ~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~~~~wl~~i~~n 90 (189)
T PRK09648 12 DALVAEAVAGDRRALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVITALPRYRDQ-GRPFLAFVYGIAAH 90 (189)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHHHHHHHhcc-CCcHHHHHHHHHHH
Confidence 45888888888 999999999999999999988653 3689999999999999999999864 45799999999999
Q ss_pred HHHHHHHhcCCC
Q 014193 392 TIRKAIFQHSRT 403 (429)
Q Consensus 392 aI~~aIrkqsr~ 403 (429)
.+.++++++.+.
T Consensus 91 ~~~d~~r~~~r~ 102 (189)
T PRK09648 91 KVADAHRAAGRD 102 (189)
T ss_pred HHHHHHHHhCCC
Confidence 999999987754
No 53
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=98.96 E-value=3.7e-09 Score=94.62 Aligned_cols=88 Identities=11% Similarity=0.227 Sum_probs=80.2
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
|++.+++..+..|+ .+++.|+..|.|.|+.++.+|.+...+.+|++||++++++++++.|++. .+|.+|+...+++.
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 55677888888888 9999999999999999999999988899999999999999999999974 47999999999999
Q ss_pred HHHHHHhcCCC
Q 014193 393 IRKAIFQHSRT 403 (429)
Q Consensus 393 I~~aIrkqsr~ 403 (429)
+.+++++..+.
T Consensus 81 ~~d~~r~~~~~ 91 (176)
T PRK09638 81 YKDHLRKQKRE 91 (176)
T ss_pred HHHHHHHhccc
Confidence 99999987643
No 54
>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=98.92 E-value=6.7e-09 Score=92.78 Aligned_cols=88 Identities=17% Similarity=0.185 Sum_probs=80.7
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
|++++|+..+..|+ .+++.|+..|.+.|++++.++.+...+.+|++||+++.+++..++|++. ..|.+|+...+++.
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 56778888888888 9999999999999999999999998999999999999999999999975 36999999999999
Q ss_pred HHHHHHhcCCC
Q 014193 393 IRKAIFQHSRT 403 (429)
Q Consensus 393 I~~aIrkqsr~ 403 (429)
+.+++|+..+.
T Consensus 79 ~~d~~R~~~~~ 89 (169)
T TIGR02954 79 CIDLLKKKKKV 89 (169)
T ss_pred HHHHHHhcCCc
Confidence 99999987654
No 55
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=98.92 E-value=6.7e-09 Score=98.49 Aligned_cols=90 Identities=16% Similarity=0.250 Sum_probs=81.1
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++++|+..+..|+ .+++.|+..|.++|+++|.++.+.+.+.+|++||++++|++.+++|++. ..|.+|+...+++.
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 45677888888887 9999999999999999999999998999999999999999999999986 47999999999999
Q ss_pred HHHHHHhcCCCcc
Q 014193 393 IRKAIFQHSRTIR 405 (429)
Q Consensus 393 I~~aIrkqsr~IR 405 (429)
+.+++|+..+..+
T Consensus 93 ~~d~~Rk~~r~~~ 105 (231)
T PRK11922 93 ALGRLRRRRRLVN 105 (231)
T ss_pred HHHHHHhhccccc
Confidence 9999998765444
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=98.91 E-value=6.8e-09 Score=91.86 Aligned_cols=83 Identities=13% Similarity=0.167 Sum_probs=73.9
Q ss_pred HHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHh
Q 014193 321 SELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQ 399 (429)
Q Consensus 321 ~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrk 399 (429)
..+.+|+ .+++.|+..|.+.++.++.++.+...+.+|++||+++.+++.+++|+...+ .|.+|+...+++.+.+++|+
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 4455666 899999999999999999988887789999999999999999999997655 79999999999999999998
Q ss_pred cCCCc
Q 014193 400 HSRTI 404 (429)
Q Consensus 400 qsr~I 404 (429)
+.+..
T Consensus 82 ~~~~~ 86 (170)
T TIGR02952 82 SKRHP 86 (170)
T ss_pred cCCCC
Confidence 76543
No 57
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=98.90 E-value=5.8e-09 Score=95.98 Aligned_cols=87 Identities=16% Similarity=0.187 Sum_probs=79.6
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++..|+..+..|+ .|++.|+..|.|.|+.+|.++.+...+.+|++||+++++++.+.+|++..| .|.+|+...+++.
T Consensus 11 ~~~~~li~~~~~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~~-~~~~wl~~ia~n~ 89 (196)
T PRK12524 11 VSDEALLVLYANGDPAAARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGEA-RVSTWLYRVVCNL 89 (196)
T ss_pred cCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhccccccc-hHHHHHHHHHHHH
Confidence 46788999999987 999999999999999999999998899999999999999999999986444 6999999999999
Q ss_pred HHHHHHhcC
Q 014193 393 IRKAIFQHS 401 (429)
Q Consensus 393 I~~aIrkqs 401 (429)
+.+.+|++.
T Consensus 90 ~~d~~Rk~~ 98 (196)
T PRK12524 90 CTDRLRRRR 98 (196)
T ss_pred HHHHHHhhc
Confidence 999999854
No 58
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=98.89 E-value=7.7e-09 Score=93.20 Aligned_cols=88 Identities=9% Similarity=0.056 Sum_probs=79.2
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
++..+|+..+..|+ .+++.|+..|.+.|+.+|.+|.+...+.+|++||+++++++++++|++..+ .|.+|+....++.
T Consensus 4 ~~~~~li~~~~~g~~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~fl~~~~~~~~~~~~~~-~~~~wl~~ia~n~ 82 (179)
T PRK12514 4 DDIEKLIVRVSLGDRDAFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSGL-SPMTWLITIARNH 82 (179)
T ss_pred hHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhHHhcCcccc-cHHHHHHHHHHHH
Confidence 45567788778887 899999999999999999999998899999999999999999999997654 5999999999999
Q ss_pred HHHHHHhcCC
Q 014193 393 IRKAIFQHSR 402 (429)
Q Consensus 393 I~~aIrkqsr 402 (429)
+.+++|++.+
T Consensus 83 ~~d~~R~~~~ 92 (179)
T PRK12514 83 AIDRLRARKA 92 (179)
T ss_pred HHHHHHhcCC
Confidence 9999998654
No 59
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=98.88 E-value=6.8e-09 Score=94.68 Aligned_cols=86 Identities=23% Similarity=0.291 Sum_probs=77.2
Q ss_pred CHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHH
Q 014193 315 SCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393 (429)
Q Consensus 315 ~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI 393 (429)
+..+|+..+..|+ .+++.|+..|.+.|+.++.++.+...+.+|++||+++++++. ..|++.++ .|.||++..+++.+
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 4567888888888 999999999999999999999988889999999999999975 67887665 79999999999999
Q ss_pred HHHHHhcCC
Q 014193 394 RKAIFQHSR 402 (429)
Q Consensus 394 ~~aIrkqsr 402 (429)
.+++|++.+
T Consensus 93 ~d~~Rk~~~ 101 (194)
T PRK12519 93 IDRLRSRRS 101 (194)
T ss_pred HHHHHhccc
Confidence 999998754
No 60
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=98.87 E-value=9.8e-09 Score=89.85 Aligned_cols=72 Identities=21% Similarity=0.259 Sum_probs=66.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
.++++|+..|.|+|+.+++++. ...+.+|++|||++++++++++||+..| .|.+|+...+++.+.++++++.
T Consensus 4 ~af~~l~~~y~~~l~~~~~~~~-~~~~aeDi~Qe~~l~l~~~~~~~~~~~~-~f~~wl~~i~~n~~ld~~rk~~ 75 (154)
T PRK06759 4 ATFTEAVVLYEGLIVNQIKKLG-IYQDYEEYYQCGLIGLWHAYERYDEKKG-SFPAYAVVTVRGYILERLKKEF 75 (154)
T ss_pred ccHHHHHHHHHHHHHHHHHHhC-CcccHHHHHHHHHHHHHHHHHHhCccCC-chHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999999999874 4578999999999999999999998777 6999999999999999999874
No 61
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=98.87 E-value=1.3e-08 Score=91.88 Aligned_cols=87 Identities=16% Similarity=0.269 Sum_probs=78.5
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++..|+..+..|+ .+++.|+..|.+.|+.+|.++.+...+.+|++||++++|++.+.+|++. ..|.+|+....++.
T Consensus 5 ~~d~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~--~~~~~wl~~iarn~ 82 (190)
T TIGR02939 5 ELDLELVERVQRGEKQAFDLLVRKYQHKVVALVGRYVRDSSEVEDVAQEAFVKAYRALSSFRGD--SAFYTWLYRIAVNT 82 (190)
T ss_pred ccHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCC--CccHhHHHHHHHHH
Confidence 34667888888888 8999999999999999999999888999999999999999999999975 46999999999999
Q ss_pred HHHHHHhcCC
Q 014193 393 IRKAIFQHSR 402 (429)
Q Consensus 393 I~~aIrkqsr 402 (429)
+.+.++++.+
T Consensus 83 ~~~~~r~~~r 92 (190)
T TIGR02939 83 AKNHLVAQGR 92 (190)
T ss_pred HHHHHHHhcc
Confidence 9999987654
No 62
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=98.84 E-value=1.6e-08 Score=92.24 Aligned_cols=86 Identities=13% Similarity=0.256 Sum_probs=77.3
Q ss_pred CHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHH
Q 014193 315 SCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393 (429)
Q Consensus 315 ~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI 393 (429)
+++.|+..++.|+ .++++|+..|.+.|+.++.+|.+...+.+|++||+++++++++.+|++.. .|.+|+....++.+
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 3567778888887 89999999999999999999998888999999999999999999999873 59999999999999
Q ss_pred HHHHHhcCC
Q 014193 394 RKAIFQHSR 402 (429)
Q Consensus 394 ~~aIrkqsr 402 (429)
.++++++.+
T Consensus 84 ~d~~rk~~~ 92 (193)
T PRK11923 84 KNHLVSRGR 92 (193)
T ss_pred HHHHHHhcC
Confidence 999987554
No 63
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=98.81 E-value=2.1e-08 Score=93.39 Aligned_cols=84 Identities=12% Similarity=0.115 Sum_probs=74.3
Q ss_pred HHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHH
Q 014193 319 LKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 397 (429)
Q Consensus 319 L~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aI 397 (429)
|...+..|+ .++++|+..|.+.|+.++.++.+...+.+|++||+++.+++++.+|++.+| .|.+|++..+++.+.+++
T Consensus 28 l~~~~~~~d~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wl~~I~rn~~~d~~ 106 (206)
T PRK12526 28 LILVAISRDKQAFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYTVMRNAAFDML 106 (206)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCccc-chhHHHHHHHHHHHHHHH
Confidence 444455566 899999999999999999999988788999999999999999999998776 599999999999999999
Q ss_pred HhcCCC
Q 014193 398 FQHSRT 403 (429)
Q Consensus 398 rkqsr~ 403 (429)
|++.+.
T Consensus 107 Rk~~~~ 112 (206)
T PRK12526 107 RKIKAK 112 (206)
T ss_pred HHhccc
Confidence 986543
No 64
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=98.81 E-value=2.7e-08 Score=87.96 Aligned_cols=84 Identities=13% Similarity=0.132 Sum_probs=74.7
Q ss_pred HHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHH
Q 014193 319 LKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 397 (429)
Q Consensus 319 L~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aI 397 (429)
|...+..|+ .|++.|+..|.+.|+.+|.++.+.+.+.+|++||+++.|++++++|+ + +..|.+|+...+++.+.+.+
T Consensus 3 ~~~~~~~~~~~a~~~l~~~y~~~l~~~~~~~~~~~~~aeDl~qe~~~~l~~~~~~~~-~-~~~~~~~l~~i~~~~~~d~~ 80 (179)
T PRK11924 3 LMPVDATGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFN-G-KGSARTWLLTIARNVCYDLL 80 (179)
T ss_pred HHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHhhcC-C-cchHHHHHHHHHHHHHHHHH
Confidence 445566676 99999999999999999999999999999999999999999999999 3 45899999999999999999
Q ss_pred HhcCCCc
Q 014193 398 FQHSRTI 404 (429)
Q Consensus 398 rkqsr~I 404 (429)
++..+..
T Consensus 81 r~~~~~~ 87 (179)
T PRK11924 81 RRRRREK 87 (179)
T ss_pred Hhccccc
Confidence 9866544
No 65
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=98.79 E-value=2.4e-08 Score=90.80 Aligned_cols=89 Identities=12% Similarity=0.196 Sum_probs=80.8
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
++..+|+..+..|+ .+++.|+..|.+.|+.++.++.+...+.+|++||+++.+++.+++|++..+ .|.+|+...+++.
