Query 037998
Match_columns 348
No_of_seqs 236 out of 1497
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 06:28:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037998.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037998hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.4E-38 3E-43 316.9 21.6 132 1-132 1-132 (459)
2 PLN03212 Transcription repress 100.0 3.1E-38 6.6E-43 295.6 10.9 128 3-130 14-141 (249)
3 KOG0048 Transcription factor, 100.0 2.3E-37 4.9E-42 290.0 11.5 119 12-130 7-125 (238)
4 KOG0049 Transcription factor, 99.7 2.9E-18 6.3E-23 177.1 6.2 116 1-118 347-466 (939)
5 KOG0049 Transcription factor, 99.7 2.4E-17 5.3E-22 170.3 9.8 144 8-152 247-445 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.5 1.7E-15 3.7E-20 112.9 2.6 60 17-78 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 9.2E-15 2E-19 150.2 8.0 108 9-117 15-122 (512)
8 PLN03212 Transcription repress 99.5 2.2E-14 4.8E-19 135.3 6.7 91 62-154 20-112 (249)
9 KOG0050 mRNA splicing protein 99.5 2.7E-14 5.8E-19 145.2 5.0 107 12-120 5-111 (617)
10 KOG0048 Transcription factor, 99.4 3.9E-14 8.6E-19 133.1 3.0 80 63-142 5-86 (238)
11 KOG0051 RNA polymerase I termi 99.4 7.7E-14 1.7E-18 145.0 5.3 113 3-120 375-515 (607)
12 PLN03091 hypothetical protein; 99.4 1.5E-13 3.2E-18 138.4 5.4 99 62-162 9-109 (459)
13 PF00249 Myb_DNA-binding: Myb- 99.3 1.5E-12 3.3E-17 93.5 5.0 46 67-112 1-48 (48)
14 PF13921 Myb_DNA-bind_6: Myb-l 99.3 3E-13 6.4E-18 100.8 0.5 57 70-126 1-57 (60)
15 KOG0051 RNA polymerase I termi 99.3 7.2E-13 1.6E-17 137.9 3.0 169 12-182 306-512 (607)
16 PF00249 Myb_DNA-binding: Myb- 99.3 4.3E-13 9.3E-18 96.4 -0.2 48 14-61 1-48 (48)
17 smart00717 SANT SANT SWI3, AD 99.1 7.2E-11 1.6E-15 82.0 5.2 47 67-113 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 5.9E-10 1.3E-14 76.3 5.6 44 69-112 1-45 (45)
19 smart00717 SANT SANT SWI3, AD 98.9 7.9E-10 1.7E-14 76.7 1.4 48 14-62 1-48 (49)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 6.1E-09 1.3E-13 71.2 1.1 44 16-60 1-44 (45)
21 KOG0050 mRNA splicing protein 98.4 4.6E-07 1E-11 93.2 5.5 101 65-181 5-106 (617)
22 COG5147 REB1 Myb superfamily p 98.3 4.9E-08 1.1E-12 101.1 -2.7 95 13-110 290-394 (512)
23 TIGR01557 myb_SHAQKYF myb-like 97.6 2.1E-05 4.6E-10 59.3 1.5 49 13-61 2-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.6 0.00016 3.4E-09 54.6 5.8 47 67-113 3-55 (57)
25 KOG0457 Histone acetyltransfer 97.6 0.00012 2.5E-09 74.5 6.2 50 64-113 69-119 (438)
26 KOG0457 Histone acetyltransfer 97.3 8.5E-05 1.8E-09 75.5 0.8 49 12-61 70-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.2 0.00048 1E-08 62.0 4.6 52 66-118 3-61 (161)
28 PF13325 MCRS_N: N-terminal re 97.1 0.00074 1.6E-08 62.8 5.3 101 16-118 1-132 (199)
29 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00068 1.5E-08 53.6 3.6 51 67-118 1-69 (90)
30 PF08914 Myb_DNA-bind_2: Rap1 96.7 0.0021 4.6E-08 49.8 4.2 51 67-117 2-62 (65)
31 KOG1279 Chromatin remodeling f 96.5 0.003 6.6E-08 66.0 5.1 46 66-111 252-297 (506)
32 PRK13923 putative spore coat p 96.4 0.0035 7.6E-08 57.1 4.2 52 65-117 3-61 (170)
33 COG5259 RSC8 RSC chromatin rem 96.4 0.0032 7E-08 64.9 4.3 44 68-111 280-323 (531)
34 TIGR02894 DNA_bind_RsfA transc 95.9 0.0017 3.8E-08 58.4 -0.3 50 12-63 2-57 (161)
35 COG5259 RSC8 RSC chromatin rem 95.9 0.0023 5.1E-08 65.8 0.2 46 13-60 278-323 (531)
36 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.024 5.2E-07 44.1 5.6 49 67-115 2-72 (78)
37 KOG1279 Chromatin remodeling f 95.5 0.0073 1.6E-07 63.3 2.1 49 10-60 249-297 (506)
38 PF13837 Myb_DNA-bind_4: Myb/S 95.2 0.0033 7.2E-08 49.6 -1.1 48 14-61 1-64 (90)
39 COG5114 Histone acetyltransfer 95.2 0.027 5.8E-07 56.0 4.9 48 66-113 62-110 (432)
40 PF08914 Myb_DNA-bind_2: Rap1 94.1 0.011 2.4E-07 45.8 -0.6 51 14-64 2-60 (65)
41 COG5114 Histone acetyltransfer 94.0 0.013 2.8E-07 58.2 -0.5 48 14-62 63-110 (432)
42 PRK13923 putative spore coat p 93.5 0.014 3.1E-07 53.2 -1.1 50 12-63 3-58 (170)
43 PF13873 Myb_DNA-bind_5: Myb/S 93.4 0.015 3.4E-07 45.1 -0.9 49 13-61 1-69 (78)
44 PLN03142 Probable chromatin-re 92.7 0.27 5.9E-06 55.9 7.2 100 15-115 825-987 (1033)
45 PF12776 Myb_DNA-bind_3: Myb/S 92.5 0.32 6.9E-06 38.7 5.6 46 69-114 1-64 (96)
46 KOG2656 DNA methyltransferase 91.7 0.2 4.3E-06 51.1 4.1 84 36-120 75-189 (445)
47 PF09111 SLIDE: SLIDE; InterP 91.3 0.39 8.5E-06 41.3 5.0 52 64-115 46-113 (118)
48 KOG4282 Transcription factor G 91.2 0.28 6E-06 48.5 4.6 48 67-114 54-115 (345)
49 COG5118 BDP1 Transcription ini 89.7 0.47 1E-05 48.3 4.8 47 69-115 367-413 (507)
50 KOG1194 Predicted DNA-binding 89.0 0.92 2E-05 47.2 6.3 49 67-115 187-235 (534)
51 PF08281 Sigma70_r4_2: Sigma-7 81.3 4.2 9E-05 29.0 5.0 42 72-114 12-53 (54)
52 PF09111 SLIDE: SLIDE; InterP 78.7 1.5 3.4E-05 37.7 2.3 34 11-44 46-82 (118)
53 KOG4468 Polycomb-group transcr 78.5 4.4 9.6E-05 43.7 6.0 58 67-125 88-155 (782)
54 KOG4282 Transcription factor G 75.5 1.4 3E-05 43.6 1.3 47 15-61 55-113 (345)
55 PF11626 Rap1_C: TRF2-interact 73.3 2 4.3E-05 34.7 1.5 28 12-42 45-80 (87)
56 KOG4167 Predicted DNA-binding 71.7 6.7 0.00015 43.3 5.4 46 68-113 620-665 (907)
57 COG5118 BDP1 Transcription ini 70.6 8.6 0.00019 39.6 5.6 109 14-124 365-487 (507)
58 PF13404 HTH_AsnC-type: AsnC-t 67.7 13 0.00028 26.1 4.5 38 73-111 3-41 (42)
59 PRK11179 DNA-binding transcrip 67.0 6 0.00013 34.6 3.3 46 72-118 8-54 (153)
60 PF11035 SnAPC_2_like: Small n 65.4 24 0.00052 35.6 7.3 54 67-121 21-78 (344)
61 smart00595 MADF subfamily of S 64.0 9.4 0.0002 29.9 3.6 25 89-114 30-54 (89)
62 PRK11169 leucine-responsive tr 60.8 8.1 0.00018 34.3 3.0 45 72-117 13-58 (164)
63 PF04545 Sigma70_r4: Sigma-70, 57.5 26 0.00057 24.6 4.6 41 73-114 7-47 (50)
64 KOG0384 Chromodomain-helicase 56.2 12 0.00027 43.5 4.0 76 13-95 1132-1208(1373)
65 KOG4167 Predicted DNA-binding 53.6 10 0.00022 42.0 2.7 44 14-59 619-662 (907)
66 PF12776 Myb_DNA-bind_3: Myb/S 51.2 7.4 0.00016 30.8 1.0 44 16-59 1-60 (96)
67 PF07750 GcrA: GcrA cell cycle 50.5 18 0.00039 32.6 3.5 40 69-109 2-41 (162)
68 KOG4329 DNA-binding protein [G 49.1 28 0.00062 35.8 4.9 46 68-113 278-324 (445)
69 TIGR02985 Sig70_bacteroi1 RNA 48.9 36 0.00078 28.4 4.9 30 84-114 127-156 (161)
70 KOG2009 Transcription initiati 48.8 16 0.00035 39.4 3.3 49 66-114 408-456 (584)
71 PF13404 HTH_AsnC-type: AsnC-t 48.6 3.9 8.5E-05 28.8 -0.9 37 20-58 3-39 (42)
72 PF13325 MCRS_N: N-terminal re 47.9 34 0.00074 32.2 4.9 44 69-113 1-47 (199)
73 PF01388 ARID: ARID/BRIGHT DNA 47.2 43 0.00094 26.5 4.9 38 77-114 40-90 (92)
74 PRK11179 DNA-binding transcrip 46.5 5.7 0.00012 34.8 -0.4 45 20-66 9-53 (153)
75 PF11626 Rap1_C: TRF2-interact 45.2 21 0.00045 28.7 2.7 17 63-79 43-59 (87)
76 PF10545 MADF_DNA_bdg: Alcohol 44.3 22 0.00048 26.9 2.7 26 89-114 29-55 (85)
77 PF02954 HTH_8: Bacterial regu 43.8 10 0.00022 26.3 0.7 29 21-50 6-34 (42)
78 smart00501 BRIGHT BRIGHT, ARID 42.3 55 0.0012 26.2 4.8 39 77-115 36-87 (93)
79 PRK11169 leucine-responsive tr 42.2 5.4 0.00012 35.4 -1.2 45 19-65 13-57 (164)
80 PRK09413 IS2 repressor TnpA; R 40.7 39 0.00085 28.5 3.9 47 12-62 8-54 (121)
81 TIGR02937 sigma70-ECF RNA poly 40.4 77 0.0017 25.5 5.5 33 81-114 121-153 (158)
82 cd08319 Death_RAIDD Death doma 40.3 38 0.00082 27.4 3.5 30 75-105 2-31 (83)
83 smart00344 HTH_ASNC helix_turn 39.2 38 0.00081 27.3 3.4 45 73-118 3-48 (108)
84 PF05263 DUF722: Protein of un 37.0 67 0.0014 28.2 4.8 42 74-117 85-128 (130)
85 PRK12529 RNA polymerase sigma 34.8 1.1E+02 0.0023 26.9 5.9 35 85-120 142-176 (178)
86 KOG2656 DNA methyltransferase 34.6 8.2 0.00018 39.8 -1.4 49 11-60 127-180 (445)
87 PF07638 Sigma70_ECF: ECF sigm 34.0 1E+02 0.0023 27.5 5.7 37 76-113 141-177 (185)
88 KOG4468 Polycomb-group transcr 33.7 33 0.00072 37.4 2.8 47 14-61 88-143 (782)
89 COG1522 Lrp Transcriptional re 33.5 51 0.0011 28.0 3.5 44 72-116 7-51 (154)
90 cd06171 Sigma70_r4 Sigma70, re 33.5 1.3E+02 0.0028 19.8 4.9 40 70-111 11-50 (55)
91 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 33.5 80 0.0017 23.4 4.0 36 72-108 6-41 (50)
92 PRK09643 RNA polymerase sigma 33.1 97 0.0021 27.6 5.4 28 85-113 149-176 (192)
93 PRK04217 hypothetical protein; 33.0 1.5E+02 0.0032 25.3 6.1 46 68-115 41-86 (110)
94 PF04504 DUF573: Protein of un 32.6 88 0.0019 25.9 4.6 50 68-117 5-67 (98)
95 cd08803 Death_ank3 Death domai 32.5 70 0.0015 25.8 3.9 31 75-106 4-34 (84)
96 cd08317 Death_ank Death domain 31.9 50 0.0011 26.1 3.0 30 75-105 4-33 (84)
97 PRK09652 RNA polymerase sigma 31.6 1.3E+02 0.0027 25.7 5.7 29 85-114 143-171 (182)
98 PLN03162 golden-2 like transcr 31.6 3.4E+02 0.0075 28.3 9.4 46 68-113 238-288 (526)
99 KOG1194 Predicted DNA-binding 31.3 73 0.0016 33.7 4.7 41 69-110 472-512 (534)
100 PRK11924 RNA polymerase sigma 31.1 1E+02 0.0022 26.2 5.0 29 85-114 140-168 (179)
101 PF08870 DUF1832: Domain of un 30.8 1.4E+02 0.0031 25.4 5.7 90 18-118 5-99 (113)
