Query 019619
Match_columns 338
No_of_seqs 211 out of 1425
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 03:12:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019619.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019619hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 100.0 1.6E-33 3.4E-38 263.2 10.1 113 21-133 3-115 (238)
2 PLN03212 Transcription repress 100.0 8.4E-33 1.8E-37 257.5 10.7 114 21-134 19-132 (249)
3 PLN03091 hypothetical protein; 100.0 1.1E-31 2.4E-36 266.0 12.3 113 21-133 8-120 (459)
4 KOG0049 Transcription factor, 99.8 1.3E-18 2.8E-23 178.6 8.5 126 13-138 239-419 (939)
5 KOG0049 Transcription factor, 99.7 5.1E-18 1.1E-22 174.2 6.7 107 13-120 346-453 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 3.1E-16 6.6E-21 116.4 2.8 60 30-91 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 1.1E-14 2.4E-19 148.8 7.7 109 21-130 14-122 (512)
8 KOG0050 mRNA splicing protein 99.5 9.8E-15 2.1E-19 147.4 5.2 108 25-134 5-112 (617)
9 KOG0051 RNA polymerase I termi 99.4 2.3E-13 5.1E-18 140.7 6.1 104 26-132 383-514 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.3 1.1E-12 2.3E-17 93.8 4.9 46 80-125 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.3 1.6E-13 3.5E-18 98.1 0.5 48 27-74 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.3 3.3E-12 7.2E-17 94.7 4.7 53 83-135 1-53 (60)
13 PLN03212 Transcription repress 99.2 7.4E-12 1.6E-16 117.6 5.9 76 56-139 9-86 (249)
14 smart00717 SANT SANT SWI3, AD 99.2 3.7E-11 7.9E-16 83.2 5.5 47 80-126 1-48 (49)
15 KOG0048 Transcription factor, 99.1 6.6E-11 1.4E-15 111.0 3.6 93 76-168 5-103 (238)
16 PLN03091 hypothetical protein; 99.1 7.4E-11 1.6E-15 118.3 3.8 65 75-139 9-75 (459)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 3.1E-10 6.7E-15 77.5 5.5 44 82-125 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 1.4E-10 3E-15 80.3 1.6 48 27-75 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.9 1.7E-09 3.8E-14 112.3 4.9 112 23-138 304-443 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 9.8E-10 2.1E-14 74.9 1.3 44 29-73 1-44 (45)
21 COG5147 REB1 Myb superfamily p 98.1 1.1E-06 2.3E-11 90.8 1.9 113 13-128 58-170 (512)
22 TIGR01557 myb_SHAQKYF myb-like 97.8 1E-05 2.2E-10 60.6 1.7 49 26-74 2-54 (57)
23 TIGR01557 myb_SHAQKYF myb-like 97.8 5.5E-05 1.2E-09 56.6 5.5 47 80-126 3-55 (57)
24 KOG0457 Histone acetyltransfer 97.6 2.2E-05 4.7E-10 79.2 0.7 50 24-74 69-118 (438)
25 KOG0457 Histone acetyltransfer 97.5 0.00016 3.5E-09 73.1 6.2 49 77-125 69-118 (438)
26 PF13325 MCRS_N: N-terminal re 97.5 0.00025 5.4E-09 65.5 6.2 101 29-131 1-132 (199)
27 TIGR02894 DNA_bind_RsfA transc 97.3 0.00023 5.1E-09 63.5 4.1 54 78-132 2-62 (161)
28 KOG0050 mRNA splicing protein 97.3 0.00016 3.4E-09 74.4 3.0 61 78-138 5-66 (617)
29 PF13837 Myb_DNA-bind_4: Myb/S 97.2 0.00042 9.1E-09 54.6 3.9 54 80-133 1-72 (90)
30 COG5259 RSC8 RSC chromatin rem 96.9 0.00081 1.8E-08 68.7 4.2 44 81-124 280-323 (531)
31 KOG1279 Chromatin remodeling f 96.8 0.0014 3E-08 68.1 5.2 46 79-124 252-297 (506)
32 COG5259 RSC8 RSC chromatin rem 96.7 0.00054 1.2E-08 69.9 0.9 46 26-73 278-323 (531)
33 KOG1279 Chromatin remodeling f 96.4 0.0013 2.7E-08 68.5 1.3 49 23-73 249-297 (506)
34 PF08914 Myb_DNA-bind_2: Rap1 96.4 0.0056 1.2E-07 47.0 4.4 50 80-129 2-61 (65)
35 PRK13923 putative spore coat p 96.3 0.0041 9E-08 56.2 4.0 52 78-130 3-61 (170)
36 COG5114 Histone acetyltransfer 96.2 0.01 2.2E-07 58.4 6.5 47 80-126 63-110 (432)
37 TIGR02894 DNA_bind_RsfA transc 96.1 0.0016 3.4E-08 58.3 0.4 50 25-76 2-57 (161)
38 PF13873 Myb_DNA-bind_5: Myb/S 96.0 0.018 3.9E-07 44.5 5.8 51 80-130 2-74 (78)
39 PF13837 Myb_DNA-bind_4: Myb/S 95.7 0.0022 4.9E-08 50.4 -0.4 47 27-73 1-63 (90)
40 COG5114 Histone acetyltransfer 95.7 0.0028 6E-08 62.3 -0.0 49 26-75 62-110 (432)
41 PF08914 Myb_DNA-bind_2: Rap1 95.4 0.0057 1.2E-07 47.0 0.7 52 27-78 2-61 (65)
42 PLN03142 Probable chromatin-re 95.2 0.066 1.4E-06 60.3 8.7 102 29-131 826-990 (1033)
43 PF13873 Myb_DNA-bind_5: Myb/S 94.7 0.0066 1.4E-07 47.0 -0.7 49 26-74 1-69 (78)
44 PRK13923 putative spore coat p 94.4 0.0095 2.1E-07 53.9 -0.4 50 24-75 2-57 (170)
45 KOG4282 Transcription factor G 93.8 0.12 2.7E-06 50.8 6.0 54 80-133 54-121 (345)
46 KOG2656 DNA methyltransferase 92.6 0.11 2.4E-06 52.5 3.5 86 49-135 75-191 (445)
47 PF12776 Myb_DNA-bind_3: Myb/S 92.0 0.38 8.1E-06 38.1 5.3 47 82-128 1-65 (96)
48 COG5118 BDP1 Transcription ini 91.9 0.25 5.4E-06 49.9 5.0 46 81-126 366-411 (507)
49 PF09111 SLIDE: SLIDE; InterP 90.9 0.33 7.2E-06 41.4 4.2 54 77-130 46-115 (118)
50 KOG1194 Predicted DNA-binding 88.5 0.87 1.9E-05 47.1 5.7 48 80-127 187-234 (534)
51 KOG4329 DNA-binding protein [G 82.7 15 0.00033 37.3 11.1 44 81-124 278-322 (445)
52 KOG4167 Predicted DNA-binding 82.7 2.5 5.5E-05 46.1 5.9 44 27-72 619-662 (907)
53 PF08281 Sigma70_r4_2: Sigma-7 82.5 3.4 7.3E-05 29.3 4.9 42 85-127 12-53 (54)
54 PF09111 SLIDE: SLIDE; InterP 81.3 1.5 3.2E-05 37.5 3.0 34 24-57 46-82 (118)
55 PF11626 Rap1_C: TRF2-interact 79.3 1.8 3.9E-05 34.7 2.7 31 23-56 43-81 (87)
56 KOG4282 Transcription factor G 76.3 0.78 1.7E-05 45.2 -0.2 48 27-74 54-113 (345)
57 KOG4468 Polycomb-group transcr 76.1 4.4 9.6E-05 43.4 5.2 53 80-132 88-150 (782)
58 COG5118 BDP1 Transcription ini 75.3 1.7 3.7E-05 44.1 1.9 107 23-133 361-483 (507)
59 KOG4167 Predicted DNA-binding 73.9 9.4 0.0002 41.9 7.0 43 80-122 619-661 (907)
60 PF04545 Sigma70_r4: Sigma-70, 67.7 15 0.00032 25.7 4.9 43 86-129 7-49 (50)
61 PF12776 Myb_DNA-bind_3: Myb/S 66.0 3.8 8.2E-05 32.3 1.7 43 29-71 1-59 (96)
62 PF13404 HTH_AsnC-type: AsnC-t 63.5 2 4.4E-05 30.0 -0.3 37 33-71 3-39 (42)
63 PRK11179 DNA-binding transcrip 57.8 19 0.0004 31.4 4.7 45 85-130 8-53 (153)
64 KOG2009 Transcription initiati 57.6 12 0.00025 40.2 3.9 45 79-123 408-452 (584)
65 PF07750 GcrA: GcrA cell cycle 57.3 12 0.00026 33.6 3.4 41 82-123 2-42 (162)
66 TIGR02985 Sig70_bacteroi1 RNA 56.1 27 0.00058 29.1 5.2 37 92-129 122-158 (161)
67 PF11035 SnAPC_2_like: Small n 55.9 39 0.00084 33.8 6.9 51 80-130 21-75 (344)
68 PF11626 Rap1_C: TRF2-interact 55.8 5.2 0.00011 32.0 0.8 17 76-92 43-59 (87)
69 PF04504 DUF573: Protein of un 54.9 22 0.00047 29.3 4.3 52 81-132 5-69 (98)
70 smart00595 MADF subfamily of S 54.7 15 0.00031 28.6 3.2 27 101-128 29-55 (89)
71 PRK11179 DNA-binding transcrip 54.5 5.1 0.00011 34.9 0.6 44 32-77 8-51 (153)
72 PRK11169 leucine-responsive tr 52.1 24 0.00051 31.1 4.5 45 85-130 13-58 (164)
73 PF13404 HTH_AsnC-type: AsnC-t 51.0 34 0.00073 23.8 4.2 38 86-124 3-41 (42)
74 PF13325 MCRS_N: N-terminal re 49.7 33 0.00071 32.1 5.1 44 82-126 1-47 (199)
75 PRK11169 leucine-responsive tr 47.9 5 0.00011 35.4 -0.5 44 32-77 13-56 (164)
76 PF11035 SnAPC_2_like: Small n 46.7 35 0.00076 34.1 5.0 87 26-126 20-127 (344)
77 TIGR02937 sigma70-ECF RNA poly 46.3 42 0.00091 27.0 4.8 36 93-129 120-155 (158)
78 KOG0384 Chromodomain-helicase 45.4 21 0.00045 41.5 3.6 78 23-107 1129-1207(1373)
79 PF10545 MADF_DNA_bdg: Alcohol 41.7 28 0.00061 26.2 2.9 29 101-129 28-57 (85)
80 PF01388 ARID: ARID/BRIGHT DNA 41.6 56 0.0012 25.6 4.7 38 90-127 40-90 (92)
81 PRK09652 RNA polymerase sigma 39.3 62 0.0013 27.5 5.0 32 97-129 142-173 (182)
82 smart00501 BRIGHT BRIGHT, ARID 37.1 70 0.0015 25.4 4.6 39 90-128 36-87 (93)
83 cd08803 Death_ank3 Death domai 36.9 48 0.001 26.5 3.6 29 88-117 4-32 (84)
84 PF07750 GcrA: GcrA cell cycle 36.4 32 0.0007 30.8 2.8 33 29-63 2-35 (162)
85 cd08319 Death_RAIDD Death doma 34.5 50 0.0011 26.4 3.3 29 88-117 2-30 (83)
86 KOG1194 Predicted DNA-binding 33.3 50 0.0011 34.6 3.9 40 82-122 472-511 (534)
87 smart00344 HTH_ASNC helix_turn 33.2 82 0.0018 25.1 4.5 43 86-129 3-46 (108)
88 PRK11924 RNA polymerase sigma 33.1 87 0.0019 26.5 4.9 30 98-128 140-169 (179)
89 PRK04217 hypothetical protein; 32.7 1E+02 0.0022 26.0 5.1 46 82-129 42-87 (110)
90 PLN03142 Probable chromatin-re 32.4 45 0.00098 38.3 3.8 35 23-57 922-956 (1033)
91 PRK09643 RNA polymerase sigma 32.0 94 0.002 27.6 5.1 31 97-128 148-178 (192)
92 cd08311 Death_p75NR Death doma 31.1 50 0.0011 26.0 2.8 33 85-119 2-34 (77)
93 PF05734 DUF832: Herpesvirus p 31.1 21 0.00046 33.9 0.8 21 314-334 170-190 (228)
94 cd08317 Death_ank Death domain 30.4 52 0.0011 25.8 2.8 29 88-117 4-32 (84)
95 PRK09641 RNA polymerase sigma 28.9 1.1E+02 0.0024 26.4 4.9 30 98-128 151-180 (187)
96 PF07638 Sigma70_ECF: ECF sigm 28.7 1.1E+02 0.0024 27.2 5.0 39 88-127 140-178 (185)
97 cd06171 Sigma70_r4 Sigma70, re 28.5 1.4E+02 0.0031 19.4 4.5 40 83-124 11-50 (55)
98 PRK07331 cobalt transport prot 27.6 35 0.00077 33.9 1.7 26 313-338 251-288 (322)
99 PRK09047 RNA polymerase factor 27.5 1.4E+02 0.0031 25.0 5.3 30 98-128 121-150 (161)
100 KOG2656 DNA methyltransferase 27.2 20 0.00044 36.7 -0.1 49 24-73 127-180 (445)
101 PRK09637 RNA polymerase sigma 27.0 1.3E+02 0.0028 26.5 5.1 31 98-129 121-151 (181)
102 KOG4468 Polycomb-group transcr 26.7 22 0.00049 38.3 0.1 47 27-74 88-143 (782)
103 TIGR02943 Sig70_famx1 RNA poly 26.0 1.5E+02 0.0032 26.3 5.3 30 98-128 146-175 (188)
104 smart00005 DEATH DEATH domain, 25.6 86 0.0019 24.1 3.3 30 87-117 4-34 (88)
105 PRK09648 RNA polymerase sigma 25.2 1.5E+02 0.0033 25.8 5.2 31 98-129 154-184 (189)
106 TIGR02939 RpoE_Sigma70 RNA pol 25.1 1.1E+02 0.0025 26.4 4.3 32 98-130 153-184 (190)
107 TIGR02954 Sig70_famx3 RNA poly 24.9 1.5E+02 0.0032 25.4 5.0 31 98-129 134-164 (169)
108 PF13936 HTH_38: Helix-turn-he 24.9 75 0.0016 22.0 2.5 36 82-119 4-39 (44)
109 KOG2009 Transcription initiati 24.4 46 0.00099 35.8 1.9 52 18-71 400-451 (584)
110 PRK12512 RNA polymerase sigma 24.4 1.8E+02 0.0038 25.3 5.4 32 98-130 146-177 (184)
111 PRK12530 RNA polymerase sigma 24.3 1.6E+02 0.0034 26.0 5.1 29 98-127 149-177 (189)
112 PRK09645 RNA polymerase sigma 24.1 1.7E+02 0.0036 25.1 5.2 31 98-129 133-163 (173)
113 PLN03162 golden-2 like transcr 24.0 4.5E+02 0.0098 27.2 8.6 45 80-124 237-286 (526)
