Query psy15548
Match_columns 108
No_of_seqs 197 out of 1129
Neff 8.4
Searched_HMMs 46136
Date Sat Aug 17 00:06:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15548.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15548hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 6.5E-36 1.4E-40 207.8 10.7 102 2-103 26-129 (249)
2 PLN03091 hypothetical protein; 100.0 5.7E-34 1.2E-38 210.7 11.1 101 2-102 15-117 (459)
3 KOG0048|consensus 100.0 1.5E-33 3.2E-38 198.3 10.1 102 2-103 10-113 (238)
4 KOG0049|consensus 99.9 1.2E-22 2.6E-27 156.1 8.2 102 3-104 307-413 (939)
5 PF13921 Myb_DNA-bind_6: Myb-l 99.9 7.8E-22 1.7E-26 111.7 8.1 60 4-64 1-60 (60)
6 KOG0049|consensus 99.8 1.6E-21 3.6E-26 149.9 7.3 96 2-97 361-461 (939)
7 KOG0050|consensus 99.8 2E-20 4.4E-25 140.7 7.1 102 2-103 8-109 (617)
8 COG5147 REB1 Myb superfamily p 99.7 9.8E-18 2.1E-22 127.6 7.0 101 2-102 21-122 (512)
9 PF00249 Myb_DNA-binding: Myb- 99.7 2.2E-17 4.8E-22 89.6 5.5 46 2-47 2-48 (48)
10 PF00249 Myb_DNA-binding: Myb- 99.7 6.8E-17 1.5E-21 87.7 4.5 45 53-97 1-48 (48)
11 KOG0051|consensus 99.7 2.6E-16 5.7E-21 121.1 9.0 103 2-106 385-516 (607)
12 PLN03212 Transcription repress 99.6 7.7E-16 1.7E-20 107.7 4.4 57 48-104 20-79 (249)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2.3E-15 5.1E-20 85.0 2.7 48 56-103 1-49 (60)
14 KOG0048|consensus 99.5 4.5E-15 9.8E-20 104.5 3.4 57 49-105 5-64 (238)
15 smart00717 SANT SANT SWI3, AD 99.5 5.5E-14 1.2E-18 75.2 6.3 47 2-48 2-48 (49)
16 smart00717 SANT SANT SWI3, AD 99.5 3E-14 6.5E-19 76.3 4.3 46 53-98 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.5 1E-13 2.2E-18 73.1 6.0 44 3-46 1-44 (45)
18 KOG0051|consensus 99.5 9.1E-14 2E-18 107.3 6.3 100 2-101 309-432 (607)
19 PLN03091 hypothetical protein; 99.4 3.9E-14 8.5E-19 105.8 3.1 57 48-104 9-68 (459)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.4 4.1E-13 9E-18 70.7 4.3 43 55-97 1-45 (45)
21 TIGR01557 myb_SHAQKYF myb-like 98.8 1.7E-08 3.7E-13 56.4 5.6 46 2-47 4-54 (57)
22 COG5147 REB1 Myb superfamily p 98.8 5.3E-10 1.1E-14 85.7 -1.1 95 2-98 292-397 (512)
23 KOG0457|consensus 98.8 1.1E-08 2.3E-13 76.6 5.2 45 3-47 74-118 (438)
24 KOG0050|consensus 98.5 7.6E-08 1.7E-12 73.6 3.0 54 51-104 5-60 (617)
25 COG5259 RSC8 RSC chromatin rem 98.4 3.4E-07 7.3E-12 69.4 5.0 43 3-46 281-323 (531)
26 TIGR01557 myb_SHAQKYF myb-like 98.3 1.5E-06 3.2E-11 48.6 4.9 46 53-98 3-55 (57)
27 PF13325 MCRS_N: N-terminal re 98.3 7.4E-06 1.6E-10 56.4 8.7 96 3-100 1-129 (199)
28 KOG0457|consensus 98.3 1.2E-06 2.7E-11 65.8 4.8 47 51-97 70-118 (438)
29 TIGR02894 DNA_bind_RsfA transc 98.3 6.9E-07 1.5E-11 59.2 3.1 55 52-106 3-64 (161)
30 KOG1279|consensus 98.2 3.2E-06 6.9E-11 65.3 5.0 43 3-46 255-297 (506)
31 PF13837 Myb_DNA-bind_4: Myb/S 97.9 7.6E-06 1.6E-10 49.0 2.5 49 54-102 2-69 (90)
32 PF08914 Myb_DNA-bind_2: Rap1 97.9 1.5E-05 3.4E-10 45.6 3.6 49 2-50 3-60 (65)
33 COG5114 Histone acetyltransfer 97.9 1.5E-05 3.3E-10 58.2 4.1 46 3-48 65-110 (432)
34 COG5259 RSC8 RSC chromatin rem 97.9 9.4E-06 2E-10 61.7 3.1 44 53-96 279-323 (531)
35 KOG1279|consensus 97.8 2.4E-05 5.1E-10 60.6 4.0 45 52-96 252-297 (506)
36 PF13837 Myb_DNA-bind_4: Myb/S 97.8 4.1E-05 8.8E-10 45.8 4.3 45 2-46 2-63 (90)
37 PRK13923 putative spore coat p 97.6 4.3E-05 9.2E-10 51.4 2.6 56 51-106 3-65 (170)
38 PLN03142 Probable chromatin-re 97.5 0.0012 2.5E-08 55.3 10.3 101 2-102 825-989 (1033)
39 TIGR02894 DNA_bind_RsfA transc 97.5 0.00013 2.8E-09 48.6 3.5 67 3-70 6-94 (161)
40 PF08914 Myb_DNA-bind_2: Rap1 97.5 0.00015 3.2E-09 41.5 3.2 50 53-102 2-62 (65)
41 PF13873 Myb_DNA-bind_5: Myb/S 97.4 0.00037 8E-09 40.8 4.5 51 53-103 2-75 (78)
42 PF13873 Myb_DNA-bind_5: Myb/S 97.2 0.00068 1.5E-08 39.6 4.2 46 2-47 3-69 (78)
43 COG5114 Histone acetyltransfer 97.1 0.00052 1.1E-08 50.4 3.1 45 54-98 64-110 (432)
44 PRK13923 putative spore coat p 96.7 0.0024 5.1E-08 43.1 3.5 45 3-48 7-57 (170)
45 COG5118 BDP1 Transcription ini 96.5 0.0063 1.4E-07 45.8 5.0 43 2-45 366-408 (507)
46 KOG4282|consensus 96.1 0.011 2.3E-07 43.8 4.4 50 54-103 55-119 (345)
47 KOG2656|consensus 96.0 0.019 4.1E-07 43.3 5.5 51 54-104 131-188 (445)
48 COG5118 BDP1 Transcription ini 95.9 0.01 2.2E-07 44.7 3.6 44 54-97 366-410 (507)
49 PF09111 SLIDE: SLIDE; InterP 95.8 0.016 3.4E-07 37.0 3.6 52 50-101 46-114 (118)
50 PF09111 SLIDE: SLIDE; InterP 95.5 0.038 8.2E-07 35.2 4.7 44 3-46 51-109 (118)
51 PF12776 Myb_DNA-bind_3: Myb/S 94.9 0.046 1E-06 32.8 3.7 46 55-100 1-65 (96)
52 KOG4167|consensus 94.8 0.066 1.4E-06 43.5 5.2 43 2-45 620-662 (907)
53 KOG4282|consensus 94.8 0.074 1.6E-06 39.4 5.2 46 2-47 55-113 (345)
54 PF12776 Myb_DNA-bind_3: Myb/S 94.7 0.11 2.4E-06 31.1 4.9 44 3-46 1-61 (96)
55 KOG1194|consensus 94.3 0.29 6.2E-06 37.9 7.2 50 52-101 186-236 (534)
56 PF08281 Sigma70_r4_2: Sigma-7 93.7 0.17 3.6E-06 27.1 3.9 41 58-98 12-52 (54)
57 KOG1194|consensus 93.5 0.2 4.3E-06 38.7 5.2 42 3-45 189-230 (534)
58 smart00595 MADF subfamily of S 92.8 0.18 3.9E-06 29.8 3.3 23 23-46 29-51 (89)
59 PF13404 HTH_AsnC-type: AsnC-t 92.7 0.63 1.4E-05 24.0 4.9 38 7-45 3-40 (42)
60 PF13404 HTH_AsnC-type: AsnC-t 92.7 0.22 4.7E-06 25.8 3.1 38 59-96 3-41 (42)
61 KOG4468|consensus 91.5 0.36 7.7E-06 38.6 4.4 50 53-102 88-148 (782)
62 PF09197 Rap1-DNA-bind: Rap1, 91.4 0.75 1.6E-05 28.7 5.0 46 3-48 1-76 (105)
63 smart00595 MADF subfamily of S 90.8 0.36 7.7E-06 28.5 3.1 28 74-101 29-56 (89)
64 KOG4167|consensus 90.8 0.39 8.4E-06 39.2 4.0 43 53-95 619-662 (907)
65 PF11035 SnAPC_2_like: Small n 90.7 1.1 2.4E-05 33.2 6.0 55 53-107 21-80 (344)
66 PRK11179 DNA-binding transcrip 90.1 0.36 7.8E-06 31.7 2.9 42 59-100 9-51 (153)
67 PF04545 Sigma70_r4: Sigma-70, 90.0 1.2 2.6E-05 23.4 4.5 41 60-100 8-48 (50)
68 PRK11169 leucine-responsive tr 89.5 0.45 9.9E-06 31.6 3.1 44 58-101 13-57 (164)
69 KOG2656|consensus 89.5 0.19 4E-06 38.1 1.3 44 3-47 132-181 (445)
70 PF13325 MCRS_N: N-terminal re 89.5 0.95 2.1E-05 31.4 4.7 45 2-46 74-125 (199)
71 KOG4329|consensus 88.9 1 2.3E-05 34.1 4.8 44 1-45 277-321 (445)
72 PRK11179 DNA-binding transcrip 88.8 1.6 3.4E-05 28.6 5.2 43 7-50 9-51 (153)
73 PF01388 ARID: ARID/BRIGHT DNA 87.8 2.1 4.5E-05 25.4 4.9 38 11-48 40-89 (92)
74 PRK11169 leucine-responsive tr 87.1 1.8 3.9E-05 28.7 4.8 44 6-50 13-56 (164)
75 PF11626 Rap1_C: TRF2-interact 87.0 0.56 1.2E-05 28.0 2.0 18 49-66 43-60 (87)
76 smart00501 BRIGHT BRIGHT, ARID 86.6 1.1 2.4E-05 26.9 3.2 39 11-49 36-86 (93)
77 PF08281 Sigma70_r4_2: Sigma-7 86.4 2.9 6.2E-05 22.1 4.6 39 6-46 12-50 (54)
78 PF07750 GcrA: GcrA cell cycle 86.1 2 4.3E-05 28.8 4.5 42 2-45 1-42 (162)
79 KOG2009|consensus 86.0 1.3 2.8E-05 35.4 4.1 43 53-95 409-452 (584)
80 PF09420 Nop16: Ribosome bioge 85.7 1.9 4.1E-05 28.8 4.3 46 52-97 113-163 (164)
81 PF10545 MADF_DNA_bdg: Alcohol 85.6 0.7 1.5E-05 26.5 2.0 25 23-47 28-53 (85)
82 KOG4329|consensus 85.4 1.5 3.3E-05 33.2 4.0 44 54-97 278-323 (445)
83 PLN03142 Probable chromatin-re 85.1 2 4.4E-05 36.6 5.1 46 3-48 928-985 (1033)
84 TIGR02985 Sig70_bacteroi1 RNA 83.2 2.7 5.8E-05 26.7 4.1 31 71-101 128-158 (161)
85 KOG4468|consensus 82.8 1.7 3.7E-05 35.0 3.5 44 3-47 90-143 (782)
86 PF09420 Nop16: Ribosome bioge 80.7 5.1 0.00011 26.7 4.8 43 3-46 116-162 (164)
87 PF04504 DUF573: Protein of un 80.5 11 0.00023 23.1 6.0 66 3-69 6-93 (98)
88 PF04504 DUF573: Protein of un 80.5 3.1 6.8E-05 25.4 3.5 48 54-101 5-66 (98)
89 KOG0384|consensus 80.4 1.2 2.7E-05 38.4 2.1 26 3-28 1135-1160(1373)
90 KOG2009|consensus 78.3 1.9 4.1E-05 34.5 2.4 43 2-45 410-452 (584)
91 PF01466 Skp1: Skp1 family, di 75.5 11 0.00023 21.8 4.6 37 23-66 35-71 (78)
92 PF02954 HTH_8: Bacterial regu 74.8 5.8 0.00013 20.1 3.0 34 60-93 6-39 (42)
93 smart00344 HTH_ASNC helix_turn 74.0 15 0.00032 22.1 5.2 43 7-50 3-45 (108)
94 PF11035 SnAPC_2_like: Small n 73.5 11 0.00023 28.2 5.1 83 2-97 22-126 (344)
95 smart00344 HTH_ASNC helix_turn 71.4 5.4 0.00012 24.1 2.8 42 59-100 3-45 (108)
96 KOG3554|consensus 71.1 4.6 0.0001 31.7 2.9 41 54-94 286-328 (693)
97 COG1522 Lrp Transcriptional re 71.1 5.9 0.00013 25.4 3.1 44 58-101 7-51 (154)
98 COG4628 Uncharacterized conser 70.2 14 0.0003 23.6 4.4 49 9-65 21-72 (136)
99 PF07638 Sigma70_ECF: ECF sigm 69.6 11 0.00023 25.3 4.2 33 67-99 146-178 (185)
100 PF09905 DUF2132: Uncharacteri 68.1 11 0.00024 21.4 3.3 45 9-64 12-62 (64)
101 TIGR02937 sigma70-ECF RNA poly 68.1 10 0.00022 23.3 3.7 32 70-101 124-155 (158)
102 KOG3554|consensus 67.7 7.9 0.00017 30.5 3.5 41 2-43 286-327 (693)
103 PRK09652 RNA polymerase sigma 67.2 12 0.00026 24.2 4.0 31 71-101 143-173 (182)
104 COG5201 SKP1 SCF ubiquitin lig 67.0 19 0.00042 23.5 4.7 37 23-66 114-150 (158)
105 PF07750 GcrA: GcrA cell cycle 67.0 6.7 0.00014 26.2 2.7 40 55-95 2-42 (162)
106 PRK09643 RNA polymerase sigma 66.8 12 0.00026 25.1 4.0 31 71-101 149-179 (192)
107 PRK09642 RNA polymerase sigma 66.4 13 0.00029 23.8 4.1 30 71-100 121-150 (160)
108 PRK11924 RNA polymerase sigma 65.0 13 0.00028 24.0 3.8 30 71-100 140-169 (179)
109 COG1522 Lrp Transcriptional re 64.7 25 0.00054 22.4 5.1 43 6-49 7-49 (154)
110 TIGR02954 Sig70_famx3 RNA poly 64.5 13 0.00029 24.1 3.8 31 71-101 134-164 (169)
111 PRK09637 RNA polymerase sigma 64.2 14 0.0003 24.5 3.9 30 71-100 121-150 (181)
112 PRK09645 RNA polymerase sigma 63.6 16 0.00034 23.8 4.0 30 72-101 134-163 (173)
113 PRK09648 RNA polymerase sigma 63.4 17 0.00036 24.1 4.2 32 71-102 154-185 (189)
114 PRK12529 RNA polymerase sigma 62.3 18 0.00039 23.8 4.2 33 70-102 141-173 (178)
115 PF11084 DUF2621: Protein of u 62.2 7.3 0.00016 25.3 2.1 53 23-80 28-83 (141)
116 PRK12530 RNA polymerase sigma 61.8 17 0.00037 24.3 4.0 30 72-101 150-179 (189)
117 PF13936 HTH_38: Helix-turn-he 61.8 6.9 0.00015 20.1 1.6 36 55-91 4-39 (44)
118 PRK12531 RNA polymerase sigma 61.7 18 0.00038 24.2 4.1 31 71-101 156-186 (194)
119 PRK12524 RNA polymerase sigma 61.5 18 0.00038 24.3 4.0 31 71-101 151-181 (196)
120 TIGR02939 RpoE_Sigma70 RNA pol 61.3 13 0.00028 24.5 3.3 31 72-102 154-184 (190)
121 PRK09047 RNA polymerase factor 61.1 19 0.0004 23.0 4.0 29 72-100 122-150 (161)
122 PRK09641 RNA polymerase sigma 60.9 16 0.00035 23.9 3.8 31 71-101 151-181 (187)
123 PF10440 WIYLD: Ubiquitin-bind 60.9 5.7 0.00012 22.6 1.3 18 63-80 31-48 (65)
124 PRK04217 hypothetical protein; 60.5 39 0.00085 21.1 5.3 46 54-100 41-86 (110)
125 PRK00118 putative DNA-binding 60.3 23 0.0005 22.0 4.0 42 59-100 20-61 (104)
126 PRK12523 RNA polymerase sigma 60.2 17 0.00037 23.7 3.7 30 71-100 134-163 (172)
127 KOG3841|consensus 60.0 19 0.00041 27.6 4.2 51 52-102 75-147 (455)
128 TIGR02943 Sig70_famx1 RNA poly 58.9 21 0.00046 23.8 4.0 31 71-101 146-176 (188)
129 TIGR02999 Sig-70_X6 RNA polyme 58.2 23 0.00049 23.2 4.1 30 72-101 150-179 (183)
130 PRK12514 RNA polymerase sigma 57.7 22 0.00048 23.2 4.0 30 72-101 145-174 (179)
131 PRK12512 RNA polymerase sigma 57.6 23 0.0005 23.2 4.1 30 72-101 147-176 (184)
132 PRK12515 RNA polymerase sigma 57.3 24 0.00051 23.4 4.1 31 71-101 146-176 (189)
133 PRK06759 RNA polymerase factor 57.2 24 0.00051 22.3 4.0 30 72-101 122-151 (154)
134 PRK12536 RNA polymerase sigma 57.1 24 0.00053 23.2 4.1 31 71-101 144-174 (181)
135 PRK06811 RNA polymerase factor 57.0 23 0.00051 23.5 4.0 32 72-103 147-178 (189)
136 PRK12542 RNA polymerase sigma 56.8 24 0.00051 23.3 4.0 30 71-100 137-166 (185)
137 PRK09649 RNA polymerase sigma 56.5 21 0.00047 23.7 3.8 31 72-102 146-176 (185)
138 PRK05602 RNA polymerase sigma 56.4 22 0.00048 23.4 3.8 31 71-101 143-173 (186)
139 PRK12516 RNA polymerase sigma 56.3 24 0.00053 23.6 4.0 30 71-100 131-160 (187)
140 PRK12545 RNA polymerase sigma 56.2 24 0.00052 23.8 4.0 29 72-100 155-183 (201)
141 TIGR02948 SigW_bacill RNA poly 56.1 20 0.00044 23.5 3.6 30 72-101 152-181 (187)
142 PRK12532 RNA polymerase sigma 55.9 22 0.00048 23.7 3.8 30 71-100 151-180 (195)
143 TIGR02952 Sig70_famx2 RNA poly 55.0 29 0.00062 22.3 4.1 30 72-101 138-167 (170)
144 PRK09651 RNA polymerase sigma 54.8 25 0.00053 23.0 3.8 32 72-103 135-166 (172)
145 PRK11923 algU RNA polymerase s 54.4 24 0.00053 23.3 3.8 30 72-101 154-183 (193)
146 PRK00430 fis global DNA-bindin 54.1 47 0.001 20.1 4.7 35 59-93 55-89 (95)
147 TIGR02983 SigE-fam_strep RNA p 54.1 25 0.00054 22.5 3.7 33 70-102 124-156 (162)
148 PRK12527 RNA polymerase sigma 53.5 31 0.00068 22.0 4.1 30 72-101 121-150 (159)
149 cd08319 Death_RAIDD Death doma 53.3 13 0.00028 22.0 2.0 28 61-88 2-29 (83)
150 PRK12547 RNA polymerase sigma 53.1 32 0.00069 22.2 4.1 30 71-100 127-156 (164)
151 PF12162 STAT1_TAZ2bind: STAT1 51.5 20 0.00044 16.1 2.0 16 1-16 7-22 (23)
152 PRK09636 RNA polymerase sigma 51.5 28 0.00061 25.0 3.9 32 71-102 130-161 (293)
153 PRK12519 RNA polymerase sigma 51.4 25 0.00055 23.3 3.5 31 72-102 157-187 (194)
154 PRK12520 RNA polymerase sigma 50.8 34 0.00073 22.7 4.0 29 72-100 147-175 (191)
155 PRK12546 RNA polymerase sigma 50.8 29 0.00063 23.2 3.7 31 71-101 128-158 (188)
156 TIGR02960 SigX5 RNA polymerase 50.6 25 0.00055 25.4 3.6 30 72-101 158-187 (324)
157 PRK01905 DNA-binding protein F 50.5 35 0.00076 19.6 3.6 35 58-92 36-70 (77)
158 PF00196 GerE: Bacterial regul 50.4 28 0.0006 18.5 3.0 44 55-100 3-46 (58)
159 cd08803 Death_ank3 Death domai 50.0 21 0.00044 21.2 2.5 28 61-88 4-31 (84)
160 PRK12528 RNA polymerase sigma 50.0 38 0.00083 21.6 4.1 30 71-100 128-157 (161)
161 cd08317 Death_ank Death domain 49.8 12 0.00027 21.8 1.6 27 61-87 4-30 (84)
162 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 49.6 25 0.00054 18.9 2.6 35 56-91 5-39 (50)
163 cd06171 Sigma70_r4 Sigma70, re 49.5 33 0.00071 16.9 3.5 40 56-96 11-50 (55)
164 KOG0384|consensus 49.4 10 0.00022 33.2 1.5 26 54-79 1134-1160(1373)
165 TIGR02984 Sig-70_plancto1 RNA 48.7 39 0.00085 22.0 4.1 31 71-101 155-185 (189)
166 PF06461 DUF1086: Domain of Un 48.6 56 0.0012 21.6 4.6 39 3-41 40-80 (145)
167 PRK11922 RNA polymerase sigma 48.5 17 0.00037 25.1 2.4 30 72-101 165-194 (231)
168 PF05263 DUF722: Protein of un 48.4 35 0.00075 22.1 3.6 23 72-94 99-121 (130)
169 PRK09415 RNA polymerase factor 48.0 34 0.00073 22.5 3.7 30 72-101 143-172 (179)
170 PRK13919 putative RNA polymera 47.2 44 0.00095 21.9 4.1 30 72-101 151-180 (186)
171 TIGR02950 SigM_subfam RNA poly 47.2 11 0.00024 23.9 1.1 30 72-101 121-150 (154)
172 PF05263 DUF722: Protein of un 46.4 64 0.0014 20.8 4.6 23 22-45 100-122 (130)
173 smart00351 PAX Paired Box doma 46.3 73 0.0016 20.0 7.4 68 3-72 17-92 (125)
174 PRK12522 RNA polymerase sigma 46.3 41 0.00089 21.8 3.8 30 72-101 135-164 (173)
175 PRK06986 fliA flagellar biosyn 46.1 42 0.00091 23.2 4.0 32 71-102 199-230 (236)
176 KOG1724|consensus 45.6 47 0.001 22.3 4.0 34 23-63 119-152 (162)
177 PRK12537 RNA polymerase sigma 45.2 46 0.00099 21.9 4.0 31 71-101 148-178 (182)
178 TIGR02957 SigX4 RNA polymerase 45.1 41 0.00089 24.1 3.9 32 71-102 123-154 (281)
179 PRK12541 RNA polymerase sigma 44.8 42 0.00092 21.4 3.7 31 72-102 128-158 (161)
180 smart00005 DEATH DEATH domain, 44.0 27 0.00058 20.1 2.4 25 61-85 5-30 (88)
181 cd08311 Death_p75NR Death doma 43.7 23 0.0005 20.7 2.0 31 58-89 2-32 (77)
182 PRK09639 RNA polymerase sigma 43.6 52 0.0011 21.0 4.0 30 71-100 126-155 (166)
183 TIGR03001 Sig-70_gmx1 RNA poly 43.6 51 0.0011 23.3 4.1 29 72-100 177-205 (244)
184 PRK09647 RNA polymerase sigma 43.6 51 0.0011 22.4 4.1 31 71-101 153-183 (203)
185 PRK07670 RNA polymerase sigma 42.9 50 0.0011 23.1 4.0 30 71-100 216-245 (251)
186 PRK09638 RNA polymerase sigma 42.0 21 0.00045 23.2 1.9 31 71-101 141-171 (176)
187 PRK09646 RNA polymerase sigma 41.8 59 0.0013 21.6 4.1 30 71-100 157-186 (194)
188 PF00531 Death: Death domain; 40.9 35 0.00076 19.2 2.6 22 11-32 2-23 (83)
189 KOG0385|consensus 40.8 1.1E+02 0.0025 26.0 6.1 94 3-98 797-957 (971)
190 PRK12544 RNA polymerase sigma 40.7 63 0.0014 22.0 4.2 31 72-102 164-194 (206)
191 PRK08241 RNA polymerase factor 40.4 39 0.00084 24.7 3.3 31 72-102 169-199 (339)
192 PRK06930 positive control sigm 40.3 66 0.0014 21.5 4.1 32 70-101 128-159 (170)
193 KOG2544|consensus 39.9 30 0.00064 27.6 2.6 48 1-48 161-209 (711)
194 PRK12526 RNA polymerase sigma 39.9 63 0.0014 21.8 4.1 29 72-100 169-197 (206)
195 PRK12538 RNA polymerase sigma 39.3 49 0.0011 23.1 3.5 29 72-100 187-215 (233)
196 cd08805 Death_ank1 Death domai 39.2 42 0.00091 19.9 2.7 23 9-32 4-26 (84)
197 TIGR02947 SigH_actino RNA poly 38.7 26 0.00057 23.3 2.0 29 72-100 147-175 (193)
198 PRK12511 RNA polymerase sigma 38.6 66 0.0014 21.3 4.0 29 72-100 127-155 (182)
199 COG1168 MalY Bifunctional PLP- 38.6 40 0.00087 25.8 3.1 27 47-73 165-192 (388)
200 cd08804 Death_ank2 Death domai 38.5 31 0.00067 20.3 2.1 29 61-89 4-32 (84)
201 PF09356 Phage_BR0599: Phage c 38.4 15 0.00033 21.6 0.7 17 82-98 51-69 (80)
202 PF07638 Sigma70_ECF: ECF sigm 38.2 1E+02 0.0022 20.5 4.8 35 10-46 141-175 (185)
203 TIGR02980 SigBFG RNA polymeras 37.3 70 0.0015 21.8 4.0 30 72-101 194-223 (227)
204 PRK08295 RNA polymerase factor 37.3 69 0.0015 21.3 3.9 29 72-100 170-198 (208)
205 TIGR02989 Sig-70_gvs1 RNA poly 37.1 75 0.0016 20.0 3.9 29 72-100 127-155 (159)
206 PRK08301 sporulation sigma fac 36.9 82 0.0018 21.6 4.3 31 72-102 198-228 (234)
207 PRK12535 RNA polymerase sigma 36.8 65 0.0014 21.7 3.7 30 72-101 149-178 (196)
208 TIGR02959 SigZ RNA polymerase 36.6 83 0.0018 20.4 4.1 30 71-100 115-144 (170)
209 PRK12540 RNA polymerase sigma 36.0 77 0.0017 21.0 3.9 30 71-100 126-155 (182)
210 PRK12534 RNA polymerase sigma 35.6 78 0.0017 20.7 3.9 30 71-100 152-181 (187)
211 cd08777 Death_RIP1 Death Domai 35.3 42 0.00091 19.9 2.3 28 10-39 3-30 (86)
212 PRK12533 RNA polymerase sigma 35.2 68 0.0015 22.1 3.7 30 72-101 150-179 (216)
213 KOG2941|consensus 34.8 16 0.00036 27.9 0.5 21 52-72 260-281 (444)
214 PRK09635 sigI RNA polymerase s 34.7 66 0.0014 23.3 3.7 32 71-102 133-164 (290)
215 PRK12543 RNA polymerase sigma 34.6 85 0.0018 20.5 4.0 29 72-100 133-161 (179)
216 PRK09644 RNA polymerase sigma 34.1 78 0.0017 20.3 3.7 29 72-100 124-152 (165)
217 TIGR02479 FliA_WhiG RNA polyme 33.8 93 0.002 21.2 4.2 30 72-101 191-220 (224)
218 cd08306 Death_FADD Fas-associa 33.7 43 0.00093 19.7 2.2 22 68-89 9-30 (86)
219 TIGR01765 tspaseT_teng_N trans 33.5 68 0.0015 18.1 2.9 42 56-97 8-51 (73)
220 PRK15201 fimbriae regulatory p 33.2 1.2E+02 0.0026 21.0 4.4 45 54-100 132-176 (198)
221 PRK12525 RNA polymerase sigma 33.0 83 0.0018 20.3 3.7 29 72-100 134-162 (168)
222 PF13340 DUF4096: Putative tra 32.9 89 0.0019 17.6 3.4 58 23-98 5-66 (75)
223 cd08779 Death_PIDD Death Domai 32.8 47 0.001 19.6 2.2 22 10-32 3-24 (86)
224 PF09846 DUF2073: Uncharacteri 32.4 44 0.00095 20.8 2.0 15 54-68 27-41 (104)
225 PLN03162 golden-2 like transcr 32.1 1.9E+02 0.0041 22.5 5.7 45 2-46 238-286 (526)
226 COG2197 CitB Response regulato 31.9 79 0.0017 21.7 3.6 44 55-100 148-191 (211)
227 PRK12513 RNA polymerase sigma 31.6 39 0.00084 22.4 1.9 29 72-100 155-183 (194)
228 smart00426 TEA TEA domain. 31.5 1.1E+02 0.0023 17.6 3.8 24 3-26 5-28 (68)
229 PRK07037 extracytoplasmic-func 31.0 1.2E+02 0.0026 19.3 4.1 29 72-100 125-153 (163)
230 cd00131 PAX Paired Box domain 30.9 1.4E+02 0.0031 18.8 7.6 69 2-72 16-92 (128)
231 PRK06288 RNA polymerase sigma 30.7 1.1E+02 0.0024 21.7 4.2 29 72-100 228-256 (268)
232 PF13384 HTH_23: Homeodomain-l 30.6 44 0.00095 17.0 1.7 28 63-91 9-36 (50)
233 cd08318 Death_NMPP84 Death dom 30.5 46 0.001 19.6 1.9 23 67-89 13-35 (86)
234 PF00191 Annexin: Annexin; In 30.4 94 0.002 16.7 3.1 41 63-103 5-49 (66)
235 PF00674 DUP: DUP family; Int 30.2 1.3E+02 0.0029 18.3 4.7 28 23-50 61-102 (108)
236 PRK05911 RNA polymerase sigma 29.9 1.2E+02 0.0027 21.4 4.4 31 72-102 221-251 (257)
237 PRK10100 DNA-binding transcrip 29.5 1.2E+02 0.0026 20.9 4.2 44 55-100 155-198 (216)
238 PRK09635 sigI RNA polymerase s 29.0 1.9E+02 0.0042 20.9 5.3 45 23-68 136-183 (290)
239 PRK07408 RNA polymerase sigma 28.8 1.1E+02 0.0025 21.5 4.0 30 72-101 219-248 (256)
240 COG1460 Uncharacterized protei 28.7 1.6E+02 0.0034 18.7 7.2 63 2-71 46-111 (114)
241 PF03786 UxuA: D-mannonate deh 28.6 1.7E+02 0.0038 22.2 5.1 54 52-105 38-99 (351)
242 PRK15328 invasion protein IagB 28.4 93 0.002 20.7 3.3 35 63-97 98-135 (160)
243 PRK12539 RNA polymerase sigma 28.2 1.2E+02 0.0026 19.9 3.9 30 72-101 147-176 (184)
244 PRK02866 cyanate hydratase; Va 28.2 67 0.0015 21.3 2.5 33 62-94 8-40 (147)
245 COG2963 Transposase and inacti 28.0 1.5E+02 0.0032 18.0 4.4 42 53-94 5-47 (116)
246 PRK09413 IS2 repressor TnpA; R 27.6 46 0.00099 20.8 1.6 26 8-33 93-118 (121)
247 PRK03906 mannonate dehydratase 27.6 1.1E+02 0.0023 23.5 3.8 30 52-81 36-65 (385)
248 PRK12518 RNA polymerase sigma 27.3 41 0.00088 21.8 1.4 29 72-100 136-164 (175)
249 PF04435 SPK: Domain of unknow 26.7 1.1E+02 0.0024 18.3 3.2 46 23-68 24-71 (109)
250 PRK07122 RNA polymerase sigma 26.7 1.3E+02 0.0028 21.4 4.0 30 72-101 231-260 (264)
251 PF09862 DUF2089: Protein of u 26.3 1.5E+02 0.0033 18.7 3.8 42 59-100 36-77 (113)
252 TIGR02957 SigX4 RNA polymerase 26.3 2.4E+02 0.0053 20.1 6.9 45 23-68 126-173 (281)
253 PF01527 HTH_Tnp_1: Transposas 26.3 1.2E+02 0.0027 16.6 4.1 42 3-47 6-47 (76)
254 COG5352 Uncharacterized protei 26.3 1.7E+02 0.0037 19.4 4.1 41 2-44 1-41 (169)