102 PF02954 HTH_8: Bacterial regu 30.4 91 0.002 21.4 3.7 35 73-108 5-39 (42)
103 PRK12532 RNA polymerase sigma 29.5 1.4E+02 0.003 26.5 5.7 37 85-122 151-190 (195)
104 cd08318 Death_NMPP84 Death dom 28.5 74 0.0016 25.5 3.4 27 78-105 10-36 (86)
105 smart00351 PAX Paired Box doma 28.3 74 0.0016 27.1 3.6 73 12-86 13-92 (125)
106 PF07750 GcrA: GcrA cell cycle 28.0 32 0.0007 31.0 1.4 34 16-51 2-36 (162)
107 PF11035 SnAPC_2_like: Small n 27.6 1.1E+02 0.0024 31.0 5.0 86 14-113 21-127 (344)
108 KOG3841 TEF-1 and related tran 27.3 2.5E+02 0.0054 29.3 7.6 27 8-34 70-96 (455)
109 PF09420 Nop16: Ribosome bioge 27.3 1.4E+02 0.0031 26.6 5.4 46 66-111 113-162 (164)
110 smart00005 DEATH DEATH domain, 26.1 80 0.0017 24.4 3.2 31 74-105 4-35 (88)
111 PRK12512 RNA polymerase sigma 26.0 1.7E+02 0.0037 25.5 5.7 32 86-118 147-178 (184)
112 cd08779 Death_PIDD Death Domai 25.9 49 0.0011 26.6 2.0 21 76-96 3-23 (86)
113 PRK09641 RNA polymerase sigma 25.4 1.2E+02 0.0027 26.2 4.6 28 86-114 152-179 (187)
114 cd08777 Death_RIP1 Death Domai 25.3 81 0.0017 25.5 3.1 30 76-106 3-32 (86)
115 PRK12530 RNA polymerase sigma 25.1 1.5E+02 0.0032 26.4 5.1 27 86-113 150-176 (189)
116 cd08804 Death_ank2 Death domai 25.0 91 0.002 25.0 3.4 31 75-106 4-34 (84)
117 TIGR02939 RpoE_Sigma70 RNA pol 25.0 1E+02 0.0022 26.8 4.0 28 86-114 154-181 (190)
118 COG2197 CitB Response regulato 24.5 1.1E+02 0.0024 28.1 4.3 44 68-114 147-190 (211)
119 COG2963 Transposase and inacti 24.2 2E+02 0.0043 23.6 5.4 46 67-114 5-51 (116)
120 PRK12515 RNA polymerase sigma 24.0 1.8E+02 0.004 25.5 5.5 29 85-114 146-174 (189)
121 TIGR02954 Sig70_famx3 RNA poly 23.7 1.4E+02 0.0031 25.6 4.6 29 86-115 135-163 (169)
122 PRK12523 RNA polymerase sigma 23.5 2.3E+02 0.005 24.5 5.9 34 84-118 133-166 (172)
123 PLN03142 Probable chromatin-re 23.2 1.4E+02 0.0031 34.6 5.6 44 69-112 826-870 (1033)
124 PRK09047 RNA polymerase factor 22.6 1.8E+02 0.0039 24.5 5.0 29 85-114 121-149 (161)
125 TIGR02948 SigW_bacill RNA poly 22.5 1.4E+02 0.0031 25.8 4.4 29 86-115 152-180 (187)
126 PF13936 HTH_38: Helix-turn-he 22.1 91 0.002 21.8 2.5 36 69-106 4-39 (44)
127 PRK11923 algU RNA polymerase s 21.6 1.6E+02 0.0034 26.0 4.5 28 86-114 154-181 (193)
128 PRK09637 RNA polymerase sigma 21.3 1.7E+02 0.0037 25.9 4.7 29 85-114 121-149 (181)
129 PRK09645 RNA polymerase sigma 21.1 1.9E+02 0.004 24.9 4.8 28 85-113 133-160 (173)
130 cd08311 Death_p75NR Death doma 20.9 1.1E+02 0.0023 24.4 3.0 34 72-107 2-35 (77)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.4e-38 Score=316.88 Aligned_cols=132 Identities=65% Similarity=1.230 Sum_probs=129.2
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 037998 1 MGRPPCCDENGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILH 80 (348)
Q Consensus 1 mGr~pcc~~~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~ 80 (348)
|||+|||++.++|||+||+|||++|+++|++||.++|..||+.+|++|+++|||+||.+||+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999889999999999999999999999999999999999
Q ss_pred HHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccchh
Q 037998 81 LHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRTDI 132 (348)
Q Consensus 81 lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~dl 132 (348)
+|++||++|+.||++|+|||+++||+||+.++||++++.++++.+++++...
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~ 132 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEV 132 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccc
Confidence 9999999999999999999999999999999999999999999999998754
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=3.1e-38 Score=295.61 Aligned_cols=128 Identities=66% Similarity=1.266 Sum_probs=125.0
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHH
Q 037998 3 RPPCCDENGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILHLH 82 (348)
Q Consensus 3 r~pcc~~~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~lv 82 (348)
|+|||+++++|+++||+|||++|+++|++||..+|+.||+.+|++|+++|||+||.|+|+|.+++++||+|||++|+++|
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999988999999999999999999999999999999999999
Q ss_pred HHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccc
Q 037998 83 SILGNKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRT 130 (348)
Q Consensus 83 ~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~ 130 (348)
++||++|+.||++|+|||+++|||||+.++++++++.++++.+++++.
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~ 141 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLD 141 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCC
Confidence 999999999999999999999999999999999999999999988865
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=2.3e-37 Score=289.98 Aligned_cols=119 Identities=68% Similarity=1.201 Sum_probs=112.6
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCchhh
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILHLHSILGNKWSA 91 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~GnkWs~ 91 (348)
+.||+||+|||++|++||++||+++|..||+.+|++||+|+||+||+|||+|++++|.||+|||++|+++|+++|++|+.
T Consensus 7 ~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs~ 86 (238)
T KOG0048|consen 7 LVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWSL 86 (238)
T ss_pred ccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHHH
Confidence 34799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccc
Q 037998 92 IATHLPGRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRT 130 (348)
Q Consensus 92 IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~ 130 (348)
||++|||||+++|||+|++++||++.+.+.++.+..+..
T Consensus 87 IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~~~~ 125 (238)
T KOG0048|consen 87 IAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHRPST 125 (238)
T ss_pred HHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcccccc
Confidence 999999999999999999999999999987666655443
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=2.9e-18 Score=177.08 Aligned_cols=116 Identities=26% Similarity=0.424 Sum_probs=103.6
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 037998 1 MGRPPCCDENGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILH 80 (348)
Q Consensus 1 mGr~pcc~~~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~ 80 (348)
+||.-....|++|+|+||++||.+|+.+|.+||..+|-.|-..+ |+|+..|||+||+|.|....|.+.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~v-PnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAV-PNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhc-CCccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 47888888999999999999999999999999999999999888 89999999999999999999999999999999999
Q ss_pred HHHHhC-CchhhHhhhCCCCCHH---HHHHHHHHHHHHHHHh
Q 037998 81 LHSILG-NKWSAIATHLPGRTDN---EIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 81 lv~~~G-nkWs~IA~~LpgRT~~---qcKnRW~~~Lkk~l~k 118 (348)
+|++|| +.|.+||..||+||.. .||.|+.. .++++..
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~-~k~rl~~ 466 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIA-AKLRLAA 466 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHHH-HHHHHhc
Confidence 999999 7899999999999994 45555532 2344443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.71 E-value=2.4e-17 Score=170.34 Aligned_cols=144 Identities=20% Similarity=0.328 Sum_probs=121.7
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccc---------------------------------
Q 037998 8 DENGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCR--------------------------------- 54 (348)
Q Consensus 8 ~~~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR--------------------------------- 54 (348)
..|.++|-.|++|||++|..+...+++-+|..||..+|.+|+..||.
T Consensus 247 l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~n 326 (939)
T KOG0049|consen 247 LNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSIN 326 (939)
T ss_pred cCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhcc
Confidence 46778888999999999999998888888888888888666655554
Q ss_pred ---------------------cccccccCCCCCCCCCCHHHHHHHHHHHHHhCCc-hhhHhhhCCCCCHHHHHHHHHHHH
Q 037998 55 ---------------------LRWTNYLRPDIKRGKFSQDEEQTILHLHSILGNK-WSAIATHLPGRTDNEIKNFWNTHL 112 (348)
Q Consensus 55 ---------------------~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~Gnk-Ws~IA~~LpgRT~~qcKnRW~~~L 112 (348)
.||...|+|.+++|.||.+||.+|+.+|.+||.+ |.+|...+|||++.|||.||.+.|
T Consensus 327 ShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL 406 (939)
T KOG0049|consen 327 SHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVL 406 (939)
T ss_pred CccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHH
Confidence 4788889999999999999999999999999976 999999999999999999999999
Q ss_pred HHHHHhcCCCCCCCCccchhhhcCchhhhhcchHHHHhhh
Q 037998 113 KKKLIQMGIDPMTHQPRTDIFASLPHLIALANLKDLLENQ 152 (348)
Q Consensus 113 kk~l~k~g~dp~e~qp~~dl~~~lp~l~a~~Nl~~~~~~~ 152 (348)
..+++.+.|+-.++..+..++..++.-. .+++...+.+.