T Consensus 8 ~~~~~l~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wL~~iarn~ 86 (182)
T PRK12537 8 FDYEACLLACARGDRRALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPARG-SARGWIYSVTRHL 86 (182)
T ss_pred hhHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHHHH
Confidence 45677888888888 999999999999999999999998899999999999999999999987544 6999999999999
Q ss_pred HHHHHHhcCCC
Q 014193 393 IRKAIFQHSRT 403 (429)
Q Consensus 393 I~~aIrkqsr~ 403 (429)
+.++++++.+.
T Consensus 87 ~~d~~r~~~~~ 97 (182)
T PRK12537 87 ALNVLRDTRRE 97 (182)
T ss_pred HHHHHHhcccc
Confidence 99999998644
No 66
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=98.79 E-value=2.5e-08 Score=95.63 Aligned_cols=87 Identities=11% Similarity=0.182 Sum_probs=79.0
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++.+|+..+..|+ .++++|+..|.+.|+.++.++.+...+.+|++||+++.+++.+++|++..+ .|.+|+...+++.
T Consensus 48 ~~d~~Li~~~~~gd~~af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN~ 126 (233)
T PRK12538 48 DEDEELLDRLATDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSNR 126 (233)
T ss_pred ccHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHHH
Confidence 35677888888887 899999999999999999999988889999999999999999999987655 6999999999999
Q ss_pred HHHHHHhcC
Q 014193 393 IRKAIFQHS 401 (429)
Q Consensus 393 I~~aIrkqs 401 (429)
+.+++|++.
T Consensus 127 ~id~~Rk~~ 135 (233)
T PRK12538 127 CIDLRRKPR 135 (233)
T ss_pred HHHHHHhhc
Confidence 999999854
No 67
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=98.79 E-value=1.7e-08 Score=91.63 Aligned_cols=86 Identities=13% Similarity=0.117 Sum_probs=76.8
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 394 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~ 394 (429)
..+++..+..|+ .+++.|+..|.++|+.+|.+|.+...+.+|++||+++.+++.+++|++.++ .|.+|++..+++.+.
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 455666666776 999999999999999999999988889999999999999999999998765 589999999999999
Q ss_pred HHHHhcCC
Q 014193 395 KAIFQHSR 402 (429)
Q Consensus 395 ~aIrkqsr 402 (429)
+++|++.+
T Consensus 91 d~~R~~~~ 98 (187)
T PRK12534 91 DHLRANAP 98 (187)
T ss_pred HHHHhccc
Confidence 99998653
No 68
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=98.78 E-value=2.2e-08 Score=91.98 Aligned_cols=85 Identities=11% Similarity=0.116 Sum_probs=77.1
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHH
Q 014193 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395 (429)
Q Consensus 317 eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~ 395 (429)
.+|+..+..|+ .+++.|+..|.+.|+.+|.++.+...+.+|++||+++.+++.+.+|++.++ .|.+|+...+++.+.+
T Consensus 15 ~~li~~~~~~d~~af~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQev~l~l~~~~~~~~~~~~-~~~~wL~~iarn~~ld 93 (194)
T PRK12531 15 LECMEKVKSRDKQAFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDGQKS-ALSTWIYTIIRNLCFD 93 (194)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCcccc-hHHHHHHHHHHHHHHH
Confidence 45777888888 899999999999999999999988788999999999999999999997555 6999999999999999
Q ss_pred HHHhcCC
Q 014193 396 AIFQHSR 402 (429)
Q Consensus 396 aIrkqsr 402 (429)
++|++.+
T Consensus 94 ~~Rk~~~ 100 (194)
T PRK12531 94 LLRKQKG 100 (194)
T ss_pred HHHHhcc
Confidence 9998653
No 69
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=98.78 E-value=4.6e-08 Score=90.10 Aligned_cols=88 Identities=16% Similarity=0.165 Sum_probs=80.1
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++++++..+..|+ .+++.|+..|.+.|++++.++.+...+.+|++||.++.+++.+++|+.. ..|.+|+...+++.
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 45678888888888 9999999999999999999999988999999999999999999999975 46999999999999
Q ss_pred HHHHHHhcCCC
Q 014193 393 IRKAIFQHSRT 403 (429)
Q Consensus 393 I~~aIrkqsr~ 403 (429)
+.+++|+..+.
T Consensus 90 ~~d~~Rk~~~~ 100 (192)
T PRK09643 90 CLDRLRRAKAR 100 (192)
T ss_pred HHHHHHccccC
Confidence 99999986543
No 70
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=98.75 E-value=4.4e-08 Score=89.37 Aligned_cols=87 Identities=11% Similarity=0.147 Sum_probs=79.8
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++++|+..+..|+ .+++.|+..|.+.|+.++.++.+...+.+|++||+++.+++...+|++. ..|.+|++..+++.
T Consensus 7 ~~~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~l~~~~~~~~~~--~~~~~wl~~i~~n~ 84 (189)
T PRK12515 7 TTDEMLLARIAQGDRTAMQTLYGRHHVRVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGR--SQVSTWLLSIARFK 84 (189)
T ss_pred cCHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CChHHHHHHHHHHH
Confidence 56788999899888 8999999999999999999999888899999999999999999999964 47999999999999
Q ss_pred HHHHHHhcCC
Q 014193 393 IRKAIFQHSR 402 (429)
Q Consensus 393 I~~aIrkqsr 402 (429)
+.+.+++..+
T Consensus 85 ~~d~~r~~~~ 94 (189)
T PRK12515 85 ALSALRRRKH 94 (189)
T ss_pred HHHHHHccCC
Confidence 9999998653
No 71
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=98.71 E-value=7.7e-08 Score=87.37 Aligned_cols=85 Identities=11% Similarity=0.113 Sum_probs=74.4
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHccc-CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQG-RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~-rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI 393 (429)
...++..+..|+ .++++|+..|.+.|+.++.++.+ ...+.+|++||+++.|++.++.||+. ..|.+|++..+++.+
T Consensus 8 ~~~~~~~~~~~d~~a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~iarN~~ 85 (181)
T PRK12536 8 LRALLLRGLAGDAAAYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHAIARYKL 85 (181)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHHHHHHHH
Confidence 345666777777 89999999999999999988764 56799999999999999999999975 479999999999999
Q ss_pred HHHHHhcCC
Q 014193 394 RKAIFQHSR 402 (429)
Q Consensus 394 ~~aIrkqsr 402 (429)
.+++|++.+
T Consensus 86 ~d~~Rk~~~ 94 (181)
T PRK12536 86 MDFLRSRAR 94 (181)
T ss_pred HHHHHHHhc
Confidence 999999643
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=98.64 E-value=1.3e-07 Score=85.06 Aligned_cols=76 Identities=17% Similarity=0.291 Sum_probs=67.6
Q ss_pred ccH-HHHHHHHHHhHHHHHHHHHHccc----CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHh
Q 014193 325 SGN-SSREKLINANLRLVVHVAKQYQG----RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQ 399 (429)
Q Consensus 325 ~G~-~Are~LIesnL~LV~sIAkrY~~----rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrk 399 (429)
.|+ .+++.|+..|.+.|+.+|.+|.+ ...+.+|++||+++.+++++.+|+...+..|.+|+...+++.+.+++++
T Consensus 3 ~~~~~a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~~~~~~wl~~i~~n~~~d~~r~ 82 (189)
T TIGR02984 3 GGDQEALGELLDRYRNYLRLLARVQLDPRLRRRVDPSDLVQETLLEAHRRFDQFRGKTEGEFAGWLRGILSNVLADALRR 82 (189)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccCHHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHHHHHHHHHHH
Confidence 344 89999999999999999998743 4578999999999999999999998666689999999999999999986
Q ss_pred c
Q 014193 400 H 400 (429)
Q Consensus 400 q 400 (429)
+
T Consensus 83 ~ 83 (189)
T TIGR02984 83 H 83 (189)
T ss_pred H
Confidence 5
No 73
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=98.63 E-value=2.5e-07 Score=83.74 Aligned_cols=84 Identities=19% Similarity=0.307 Sum_probs=73.2
Q ss_pred HHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccC----CCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 014193 318 DLKSELHSGN-SSREKLINANLRLVVHVAKQYQGR----GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392 (429)
Q Consensus 318 eL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~r----Gld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~a 392 (429)
+++..+..|+ .++++|+..|.+.|+.+|.++.++ ..+.+|++||+++.+++..++|+.. ..|.+|++..+++.
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 4666667676 999999999999999999988753 3589999999999999999999874 47999999999999
Q ss_pred HHHHHHhcCCC
Q 014193 393 IRKAIFQHSRT 403 (429)
Q Consensus 393 I~~aIrkqsr~ 403 (429)
+.++++++.+.
T Consensus 89 ~~d~~Rr~~~~ 99 (184)
T PRK12512 89 LIDALRRRGRR 99 (184)
T ss_pred HHHHHHhhccc
Confidence 99999987654
No 74
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=98.62 E-value=2.2e-07 Score=84.65 Aligned_cols=85 Identities=14% Similarity=0.186 Sum_probs=74.6
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHH----HcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAK----QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAk----rY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR 390 (429)
..+|+..+..|+ .+++.|+..|.+.|+.+|. +|.+...+.+|++||+++.+++.+..|++. ..|.+|++..++
T Consensus 8 ~~~l~~~~~~gd~~af~~l~~~~~~~l~~~~~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~--~~f~~wl~~i~~ 85 (184)
T PRK12539 8 LKALMLASLDGDAAAHRALLERLSGHLRAYYKGKLARIGRGAEEAEDLVQEALMAIHTRRHTYDPE--QPLTPWVYAIAR 85 (184)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhhcCCC--CChHHHHHHHHH
Confidence 456777778887 9999999999999999986 455677899999999999999999999975 369999999999
Q ss_pred HHHHHHHHhcCC
Q 014193 391 QTIRKAIFQHSR 402 (429)
Q Consensus 391 ~aI~~aIrkqsr 402 (429)
+.+.+++|+..+
T Consensus 86 n~~~d~~R~~~~ 97 (184)
T PRK12539 86 YKLIDHLRRTRA 97 (184)
T ss_pred HHHHHHHHHHhc
Confidence 999999998653
No 75
>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=98.62 E-value=1.4e-07 Score=82.82 Aligned_cols=73 Identities=16% Similarity=0.206 Sum_probs=68.1
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
+++.++..|.|.|+.+|+++.+...+.+|++||+++.+++++++||+. ..|.+|+...+++.+.++++++.+.
T Consensus 2 ~~~~~~~~~~~~l~~~~~~~~~~~~~aEDivQe~~l~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~r~~~~~ 74 (159)
T TIGR02989 2 AFAALLQRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPG--TDFGAWARGIARNKVLNHRRKLGRD 74 (159)
T ss_pred HHHHHHHHhHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHHhCCCC--CchHHHHHHHHHHHHHHHHHHhccc
Confidence 688999999999999999999999999999999999999999999976 3699999999999999999997654
No 76
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=98.60 E-value=1e-07 Score=82.61 Aligned_cols=72 Identities=15% Similarity=0.160 Sum_probs=66.8
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
|+++|+..|.|.|+.++.++.+...+.+|++||+++++++.+.+|++. .+|.+|+..++++.+.+.+++..+
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~~--~~~~~wl~~i~r~~~~d~~r~~~~ 73 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEEV--ESFKAYLFTIVKNRSLNYLRHKQV 73 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc--ccHHHHHHHHHHHHHHHHHHHHHh
Confidence 688999999999999999999888889999999999999999999874 479999999999999999998754
No 77
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=98.54 E-value=3.2e-07 Score=82.42 Aligned_cols=74 Identities=12% Similarity=0.091 Sum_probs=68.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
..+++|+..|.++|+.+|.+|.+...+.+|++||+++.|++.+++|++. .+|.+|+...+++.+.+++|++.+.
