Query 036344
Match_columns 354
No_of_seqs 202 out of 1393
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 11:44:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036344.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036344hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 5.9E-37 1.3E-41 306.4 10.8 117 1-118 1-117 (459)
2 PLN03212 Transcription repress 100.0 2.1E-36 4.5E-41 284.5 9.4 116 3-119 14-129 (249)
3 KOG0048 Transcription factor, 100.0 9E-36 1.9E-40 279.2 10.5 110 10-120 5-114 (238)
4 KOG0049 Transcription factor, 99.7 7.4E-18 1.6E-22 175.0 6.0 104 1-106 347-451 (939)
5 KOG0049 Transcription factor, 99.6 1.9E-16 4.1E-21 164.6 7.0 115 7-122 246-415 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 3.3E-16 7.2E-21 116.9 2.6 60 17-79 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 8.4E-15 1.8E-19 150.9 5.6 106 10-117 16-121 (512)
8 KOG0050 mRNA splicing protein 99.4 7.4E-14 1.6E-18 142.7 2.0 102 12-116 5-106 (617)
9 KOG0051 RNA polymerase I termi 99.4 2.4E-13 5.1E-18 141.9 5.3 102 13-118 383-512 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.4 1.1E-12 2.3E-17 94.7 5.5 46 68-113 1-48 (48)
11 PF13921 Myb_DNA-bind_6: Myb-l 99.3 3.7E-12 7.9E-17 95.1 6.1 56 71-126 1-56 (60)
12 PF00249 Myb_DNA-binding: Myb- 99.3 4.5E-13 9.7E-18 96.6 -0.3 48 14-62 1-48 (48)
13 smart00717 SANT SANT SWI3, AD 99.2 3.5E-11 7.7E-16 83.5 6.1 47 68-114 1-48 (49)
14 PLN03212 Transcription repress 99.2 3.6E-11 7.7E-16 114.3 7.3 63 64-126 21-85 (249)
15 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 3.1E-10 6.7E-15 77.7 6.0 44 70-113 1-45 (45)
16 KOG0048 Transcription factor, 99.1 1.2E-10 2.7E-15 109.6 5.2 64 64-127 5-70 (238)
17 PLN03091 hypothetical protein; 99.0 4.7E-10 1E-14 113.9 6.1 64 64-127 10-75 (459)
18 smart00717 SANT SANT SWI3, AD 98.9 4.2E-10 9E-15 78.0 1.4 48 14-63 1-48 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 2.3E-09 5E-14 73.4 1.2 45 16-62 1-45 (45)
20 KOG0051 RNA polymerase I termi 98.7 2.6E-08 5.6E-13 104.7 5.7 113 12-128 306-445 (607)
21 COG5147 REB1 Myb superfamily p 98.3 5.4E-08 1.2E-12 101.1 -2.4 98 13-114 290-397 (512)
22 TIGR02894 DNA_bind_RsfA transc 97.5 0.00014 3E-09 65.8 5.5 53 66-119 2-61 (161)
23 TIGR01557 myb_SHAQKYF myb-like 97.3 0.00059 1.3E-08 51.8 6.1 46 68-113 3-54 (57)
24 KOG0457 Histone acetyltransfer 97.2 0.00057 1.2E-08 70.0 6.4 51 65-115 69-120 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.2 0.00013 2.9E-09 55.3 1.4 49 13-62 2-54 (57)
26 KOG0050 mRNA splicing protein 97.2 0.00044 9.5E-09 72.2 4.7 61 66-126 5-66 (617)
27 KOG0457 Histone acetyltransfer 97.1 0.00018 3.8E-09 73.6 1.0 89 12-102 70-180 (438)
28 PF13325 MCRS_N: N-terminal re 97.0 0.00084 1.8E-08 62.8 5.1 101 16-119 1-132 (199)
29 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00068 1.5E-08 53.6 3.5 48 69-116 2-67 (90)
30 KOG1279 Chromatin remodeling f 96.6 0.0027 5.8E-08 66.7 5.4 46 67-112 252-297 (506)
31 COG5259 RSC8 RSC chromatin rem 96.5 0.0029 6.2E-08 65.6 4.9 45 68-112 279-323 (531)
32 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0041 9E-08 48.4 4.7 50 68-117 2-61 (65)
33 PRK13923 putative spore coat p 96.5 0.0042 9.1E-08 56.9 5.1 52 66-118 3-61 (170)
34 KOG1279 Chromatin remodeling f 95.8 0.0036 7.9E-08 65.7 1.3 48 11-61 250-297 (506)
35 COG5259 RSC8 RSC chromatin rem 95.8 0.0029 6.4E-08 65.5 0.5 46 13-61 278-323 (531)
36 PF13873 Myb_DNA-bind_5: Myb/S 95.4 0.031 6.7E-07 43.5 5.1 48 68-115 2-71 (78)
37 PF13837 Myb_DNA-bind_4: Myb/S 95.3 0.0024 5.1E-08 50.5 -1.6 48 15-62 2-64 (90)
38 PF08914 Myb_DNA-bind_2: Rap1 95.3 0.0036 7.8E-08 48.8 -0.6 53 14-66 2-61 (65)
39 TIGR02894 DNA_bind_RsfA transc 94.9 0.0077 1.7E-07 54.7 0.2 51 12-64 2-57 (161)
40 COG5114 Histone acetyltransfer 94.0 0.07 1.5E-06 53.5 4.5 49 66-114 61-110 (432)
41 PLN03142 Probable chromatin-re 92.8 0.28 6.2E-06 55.8 7.5 100 15-116 825-987 (1033)
42 KOG4282 Transcription factor G 92.7 0.22 4.7E-06 49.3 5.8 49 68-116 54-116 (345)
43 PF12776 Myb_DNA-bind_3: Myb/S 92.5 0.35 7.7E-06 38.5 5.8 46 70-115 1-64 (96)
44 PRK13923 putative spore coat p 92.5 0.025 5.3E-07 51.9 -1.0 51 12-64 3-58 (170)
45 COG5114 Histone acetyltransfer 92.5 0.032 7E-07 55.8 -0.4 48 14-63 63-110 (432)
46 PF13873 Myb_DNA-bind_5: Myb/S 91.4 0.033 7.1E-07 43.4 -1.3 50 13-62 1-69 (78)
47 PF09111 SLIDE: SLIDE; InterP 90.9 0.48 1E-05 41.0 5.1 52 65-116 46-113 (118)
48 KOG2656 DNA methyltransferase 90.8 0.15 3.2E-06 52.3 2.2 52 68-119 130-187 (445)
49 COG5118 BDP1 Transcription ini 89.3 0.59 1.3E-05 48.0 5.1 45 69-113 366-410 (507)
50 PF08281 Sigma70_r4_2: Sigma-7 86.1 2.1 4.6E-05 30.7 5.2 42 73-115 12-53 (54)
51 KOG4167 Predicted DNA-binding 84.6 7.3 0.00016 43.3 10.3 55 57-111 605-662 (907)
52 KOG4282 Transcription factor G 78.2 0.65 1.4E-05 46.0 -0.1 47 15-61 55-112 (345)
53 KOG1194 Predicted DNA-binding 77.4 5.3 0.00011 42.1 6.1 48 68-115 187-234 (534)
54 COG5118 BDP1 Transcription ini 75.6 1.2 2.7E-05 45.7 1.0 45 13-60 364-408 (507)
55 PRK11179 DNA-binding transcrip 69.9 8.9 0.00019 33.6 5.0 46 73-119 8-54 (153)
56 PF11626 Rap1_C: TRF2-interact 68.5 4.9 0.00011 32.5 2.8 23 12-34 45-75 (87)
57 PF13404 HTH_AsnC-type: AsnC-t 67.2 13 0.00029 26.3 4.5 38 74-112 3-41 (42)
58 PF07750 GcrA: GcrA cell cycle 65.8 8 0.00017 35.1 3.9 42 70-112 2-43 (162)
59 PF04545 Sigma70_r4: Sigma-70, 65.7 17 0.00037 25.8 4.9 41 74-115 7-47 (50)
60 TIGR02985 Sig70_bacteroi1 RNA 65.1 16 0.00035 30.6 5.4 38 77-115 119-156 (161)
61 PRK11169 leucine-responsive tr 64.4 11 0.00024 33.5 4.4 46 73-119 13-59 (164)
62 smart00595 MADF subfamily of S 63.9 11 0.00024 29.5 4.0 26 89-115 29-54 (89)
63 KOG4167 Predicted DNA-binding 63.0 5.8 0.00012 44.0 2.8 44 14-60 619-662 (907)
64 PF09111 SLIDE: SLIDE; InterP 58.4 5.6 0.00012 34.4 1.5 36 10-45 45-82 (118)
65 KOG4468 Polycomb-group transcr 56.0 17 0.00037 39.7 4.8 48 68-115 88-145 (782)
66 PF13325 MCRS_N: N-terminal re 55.8 24 0.00052 33.4 5.3 49 70-119 1-52 (199)
67 PF11035 SnAPC_2_like: Small n 55.6 41 0.00089 34.2 7.1 49 68-116 21-73 (344)
68 PF04504 DUF573: Protein of un 55.2 23 0.00049 29.5 4.5 47 69-115 5-64 (98)
69 KOG2009 Transcription initiati 50.6 15 0.00033 39.7 3.5 45 67-111 408-452 (584)
70 TIGR02937 sigma70-ECF RNA poly 48.7 41 0.00088 27.2 5.1 36 79-115 118-153 (158)
71 PF10545 MADF_DNA_bdg: Alcohol 47.5 21 0.00045 27.1 3.0 27 89-115 28-55 (85)
72 PRK09652 RNA polymerase sigma 46.6 45 0.00097 28.6 5.2 34 81-115 138-171 (182)
73 PF07638 Sigma70_ECF: ECF sigm 46.0 45 0.00097 30.0 5.3 40 74-114 138-177 (185)
74 KOG4329 DNA-binding protein [G 44.2 40 0.00086 35.0 5.1 42 69-110 278-320 (445)
75 smart00344 HTH_ASNC helix_turn 43.7 56 0.0012 26.4 5.1 45 74-119 3-48 (108)
76 PRK11924 RNA polymerase sigma 43.3 52 0.0011 28.1 5.1 30 85-115 139-168 (179)
77 PF01388 ARID: ARID/BRIGHT DNA 43.2 64 0.0014 25.6 5.3 37 78-114 40-89 (92)
78 KOG4468 Polycomb-group transcr 42.6 16 0.00036 39.8 2.2 47 14-62 88-143 (782)
79 PRK09643 RNA polymerase sigma 42.4 56 0.0012 29.3 5.3 34 81-115 144-177 (192)
80 cd06171 Sigma70_r4 Sigma70, re 41.8 84 0.0018 20.8 5.1 37 75-112 14-50 (55)
81 PF11626 Rap1_C: TRF2-interact 41.7 14 0.00031 29.8 1.3 18 64-81 43-60 (87)
82 PF13404 HTH_AsnC-type: AsnC-t 40.3 6.8 0.00015 27.8 -0.7 38 20-60 3-40 (42)
83 PRK09641 RNA polymerase sigma 39.0 66 0.0014 28.0 5.2 30 85-115 150-179 (187)
84 cd08319 Death_RAIDD Death doma 38.9 48 0.001 27.0 3.9 29 76-105 2-30 (83)
85 KOG2656 DNA methyltransferase 37.7 19 0.00041 37.4 1.7 49 12-62 128-181 (445)
86 cd08803 Death_ank3 Death domai 37.5 57 0.0012 26.5 4.1 30 76-106 4-33 (84)
87 KOG3841 TEF-1 and related tran 37.1 3.5E+02 0.0076 28.5 10.5 79 7-123 69-152 (455)
88 PRK04217 hypothetical protein; 37.1 84 0.0018 27.0 5.3 44 70-115 42-85 (110)
89 smart00501 BRIGHT BRIGHT, ARID 35.8 89 0.0019 25.1 5.1 38 78-115 36-86 (93)
90 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 35.7 83 0.0018 23.5 4.4 36 73-109 6-41 (50)
91 TIGR02954 Sig70_famx3 RNA poly 35.4 83 0.0018 27.2 5.2 30 85-115 133-162 (169)
92 cd08317 Death_ank Death domain 35.0 48 0.001 26.3 3.3 30 76-106 4-33 (84)
93 PF07750 GcrA: GcrA cell cycle 35.0 21 0.00045 32.4 1.3 33 16-51 2-35 (162)
94 TIGR02948 SigW_bacill RNA poly 34.8 77 0.0017 27.6 4.9 29 86-115 151-179 (187)
95 TIGR02939 RpoE_Sigma70 RNA pol 34.4 68 0.0015 28.0 4.5 29 86-115 153-181 (190)
96 PF11035 SnAPC_2_like: Small n 34.2 83 0.0018 32.0 5.5 87 14-114 21-127 (344)
97 PRK11179 DNA-binding transcrip 33.8 13 0.00027 32.7 -0.2 44 19-65 8-51 (153)
98 PRK09047 RNA polymerase factor 33.7 1.1E+02 0.0023 26.0 5.5 30 85-115 120-149 (161)
99 PRK09637 RNA polymerase sigma 33.2 94 0.002 27.6 5.3 30 85-115 120-149 (181)
100 PRK09645 RNA polymerase sigma 32.8 1E+02 0.0022 26.6 5.4 30 85-115 132-161 (173)
101 PRK11923 algU RNA polymerase s 32.2 92 0.002 27.5 5.1 29 86-115 153-181 (193)
102 PRK11169 leucine-responsive tr 32.1 11 0.00024 33.5 -0.9 44 19-65 13-56 (164)
103 PRK09648 RNA polymerase sigma 31.9 1.1E+02 0.0023 27.0 5.4 30 85-115 153-182 (189)
104 cd08311 Death_p75NR Death doma 31.8 55 0.0012 26.2 3.2 33 73-107 2-34 (77)