114 cd08804 Death_ank2 Death domai 23.9 92 0.002 24.7 3.2 31 88-119 4-34 (84)
115 PRK12515 RNA polymerase sigma 23.7 1.7E+02 0.0037 25.6 5.2 31 98-129 146-176 (189)
116 PRK09642 RNA polymerase sigma 23.5 1.8E+02 0.0039 24.5 5.2 29 98-127 121-149 (160)
117 PF09905 DUF2132: Uncharacteri 23.4 80 0.0017 24.4 2.6 44 35-91 12-62 (64)
118 PRK06759 RNA polymerase factor 23.4 1.9E+02 0.0041 24.1 5.2 29 99-128 122-150 (154)
119 PRK11923 algU RNA polymerase s 23.3 1.5E+02 0.0033 25.9 4.9 29 99-128 154-182 (193)
120 TIGR02948 SigW_bacill RNA poly 23.2 1.5E+02 0.0033 25.6 4.7 29 99-128 152-180 (187)
121 smart00344 HTH_ASNC helix_turn 22.9 34 0.00073 27.4 0.5 41 33-75 3-43 (108)
122 PRK12529 RNA polymerase sigma 22.9 1.8E+02 0.0039 25.3 5.2 34 97-131 141-174 (178)
123 cd08318 Death_NMPP84 Death dom 22.7 1E+02 0.0022 24.4 3.3 26 91-117 10-35 (86)
124 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 22.5 1.6E+02 0.0034 21.6 3.8 36 85-121 6-41 (50)
125 PRK09413 IS2 repressor TnpA; R 22.5 1.3E+02 0.0027 25.2 3.9 45 26-74 9-53 (121)
126 PRK12531 RNA polymerase sigma 22.4 1.9E+02 0.0041 25.6 5.2 30 99-129 157-186 (194)
127 PRK12523 RNA polymerase sigma 22.3 1.9E+02 0.0042 24.8 5.2 32 97-129 133-164 (172)
128 PRK12524 RNA polymerase sigma 21.9 1.9E+02 0.0041 25.6 5.2 31 98-129 151-181 (196)
129 PF05263 DUF722: Protein of un 21.3 73 0.0016 27.8 2.3 36 82-118 81-117 (130)
130 TIGR02952 Sig70_famx2 RNA poly 21.0 2.1E+02 0.0045 24.2 5.1 29 99-128 138-166 (170)
131 PRK09649 RNA polymerase sigma 21.0 1.9E+02 0.0041 25.5 4.9 32 98-130 145-176 (185)
132 COG1522 Lrp Transcriptional re 20.9 54 0.0012 27.8 1.4 33 35-69 10-42 (154)
133 TIGR02999 Sig-70_X6 RNA polyme 20.9 2.2E+02 0.0047 24.6 5.2 30 98-128 149-178 (183)
134 PF06583 Neogenin_C: Neogenin 20.7 31 0.00067 34.4 -0.2 21 308-328 294-314 (319)
135 PF09197 Rap1-DNA-bind: Rap1, 20.6 2.6E+02 0.0056 23.6 5.3 46 82-127 1-77 (105)
136 PF09420 Nop16: Ribosome bioge 20.3 2.1E+02 0.0045 25.4 5.0 45 80-124 114-162 (164)
137 PRK12536 RNA polymerase sigma 20.3 2.2E+02 0.0047 24.8 5.2 32 98-130 144-175 (181)
138 PF02954 HTH_8: Bacterial regu 20.2 1.8E+02 0.004 19.7 3.7 33 86-119 5-37 (42)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=1.6e-33 Score=263.23 Aligned_cols=113 Identities=58% Similarity=1.004 Sum_probs=108.2
Q ss_pred cCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHhCC
Q 019619 21 KANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSILGN 100 (338)
Q Consensus 21 k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G~ 100 (338)
+++.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||+||.|||+|++++|.||+|||++|+++|.+||+
T Consensus 3 kk~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 3 RNPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred CCccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 34556789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHhccCCCCCHHHHHHHHHHHhHHHHhcCC
Q 019619 101 RWSQIAARLPGRTDNEIKNFWNSTLKKILKNNP 133 (338)
Q Consensus 101 kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~~ 133 (338)
+|+.||++|||||+++|||+|+..+||++....
T Consensus 83 rWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 83 RWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999999988764
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.98 E-value=8.4e-33 Score=257.48 Aligned_cols=114 Identities=53% Similarity=1.080 Sum_probs=108.3
Q ss_pred cCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHhCC
Q 019619 21 KANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSILGN 100 (338)
Q Consensus 21 k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G~ 100 (338)
-++.+++++||+|||++|+++|++||..+|..||+.|+++|+++|||+||.++|+|.+++++||+|||++|++++.+||+
T Consensus 19 ~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 19 TKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGN 98 (249)
T ss_pred ccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccc
Confidence 36889999999999999999999999989999999986699999999999999999999999999999999999999999
Q ss_pred chHHHhccCCCCCHHHHHHHHHHHhHHHHhcCCC
Q 019619 101 RWSQIAARLPGRTDNEIKNFWNSTLKKILKNNPN 134 (338)
Q Consensus 101 kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~~~ 134 (338)
+|..||+.|+|||+++|||||+.++++.+.....
T Consensus 99 KWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i 132 (249)
T PLN03212 99 RWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGI 132 (249)
T ss_pred cHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCC
Confidence 9999999999999999999999999998776543
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=1.1e-31 Score=266.02 Aligned_cols=113 Identities=73% Similarity=1.298 Sum_probs=107.8
Q ss_pred cCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHhCC
Q 019619 21 KANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSILGN 100 (338)
Q Consensus 21 k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G~ 100 (338)
.+.+++|++||+|||++|+++|.+||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++++++||+
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn 87 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN 87 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCc
Confidence 35789999999999999999999999999999999987799999999999999999999999999999999999999999
Q ss_pred chHHHhccCCCCCHHHHHHHHHHHhHHHHhcCC
Q 019619 101 RWSQIAARLPGRTDNEIKNFWNSTLKKILKNNP 133 (338)
Q Consensus 101 kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~~ 133 (338)
+|.+||+.|+|||+++|||||+.++||+++...
T Consensus 88 KWskIAk~LPGRTDnqIKNRWnslLKKklr~~~ 120 (459)
T PLN03091 88 RWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (459)
T ss_pred chHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999999877543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.75 E-value=1.3e-18 Score=178.56 Aligned_cols=126 Identities=26% Similarity=0.414 Sum_probs=115.6
Q ss_pred cCCCcccccCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccc-------------------------
Q 019619 13 VNGSNINAKANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCR------------------------- 67 (338)
Q Consensus 13 ~~~~~~n~k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr------------------------- 67 (338)
....|+|...|+++|--|++|||++|+.+...++..+|..||..+|..|+..||.
T Consensus 239 ~~~~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~a 318 (939)
T KOG0049|consen 239 VKSKWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIA 318 (939)
T ss_pred HHHHHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHH
Confidence 4678999999999999999999999999999999999999999998668888886
Q ss_pred -----------------------------eeeeeeccCCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHH
Q 019619 68 -----------------------------LRWINYLRPDLKRGAFSPQEEELIIHLHSILG-NRWSQIAARLPGRTDNEI 117 (338)
Q Consensus 68 -----------------------------~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~ 117 (338)
-||.+.|+|.+++|+||++||.+|+.+|.+|| ..|-+|-..+|||++.||
T Consensus 319 lV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQc 398 (939)
T KOG0049|consen 319 LVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQC 398 (939)
T ss_pred HHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHH
Confidence 46778899999999999999999999999999 569999999999999999
Q ss_pred HHHHHHHhHHHHhcCCCCCCC
Q 019619 118 KNFWNSTLKKILKNNPNAPTP 138 (338)
Q Consensus 118 KnRW~~llrk~~k~~~~s~~~ 138 (338)
|.||.+.|.+.+|++.|+-..
T Consensus 399 R~RY~nvL~~s~K~~rW~l~e 419 (939)
T KOG0049|consen 399 RERYTNVLNRSAKVERWTLVE 419 (939)
T ss_pred HHHHHHHHHHhhccCceeecc
Confidence 999999999999998876543
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.72 E-value=5.1e-18 Score=174.24 Aligned_cols=107 Identities=21% Similarity=0.406 Sum_probs=100.7
Q ss_pred cCCCcccccCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHH
Q 019619 13 VNGSNINAKANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELII 92 (338)
Q Consensus 13 ~~~~~~n~k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLl 92 (338)
-..+|.....|.+++|+||++||.+|+.+|.+||.++|.+|-+.+| +|+..|||+||.+.|+...|.+.||-.||+.|+
T Consensus 346 LI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~ 424 (939)
T KOG0049|consen 346 LITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLL 424 (939)
T ss_pred hhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHH
Confidence 4678899999999999999999999999999999999999999998 999999999999999999999999999999999
Q ss_pred HHHHHhC-CchHHHhccCCCCCHHHHHHH
Q 019619 93 HLHSILG-NRWSQIAARLPGRTDNEIKNF 120 (338)
Q Consensus 93 elv~~~G-~kWs~IA~~lpgRT~~q~KnR 120 (338)
.++++|| ++|.+||..||.||..|...|
T Consensus 425 ~~V~~YG~g~WakcA~~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 425 YAVKVYGKGNWAKCAMLLPKKTSRQLRRR 453 (939)
T ss_pred HHHHHHccchHHHHHHHccccchhHHHHH
Confidence 9999999 889999999999999554333
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=3.1e-16 Score=116.43 Aligned_cols=60 Identities=38% Similarity=0.834 Sum_probs=55.0
Q ss_pred CCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHH
Q 019619 30 WSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELI 91 (338)
Q Consensus 30 WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lL 91 (338)
||+|||++|+++|..||. +|..||+.|| .|++.||+.||.++|.+.+++++||++||++|
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 999999999999999994 6999999997 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=99.53 E-value=1.1e-14 Score=148.83 Aligned_cols=109 Identities=31% Similarity=0.498 Sum_probs=104.6
Q ss_pred cCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHhCC
Q 019619 21 KANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSILGN 100 (338)
Q Consensus 21 k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G~ 100 (338)
+..+++.|.|+..||+.|..+|..+|+.+|..||..+. .|+++||+.||.++++|.+++..|+.|||+.|+.+..++|.
