Query 040726
Match_columns 375
No_of_seqs 290 out of 1489
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 11:08:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040726.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040726hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 3.4E-42 7.3E-47 323.2 12.4 134 18-151 9-142 (249)
2 PLN03091 hypothetical protein; 100.0 3.8E-35 8.2E-40 293.5 12.3 135 23-157 3-137 (459)
3 KOG0048 Transcription factor, 100.0 1.7E-32 3.6E-37 260.2 11.3 115 32-146 7-121 (238)
4 KOG0049 Transcription factor, 99.8 7.1E-21 1.5E-25 196.6 4.4 158 13-179 278-446 (939)
5 KOG0049 Transcription factor, 99.7 4.7E-18 1E-22 175.9 5.8 99 28-127 354-453 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2.5E-16 5.5E-21 118.4 3.9 60 37-98 1-60 (60)
7 PLN03212 Transcription repress 99.6 1.9E-16 4.1E-21 149.6 2.9 92 82-181 20-113 (249)
8 KOG0050 mRNA splicing protein 99.6 4.1E-16 8.9E-21 158.5 4.1 106 31-138 4-109 (617)
9 COG5147 REB1 Myb superfamily p 99.6 2.2E-15 4.8E-20 155.7 6.6 109 28-137 14-122 (512)
10 PLN03091 hypothetical protein; 99.6 1.1E-15 2.3E-20 154.1 2.3 92 82-181 9-102 (459)
11 KOG0048 Transcription factor, 99.5 1.3E-15 2.8E-20 144.8 1.9 90 83-180 5-96 (238)
12 KOG0051 RNA polymerase I termi 99.4 9E-14 2E-18 145.3 4.5 104 33-139 383-514 (607)
13 PF00249 Myb_DNA-binding: Myb- 99.3 8.4E-13 1.8E-17 95.4 3.9 46 87-132 1-48 (48)
14 PF00249 Myb_DNA-binding: Myb- 99.3 2.9E-13 6.4E-18 97.8 1.0 48 34-81 1-48 (48)
15 PF13921 Myb_DNA-bind_6: Myb-l 99.3 7.4E-13 1.6E-17 99.5 2.1 55 90-144 1-55 (60)
16 smart00717 SANT SANT SWI3, AD 99.1 8.7E-11 1.9E-15 82.6 4.8 47 87-133 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 5.9E-10 1.3E-14 77.2 4.7 44 89-132 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 2.5E-10 5.5E-15 80.2 2.8 48 34-82 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.9 7.9E-10 1.7E-14 116.1 3.0 121 34-162 308-452 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.7E-09 3.8E-14 74.8 2.5 45 36-81 1-45 (45)
21 KOG0050 mRNA splicing protein 98.4 9.2E-08 2E-12 98.4 2.1 86 85-178 5-91 (617)
22 COG5147 REB1 Myb superfamily p 98.2 1.5E-06 3.2E-11 90.9 4.5 118 11-132 43-167 (512)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 2.9E-05 6.3E-10 58.6 2.9 49 33-81 2-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00018 3.8E-09 54.3 5.0 47 86-132 2-54 (57)
25 KOG0457 Histone acetyltransfer 97.5 4.9E-05 1.1E-09 77.4 2.2 50 31-81 69-118 (438)
26 KOG0457 Histone acetyltransfer 97.3 0.00024 5.2E-09 72.5 4.7 49 84-132 69-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.1 0.00039 8.4E-09 62.6 3.6 52 86-138 3-61 (161)
28 PF13325 MCRS_N: N-terminal re 97.0 0.0013 2.8E-08 61.4 6.3 100 36-137 1-131 (199)
29 COG5259 RSC8 RSC chromatin rem 96.7 0.00068 1.5E-08 69.8 1.7 46 33-80 278-323 (531)
30 PF13837 Myb_DNA-bind_4: Myb/S 96.6 0.0012 2.7E-08 52.7 2.1 50 87-137 1-68 (90)
31 KOG1279 Chromatin remodeling f 96.6 0.0022 4.9E-08 67.4 4.6 46 86-131 252-297 (506)
32 KOG1279 Chromatin remodeling f 96.6 0.0013 2.7E-08 69.3 2.5 46 33-80 252-297 (506)
33 COG5259 RSC8 RSC chromatin rem 96.5 0.002 4.4E-08 66.4 3.6 45 87-131 279-323 (531)
34 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0026 5.6E-08 49.3 3.3 50 87-136 2-61 (65)
35 PF08914 Myb_DNA-bind_2: Rap1 96.2 0.0017 3.8E-08 50.2 0.7 52 34-85 2-61 (65)
36 TIGR02894 DNA_bind_RsfA transc 96.0 0.0016 3.4E-08 58.8 -0.5 48 33-82 3-56 (161)
37 PRK13923 putative spore coat p 95.9 0.0059 1.3E-07 55.7 3.0 52 85-137 3-61 (170)
38 PF13837 Myb_DNA-bind_4: Myb/S 95.8 0.0027 5.9E-08 50.7 0.2 47 34-80 1-63 (90)
39 COG5114 Histone acetyltransfer 94.8 0.0097 2.1E-07 59.0 0.7 50 32-82 61-110 (432)
40 PF13873 Myb_DNA-bind_5: Myb/S 94.7 0.0093 2E-07 46.8 0.2 48 34-81 2-69 (78)
41 PF13873 Myb_DNA-bind_5: Myb/S 94.6 0.05 1.1E-06 42.6 4.1 48 87-134 2-71 (78)
42 COG5114 Histone acetyltransfer 94.5 0.028 6.1E-07 55.8 2.9 47 87-133 63-110 (432)
43 KOG2656 DNA methyltransferase 94.2 0.079 1.7E-06 53.9 5.5 53 88-140 131-189 (445)
44 PRK13923 putative spore coat p 94.1 0.013 2.9E-07 53.4 -0.1 49 32-82 3-57 (170)
45 PLN03142 Probable chromatin-re 93.4 0.11 2.3E-06 59.5 5.3 98 36-134 826-986 (1033)
46 COG5118 BDP1 Transcription ini 92.1 0.086 1.9E-06 53.5 2.1 46 88-133 366-411 (507)
47 KOG4282 Transcription factor G 89.7 0.38 8.2E-06 48.2 4.2 48 87-134 54-115 (345)
48 PF09111 SLIDE: SLIDE; InterP 87.4 0.49 1.1E-05 40.9 2.8 51 84-134 46-112 (118)
49 PF12776 Myb_DNA-bind_3: Myb/S 86.8 1 2.2E-05 36.1 4.2 45 89-133 1-63 (96)
50 KOG4167 Predicted DNA-binding 86.2 0.94 2E-05 49.6 4.7 46 87-132 619-664 (907)
51 KOG3648 Golgi apparatus protei 85.0 0.89 1.9E-05 49.3 3.7 10 347-356 104-113 (1179)
52 KOG1194 Predicted DNA-binding 83.9 2.2 4.8E-05 44.5 5.9 48 86-133 186-233 (534)
53 PF09111 SLIDE: SLIDE; InterP 82.4 0.48 1E-05 40.9 0.4 34 31-64 46-82 (118)
54 KOG4369 RTK signaling protein 80.7 1.5 3.2E-05 50.5 3.5 23 316-338 1879-1901(2131)
55 KOG4282 Transcription factor G 80.5 0.72 1.6E-05 46.2 1.0 47 34-80 54-112 (345)
56 PF08281 Sigma70_r4_2: Sigma-7 75.0 4.2 9E-05 29.2 3.4 41 92-133 12-52 (54)
57 COG5118 BDP1 Transcription ini 73.2 2.2 4.7E-05 43.7 2.1 64 33-98 364-435 (507)
58 KOG4167 Predicted DNA-binding 72.1 2.2 4.8E-05 46.9 1.9 44 34-79 619-662 (907)
59 PF11626 Rap1_C: TRF2-interact 71.4 3.9 8.4E-05 33.1 2.8 23 31-53 44-74 (87)
60 KOG4468 Polycomb-group transcr 69.8 7.7 0.00017 42.0 5.2 49 87-135 88-146 (782)
61 KOG2009 Transcription initiati 69.7 5.2 0.00011 43.1 4.0 47 86-132 408-454 (584)
62 PF12776 Myb_DNA-bind_3: Myb/S 66.8 3.8 8.3E-05 32.8 1.9 44 36-79 1-60 (96)
63 smart00595 MADF subfamily of S 61.8 5.4 0.00012 31.5 1.8 23 109-132 30-52 (89)
64 KOG0384 Chromodomain-helicase 59.7 7.8 0.00017 45.2 3.2 75 33-114 1132-1207(1373)
65 KOG2656 DNA methyltransferase 56.5 7.7 0.00017 40.0 2.3 49 32-81 128-181 (445)
66 KOG4468 Polycomb-group transcr 55.8 12 0.00027 40.5 3.7 48 33-81 87-143 (782)
67 KOG3661 Uncharacterized conser 55.5 18 0.0004 39.8 5.0 21 297-317 47-67 (1019)
68 KOG1883 Cofactor required for 54.1 7.8 0.00017 44.8 2.0 9 34-42 1105-1113(1517)
69 KOG4329 DNA-binding protein [G 54.0 65 0.0014 33.3 8.3 45 88-132 278-323 (445)
70 PF13325 MCRS_N: N-terminal re 54.0 21 0.00046 33.6 4.6 43 89-132 1-46 (199)
71 PF13404 HTH_AsnC-type: AsnC-t 52.7 17 0.00037 25.5 2.9 38 93-131 3-41 (42)
72 PRK11179 DNA-binding transcrip 52.5 13 0.00028 32.9 2.8 46 92-138 8-54 (153)
73 PF11626 Rap1_C: TRF2-interact 51.7 14 0.0003 29.9 2.6 17 83-99 43-59 (87)
74 PF01388 ARID: ARID/BRIGHT DNA 50.3 22 0.00048 28.4 3.7 38 97-134 40-90 (92)
75 PF13404 HTH_AsnC-type: AsnC-t 49.7 7.5 0.00016 27.3 0.7 38 40-79 3-40 (42)
76 PF11035 SnAPC_2_like: Small n 49.6 43 0.00093 33.8 6.2 48 87-135 21-72 (344)
77 PTZ00186 heat shock 70 kDa pre 48.0 8.8 0.00019 42.2 1.3 11 106-116 348-358 (657)
78 PF04545 Sigma70_r4: Sigma-70, 47.9 25 0.00054 24.8 3.2 41 93-134 7-47 (50)
79 PRK11179 DNA-binding transcrip 47.0 8.8 0.00019 33.9 0.9 46 39-86 8-53 (153)
80 smart00501 BRIGHT BRIGHT, ARID 44.9 29 0.00064 27.9 3.6 38 97-134 36-86 (93)
81 PRK11169 leucine-responsive tr 44.3 16 0.00035 32.6 2.2 46 92-138 13-59 (164)
82 PRK11169 leucine-responsive tr 42.4 8.8 0.00019 34.3 0.2 47 39-87 13-59 (164)
83 PF03249 TSA: Type specific an 42.3 18 0.00038 37.3 2.3 9 299-307 293-301 (503)
84 PF09420 Nop16: Ribosome bioge 41.2 49 0.0011 29.8 4.8 47 86-132 113-163 (164)
85 PLN03142 Probable chromatin-re 40.4 15 0.00032 42.6 1.6 33 32-64 924-956 (1033)
86 KOG1883 Cofactor required for 36.5 28 0.0006 40.6 2.8 9 87-95 1105-1113(1517)
87 PF07750 GcrA: GcrA cell cycle 36.3 27 0.00059 31.6 2.3 41 89-130 2-42 (162)
88 KOG4217 Nuclear receptors of t 36.3 27 0.00059 37.0 2.6 23 341-364 148-170 (605)
89 TIGR02985 Sig70_bacteroi1 RNA 35.9 51 0.0011 27.9 3.9 34 98-132 121-154 (161)
90 PF06752 E_Pc_C: Enhancer of P 34.7 32 0.00069 33.0 2.6 15 305-319 8-22 (230)
91 KOG1819 FYVE finger-containing 34.6 30 0.00065 37.0 2.6 14 39-52 451-464 (990)
92 PF11035 SnAPC_2_like: Small n 30.8 91 0.002 31.6 5.1 85 34-132 21-126 (344)
93 PF09420 Nop16: Ribosome bioge 30.0 43 0.00093 30.2 2.6 48 32-80 112-162 (164)
94 cd08319 Death_RAIDD Death doma 29.9 45 0.00098 26.9 2.4 29 95-124 2-30 (83)
95 smart00344 HTH_ASNC helix_turn 28.6 62 0.0013 26.2 3.1 45 93-138 3-48 (108)
96 KOG1142 Transcription initiati 28.1 71 0.0015 31.3 3.8 29 338-366 51-79 (258)
97 PF04504 DUF573: Protein of un 27.7 64 0.0014 26.7 3.0 45 88-132 5-62 (98)
98 KOG2009 Transcription initiati 27.5 57 0.0012 35.5 3.3 53 25-79 400-452 (584)
99 KOG1194 Predicted DNA-binding 27.1 44 0.00096 35.3 2.3 47 31-79 184-230 (534)
100 PRK09645 RNA polymerase sigma 26.7 1.1E+02 0.0023 26.8 4.5 27 105-132 133-159 (173)
101 PRK09413 IS2 repressor TnpA; R 26.3 1.6E+02 0.0034 25.0 5.3 45 33-81 9-53 (121)
102 cd08803 Death_ank3 Death domai 25.5 69 0.0015 25.9 2.8 29 95-124 4-32 (84)
103 KOG3554 Histone deacetylase co 25.4 1.1E+02 0.0023 32.7 4.7 41 89-129 287-328 (693)
104 KOG3841 TEF-1 and related tran 25.2 1.1E+02 0.0025 31.6 4.8 34 27-60 69-102 (455)