T Consensus 407 ~~s~K~~rW~l~edeqL~~~V~~YG~g~-WakcA~~Lp~~ 445 (939)
T KOG0049|consen 407 NRSAKVERWTLVEDEQLLYAVKVYGKGN-WAKCAMLLPKK 445 (939)
T ss_pred HHhhccCceeecchHHHHHHHHHHccch-HHHHHHHcccc
Confidence 9999999999999888877776554311 35566666654
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=99.55 E-value=1.7e-15 Score=112.89 Aligned_cols=60 Identities=45% Similarity=0.956 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHH
Q 037998 17 WTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTI 78 (348)
Q Consensus 17 WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~L 78 (348)
||+|||++|+.+|.+|| .+|..||+.+| .|+..+|+.||.++|++.+++++||.+||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 69999999995 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=99.54 E-value=9.2e-15 Score=150.22 Aligned_cols=108 Identities=28% Similarity=0.538 Sum_probs=102.7
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 037998 9 ENGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILHLHSILGNK 88 (348)
Q Consensus 9 ~~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~Gnk 88 (348)
...++.|.|+..||+.|..+|+++|.++|..||..++ .|++++|+.||.++++|.+++..|+.|||..|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 3457889999999999999999999999999999996 589999999999999999999999999999999999999999
Q ss_pred hhhHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 037998 89 WSAIATHLPGRTDNEIKNFWNTHLKKKLI 117 (348)
Q Consensus 89 Ws~IA~~LpgRT~~qcKnRW~~~Lkk~l~ 117 (348)
|+.||..+++||..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999988776
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.50 E-value=2.2e-14 Score=135.27 Aligned_cols=91 Identities=14% Similarity=0.272 Sum_probs=77.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CchhhHhhhC-CCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccchhhhcCchh
Q 037998 62 RPDIKRGKFSQDEEQTILHLHSILG-NKWSAIATHL-PGRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRTDIFASLPHL 139 (348)
Q Consensus 62 ~p~ikrg~WT~EED~~Ll~lv~~~G-nkWs~IA~~L-pgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~dl~~~lp~l 139 (348)
++.+++++||+|||++|+++|++|| ++|..||+++ ++||.+|||.||.++|++.++++.|+.+|+..+..++..++..
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK 99 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR 99 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc
Confidence 4578999999999999999999999 6799999998 6999999999999999999999999999998888887777776
Q ss_pred hhhcchHHHHhhhhh
Q 037998 140 IALANLKDLLENQQI 154 (348)
Q Consensus 140 ~a~~Nl~~~~~~~q~ 154 (348)
|+. +...+..+..
T Consensus 100 Ws~--IAk~LpGRTD 112 (249)
T PLN03212 100 WSL--IAGRIPGRTD 112 (249)
T ss_pred HHH--HHhhcCCCCH
Confidence 653 4444444443
No 9
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.47 E-value=2.7e-14 Score=145.17 Aligned_cols=107 Identities=28% Similarity=0.590 Sum_probs=101.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCchhh
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILHLHSILGNKWSA 91 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~GnkWs~ 91 (348)
+|.|.|+.-||+.|..+|.+||.+.|+.|++.+ ...+++||+.||..+++|.+++..|+.|||++|+++.+.....|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll-~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLL-NRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHH-hhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 678999999999999999999999999999999 5889999999999999999999999999999999999999999999
Q ss_pred HhhhCCCCCHHHHHHHHHHHHHHHHHhcC
Q 037998 92 IATHLPGRTDNEIKNFWNTHLKKKLIQMG 120 (348)
Q Consensus 92 IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g 120 (348)
|+..| ||+.++|-.||++++........
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~~ 111 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYHY 111 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhhc
Confidence 99999 99999999999999987766543
No 10
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.44 E-value=3.9e-14 Score=133.14 Aligned_cols=80 Identities=18% Similarity=0.272 Sum_probs=74.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CchhhHhhhCC-CCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccchhhhcCchhh
Q 037998 63 PDIKRGKFSQDEEQTILHLHSILG-NKWSAIATHLP-GRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRTDIFASLPHLI 140 (348)
Q Consensus 63 p~ikrg~WT~EED~~Ll~lv~~~G-nkWs~IA~~Lp-gRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~dl~~~lp~l~ 140 (348)
+.+.+|+||.|||++|+++|++|| ++|..|++.++ +|++++||.||.+||++.++++.|+++|++.+..+++.+++.+
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 9999999999999999999999999999999999999999988
Q ss_pred hh
Q 037998 141 AL 142 (348)
Q Consensus 141 a~ 142 (348)
+.
T Consensus 85 s~ 86 (238)
T KOG0048|consen 85 SL 86 (238)
T ss_pred HH
Confidence 73
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.44 E-value=7.7e-14 Score=145.01 Aligned_cols=113 Identities=29% Similarity=0.594 Sum_probs=97.8
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCC--CCCCCCHHHHHHHHH
Q 037998 3 RPPCCDENGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDI--KRGKFSQDEEQTILH 80 (348)
Q Consensus 3 r~pcc~~~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~i--krg~WT~EED~~Ll~ 80 (348)
|.+--.++ ++|.||+||++.|..+|..|| ++|..|++.+| |.+..||+||++|...+- +++.||.||+++|++
T Consensus 375 R~y~~FE~--~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk 449 (607)
T KOG0051|consen 375 RAYTPFEN--KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLK 449 (607)
T ss_pred hcCCcccc--ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHH
Confidence 33333444 899999999999999999999 79999999997 999999999999999985 899999999999999
Q ss_pred HHH-------Hh-------C-----C-------chhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcC
Q 037998 81 LHS-------IL-------G-----N-------KWSAIATHLPGRTDNEIKNFWNTHLKKKLIQMG 120 (348)
Q Consensus 81 lv~-------~~-------G-----n-------kWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g 120 (348)
+|+ ++ | . .|..|++.+..|+..+|+.+|+.++........
T Consensus 450 ~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~ 515 (607)
T KOG0051|consen 450 TVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKR 515 (607)
T ss_pred HHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcc
Confidence 995 33 1 1 399999999999999999999999977655433
No 12
>PLN03091 hypothetical protein; Provisional
Probab=99.41 E-value=1.5e-13 Score=138.37 Aligned_cols=99 Identities=15% Similarity=0.253 Sum_probs=82.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CchhhHhhhC-CCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccchhhhcCchh
Q 037998 62 RPDIKRGKFSQDEEQTILHLHSILG-NKWSAIATHL-PGRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRTDIFASLPHL 139 (348)
Q Consensus 62 ~p~ikrg~WT~EED~~Ll~lv~~~G-nkWs~IA~~L-pgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~dl~~~lp~l 139 (348)
++.+++++||+|||++|+++|++|| ++|+.||+.+ ++||.+|||.||.++|++.++++.|++++++.+..++..++..
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 3578899999999999999999999 5799999998 5999999999999999999999999999999999998888876
Q ss_pred hhhcchHHHHhhhhhHHHHHHHH
Q 037998 140 IALANLKDLLENQQIDEQAVRIQ 162 (348)
Q Consensus 140 ~a~~Nl~~~~~~~q~e~~~~rlq 162 (348)
|.. +...+..+.......|..
T Consensus 89 Wsk--IAk~LPGRTDnqIKNRWn 109 (459)
T PLN03091 89 WSQ--IAAQLPGRTDNEIKNLWN 109 (459)
T ss_pred hHH--HHHhcCCCCHHHHHHHHH
Confidence 653 444444444444444433
No 13
>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=99.33 E-value=1.5e-12 Score=93.52 Aligned_cols=46 Identities=28% Similarity=0.669 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hhhHhhhCC-CCCHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILGNK-WSAIATHLP-GRTDNEIKNFWNTHL 112 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~Gnk-Ws~IA~~Lp-gRT~~qcKnRW~~~L 112 (348)
|++||+|||++|++++.+||.+ |..||..|+ +||..||++||++++
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 5799999999999999999987 999999999 999999999998874
No 14
>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=99.32 E-value=3e-13 Score=100.80 Aligned_cols=57 Identities=30% Similarity=0.573 Sum_probs=48.8
Q ss_pred CCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 037998 70 FSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQMGIDPMTH 126 (348)
Q Consensus 70 WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~ 126 (348)
||+|||++|+++|++||++|..||++|+.||..+|++||+.+|++.+.+..|++.++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd 57 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEED 57 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHH
Confidence 999999999999999999999999999669999999999998888888888775543
No 15
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.31 E-value=7.2e-13 Score=137.88 Aligned_cols=169 Identities=17% Similarity=0.194 Sum_probs=135.2
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC----C-------------------CcccccccccccccccccccccccccCCCC-CC
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGH----G-------------------SWRALPKLAGLNRCGKSCRLRWTNYLRPDI-KR 67 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~----~-------------------~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~i-kr 67 (348)
++.+.|+.|||+.|...|..|-. . -|+.|.+.+ |-|+.++++.+-++...+-- ++
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~L-p~R~~~siy~~~rR~y~~FE~~r 384 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLL-PYRDRKSIYHHLRRAYTPFENKR 384 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhc-CcccchhHHHHHHhcCCcccccc
Confidence 44589999999999999988821 1 267777778 45999998773333333322 99
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHH--HHhcCCCCCCCCccchhhhcCchh------
Q 037998 68 GKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKKK--LIQMGIDPMTHQPRTDIFASLPHL------ 139 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~--l~k~g~dp~e~qp~~dl~~~lp~l------ 139 (348)
|.||+||++.|..+|.++|+.|..|++.| ||.+.+|+.||+.+++.. ..++.|+-++...+.+++..++..
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~ 463 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQA 463 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999999999999999999999999 999999999999999887 589999999999988888644331
Q ss_pred ------hhhcchHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 037998 140 ------IALANLKDLLENQQIDEQAVRIQAEAVQLAKIQYLQHLLHSAA 182 (348)
Q Consensus 140 ------~a~~Nl~~~~~~~q~e~~~~rlq~~a~~~aklq~~q~l~~~~~ 182 (348)
....-..++.+.++|...+..++++.+..|+.+|+..+.+++.
T Consensus 464 ~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 464 SNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred cccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHh
Confidence 1121223445668999999999999889999999999887765
No 16
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.28 E-value=4.3e-13 Score=96.39 Aligned_cols=48 Identities=44% Similarity=0.860 Sum_probs=42.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccccc
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYL 61 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L 61 (348)
|++||+|||++|+++|.+||.++|..||+.++.+|++.||+.||.+++
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 689999999999999999997779999999966999999999999875
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.14 E-value=7.2e-11 Score=81.96 Aligned_cols=47 Identities=36% Similarity=0.820 Sum_probs=44.1
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILG-NKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G-nkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
++.||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999988764
No 18
>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=99.02 E-value=5.9e-10 Score=76.30 Aligned_cols=44 Identities=32% Similarity=0.707 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHhC-CchhhHhhhCCCCCHHHHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILG-NKWSAIATHLPGRTDNEIKNFWNTHL 112 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G-nkWs~IA~~LpgRT~~qcKnRW~~~L 112 (348)
+||++|+..|++++.++| .+|..||..+++||..+|++||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 19
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.85 E-value=7.9e-10 Score=76.65 Aligned_cols=48 Identities=42% Similarity=0.887 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccC
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLR 62 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~ 62 (348)
+++||+|||++|+.++..||..+|..|++.+ ++|+..+|+.||.++++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~-~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL-PGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHc-CCCCHHHHHHHHHHHcC
Confidence 5789999999999999999977999999999 49999999999998764
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=98.67 E-value=6.1e-09 Score=71.24 Aligned_cols=44 Identities=43% Similarity=0.861 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccc
Q 037998 16 PWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNY 60 (348)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~ 60 (348)
+||.|||+.|+.++.+||.++|..|++.++ +|++.+|+.||.++
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 599999999999999999889999999994 89999999999765
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.35 E-value=4.6e-07 Score=93.17 Aligned_cols=101 Identities=20% Similarity=0.248 Sum_probs=80.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCccchhhhcCchhhhhc
Q 037998 65 IKRGKFSQDEEQTILHLHSILG-NKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQMGIDPMTHQPRTDIFASLPHLIALA 143 (348)
Q Consensus 65 ikrg~WT~EED~~Ll~lv~~~G-nkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g~dp~e~qp~~dl~~~lp~l~a~~ 143 (348)
++.|-|+.-||+.|-.+|.+|| +.|++|+..|..+|..||++||+.++.+.+++..|...++..+..+...+|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p------ 78 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEP------ 78 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcC------
Confidence 5678899999999999999999 679999999999999999999999999999999999888776665444333
Q ss_pred chHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 037998 144 NLKDLLENQQIDEQAVRIQAEAVQLAKIQYLQHLLHSA 181 (348)
Q Consensus 144 Nl~~~~~~~q~e~~~~rlq~~a~~~aklq~~q~l~~~~ 181 (348)
-||-.++.-+..- ..+|++.|+.|+-..