105 PRK12523 RNA polymerase sigma 31.8 1.1E+02 0.0024 26.5 5.4 37 79-116 127-163 (172)
106 PRK12515 RNA polymerase sigma 31.7 1.1E+02 0.0024 27.0 5.4 30 85-115 145-174 (189)
107 PRK12512 RNA polymerase sigma 31.6 1.1E+02 0.0024 26.8 5.4 30 85-115 145-174 (184)
108 PRK09642 RNA polymerase sigma 31.3 1.2E+02 0.0026 25.9 5.4 30 85-115 120-149 (160)
109 PRK12529 RNA polymerase sigma 30.9 1.2E+02 0.0025 26.8 5.5 32 84-116 140-171 (178)
110 TIGR02943 Sig70_famx1 RNA poly 30.4 1.2E+02 0.0026 27.1 5.5 34 81-115 141-174 (188)
111 COG1522 Lrp Transcriptional re 29.8 1.1E+02 0.0025 25.9 5.1 46 73-119 7-53 (154)
112 PRK12530 RNA polymerase sigma 29.7 1.2E+02 0.0026 27.0 5.4 30 85-115 148-177 (189)
113 PF09197 Rap1-DNA-bind: Rap1, 29.1 1.5E+02 0.0033 25.4 5.5 48 70-117 1-79 (105)
114 PRK12531 RNA polymerase sigma 29.0 1.3E+02 0.0028 26.8 5.4 30 85-115 155-184 (194)
115 cd08318 Death_NMPP84 Death dom 28.8 84 0.0018 25.3 3.8 25 81-106 12-36 (86)
116 KOG0617 Ras suppressor protein 26.7 23 0.00049 33.9 0.2 27 265-293 94-121 (264)
117 cd08804 Death_ank2 Death domai 26.4 96 0.0021 25.0 3.7 31 76-107 4-34 (84)
118 smart00005 DEATH DEATH domain, 26.1 92 0.002 24.2 3.5 30 75-105 4-34 (88)
119 PRK12524 RNA polymerase sigma 26.0 1.5E+02 0.0033 26.4 5.4 30 85-115 150-179 (196)
120 TIGR02999 Sig-70_X6 RNA polyme 25.6 1.7E+02 0.0036 25.5 5.4 29 86-115 149-177 (183)
121 PRK12514 RNA polymerase sigma 25.5 1.6E+02 0.0034 25.6 5.3 29 86-115 144-172 (179)
122 PRK06759 RNA polymerase factor 25.4 1.7E+02 0.0038 24.5 5.4 29 86-115 121-149 (154)
123 TIGR02952 Sig70_famx2 RNA poly 25.3 1.7E+02 0.0036 24.9 5.3 29 86-115 137-165 (170)
124 PRK09651 RNA polymerase sigma 25.3 1.4E+02 0.0031 26.0 4.9 30 86-116 134-163 (172)
125 PRK12536 RNA polymerase sigma 25.2 1.6E+02 0.0036 25.8 5.4 31 84-115 142-172 (181)
126 PF09420 Nop16: Ribosome bioge 25.0 1.6E+02 0.0034 26.4 5.3 46 67-112 113-162 (164)
127 TIGR02950 SigM_subfam RNA poly 24.6 61 0.0013 27.3 2.4 28 87-115 121-148 (154)
128 cd08779 Death_PIDD Death Domai 24.5 1.1E+02 0.0023 24.8 3.7 34 77-110 3-38 (86)
129 PRK12532 RNA polymerase sigma 24.4 1.6E+02 0.0035 26.1 5.2 30 85-115 150-179 (195)
130 COG2197 CitB Response regulato 24.4 1.8E+02 0.0038 26.9 5.6 47 69-118 147-193 (211)
131 PRK09649 RNA polymerase sigma 24.3 1.6E+02 0.0035 26.1 5.2 29 86-115 145-173 (185)
132 PRK12527 RNA polymerase sigma 23.8 2E+02 0.0043 24.5 5.5 29 86-115 120-148 (159)
133 PRK12528 RNA polymerase sigma 23.8 2E+02 0.0042 24.6 5.5 31 84-115 126-156 (161)
134 PLN03162 golden-2 like transcr 23.7 6.7E+02 0.015 26.5 9.9 44 69-112 238-286 (526)
135 PRK05602 RNA polymerase sigma 23.2 1.7E+02 0.0037 25.6 5.1 29 86-115 143-171 (186)
136 PRK13919 putative RNA polymera 22.8 2E+02 0.0042 25.2 5.4 29 86-115 150-178 (186)
137 TIGR02984 Sig-70_plancto1 RNA 22.6 2E+02 0.0042 25.0 5.3 30 85-115 154-183 (189)
138 PRK12542 RNA polymerase sigma 22.5 2E+02 0.0042 25.3 5.3 30 85-115 136-165 (185)
139 TIGR02983 SigE-fam_strep RNA p 22.1 2E+02 0.0043 24.4 5.2 39 76-115 115-153 (162)
140 cd08805 Death_ank1 Death domai 21.8 1.2E+02 0.0027 24.6 3.6 34 76-109 4-39 (84)
141 PRK12547 RNA polymerase sigma 21.6 2.3E+02 0.0049 24.4 5.5 30 85-115 126-155 (164)
142 PRK12516 RNA polymerase sigma 21.5 2.1E+02 0.0045 25.6 5.3 36 79-115 124-159 (187)
143 TIGR02960 SigX5 RNA polymerase 20.6 1.9E+02 0.004 27.9 5.1 30 85-115 156-185 (324)
144 cd08777 Death_RIP1 Death Domai 20.5 1.3E+02 0.0028 24.4 3.4 29 78-107 4-32 (86)
145 PRK12520 RNA polymerase sigma 20.3 2.3E+02 0.0051 25.0 5.4 29 86-115 146-174 (191)
146 KOG0384 Chromodomain-helicase 20.1 1E+02 0.0023 36.5 3.7 75 13-95 1132-1207(1373)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=5.9e-37 Score=306.38 Aligned_cols=117 Identities=61% Similarity=1.145 Sum_probs=114.2
Q ss_pred CCCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHH
Q 036344 1 MGRAPCCDKANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIIC 80 (354)
Q Consensus 1 Mgr~pc~~Kp~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Ll 80 (354)
|||++||+|.+++||+||+|||++|+++|.+||. .+|..||+.++++|+++|||+||.+||+|.+++++||.|||++|+
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~-~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLL 79 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGH-GCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLII 79 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCc-CCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHH
Confidence 9999999999999999999999999999999998 799999999887999999999999999999999999999999999
Q ss_pred HHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhhhh
Q 036344 81 SLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKKLL 118 (354)
Q Consensus 81 elv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk~~ 118 (354)
+++++||++|+.||++|+|||+++|||||+.+++++++
T Consensus 80 eL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 80 ELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred HHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999998765
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.1e-36 Score=284.51 Aligned_cols=116 Identities=56% Similarity=1.197 Sum_probs=111.6
Q ss_pred CCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHH
Q 036344 3 RAPCCDKANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSL 82 (354)
Q Consensus 3 r~pc~~Kp~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llel 82 (354)
|+|||+|++++|++||+|||++|+++|++||. .+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|+++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~-~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGE-GRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCc-ccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 67999999999999999999999999999997 69999999997799999999999999999999999999999999999
Q ss_pred HHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhhhhc
Q 036344 83 YISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 83 v~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~ 119 (354)
+..||++|+.||++|||||+++|||||+.++++++.+
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHh
Confidence 9999999999999999999999999999999887654
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=9e-36 Score=279.16 Aligned_cols=110 Identities=56% Similarity=1.027 Sum_probs=104.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHHHHHhCCC
Q 036344 10 ANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSLYISIGSR 89 (354)
Q Consensus 10 p~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llelv~~~G~k 89 (354)
+.+.||+||+|||++|+++|++||. ++|..||+.+|++|++|+||+||.|||+|++++|+||+|||.+|+++|..+|++
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~-~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGK-HNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCC-CCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 3455899999999999999999998 799999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHhhhhhhch
Q 036344 90 WSIIAAQLPGRTDNDIKNYWNTRLKKKLLGK 120 (354)
Q Consensus 90 Ws~IAk~LpGRT~nqcKnRW~slLrkk~~~k 120 (354)
|+.||++|||||+|+|||+|++.+|+++...
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~ 114 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKM 114 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999999999999998877443
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.71 E-value=7.4e-18 Score=174.96 Aligned_cols=104 Identities=24% Similarity=0.448 Sum_probs=98.4
Q ss_pred CCCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHH
Q 036344 1 MGRAPCCDKANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIIC 80 (354)
Q Consensus 1 Mgr~pc~~Kp~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Ll 80 (354)
++|......|++++|+||++||.+|+.+|++||. .+|.+|-+.+| +|+..|||+||.|.|+...+++.||-.||+.|+
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~-kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~ 424 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGA-KDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLL 424 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCc-cchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHH
Confidence 4788889999999999999999999999999997 89999999999 999999999999999999999999999999999
Q ss_pred HHHHHhCC-CHHHHHhhCCCCCHHHHH
Q 036344 81 SLYISIGS-RWSIIAAQLPGRTDNDIK 106 (354)
Q Consensus 81 elv~~~G~-kWs~IAk~LpGRT~nqcK 106 (354)
.+|.+||. +|.+||-.||.||..|..
T Consensus 425 ~~V~~YG~g~WakcA~~Lp~~t~~q~~ 451 (939)
T KOG0049|consen 425 YAVKVYGKGNWAKCAMLLPKKTSRQLR 451 (939)
T ss_pred HHHHHHccchHHHHHHHccccchhHHH
Confidence 99999996 899999999999995543
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.64 E-value=1.9e-16 Score=164.65 Aligned_cols=115 Identities=24% Similarity=0.459 Sum_probs=103.9
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccc------------------------------
Q 036344 7 CDKANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRL------------------------------ 56 (354)
Q Consensus 7 ~~Kp~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCRe------------------------------ 56 (354)
...|.++|..|++|||++|+.+...+|. .+|..||..+|.+|+.-||..