T Consensus 3 ~~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~Rk~~~~ 76 (173)
T PRK12522 3 EKVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYV--ENYKKWITTICVRTFYDFYRKKKRW 76 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCc--cchHHHHHHHHHHHHHHHHHHhccc
Confidence 3578999999999999999999999999999999999999999999985 3799999999999999999987643
No 78
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=98.54 E-value=1.7e-07 Score=85.23 Aligned_cols=78 Identities=18% Similarity=0.147 Sum_probs=71.2
Q ss_pred ccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 325 SGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 325 ~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.|+ .+++.|+..|.+.|+.+|.++.+...+.+|++||.++.+++.+.+|+...+..|.+|+...+++.+.+++|++.+
T Consensus 5 ~gd~~a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~Rk~~~ 83 (185)
T PRK12542 5 NNDYEKMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYRKNKR 83 (185)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 445 899999999999999999999988888999999999999999999997554579999999999999999999754
No 79
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=98.53 E-value=3.1e-07 Score=82.19 Aligned_cols=78 Identities=23% Similarity=0.241 Sum_probs=68.6
Q ss_pred HHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHh
Q 014193 321 SELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQ 399 (429)
Q Consensus 321 ~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrk 399 (429)
..++.|+ .+++.|+..|.+.|+.++.++.+. .+.+|++||+++.+++.++.|++. ..|.+|+...+++.+.+++|+
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 3445566 899999999999999999998753 678999999999999999999975 479999999999999999997
Q ss_pred cC
Q 014193 400 HS 401 (429)
Q Consensus 400 qs 401 (429)
..
T Consensus 80 ~~ 81 (175)
T PRK12518 80 FA 81 (175)
T ss_pred hh
Confidence 54
No 80
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=98.47 E-value=6.1e-07 Score=81.36 Aligned_cols=75 Identities=15% Similarity=0.169 Sum_probs=68.4
Q ss_pred ccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 325 SGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 325 ~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
.|+ .+++.|+..|.|.|+.++..|.+..-+.+|++||+++.+++++.+|++.. .|.+|+...+++.+.+++++..
T Consensus 3 ~~d~~af~~l~~~~~~~l~~~~~~~~~~~~daeDl~Qevfl~l~~~~~~~~~~~--~f~~wl~~iarn~~~~~~r~~~ 78 (179)
T PRK12543 3 SGDQEAFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNR--PFRFWLIGLVIKQIHSWRRKRW 78 (179)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--ChHHHHHHHHHHHHHHHHHhhc
Confidence 344 89999999999999999999999889999999999999999999999873 6999999999999999988754
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=98.45 E-value=5.8e-07 Score=80.98 Aligned_cols=84 Identities=15% Similarity=0.235 Sum_probs=73.4
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCC-----CHHHHHHHHHHHHHH-HHHhhCCCCCCChhhHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGI-----SLHDLLQEGSMGLMK-SVEKFKPQAGCRFASYAYWW 388 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGl-----d~eDLIQEG~IGLmk-AIeKFDpsrG~rFSTYA~~w 388 (429)
.++|+..+..|+ .+++.|+..|.+.|+.+|.+|.+... +.+|++||.++.+++ ...+|++. ..|.+|+..+
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 356777788888 89999999999999999999987766 899999999999998 78888754 3699999999
Q ss_pred HHHHHHHHHHhcC
Q 014193 389 VRQTIRKAIFQHS 401 (429)
Q Consensus 389 IR~aI~~aIrkqs 401 (429)
+++.+.+.+|++.
T Consensus 82 ~~n~~~d~~R~~~ 94 (183)
T TIGR02999 82 MRRILVDHARRRR 94 (183)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998753
No 82
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=98.40 E-value=1.2e-06 Score=79.55 Aligned_cols=73 Identities=15% Similarity=0.172 Sum_probs=67.9
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
..|+++|+..|.+.|++++.+|.+..-+.+|++|++++.|++++.+|+.. ..|.+|+...+++.+.+++|+..
T Consensus 15 ~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~--~~~~awl~~ia~n~~~d~~Rk~~ 87 (179)
T PRK09415 15 EDLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK--SSLKTWLYRIAINHCKDYLKSWH 87 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--cccHHHHHHHHHHHHHHHHHhhc
Confidence 48999999999999999999999888899999999999999999999975 36999999999999999999854
No 83
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired.
Probab=98.40 E-value=1.5e-06 Score=84.25 Aligned_cols=87 Identities=13% Similarity=0.053 Sum_probs=78.2
Q ss_pred CCHHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHH-------HHHHhhCCCCCCChhhHH
Q 014193 314 LSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM-------KSVEKFKPQAGCRFASYA 385 (429)
Q Consensus 314 m~~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLm-------kAIeKFDpsrG~rFSTYA 385 (429)
.++..|+..++.|+ .|+++|+..|.+.|+.++.++.+...+.+|++||.++.++ +.+.+|++. ..|.||+
T Consensus 24 ~~d~~Li~~~~~gd~~Af~~L~~~y~~~l~~~~~~~~~~~~dAEDivQEvFlkl~~~~~~~~~~~~~~~~~--~~~~tWL 101 (244)
T TIGR03001 24 AADLYLACACAQGEPAALAALERHVLSKVPARLAGLRPPTAFVDEVLQRLRQRLLVPRAERPPRIAEYSGR--GPLLSWV 101 (244)
T ss_pred ccHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccchhhhhhccCCC--CchHhHH
Confidence 35678999999998 8999999999999999999998888999999999999999 478889964 4799999
Q ss_pred HHHHHHHHHHHHHhcCC
Q 014193 386 YWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 386 ~~wIR~aI~~aIrkqsr 402 (429)
+...+|.+.++++++.+
T Consensus 102 ~~Ia~N~~id~lRk~~r 118 (244)
T TIGR03001 102 RIVATRIALELQAQERR 118 (244)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 99999999999998654
No 84
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=98.39 E-value=1.2e-06 Score=87.03 Aligned_cols=84 Identities=14% Similarity=0.221 Sum_probs=76.7
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHH
Q 014193 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395 (429)
Q Consensus 317 eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~ 395 (429)
.+|+..+..|+ .++++|+..|.+.|+.+|.++.+...+.+|++||.++.+++.+++|++. ..|.+|++...++.+.+
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 57888888888 8999999999999999999999988899999999999999999999853 47999999999999999
Q ss_pred HHHhcCC
Q 014193 396 AIFQHSR 402 (429)
Q Consensus 396 aIrkqsr 402 (429)
++|++.+
T Consensus 85 ~~Rk~~~ 91 (339)
T PRK08241 85 ALEGRAR 91 (339)
T ss_pred HHHhhcc
Confidence 9998643
No 85
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=98.39 E-value=1.1e-06 Score=80.50 Aligned_cols=82 Identities=20% Similarity=0.203 Sum_probs=72.9
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHH
Q 014193 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395 (429)
Q Consensus 317 eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~ 395 (429)
..|+..+..|+ .+++.|+..|.+.|+.++. +.+...+.+|++||.++.+++.+++|++. ..|.+|+....++.+.+
T Consensus 12 ~~l~~~~~~gd~~af~~l~~~~~~~l~~~~~-~~~~~~~AeDivQe~flkl~~~~~~~~~~--~~~~~Wl~~Iarn~~~d 88 (185)
T PRK09649 12 TALALSAAKGNGRALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIARHVVAD 88 (185)
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHhccccCcc--chHHHHHHHHHHHHHHH
Confidence 45777778887 8999999999999999995 66666889999999999999999999964 47999999999999999
Q ss_pred HHHhcC
Q 014193 396 AIFQHS 401 (429)
Q Consensus 396 aIrkqs 401 (429)
++|+..
T Consensus 89 ~~Rk~~ 94 (185)
T PRK09649 89 HIRHVR 94 (185)
T ss_pred HHHHhc
Confidence 999854
No 86
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=98.39 E-value=2.2e-06 Score=78.02 Aligned_cols=79 Identities=16% Similarity=0.264 Sum_probs=70.3
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 324 k~G~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.....++.+++..|.+.++..+.++.+...+.+||+||+++.+++++..| ...+ .|.||++..++|.+.+.+|+..+.
T Consensus 11 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~-~~~~-~~~~wl~~Ia~n~~iD~~R~~~r~ 88 (182)
T COG1595 11 RGDRAAFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF-RGRS-SFKAWLYRIARNLAIDRLRKRKRR 88 (182)
T ss_pred hcchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc-CCCC-chHHHHHHHHHHHHHHHHHHhccc
Confidence 33448999999999999999999999987899999999999999999999 4444 799999999999999999987654
Q ss_pred c
Q 014193 404 I 404 (429)
Q Consensus 404 I 404 (429)
.
T Consensus 89 ~ 89 (182)
T COG1595 89 R 89 (182)
T ss_pred c
Confidence 3
No 87
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=98.35 E-value=1.7e-06 Score=76.45 Aligned_cols=74 Identities=12% Similarity=0.082 Sum_probs=68.0
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
..+++.|+..|.+.|+.++..+.+...+.+|++||+++.+++..++|+. . ..|.+|++..+++.+.++++++.+
T Consensus 5 ~~~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~-~-~~~~~wl~~i~~n~~~d~~rk~~~ 78 (162)
T TIGR02983 5 EEEFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD-P-DAPDAYVRRVLVNLARSRWRRRRL 78 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC-c-ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 4899999999999999999999998889999999999999999999964 3 479999999999999999998653
No 88
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=98.26 E-value=4.4e-06 Score=74.82 Aligned_cols=76 Identities=11% Similarity=0.058 Sum_probs=68.5
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 326 G~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
+..+++.|+..|.+.|+.+|.++.+...+.+|++||.++.+++..++|++.. ..|.+|+...+++.+.+++|++.+
T Consensus 7 ~~~~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~~~ 82 (173)
T PRK09645 7 EAALMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSARA 82 (173)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 3489999999999999999999998878899999999999999999998533 469999999999999999998653
No 89
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=98.25 E-value=4.1e-06 Score=74.30 Aligned_cols=72 Identities=11% Similarity=0.173 Sum_probs=67.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.++++++..|.+.|+.++.++.+...+.+|++||+++.+++..++|++. .|.||+...+++.+.+++|++.+
T Consensus 5 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~~ 76 (161)
T PRK12541 5 QSLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKEKK 76 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhccc
Confidence 7899999999999999999999988899999999999999999999863 59999999999999999998654
No 90
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=98.25 E-value=3.1e-06 Score=77.54 Aligned_cols=74 Identities=19% Similarity=0.198 Sum_probs=68.3
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.++++|+..|.+.|+.++.++.+...+.+|++||.++.+++.+.+|++. ..|.+|+...+++.+.+++|++.+.
T Consensus 11 ~~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk~~~~ 84 (193)
T TIGR02947 11 QRFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRKAQRR 84 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHHhcCC
Confidence 7899999999999999999999888889999999999999999999864 4799999999999999999987543
No 91
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=98.25 E-value=3.8e-06 Score=74.44 Aligned_cols=72 Identities=19% Similarity=0.083 Sum_probs=65.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.+++.|+..|.+.|+.+|.++.+...+.+|++||+++.+++. .|+.. ..|.+|+...+++.+.+++++..+.
T Consensus 3 ~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~~~--~~~~~wl~~i~rn~~~d~~rk~~~~ 74 (166)
T PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFKGI--ENEKGWLIKSARNVAYNYLRSEKRR 74 (166)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hcccc--cchHHHHHHHHHHHHHHHHHHhccc
Confidence 578999999999999999999998889999999999999999 67643 4799999999999999999987644
No 92
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=98.25 E-value=5.5e-06 Score=77.09 Aligned_cols=83 Identities=17% Similarity=0.172 Sum_probs=72.2
Q ss_pred HHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHH
Q 014193 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395 (429)
Q Consensus 317 eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~ 395 (429)
.+|+..+..|+ .+++.|+..|.+.++.++. +.+...+.+|++||.++.+++..++|++. ..|.+|++..+++.+.+
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 45666777777 8999999999999999975 56777889999999999999999999964 37999999999999999
Q ss_pred HHHhcCC
Q 014193 396 AIFQHSR 402 (429)
Q Consensus 396 aIrkqsr 402 (429)
++|++.+
T Consensus 90 ~~Rk~~~ 96 (196)
T PRK12535 90 NIRHDMA 96 (196)
T ss_pred HHHhhcc
Confidence 9998643
No 93
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=98.24 E-value=3.6e-06 Score=76.92 Aligned_cols=74 Identities=16% Similarity=0.174 Sum_probs=67.7
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCc
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTI 404 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~I 404 (429)
++++|+..|.+.|+.+|.++.+...+.+|++||.++.+++.+++|+.. ..|.+|++..+++.+.+++|++.+..
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~~r~~ 76 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSGRREV 76 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhhcCcC
Confidence 678999999999999999999888899999999999999999999855 36999999999999999999876543
No 94
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=98.23 E-value=5.3e-06 Score=74.03 Aligned_cols=71 Identities=14% Similarity=0.120 Sum_probs=65.5
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 330 re~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
++.|+..|.|.|+.++.+|.+...+.+|++||.++.+++.++.|++. .|.+|+....++.+.+++|+..+.