T Consensus 79 --------~qwrtIa~i~gr~--~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 79 --------TQWRTIADIMGRT--SQQCLERYNNLLDVY 106 (617)
T ss_pred --------CccchHHHHhhhh--HHHHHHHHHHHHHHH
Confidence 3565555444433 345788888777543
No 22
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.31 E-value=4.9e-08 Score=101.07 Aligned_cols=95 Identities=32% Similarity=0.699 Sum_probs=83.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCC--CCCCCCCCHHHHHHHHHHHHHhC----
Q 037998 13 KKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRP--DIKRGKFSQDEEQTILHLHSILG---- 86 (348)
Q Consensus 13 KKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p--~ikrg~WT~EED~~Ll~lv~~~G---- 86 (348)
.+|.||+||++.|...+.++| +.|..|.+.++ |-+..||+||.+|... .+++++|+.||+.+|...+.+.-
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~ 366 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQ 366 (512)
T ss_pred hhccCcccccccccccccccc-chhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHh
Confidence 379999999999999999999 79999998776 9999999999999999 57888999999999999887432
Q ss_pred ----CchhhHhhhCCCCCHHHHHHHHHH
Q 037998 87 ----NKWSAIATHLPGRTDNEIKNFWNT 110 (348)
Q Consensus 87 ----nkWs~IA~~LpgRT~~qcKnRW~~ 110 (348)
-.|..|++++++|..-.|+.++..
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~ 394 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGV 394 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCcccc
Confidence 249999999998888888776533
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=97.64 E-value=2.1e-05 Score=59.28 Aligned_cols=49 Identities=16% Similarity=0.378 Sum_probs=43.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCc---ccccccccccc-ccccccccccccc
Q 037998 13 KKGPWTPEEDQKLVEFIQKHGHGSW---RALPKLAGLNR-CGKSCRLRWTNYL 61 (348)
Q Consensus 13 KKG~WT~EEDe~L~~lV~k~G~~~W---~~IAk~lg~~R-s~kqCR~Rw~n~L 61 (348)
++-.||+||.++++++|+.+|.++| +.|++.++..| +..||+.+.+.|.
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 4668999999999999999998899 99999887666 9999999887664
No 24
>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=97.61 E-value=0.00016 Score=54.60 Aligned_cols=47 Identities=17% Similarity=0.285 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-ch---hhHhhhCC-CC-CHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILGN-KW---SAIATHLP-GR-TDNEIKNFWNTHLK 113 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~Gn-kW---s~IA~~Lp-gR-T~~qcKnRW~~~Lk 113 (348)
+-.||+||..+++++++.+|. +| +.|++.|. .| |..||+.+.+.+.-
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 99999984 45 99999998877653
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.57 E-value=0.00012 Score=74.53 Aligned_cols=50 Identities=28% Similarity=0.486 Sum_probs=44.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 64 DIKRGKFSQDEEQTILHLHSILG-NKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 64 ~ikrg~WT~EED~~Ll~lv~~~G-nkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
.+-...||.+||.+|++++..|| ++|..||.+++.||..+|+.+|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 34456799999999999999999 999999999999999999999987653
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.26 E-value=8.5e-05 Score=75.49 Aligned_cols=49 Identities=20% Similarity=0.567 Sum_probs=45.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccccc
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYL 61 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L 61 (348)
+-...||++|+-+|+++++.||.|||..||+.+| .|++..|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 4467899999999999999999999999999999 999999999998765
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=97.18 E-value=0.00048 Score=62.00 Aligned_cols=52 Identities=13% Similarity=0.252 Sum_probs=45.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCc-------hhhHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 037998 66 KRGKFSQDEEQTILHLHSILGNK-------WSAIATHLPGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~Gnk-------Ws~IA~~LpgRT~~qcKnRW~~~Lkk~l~k 118 (348)
+...||.|||.+|.+.|-.|=.. +..++..| +||...|.=|||..+||.+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 45689999999999999887421 89999999 999999999999999988654
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.11 E-value=0.00074 Score=62.82 Aligned_cols=101 Identities=20% Similarity=0.373 Sum_probs=74.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccc--cccccccccccccccCC-CC--------------------CCCCCCH
Q 037998 16 PWTPEEDQKLVEFIQKHGHGSWRALPKLAGL--NRCGKSCRLRWTNYLRP-DI--------------------KRGKFSQ 72 (348)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~--~Rs~kqCR~Rw~n~L~p-~i--------------------krg~WT~ 72 (348)
+|++++|-+|+.+|..-. +-+.|++.+.+ .-+-+.+.+||+..|.. .+ .+-+||.
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 699999999999998776 57777654433 23455667799888633 22 3458999
Q ss_pred HHHHHHHHHHHHhCC---chhhHhhh----C-CCCCHHHHHHHHHHHHHHHHHh
Q 037998 73 DEEQTILHLHSILGN---KWSAIATH----L-PGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 73 EED~~Ll~lv~~~Gn---kWs~IA~~----L-pgRT~~qcKnRW~~~Lkk~l~k 118 (348)
+||+.|......... .+.+|-.. | ++||++++.++|..+.+..+..
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 999999997766543 36555432 2 7899999999999777776664
No 29
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.01 E-value=0.00068 Score=53.58 Aligned_cols=51 Identities=25% Similarity=0.492 Sum_probs=34.8
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------chhhHhhhC----CCCCHHHHHHHHHHHHHHHHHh
Q 037998 67 RGKFSQDEEQTILHLHSI------LG--N------KWSAIATHL----PGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~------~G--n------kWs~IA~~L----pgRT~~qcKnRW~~~Lkk~l~k 118 (348)
|..||.+|...|++++.+ ++ + .|..||..| ..||..||+++|.++.+ .+++
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~-~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKK-KYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHH-HHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-HHHH
Confidence 357999999999998877 21 1 299999988 46999999999977554 4443
No 30
>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=96.73 E-value=0.0021 Score=49.76 Aligned_cols=51 Identities=22% Similarity=0.437 Sum_probs=33.3
Q ss_pred CCCCCHHHHHHHHHHHHHh---C-----Cc-hhhHhhhCC-CCCHHHHHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSIL---G-----NK-WSAIATHLP-GRTDNEIKNFWNTHLKKKLI 117 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~---G-----nk-Ws~IA~~Lp-gRT~~qcKnRW~~~Lkk~l~ 117 (348)
|-+||.|||+.|++.|+++ | ++ |.++++.-+ .+|-...|+||...|+.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 4579999999999999654 2 22 999999887 99999999999998887643
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.54 E-value=0.003 Score=66.05 Aligned_cols=46 Identities=15% Similarity=0.361 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHH
Q 037998 66 KRGKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTH 111 (348)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~ 111 (348)
-++.||++|..+|++.+..||..|.+||.++.+||..||-.+|..+
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 4568999999999999999999999999999999999999988654
No 32
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.43 E-value=0.0035 Score=57.08 Aligned_cols=52 Identities=13% Similarity=0.254 Sum_probs=43.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCc-------hhhHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 037998 65 IKRGKFSQDEEQTILHLHSILGNK-------WSAIATHLPGRTDNEIKNFWNTHLKKKLI 117 (348)
Q Consensus 65 ikrg~WT~EED~~Ll~lv~~~Gnk-------Ws~IA~~LpgRT~~qcKnRW~~~Lkk~l~ 117 (348)
.+...||.|||.+|.+.|-.|+.. ...++..| +||..+|.-|||..++++..
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 356789999999999999888743 67777888 99999999999999996643
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.41 E-value=0.0032 Score=64.85 Aligned_cols=44 Identities=18% Similarity=0.333 Sum_probs=41.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTH 111 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~ 111 (348)
..||.+|..+|++.++.||..|.+||.|++.||..||--||-++
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 37999999999999999999999999999999999999999654
No 34
>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=95.95 E-value=0.0017 Score=58.45 Aligned_cols=50 Identities=30% Similarity=0.682 Sum_probs=43.1
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-C-----CcccccccccccccccccccccccccCC
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGH-G-----SWRALPKLAGLNRCGKSCRLRWTNYLRP 63 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~-~-----~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p 63 (348)
.++..||.|||.+|.+.|-+|-- | .+.++++.++ |++.-|.-||..+++.
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 46789999999999999999932 1 4888888886 9999999999999885
No 35
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=95.86 E-value=0.0023 Score=65.83 Aligned_cols=46 Identities=22% Similarity=0.507 Sum_probs=43.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccc
Q 037998 13 KKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNY 60 (348)
Q Consensus 13 KKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~ 60 (348)
....||.+|..+|++.|+.|| .+|.+||+++| +|+.-||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 567999999999999999999 59999999998 99999999999775
No 36
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.81 E-value=0.024 Score=44.07 Aligned_cols=49 Identities=27% Similarity=0.482 Sum_probs=40.2
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------chhhHhhhC-----CCCCHHHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILG----N-------------KWSAIATHL-----PGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G----n-------------kWs~IA~~L-----pgRT~~qcKnRW~~~Lkk~ 115 (348)
...||.+|...|++++.+|. + -|..|+..| +.||..+++.+|.++....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999998863 1 199999887 4699999999998776543
No 37
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=95.48 E-value=0.0073 Score=63.29 Aligned_cols=49 Identities=22% Similarity=0.512 Sum_probs=44.4
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccc
Q 037998 10 NGLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNY 60 (348)
Q Consensus 10 ~~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~ 60 (348)
...-++.||.+|+.+|+++|++|| .+|.+|+.++| .|+..+|..++.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345578999999999999999999 69999999998 99999999998764
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.23 E-value=0.0033 Score=49.60 Aligned_cols=48 Identities=29% Similarity=0.707 Sum_probs=32.4
Q ss_pred cCCCCHHHHHHHHHHHHHh------C---C--C--Ccccccccc---ccccccccccccccccc
Q 037998 14 KGPWTPEEDQKLVEFIQKH------G---H--G--SWRALPKLA---GLNRCGKSCRLRWTNYL 61 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~------G---~--~--~W~~IAk~l---g~~Rs~kqCR~Rw~n~L 61 (348)
+-.||.+|...|++++... + . + -|..||..+ |..|++.||+.||.+..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 3579999999999998882 1 1 1 399999754 67899999999998853
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.20 E-value=0.027 Score=55.99 Aligned_cols=48 Identities=25% Similarity=0.439 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhC-CchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 66 KRGKFSQDEEQTILHLHSILG-NKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G-nkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
--..|+.+||.+|++.....| ++|..||.+++.|+..+||.+|..+..
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345799999999999999999 899999999999999999999977654
No 40
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=94.10 E-value=0.011 Score=45.77 Aligned_cols=51 Identities=25% Similarity=0.534 Sum_probs=31.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--cccccccccccccccccccccccccCCC
Q 037998 14 KGPWTPEEDQKLVEFIQKHGH------GS--WRALPKLAGLNRCGKSCRLRWTNYLRPD 64 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~------~~--W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ 64 (348)
+-+||.|||+.|+++|..+.. |+ |.++++.-...++-.+-|+||...|.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 457999999999999976631 22 8888877623788888999998888764
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.99 E-value=0.013 Score=58.16 Aligned_cols=48 Identities=19% Similarity=0.520 Sum_probs=44.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccC
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLR 62 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~ 62 (348)
--.|+.+|+-+|+++.+..|-|+|..||..+| .|....|+.+|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 35699999999999999999999999999999 9999999999988765
No 42
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.52 E-value=0.014 Score=53.17 Aligned_cols=50 Identities=24% Similarity=0.569 Sum_probs=40.4
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCC------cccccccccccccccccccccccccCC
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGHGS------WRALPKLAGLNRCGKSCRLRWTNYLRP 63 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~~~------W~~IAk~lg~~Rs~kqCR~Rw~n~L~p 63 (348)
.++..||.|||.+|.+.|.+|+... ...++..+ +|+...|..||..+++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L--~rt~aac~fRwNs~vrk 58 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL--KRTAAACGFRWNSVVRK 58 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH--hhhHHHHHhHHHHHHHH
Confidence 5788999999999999999997532 45555655 49999999999877764
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.40 E-value=0.015 Score=45.13 Aligned_cols=49 Identities=27% Similarity=0.499 Sum_probs=39.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCcccccccc----ccccccccccccccccc
Q 037998 13 KKGPWTPEEDQKLVEFIQKHGH----------------GSWRALPKLA----GLNRCGKSCRLRWTNYL 61 (348)
Q Consensus 13 KKG~WT~EEDe~L~~lV~k~G~----------------~~W~~IAk~l----g~~Rs~kqCR~Rw~n~L 61 (348)
++..||.+|.+.|+++|.+|.. .-|..|+..+ |..|+..+|+.+|.++.