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~-~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~ 324 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKF-VSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITS 324 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhcccc-ccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhh
Confidence 4678999999999999999999999998 789999999987788888876
Q ss_pred ------------------------cccccccCCCCCCCCChHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHH
Q 036344 57 ------------------------RWLNYLRPNIKHGGFSEEEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNT 111 (354)
Q Consensus 57 ------------------------RW~n~L~P~lkkg~WTeEED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~s 111 (354)
||...|+|.+++|+||.+||.+|+.+|.+||. .|.+|-..+|||++.|||.||.+
T Consensus 325 ~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~n 404 (939)
T KOG0049|consen 325 INSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTN 404 (939)
T ss_pred ccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHH
Confidence 89999999999999999999999999999996 69999999999999999999999
Q ss_pred Hhhhhhhchhh
Q 036344 112 RLKKKLLGKQR 122 (354)
Q Consensus 112 lLrkk~~~k~~ 122 (354)
.|.+..+...|
T Consensus 405 vL~~s~K~~rW 415 (939)
T KOG0049|consen 405 VLNRSAKVERW 415 (939)
T ss_pred HHHHhhccCce
Confidence 99886655444
No 6
>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=99.60 E-value=3.3e-16 Score=116.91 Aligned_cols=60 Identities=38% Similarity=0.829 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHH
Q 036344 17 WSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNII 79 (354)
Q Consensus 17 WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~L 79 (354)
||+|||++|+++|.+||. +|..||+.|| .|++.+|+.||.++|+|.+++++||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g~--~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN--DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS---HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc--CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 8999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.52 E-value=8.4e-15 Score=150.93 Aligned_cols=106 Identities=31% Similarity=0.524 Sum_probs=100.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHHHHHhCCC
Q 036344 10 ANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSLYISIGSR 89 (354)
Q Consensus 10 p~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llelv~~~G~k 89 (354)
-.++.|.|+..||+.|+.+|..+|+ .+|.+||..+. .|++++|+.||.++++|.+++..|+.|||..|+.+..++|..
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~-nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGP-NNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhccc-ccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 4578899999999999999999999 68999999999 699999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHhhhhh
Q 036344 90 WSIIAAQLPGRTDNDIKNYWNTRLKKKL 117 (354)
Q Consensus 90 Ws~IAk~LpGRT~nqcKnRW~slLrkk~ 117 (354)
|+.||..+++||..+|.+||..++....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~ 121 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLS 121 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhh
Confidence 9999999999999999999997776544
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.40 E-value=7.4e-14 Score=142.66 Aligned_cols=102 Identities=29% Similarity=0.567 Sum_probs=97.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHHHHHhCCCHH
Q 036344 12 VKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSLYISIGSRWS 91 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llelv~~~G~kWs 91 (354)
++.|.|+.-||+.|..+|.+||. ..|.+|++.+. ..+++||+.||..+|+|.+++..|+.|||++||.+.+.+...|.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~-nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGK-NQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EecceecccHHHHHHHHHHHcch-HHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 67899999999999999999999 68999999998 89999999999999999999999999999999999999999999
Q ss_pred HHHhhCCCCCHHHHHHHHHHHhhhh
Q 036344 92 IIAAQLPGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 92 ~IAk~LpGRT~nqcKnRW~slLrkk 116 (354)
-||..+ |||.++|-.||+.++-..
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVY 106 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHH
Confidence 999998 999999999999987654
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.39 E-value=2.4e-13 Score=141.91 Aligned_cols=102 Identities=25% Similarity=0.586 Sum_probs=93.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCC--CCCCCCChHHHHHHHHHHH------
Q 036344 13 KKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPN--IKHGGFSEEEDNIICSLYI------ 84 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~--lkkg~WTeEED~~Llelv~------ 84 (354)
++|+||+||++.|..+|.++|. .|..|++.|| |.+..||+||++|..+. .+++.||.||++.|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~--~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~ 458 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN--DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREA 458 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc--cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHh
Confidence 8999999999999999999997 8999999997 99999999999999887 5899999999999999995
Q ss_pred -Hh-------------------CCCHHHHHhhCCCCCHHHHHHHHHHHhhhhhh
Q 036344 85 -SI-------------------GSRWSIIAAQLPGRTDNDIKNYWNTRLKKKLL 118 (354)
Q Consensus 85 -~~-------------------G~kWs~IAk~LpGRT~nqcKnRW~slLrkk~~ 118 (354)
++ +-.|+.|++.+.+|+..+||.+|..++.....
T Consensus 459 ~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 459 LQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred hcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHh
Confidence 33 22699999999999999999999999887653
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=99.36 E-value=1.1e-12 Score=94.66 Aligned_cols=46 Identities=30% Similarity=0.588 Sum_probs=42.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCC-HHHHHhhCC-CCCHHHHHHHHHHHh
Q 036344 68 HGGFSEEEDNIICSLYISIGSR-WSIIAAQLP-GRTDNDIKNYWNTRL 113 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G~k-Ws~IAk~Lp-GRT~nqcKnRW~slL 113 (354)
+++||+|||++|++++.+||.+ |..||+.|+ |||..+|++||+.++
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 5799999999999999999998 999999999 999999999999864
No 11
>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=99.31 E-value=3.7e-12 Score=95.05 Aligned_cols=56 Identities=27% Similarity=0.546 Sum_probs=46.7
Q ss_pred CChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhhhhchhhhHHH
Q 036344 71 FSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKKLLGKQRKEQQ 126 (354)
Q Consensus 71 WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~k~~k~q~ 126 (354)
||+|||.+|++++.+||++|..||++|+.||..+|++||+..|++++....+...+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eE 56 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEE 56 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHH
Confidence 99999999999999999999999999966999999999999887776666655443
No 12
>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=99.28 E-value=4.5e-13 Score=96.59 Aligned_cols=48 Identities=38% Similarity=0.776 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccc
Q 036344 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYL 62 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L 62 (354)
|++||+|||++|+++|.+||. .+|..||+.++.+|++.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~-~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK-DNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT-THHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCC-cHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999998 459999999998999999999999875
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.20 E-value=3.5e-11 Score=83.47 Aligned_cols=47 Identities=40% Similarity=0.792 Sum_probs=44.4
Q ss_pred CCCCChHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 036344 68 HGGFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWNTRLK 114 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G-~kWs~IAk~LpGRT~nqcKnRW~slLr 114 (354)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 14
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.19 E-value=3.6e-11 Score=114.28 Aligned_cols=63 Identities=21% Similarity=0.357 Sum_probs=58.1
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhCC-CHHHHHhhC-CCCCHHHHHHHHHHHhhhhhhchhhhHHH
Q 036344 64 PNIKHGGFSEEEDNIICSLYISIGS-RWSIIAAQL-PGRTDNDIKNYWNTRLKKKLLGKQRKEQQ 126 (354)
Q Consensus 64 P~lkkg~WTeEED~~Llelv~~~G~-kWs~IAk~L-pGRT~nqcKnRW~slLrkk~~~k~~k~q~ 126 (354)
+.+++++||+|||++|+++|++||. +|..||+.+ ++||..|||.||.++|++.+....+..++
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EE 85 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDE 85 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHH
Confidence 5789999999999999999999995 899999998 69999999999999999999888887664
No 15
>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=99.07 E-value=3.1e-10 Score=77.71 Aligned_cols=44 Identities=34% Similarity=0.689 Sum_probs=41.7
Q ss_pred CCChHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHh
Q 036344 70 GFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWNTRL 113 (354)
Q Consensus 70 ~WTeEED~~Llelv~~~G-~kWs~IAk~LpGRT~nqcKnRW~slL 113 (354)
+||.+|+..|+.++.++| .+|..||+.+++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.07 E-value=1.2e-10 Score=109.60 Aligned_cols=64 Identities=17% Similarity=0.274 Sum_probs=57.2
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhCC-CHHHHHhhCC-CCCHHHHHHHHHHHhhhhhhchhhhHHHH
Q 036344 64 PNIKHGGFSEEEDNIICSLYISIGS-RWSIIAAQLP-GRTDNDIKNYWNTRLKKKLLGKQRKEQQA 127 (354)
Q Consensus 64 P~lkkg~WTeEED~~Llelv~~~G~-kWs~IAk~Lp-GRT~nqcKnRW~slLrkk~~~k~~k~q~~ 127 (354)
+.+.+|+||.|||++|+++|++||. +|..||+.++ +|+..+||-||.++|++.+++.....++.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe 70 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEE 70 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHH
Confidence 3455799999999999999999997 6999999998 99999999999999999998777766543
No 17
>PLN03091 hypothetical protein; Provisional
Probab=98.99 E-value=4.7e-10 Score=113.87 Aligned_cols=64 Identities=22% Similarity=0.335 Sum_probs=57.7
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhCC-CHHHHHhhC-CCCCHHHHHHHHHHHhhhhhhchhhhHHHH
Q 036344 64 PNIKHGGFSEEEDNIICSLYISIGS-RWSIIAAQL-PGRTDNDIKNYWNTRLKKKLLGKQRKEQQA 127 (354)
Q Consensus 64 P~lkkg~WTeEED~~Llelv~~~G~-kWs~IAk~L-pGRT~nqcKnRW~slLrkk~~~k~~k~q~~ 127 (354)
+.+++++||+|||++|+++|.+||. +|..||+.+ +|||+.+||.||.++|++.+.+..+..++.
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED 75 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEE 75 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHH
Confidence 5789999999999999999999996 799999988 599999999999999999888777766554
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.90 E-value=4.2e-10 Score=78.03 Aligned_cols=48 Identities=35% Similarity=0.783 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCcccccccccccc
Q 036344 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLR 63 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~ 63 (354)
+++||++||++|..++.+||. .+|..||+.++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~-~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGK-NNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-CCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 478999999999999999995 48999999999 9999999999998764
No 19
>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=98.76 E-value=2.3e-09 Score=73.35 Aligned_cols=45 Identities=38% Similarity=0.791 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccc
Q 036344 16 PWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYL 62 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L 62 (354)
+||++||+.|+.++.++|. .+|..||+.++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~-~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK-NNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc-CCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 5999999999999999995 49999999999 899999999998753
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.66 E-value=2.6e-08 Score=104.68 Aligned_cols=113 Identities=22% Similarity=0.309 Sum_probs=89.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC--------------CC--------cceecccccccccCccccc---cccccccCCC
Q 036344 12 VKKGPWSPEEDAKLKAYIEQHGTG--------------GN--------WIALPHKIGLKRCGKSCRL---RWLNYLRPNI 66 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~k~G~~--------------~n--------W~~IAk~lg~~Rt~kQCRe---RW~n~L~P~l 66 (354)
++-+.|+++||+.|-..|..|-.. .. |+.|.+.|| -|+.+.+.. |=.+.+.+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~-- 382 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN-- 382 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--
Confidence 344899999999999999866210 12 577788888 499988766 33334443
Q ss_pred CCCCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhhh--hchhhhHHHHh
Q 036344 67 KHGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKKL--LGKQRKEQQAR 128 (354)
Q Consensus 67 kkg~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk~--~~k~~k~q~~~ 128 (354)
.+|.||+||++.|..+|.++|+.|..|++.| ||.+.+|+.||+.+.+..- ..+.|..++..
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~ 445 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEE 445 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHH
Confidence 8999999999999999999999999999999 9999999999999988764 44555554433
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.31 E-value=5.4e-08 Score=101.12 Aligned_cols=98 Identities=23% Similarity=0.601 Sum_probs=86.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccC--CCCCCCCChHHHHHHHHHHHHhC---
Q 036344 13 KKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRP--NIKHGGFSEEEDNIICSLYISIG--- 87 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P--~lkkg~WTeEED~~Llelv~~~G--- 87 (354)
.+|.||+||+..|...+..+|. .|..|.+.++ |-+..||+||.+|..+ .+++++|+.||+.+|...+...-
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~~--~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~ 365 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHGG--SWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEA 365 (512)
T ss_pred hhccCccccccccccccccccc--hhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHH
Confidence 4799999999999999999997 8999998776 8899999999999988 78899999999999999887432
Q ss_pred -----CCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 036344 88 -----SRWSIIAAQLPGRTDNDIKNYWNTRLK 114 (354)
Q Consensus 88 -----~kWs~IAk~LpGRT~nqcKnRW~slLr 114 (354)
..|..|++.+++|....|+.++..+..