105 TIGR02937 sigma70-ECF RNA poly 24.8 88 0.0019 25.6 3.4 29 104-133 124-152 (158)
106 PF10477 EIF4E-T: Nucleocytopl 24.8 63 0.0014 35.2 3.1 11 33-43 47-57 (578)
107 COG5624 TAF61 Transcription in 24.6 44 0.00096 34.8 1.8 12 41-52 34-45 (505)
108 PTZ00186 heat shock 70 kDa pre 24.2 40 0.00086 37.2 1.5 7 308-314 641-647 (657)
109 PF10545 MADF_DNA_bdg: Alcohol 22.6 50 0.0011 25.1 1.4 26 108-133 28-54 (85)
110 PRK09652 RNA polymerase sigma 22.3 1.1E+02 0.0023 26.5 3.6 28 104-132 142-169 (182)
111 cd06171 Sigma70_r4 Sigma70, re 22.0 1.4E+02 0.003 19.8 3.5 40 90-131 11-50 (55)
112 cd08317 Death_ank Death domain 21.7 64 0.0014 25.6 1.9 29 95-124 4-32 (84)
113 cd01852 AIG1 AIG1 (avrRpt2-ind 21.3 2.9E+02 0.0062 24.7 6.3 69 37-117 96-164 (196)
114 PRK11924 RNA polymerase sigma 21.1 1.1E+02 0.0024 26.3 3.5 27 105-132 140-166 (179)
115 TIGR01645 half-pint poly-U bin 20.0 74 0.0016 34.9 2.5 6 301-306 78-83 (612)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=3.4e-42 Score=323.24 Aligned_cols=134 Identities=82% Similarity=1.480 Sum_probs=127.2
Q ss_pred hccCCCCCccCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHH
Q 040726 18 AATNKSTPCCSKVGLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDL 97 (375)
Q Consensus 18 ~~~~~~~~~c~k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~ 97 (375)
..+.+.++||.|.+++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++
T Consensus 9 ~~~~~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~l 88 (249)
T PLN03212 9 PVSKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDL 88 (249)
T ss_pred CCCCCCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHH
Confidence 35679999999999999999999999999999999998999999998645999999999999999999999999999999
Q ss_pred HHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCc
Q 040726 98 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQ 151 (375)
Q Consensus 98 Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~ 151 (375)
|++++.+||++|..||+.|||||+++||+||+.+|++++.++++++.+++|+..
T Consensus 89 Llel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~~ 142 (249)
T PLN03212 89 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLDA 142 (249)
T ss_pred HHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCCc
Confidence 999999999999999999999999999999999999999999999998888643
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=3.8e-35 Score=293.46 Aligned_cols=135 Identities=59% Similarity=1.101 Sum_probs=128.4
Q ss_pred CCCccCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHH
Q 040726 23 STPCCSKVGLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLH 102 (375)
Q Consensus 23 ~~~~c~k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv 102 (375)
+.+||.|.+++|++||+|||++|+++|.+||.++|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++
T Consensus 3 r~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~ 82 (459)
T PLN03091 3 RHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELH 82 (459)
T ss_pred CCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999875599999999999999999999999999999999999
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCc
Q 040726 103 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSS 157 (375)
Q Consensus 103 ~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~ 157 (375)
++||++|.+||++|+|||+++||+||+.+|+++++..++++.+++|+...++...
T Consensus 83 k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~~~d 137 (459)
T PLN03091 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVENGED 137 (459)
T ss_pred HHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCccccccccc
Confidence 9999999999999999999999999999999999999999999999987665433
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.98 E-value=1.7e-32 Score=260.24 Aligned_cols=115 Identities=66% Similarity=1.152 Sum_probs=108.4
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHHhCCcchh
Q 040726 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRLLGNRWSL 111 (375)
Q Consensus 32 ~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~~G~kW~~ 111 (375)
+.||+||+|||++|+++|++||.++|..|++.++.+|++++||.||.|||+|++++|.||+|||++|++++.++|++|+.
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 45899999999999999999999999999999995599999999999999999999999999999999999999999999
Q ss_pred hcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCC
Q 040726 112 IAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTH 146 (375)
Q Consensus 112 IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~~~ 146 (375)
||++|||||++.|||+|+..|++++...+.++...
T Consensus 87 IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~ 121 (238)
T KOG0048|consen 87 IAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTH 121 (238)
T ss_pred HHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence 99999999999999999999999998877554443
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=7.1e-21 Score=196.58 Aligned_cols=158 Identities=20% Similarity=0.287 Sum_probs=139.0
Q ss_pred HHHHHhccCCCCCccC------CCCCCcCCCCHHHHHHHHHHHHHhCCC---CccccccccCccccccchhhhhhhccCC
Q 040726 13 AAAAAAATNKSTPCCS------KVGLKRGPWTPEEDELLANYINKEGEG---RWRTLPKRAGLLRCGKSCRLRWMNYLRP 83 (375)
Q Consensus 13 a~aa~~~~~~~~~~c~------k~~~kkg~WT~EED~~L~~lV~k~g~~---~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p 83 (375)
-+|+.++++|+.++|. ...++++.||.|||.+|+.+|+....+ +|++|-..|++ |+..|...||...|+|
T Consensus 278 ~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympg-r~~~qLI~R~~~~LdP 356 (939)
T KOG0049|consen 278 MIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPG-RTRQQLITRFSHTLDP 356 (939)
T ss_pred HHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCC-cchhhhhhhheeccCc
Confidence 4788999999999995 345778899999999999999998654 79999999998 9999999999999999
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCC-cchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCchhhcc
Q 040726 84 SVKRGHIAPDEEDLILRLHRLLGN-RWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSSADQVT 162 (375)
Q Consensus 84 ~lkkg~WT~EED~~Ll~lv~~~G~-kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~~~~~~ 162 (375)
++++|+||.+||.+|+.+|.+||. .|.+|-..+|||++.|||.||.+.|...++...|+- .+|..++..++
T Consensus 357 sikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l--------~edeqL~~~V~ 428 (939)
T KOG0049|consen 357 SVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTL--------VEDEQLLYAVK 428 (939)
T ss_pred cccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceee--------cchHHHHHHHH
Confidence 999999999999999999999995 599999999999999999999999999988876654 44556777777
Q ss_pred cCCC-CcchhhhhcCCCC
Q 040726 163 NSNS-KASTSKAILNSSS 179 (375)
Q Consensus 163 ~~~~-k~s~i~~~~~~~s 179 (375)
.+|. .|.+++.++..++
T Consensus 429 ~YG~g~WakcA~~Lp~~t 446 (939)
T KOG0049|consen 429 VYGKGNWAKCAMLLPKKT 446 (939)
T ss_pred HHccchHHHHHHHccccc
Confidence 7765 7888887776554
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.72 E-value=4.7e-18 Score=175.91 Aligned_cols=99 Identities=25% Similarity=0.463 Sum_probs=93.2
Q ss_pred CCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHHhC-
Q 040726 28 SKVGLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRLLG- 106 (375)
Q Consensus 28 ~k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~~G- 106 (375)
-.|++++|+||.+||.+|..+|.+||..+|.+|-..+++ |+..|||+||.|+|+...|++.||-.||+.|+.+|.+||
T Consensus 354 LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~ 432 (939)
T KOG0049|consen 354 LDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGK 432 (939)
T ss_pred cCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHcc
Confidence 368999999999999999999999999999999999998 999999999999999999999999999999999999999
Q ss_pred CcchhhcccCCCCCHHHHHHH
Q 040726 107 NRWSLIAGRIPGRTDNEIKNY 127 (375)
Q Consensus 107 ~kW~~IA~~lpgRT~~qcrnR 127 (375)
++|.+||.+||+||.+|.+.|
T Consensus 433 g~WakcA~~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 433 GNWAKCAMLLPKKTSRQLRRR 453 (939)
T ss_pred chHHHHHHHccccchhHHHHH
Confidence 789999999999999554433
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=99.62 E-value=2.5e-16 Score=118.40 Aligned_cols=60 Identities=42% Similarity=0.840 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHH
Q 040726 37 WTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLI 98 (375)
Q Consensus 37 WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~L 98 (375)
||+|||++|+.+|.+|| .+|..||+.|+. |++.+|+.||.++|.+.+++++||++||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 599999999975 9999999999999999999999999999987
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.61 E-value=1.9e-16 Score=149.61 Aligned_cols=92 Identities=14% Similarity=0.222 Sum_probs=81.9
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCchh
Q 040726 82 RPSVKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRI-PGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSSAD 159 (375)
Q Consensus 82 ~p~lkkg~WT~EED~~Ll~lv~~~G-~kW~~IA~~l-pgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~~~ 159 (375)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++|+++|||.||.++|++.+++. +|+.+||..++.