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 4678999999999999999822 1399999654 23799999999998854
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.71 E-value=0.27 Score=55.86 Aligned_cols=100 Identities=13% Similarity=0.310 Sum_probs=71.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccccccccccc-----------------------------------------
Q 037998 15 GPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSC----------------------------------------- 53 (348)
Q Consensus 15 G~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqC----------------------------------------- 53 (348)
..|+.-+=..++.+..+||-.+-..||..++ +++...+
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588888888889999999777777777663 3443333
Q ss_pred -------cccccccc--CCCCCCCCCCHHHHHHHHHHHHHhC-CchhhHhhhC------------CCCCHHHHHHHHHHH
Q 037998 54 -------RLRWTNYL--RPDIKRGKFSQDEEQTILHLHSILG-NKWSAIATHL------------PGRTDNEIKNFWNTH 111 (348)
Q Consensus 54 -------R~Rw~n~L--~p~ikrg~WT~EED~~Ll~lv~~~G-nkWs~IA~~L------------pgRT~~qcKnRW~~~ 111 (348)
+.-|.... .+..++..||+|||..|+-.+.+|| ++|..|-..+ ..||+.++..|.+++
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 33332211 1223344699999999999999999 7799985322 689999999999888
Q ss_pred HHHH
Q 037998 112 LKKK 115 (348)
Q Consensus 112 Lkk~ 115 (348)
++-.
T Consensus 984 ~~~~ 987 (1033)
T PLN03142 984 IRLI 987 (1033)
T ss_pred HHHH
Confidence 8654
No 45
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.53 E-value=0.32 Score=38.73 Aligned_cols=46 Identities=28% Similarity=0.482 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------chhhHhhhC-----CCCCHHHHHHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSIL---GN----------KWSAIATHL-----PGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~---Gn----------kWs~IA~~L-----pgRT~~qcKnRW~~~Lkk 114 (348)
.||+++++.|++++.+. |+ -|..|+..| ...|..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999987543 21 199999887 336889999999665543
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=91.66 E-value=0.2 Score=51.06 Aligned_cols=84 Identities=17% Similarity=0.279 Sum_probs=63.3
Q ss_pred CcccccccccccccccccccccccccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCchh
Q 037998 36 SWRALPKLAGLNRCGKSCRLRWTNYLRPD-------------------------IKRGKFSQDEEQTILHLHSILGNKWS 90 (348)
Q Consensus 36 ~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~-------------------------ikrg~WT~EED~~Ll~lv~~~GnkWs 90 (348)
.|.-++-.. +-|...-.-.||....++. ++...||.||-..|+++.+.|.-+|-
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 PWKWVPFTN-SARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCC-ccccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 476666444 3566666666777663322 12246999999999999999999999
Q ss_pred hHhhh-----CCC-CCHHHHHHHHHHHHHHHHHhcC
Q 037998 91 AIATH-----LPG-RTDNEIKNFWNTHLKKKLIQMG 120 (348)
Q Consensus 91 ~IA~~-----Lpg-RT~~qcKnRW~~~Lkk~l~k~g 120 (348)
.||.. ++. ||-.++|.||+..-++-++-..
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 99987 555 9999999999988887776544
No 47
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.26 E-value=0.39 Score=41.31 Aligned_cols=52 Identities=25% Similarity=0.425 Sum_probs=40.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chhhHhhhC------------CCCCHHHHHHHHHHHHHHH
Q 037998 64 DIKRGKFSQDEEQTILHLHSILGN----KWSAIATHL------------PGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 64 ~ikrg~WT~EED~~Ll~lv~~~Gn----kWs~IA~~L------------pgRT~~qcKnRW~~~Lkk~ 115 (348)
..++..||++||.-|+-.+.+||- .|..|-..+ ..||+.++..|-+++++-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 455678999999999999999995 698887543 6799999999998887643
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.18 E-value=0.28 Score=48.54 Aligned_cols=48 Identities=19% Similarity=0.349 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHHhC----------CchhhHhhhC----CCCCHHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILG----------NKWSAIATHL----PGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G----------nkWs~IA~~L----pgRT~~qcKnRW~~~Lkk 114 (348)
...|+.+|-..||++..+.. .-|..||..+ --||+.+||++|.++.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~ 115 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKK 115 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence 36799999999999876532 2399999966 449999999999776654
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.71 E-value=0.47 Score=48.34 Aligned_cols=47 Identities=26% Similarity=0.393 Sum_probs=43.9
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~ 115 (348)
+||.+|-++...+...+|..++.|+..+|.|.+.|||.+|.+--|++
T Consensus 367 ~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~n 413 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKVN 413 (507)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhhC
Confidence 69999999999999999999999999999999999999998766654
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=89.01 E-value=0.92 Score=47.21 Aligned_cols=49 Identities=12% Similarity=0.318 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~ 115 (348)
...||.||-.++-++...||.++.+|-+.||.|+-..+..+|+...+.+
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 3569999999999999999999999999999999999999998766543
No 51
>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=81.35 E-value=4.2 Score=29.04 Aligned_cols=42 Identities=24% Similarity=0.362 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 72 QDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 72 ~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
++++..++.++-..|-.|.+||..+ |.+...|+.+....+++
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 3677888888888899999999999 99999999887666554
No 52
>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=78.65 E-value=1.5 Score=37.67 Aligned_cols=34 Identities=29% Similarity=0.479 Sum_probs=28.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 037998 11 GLKKGPWTPEEDQKLVEFIQKHGH---GSWRALPKLA 44 (348)
Q Consensus 11 ~lKKG~WT~EEDe~L~~lV~k~G~---~~W~~IAk~l 44 (348)
.-++..||.|||.-|+-++.+||. +.|..|-..+
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 567899999999999999999999 8999997655
No 53
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=78.54 E-value=4.4 Score=43.70 Aligned_cols=58 Identities=9% Similarity=0.375 Sum_probs=46.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhHh----------hhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCC
Q 037998 67 RGKFSQDEEQTILHLHSILGNKWSAIA----------THLPGRTDNEIKNFWNTHLKKKLIQMGIDPMT 125 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~GnkWs~IA----------~~LpgRT~~qcKnRW~~~Lkk~l~k~g~dp~e 125 (348)
+..||..|++-...+++++|..+.+|- ....-+|..|++.+|+..++++.+-. |.++-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~-F~~~l 155 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL-FGPDL 155 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh-ccccc
Confidence 567999999999999999999998882 33355788899999999998876654 55433
No 54
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=75.54 E-value=1.4 Score=43.64 Aligned_cols=47 Identities=23% Similarity=0.458 Sum_probs=37.4
Q ss_pred CCCCHHHHHHHHHHHHHh----C-----CCCccccccc---cccccccccccccccccc
Q 037998 15 GPWTPEEDQKLVEFIQKH----G-----HGSWRALPKL---AGLNRCGKSCRLRWTNYL 61 (348)
Q Consensus 15 G~WT~EEDe~L~~lV~k~----G-----~~~W~~IAk~---lg~~Rs~kqCR~Rw~n~L 61 (348)
..|+.+|-..|+++..+. . ..-|..||+. .|..|++++|+.+|.|..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 689999999999987644 1 1249999973 467899999999998843
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=73.28 E-value=2 Score=34.66 Aligned_cols=28 Identities=39% Similarity=0.725 Sum_probs=16.9
Q ss_pred CccCCCCHHHHHHH--------HHHHHHhCCCCcccccc
Q 037998 12 LKKGPWTPEEDQKL--------VEFIQKHGHGSWRALPK 42 (348)
Q Consensus 12 lKKG~WT~EEDe~L--------~~lV~k~G~~~W~~IAk 42 (348)
-..|-||+|+|+.| ..++++|| +..|.+
T Consensus 45 n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp T-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 34788999999999 55778888 555543
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=71.71 E-value=6.7 Score=43.26 Aligned_cols=46 Identities=11% Similarity=0.135 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
..||..|-.+.-+++-.|...+-.|++.++++|-.+|-.+|+++.|
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWKK 665 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWKK 665 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHHH
Confidence 4799999999999999999999999999999999999999977654
No 57
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=70.65 E-value=8.6 Score=39.56 Aligned_cols=109 Identities=17% Similarity=0.181 Sum_probs=75.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccccc--CCC------CCCCCCCHHHHHHHHHHH---
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYL--RPD------IKRGKFSQDEEQTILHLH--- 82 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L--~p~------ikrg~WT~EED~~Ll~lv--- 82 (348)
--+||.+|-+++..+....|+ ++.-|+..+ |+|..+|+..+|.+-- +|. -.+-++..+|...+...+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lf-P~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~~~~~e~ 442 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLF-PNRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLRSYLLEK 442 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhc-CchhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHHHHHHHH
Confidence 457999999999999999995 999999988 8999999999887642 221 123478888877655432
Q ss_pred -HHhCCchhhHhhhC--CCCCHHHHHHHHHHHHHHHHHhcCCCCC
Q 037998 83 -SILGNKWSAIATHL--PGRTDNEIKNFWNTHLKKKLIQMGIDPM 124 (348)
Q Consensus 83 -~~~GnkWs~IA~~L--pgRT~~qcKnRW~~~Lkk~l~k~g~dp~ 124 (348)
.++.+.-..|-+.+ ..||..++...-+.+....|.+.|..+.
T Consensus 443 l~Elq~E~k~~~~~~EE~k~~A~E~~q~~Q~l~~~~L~k~~~~~~ 487 (507)
T COG5118 443 LIELQNEHKHHMKEIEEAKNTAKEEDQTAQRLNDANLNKKGSGGI 487 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhhhccCCCCC
Confidence 22233333444443 3567777766666667777777665443
No 58
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=67.68 E-value=13 Score=26.13 Aligned_cols=38 Identities=18% Similarity=0.364 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhCCc-hhhHhhhCCCCCHHHHHHHHHHH
Q 037998 73 DEEQTILHLHSILGNK-WSAIATHLPGRTDNEIKNFWNTH 111 (348)
Q Consensus 73 EED~~Ll~lv~~~Gnk-Ws~IA~~LpgRT~~qcKnRW~~~ 111 (348)
+-|.+|+++..+-|.. |..||+.+ |=+...|..|++.+
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 4588899999888854 99999999 99999999998653
No 59
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=67.03 E-value=6 Score=34.64 Aligned_cols=46 Identities=13% Similarity=0.163 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhCC-chhhHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 037998 72 QDEEQTILHLHSILGN-KWSAIATHLPGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 72 ~EED~~Ll~lv~~~Gn-kWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k 118 (348)
++-|.+|+++.++-|. .|+.||+.+ |-+...|+.|++.+....+.+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 3578999999988885 499999999 999999999997666655443
No 60
>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=65.35 E-value=24 Score=35.56 Aligned_cols=54 Identities=30% Similarity=0.544 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCc---hhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 037998 67 RGKFSQDEEQTILHLHSIL-GNK---WSAIATHLPGRTDNEIKNFWNTHLKKKLIQMGI 121 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~-Gnk---Ws~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g~ 121 (348)
-..||.-|...|+.+.+.. |.. -..|++.++||+..+|+++- ..||.++.+.-+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl-~~LK~rvareai 78 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFL-QQLKGRVAREAI 78 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHH-HHHHHHHHHHHH
Confidence 3469999999999988765 433 57889999999999999876 555555554433
No 61
>smart00595 MADF subfamily of SANT domain.