T Consensus 366 ~~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 366 QQSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 269999999999999999888776554
No 22
>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=97.54 E-value=0.00014 Score=65.78 Aligned_cols=53 Identities=21% Similarity=0.383 Sum_probs=46.5
Q ss_pred CCCCCCChHHHHHHHHHHHHh---CC----CHHHHHhhCCCCCHHHHHHHHHHHhhhhhhc
Q 036344 66 IKHGGFSEEEDNIICSLYISI---GS----RWSIIAAQLPGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 66 lkkg~WTeEED~~Llelv~~~---G~----kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~ 119 (354)
.+...||.|||.+|.+.|..| |. -...+++.| +||+.+|.-|||+.+|+.+..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 356799999999999999988 43 488999999 999999999999999998754
No 23
>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=97.35 E-value=0.00059 Score=51.80 Aligned_cols=46 Identities=11% Similarity=0.175 Sum_probs=40.3
Q ss_pred CCCCChHHHHHHHHHHHHhCC-CH---HHHHhhCC-CC-CHHHHHHHHHHHh
Q 036344 68 HGGFSEEEDNIICSLYISIGS-RW---SIIAAQLP-GR-TDNDIKNYWNTRL 113 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G~-kW---s~IAk~Lp-GR-T~nqcKnRW~slL 113 (354)
+-.||+||..++++++..+|. +| ..|+..+. .| |..+|+.|...+.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999997 99 99999874 45 9999999987654
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.24 E-value=0.00057 Score=69.96 Aligned_cols=51 Identities=16% Similarity=0.320 Sum_probs=45.6
Q ss_pred CCCCCCCChHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 65 NIKHGGFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 65 ~lkkg~WTeEED~~Llelv~~~G-~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.+-...||.+|+.+||+++..|| .+|..||.++..||..+||.||.+++-.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 45567899999999999999999 6999999999999999999999876543
No 25
>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=97.23 E-value=0.00013 Score=55.33 Aligned_cols=49 Identities=8% Similarity=0.239 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCc---ceecccccccc-cCccccccccccc
Q 036344 13 KKGPWSPEEDAKLKAYIEQHGTGGNW---IALPHKIGLKR-CGKSCRLRWLNYL 62 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~G~~~nW---~~IAk~lg~~R-t~kQCReRW~n~L 62 (354)
++-.||+||.++++++|+.+|. ++| ..|++.|+..| |..||+.+...|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~-g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGG-PDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCC-CcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3457999999999999999997 699 99999887666 9999999887764
No 26
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.15 E-value=0.00044 Score=72.16 Aligned_cols=61 Identities=25% Similarity=0.456 Sum_probs=54.3
Q ss_pred CCCCCCChHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhhhhchhhhHHH
Q 036344 66 IKHGGFSEEEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNTRLKKKLLGKQRKEQQ 126 (354)
Q Consensus 66 lkkg~WTeEED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~k~~k~q~ 126 (354)
++-|-|+.-||++|-..+.+||. .|+.|++.|+-.|..+|++||...+.+.++...|+...
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~ee 66 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREE 66 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhH
Confidence 46788999999999999999996 79999999999999999999999999988776665443
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.08 E-value=0.00018 Score=73.60 Aligned_cols=89 Identities=22% Similarity=0.420 Sum_probs=65.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccc-cCCCCCCC-------CChHHHHHHHHH-
Q 036344 12 VKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYL-RPNIKHGG-------FSEEEDNIICSL- 82 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L-~P~lkkg~-------WTeEED~~Llel- 82 (354)
+-...||.+|+-+|++++..||. +||..||.++| .|++..|+++|.+++ +..+-.-+ -...||..+-.-
T Consensus 70 i~~~~WtadEEilLLea~~t~G~-GNW~dIA~hIG-tKtkeeck~hy~k~fv~s~~~~~~~i~~~~~~~q~e~~~~~k~~ 147 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGF-GNWQDIADHIG-TKTKEECKEHYLKHFVNSPIFPLPDISLGIGVNQDEDAAMAKNR 147 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCC-CcHHHHHHHHc-ccchHHHHHHHHHHHhcCccccccccccccCcchHHHhhhcccc
Confidence 45678999999999999999999 79999999999 999999999999865 32222222 234454444443
Q ss_pred HHHhCC-------------CHHHHHhhCCCCCH
Q 036344 83 YISIGS-------------RWSIIAAQLPGRTD 102 (354)
Q Consensus 83 v~~~G~-------------kWs~IAk~LpGRT~ 102 (354)
+..++. .=.+|+.++|+|.+
T Consensus 148 ~~~~~~~~~~pr~p~~~~p~~~e~~gyMp~R~d 180 (438)
T KOG0457|consen 148 AEPFQPTDLVPRKPGVSNPLRREISGYMPGRLD 180 (438)
T ss_pred cccCCCCCCCCCCCCCCCchHHHHhhhCccchh
Confidence 333332 24689999999964
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.05 E-value=0.00084 Score=62.76 Aligned_cols=101 Identities=24% Similarity=0.419 Sum_probs=73.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcceecccccc--cccCccccccccccc-cCCC--------------------CCCCCC
Q 036344 16 PWSPEEDAKLKAYIEQHGTGGNWIALPHKIGL--KRCGKSCRLRWLNYL-RPNI--------------------KHGGFS 72 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~--~Rt~kQCReRW~n~L-~P~l--------------------kkg~WT 72 (354)
+|++++|-.|+.+|.+-. +-..|+..+.. .-|-+.+.+||+..| +|.+ .+.+||
T Consensus 1 rW~~~DDl~Li~av~~~~---~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS 77 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN---DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFS 77 (199)
T ss_pred CCCchhhHHHHHHHHHhc---CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCC
Confidence 699999999999998754 46666654432 234455778998876 3332 356899
Q ss_pred hHHHHHHHHHHHHhCC---CHHHHHhh----C-CCCCHHHHHHHHHHHhhhhhhc
Q 036344 73 EEEDNIICSLYISIGS---RWSIIAAQ----L-PGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 73 eEED~~Llelv~~~G~---kWs~IAk~----L-pGRT~nqcKnRW~slLrkk~~~ 119 (354)
.+|+++|........+ .+.+|=.. | ++||+.++.++|..+.+..+..
T Consensus 78 ~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL~ 132 (199)
T PF13325_consen 78 KEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLLP 132 (199)
T ss_pred HHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchhh
Confidence 9999999997766654 57666332 3 7899999999999766655543
No 29
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.00 E-value=0.00068 Score=53.59 Aligned_cols=48 Identities=27% Similarity=0.513 Sum_probs=35.0
Q ss_pred CCCChHHHHHHHHHHHH------hC--C------CHHHHHhhC----CCCCHHHHHHHHHHHhhhh
Q 036344 69 GGFSEEEDNIICSLYIS------IG--S------RWSIIAAQL----PGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 69 g~WTeEED~~Llelv~~------~G--~------kWs~IAk~L----pGRT~nqcKnRW~slLrkk 116 (354)
..||.+|...||+++.. ++ . -|..||..| ..||..+|++||+++.+.-
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 57999999999999887 32 1 399999987 3699999999999976653
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.63 E-value=0.0027 Score=66.67 Aligned_cols=46 Identities=11% Similarity=0.217 Sum_probs=42.8
Q ss_pred CCCCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 036344 67 KHGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTR 112 (354)
Q Consensus 67 kkg~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~sl 112 (354)
-++.||++|..+|++++..||..|.+||.++.+||..+|-.|+..+
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 3568999999999999999999999999999999999999999654
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.55 E-value=0.0029 Score=65.58 Aligned_cols=45 Identities=13% Similarity=0.155 Sum_probs=42.3
Q ss_pred CCCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 036344 68 HGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTR 112 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~sl 112 (354)
...||.+|..+|++.+..||..|.+||+++.+||..+|--||.++
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 348999999999999999999999999999999999999999765
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=96.55 E-value=0.0041 Score=48.43 Aligned_cols=50 Identities=16% Similarity=0.318 Sum_probs=32.6
Q ss_pred CCCCChHHHHHHHHHHHHhC--------CC-HHHHHhhCC-CCCHHHHHHHHHHHhhhhh
Q 036344 68 HGGFSEEEDNIICSLYISIG--------SR-WSIIAAQLP-GRTDNDIKNYWNTRLKKKL 117 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G--------~k-Ws~IAk~Lp-GRT~nqcKnRW~slLrkk~ 117 (354)
+.+||.|||.+|++.|+++. ++ |.++++.-+ .+|-.+.|+||...|+.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 45899999999999997652 22 999998877 9999999999988776643
No 33
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.48 E-value=0.0042 Score=56.86 Aligned_cols=52 Identities=15% Similarity=0.350 Sum_probs=44.2
Q ss_pred CCCCCCChHHHHHHHHHHHHhCCC-------HHHHHhhCCCCCHHHHHHHHHHHhhhhhh
Q 036344 66 IKHGGFSEEEDNIICSLYISIGSR-------WSIIAAQLPGRTDNDIKNYWNTRLKKKLL 118 (354)
Q Consensus 66 lkkg~WTeEED~~Llelv~~~G~k-------Ws~IAk~LpGRT~nqcKnRW~slLrkk~~ 118 (354)
.+.+.||.|||.+|.+.+..|+.. ...++..| +||..+|..|||+.+|++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 457899999999999999988742 56667777 99999999999999998764
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=95.80 E-value=0.0036 Score=65.71 Aligned_cols=48 Identities=23% Similarity=0.560 Sum_probs=43.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCcccccccccc
Q 036344 11 NVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNY 61 (354)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~ 61 (354)
..-+..||.+|+.+|++.|+.||. +|.+||.+++ +|+..||-.++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d--dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD--DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc--cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345788999999999999999998 9999999999 99999999998763
No 35
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=95.78 E-value=0.0029 Score=65.48 Aligned_cols=46 Identities=26% Similarity=0.533 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCcccccccccc
Q 036344 13 KKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNY 61 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~ 61 (354)
....||.+|..+|++.|+.||. +|.+||.++| +|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD--dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD--DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh--hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 4568999999999999999998 8999999999 99999999998763
No 36
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.45 E-value=0.031 Score=43.55 Aligned_cols=48 Identities=31% Similarity=0.479 Sum_probs=39.7
Q ss_pred CCCCChHHHHHHHHHHHHh-----CC------------CHHHHHhhC-----CCCCHHHHHHHHHHHhhh
Q 036344 68 HGGFSEEEDNIICSLYISI-----GS------------RWSIIAAQL-----PGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~-----G~------------kWs~IAk~L-----pGRT~nqcKnRW~slLrk 115 (354)
+..||.+|...|++++.+| |. -|..|+..| +.||..++|.+|..+...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 4579999999999999876 31 399999886 369999999999987544
No 37
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.34 E-value=0.0024 Score=50.50 Aligned_cols=48 Identities=23% Similarity=0.546 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHHHHHHHh------C---CC---CCcceecccc---cccccCccccccccccc
Q 036344 15 GPWSPEEDAKLKAYIEQH------G---TG---GNWIALPHKI---GLKRCGKSCRLRWLNYL 62 (354)
Q Consensus 15 G~WT~EEDe~L~~lV~k~------G---~~---~nW~~IAk~l---g~~Rt~kQCReRW~n~L 62 (354)
-.||.+|...|++++... + .. .-|..||..| |..|++.||+.||.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 479999999999998772 1 10 1499999887 56799999999998743
No 38
>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=95.32 E-value=0.0036 Score=48.79 Aligned_cols=53 Identities=28% Similarity=0.450 Sum_probs=33.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-------CCCcceecccccccccCccccccccccccCCC
Q 036344 14 KGPWSPEEDAKLKAYIEQHGT-------GGNWIALPHKIGLKRCGKSCRLRWLNYLRPNI 66 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~-------~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~l 66 (354)
+-+||.|||+.|+++|..+.. +.-|.++++.-++.++-.+-|+||.+.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 457999999999999976532 12399998887768888899999999987654
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=94.89 E-value=0.0077 Score=54.69 Aligned_cols=51 Identities=24% Similarity=0.547 Sum_probs=42.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC-----CCcceecccccccccCccccccccccccC
Q 036344 12 VKKGPWSPEEDAKLKAYIEQHGTG-----GNWIALPHKIGLKRCGKSCRLRWLNYLRP 64 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~k~G~~-----~nW~~IAk~lg~~Rt~kQCReRW~n~L~P 64 (354)
.+...||.|||.+|.+.|-+|-.. ..+..|++.|+ ||+.-|.-||+.+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 456789999999999999998332 13788888886 9999999999999873
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.97 E-value=0.07 Score=53.50 Aligned_cols=49 Identities=20% Similarity=0.423 Sum_probs=43.4
Q ss_pred CCCCCCChHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 036344 66 IKHGGFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWNTRLK 114 (354)
Q Consensus 66 lkkg~WTeEED~~Llelv~~~G-~kWs~IAk~LpGRT~nqcKnRW~slLr 114 (354)
+-...|+.+|+.+|++...-.| .+|..||.++..|+...||.||..+..
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3445799999999999999999 499999999999999999999976554
No 41
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.81 E-value=0.28 Score=55.83 Aligned_cols=100 Identities=16% Similarity=0.319 Sum_probs=73.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccc--------------------------------------
Q 036344 15 GPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRL-------------------------------------- 56 (354)
Q Consensus 15 G~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCRe-------------------------------------- 56 (354)
..|+.-+=..++.+..+||. .+-..||..+. +++...++.