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kg--------pWT~EED~lLle 91 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRG--------GITSDEEDLILR 91 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccC--------CCChHHHHHHHH
Confidence 3578999999999999999999999 6899999998 69999999999999999998876 556666777888
Q ss_pred hcccCCCCcchhhhhcCCCCCC
Q 040726 160 QVTNSNSKASTSKAILNSSSSN 181 (375)
Q Consensus 160 ~~~~~~~k~s~i~~~~~~~s~n 181 (375)
.+...|.+|+.|+..+.+++.+
T Consensus 92 l~~~~GnKWs~IAk~LpGRTDn 113 (249)
T PLN03212 92 LHRLLGNRWSLIAGRIPGRTDN 113 (249)
T ss_pred HHHhccccHHHHHhhcCCCCHH
Confidence 8999999999999999988653
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.60 E-value=4.1e-16 Score=158.51 Aligned_cols=106 Identities=26% Similarity=0.570 Sum_probs=100.3
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHHhCCcch
Q 040726 31 GLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRLLGNRWS 110 (375)
Q Consensus 31 ~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~~G~kW~ 110 (375)
-++.|.|+.-||+.|..+|++||.+.|.+|++.+.. ++++||+.||..+|+|.|++..|+.|||++|+.+.+.+...|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 467899999999999999999999999999999987 9999999999999999999999999999999999999999999
Q ss_pred hhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 040726 111 LIAGRIPGRTDNEIKNYWNTHLSKKLIS 138 (375)
Q Consensus 111 ~IA~~lpgRT~~qcrnRW~~~L~~~l~~ 138 (375)
.|+..| ||+..||-.||.++|......
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 999999 999999999999999766543
No 9
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.57 E-value=2.2e-15 Score=155.74 Aligned_cols=109 Identities=27% Similarity=0.447 Sum_probs=103.2
Q ss_pred CCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHHhCC
Q 040726 28 SKVGLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRLLGN 107 (375)
Q Consensus 28 ~k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~~G~ 107 (375)
....++.|.|+..||+.|..+|++||+++|.+||..+.. |++++|+.||.++++|.+++..|+.|||..|+.+..++|.
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 455678999999999999999999999999999999987 9999999999999999999999999999999999999999
Q ss_pred cchhhcccCCCCCHHHHHHHHHHhhhhHHH
Q 040726 108 RWSLIAGRIPGRTDNEIKNYWNTHLSKKLI 137 (375)
Q Consensus 108 kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~ 137 (375)
.|..|+..+++|+..+|.+||...+.....
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999988866544
No 10
>PLN03091 hypothetical protein; Provisional
Probab=99.55 E-value=1.1e-15 Score=154.15 Aligned_cols=92 Identities=18% Similarity=0.285 Sum_probs=83.0
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCchh
Q 040726 82 RPSVKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRI-PGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSSAD 159 (375)
Q Consensus 82 ~p~lkkg~WT~EED~~Ll~lv~~~G-~kW~~IA~~l-pgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~~~ 159 (375)
+..+++++||+|||++|+++|.+|| .+|..||+.+ ++|+++|||.||.++|++.++++ +|+.++|..++.
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKg--------pWT~EED~lLLe 80 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRG--------TFSQQEENLIIE 80 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCC--------CCCHHHHHHHHH
Confidence 4678999999999999999999999 5799999998 59999999999999999998765 667777888899
Q ss_pred hcccCCCCcchhhhhcCCCCCC
Q 040726 160 QVTNSNSKASTSKAILNSSSSN 181 (375)
Q Consensus 160 ~~~~~~~k~s~i~~~~~~~s~n 181 (375)
.+...|.+|+.|+..+.+|+.+
T Consensus 81 L~k~~GnKWskIAk~LPGRTDn 102 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDN 102 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHH
Confidence 9999999999999999988765
No 11
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.54 E-value=1.3e-15 Score=144.83 Aligned_cols=90 Identities=13% Similarity=0.146 Sum_probs=80.3
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhC-CcchhhcccCC-CCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCchhh
Q 040726 83 PSVKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRIP-GRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSSADQ 160 (375)
Q Consensus 83 p~lkkg~WT~EED~~Ll~lv~~~G-~kW~~IA~~lp-gRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~~~~ 160 (375)
+.+.||+||+|||++|+++|++|| .+|..|++.++ +|++++||.||.+||++.++++.| +.+|+..++..
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~f--------T~eEe~~Ii~l 76 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNF--------SDEEEDLIIKL 76 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCC--------CHHHHHHHHHH
Confidence 345579999999999999999999 56999999998 999999999999999999987655 45556667888
Q ss_pred cccCCCCcchhhhhcCCCCC
Q 040726 161 VTNSNSKASTSKAILNSSSS 180 (375)
Q Consensus 161 ~~~~~~k~s~i~~~~~~~s~ 180 (375)
....|.+|+.|+..+.|+.+
T Consensus 77 H~~~GNrWs~IA~~LPGRTD 96 (238)
T KOG0048|consen 77 HALLGNRWSLIAGRLPGRTD 96 (238)
T ss_pred HHHHCcHHHHHHhhCCCcCH
Confidence 88999999999999999976
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.42 E-value=9e-14 Score=145.27 Aligned_cols=104 Identities=28% Similarity=0.586 Sum_probs=93.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCC--CCCCCCChHHHHHHHHHHH-------
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPS--VKRGHIAPDEEDLILRLHR------- 103 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~--lkkg~WT~EED~~Ll~lv~------- 103 (375)
++|.||+||++.|..+|.++| ++|..|++.|+ |.+..||+||++|...+ .+++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 799999999999999999999 69999999997 99999999999999887 4899999999999999995
Q ss_pred Hh-------------------CCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhC
Q 040726 104 LL-------------------GNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQ 139 (375)
Q Consensus 104 ~~-------------------G~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~ 139 (375)
++ +-.|..|++.+..|+..|||.+|+.++...+...
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 33 1259999998899999999999999987765433
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=99.34 E-value=8.4e-13 Score=95.40 Aligned_cols=46 Identities=30% Similarity=0.625 Sum_probs=42.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCc-chhhcccCC-CCCHHHHHHHHHHhh
Q 040726 87 RGHIAPDEEDLILRLHRLLGNR-WSLIAGRIP-GRTDNEIKNYWNTHL 132 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G~k-W~~IA~~lp-gRT~~qcrnRW~~~L 132 (375)
|++||+|||++|+++|.+||.. |..||..|+ +||..||++||+++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999875
No 14
>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=2.9e-13 Score=97.79 Aligned_cols=48 Identities=46% Similarity=0.814 Sum_probs=42.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhcc
Q 040726 34 RGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYL 81 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L 81 (375)
|++||+|||++|+++|.+||.++|..||..|+++|++.||+.||.++|
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 689999999999999999997669999999993499999999999875
No 15
>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=99.30 E-value=7.4e-13 Score=99.49 Aligned_cols=55 Identities=29% Similarity=0.546 Sum_probs=46.3
Q ss_pred CChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCC
Q 040726 90 IAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPR 144 (375)
Q Consensus 90 WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~ 144 (375)
||+|||++|+.+|.+||.+|..||+.|+.||..+|++||+..|++.+.+.+|++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~e 55 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKE 55 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHH
Confidence 9999999999999999999999999996699999999999988877766655543
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.11 E-value=8.7e-11 Score=82.59 Aligned_cols=47 Identities=34% Similarity=0.772 Sum_probs=44.3
Q ss_pred CCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhh
Q 040726 87 RGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLS 133 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L~ 133 (375)
+++||++||.+|+.++..|| .+|..||..|++||..+|+.||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.99 E-value=5.9e-10 Score=77.20 Aligned_cols=44 Identities=32% Similarity=0.682 Sum_probs=41.8
Q ss_pred CCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 89 HIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 89 ~WT~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
+||.+||.+|+.++..|| .+|..||..|++|+..+|+.||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998763
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.99 E-value=2.5e-10 Score=80.19 Aligned_cols=48 Identities=42% Similarity=0.850 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccC
Q 040726 34 RGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLR 82 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~ 82 (375)
++.||++||.+|+.++..||..+|..||..|++ |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 468999999999999999996799999999997 999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.88 E-value=7.9e-10 Score=116.06 Aligned_cols=121 Identities=24% Similarity=0.307 Sum_probs=97.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCC-----------------------CCccccccccCccccccchhhhhhhccCCCC-CCCC
Q 040726 34 RGPWTPEEDELLANYINKEGE-----------------------GRWRTLPKRAGLLRCGKSCRLRWMNYLRPSV-KRGH 89 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~-----------------------~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~l-kkg~ 89 (375)
-+.|+.+||+.|...|..|-. +-|..|...|+. |+.+..+.+-++.-.|-- ++|.
T Consensus 308 ~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE~~rg~ 386 (607)
T KOG0051|consen 308 LKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFENKRGK 386 (607)
T ss_pred hhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCccccccCC
Confidence 388999999999999998811 126778888888 999888773333333322 9999
Q ss_pred CChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCchhhcc
Q 040726 90 IAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSSADQVT 162 (375)
Q Consensus 90 WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~~~~~~ 162 (375)
||+||++.|..+|.++|+.|..|++.| ||.+..|+.||+.+....-+ +....|+.++...++..|+
T Consensus 387 wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~------~~r~~Ws~eEe~~Llk~V~ 452 (607)
T KOG0051|consen 387 WTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSK------RNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred CCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccc------cccCcchHHHHHHHHHHHH
Confidence 999999999999999999999999999 99999999999998866532 3346777777777777775
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=98.83 E-value=1.7e-09 Score=74.82 Aligned_cols=45 Identities=47% Similarity=0.861 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhcc
Q 040726 36 PWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYL 81 (375)
Q Consensus 36 ~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L 81 (375)
+||.+||.+|+.++.+||..+|..||+.|++ |+..+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999997799999999998 99999999998753
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.41 E-value=9.2e-08 Score=98.36 Aligned_cols=86 Identities=20% Similarity=0.280 Sum_probs=77.0
Q ss_pred CCCCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCCCCCCcCCCCCchhhccc
Q 040726 85 VKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTHKPLNQELDPSSADQVTN 163 (375)
Q Consensus 85 lkkg~WT~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~~~~~p~~~kp~~~e~d~~~~~~~~~ 163 (375)
++.|-|+.-||+.|..+|.+|| +.|++|+..++..+..||++||+.++++.+++-.| +.++|..++.....
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tew--------s~eederlLhlakl 76 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEW--------SREEDERLLHLAKL 76 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhh--------hhhHHHHHHHHHHh
Confidence 5678999999999999999999 67999999999999999999999999999987654 55677888999999
Q ss_pred CCCCcchhhhhcCCC
Q 040726 164 SNSKASTSKAILNSS 178 (375)
Q Consensus 164 ~~~k~s~i~~~~~~~ 178 (375)
.+++|.+|++++...