Probab=63.97 E-value=9.4 Score=29.87 Aligned_cols=25 Identities=32% Similarity=0.626 Sum_probs=21.6
Q ss_pred hhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 89 WSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 89 Ws~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
|..||..| |-|..+|+.+|+++...
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999877544
No 62
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=60.76 E-value=8.1 Score=34.25 Aligned_cols=45 Identities=11% Similarity=0.088 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHhCC-chhhHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 037998 72 QDEEQTILHLHSILGN-KWSAIATHLPGRTDNEIKNFWNTHLKKKLI 117 (348)
Q Consensus 72 ~EED~~Ll~lv~~~Gn-kWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~ 117 (348)
++-|.+|+.+.++-|. .|++||+.+ |=+...|+.|++.+.+..+.
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 5668999998888885 499999999 99999999999666555543
No 63
>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=57.52 E-value=26 Score=24.64 Aligned_cols=41 Identities=24% Similarity=0.400 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 73 DEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 73 EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
+++..++.++-..|-.+..||..| |-+...|+.+-...+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 455666666655566799999999 88999999887776654
No 64
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=56.22 E-value=12 Score=43.47 Aligned_cols=76 Identities=25% Similarity=0.296 Sum_probs=50.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHh-CCchhh
Q 037998 13 KKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILHLHSIL-GNKWSA 91 (348)
Q Consensus 13 KKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~-GnkWs~ 91 (348)
.---|..+||.+|+-.|-+||.|+|.+|-.---++=+.| ..+...+-.+.|=..+-..|+.+..++ +.+|.+
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 446799999999999999999999999952111111111 111222455667777778888888777 566766
Q ss_pred Hhhh
Q 037998 92 IATH 95 (348)
Q Consensus 92 IA~~ 95 (348)
..+.
T Consensus 1205 ~~~~ 1208 (1373)
T KOG0384|consen 1205 KLKR 1208 (1373)
T ss_pred hhhc
Confidence 5543
No 65
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=53.57 E-value=10 Score=41.98 Aligned_cols=44 Identities=14% Similarity=0.252 Sum_probs=39.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccc
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTN 59 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n 59 (348)
...||+.|..++.+++..|. +++-.|++.+ .+++.++|-+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~-~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMV-KSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHh-ccccHHHHHHHHHH
Confidence 46799999999999999999 6999999999 69999999876543
No 66
>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=51.21 E-value=7.4 Score=30.78 Aligned_cols=44 Identities=30% Similarity=0.732 Sum_probs=27.3
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----Ccccccccc----ccccccccccccccc
Q 037998 16 PWTPEEDQKLVEFIQKH---GH----G-----SWRALPKLA----GLNRCGKSCRLRWTN 59 (348)
Q Consensus 16 ~WT~EEDe~L~~lV~k~---G~----~-----~W~~IAk~l----g~~Rs~kqCR~Rw~n 59 (348)
.||+++++.|++++... |. + .|..|++.+ |...+.+||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988655 11 1 266666544 233444555555433
No 67
>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=50.46 E-value=18 Score=32.63 Aligned_cols=40 Identities=20% Similarity=0.241 Sum_probs=33.4
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWN 109 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~ 109 (348)
.||+|+.++|.+|.. -|-.=++||..|.+.|.|.|.-+-+
T Consensus 2 ~Wtde~~~~L~~lw~-~G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWA-EGLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHH-cCCCHHHHHHHhCCcchhhhhhhhh
Confidence 499999999998884 4677899999997799999886553
No 68
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=49.06 E-value=28 Score=35.77 Aligned_cols=46 Identities=15% Similarity=0.277 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhHhh-hCCCCCHHHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSILGNKWSAIAT-HLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~GnkWs~IA~-~LpgRT~~qcKnRW~~~Lk 113 (348)
..|+++|....-+-.+.||..+..|.+ +++.|+--+|-.+|+-+.|
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKk 324 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKK 324 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhc
Confidence 469999999999999999999999975 5799999999998866543
No 69
>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=48.95 E-value=36 Score=28.41 Aligned_cols=30 Identities=23% Similarity=0.376 Sum_probs=24.4
Q ss_pred HhCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 84 ILGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 84 ~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
..|-.+..||+.+ |.+...|+.+....+++
T Consensus 127 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 127 FEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 99999999999775544
No 70
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=48.83 E-value=16 Score=39.42 Aligned_cols=49 Identities=22% Similarity=0.331 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 66 KRGKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
..++|+.+|-++......+.|...+.|+..+|+|++.+||.++..-=++
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 4568999999999999999999999999999999999999988554443
No 71
>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=48.57 E-value=3.9 Score=28.77 Aligned_cols=37 Identities=27% Similarity=0.435 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhCCCCcccccccccccccccccccccc
Q 037998 20 EEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWT 58 (348)
Q Consensus 20 EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~ 58 (348)
+=|.+|+...++.+...|.+||+.+| =+...|+.|+.
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 45889999999999889999999998 66667777764
No 72
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=47.93 E-value=34 Score=32.19 Aligned_cols=44 Identities=14% Similarity=0.231 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhHhhhC---CCCCHHHHHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILGNKWSAIATHL---PGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~GnkWs~IA~~L---pgRT~~qcKnRW~~~Lk 113 (348)
.|+.++|-+|+.+|.. |+.-..|+.-+ -.-|-.+|..||+.+|-
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 5999999999999865 44455555433 34588999999999884
No 73
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=47.22 E-value=43 Score=26.46 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=27.9
Q ss_pred HHHHHHHHhCC--------chhhHhhhCCC---CC--HHHHHHHHHHHHHH
Q 037998 77 TILHLHSILGN--------KWSAIATHLPG---RT--DNEIKNFWNTHLKK 114 (348)
Q Consensus 77 ~Ll~lv~~~Gn--------kWs~IA~~Lpg---RT--~~qcKnRW~~~Lkk 114 (348)
.|..+|.+.|+ +|..||..|.- -+ ..++|..|..+|.+
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 47788888874 49999999922 22 36789888888754
No 74
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=46.47 E-value=5.7 Score=34.77 Aligned_cols=45 Identities=16% Similarity=0.223 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCCC
Q 037998 20 EEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIK 66 (348)
Q Consensus 20 EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~ik 66 (348)
+-|.+|+++.++.|--.|.+||+.+| -+...|+.|+.+..+.++-
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 57999999999999889999999997 8888899998887665543
No 75
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=45.19 E-value=21 Score=28.68 Aligned_cols=17 Identities=18% Similarity=0.518 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 037998 63 PDIKRGKFSQDEEQTIL 79 (348)
Q Consensus 63 p~ikrg~WT~EED~~Ll 79 (348)
|.-..|-||+|+|+.|.
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 55678899999999994
No 76
>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=44.28 E-value=22 Score=26.86 Aligned_cols=26 Identities=23% Similarity=0.474 Sum_probs=21.0
Q ss_pred hhhHhhhCCC-CCHHHHHHHHHHHHHH
Q 037998 89 WSAIATHLPG-RTDNEIKNFWNTHLKK 114 (348)
Q Consensus 89 Ws~IA~~Lpg-RT~~qcKnRW~~~Lkk 114 (348)
|..||..|.. -+..+|+.+|.++...
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 9999999953 5788999999876653
No 77
>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=43.76 E-value=10 Score=26.28 Aligned_cols=29 Identities=24% Similarity=0.438 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhCCCCcccccccccccccc
Q 037998 21 EDQKLVEFIQKHGHGSWRALPKLAGLNRCG 50 (348)
Q Consensus 21 EDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~ 50 (348)
|.+.|.+++++++ ++....|+.+|..|+.
T Consensus 6 E~~~i~~aL~~~~-gn~~~aA~~Lgisr~t 34 (42)
T PF02954_consen 6 EKQLIRQALERCG-GNVSKAARLLGISRRT 34 (42)
T ss_dssp HHHHHHHHHHHTT-T-HHHHHHHHTS-HHH
T ss_pred HHHHHHHHHHHhC-CCHHHHHHHHCCCHHH
Confidence 7788899999999 7999999999977654
No 78
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.25 E-value=55 Score=26.17 Aligned_cols=39 Identities=21% Similarity=0.316 Sum_probs=28.6
Q ss_pred HHHHHHHHhCC--------chhhHhhhCCCC-----CHHHHHHHHHHHHHHH
Q 037998 77 TILHLHSILGN--------KWSAIATHLPGR-----TDNEIKNFWNTHLKKK 115 (348)
Q Consensus 77 ~Ll~lv~~~Gn--------kWs~IA~~LpgR-----T~~qcKnRW~~~Lkk~ 115 (348)
.|..+|.+.|+ +|..|+..|.-. ...++|..|..+|.+-
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 47777877774 599999998322 3577888888887653
No 79
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=42.17 E-value=5.4 Score=35.38 Aligned_cols=45 Identities=24% Similarity=0.257 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccCCCC
Q 037998 19 PEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDI 65 (348)
Q Consensus 19 ~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~p~i 65 (348)
.+-|.+|+.+.++.|.-.|.+||+.+| -+...|+.|+.+..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567999999999999889999999998 777789999888766554
No 80
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=40.67 E-value=39 Score=28.49 Aligned_cols=47 Identities=17% Similarity=0.216 Sum_probs=34.1
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccccC
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLR 62 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~L~ 62 (348)
.++..||.|+-..++..+...| .+=..||+.+|+ + .+--.+|.+.+.
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI--s-~~tl~~W~r~y~ 54 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV--A-ASQLFLWRKQYQ 54 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc--C-HHHHHHHHHHHh
Confidence 3568899999988888887777 477888988885 2 233446766554
No 81
>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=40.35 E-value=77 Score=25.51 Aligned_cols=33 Identities=27% Similarity=0.289 Sum_probs=25.4
Q ss_pred HHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 81 LHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 81 lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
++-..|-.+..||+.+ |=+...|+++.+..+++
T Consensus 121 ~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 121 LRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567799999999 77999999988776554
No 82
>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=40.26 E-value=38 Score=27.35 Aligned_cols=30 Identities=23% Similarity=0.535 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhCCchhhHhhhCCCCCHHHHH
Q 037998 75 EQTILHLHSILGNKWSAIATHLPGRTDNEIK 105 (348)
Q Consensus 75 D~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcK 105 (348)
|+.|..+....|..|+.+|.+| |=|..+|.
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~ 31 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIY 31 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 4668889999999999999999 66666554
No 83
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=39.19 E-value=38 Score=27.29 Aligned_cols=45 Identities=13% Similarity=0.175 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHhCC-chhhHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 037998 73 DEEQTILHLHSILGN-KWSAIATHLPGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 73 EED~~Ll~lv~~~Gn-kWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k 118 (348)
+.|..|+.+..+.|. .++.||+.+ |-+...|+.+.+.+.+..+.+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 568889988888874 599999999 999999999997777665544
No 84
>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=36.96 E-value=67 Score=28.24 Aligned_cols=42 Identities=24% Similarity=0.462 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhC--CchhhHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 037998 74 EEQTILHLHSILG--NKWSAIATHLPGRTDNEIKNFWNTHLKKKLI 117 (348)
Q Consensus 74 ED~~Ll~lv~~~G--nkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~ 117 (348)
|++.++.+.=.-+ ..|..||..| +-+..+|+ ||+.-+|..+.