255 COG1595 RpoE DNA-directed RNA 25.9 1.3E+02 0.0029 19.6 3.8 30 72-101 143-172 (182)
256 PF08074 CHDCT2: CHDCT2 (NUC03 25.9 54 0.0012 22.2 1.8 26 4-29 6-31 (173)
257 cd09235 V_Alix Middle V-domain 25.5 90 0.002 23.2 3.1 34 69-102 111-145 (339)
258 COG1312 UxuA D-mannonate dehyd 25.3 1.2E+02 0.0026 23.1 3.6 31 52-82 36-66 (362)
259 PF10892 DUF2688: Protein of u 25.0 73 0.0016 17.6 1.9 19 50-68 39-57 (60)
260 PF01710 HTH_Tnp_IS630: Transp 24.9 1.8E+02 0.0039 18.0 5.2 54 8-63 58-111 (119)
261 TIGR00673 cynS cyanate hydrata 24.7 71 0.0015 21.2 2.2 30 62-91 11-40 (150)
262 PF00046 Homeobox: Homeobox do 24.5 1.2E+02 0.0025 15.7 5.1 46 52-97 3-52 (57)
263 PRK08583 RNA polymerase sigma 24.4 1.6E+02 0.0035 20.6 4.1 30 71-100 220-249 (257)
264 KOG3841|consensus 24.4 1.6E+02 0.0034 22.8 4.1 44 2-45 77-140 (455)
265 KOG1878|consensus 23.9 39 0.00085 30.4 1.0 40 3-43 227-266 (1672)
266 KOG3200|consensus 23.9 96 0.0021 21.5 2.7 25 5-29 22-46 (224)
267 COG1168 MalY Bifunctional PLP- 23.8 75 0.0016 24.4 2.4 18 4-21 175-192 (388)
268 KOG4771|consensus 23.6 1.9E+02 0.0041 19.9 4.0 43 2-45 154-200 (210)
269 PF15586 Imm47: Immunity prote 23.6 1.2E+02 0.0026 19.1 3.0 23 10-32 83-105 (116)
270 cd09238 V_Alix_like_1 Protein- 23.3 1.1E+02 0.0023 22.8 3.2 34 69-102 114-148 (339)
271 KOG3493|consensus 22.6 1.2E+02 0.0026 17.4 2.5 28 25-52 29-56 (73)
272 KOG3622|consensus 22.2 2.3E+02 0.0051 25.2 5.0 93 12-104 573-679 (1572)
273 TIGR02835 spore_sigmaE RNA pol 22.0 2.1E+02 0.0045 19.8 4.2 30 72-101 198-227 (234)
274 smart00583 SPK domain in SET a 21.8 2.1E+02 0.0046 17.8 3.9 45 24-68 27-74 (114)
275 cd01670 Death Death Domain: a 21.6 62 0.0013 18.0 1.3 17 67-83 5-21 (79)
276 PRK09191 two-component respons 21.3 1.6E+02 0.0034 20.1 3.6 31 70-100 102-132 (261)
277 PRK09640 RNA polymerase sigma 21.3 58 0.0013 21.5 1.3 29 73-101 151-179 (188)
278 PRK12517 RNA polymerase sigma 21.3 2E+02 0.0044 19.0 4.0 28 72-99 144-171 (188)
279 KOG0819|consensus 21.2 3.7E+02 0.0079 20.3 7.8 102 3-105 15-142 (321)
280 TIGR02941 Sigma_B RNA polymera 20.9 2E+02 0.0044 20.0 4.1 31 72-102 221-251 (255)
281 PF14237 DUF4339: Domain of un 20.8 98 0.0021 15.6 1.9 19 49-67 7-25 (45)
282 PRK13291 metal-dependent hydro 20.5 2.1E+02 0.0045 19.0 3.8 20 2-21 15-34 (173)
283 COG3604 FhlA Transcriptional r 20.5 1.6E+02 0.0034 23.8 3.6 35 59-93 506-540 (550)
284 TIGR00695 uxuA mannonate dehyd 20.2 1.8E+02 0.0039 22.5 3.8 53 53-105 37-97 (394)
285 COG4281 ACB Acyl-CoA-binding p 20.1 2E+02 0.0043 17.0 3.2 30 74-103 55-84 (87)
286 TIGR03879 near_KaiC_dom probab 20.0 1.6E+02 0.0034 17.1 2.7 28 70-97 30-57 (73)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=6.5e-36 Score=207.78 Aligned_cols=102 Identities=26% Similarity=0.491 Sum_probs=97.5
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHh-CCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLL-HRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP 80 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~-~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~ 80 (108)
.+||+|||++|+++|++||.++|..||..+ ++|++.||++||.++|+|.+++++||+|||++|++++..+|++|..||+
T Consensus 26 g~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKWs~IAk 105 (249)
T PLN03212 26 GPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIAG 105 (249)
T ss_pred CCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccccHHHHHh
Confidence 489999999999999999988999999988 4999999999999999999999999999999999999999999999999
Q ss_pred -ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548 81 -IIGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 81 -~~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
|+|||+.+|++||..++++...+
T Consensus 106 ~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 106 RIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred hcCCCCHHHHHHHHHHHHhHHHHh
Confidence 99999999999999999887553
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=5.7e-34 Score=210.69 Aligned_cols=101 Identities=26% Similarity=0.519 Sum_probs=97.4
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP 80 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~ 80 (108)
.+||+|||++|+++|.+||.++|..||..++ +|++.||++||.++|+|.+++++||+|||.+|++++..+|++|..||+
T Consensus 15 g~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKWskIAk 94 (459)
T PLN03091 15 GLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAA 94 (459)
T ss_pred CCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcchHHHHH
Confidence 4899999999999999999999999999886 999999999999999999999999999999999999999999999999
Q ss_pred -ccCCCHHHHHHHHHHHHhHHHh
Q psy15548 81 -IIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 81 -~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|+|||+.+|++||+.++++.++
T Consensus 95 ~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 95 QLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred hcCCCCHHHHHHHHHHHHHHHHH
Confidence 9999999999999999988765
No 3
>KOG0048|consensus
Probab=100.00 E-value=1.5e-33 Score=198.31 Aligned_cols=102 Identities=25% Similarity=0.455 Sum_probs=98.7
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP 80 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~ 80 (108)
+|||+|||++|+++|.+||.++|..||+.++ +|+..+||.||.++|+|++++|.||+|||..|++++..+|++|+.||+
T Consensus 10 GpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~ 89 (238)
T KOG0048|consen 10 GPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWSLIAG 89 (238)
T ss_pred CCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHHHHHh
Confidence 7999999999999999999999999999999 999999999999999999999999999999999999999999999999
Q ss_pred -ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548 81 -IIGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 81 -~~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
+||||++.++++|+..+++...+
T Consensus 90 ~LPGRTDNeIKN~Wnt~lkkkl~~ 113 (238)
T KOG0048|consen 90 RLPGRTDNEVKNHWNTHLKKKLLK 113 (238)
T ss_pred hCCCcCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999988777654
No 4
>KOG0049|consensus
Probab=99.88 E-value=1.2e-22 Score=156.06 Aligned_cols=102 Identities=26% Similarity=0.441 Sum_probs=96.8
Q ss_pred CCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCC-cchhcc
Q psy15548 3 KTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMP-TQWRTI 78 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~I 78 (108)
.||.|||.+|+.+|.....+ +|.+|-.+||||+..|...||...|+|++++|+||++||.+|+.+|.+|| ..|.+|
T Consensus 307 eWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~ 386 (939)
T KOG0049|consen 307 EWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKV 386 (939)
T ss_pred hcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhH
Confidence 59999999999999987554 89999999999999999999999999999999999999999999999998 689999
Q ss_pred cc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548 79 AP-IIGRTAAQCLERYEFLLYRARRKA 104 (108)
Q Consensus 79 a~-~~gRt~~q~~~r~~~~~~~~~~~~ 104 (108)
-. +||||..||+.||.+.|....+++
T Consensus 387 R~~vPnRSdsQcR~RY~nvL~~s~K~~ 413 (939)
T KOG0049|consen 387 RQAVPNRSDSQCRERYTNVLNRSAKVE 413 (939)
T ss_pred HHhcCCccHHHHHHHHHHHHHHhhccC
Confidence 99 999999999999999999988775
No 5
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.87 E-value=7.8e-22 Score=111.72 Aligned_cols=60 Identities=40% Similarity=0.803 Sum_probs=54.9
Q ss_pred CcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHH
Q psy15548 4 TMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKL 64 (108)
Q Consensus 4 Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L 64 (108)
||+|||++|+.+|..||. +|..||..||+||+.+|+.||...|.|..++++||++||..|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999995 999999999889999999999999999999999999999987
No 6
>KOG0049|consensus
Probab=99.85 E-value=1.6e-21 Score=149.88 Aligned_cols=96 Identities=26% Similarity=0.410 Sum_probs=88.6
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP 80 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~ 80 (108)
.+||++||.+|..+|.+||..+|.+|-..+|||+..||++||.++|+...+.+.||-.||+.|+.+|..|| ++|.+||.
T Consensus 361 g~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~ 440 (939)
T KOG0049|consen 361 GRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAM 440 (939)
T ss_pred CCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999 79999999
Q ss_pred -ccCCCH---HHHHHHHHHHH
Q psy15548 81 -IIGRTA---AQCLERYEFLL 97 (108)
Q Consensus 81 -~~gRt~---~q~~~r~~~~~ 97 (108)
+++||. ..|+.|+..+.
T Consensus 441 ~Lp~~t~~q~~rrR~R~~~~k 461 (939)
T KOG0049|consen 441 LLPKKTSRQLRRRRLRLIAAK 461 (939)
T ss_pred HccccchhHHHHHHHHHHHHH
Confidence 888998 45666665443
No 7
>KOG0050|consensus
Probab=99.82 E-value=2e-20 Score=140.70 Aligned_cols=102 Identities=74% Similarity=1.109 Sum_probs=97.8
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhccccc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPI 81 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~ 81 (108)
+-|+.-||+.|..+|.+||.+.|+.|++.++..++.||+.||..+++|.+++..||.+||++|+.+.......|.-|+.+
T Consensus 8 gvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtIa~i 87 (617)
T KOG0050|consen 8 GVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTIADI 87 (617)
T ss_pred ceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchHHHH
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHhHHHhh
Q psy15548 82 IGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 82 ~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
+|||+.||-.||.+++......
T Consensus 88 ~gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 88 MGRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred hhhhHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999876654
No 8
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.72 E-value=9.8e-18 Score=127.61 Aligned_cols=101 Identities=47% Similarity=0.656 Sum_probs=96.6
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP- 80 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~- 80 (108)
+.|+..||+.|..+|..||.++|+.||..+..+++.+|+.||.++++|.++++.|+.+||..|+.+...+|..|+.||.
T Consensus 21 gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wstia~~ 100 (512)
T COG5147 21 GSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIADY 100 (512)
T ss_pred CCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhhhccc
Confidence 4799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCHHHHHHHHHHHHhHHHh
Q psy15548 81 IIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 81 ~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
++|||..+|.+||...+.....
T Consensus 101 ~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 101 KDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cCccchHHHHHHHHHHhhhhhc
Confidence 7789999999999998877655
No 9
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.71 E-value=2.2e-17 Score=89.60 Aligned_cols=46 Identities=39% Similarity=0.599 Sum_probs=41.8
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWL 47 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l 47 (108)
.+||+|||++|.++|.+||.++|..||..|| +||+.||+.||++++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5899999999999999999866999999999 999999999999864
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.68 E-value=6.8e-17 Score=87.66 Aligned_cols=45 Identities=49% Similarity=0.839 Sum_probs=40.6
Q ss_pred ccCCCHHHHHHHHHHHhhCCcc-hhcccc-cc-CCCHHHHHHHHHHHH
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQ-WRTIAP-II-GRTAAQCLERYEFLL 97 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~-W~~Ia~-~~-gRt~~q~~~r~~~~~ 97 (108)
+++||++||+.|+++|.+||.+ |..||. ++ |||+.||++||++++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 4799999999999999999987 999999 98 999999999999874
No 11
>KOG0051|consensus
Probab=99.67 E-value=2.6e-16 Score=121.10 Aligned_cols=103 Identities=25% Similarity=0.425 Sum_probs=90.0
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCC--cccCCCHHHHHHHHHHHh-------hC-
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSI--KKTEWSREEDEKLLHLAK-------LM- 71 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~--~~~~Wt~eEd~~L~~~v~-------~~- 71 (108)
++||+||++.|..+|.++|. .|..|+..| ||.|..|++||+++..++. ++++||.+|.+.|+.+|. ++
T Consensus 385 g~wt~ee~eeL~~l~~~~g~-~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q 462 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGN-DWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQ 462 (607)
T ss_pred CCCCcchHHHHHHHHHHhcc-cHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhccc
Confidence 68999999999999999996 999999999 5999999999999999885 889999999999999994 23
Q ss_pred ------------------Ccchhcccc-ccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548 72 ------------------PTQWRTIAP-IIGRTAAQCLERYEFLLYRARRKAVQ 106 (108)
Q Consensus 72 ------------------g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~~ 106 (108)
+-+|..|++ +..|+..||+.+|..++....-.+.+
T Consensus 463 ~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~ 516 (607)
T KOG0051|consen 463 ASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQ 516 (607)
T ss_pred ccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhccc
Confidence 127999999 55699999999999988776554443
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.60 E-value=7.7e-16 Score=107.66 Aligned_cols=57 Identities=25% Similarity=0.461 Sum_probs=52.7
Q ss_pred CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-c-cCCCHHHHHHHHHHHHhHHHhhh
Q psy15548 48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I-IGRTAAQCLERYEFLLYRARRKA 104 (108)
Q Consensus 48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~-~gRt~~q~~~r~~~~~~~~~~~~ 104 (108)
.+++++++||+|||++|+++|++|| .+|..||+ + +|||+.||+.||.++|+|.++++
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kg 79 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRG 79 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccC
Confidence 3568899999999999999999999 58999999 7 69999999999999999999876
No 13
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.55 E-value=2.3e-15 Score=84.97 Aligned_cols=48 Identities=38% Similarity=0.638 Sum_probs=40.1
Q ss_pred CCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548 56 WSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 56 Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
||++||..|+.+|..||.+|..||+ |+.||+.+|++||...+++.+++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~ 49 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISR 49 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccC
Confidence 9999999999999999999999999 64499999999999977765544
No 14
>KOG0048|consensus
Probab=99.53 E-value=4.5e-15 Score=104.55 Aligned_cols=57 Identities=19% Similarity=0.288 Sum_probs=52.0
Q ss_pred CCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-cc-CCCHHHHHHHHHHHHhHHHhhhh
Q psy15548 49 PSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-II-GRTAAQCLERYEFLLYRARRKAV 105 (108)
Q Consensus 49 ~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~-gRt~~q~~~r~~~~~~~~~~~~~ 105 (108)
+.+.+|+||+|||++|+++|++|| ++|..|++ +. ||++++||.||.++|+|.++++.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~ 64 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGN 64 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCC
Confidence 345579999999999999999999 57999999 76 99999999999999999999874
No 15
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.52 E-value=5.5e-14 Score=75.22 Aligned_cols=47 Identities=40% Similarity=0.674 Sum_probs=43.7
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD 48 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~ 48 (108)
.+||++||..|..++..||..+|..||..||+||+.+|+.+|..++.
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 58999999999999999995599999999999999999999998654
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.50 E-value=3e-14 Score=76.25 Aligned_cols=46 Identities=50% Similarity=0.811 Sum_probs=43.1
Q ss_pred ccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548 53 KTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLY 98 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~ 98 (108)
+++||++||..|+.++..+| .+|..||. +++||+.+|+.||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 36899999999999999999 99999999 899999999999998765
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.49 E-value=1e-13 Score=73.06 Aligned_cols=44 Identities=43% Similarity=0.731 Sum_probs=41.6
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW 46 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~ 46 (108)
+||++||..|..++..||..+|..||..|++|++.+|+.+|.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 69999999999999999956999999999999999999999875
No 18
>KOG0051|consensus
Probab=99.47 E-value=9.1e-14 Score=107.25 Aligned_cols=100 Identities=23% Similarity=0.342 Sum_probs=88.4
Q ss_pred CCCcHHHHHHHHHHHHHhCC-----------------------CCHHHHHHHhCCCCHHHHHHHhhhhcCCCC-cccCCC
Q psy15548 2 LKTMTIVDEILKAAVMKYGK-----------------------NQWSRIASLLHRKSAKQCKARWFEWLDPSI-KKTEWS 57 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~-----------------------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~-~~~~Wt 57 (108)
..|+++||..|...|+.|-. +-|+.|...||.|+...++.+-++..+|.- .+|.||
T Consensus 309 ~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~rg~wt 388 (607)
T KOG0051|consen 309 KKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFENKRGKWT 388 (607)
T ss_pred hhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCccccccCCCC
Confidence 57999999999999999811 247889999999999999886655555544 899999
Q ss_pred HHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 58 REEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 58 ~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
++|++.|..++.++|+.|..|++++||.|..|++||.++....-
T Consensus 389 ~ee~eeL~~l~~~~g~~W~~Ig~~lgr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 389 PEEEEELKKLVVEHGNDWKEIGKALGRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred cchHHHHHHHHHHhcccHHHHHHHHccCcHHHHHHHHHhhcccc
Confidence 99999999999999999999999999999999999999998874
No 19
>PLN03091 hypothetical protein; Provisional
Probab=99.45 E-value=3.9e-14 Score=105.76 Aligned_cols=57 Identities=26% Similarity=0.446 Sum_probs=52.1
Q ss_pred CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-c-cCCCHHHHHHHHHHHHhHHHhhh
Q psy15548 48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I-IGRTAAQCLERYEFLLYRARRKA 104 (108)
Q Consensus 48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~-~gRt~~q~~~r~~~~~~~~~~~~ 104 (108)
.+.+++++||+|||++|+++|.+|| .+|..||+ + +|||+.||+.||.++|+|.++++
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKg 68 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRG 68 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCC
Confidence 3568899999999999999999999 58999999 6 58999999999999999999876
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.40 E-value=4.1e-13 Score=70.68 Aligned_cols=43 Identities=47% Similarity=0.782 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548 55 EWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLL 97 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~ 97 (108)
+||++||..|+.++..+| .+|..||. +++||+.+|++||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999 88999999999998763
No 21
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.82 E-value=1.7e-08 Score=56.43 Aligned_cols=46 Identities=20% Similarity=0.280 Sum_probs=41.9
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCH---HHHHHHhC-CC-CHHHHHHHhhhhc
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQW---SRIASLLH-RK-SAKQCKARWFEWL 47 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W---~~Ia~~~~-~R-~~~qc~~rw~~~l 47 (108)
+.||+||...++++|+.+|.++| ..|++.|. .+ |..||+.|++.+.
T Consensus 4 ~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 4 VVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 57999999999999999998899 99999886 56 9999999998764
No 22
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.80 E-value=5.3e-10 Score=85.74 Aligned_cols=95 Identities=28% Similarity=0.554 Sum_probs=81.4
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCC--CCcccCCCHHHHHHHHHHHhhC--------
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP--SIKKTEWSREEDEKLLHLAKLM-------- 71 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~--~~~~~~Wt~eEd~~L~~~v~~~-------- 71 (108)
.+||++|+..|...+..+|. .|..|...+ +|-+..|++||+.+..+ .+.+++||.+|+.+|...|...
T Consensus 292 ~~wt~e~~~eL~~~~~~~~~-~w~~ig~~~-~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~~~~ 369 (512)
T COG5147 292 GKWTKEEEQELAKLVVEHGG-SWTEIGKLL-GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQQSS 369 (512)
T ss_pred ccCccccccccccccccccc-hhhHhhhhh-ccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHhhhh
Confidence 58999999999999999996 999999888 59999999999999888 5677899999999999887521
Q ss_pred Ccchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548 72 PTQWRTIAP-IIGRTAAQCLERYEFLLY 98 (108)
Q Consensus 72 g~~W~~Ia~-~~gRt~~q~~~r~~~~~~ 98 (108)
...|..|+. +.+|...+|+..+.....