T Consensus 77 ~p~qwrtIa~i~gr~ 91 (617)
T KOG0050|consen 77 EPTQWRTIADIMGRT 91 (617)
T ss_pred cCCccchHHHHhhhh
Confidence 999999999887653
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=98.17 E-value=1.5e-06 Score=90.87 Aligned_cols=118 Identities=17% Similarity=0.153 Sum_probs=100.7
Q ss_pred hHHHHHHhccCCCCCccC-------CCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCC
Q 040726 11 TAAAAAAAATNKSTPCCS-------KVGLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRP 83 (375)
Q Consensus 11 ~sa~aa~~~~~~~~~~c~-------k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p 83 (375)
-+++|+.... +...+|. .+.++++.|+.|||+.|+.+-..+|. .|..||..+++ |+..+|.+||.+.|.+
T Consensus 43 ws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d~-rt~~~~~ery~~~~~~ 119 (512)
T COG5147 43 WSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKDR-RTAQQCVERYVNTLED 119 (512)
T ss_pred HHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccCc-cchHHHHHHHHHHhhh
Confidence 3556666654 7777774 57899999999999999999999996 79999999998 9999999999999987
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 84 SVKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 84 ~lkkg~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
... ..|+..++...+..+..|+..|..+......+-...|.+++..+.
T Consensus 120 ~~s-~~~s~~~~~~~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~ 167 (512)
T COG5147 120 LSS-THDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASYR 167 (512)
T ss_pred hhc-cccccccchhhccccCchhhhhhhhhhhhhcccchhhhhHHHHHH
Confidence 666 889999999999999999999988887777777888888886554
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=97.69 E-value=2.9e-05 Score=58.57 Aligned_cols=49 Identities=14% Similarity=0.234 Sum_probs=43.1
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCc---cccccccCccc-cccchhhhhhhcc
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRW---RTLPKRAGLLR-CGKSCRLRWMNYL 81 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W---~~IA~~~~~~R-t~~QCr~Rw~~~L 81 (375)
++-.||+||..+++++|+.+|.++| ..|++.|...| |..||+.++..|.
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 3567999999999999999998899 99999887546 9999999988764
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=97.52 E-value=0.00018 Score=54.33 Aligned_cols=47 Identities=19% Similarity=0.216 Sum_probs=41.2
Q ss_pred CCCCCChHHHHHHHHHHHHhCC-cc---hhhcccCC-CC-CHHHHHHHHHHhh
Q 040726 86 KRGHIAPDEEDLILRLHRLLGN-RW---SLIAGRIP-GR-TDNEIKNYWNTHL 132 (375)
Q Consensus 86 kkg~WT~EED~~Ll~lv~~~G~-kW---~~IA~~lp-gR-T~~qcrnRW~~~L 132 (375)
.+-.||+||..++++++..||. +| ..|++.|. .| |..||+.++..+.
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 3567999999999999999996 99 99999884 45 9999999998765
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.49 E-value=4.9e-05 Score=77.45 Aligned_cols=50 Identities=20% Similarity=0.533 Sum_probs=45.9
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhcc
Q 040726 31 GLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYL 81 (375)
Q Consensus 31 ~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L 81 (375)
.+-...||.+|+-+|++++..||-|||..||.+++. |+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHH
Confidence 345667999999999999999999999999999997 99999999999865
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.31 E-value=0.00024 Score=72.49 Aligned_cols=49 Identities=29% Similarity=0.417 Sum_probs=45.0
Q ss_pred CCCCCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 84 SVKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 84 ~lkkg~WT~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
.+-...||.+|+.+|++++..|| ++|..||.++..|+..+|+.+|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 45567899999999999999999 99999999999999999999998765
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=97.13 E-value=0.00039 Score=62.62 Aligned_cols=52 Identities=15% Similarity=0.229 Sum_probs=45.1
Q ss_pred CCCCCChHHHHHHHHHHHHh---CC----cchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 040726 86 KRGHIAPDEEDLILRLHRLL---GN----RWSLIAGRIPGRTDNEIKNYWNTHLSKKLIS 138 (375)
Q Consensus 86 kkg~WT~EED~~Ll~lv~~~---G~----kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~ 138 (375)
+...||.|||.+|.+.|-.| |+ -...+++.| +||+..|.-||+.++++.+..
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 45689999999999999887 32 288999999 999999999999999987654
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.04 E-value=0.0013 Score=61.44 Aligned_cols=100 Identities=19% Similarity=0.356 Sum_probs=71.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCcc--ccccchhhhhhhcc-CCCC--------------------CCCCCCh
Q 040726 36 PWTPEEDELLANYINKEGEGRWRTLPKRAGLL--RCGKSCRLRWMNYL-RPSV--------------------KRGHIAP 92 (375)
Q Consensus 36 ~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~--Rt~~QCr~Rw~~~L-~p~l--------------------kkg~WT~ 92 (375)
+|++++|-+|+.+|..-. +-..|+.-+... -|-..+.+||+..| +|.+ .+.+||.
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 599999999999998754 666666554432 36677888999876 3332 2568999
Q ss_pred HHHHHHHHHHHHhCC---cchhhcc-----cCCCCCHHHHHHHHHHhhhhHHH
Q 040726 93 DEEDLILRLHRLLGN---RWSLIAG-----RIPGRTDNEIKNYWNTHLSKKLI 137 (375)
Q Consensus 93 EED~~Ll~lv~~~G~---kW~~IA~-----~lpgRT~~qcrnRW~~~L~~~l~ 137 (375)
+|+++|......... .+.+|=. +-++||++.+..+|..+.+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997655432 3555422 23789999999999965554443
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.72 E-value=0.00068 Score=69.79 Aligned_cols=46 Identities=22% Similarity=0.528 Sum_probs=42.7
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhc
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNY 80 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~ 80 (375)
....||.+|..+|++.|+.|| .+|.+||.+++. |+..||..||.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 566899999999999999999 499999999998 9999999999874
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.59 E-value=0.0012 Score=52.68 Aligned_cols=50 Identities=26% Similarity=0.462 Sum_probs=35.2
Q ss_pred CCCCChHHHHHHHHHHHH------hC--C------cchhhcccC----CCCCHHHHHHHHHHhhhhHHH
Q 040726 87 RGHIAPDEEDLILRLHRL------LG--N------RWSLIAGRI----PGRTDNEIKNYWNTHLSKKLI 137 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~------~G--~------kW~~IA~~l----pgRT~~qcrnRW~~~L~~~l~ 137 (375)
|..||.+|...||.++.. ++ . .|..||..| ..||..||+.||.++. +.++
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~-~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK-KKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH-HHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HHHH
Confidence 347999999999999987 21 1 399999998 3599999999999855 5454
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.59 E-value=0.0022 Score=67.42 Aligned_cols=46 Identities=15% Similarity=0.289 Sum_probs=43.0
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 040726 86 KRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTH 131 (375)
Q Consensus 86 kkg~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~ 131 (375)
.+..||.+|+-+|++++..||.+|.+||.++.+||..+|-.||..+
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 4678999999999999999999999999999999999999999754
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.56 E-value=0.0013 Score=69.28 Aligned_cols=46 Identities=26% Similarity=0.614 Sum_probs=42.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhc
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNY 80 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~ 80 (375)
-++.||.+|+-+|+++|..||. +|.+||.+++. |+..||..++.+.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCC-CCHHHHHHHHHhc
Confidence 4678999999999999999994 99999999998 9999999999764
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.52 E-value=0.002 Score=66.41 Aligned_cols=45 Identities=16% Similarity=0.216 Sum_probs=42.2
Q ss_pred CCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 040726 87 RGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTH 131 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~ 131 (375)
...||.+|..+|++.+..||..|.+||+++..||..||.-||..+
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 348999999999999999999999999999999999999999754
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.51 E-value=0.0026 Score=49.27 Aligned_cols=50 Identities=16% Similarity=0.324 Sum_probs=32.8
Q ss_pred CCCCChHHHHHHHHHHHHhC--------Cc-chhhcccCC-CCCHHHHHHHHHHhhhhHH
Q 040726 87 RGHIAPDEEDLILRLHRLLG--------NR-WSLIAGRIP-GRTDNEIKNYWNTHLSKKL 136 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G--------~k-W~~IA~~lp-gRT~~qcrnRW~~~L~~~l 136 (375)
+.+||.|||..|++.|.++. ++ |..+++.-+ .+|-...|+||...|..+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 46899999999999997653 22 999998877 8999999999998887654
No 35
>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=96.18 E-value=0.0017 Score=50.23 Aligned_cols=52 Identities=29% Similarity=0.546 Sum_probs=33.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--ccccccccCccccccchhhhhhhccCCCC
Q 040726 34 RGPWTPEEDELLANYINKEGE------GR--WRTLPKRAGLLRCGKSCRLRWMNYLRPSV 85 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~------~~--W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~l 85 (375)
|.+||.|||++|+..|..+.. |+ |..+++..+..++..+-|+||.+.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 458999999999999977632 22 99999988755899999999999987643
No 36
>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=95.96 E-value=0.0016 Score=58.77 Aligned_cols=48 Identities=29% Similarity=0.637 Sum_probs=41.2
Q ss_pred CcCCCCHHHHHHHHHHHHHhCC------CCccccccccCccccccchhhhhhhccC
Q 040726 33 KRGPWTPEEDELLANYINKEGE------GRWRTLPKRAGLLRCGKSCRLRWMNYLR 82 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~------~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~ 82 (375)
+.-.||.|||.+|.+.|-+|-. ..+.+|++.+. ||+.-|..||..++.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 4567999999999999999921 24888999887 999999999999876
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.92 E-value=0.0059 Score=55.71 Aligned_cols=52 Identities=12% Similarity=0.200 Sum_probs=43.2
Q ss_pred CCCCCCChHHHHHHHHHHHHhCCc-------chhhcccCCCCCHHHHHHHHHHhhhhHHH
Q 040726 85 VKRGHIAPDEEDLILRLHRLLGNR-------WSLIAGRIPGRTDNEIKNYWNTHLSKKLI 137 (375)
Q Consensus 85 lkkg~WT~EED~~Ll~lv~~~G~k-------W~~IA~~lpgRT~~qcrnRW~~~L~~~l~ 137 (375)
.+...||.|||.+|.+.|-.|+.. ...++..| +||..+|..||+.++++++.