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wL~~i~~n~~~d~~R~~~~~ 73 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKEKKV 73 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc---chHHHHHHHHHHHHHHHHHhhhhc
Confidence 57899999999999999999988999999999999999999999863 699999999999999999997643
No 95
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=98.20 E-value=6.6e-06 Score=73.62 Aligned_cols=74 Identities=12% Similarity=0.153 Sum_probs=67.9
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
...+.+++..|.+.|+.+|.++.+...+.+|++||.++.+++...+|+.. ..|.+|++..+++.+.+.+|+..+
T Consensus 5 ~~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~~~ 78 (164)
T PRK12547 5 SKNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMG--TNLKAWLFTILRNEFYSQMRKRGR 78 (164)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCc--ccHHHHHHHHHHHHHHHHHHhhcc
Confidence 46789999999999999999999999999999999999999999999864 369999999999999999998654
No 96
>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=98.16 E-value=6.8e-06 Score=80.92 Aligned_cols=73 Identities=15% Similarity=0.201 Sum_probs=67.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.++++|+..|.+.|+.+|.++.+...+.+|++||.++.+++.+.+|+.. ..|.+|++..++|.+.+++|++.+
T Consensus 5 ~af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~~ 77 (324)
T TIGR02960 5 AAFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEARQR 77 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhccC
Confidence 8999999999999999999999988899999999999999999999964 469999999999999999998653
No 97
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=98.13 E-value=8.8e-06 Score=76.35 Aligned_cols=72 Identities=21% Similarity=0.350 Sum_probs=67.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.++++|+..|.+.|+.++.+|.+...+.+|++||+++.+++.+.+|++ + .|.+|+...+++.+.+++|+..+
T Consensus 28 ~a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~~~ 99 (203)
T PRK09647 28 PSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRRAR 99 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhccc
Confidence 899999999999999999999998889999999999999999999985 3 69999999999999999998753
No 98
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=98.12 E-value=1.2e-05 Score=74.28 Aligned_cols=75 Identities=16% Similarity=0.196 Sum_probs=68.8
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
..++++|+..|.+.++.+|.++.+...+.+|++||.++.+++..++|+.. ..|.+|++...++.+.+++|++.+.
T Consensus 9 ~~~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~awL~~Ia~n~~~d~~R~~~~~ 83 (187)
T PRK12516 9 TPPFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVG--TNMKAWLFTILRNEFYSQMRKRGRE 83 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCc--ccHHHHHHHHHHHHHHHHHHhhcCC
Confidence 48999999999999999999999988899999999999999999999865 3699999999999999999987643
No 99
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=98.09 E-value=1.2e-05 Score=71.22 Aligned_cols=71 Identities=13% Similarity=0.074 Sum_probs=65.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
.++++|+..|.+.|+.++.++.+...+.+|++||.++.+++....|+++ .|.+|+..++++.+.+.+|++.
T Consensus 4 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~flk~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~ 74 (161)
T PRK12528 4 ATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQII---EPRAFLTTIAKRVLCNHYRRQD 74 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHhcccccccc---CHHHHHHHHHHHHHHHHHHHHH
Confidence 5889999999999999999999988899999999999999998887643 6999999999999999999854
No 100
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=98.07 E-value=2e-05 Score=72.22 Aligned_cols=75 Identities=17% Similarity=0.152 Sum_probs=67.5
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCccc
Q 014193 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406 (429)
Q Consensus 330 re~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRl 406 (429)
++.|+..|.+.|+.++.++.+...+.+|++||.++.+++.+..|+.. ..|.+|+...+++.+.+++|++.+...+
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~aeDi~QEvflkl~~~~~~~~~~--~~~~~wL~~i~~n~~~d~~Rk~~~~~~~ 77 (181)
T PRK09637 3 LESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKDG--SSIKSWLYQIANNTIIDFYRKKNRSEEL 77 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHhHHHhccc--cchHHHHHHHHHHHHHHHHHhccccCCc
Confidence 57899999999999999999988999999999999999999999953 4799999999999999999987655443
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=98.04 E-value=1.5e-05 Score=73.34 Aligned_cols=71 Identities=13% Similarity=0.158 Sum_probs=64.7
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 331 e~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.+.|..|.+.|+.++.++.+...+.+|++||.++.+++...+|++. ..|.+|++..+++.+.+++|++.+.
T Consensus 5 ~~~~~~~~~~l~~~~~~~~~~~~dAeDivQevfl~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~R~~~r~ 75 (188)
T TIGR02943 5 PQELEQLRRDLLRFARLQLRDRDLAEDAVQETLLAALSHRDSFAGR--SALKTWLFAILKNKIIDALRAKGRE 75 (188)
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3678889999999999999988899999999999999999999975 4799999999999999999987654
No 102
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=98.03 E-value=2.4e-05 Score=74.45 Aligned_cols=74 Identities=16% Similarity=0.216 Sum_probs=67.7
Q ss_pred cHHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 326 G~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
...+++.|+..|.+.++.++.++.+...+.+|++||.++.+++.+.+|++. .|.+|++..++|.+.+.++++.+
T Consensus 16 ~~~~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~~---~~~aWL~~IarN~~~d~~Rk~~~ 89 (216)
T PRK12533 16 RGERFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRGD---NARPWLLAIVRHTWYSEWRRRAN 89 (216)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCcc---chHhHHHHHHHHHHHHHHHhhcc
Confidence 357999999999999999999999988899999999999999999999853 49999999999999999998653
No 103
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=98.03 E-value=1.2e-05 Score=72.42 Aligned_cols=75 Identities=8% Similarity=-0.002 Sum_probs=66.2
Q ss_pred hccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 324 HSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 324 k~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
+.|+ .++.+|+..|.+.|+.++.++.+...+.+|++||.++.+++. ..|+.. ..|.+|+....++.+.+++|++.
T Consensus 5 ~~~~~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQevflk~~~~-~~~~~~--~~~~~wL~~Iarn~~~d~~Rk~~ 80 (172)
T PRK12523 5 QSPHSELVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRRAA 80 (172)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHcc-cccCcc--hhHHHHHHHHHHHHHHHHHHHHH
Confidence 4566 899999999999999999999988889999999999999986 446543 36999999999999999999864
No 104
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=98.03 E-value=1.4e-05 Score=73.39 Aligned_cols=71 Identities=18% Similarity=0.241 Sum_probs=63.4
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCC-HHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 331 EKLINANLRLVVHVAKQYQGRGIS-LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 331 e~LIesnL~LV~sIAkrY~~rGld-~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
++.+..|.+.|+.+|.++.+...+ .+|++||+++.+++.+.+|+.. ..|.+|++..+++.+.+++|++.+.
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~ 79 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR--ALVNSWLFAILKNKIIDALRQIGRQ 79 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc--chHHHHHHHHHHHHHHHHHHHhccc
Confidence 456788999999999999988777 9999999999999999999864 4799999999999999999987643
No 105
>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=98.02 E-value=1.1e-05 Score=70.51 Aligned_cols=65 Identities=14% Similarity=0.129 Sum_probs=59.3
Q ss_pred HHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 335 esnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
..|.|.|+.++.++.+.-.+.+|++||.++.+++.+++|++ .+|.+|+...+++.+.+.++++.+
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~~~ 66 (154)
T TIGR02950 2 REYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKDKK 66 (154)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHhhh
Confidence 46899999999999887788999999999999999999997 379999999999999999998653
No 106
>PF00140 Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPro: IPR009042 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P ....
Probab=97.99 E-value=1.7e-06 Score=61.74 Aligned_cols=34 Identities=41% Similarity=0.464 Sum_probs=30.2
Q ss_pred CcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHHH
Q 014193 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIR 287 (429)
Q Consensus 254 ~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~ 287 (429)
+|+++.||++|+++|+||++||++|+++|+.+..
T Consensus 1 ~D~l~~Yl~ei~~~~LLt~eeE~~LA~~i~~g~~ 34 (37)
T PF00140_consen 1 SDSLRLYLKEIGRYPLLTAEEEIELARRIRKGDE 34 (37)
T ss_dssp HHHHHHHHHHHHHS-EETTHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhHH
Confidence 3799999999999999999999999999998643
No 107
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=97.96 E-value=2.2e-05 Score=71.42 Aligned_cols=78 Identities=12% Similarity=-0.049 Sum_probs=65.7
Q ss_pred hccH-HHHHHHHHHhHHHHHHHHHHccc--CCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhc
Q 014193 324 HSGN-SSREKLINANLRLVVHVAKQYQG--RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400 (429)
Q Consensus 324 k~G~-~Are~LIesnL~LV~sIAkrY~~--rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkq 400 (429)
..|+ .+++.|+..|.+.|+.++..+.+ ...+.+|++||.++-+|+..++|+......|.+|++...++.+.+++|++
T Consensus 8 ~~~d~~af~~ly~~~~~~l~~~~~~~~~~~~~~~AeDivQevFl~~~~~~~~~~~~~~~~~~~wL~~ia~n~~~d~~Rk~ 87 (178)
T PRK12529 8 LSADRDKVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDIFLRILASRDGGQREAIRQPRAYLARIANCVLVSWRRRQ 87 (178)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcccccccccccCHHHHHHHHHHHHHHHHHHHH
Confidence 3455 89999999999999997655554 34679999999999999999999854445799999999999999999986
Q ss_pred C
Q 014193 401 S 401 (429)
Q Consensus 401 s 401 (429)
.
T Consensus 88 ~ 88 (178)
T PRK12529 88 S 88 (178)
T ss_pred H
Confidence 4
No 108
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=97.94 E-value=3.9e-05 Score=70.53 Aligned_cols=74 Identities=20% Similarity=0.302 Sum_probs=67.2
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.+...++..|.+.|+.+|.++.+...+.+|++||.++.+++..++|++. ..|.+|+...+++.+.+.++++.+.
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~~~ 78 (182)
T PRK12540 5 DSLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPG--SNLPAWLFTILRNLFRSDYRKRRRE 78 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCC--chHHHHHHHHHHHHHHHHHHhcccc
Confidence 4677899999999999999999988899999999999999999999876 3699999999999999999986543
No 109
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=97.93 E-value=4.8e-05 Score=71.55 Aligned_cols=73 Identities=15% Similarity=0.241 Sum_probs=65.8
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.-..++..|.+.|+.+|.++.+...+.+|++||.++.+++.+.+|+.. .+|.+|++..+++.+.+++|+..+.
T Consensus 19 ~~~~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~~~ 91 (206)
T PRK12544 19 QDPVFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQKKRH 91 (206)
T ss_pred hhHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhhccc
Confidence 346788889999999999999988899999999999999999999965 4699999999999999999987643
No 110
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=97.92 E-value=4.9e-05 Score=70.10 Aligned_cols=76 Identities=16% Similarity=0.078 Sum_probs=67.5
Q ss_pred hccHHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 324 k~G~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
.....+++.++..|.+.|+.+|.++.+...+.+|++||.++.+++.+..|++. ..|.+|+...+++.+.+..++..
T Consensus 19 ~~~~~~f~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQdvflkl~~~~~~~~~~--~~~~~wL~~Iarn~~~~~~r~~~ 94 (188)
T PRK12517 19 LSKQRRYEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDE--KAAKAWLITILRRENARRFERKQ 94 (188)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhhcCc--cchHHHHHHHHHHHHHHHHHHhc
Confidence 34558999999999999999999999988899999999999999999999965 46999999999998877776643
No 111
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=97.91 E-value=1.6e-05 Score=70.40 Aligned_cols=65 Identities=9% Similarity=0.051 Sum_probs=59.5
Q ss_pred HHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 335 esnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
+.|.+.|+.+|.++.+...+.+|++||.++.+++.+++|++. .|.+|+...+++.+.+++|++.+
T Consensus 2 ~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wl~~ia~n~~~d~~Rk~~~ 66 (160)
T PRK09642 2 QTYRHYIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFR---GLKTWMARIATNHAIDYKRKKAR 66 (160)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcccccccc---hhHHHHHHHHHHHHHHHHHHhcc
Confidence 568999999999999888899999999999999999999963 49999999999999999998654
No 112
>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=97.90 E-value=3.8e-05 Score=69.42 Aligned_cols=71 Identities=23% Similarity=0.265 Sum_probs=63.0
Q ss_pred HHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCCcccc
Q 014193 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 407 (429)
Q Consensus 335 esnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~IRlP 407 (429)
..|.+.++.++.++.+...+.+|++||+++.+++++.+|+.. ..|.+|+...+++.+.+++|+..+...++
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~l~~~~~~~~~~--~~f~~wl~~iarn~~~d~~Rk~~~~~~~~ 72 (170)
T TIGR02959 2 DEFRSELKAFIKSRVSDASDVEDLLQEVFIKIHRNLPSLKDG--QKIQSWLYQIARNTIIDFYRSKSRSVELP 72 (170)
T ss_pred chHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhccCccccc
Confidence 358889999999999888999999999999999999999964 58999999999999999999987655443
No 113
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=97.87 E-value=6e-05 Score=69.85 Aligned_cols=72 Identities=18% Similarity=0.276 Sum_probs=63.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
..++.|.. |.+.|+.+|..+.+...+.+|++||.++.+++.+..|+.. ..|.+|+...+++.+.+.+|++.+
T Consensus 8 ~~~~~l~~-~~~~l~~~a~~~l~~~~~AEDivQevfl~l~~~~~~~~~~--~~~~awL~~ia~n~~~d~~Rk~~r 79 (188)
T PRK12546 8 DPRDELVE-HLPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEG--TNLRAWLFTILRNTFYSDRRKHKR 79 (188)
T ss_pred hHHHHHHH-HHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhccCCC--cchHHHHHHHHHHHHHHHHHHhcc
Confidence 45555555 7799999999999999999999999999999999999964 479999999999999999999764
No 114
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=97.87 E-value=4.6e-05 Score=70.86 Aligned_cols=70 Identities=13% Similarity=0.151 Sum_probs=63.6
Q ss_pred HHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 332 ~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
.++..|.+.|+.+|.++.+...+.+|++||.++.+++.+++|++. ..|.+|++..+++.+.+++|++.+.