T Consensus 370 ~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 370 RILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhHHHHHHhhhccccCCCCCccccccc
Confidence 147999999 788888888877765544
No 23
>KOG0457|consensus
Probab=98.78 E-value=1.1e-08 Score=76.63 Aligned_cols=45 Identities=22% Similarity=0.443 Sum_probs=43.2
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL 47 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l 47 (108)
-||++|+-+|+++++.||.|||..||.++++|+..+|+++|.+++
T Consensus 74 ~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 74 SWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 599999999999999999999999999999999999999998865
No 24
>KOG0050|consensus
Probab=98.50 E-value=7.6e-08 Score=73.57 Aligned_cols=54 Identities=37% Similarity=0.487 Sum_probs=49.6
Q ss_pred CcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548 51 IKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYRARRKA 104 (108)
Q Consensus 51 ~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~ 104 (108)
++.|.|+..||+.|..+|.+|| +.|+.|++ +.-+|+.||+.||...++|.+++-
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~t 60 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKT 60 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhh
Confidence 4578999999999999999999 68999999 777999999999999999999864
No 25
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.44 E-value=3.4e-07 Score=69.37 Aligned_cols=43 Identities=19% Similarity=0.392 Sum_probs=41.1
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW 46 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~ 46 (108)
+||.+|..+|+++|+.||. +|.+||.++++++..||..|+.++
T Consensus 281 ~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 281 NWSRQELLLLLEGIEMYGD-DWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccHHHHHHHHHHHHHhhh-hHHHHHHHhCCCCHHHHHHHHHcC
Confidence 7999999999999999997 999999999999999999999764
No 26
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.34 E-value=1.5e-06 Score=48.59 Aligned_cols=46 Identities=13% Similarity=0.385 Sum_probs=39.7
Q ss_pred ccCCCHHHHHHHHHHHhhCCc-ch---hcccc-cc-CC-CHHHHHHHHHHHHh
Q psy15548 53 KTEWSREEDEKLLHLAKLMPT-QW---RTIAP-II-GR-TAAQCLERYEFLLY 98 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~-~W---~~Ia~-~~-gR-t~~q~~~r~~~~~~ 98 (108)
+-.||+||...+++++..+|. +| ..|++ +. .+ |..||+++.+.+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 457999999999999999996 99 99998 43 35 99999999987653
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=98.31 E-value=7.4e-06 Score=56.36 Aligned_cols=96 Identities=17% Similarity=0.218 Sum_probs=72.9
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC---CCCHHHHHHHhhhhcCC----------------C-----CcccCCCH
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH---RKSAKQCKARWFEWLDP----------------S-----IKKTEWSR 58 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~---~R~~~qc~~rw~~~l~~----------------~-----~~~~~Wt~ 58 (108)
+|++++|-.|+.+|..-. +-..|+..++ .-|...+..||+..|-. . ..+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998744 6888887666 67899999999887532 1 23568999
Q ss_pred HHHHHHHHHHhhCCc---chhcccc-----c-cCCCHHHHHHHHHHHHhHH
Q psy15548 59 EEDEKLLHLAKLMPT---QWRTIAP-----I-IGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 59 eEd~~L~~~v~~~g~---~W~~Ia~-----~-~gRt~~q~~~r~~~~~~~~ 100 (108)
+|++.|......... .+.+|-. | ++||+.++.++|..+.+..
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 999999997655432 4555432 2 5799999999999765443
No 28
>KOG0457|consensus
Probab=98.28 E-value=1.2e-06 Score=65.78 Aligned_cols=47 Identities=30% Similarity=0.504 Sum_probs=41.9
Q ss_pred CcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548 51 IKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLL 97 (108)
Q Consensus 51 ~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~ 97 (108)
+-...||.+|+.+|++++..|| +||..||. +-.||..+|+.+|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 3346899999999999999999 89999999 66699999999998765
No 29
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=98.28 E-value=6.9e-07 Score=59.24 Aligned_cols=55 Identities=22% Similarity=0.392 Sum_probs=46.5
Q ss_pred cccCCCHHHHHHHHHHHhhC---Cc----chhccccccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548 52 KKTEWSREEDEKLLHLAKLM---PT----QWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQ 106 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~---g~----~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~~~~ 106 (108)
+...||.|||.+|.+.|-.| |+ -+.++++-+|||+..|.-||+..+++....+++
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~RTsAACGFRWNs~VRkqY~~~i~ 64 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALNRTAAACGFRWNAYVRKQYEEAIE 64 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHcccHHHhcchHHHHHHHHHHHHHH
Confidence 46789999999999998655 32 577788888999999999999999998877754
No 30
>KOG1279|consensus
Probab=98.16 E-value=3.2e-06 Score=65.28 Aligned_cols=43 Identities=23% Similarity=0.466 Sum_probs=40.9
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW 46 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~ 46 (108)
.||.+|.-+|+++|+.||. +|.+||.++++||..||..++.+.
T Consensus 255 ~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 255 NWTEQETLLLLEAIEMYGD-DWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CccHHHHHHHHHHHHHhcc-cHHHHHhccCCCCHHHHHHHHHhc
Confidence 6999999999999999997 999999999999999999999763
No 31
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.93 E-value=7.6e-06 Score=49.03 Aligned_cols=49 Identities=31% Similarity=0.628 Sum_probs=35.8
Q ss_pred cCCCHHHHHHHHHHHhh------CC--------cchhcccc-cc--C--CCHHHHHHHHHHHHhHHHh
Q psy15548 54 TEWSREEDEKLLHLAKL------MP--------TQWRTIAP-II--G--RTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~------~g--------~~W~~Ia~-~~--g--Rt~~q~~~r~~~~~~~~~~ 102 (108)
..||.+|...|++++.. ++ .-|..||. +. | ||+.||+++|.++.+...+
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 47999999999998865 11 15999999 62 4 9999999999998876543
No 32
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.92 E-value=1.5e-05 Score=45.59 Aligned_cols=49 Identities=14% Similarity=0.189 Sum_probs=33.3
Q ss_pred CCCcHHHHHHHHHHHHHhCC--------CCHHHHHHHhC-CCCHHHHHHHhhhhcCCC
Q psy15548 2 LKTMTIVDEILKAAVMKYGK--------NQWSRIASLLH-RKSAKQCKARWFEWLDPS 50 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~--------~~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~ 50 (108)
+|||.+||..|+..|..+.. .-|.+++..-+ ++|..+-++||...|.+.
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 58999999999999976521 25999999888 899999999999988754
No 33
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.90 E-value=1.5e-05 Score=58.23 Aligned_cols=46 Identities=15% Similarity=0.289 Sum_probs=43.3
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD 48 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~ 48 (108)
-|+.+|+-+|+++....|-|||..||.+++.|+...|++||..++.
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4999999999999999999999999999999999999999987654
No 34
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.90 E-value=9.4e-06 Score=61.71 Aligned_cols=44 Identities=27% Similarity=0.491 Sum_probs=40.6
Q ss_pred ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHH
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFL 96 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~ 96 (108)
...||.+|..+|++++..||.+|.+||+ +-+||..||--||-++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 3589999999999999999999999999 7789999999999754
No 35
>KOG1279|consensus
Probab=97.81 E-value=2.4e-05 Score=60.55 Aligned_cols=45 Identities=20% Similarity=0.521 Sum_probs=41.2
Q ss_pred cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHH
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFL 96 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~ 96 (108)
....||.+|..+|++++..||.+|.+||. +-+||..||-.+|..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 34689999999999999999999999999 8889999999998754
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.81 E-value=4.1e-05 Score=45.80 Aligned_cols=45 Identities=18% Similarity=0.357 Sum_probs=33.2
Q ss_pred CCCcHHHHHHHHHHHHH--h----C--C-----CCHHHHHHHhC----CCCHHHHHHHhhhh
Q psy15548 2 LKTMTIVDEILKAAVMK--Y----G--K-----NQWSRIASLLH----RKSAKQCKARWFEW 46 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~--~----g--~-----~~W~~Ia~~~~----~R~~~qc~~rw~~~ 46 (108)
.+||.+|...|+.++.. + + . .-|..||..|. .||+.||+.+|.++
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 37999999999999888 2 1 1 15999999875 79999999999875
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=97.62 E-value=4.3e-05 Score=51.39 Aligned_cols=56 Identities=18% Similarity=0.372 Sum_probs=43.6
Q ss_pred CcccCCCHHHHHHHHHHHhhCCc-------chhccccccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548 51 IKKTEWSREEDEKLLHLAKLMPT-------QWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQ 106 (108)
Q Consensus 51 ~~~~~Wt~eEd~~L~~~v~~~g~-------~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~~~~ 106 (108)
.+...||.|+|.+|-+.|-.|+. -...++..++||+.+|..||+.+++.....+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vrk~Yee~I~ 65 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVRKQYQEQIK 65 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHH
Confidence 35678999999999888866652 234444567899999999999999988776654
No 38
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.54 E-value=0.0012 Score=55.29 Aligned_cols=101 Identities=20% Similarity=0.245 Sum_probs=79.8
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHH-------Hhhhh------c---------------------
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKA-------RWFEW------L--------------------- 47 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~-------rw~~~------l--------------------- 47 (108)
.-||.-+=..++.+..+||..+-..||..|.+++..+++. ||..+ +
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4599999999999999999999999999999999988864 22111 0
Q ss_pred ----------------CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-c------------cCCCHHHHHHHHHHHH
Q psy15548 48 ----------------DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I------------IGRTAAQCLERYEFLL 97 (108)
Q Consensus 48 ----------------~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~------------~gRt~~q~~~r~~~~~ 97 (108)
-+..++..+|.+||.-|+-++.+|| .+|..|-. + ..||+..+..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0223345699999999999999999 68988732 1 2699999999999998
Q ss_pred hHHHh
Q psy15548 98 YRARR 102 (108)
Q Consensus 98 ~~~~~ 102 (108)
+-..+
T Consensus 985 ~~~~~ 989 (1033)
T PLN03142 985 RLIEK 989 (1033)
T ss_pred HHHHH
Confidence 76644
No 39
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.49 E-value=0.00013 Score=48.57 Aligned_cols=67 Identities=16% Similarity=0.290 Sum_probs=49.1
Q ss_pred CCcHHHHHHHHHHHHHhCC------CCHHHHHHHhCCCCHHHHHHHhhhhcCCC--------------Cc--ccCCCHHH
Q psy15548 3 KTMTIVDEILKAAVMKYGK------NQWSRIASLLHRKSAKQCKARWFEWLDPS--------------IK--KTEWSREE 60 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~--------------~~--~~~Wt~eE 60 (108)
.||.|||.+|.+.|..|-. ....+|+..+ +||+..|..||..++... .+ .+.-|-++
T Consensus 6 AWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~i~~AKkqRk~~~~~~~~ltl~~ 84 (161)
T TIGR02894 6 AWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEAIELAKKQRKELKREAGSLTLQD 84 (161)
T ss_pred ccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHHHHHHHHHHhccccCcccCCHHH
Confidence 5999999999999999832 1588888888 699999999998776421 11 24566666
Q ss_pred HHHHHHHHhh
Q psy15548 61 DEKLLHLAKL 70 (108)
Q Consensus 61 d~~L~~~v~~ 70 (108)
...+++.++.
T Consensus 85 vI~fLq~l~~ 94 (161)
T TIGR02894 85 VISFLQNLKT 94 (161)
T ss_pred HHHHHHHHHh
Confidence 6666655543
No 40
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.48 E-value=0.00015 Score=41.54 Aligned_cols=50 Identities=24% Similarity=0.313 Sum_probs=31.1
Q ss_pred ccCCCHHHHHHHHHHHhhCC--------c-chhcccc-cc-CCCHHHHHHHHHHHHhHHHh
Q psy15548 53 KTEWSREEDEKLLHLAKLMP--------T-QWRTIAP-II-GRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g--------~-~W~~Ia~-~~-gRt~~q~~~r~~~~~~~~~~ 102 (108)
+.+||.+||..|+..|..+. + =|.+++. .+ ++|-.+.++||...+.+...
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 45899999999999996542 1 3899988 66 89999999999888876544
No 41
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=97.41 E-value=0.00037 Score=40.77 Aligned_cols=51 Identities=29% Similarity=0.442 Sum_probs=41.9
Q ss_pred ccCCCHHHHHHHHHHHhhCCc-----------------chhcccc-c----c-CCCHHHHHHHHHHHHhHHHhh
Q psy15548 53 KTEWSREEDEKLLHLAKLMPT-----------------QWRTIAP-I----I-GRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~-----------------~W~~Ia~-~----~-gRt~~q~~~r~~~~~~~~~~~ 103 (108)
...||++|...|+++|..|.. -|..|+. + + .||..+++.+|.++.....++
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 457999999999999987631 5999998 5 2 399999999999998776654
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=97.23 E-value=0.00068 Score=39.63 Aligned_cols=46 Identities=30% Similarity=0.353 Sum_probs=38.7
Q ss_pred CCCcHHHHHHHHHHHHHhCC----------------CCHHHHHHHhC-----CCCHHHHHHHhhhhc
Q psy15548 2 LKTMTIVDEILKAAVMKYGK----------------NQWSRIASLLH-----RKSAKQCKARWFEWL 47 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~----------------~~W~~Ia~~~~-----~R~~~qc~~rw~~~l 47 (108)
..||++|...|+++|.+|.. .-|..|+..|. .|+..+++..|.++.
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 46999999999999999832 25999998773 699999999998854
No 43
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.08 E-value=0.00052 Score=50.41 Aligned_cols=45 Identities=20% Similarity=0.355 Sum_probs=40.6
Q ss_pred cCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548 54 TEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLY 98 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~ 98 (108)
..|+.+|+.+|+++....| +||..||. +-.|+...|+++|..+..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4699999999999999999 89999999 555999999999987765
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.66 E-value=0.0024 Score=43.06 Aligned_cols=45 Identities=18% Similarity=0.369 Sum_probs=35.9
Q ss_pred CCcHHHHHHHHHHHHHhCCC------CHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548 3 KTMTIVDEILKAAVMKYGKN------QWSRIASLLHRKSAKQCKARWFEWLD 48 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~------~W~~Ia~~~~~R~~~qc~~rw~~~l~ 48 (108)
.||.|||.+|.+.|..|+.. -...++..+ +|++.+|..||..++.
T Consensus 7 awt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vr 57 (170)
T PRK13923 7 AWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHH
Confidence 69999999999999998653 355555666 6999999999965544
No 45
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=96.49 E-value=0.0063 Score=45.78 Aligned_cols=43 Identities=28% Similarity=0.349 Sum_probs=40.9
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
.|||.+|-+++..+....|. +.+.||..+|+|+..|+...|.+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcCchhHHHHHHHHHH
Confidence 48999999999999999998 99999999999999999999965
No 46
>KOG4282|consensus
Probab=96.07 E-value=0.011 Score=43.85 Aligned_cols=50 Identities=28% Similarity=0.557 Sum_probs=41.1
Q ss_pred cCCCHHHHHHHHHHHhhC----------Ccchhcccc-cc--C--CCHHHHHHHHHHHHhHHHhh
Q psy15548 54 TEWSREEDEKLLHLAKLM----------PTQWRTIAP-II--G--RTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~----------g~~W~~Ia~-~~--g--Rt~~q~~~r~~~~~~~~~~~ 103 (108)
..|+.+|-..|+++.... +.-|..||+ +. | ||+.||+.+|.++.+...+.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~ 119 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE 119 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 689999999999986422 346999998 53 4 99999999999999887653
No 47
>KOG2656|consensus
Probab=96.03 E-value=0.019 Score=43.33 Aligned_cols=51 Identities=27% Similarity=0.387 Sum_probs=45.2
Q ss_pred cCCCHHHHHHHHHHHhhCCcchhcccc-c-----c-CCCHHHHHHHHHHHHhHHHhhh
Q psy15548 54 TEWSREEDEKLLHLAKLMPTQWRTIAP-I-----I-GRTAAQCLERYEFLLYRARRKA 104 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~-----~-gRt~~q~~~r~~~~~~~~~~~~ 104 (108)
..||.+|-.-|.++.+.|.-.|..|+. . . .||-..+++||+.+.+...+..
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 579999999999999999999999997 5 2 3999999999999998877643
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.91 E-value=0.01 Score=44.73 Aligned_cols=44 Identities=20% Similarity=0.271 Sum_probs=40.7
Q ss_pred cCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548 54 TEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLL 97 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~ 97 (108)
.+||..|-+++..++...|.+++.||. ||.|+..|++.+|.+--
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee 410 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE 410 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence 479999999999999999999999999 99999999999997543
No 49
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=95.76 E-value=0.016 Score=36.96 Aligned_cols=52 Identities=29% Similarity=0.330 Sum_probs=40.2
Q ss_pred CCcccCCCHHHHHHHHHHHhhCCc----chhcccc-c------------cCCCHHHHHHHHHHHHhHHH
Q psy15548 50 SIKKTEWSREEDEKLLHLAKLMPT----QWRTIAP-I------------IGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 50 ~~~~~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~-~------------~gRt~~q~~~r~~~~~~~~~ 101 (108)
+.++..+|.+||.-|+-++.+||- .|..|-. + ..||+..+..|...+++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 566789999999999999999985 7877754 2 25999999999999887544
No 50
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=95.51 E-value=0.038 Score=35.19 Aligned_cols=44 Identities=18% Similarity=0.339 Sum_probs=35.5
Q ss_pred CCcHHHHHHHHHHHHHhCC---CCHHHHHHHh------------CCCCHHHHHHHhhhh
Q psy15548 3 KTMTIVDEILKAAVMKYGK---NQWSRIASLL------------HRKSAKQCKARWFEW 46 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~~------------~~R~~~qc~~rw~~~ 46 (108)
.+|.+||.-|+-.+.+||. +.|..|-..+ ..||+..+..|-...
T Consensus 51 ~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tL 109 (118)
T PF09111_consen 51 VYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTL 109 (118)
T ss_dssp SS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHH
T ss_pred CcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHH
Confidence 5899999999999999999 8999998643 279999998887653
No 51
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=94.94 E-value=0.046 Score=32.75 Aligned_cols=46 Identities=26% Similarity=0.336 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHhhC---C-----c-----chhcccc-c---cC--CCHHHHHHHHHHHHhHH
Q psy15548 55 EWSREEDEKLLHLAKLM---P-----T-----QWRTIAP-I---IG--RTAAQCLERYEFLLYRA 100 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~---g-----~-----~W~~Ia~-~---~g--Rt~~q~~~r~~~~~~~~ 100 (108)
.||++++..|++++.+. | + .|..|+. | +| .|..||++||..+.+..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y 65 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDY 65 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHH
Confidence 49999999999987321 2 1 4888887 5 34 68899999998776654
No 52
>KOG4167|consensus
Probab=94.85 E-value=0.066 Score=43.47 Aligned_cols=43 Identities=16% Similarity=0.384 Sum_probs=39.1
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
.+||+.|-.++.+++..|.. +...|+..++++|..||-+-|+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHHHhccccHHHHHHHHHH
Confidence 48999999999999999997 99999999999999999776543
No 53
>KOG4282|consensus
Probab=94.83 E-value=0.074 Score=39.37 Aligned_cols=46 Identities=20% Similarity=0.188 Sum_probs=37.1
Q ss_pred CCCcHHHHHHHHHHHHHh----CC-----CCHHHHHHHhC----CCCHHHHHHHhhhhc
Q psy15548 2 LKTMTIVDEILKAAVMKY----GK-----NQWSRIASLLH----RKSAKQCKARWFEWL 47 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~----g~-----~~W~~Ia~~~~----~R~~~qc~~rw~~~l 47 (108)
..|+.+|-..|+.+.... .. ..|..||..+. .|++.||+.+|.++.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 479999999999988753 11 26999998654 699999999998764
No 54
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=94.70 E-value=0.11 Score=31.05 Aligned_cols=44 Identities=20% Similarity=0.378 Sum_probs=34.2
Q ss_pred CCcHHHHHHHHHHHHHh---C----C-----CCHHHHHHHhC-----CCCHHHHHHHhhhh
Q psy15548 3 KTMTIVDEILKAAVMKY---G----K-----NQWSRIASLLH-----RKSAKQCKARWFEW 46 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~---g----~-----~~W~~Ia~~~~-----~R~~~qc~~rw~~~ 46 (108)
.||+++++.|++++... | . ..|..|+..|. ..+..||+.||...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999988654 1 1 15999998775 45789999998764
No 55
>KOG1194|consensus
Probab=94.25 E-value=0.29 Score=37.88 Aligned_cols=50 Identities=14% Similarity=0.174 Sum_probs=43.4
Q ss_pred cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHH
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~ 101 (108)
-...||.||-.++-.+...||.++.+|-+ +|.||-.++..-|....+...
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~~ 236 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTRE 236 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHhh
Confidence 35689999999999999999999999999 999999999988776655543
No 56
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 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 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; 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: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=93.72 E-value=0.17 Score=27.09 Aligned_cols=41 Identities=17% Similarity=0.216 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHh
Q psy15548 58 REEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLY 98 (108)
Q Consensus 58 ~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~ 98 (108)
++++..++.+.-..|-++.+||...|.|...++.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEILGISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHHCcCHHHHHHHHHHHHh
Confidence 35566677777788899999999999999999998876654
No 57
>KOG1194|consensus
Probab=93.53 E-value=0.2 Score=38.70 Aligned_cols=42 Identities=14% Similarity=0.207 Sum_probs=38.2
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
-||.||--++.++...||. +..+|-..||.|+-.++..-|+.
T Consensus 189 ~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 189 EWTAEDIVLFEQAFQFFGK-DFHKIRQALPHRSLASLVQYYYS 230 (534)
T ss_pred cchHHHHHHHHHHHHHhcc-cHHHHHHHccCccHHHHHHHHHH
Confidence 4999999999999999997 99999999999999988876654
No 58
>smart00595 MADF subfamily of SANT domain.
Probab=92.78 E-value=0.18 Score=29.77 Aligned_cols=23 Identities=39% Similarity=0.784 Sum_probs=20.5
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEW 46 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~ 46 (108)
.|..||..|+. +..+|+.+|.+.
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 69999999975 999999999874
No 59
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=92.71 E-value=0.63 Score=24.02 Aligned_cols=38 Identities=16% Similarity=0.205 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
+=|..|+.+....|.-.+.+||..++ =|+..|..|...
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg-lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG-LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC-cCHHHHHHHHHH
Confidence 45888999999999889999999995 799999999865
No 60
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=92.69 E-value=0.22 Score=25.81 Aligned_cols=38 Identities=24% Similarity=0.282 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHH
Q psy15548 59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFL 96 (108)
Q Consensus 59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~ 96 (108)
+=|..|+.++...| ..+.+||+..|=|+..|..|...+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 45778888888877 589999999999999999998764
No 61
>KOG4468|consensus
Probab=91.46 E-value=0.36 Score=38.64 Aligned_cols=50 Identities=20% Similarity=0.410 Sum_probs=40.9
Q ss_pred ccCCCHHHHHHHHHHHhhCCcchhcccc-----------ccCCCHHHHHHHHHHHHhHHHh
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-----------IIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-----------~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
+..||-.|.+-+..+++++|+++..|-. ..-+|..|++.+|+..+.+..+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k 148 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNK 148 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHh
Confidence 4589999999999999999999999832 2236888999999988776543
No 62
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=91.40 E-value=0.75 Score=28.71 Aligned_cols=46 Identities=20% Similarity=0.245 Sum_probs=33.6
Q ss_pred CCcHHHHHHHHHHHHHh------------C------------------CCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548 3 KTMTIVDEILKAAVMKY------------G------------------KNQWSRIASLLHRKSAKQCKARWFEWLD 48 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~------------g------------------~~~W~~Ia~~~~~R~~~qc~~rw~~~l~ 48 (108)
++|++||..|-..|.+| | ..-....+...|.+|..+=++||+..+.
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~ 76 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVS 76 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHH
Confidence 68999999999999876 1 1235677788889999999999988765
No 63
>smart00595 MADF subfamily of SANT domain.
Probab=90.82 E-value=0.36 Score=28.47 Aligned_cols=28 Identities=32% Similarity=0.616 Sum_probs=22.9
Q ss_pred chhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 74 QWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 74 ~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
-|..||.-+|-|..+|+.+|.++-....
T Consensus 29 aW~~Ia~~l~~~~~~~~~kw~~LR~~y~ 56 (89)
T smart00595 29 AWEEIAEELGLSVEECKKRWKNLRDRYR 56 (89)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 5999999666699999999998865543
No 64
>KOG4167|consensus
Probab=90.77 E-value=0.39 Score=39.25 Aligned_cols=43 Identities=19% Similarity=0.325 Sum_probs=38.7
Q ss_pred ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHH
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEF 95 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~ 95 (108)
...||+.|-.++.+++-.|.+++..|++ ++++|-.||-.-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 4579999999999999999999999999 899999999876654
No 65
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=90.68 E-value=1.1 Score=33.24 Aligned_cols=55 Identities=27% Similarity=0.355 Sum_probs=43.6
Q ss_pred ccCCCHHHHHHHHHHHhhC-Cc---chhcccc-ccCCCHHHHHHHHHHHHhHHHhhhhhc
Q psy15548 53 KTEWSREEDEKLLHLAKLM-PT---QWRTIAP-IIGRTAAQCLERYEFLLYRARRKAVQL 107 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~-g~---~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~~~ 107 (108)
...||.-|...|+.+++.. |. +-.+|++ ++||+..++++--+.+..+..+..+|.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvareaiqk 80 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAREAIQK 80 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4589999999999988643 43 4567888 899999999998888877777766653
No 66
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=90.10 E-value=0.36 Score=31.66 Aligned_cols=42 Identities=17% Similarity=0.121 Sum_probs=36.9
Q ss_pred HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
+-|..|+.+++..| ..|++||+..|-|+..|+.|+..+....
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAG 51 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence 56888999998887 5999999999999999999999887654
No 67
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 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 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; 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: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=89.98 E-value=1.2 Score=23.37 Aligned_cols=41 Identities=12% Similarity=0.135 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 60 EDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 60 Ed~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
++..++.+.=-.|.++.+||..+|-|...++.+....+++.
T Consensus 8 ~er~vi~~~y~~~~t~~eIa~~lg~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 8 REREVIRLRYFEGLTLEEIAERLGISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHTST-SHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHCCcHHHHHHHHHHHHHHh
Confidence 34444444445667999999999999999999888877664
No 68
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=89.52 E-value=0.45 Score=31.55 Aligned_cols=44 Identities=18% Similarity=0.189 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 58 REEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 58 ~eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.+-|.+|+.+++..| -.|++||+..|=|+..|..|+..+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence 456888999888887 59999999999999999999999877653
No 69
>KOG2656|consensus
Probab=89.51 E-value=0.19 Score=38.15 Aligned_cols=44 Identities=11% Similarity=0.174 Sum_probs=38.5
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHH-----hCC-CCHHHHHHHhhhhc
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASL-----LHR-KSAKQCKARWFEWL 47 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~-----~~~-R~~~qc~~rw~~~l 47 (108)
-||++|-+.|.+++..|.- .|-.||.. ++. ||....++||+.+.