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 356789999999999998888732 56677778 99999999999999987654
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.78 E-value=0.0027 Score=50.67 Aligned_cols=47 Identities=28% Similarity=0.596 Sum_probs=32.5
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C--C-----CCccccccccC---ccccccchhhhhhhc
Q 040726 34 RGPWTPEEDELLANYINK--E----G--E-----GRWRTLPKRAG---LLRCGKSCRLRWMNY 80 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k--~----g--~-----~~W~~IA~~~~---~~Rt~~QCr~Rw~~~ 80 (375)
|..||.+|...|+.++.. + + . .-|..||..|. ..|++.||+.||.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 357999999999998887 2 1 1 13999999873 349999999999874
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.82 E-value=0.0097 Score=58.97 Aligned_cols=50 Identities=18% Similarity=0.486 Sum_probs=45.4
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccC
Q 040726 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLR 82 (375)
Q Consensus 32 ~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~ 82 (375)
+---.|+..|+-+|++.....|.++|..||..+|. |+...|+++|..++.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 33446999999999999999999999999999997 999999999998765
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.71 E-value=0.0093 Score=46.78 Aligned_cols=48 Identities=21% Similarity=0.430 Sum_probs=38.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCC----------------CCcccccccc----Cccccccchhhhhhhcc
Q 040726 34 RGPWTPEEDELLANYINKEGE----------------GRWRTLPKRA----GLLRCGKSCRLRWMNYL 81 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~----------------~~W~~IA~~~----~~~Rt~~QCr~Rw~~~L 81 (375)
+..||.+|.+.|+++|.+|.. ..|..|+..+ ++.|+..+|+.+|.++.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 567999999999999999821 2399998876 22499999999998854
No 41
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.58 E-value=0.05 Score=42.61 Aligned_cols=48 Identities=23% Similarity=0.454 Sum_probs=39.5
Q ss_pred CCCCChHHHHHHHHHHHHhC----C-------------cchhhcccC-----CCCCHHHHHHHHHHhhhh
Q 040726 87 RGHIAPDEEDLILRLHRLLG----N-------------RWSLIAGRI-----PGRTDNEIKNYWNTHLSK 134 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G----~-------------kW~~IA~~l-----pgRT~~qcrnRW~~~L~~ 134 (375)
+..||.+|...|+++|.+|. + .|..|+..| +.|+..+||.+|.++...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 45799999999999998873 1 299999887 249999999999987643
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.47 E-value=0.028 Score=55.79 Aligned_cols=47 Identities=30% Similarity=0.398 Sum_probs=42.9
Q ss_pred CCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhh
Q 040726 87 RGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLS 133 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L~ 133 (375)
-..|+.+|+.+|++...-+| ++|..||.++..|+...||.+|..+..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34699999999999999999 899999999999999999999976653
No 43
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=94.21 E-value=0.079 Score=53.90 Aligned_cols=53 Identities=23% Similarity=0.330 Sum_probs=46.7
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhhccc-----CCC-CCHHHHHHHHHHhhhhHHHhCC
Q 040726 88 GHIAPDEEDLILRLHRLLGNRWSLIAGR-----IPG-RTDNEIKNYWNTHLSKKLISQG 140 (375)
Q Consensus 88 g~WT~EED~~Ll~lv~~~G~kW~~IA~~-----lpg-RT~~qcrnRW~~~L~~~l~~~~ 140 (375)
..||.+|-+.|+++++.|.-+|..|+.. ++. ||-..+|+||+...++-++.+.
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 4699999999999999999999999998 555 9999999999998877666543
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.12 E-value=0.013 Score=53.42 Aligned_cols=49 Identities=24% Similarity=0.530 Sum_probs=38.7
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCC------ccccccccCccccccchhhhhhhccC
Q 040726 32 LKRGPWTPEEDELLANYINKEGEGR------WRTLPKRAGLLRCGKSCRLRWMNYLR 82 (375)
Q Consensus 32 ~kkg~WT~EED~~L~~lV~k~g~~~------W~~IA~~~~~~Rt~~QCr~Rw~~~L~ 82 (375)
.+...||.|||.+|.+.|-+|+... ...++..+. |++..|..||..++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 3567899999999999999996422 555666665 999999999976654
No 45
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.40 E-value=0.11 Score=59.50 Aligned_cols=98 Identities=13% Similarity=0.255 Sum_probs=74.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhh-------hhhhc----------------------------
Q 040726 36 PWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRL-------RWMNY---------------------------- 80 (375)
Q Consensus 36 ~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~-------Rw~~~---------------------------- 80 (375)
.|+.-|=..++.+..+||..+...||..|.+ ++...++. ||..+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5888888888889999998889999999976 77766652 22111
Q ss_pred --------------c-CCCCCCCCCChHHHHHHHHHHHHhC-Ccchhhccc------------CCCCCHHHHHHHHHHhh
Q 040726 81 --------------L-RPSVKRGHIAPDEEDLILRLHRLLG-NRWSLIAGR------------IPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 81 --------------L-~p~lkkg~WT~EED~~Ll~lv~~~G-~kW~~IA~~------------lpgRT~~qcrnRW~~~L 132 (375)
+ -+..++..||.|||..|+-++.+|| .+|.+|-.. |..||...+..|...+|
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 0122344699999999999999999 779888332 24699999999999887
Q ss_pred hh
Q 040726 133 SK 134 (375)
Q Consensus 133 ~~ 134 (375)
+-
T Consensus 985 ~~ 986 (1033)
T PLN03142 985 RL 986 (1033)
T ss_pred HH
Confidence 54
No 46
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.06 E-value=0.086 Score=53.49 Aligned_cols=46 Identities=20% Similarity=0.281 Sum_probs=42.5
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 040726 88 GHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLS 133 (375)
Q Consensus 88 g~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~ 133 (375)
.+|+.+|-++..++...+|..+..|+..+|.|..+|||.+|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 4799999999999999999999999999999999999999975443
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.70 E-value=0.38 Score=48.16 Aligned_cols=48 Identities=13% Similarity=0.194 Sum_probs=38.9
Q ss_pred CCCCChHHHHHHHHHHHHhC----------CcchhhcccC----CCCCHHHHHHHHHHhhhh
Q 040726 87 RGHIAPDEEDLILRLHRLLG----------NRWSLIAGRI----PGRTDNEIKNYWNTHLSK 134 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G----------~kW~~IA~~l----pgRT~~qcrnRW~~~L~~ 134 (375)
...|+.+|-..||++..+.- ..|..||+.+ .-||+.+||.||.++.++
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 36899999999999987532 3499999965 239999999999987644
No 48
>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=87.41 E-value=0.49 Score=40.86 Aligned_cols=51 Identities=24% Similarity=0.368 Sum_probs=39.5
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCC----cchhhcccC------------CCCCHHHHHHHHHHhhhh
Q 040726 84 SVKRGHIAPDEEDLILRLHRLLGN----RWSLIAGRI------------PGRTDNEIKNYWNTHLSK 134 (375)
Q Consensus 84 ~lkkg~WT~EED~~Ll~lv~~~G~----kW~~IA~~l------------pgRT~~qcrnRW~~~L~~ 134 (375)
..++..||.+||.-|+-++.+||- .|..|-..+ ..||+..+..|...+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 456778999999999999999995 688775543 359999999999988753
No 49
>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=86.77 E-value=1 Score=36.14 Aligned_cols=45 Identities=31% Similarity=0.523 Sum_probs=34.3
Q ss_pred CCChHHHHHHHHHHHHh---CC----------cchhhcccC---CC--CCHHHHHHHHHHhhh
Q 040726 89 HIAPDEEDLILRLHRLL---GN----------RWSLIAGRI---PG--RTDNEIKNYWNTHLS 133 (375)
Q Consensus 89 ~WT~EED~~Ll~lv~~~---G~----------kW~~IA~~l---pg--RT~~qcrnRW~~~L~ 133 (375)
.||++++..|++++.+. |+ .|..|+..| .| .+..||++||..+.+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999998653 21 299998887 22 578999999976443
No 50
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=86.23 E-value=0.94 Score=49.64 Aligned_cols=46 Identities=13% Similarity=0.187 Sum_probs=42.1
Q ss_pred CCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 87 RGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
...||+.|-.++-+++-.|.+++..|++.++++|-.+|-..|+...
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 3479999999999999999999999999999999999999887654
No 51
>KOG3648 consensus Golgi apparatus protein (cysteine-rich fibroblast growth factor receptor) [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.95 E-value=0.89 Score=49.30 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=5.2
Q ss_pred cCcccccchh
Q 040726 347 FGLEANWESP 356 (375)
Q Consensus 347 ~~~~~~~~~~ 356 (375)
.|-+..|--+
T Consensus 104 ~~~~~~~KLA 113 (1179)
T KOG3648|consen 104 AGAGGGWKLA 113 (1179)
T ss_pred CCCCCCcccc
Confidence 3445567544
No 52
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=83.88 E-value=2.2 Score=44.53 Aligned_cols=48 Identities=13% Similarity=0.248 Sum_probs=43.2
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 040726 86 KRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLS 133 (375)
Q Consensus 86 kkg~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~ 133 (375)
....||.||-.++-.++..||+.+.+|-..||.|+-..+...|+...+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 355799999999999999999999999999999999999999876543
No 53
>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=82.44 E-value=0.48 Score=40.93 Aligned_cols=34 Identities=26% Similarity=0.504 Sum_probs=28.2
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 040726 31 GLKRGPWTPEEDELLANYINKEGE---GRWRTLPKRA 64 (375)
Q Consensus 31 ~~kkg~WT~EED~~L~~lV~k~g~---~~W~~IA~~~ 64 (375)
..+++.||.+||.-|+-.+.+||. +.|..|-..+
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 456788999999999999999998 8999997665
No 54
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=80.67 E-value=1.5 Score=50.52 Aligned_cols=23 Identities=13% Similarity=0.120 Sum_probs=16.4
Q ss_pred HHHhhhhcccCCCCcCCCCCCCc
Q 040726 316 QQHLSNETIALPNTITGSSSDPL 338 (375)
Q Consensus 316 qq~~~~~~~~~~~~~~~~~~~~~ 338 (375)
+||||++++|-+..+.+++++-+
T Consensus 1879 ~qq~~~~~~q~~sq~~q~p~~~~ 1901 (2131)
T KOG4369|consen 1879 IQQFQQQYQQHQSQSSQQPSDLM 1901 (2131)
T ss_pred HHHHHHHHhcccCCCCCCCcccc
Confidence 37787788887777777777655
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=80.53 E-value=0.72 Score=46.17 Aligned_cols=47 Identities=21% Similarity=0.420 Sum_probs=36.7
Q ss_pred cCCCCHHHHHHHHHHHHHh----C-----CCCcccccccc---Cccccccchhhhhhhc
Q 040726 34 RGPWTPEEDELLANYINKE----G-----EGRWRTLPKRA---GLLRCGKSCRLRWMNY 80 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~----g-----~~~W~~IA~~~---~~~Rt~~QCr~Rw~~~ 80 (375)
...|+.+|-..|+++..+. . ..-|..||+.+ +..|++.||+.||.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 3789999999999886644 1 13599999954 3349999999999874
No 56
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=74.99 E-value=4.2 Score=29.20 Aligned_cols=41 Identities=20% Similarity=0.322 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 040726 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLS 133 (375)
Q Consensus 92 ~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~ 133 (375)
++++..++.++...|-.|.+||..+ |.+...|+.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4677888888888999999999999 9999999998876553
No 57
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=73.23 E-value=2.2 Score=43.67 Aligned_cols=64 Identities=13% Similarity=0.160 Sum_probs=49.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhcc--CCC-----C-CCCCCChHHHHHH
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYL--RPS-----V-KRGHIAPDEEDLI 98 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L--~p~-----l-kkg~WT~EED~~L 98 (375)
.--+|+.+|-++..+++..+|. ++.-|+..++. |..+|++.+|.+-- +|. + .+-++..+|-.+|
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~-R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~ 435 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISSLFPN-RERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKL 435 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcCc-hhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhH
Confidence 3447999999999999999996 99999999998 99999999987632 221 1 2346666665443
No 58
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=72.14 E-value=2.2 Score=46.87 Aligned_cols=44 Identities=16% Similarity=0.262 Sum_probs=39.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhh
Q 040726 34 RGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMN 79 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~ 79 (375)
.-.||+.|-.++.+++..|. .++..|++.+.+ ++.+||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhcc-ccHHHHHHHHHH
Confidence 44799999999999999998 699999999998 999999987754
No 59
>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=71.40 E-value=3.9 Score=33.08 Aligned_cols=23 Identities=48% Similarity=0.866 Sum_probs=13.9
Q ss_pred CCCcCCCCHHHHHHH--------HHHHHHhC
Q 040726 31 GLKRGPWTPEEDELL--------ANYINKEG 53 (375)
Q Consensus 31 ~~kkg~WT~EED~~L--------~~lV~k~g 53 (375)
.-..|-||+|+|+.| ..++++||
T Consensus 44 ~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 345889999999999 35667776
No 60
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=69.82 E-value=7.7 Score=41.97 Aligned_cols=49 Identities=12% Similarity=0.367 Sum_probs=40.2
Q ss_pred CCCCChHHHHHHHHHHHHhCCcchhhccc----------CCCCCHHHHHHHHHHhhhhH
Q 040726 87 RGHIAPDEEDLILRLHRLLGNRWSLIAGR----------IPGRTDNEIKNYWNTHLSKK 135 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~G~kW~~IA~~----------lpgRT~~qcrnRW~~~L~~~ 135 (375)
|..||-.|+.-...+++++|+++.+|-.+ ..-+|..|+|.+||..+.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m 146 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRM 146 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHH
Confidence 66899999999999999999999888222 23368889999999887553
No 61
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=69.73 E-value=5.2 Score=43.15 Aligned_cols=47 Identities=21% Similarity=0.316 Sum_probs=43.1
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 86 KRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 86 kkg~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
..++|+.+|-++.......+|.+.+.|+..+|+|..++||.+|..--
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE 454 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEE 454 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhh
Confidence 45689999999999999999999999999999999999999997543
No 62
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=66.76 E-value=3.8 Score=32.77 Aligned_cols=44 Identities=23% Similarity=0.576 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----CccccccccCc----cccccchhhhhhh
Q 040726 36 PWTPEEDELLANYINKE---GE----G-----RWRTLPKRAGL----LRCGKSCRLRWMN 79 (375)
Q Consensus 36 ~WT~EED~~L~~lV~k~---g~----~-----~W~~IA~~~~~----~Rt~~QCr~Rw~~ 79 (375)
.||+++++.|++++... |. + .|..|++.|.. ..+..||+.||..