T Consensus 12 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~r~ 81 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQ--SAHKTWVFGILRNKLIDTLRARQRT 81 (201)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhcccc--chHHHHHHHHHHHHHHHHHHhhccc
Confidence 348889999999999999988899999999999999999999976 4699999999999999999987654
No 115
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=97.75 E-value=9e-05 Score=68.18 Aligned_cols=71 Identities=17% Similarity=0.150 Sum_probs=63.4
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCCC
Q 014193 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403 (429)
Q Consensus 331 e~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr~ 403 (429)
++-|..|.+.++.+|.+|.+...+.+|++||.++.+++.+.+|++. .+|.+|++...++.+.+++|++.+.
T Consensus 10 ~~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~ 80 (189)
T PRK12530 10 SLEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQ--SALKTWIFAILKNKIIDLIRYRKRF 80 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCC--ccHHHHHHHHHHHHHHHHHHhhccC
Confidence 3457788999999999999888899999999999999999999875 3699999999999999999987643
No 116
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=97.73 E-value=7.5e-05 Score=66.12 Aligned_cols=68 Identities=15% Similarity=0.197 Sum_probs=60.0
Q ss_pred HHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 332 ~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.++..|.+.++++|.++.+...+.+|++||.++.+++....|++. .|.+|+...+++.+.+++|++.+
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~~~ 69 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQAL 69 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhhcc
Confidence 367789999999999999988899999999999999988877654 58899999999999999998653
No 117
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=97.62 E-value=0.0002 Score=64.71 Aligned_cols=72 Identities=11% Similarity=0.076 Sum_probs=63.7
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
..+++.++..|.+.|+.++.++.+...+.+|++||.++.+++. ..|++- ..|.+|+...+++.+.+++|++.
T Consensus 9 ~~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~--~~~~~wL~~iarn~~~d~~R~~~ 80 (172)
T PRK09651 9 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTI--RDPRSFLCTIAKRVMVDLFRRNA 80 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-cccccc--cCHHHHHHHHHHHHHHHHHHHHH
Confidence 4799999999999999999999988889999999999999987 356543 36899999999999999999754
No 118
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=97.62 E-value=0.00019 Score=66.13 Aligned_cols=71 Identities=7% Similarity=0.108 Sum_probs=63.7
Q ss_pred HHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 330 re~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
++..+..+.+.|+.++.++.+...+.+|++||.++.+++.+..|+.. ..|.+|+...+++.+.++++++.+
T Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~~ 76 (182)
T PRK12511 6 KRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG--GNLRTWLMSILHNAFIDELRRRRV 76 (182)
T ss_pred hhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc--cchHHHHHHHHHHHHHHHHHhhcc
Confidence 45567889999999999999988899999999999999999999864 479999999999999999998654
No 119
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=97.44 E-value=0.00052 Score=61.69 Aligned_cols=72 Identities=8% Similarity=0.023 Sum_probs=62.8
Q ss_pred HHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 327 ~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
+.++.+++..|.+.++.++.+|.+...+.+|++|+.++.+++-...++. ..|.+|+....++.+.+++|+..
T Consensus 8 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~aeDlvQevf~~l~~~~~~~~~---~~~~~wl~~Iarn~~~d~~Rr~~ 79 (168)
T PRK12525 8 NTLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASI---REPRALLTTIARRLMYEGWRRQD 79 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhCCCcccc---cCHHHHHHHHHHHHHHHHHHHHH
Confidence 3788999999999999999999998889999999999999985554442 37999999999999999999753
No 120
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=97.37 E-value=0.00036 Score=61.75 Aligned_cols=64 Identities=9% Similarity=0.125 Sum_probs=56.6
Q ss_pred HHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 335 esnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
..|.+.++..+.++.+...+.+|++||.++.+++..+.|+++ +|.+|+...+++.+.+++|++.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeDi~Qevf~~l~~~~~~~~~~---~~~~wL~~ia~n~~~d~~R~~~ 65 (159)
T PRK12527 2 ENYYRELVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQIE---HPRAFLYRTALNLVVDRHRRHR 65 (159)
T ss_pred hhHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHhcccccccc---chHHHHHHHHHHHHHHHHHHHh
Confidence 467888888898888887889999999999999999988753 7999999999999999999754
No 121
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=97.34 E-value=0.00042 Score=68.14 Aligned_cols=69 Identities=10% Similarity=0.027 Sum_probs=60.2
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
...+|+..|.+.++.+|.++.+...+.+|++||.++. +.....|+ ...|.+|++..+++.+.+.+|++.
T Consensus 5 ~~~~l~~~~~~~l~~~a~~~~~~~~dAEDlvQe~fl~-~~~~~~~~---~~~~~~WL~~Ia~n~~~d~lR~~~ 73 (293)
T PRK09636 5 DAAAEFEPLRPHLLSVAYRMLGSVADAEDIVQEAWLR-WNNADRAQ---IRDPRAWLTRVVTRLCLDRLRSAR 73 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHhccccc---ccCHHHHHHHHHHHHHHHHHHhhh
Confidence 4678999999999999999999888999999999999 44556675 347999999999999999999754
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=97.16 E-value=0.0008 Score=66.13 Aligned_cols=66 Identities=14% Similarity=0.031 Sum_probs=57.2
Q ss_pred HHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 332 ~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
+++..|.+.++.+|.++.+...+.+|++||.++.+++. .|+. ...|.+|++..+++.+.+++++..
T Consensus 1 ~l~~~~~~~l~~~a~r~lg~~~dAEDvvQE~flk~~~~--~~~~--~~~~~awL~~Ia~n~~ld~lR~~~ 66 (281)
T TIGR02957 1 EEFEALRPLLFSLAYRMLGSVADAEDIVQETFLRWQEA--DRAQ--IENPKAYLTKVVTRRCIDVLRSAR 66 (281)
T ss_pred ChHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhC--Cccc--ccCHHHHHHHHHHHHHHHHHHHhh
Confidence 36889999999999999998889999999999997765 4543 247999999999999999999754
No 123
>PRK06704 RNA polymerase factor sigma-70; Validated
Probab=97.05 E-value=0.0022 Score=62.23 Aligned_cols=75 Identities=16% Similarity=0.055 Sum_probs=61.2
Q ss_pred HhhccH-HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhc
Q 014193 322 ELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400 (429)
Q Consensus 322 ~lk~G~-~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkq 400 (429)
.+..|+ .+++.+++.| +.+++++.++.+...+.+|++||.++.+++. |+.. ..|.+|+....++.+.+.+|++
T Consensus 11 ~~~~~~~~~~~~l~~~y-~~L~r~~~~~~~d~~dAEDlvQE~flk~~~~---~~~~--~~~~~WL~~IarN~~id~~Rk~ 84 (228)
T PRK06704 11 NHIDMNHSNINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQK---YSNK--DICMTLVYKIARNRWLDQIKSK 84 (228)
T ss_pred cccCCCHHHHHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH---cCcc--ccHHHHHHHHHHHHHHHHHhcc
Confidence 334444 6777777777 7899999999988889999999999998764 6644 3599999999999999999987
Q ss_pred CC
Q 014193 401 SR 402 (429)
Q Consensus 401 sr 402 (429)
.+
T Consensus 85 k~ 86 (228)
T PRK06704 85 SV 86 (228)
T ss_pred cc
Confidence 54
No 124
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=97.00 E-value=0.0014 Score=65.34 Aligned_cols=69 Identities=13% Similarity=-0.017 Sum_probs=60.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhc
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkq 400 (429)
..+..+++.|.+.++.+|.++.+...+.+|++||.++.++++...+ . ..|.+|++...++.+.+++|+.
T Consensus 5 ~~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~---~-~~~~aWL~~Ia~n~~id~lRk~ 73 (290)
T PRK09635 5 DPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD---I-DDERGWLIVVTSRLCLDHIKSA 73 (290)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc---c-ccHHHHHHHHHHHHHHHHHhhh
Confidence 4678899999999999999999998899999999999999876442 1 3699999999999999999974
No 125
>PRK09191 two-component response regulator; Provisional
Probab=96.94 E-value=0.0024 Score=59.84 Aligned_cols=64 Identities=14% Similarity=0.070 Sum_probs=57.2
Q ss_pred HHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHH
Q 014193 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIR 394 (429)
Q Consensus 329 Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~ 394 (429)
++.+|+..|.+.|+++|.++.+...+.+|++|+.++-+++...+|++. ..|.+|++.++++-..
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~~ 65 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLWS 65 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHhc
Confidence 478899999999999999999888889999999999999999999975 4699999988877543
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=96.72 E-value=0.0049 Score=53.65 Aligned_cols=65 Identities=11% Similarity=0.049 Sum_probs=54.3
Q ss_pred HHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHh-----hCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK-----FKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 331 e~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeK-----FDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
+.|+..|.++++.++++|... |.+|+.++.+++...+ |++. ..|.||+....++.+.+.+|++.+
T Consensus 2 ~~~~~~y~~~l~~~~~~~~~~-----~~~qdvf~~~w~~~~~~~~~~~~~~--~~~~~wL~~iarN~~id~~Rk~~~ 71 (142)
T TIGR03209 2 EEIYMNFKNTIDIFTRKYNLY-----YDYNDILYHLWIILKKIDLNKFNTE--NDLEKYISTSLKRYCLDICNKKNR 71 (142)
T ss_pred hHHHHHHHHHHHHHHHHhcch-----hhHHHHHHHHHHHHHHhhhhhcCch--hHHHHHHHHHHHHHHHHHHHHHhh
Confidence 579999999999999999652 3349999999999875 5433 479999999999999999998653
No 127
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=96.66 E-value=0.0031 Score=68.99 Aligned_cols=34 Identities=32% Similarity=0.493 Sum_probs=32.2
Q ss_pred CCcHHHHHHccCCCCCCCCHHHHHHHHHHHHHHH
Q 014193 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286 (429)
Q Consensus 253 ~~d~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~ 286 (429)
.+||++.||++||+.||||+|+|++++++|..+.