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr-~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~ 902 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGR-NDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKA 902 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCH-hHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35888888888888889997 68888888886 566644442
Q ss_pred ----------ccccc-c-cCCCCCCCCChHHHHHHHHHHHHhC-CCHHHHHhh------------CCCCCHHHHHHHHHH
Q 036344 57 ----------RWLNY-L-RPNIKHGGFSEEEDNIICSLYISIG-SRWSIIAAQ------------LPGRTDNDIKNYWNT 111 (354)
Q Consensus 57 ----------RW~n~-L-~P~lkkg~WTeEED~~Llelv~~~G-~kWs~IAk~------------LpGRT~nqcKnRW~s 111 (354)
-|... + -+..++..+|+|||..|+-.+.+|| .+|..|-.. |..||+..+..|-++
T Consensus 903 ~~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~ 982 (1033)
T PLN03142 903 IGKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDT 982 (1033)
T ss_pred HHHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHH
Confidence 22110 0 0233445699999999999999999 579998443 258999999999999
Q ss_pred Hhhhh
Q 036344 112 RLKKK 116 (354)
Q Consensus 112 lLrkk 116 (354)
+++-.
T Consensus 983 l~~~~ 987 (1033)
T PLN03142 983 LIRLI 987 (1033)
T ss_pred HHHHH
Confidence 88765
No 42
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.67 E-value=0.22 Score=49.31 Aligned_cols=49 Identities=22% Similarity=0.270 Sum_probs=40.5
Q ss_pred CCCCChHHHHHHHHHHHHh----------CCCHHHHHhhC----CCCCHHHHHHHHHHHhhhh
Q 036344 68 HGGFSEEEDNIICSLYISI----------GSRWSIIAAQL----PGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~----------G~kWs~IAk~L----pGRT~nqcKnRW~slLrkk 116 (354)
...|+.+|-..||++..+. +.-|..||+.+ --||+.+||++|.++.++-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 4689999999999998653 34599999965 3499999999999987664
No 43
>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=92.54 E-value=0.35 Score=38.55 Aligned_cols=46 Identities=28% Similarity=0.522 Sum_probs=35.6
Q ss_pred CCChHHHHHHHHHHHHh---CC----------CHHHHHhhCC-----CCCHHHHHHHHHHHhhh
Q 036344 70 GFSEEEDNIICSLYISI---GS----------RWSIIAAQLP-----GRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 70 ~WTeEED~~Llelv~~~---G~----------kWs~IAk~Lp-----GRT~nqcKnRW~slLrk 115 (354)
.||+++++.|++++.+. |+ .|..|++.|. ..|..+|+|||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999999654 32 3999998872 35788999999876443
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=92.52 E-value=0.025 Score=51.91 Aligned_cols=51 Identities=22% Similarity=0.532 Sum_probs=40.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCC-----cceecccccccccCccccccccccccC
Q 036344 12 VKKGPWSPEEDAKLKAYIEQHGTGGN-----WIALPHKIGLKRCGKSCRLRWLNYLRP 64 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~k~G~~~n-----W~~IAk~lg~~Rt~kQCReRW~n~L~P 64 (354)
.+...||.|||.+|.+.|-.|+..+. ...++..|. |+...|..||+.+++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vrk 58 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVRK 58 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHHH
Confidence 56778999999999999999976322 455556654 9999999999777663
No 45
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=92.46 E-value=0.032 Score=55.82 Aligned_cols=48 Identities=23% Similarity=0.538 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCcccccccccccc
Q 036344 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLR 63 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~ 63 (354)
---|+..|+-+|++...-.|- ++|..||..+| .|+...|+++|.+++.
T Consensus 63 ~e~WgadEEllli~~~~TlGl-GNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGL-GNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCC-CcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 346999999999999999998 79999999999 9999999999999775
No 46
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=91.44 E-value=0.033 Score=43.41 Aligned_cols=50 Identities=26% Similarity=0.434 Sum_probs=39.3
Q ss_pred CCCCCCHHHHHHHHHHHHHh-----CC----------CCCcceecccc----cccccCccccccccccc
Q 036344 13 KKGPWSPEEDAKLKAYIEQH-----GT----------GGNWIALPHKI----GLKRCGKSCRLRWLNYL 62 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~-----G~----------~~nW~~IAk~l----g~~Rt~kQCReRW~n~L 62 (354)
++..||++|.+.|+++|.+| |. ...|..|+..+ +..|+..+++.+|.+..
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 35689999999999999987 31 13499998877 23689999999998753
No 47
>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=90.85 E-value=0.48 Score=41.03 Aligned_cols=52 Identities=29% Similarity=0.450 Sum_probs=41.3
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCC----CHHHHHhhC------------CCCCHHHHHHHHHHHhhhh
Q 036344 65 NIKHGGFSEEEDNIICSLYISIGS----RWSIIAAQL------------PGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 65 ~lkkg~WTeEED~~Llelv~~~G~----kWs~IAk~L------------pGRT~nqcKnRW~slLrkk 116 (354)
..++..||++||.-|+-.+.+||- .|..|-..+ ..||+..|..|-+.+++-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 456778999999999999999997 798886543 4799999999999988754
No 48
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=90.82 E-value=0.15 Score=52.31 Aligned_cols=52 Identities=25% Similarity=0.360 Sum_probs=45.9
Q ss_pred CCCCChHHHHHHHHHHHHhCCCHHHHHhh-----CCC-CCHHHHHHHHHHHhhhhhhc
Q 036344 68 HGGFSEEEDNIICSLYISIGSRWSIIAAQ-----LPG-RTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G~kWs~IAk~-----LpG-RT~nqcKnRW~slLrkk~~~ 119 (354)
...||.+|-.-|+++.+.|.-+|..||.. ++. ||-.++|.||..+.+..++.
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kA 187 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKA 187 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHc
Confidence 45699999999999999999999999965 655 99999999999998887654
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.30 E-value=0.59 Score=48.00 Aligned_cols=45 Identities=20% Similarity=0.266 Sum_probs=41.9
Q ss_pred CCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHh
Q 036344 69 GGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRL 113 (354)
Q Consensus 69 g~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slL 113 (354)
.+||.+|-++..++....|..++.||..||.|...|||.+|..--
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 479999999999999999999999999999999999999997543
No 50
>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=86.13 E-value=2.1 Score=30.70 Aligned_cols=42 Identities=26% Similarity=0.264 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 73 EEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 73 eEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
++++..++.++...|-.|.+||+.+ |.|...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4678889999999999999999999 89999999988765543
No 51
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=84.58 E-value=7.3 Score=43.26 Aligned_cols=55 Identities=11% Similarity=0.143 Sum_probs=44.4
Q ss_pred cccccccCCCC---CCCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHH
Q 036344 57 RWLNYLRPNIK---HGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111 (354)
Q Consensus 57 RW~n~L~P~lk---kg~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~s 111 (354)
||..|+--+.. ...||..|-.+.-+++..|-+.+-.|++.++++|-.+|-.+|..
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 45555443322 34799999999999999999999999999999999999776543
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=78.21 E-value=0.65 Score=45.98 Aligned_cols=47 Identities=28% Similarity=0.470 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----CCCcceecccc---cccccCcccccccccc
Q 036344 15 GPWSPEEDAKLKAYIEQH----GT----GGNWIALPHKI---GLKRCGKSCRLRWLNY 61 (354)
Q Consensus 15 G~WT~EEDe~L~~lV~k~----G~----~~nW~~IAk~l---g~~Rt~kQCReRW~n~ 61 (354)
..|+.+|-..|+++.... .. +..|..||+.+ |..|++.||+.+|.+.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 689999999999987532 11 13699999844 5679999999999774
No 53
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=77.37 E-value=5.3 Score=42.10 Aligned_cols=48 Identities=17% Similarity=0.290 Sum_probs=42.7
Q ss_pred CCCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 68 HGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
...||.||-.++-++...||++..+|-+.||.|+-..+..+|....+.
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 567999999999999999999999999999999999998887765444
No 54
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=75.58 E-value=1.2 Score=45.74 Aligned_cols=45 Identities=18% Similarity=0.285 Sum_probs=41.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccc
Q 036344 13 KKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLN 60 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n 60 (354)
.--+||.+|-+++.+++...|+ ++.-|+..+| +|..+|++.+|.+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt--dF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT--DFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc--hHHHHHHhcC-chhHHHHHHHHHH
Confidence 3458999999999999999998 8999999999 9999999998865
No 55
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=69.92 E-value=8.9 Score=33.64 Aligned_cols=46 Identities=13% Similarity=0.144 Sum_probs=39.9
Q ss_pred hHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhhhhc
Q 036344 73 EEEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 73 eEED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~ 119 (354)
.+-|.+|+++..+-|. .|+.||+.+ |-|...|+.|++.+....+..
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 3578889988888885 899999999 999999999999998877654
No 56
>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=68.54 E-value=4.9 Score=32.50 Aligned_cols=23 Identities=39% Similarity=0.819 Sum_probs=13.7
Q ss_pred CCCCCCCHHHHHHH--------HHHHHHhCC
Q 036344 12 VKKGPWSPEEDAKL--------KAYIEQHGT 34 (354)
Q Consensus 12 lkKG~WT~EEDe~L--------~~lV~k~G~ 34 (354)
-..|-||+|+|+.| ..++++||.
T Consensus 45 n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp T-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 44778999999999 456677874
No 57
>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=67.22 E-value=13 Score=26.29 Aligned_cols=38 Identities=21% Similarity=0.300 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHH
Q 036344 74 EEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNTR 112 (354)
Q Consensus 74 EED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~sl 112 (354)
+=|.+|+.+...-|. .|..||+.+ |=|...|..|++.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 457888888888886 799999999 99999999998764
No 58
>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=65.81 E-value=8 Score=35.09 Aligned_cols=42 Identities=24% Similarity=0.245 Sum_probs=36.5
Q ss_pred CCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 036344 70 GFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTR 112 (354)
Q Consensus 70 ~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~sl 112 (354)
.||+|+.++|.+|. .-|..=++||+.|.|.|.|+|.-+-+.+
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhcc
Confidence 59999999999988 4688999999999889999998776643
No 59
>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=65.74 E-value=17 Score=25.77 Aligned_cols=41 Identities=22% Similarity=0.265 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 74 EED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
+++..++.++-..|-.+.+||+.+ |-|...|+.+-+..+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 566677777766677999999999 88999999888776655
No 60
>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=65.09 E-value=16 Score=30.56 Aligned_cols=38 Identities=24% Similarity=0.223 Sum_probs=28.8
Q ss_pred HHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 77 NIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 77 ~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..++.+....|-.+.+||+.+ |.+...|+++.+..+++
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 344444444578999999998 89999999999876544
No 61
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=64.44 E-value=11 Score=33.55 Aligned_cols=46 Identities=9% Similarity=0.029 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhhhhc
Q 036344 73 EEEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 73 eEED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~ 119 (354)
.+-|.+|+.+..+-|. .|+.||+.+ |=+...|+.|++.+.+..+..
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 4568888888887775 899999999 999999999999998887654
No 62
>smart00595 MADF subfamily of SANT domain.
Probab=63.86 E-value=11 Score=29.51 Aligned_cols=26 Identities=23% Similarity=0.447 Sum_probs=22.0
Q ss_pred CHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 89 RWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 89 kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
-|..||..|.. |...|+.+|+++...