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 59999999999987655 21 1 28888777632 2566788888764
No 63
>smart00595 MADF subfamily of SANT domain.
Probab=61.78 E-value=5.4 Score=31.53 Aligned_cols=23 Identities=30% Similarity=0.586 Sum_probs=20.2
Q ss_pred chhhcccCCCCCHHHHHHHHHHhh
Q 040726 109 WSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 109 W~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
|..||..| |-+...|+.+|.++-
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR 52 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHH
Confidence 99999999 559999999998754
No 64
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=59.71 E-value=7.8 Score=45.16 Aligned_cols=75 Identities=20% Similarity=0.191 Sum_probs=48.3
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHHh-CCcchh
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRLL-GNRWSL 111 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~~-G~kW~~ 111 (375)
.---|..+||..|+-.|-+||.++|..|-.- +.-|.. =...+...+-.+.|=..+-..|+.++... +.+|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~-dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLT-DKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccC------ccccch-hhhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 3456999999999999999999999999321 111211 12222222445566677777777777776 455555
Q ss_pred hcc
Q 040726 112 IAG 114 (375)
Q Consensus 112 IA~ 114 (375)
..+
T Consensus 1205 ~~~ 1207 (1373)
T KOG0384|consen 1205 KLK 1207 (1373)
T ss_pred hhh
Confidence 443
No 65
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=56.53 E-value=7.7 Score=39.96 Aligned_cols=49 Identities=18% Similarity=0.289 Sum_probs=42.1
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccccc-----cCccccccchhhhhhhcc
Q 040726 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKR-----AGLLRCGKSCRLRWMNYL 81 (375)
Q Consensus 32 ~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~-----~~~~Rt~~QCr~Rw~~~L 81 (375)
+....||++|.+-|..+.++|. -.|-.||.. ++..||-...++||+.+.
T Consensus 128 l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 4456799999999999999998 599999998 565699999999998764
No 66
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=55.75 E-value=12 Score=40.51 Aligned_cols=48 Identities=13% Similarity=0.261 Sum_probs=36.2
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCcc---------ccccchhhhhhhcc
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLL---------RCGKSCRLRWMNYL 81 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~---------Rt~~QCr~Rw~~~L 81 (375)
+|..||..|.+....+++.+| .++.+|-..+..+ ++-.|.|.+|++.+
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred cccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 367899999999999999999 5998883322211 56678888877654
No 67
>KOG3661 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.51 E-value=18 Score=39.81 Aligned_cols=21 Identities=24% Similarity=0.087 Sum_probs=10.4
Q ss_pred hhhhhhhhhhhHHHHHHHHHH
Q 040726 297 INEDAFASQHNQQVLQQQQQQ 317 (375)
Q Consensus 297 ~n~~~~~~q~~qqq~qqqqqq 317 (375)
.|+....+|+++|++++||-+
T Consensus 47 a~qp~~v~q~~lq~l~~qq~~ 67 (1019)
T KOG3661|consen 47 APQPQQVNQPHLQRLITQQTL 67 (1019)
T ss_pred CCCcccCChHHHHHHhhHHHH
Confidence 334444555555555544443
No 68
>KOG1883 consensus Cofactor required for Sp1 transcriptional activation, subunit 3 [Transcription]
Probab=54.08 E-value=7.8 Score=44.81 Aligned_cols=9 Identities=56% Similarity=1.328 Sum_probs=4.7
Q ss_pred cCCCCHHHH
Q 040726 34 RGPWTPEED 42 (375)
Q Consensus 34 kg~WT~EED 42 (375)
..+|++|.|
T Consensus 1105 ~ap~~pel~ 1113 (1517)
T KOG1883|consen 1105 GAPWSPELD 1113 (1517)
T ss_pred CCCCCCcHH
Confidence 345666554
No 69
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=54.00 E-value=65 Score=33.25 Aligned_cols=45 Identities=20% Similarity=0.262 Sum_probs=39.8
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhh-cccCCCCCHHHHHHHHHHhh
Q 040726 88 GHIAPDEEDLILRLHRLLGNRWSLI-AGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 88 g~WT~EED~~Ll~lv~~~G~kW~~I-A~~lpgRT~~qcrnRW~~~L 132 (375)
..|+++|-..+-+-++.||+.+..| +..++.|+-..|-..|+...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 3699999999999999999999999 45589999999999887554
No 70
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=53.96 E-value=21 Score=33.62 Aligned_cols=43 Identities=19% Similarity=0.239 Sum_probs=32.8
Q ss_pred CCChHHHHHHHHHHHHhCCcchhhcccC---CCCCHHHHHHHHHHhh
Q 040726 89 HIAPDEEDLILRLHRLLGNRWSLIAGRI---PGRTDNEIKNYWNTHL 132 (375)
Q Consensus 89 ~WT~EED~~Ll~lv~~~G~kW~~IA~~l---pgRT~~qcrnRW~~~L 132 (375)
.|++++|-+|+.+|.. |+.-..|+..+ ..-|-..+..||+.+|
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~ll 46 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALL 46 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHH
Confidence 4999999999999865 44445554443 3468899999999888
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=52.72 E-value=17 Score=25.49 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHh
Q 040726 93 DEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTH 131 (375)
Q Consensus 93 EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~ 131 (375)
+=|.+|+.+...-| ..|..||+.+ |=+...|..|+..+
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 44788899888888 4599999999 99999999998753
No 72
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=52.54 E-value=13 Score=32.86 Aligned_cols=46 Identities=13% Similarity=0.088 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 040726 92 PDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLSKKLIS 138 (375)
Q Consensus 92 ~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~ 138 (375)
.+-|.+|+.+..+-| ..|.+||+.+ |-+...|+.|+..+....+.+
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 356888999998888 5699999999 999999999999887666543
No 73
>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=51.68 E-value=14 Score=29.85 Aligned_cols=17 Identities=18% Similarity=0.561 Sum_probs=10.1
Q ss_pred CCCCCCCCChHHHHHHH
Q 040726 83 PSVKRGHIAPDEEDLIL 99 (375)
Q Consensus 83 p~lkkg~WT~EED~~Ll 99 (375)
|....|-||+|+|..|.