T Consensus 132 ~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 132 SWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred cccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 3999999999999999997 88889876 564 99999999998753
No 70
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=89.51 E-value=0.95 Score=31.40 Aligned_cols=45 Identities=9% Similarity=0.137 Sum_probs=34.2
Q ss_pred CCCcHHHHHHHHHHHHHhCC--CCHHHHHH-----HhCCCCHHHHHHHhhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGK--NQWSRIAS-----LLHRKSAKQCKARWFEW 46 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~--~~W~~Ia~-----~~~~R~~~qc~~rw~~~ 46 (108)
++||.+|++.|......... ..+.+|-. +-+.||+.+...+|+..
T Consensus 74 alfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 74 ALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred CCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 68999999999997766533 25666653 23379999999999874
No 71
>KOG4329|consensus
Probab=88.91 E-value=1 Score=34.05 Aligned_cols=44 Identities=11% Similarity=0.132 Sum_probs=38.5
Q ss_pred CCCCcHHHHHHHHHHHHHhCCCCHHHHHH-HhCCCCHHHHHHHhhh
Q psy15548 1 MLKTMTIVDEILKAAVMKYGKNQWSRIAS-LLHRKSAKQCKARWFE 45 (108)
Q Consensus 1 ~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~-~~~~R~~~qc~~rw~~ 45 (108)
|.-||.+|-..+.+.++.||. +...|-. .+++|+...|-.-|+.
T Consensus 277 l~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHHHHH
Confidence 356999999999999999997 9999965 7889999999887654
No 72
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=88.82 E-value=1.6 Score=28.61 Aligned_cols=43 Identities=14% Similarity=0.154 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548 7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS 50 (108)
Q Consensus 7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~ 50 (108)
+-|..|+.+....|.-.|++||+.+ |-++..|+.|+......+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAG 51 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 5688999999999988999999999 579999999998865443
No 73
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=87.81 E-value=2.1 Score=25.40 Aligned_cols=38 Identities=32% Similarity=0.442 Sum_probs=27.1
Q ss_pred HHHHHHHHhCC-------CCHHHHHHHhCCC---C--HHHHHHHhhhhcC
Q psy15548 11 ILKAAVMKYGK-------NQWSRIASLLHRK---S--AKQCKARWFEWLD 48 (108)
Q Consensus 11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R---~--~~qc~~rw~~~l~ 48 (108)
.|..+|...|. +.|..||..++-- + ..+++..|..+|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 57778888775 3799999998621 1 3677888877764
No 74
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=87.14 E-value=1.8 Score=28.67 Aligned_cols=44 Identities=14% Similarity=0.117 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548 6 TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS 50 (108)
Q Consensus 6 ~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~ 50 (108)
.+-|.+|+.+....|.-.|++||+.+ |-++..|+.|+.+....+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~G 56 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQG 56 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 35688999999999988999999999 479999999998875544
No 75
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=86.95 E-value=0.56 Score=28.02 Aligned_cols=18 Identities=33% Similarity=0.540 Sum_probs=10.4
Q ss_pred CCCcccCCCHHHHHHHHH
Q psy15548 49 PSIKKTEWSREEDEKLLH 66 (108)
Q Consensus 49 ~~~~~~~Wt~eEd~~L~~ 66 (108)
|....|-||+++|..|..
T Consensus 43 P~n~~GiWT~eDD~~L~~ 60 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRS 60 (87)
T ss_dssp -TT-TT---HHHHHHHTS
T ss_pred CCCCCCCcCHHHHHHHHc
Confidence 455678999999999853
No 76
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=86.61 E-value=1.1 Score=26.87 Aligned_cols=39 Identities=26% Similarity=0.364 Sum_probs=27.7
Q ss_pred HHHHHHHHhCC-------CCHHHHHHHhCCC-----CHHHHHHHhhhhcCC
Q psy15548 11 ILKAAVMKYGK-------NQWSRIASLLHRK-----SAKQCKARWFEWLDP 49 (108)
Q Consensus 11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R-----~~~qc~~rw~~~l~~ 49 (108)
.|..+|.+.|. ..|..||..++-. ...+.+..|.++|.|
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 57778888765 4799999998732 246667777776653
No 77
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 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 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; 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: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=86.39 E-value=2.9 Score=22.10 Aligned_cols=39 Identities=18% Similarity=0.068 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548 6 TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW 46 (108)
Q Consensus 6 ~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~ 46 (108)
++++..++.+..-.|. .+.+||..+ |.+...++.+..+.
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~~l-~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAEIL-GISESTVKRRLRRA 50 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHC-TS-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4566666667666675 999999999 58999998887653
No 78
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=86.15 E-value=2 Score=28.78 Aligned_cols=42 Identities=19% Similarity=0.040 Sum_probs=33.6
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
|-||.|..+.|.++... |. .=++||..|++.|...+.-+.++
T Consensus 1 M~Wtde~~~~L~~lw~~-G~-SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 1 MSWTDERVERLRKLWAE-GL-SASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCCHHHHHHHHHHHHc-CC-CHHHHHHHhCCcchhhhhhhhhc
Confidence 57999999999999965 54 79999999996666666666554
No 79
>KOG2009|consensus
Probab=86.04 E-value=1.3 Score=35.39 Aligned_cols=43 Identities=14% Similarity=0.207 Sum_probs=40.0
Q ss_pred ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHH
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEF 95 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~ 95 (108)
.++||..|-++...+....|.+.+.|+. +++|+..|++.+|..
T Consensus 409 ~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 409 TDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred cCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 4689999999999999999999999999 999999999998864
No 80
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=85.67 E-value=1.9 Score=28.77 Aligned_cols=46 Identities=17% Similarity=0.125 Sum_probs=38.6
Q ss_pred cccCCCHHHHHHHHHHHhhCCcchhcccc-c-cC---CCHHHHHHHHHHHH
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-I-IG---RTAAQCLERYEFLL 97 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~-~g---Rt~~q~~~r~~~~~ 97 (108)
....-|..|..-+..++.+||.++..++. . ++ .|+.||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 34578899999999999999999999998 4 34 89999998877653
No 81
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=85.58 E-value=0.7 Score=26.52 Aligned_cols=25 Identities=36% Similarity=0.658 Sum_probs=20.6
Q ss_pred CHHHHHHHhC-CCCHHHHHHHhhhhc
Q psy15548 23 QWSRIASLLH-RKSAKQCKARWFEWL 47 (108)
Q Consensus 23 ~W~~Ia~~~~-~R~~~qc~~rw~~~l 47 (108)
-|..||..++ .-+..+|+.+|.+.-
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLR 53 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHH
Confidence 6999999997 357889999998743
No 82
>KOG4329|consensus
Probab=85.45 E-value=1.5 Score=33.21 Aligned_cols=44 Identities=20% Similarity=0.321 Sum_probs=38.8
Q ss_pred cCCCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHHHHH
Q psy15548 54 TEWSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYEFLL 97 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~~~~ 97 (108)
..||.+|-..+-+.++.||+++..|.. ++.|+-..|-.-|+...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 579999999999999999999999987 78999999988765443
No 83
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=85.10 E-value=2 Score=36.62 Aligned_cols=46 Identities=13% Similarity=0.251 Sum_probs=38.6
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHh------------CCCCHHHHHHHhhhhcC
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLL------------HRKSAKQCKARWFEWLD 48 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~------------~~R~~~qc~~rw~~~l~ 48 (108)
.+|.|||.-|+-++.+||.++|..|-..+ ..||+..+..|-...+.
T Consensus 928 ~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 928 LYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred cCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 48999999999999999999999996543 27999999998776554
No 84
>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=83.20 E-value=2.7 Score=26.71 Aligned_cols=31 Identities=16% Similarity=0.117 Sum_probs=25.8
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||...|.|...++.+.....+...
T Consensus 128 ~~~~~~eIA~~lgis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 128 EGKSYKEIAEELGISVKTVEYHISKALKELR 158 (161)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4668999999999999999999888766543
No 85
>KOG4468|consensus
Probab=82.81 E-value=1.7 Score=34.95 Aligned_cols=44 Identities=14% Similarity=0.256 Sum_probs=35.3
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHh----------CCCCHHHHHHHhhhhc
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLL----------HRKSAKQCKARWFEWL 47 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~----------~~R~~~qc~~rw~~~l 47 (108)
-||..|.+.+..++..+|. +...|-..+ .-+|..|++.+|++.+
T Consensus 90 aWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 90 AWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 5999999999999999997 888883322 2357789999987754
No 86
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=80.70 E-value=5.1 Score=26.67 Aligned_cols=43 Identities=12% Similarity=0.135 Sum_probs=34.3
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC----CCCHHHHHHHhhhh
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH----RKSAKQCKARWFEW 46 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~----~R~~~qc~~rw~~~ 46 (108)
+-|..|..-+..+|++||. +....|.-.. ..|+.||+.+...+
T Consensus 116 ~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 116 RLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 4578899999999999996 9999886433 47889998877654
No 87
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=80.54 E-value=11 Score=23.07 Aligned_cols=66 Identities=15% Similarity=0.252 Sum_probs=41.5
Q ss_pred CCcHHHHHHHHHHHHHh----CC---CCHHHHHHHhC-----CCCHHHHHH-------HhhhhcCCCCcc---cCCCHHH
Q psy15548 3 KTMTIVDEILKAAVMKY----GK---NQWSRIASLLH-----RKSAKQCKA-------RWFEWLDPSIKK---TEWSREE 60 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~----g~---~~W~~Ia~~~~-----~R~~~qc~~-------rw~~~l~~~~~~---~~Wt~eE 60 (108)
-||++++-.|++++..| |. .++..+...+. .=+..|+.+ +|.+.... ... ..++..-
T Consensus 6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~~h 84 (98)
T PF04504_consen 6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSKPH 84 (98)
T ss_pred CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCCHh
Confidence 59999999999999888 42 26666655543 224555554 44443333 122 2677788
Q ss_pred HHHHHHHHh
Q psy15548 61 DEKLLHLAK 69 (108)
Q Consensus 61 d~~L~~~v~ 69 (108)
|..+.++-+
T Consensus 85 d~~~f~Lsk 93 (98)
T PF04504_consen 85 DRRLFELSK 93 (98)
T ss_pred HHHHHHHHH
Confidence 888877754
No 88
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=80.49 E-value=3.1 Score=25.44 Aligned_cols=48 Identities=15% Similarity=0.153 Sum_probs=30.4
Q ss_pred cCCCHHHHHHHHHHHhhC----Cc----chhcccc-cc-----CCCHHHHHHHHHHHHhHHH
Q psy15548 54 TEWSREEDEKLLHLAKLM----PT----QWRTIAP-II-----GRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~----g~----~W~~Ia~-~~-----gRt~~q~~~r~~~~~~~~~ 101 (108)
..||++++..|++++..| |. ++..+.. +. .=|..|+.++...+.++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 469999999999988554 62 4444333 22 1366777666666655543
No 89
>KOG0384|consensus
Probab=80.42 E-value=1.2 Score=38.44 Aligned_cols=26 Identities=23% Similarity=0.340 Sum_probs=24.6
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHH
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIA 28 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia 28 (108)
-|..++|..|+-+|-+||.++|..|-
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhc
Confidence 59999999999999999999999985
No 90
>KOG2009|consensus
Probab=78.28 E-value=1.9 Score=34.48 Aligned_cols=43 Identities=26% Similarity=0.271 Sum_probs=40.4
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
.+||.+|-++...+....|. +.+.|+..+|+|+..|++..+..
T Consensus 410 ~~w~~se~e~fyka~~~~gs-~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 410 DKWDASETELFYKALSERGS-DFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred CcccchhhHHhhhHHhhhcc-cccccccccccccHHHHHHHHhh
Confidence 58999999999999999997 99999999999999999999854
No 91
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=75.51 E-value=11 Score=21.85 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=26.1
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHH
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLH 66 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~ 66 (108)
--..||..+.|+|+.+++..+. -....|++|+..+..
T Consensus 35 ~~~~iA~~i~gks~eeir~~fg-------i~~d~t~eee~~i~~ 71 (78)
T PF01466_consen 35 CCKYIANMIKGKSPEEIRKYFG-------IENDLTPEEEEEIRK 71 (78)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHT----------TSSHHHHHHHHH
T ss_pred HHHHHHHHhcCCCHHHHHHHcC-------CCCCCCHHHHHHHHH
Confidence 3577899999999999999762 133689988877553
No 92
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=74.82 E-value=5.8 Score=20.11 Aligned_cols=34 Identities=9% Similarity=0.089 Sum_probs=25.3
Q ss_pred HHHHHHHHHhhCCcchhccccccCCCHHHHHHHH
Q psy15548 60 EDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERY 93 (108)
Q Consensus 60 Ed~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~ 93 (108)
|...|.+++..++++-...|+..|=+...+..+-
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~Lgisr~tL~~kl 39 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLLGISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHCCCHHHHHHHH
Confidence 6677888999999999999998776666665543
No 93
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=74.03 E-value=15 Score=22.13 Aligned_cols=43 Identities=12% Similarity=0.078 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548 7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS 50 (108)
Q Consensus 7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~ 50 (108)
+.|..++.++...+.-.+++||+.+ +-++..|+.+.......+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 5688888999888877999999999 579999999988765543
No 94
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=73.55 E-value=11 Score=28.19 Aligned_cols=83 Identities=11% Similarity=0.060 Sum_probs=56.5
Q ss_pred CCCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhh-C-----C
Q psy15548 2 LKTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKL-M-----P 72 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~-~-----g 72 (108)
..||.-|...|+++......+ +-.+|++.+++|+..++++--.. |+ +..+.+++++ | |
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~-LK------------~rvareaiqkv~~~g~~~ 88 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQ-LK------------GRVAREAIQKVHPGGLKG 88 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHH-HH------------HHHHHHHHHHhccccccc
Confidence 369999999999998865322 67788899999999999885433 22 1234444433 2 1
Q ss_pred c------------chhcccc-ccCCCHHHHHHHHHHHH
Q psy15548 73 T------------QWRTIAP-IIGRTAAQCLERYEFLL 97 (108)
Q Consensus 73 ~------------~W~~Ia~-~~gRt~~q~~~r~~~~~ 97 (108)
. -|..+|+ +.|.-...+-.-|.++|
T Consensus 89 ~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l 126 (344)
T PF11035_consen 89 PRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVL 126 (344)
T ss_pred ccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence 1 3888888 77876666666565554
No 95
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=71.40 E-value=5.4 Score=24.10 Aligned_cols=42 Identities=19% Similarity=0.162 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
+.|..++.++...| ..+++||+..|-++..|..+...+....
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence 46778888887776 5899999988999999999998887654
No 96
>KOG3554|consensus
Probab=71.14 E-value=4.6 Score=31.74 Aligned_cols=41 Identities=17% Similarity=0.260 Sum_probs=34.4
Q ss_pred cCCCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHH
Q psy15548 54 TEWSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYE 94 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~ 94 (108)
..||..|-.++-+++.+||+++..|-. +|=+|-.++-.-|.
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 479999999999999999999999987 46688777766543
No 97
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=71.07 E-value=5.9 Score=25.38 Aligned_cols=44 Identities=18% Similarity=0.195 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 58 REEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 58 ~eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.+-|.+++..++..+ ..+.+||+..|-|+..|..|-..+.+..+
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCc
Confidence 355778888887776 58899999999999999999988877653
No 98
>COG4628 Uncharacterized conserved protein [Function unknown]
Probab=70.21 E-value=14 Score=23.56 Aligned_cols=49 Identities=29% Similarity=0.516 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHhCC---CCHHHHHHHhhhhcCCCCcccCCCHHHHHHHH
Q psy15548 9 DEILKAAVMKYGKNQWSRIASLLHR---KSAKQCKARWFEWLDPSIKKTEWSREEDEKLL 65 (108)
Q Consensus 9 d~~L~~~v~~~g~~~W~~Ia~~~~~---R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~ 65 (108)
+..|.++|..|| |..++..++- .+..++..--. .+++.+|..|..+.|.
T Consensus 21 E~llt~Lvd~YG---Wd~L~~ri~inCF~ndPSi~SSlK-----fLrkT~WARekvEa~Y 72 (136)
T COG4628 21 ETLLTELVDFYG---WDGLATRIRINCFHNDPSIKSSLK-----FLRKTPWAREKVEALY 72 (136)
T ss_pred HHHHHHHHHHhC---hHHHHhhceeccccCCccHHHHHH-----HHhcCHhHHHHHHHHH
Confidence 567889999999 9999987761 11111111110 1457899988877654
No 99
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=69.62 E-value=11 Score=25.33 Aligned_cols=33 Identities=15% Similarity=-0.004 Sum_probs=26.4
Q ss_pred HHhhCCcchhccccccCCCHHHHHHHHHHHHhH
Q psy15548 67 LAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYR 99 (108)
Q Consensus 67 ~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~ 99 (108)
+..-.|-++.+||..+|-|+..++.+|..+...
T Consensus 146 l~~~~Gls~~EIA~~lgiS~~tV~r~l~~aR~~ 178 (185)
T PF07638_consen 146 LRFFEGLSVEEIAERLGISERTVRRRLRRARAW 178 (185)
T ss_pred HHHHCCCCHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 333456799999999999999999999877643
No 100
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=68.12 E-value=11 Score=21.35 Aligned_cols=45 Identities=31% Similarity=0.662 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHhCCCC------HHHHHHHhhhhcCCCCcccCCCHHHHHHH
Q psy15548 9 DEILKAAVMKYGKNQWSRIASLLHRKS------AKQCKARWFEWLDPSIKKTEWSREEDEKL 64 (108)
Q Consensus 9 d~~L~~~v~~~g~~~W~~Ia~~~~~R~------~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L 64 (108)
+..|.++|+.|| |...+..++-|. ..++-. + +++.||-.+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i~CF~~~PsikSSLk-F-------LRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERININCFKNNPSIKSSLK-F-------LRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTSSSTTSS--HHHHHH-H-------HHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcccccCCCCCchHHHHH-H-------HhcCHhHHHHHHHh
Confidence 567889999998 999999987321 111111 1 34678887776655
No 101
>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=68.09 E-value=10 Score=23.32 Aligned_cols=32 Identities=22% Similarity=0.280 Sum_probs=25.4
Q ss_pred hCCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 70 ~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
..|.++.+||+..|=|...++.+....+++..
T Consensus 124 ~~g~s~~eIA~~l~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 124 LEGLSYKEIAEILGISVGTVKRRLKRARKKLR 155 (158)
T ss_pred hcCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 34678999999888899999988887766543
No 102
>KOG3554|consensus
Probab=67.67 E-value=7.9 Score=30.52 Aligned_cols=41 Identities=22% Similarity=0.297 Sum_probs=33.7
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHH-HHhCCCCHHHHHHHh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIA-SLLHRKSAKQCKARW 43 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia-~~~~~R~~~qc~~rw 43 (108)
-.|+..|-.++.++.++||. +.+.|- +++|-++-.++-+-|
T Consensus 286 EEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHHHHHH
Confidence 36999999999999999997 999996 577877776665544
No 103
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=67.20 E-value=12 Score=24.17 Aligned_cols=31 Identities=19% Similarity=0.088 Sum_probs=24.0
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...++.+....++...
T Consensus 143 ~~~s~~eIA~~lgis~~tV~~~l~ra~~~Lr 173 (182)
T PRK09652 143 EGLSYEEIAEIMGCPIGTVRSRIFRAREALR 173 (182)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4568999999999999999887776555443
No 104
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=67.04 E-value=19 Score=23.51 Aligned_cols=37 Identities=14% Similarity=0.342 Sum_probs=28.8
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHH
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLH 66 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~ 66 (108)
--+-||..+.||++..++..+. -...+|+||+..+..
T Consensus 114 gCKivaemirgkSpeeir~tfn-------i~ndfTpEEe~~irk 150 (158)
T COG5201 114 GCKIVAEMIRGKSPEEIRETFN-------IENDFTPEEERRIRK 150 (158)
T ss_pred HHHHHHHHHccCCHHHHHHHhC-------CCCCCCHHHHHHHHH
Confidence 3678899999999999988652 234799999987653
No 105
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=67.04 E-value=6.7 Score=26.23 Aligned_cols=40 Identities=20% Similarity=0.207 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHH
Q psy15548 55 EWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEF 95 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~ 95 (108)
.||+|+.+.|.++. .-|.+=++||. |-|.|.+.|.-+.+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999887 55788899999 555888887766554
No 106
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=66.85 E-value=12 Score=25.07 Aligned_cols=31 Identities=13% Similarity=-0.025 Sum_probs=24.8
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...++.|.....+...
T Consensus 149 ~g~s~~EIA~~lg~s~~tV~~rl~rar~~Lr 179 (192)
T PRK09643 149 QGYSVADAARMLGVAEGTVKSRCARGRARLA 179 (192)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 4568899999999999999999876655543
No 107
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=66.36 E-value=13 Score=23.76 Aligned_cols=30 Identities=7% Similarity=-0.186 Sum_probs=23.6
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+-.+||..+|-|...|+.+.....+..
T Consensus 121 ~g~s~~EIA~~lgis~~tV~~~l~Rar~~L 150 (160)
T PRK09642 121 EEKSYQEIALQEKIEVKTVEMKLYRARKWI 150 (160)
T ss_pred hCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 355788999999999999998877665543
No 108
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=65.00 E-value=13 Score=24.00 Aligned_cols=30 Identities=20% Similarity=0.152 Sum_probs=23.2
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+..+||..+|-|...|+.+.....+..
T Consensus 140 ~~~~~~eIA~~lgis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 140 EGLSYREIAEILGVPVGTVKSRLRRARQLL 169 (179)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 456889999999999999988776655444
No 109
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=64.69 E-value=25 Score=22.39 Aligned_cols=43 Identities=9% Similarity=-0.007 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCC
Q psy15548 6 TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49 (108)
Q Consensus 6 ~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~ 49 (108)
.+-|.+++++.+..+.....+||+.++ -++..|..|-.+....
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg-lS~~~v~~Ri~~L~~~ 49 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG-LSPSTVLRRIKRLEEE 49 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC-CCHHHHHHHHHHHHHC
Confidence 356788888888888889999999995 8999999999876543
No 110
>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=64.49 E-value=13 Score=24.07 Aligned_cols=31 Identities=10% Similarity=0.118 Sum_probs=24.5
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...++.+....++...
T Consensus 134 ~g~s~~eiA~~lgis~~tv~~~l~Ra~~~Lr 164 (169)
T TIGR02954 134 HDLTIKEIAEVMNKPEGTVKTYLHRALKKLK 164 (169)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 3457889999889999999998877766544
No 111
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=64.18 E-value=14 Score=24.55 Aligned_cols=30 Identities=13% Similarity=0.015 Sum_probs=24.2
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+..+||..+|-|...++.+.....+..
T Consensus 121 ~g~~~~EIA~~lgis~~tV~~~l~Rar~~L 150 (181)
T PRK09637 121 EGLSQKEIAEKLGLSLSGAKSRVQRGRVKL 150 (181)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 456889999999999999999887666554
No 112
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=63.64 E-value=16 Score=23.76 Aligned_cols=30 Identities=20% Similarity=0.154 Sum_probs=23.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...|+.+....++...
T Consensus 134 g~s~~EIA~~lgis~~tV~~~l~ra~~~Lr 163 (173)
T PRK09645 134 GWSTAQIAADLGIPEGTVKSRLHYALRALR 163 (173)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 557789999999999999988876665443
No 113
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=63.40 E-value=17 Score=24.11 Aligned_cols=32 Identities=19% Similarity=0.082 Sum_probs=25.4
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
.|.+..+||..+|-|...++.+....++...+
T Consensus 154 ~g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~ 185 (189)
T PRK09648 154 VGLSAEETAEAVGSTPGAVRVAQHRALARLRA 185 (189)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 35688999998899999999988777665543
No 114
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=62.34 E-value=18 Score=23.84 Aligned_cols=33 Identities=9% Similarity=-0.039 Sum_probs=26.5
Q ss_pred hCCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 70 ~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
..|-+..+||..+|-|...++.|....+.....
T Consensus 141 ~~g~s~~EIA~~lgis~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 141 LDGMKQKDIAQALDIALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 345688999999999999999998877665543
No 115
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=62.17 E-value=7.3 Score=25.30 Aligned_cols=53 Identities=21% Similarity=0.356 Sum_probs=37.7
Q ss_pred CHHHHHHHhC---CCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548 23 QWSRIASLLH---RKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP 80 (108)
Q Consensus 23 ~W~~Ia~~~~---~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~ 80 (108)
-..+.-+.|| |+|.-.-.+.|.+ ..+.-||+|+-+.|-++|+-.+.-...||+
T Consensus 28 MFRKFLK~lPKeDGkS~LDWq~~yi~-----~trhlW~de~K~lL~eLV~PVPelFRdvAk 83 (141)
T PF11084_consen 28 MFRKFLKRLPKEDGKSILDWQEYYIE-----KTRHLWTDEQKALLEELVSPVPELFRDVAK 83 (141)
T ss_pred HHHHHHHhCCcccCcccccHHHHHHH-----HhHhhcCHHHHHHHHHHhhcCcHHHHHHHH
Confidence 3456667777 6777666776654 356789999999999999876655555544
No 116
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=61.77 E-value=17 Score=24.26 Aligned_cols=30 Identities=3% Similarity=-0.190 Sum_probs=24.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|-+..+||..+|-|...|+.|.....+...
T Consensus 150 g~s~~EIA~~lgis~~tVk~~l~RAr~~Lr 179 (189)
T PRK12530 150 ELSSEQICQECDISTSNLHVLLYRARLQLQ 179 (189)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 558899999999999999998776655443
No 117
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=61.75 E-value=6.9 Score=20.09 Aligned_cols=36 Identities=22% Similarity=0.246 Sum_probs=17.8
Q ss_pred CCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHH
Q psy15548 55 EWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLE 91 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~ 91 (108)
.+|.+|-..+..++ .-|.+=.+||+.+|+++..+..
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~lg~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRLGRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHTT--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHHCcCcHHHHH
Confidence 56777777776665 5678888999999999887754
No 118
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=61.70 E-value=18 Score=24.20 Aligned_cols=31 Identities=10% Similarity=0.127 Sum_probs=24.4
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|-+..+||..+|-|...|+.|....++...
T Consensus 156 eg~s~~EIA~~lgis~~tVk~rl~ra~~~Lr 186 (194)
T PRK12531 156 EELPHQQVAEMFDIPLGTVKSRLRLAVEKLR 186 (194)
T ss_pred cCCCHHHHHHHhCcCHHHHHHHHHHHHHHHH
Confidence 3557889999999999999998776665543
No 119
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=61.51 E-value=18 Score=24.26 Aligned_cols=31 Identities=6% Similarity=-0.242 Sum_probs=24.1
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|-+..+||+.+|-|...++.+....++...