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 56778889999999999999999999999999999998 79999999999999999999999999999999999999999
Q ss_pred chHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 101 RWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 101 kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
.|..||..+++|+..+|.+||..++....+
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999999888776
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.51 E-value=9.8e-15 Score=147.37 Aligned_cols=108 Identities=27% Similarity=0.595 Sum_probs=102.2
Q ss_pred CcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHhCCchHH
Q 019619 25 LRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSILGNRWSQ 104 (338)
Q Consensus 25 lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G~kWs~ 104 (338)
++.|.|+--||+.|..+|.+||...|++|++.+. ..+++||+.||..+|+|.+++..|+.|||++|+.++..+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5779999999999999999999989999999997 999999999999999999999999999999999999999999999
Q ss_pred HhccCCCCCHHHHHHHHHHHhHHHHhcCCC
Q 019619 105 IAARLPGRTDNEIKNFWNSTLKKILKNNPN 134 (338)
Q Consensus 105 IA~~lpgRT~~q~KnRW~~llrk~~k~~~~ 134 (338)
|+..+ ||+.+||-.||..++-........
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 99999 999999999999999877766543
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.40 E-value=2.3e-13 Score=140.69 Aligned_cols=104 Identities=28% Similarity=0.576 Sum_probs=93.7
Q ss_pred cccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCC--CCCCCCCHHHHHHHHHHHH-------
Q 019619 26 RKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPD--LKRGAFSPQEEELIIHLHS------- 96 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~--lkkg~WT~EED~lLlelv~------- 96 (338)
.+|+||+||++.|..+|..+| .+|..|+..|+ |.+..|++||.+|..+. .+++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999999 55999999996 99999999999999886 5899999999999999995
Q ss_pred Hh-------------------CCchHHHhccCCCCCHHHHHHHHHHHhHHHHhcC
Q 019619 97 IL-------------------GNRWSQIAARLPGRTDNEIKNFWNSTLKKILKNN 132 (338)
Q Consensus 97 ~~-------------------G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~ 132 (338)
++ +-.|..|++.+..|+..|||.+|..++.+....+
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 33 1359999999999999999999999988766554
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=99.35 E-value=1.1e-12 Score=93.78 Aligned_cols=46 Identities=30% Similarity=0.683 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hHHHhccCC-CCCHHHHHHHHHHHh
Q 019619 80 RGAFSPQEEELIIHLHSILGNR-WSQIAARLP-GRTDNEIKNFWNSTL 125 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~k-Ws~IA~~lp-gRT~~q~KnRW~~ll 125 (338)
+++||+|||++|++++.+||.+ |..||..|+ +||..||++||+.++
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 5799999999999999999988 999999998 999999999998764
No 11
>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=99.34 E-value=1.6e-13 Score=98.07 Aligned_cols=48 Identities=38% Similarity=0.721 Sum_probs=43.2
Q ss_pred ccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeec
Q 019619 27 KGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYL 74 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L 74 (338)
|++||+|||++|+++|.+||.++|..||..|+.+|+..||+.||.++|
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 689999999999999999998889999999977999999999998865
No 12
>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=99.29 E-value=3.3e-12 Score=94.69 Aligned_cols=53 Identities=30% Similarity=0.631 Sum_probs=44.6
Q ss_pred CCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHHhcCCCC
Q 019619 83 FSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKILKNNPNA 135 (338)
Q Consensus 83 WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~~~s 135 (338)
||+|||++|++++.+||++|.+||+.|+.||+.+|++||...|++..+..+++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt 53 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWT 53 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcC
Confidence 99999999999999999999999999966999999999999777666655554
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.25 E-value=7.4e-12 Score=117.61 Aligned_cols=76 Identities=18% Similarity=0.408 Sum_probs=66.4
Q ss_pred hcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhccC-CCCCHHHHHHHHHHHhHHHHhcCC
Q 019619 56 NAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSILG-NRWSQIAARL-PGRTDNEIKNFWNSTLKKILKNNP 133 (338)
Q Consensus 56 ~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~G-~kWs~IA~~l-pgRT~~q~KnRW~~llrk~~k~~~ 133 (338)
-++ +|++.-|. ++.+++++||+|||++|+++|++|| .+|..||+.+ ++|++.|||.||.++|++.+++.+
T Consensus 9 ~~~-~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgp 80 (249)
T PLN03212 9 PVS-KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGG 80 (249)
T ss_pred CCC-CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCC
Confidence 455 67666554 3578899999999999999999999 6899999998 699999999999999999999999
Q ss_pred CCCCCC
Q 019619 134 NAPTPS 139 (338)
Q Consensus 134 ~s~~~s 139 (338)
|+.++.
T Consensus 81 WT~EED 86 (249)
T PLN03212 81 ITSDEE 86 (249)
T ss_pred CChHHH
Confidence 987753
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.18 E-value=3.7e-11 Score=83.20 Aligned_cols=47 Identities=43% Similarity=0.861 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHhH
Q 019619 80 RGAFSPQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTLK 126 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~llr 126 (338)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||..+++
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 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.07 E-value=6.6e-11 Score=110.98 Aligned_cols=93 Identities=17% Similarity=0.239 Sum_probs=72.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhccCC-CCCHHHHHHHHHHHhHHHHhcCCCCCCCCCCCCCCCCC----c
Q 019619 76 PDLKRGAFSPQEEELIIHLHSILG-NRWSQIAARLP-GRTDNEIKNFWNSTLKKILKNNPNAPTPSPNNSDSSEP----R 149 (338)
Q Consensus 76 p~lkkg~WT~EED~lLlelv~~~G-~kWs~IA~~lp-gRT~~q~KnRW~~llrk~~k~~~~s~~~s~~~s~ss~p----~ 149 (338)
+.+.+|+||+|||++|+++|++|| ++|..|++.++ +|++.+||-||.++|++.++++.++..+.......... =
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 345579999999999999999999 56999999998 99999999999999999999998877654322221111 1
Q ss_pred cccCCCCCCCCCCcccCcc
Q 019619 150 GVIAGIMPMPNDHDIMTMC 168 (338)
Q Consensus 150 ~~~~~~~p~p~d~~~~~~~ 168 (338)
..++..+|-..|.+|.+.|
T Consensus 85 s~IA~~LPGRTDNeIKN~W 103 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHW 103 (238)
T ss_pred HHHHhhCCCcCHHHHHHHH
Confidence 1346677887787776554
No 16
>PLN03091 hypothetical protein; Provisional
Probab=99.07 E-value=7.4e-11 Score=118.34 Aligned_cols=65 Identities=22% Similarity=0.424 Sum_probs=59.5
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhccC-CCCCHHHHHHHHHHHhHHHHhcCCCCCCCC
Q 019619 75 RPDLKRGAFSPQEEELIIHLHSILG-NRWSQIAARL-PGRTDNEIKNFWNSTLKKILKNNPNAPTPS 139 (338)
Q Consensus 75 ~p~lkkg~WT~EED~lLlelv~~~G-~kWs~IA~~l-pgRT~~q~KnRW~~llrk~~k~~~~s~~~s 139 (338)
++.+++++||+|||++|+++|.+|| .+|..||+.+ ++|++.|||.||..+|++.+++++|++.+.
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED 75 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEE 75 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHH
Confidence 3578999999999999999999999 5799999988 599999999999999999999998887654
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.06 E-value=3.1e-10 Score=77.47 Aligned_cols=44 Identities=34% Similarity=0.749 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHh
Q 019619 82 AFSPQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTL 125 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~ll 125 (338)
+||+||+.+|++++.+|| .+|..||+.+++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998753
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.99 E-value=1.4e-10 Score=80.26 Aligned_cols=48 Identities=40% Similarity=0.805 Sum_probs=44.2
Q ss_pred ccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeecc
Q 019619 27 KGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLR 75 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~ 75 (338)
++.||++||++|+.++..||..+|..||..|+ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 47899999999999999999777999999998 9999999999987664
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.86 E-value=1.7e-09 Score=112.30 Aligned_cols=112 Identities=23% Similarity=0.313 Sum_probs=91.0
Q ss_pred CCCcccCCCHHHHHHHHHHHHHcC-----------------------CCCchhhhhhcCCcccccccce---eeeeeccC
Q 019619 23 NKLRKGLWSPEEDDKLIKYMLTNG-----------------------QGCWSDIARNAGLQRCGKSCRL---RWINYLRP 76 (338)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~lV~~~G-----------------------~~~W~~IA~~m~~~Rt~~QCr~---Rw~n~L~p 76 (338)
.-++-+.|+++||+.|.+.|..|- .+.|..|...+| -|+...++. |-++.|.+
T Consensus 304 ~e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~ 382 (607)
T KOG0051|consen 304 DEINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN 382 (607)
T ss_pred hhhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc
Confidence 345568999999999999887652 113778888888 699988877 43344443
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH--hcCCCCCCC
Q 019619 77 DLKRGAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL--KNNPNAPTP 138 (338)
Q Consensus 77 ~lkkg~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~--k~~~~s~~~ 138 (338)
++|.||+||++.|..+|.++|+.|..|++.| ||.+.+|+.||+++++... +.+.|+.++
T Consensus 383 --~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eE 443 (607)
T KOG0051|consen 383 --KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEE 443 (607)
T ss_pred --ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHH
Confidence 8999999999999999999999999999999 9999999999999998774 556665443
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.84 E-value=9.8e-10 Score=74.94 Aligned_cols=44 Identities=36% Similarity=0.734 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeee
Q 019619 29 LWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINY 73 (338)
Q Consensus 29 ~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~ 73 (338)
+||++||++|+.++..+|..+|..||+.|+ +|+..+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 599999999999999999777999999998 89999999999764
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=98.11 E-value=1.1e-06 Score=90.80 Aligned_cols=113 Identities=20% Similarity=0.174 Sum_probs=97.9
Q ss_pred cCCCcccccCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHH
Q 019619 13 VNGSNINAKANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELII 92 (338)
Q Consensus 13 ~~~~~~n~k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLl 92 (338)
...+|++...|.++++.|+.|||+.|+.+-..+|.. |..||..++ +|+..+|.+||.+.+.+..+ ..|+..+.....
T Consensus 58 ~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~-wstia~~~d-~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f 134 (512)
T COG5147 58 SSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKD-RRTAQQCVERYVNTLEDLSS-THDSKLQRRNEF 134 (512)
T ss_pred ccchhhhhhchhcccccccHHHHHHHHHHHHhcCch-hhhhccccC-ccchHHHHHHHHHHhhhhhc-cccccccchhhc
Confidence 456888999999999999999999999999999987 999999998 99999999999999987665 789999988888
Q ss_pred HHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 93 HLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 93 elv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
-.+..|+..|..+....-.+-...|.|++.++..+.