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~LR~~ 54 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHHHHH
Confidence 49999999944 999999999987544
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=63.02 E-value=5.8 Score=44.01 Aligned_cols=44 Identities=11% Similarity=0.290 Sum_probs=39.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccc
Q 036344 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLN 60 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n 60 (354)
..+||+.|-.++.+++-.|.. ++..|++.+. +++-+||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K--DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK--DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc--cHHHHHHHhc-cccHHHHHHHHHH
Confidence 457999999999999999987 8999999999 9999999987643
No 64
>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=58.45 E-value=5.6 Score=34.45 Aligned_cols=36 Identities=36% Similarity=0.508 Sum_probs=28.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC--CCCcceecccc
Q 036344 10 ANVKKGPWSPEEDAKLKAYIEQHGT--GGNWIALPHKI 45 (354)
Q Consensus 10 p~lkKG~WT~EEDe~L~~lV~k~G~--~~nW~~IAk~l 45 (354)
|+-++..||.+||.-|+-++.+||- .+.|..|-+.+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3667889999999999999999997 24798886655
No 65
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=56.00 E-value=17 Score=39.71 Aligned_cols=48 Identities=8% Similarity=0.390 Sum_probs=38.5
Q ss_pred CCCCChHHHHHHHHHHHHhCCCHHHHHhh----------CCCCCHHHHHHHHHHHhhh
Q 036344 68 HGGFSEEEDNIICSLYISIGSRWSIIAAQ----------LPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~G~kWs~IAk~----------LpGRT~nqcKnRW~slLrk 115 (354)
+..||-.|++-...+++++|+.+.+|-+. ..-+|-.+++.+|..++++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~ 145 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRR 145 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHH
Confidence 66899999999999999999999888332 2335777888888777665
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=55.82 E-value=24 Score=33.40 Aligned_cols=49 Identities=12% Similarity=0.169 Sum_probs=38.9
Q ss_pred CCChHHHHHHHHHHHHhCCCHHHHHhhC---CCCCHHHHHHHHHHHhhhhhhc
Q 036344 70 GFSEEEDNIICSLYISIGSRWSIIAAQL---PGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 70 ~WTeEED~~Llelv~~~G~kWs~IAk~L---pGRT~nqcKnRW~slLrkk~~~ 119 (354)
.|++++|..|+.+|. .|+.-..|++-+ -.-|-..|..||..+|--....
T Consensus 1 rW~~~DDl~Li~av~-~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is 52 (199)
T PF13325_consen 1 RWKPEDDLLLINAVE-QTNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVIS 52 (199)
T ss_pred CCCchhhHHHHHHHH-HhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhH
Confidence 499999999999886 577788887654 3458899999999998765443
No 67
>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=55.64 E-value=41 Score=34.15 Aligned_cols=49 Identities=20% Similarity=0.392 Sum_probs=39.0
Q ss_pred CCCCChHHHHHHHHHHHHh-CC---CHHHHHhhCCCCCHHHHHHHHHHHhhhh
Q 036344 68 HGGFSEEEDNIICSLYISI-GS---RWSIIAAQLPGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 68 kg~WTeEED~~Llelv~~~-G~---kWs~IAk~LpGRT~nqcKnRW~slLrkk 116 (354)
-..||.-|...|+.+.+.. |. .-.+|++.++||+..+|++.-..+..+.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 3479999999999888754 54 4578999999999999999776655443
No 68
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=55.20 E-value=23 Score=29.52 Aligned_cols=47 Identities=21% Similarity=0.207 Sum_probs=31.4
Q ss_pred CCCChHHHHHHHHHHHHh----CC----CHHHHHhh----CC-CCCHHHHHHHHHHHhhh
Q 036344 69 GGFSEEEDNIICSLYISI----GS----RWSIIAAQ----LP-GRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 69 g~WTeEED~~Llelv~~~----G~----kWs~IAk~----Lp-GRT~nqcKnRW~slLrk 115 (354)
.-||+++|..||+.+..| |. .|...-.. |. .=+.+|+.++-+.+.++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 359999999999999877 62 45444333 32 22667777777664443
No 69
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=50.57 E-value=15 Score=39.73 Aligned_cols=45 Identities=20% Similarity=0.355 Sum_probs=41.5
Q ss_pred CCCCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHH
Q 036344 67 KHGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111 (354)
Q Consensus 67 kkg~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~s 111 (354)
..+.|+.+|-++........|.+.+.|+..+|+|...+||.++..
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 456899999999999999999999999999999999999998753
No 70
>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=48.67 E-value=41 Score=27.16 Aligned_cols=36 Identities=25% Similarity=0.216 Sum_probs=26.1
Q ss_pred HHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 79 ICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 79 Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
++.++...|..+..||+.+ |=+...|+++.+..+++
T Consensus 118 ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 118 VLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344444578899999999 66888888888775544
No 71
>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=47.48 E-value=21 Score=27.09 Aligned_cols=27 Identities=26% Similarity=0.465 Sum_probs=21.7
Q ss_pred CHHHHHhhCCC-CCHHHHHHHHHHHhhh
Q 036344 89 RWSIIAAQLPG-RTDNDIKNYWNTRLKK 115 (354)
Q Consensus 89 kWs~IAk~LpG-RT~nqcKnRW~slLrk 115 (354)
-|..||..|.. -+...|+.+|+++...
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 49999999953 5778999999986543
No 72
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=46.61 E-value=45 Score=28.56 Aligned_cols=34 Identities=15% Similarity=0.087 Sum_probs=25.7
Q ss_pred HHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 81 SLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 81 elv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.+....|-.+..||+.| |.+...|+++....+++
T Consensus 138 ~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 138 TLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 88999999887754443
No 73
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=45.96 E-value=45 Score=30.00 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 036344 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLK 114 (354)
Q Consensus 74 EED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLr 114 (354)
++...++++..-.|-.+.+||+.| |-+...|+.+|.....
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 344555555556688999999999 9999999999987643
No 74
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=44.25 E-value=40 Score=34.99 Aligned_cols=42 Identities=21% Similarity=0.336 Sum_probs=38.0
Q ss_pred CCCChHHHHHHHHHHHHhCCCHHHHH-hhCCCCCHHHHHHHHH
Q 036344 69 GGFSEEEDNIICSLYISIGSRWSIIA-AQLPGRTDNDIKNYWN 110 (354)
Q Consensus 69 g~WTeEED~~Llelv~~~G~kWs~IA-k~LpGRT~nqcKnRW~ 110 (354)
..|+++|-...-+.++.||+.+..|- .+++.|+--.|-.+|.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHH
Confidence 47999999999999999999999995 5789999999987764
No 75
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=43.67 E-value=56 Score=26.36 Aligned_cols=45 Identities=13% Similarity=0.103 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhhhhc
Q 036344 74 EEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 74 EED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~ 119 (354)
+.|..|+.+....|. .++.||+.+ |-+...|+.+.+.+.+..+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 568888888888775 899999999 999999999999988876544
No 76
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=43.31 E-value=52 Score=28.06 Aligned_cols=30 Identities=20% Similarity=0.156 Sum_probs=24.1
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.+..||+.| |-|...|++++...+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4577899999999 88899999988765444
No 77
>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=43.20 E-value=64 Score=25.57 Aligned_cols=37 Identities=16% Similarity=0.322 Sum_probs=26.5
Q ss_pred HHHHHHHHhCC--------CHHHHHhhCCC---CC--HHHHHHHHHHHhh
Q 036344 78 IICSLYISIGS--------RWSIIAAQLPG---RT--DNDIKNYWNTRLK 114 (354)
Q Consensus 78 ~Llelv~~~G~--------kWs~IAk~LpG---RT--~nqcKnRW~slLr 114 (354)
.|..+|.+.|. +|..||+.|.- -+ ..++|..|..+|.
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 47777777774 69999999832 22 3578888887764
No 78
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=42.56 E-value=16 Score=39.82 Aligned_cols=47 Identities=15% Similarity=0.283 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCcceecccccccc---------cCccccccccccc
Q 036344 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKR---------CGKSCRLRWLNYL 62 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~R---------t~kQCReRW~n~L 62 (354)
|..||-.|.+-+..+++++|. ++.+|-..+-..| +-.|.|.+|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK--dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK--DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc--cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 668999999999999999997 8988843332123 3345677666544
No 79
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=42.35 E-value=56 Score=29.26 Aligned_cols=34 Identities=15% Similarity=0.043 Sum_probs=26.0
Q ss_pred HHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 81 SLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 81 elv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.+....|....+||..+ |-+...||+|+...+++
T Consensus 144 ~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 144 VAVDMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33344577899999999 89999999998655443
No 80
>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=41.78 E-value=84 Score=20.80 Aligned_cols=37 Identities=16% Similarity=0.241 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 036344 75 EDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTR 112 (354)
Q Consensus 75 ED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~sl 112 (354)
++..++.++..-|-.+..||+.+ |=+...|+.+.+..
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 45566666666788999999998 67777777666543
No 81
>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=41.72 E-value=14 Score=29.81 Aligned_cols=18 Identities=28% Similarity=0.527 Sum_probs=10.6
Q ss_pred CCCCCCCCChHHHHHHHH
Q 036344 64 PNIKHGGFSEEEDNIICS 81 (354)
Q Consensus 64 P~lkkg~WTeEED~~Lle 81 (354)
|....|-||+++|+.|..
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 566788999999999943
No 82
>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=40.31 E-value=6.8 Score=27.78 Aligned_cols=38 Identities=21% Similarity=0.369 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHhCCCCCcceecccccccccCccccccccc
Q 036344 20 EEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLN 60 (354)
Q Consensus 20 EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n 60 (354)
+=|.+|+.++...|. ..|.+||+.+| =+...|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r-~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGR-RSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TT-S-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCC-ccHHHHHHHHC--cCHHHHHHHHHH
Confidence 458899999999998 79999999998 566778777643
No 83
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=38.97 E-value=66 Score=27.98 Aligned_cols=30 Identities=10% Similarity=-0.058 Sum_probs=23.8
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
-.|..+.+||..| |-|...|+++.....++
T Consensus 150 ~~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 150 IEDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 88899999887765443
No 84
>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=38.90 E-value=48 Score=26.95 Aligned_cols=29 Identities=28% Similarity=0.547 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHH
Q 036344 76 DNIICSLYISIGSRWSIIAAQLPGRTDNDI 105 (354)
Q Consensus 76 D~~Llelv~~~G~kWs~IAk~LpGRT~nqc 105 (354)
|+.|..+....|..|..+|.+| |=|..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678889999999999999999 5555544
No 85
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=37.71 E-value=19 Score=37.43 Aligned_cols=49 Identities=14% Similarity=0.278 Sum_probs=41.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCcceeccc-----ccccccCccccccccccc
Q 036344 12 VKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHK-----IGLKRCGKSCRLRWLNYL 62 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~-----lg~~Rt~kQCReRW~n~L 62 (354)
++-..||.||.+-|+++...|-- .|.-||.+ .+..||-...++||+...
T Consensus 128 l~dn~WskeETD~LF~lck~fDL--Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDL--RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCe--eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 44577999999999999999986 89999988 675599999999997654
No 86
>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=37.51 E-value=57 Score=26.52 Aligned_cols=30 Identities=20% Similarity=0.359 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHHH
Q 036344 76 DNIICSLYISIGSRWSIIAAQLPGRTDNDIK 106 (354)
Q Consensus 76 D~~Llelv~~~G~kWs~IAk~LpGRT~nqcK 106 (354)
|.+|..+....|..|..+|+.| |=+...|.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~ 33 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEIN 33 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHH
Confidence 6678888899999999999999 55555543
No 87
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=37.11 E-value=3.5e+02 Score=28.46 Aligned_cols=79 Identities=22% Similarity=0.291 Sum_probs=48.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHHHHHh
Q 036344 7 CDKANVKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSLYISI 86 (354)
Q Consensus 7 ~~Kp~lkKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llelv~~~ 86 (354)
.|+.+...|.|+++=|+-..++++.|-.-+.=+.|-..-| +-|
T Consensus 69 ~D~~~daegvWSpdIEqsFqEALaiyppcGrrKIilsdeg-------------------------------------kmy 111 (455)
T KOG3841|consen 69 TDNQRDAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEG-------------------------------------KMY 111 (455)
T ss_pred CccccccccccChhHHHHHHHHHhhcCCCCceeEEEccCc-------------------------------------ccc
Confidence 3444566899999999999999998865222222211111 012
Q ss_pred CCCHHHHHhhC-----CCCCHHHHHHHHHHHhhhhhhchhhh
Q 036344 87 GSRWSIIAAQL-----PGRTDNDIKNYWNTRLKKKLLGKQRK 123 (354)
Q Consensus 87 G~kWs~IAk~L-----pGRT~nqcKnRW~slLrkk~~~k~~k 123 (354)
| +=..||+++ ..||..||-.|-..+-|++.+..+.+
T Consensus 112 G-RNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~k 152 (455)
T KOG3841|consen 112 G-RNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAK 152 (455)
T ss_pred c-hHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhh
Confidence 2 123444443 36899999999887777766554443
No 88
>PRK04217 hypothetical protein; Provisional
Probab=37.08 E-value=84 Score=26.97 Aligned_cols=44 Identities=16% Similarity=0.003 Sum_probs=35.6
Q ss_pred CCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 70 GFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 70 ~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.-|.+| ..++.+....|-...+||+.+ |-+...|+.+++...++
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 455555 677788877888999999999 99999999999865444
No 89
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=35.81 E-value=89 Score=25.09 Aligned_cols=38 Identities=18% Similarity=0.303 Sum_probs=26.9
Q ss_pred HHHHHHHHhCC--------CHHHHHhhCCCC-----CHHHHHHHHHHHhhh
Q 036344 78 IICSLYISIGS--------RWSIIAAQLPGR-----TDNDIKNYWNTRLKK 115 (354)
Q Consensus 78 ~Llelv~~~G~--------kWs~IAk~LpGR-----T~nqcKnRW~slLrk 115 (354)
+|..+|.+.|. .|..||+.|.-. ....+|..|...|..