T Consensus 151 ~g~s~~eIA~~lgis~~tV~~~l~Ra~~~Lr 181 (196)
T PRK12524 151 EGLSNPEIAEVMEIGVEAVESLTARGKRALA 181 (196)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 3558999999999999999888776655543
No 120
>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=61.33 E-value=13 Score=24.46 Aligned_cols=31 Identities=13% Similarity=-0.032 Sum_probs=24.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|.+..+||..+|-|...|+.+.....+...+
T Consensus 154 ~~s~~EIA~~lgis~~tv~~~l~rar~~Lr~ 184 (190)
T TIGR02939 154 GLSYEDIARIMDCPVGTVRSRIFRAREAIAI 184 (190)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 4578999998999999999988777665543
No 121
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=61.11 E-value=19 Score=22.99 Aligned_cols=29 Identities=7% Similarity=-0.054 Sum_probs=23.5
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|-+-.+||..+|-|...++.+....++..
T Consensus 122 g~s~~EIA~~lgis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 122 DMDVAETAAAMGCSEGSVKTHCSRATHAL 150 (161)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45788999999999999998877666554
No 122
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=60.94 E-value=16 Score=23.90 Aligned_cols=31 Identities=13% Similarity=0.010 Sum_probs=23.9
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||...|-|...++.+.....+...
T Consensus 151 ~~~s~~eIA~~lgis~~~v~~~l~Rar~~Lr 181 (187)
T PRK09641 151 EDLSLKEISEILDLPVGTVKTRIHRGREALR 181 (187)
T ss_pred hCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 3558899999999999999888776655443
No 123
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=60.91 E-value=5.7 Score=22.61 Aligned_cols=18 Identities=33% Similarity=0.499 Sum_probs=14.6
Q ss_pred HHHHHHhhCCcchhcccc
Q psy15548 63 KLLHLAKLMPTQWRTIAP 80 (108)
Q Consensus 63 ~L~~~v~~~g~~W~~Ia~ 80 (108)
.|.++++.||++|.-|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 577788899999998863
No 124
>PRK04217 hypothetical protein; Provisional
Probab=60.49 E-value=39 Score=21.14 Aligned_cols=46 Identities=11% Similarity=-0.011 Sum_probs=34.9
Q ss_pred cCCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 54 TEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
..-|++| ..++.++...|-+-.+||+..|-|...++.++....+..
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~LGIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRMGVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 4566666 466677666788999999999999999998887655544
No 125
>PRK00118 putative DNA-binding protein; Validated
Probab=60.28 E-value=23 Score=21.96 Aligned_cols=42 Identities=12% Similarity=0.006 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 59 EEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 59 eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
+.+..++.+.-..|.+-.+||+..|-|+..++.+.....+..
T Consensus 20 ekqRevl~L~y~eg~S~~EIAe~lGIS~~TV~r~L~RArkkL 61 (104)
T PRK00118 20 EKQRNYMELYYLDDYSLGEIAEEFNVSRQAVYDNIKRTEKLL 61 (104)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 445555666667788999999999999998888766554443
No 126
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=60.18 E-value=17 Score=23.71 Aligned_cols=30 Identities=13% Similarity=0.028 Sum_probs=24.7
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+..+||..+|-|...|+.+....++..
T Consensus 134 ~g~s~~EIA~~lgis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 134 DGMGHAEIAERLGVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 456889999999999999999887766554
No 127
>KOG3841|consensus
Probab=60.04 E-value=19 Score=27.62 Aligned_cols=51 Identities=25% Similarity=0.361 Sum_probs=37.9
Q ss_pred cccCCCHHHHHHHHHHHhhCCc----------------chhcccc-c---cC--CCHHHHHHHHHHHHhHHHh
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPT----------------QWRTIAP-I---IG--RTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~----------------~W~~Ia~-~---~g--Rt~~q~~~r~~~~~~~~~~ 102 (108)
..|.||++=|+.+.+++..|.. +=..||+ + .| ||.+|+..|-+.+.++..+
T Consensus 75 aegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~r 147 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLR 147 (455)
T ss_pred cccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence 3478999999999999987752 2356777 3 23 8889999988877766554
No 128
>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=58.86 E-value=21 Score=23.81 Aligned_cols=31 Identities=10% Similarity=0.020 Sum_probs=24.6
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...++.|....++...
T Consensus 146 ~g~s~~EIA~~lgis~~tvk~rl~Rar~~Lr 176 (188)
T TIGR02943 146 LGFESDEICQELEISTSNCHVLLYRARLSLR 176 (188)
T ss_pred hCCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 3568899999999999999988877665543
No 129
>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=58.22 E-value=23 Score=23.18 Aligned_cols=30 Identities=13% Similarity=0.132 Sum_probs=24.4
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|-+..+||..+|-|...|+.|.....+...
T Consensus 150 g~s~~EIA~~lgis~~tVk~~l~Rar~~Lr 179 (183)
T TIGR02999 150 GLTVEEIAELLGVSVRTVERDWRFARAWLA 179 (183)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 457899999999999999999887665543
No 130
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=57.72 E-value=22 Score=23.23 Aligned_cols=30 Identities=10% Similarity=0.017 Sum_probs=24.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||+.+|.|...++.+....++...
T Consensus 145 g~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 174 (179)
T PRK12514 145 GLSYKELAERHDVPLNTMRTWLRRSLLKLR 174 (179)
T ss_pred CCCHHHHHHHHCCChHHHHHHHHHHHHHHH
Confidence 557889999999999999998877666543
No 131
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=57.65 E-value=23 Score=23.25 Aligned_cols=30 Identities=7% Similarity=-0.099 Sum_probs=24.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+..+||..+|-|...++.+....++...
T Consensus 147 g~s~~eIA~~l~is~~tV~~~l~ra~~~Lr 176 (184)
T PRK12512 147 GASIKETAAKLSMSEGAVRVALHRGLAALA 176 (184)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 557889999899999999998877666544
No 132
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=57.25 E-value=24 Score=23.39 Aligned_cols=31 Identities=10% Similarity=0.117 Sum_probs=24.5
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...++.+.....+...
T Consensus 146 ~~~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 176 (189)
T PRK12515 146 HEKSVEEVGEIVGIPESTVKTRMFYARKKLA 176 (189)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 3558899999899999999998877665543
No 133
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=57.21 E-value=24 Score=22.34 Aligned_cols=30 Identities=23% Similarity=-0.008 Sum_probs=24.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...|+.+-...++...
T Consensus 122 ~~s~~EIA~~l~is~~tV~~~~~ra~~~Lr 151 (154)
T PRK06759 122 GKTMGEIALETEMTYYQVRWIYRQALEKMR 151 (154)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence 457889999899999999998877666543
No 134
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=57.13 E-value=24 Score=23.19 Aligned_cols=31 Identities=10% Similarity=-0.113 Sum_probs=25.0
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...|+.+....++...
T Consensus 144 ~g~s~~EIA~~l~is~~tV~~~l~rar~~Lr 174 (181)
T PRK12536 144 EGLSVAETAQLTGLSESAVKVGIHRGLKALA 174 (181)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4568899999999999999998877665543
No 135
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=57.00 E-value=23 Score=23.49 Aligned_cols=32 Identities=16% Similarity=0.078 Sum_probs=25.4
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHhh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
|.+-.+||..+|-|...|+++-....+...+.
T Consensus 147 g~s~~EIAe~lgis~~~V~~~l~Ra~~~Lr~~ 178 (189)
T PRK06811 147 GEKIEEIAKKLGLTRSAIDNRLSRGRKKLQKN 178 (189)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHc
Confidence 45678899999999999999988777765543
No 136
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=56.85 E-value=24 Score=23.31 Aligned_cols=30 Identities=20% Similarity=0.327 Sum_probs=24.1
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+-.+||..+|-|...|+.+.....+..
T Consensus 137 ~g~s~~EIA~~lgis~~tVk~~l~Rar~~L 166 (185)
T PRK12542 137 YNLTYQEISSVMGITEANVRKQFERARKRV 166 (185)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 455789999999999999999877666554
No 137
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=56.52 E-value=21 Score=23.66 Aligned_cols=31 Identities=10% Similarity=-0.037 Sum_probs=25.2
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|-+-.+||..+|-|...++.+....++...+
T Consensus 146 g~s~~EIA~~lgis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 146 GLSYADAAAVCGCPVGTIRSRVARARDALLA 176 (185)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHh
Confidence 4578899999999999999998877765543
No 138
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=56.40 E-value=22 Score=23.41 Aligned_cols=31 Identities=6% Similarity=-0.196 Sum_probs=23.9
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+-.+||+.+|-|...++.+....++...
T Consensus 143 ~g~s~~EIA~~lgis~~tV~~~l~Rar~~Lr 173 (186)
T PRK05602 143 QGLSNIEAAAVMDISVDALESLLARGRRALR 173 (186)
T ss_pred cCCCHHHHHHHhCcCHHHHHHHHHHHHHHHH
Confidence 3567889999899999999888776665543
No 139
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=56.34 E-value=24 Score=23.55 Aligned_cols=30 Identities=17% Similarity=0.061 Sum_probs=23.5
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+..+||..+|-|...|+.|....++..
T Consensus 131 ~g~s~~EIA~~Lgis~~tVk~~l~Rar~~L 160 (187)
T PRK12516 131 SGFAYEEAAEICGCAVGTIKSRVNRARQRL 160 (187)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 456889999999999999998876655443
No 140
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=56.21 E-value=24 Score=23.80 Aligned_cols=29 Identities=17% Similarity=0.020 Sum_probs=23.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...|+.|.....+..
T Consensus 155 g~s~~EIA~~lgis~~tVk~~l~RAr~~L 183 (201)
T PRK12545 155 DFEIDDICTELTLTANHCSVLLYRARTRL 183 (201)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 45789999999999999998877655543
No 141
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=56.13 E-value=20 Score=23.45 Aligned_cols=30 Identities=13% Similarity=0.032 Sum_probs=23.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.+.....+...
T Consensus 152 g~s~~eIA~~lgis~~~v~~~l~Rar~~Lr 181 (187)
T TIGR02948 152 DLSLKEISEILDLPVGTVKTRIHRGREALR 181 (187)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 457888999889999999988776665543
No 142
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=55.88 E-value=22 Score=23.67 Aligned_cols=30 Identities=7% Similarity=-0.073 Sum_probs=23.3
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+-.+||..+|-|...++.+....++..
T Consensus 151 ~g~s~~EIA~~lgis~~tVk~~l~Rar~~L 180 (195)
T PRK12532 151 LGFSSDEIQQMCGISTSNYHTIMHRARESL 180 (195)
T ss_pred hCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 355788999999999999998877655443
No 143
>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=55.00 E-value=29 Score=22.27 Aligned_cols=30 Identities=13% Similarity=0.038 Sum_probs=23.7
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.+.....+...
T Consensus 138 g~s~~eIA~~l~is~~tv~~~l~ra~~~Lr 167 (170)
T TIGR02952 138 NLPIAEVARILGKTEGAVKILQFRAIKKLA 167 (170)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 557789999899999999988776665543
No 144
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=54.78 E-value=25 Score=22.99 Aligned_cols=32 Identities=9% Similarity=-0.044 Sum_probs=26.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHhh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
|.+..+||..+|-|...|+.+....+..-...
T Consensus 135 g~s~~EIA~~lgis~~tV~~~l~Ra~~~~~~~ 166 (172)
T PRK09651 135 GLTYSEIAHKLGVSVSSVKKYVAKATEHCLLF 166 (172)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999988777665543
No 145
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=54.38 E-value=24 Score=23.34 Aligned_cols=30 Identities=10% Similarity=-0.011 Sum_probs=23.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|-+..+||..+|-|...++.+.....+...
T Consensus 154 g~s~~eIA~~lgis~~tv~~~l~Rar~~Lr 183 (193)
T PRK11923 154 GLSYEDIASVMQCPVGTVRSRIFRAREAID 183 (193)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 447788999889899999988776665543
No 146
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=54.12 E-value=47 Score=20.08 Aligned_cols=35 Identities=11% Similarity=0.045 Sum_probs=27.1
Q ss_pred HHHHHHHHHHhhCCcchhccccccCCCHHHHHHHH
Q psy15548 59 EEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERY 93 (108)
Q Consensus 59 eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~ 93 (108)
-|...|..++..++++....|+.+|=+...++.+-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~LGIsRsTL~rKL 89 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALMLGINRGTLRKKL 89 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHH
Confidence 46677888899999999999998776666655443
No 147
>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=54.12 E-value=25 Score=22.47 Aligned_cols=33 Identities=18% Similarity=0.140 Sum_probs=25.5
Q ss_pred hCCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 70 ~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
-.|-+-.+||..+|-|...++.+....++...+
T Consensus 124 ~~g~s~~eIA~~lgis~~tV~~~l~ra~~~Lr~ 156 (162)
T TIGR02983 124 YEDLSEAQVAEALGISVGTVKSRLSRALARLRE 156 (162)
T ss_pred HhcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 345577899999999999999988877665543
No 148
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=53.53 E-value=31 Score=22.02 Aligned_cols=30 Identities=13% Similarity=0.088 Sum_probs=23.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.|....++...
T Consensus 121 ~~s~~eIA~~lgis~~tv~~~l~ra~~~Lr 150 (159)
T PRK12527 121 GLSHQQIAEHLGISRSLVEKHIVNAMKHCR 150 (159)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 446788999899999999988776655443
No 149
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=53.32 E-value=13 Score=22.05 Aligned_cols=28 Identities=21% Similarity=0.449 Sum_probs=20.4
Q ss_pred HHHHHHHHhhCCcchhccccccCCCHHH
Q psy15548 61 DEKLLHLAKLMPTQWRTIAPIIGRTAAQ 88 (108)
Q Consensus 61 d~~L~~~v~~~g~~W~~Ia~~~gRt~~q 88 (108)
|..|..+....|.+|..+|.-+|=|..+
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~Lgls~~~ 29 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDLGLSQTD 29 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHcCCCHHH
Confidence 4557777888899999999855544443
No 150
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=53.09 E-value=32 Score=22.23 Aligned_cols=30 Identities=17% Similarity=0.071 Sum_probs=23.8
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+-.+||...|-|...++.+-....+..
T Consensus 127 ~g~s~~eIA~~lgis~~tV~~~l~Rar~~L 156 (164)
T PRK12547 127 SGFSYEDAAAICGCAVGTIKSRVSRARNRL 156 (164)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 355788999989999999998877666554
No 151
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=51.47 E-value=20 Score=16.07 Aligned_cols=16 Identities=19% Similarity=0.052 Sum_probs=10.0
Q ss_pred CCCCcHHHHHHHHHHH
Q psy15548 1 MLKTMTIVDEILKAAV 16 (108)
Q Consensus 1 ~~~Wt~eEd~~L~~~v 16 (108)
|+|.+++|=..|.+.|
T Consensus 7 mmPMSPddy~~l~~~V 22 (23)
T PF12162_consen 7 MMPMSPDDYDELERMV 22 (23)
T ss_dssp ---S-HHHHHHHHHHH
T ss_pred ccCCCHHHHHHHHHhh
Confidence 5789999988888766
No 152
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=51.45 E-value=28 Score=24.98 Aligned_cols=32 Identities=22% Similarity=0.316 Sum_probs=25.4
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
+|.+-.+||.++|.|...|+.+.....+....
T Consensus 130 ~g~s~~EIA~~lg~s~~tVk~~l~RAr~~Lr~ 161 (293)
T PRK09636 130 FGVPFDEIASTLGRSPAACRQLASRARKHVRA 161 (293)
T ss_pred hCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHh
Confidence 34578999999999999999998876665543
No 153
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=51.43 E-value=25 Score=23.28 Aligned_cols=31 Identities=19% Similarity=0.094 Sum_probs=23.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|.+-.+||..+|-|...++.+....++...+
T Consensus 157 g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~ 187 (194)
T PRK12519 157 GLSQSEIAKRLGIPLGTVKARARQGLLKLRE 187 (194)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 4577889998899999999887766655443
No 154
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=50.83 E-value=34 Score=22.68 Aligned_cols=29 Identities=14% Similarity=-0.071 Sum_probs=23.2
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...|+.|.....+..
T Consensus 147 g~s~~EIA~~lgis~~tV~~~l~Rar~~L 175 (191)
T PRK12520 147 ELETEEICQELQITATNAWVLLYRARMRL 175 (191)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45778899999999999999877665544
No 155
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=50.75 E-value=29 Score=23.24 Aligned_cols=31 Identities=13% Similarity=0.038 Sum_probs=24.3
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+..+||..+|-|...++.+.....+...
T Consensus 128 ~g~s~~EIA~~LgiS~~tVk~~l~Rar~~Lr 158 (188)
T PRK12546 128 SGFSYEEAAEMCGVAVGTVKSRANRARARLA 158 (188)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4568899999999999999988776665543
No 156
>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=50.62 E-value=25 Score=25.38 Aligned_cols=30 Identities=10% Similarity=-0.021 Sum_probs=23.9
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|.|...|+.|.....+...
T Consensus 158 g~s~~EIA~~lgis~~tV~~~l~Rar~~Lr 187 (324)
T TIGR02960 158 GWRAAETAELLGTSTASVNSALQRARATLD 187 (324)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 457899999999999999998776655543
No 157
>PRK01905 DNA-binding protein Fis; Provisional
Probab=50.48 E-value=35 Score=19.63 Aligned_cols=35 Identities=11% Similarity=-0.020 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhhCCcchhccccccCCCHHHHHHH
Q psy15548 58 REEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLER 92 (108)
Q Consensus 58 ~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r 92 (108)
.-|...+..++..+|++....|+.+|=+...++.+
T Consensus 36 ~~E~~~i~~aL~~~~gn~s~aAr~LGIsrstL~rk 70 (77)
T PRK01905 36 CVEKPLLEVVMEQAGGNQSLAAEYLGINRNTLRKK 70 (77)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHH
Confidence 34666788889999999999999777666655444
No 158
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=50.39 E-value=28 Score=18.54 Aligned_cols=44 Identities=18% Similarity=0.123 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 55 EWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
..|+.|-..|.-+. .|.+=.+||...|.++..++.+...+.++.
T Consensus 3 ~LT~~E~~vl~~l~--~G~~~~eIA~~l~is~~tV~~~~~~i~~Kl 46 (58)
T PF00196_consen 3 SLTERELEVLRLLA--QGMSNKEIAEELGISEKTVKSHRRRIMKKL 46 (58)
T ss_dssp SS-HHHHHHHHHHH--TTS-HHHHHHHHTSHHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHH--hcCCcchhHHhcCcchhhHHHHHHHHHHHh
Confidence 45677776555443 355667999989999999999988887765
No 159
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=50.01 E-value=21 Score=21.20 Aligned_cols=28 Identities=14% Similarity=0.305 Sum_probs=20.5
Q ss_pred HHHHHHHHhhCCcchhccccccCCCHHH
Q psy15548 61 DEKLLHLAKLMPTQWRTIAPIIGRTAAQ 88 (108)
Q Consensus 61 d~~L~~~v~~~g~~W~~Ia~~~gRt~~q 88 (108)
|..|..+....|.+|..+|.-+|=+...
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eLg~s~~d 31 (84)
T cd08803 4 DIRMAIVADHLGLSWTELARELNFSVDE 31 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHcCCCHHH
Confidence 4566677788899999999966644443
No 160
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=49.97 E-value=38 Score=21.65 Aligned_cols=30 Identities=17% Similarity=0.072 Sum_probs=24.0
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+-.+||...|-|...++.|....++..
T Consensus 128 ~g~s~~EIA~~l~is~~tV~~~l~ra~~~~ 157 (161)
T PRK12528 128 DGLGYGEIATELGISLATVKRYLNKAAMRC 157 (161)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 456889999999999999999887765543
No 161
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=49.85 E-value=12 Score=21.85 Aligned_cols=27 Identities=22% Similarity=0.551 Sum_probs=18.3
Q ss_pred HHHHHHHHhhCCcchhccccccCCCHH
Q psy15548 61 DEKLLHLAKLMPTQWRTIAPIIGRTAA 87 (108)
Q Consensus 61 d~~L~~~v~~~g~~W~~Ia~~~gRt~~ 87 (108)
|..|..+.+..|.+|..+|..+|=|..
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~Lg~~~~ 30 (84)
T cd08317 4 DIRLADISNLLGSDWPQLARELGVSET 30 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHcCCCHH
Confidence 345666667788999999885554433
No 162
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=49.59 E-value=25 Score=18.88 Aligned_cols=35 Identities=17% Similarity=0.237 Sum_probs=21.4
Q ss_pred CCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHH
Q psy15548 56 WSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLE 91 (108)
Q Consensus 56 Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~ 91 (108)
-|..|.. .+.++.+.|-+=.+||+..|||...|+.
T Consensus 5 Lt~~Eqa-qid~m~qlG~s~~~isr~i~RSr~~Ir~ 39 (50)
T PF11427_consen 5 LTDAEQA-QIDVMHQLGMSLREISRRIGRSRTCIRR 39 (50)
T ss_dssp --HHHHH-HHHHHHHTT--HHHHHHHHT--HHHHHH
T ss_pred CCHHHHH-HHHHHHHhchhHHHHHHHhCccHHHHHH
Confidence 4555554 4666778888889999999999876654
No 163
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=49.53 E-value=33 Score=16.90 Aligned_cols=40 Identities=18% Similarity=0.187 Sum_probs=25.1
Q ss_pred CCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHH
Q psy15548 56 WSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFL 96 (108)
Q Consensus 56 Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~ 96 (108)
.++++- .++.++-..|.....||...|-|...++.+....
T Consensus 11 l~~~~~-~~~~~~~~~~~~~~~ia~~~~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPERER-EVILLRFGEGLSYEEIAEILGISRSTVRQRLHRA 50 (55)
T ss_pred CCHHHH-HHHHHHHhcCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 344443 3444444466788899997787777776655443
No 164
>KOG0384|consensus
Probab=49.43 E-value=10 Score=33.24 Aligned_cols=26 Identities=27% Similarity=0.468 Sum_probs=23.3
Q ss_pred cCCCHHHHHHHHHHHhhCC-cchhccc
Q psy15548 54 TEWSREEDEKLLHLAKLMP-TQWRTIA 79 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g-~~W~~Ia 79 (108)
..|+.++|..|+-.|-+|| ++|..|-
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhc
Confidence 3599999999999999999 7998874
No 165
>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=48.71 E-value=39 Score=22.03 Aligned_cols=31 Identities=16% Similarity=0.090 Sum_probs=24.1
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+-.+||..+|-|...|+.+....++...
T Consensus 155 ~g~s~~eIA~~lgis~~~v~~~l~Ra~~~Lr 185 (189)
T TIGR02984 155 EGLSFAEVAERMDRSEGAVSMLWVRGLARLR 185 (189)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 4557888999899999999988776665543
No 166
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=48.60 E-value=56 Score=21.58 Aligned_cols=39 Identities=28% Similarity=0.406 Sum_probs=33.4
Q ss_pred CCcHHHHHHHHHHHHHhCCC--CHHHHHHHhCCCCHHHHHH
Q psy15548 3 KTMTIVDEILKAAVMKYGKN--QWSRIASLLHRKSAKQCKA 41 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~--~W~~Ia~~~~~R~~~qc~~ 41 (108)
=|++.+-....++|..||.+ +|..+...+.+++...++.
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~f~~~w~~~~Lr~Ks~~ei~a 80 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGAFDWKWFVPRLRGKSEKEIRA 80 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCcccchHHhhhhccccHHHHHH
Confidence 37788889999999999986 8999999998888877765
No 167
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=48.54 E-value=17 Score=25.11 Aligned_cols=30 Identities=13% Similarity=0.003 Sum_probs=23.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.+.....+...
T Consensus 165 g~s~~EIAe~lgis~~tVk~~l~Rar~kLr 194 (231)
T PRK11922 165 ELSVEETAQALGLPEETVKTRLHRARRLLR 194 (231)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 457889999899999999988776655443
No 168
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=48.45 E-value=35 Score=22.08 Aligned_cols=23 Identities=13% Similarity=0.195 Sum_probs=16.9
Q ss_pred CcchhccccccCCCHHHHHHHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYE 94 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~ 94 (108)
|..|..||..++-+..+|+..+.
T Consensus 99 ~~TW~~IA~~l~i~erta~r~~~ 121 (130)
T PF05263_consen 99 RRTWYQIAQKLHISERTARRWRD 121 (130)
T ss_pred cchHHHHHHHhCccHHHHHHHHH
Confidence 56899999977777777765443
No 169
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=47.98 E-value=34 Score=22.49 Aligned_cols=30 Identities=13% Similarity=0.070 Sum_probs=23.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...|+.|....++...
T Consensus 143 g~s~~EIA~~l~is~~tv~~~l~Ra~~~Lr 172 (179)
T PRK09415 143 ELSIKEIAEVTGVNENTVKTRLKKAKELLK 172 (179)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 446788888888899999988877665543
No 170
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=47.24 E-value=44 Score=21.90 Aligned_cols=30 Identities=20% Similarity=0.160 Sum_probs=23.5
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...|+.+....++...
T Consensus 151 ~~s~~eIA~~lgis~~~V~~~l~ra~~~Lr 180 (186)
T PRK13919 151 GYTHREAAQLLGLPLGTLKTRARRALSRLK 180 (186)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 457788999899999999988777665543
No 171
>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=47.17 E-value=11 Score=23.90 Aligned_cols=30 Identities=10% Similarity=0.067 Sum_probs=23.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|-+..+||..+|-|...++.+.....+...
T Consensus 121 g~s~~eIA~~lgis~~tv~~~l~Ra~~~Lr 150 (154)
T TIGR02950 121 EFSYKEIAELLNLSLAKVKSNLFRARKELK 150 (154)
T ss_pred cCcHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 347899999899999999998877665543
No 172
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=46.44 E-value=64 Score=20.85 Aligned_cols=23 Identities=26% Similarity=0.388 Sum_probs=17.7
Q ss_pred CCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548 22 NQWSRIASLLHRKSAKQCKARWFE 45 (108)
Q Consensus 22 ~~W~~Ia~~~~~R~~~qc~~rw~~ 45 (108)
..|-.||..+. -+..+|+..+..
T Consensus 100 ~TW~~IA~~l~-i~erta~r~~~~ 122 (130)
T PF05263_consen 100 RTWYQIAQKLH-ISERTARRWRDR 122 (130)
T ss_pred chHHHHHHHhC-ccHHHHHHHHHH
Confidence 48999999884 788888765544
No 173
>smart00351 PAX Paired Box domain.
Probab=46.33 E-value=73 Score=20.02 Aligned_cols=68 Identities=13% Similarity=0.108 Sum_probs=44.1
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC--CCCHHHHHHHhhhh--cCCCC----cccCCCHHHHHHHHHHHhhCC
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH--RKSAKQCKARWFEW--LDPSI----KKTEWSREEDEKLLHLAKLMP 72 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~--~R~~~qc~~rw~~~--l~~~~----~~~~Wt~eEd~~L~~~v~~~g 72 (108)
|.+.++-+.++.++. -|. .-.+||..++ ..+...+..||... +.|.. ....-+++++..|+.++..++
T Consensus 17 ~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~p 92 (125)
T smart00351 17 PLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQENP 92 (125)
T ss_pred CCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHCC
Confidence 578888888888886 353 7899999997 23456666677542 33421 122355666666777776654
No 174
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=46.29 E-value=41 Score=21.83 Aligned_cols=30 Identities=10% Similarity=0.207 Sum_probs=23.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.+.....+...