T Consensus 135 ~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~~ 170 (512)
T COG5147 135 DKIDPFNENSARRPDIYEDELLEREVNREASYRLRV 170 (512)
T ss_pred cccCchhhhhhhhhhhhhcccchhhhhHHHHHHHHc
Confidence 888889888888887776777777777776555443
No 22
>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=97.79 E-value=1e-05 Score=60.61 Aligned_cols=49 Identities=12% Similarity=0.260 Sum_probs=43.0
Q ss_pred cccCCCHHHHHHHHHHHHHcCCCCc---hhhhhhcCCcc-cccccceeeeeec
Q 019619 26 RKGLWSPEEDDKLIKYMLTNGQGCW---SDIARNAGLQR-CGKSCRLRWINYL 74 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G~~~W---~~IA~~m~~~R-t~~QCr~Rw~n~L 74 (338)
++-.||+||.++++++|..+|.++| ..|++.|+..| +..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4568999999999999999998899 99999987567 9999998877664
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=97.77 E-value=5.5e-05 Score=56.64 Aligned_cols=47 Identities=13% Similarity=0.255 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-ch---HHHhccC-CCC-CHHHHHHHHHHHhH
Q 019619 80 RGAFSPQEEELIIHLHSILGN-RW---SQIAARL-PGR-TDNEIKNFWNSTLK 126 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~-kW---s~IA~~l-pgR-T~~q~KnRW~~llr 126 (338)
+-.||+||..++++++..||. +| ..|++.| ..| |..||+.+++.+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 457999999999999999996 99 9999988 345 99999999876653
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.55 E-value=2.2e-05 Score=79.21 Aligned_cols=50 Identities=24% Similarity=0.549 Sum_probs=46.4
Q ss_pred CCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeec
Q 019619 24 KLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYL 74 (338)
Q Consensus 24 ~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L 74 (338)
.+-..-||.+|+-+|++++..||-|||..||+.|| .|+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 45567899999999999999999999999999999 999999999998854
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.51 E-value=0.00016 Score=73.05 Aligned_cols=49 Identities=20% Similarity=0.430 Sum_probs=44.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHh
Q 019619 77 DLKRGAFSPQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTL 125 (338)
Q Consensus 77 ~lkkg~WT~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~ll 125 (338)
.+-...||.+|+.+|++++..|| ++|..||.++..|+..+||.+|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 34456799999999999999999 99999999999999999999997655
No 26
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.46 E-value=0.00025 Score=65.52 Aligned_cols=101 Identities=21% Similarity=0.362 Sum_probs=73.2
Q ss_pred CCCHHHHHHHHHHHHHcCCCCchhhhhhcCC--cccccccceeeeeec-cCCCC--------------------CCCCCH
Q 019619 29 LWSPEEDDKLIKYMLTNGQGCWSDIARNAGL--QRCGKSCRLRWINYL-RPDLK--------------------RGAFSP 85 (338)
Q Consensus 29 ~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~--~Rt~~QCr~Rw~n~L-~p~lk--------------------kg~WT~ 85 (338)
+|++++|-+|+.+|..-. +-..|+..+.. .-|.+.+.+||+..| +|.+. +.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998766 46777765542 234455678998765 44443 358999
Q ss_pred HHHHHHHHHHHHhCC---chHHH----hccC-CCCCHHHHHHHHHHHhHHHHhc
Q 019619 86 QEEELIIHLHSILGN---RWSQI----AARL-PGRTDNEIKNFWNSTLKKILKN 131 (338)
Q Consensus 86 EED~lLlelv~~~G~---kWs~I----A~~l-pgRT~~q~KnRW~~llrk~~k~ 131 (338)
+|+++|......... .+.+| ...| ++||+.++..+|+.+.+..+-.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL~ 132 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLLP 132 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchhh
Confidence 999999998766543 46666 3334 8999999999999666555443
No 27
>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=97.32 E-value=0.00023 Score=63.51 Aligned_cols=54 Identities=19% Similarity=0.331 Sum_probs=46.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHh---C----CchHHHhccCCCCCHHHHHHHHHHHhHHHHhcC
Q 019619 78 LKRGAFSPQEEELIIHLHSIL---G----NRWSQIAARLPGRTDNEIKNFWNSTLKKILKNN 132 (338)
Q Consensus 78 lkkg~WT~EED~lLlelv~~~---G----~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~ 132 (338)
.+.+.||.|||.+|.+.|..| | .-...++..| +||+..|.-||++.+|+.+...
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~ 62 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEA 62 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHH
Confidence 356789999999999999887 4 2488899999 9999999999999999887653
No 28
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.28 E-value=0.00016 Score=74.44 Aligned_cols=61 Identities=26% Similarity=0.436 Sum_probs=55.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHhHHHHhcCCCCCCC
Q 019619 78 LKRGAFSPQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTLKKILKNNPNAPTP 138 (338)
Q Consensus 78 lkkg~WT~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~~~s~~~ 138 (338)
++-+.|+.-||+.|..++.+|| +.|+.|++.++-.|+.||++||...+...+++-.|+...
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 5678899999999999999999 679999999999999999999999999999987776654
No 29
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.18 E-value=0.00042 Score=54.56 Aligned_cols=54 Identities=30% Similarity=0.485 Sum_probs=38.6
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------chHHHhccC----CCCCHHHHHHHHHHHhHHHHhcCC
Q 019619 80 RGAFSPQEEELIIHLHSI------LG--N------RWSQIAARL----PGRTDNEIKNFWNSTLKKILKNNP 133 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~------~G--~------kWs~IA~~l----pgRT~~q~KnRW~~llrk~~k~~~ 133 (338)
+..||.+|...||++..+ ++ + -|..||..| ..||+.||++||.+|.++..+...
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~ 72 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKD 72 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 357999999999999877 22 1 399999976 479999999999998877766553
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.94 E-value=0.00081 Score=68.66 Aligned_cols=44 Identities=18% Similarity=0.313 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHH
Q 019619 81 GAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNST 124 (338)
Q Consensus 81 g~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~l 124 (338)
..||.+|..+|++.+..||-.|.+||+++..||..||.-||-++
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 48999999999999999999999999999999999999999754
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.84 E-value=0.0014 Score=68.14 Aligned_cols=46 Identities=15% Similarity=0.342 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHH
Q 019619 79 KRGAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNST 124 (338)
Q Consensus 79 kkg~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~l 124 (338)
.+..||++|..+|++++..||-+|.+||.++.+||..||--||..+
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 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.71 E-value=0.00054 Score=69.93 Aligned_cols=46 Identities=26% Similarity=0.540 Sum_probs=42.5
Q ss_pred cccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeee
Q 019619 26 RKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINY 73 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~ 73 (338)
+...||.+|..+|++.|+.||. +|.+||+++| +|+.-||..|+.+.
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 5679999999999999999995 5999999999 99999999999864
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.40 E-value=0.0013 Score=68.48 Aligned_cols=49 Identities=18% Similarity=0.502 Sum_probs=43.7
Q ss_pred CCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeee
Q 019619 23 NKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINY 73 (338)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~ 73 (338)
...-++.||.+|..+|+++|..||. +|.+||.+++ +|+..||..++.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 3445789999999999999999995 5999999999 99999999998764
No 34
>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=96.36 E-value=0.0056 Score=47.01 Aligned_cols=50 Identities=14% Similarity=0.326 Sum_probs=32.4
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------Cc-hHHHhccCC-CCCHHHHHHHHHHHhHHHH
Q 019619 80 RGAFSPQEEELIIHLHSILG--------NR-WSQIAARLP-GRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G--------~k-Ws~IA~~lp-gRT~~q~KnRW~~llrk~~ 129 (338)
+.+||.|||..|++.+.++. ++ |.++++.-+ .+|-.+.|+||...|+.+.
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 999999876 9999999999987776543
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.33 E-value=0.0041 Score=56.19 Aligned_cols=52 Identities=17% Similarity=0.303 Sum_probs=43.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCc-------hHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 78 LKRGAFSPQEEELIIHLHSILGNR-------WSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 78 lkkg~WT~EED~lLlelv~~~G~k-------Ws~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
.+++.||.|||.+|.+.+..|+.. ...++..| +||..+|..||++.+|+...
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 456799999999999999888632 56667777 99999999999999996654
No 36
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.23 E-value=0.01 Score=58.39 Aligned_cols=47 Identities=28% Similarity=0.492 Sum_probs=42.9
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHhH
Q 019619 80 RGAFSPQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTLK 126 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~llr 126 (338)
-..|+.+|+.+|++....+| ++|..||.+++.|+..+||.+|..+..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34699999999999999999 999999999999999999999976554
No 37
>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=96.15 E-value=0.0016 Score=58.27 Aligned_cols=50 Identities=28% Similarity=0.616 Sum_probs=42.4
Q ss_pred CcccCCCHHHHHHHHHHHHHcCC------CCchhhhhhcCCcccccccceeeeeeccC
Q 019619 25 LRKGLWSPEEDDKLIKYMLTNGQ------GCWSDIARNAGLQRCGKSCRLRWINYLRP 76 (338)
Q Consensus 25 lkkg~WT~EEDe~L~~lV~~~G~------~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p 76 (338)
.|...||.|||.+|.+.|.+|-. ..+..|++.++ ||+.-|.-||.-++..
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 46789999999999999998842 14889999985 9999999999988763
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.02 E-value=0.018 Score=44.51 Aligned_cols=51 Identities=27% Similarity=0.480 Sum_probs=41.7
Q ss_pred CCCCCHHHHHHHHHHHHHhC-----------------CchHHHhccC-----CCCCHHHHHHHHHHHhHHHHh
Q 019619 80 RGAFSPQEEELIIHLHSILG-----------------NRWSQIAARL-----PGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G-----------------~kWs~IA~~l-----pgRT~~q~KnRW~~llrk~~k 130 (338)
...||.+|..+|++++.+|. ..|..|+..| +.||..+||.+|..+.....+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 45799999999999998863 1299999866 469999999999988766544
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.75 E-value=0.0022 Score=50.38 Aligned_cols=47 Identities=32% Similarity=0.693 Sum_probs=32.0
Q ss_pred ccCCCHHHHHHHHHHHHHc------C---C--C--Cchhhhhhc---CCcccccccceeeeee
Q 019619 27 KGLWSPEEDDKLIKYMLTN------G---Q--G--CWSDIARNA---GLQRCGKSCRLRWINY 73 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~------G---~--~--~W~~IA~~m---~~~Rt~~QCr~Rw~n~ 73 (338)
+..||.+|...|++++... + . . -|..||..| |..|++.||+.||.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 3579999999999988771 1 1 1 399999876 5679999999999874
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.69 E-value=0.0028 Score=62.28 Aligned_cols=49 Identities=27% Similarity=0.492 Sum_probs=45.2
Q ss_pred cccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeecc
Q 019619 26 RKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLR 75 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~ 75 (338)
----|+.+|+.+|++.....|-++|..||..+| .|....|+++|..++.
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 345699999999999999999999999999999 9999999999998765
No 41
>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=95.39 E-value=0.0057 Score=47.00 Aligned_cols=52 Identities=23% Similarity=0.461 Sum_probs=31.9
Q ss_pred ccCCCHHHHHHHHHHHHHcCC------C--CchhhhhhcCCcccccccceeeeeeccCCC
Q 019619 27 KGLWSPEEDDKLIKYMLTNGQ------G--CWSDIARNAGLQRCGKSCRLRWINYLRPDL 78 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~G~------~--~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~l 78 (338)
+-+||.|||+.|+++|..+.. + -|..+++.-+..++..+-|+||...|.+..
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 468999999999999976531 2 299999887546777778999998887643
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.24 E-value=0.066 Score=60.32 Aligned_cols=102 Identities=17% Similarity=0.308 Sum_probs=76.3
Q ss_pred CCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccce-------eee------------------------------
Q 019619 29 LWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRL-------RWI------------------------------ 71 (338)
Q Consensus 29 ~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~-------Rw~------------------------------ 71 (338)
-|+.-+=..++.++.+||..+-..||..|. +++...++. ||.
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477777778888889999888999999986 777755542 111
Q ss_pred -----------ee-c-cCCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhc------------cCCCCCHHHHHHHHHHHh
Q 019619 72 -----------NY-L-RPDLKRGAFSPQEEELIIHLHSILG-NRWSQIAA------------RLPGRTDNEIKNFWNSTL 125 (338)
Q Consensus 72 -----------n~-L-~p~lkkg~WT~EED~lLlelv~~~G-~kWs~IA~------------~lpgRT~~q~KnRW~~ll 125 (338)
.. + .+..++..+|+|||+.|+-++.+|| .+|..|-. +|..||+..|..|...|+
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 10 0 1233445699999999999999999 77998832 225899999999999998
Q ss_pred HHHHhc
Q 019619 126 KKILKN 131 (338)
Q Consensus 126 rk~~k~ 131 (338)
+-..+.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 876544
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.67 E-value=0.0066 Score=46.99 Aligned_cols=49 Identities=27% Similarity=0.436 Sum_probs=39.1
Q ss_pred cccCCCHHHHHHHHHHHHHcC----------------CCCchhhhhhc----CCcccccccceeeeeec
Q 019619 26 RKGLWSPEEDDKLIKYMLTNG----------------QGCWSDIARNA----GLQRCGKSCRLRWINYL 74 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G----------------~~~W~~IA~~m----~~~Rt~~QCr~Rw~n~L 74 (338)
|+..||++|.+.|+++|.+|. ...|..|+..+ +..|+..||+.+|.++.