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 46667777763 799999998322 356788888777654
No 90
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=35.67 E-value=83 Score=23.48 Aligned_cols=36 Identities=17% Similarity=0.364 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHH
Q 036344 73 EEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYW 109 (354)
Q Consensus 73 eEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW 109 (354)
.++|+..+.+..+.|-+-.+||+.+ ||+.+.|+++-
T Consensus 6 t~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 6 TDAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp -HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred CHHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 3556677788888999999999999 99999988764
No 91
>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=35.37 E-value=83 Score=27.16 Aligned_cols=30 Identities=23% Similarity=0.313 Sum_probs=23.4
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-+..+||..| |-|...|++++...+++
T Consensus 133 ~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 133 YHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466788999888 77999999988766554
No 92
>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=35.03 E-value=48 Score=26.34 Aligned_cols=30 Identities=30% Similarity=0.579 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHHH
Q 036344 76 DNIICSLYISIGSRWSIIAAQLPGRTDNDIK 106 (354)
Q Consensus 76 D~~Llelv~~~G~kWs~IAk~LpGRT~nqcK 106 (354)
|..|..+....|..|.++|+.| |=+..+|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 4567788889999999999999 55555543
No 93
>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=35.01 E-value=21 Score=32.44 Aligned_cols=33 Identities=18% Similarity=0.465 Sum_probs=26.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcceeccccc-ccccC
Q 036344 16 PWSPEEDAKLKAYIEQHGTGGNWIALPHKIG-LKRCG 51 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg-~~Rt~ 51 (354)
.||+|+.++|.+|... |. .=.+||+.|| ..|+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~--SasqIA~~lg~vsRnA 35 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL--SASQIARQLGGVSRNA 35 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC--CHHHHHHHhCCcchhh
Confidence 5999999999998844 54 7899999999 55554
No 94
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=34.78 E-value=77 Score=27.55 Aligned_cols=29 Identities=10% Similarity=-0.040 Sum_probs=22.7
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|..-.+||..| |-+...|+++....+++
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999998 88899999988765444
No 95
>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=34.38 E-value=68 Score=27.98 Aligned_cols=29 Identities=10% Similarity=0.027 Sum_probs=23.1
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-...+||..+ |=|...||++....+++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 366789999999 78899999988765544
No 96
>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=34.18 E-value=83 Score=32.05 Aligned_cols=87 Identities=18% Similarity=0.355 Sum_probs=60.9
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC-CCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHHHHH-h----
Q 036344 14 KGPWSPEEDAKLKAYIEQH-GT-GGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSLYIS-I---- 86 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~-G~-~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llelv~~-~---- 86 (354)
-..||.-|...|+.+.... |. ..+-.+|++.++ +|+...+++ +.+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 4579999999999988765 42 234457777788 888877776 333333 3345555554 2
Q ss_pred -CCC------------HHHHHhhCCCCCHHHHHHHHHHHhh
Q 036344 87 -GSR------------WSIIAAQLPGRTDNDIKNYWNTRLK 114 (354)
Q Consensus 87 -G~k------------Ws~IAk~LpGRT~nqcKnRW~slLr 114 (354)
|.+ |..+|+.+.|.-...+-.-|-.+|-
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 221 9999999999999999888876654
No 97
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=33.83 E-value=13 Score=32.68 Aligned_cols=44 Identities=9% Similarity=0.126 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCC
Q 036344 19 PEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPN 65 (354)
Q Consensus 19 ~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~ 65 (354)
.+-|.+|++++.+.|. ..|.+||+.+| -+...|+.|+.+..+-.
T Consensus 8 D~~D~~Il~~Lq~d~R-~s~~eiA~~lg--lS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 8 DNLDRGILEALMENAR-TPYAELAKQFG--VSPGTIHVRVEKMKQAG 51 (153)
T ss_pred CHHHHHHHHHHHHcCC-CCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 4679999999999998 79999999997 77788999987765543
No 98
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=33.67 E-value=1.1e+02 Score=25.97 Aligned_cols=30 Identities=13% Similarity=0.081 Sum_probs=24.1
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.-.+||..| |-+...||++....+++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 120 WEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467889999999 88999999988765544
No 99
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=33.17 E-value=94 Score=27.64 Aligned_cols=30 Identities=23% Similarity=0.077 Sum_probs=23.6
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-+..+||+.| |-+...|+++....+++
T Consensus 120 ~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 120 LEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3577899999999 88899999988655443
No 100
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=32.83 E-value=1e+02 Score=26.61 Aligned_cols=30 Identities=27% Similarity=0.283 Sum_probs=23.7
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
-.|-.-.+||..| |.+...||.|.+..+++
T Consensus 132 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 132 YRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466789999999 88999999988765544
No 101
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=32.20 E-value=92 Score=27.48 Aligned_cols=29 Identities=10% Similarity=0.026 Sum_probs=22.8
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-...+||..| |-|...|+++....+++
T Consensus 153 ~g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 153 DGLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999998 88899999988765544
No 102
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=32.06 E-value=11 Score=33.50 Aligned_cols=44 Identities=16% Similarity=0.239 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCC
Q 036344 19 PEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPN 65 (354)
Q Consensus 19 ~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~ 65 (354)
.+-|.+|+.++.+.|. ..|.+||+.+| -+...|+.|+.+..+-.
T Consensus 13 D~~D~~IL~~Lq~d~R-~s~~eiA~~lg--lS~~tv~~Ri~rL~~~G 56 (164)
T PRK11169 13 DRIDRNILNELQKDGR-ISNVELSKRVG--LSPTPCLERVRRLERQG 56 (164)
T ss_pred HHHHHHHHHHhccCCC-CCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 5679999999999998 79999999998 66778999987765543
No 103
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=31.89 E-value=1.1e+02 Score=27.01 Aligned_cols=30 Identities=17% Similarity=0.195 Sum_probs=23.8
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|....+||..| |-+...|+.+.+..+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4477899999999 88899999887765544
No 104
>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=31.85 E-value=55 Score=26.22 Aligned_cols=33 Identities=27% Similarity=0.426 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 036344 73 EEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKN 107 (354)
Q Consensus 73 eEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKn 107 (354)
.||.++|+..= ..|.+|..+|..| |=++..|++
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888888422 5788999999999 767777655
No 105
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=31.79 E-value=1.1e+02 Score=26.54 Aligned_cols=37 Identities=19% Similarity=0.198 Sum_probs=27.5
Q ss_pred HHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhh
Q 036344 79 ICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 79 Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk 116 (354)
++.+....|-...+||..+ |-+...||.+-...+++.
T Consensus 127 v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 127 AFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334444577899999999 999999999877665553
No 106
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=31.71 E-value=1.1e+02 Score=27.04 Aligned_cols=30 Identities=13% Similarity=0.046 Sum_probs=24.0
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-...+||..| |-|...|++++...+++
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3567889999999 88999999998765544
No 107
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=31.55 E-value=1.1e+02 Score=26.76 Aligned_cols=30 Identities=17% Similarity=0.180 Sum_probs=23.4
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|....+||..| |-+...|+.+....+++
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3467789999998 88889999888765544
No 108
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=31.34 E-value=1.2e+02 Score=25.87 Aligned_cols=30 Identities=13% Similarity=-0.109 Sum_probs=23.8
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.-.+||+.| |-+...||+|....+++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4577889999999 99999999987755443
No 109
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=30.91 E-value=1.2e+02 Score=26.76 Aligned_cols=32 Identities=19% Similarity=0.083 Sum_probs=26.2
Q ss_pred HHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhh
Q 036344 84 ISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 84 ~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk 116 (354)
...|-...+||..| |-+...||.|....+++.
T Consensus 140 ~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~ 171 (178)
T PRK12529 140 TLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTC 171 (178)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34577899999999 999999999988766554
No 110
>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=30.40 E-value=1.2e+02 Score=27.06 Aligned_cols=34 Identities=9% Similarity=-0.007 Sum_probs=25.8
Q ss_pred HHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 81 SLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 81 elv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.+....|....+||..| |-+.+.||.|....+++
T Consensus 141 ~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 141 MMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 99999999987765544
No 111
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=29.81 E-value=1.1e+02 Score=25.91 Aligned_cols=46 Identities=11% Similarity=0.102 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhhhhc
Q 036344 73 EEEDNIICSLYISIGS-RWSIIAAQLPGRTDNDIKNYWNTRLKKKLLG 119 (354)
Q Consensus 73 eEED~~Llelv~~~G~-kWs~IAk~LpGRT~nqcKnRW~slLrkk~~~ 119 (354)
.+-|.+|+++.+.-|. .+..||+.+ |-+...|.+|-+.+.+..+..
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 3557788888877775 799999999 899999999999998876543
No 112
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=29.69 E-value=1.2e+02 Score=27.04 Aligned_cols=30 Identities=3% Similarity=-0.052 Sum_probs=24.2
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-...+||..| |-+...||.|....+++
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 148 YLELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 99999999987655443
No 113
>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=29.08 E-value=1.5e+02 Score=25.41 Aligned_cols=48 Identities=19% Similarity=0.358 Sum_probs=33.8
Q ss_pred CCChHHHHHHHHHHHHh------------CCC-------------------HHHHHhhCCCCCHHHHHHHHHHHhhhhh
Q 036344 70 GFSEEEDNIICSLYISI------------GSR-------------------WSIIAAQLPGRTDNDIKNYWNTRLKKKL 117 (354)
Q Consensus 70 ~WTeEED~~Llelv~~~------------G~k-------------------Ws~IAk~LpGRT~nqcKnRW~slLrkk~ 117 (354)
.||.+||..|+..+.++ |.. ....+...|..|.++=|+||+..+..-.
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~~g 79 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSEYG 79 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHHH-
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHHcC
Confidence 48999999999999754 111 4667788899999999999988776643
No 114
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=29.01 E-value=1.3e+02 Score=26.84 Aligned_cols=30 Identities=10% Similarity=-0.010 Sum_probs=23.2
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-...+||..| |-+...||.|.+..+++
T Consensus 155 ~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 155 LEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 3467789999988 88999999887665544
No 115
>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=28.83 E-value=84 Score=25.30 Aligned_cols=25 Identities=24% Similarity=0.565 Sum_probs=20.0
Q ss_pred HHHHHhCCCHHHHHhhCCCCCHHHHH
Q 036344 81 SLYISIGSRWSIIAAQLPGRTDNDIK 106 (354)
Q Consensus 81 elv~~~G~kWs~IAk~LpGRT~nqcK 106 (354)
.+....|.+|..+|+.| |=++.+|.