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 55678899999999993
No 74
>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=50.32 E-value=22 Score=28.38 Aligned_cols=38 Identities=13% Similarity=0.273 Sum_probs=28.3
Q ss_pred HHHHHHHHhCC--------cchhhcccCCC---CC--HHHHHHHHHHhhhh
Q 040726 97 LILRLHRLLGN--------RWSLIAGRIPG---RT--DNEIKNYWNTHLSK 134 (375)
Q Consensus 97 ~Ll~lv~~~G~--------kW~~IA~~lpg---RT--~~qcrnRW~~~L~~ 134 (375)
+|..+|.+.|+ +|..|++.|.- .+ ..++|..|..+|.+
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 47788888873 59999999822 12 36899999988753
No 75
>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=49.74 E-value=7.5 Score=27.30 Aligned_cols=38 Identities=18% Similarity=0.320 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhh
Q 040726 40 EEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMN 79 (375)
Q Consensus 40 EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~ 79 (375)
+=|.+|+.++...+...|..||+.++ =+...|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45888999999999889999999998 588899998764
No 76
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=49.63 E-value=43 Score=33.80 Aligned_cols=48 Identities=25% Similarity=0.476 Sum_probs=37.1
Q ss_pred CCCCChHHHHHHHHHHHHh-CCc---chhhcccCCCCCHHHHHHHHHHhhhhH
Q 040726 87 RGHIAPDEEDLILRLHRLL-GNR---WSLIAGRIPGRTDNEIKNYWNTHLSKK 135 (375)
Q Consensus 87 kg~WT~EED~~Ll~lv~~~-G~k---W~~IA~~lpgRT~~qcrnRW~~~L~~~ 135 (375)
-..||.-|...|+++.+.. |.. -.+|++.++||+..+|++--. .|+.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~-~LK~r 72 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQ-QLKGR 72 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHH-HHHHH
Confidence 4579999999999998765 433 568899999999999998554 44443
No 77
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=48.03 E-value=8.8 Score=42.15 Aligned_cols=11 Identities=18% Similarity=0.193 Sum_probs=6.5
Q ss_pred CCcchhhcccC
Q 040726 106 GNRWSLIAGRI 116 (375)
Q Consensus 106 G~kW~~IA~~l 116 (375)
|-.+..|...+
T Consensus 348 ~~~~~dId~Vv 358 (657)
T PTZ00186 348 GVELKEINDVV 358 (657)
T ss_pred CCChhhCCEEE
Confidence 44566776553
No 78
>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=47.90 E-value=25 Score=24.84 Aligned_cols=41 Identities=24% Similarity=0.359 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 040726 93 DEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSK 134 (375)
Q Consensus 93 EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~~ 134 (375)
+++..++.++-..|-.+..||..| |-+...|+.+....+++
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 445555555555567899999999 88999999988777643
No 79
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=46.98 E-value=8.8 Score=33.89 Aligned_cols=46 Identities=11% Similarity=0.123 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCC
Q 040726 39 PEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVK 86 (375)
Q Consensus 39 ~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lk 86 (375)
.+-|.+|+.++.+.|.-.|.+||+.++ -+...|+.|+.+..+.++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357889999999999889999999998 6999999999988766544
No 80
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=44.93 E-value=29 Score=27.95 Aligned_cols=38 Identities=18% Similarity=0.323 Sum_probs=28.8
Q ss_pred HHHHHHHHhCC--------cchhhcccCCC-----CCHHHHHHHHHHhhhh
Q 040726 97 LILRLHRLLGN--------RWSLIAGRIPG-----RTDNEIKNYWNTHLSK 134 (375)
Q Consensus 97 ~Ll~lv~~~G~--------kW~~IA~~lpg-----RT~~qcrnRW~~~L~~ 134 (375)
+|..+|.+.|+ .|..|++.|.- .....+|..|..+|.+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 47778888773 69999999833 2357889999888865
No 81
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=44.33 E-value=16 Score=32.58 Aligned_cols=46 Identities=13% Similarity=0.016 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 040726 92 PDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLSKKLIS 138 (375)
Q Consensus 92 ~EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~ 138 (375)
.+-|.+|+.+..+-| -.|..||+.+ |-+...|+.|++.+.+..+.+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 456888998888887 5699999999 999999999999887766543
No 82
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=42.42 E-value=8.8 Score=34.33 Aligned_cols=47 Identities=23% Similarity=0.232 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCC
Q 040726 39 PEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKR 87 (375)
Q Consensus 39 ~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkk 87 (375)
.+-|.+|+.+..+.+.-.|.+||+.++ -+...|+.|+.+..+.++-+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCeE
Confidence 567889999999999889999999998 58899999999887766543
No 83
>PF03249 TSA: Type specific antigen; InterPro: IPR004933 There are several antigenic variants in Rickettsia tsutsugamushi, and a type-specific antigen (TSA) of 56-kilodaltons located on the rickettsial surface is responsible for the variation [, ]. TSA proteins are probably integral membrane proteins. ; GO: 0016021 integral to membrane
Probab=42.27 E-value=18 Score=37.30 Aligned_cols=9 Identities=44% Similarity=0.567 Sum_probs=5.3
Q ss_pred hhhhhhhhh
Q 040726 299 EDAFASQHN 307 (375)
Q Consensus 299 ~~~~~~q~~ 307 (375)
-+.|++|-|
T Consensus 293 ~nafa~qiq 301 (503)
T PF03249_consen 293 GNAFANQIQ 301 (503)
T ss_pred HHHhhhhhe
Confidence 466777644
No 84
>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=41.21 E-value=49 Score=29.80 Aligned_cols=47 Identities=15% Similarity=0.152 Sum_probs=39.5
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcchhhcccCC-C---CCHHHHHHHHHHhh
Q 040726 86 KRGHIAPDEEDLILRLHRLLGNRWSLIAGRIP-G---RTDNEIKNYWNTHL 132 (375)
Q Consensus 86 kkg~WT~EED~~Ll~lv~~~G~kW~~IA~~lp-g---RT~~qcrnRW~~~L 132 (375)
....-|..|..-|..||.+||.++...+.-.. + .|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 44568899999999999999999999888764 3 79999999887654
No 85
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=40.44 E-value=15 Score=42.59 Aligned_cols=33 Identities=24% Similarity=0.371 Sum_probs=28.3
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCcccccccc
Q 040726 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRA 64 (375)
Q Consensus 32 ~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~ 64 (375)
.++..||.|||..|+-.+.+||.++|.+|-..+
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 345569999999999999999999999996554
No 86
>KOG1883 consensus Cofactor required for Sp1 transcriptional activation, subunit 3 [Transcription]
Probab=36.46 E-value=28 Score=40.60 Aligned_cols=9 Identities=11% Similarity=0.294 Sum_probs=5.4
Q ss_pred CCCCChHHH
Q 040726 87 RGHIAPDEE 95 (375)
Q Consensus 87 kg~WT~EED 95 (375)
..+|++|.|
T Consensus 1105 ~ap~~pel~ 1113 (1517)
T KOG1883|consen 1105 GAPWSPELD 1113 (1517)
T ss_pred CCCCCCcHH
Confidence 446777664
No 87
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=36.26 E-value=27 Score=31.65 Aligned_cols=41 Identities=17% Similarity=0.144 Sum_probs=34.4
Q ss_pred CCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHH
Q 040726 89 HIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNT 130 (375)
Q Consensus 89 ~WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~ 130 (375)
.||+|+.++|.+|.. -|-.=.+||+.|.+.|.+.|.-+.+.
T Consensus 2 ~Wtde~~~~L~~lw~-~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWA-EGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHH-cCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 599999999999884 47778999999977999998877653
No 88
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=36.26 E-value=27 Score=36.99 Aligned_cols=23 Identities=17% Similarity=0.235 Sum_probs=14.1
Q ss_pred cccccccCcccccchhhhhccccc
Q 040726 341 TAAASTFGLEANWESPIMASSLNQ 364 (375)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~ 364 (375)
+.+|+..-++..|+++ ...-|++
T Consensus 148 ttpafqpp~~~~wd~~-a~~~~~p 170 (605)
T KOG4217|consen 148 TTPAFQPPHSDLWDAT-APGHFNP 170 (605)
T ss_pred CCCCCCCCCCcccccc-CccccCc
Confidence 3445556788899987 2334544
No 89
>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=35.89 E-value=51 Score=27.87 Aligned_cols=34 Identities=24% Similarity=0.347 Sum_probs=25.7
Q ss_pred HHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 98 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 98 Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
++.+.-..|-.+.+||..| |.+...++.++...+
T Consensus 121 il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~ 154 (161)
T TIGR02985 121 IFILSRFEGKSYKEIAEEL-GISVKTVEYHISKAL 154 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3333333467899999999 899999999988754
No 90
>PF06752 E_Pc_C: Enhancer of Polycomb C-terminus; InterPro: IPR009607 This entry represents the C terminus of eukaryotic enhancer of polycomb proteins, which have roles in heterochromatin formation []. This family contains several conserved motifs.
Probab=34.67 E-value=32 Score=33.03 Aligned_cols=15 Identities=47% Similarity=0.468 Sum_probs=6.9
Q ss_pred hhhHHHHHHHHHHHh
Q 040726 305 QHNQQVLQQQQQQHL 319 (375)
Q Consensus 305 q~~qqq~qqqqqq~~ 319 (375)
|++|||+.+-|.||+
T Consensus 8 QqHQqQL~~MQkQQL 22 (230)
T PF06752_consen 8 QQHQQQLVLMQKQQL 22 (230)
T ss_pred HHHHHHHHHHHHHHH
Confidence 445555544444333
No 91
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=34.64 E-value=30 Score=36.99 Aligned_cols=14 Identities=21% Similarity=0.624 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHh
Q 040726 39 PEEDELLANYINKE 52 (375)
Q Consensus 39 ~EED~~L~~lV~k~ 52 (375)
.+|+++|+.+|..-
T Consensus 451 tdeeqllkdivsad 464 (990)
T KOG1819|consen 451 TDEEQLLKDIVSAD 464 (990)
T ss_pred chHHHHHhhhhhcc
Confidence 45667777777643
No 92
>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=30.75 E-value=91 Score=31.55 Aligned_cols=85 Identities=15% Similarity=0.255 Sum_probs=60.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCC---CccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHH-h----
Q 040726 34 RGPWTPEEDELLANYINKEGEG---RWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRL-L---- 105 (375)
Q Consensus 34 kg~WT~EED~~L~~lV~k~g~~---~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~-~---- 105 (375)
-..||.-|...|+.+.+..... +-.+|++.+.+ |+..++++ |.+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 3469999999999888766323 34567778887 88888876 344443 2345555554 2
Q ss_pred -CC------------cchhhcccCCCCCHHHHHHHHHHhh
Q 040726 106 -GN------------RWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 106 -G~------------kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
|. -|..+|+.+.|.-...+-.-|-..|
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l 126 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVL 126 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence 11 2999999999999999888887766
No 93
>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=30.04 E-value=43 Score=30.16 Aligned_cols=48 Identities=19% Similarity=0.261 Sum_probs=33.8
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccccccCcc---ccccchhhhhhhc
Q 040726 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLL---RCGKSCRLRWMNY 80 (375)
Q Consensus 32 ~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~---Rt~~QCr~Rw~~~ 80 (375)
.+...-|..|.+-|..||.+|| .++...+.-...+ .|..||+.+...|
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhG-dDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHG-DDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHC-ccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 3555689999999999999999 4888776543311 5666666655443
No 94
>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=29.91 E-value=45 Score=26.94 Aligned_cols=29 Identities=21% Similarity=0.464 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 040726 95 EDLILRLHRLLGNRWSLIAGRIPGRTDNEI 124 (375)
Q Consensus 95 D~~Ll~lv~~~G~kW~~IA~~lpgRT~~qc 124 (375)
|+.|..+....|..|..+|..| |=+..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678899999999999999998 6555443
No 95
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=28.62 E-value=62 Score=26.25 Aligned_cols=45 Identities=13% Similarity=0.118 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 040726 93 DEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLSKKLIS 138 (375)
Q Consensus 93 EED~~Ll~lv~~~G-~kW~~IA~~lpgRT~~qcrnRW~~~L~~~l~~ 138 (375)
+.|.+|+.+....| -.+..|++.+ |-+...|+.|...+.+..+..
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 56888888888877 4699999999 999999999998877665543
No 96
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=28.06 E-value=71 Score=31.29 Aligned_cols=29 Identities=10% Similarity=0.046 Sum_probs=15.9
Q ss_pred ccccccccccCcccccchhhhhccccccc
Q 040726 338 LVSTAAASTFGLEANWESPIMASSLNQDE 366 (375)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 366 (375)
+.+.+......+..-|-+...+.++.+++
T Consensus 51 ~~~~~~~~~~~~~qq~~s~~~~~~~~~n~ 79 (258)
T KOG1142|consen 51 RFSPTCSIRENPNQQWISTGYPQPQVSNG 79 (258)
T ss_pred cCCCcccccCCCCccccccccCccccccC
Confidence 33333333344555577777776676664
No 97
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=27.69 E-value=64 Score=26.74 Aligned_cols=45 Identities=13% Similarity=0.126 Sum_probs=30.0
Q ss_pred CCCChHHHHHHHHHHHHh----C----Ccchhh----cccCC-CCCHHHHHHHHHHhh
Q 040726 88 GHIAPDEEDLILRLHRLL----G----NRWSLI----AGRIP-GRTDNEIKNYWNTHL 132 (375)
Q Consensus 88 g~WT~EED~~Ll~lv~~~----G----~kW~~I----A~~lp-gRT~~qcrnRW~~~L 132 (375)
.-||++++..|++.+..| | ..|..+ ...|. .=+..|+.++.+.+.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK 62 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLK 62 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHH
Confidence 359999999999999877 5 234443 33332 237778887776544
No 98
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=27.46 E-value=57 Score=35.51 Aligned_cols=53 Identities=17% Similarity=0.296 Sum_probs=45.4
Q ss_pred CccCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhh
Q 040726 25 PCCSKVGLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMN 79 (375)
Q Consensus 25 ~~c~k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~ 79 (375)
.....+.....+|+.+|-++...+....|. +...|+..+++ |..++++..|..