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 467899999999999998873 12399999866 22689999999988754
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.41 E-value=0.0095 Score=53.90 Aligned_cols=50 Identities=24% Similarity=0.556 Sum_probs=40.0
Q ss_pred CCcccCCCHHHHHHHHHHHHHcCCC------CchhhhhhcCCcccccccceeeeeecc
Q 019619 24 KLRKGLWSPEEDDKLIKYMLTNGQG------CWSDIARNAGLQRCGKSCRLRWINYLR 75 (338)
Q Consensus 24 ~lkkg~WT~EEDe~L~~lV~~~G~~------~W~~IA~~m~~~Rt~~QCr~Rw~n~L~ 75 (338)
+.|...||.|||.+|.+.|..|+.. ....++..+. |++..|..||.-+++
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 4578899999999999999988632 2566667774 999999999965554
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.84 E-value=0.12 Score=50.83 Aligned_cols=54 Identities=20% Similarity=0.328 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCchHHHhccC----CCCCHHHHHHHHHHHhHHHHhcCC
Q 019619 80 RGAFSPQEEELIIHLHSIL----------GNRWSQIAARL----PGRTDNEIKNFWNSTLKKILKNNP 133 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~----------G~kWs~IA~~l----pgRT~~q~KnRW~~llrk~~k~~~ 133 (338)
...|+.+|-..||++..+. +..|..||+.+ --||+.+||+||.++.++..+.+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~ 121 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKA 121 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 4689999999999998753 24599999954 569999999999999988777653
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.56 E-value=0.11 Score=52.45 Aligned_cols=86 Identities=21% Similarity=0.330 Sum_probs=65.1
Q ss_pred CchhhhhhcCCcccccccceeeeeeccCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCchH
Q 019619 49 CWSDIARNAGLQRCGKSCRLRWINYLRPD-------------------------LKRGAFSPQEEELIIHLHSILGNRWS 103 (338)
Q Consensus 49 ~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~-------------------------lkkg~WT~EED~lLlelv~~~G~kWs 103 (338)
.|.-+.=..+ -|...-...+|...-++. +....||.||-+-|.++++.|.-+|.
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 4666653333 566666677777663221 11246999999999999999999999
Q ss_pred HHhcc-----CCC-CCHHHHHHHHHHHhHHHHhcCCCC
Q 019619 104 QIAAR-----LPG-RTDNEIKNFWNSTLKKILKNNPNA 135 (338)
Q Consensus 104 ~IA~~-----lpg-RT~~q~KnRW~~llrk~~k~~~~s 135 (338)
-|+.+ ++. ||-.++|.||..+.++.++....+
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 99987 655 999999999999999998876433
No 47
>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=91.96 E-value=0.38 Score=38.15 Aligned_cols=47 Identities=26% Similarity=0.541 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------chHHHhccC-----CCCCHHHHHHHHHHHhHHH
Q 019619 82 AFSPQEEELIIHLHSIL---GN----------RWSQIAARL-----PGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~---G~----------kWs~IA~~l-----pgRT~~q~KnRW~~llrk~ 128 (338)
.||+++++.|++++.+. |+ .|..|+..| ...+..||++||..+.+..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y 65 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDY 65 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHH
Confidence 49999999999998653 21 299998876 3357789999998766644
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=91.86 E-value=0.25 Score=49.91 Aligned_cols=46 Identities=28% Similarity=0.320 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhH
Q 019619 81 GAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLK 126 (338)
Q Consensus 81 g~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llr 126 (338)
.+|+.+|-+++..+...+|..+..|+..||.|...|||.+|.+--|
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 4799999999999999999999999999999999999999975443
No 49
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=90.93 E-value=0.33 Score=41.45 Aligned_cols=54 Identities=24% Similarity=0.452 Sum_probs=42.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chHHHhcc------------CCCCCHHHHHHHHHHHhHHHHh
Q 019619 77 DLKRGAFSPQEEELIIHLHSILGN----RWSQIAAR------------LPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 77 ~lkkg~WT~EED~lLlelv~~~G~----kWs~IA~~------------lpgRT~~q~KnRW~~llrk~~k 130 (338)
..++..||++||..|+-++.+||- .|..|-.. |..||+..|..|-..|++-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 556778999999999999999995 79888442 2569999999999999876544
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=88.50 E-value=0.87 Score=47.06 Aligned_cols=48 Identities=17% Similarity=0.322 Sum_probs=43.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHH
Q 019619 80 RGAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKK 127 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk 127 (338)
...||.||--++-+++..||++..+|-+.||.|+-..+...|....+.
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 468999999999999999999999999999999999999888655543
No 51
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=82.74 E-value=15 Score=37.32 Aligned_cols=44 Identities=16% Similarity=0.229 Sum_probs=39.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCchHHHhc-cCCCCCHHHHHHHHHHH
Q 019619 81 GAFSPQEEELIIHLHSILGNRWSQIAA-RLPGRTDNEIKNFWNST 124 (338)
Q Consensus 81 g~WT~EED~lLlelv~~~G~kWs~IA~-~lpgRT~~q~KnRW~~l 124 (338)
..|+++|-+.+-+.++.||++...|.+ .++.|+--.|-..|...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 379999999999999999999999977 67999999998877543
No 52
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=82.67 E-value=2.5 Score=46.09 Aligned_cols=44 Identities=14% Similarity=0.213 Sum_probs=38.5
Q ss_pred ccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeee
Q 019619 27 KGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWIN 72 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n 72 (338)
.-+||+.|-.++.+++..|. +++-.|++.++ +++.+||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHHH
Confidence 35899999999999999998 56999999998 9999999886653
No 53
>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=82.49 E-value=3.4 Score=29.32 Aligned_cols=42 Identities=26% Similarity=0.399 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHH
Q 019619 85 PQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKK 127 (338)
Q Consensus 85 ~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk 127 (338)
+++++.++.++-..|-.|.+||..+ |.|...|+.+....+++
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 4677888899999999999999999 99999999988766554
No 54
>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=81.25 E-value=1.5 Score=37.49 Aligned_cols=34 Identities=29% Similarity=0.526 Sum_probs=28.9
Q ss_pred CCcccCCCHHHHHHHHHHHHHcCC---CCchhhhhhc
Q 019619 24 KLRKGLWSPEEDDKLIKYMLTNGQ---GCWSDIARNA 57 (338)
Q Consensus 24 ~lkkg~WT~EEDe~L~~lV~~~G~---~~W~~IA~~m 57 (338)
..++..||.+||.-|+-++.+||. +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 777899999999999999999998 8899997755
No 55
>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=79.33 E-value=1.8 Score=34.66 Aligned_cols=31 Identities=29% Similarity=0.605 Sum_probs=18.5
Q ss_pred CCCcccCCCHHHHHHH--------HHHHHHcCCCCchhhhhh
Q 019619 23 NKLRKGLWSPEEDDKL--------IKYMLTNGQGCWSDIARN 56 (338)
Q Consensus 23 ~~lkkg~WT~EEDe~L--------~~lV~~~G~~~W~~IA~~ 56 (338)
|.-..|.||+|+|+.| .+++++|| +..|+..
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~R 81 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIERR 81 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHHH
Confidence 5667899999999999 35667787 5666653
No 56
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=76.30 E-value=0.78 Score=45.21 Aligned_cols=48 Identities=29% Similarity=0.452 Sum_probs=37.4
Q ss_pred ccCCCHHHHHHHHHHHHHc----C-----CCCchhhhhhc---CCcccccccceeeeeec
Q 019619 27 KGLWSPEEDDKLIKYMLTN----G-----QGCWSDIARNA---GLQRCGKSCRLRWINYL 74 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~----G-----~~~W~~IA~~m---~~~Rt~~QCr~Rw~n~L 74 (338)
...|+.+|-..|+++.... . ..-|..||+.| |..|++.||+.||.+..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 4899999999999987542 1 23499999843 56799999999987743
No 57
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=76.09 E-value=4.4 Score=43.38 Aligned_cols=53 Identities=17% Similarity=0.436 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHH----------hccCCCCCHHHHHHHHHHHhHHHHhcC
Q 019619 80 RGAFSPQEEELIIHLHSILGNRWSQI----------AARLPGRTDNEIKNFWNSTLKKILKNN 132 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~kWs~I----------A~~lpgRT~~q~KnRW~~llrk~~k~~ 132 (338)
+..||-+|+.-+..+++++|++...| -....-+|..|++.+|..++++..+..
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 66899999999999999999999998 334455778899999998888776654
No 58
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=75.35 E-value=1.7 Score=44.11 Aligned_cols=107 Identities=21% Similarity=0.226 Sum_probs=68.9
Q ss_pred CCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeee--ccCC-----C-CCCCCCHHHHH-----
Q 019619 23 NKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINY--LRPD-----L-KRGAFSPQEEE----- 89 (338)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~--L~p~-----l-kkg~WT~EED~----- 89 (338)
.+..--+|+.+|-+++.+++...|+. +.-|+..+| .|..+|++.+|.+- .+|. + .+-|+..+|-.
T Consensus 361 ~~~~~~~Ws~~e~ekFYKALs~wGtd-F~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~~~ 438 (507)
T COG5118 361 KKKGALRWSKKEIEKFYKALSIWGTD-FSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLRSY 438 (507)
T ss_pred CCCCCCcccHHHHHHHHHHHHHhcch-HHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHHHH
Confidence 34445689999999999999999965 999999998 99999999988752 2221 1 13356555543
Q ss_pred ---HHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHHhcCC
Q 019619 90 ---LIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKILKNNP 133 (338)
Q Consensus 90 ---lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~~~ 133 (338)
.|+++.+++...-..|-. ..|++..+...-+.+....+.++.
T Consensus 439 ~~e~l~Elq~E~k~~~~~~EE--~k~~A~E~~q~~Q~l~~~~L~k~~ 483 (507)
T COG5118 439 LLEKLIELQNEHKHHMKEIEE--AKNTAKEEDQTAQRLNDANLNKKG 483 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHhhHHHHHHHHHHHhhhhhhccC
Confidence 334444444333333322 246666665555555555555543
No 59
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=73.85 E-value=9.4 Score=41.88 Aligned_cols=43 Identities=9% Similarity=0.196 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHH
Q 019619 80 RGAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWN 122 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~ 122 (338)
...||+.|-+++-.++-.|-+++..|++.++++|-.+|-..|.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHH
Confidence 4679999999999999999999999999999999999987754
No 60
>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=67.75 E-value=15 Score=25.71 Aligned_cols=43 Identities=28% Similarity=0.424 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 86 QEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 86 EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
++++.++.+.-..|-.+.+||..+ |-|...|+.+....+++..
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKLR 49 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHhc
Confidence 455556666656678899999999 8899999999888877653
No 61
>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=66.00 E-value=3.8 Score=32.31 Aligned_cols=43 Identities=28% Similarity=0.662 Sum_probs=28.0
Q ss_pred CCCHHHHHHHHHHHHHc---CC----C-----CchhhhhhcC----Ccccccccceeee
Q 019619 29 LWSPEEDDKLIKYMLTN---GQ----G-----CWSDIARNAG----LQRCGKSCRLRWI 71 (338)
Q Consensus 29 ~WT~EEDe~L~~lV~~~---G~----~-----~W~~IA~~m~----~~Rt~~QCr~Rw~ 71 (338)
.||+++++.|++++... |. + .|..|++.+. ...+..||+.||.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~ 59 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWK 59 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence 59999999999988553 11 1 2888887663 2334455555543
No 62
>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=63.50 E-value=2 Score=29.98 Aligned_cols=37 Identities=22% Similarity=0.440 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeee
Q 019619 33 EEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWI 71 (338)
Q Consensus 33 EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~ 71 (338)
+=|.+|+.+++..+...|..||+.+| =+...|..|+.