T Consensus 135 ~~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 164 (173)
T PRK12522 135 QYSYKEMSEILNIPIGTVKYRLNYAKKQMR 164 (173)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 456788999899999999988776655543
No 175
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=46.14 E-value=42 Score=23.22 Aligned_cols=32 Identities=13% Similarity=0.188 Sum_probs=25.1
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
.|.+..+||..+|-|...|+.+....++...+
T Consensus 199 ~g~s~~EIA~~lgis~~tV~~~~~ra~~~Lr~ 230 (236)
T PRK06986 199 EELNLKEIGAVLGVSESRVSQIHSQAIKRLRA 230 (236)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 34578999999999999999888777665543
No 176
>KOG1724|consensus
Probab=45.65 E-value=47 Score=22.28 Aligned_cols=34 Identities=15% Similarity=0.336 Sum_probs=24.7
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHH
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEK 63 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~ 63 (108)
--..||..+.|+|+.+.|..| ++ ...+|++|+..
T Consensus 119 ~ck~va~mikgktpeEir~~f-~I------~~d~t~eE~~~ 152 (162)
T KOG1724|consen 119 TCKTVANMIKGKTPEEIREIF-NI------ENDETPEEEEA 152 (162)
T ss_pred HHHHHHHHHccCCHHHHHHHc-CC------CCCCChhHHHH
Confidence 357889999999999999984 32 33567777633
No 177
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=45.16 E-value=46 Score=21.88 Aligned_cols=31 Identities=16% Similarity=0.023 Sum_probs=24.5
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+-.+||..+|-|...++.+....++...
T Consensus 148 ~~~s~~eIA~~lgis~~tV~~~l~ra~~~Lr 178 (182)
T PRK12537 148 DGCSHAEIAQRLGAPLGTVKAWIKRSLKALR 178 (182)
T ss_pred cCCCHHHHHHHHCCChhhHHHHHHHHHHHHH
Confidence 3557788999899999999998887776543
No 178
>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=45.10 E-value=41 Score=24.07 Aligned_cols=32 Identities=19% Similarity=0.304 Sum_probs=25.4
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
+|-+-.+||..+|.|...|+.+.....+....
T Consensus 123 ~g~s~~EIA~~lg~s~~tVr~~l~RAr~~Lr~ 154 (281)
T TIGR02957 123 FDYPYEEIASIVGKSEANCRQLVSRARRHLDA 154 (281)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHh
Confidence 45578899999999999999988776665543
No 179
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=44.81 E-value=42 Score=21.44 Aligned_cols=31 Identities=13% Similarity=0.079 Sum_probs=24.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|-+-.+||..+|=|...|+.+.....+...+
T Consensus 128 ~~s~~eIA~~lgis~~tv~~~l~Rar~~L~~ 158 (161)
T PRK12541 128 GFSYKEIAEMTGLSLAKVKIELHRGRKETKS 158 (161)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHh
Confidence 4467889998999999999988777665543
No 180
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=43.99 E-value=27 Score=20.11 Aligned_cols=25 Identities=32% Similarity=0.558 Sum_probs=16.7
Q ss_pred HHHHHHHHhh-CCcchhccccccCCC
Q psy15548 61 DEKLLHLAKL-MPTQWRTIAPIIGRT 85 (108)
Q Consensus 61 d~~L~~~v~~-~g~~W~~Ia~~~gRt 85 (108)
+..|..++.. .|.+|..+|+.+|=+
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~Lg~~ 30 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKLGLS 30 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHcCCC
Confidence 4455556666 788999999854433
No 181
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=43.74 E-value=23 Score=20.65 Aligned_cols=31 Identities=32% Similarity=0.426 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHhhCCcchhccccccCCCHHHH
Q psy15548 58 REEDEKLLHLAKLMPTQWRTIAPIIGRTAAQC 89 (108)
Q Consensus 58 ~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~ 89 (108)
.||.++|+.. -..|.+|..+|..+|=+...+
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~LG~~~~~I 32 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGELGYEDEAI 32 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHcCCCHHHH
Confidence 5777887742 256789999999666555544
No 182
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=43.63 E-value=52 Score=21.03 Aligned_cols=30 Identities=10% Similarity=0.031 Sum_probs=22.9
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+-.+||..+|-|...++.+.....+..
T Consensus 126 ~g~s~~eIA~~lgis~~tV~~~i~ra~~~L 155 (166)
T PRK09639 126 SGYSYKEIAEALGIKESSVGTTLARAKKKF 155 (166)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 455778899988999999988877655543
No 183
>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=43.62 E-value=51 Score=23.26 Aligned_cols=29 Identities=7% Similarity=-0.112 Sum_probs=23.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+..+||..+|-|...|+.|....++..
T Consensus 177 g~S~~EIA~~Lgis~~TVk~rl~RAr~~L 205 (244)
T TIGR03001 177 GLSMDRIGAMYQVHRSTVSRWVAQARERL 205 (244)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 45889999999999999998877665543
No 184
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=43.60 E-value=51 Score=22.37 Aligned_cols=31 Identities=16% Similarity=0.094 Sum_probs=23.4
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.|.+-.+||..+|-|...++.+.....+...
T Consensus 153 ~g~s~~EIA~~Lgis~~tV~~~l~RArk~Lr 183 (203)
T PRK09647 153 EGLSYEEIAATLGVKLGTVRSRIHRGRQQLR 183 (203)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 3557788999899999999888776655443
No 185
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=42.93 E-value=50 Score=23.15 Aligned_cols=30 Identities=7% Similarity=0.097 Sum_probs=24.3
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+-.+||..+|-|...++.+....++..
T Consensus 216 ~~~s~~EIA~~lgis~~tV~~~~~ra~~~L 245 (251)
T PRK07670 216 EELTLTEIGQVLNLSTSRISQIHSKALFKL 245 (251)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 355789999999999999999887766654
No 186
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=41.95 E-value=21 Score=23.23 Aligned_cols=31 Identities=13% Similarity=0.149 Sum_probs=23.2
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
+|.+..+||..+|-|...++.+....+....
T Consensus 141 ~g~s~~eIA~~l~is~~~V~~~l~ra~~~l~ 171 (176)
T PRK09638 141 YGYTYEEIAKMLNIPEGTVKSRVHHGIKQLR 171 (176)
T ss_pred cCCCHHHHHHHHCCChhHHHHHHHHHHHHHH
Confidence 3457889999888888888887766655543
No 187
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=41.85 E-value=59 Score=21.63 Aligned_cols=30 Identities=17% Similarity=0.071 Sum_probs=22.7
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+-.+||+.+|-|...++.+-...++..
T Consensus 157 ~~~s~~EIA~~Lgis~~tVk~~l~ra~~~L 186 (194)
T PRK09646 157 GGLTYREVAERLAVPLGTVKTRMRDGLIRL 186 (194)
T ss_pred cCCCHHHHHHHhCCChHhHHHHHHHHHHHH
Confidence 345788999988889999988876655544
No 188
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=40.95 E-value=35 Score=19.17 Aligned_cols=22 Identities=23% Similarity=0.265 Sum_probs=15.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHhC
Q psy15548 11 ILKAAVMKYGKNQWSRIASLLH 32 (108)
Q Consensus 11 ~L~~~v~~~g~~~W~~Ia~~~~ 32 (108)
.|..++......+|..+|..++
T Consensus 2 ~l~~~l~~~~~~~Wk~La~~Lg 23 (83)
T PF00531_consen 2 KLFDLLAEDLGSDWKRLARKLG 23 (83)
T ss_dssp HHHHHHHHSHSTCHHHHHHHTT
T ss_pred hHHHHHhhcchhhHHHHHHHhC
Confidence 4555665554469999999985
No 189
>KOG0385|consensus
Probab=40.85 E-value=1.1e+02 Score=26.02 Aligned_cols=94 Identities=19% Similarity=0.203 Sum_probs=60.8
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc-----------------------------------
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL----------------------------------- 47 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l----------------------------------- 47 (108)
-||+-+=...+.+.++||.++=..||..+.+ ++..+.. |...+
T Consensus 797 ~w~k~df~~fi~a~eKygr~di~~ia~~~e~-~~eev~~-y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~~~~~ld 874 (971)
T KOG0385|consen 797 NWTKRDFNQFIKANEKYGRDDIENIAAEVEG-TPEEVGE-YARVFWERLEELSDIEKIIYQIERGEKRIQRGDSIKKALD 874 (971)
T ss_pred chhhhhHHHHHHHhhccCcchhhhhHHhhcC-CHHHHHH-HHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHHHHHHHh
Confidence 4888888899999999998888888887765 4433321 11110
Q ss_pred -------C--------CCCcccCCCHHHHHHHHHHHhhCCc---c-hhcccc-c------------cCCCHHHHHHHHHH
Q psy15548 48 -------D--------PSIKKTEWSREEDEKLLHLAKLMPT---Q-WRTIAP-I------------IGRTAAQCLERYEF 95 (108)
Q Consensus 48 -------~--------~~~~~~~Wt~eEd~~L~~~v~~~g~---~-W~~Ia~-~------------~gRt~~q~~~r~~~ 95 (108)
. +..++.+.|.+||.-|+.++.++|- + |..+-. + ..||...+..|+..
T Consensus 875 ~k~~~~k~p~~l~i~~~~nk~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frfdw~~~sRt~~el~Rr~nt 954 (971)
T KOG0385|consen 875 DKIARYKAPHQLRIQYGTNKGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRFDWFIKSRTAMELQRRCNT 954 (971)
T ss_pred hhHhhhcCchheeeeeccccCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCcccccceeeehhhHHHHHhcCCe
Confidence 0 1124568999999999999988873 2 322221 1 23777777766665
Q ss_pred HHh
Q psy15548 96 LLY 98 (108)
Q Consensus 96 ~~~ 98 (108)
++.
T Consensus 955 li~ 957 (971)
T KOG0385|consen 955 LIT 957 (971)
T ss_pred eEE
Confidence 543
No 190
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=40.69 E-value=63 Score=21.99 Aligned_cols=31 Identities=10% Similarity=-0.059 Sum_probs=24.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|.+-.+||..+|-|...++.|....++...+
T Consensus 164 g~s~~EIAe~lgis~~tV~~~l~RAr~~Lr~ 194 (206)
T PRK12544 164 ELETNEICHAVDLSVSNLNVLLYRARLRLRE 194 (206)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 4577899999999999999887766655443
No 191
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=40.38 E-value=39 Score=24.68 Aligned_cols=31 Identities=6% Similarity=-0.072 Sum_probs=25.4
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|-+-.+||..+|-|...|+.|.....+...+
T Consensus 169 g~s~~EIA~~lgis~~tVk~~l~RAr~~Lr~ 199 (339)
T PRK08241 169 GWSAAEVAELLDTSVAAVNSALQRARATLAE 199 (339)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHhh
Confidence 4578899999999999999998877766555
No 192
>PRK06930 positive control sigma-like factor; Validated
Probab=40.32 E-value=66 Score=21.50 Aligned_cols=32 Identities=9% Similarity=-0.050 Sum_probs=24.9
Q ss_pred hCCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 70 ~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
..|..-.+||..+|-|...|+.+.....+...
T Consensus 128 ~eg~s~~EIA~~lgiS~~tVk~~l~Ra~~kLr 159 (170)
T PRK06930 128 GYGLSYSEIADYLNIKKSTVQSMIERAEKKIA 159 (170)
T ss_pred HcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 45678899999889999999888776665543
No 193
>KOG2544|consensus
Probab=39.93 E-value=30 Score=27.65 Aligned_cols=48 Identities=19% Similarity=0.266 Sum_probs=39.0
Q ss_pred CCCCcHHHHHHHHHHHHHhC-CCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548 1 MLKTMTIVDEILKAAVMKYG-KNQWSRIASLLHRKSAKQCKARWFEWLD 48 (108)
Q Consensus 1 ~~~Wt~eEd~~L~~~v~~~g-~~~W~~Ia~~~~~R~~~qc~~rw~~~l~ 48 (108)
++||++.+.--+.+.|.+|- ..+...|...+.+++..-|..+|..-++
T Consensus 161 ~~p~~~~~~l~i~r~v~~~vees~f~tieAlv~s~s~~icf~~y~~~~s 209 (711)
T KOG2544|consen 161 KLPWPKKAELPIIRNVVKFVEESNFKTIEALVESVSAVICFNEYFQKFS 209 (711)
T ss_pred ecCCchhhhhHHHHHHHHHHhcCCchhHHHHHHhhhHheehhhhhcccc
Confidence 47999988887887777763 3489999999999999999999977543
No 194
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=39.92 E-value=63 Score=21.81 Aligned_cols=29 Identities=10% Similarity=0.084 Sum_probs=22.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...++.+....++..
T Consensus 169 g~s~~EIA~~lgis~~tV~~~l~Ra~~~L 197 (206)
T PRK12526 169 ELSQEQLAQQLNVPLGTVKSRLRLALAKL 197 (206)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 44678899999999999998877665544
No 195
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=39.33 E-value=49 Score=23.08 Aligned_cols=29 Identities=14% Similarity=-0.050 Sum_probs=23.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...++.+....++..
T Consensus 187 g~s~~EIA~~Lgis~~tVk~~l~RAr~kL 215 (233)
T PRK12538 187 NMSNGEIAEVMDTTVAAVESLLKRGRQQL 215 (233)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 45788999999999999988877666544
No 196
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=39.18 E-value=42 Score=19.92 Aligned_cols=23 Identities=17% Similarity=0.359 Sum_probs=18.1
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHhC
Q psy15548 9 DEILKAAVMKYGKNQWSRIASLLH 32 (108)
Q Consensus 9 d~~L~~~v~~~g~~~W~~Ia~~~~ 32 (108)
|-.|..+.+..|. +|..+|..++
T Consensus 4 ~~~l~~Ia~~LG~-dW~~Lar~L~ 26 (84)
T cd08805 4 EMKMAVIREHLGL-SWAELARELQ 26 (84)
T ss_pred hhHHHHHHHHhcc-hHHHHHHHcC
Confidence 3456667777886 9999999886
No 197
>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=38.75 E-value=26 Score=23.26 Aligned_cols=29 Identities=17% Similarity=0.206 Sum_probs=22.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...|+.|.....+..
T Consensus 147 g~s~~EIA~~lgis~~tVk~~l~Rar~~L 175 (193)
T TIGR02947 147 GFAYKEIAEIMGTPIGTVMSRLHRGRKQL 175 (193)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 44778899989999999998877665543
No 198
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=38.62 E-value=66 Score=21.34 Aligned_cols=29 Identities=10% Similarity=0.102 Sum_probs=22.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...++.+....++..
T Consensus 127 g~s~~EIA~~lgis~~tV~~~l~Rar~~L 155 (182)
T PRK12511 127 GLSYQEAAAVLGIPIGTLMSRIGRARAAL 155 (182)
T ss_pred CCCHHHHHHHhCcCHHHHHHHHHHHHHHH
Confidence 45788999989999999998877665544
No 199
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=38.59 E-value=40 Score=25.83 Aligned_cols=27 Identities=22% Similarity=0.326 Sum_probs=21.3
Q ss_pred cCCCCccc-CCCHHHHHHHHHHHhhCCc
Q psy15548 47 LDPSIKKT-EWSREEDEKLLHLAKLMPT 73 (108)
Q Consensus 47 l~~~~~~~-~Wt~eEd~~L~~~v~~~g~ 73 (108)
.+|+.-.| .||.||-..|.++..+||-
T Consensus 165 CnPHNP~Grvwt~eeL~~i~elc~kh~v 192 (388)
T COG1168 165 CNPHNPTGRVWTKEELRKIAELCLRHGV 192 (388)
T ss_pred eCCCCCCCccccHHHHHHHHHHHHHcCC
Confidence 35554444 6999999999999999983
No 200
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=38.52 E-value=31 Score=20.31 Aligned_cols=29 Identities=24% Similarity=0.370 Sum_probs=19.7
Q ss_pred HHHHHHHHhhCCcchhccccccCCCHHHH
Q psy15548 61 DEKLLHLAKLMPTQWRTIAPIIGRTAAQC 89 (108)
Q Consensus 61 d~~L~~~v~~~g~~W~~Ia~~~gRt~~q~ 89 (108)
|..|.......|.+|..+|+-+|=|...+
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~Lg~se~dI 32 (84)
T cd08804 4 EERLAVIADHLGFSWTELARELDFTEEQI 32 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHcCCCHHHH
Confidence 34455666778999999998666554443
No 201
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=38.37 E-value=15 Score=21.56 Aligned_cols=17 Identities=29% Similarity=0.503 Sum_probs=14.7
Q ss_pred cC--CCHHHHHHHHHHHHh
Q psy15548 82 IG--RTAAQCLERYEFLLY 98 (108)
Q Consensus 82 ~g--Rt~~q~~~r~~~~~~ 98 (108)
+| ||...|+.||.|+++
T Consensus 51 ~GCDkt~~tC~~kF~N~~N 69 (80)
T PF09356_consen 51 PGCDKTFATCRAKFNNALN 69 (80)
T ss_pred eCCCCCHHHHHHHhCCccc
Confidence 55 999999999998765
No 202
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=38.18 E-value=1e+02 Score=20.52 Aligned_cols=35 Identities=17% Similarity=0.032 Sum_probs=24.2
Q ss_pred HHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548 10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW 46 (108)
Q Consensus 10 ~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~ 46 (108)
..++.+..-.|. .+.+||..+ |-++..++.+|...
T Consensus 141 ~~~v~l~~~~Gl-s~~EIA~~l-giS~~tV~r~l~~a 175 (185)
T PF07638_consen 141 RRVVELRFFEGL-SVEEIAERL-GISERTVRRRLRRA 175 (185)
T ss_pred HHHHHHHHHCCC-CHHHHHHHH-CcCHHHHHHHHHHH
Confidence 334444333354 999999999 47888888888653
No 203
>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=37.30 E-value=70 Score=21.84 Aligned_cols=30 Identities=17% Similarity=0.101 Sum_probs=23.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||+..|-|...|+.+....++...
T Consensus 194 ~~s~~eIA~~lgis~~~v~~~~~ra~~~Lr 223 (227)
T TIGR02980 194 DKTQSEIAERLGISQMHVSRLLRRALKKLR 223 (227)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 557889999899999999888776666543
No 204
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=37.27 E-value=69 Score=21.33 Aligned_cols=29 Identities=10% Similarity=0.094 Sum_probs=23.2
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|-+-.+||..+|-|+..++.+.....+..
T Consensus 170 ~~s~~EIA~~lgis~~tV~~~l~rar~~L 198 (208)
T PRK08295 170 GKSYQEIAEELNRHVKSIDNALQRVKRKL 198 (208)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45788999989999999998877665554
No 205
>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=37.07 E-value=75 Score=20.03 Aligned_cols=29 Identities=21% Similarity=0.221 Sum_probs=21.2
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|=|...++.+.....+..
T Consensus 127 g~~~~eIA~~l~is~~tv~~~l~Rar~~L 155 (159)
T TIGR02989 127 GVSLTALAEQLGRTVNAVYKALSRLRVRL 155 (159)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 45678888888888888888766655443
No 206
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=36.88 E-value=82 Score=21.64 Aligned_cols=31 Identities=10% Similarity=0.187 Sum_probs=24.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|.+..+||..+|-|...++.+....++...+
T Consensus 198 g~s~~EIA~~lgis~~tVk~~~~rA~~~Lr~ 228 (234)
T PRK08301 198 EKTQKEVADMLGISQSYISRLEKRIIKRLKK 228 (234)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 6688999999999999998887776665544
No 207
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=36.83 E-value=65 Score=21.65 Aligned_cols=30 Identities=10% Similarity=-0.093 Sum_probs=23.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.|....++...
T Consensus 149 g~s~~EIAe~lgis~~tV~~~l~Rar~~Lr 178 (196)
T PRK12535 149 GYTYEEAAKIADVRVGTIRSRVARARADLI 178 (196)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 346788999899999999998876665443
No 208
>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=36.56 E-value=83 Score=20.43 Aligned_cols=30 Identities=13% Similarity=-0.010 Sum_probs=21.9
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+=.+||..+|-|...++.+.....+..
T Consensus 115 ~g~s~~eIA~~lgis~~tV~~~l~Rar~~L 144 (170)
T TIGR02959 115 EGLSQQEIAEKLGLSLSGAKSRVQRGRKKL 144 (170)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 345678899888988888888776655443
No 209
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=35.98 E-value=77 Score=20.99 Aligned_cols=30 Identities=13% Similarity=0.051 Sum_probs=22.2
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+-.+||..+|-|...++.+.....+..
T Consensus 126 ~g~s~~EIA~~Lgis~~tV~~~l~RAr~~L 155 (182)
T PRK12540 126 SGFSYEDAAAICGCAVGTIKSRVNRARSKL 155 (182)
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 345788899988888888888766555444
No 210
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=35.61 E-value=78 Score=20.74 Aligned_cols=30 Identities=7% Similarity=-0.061 Sum_probs=22.4
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|-+..+||..+|=|...|+.+-....+..
T Consensus 152 ~g~s~~eIA~~lgis~~~v~~~l~Rar~~L 181 (187)
T PRK12534 152 EGITYEELAARTDTPIGTVKSWIRRGLAKL 181 (187)
T ss_pred cCCCHHHHHHHhCCChhHHHHHHHHHHHHH
Confidence 355788899988888888888776665544
No 211
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=35.34 E-value=42 Score=19.88 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=18.2
Q ss_pred HHHHHHHHHhCCCCHHHHHHHhCCCCHHHH
Q psy15548 10 EILKAAVMKYGKNQWSRIASLLHRKSAKQC 39 (108)
Q Consensus 10 ~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc 39 (108)
+.|-.+....|. +|..+|..++ -+..++
T Consensus 3 ~~l~~l~~~lG~-~Wk~lar~LG-~s~~eI 30 (86)
T cd08777 3 KHLDLLRENLGK-KWKRCARKLG-FTESEI 30 (86)
T ss_pred HHHHHHHHHHHH-HHHHHHHHcC-CCHHHH
Confidence 344445556676 9999999996 344333
No 212
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=35.22 E-value=68 Score=22.09 Aligned_cols=30 Identities=20% Similarity=0.207 Sum_probs=23.0
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|-+-.+||..+|=|...|+.|....++...
T Consensus 150 g~s~~EIAe~LgiS~~tVk~~L~RAr~~Lr 179 (216)
T PRK12533 150 DMSYREIAAIADVPVGTVMSRLARARRRLA 179 (216)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 447788999889999999988776655543
No 213
>KOG2941|consensus
Probab=34.79 E-value=16 Score=27.91 Aligned_cols=21 Identities=29% Similarity=0.463 Sum_probs=16.3
Q ss_pred cccCCCHHHHH-HHHHHHhhCC
Q psy15548 52 KKTEWSREEDE-KLLHLAKLMP 72 (108)
Q Consensus 52 ~~~~Wt~eEd~-~L~~~v~~~g 72 (108)
+...||++||- .|+++...|+
T Consensus 260 sSTswTpDEdf~ILL~AL~~y~ 281 (444)
T KOG2941|consen 260 SSTSWTPDEDFGILLEALVIYE 281 (444)
T ss_pred ecCCCCCcccHHHHHHHHHhhh
Confidence 45689999998 6777777665
No 214
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=34.68 E-value=66 Score=23.30 Aligned_cols=32 Identities=19% Similarity=0.263 Sum_probs=25.1
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
+|-+-.+||+++|.|...|+.+.....+....
T Consensus 133 ~g~s~~EIA~~Lgis~~tVr~~l~RAr~~Lr~ 164 (290)
T PRK09635 133 FGLPYQQIATTIGSQASTCRQLAHRARRKINE 164 (290)
T ss_pred hCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHh
Confidence 35578999999999999999988766655443
No 215
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=34.61 E-value=85 Score=20.51 Aligned_cols=29 Identities=14% Similarity=0.069 Sum_probs=21.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|-+-.+||..+|-|...++.+....+...
T Consensus 133 ~~s~~EIA~~lgis~~tV~~~l~ra~~~L 161 (179)
T PRK12543 133 DYSQEEIAQLLQIPIGTVKSRIHAALKKL 161 (179)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45778899888888888887766555443
No 216
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=34.14 E-value=78 Score=20.29 Aligned_cols=29 Identities=7% Similarity=-0.079 Sum_probs=21.2
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||...|-|...++.+-....+..
T Consensus 124 g~s~~eIA~~lgis~~tv~~~l~Rar~~L 152 (165)
T PRK09644 124 ELTYEEAASVLDLKLNTYKSHLFRGRKRL 152 (165)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45678899888888888887766555443
No 217
>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=33.83 E-value=93 Score=21.24 Aligned_cols=30 Identities=17% Similarity=0.221 Sum_probs=23.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||...|-|...++.+....++...
T Consensus 191 ~~s~~eIA~~lgis~~tV~~~~~ra~~~Lr 220 (224)
T TIGR02479 191 ELNLKEIGEVLGLTESRVSQIHSQALKKLR 220 (224)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 446788888889999999888877766544
No 218
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=33.72 E-value=43 Score=19.75 Aligned_cols=22 Identities=18% Similarity=0.460 Sum_probs=14.5
Q ss_pred HhhCCcchhccccccCCCHHHH
Q psy15548 68 AKLMPTQWRTIAPIIGRTAAQC 89 (108)
Q Consensus 68 v~~~g~~W~~Ia~~~gRt~~q~ 89 (108)
....|.+|..+++-.|=|..++
T Consensus 9 ~~~lG~~Wk~laR~LGlse~~I 30 (86)
T cd08306 9 CENVGRDWRKLARKLGLSETKI 30 (86)
T ss_pred HHHHhhhHHHHHHHcCCCHHHH
Confidence 3556889999888555444443
No 219
>TIGR01765 tspaseT_teng_N transposase, putative, N-terminal domain. This model represents the N-terminal region of a family of putative transposases found in the largest copy number in Thermoanaerobacter tengcongensis. The three homologs in Bacillus anthracis are each split into two ORFs and This model represents the upstream ORF.