T Consensus 102 t~DPVRMYLREMG~V~LLTREgEIeIAKRIE~G~ 135 (619)
T PRK05658 102 TDDPVRMYLREMGTVELLTREGEIEIAKRIEAGE 135 (619)
T ss_pred CCChHHHHHHHhccCcCCCcHHHHHHHHHHHHHH
Confidence 5899999999999999999999999999999864
No 128
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=96.32 E-value=0.013 Score=54.34 Aligned_cols=90 Identities=14% Similarity=0.176 Sum_probs=67.1
Q ss_pred HHHHHHHhhccH-HHHHHHHHHhHHHHHHHHHHcccC---CCCHHHH--HHHHHHHHHHHHHhhCCCCCCChhhHHHHHH
Q 014193 316 CRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGR---GISLHDL--LQEGSMGLMKSVEKFKPQAGCRFASYAYWWV 389 (429)
Q Consensus 316 ~eeL~~~lk~G~-~Are~LIesnL~LV~sIAkrY~~r---Gld~eDL--IQEG~IGLmkAIeKFDpsrG~rFSTYA~~wI 389 (429)
..+|+..++.|+ .|.++|+..|.+-++.+|+++... +.+.+|. ++|+++-+++.-...+.+.-..|-.|+...+
T Consensus 4 it~ll~~~~~GD~~A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~lv~ea~lrl~~~~~~~~~~~~~~f~~~~~~~~ 83 (185)
T PF07638_consen 4 ITELLDRWRQGDEAALDQLFERYYPELRRLARRRLRRERRGHDLQDTALVHEAFLRLARRGRFVQFSDRRHFWALLARIM 83 (185)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHHHHHHHHHHhccccccCCCCHHHHHHHHHHHH
Confidence 367888999999 899999999999999999877532 4455554 5666666655333224433346999999999
Q ss_pred HHHHHHHHHhcCCCcc
Q 014193 390 RQTIRKAIFQHSRTIR 405 (429)
Q Consensus 390 R~aI~~aIrkqsr~IR 405 (429)
++.+.+.+|++...+|
T Consensus 84 rr~lid~~R~~~a~KR 99 (185)
T PF07638_consen 84 RRKLIDHARRRQAQKR 99 (185)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999998766555
No 129
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=96.15 E-value=0.018 Score=46.03 Aligned_cols=56 Identities=18% Similarity=0.301 Sum_probs=46.9
Q ss_pred HHHHhhccH-HHHHHHHHHhHHHHHHHHHHcc----c--CCCCHHHHHHHHHHHHHHHHHhhC
Q 014193 319 LKSELHSGN-SSREKLINANLRLVVHVAKQYQ----G--RGISLHDLLQEGSMGLMKSVEKFK 374 (429)
Q Consensus 319 L~~~lk~G~-~Are~LIesnL~LV~sIAkrY~----~--rGld~eDLIQEG~IGLmkAIeKFD 374 (429)
++..++.|+ .|.+++++.|.|+|.+.+.+-. + .|.--+|+-|+=...|+++|.+|+
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 566677888 9999999999999999987621 2 245569999999999999999996
No 130
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=95.73 E-value=0.022 Score=50.11 Aligned_cols=47 Identities=11% Similarity=0.180 Sum_probs=40.1
Q ss_pred CCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcCC
Q 014193 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSR 402 (429)
Q Consensus 353 ld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqsr 402 (429)
.+.+|++||.++.+++.... ++ +..|.+|++..+++.+.+++|++.+
T Consensus 5 ~~AeDivQe~fl~~~~~~~~-~~--~~~~~~wl~~ia~n~~~d~~Rk~~~ 51 (161)
T PRK09047 5 DAALDIVQDAMIKLAEKYGD-RP--AAEWPPLFQRILQNRIHDWFRRQKV 51 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhh-cc--cCchHHHHHHHHHHHHHHHHHhhcc
Confidence 46899999999999998876 32 3579999999999999999998653
No 131
>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=95.54 E-value=0.032 Score=44.38 Aligned_cols=38 Identities=32% Similarity=0.613 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 286 ~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
.++.++..+|...+||+||.+|.|+..||+.+++...+
T Consensus 4 ~~i~~a~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l 41 (78)
T PF04539_consen 4 RKIERARRELEQELGREPTDEEIAEELGISVEEVRELL 41 (78)
T ss_dssp HHHHHHHHHHHHHHSS--BHHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHcccHHHHHHHH
Confidence 45677889999999999999999999999988776544
No 132
>PHA02547 55 RNA polymerase sigma factor; Provisional
Probab=92.15 E-value=0.54 Score=44.63 Aligned_cols=66 Identities=12% Similarity=0.151 Sum_probs=53.2
Q ss_pred HhHHHHHHHHHHcccCCCC---HHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHHhcC
Q 014193 336 ANLRLVVHVAKQYQGRGIS---LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401 (429)
Q Consensus 336 snL~LV~sIAkrY~~rGld---~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIrkqs 401 (429)
+.+.++..++++|.-+|.. -+|+|.+|+-.+++.+..|||++...+-.|.+..+-++..+.|.+..
T Consensus 45 ~imkIa~glS~r~nF~~Yt~~wKedMI~DgIe~~i~ylhNFD~~k~~Np~aYiT~~~~~AF~~RI~kEk 113 (179)
T PHA02547 45 AIMKIAEGLSRRPNFSGYTQTWKEDMIADGIEACIKGLHNFDETKYKNPHAYITQACFNAFVQRIKKEK 113 (179)
T ss_pred HHHHHHhccccCCccccchHHHHHHHHHHHHHHHHHHhhcCCcccccChHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555665545655 69999999999999999999999999999999999998888887654
No 133
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=76.90 E-value=4.8 Score=40.09 Aligned_cols=64 Identities=25% Similarity=0.312 Sum_probs=44.9
Q ss_pred HHHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccH
Q 014193 256 PLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327 (429)
Q Consensus 256 ~l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~ 327 (429)
.+..||++-. ..--+.-=.++++ +++.+..+|+..+|++||..|.|+..|++.+++...+..++
T Consensus 88 ei~d~LR~~~--~v~vpR~~~~~~~------~i~~~~~~l~~el~r~pt~~EIA~~L~i~~ee~~~~~~~~~ 151 (247)
T COG1191 88 EILDYLRKND--SVKVPRSLRELGR------RIEEAIDELEQELGREPTDEEIAEELGIDKEEYIEALLAIN 151 (247)
T ss_pred HHHHHHHhCC--CccCcHHHHHHHH------HHHHHHHHHHHHhCCCCcHHHHHHHhCCCHHHHHHHHHHhc
Confidence 5666888766 1111222233333 45567788999999999999999999999988876665543
No 134
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=65.99 E-value=15 Score=36.15 Aligned_cols=36 Identities=28% Similarity=0.525 Sum_probs=29.9
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 288 le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
+.+...++...+|++||..|.|+..|++.+++...+
T Consensus 129 i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~ 164 (264)
T PRK07122 129 LGRATAELSQRLGRAPTASELAAELGMDREEVVEGL 164 (264)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 445667788889999999999999999998876544
No 135
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=65.38 E-value=16 Score=35.76 Aligned_cols=36 Identities=28% Similarity=0.458 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
++.+...+|...+|++|+..|.|+..|++.+++...
T Consensus 114 ~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~ 149 (256)
T PRK07408 114 QAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI 149 (256)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHH
Confidence 355667788899999999999999999998877554
No 136
>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=64.09 E-value=17 Score=35.18 Aligned_cols=36 Identities=28% Similarity=0.340 Sum_probs=29.0
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014193 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (429)
Q Consensus 289 e~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk 324 (429)
.+...++...+|++|+.+|.|+..|++.+++...+.
T Consensus 123 ~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~ 158 (254)
T TIGR02850 123 LQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALD 158 (254)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 345567778899999999999999999887765543
No 137
>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=62.85 E-value=20 Score=34.37 Aligned_cols=36 Identities=31% Similarity=0.533 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
++.+...++...+|++||.+|.|+..||+.+++...
T Consensus 88 ~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~ 123 (238)
T TIGR02393 88 KLIKAERQLTQELGREPTDEELAERMGMPAEKVREI 123 (238)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 344566778889999999999999999998877654
No 138
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=61.88 E-value=19 Score=36.90 Aligned_cols=36 Identities=31% Similarity=0.413 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
++.++..+|...+|++||..|.|...||+.+++...
T Consensus 174 ~l~~~~~~l~~~lgr~pt~~EiA~~lgi~~~~v~~~ 209 (324)
T PRK07921 174 KLARIKRELHQQLGREATDEELAEESGIPEEKIADL 209 (324)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHH
Confidence 455677788889999999999999999998777544
No 139
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=61.02 E-value=15 Score=35.40 Aligned_cols=36 Identities=17% Similarity=0.383 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 288 le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
+.+...++...+|++|+..|.|+..|++.+++....
T Consensus 103 i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~ 138 (231)
T PRK12427 103 TNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYL 138 (231)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 445567788889999999999999999988775543
No 140
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=57.95 E-value=26 Score=34.30 Aligned_cols=35 Identities=26% Similarity=0.370 Sum_probs=28.1
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 288 le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
+.+....|...+|++|+.+|.|+..|++.+++...
T Consensus 112 l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~ 146 (257)
T PRK05911 112 LADAMDSLRQSLGKEPTDGELCEYLNISQQELSGW 146 (257)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHH
Confidence 33455567788999999999999999998877544
No 141
>PRK14082 hypothetical protein; Provisional
Probab=57.66 E-value=43 Score=27.36 Aligned_cols=56 Identities=16% Similarity=0.097 Sum_probs=45.0
Q ss_pred HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHH
Q 014193 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385 (429)
Q Consensus 328 ~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA 385 (429)
...+.+|..+.|.|.+--.. ..--+.+||.||=-|.+++-++.++-..+..|-.|.
T Consensus 9 ~e~e~ii~~FepkIkKsL~~--T~yqeREDLeQElk~Ki~eK~~~~~~~e~PGF~efi 64 (65)
T PRK14082 9 EEIEHLIENFSPMIKKKLSN--TSYQEREDLEQELKIKIIEKADMLLCQEVPGFWEFI 64 (65)
T ss_pred HHHHHHHHHccHHHHHHHhc--CChhhHHHHHHHHHHHHHHHHHHhhcccCCcHHHhh
Confidence 56678999999988876533 223568999999999999999999988887787664
No 142
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=55.78 E-value=27 Score=36.19 Aligned_cols=37 Identities=27% Similarity=0.442 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
++.+...+|...+|++||..|.|...||+.+++...+
T Consensus 217 ~~~~~~~~l~~~lgr~pt~~EiA~~l~~~~~~v~~~~ 253 (367)
T PRK09210 217 KLIRVQRQLLQELGREPTPEEIAEEMDMPPEKVREIL 253 (367)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 3455677888899999999999999999988776543
No 143
>PRK05901 RNA polymerase sigma factor; Provisional
Probab=52.68 E-value=31 Score=37.85 Aligned_cols=37 Identities=30% Similarity=0.485 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
++.+.+.+|...+|++||.+|.|+..||+.+++....
T Consensus 359 kl~~~~~~L~~~lgr~PT~eELAe~Lgis~e~V~~~~ 395 (509)
T PRK05901 359 KLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQ 395 (509)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 4556778888999999999999999999988776554
No 144
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=51.63 E-value=35 Score=35.88 Aligned_cols=36 Identities=31% Similarity=0.501 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
++.+....|...+|++||.+|.|...||+.+++...
T Consensus 224 ~i~~a~~~l~~~lgr~Pt~~EIA~~lg~~~e~v~~~ 259 (373)
T PRK07406 224 RIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFI 259 (373)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 455667788889999999999999999998877544
No 145
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=48.58 E-value=37 Score=32.79 Aligned_cols=37 Identities=22% Similarity=0.380 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014193 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (429)
Q Consensus 288 le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk 324 (429)
+.+...++...+|++|+..++|+..|++.+++...+.
T Consensus 111 ~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~ 147 (251)
T PRK07670 111 VEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMN 147 (251)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 4445566777889999999999999999988766543
No 146
>PRK15044 transcriptional regulator SirC; Provisional
Probab=48.34 E-value=48 Score=34.09 Aligned_cols=60 Identities=22% Similarity=0.198 Sum_probs=43.2
Q ss_pred HHHHHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014193 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (429)
Q Consensus 257 l~~YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~ 325 (429)
+..|++..+..+.|..+..... .+++..-+.+.++++++.++||+.+||+...|.+.++.
T Consensus 172 Ls~~l~~~~~~~~L~~~~~is~---------~~kV~~~I~~nl~~~~SLeeLA~~lgmS~~tL~R~Fk~ 231 (295)
T PRK15044 172 ISAFVRKPGGFDFLERAIKITT---------KEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAA 231 (295)
T ss_pred HHHHHhcccchhhHHHHhhhhH---------HHHHHHHHHhCcccCCCHHHHHHHhCCCHHHHHHHHHH
Confidence 6667777676666555544332 33444556677889999999999999999988887764
No 147
>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=48.10 E-value=33 Score=32.50 Aligned_cols=34 Identities=38% Similarity=0.584 Sum_probs=27.7
Q ss_pred HHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 290 KEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 290 ~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
+....+...+|++|+..|.|+..|++.+++...+
T Consensus 101 ~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~ 134 (231)
T TIGR02885 101 YMKEELSKELGREPTINELAEALGVSPEEIVMAL 134 (231)
T ss_pred HHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHH
Confidence 3456677788999999999999999988775543
No 148
>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=45.30 E-value=71 Score=25.42 Aligned_cols=19 Identities=42% Similarity=0.595 Sum_probs=13.9
Q ss_pred hhhCCCCcHHHHHHHhcCC
Q 014193 297 SQFGREPTLIEWAKAIGLS 315 (429)
Q Consensus 297 ~~~Gr~Pt~~ewA~aagm~ 315 (429)
...|.+||..|.|++.|+.