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~ 39 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIR 39 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHH
Confidence 34889999999999889999999997 77777777654
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=57.84 E-value=19 Score=31.37 Aligned_cols=45 Identities=9% Similarity=0.048 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 85 PQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 85 ~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
++-|.+|+++..+-| -.|..||+.+ |-|...|+.|++.+.....-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 357888888888887 6799999999 99999999999988766543
No 64
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=57.64 E-value=12 Score=40.18 Aligned_cols=45 Identities=24% Similarity=0.340 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHH
Q 019619 79 KRGAFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNS 123 (338)
Q Consensus 79 kkg~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~ 123 (338)
..++|+.+|-++.-.+..++|.+.+.|+..+++|...|||.+|..
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 346899999999999999999999999999999999999999864
No 65
>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=57.30 E-value=12 Score=33.57 Aligned_cols=41 Identities=24% Similarity=0.223 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHH
Q 019619 82 AFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNS 123 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~ 123 (338)
.||+|+.++|.+|. .-|-.=++||..|.+.|.+.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999998 458888999999987999999877653
No 66
>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=56.07 E-value=27 Score=29.13 Aligned_cols=37 Identities=22% Similarity=0.358 Sum_probs=28.1
Q ss_pred HHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 92 IHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 92 lelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
+.+.-..|-.+.+||+.+ |.|...|+.+.....++..
T Consensus 122 l~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 122 FILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKELR 158 (161)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 333333477899999999 8999999999987665543
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=55.85 E-value=39 Score=33.84 Aligned_cols=51 Identities=25% Similarity=0.516 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCc---hHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 80 RGAFSPQEEELIIHLHSIL-GNR---WSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~-G~k---Ws~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
-..||.-|.+.|+.+.... |.. -..|++.++||+..+|++.-..+..+.++
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHH
Confidence 3579999999888887654 544 46788899999999999977766555433
No 68
>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=55.83 E-value=5.2 Score=31.98 Aligned_cols=17 Identities=29% Similarity=0.772 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 019619 76 PDLKRGAFSPQEEELII 92 (338)
Q Consensus 76 p~lkkg~WT~EED~lLl 92 (338)
|....|-||+|+|+.|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 66778899999999983
No 69
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=54.95 E-value=22 Score=29.25 Aligned_cols=52 Identities=15% Similarity=0.121 Sum_probs=36.5
Q ss_pred CCCCHHHHHHHHHHHHHh----C----CchHH----HhccC-CCCCHHHHHHHHHHHhHHHHhcC
Q 019619 81 GAFSPQEEELIIHLHSIL----G----NRWSQ----IAARL-PGRTDNEIKNFWNSTLKKILKNN 132 (338)
Q Consensus 81 g~WT~EED~lLlelv~~~----G----~kWs~----IA~~l-pgRT~~q~KnRW~~llrk~~k~~ 132 (338)
.-||+|+|..||+.+..| | ..|.. |...+ ..=+..|+..+-+.|-++.....
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~ 69 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAV 69 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHh
Confidence 469999999999999776 6 24543 33344 23477899888887777765544
No 70
>smart00595 MADF subfamily of SANT domain.
Probab=54.71 E-value=15 Score=28.62 Aligned_cols=27 Identities=30% Similarity=0.598 Sum_probs=22.1
Q ss_pred chHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 101 RWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 101 kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
-|..||..| +-+..+|+.+|+++-...
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 499999999 449999999999775443
No 71
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=54.51 E-value=5.1 Score=34.90 Aligned_cols=44 Identities=11% Similarity=0.238 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCC
Q 019619 32 PEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPD 77 (338)
Q Consensus 32 ~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~ 77 (338)
.+-|.+|++++++.|...|++||+.+| -+...|+.|+.+.....
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAG 51 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 357999999999999989999999996 88888888877654433
No 72
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=52.11 E-value=24 Score=31.10 Aligned_cols=45 Identities=9% Similarity=-0.005 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 85 PQEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 85 ~EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
++-|.+|+.+..+-| -.|..||+.+ |=|...|+.|++.|.+...-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 567888888888877 5799999999 99999999999988876543
No 73
>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=51.04 E-value=34 Score=23.77 Aligned_cols=38 Identities=16% Similarity=0.312 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHH
Q 019619 86 QEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNST 124 (338)
Q Consensus 86 EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~l 124 (338)
+=|..|+.+..+-| -.|..||+.+ |=|...|..|++.+
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 45778888888887 4699999999 99999999998764
No 74
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=49.70 E-value=33 Score=32.06 Aligned_cols=44 Identities=20% Similarity=0.326 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhc--cC-CCCCHHHHHHHHHHHhH
Q 019619 82 AFSPQEEELIIHLHSILGNRWSQIAA--RL-PGRTDNEIKNFWNSTLK 126 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~G~kWs~IA~--~l-pgRT~~q~KnRW~~llr 126 (338)
.|++++|-+|+.+|.. |+.-..|+. .| -.-|-..|..||..++-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999998854 556666655 33 34578999999999885
No 75
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=47.92 E-value=5 Score=35.40 Aligned_cols=44 Identities=14% Similarity=0.228 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCC
Q 019619 32 PEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPD 77 (338)
Q Consensus 32 ~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~ 77 (338)
.+-|.+|+.++++.|...|.+||+.+| -+...|+.|+.+.....
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~G 56 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQG 56 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 567999999999999989999999997 77778888777655443
No 76
>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=46.72 E-value=35 Score=34.12 Aligned_cols=87 Identities=15% Similarity=0.315 Sum_probs=62.8
Q ss_pred cccCCCHHHHHHHHHHHHHcCCC---CchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHH-h---
Q 019619 26 RKGLWSPEEDDKLIKYMLTNGQG---CWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSI-L--- 98 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G~~---~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~-~--- 98 (338)
.-..||.-|...|+.+++....+ +-..|++.++ +|+..++++ |.+.|+ ++.+.+++.+ |
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g 85 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGG 85 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhcccc
Confidence 34689999999999998875323 3467778887 999888876 444443 2345555554 2
Q ss_pred --CC------------chHHHhccCCCCCHHHHHHHHHHHhH
Q 019619 99 --GN------------RWSQIAARLPGRTDNEIKNFWNSTLK 126 (338)
Q Consensus 99 --G~------------kWs~IA~~lpgRT~~q~KnRW~~llr 126 (338)
|. -|..+|+.+.|.-...+-.-|-++|-
T Consensus 86 ~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 86 LKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 21 19999999999999999888877663
No 77
>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=46.32 E-value=42 Score=27.01 Aligned_cols=36 Identities=25% Similarity=0.277 Sum_probs=27.0
Q ss_pred HHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 93 HLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 93 elv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.++-..|..+..||+.+ |=+...|+++....+++..
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKLR 155 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 33334578899999999 6689999998887666543
No 78
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=45.36 E-value=21 Score=41.49 Aligned_cols=78 Identities=13% Similarity=0.164 Sum_probs=51.2
Q ss_pred CCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCCCCCCCCHHHHHHHHHHHHHh-CCc
Q 019619 23 NKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQEEELIIHLHSIL-GNR 101 (338)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~lLlelv~~~-G~k 101 (338)
+....--|..++|.+|+-.|-+||.++|..|-- =| .-|.. =...+...+-.+.|-..+-..|+.+...+ +.+
T Consensus 1129 ~~~~~~~W~~e~Ds~LLiGI~khGygswe~Ir~-Dp-----~L~l~-dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~ 1201 (1373)
T KOG0384|consen 1129 VHSWDCDWGSEDDSMLLIGIFKHGYGSWEAIRL-DP-----DLGLT-DKIFLVETVPQAKHLQRRADYLLSLLRKHDKGN 1201 (1373)
T ss_pred ccCcccCCCchhhhhHhhhhhhcccccHHHhcc-Cc-----cccch-hhhcccccCCchHHHHHHHHHHHHHHhhcccCC
Confidence 333557899999999999999999999999932 11 11111 01122223556677777888888888777 555
Q ss_pred hHHHhc
Q 019619 102 WSQIAA 107 (338)
Q Consensus 102 Ws~IA~ 107 (338)
|....+
T Consensus 1202 ~~~~~~ 1207 (1373)
T KOG0384|consen 1202 TPKKLK 1207 (1373)
T ss_pred Cchhhh
Confidence 655444
No 79
>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=41.74 E-value=28 Score=26.15 Aligned_cols=29 Identities=21% Similarity=0.415 Sum_probs=22.4
Q ss_pred chHHHhccCC-CCCHHHHHHHHHHHhHHHH
Q 019619 101 RWSQIAARLP-GRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 101 kWs~IA~~lp-gRT~~q~KnRW~~llrk~~ 129 (338)
-|..||..|. .-+..+|+.||+++.....
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~ 57 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRYR 57 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHH
Confidence 4999999984 3578899999998766443
No 80
>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=41.57 E-value=56 Score=25.64 Aligned_cols=38 Identities=16% Similarity=0.329 Sum_probs=27.9
Q ss_pred HHHHHHHHhC--------CchHHHhccCCC---CC--HHHHHHHHHHHhHH
Q 019619 90 LIIHLHSILG--------NRWSQIAARLPG---RT--DNEIKNFWNSTLKK 127 (338)
Q Consensus 90 lLlelv~~~G--------~kWs~IA~~lpg---RT--~~q~KnRW~~llrk 127 (338)
.|-.+|.++| ++|..|++.|.- -+ ..++|..|..+|..
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 5788888887 469999998822 12 36789999887753
No 81
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=39.34 E-value=62 Score=27.53 Aligned_cols=32 Identities=16% Similarity=0.175 Sum_probs=24.7
Q ss_pred HhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 97 ILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
..|-.+..||+.| |.+...|+.+....+++..
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr 173 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRAREALR 173 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3567899999999 8899999888765554443
No 82
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=37.11 E-value=70 Score=25.41 Aligned_cols=39 Identities=18% Similarity=0.345 Sum_probs=29.3
Q ss_pred HHHHHHHHhCC--------chHHHhccCCC-----CCHHHHHHHHHHHhHHH
Q 019619 90 LIIHLHSILGN--------RWSQIAARLPG-----RTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 90 lLlelv~~~G~--------kWs~IA~~lpg-----RT~~q~KnRW~~llrk~ 128 (338)
.|..+|.++|+ .|..|++.|.- ....++|..|..+|...
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 47778888873 69999998822 24678899998887654
No 83
>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=36.95 E-value=48 Score=26.51 Aligned_cols=29 Identities=24% Similarity=0.415 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhCCchHHHhccCCCCCHHHH
Q 019619 88 EELIIHLHSILGNRWSQIAARLPGRTDNEI 117 (338)
Q Consensus 88 D~lLlelv~~~G~kWs~IA~~lpgRT~~q~ 117 (338)
|..|..+...+|.+|.++|..| |=+..+|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 5678889999999999999998 5555444
No 84
>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=36.40 E-value=32 Score=30.81 Aligned_cols=33 Identities=30% Similarity=0.406 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHHHHHHcCCCCchhhhhhcC-Ccccc
Q 019619 29 LWSPEEDDKLIKYMLTNGQGCWSDIARNAG-LQRCG 63 (338)
Q Consensus 29 ~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~-~~Rt~ 63 (338)
.||.|+.++|.++...-- .=.+||+.|| ..|+.
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg~vsRnA 35 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLGGVSRNA 35 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhCCcchhh
Confidence 599999999999986533 4689999998 44544
No 85
>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=34.51 E-value=50 Score=26.43 Aligned_cols=29 Identities=28% Similarity=0.554 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhCCchHHHhccCCCCCHHHH
Q 019619 88 EELIIHLHSILGNRWSQIAARLPGRTDNEI 117 (338)
Q Consensus 88 D~lLlelv~~~G~kWs~IA~~lpgRT~~q~ 117 (338)
|+-|..+...+|..|..+|..| |=|..+|
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 4568889999999999999988 5444433
No 86
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=33.34 E-value=50 Score=34.63 Aligned_cols=40 Identities=25% Similarity=0.456 Sum_probs=37.3
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHH
Q 019619 82 AFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWN 122 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~ 122 (338)
.||++|-. +++...-|+.....|+..+...|+.|++.+|.