T Consensus 400 ~~t~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 400 YATYSKKLETDKWDASETELFYKALSERGS-DFSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred hhhccCccccCcccchhhHHhhhHHhhhcc-ccccccccccc-ccHHHHHHHHhh
Confidence 333455677889999999999999999995 99999999998 999999998754
No 99
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=27.08 E-value=44 Score=35.29 Aligned_cols=47 Identities=15% Similarity=0.114 Sum_probs=38.9
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhh
Q 040726 31 GLKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMN 79 (375)
Q Consensus 31 ~~kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~ 79 (375)
+-..-.||.||--++.+++..|| .++.+|-+.|+. |+-..++.-|..
T Consensus 184 ~~~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~-rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 184 TEFPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPH-RSLASLVQYYYS 230 (534)
T ss_pred CCCcccchHHHHHHHHHHHHHhc-ccHHHHHHHccC-ccHHHHHHHHHH
Confidence 34556799999999999999999 599999999987 888777765543
No 100
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=26.69 E-value=1.1e+02 Score=26.75 Aligned_cols=27 Identities=22% Similarity=0.255 Sum_probs=21.1
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 105 LGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 105 ~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
.|-.-.+||+.| |.+...|+.|....+
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~ 159 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYAL 159 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 355678999999 888999998876444
No 101
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=26.26 E-value=1.6e+02 Score=24.97 Aligned_cols=45 Identities=18% Similarity=0.212 Sum_probs=31.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhcc
Q 040726 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYL 81 (375)
Q Consensus 33 kkg~WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L 81 (375)
++..||.|+-..++..+...| ..-..||+.++. ...-..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI---s~~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV---AASQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc---CHHHHHHHHHHH
Confidence 457799999887777766666 366788888774 334455676654
No 102
>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=25.48 E-value=69 Score=25.86 Aligned_cols=29 Identities=21% Similarity=0.320 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 040726 95 EDLILRLHRLLGNRWSLIAGRIPGRTDNEI 124 (375)
Q Consensus 95 D~~Ll~lv~~~G~kW~~IA~~lpgRT~~qc 124 (375)
|..|..+....|..|..+|+.| |=+...|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 6778889999999999999999 6555443
No 103
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=25.38 E-value=1.1e+02 Score=32.72 Aligned_cols=41 Identities=17% Similarity=0.273 Sum_probs=36.9
Q ss_pred CCChHHHHHHHHHHHHhCCcchhh-cccCCCCCHHHHHHHHH
Q 040726 89 HIAPDEEDLILRLHRLLGNRWSLI-AGRIPGRTDNEIKNYWN 129 (375)
Q Consensus 89 ~WT~EED~~Ll~lv~~~G~kW~~I-A~~lpgRT~~qcrnRW~ 129 (375)
.|+.-|-.++-++..+||+.+..| +.+||-++-..|-..|+
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 699999999999999999999999 55579999999988876
No 104
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=25.22 E-value=1.1e+02 Score=31.60 Aligned_cols=34 Identities=12% Similarity=0.235 Sum_probs=25.7
Q ss_pred cCCCCCCcCCCCHHHHHHHHHHHHHhCCCCcccc
Q 040726 27 CSKVGLKRGPWTPEEDELLANYINKEGEGRWRTL 60 (375)
Q Consensus 27 c~k~~~kkg~WT~EED~~L~~lV~k~g~~~W~~I 60 (375)
.++.+..-|.|++.=|+...+++..|.+.-=++|
T Consensus 69 ~D~~~daegvWSpdIEqsFqEALaiyppcGrrKI 102 (455)
T KOG3841|consen 69 TDNQRDAEGVWSPDIEQSFQEALAIYPPCGRRKI 102 (455)
T ss_pred CccccccccccChhHHHHHHHHHhhcCCCCceeE
Confidence 3444567789999999999999999976433444
No 105
>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=24.84 E-value=88 Score=25.57 Aligned_cols=29 Identities=21% Similarity=0.196 Sum_probs=23.0
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 040726 104 LLGNRWSLIAGRIPGRTDNEIKNYWNTHLS 133 (375)
Q Consensus 104 ~~G~kW~~IA~~lpgRT~~qcrnRW~~~L~ 133 (375)
..|..+..||+.+ |-+...++.+....++
T Consensus 124 ~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~ 152 (158)
T TIGR02937 124 LEGLSYKEIAEIL-GISVGTVKRRLKRARK 152 (158)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3567899999999 7788889888877553
No 106
>PF10477 EIF4E-T: Nucleocytoplasmic shuttling protein for mRNA cap-binding EIF4E; InterPro: IPR018862 EIF4E-T is the transporter protein for shuttling the mRNA cap-binding protein EIF4E protein, targeting it for nuclear import. EIF4E-T contains several key binding domains including two functional leucine-rich NESs (nuclear export signals) between residues 438-447 and 613-638 in the human protein. The other two binding domains are an EIF4E-binding site, between residues 27-42 in Q9EST3 from SWISSPROT, and a bipartite NLS (nuclear localisation signals) between 194-211, and these lie in family EIF4E-T_N. EIF4E is the eukaryotic translation initiation factor 4E that is the rate-limiting factor for cap-dependent translation initiation [].
Probab=24.79 E-value=63 Score=35.16 Aligned_cols=11 Identities=36% Similarity=0.867 Sum_probs=6.4
Q ss_pred CcCCCCHHHHH
Q 040726 33 KRGPWTPEEDE 43 (375)
Q Consensus 33 kkg~WT~EED~ 43 (375)
.+|.|.+|-+.
T Consensus 47 ~~~~~~pe~~~ 57 (578)
T PF10477_consen 47 SKGVWDPERWH 57 (578)
T ss_pred cCCccCchhhc
Confidence 56666666543
No 107
>COG5624 TAF61 Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=24.63 E-value=44 Score=34.81 Aligned_cols=12 Identities=17% Similarity=0.074 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHh
Q 040726 41 EDELLANYINKE 52 (375)
Q Consensus 41 ED~~L~~lV~k~ 52 (375)
-.+.|.+++..|
T Consensus 34 ~~~ql~~l~h~f 45 (505)
T COG5624 34 YEEQLMKLMHFF 45 (505)
T ss_pred hHHHHHHHHHHH
Confidence 344555555444
No 108
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=24.20 E-value=40 Score=37.16 Aligned_cols=7 Identities=71% Similarity=0.496 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 040726 308 QQVLQQQ 314 (375)
Q Consensus 308 qqq~qqq 314 (375)
|||||||
T Consensus 641 ~~~~~~~ 647 (657)
T PTZ00186 641 QQQQQQQ 647 (657)
T ss_pred HHHHHHH
Confidence 3333333
No 109
>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=22.63 E-value=50 Score=25.14 Aligned_cols=26 Identities=19% Similarity=0.388 Sum_probs=20.2
Q ss_pred cchhhcccCCC-CCHHHHHHHHHHhhh
Q 040726 108 RWSLIAGRIPG-RTDNEIKNYWNTHLS 133 (375)
Q Consensus 108 kW~~IA~~lpg-RT~~qcrnRW~~~L~ 133 (375)
-|..|+..|.. -+...|+.||.++..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 38899999943 577889999987553
No 110
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=22.34 E-value=1.1e+02 Score=26.53 Aligned_cols=28 Identities=14% Similarity=0.102 Sum_probs=22.2
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 104 LLGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 104 ~~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
..|-.+..||..| |.+...++.+....+
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~ 169 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRAR 169 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3466899999999 889999988876544
No 111
>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=21.98 E-value=1.4e+02 Score=19.82 Aligned_cols=40 Identities=15% Similarity=0.185 Sum_probs=26.5
Q ss_pred CChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 040726 90 IAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTH 131 (375)
Q Consensus 90 WT~EED~~Ll~lv~~~G~kW~~IA~~lpgRT~~qcrnRW~~~ 131 (375)
++++ +..++.++-..|..+..||+.+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3343 4455555555677899999998 77777776665543
No 112
>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=21.73 E-value=64 Score=25.59 Aligned_cols=29 Identities=24% Similarity=0.604 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 040726 95 EDLILRLHRLLGNRWSLIAGRIPGRTDNEI 124 (375)
Q Consensus 95 D~~Ll~lv~~~G~kW~~IA~~lpgRT~~qc 124 (375)
|..|..+.+..|..|.++|+.| |-+...|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 5568888899999999999999 5555443
No 113
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=21.28 E-value=2.9e+02 Score=24.75 Aligned_cols=69 Identities=14% Similarity=0.074 Sum_probs=38.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCccccccchhhhhhhccCCCCCCCCCChHHHHHHHHHHHHhCCcchhhcccC
Q 040726 37 WTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDLILRLHRLLGNRWSLIAGRI 116 (375)
Q Consensus 37 WT~EED~~L~~lV~k~g~~~W~~IA~~~~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~lv~~~G~kW~~IA~~l 116 (375)
||.++...|..+.+.+|..-|..+--.+ + +..+--..++. .|-.+....|..+++++|.++..+....
T Consensus 96 ~t~~d~~~l~~l~~~fg~~~~~~~ivv~-T-~~d~l~~~~~~----------~~~~~~~~~l~~l~~~c~~r~~~f~~~~ 163 (196)
T cd01852 96 FTEEEEQAVETLQELFGEKVLDHTIVLF-T-RGDDLEGGTLE----------DYLENSCEALKRLLEKCGGRYVAFNNKA 163 (196)
T ss_pred cCHHHHHHHHHHHHHhChHhHhcEEEEE-E-CccccCCCcHH----------HHHHhccHHHHHHHHHhCCeEEEEeCCC
Confidence 7877777777776777765565442222 1 11110001111 1223345679999999999886665555
Q ss_pred C
Q 040726 117 P 117 (375)
Q Consensus 117 p 117 (375)
+
T Consensus 164 ~ 164 (196)
T cd01852 164 K 164 (196)
T ss_pred C
Confidence 3
No 114
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=21.06 E-value=1.1e+02 Score=26.28 Aligned_cols=27 Identities=19% Similarity=0.145 Sum_probs=21.6
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhh
Q 040726 105 LGNRWSLIAGRIPGRTDNEIKNYWNTHL 132 (375)
Q Consensus 105 ~G~kW~~IA~~lpgRT~~qcrnRW~~~L 132 (375)
.|-.+..||..| |-+...|+.++...+
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~ 166 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRAR 166 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 456789999999 888899988876544
No 115
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=20.03 E-value=74 Score=34.92 Aligned_cols=6 Identities=17% Similarity=0.191 Sum_probs=2.4
Q ss_pred hhhhhh
Q 040726 301 AFASQH 306 (375)
Q Consensus 301 ~~~~q~ 306 (375)
++..|+
T Consensus 78 ~~lkQ~ 83 (612)
T TIGR01645 78 VLLKQT 83 (612)
T ss_pred HHhhhH
Confidence 334443
Done!