T Consensus 20 ~~~G~~Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 20 EENGYPPTVREIAEALGLK 38 (65)
T ss_dssp HHHSS---HHHHHHHHTSS
T ss_pred HHcCCCCCHHHHHHHhCCC
Confidence 4569999999999999985
No 149
>PRK05949 RNA polymerase sigma factor; Validated
Probab=45.21 E-value=54 Score=33.59 Aligned_cols=37 Identities=27% Similarity=0.448 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
++.+...++...+|++|+..|.|+..||+.+++...+
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 3445566777889999999999999999988776543
No 150
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=45.05 E-value=58 Score=24.56 Aligned_cols=24 Identities=33% Similarity=0.426 Sum_probs=19.5
Q ss_pred CCcHHHHHHHhcCCHHHHHHHhhc
Q 014193 302 EPTLIEWAKAIGLSCRDLKSELHS 325 (429)
Q Consensus 302 ~Pt~~ewA~aagm~~eeL~~~lk~ 325 (429)
+++..++|+..|++...|.+.++.
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~ 24 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKK 24 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHH
Confidence 367889999999998888777763
No 151
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=44.05 E-value=37 Score=36.36 Aligned_cols=38 Identities=21% Similarity=0.448 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk 324 (429)
++.+.+.+|...+|+.|+..|.|++.||+.+++...+.
T Consensus 263 ~lrk~~r~L~~~lgR~pt~~EiA~~l~is~~~vr~~l~ 300 (415)
T PRK07598 263 KIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLL 300 (415)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 46667788888999999999999999999988876544
No 152
>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=41.73 E-value=58 Score=30.70 Aligned_cols=37 Identities=32% Similarity=0.636 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
++.+...++...+|++|+.+|.|+..|++.+++...+
T Consensus 84 ~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~ 120 (224)
T TIGR02479 84 KLERAIRELEARLGREPTEEEIAEELGMDLKEYRQAL 120 (224)
T ss_pred HHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHH
Confidence 3555667788889999999999999999987776554
No 153
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=41.38 E-value=96 Score=25.79 Aligned_cols=37 Identities=14% Similarity=0.064 Sum_probs=28.1
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014193 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (429)
Q Consensus 289 e~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~ 325 (429)
+++..-+.+.+..+++.++.|+.+||+...|.+.++.
T Consensus 8 ~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~f~~ 44 (107)
T PRK10219 8 QTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRT 44 (107)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 3344455566788899999999999998888766664
No 154
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=40.83 E-value=70 Score=32.54 Aligned_cols=37 Identities=27% Similarity=0.494 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
++.+...++...+|++|+..+.|.+.||+.+++....
T Consensus 169 ~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~ 205 (317)
T PRK07405 169 KIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYL 205 (317)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 4556677788889999999999999999987776554
No 155
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=40.19 E-value=74 Score=30.87 Aligned_cols=35 Identities=26% Similarity=0.327 Sum_probs=28.4
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 289 e~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
.+...++...+|++|+..|.|...|++.+++...+
T Consensus 126 ~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~ 160 (258)
T PRK08215 126 LQVREKLINENSKEPTVEEIAKELEVPREEVVFAL 160 (258)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 34556777788999999999999999988876544
No 156
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed
Probab=40.18 E-value=1e+02 Score=30.85 Aligned_cols=62 Identities=15% Similarity=0.190 Sum_probs=35.7
Q ss_pred HHHHHHccCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHH
Q 014193 256 PLRLFLWGPETRKLL-TADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320 (429)
Q Consensus 256 ~l~~YL~~i~~~~lL-T~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~ 320 (429)
.+..||++-.....+ +...+..+..+++. ++.........+|++|+.+|.|+..|++.+++.
T Consensus 104 ~I~~~lr~~~~~iR~p~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~pt~~eiA~~l~~~~~~v~ 166 (289)
T PRK07500 104 SIQDYILRNWSIVRGGTSSAQKALFFNLRR---LRARLAQADEELTKQEIHREIATALGVSLSDVE 166 (289)
T ss_pred HHHHHHHHCCCceecCccHHHHHHHHHHHH---HHHHHHhhhcccCCCCCHHHHHHHhCcCHHHHH
Confidence 455566543322221 23344445544443 222222233468999999999999999987764
No 157
>PRK09480 slmA division inhibitor protein; Provisional
Probab=39.01 E-value=2.8e+02 Score=24.66 Aligned_cols=71 Identities=18% Similarity=0.010 Sum_probs=43.6
Q ss_pred HhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHHHH
Q 014193 296 QSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366 (429)
Q Consensus 296 ~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~IGL 366 (429)
..+-|...|..+.|+++|++...+..-....++....++..+..-+............+..+.++..+-.+
T Consensus 24 ~~~~G~~~ti~~Ia~~agvs~gt~Y~~F~~K~~L~~~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 94 (194)
T PRK09480 24 ESPPGERITTAKLAARVGVSEAALYRHFPSKARMFEGLIEFIEESLFSRINQILKDEKDTLARARLILLLL 94 (194)
T ss_pred HhcCCCccCHHHHHHHhCCCHhHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHH
Confidence 34446788999999999999988888877766666666665554443333332222234444444443333
No 158
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=38.79 E-value=54 Score=32.06 Aligned_cols=37 Identities=30% Similarity=0.514 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
++.+....|+..+|++|+..+.|...|++.+++....
T Consensus 119 ~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~ 155 (268)
T PRK06288 119 QIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLL 155 (268)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 4555667788899999999999999999987765543
No 159
>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=38.56 E-value=75 Score=24.84 Aligned_cols=50 Identities=22% Similarity=0.397 Sum_probs=31.6
Q ss_pred HHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHHHHHHHcccCCCC-HHHH
Q 014193 305 LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS-LHDL 358 (429)
Q Consensus 305 ~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV~sIAkrY~~rGld-~eDL 358 (429)
+.+|....|++.+-+..+++. |... =..+.++|.+|++.+...|+. .+|+
T Consensus 21 i~~~~~~~~~~~evI~~ai~~---a~~~-~~~~~~Yi~~Il~~W~~~gi~T~e~~ 71 (73)
T TIGR01446 21 LKYWLDEFGNSPELIKEALKE---AVSN-NKANYKYIDAILNNWKNNGIKTVEDV 71 (73)
T ss_pred HHHHHHHhCCCHHHHHHHHHH---HHHc-CCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 345777777776555555443 2221 124678999999999988864 4543
No 160
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=35.73 E-value=3.7e+02 Score=26.86 Aligned_cols=97 Identities=13% Similarity=0.215 Sum_probs=60.4
Q ss_pred HHccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc-cHHHHHHHHHHhH
Q 014193 260 FLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS-GNSSREKLINANL 338 (429)
Q Consensus 260 YL~~i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~-G~~Are~LIesnL 338 (429)
+|-+......+..+|=.+|+..|+.+..+=+- ..+.= .-.|+..||..++.. |-.. .-
T Consensus 101 ~mfd~~~~G~i~f~EF~~Lw~~i~~Wr~vF~~-------~D~D~-------SG~I~~sEL~~Al~~~Gy~L-------sp 159 (221)
T KOG0037|consen 101 SMFDRDNSGTIGFKEFKALWKYINQWRNVFRT-------YDRDR-------SGTIDSSELRQALTQLGYRL-------SP 159 (221)
T ss_pred HHhcCCCCCccCHHHHHHHHHHHHHHHHHHHh-------cccCC-------CCcccHHHHHHHHHHcCcCC-------CH
Confidence 55677777889999999999999987544221 22210 112466677665542 2111 11
Q ss_pred HHHHHHHHHcc---cCCCCHHHHHHHH--HHHHHHHHHhhCCCC
Q 014193 339 RLVVHVAKQYQ---GRGISLHDLLQEG--SMGLMKSVEKFKPQA 377 (429)
Q Consensus 339 ~LV~sIAkrY~---~rGld~eDLIQEG--~IGLmkAIeKFDpsr 377 (429)
-++-.|++||- +..+.++|.||-. ..+|.++.+++|...
T Consensus 160 q~~~~lv~kyd~~~~g~i~FD~FI~ccv~L~~lt~~Fr~~D~~q 203 (221)
T KOG0037|consen 160 QFYNLLVRKYDRFGGGRIDFDDFIQCCVVLQRLTEAFRRRDTAQ 203 (221)
T ss_pred HHHHHHHHHhccccCCceeHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 12233445554 3358999999864 457889999999875
No 161
>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=35.03 E-value=72 Score=30.04 Aligned_cols=33 Identities=30% Similarity=0.558 Sum_probs=26.9
Q ss_pred HHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 290 KEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 290 ~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
+....+...+|++|+..|.|...|++.+++...
T Consensus 94 ~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~ 126 (227)
T TIGR02980 94 KATEELTQRLGRSPTIAEIAEELGVSEEEVVEA 126 (227)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHH
Confidence 345567778899999999999999998877543
No 162
>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=34.90 E-value=1e+02 Score=30.78 Aligned_cols=36 Identities=25% Similarity=0.457 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
++.+.+.++...+|++|+..+.|...|++.+++...
T Consensus 162 ~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~ 197 (298)
T TIGR02997 162 KIKKVQRELSQKLGRTPSEAEIAEALELEPEQVREL 197 (298)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 344556677788999999999999999998777544
No 163
>PF15545 Toxin_67: Putative toxin 67
Probab=33.45 E-value=42 Score=27.64 Aligned_cols=31 Identities=23% Similarity=0.455 Sum_probs=26.8
Q ss_pred ChhhHHHHHHHHHHHHHHHhcCCCcccchhH
Q 014193 380 RFASYAYWWVRQTIRKAIFQHSRTIRLPVMT 410 (429)
Q Consensus 380 rFSTYA~~wIR~aI~~aIrkqsr~IRlP~~~ 410 (429)
+-+.+..-||++.|.+.-+.....||+|...
T Consensus 6 kq~~~vRGwiknEi~~i~~~~r~~iRlPpG~ 36 (70)
T PF15545_consen 6 KQPSWVRGWIKNEINRIKTGRRKSIRLPPGK 36 (70)
T ss_pred cchHHHHHHHHHHHHHHHhCccceecCCCch
Confidence 4678899999999999888888999999654
No 164
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=32.95 E-value=1.1e+02 Score=32.29 Aligned_cols=36 Identities=33% Similarity=0.529 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 287 ~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
++.+++.+|...+|++|+.++.|+..|++.+++...
T Consensus 190 kl~r~~r~l~q~~~r~p~~eeia~~l~~~~~~V~~m 225 (342)
T COG0568 190 KLRRVKRELLQELGREPTPEEIAEELGVSPDKVREM 225 (342)
T ss_pred HHHHHHHHHHHHhcCCCCHHHHHHHhCCCHHHHHHH
Confidence 455677788888999999999999999997655443
No 165
>TIGR03764 ICE_PFGI_1_parB integrating conjugative element, PFGI_1 class, ParB family protein. Members of this protein family carry the ParB-type nuclease domain and are found in integrating conjugative elements (ICE) in the same class as PFGI-1 of Pseudomonas fluorescens Pf-5.
Probab=32.46 E-value=2.5e+02 Score=28.52 Aligned_cols=93 Identities=22% Similarity=0.296 Sum_probs=47.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcC-----CHH--------------HHHHHhhc
Q 014193 265 ETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-----SCR--------------DLKSELHS 325 (429)
Q Consensus 265 ~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm-----~~e--------------eL~~~lk~ 325 (429)
..+.-||+=||+.-..++.++ +++.+|...|.++.|+..|. +.. .+...+..