Probab=33.47 E-value=68 Score=18.13 Aligned_cols=42 Identities=17% Similarity=0.298 Sum_probs=24.7
Q ss_pred CCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHHHHH
Q psy15548 56 WSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYEFLL 97 (108)
Q Consensus 56 Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~~~~ 97 (108)
.++++++.|.+.+..|..-=.-++. +.|++....+..-+.++
T Consensus 8 ~~~e~~~~L~~tm~~f~~A~n~~~~~~~e~~~~~~~k~~L~~l~ 51 (73)
T TIGR01765 8 FEDKEKEYLLDLIRAFSSAVNFVIKRLLEGKSHSELKKELQRLY 51 (73)
T ss_pred cChhhHHHHHHHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHH
Confidence 5678888899988887642223333 56766664443333333
No 220
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=33.23 E-value=1.2e+02 Score=21.03 Aligned_cols=45 Identities=13% Similarity=0.107 Sum_probs=35.6
Q ss_pred cCCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 54 TEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
...|+.|-+.|.-+.+ |....+||..++-|+..++..-..++++.
T Consensus 132 ~~LSpRErEVLrLLAq--GkTnKEIAe~L~IS~rTVkth~srImkKL 176 (198)
T PRK15201 132 RHFSVTERHLLKLIAS--GYHLSETAALLSLSEEQTKSLRRSIMRKL 176 (198)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Confidence 4588888876655443 77889999988999999998888877765
No 221
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=33.05 E-value=83 Score=20.31 Aligned_cols=29 Identities=7% Similarity=-0.010 Sum_probs=22.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|-+..+||..+|-|...++.+....++.-
T Consensus 134 g~s~~EIA~~l~is~~tV~~~l~ra~~~~ 162 (168)
T PRK12525 134 GLTYVEIGERLGVSLSRIHQYMVEAFKCC 162 (168)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45789999989999999988876665543
No 222
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096)
Probab=32.88 E-value=89 Score=17.62 Aligned_cols=58 Identities=16% Similarity=0.294 Sum_probs=33.2
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHH---hhCCcchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA---KLMPTQWRTIAP-IIGRTAAQCLERYEFLLY 98 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v---~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~ 98 (108)
.|..|+..||.....- .+ ..-++..+++++ ...|-.|..+.. ++.. ..|..+|....+
T Consensus 5 ~W~~i~p~lp~~~~~~-------------~~---~~~~~R~v~~ail~~lrtG~~Wr~LP~~fg~~--~tv~~~f~rW~~ 66 (75)
T PF13340_consen 5 EWALIEPLLPPRKPRG-------------GR---PRIDLREVLNAILYVLRTGCPWRDLPEDFGPW--STVYRRFRRWSR 66 (75)
T ss_pred HHHHHHhhCCCCCCCC-------------CC---CccchHHHHhcccccceecceecccchhccCc--CcHHHHHHHHHH
Confidence 6999999998533110 01 112233445543 567889999998 7632 345555554443
No 223
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=32.80 E-value=47 Score=19.59 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=18.5
Q ss_pred HHHHHHHHHhCCCCHHHHHHHhC
Q psy15548 10 EILKAAVMKYGKNQWSRIASLLH 32 (108)
Q Consensus 10 ~~L~~~v~~~g~~~W~~Ia~~~~ 32 (108)
+.|..+....|. +|..+|..++
T Consensus 3 ~~l~~ia~~LG~-~Wk~lar~LG 24 (86)
T cd08779 3 SNLLSIAGRLGL-DWQAIGLHLG 24 (86)
T ss_pred hHHHHHHHHHhH-HHHHHHHHcC
Confidence 457778888897 9999999987
No 224
>PF09846 DUF2073: Uncharacterized protein conserved in archaea (DUF2073); InterPro: IPR012017 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=32.44 E-value=44 Score=20.81 Aligned_cols=15 Identities=27% Similarity=0.510 Sum_probs=13.4
Q ss_pred cCCCHHHHHHHHHHH
Q psy15548 54 TEWSREEDEKLLHLA 68 (108)
Q Consensus 54 ~~Wt~eEd~~L~~~v 68 (108)
+.|||+|+..|++.-
T Consensus 27 ~GLtPeEe~~LIE~T 41 (104)
T PF09846_consen 27 EGLTPEEESKLIEMT 41 (104)
T ss_pred CCCChHHHHHHHHHH
Confidence 579999999999975
No 225
>PLN03162 golden-2 like transcription factor; Provisional
Probab=32.05 E-value=1.9e+02 Score=22.46 Aligned_cols=45 Identities=16% Similarity=0.107 Sum_probs=33.4
Q ss_pred CCCcHHHHHHHHHHHHHhCCC--CHHHHHHHhC--CCCHHHHHHHhhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKN--QWSRIASLLH--RKSAKQCKARWFEW 46 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~--~W~~Ia~~~~--~R~~~qc~~rw~~~ 46 (108)
+.||+|-.++++++|.+.|.. -=+.|-+.|. +=|..++..|.+.|
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKY 286 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKY 286 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 579999999999999999942 2356666665 66777776665544
No 226
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=31.94 E-value=79 Score=21.67 Aligned_cols=44 Identities=18% Similarity=0.046 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 55 EWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
..|+.|-+.|.-+. .|..=.+||.-++.|...++.+..+++++.
T Consensus 148 ~LT~RE~eVL~lla--~G~snkeIA~~L~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 148 LLTPRELEVLRLLA--EGLSNKEIAEELNLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCHHHHHHHHHHH--CCCCHHHHHHHHCCCHhHHHHHHHHHHHHc
Confidence 68888888665543 355557999999999999999999998875
No 227
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=31.61 E-value=39 Score=22.40 Aligned_cols=29 Identities=17% Similarity=0.266 Sum_probs=21.5
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|..-.+||..+|-|...|+.+....++..
T Consensus 155 g~s~~EIA~~lgis~~tV~~~l~ra~~~L 183 (194)
T PRK12513 155 DLELEEIAELTGVPEETVKSRLRYALQKL 183 (194)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 44778899988888888887766555443
No 228
>smart00426 TEA TEA domain.
Probab=31.47 E-value=1.1e+02 Score=17.60 Aligned_cols=24 Identities=8% Similarity=0.072 Sum_probs=19.7
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHH
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSR 26 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~ 26 (108)
.|.++=+..+.++...|......+
T Consensus 5 vWp~~lE~Af~~aL~~~~~~g~~k 28 (68)
T smart00426 5 VWSPDIEQAFQEALAIYPPCGRRK 28 (68)
T ss_pred cCcHHHHHHHHHHHHHcCccCccc
Confidence 699999999999999997654443
No 229
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=30.96 E-value=1.2e+02 Score=19.26 Aligned_cols=29 Identities=14% Similarity=-0.012 Sum_probs=20.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...++.+-...++..
T Consensus 125 ~~s~~EIA~~lgis~~tV~~~l~ra~~~l 153 (163)
T PRK07037 125 GETQKDIARELGVSPTLVNFMIRDALVHC 153 (163)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 45678888888888888887755444443
No 230
>cd00131 PAX Paired Box domain
Probab=30.87 E-value=1.4e+02 Score=18.84 Aligned_cols=69 Identities=13% Similarity=0.082 Sum_probs=44.8
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC--CCCHHHHHHHhhhh--cCCCCccc----CCCHHHHHHHHHHHhhCC
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH--RKSAKQCKARWFEW--LDPSIKKT----EWSREEDEKLLHLAKLMP 72 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~--~R~~~qc~~rw~~~--l~~~~~~~----~Wt~eEd~~L~~~v~~~g 72 (108)
.|.|.++-..++.+++ -|. .-..||..++ ..+..-+..||... +.|....| .-+++.+..|+.++..++
T Consensus 16 ~~lS~d~R~rIv~~~~-~G~-s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~~~p 92 (128)
T cd00131 16 RPLPDSIRQRIVELAQ-SGI-RPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQENP 92 (128)
T ss_pred CcCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHHHCC
Confidence 3778888888888876 464 8999999987 23455566676643 33432222 246666666776776665
No 231
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=30.72 E-value=1.1e+02 Score=21.66 Aligned_cols=29 Identities=10% Similarity=0.129 Sum_probs=22.1
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||...|-|...++.+....++..
T Consensus 228 ~~s~~eIA~~lgis~~tV~~~~~ra~~~L 256 (268)
T PRK06288 228 DLTLKEIGKVLGVTESRISQLHTKAVLQL 256 (268)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 45778899888999999987776655544
No 232
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=30.57 E-value=44 Score=16.96 Aligned_cols=28 Identities=18% Similarity=0.258 Sum_probs=17.7
Q ss_pred HHHHHHhhCCcchhccccccCCCHHHHHH
Q psy15548 63 KLLHLAKLMPTQWRTIAPIIGRTAAQCLE 91 (108)
Q Consensus 63 ~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~ 91 (108)
.++.++.. |.+..+||+..|-|...+..
T Consensus 9 ~ii~l~~~-G~s~~~ia~~lgvs~~Tv~~ 36 (50)
T PF13384_consen 9 QIIRLLRE-GWSIREIAKRLGVSRSTVYR 36 (50)
T ss_dssp -HHHHHHH-T--HHHHHHHHTS-HHHHHH
T ss_pred HHHHHHHC-CCCHHHHHHHHCcCHHHHHH
Confidence 45555555 88999999977877776654
No 233
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=30.47 E-value=46 Score=19.57 Aligned_cols=23 Identities=22% Similarity=0.514 Sum_probs=16.2
Q ss_pred HHhhCCcchhccccccCCCHHHH
Q psy15548 67 LAKLMPTQWRTIAPIIGRTAAQC 89 (108)
Q Consensus 67 ~v~~~g~~W~~Ia~~~gRt~~q~ 89 (108)
+....|.+|..+|+-+|=|..++
T Consensus 13 ia~~iG~~Wk~Lar~LGls~~dI 35 (86)
T cd08318 13 FANKLGEDWKTLAPHLEMKDKEI 35 (86)
T ss_pred HHHHHhhhHHHHHHHcCCCHHHH
Confidence 44667899999998666555544
No 234
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=30.41 E-value=94 Score=16.66 Aligned_cols=41 Identities=17% Similarity=0.038 Sum_probs=25.7
Q ss_pred HHHHHHhhCCcchhcccc-ccCCCHHHH---HHHHHHHHhHHHhh
Q psy15548 63 KLLHLAKLMPTQWRTIAP-IIGRTAAQC---LERYEFLLYRARRK 103 (108)
Q Consensus 63 ~L~~~v~~~g~~W~~Ia~-~~gRt~~q~---~~r~~~~~~~~~~~ 103 (108)
.|..+++..|.+=..+.. +.+||+.|. +..|.......+.+
T Consensus 5 ~l~~a~~~~g~de~~li~Il~~rs~~ql~~i~~~Y~~~~g~~L~~ 49 (66)
T PF00191_consen 5 LLHAALKGWGTDEDVLIEILCTRSPAQLRAIKQAYKKKYGKDLEE 49 (66)
T ss_dssp HHHHHHSSSSSTHHHHHHHHHHSTHHHHHHHHHHHHHHHSS-HHH
T ss_pred HHHHHccCCCCChhHhhhHHhhhcccccceeehhhhhhhHHHHHH
Confidence 455666777766666666 678998875 45566555554443
No 235
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=30.25 E-value=1.3e+02 Score=18.31 Aligned_cols=28 Identities=21% Similarity=0.417 Sum_probs=20.7
Q ss_pred CHHHHHHHhCC--------C------CHHHHHHHhhhhcCCC
Q psy15548 23 QWSRIASLLHR--------K------SAKQCKARWFEWLDPS 50 (108)
Q Consensus 23 ~W~~Ia~~~~~--------R------~~~qc~~rw~~~l~~~ 50 (108)
.|..||..|.. + ++.+|..-++..+.+.
T Consensus 61 ~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v~~p 102 (108)
T PF00674_consen 61 KWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLVLKP 102 (108)
T ss_pred cHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHhccc
Confidence 89999998861 2 3688888887765543
No 236
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=29.89 E-value=1.2e+02 Score=21.35 Aligned_cols=31 Identities=16% Similarity=0.199 Sum_probs=24.2
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|.+-.+||..+|-|...++.+....++...+
T Consensus 221 ~~t~~EIA~~lgis~~~V~~~~~ral~kLr~ 251 (257)
T PRK05911 221 ELVLKEIGKILGVSESRVSQIHSKALLKLRA 251 (257)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 4477889998999999998888777666544
No 237
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=29.55 E-value=1.2e+02 Score=20.90 Aligned_cols=44 Identities=16% Similarity=0.016 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 55 EWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 55 ~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
..|+.|-+.|.-+.. |..-.+||+.++-|...++.+..+++++.
T Consensus 155 ~Lt~rE~~Vl~l~~~--G~s~~eIA~~L~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKEILNKLRI--GASNNEIARSLFISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHHHHHHHHc--CCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Confidence 478877766554444 88889999988899999999888887765
No 238
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=28.98 E-value=1.9e+02 Score=20.86 Aligned_cols=45 Identities=11% Similarity=0.143 Sum_probs=28.8
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhh---cCCCCcccCCCHHHHHHHHHHH
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEW---LDPSIKKTEWSREEDEKLLHLA 68 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~---l~~~~~~~~Wt~eEd~~L~~~v 68 (108)
+-.+||+.++ .+...|+.+.++- |.........++++...|++.+
T Consensus 136 s~~EIA~~Lg-is~~tVr~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~f 183 (290)
T PRK09635 136 PYQQIATTIG-SQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAF 183 (290)
T ss_pred CHHHHHHHHC-cCHHHHHHHHHHHHHHHHhhCCCCCCChHHHHHHHHHH
Confidence 8899999995 7898898876543 3322222235666666666543
No 239
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=28.82 E-value=1.1e+02 Score=21.48 Aligned_cols=30 Identities=13% Similarity=0.059 Sum_probs=23.5
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.+....+++..
T Consensus 219 ~~s~~eIA~~lgvs~~~V~~~~~ra~~kLr 248 (256)
T PRK07408 219 DLTQKEAAERLGISPVTVSRRVKKGLDQLK 248 (256)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 447788999899999999888777666554
No 240
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.68 E-value=1.6e+02 Score=18.67 Aligned_cols=63 Identities=16% Similarity=0.079 Sum_probs=41.5
Q ss_pred CCCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhC
Q psy15548 2 LKTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLM 71 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~ 71 (108)
++|.+|.-..|.+-+..-+.. -=.+|++.+| +|+..++.-+-..-. .-|.|+-..|++.+.+|
T Consensus 46 akldpe~a~e~veEL~~i~~~~e~~avkIadI~P-~t~~ElRsIla~e~~------~~s~E~l~~Ildiv~Ky 111 (114)
T COG1460 46 AKLDPEKARELVEELLSIVKMSEKIAVKIADIMP-RTPDELRSILAKERV------MLSDEELDKILDIVDKY 111 (114)
T ss_pred hcCCHHHHHHHHHHHHhhccccHHHHHHHHHhCC-CCHHHHHHHHHHccC------CCCHHHHHHHHHHHHHH
Confidence 466676666665433333321 2467788888 799888886654222 33899999999999876
No 241
>PF03786 UxuA: D-mannonate dehydratase (UxuA); InterPro: IPR004628 This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.; GO: 0008927 mannonate dehydratase activity, 0006064 glucuronate catabolic process; PDB: 1TZ9_A 3FVM_A 3BDK_B 3BAN_B 3DBN_B.
Probab=28.64 E-value=1.7e+02 Score=22.17 Aligned_cols=54 Identities=15% Similarity=0.197 Sum_probs=32.4
Q ss_pred cccCCCHHHHHHHHHHHhhCCcchhcccccc-------CC-CHHHHHHHHHHHHhHHHhhhh
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAPII-------GR-TAAQCLERYEFLLYRARRKAV 105 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~-------gR-t~~q~~~r~~~~~~~~~~~~~ 105 (108)
....|+.++-..+.+.+..+|-.|+.|-.+| |. ....--+-|...++..-+-++
T Consensus 38 ~g~~W~~e~i~~~k~~ie~~GL~~~vIEsvpv~e~IklG~~~RD~~Ieny~~~Irnlg~~GI 99 (351)
T PF03786_consen 38 NGEVWDYEEIRALKERIEAAGLTLSVIESVPVHEDIKLGLPGRDEEIENYKQTIRNLGKAGI 99 (351)
T ss_dssp TTS---HHHHHHHHHHHHCTT-EEEEEES----HHHHCT-TTHHHHHHHHHHHHHHHHHTT-
T ss_pred CCCCCCHHHHHHHHHHHHHcCCeEEEEecCChHHHHhcCCCcHHHHHHHHHHHHHHHHhcCC
Confidence 3568999999999999999999998887632 32 223344556666665554444
No 242
>PRK15328 invasion protein IagB; Provisional
Probab=28.36 E-value=93 Score=20.72 Aligned_cols=35 Identities=14% Similarity=0.279 Sum_probs=21.8
Q ss_pred HHHHHHhhCCcchhcccc-cc--CCCHHHHHHHHHHHH
Q psy15548 63 KLLHLAKLMPTQWRTIAP-II--GRTAAQCLERYEFLL 97 (108)
Q Consensus 63 ~L~~~v~~~g~~W~~Ia~-~~--gRt~~q~~~r~~~~~ 97 (108)
.|..++..||..|..|+. -. ++.....+.+|..-+
T Consensus 98 ~L~~~~~~~g~~~~alaaYNaG~~~~~~~~~~~Y~~kV 135 (160)
T PRK15328 98 ILSDMMKIYGYSWEAVGAYNAGTSPKRSDIRKRYAKKI 135 (160)
T ss_pred HHHHHHHHcCChHHhhhhccCCCCCCCCHHHHHHHHHH
Confidence 345677889999999988 33 343334445554333
No 243
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=28.21 E-value=1.2e+02 Score=19.89 Aligned_cols=30 Identities=10% Similarity=-0.155 Sum_probs=21.5
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.|-...++...
T Consensus 147 g~s~~eIA~~lgis~~tV~~~l~ra~~~Lr 176 (184)
T PRK12539 147 GLSVAEAATRSGMSESAVKVSVHRGLKALA 176 (184)
T ss_pred CCcHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 446788888788888888887766555443
No 244
>PRK02866 cyanate hydratase; Validated
Probab=28.20 E-value=67 Score=21.26 Aligned_cols=33 Identities=27% Similarity=0.290 Sum_probs=25.4
Q ss_pred HHHHHHHhhCCcchhccccccCCCHHHHHHHHH
Q psy15548 62 EKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYE 94 (108)
Q Consensus 62 ~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~ 94 (108)
+.|+.+-.+-|-.|..||+..|+|...+..-..
T Consensus 8 e~Ll~AK~~kGLTw~~IA~~iG~S~v~vaaa~l 40 (147)
T PRK02866 8 EKILAAKKEKGLTWADIAEAIGLSEVWVTAALL 40 (147)
T ss_pred HHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHh
Confidence 356777778899999999977999887665443
No 245
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.02 E-value=1.5e+02 Score=18.03 Aligned_cols=42 Identities=17% Similarity=0.044 Sum_probs=31.3
Q ss_pred ccCCCHHHHHHHHHHHhhCCcchhccccccCC-CHHHHHHHHH
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQWRTIAPIIGR-TAAQCLERYE 94 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gR-t~~q~~~r~~ 94 (108)
+..||+|.-..+..++..-|.+=+.||+-.|- ++.++.....
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~gv~~~~~l~~W~~ 47 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREFGIVSATQLYKWRI 47 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHhCCCChHHHHHHHH
Confidence 45899999999999988888877778885664 6666554333
No 246
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=27.64 E-value=46 Score=20.77 Aligned_cols=26 Identities=35% Similarity=0.396 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHhCC
Q psy15548 8 VDEILKAAVMKYGKNQWSRIASLLHR 33 (108)
Q Consensus 8 Ed~~L~~~v~~~g~~~W~~Ia~~~~~ 33 (108)
|-+.|..+..-|+..+|..++.++|+
T Consensus 93 E~diLKKa~~~~~~~~~~~~~~~~~~ 118 (121)
T PRK09413 93 ENELLKEAVEYGRAKKWIAHAPLLPG 118 (121)
T ss_pred HHHHHHHHHHHhchhhhhhcCCCCCC
Confidence 44566666666777788888777764
No 247
>PRK03906 mannonate dehydratase; Provisional
Probab=27.64 E-value=1.1e+02 Score=23.50 Aligned_cols=30 Identities=13% Similarity=0.202 Sum_probs=26.5
Q ss_pred cccCCCHHHHHHHHHHHhhCCcchhccccc
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAPI 81 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~ 81 (108)
....||.++-..+.+.+..+|-.|+.|..+
T Consensus 36 ~g~~W~~~~i~~~~~~ie~~Gl~~~vvEs~ 65 (385)
T PRK03906 36 VGEVWPVEEILARKAEIEAAGLEWSVVESV 65 (385)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCeEEEEeCC
Confidence 346899999999999999999999998663
No 248
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=27.27 E-value=41 Score=21.78 Aligned_cols=29 Identities=14% Similarity=0.096 Sum_probs=21.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
|.+-.+||..+|-|...|+.+.....+..
T Consensus 136 g~s~~eIA~~lg~s~~tv~~~l~Rar~~L 164 (175)
T PRK12518 136 DLPQKEIAEILNIPVGTVKSRLFYARRQL 164 (175)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 34678899888989999988877655544
No 249
>PF04435 SPK: Domain of unknown function (DUF545) ; InterPro: IPR006570 SPK is a domain of unknown function found in SET and PHD domain containing proteins and protein kinases.
Probab=26.73 E-value=1.1e+02 Score=18.29 Aligned_cols=46 Identities=22% Similarity=0.398 Sum_probs=33.7
Q ss_pred CHHHHHHHhC-CCCHHHHHHHhhhhcCCCCc-ccCCCHHHHHHHHHHH
Q psy15548 23 QWSRIASLLH-RKSAKQCKARWFEWLDPSIK-KTEWSREEDEKLLHLA 68 (108)
Q Consensus 23 ~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~~~-~~~Wt~eEd~~L~~~v 68 (108)
-|.+..+..+ .++....+.|+...+.|.+. ...++.++-..|+-+.
T Consensus 24 l~~~f~~~~~~~~~~~~l~~~~~~~l~~~i~~~~~~d~~tk~~m~F~l 71 (109)
T PF04435_consen 24 LWEEFKKKSGSKRSPKSLRKRFRRKLAPNIHKLSDFDLETKAKMLFAL 71 (109)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Confidence 3666666665 58888889999888877766 6678887777766543
No 250
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=26.67 E-value=1.3e+02 Score=21.43 Aligned_cols=30 Identities=20% Similarity=0.124 Sum_probs=23.7
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||..+|-|...++.+....++...
T Consensus 231 ~~t~~EIA~~lgis~~~V~~~~~ral~kLr 260 (264)
T PRK07122 231 SMTQTQIAERVGISQMHVSRLLAKTLARLR 260 (264)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 457888999899999999888777766543
No 251
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=26.34 E-value=1.5e+02 Score=18.69 Aligned_cols=42 Identities=10% Similarity=0.135 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 59 EEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 59 eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
+||..++...-...++-+++++..|=|-..+|+|...++...
T Consensus 36 ~E~~~Fi~~Fi~~rGnlKe~e~~lgiSYPTvR~rLd~ii~~l 77 (113)
T PF09862_consen 36 PEQLEFIKLFIKNRGNLKEMEKELGISYPTVRNRLDKIIEKL 77 (113)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHCCCcHHHHHHHHHHHHHh
Confidence 455556666666677888999988888888999998887764
No 252
>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=26.32 E-value=2.4e+02 Score=20.05 Aligned_cols=45 Identities=33% Similarity=0.393 Sum_probs=29.2
Q ss_pred CHHHHHHHhCCCCHHHHHHHhhhh---cCCCCcccCCCHHHHHHHHHHH
Q psy15548 23 QWSRIASLLHRKSAKQCKARWFEW---LDPSIKKTEWSREEDEKLLHLA 68 (108)
Q Consensus 23 ~W~~Ia~~~~~R~~~qc~~rw~~~---l~~~~~~~~Wt~eEd~~L~~~v 68 (108)
.-.+||..++ .+...|+.+.++. |........-.+++...|++..
T Consensus 126 s~~EIA~~lg-~s~~tVr~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~f 173 (281)
T TIGR02957 126 PYEEIASIVG-KSEANCRQLVSRARRHLDARRPRFEVSREESRQLLERF 173 (281)
T ss_pred CHHHHHHHHC-CCHHHHHHHHHHHHHHHHhhCCCCCCChHHHHHHHHHH
Confidence 7899999995 8988888877553 3322222345666666666543
No 253
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=26.31 E-value=1.2e+02 Score=16.60 Aligned_cols=42 Identities=10% Similarity=0.023 Sum_probs=30.0
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL 47 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l 47 (108)
.||+|+-..++..+..-|. .-..||...+- ..+...+|...+
T Consensus 6 ~ys~e~K~~~v~~~~~~g~-sv~~va~~~gi--~~~~l~~W~~~~ 47 (76)
T PF01527_consen 6 RYSPEFKLQAVREYLESGE-SVSEVAREYGI--SPSTLYNWRKQY 47 (76)
T ss_dssp ---HHHHHHHHHHHHHHHC-HHHHHHHHHTS---HHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHCCC-ceEeeeccccc--ccccccHHHHHH
Confidence 5899999999999977675 89999998864 455556677655
No 254
>COG5352 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.31 E-value=1.7e+02 Score=19.42 Aligned_cols=41 Identities=22% Similarity=0.075 Sum_probs=30.4
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWF 44 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~ 44 (108)
|-||.|--+.|.++-.. |- +=++||..++|-+...+.-+-+
T Consensus 1 MnWtdERve~LkKLWse-GL-SASQIAaQLGGVsRnAVIGKVH 41 (169)
T COG5352 1 MNWTDERVETLKKLWSE-GL-SASQIAAQLGGVSRNAVIGKVH 41 (169)
T ss_pred CCchHHHHHHHHHHHHc-cc-CHHHHHHHhcCcchhhhheeee
Confidence 57999999999998866 43 6789999998755555544433
No 255
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]
Probab=25.88 E-value=1.3e+02 Score=19.63 Aligned_cols=30 Identities=20% Similarity=0.239 Sum_probs=23.8
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|-+-.+||.++|-+...|+.|-...+....
T Consensus 143 gls~~EIA~~l~i~~~tVks~l~ra~~~l~ 172 (182)
T COG1595 143 GLSYEEIAEILGISVGTVKSRLHRARKKLR 172 (182)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 457889999999999999988776665543
No 256
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=25.85 E-value=54 Score=22.22 Aligned_cols=26 Identities=27% Similarity=0.341 Sum_probs=22.8
Q ss_pred CcHHHHHHHHHHHHHhCCCCHHHHHH
Q psy15548 4 TMTIVDEILKAAVMKYGKNQWSRIAS 29 (108)
Q Consensus 4 Wt~eEd~~L~~~v~~~g~~~W~~Ia~ 29 (108)
|-..-|--|+.+|..||.+.|..|..
