Query 037024
Match_columns 238
No_of_seqs 300 out of 1867
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 07:49:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037024.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037024hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.6E-38 3.5E-43 289.0 9.1 122 1-123 1-122 (459)
2 PLN03212 Transcription repress 100.0 2.3E-38 5E-43 270.1 8.2 124 3-127 14-137 (249)
3 KOG0048 Transcription factor, 100.0 6E-34 1.3E-38 247.1 10.0 112 9-121 4-115 (238)
4 KOG0049 Transcription factor, 99.9 2.2E-23 4.7E-28 196.1 7.3 137 12-149 303-443 (939)
5 KOG0048 Transcription factor, 99.9 2.2E-22 4.7E-27 174.8 6.1 90 64-153 5-96 (238)
6 PLN03212 Transcription repress 99.8 1.6E-21 3.5E-26 166.8 7.6 102 48-156 12-119 (249)
7 PLN03091 hypothetical protein; 99.8 5E-20 1.1E-24 168.4 7.2 88 64-151 10-99 (459)
8 KOG0049 Transcription factor, 99.8 2E-20 4.3E-25 176.3 4.2 141 8-150 247-396 (939)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.7 8.4E-18 1.8E-22 115.6 3.8 60 17-79 1-60 (60)
10 PF13921 Myb_DNA-bind_6: Myb-l 99.7 1.7E-16 3.6E-21 109.1 5.9 60 71-130 1-60 (60)
11 COG5147 REB1 Myb superfamily p 99.6 1.2E-16 2.5E-21 150.3 5.2 133 9-144 15-147 (512)
12 KOG0050 mRNA splicing protein 99.6 1.2E-16 2.7E-21 147.7 1.8 104 12-118 5-108 (617)
13 PF00249 Myb_DNA-binding: Myb- 99.5 3E-14 6.6E-19 93.7 4.1 46 68-113 1-48 (48)
14 KOG0051 RNA polymerase I termi 99.5 2.9E-14 6.3E-19 135.5 5.0 108 13-124 383-519 (607)
15 PF00249 Myb_DNA-binding: Myb- 99.4 2.4E-14 5.3E-19 94.1 0.8 48 14-62 1-48 (48)
16 KOG0051 RNA polymerase I termi 99.4 4.7E-13 1E-17 127.4 7.4 120 14-135 308-452 (607)
17 smart00717 SANT SANT SWI3, AD 99.3 5.6E-12 1.2E-16 81.5 5.1 47 68-114 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 4.8E-11 1E-15 75.9 4.9 44 70-113 1-45 (45)
19 smart00717 SANT SANT SWI3, AD 99.1 6.7E-11 1.4E-15 76.4 2.5 48 14-63 1-48 (49)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 3.3E-10 7.1E-15 72.0 2.2 45 16-62 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.9 1.4E-09 3E-14 102.9 3.9 87 65-151 17-104 (512)
22 KOG0050 mRNA splicing protein 98.8 3.6E-09 7.7E-14 98.7 3.9 81 66-146 5-86 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.9 1E-05 2.2E-10 55.1 2.7 49 13-62 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.7 1.2E-05 2.5E-10 74.3 1.7 51 11-63 69-119 (438)
25 KOG0457 Histone acetyltransfer 97.7 3.7E-05 8E-10 71.1 4.9 49 65-113 69-118 (438)
26 TIGR01557 myb_SHAQKYF myb-like 97.7 0.00011 2.3E-09 50.1 5.0 47 68-114 3-55 (57)
27 TIGR02894 DNA_bind_RsfA transc 97.6 4.7E-05 1E-09 61.9 2.9 51 67-118 3-60 (161)
28 COG5259 RSC8 RSC chromatin rem 97.5 4.4E-05 9.6E-10 71.1 1.6 46 13-61 278-323 (531)
29 PF13325 MCRS_N: N-terminal re 97.3 0.0005 1.1E-08 58.1 5.3 97 16-115 1-128 (199)
30 KOG1279 Chromatin remodeling f 97.3 0.00015 3.3E-09 69.1 2.4 48 11-61 250-297 (506)
31 PF08914 Myb_DNA-bind_2: Rap1 97.2 0.0004 8.7E-09 48.5 3.6 50 68-117 2-61 (65)