T Consensus 472 ~wSp~e~s-~ircf~~y~~~fe~ia~l~~tktp~Q~~~fy~ 511 (534)
T KOG1194|consen 472 GWSPEEKS-AIRCFHWYKDNFELIAELMATKTPEQIKKFYM 511 (534)
T ss_pred CCCCcccc-cccCchhhccchHHHHHHhcCCCHHHHHHHhc
Confidence 69999988 88888999999999999999999999999995
No 87
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=33.24 E-value=82 Score=25.13 Aligned_cols=43 Identities=9% Similarity=0.075 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhC-CchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 86 QEEELIIHLHSILG-NRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 86 EED~lLlelv~~~G-~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
+.|..|+.+..+.| -.+.+||+.+ |-+...|+.+.+.+.++..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 56788888888877 5799999999 9999999999988887643
No 88
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=33.06 E-value=87 Score=26.54 Aligned_cols=30 Identities=20% Similarity=0.227 Sum_probs=23.5
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
.|-.+..||+.| |-|...|+++.....++.
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQLL 169 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 467799999999 888999988876655443
No 89
>PRK04217 hypothetical protein; Provisional
Probab=32.75 E-value=1e+02 Score=26.04 Aligned_cols=46 Identities=17% Similarity=0.145 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 82 AFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.-|++| ..++.+....|-...+||+.+ |-+...|+.++....++..
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkLr 87 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKVA 87 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 355555 577777777888999999999 9999999999886555543
No 90
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=32.36 E-value=45 Score=38.27 Aligned_cols=35 Identities=17% Similarity=0.338 Sum_probs=30.1
Q ss_pred CCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhc
Q 019619 23 NKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNA 57 (338)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m 57 (338)
+..++..||.|||..|+-++.+||.++|..|-..+
T Consensus 922 ~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 922 GQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 34556679999999999999999999999997655
No 91
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=32.01 E-value=94 Score=27.56 Aligned_cols=31 Identities=16% Similarity=0.229 Sum_probs=24.2
Q ss_pred HhCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 97 ILGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
..|-...+||..| |-+...|++|.....++.
T Consensus 148 ~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~L 178 (192)
T PRK09643 148 MQGYSVADAARML-GVAEGTVKSRCARGRARL 178 (192)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3567899999999 899999999985544443
No 92
>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=31.11 E-value=50 Score=26.01 Aligned_cols=33 Identities=27% Similarity=0.511 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHH
Q 019619 85 PQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKN 119 (338)
Q Consensus 85 ~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~Kn 119 (338)
.||.++|+.. ...|.+|..+|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788888743 36789999999999 666777655
No 93
>PF05734 DUF832: Herpesvirus protein of unknown function (DUF832); InterPro: IPR008550 This entry contains BRRF2 from Epstein-Barr virus. This protein family is restricted to the gammaherpesvirus's; it's function is not known. The protein is phosphorylated and is associated with the viral tegument [].
Probab=31.06 E-value=21 Score=33.94 Aligned_cols=21 Identities=33% Similarity=0.635 Sum_probs=18.7
Q ss_pred cccccchhhhhccCCCCcccc
Q 019619 314 RVGEWDLEGFMDNISSFPFLD 334 (338)
Q Consensus 314 ~~g~wd~~~~~~~~~~~~~ld 334 (338)
.+-+|+|.+||.|..-|||+|
T Consensus 170 ~vs~~~l~~L~~~p~~~~~~~ 190 (228)
T PF05734_consen 170 SVSEFDLRDLVPDPDEFPDFD 190 (228)
T ss_pred CcchhhHHHHccCchhccCCC
Confidence 345699999999999999998
No 94
>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=30.36 E-value=52 Score=25.83 Aligned_cols=29 Identities=28% Similarity=0.690 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhCCchHHHhccCCCCCHHHH
Q 019619 88 EELIIHLHSILGNRWSQIAARLPGRTDNEI 117 (338)
Q Consensus 88 D~lLlelv~~~G~kWs~IA~~lpgRT~~q~ 117 (338)
|..|..+.+..|.+|.++|+.| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 4567888899999999999998 5454433
No 95
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=28.92 E-value=1.1e+02 Score=26.40 Aligned_cols=30 Identities=10% Similarity=0.007 Sum_probs=23.7
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
.|..+.+||..+ |-|...|+++.....++.
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 467799999999 889999999876555544
No 96
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=28.71 E-value=1.1e+02 Score=27.15 Aligned_cols=39 Identities=18% Similarity=0.256 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHHhHH
Q 019619 88 EELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNSTLKK 127 (338)
Q Consensus 88 D~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk 127 (338)
...++++..-.|-.+..||+.+ |-|...|+.+|...-.+
T Consensus 140 ~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~ 178 (185)
T PF07638_consen 140 QRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAW 178 (185)
T ss_pred HHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3444444445678899999999 99999999999765533
No 97
>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=28.55 E-value=1.4e+02 Score=19.43 Aligned_cols=40 Identities=20% Similarity=0.269 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHHHHH
Q 019619 83 FSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFWNST 124 (338)
Q Consensus 83 WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW~~l 124 (338)
++++ +..++.++-.-|-.+.+||+.+ |=+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4455555556778899999998 67777776655443
No 98
>PRK07331 cobalt transport protein CbiM; Provisional
Probab=27.65 E-value=35 Score=33.91 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=17.2
Q ss_pred ccccccchhhhhc----------cCC--CCcccccccC
Q 019619 313 LRVGEWDLEGFMD----------NIS--SFPFLDFQVE 338 (338)
Q Consensus 313 ~~~g~wd~~~~~~----------~~~--~~~~ld~~~~ 338 (338)
..-|||++|++-+ +.- +-||=||.++
T Consensus 251 ~a~gEW~~e~~~~~~g~~~~~~~~~~~~~a~lpDY~i~ 288 (322)
T PRK07331 251 TAWGEWGPEELKQRLGFVPKGMENGFSFNALFPDYSIA 288 (322)
T ss_pred CCCCcCCHHHHhhhccCChHHHHhccccCCCCCCCCCC
Confidence 3458999999944 322 2567788753
No 99
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=27.49 E-value=1.4e+02 Score=25.03 Aligned_cols=30 Identities=13% Similarity=0.216 Sum_probs=23.8
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
.|-.-..||..| |-+...|+++....+++.
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 889999999877555544
No 100
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=27.21 E-value=20 Score=36.72 Aligned_cols=49 Identities=22% Similarity=0.233 Sum_probs=40.7
Q ss_pred CCcccCCCHHHHHHHHHHHHHcCCCCchhhhhh-----cCCcccccccceeeeee
Q 019619 24 KLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARN-----AGLQRCGKSCRLRWINY 73 (338)
Q Consensus 24 ~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~-----m~~~Rt~~QCr~Rw~n~ 73 (338)
.++-..||.+|-+-|.+++++|.-. |-.||.. .+..||.-..++||+..
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 4555789999999999999999954 9999976 66459999999999743
No 101
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=27.00 E-value=1.3e+02 Score=26.53 Aligned_cols=31 Identities=23% Similarity=0.128 Sum_probs=24.4
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.|-....||..| |-+...|+++.....++..
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar~~Lr 151 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGRVKLK 151 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 467899999999 8899999998765554433
No 102
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=26.69 E-value=22 Score=38.30 Aligned_cols=47 Identities=11% Similarity=0.264 Sum_probs=34.5
Q ss_pred ccCCCHHHHHHHHHHHHHcCCCCchhhhhhcC---------Ccccccccceeeeeec
Q 019619 27 KGLWSPEEDDKLIKYMLTNGQGCWSDIARNAG---------LQRCGKSCRLRWINYL 74 (338)
Q Consensus 27 kg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~---------~~Rt~~QCr~Rw~n~L 74 (338)
|..||-.|.+-+..++..+| +++..|-..+- ..++..|+|.+|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 66899999999999999999 56888822221 1345567888777543
No 103
>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=26.05 E-value=1.5e+02 Score=26.29 Aligned_cols=30 Identities=13% Similarity=0.133 Sum_probs=24.0
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
.|.....||..| |-+...||.|....+++.
T Consensus 146 ~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 146 LGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 467789999999 999999999876655544
No 104
>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=25.55 E-value=86 Score=24.08 Aligned_cols=30 Identities=30% Similarity=0.602 Sum_probs=21.7
Q ss_pred HHHHHHHHHHH-hCCchHHHhccCCCCCHHHH
Q 019619 87 EEELIIHLHSI-LGNRWSQIAARLPGRTDNEI 117 (338)
Q Consensus 87 ED~lLlelv~~-~G~kWs~IA~~lpgRT~~q~ 117 (338)
-.+.|..++.. .|.+|..+|+.| |=+..+|
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 35567777777 899999999999 3344433
No 105
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=25.22 E-value=1.5e+02 Score=25.85 Aligned_cols=31 Identities=16% Similarity=0.240 Sum_probs=24.4
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.|....+||..| |-+...|+.+....+++..
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr 184 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALARLR 184 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 467799999999 8888999988776665543
No 106
>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=25.12 E-value=1.1e+02 Score=26.39 Aligned_cols=32 Identities=13% Similarity=0.062 Sum_probs=24.3
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
.|-....||..+ |=|...|+++.....++..+
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~Lr~ 184 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAIAI 184 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 356789999999 78899999988766555443
No 107
>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=24.89 E-value=1.5e+02 Score=25.38 Aligned_cols=31 Identities=19% Similarity=0.349 Sum_probs=23.6
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.|-....||..+ |-|...|+++....+++..
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~Lr 164 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKLK 164 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 356788899988 7799999998876665543
No 108
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=24.87 E-value=75 Score=21.98 Aligned_cols=36 Identities=31% Similarity=0.455 Sum_probs=17.9
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHH
Q 019619 82 AFSPQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKN 119 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~Kn 119 (338)
.+|.+|-..|..++ +-|..=..||+.| ||+...|.+
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 56777776666654 5788889999999 999887754
No 109
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=24.40 E-value=46 Score=35.82 Aligned_cols=52 Identities=19% Similarity=0.270 Sum_probs=44.6
Q ss_pred ccccCCCCcccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeee
Q 019619 18 INAKANKLRKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWI 71 (338)
Q Consensus 18 ~n~k~~~lkkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~ 71 (338)
+..+.++...++|+.+|-++...+....|.. .+.|+...+ .|..+|++.++.
T Consensus 400 ~~t~sk~~~~~~w~~se~e~fyka~~~~gs~-~slis~l~p-~R~rk~iK~K~~ 451 (584)
T KOG2009|consen 400 YATYSKKLETDKWDASETELFYKALSERGSD-FSLISNLFP-LRDRKQIKAKFK 451 (584)
T ss_pred hhhccCccccCcccchhhHHhhhHHhhhccc-ccccccccc-cccHHHHHHHHh
Confidence 3445677788999999999999999999965 899999987 999999988664
No 110
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=24.37 E-value=1.8e+02 Score=25.29 Aligned_cols=32 Identities=16% Similarity=0.235 Sum_probs=25.0
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
.|....+||..| |-+...|+.+....+++..+
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~ 177 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALAA 177 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 366789999999 89999999988766655443
No 111
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=24.30 E-value=1.6e+02 Score=26.04 Aligned_cols=29 Identities=10% Similarity=0.031 Sum_probs=23.3
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKK 127 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk 127 (338)
.|-....||..| |-+...||.|.....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366799999999 99999999987654443
No 112
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=24.06 E-value=1.7e+02 Score=25.08 Aligned_cols=31 Identities=29% Similarity=0.333 Sum_probs=23.6
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.|-.-..||..| |.+...|+.|....+++..
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr 163 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRALR 163 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 356679999999 8899999998775554443
No 113
>PLN03162 golden-2 like transcription factor; Provisional
Probab=23.98 E-value=4.5e+02 Score=27.20 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=35.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc---hHHHhccC--CCCCHHHHHHHHHHH
Q 019619 80 RGAFSPQEEELIIHLHSILGNR---WSQIAARL--PGRTDNEIKNFWNST 124 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~k---Ws~IA~~l--pgRT~~q~KnRW~~l 124 (338)
|-.||+|=.+++++++.++|.. =+.|-+.| +|=|..+|+.+.+.+
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKY 286 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKY 286 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 3469999999999999999932 46676766 889999998876543
No 114
>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=23.87 E-value=92 Score=24.72 Aligned_cols=31 Identities=29% Similarity=0.528 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhCCchHHHhccCCCCCHHHHHH
Q 019619 88 EELIIHLHSILGNRWSQIAARLPGRTDNEIKN 119 (338)
Q Consensus 88 D~lLlelv~~~G~kWs~IA~~lpgRT~~q~Kn 119 (338)
|..|..+...+|.+|..+|+.| |=+..+|..