T Consensus 6 w~r~hdywll~gi~~hgy~rwqdi~n 31 (173)
T PF08074_consen 6 WHRRHDYWLLAGIVKHGYGRWQDIQN 31 (173)
T ss_pred hhhhhhHHHHhHHhhccchhHHHHhc
Confidence 66677889999999999999999974
No 257
>cd09235 V_Alix Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules. This family contains the middle V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X) and related domains. It belongs to the V_Alix_like superfamily which includes the V-domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), is part of the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in membrane remodeling processes, including the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), the abscission reactions of mammalian cell division, and in apoptosis. The Alix V-domain is a dimerization domain, and contains a binding site, partially conserved in the
Probab=25.54 E-value=90 Score=23.18 Aligned_cols=34 Identities=12% Similarity=0.221 Sum_probs=18.0
Q ss_pred hhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHh
Q psy15548 69 KLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 69 ~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
.+||..|..-+. ..+.+-.+=-.+|..++.....
T Consensus 111 ~k~g~~Wtr~pS~~~~~~l~~~~~kyr~~L~~A~~ 145 (339)
T cd09235 111 AQFKERWTRTPSNKLTKPLRAEGSKYRTILDNAVQ 145 (339)
T ss_pred HHhCCcCCCCChHHHhHHHHHHHHHHHHHHHHHHh
Confidence 567888876655 4443333333445555554443
No 258
>COG1312 UxuA D-mannonate dehydratase [Carbohydrate transport and metabolism]
Probab=25.31 E-value=1.2e+02 Score=23.06 Aligned_cols=31 Identities=16% Similarity=0.205 Sum_probs=27.1
Q ss_pred cccCCCHHHHHHHHHHHhhCCcchhcccccc
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAPII 82 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~ 82 (108)
....|..+|-.++.+.++.+|-.|+.|-.+|
T Consensus 36 ~g~~W~~~~I~~~k~~ie~~Gl~~~vvESvP 66 (362)
T COG1312 36 AGEVWPVEEILKRKEEIESAGLTWSVVESVP 66 (362)
T ss_pred CCCcCcHHHHHHHHHHHHHcCceEEeecCCC
Confidence 3568999999999999999999999887743
No 259
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=25.01 E-value=73 Score=17.63 Aligned_cols=19 Identities=26% Similarity=0.289 Sum_probs=15.2
Q ss_pred CCcccCCCHHHHHHHHHHH
Q psy15548 50 SIKKTEWSREEDEKLLHLA 68 (108)
Q Consensus 50 ~~~~~~Wt~eEd~~L~~~v 68 (108)
++..+--|+|||..+.++.
T Consensus 39 ~IC~~CitpEE~~~I~e~~ 57 (60)
T PF10892_consen 39 GICGDCITPEEDREILEAT 57 (60)
T ss_pred chhhccCCHHHHHHHHHHH
Confidence 3556789999999998875
No 260
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.95 E-value=1.8e+02 Score=18.00 Aligned_cols=54 Identities=24% Similarity=0.162 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHH
Q psy15548 8 VDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEK 63 (108)
Q Consensus 8 Ed~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~ 63 (108)
+.+.|...|+.++...=.++|..++- +...+ .+....+.-..++..+.+++|..
T Consensus 58 d~~~L~~~v~~~pd~tl~Ela~~l~V-s~~ti-~~~Lkrlg~t~KK~~~~~~~~~~ 111 (119)
T PF01710_consen 58 DRDELKALVEENPDATLRELAERLGV-SPSTI-WRALKRLGITRKKKTLHSEKDRE 111 (119)
T ss_pred cHHHHHHHHHHCCCcCHHHHHHHcCC-CHHHH-HHHHHHcCchhccCcccchhHHH
Confidence 45679999999998778899998862 33333 34444455556677776655543
No 261
>TIGR00673 cynS cyanate hydratase. Alternate names include cyanate lyase, cyanase and cyanate hydrolase.
Probab=24.71 E-value=71 Score=21.22 Aligned_cols=30 Identities=20% Similarity=0.150 Sum_probs=23.5
Q ss_pred HHHHHHHhhCCcchhccccccCCCHHHHHH
Q psy15548 62 EKLLHLAKLMPTQWRTIAPIIGRTAAQCLE 91 (108)
Q Consensus 62 ~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~ 91 (108)
+.|+.+=..-|-.|..||+..|+|..-+..
T Consensus 11 ~~Ll~AK~~KGLTwe~IAe~iG~sevwvaa 40 (150)
T TIGR00673 11 DALLESKKKKGLTFADIADGLGLAEVFVAA 40 (150)
T ss_pred HHHHHHHHHcCCCHHHHHHHHCCCHHHHHH
Confidence 456677677889999999988888876544
No 262
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=24.45 E-value=1.2e+02 Score=15.73 Aligned_cols=46 Identities=20% Similarity=0.216 Sum_probs=33.4
Q ss_pred cccCCCHHHHHHHHHHHhhCCc----chhccccccCCCHHHHHHHHHHHH
Q psy15548 52 KKTEWSREEDEKLLHLAKLMPT----QWRTIAPIIGRTAAQCLERYEFLL 97 (108)
Q Consensus 52 ~~~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~~~gRt~~q~~~r~~~~~ 97 (108)
.+..+|++.-..|.......+. .-..||...|=+..+|..-|.+--
T Consensus 3 ~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR 52 (57)
T PF00046_consen 3 KRTRFTKEQLKVLEEYFQENPYPSKEEREELAKELGLTERQVKNWFQNRR 52 (57)
T ss_dssp SSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHTSSHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHhccccccccccccccccccccccccCHHHhH
Confidence 3567899999999988876442 345566657999999988776543
No 263
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=24.44 E-value=1.6e+02 Score=20.55 Aligned_cols=30 Identities=3% Similarity=-0.054 Sum_probs=23.1
Q ss_pred CCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
.|.+..+||..+|=|...++.+....++..
T Consensus 220 ~g~s~~eIA~~l~is~~tV~~~~~ra~~kL 249 (257)
T PRK08583 220 ENLSQKETGERLGISQMHVSRLQRQAIKKL 249 (257)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 355788999988988888888777666554
No 264
>KOG3841|consensus
Probab=24.37 E-value=1.6e+02 Score=22.84 Aligned_cols=44 Identities=14% Similarity=0.095 Sum_probs=35.1
Q ss_pred CCCcHHHHHHHHHHHHHhCC---------------CCHHHHHHHhC-----CCCHHHHHHHhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGK---------------NQWSRIASLLH-----RKSAKQCKARWFE 45 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~---------------~~W~~Ia~~~~-----~R~~~qc~~rw~~ 45 (108)
..|+++=|+.+.++...|+. |.=..||.++. +||..|+..|-+-
T Consensus 77 gvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQV 140 (455)
T KOG3841|consen 77 GVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQV 140 (455)
T ss_pred cccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHH
Confidence 47999999999999999854 35678888776 6888888887643
No 265
>KOG1878|consensus
Probab=23.91 E-value=39 Score=30.37 Aligned_cols=40 Identities=25% Similarity=0.328 Sum_probs=29.5
Q ss_pred CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHh
Q psy15548 3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW 43 (108)
Q Consensus 3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw 43 (108)
.|+++|.+....=...+.. +...|+.++-.++..+|.--|
T Consensus 227 ~Ws~~Ek~~fk~rf~~H~k-nf~~~as~~erkSv~d~vlfy 266 (1672)
T KOG1878|consen 227 EWSPEEKELFKSRFAQHVK-NFGLIASFFERKSVSDCVLFY 266 (1672)
T ss_pred hccccccccccchhhhcCc-chhhhhhhhcccchhhceeee
Confidence 6899997776666666664 777799998777777776544
No 266
>KOG3200|consensus
Probab=23.88 E-value=96 Score=21.48 Aligned_cols=25 Identities=8% Similarity=0.236 Sum_probs=19.6
Q ss_pred cHHHHHHHHHHHHHhCCCCHHHHHH
Q psy15548 5 MTIVDEILKAAVMKYGKNQWSRIAS 29 (108)
Q Consensus 5 t~eEd~~L~~~v~~~g~~~W~~Ia~ 29 (108)
|.||+.+++..++.-+.-.|...+.
T Consensus 22 t~EEe~~~lshIe~ap~pkW~~L~N 46 (224)
T KOG3200|consen 22 TEEEENLYLSHIENAPQPKWRVLAN 46 (224)
T ss_pred ChHHHHHHHHHHhcCCCchhHHHHh
Confidence 6788888888887766668998874
No 267
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=23.79 E-value=75 Score=24.42 Aligned_cols=18 Identities=6% Similarity=-0.088 Sum_probs=17.0
Q ss_pred CcHHHHHHHHHHHHHhCC
Q psy15548 4 TMTIVDEILKAAVMKYGK 21 (108)
Q Consensus 4 Wt~eEd~~L~~~v~~~g~ 21 (108)
||+||=..|.+++.+||.
T Consensus 175 wt~eeL~~i~elc~kh~v 192 (388)
T COG1168 175 WTKEELRKIAELCLRHGV 192 (388)
T ss_pred ccHHHHHHHHHHHHHcCC
Confidence 999999999999999975
No 268
>KOG4771|consensus
Probab=23.60 E-value=1.9e+02 Score=19.95 Aligned_cols=43 Identities=19% Similarity=0.075 Sum_probs=27.5
Q ss_pred CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC----CCCHHHHHHHhhh
Q psy15548 2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH----RKSAKQCKARWFE 45 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~----~R~~~qc~~rw~~ 45 (108)
++-++-|.+-|.++|++||. +....+.-.. ..+....+.++.+
T Consensus 154 l~~s~rehewi~rL~~KhGd-D~e~M~~D~KLNs~q~s~~~Lk~l~~R 200 (210)
T KOG4771|consen 154 LTTSQREHEWIRRLVEKHGD-DIEGMYRDRKLNSMQHSVATLKKLCTR 200 (210)
T ss_pred cchHHHHHHHHHHHHHHhch-hHHHHHHhhhhhHHhhhHHHHHHHHHH
Confidence 35567788889999999995 7766654221 2344445544444
No 269
>PF15586 Imm47: Immunity protein 47
Probab=23.57 E-value=1.2e+02 Score=19.07 Aligned_cols=23 Identities=17% Similarity=0.414 Sum_probs=15.9
Q ss_pred HHHHHHHHHhCCCCHHHHHHHhC
Q psy15548 10 EILKAAVMKYGKNQWSRIASLLH 32 (108)
Q Consensus 10 ~~L~~~v~~~g~~~W~~Ia~~~~ 32 (108)
..|.+.++.....+|.+||..+.
T Consensus 83 ~~i~~~i~~c~~~~W~~~~~kLs 105 (116)
T PF15586_consen 83 KTIERIIESCEGDDWDEIAEKLS 105 (116)
T ss_pred HHHHHHHHHccCCCHHHHHHHHH
Confidence 34556666666569999998774
No 270
>cd09238 V_Alix_like_1 Protein-interacting V-domain of an uncharacterized family of the V_Alix_like superfamily. This domain family is comprised of uncharacterized plant proteins. It belongs to the V_Alix_like superfamily which includes the V-shaped (V) domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X), (His-Domain) type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. Alix, HD-PTP, Bro1, a
Probab=23.29 E-value=1.1e+02 Score=22.78 Aligned_cols=34 Identities=18% Similarity=0.257 Sum_probs=17.5
Q ss_pred hhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHh
Q psy15548 69 KLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 69 ~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
.+||.+|+.-+. -.+.+-.+=-.+|..++.....
T Consensus 114 ~kyg~rWtr~pS~~~~~~l~~~i~~~r~~L~~A~~ 148 (339)
T cd09238 114 TQYGTAWTRPPSATLTKNLWERLNRFRVNLEQAGD 148 (339)
T ss_pred HHhCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578888876554 3333333333444444444433
No 271
>KOG3493|consensus
Probab=22.64 E-value=1.2e+02 Score=17.39 Aligned_cols=28 Identities=18% Similarity=0.342 Sum_probs=22.3
Q ss_pred HHHHHHhCCCCHHHHHHHhhhhcCCCCc
Q psy15548 25 SRIASLLHRKSAKQCKARWFEWLDPSIK 52 (108)
Q Consensus 25 ~~Ia~~~~~R~~~qc~~rw~~~l~~~~~ 52 (108)
+.||...+++....+-.+|..++...+.
T Consensus 29 KliaaQtGT~~~kivl~k~~~i~kd~I~ 56 (73)
T KOG3493|consen 29 KLIAAQTGTRPEKIVLKKWYTIFKDHIT 56 (73)
T ss_pred HHHHHhhCCChhHhHHHhhhhhhhcccc
Confidence 4577888889999999999998876543
No 272
>KOG3622|consensus
Probab=22.17 E-value=2.3e+02 Score=25.19 Aligned_cols=93 Identities=15% Similarity=0.294 Sum_probs=63.1
Q ss_pred HHHHHHHhCCCCHHHHHHHhC---CCCHHHHHHHhhhhcCCCCcccCCCH-----HHHHHHHHHHhh-----CCcchhcc
Q psy15548 12 LKAAVMKYGKNQWSRIASLLH---RKSAKQCKARWFEWLDPSIKKTEWSR-----EEDEKLLHLAKL-----MPTQWRTI 78 (108)
Q Consensus 12 L~~~v~~~g~~~W~~Ia~~~~---~R~~~qc~~rw~~~l~~~~~~~~Wt~-----eEd~~L~~~v~~-----~g~~W~~I 78 (108)
|-.+...|..-..++.++.++ ..|-.-+.+.|..+.+.++.+.+-.- |=|+.++.++.- .=+-|--+
T Consensus 573 l~~GL~Tyn~~rYkqf~KriG~~~rhTl~yv~d~w~l~~~~nLa~~~e~~eklQvE~d~l~lrA~~y~~~~~~LG~wqf~ 652 (1572)
T KOG3622|consen 573 LDNGLTTYNQPRYKQFCKRIGISLRHTLRYVCDNWRLIRDQNLARPGEEHEKLQVEVDRLVLRALNYLIHQDTLGLWQFV 652 (1572)
T ss_pred HHhhhhhcccHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhh
Confidence 334444555556777777776 45777888999988887766654332 335555555421 12579999
Q ss_pred cccc-CCCHHHHHHHHHHHHhHHHhhh
Q psy15548 79 APII-GRTAAQCLERYEFLLYRARRKA 104 (108)
Q Consensus 79 a~~~-gRt~~q~~~r~~~~~~~~~~~~ 104 (108)
+.+| |--..+|+-|-.++++...++.
T Consensus 653 sslPfgtls~e~~w~lfY~l~~~l~~~ 679 (1572)
T KOG3622|consen 653 SSLPFGTLSEECRWRLFYALRSNLKKM 679 (1572)
T ss_pred hcCCcccccHHHHHHHHHHHHccchhh
Confidence 9976 8888999999999998875543
No 273
>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=22.00 E-value=2.1e+02 Score=19.76 Aligned_cols=30 Identities=13% Similarity=0.176 Sum_probs=23.3
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
|.+-.+||+.+|-|...++.+....++...
T Consensus 198 g~s~~EIA~~Lgis~~tV~~~l~ra~~~LR 227 (234)
T TIGR02835 198 EKTQKEVADMLGISQSYISRLEKRILKRLK 227 (234)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 458889999999999999888766655543
No 274
>smart00583 SPK domain in SET and PHD domain containing proteins and protein kinases.
Probab=21.85 E-value=2.1e+02 Score=17.79 Aligned_cols=45 Identities=20% Similarity=0.274 Sum_probs=33.7
Q ss_pred HHHHHHHhC--CCCHHHHHHHhhhhcCCCCcc-cCCCHHHHHHHHHHH
Q psy15548 24 WSRIASLLH--RKSAKQCKARWFEWLDPSIKK-TEWSREEDEKLLHLA 68 (108)
Q Consensus 24 W~~Ia~~~~--~R~~~qc~~rw~~~l~~~~~~-~~Wt~eEd~~L~~~v 68 (108)
+...+..-+ .++....+.|++..|.|.+.. ..++.++-.+|+-+.
T Consensus 27 ~~~F~~~~~~~~~s~~~~~~rf~~~Lap~i~~~~~y~~~~kirm~Fal 74 (114)
T smart00583 27 FEEFSKLEGNSLLSYETYYKRFHNKLAPNMIKLNNYSIEERIRMMFAL 74 (114)
T ss_pred HHHHHHhccCCcccHHHHHHHHHHHHHhhHhhccCCCHHHHHHHHHhc
Confidence 444555543 568888999999999998777 688888888777654
No 275
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=21.63 E-value=62 Score=18.04 Aligned_cols=17 Identities=35% Similarity=0.751 Sum_probs=11.2
Q ss_pred HHhhCCcchhccccccC
Q psy15548 67 LAKLMPTQWRTIAPIIG 83 (108)
Q Consensus 67 ~v~~~g~~W~~Ia~~~g 83 (108)
+....|.+|..+|...|
T Consensus 5 ia~~lg~~W~~la~~Lg 21 (79)
T cd01670 5 LAKKLGKDWKKLARKLG 21 (79)
T ss_pred HHHHHhhHHHHHHHHhC
Confidence 44556788888887434
No 276
>PRK09191 two-component response regulator; Provisional
Probab=21.30 E-value=1.6e+02 Score=20.07 Aligned_cols=31 Identities=16% Similarity=0.010 Sum_probs=23.0
Q ss_pred hCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548 70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100 (108)
Q Consensus 70 ~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~ 100 (108)
..|-+..+||..+|.|...++.|-...++..
T Consensus 102 ~~~~s~~eIA~~l~~s~~tV~~~l~ra~~~l 132 (261)
T PRK09191 102 LEGFSVEEAAEILGVDPAEAEALLDDARAEI 132 (261)
T ss_pred HhcCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 3456788999999999888888766555443
No 277
>PRK09640 RNA polymerase sigma factor SigX; Reviewed
Probab=21.29 E-value=58 Score=21.49 Aligned_cols=29 Identities=24% Similarity=0.291 Sum_probs=21.8
Q ss_pred cchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548 73 TQWRTIAPIIGRTAAQCLERYEFLLYRAR 101 (108)
Q Consensus 73 ~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~ 101 (108)
.+..+||..+|=|...++.+....++...
T Consensus 151 ~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 179 (188)
T PRK09640 151 LEFQEIADIMHMGLSATKMRYKRALDKLR 179 (188)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 47788999888888888888766555443
No 278
>PRK12517 RNA polymerase sigma factor; Provisional
Probab=21.26 E-value=2e+02 Score=19.02 Aligned_cols=28 Identities=14% Similarity=0.004 Sum_probs=19.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhH
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYR 99 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~ 99 (108)
|-+-.+||..+|-|...|+.+.....+.
T Consensus 144 g~s~~EIA~~lgis~~tV~~~l~Rar~~ 171 (188)
T PRK12517 144 GFSGEEIAEILDLNKNTVMTRLFRARNQ 171 (188)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 3467888888888888887775544433
No 279
>KOG0819|consensus
Probab=21.23 E-value=3.7e+02 Score=20.25 Aligned_cols=102 Identities=20% Similarity=0.226 Sum_probs=63.3
Q ss_pred CCcHHHH-HHHHHHHHHhCCCCHHHHHHHhCCCCHHH---HHHHhhhhcCCCCcc-------c-------CCC---HHHH
Q psy15548 3 KTMTIVD-EILKAAVMKYGKNQWSRIASLLHRKSAKQ---CKARWFEWLDPSIKK-------T-------EWS---REED 61 (108)
Q Consensus 3 ~Wt~eEd-~~L~~~v~~~g~~~W~~Ia~~~~~R~~~q---c~~rw~~~l~~~~~~-------~-------~Wt---~eEd 61 (108)
.|.+.+| +.|..++.-+|. +=..|-..+.+|+..| ++.-|......++-. | .|. ++=|
T Consensus 15 ~f~p~~DAe~L~kA~kG~Gt-de~aII~iL~~Rsn~QRq~I~~ayk~~ygkDLi~~Lk~ELsG~Fe~~i~al~~~p~~~D 93 (321)
T KOG0819|consen 15 VFDPVQDAEQLRKAMKGFGT-DEQAIIDILTHRSNAQRQLIRAAYKTMYGKDLIKDLKSELSGDFERAIVALMKPPAEYD 93 (321)
T ss_pred CCChHHHHHHHHHHHhcCCC-CHHHHHHHHHccCHHHHHHHHHHHHHHHhHHHHHHHHHHhCccHHHHHHHHcCCHHHhH
Confidence 4666666 567788888897 7778888888898754 455554433222110 1 111 2333
Q ss_pred H-HHHHHHhhCCcchhcccc-ccCCCHHHH---HHHHHHHHhHHHhhhh
Q psy15548 62 E-KLLHLAKLMPTQWRTIAP-IIGRTAAQC---LERYEFLLYRARRKAV 105 (108)
Q Consensus 62 ~-~L~~~v~~~g~~W~~Ia~-~~gRt~~q~---~~r~~~~~~~~~~~~~ 105 (108)
. .|..+++-.|.+=..+-+ +-.||+.|+ +.-|....++.+..++
T Consensus 94 A~~l~~amkg~gtde~vlIEIlcTRT~~el~~i~~aY~~~y~~sLEeDI 142 (321)
T KOG0819|consen 94 AKELKKAMKGLGTDEKVLIEILCTRTNEELRAIRQAYQELYKKSLEEDI 142 (321)
T ss_pred HHHHHHHHhccCcchhhheeeeccCCHHHHHHHHHHHHHHHcccHHHHh
Confidence 3 445566777766555666 678999876 4567777777666554
No 280
>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=20.87 E-value=2e+02 Score=20.02 Aligned_cols=31 Identities=3% Similarity=0.005 Sum_probs=23.6
Q ss_pred CcchhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548 72 PTQWRTIAPIIGRTAAQCLERYEFLLYRARR 102 (108)
Q Consensus 72 g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~ 102 (108)
|.+-.+||...|-|...++.+....++....
T Consensus 221 g~s~~eIA~~lgis~~~V~~~~~ra~~~Lr~ 251 (255)
T TIGR02941 221 NLSQKETGERLGISQMHVSRLQRQAISKLKE 251 (255)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 4467889998899999998887766665543
No 281
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=20.80 E-value=98 Score=15.62 Aligned_cols=19 Identities=21% Similarity=0.216 Sum_probs=14.4
Q ss_pred CCCcccCCCHHHHHHHHHH
Q psy15548 49 PSIKKTEWSREEDEKLLHL 67 (108)
Q Consensus 49 ~~~~~~~Wt~eEd~~L~~~ 67 (108)
.+...||+|.+|-..|+..
T Consensus 7 ~g~~~GP~s~~el~~l~~~ 25 (45)
T PF14237_consen 7 NGQQQGPFSLEELRQLISS 25 (45)
T ss_pred CCeEECCcCHHHHHHHHHc
Confidence 4567799999998777653
No 282
>PRK13291 metal-dependent hydrolase; Provisional
Probab=20.50 E-value=2.1e+02 Score=19.00 Aligned_cols=20 Identities=5% Similarity=-0.203 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHHHHHhCC
Q psy15548 2 LKTMTIVDEILKAAVMKYGK 21 (108)
Q Consensus 2 ~~Wt~eEd~~L~~~v~~~g~ 21 (108)
.++|.++-+-+++.++....
T Consensus 15 ~~~~~~~~~~~i~~l~~~~~ 34 (173)
T PRK13291 15 EEITEEQIQEWIAEIEALPN 34 (173)
T ss_pred CCCCHHHHHHHHHHHHHHHH
Confidence 47888888888887777543
No 283
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=20.46 E-value=1.6e+02 Score=23.80 Aligned_cols=35 Identities=20% Similarity=0.207 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhhCCcchhccccccCCCHHHHHHHH
Q psy15548 59 EEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERY 93 (108)
Q Consensus 59 eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~ 93 (108)
.|-+.|.+++.+.|.+|..-|+..|-++.++-.+-
T Consensus 506 ~eR~~I~~aL~~~~~~~a~AAr~LGl~~~~L~~~~ 540 (550)
T COG3604 506 FERQLIIAALEETNGNWAGAARRLGLTRRTLLYRM 540 (550)
T ss_pred HHHHHHHHHHHHhCCcHHHHHHHhCCCHHHHHHHH
Confidence 34556778889999999997779998888876554
No 284
>TIGR00695 uxuA mannonate dehydratase. This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.
Probab=20.17 E-value=1.8e+02 Score=22.46 Aligned_cols=53 Identities=17% Similarity=0.325 Sum_probs=36.1
Q ss_pred ccCCCHHHHHHHHHHHhhCCcchhcccccc-------CC-CHHHHHHHHHHHHhHHHhhhh
Q psy15548 53 KTEWSREEDEKLLHLAKLMPTQWRTIAPII-------GR-TAAQCLERYEFLLYRARRKAV 105 (108)
Q Consensus 53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~-------gR-t~~q~~~r~~~~~~~~~~~~~ 105 (108)
...||.++-..+.+.+..+|-.|+.|..+| |. ...+--..|...++..-+-++
T Consensus 37 gevW~~~~i~~~k~~ie~~GL~~~vvEs~pv~e~Ik~g~~~rd~~Ienyk~~irNla~~GI 97 (394)
T TIGR00695 37 GEVWEKEEIRKRKEYIESAGLHWSVVESVPVHEAIKTGTGNYGRWIENYKQTLRNLAQCGI 97 (394)
T ss_pred CCCCCHHHHHHHHHHHHHcCCeEEEEeCCCccHHHHcCCCcHHHHHHHHHHHHHHHHHcCC
Confidence 468999999999999999999999886532 21 222333445556555544443
No 285
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=20.06 E-value=2e+02 Score=17.04 Aligned_cols=30 Identities=17% Similarity=0.319 Sum_probs=24.7
Q ss_pred chhccccccCCCHHHHHHHHHHHHhHHHhh
Q psy15548 74 QWRTIAPIIGRTAAQCLERYEFLLYRARRK 103 (108)
Q Consensus 74 ~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~ 103 (108)
+|..-+.+.|+|..+.+..|..++.....+
T Consensus 55 K~eAW~~LKGksqedA~qeYialVeeLkak 84 (87)
T COG4281 55 KYEAWAGLKGKSQEDARQEYIALVEELKAK 84 (87)
T ss_pred hHHHHhhccCccHHHHHHHHHHHHHHHHhh
Confidence 577777788999999999999988776554
No 286
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=20.04 E-value=1.6e+02 Score=17.07 Aligned_cols=28 Identities=18% Similarity=0.025 Sum_probs=23.1
Q ss_pred hCCcchhccccccCCCHHHHHHHHHHHH
Q psy15548 70 LMPTQWRTIAPIIGRTAAQCLERYEFLL 97 (108)
Q Consensus 70 ~~g~~W~~Ia~~~gRt~~q~~~r~~~~~ 97 (108)
..|-+..+||+.+|-|...|+.+.....
T Consensus 30 ~eGlS~kEIAe~LGIS~~TVk~~l~~~~ 57 (73)
T TIGR03879 30 EAGKTASEIAEELGRTEQTVRNHLKGET 57 (73)
T ss_pred HcCCCHHHHHHHHCcCHHHHHHHHhcCc
Confidence 3677899999999999999998876543
Done!