32 COG5259 RSC8 RSC chromatin rem 97.1 0.00043 9.2E-09 64.7 3.9 46 67-112 278-323 (531)
33 KOG1279 Chromatin remodeling f 97.1 0.0007 1.5E-08 64.7 4.7 46 67-112 252-297 (506)
34 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00033 7.1E-09 51.1 1.8 51 68-118 1-69 (90)
35 PF08914 Myb_DNA-bind_2: Rap1 96.7 0.00044 9.5E-09 48.3 0.3 53 14-66 2-61 (65)
36 PRK13923 putative spore coat p 96.7 0.0011 2.3E-08 54.7 2.5 51 66-117 3-60 (170)
37 TIGR02894 DNA_bind_RsfA transc 96.6 0.00044 9.6E-09 56.3 -0.2 50 12-63 2-56 (161)
38 COG5114 Histone acetyltransfer 96.0 0.0054 1.2E-07 55.0 3.0 47 68-114 63-110 (432)
39 PF13837 Myb_DNA-bind_4: Myb/S 95.9 0.0014 3E-08 47.8 -0.8 49 14-62 1-64 (90)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.01 2.3E-07 42.2 3.4 48 68-115 2-71 (78)
41 COG5114 Histone acetyltransfer 95.7 0.0029 6.2E-08 56.8 0.1 49 13-63 62-110 (432)
42 PLN03142 Probable chromatin-re 95.3 0.036 7.8E-07 57.6 6.5 99 16-116 826-987 (1033)
43 PRK13923 putative spore coat p 95.2 0.0036 7.9E-08 51.6 -0.9 50 12-63 3-57 (170)
44 KOG2656 DNA methyltransferase 94.1 0.069 1.5E-06 49.2 4.4 52 68-119 130-187 (445)
45 PF13873 Myb_DNA-bind_5: Myb/S 94.1 0.014 3E-07 41.5 -0.0 49 14-62 2-69 (78)
46 PF09111 SLIDE: SLIDE; InterP 93.7 0.08 1.7E-06 41.3 3.5 51 65-115 46-112 (118)
47 COG5118 BDP1 Transcription ini 92.4 0.17 3.6E-06 46.7 4.1 46 69-114 366-411 (507)
48 KOG4282 Transcription factor G 90.8 0.3 6.5E-06 44.6 4.1 50 68-117 54-117 (345)
49 PF12776 Myb_DNA-bind_3: Myb/S 90.6 0.41 8.8E-06 35.0 4.0 46 70-115 1-64 (96)
50 COG5118 BDP1 Transcription ini 86.8 0.37 8.1E-06 44.4 1.8 46 13-61 364-409 (507)
51 PF13325 MCRS_N: N-terminal re 86.8 2.5 5.4E-05 35.9 6.6 67 70-137 1-91 (199)
52 PF11626 Rap1_C: TRF2-interact 83.4 1.2 2.5E-05 32.6 2.8 25 10-34 43-75 (87)
53 KOG1194 Predicted DNA-binding 83.0 1.8 3.9E-05 41.0 4.4 48 67-114 186-233 (534)
54 PF08281 Sigma70_r4_2: Sigma-7 82.2 2.2 4.9E-05 27.6 3.6 41 73-114 12-52 (54)
55 PF09111 SLIDE: SLIDE; InterP 81.9 1 2.2E-05 35.0 2.1 36 10-45 45-82 (118)
56 KOG4282 Transcription factor G 80.9 1.4 2.9E-05 40.3 2.8 49 14-62 54-113 (345)
57 PF13404 HTH_AsnC-type: AsnC-t 76.6 3.6 7.7E-05 25.9 3.0 38 74-112 3-41 (42)
58 KOG4167 Predicted DNA-binding 73.9 4.2 9.1E-05 40.8 4.1 45 68-112 619-663 (907)
59 PF11626 Rap1_C: TRF2-interact 72.9 3.4 7.5E-05 30.1 2.6 17 64-80 43-59 (87)
60 PRK11179 DNA-binding transcrip 72.9 4.4 9.6E-05 32.4 3.5 45 74-119 9-54 (153)
61 KOG4468 Polycomb-group transcr 70.7 5.8 0.00013 38.9 4.2 51 68-118 88-148 (782)
62 KOG2656 DNA methyltransferase 68.1 4.1 8.9E-05 37.9 2.5 50 11-62 127-181 (445)
63 PRK11169 leucine-responsive tr 66.8 5.9 0.00013 32.2 3.0 46 73-119 13-59 (164)
64 smart00595 MADF subfamily of S 64.5 4.3 9.3E-05 29.1 1.6 26 89-115 29-54 (89)
65 KOG4167 Predicted DNA-binding 63.3 4 8.6E-05 40.9 1.5 43 14-59 619-661 (907)
66 PF01388 ARID: ARID/BRIGHT DNA 62.5 11 0.00025 27.2 3.6 38 78-115 40-90 (92)