T Consensus 85 e~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~-r~~~~fK~~i~ 128 (130)
T PF05263_consen 85 EEKRIIKLRYDRRSRRTWYQIAQKL-HISERTAR-RWRDRFKNDIY 128 (130)
T ss_pred HHHHHHHHHHcccccchHHHHHHHh-CccHHHHH-HHHHHHHHHhc
Confidence 3555555543322 4599999998 56666666 56666665543
No 85
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=34.77 E-value=1.1e+02 Score=26.91 Aligned_cols=35 Identities=23% Similarity=0.129 Sum_probs=29.5
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHHHHHHhcC
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQMG 120 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k~g 120 (348)
.|-....||+.| |-+...++.|...-+++-+.+++
T Consensus 142 ~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~~~ 176 (178)
T PRK12529 142 DGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSLMP 176 (178)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHhCC
Confidence 456799999999 99999999999988888776643
No 86
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=34.63 E-value=8.2 Score=39.75 Aligned_cols=49 Identities=14% Similarity=0.262 Sum_probs=40.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccc-----ccccccccccccccccc
Q 037998 11 GLKKGPWTPEEDQKLVEFIQKHGHGSWRALPKL-----AGLNRCGKSCRLRWTNY 60 (348)
Q Consensus 11 ~lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~-----lg~~Rs~kqCR~Rw~n~ 60 (348)
.+....||.||.+-|.+++++|. -.|-.|+.. .+-.|+-....+||...
T Consensus 127 ~l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 45667899999999999999999 699999987 54458888888888654
No 87
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=34.02 E-value=1e+02 Score=27.53 Aligned_cols=37 Identities=16% Similarity=0.239 Sum_probs=27.9
Q ss_pred HHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 76 QTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 76 ~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
..++.+..-.|-.+..||+.| |-+...++.+|.....
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 333444444567799999999 9999999999976653
No 88
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=33.72 E-value=33 Score=37.36 Aligned_cols=47 Identities=13% Similarity=0.338 Sum_probs=33.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccc-c--------cccccccccccccccc
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWRALPKLA-G--------LNRCGKSCRLRWTNYL 61 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~~IAk~l-g--------~~Rs~kqCR~Rw~n~L 61 (348)
|..||-.|.+.+.++++.+| .++.+|-+.. . --++-.|+|.+|...+
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 55799999999999999999 6998883222 0 1244556666665544
No 89
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=33.55 E-value=51 Score=28.04 Aligned_cols=44 Identities=14% Similarity=0.124 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHhCCc-hhhHhhhCCCCCHHHHHHHHHHHHHHHH
Q 037998 72 QDEEQTILHLHSILGNK-WSAIATHLPGRTDNEIKNFWNTHLKKKL 116 (348)
Q Consensus 72 ~EED~~Ll~lv~~~Gnk-Ws~IA~~LpgRT~~qcKnRW~~~Lkk~l 116 (348)
++-|.+|+++.++-+.. ++.||+.+ |-+...|++|-..+.+..+
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 35688899988888854 99999999 9999999999865555443
No 90
>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=33.52 E-value=1.3e+02 Score=19.82 Aligned_cols=40 Identities=18% Similarity=0.272 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHH
Q 037998 70 FSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTH 111 (348)
Q Consensus 70 WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~ 111 (348)
++++ +..++.++-..|-.+..||+.+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3444 4455555555667799999998 78888887766544
No 91
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=33.50 E-value=80 Score=23.36 Aligned_cols=36 Identities=25% Similarity=0.451 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHH
Q 037998 72 QDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFW 108 (348)
Q Consensus 72 ~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW 108 (348)
.++|+..+.+..+.|-.-.+||+.+ ||+.+.|+++-
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 3556777788888999999999999 99999998764
No 92
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=33.07 E-value=97 Score=27.61 Aligned_cols=28 Identities=18% Similarity=0.153 Sum_probs=22.6
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
.|-...+||..| |-+...++.|+..-++
T Consensus 149 ~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 149 QGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 455699999999 9999999999954443
No 93
>PRK04217 hypothetical protein; Provisional
Probab=32.99 E-value=1.5e+02 Score=25.31 Aligned_cols=46 Identities=15% Similarity=0.083 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~ 115 (348)
..-|++| ..++.+....|-...+||+.+ |-+...|+.+++...++-
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 4466666 577777777788899999999 999999999997755543
No 94
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=32.56 E-value=88 Score=25.86 Aligned_cols=50 Identities=20% Similarity=0.159 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----chhhH----hhhCC-CCCHHHHHHHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSIL----GN----KWSAI----ATHLP-GRTDNEIKNFWNTHLKKKLI 117 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~----Gn----kWs~I----A~~Lp-gRT~~qcKnRW~~~Lkk~l~ 117 (348)
..||+|+|-.|++.+..| |. .|... ...|. .=+..|+.++-+.+.+|...
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~ 67 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRN 67 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHH
Confidence 469999999999987666 52 34443 33342 23778888888666655433
No 95
>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=32.52 E-value=70 Score=25.82 Aligned_cols=31 Identities=23% Similarity=0.419 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhCCchhhHhhhCCCCCHHHHHH
Q 037998 75 EQTILHLHSILGNKWSAIATHLPGRTDNEIKN 106 (348)
Q Consensus 75 D~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKn 106 (348)
|..|..+....|..|.++|..| |=+..+|..
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 5677888889999999999999 767666653
No 96
>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=31.92 E-value=50 Score=26.09 Aligned_cols=30 Identities=23% Similarity=0.680 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCchhhHhhhCCCCCHHHHH
Q 037998 75 EQTILHLHSILGNKWSAIATHLPGRTDNEIK 105 (348)
Q Consensus 75 D~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcK 105 (348)
|..|..+.+..|..|.++|.+| |=+..+|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 4567788889999999999999 66665554
No 97
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=31.62 E-value=1.3e+02 Score=25.72 Aligned_cols=29 Identities=14% Similarity=0.109 Sum_probs=23.0
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
.|-.+..||+.| |.+...|+.+....+++
T Consensus 143 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 143 EGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456799999999 88999998887655444
No 98
>PLN03162 golden-2 like transcription factor; Provisional
Probab=31.56 E-value=3.4e+02 Score=28.27 Aligned_cols=46 Identities=15% Similarity=0.129 Sum_probs=36.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCc---hhhHhhhC--CCCCHHHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSILGNK---WSAIATHL--PGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~Gnk---Ws~IA~~L--pgRT~~qcKnRW~~~Lk 113 (348)
-.||.|-.++.+++|.++|.. =+.|-+.| +|=|..+|+.+.+.+.-
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 469999999999999999943 35666666 88899999987766543
No 99
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=31.31 E-value=73 Score=33.74 Aligned_cols=41 Identities=20% Similarity=0.376 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNT 110 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~ 110 (348)
.||++|-. +++.-..|+.....||..+..+|+.|++.+|..
T Consensus 472 ~wSp~e~s-~ircf~~y~~~fe~ia~l~~tktp~Q~~~fy~~ 512 (534)
T KOG1194|consen 472 GWSPEEKS-AIRCFHWYKDNFELIAELMATKTPEQIKKFYMD 512 (534)
T ss_pred CCCCcccc-cccCchhhccchHHHHHHhcCCCHHHHHHHhcC
Confidence 69999877 777777899999999999999999999998843
No 100
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=31.14 E-value=1e+02 Score=26.24 Aligned_cols=29 Identities=21% Similarity=0.172 Sum_probs=23.0
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
.|-.+..||+.| |-+...|++++...+++
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456699999999 89999999888665443
No 101
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=30.84 E-value=1.4e+02 Score=25.37 Aligned_cols=90 Identities=14% Similarity=0.284 Sum_probs=60.3
Q ss_pred CHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccc-cCC----CCCCCCCCHHHHHHHHHHHHHhCCchhhH
Q 037998 18 TPEEDQKLVEFIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNY-LRP----DIKRGKFSQDEEQTILHLHSILGNKWSAI 92 (348)
Q Consensus 18 T~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs~kqCR~Rw~n~-L~p----~ikrg~WT~EED~~Ll~lv~~~GnkWs~I 92 (348)
|.+-+++|.++-.+.|...|..+++.+ +.|+-..=+ ++... ... .+++..|+-|-+.....+++++-+
T Consensus 5 S~~~~~~L~~Lk~~tgi~~~Nil~R~A-~~~SL~~~~-~~~~~~~~~d~g~e~~~~t~~Ge~~~~~~~ll~q~~g----- 77 (113)
T PF08870_consen 5 SKKAKEQLKKLKRRTGITPWNILCRIA-FCRSLEEPS-IPSDEDIKDDSGLELNWKTFTGEYDDIYEALLKQRYG----- 77 (113)
T ss_pred CHHHHHHHHHHHHhcCCCcccHHHHHH-HHHHHccCC-CCCCCccCCCCCeEEeeeeecCchHHHHHHHHHHHhC-----
Confidence 677889999999999999999998765 444432221 11111 111 234556887777777666655431
Q ss_pred hhhCCCCCHHHHHHHHHHHHHHHHHh
Q 037998 93 ATHLPGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 93 A~~LpgRT~~qcKnRW~~~Lkk~l~k 118 (348)
++.++..+..+|+-|+.+.+..
T Consensus 78 ----~~~d~~~l~~~~~~Hl~rGi~~ 99 (113)
T PF08870_consen 78 ----PELDDEELPKYFKLHLDRGIEY 99 (113)
T ss_pred ----CCCCHHHHHHHHHHHHHHhHHH
Confidence 3569999999999999887654
No 102
>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=30.40 E-value=91 Score=21.45 Aligned_cols=35 Identities=23% Similarity=0.107 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHH
Q 037998 73 DEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFW 108 (348)
Q Consensus 73 EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW 108 (348)
-|.+.|.++.+.++++.+..|+.| |=+...+..+-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 367888899999999999999999 66666655443
No 103
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=29.47 E-value=1.4e+02 Score=26.50 Aligned_cols=37 Identities=16% Similarity=0.163 Sum_probs=26.0
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHH---HHHHHHHhcCCC
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNT---HLKKKLIQMGID 122 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~---~Lkk~l~k~g~d 122 (348)
.|-.-..||..| |-+...|+.+... .|++.+.+..+.
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l~~~~~~ 190 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARESLRQCLQIKWFN 190 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 355689999999 8888888877765 445555554443
No 104
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=28.52 E-value=74 Score=25.46 Aligned_cols=27 Identities=37% Similarity=0.695 Sum_probs=21.4
Q ss_pred HHHHHHHhCCchhhHhhhCCCCCHHHHH
Q 037998 78 ILHLHSILGNKWSAIATHLPGRTDNEIK 105 (348)
Q Consensus 78 Ll~lv~~~GnkWs~IA~~LpgRT~~qcK 105 (348)
|..+....|..|..+|.+| |=+..+|.
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 4446678899999999999 77777764
No 105
>smart00351 PAX Paired Box domain.
Probab=28.34 E-value=74 Score=27.09 Aligned_cols=73 Identities=18% Similarity=0.162 Sum_probs=46.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccccccc-cccccccccc--ccCCCC----CCCCCCHHHHHHHHHHHHH
Q 037998 12 LKKGPWTPEEDQKLVEFIQKHGHGSWRALPKLAGLNRC-GKSCRLRWTN--YLRPDI----KRGKFSQDEEQTILHLHSI 84 (348)
Q Consensus 12 lKKG~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg~~Rs-~kqCR~Rw~n--~L~p~i----krg~WT~EED~~Ll~lv~~ 84 (348)
....+++.|+-++++.++. -| ..-.+||+.+|..|. ...+..||.. .+.|.- +...-+++++..|++++.+
T Consensus 13 ~~~~~~s~~~R~riv~~~~-~G-~s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~ 90 (125)
T smart00351 13 VNGRPLPDEERQRIVELAQ-NG-VRPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQE 90 (125)
T ss_pred cCCCCCCHHHHHHHHHHHH-cC-CCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHH
Confidence 3567799999999999886 45 478999999985443 3333444432 234421 2223566667777777666
Q ss_pred hC
Q 037998 85 LG 86 (348)
Q Consensus 85 ~G 86 (348)
.+
T Consensus 91 ~p 92 (125)
T smart00351 91 NP 92 (125)
T ss_pred CC
Confidence 54
No 106
>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=28.04 E-value=32 Score=31.03 Aligned_cols=34 Identities=24% Similarity=0.400 Sum_probs=27.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccc-cccccc
Q 037998 16 PWTPEEDQKLVEFIQKHGHGSWRALPKLAG-LNRCGK 51 (348)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~~W~~IAk~lg-~~Rs~k 51 (348)
.||.|+.++|.++... | -+=.+||+.|| ..|+..