T Consensus 108 ~qR~dLsfIE~A~~~~~l~~l---------~e~~~g~~ltq~ela~~lgk~g~~isrs~Isn~lrll~~L~~~i~~~l~~ 178 (258)
T TIGR03764 108 DLRGDLTFIEKALGVQKARAL---------YEKELGESLSQRELARRLSADGYPISQSHISRMGDTVEYLYPAIPNLLYS 178 (258)
T ss_pred HhhcCCCHHHHHHHHHHHHHH---------HHhhccCCCCHHHHHHHhcccCCCCCHHHHHHHHHHHHhChHHHHHHHHc
Confidence 344557888777655444331 23344666677777776654 322 12222222
Q ss_pred c--HHHHHHHHHHhHHHHHHHHHHcc-cCCCCHHHHHHHHHHHHHHHHHhhC
Q 014193 326 G--NSSREKLINANLRLVVHVAKQYQ-GRGISLHDLLQEGSMGLMKSVEKFK 374 (429)
Q Consensus 326 G--~~Are~LIesnL~LV~sIAkrY~-~rGld~eDLIQEG~IGLmkAIeKFD 374 (429)
| ..-...|.. -.+-..++..+|. +.+.+|++++|+. +.+||
T Consensus 179 glGr~~~~~L~~-L~~~a~~~w~~~~~~~~~~f~~~f~~~-------~~~~d 222 (258)
T TIGR03764 179 GLGRPQIEKLLS-LRKAAEKIWNRYSSGVEVDFEEVFQEV-------LARFD 222 (258)
T ss_pred cCChHHHHHHHH-HHHHHHHHHHHHccccCCCHHHHHHHH-------HHhcC
Confidence 2 222223322 1122333333443 4468999999975 46788
No 166
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=28.25 E-value=1.3e+02 Score=26.32 Aligned_cols=37 Identities=11% Similarity=0.081 Sum_probs=28.0
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014193 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (429)
Q Consensus 289 e~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~ 325 (429)
.++..-+...+..+++.+++|+.+||+...|.+..+.
T Consensus 12 ~~~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 12 HSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3344445566778899999999999998888766654
No 167
>PRK15186 AraC family transcriptional regulator; Provisional
Probab=28.12 E-value=1.5e+02 Score=29.91 Aligned_cols=33 Identities=24% Similarity=0.398 Sum_probs=27.3
Q ss_pred HHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhc
Q 014193 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325 (429)
Q Consensus 293 ~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~ 325 (429)
..+......+.+.++||+.+||+...|.+.++.
T Consensus 188 ~~I~~~~~~~~sl~~lA~~~gmS~stl~R~Fk~ 220 (291)
T PRK15186 188 NIIISDISRKWALKDISDSLYMSCSTLKRKLKQ 220 (291)
T ss_pred HHHHhCccCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 345566778899999999999999988887765
No 168
>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=27.37 E-value=1.1e+02 Score=29.56 Aligned_cols=36 Identities=28% Similarity=0.487 Sum_probs=28.4
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 288 le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
+......+...+|+.|+..+.|...|++.+++....
T Consensus 118 ~~~~~~~l~~~~~r~p~~~eia~~l~i~~~~~~~~~ 153 (255)
T TIGR02941 118 IKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIM 153 (255)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHH
Confidence 344566777888999999999999999988775543
No 169
>PRK05572 sporulation sigma factor SigF; Validated
Probab=25.79 E-value=1.5e+02 Score=28.61 Aligned_cols=34 Identities=32% Similarity=0.609 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHH
Q 014193 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321 (429)
Q Consensus 288 le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~ 321 (429)
+.+....+..++|++|+..+.|++.|++.+++..
T Consensus 120 ~~~~~~~l~~~~~r~p~~~eia~~l~~~~~~v~~ 153 (252)
T PRK05572 120 IRKDKDELSKELGREPTIEELAEYLGVTPEEVVL 153 (252)
T ss_pred HHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHH
Confidence 3445566777789999999999999999876643
No 170
>PF05138 PaaA_PaaC: Phenylacetic acid catabolic protein; InterPro: IPR007814 This family includes proteins such as PaaA and PaaC that are part of a catabolic pathway of phenylacetic acid []. These proteins may form part of a dioxygenase complex.; PDB: 3PWQ_K 3PVT_B 1OTK_B 3PW1_B 3PW8_B 3PVR_B 3PVY_B 3Q1G_A 3PF7_B 3PM5_C ....
Probab=25.08 E-value=3.1e+02 Score=27.42 Aligned_cols=115 Identities=18% Similarity=0.150 Sum_probs=63.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHhHHHHH
Q 014193 264 PETRKLLTADEEFELIAQIQDLIRLEKE-KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342 (429)
Q Consensus 264 i~~~~lLT~EEE~eL~~~Iq~l~~le~~-~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesnL~LV~ 342 (429)
+....-++.+-...|++.|-.+..=+-+ -.++.+.+|.-|++++...-+.|..+++ .|-++.+
T Consensus 4 ~e~~~~~~~~~~~~L~~~l~~laD~elil~~r~~ew~~~AP~LeediAl~~ia~Del----------------GHAr~ly 67 (263)
T PF05138_consen 4 IEDPDEMPEEYREALIRYLLRLADDELILGQRLSEWCGHAPSLEEDIALANIAQDEL----------------GHARLLY 67 (263)
T ss_dssp B-TTSS--HHHHHHHHHHHHHHHHHHHHHHHHHHTGGGGSSSHHHHHHHHHHHHHHH----------------HHHHHHH
T ss_pred cccchhhhhhhHHHHHHHHHHHhChHHHhhhHHhHHHhhCCCHHHHHHHHHHHHHHH----------------HHHHHHH
Confidence 3444556677777788877765542222 3456677899999887765444433222 3566777
Q ss_pred HHHHHcccCCCCHHHHHHHHHHHHHHHHHhhCCCCCCChhhHHHHHHHHHHHHHHH
Q 014193 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIF 398 (429)
Q Consensus 343 sIAkrY~~rGld~eDLIQEG~IGLmkAIeKFDpsrG~rFSTYA~~wIR~aI~~aIr 398 (429)
.++..+-+.|.+.+||...=.-+=++.+.-|+. .+..|+...+++.+.+...
T Consensus 68 ~ll~el~g~G~~~d~la~~R~~~~~rn~~l~e~----p~~dwa~~v~r~~l~d~~~ 119 (263)
T PF05138_consen 68 RLLEELEGEGRDEDDLAFLRDAREFRNLLLFEQ----PNGDWADTVARQFLFDRAG 119 (263)
T ss_dssp HHHHHCHCCCHHHHHHHHHHHTTCS-SSGGGGS-------SHHHHHHHHHHHHHHH
T ss_pred HHHHHHhccCCChhHHHhhcccchhhhhhhhcc----CCCCHHHHHHHHHHHHHHH
Confidence 777777666766666544333333333333332 3456777777776665443
No 171
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=24.80 E-value=1.3e+02 Score=28.56 Aligned_cols=35 Identities=34% Similarity=0.544 Sum_probs=27.2
Q ss_pred HHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHh
Q 014193 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323 (429)
Q Consensus 289 e~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~l 323 (429)
.+....+...+|++|+..++|+..|++.+++...+
T Consensus 98 ~~~~~~~~~~~~~~~~~~ela~~l~i~~~~v~~~~ 132 (236)
T PRK06986 98 AQAIRQLEQELGREPTDTEVAEKLGLSLEEYREML 132 (236)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHH
Confidence 34455666788999999999999999987765433
No 172
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=23.51 E-value=4.1e+02 Score=26.93 Aligned_cols=124 Identities=23% Similarity=0.245 Sum_probs=72.0
Q ss_pred CCCCCcHHHHHHccCCCCCCCCH--------HHH-HHHHHHHH----HHHHHHHHHHHHHhhhCC-------CCcHHHHH
Q 014193 250 GFDRNDPLRLFLWGPETRKLLTA--------DEE-FELIAQIQ----DLIRLEKEKSKLQSQFGR-------EPTLIEWA 309 (429)
Q Consensus 250 ~~~~~d~l~~YL~~i~~~~lLT~--------EEE-~eL~~~Iq----~l~~le~~~~~L~~~~Gr-------~Pt~~ewA 309 (429)
.++.++.+...+...+..+++.+ ..- ..|++.|- ......++...+.+..|. .||.++++
T Consensus 72 ~~~lD~~l~~i~~~~~~~~~~~~~g~~~~~~~d~fe~lv~aI~~QqvS~~~A~~i~~rl~~~~g~~~~~~~~fptpe~l~ 151 (285)
T COG0122 72 LFDLDPDLAPIIDALGPLPLLRAPGLRLPLAPDPFEALVRAILSQQVSVAAAAKIWARLVSLYGNALEIYHSFPTPEQLA 151 (285)
T ss_pred HHhcCCcHHHHHHhcCccccccccCcccCCCCCHHHHHHHHHHHhHhhHHHHHHHHHHHHHHhCCccccccCCCCHHHHH
Confidence 34445556666666666666552 111 22333331 134577888899999997 49999987
Q ss_pred HH-------hcCCH------HHHHHHhhccH------------HHHHHHHHHhHHHHHHHHHHcccCCCCHHHHHHHHHH
Q 014193 310 KA-------IGLSC------RDLKSELHSGN------------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSM 364 (429)
Q Consensus 310 ~a-------agm~~------eeL~~~lk~G~------------~Are~LIesnL~LV~sIAkrY~~rGld~eDLIQEG~I 364 (429)
.. +|++. ..+.+.+.+|. ++++.|+. ..+.=...|.-|.-+|+-..|.+-.|=+
T Consensus 152 ~~~~~~l~~~g~s~~Ka~yi~~~A~~~~~g~~~~~~l~~~~~e~a~e~L~~-i~GIG~WTAe~~llf~lgr~dvfP~~D~ 230 (285)
T COG0122 152 AADEEALRRCGLSGRKAEYIISLARAAAEGELDLSELKPLSDEEAIEELTA-LKGIGPWTAEMFLLFGLGRPDVFPADDL 230 (285)
T ss_pred hcCHHHHHHhCCcHHHHHHHHHHHHHHHcCCccHHHhccCCHHHHHHHHHc-CCCcCHHHHHHHHHHcCCCCCCCChHHH
Confidence 53 34432 12223333341 23444433 2222244555555567778888888999
Q ss_pred HHHHHHHhhC
Q 014193 365 GLMKSVEKFK 374 (429)
Q Consensus 365 GLmkAIeKFD 374 (429)
||-+|+.+|.
T Consensus 231 ~lr~~~~~~~ 240 (285)
T COG0122 231 GLRRAIKKLY 240 (285)
T ss_pred HHHHHHHHHh
Confidence 9999999984
No 173
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=21.43 E-value=6.1e+02 Score=24.43 Aligned_cols=32 Identities=22% Similarity=0.411 Sum_probs=24.2
Q ss_pred HHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHH
Q 014193 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322 (429)
Q Consensus 291 ~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~ 322 (429)
....+...+|+.|+..+.|...|++.+++...
T Consensus 121 ~~~~~~~~~~r~~~~~e~a~~~~~~~~~~~~~ 152 (257)
T PRK08583 121 AVDELTTELQRSPKISEIADRLGVSEEEVLEA 152 (257)
T ss_pred HHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHH
Confidence 33446667799999999999999988776443
No 174
>PF06991 Prp19_bind: Splicing factor, Prp19-binding domain; InterPro: IPR009730 This entry represents the C terminus (approximately 300 residues) of eukaryotic micro-fibrillar-associated protein 1, which is a component of elastin-associated microfibrils in the extracellular matrix [].
Probab=20.28 E-value=3.2e+02 Score=27.90 Aligned_cols=90 Identities=13% Similarity=0.212 Sum_probs=50.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCcHHHHHHHhcCCHHHHHHHhhccHHHHHHHHHHh-HHHHH
Q 014193 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN-LRLVV 342 (429)
Q Consensus 264 i~~~~lLT~EEE~eL~~~Iq~l~~le~~~~~L~~~~Gr~Pt~~ewA~aagm~~eeL~~~lk~G~~Are~LIesn-L~LV~ 342 (429)
+....-+.++.|.+++. +++|.+|..-+....... --..+.-+.-.|++++....... ..+.+... -.-=+
T Consensus 105 ~dDTDd~dpE~EyeaWK-lRELkRiKRDRe~~e~~E---kEkeEiERrR~mteEEr~~ed~~----~~k~~~~~~~k~k~ 176 (276)
T PF06991_consen 105 VDDTDDEDPEAEYEAWK-LRELKRIKRDREEREARE---KEKEEIERRRNMTEEERRAEDRE----NPKQIENKKEKGKM 176 (276)
T ss_pred CCCCCCCChHHHHHHHH-HHHHHHHHHHHHHHHHHH---HHHHHHHHHHhcCHHHHHHHHHh----hhhhhhccccccch
Confidence 44455578888887765 577776665555443211 11344555667887766544321 11111110 01123
Q ss_pred HHHHHcccCCCCHHHHHHH
Q 014193 343 HVAKQYQGRGISLHDLLQE 361 (429)
Q Consensus 343 sIAkrY~~rGld~eDLIQE 361 (429)
.+..+|+++|..|.|...+
T Consensus 177 ~fmQKyyHkGaF~~d~~~~ 195 (276)
T PF06991_consen 177 KFMQKYYHKGAFFQDEEDE 195 (276)
T ss_pred hhhhhcccccccccchHHH
Confidence 5568899999999887666
Done!