67 PF13404 HTH_AsnC-type: AsnC-t 62.4 2.7 5.8E-05 26.5 0.1 38 20-60 3-40 (42)
68 PF04545 Sigma70_r4: Sigma-70, 61.6 12 0.00026 23.8 3.2 41 74-115 7-47 (50)
69 KOG2009 Transcription initiati 61.3 12 0.00025 36.8 4.3 46 67-112 408-453 (584)
70 smart00501 BRIGHT BRIGHT, ARID 56.8 16 0.00034 26.7 3.5 39 78-116 36-87 (93)
71 PF07750 GcrA: GcrA cell cycle 54.3 12 0.00025 30.7 2.6 41 70-111 2-42 (162)
72 PF09420 Nop16: Ribosome bioge 51.4 34 0.00074 27.8 5.0 47 67-113 113-163 (164)
73 KOG0384 Chromodomain-helicase 48.1 16 0.00034 39.0 2.9 77 13-97 1132-1209(1373)
74 PRK11179 DNA-binding transcrip 47.4 7.6 0.00016 31.1 0.5 44 20-66 9-52 (153)
75 TIGR02985 Sig70_bacteroi1 RNA 47.4 27 0.00058 27.0 3.7 36 79-115 121-156 (161)
76 cd08319 Death_RAIDD Death doma 46.6 20 0.00043 26.0 2.6 29 76-105 2-30 (83)
77 KOG1194 Predicted DNA-binding 45.4 14 0.00031 35.1 2.0 45 12-59 185-229 (534)
78 PF11035 SnAPC_2_like: Small n 43.4 62 0.0013 29.5 5.6 45 68-112 21-69 (344)
79 PF07750 GcrA: GcrA cell cycle 42.0 16 0.00034 30.0 1.6 40 16-59 2-41 (162)
80 smart00344 HTH_ASNC helix_turn 41.9 40 0.00087 24.8 3.7 45 74-119 3-48 (108)
81 PRK11169 leucine-responsive tr 41.6 7.7 0.00017 31.4 -0.3 45 19-66 13-57 (164)
82 KOG4329 DNA-binding protein [G 41.4 43 0.00093 31.2 4.4 44 69-112 278-322 (445)
83 cd08803 Death_ank3 Death domai 39.9 34 0.00074 24.8 2.9 30 76-106 4-33 (84)
84 PLN03142 Probable chromatin-re 39.6 15 0.00032 38.8 1.3 33 12-45 924-956 (1033)
85 PF10545 MADF_DNA_bdg: Alcohol 39.5 17 0.00038 25.1 1.3 27 89-115 28-55 (85)
86 KOG2009 Transcription initiati 38.4 29 0.00064 34.1 3.0 49 9-60 404-452 (584)
87 COG1522 Lrp Transcriptional re 37.7 40 0.00086 26.4 3.3 46 74-120 8-54 (154)
88 KOG4468 Polycomb-group transcr 36.6 17 0.00037 35.8 1.1 48 13-63 87-144 (782)
89 PF07638 Sigma70_ECF: ECF sigm 36.3 45 0.00099 27.3 3.5 37 76-113 140-176 (185)
90 cd08779 Death_PIDD Death Domai 35.5 54 0.0012 23.7 3.4 21 77-97 3-23 (86)
91 cd08317 Death_ank Death domain 33.2 35 0.00075 24.4 2.1 29 76-105 4-32 (84)
92 PF09905 DUF2132: Uncharacteri 33.1 35 0.00076 23.6 1.9 23 76-100 12-34 (64)
93 PF09420 Nop16: Ribosome bioge 33.0 34 0.00073 27.9 2.2 46 12-59 112-160 (164)
94 TIGR02937 sigma70-ECF RNA poly 32.9 53 0.0012 24.6 3.3 30 85-115 124-153 (158)
95 PRK09645 RNA polymerase sigma 32.8 70 0.0015 25.4 4.0 27 86-113 133-159 (173)
96 PF04504 DUF573: Protein of un 31.3 1.1E+02 0.0023 22.8 4.5 18 69-86 5-22 (98)
97 PRK09413 IS2 repressor TnpA; R 31.3 1.1E+02 0.0024 23.3 4.8 45 13-62 9-53 (121)
98 PF11035 SnAPC_2_like: Small n 31.2 89 0.0019 28.5 4.7 86 14-113 21-126 (344)
99 PF02954 HTH_8: Bacterial regu 30.3 73 0.0016 19.5 3.0 34 74-108 5-38 (42)
100 COG2197 CitB Response regulato 30.2 51 0.0011 27.8 2.9 45 69-116 147-191 (211)
101 PF10440 WIYLD: Ubiquitin-bind 29.4 37 0.00079 23.6 1.5 18 78-95 31-48 (65)
102 cd08804 Death_ank2 Death domai 28.4 54 0.0012 23.6 2.4 31 76-107 4-34 (84)
103 PRK04217 hypothetical protein; 28.0 84 0.0018 24.1 3.5 43 70-114 42-84 (110)