T Consensus 2 ~Wtde~~~~L~~lw~~-G-~SasqIA~~lg~vsRnAV 36 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-G-LSASQIARQLGGVSRNAV 36 (162)
T ss_pred CCCHHHHHHHHHHHHc-C-CCHHHHHHHhCCcchhhh
Confidence 5999999999999855 4 36899999998 555553
No 107
>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=27.62 E-value=1.1e+02 Score=31.01 Aligned_cols=86 Identities=16% Similarity=0.282 Sum_probs=57.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcc---cccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHH-h----
Q 037998 14 KGPWTPEEDQKLVEFIQKHGHGSWR---ALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQDEEQTILHLHSI-L---- 85 (348)
Q Consensus 14 KG~WT~EEDe~L~~lV~k~G~~~W~---~IAk~lg~~Rs~kqCR~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~-~---- 85 (348)
...||.-|...|+.+.+......+- +|++.+ ++|+...++. |.+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l-~~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKEL-PGRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhc-cCcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 3579999999999998877434444 455555 5777776664 333333 2344445544 2
Q ss_pred -CC------------chhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 86 -GN------------KWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 86 -Gn------------kWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
|. -|..+|+.+.|.-...+-.-|-..|.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 21 19999999999999998888866664
No 108
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=27.32 E-value=2.5e+02 Score=29.27 Aligned_cols=27 Identities=22% Similarity=0.410 Sum_probs=22.2
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCC
Q 037998 8 DENGLKKGPWTPEEDQKLVEFIQKHGH 34 (348)
Q Consensus 8 ~~~~lKKG~WT~EEDe~L~~lV~k~G~ 34 (348)
|..+.-.|.|+++=|+.+.++..-|..
T Consensus 70 D~~~daegvWSpdIEqsFqEALaiypp 96 (455)
T KOG3841|consen 70 DNQRDAEGVWSPDIEQSFQEALAIYPP 96 (455)
T ss_pred ccccccccccChhHHHHHHHHHhhcCC
Confidence 444456799999999999999999975
No 109
>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=27.30 E-value=1.4e+02 Score=26.63 Aligned_cols=46 Identities=20% Similarity=0.204 Sum_probs=37.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhHhhhCC----CCCHHHHHHHHHHH
Q 037998 66 KRGKFSQDEEQTILHLHSILGNKWSAIATHLP----GRTDNEIKNFWNTH 111 (348)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~GnkWs~IA~~Lp----gRT~~qcKnRW~~~ 111 (348)
....-|..|..-|..|+++||..+.+++.-.. -.|..||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34568899999999999999999999996542 48999999877654
No 110
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=26.08 E-value=80 Score=24.39 Aligned_cols=31 Identities=26% Similarity=0.559 Sum_probs=22.6
Q ss_pred HHHHHHHHHHH-hCCchhhHhhhCCCCCHHHHH
Q 037998 74 EEQTILHLHSI-LGNKWSAIATHLPGRTDNEIK 105 (348)
Q Consensus 74 ED~~Ll~lv~~-~GnkWs~IA~~LpgRT~~qcK 105 (348)
-++.|..+... .|..|..+|.+| |=+..+|.
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~ 35 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADID 35 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHHH
Confidence 34566666766 889999999999 55565554
No 111
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=26.01 E-value=1.7e+02 Score=25.48 Aligned_cols=32 Identities=13% Similarity=0.167 Sum_probs=25.1
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k 118 (348)
|-...+||..| |-+...|+.+....+++--.+
T Consensus 147 g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~~ 178 (184)
T PRK12512 147 GASIKETAAKL-SMSEGAVRVALHRGLAALAAK 178 (184)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHH
Confidence 55689999999 999999999887766654443
No 112
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=25.92 E-value=49 Score=26.57 Aligned_cols=21 Identities=38% Similarity=0.721 Sum_probs=19.0
Q ss_pred HHHHHHHHHhCCchhhHhhhC
Q 037998 76 QTILHLHSILGNKWSAIATHL 96 (348)
Q Consensus 76 ~~Ll~lv~~~GnkWs~IA~~L 96 (348)
..|..+..+.|..|..+|.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 458888999999999999999
No 113
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=25.40 E-value=1.2e+02 Score=26.19 Aligned_cols=28 Identities=11% Similarity=-0.012 Sum_probs=22.5
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
|..+..||..| |-+...++++....+++
T Consensus 152 ~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45689999999 99999999888665544
No 114
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=25.28 E-value=81 Score=25.45 Aligned_cols=30 Identities=37% Similarity=0.593 Sum_probs=23.7
Q ss_pred HHHHHHHHHhCCchhhHhhhCCCCCHHHHHH
Q 037998 76 QTILHLHSILGNKWSAIATHLPGRTDNEIKN 106 (348)
Q Consensus 76 ~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKn 106 (348)
+.|-.+....|.+|..+|.+| |=++.+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345556678899999999999 777777765
No 115
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=25.13 E-value=1.5e+02 Score=26.35 Aligned_cols=27 Identities=4% Similarity=-0.081 Sum_probs=21.6
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
|-....||..| |-+...||.|...-++
T Consensus 150 g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 150 ELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 55699999999 9999999888655443
No 116
>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=25.03 E-value=91 Score=24.95 Aligned_cols=31 Identities=26% Similarity=0.514 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhCCchhhHhhhCCCCCHHHHHH
Q 037998 75 EQTILHLHSILGNKWSAIATHLPGRTDNEIKN 106 (348)
Q Consensus 75 D~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKn 106 (348)
|..|..+....|.+|..+|..| |=+..+|..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778888999999999999 677776654
No 117
>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=25.02 E-value=1e+02 Score=26.84 Aligned_cols=28 Identities=11% Similarity=0.075 Sum_probs=22.4
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
|-....||..| |-|...|+++....+++
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 45689999999 88899999988665544
No 118
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=24.54 E-value=1.1e+02 Score=28.12 Aligned_cols=44 Identities=20% Similarity=0.243 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 68 GKFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 68 g~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
...|+.|-+.|.-+.+ |-.=+.||..| +.+...||.|..++++|
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~K 190 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRK 190 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHH
Confidence 3688888777664443 44458999999 99999999999888876
No 119
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=24.15 E-value=2e+02 Score=23.62 Aligned_cols=46 Identities=24% Similarity=0.371 Sum_probs=36.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhHhhhCCCC-CHHHHHHHHHHHHHH
Q 037998 67 RGKFSQDEEQTILHLHSILGNKWSAIATHLPGR-TDNEIKNFWNTHLKK 114 (348)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgR-T~~qcKnRW~~~Lkk 114 (348)
+..||.|+-..+++++..-|..=+.||..+ |- ..+++ .+|...+..
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l-~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQL-YKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHH-HHHHHHHHH
Confidence 568999999999999999998889999999 65 55544 456554443
No 120
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=23.96 E-value=1.8e+02 Score=25.53 Aligned_cols=29 Identities=14% Similarity=0.091 Sum_probs=23.1
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
.|-....||..| |-+...++.++...+++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 355689999999 88999999988665544
No 121
>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=23.73 E-value=1.4e+02 Score=25.61 Aligned_cols=29 Identities=21% Similarity=0.329 Sum_probs=23.0
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHHHH
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~ 115 (348)
|-....||..| |-|...|+.++...+++-
T Consensus 135 g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 135 DLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 45689999999 889999999887666543
No 122
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=23.46 E-value=2.3e+02 Score=24.47 Aligned_cols=34 Identities=21% Similarity=0.356 Sum_probs=26.4
Q ss_pred HhCCchhhHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 037998 84 ILGNKWSAIATHLPGRTDNEIKNFWNTHLKKKLIQ 118 (348)
Q Consensus 84 ~~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~l~k 118 (348)
..|-....||+.| |.+...|+.+-..-+++-...
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~ 166 (172)
T PRK12523 133 LDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIA 166 (172)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 3456799999999 999999999887776665433
No 123
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=23.17 E-value=1.4e+02 Score=34.58 Aligned_cols=44 Identities=18% Similarity=0.404 Sum_probs=37.0
Q ss_pred CCCHHHHHHHHHHHHHhC-CchhhHhhhCCCCCHHHHHHHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILG-NKWSAIATHLPGRTDNEIKNFWNTHL 112 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G-nkWs~IA~~LpgRT~~qcKnRW~~~L 112 (348)
.|+.-+=..++.+..+|| ..-..||..+.|+|..+|+.+-....
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~ 870 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFW 870 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 588888888888999999 45999999999999999997664433
No 124
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=22.63 E-value=1.8e+02 Score=24.54 Aligned_cols=29 Identities=10% Similarity=0.142 Sum_probs=22.5
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
.|-.-..||..| |-+...|+.+....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 345689999999 88999999887665544
No 125
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=22.48 E-value=1.4e+02 Score=25.85 Aligned_cols=29 Identities=10% Similarity=-0.035 Sum_probs=22.7
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHHHH
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLKKK 115 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk~ 115 (348)
|-....||..| |.+...|+++....+++-
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 45689999999 889999999886655543
No 126
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=22.08 E-value=91 Score=21.77 Aligned_cols=36 Identities=25% Similarity=0.371 Sum_probs=18.3
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHH
Q 037998 69 KFSQDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKN 106 (348)
Q Consensus 69 ~WT~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKn 106 (348)
.+|.+|-..|..++ +-|-.=.+||+.| ||+...|.+
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 57778877777665 4566689999999 999988874
No 127
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=21.61 E-value=1.6e+02 Score=25.98 Aligned_cols=28 Identities=11% Similarity=0.084 Sum_probs=21.5
Q ss_pred CCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 86 GNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 86 GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
|-....||..| |-+...|+.+....+++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34589999999 88899998887655543
No 128
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=21.29 E-value=1.7e+02 Score=25.87 Aligned_cols=29 Identities=24% Similarity=0.084 Sum_probs=23.3
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLKK 114 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lkk 114 (348)
.|-....||..| |-+...|+.+....+++
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 456699999999 89999999988665544
No 129
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=21.08 E-value=1.9e+02 Score=24.93 Aligned_cols=28 Identities=25% Similarity=0.305 Sum_probs=21.7
Q ss_pred hCCchhhHhhhCCCCCHHHHHHHHHHHHH
Q 037998 85 LGNKWSAIATHLPGRTDNEIKNFWNTHLK 113 (348)
Q Consensus 85 ~GnkWs~IA~~LpgRT~~qcKnRW~~~Lk 113 (348)
.|-.-..||+.| |.+...|+.+.+.-++
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 160 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALR 160 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 355689999999 8889999888765543
No 130
>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=20.93 E-value=1.1e+02 Score=24.37 Aligned_cols=34 Identities=32% Similarity=0.601 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhCCchhhHhhhCCCCCHHHHHHH
Q 037998 72 QDEEQTILHLHSILGNKWSAIATHLPGRTDNEIKNF 107 (348)
Q Consensus 72 ~EED~~Ll~lv~~~GnkWs~IA~~LpgRT~~qcKnR 107 (348)
.||-++|+..- ..|.+|...|.+| |=+..+|++.
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~i 35 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDTF 35 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHHH
Confidence 57777777321 4678899999999 8888888753
Done!