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 4567788899999999999998 566665544
No 115
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=23.73 E-value=1.7e+02 Score=25.61 Aligned_cols=31 Identities=13% Similarity=0.131 Sum_probs=24.0
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.|-...+||..| |-|...|+++.....++..
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr 176 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKKLA 176 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 466789999999 7899999999876554443
No 116
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=23.53 E-value=1.8e+02 Score=24.53 Aligned_cols=29 Identities=10% Similarity=-0.047 Sum_probs=22.6
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKK 127 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk 127 (338)
.|-.-..||..+ |-+...|++|.....++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456789999999 99999999987654444
No 117
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=23.44 E-value=80 Score=24.40 Aligned_cols=44 Identities=14% Similarity=0.424 Sum_probs=28.6
Q ss_pred HHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeeccCCC-------CCCCCCHHHHHHH
Q 019619 35 DDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLRPDL-------KRGAFSPQEEELI 91 (338)
Q Consensus 35 De~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~p~l-------kkg~WT~EED~lL 91 (338)
+.+|.++|..|| |...++.+. - .|. ..+|.+ ++.+|..+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-i----~CF-----~~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-I----NCF-----KNNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-S----SST-----TSS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-c----ccC-----CCCCchHHHHHHHhcCHhHHHHHHHh
Confidence 568889999998 999998886 3 333 124443 3567887766654
No 118
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=23.42 E-value=1.9e+02 Score=24.14 Aligned_cols=29 Identities=21% Similarity=0.339 Sum_probs=22.2
Q ss_pred CCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 99 GNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
|-....||..+ |-+...|+++-...+++.
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~~L 150 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALEKM 150 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 45678888888 888889988876655554
No 119
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=23.28 E-value=1.5e+02 Score=25.87 Aligned_cols=29 Identities=14% Similarity=0.149 Sum_probs=22.1
Q ss_pred CCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 99 GNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
|-....||..+ |-+...|+++.....++.
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56689999999 888999998876554443
No 120
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=23.23 E-value=1.5e+02 Score=25.56 Aligned_cols=29 Identities=10% Similarity=0.039 Sum_probs=22.6
Q ss_pred CCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 99 GNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
|....+||..| |-+...|+++.....++.
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56789999998 888999999876555544
No 121
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=22.93 E-value=34 Score=27.40 Aligned_cols=41 Identities=15% Similarity=0.210 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeecc
Q 019619 33 EEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYLR 75 (338)
Q Consensus 33 EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L~ 75 (338)
+.|.+++.++...+...+..||+.++ -+...|+.|......
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~ 43 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEE 43 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHH
Confidence 56889999999988888999999986 777777766554433
No 122
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=22.88 E-value=1.8e+02 Score=25.32 Aligned_cols=34 Identities=18% Similarity=0.177 Sum_probs=27.7
Q ss_pred HhCCchHHHhccCCCCCHHHHHHHHHHHhHHHHhc
Q 019619 97 ILGNRWSQIAARLPGRTDNEIKNFWNSTLKKILKN 131 (338)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k~ 131 (338)
..|-...+||..| |-+...||.|....+++....
T Consensus 141 ~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 141 LDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 3467899999999 999999999988777766544
No 123
>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=22.74 E-value=1e+02 Score=24.43 Aligned_cols=26 Identities=35% Similarity=0.612 Sum_probs=19.6
Q ss_pred HHHHHHHhCCchHHHhccCCCCCHHHH
Q 019619 91 IIHLHSILGNRWSQIAARLPGRTDNEI 117 (338)
Q Consensus 91 Llelv~~~G~kWs~IA~~lpgRT~~q~ 117 (338)
|..+....|.+|.++|+.| |=+..+|
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 3346688899999999998 6565555
No 124
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=22.46 E-value=1.6e+02 Score=21.59 Aligned_cols=36 Identities=25% Similarity=0.449 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHHHH
Q 019619 85 PQEEELIIHLHSILGNRWSQIAARLPGRTDNEIKNFW 121 (338)
Q Consensus 85 ~EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~KnRW 121 (338)
.++|+-.+.++.+.|-.=.+||+.+ +|+...|++.-
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 3556677888889999999999999 99998887643
No 125
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=22.46 E-value=1.3e+02 Score=25.22 Aligned_cols=45 Identities=16% Similarity=0.251 Sum_probs=31.7
Q ss_pred cccCCCHHHHHHHHHHHHHcCCCCchhhhhhcCCcccccccceeeeeec
Q 019619 26 RKGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYL 74 (338)
Q Consensus 26 kkg~WT~EEDe~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~Rw~n~L 74 (338)
++..||.|+-..++..+...|. .-..||+.++. +..+++ +|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~~tl~-~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AASQLF-LWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CHHHHH-HHHHHH
Confidence 3577999998888888777773 46899998873 444443 466544
No 126
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=22.36 E-value=1.9e+02 Score=25.57 Aligned_cols=30 Identities=13% Similarity=0.071 Sum_probs=23.5
Q ss_pred CCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 99 GNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
|-...+||..| |-+...|+.|....+++..
T Consensus 157 g~s~~EIA~~l-gis~~tVk~rl~ra~~~Lr 186 (194)
T PRK12531 157 ELPHQQVAEMF-DIPLGTVKSRLRLAVEKLR 186 (194)
T ss_pred CCCHHHHHHHh-CcCHHHHHHHHHHHHHHHH
Confidence 56788999999 8999999998776655543
No 127
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=22.30 E-value=1.9e+02 Score=24.82 Aligned_cols=32 Identities=22% Similarity=0.424 Sum_probs=25.7
Q ss_pred HhCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 97 ILGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
..|-...+||+.+ |-+...|+.+-..-+++..
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~ 164 (172)
T PRK12523 133 LDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCY 164 (172)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3567899999999 9999999999776665543
No 128
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=21.93 E-value=1.9e+02 Score=25.62 Aligned_cols=31 Identities=10% Similarity=0.044 Sum_probs=23.2
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKIL 129 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~ 129 (338)
.|-.+.+||+.| |=+...|+++....+++..
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~Lr 181 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRALA 181 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 466799999999 8888888888765554443
No 129
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.28 E-value=73 Score=27.77 Aligned_cols=36 Identities=19% Similarity=0.287 Sum_probs=20.2
Q ss_pred CCCHHHHHHHHHHHHHh-CCchHHHhccCCCCCHHHHH
Q 019619 82 AFSPQEEELIIHLHSIL-GNRWSQIAARLPGRTDNEIK 118 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~-G~kWs~IA~~lpgRT~~q~K 118 (338)
++++++-++|.--+..+ |..|..||..+ +-+..+|+
T Consensus 81 ~l~de~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~ 117 (130)
T PF05263_consen 81 TLIDEEKRIIKLRYDRRSRRTWYQIAQKL-HISERTAR 117 (130)
T ss_pred hhCHHHHHHHHHHHcccccchHHHHHHHh-CccHHHHH
Confidence 44455444443333444 47799999987 34444443
No 130
>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=21.00 E-value=2.1e+02 Score=24.20 Aligned_cols=29 Identities=24% Similarity=0.358 Sum_probs=22.6
Q ss_pred CCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 99 GNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
|-...+||+.| |-+...|+++-....++.
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~~L 166 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIKKL 166 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56788999998 888899988876655544
No 131
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=20.99 E-value=1.9e+02 Score=25.47 Aligned_cols=32 Identities=22% Similarity=0.232 Sum_probs=25.6
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
.|-.-..||..| |-+...|+.+....+++..+
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 356689999999 99999999998766665544
No 132
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=20.91 E-value=54 Score=27.76 Aligned_cols=33 Identities=12% Similarity=0.277 Sum_probs=0.0
Q ss_pred HHHHHHHHHHcCCCCchhhhhhcCCccccccccee
Q 019619 35 DDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLR 69 (338)
Q Consensus 35 De~L~~lV~~~G~~~W~~IA~~m~~~Rt~~QCr~R 69 (338)
|.+++++++..+...+..||+.++ -+...|+.|
T Consensus 10 D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~R 42 (154)
T COG1522 10 DRRILRLLQEDARISNAELAERVG--LSPSTVLRR 42 (154)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHH
No 133
>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=20.86 E-value=2.2e+02 Score=24.57 Aligned_cols=30 Identities=20% Similarity=0.248 Sum_probs=24.0
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHH
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKI 128 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~ 128 (338)
.|-...+||..+ |-+...|+.|.....++.
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 178 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAWL 178 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 999999999987655544
No 134
>PF06583 Neogenin_C: Neogenin C-terminus; InterPro: IPR010560 This entry represents the C terminus of eukaryotic neogenin precursor proteins, which contains several potential phosphorylation sites []. Neogenin is a member of the N-CAM family of cell adhesion molecules (and therefore contains multiple copies of IPR007110 from INTERPRO and IPR003961 from INTERPRO) and is closely related to the DCC tumour suppressor gene product - these proteins may play an integral role in regulating differentiation programmes and/or cell migration events within many adult and embryonic tissues [].; GO: 0016021 integral to membrane; PDB: 3AU4_B.
Probab=20.69 E-value=31 Score=34.43 Aligned_cols=21 Identities=29% Similarity=0.528 Sum_probs=11.5
Q ss_pred cccccccccccchhhhhccCC
Q 019619 308 WQGENLRVGEWDLEGFMDNIS 328 (338)
Q Consensus 308 ~~~~~~~~g~wd~~~~~~~~~ 328 (338)
+..|+|.--==.|||||||++
T Consensus 294 ysteeL~qEMAnLEGLMKDLn 314 (319)
T PF06583_consen 294 YSTEELNQEMANLEGLMKDLN 314 (319)
T ss_dssp HH---HHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHH
Confidence 334554322247999999964
No 135
>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=20.61 E-value=2.6e+02 Score=23.62 Aligned_cols=46 Identities=13% Similarity=0.299 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHHHh------------CC-------------------chHHHhccCCCCCHHHHHHHHHHHhHH
Q 019619 82 AFSPQEEELIIHLHSIL------------GN-------------------RWSQIAARLPGRTDNEIKNFWNSTLKK 127 (338)
Q Consensus 82 ~WT~EED~lLlelv~~~------------G~-------------------kWs~IA~~lpgRT~~q~KnRW~~llrk 127 (338)
.+|.+||..|...+.++ |. =....+...|..|..+-|.||+..+..
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~ 77 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSE 77 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHH
Confidence 37999999999998654 11 145667888999999999999876653
No 136
>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=20.33 E-value=2.1e+02 Score=25.38 Aligned_cols=45 Identities=18% Similarity=0.142 Sum_probs=36.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHHhccC----CCCCHHHHHHHHHHH
Q 019619 80 RGAFSPQEEELIIHLHSILGNRWSQIAARL----PGRTDNEIKNFWNST 124 (338)
Q Consensus 80 kg~WT~EED~lLlelv~~~G~kWs~IA~~l----pgRT~~q~KnRW~~l 124 (338)
...-|+.|..-|..|+.+||.++...+.-. --.|..||+.+...+
T Consensus 114 ~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 114 PRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 446889999999999999999999998733 358899998877654
No 137
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=20.28 E-value=2.2e+02 Score=24.78 Aligned_cols=32 Identities=19% Similarity=0.142 Sum_probs=25.3
Q ss_pred hCCchHHHhccCCCCCHHHHHHHHHHHhHHHHh
Q 019619 98 LGNRWSQIAARLPGRTDNEIKNFWNSTLKKILK 130 (338)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~KnRW~~llrk~~k 130 (338)
.|-...+||+.| |.+...|+++-...+++..+
T Consensus 144 ~g~s~~EIA~~l-~is~~tV~~~l~rar~~Lr~ 175 (181)
T PRK12536 144 EGLSVAETAQLT-GLSESAVKVGIHRGLKALAA 175 (181)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 467789999999 99999999997765555443
No 138
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=20.23 E-value=1.8e+02 Score=19.71 Aligned_cols=33 Identities=24% Similarity=0.221 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHhCCchHHHhccCCCCCHHHHHH
Q 019619 86 QEEELIIHLHSILGNRWSQIAARLPGRTDNEIKN 119 (338)
Q Consensus 86 EED~lLlelv~~~G~kWs~IA~~lpgRT~~q~Kn 119 (338)
=|...|.++...++++..+.|+.| |=+...+..
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~ 37 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYR 37 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHH
Confidence 367789999999999999999988 444444433
Done!