104 PRK09652 RNA polymerase sigma 27.8 74 0.0016 25.0 3.4 29 85-114 142-170 (182)
105 cd08318 Death_NMPP84 Death dom 27.3 60 0.0013 23.4 2.5 24 81-105 12-35 (86)
106 cd06171 Sigma70_r4 Sigma70, re 26.7 1.1E+02 0.0023 18.4 3.4 39 71-111 11-49 (55)
107 PF13936 HTH_38: Helix-turn-he 26.5 53 0.0011 20.5 1.8 36 70-107 4-39 (44)
108 PLN03162 golden-2 like transcr 25.7 4.2E+02 0.009 25.0 8.0 45 69-113 238-287 (526)
109 PRK11924 RNA polymerase sigma 25.4 84 0.0018 24.6 3.3 27 86-113 140-166 (179)
110 cd08805 Death_ank1 Death domai 25.3 65 0.0014 23.4 2.3 26 76-102 4-29 (84)
111 COG1168 MalY Bifunctional PLP- 25.1 97 0.0021 29.0 3.9 28 7-34 165-192 (388)
112 smart00005 DEATH DEATH domain, 24.4 74 0.0016 22.4 2.5 30 75-105 4-34 (88)
113 PRK09643 RNA polymerase sigma 24.1 97 0.0021 25.3 3.5 27 86-113 149-175 (192)
114 cd08311 Death_p75NR Death doma 24.0 66 0.0014 22.9 2.1 33 73-107 2-34 (77)
115 cd08777 Death_RIP1 Death Domai 23.9 65 0.0014 23.4 2.1 30 77-107 3-32 (86)
116 PRK09641 RNA polymerase sigma 23.0 1E+02 0.0022 24.7 3.3 28 86-114 151-178 (187)
117 PF00196 GerE: Bacterial regul 22.8 56 0.0012 21.3 1.5 43 70-115 3-45 (58)
118 KOG4329 DNA-binding protein [G 21.5 67 0.0015 30.0 2.1 41 16-59 279-320 (445)
119 PRK09047 RNA polymerase factor 21.5 1.3E+02 0.0028 23.3 3.6 28 86-114 121-148 (161)
120 TIGR02954 Sig70_famx3 RNA poly 21.4 1.1E+02 0.0025 24.0 3.3 28 86-114 134-161 (169)
121 PRK09637 RNA polymerase sigma 21.3 1.2E+02 0.0026 24.6 3.5 28 86-114 121-148 (181)
122 TIGR02939 RpoE_Sigma70 RNA pol 20.9 93 0.002 24.9 2.7 28 87-115 154-181 (190)
123 PRK12515 RNA polymerase sigma 20.7 1.3E+02 0.0028 24.3 3.6 28 86-114 146-173 (189)
124 PRK09648 RNA polymerase sigma 20.7 1.3E+02 0.0028 24.2 3.6 28 86-114 154-181 (189)
125 PRK12523 RNA polymerase sigma 20.6 1.3E+02 0.0029 23.8 3.6 30 85-115 133-162 (172)
126 TIGR02948 SigW_bacill RNA poly 20.5 1.1E+02 0.0024 24.4 3.1 27 87-114 152-178 (187)
127 COG1522 Lrp Transcriptional re 20.2 39 0.00084 26.4 0.3 44 20-66 8-51 (154)
128 PRK11923 algU RNA polymerase s 20.1 1.2E+02 0.0026 24.5 3.2 27 87-114 154-180 (193)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.6e-38 Score=288.99 Aligned_cols=122 Identities=52% Similarity=1.087 Sum_probs=116.4
Q ss_pred CCCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHH
Q 037024 1 MGRAPCCDKANVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIIC 80 (238)
Q Consensus 1 mg~~~~~~k~~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~ 80 (238)
|||+|||+|+.++|++||+|||++|+++|.+||. .+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|+
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~-~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLL 79 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGH-GCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLII 79 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCc-CCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHH
Confidence 9999999999999999999999999999999998 699999999977999999999999999999999999999999999
Q ss_pred HHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCC
Q 037024 81 NLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLS 123 (238)
Q Consensus 81 ~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t 123 (238)
+++.+||++|..||+.|||||+++||+||+.++++.++.....
T Consensus 80 eL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~ 122 (459)
T PLN03091 80 ELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGID 122 (459)
T ss_pred HHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCC
Confidence 9999999999999999999999999999999999877643333
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.3e-38 Score=270.11 Aligned_cols=124 Identities=54% Similarity=1.144 Sum_probs=117.0
Q ss_pred CCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHH
Q 037024 3 RAPCCDKANVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNL 82 (238)
Q Consensus 3 ~~~~~~k~~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~ 82 (238)
++|||+|+++++++||+|||++|+++|++||. .+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|+++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~-~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGE-GRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCc-ccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 57999999999999999999999999999998 69999999997799999999999999999999999999999999999
Q ss_pred HHhhCCchhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHh
Q 037024 83 YCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQ 127 (238)
Q Consensus 83 v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed 127 (238)
+..||++|..||+.|||||+++||+||+.++++.+.+....+++.
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~ 137 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTH 137 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCC
Confidence 999999999999999999999999999999999887766665543
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=6e-34 Score=247.11 Aligned_cols=112 Identities=55% Similarity=1.015 Sum_probs=106.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 037024 9 KANVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTMGS 88 (238)
Q Consensus 9 k~~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~G~ 88 (238)
|+.+.||+||+|||++|+++|.+||. ++|..||+.+|++|++++||.||.|||+|++++|.||+|||.+|++++..+|+
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~-~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGK-HNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCC-CCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 34456899999999999999999999 79999999999999999999999999999999999999999999999999999
Q ss_pred chhhhcccCCCCCHHHHHHHHHHhhchhhhcCC
Q 037024 89 RWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGK 121 (238)
Q Consensus 89 ~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~ 121 (238)
+|+.||++|||||++.|||+|+..+++++....