T Consensus 12 ~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 12 VFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 35577899999999999 77777663
No 116
>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]
Probab=26.71 E-value=23 Score=33.85 Aligned_cols=27 Identities=26% Similarity=0.555 Sum_probs=20.8
Q ss_pred ccccCCCCCccccccccceec-cCcchhhh
Q 036344 265 MSQGLANFPFEQLNDQYVAYT-NNHQQLEE 293 (354)
Q Consensus 265 ~~~~~~~~~~~~~~~~~~~~~-~n~~~~~~ 293 (354)
+-+||++||+.|+-+ +.|| -|.+-|.|
T Consensus 94 lprgfgs~p~levld--ltynnl~e~~lpg 121 (264)
T KOG0617|consen 94 LPRGFGSFPALEVLD--LTYNNLNENSLPG 121 (264)
T ss_pred CccccCCCchhhhhh--ccccccccccCCc
Confidence 349999999988888 8885 34566666
No 117
>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=26.43 E-value=96 Score=25.00 Aligned_cols=31 Identities=19% Similarity=0.421 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 036344 76 DNIICSLYISIGSRWSIIAAQLPGRTDNDIKN 107 (354)
Q Consensus 76 D~~Llelv~~~G~kWs~IAk~LpGRT~nqcKn 107 (354)
|..|-.+....|.+|..+|+.| |=+...|.+
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778888999999999999 666666544
No 118
>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=26.09 E-value=92 Score=24.16 Aligned_cols=30 Identities=23% Similarity=0.434 Sum_probs=21.8
Q ss_pred HHHHHHHHHHH-hCCCHHHHHhhCCCCCHHHH
Q 036344 75 EDNIICSLYIS-IGSRWSIIAAQLPGRTDNDI 105 (354)
Q Consensus 75 ED~~Llelv~~-~G~kWs~IAk~LpGRT~nqc 105 (354)
-.+.|..+... .|.+|..+|+.|. =+...|
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~Lg-~~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKLG-LSEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHcC-CCHHHH
Confidence 34566777777 8999999999994 345444
No 119
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=26.01 E-value=1.5e+02 Score=26.42 Aligned_cols=30 Identities=10% Similarity=-0.048 Sum_probs=23.0
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.+.+||+.| |=+...|+++-...+++
T Consensus 150 ~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 150 IEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3567899999998 88888888887655443
No 120
>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=25.65 E-value=1.7e+02 Score=25.49 Aligned_cols=29 Identities=21% Similarity=0.210 Sum_probs=23.0
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-...+||..| |-+...||.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 466789999999 89999999988765443
No 121
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=25.53 E-value=1.6e+02 Score=25.63 Aligned_cols=29 Identities=17% Similarity=0.232 Sum_probs=23.1
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-.-.+||+.| |.+...||++....+++
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 366789999999 99999999988765444
No 122
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=25.38 E-value=1.7e+02 Score=24.52 Aligned_cols=29 Identities=21% Similarity=0.258 Sum_probs=21.5
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-...+||+.+ |-+...|+++-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456788888888 88888888876655443
No 123
>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=25.26 E-value=1.7e+02 Score=24.95 Aligned_cols=29 Identities=24% Similarity=0.229 Sum_probs=21.7
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-+-.+||+.| |-+...|+++-...+++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366788999988 88888888877654443
No 124
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=25.25 E-value=1.4e+02 Score=26.01 Aligned_cols=30 Identities=27% Similarity=0.324 Sum_probs=24.6
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKKK 116 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk 116 (354)
.|-...+||+.+ |-+...|+++....++.-
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~~ 163 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEHC 163 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 999999999987766553
No 125
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=25.23 E-value=1.6e+02 Score=25.77 Aligned_cols=31 Identities=19% Similarity=0.069 Sum_probs=24.6
Q ss_pred HHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 84 ISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 84 ~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
...|-+..+||+.| |.+...|+++-...+++
T Consensus 142 ~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 142 KLEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34577899999999 99999999987765444
No 126
>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=24.99 E-value=1.6e+02 Score=26.44 Aligned_cols=46 Identities=20% Similarity=0.159 Sum_probs=37.6
Q ss_pred CCCCCChHHHHHHHHHHHHhCCCHHHHHhhCC----CCCHHHHHHHHHHH
Q 036344 67 KHGGFSEEEDNIICSLYISIGSRWSIIAAQLP----GRTDNDIKNYWNTR 112 (354)
Q Consensus 67 kkg~WTeEED~~Llelv~~~G~kWs~IAk~Lp----GRT~nqcKnRW~sl 112 (354)
....-|+.|...|..|+.+||.++..+|.-.. =.|..+|+.+.+..
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34568999999999999999999999997643 37888888876554
No 127
>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=24.62 E-value=61 Score=27.27 Aligned_cols=28 Identities=18% Similarity=0.071 Sum_probs=23.0
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 87 GSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 87 G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
|-.+.+||..| |=+...|++++....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55799999998 88899999998766544
No 128
>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=24.46 E-value=1.1e+02 Score=24.77 Aligned_cols=34 Identities=24% Similarity=0.228 Sum_probs=24.1
Q ss_pred HHHHHHHHHhCCCHHHHHhhCC--CCCHHHHHHHHH
Q 036344 77 NIICSLYISIGSRWSIIAAQLP--GRTDNDIKNYWN 110 (354)
Q Consensus 77 ~~Llelv~~~G~kWs~IAk~Lp--GRT~nqcKnRW~ 110 (354)
..|..+....|..|..+|++|. ...-..|+.++.
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~LGlse~~Id~Ie~~~~ 38 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHLGLSYRELQRIKYNNR 38 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHcCCCHHHHHHHHHHCc
Confidence 4578888999999999999982 222234555553
No 129
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=24.41 E-value=1.6e+02 Score=26.11 Aligned_cols=30 Identities=10% Similarity=0.082 Sum_probs=23.7
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.-.+||..| |-+...||.+....+++
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 179 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRARES 179 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4577789999999 89999999888765444
No 130
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=24.39 E-value=1.8e+02 Score=26.90 Aligned_cols=47 Identities=19% Similarity=0.137 Sum_probs=39.1
Q ss_pred CCCChHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhhhh
Q 036344 69 GGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKKKLL 118 (354)
Q Consensus 69 g~WTeEED~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrkk~~ 118 (354)
...|+.|-+.|.-+. -|-.=.+||..| +.+...||+|..++++|.-.
T Consensus 147 ~~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~i~~KL~v 193 (211)
T COG2197 147 ELLTPRELEVLRLLA--EGLSNKEIAEEL-NLSEKTVKTHVSNILRKLGV 193 (211)
T ss_pred CCCCHHHHHHHHHHH--CCCCHHHHHHHH-CCCHhHHHHHHHHHHHHcCC
Confidence 368888888876655 576779999999 99999999999999988543
No 131
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=24.34 E-value=1.6e+02 Score=26.13 Aligned_cols=29 Identities=17% Similarity=0.134 Sum_probs=23.6
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-.-.+||..| |-+...||.+....+++
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 89999999998765544
No 132
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=23.85 E-value=2e+02 Score=24.48 Aligned_cols=29 Identities=21% Similarity=0.213 Sum_probs=22.1
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-.=.+||..| |-+...|+.|....++.
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 355678999998 88899999887655444
No 133
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=23.77 E-value=2e+02 Score=24.59 Aligned_cols=31 Identities=26% Similarity=0.322 Sum_probs=24.0
Q ss_pred HHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 84 ISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 84 ~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.-.|-...+||..+ |-+...|+.|....++.
T Consensus 126 ~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 126 QVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34577889999999 88889999887765443
No 134
>PLN03162 golden-2 like transcription factor; Provisional
Probab=23.72 E-value=6.7e+02 Score=26.47 Aligned_cols=44 Identities=14% Similarity=0.020 Sum_probs=36.0
Q ss_pred CCCChHHHHHHHHHHHHhCC---CHHHHHhhC--CCCCHHHHHHHHHHH
Q 036344 69 GGFSEEEDNIICSLYISIGS---RWSIIAAQL--PGRTDNDIKNYWNTR 112 (354)
Q Consensus 69 g~WTeEED~~Llelv~~~G~---kWs~IAk~L--pGRT~nqcKnRW~sl 112 (354)
-.||+|=.++.+++|.++|. .=+.|-+.+ +|=|...||.|..++
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKY 286 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKY 286 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 46999999999999999994 246666655 889999999987544
No 135
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=23.19 E-value=1.7e+02 Score=25.63 Aligned_cols=29 Identities=10% Similarity=0.010 Sum_probs=20.4
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-...+||+.+ |-+...|+++.+..+++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 466778888887 77888888876654433
No 136
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=22.77 E-value=2e+02 Score=25.15 Aligned_cols=29 Identities=21% Similarity=0.129 Sum_probs=22.5
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-+=.+||..+ |-|...|+.+.+..+++
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 355778999998 88899999887765544
No 137
>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=22.62 E-value=2e+02 Score=24.97 Aligned_cols=30 Identities=17% Similarity=0.429 Sum_probs=22.8
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-...+||..| |-|...|+.+....+++
T Consensus 154 ~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 154 LEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3566788888888 88888888887765544
No 138
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=22.51 E-value=2e+02 Score=25.32 Aligned_cols=30 Identities=13% Similarity=0.305 Sum_probs=23.6
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-+-.+||..| |-+...||++....+++
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3567889999999 89999999987655443
No 139
>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=22.09 E-value=2e+02 Score=24.44 Aligned_cols=39 Identities=15% Similarity=0.136 Sum_probs=27.3
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 76 DNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 76 D~~Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
+..++.+....|-+=.+||..| |-+...||++....+++
T Consensus 115 ~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 115 QRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3344444444566788899888 88899999888765544
No 140
>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=21.81 E-value=1.2e+02 Score=24.63 Aligned_cols=34 Identities=18% Similarity=0.236 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhCCCHHHHHhhC--CCCCHHHHHHHH
Q 036344 76 DNIICSLYISIGSRWSIIAAQL--PGRTDNDIKNYW 109 (354)
Q Consensus 76 D~~Llelv~~~G~kWs~IAk~L--pGRT~nqcKnRW 109 (354)
|.+|..+....|..|..+|+.| +...-..|+..+
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L~vs~~dI~~I~~e~ 39 (84)
T cd08805 4 EMKMAVIREHLGLSWAELARELQFSVEDINRIRVEN 39 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHcCCCHHHHHHHHHhC
Confidence 5677788889999999999998 233333444443
No 141
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=21.56 E-value=2.3e+02 Score=24.45 Aligned_cols=30 Identities=20% Similarity=0.131 Sum_probs=22.9
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.-.+||..+ |-+...|+++-...+++
T Consensus 126 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 126 ASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466789999998 88888998887655443
No 142
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=21.51 E-value=2.1e+02 Score=25.60 Aligned_cols=36 Identities=19% Similarity=0.078 Sum_probs=25.9
Q ss_pred HHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 79 ICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 79 Llelv~~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
++.|....|-...+||+.| |-+...||.|-...+++
T Consensus 124 i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 124 AIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3333344577899999999 88899999887655443
No 143
>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=20.58 E-value=1.9e+02 Score=27.86 Aligned_cols=30 Identities=17% Similarity=0.182 Sum_probs=24.1
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 85 ~~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
..|-.-.+||+.| |.+...||+|....+++
T Consensus 156 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 185 (324)
T TIGR02960 156 VLGWRAAETAELL-GTSTASVNSALQRARAT 185 (324)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3567889999999 99999999987765444
No 144
>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=20.46 E-value=1.3e+02 Score=24.40 Aligned_cols=29 Identities=28% Similarity=0.510 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 036344 78 IICSLYISIGSRWSIIAAQLPGRTDNDIKN 107 (354)
Q Consensus 78 ~Llelv~~~G~kWs~IAk~LpGRT~nqcKn 107 (354)
.|-.+....|.+|..+|+.| |=++.+|+.
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 34455577899999999999 777777755
No 145
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=20.33 E-value=2.3e+02 Score=24.96 Aligned_cols=29 Identities=10% Similarity=-0.049 Sum_probs=22.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 036344 86 IGSRWSIIAAQLPGRTDNDIKNYWNTRLKK 115 (354)
Q Consensus 86 ~G~kWs~IAk~LpGRT~nqcKnRW~slLrk 115 (354)
.|-.-.+||..| |-+...||+|....+++
T Consensus 146 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 146 LELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466778999988 88999999988765554
No 146
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=20.07 E-value=1e+02 Score=36.54 Aligned_cols=75 Identities=17% Similarity=0.192 Sum_probs=47.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCcceecccccccccCccccccccccccCCCCCCCCChHHHHHHHHHHHHh-CCCHH
Q 036344 13 KKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSEEEDNIICSLYISI-GSRWS 91 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~k~G~~~nW~~IAk~lg~~Rt~kQCReRW~n~L~P~lkkg~WTeEED~~Llelv~~~-G~kWs 91 (354)
.-.-|..++|..|+-.|-+||- ++|.+|-.- +.-|-.. ...+.-.+..+.|=...-..|+.+.... +.+|.
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGy-gswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~ 1203 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGY-GSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTP 1203 (1373)
T ss_pred cccCCCchhhhhHhhhhhhccc-ccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCc
Confidence 4567999999999999999999 799988311 1112111 1111112445566677777777777766 55565
Q ss_pred HHHh
Q 036344 92 IIAA 95 (354)
Q Consensus 92 ~IAk 95 (354)
..++
T Consensus 1204 ~~~~ 1207 (1373)
T KOG0384|consen 1204 KKLK 1207 (1373)
T ss_pred hhhh
Confidence 5443
Done!