T Consensus 83 rWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 83 RWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999998877543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.88 E-value=2.2e-23 Score=196.06 Aligned_cols=137 Identities=18% Similarity=0.321 Sum_probs=126.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHh--CCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhhCC-
Q 037024 12 VKRGPWSAEEDSILKNYLEQF--GNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTMGS- 88 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~--g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~G~- 88 (238)
+++..||.|||.+|+++|++. |...+|.+|-.+|+ ||+..|...||.+.|+|++++|+||.+||.+|+.+|.+||.
T Consensus 303 L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ymp-gr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~k 381 (939)
T KOG0049|consen 303 LSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMP-GRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAK 381 (939)
T ss_pred HHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcC-CcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCcc
Confidence 566889999999999999988 44479999999998 99999999999999999999999999999999999999995
Q ss_pred chhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCC-cccccccCC
Q 037024 89 RWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNS-SYYLSADSA 149 (238)
Q Consensus 89 ~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~-~~~i~~~~~ 149 (238)
.|.+|...+|||+..|||.||.+.|....+.+.|+-.||..|+.++.+||.. |..++..++
T Consensus 382 dw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp 443 (939)
T KOG0049|consen 382 DWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLP 443 (939)
T ss_pred chhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHHHHHcc
Confidence 6999999999999999999999999999999999999999999999999976 655555444
No 5
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.86 E-value=2.2e-22 Score=174.75 Aligned_cols=90 Identities=17% Similarity=0.276 Sum_probs=84.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhC-CchhhhcccCC-CCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCCc
Q 037024 64 PDIKHGGFTKEEDTIICNLYCTMG-SRWSVIASQLP-GRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNSS 141 (238)
Q Consensus 64 p~i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~-gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~~ 141 (238)
|.+.+|+||+|||++|+++|++|| .+|..||+.++ +|++++||.||.+||+|.+++|.||++|+..|+++|..+|++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 345579999999999999999999 56999999999 9999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCcc
Q 037024 142 YYLSADSAAGMI 153 (238)
Q Consensus 142 ~~i~~~~~~~~~ 153 (238)
+.|+..+++++-
T Consensus 85 s~IA~~LPGRTD 96 (238)
T KOG0048|consen 85 SLIAGRLPGRTD 96 (238)
T ss_pred HHHHhhCCCcCH
Confidence 999888777663
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.85 E-value=1.6e-21 Score=166.85 Aligned_cols=102 Identities=18% Similarity=0.315 Sum_probs=88.7
Q ss_pred CCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhhC-CchhhhcccC-CCCCHHHHHHHHHHhhchhhhcCCCChH
Q 037024 48 NRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTMG-SRWSVIASQL-PGRTDNDVKNYWNTKLKKNVLAGKLSDN 125 (238)
Q Consensus 48 ~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l-~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ 125 (238)
.|+..-|. .+.+++++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|+|.+++++||.+
T Consensus 12 ~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~E 84 (249)
T PLN03212 12 KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSD 84 (249)
T ss_pred CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChH
Confidence 56555453 3578999999999999999999999 6899999988 5999999999999999999999999999
Q ss_pred HhHHHHhhhHHhCCCcccccccCCC----CcccCC
Q 037024 126 TQVSVSTIPEEFGNSSYYLSADSAA----GMIFDP 156 (238)
Q Consensus 126 ed~~l~~~~~~~g~~~~~i~~~~~~----~~~~~~ 156 (238)
||..|++++..||++|..|+...++ .++++|
T Consensus 85 ED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRW 119 (249)
T PLN03212 85 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYW 119 (249)
T ss_pred HHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHH
Confidence 9999999999999999888665554 444554
No 7
>PLN03091 hypothetical protein; Provisional
Probab=99.80 E-value=5e-20 Score=168.38 Aligned_cols=88 Identities=18% Similarity=0.325 Sum_probs=81.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhC-CchhhhcccCC-CCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCCc
Q 037024 64 PDIKHGGFTKEEDTIICNLYCTMG-SRWSVIASQLP-GRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNSS 141 (238)
Q Consensus 64 p~i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~-gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~~ 141 (238)
+.+++++||+|||++|+++|.+|| .+|..||+.++ +|+++|||.||.++|+|.+++++||++||..|++++..||++|
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKW 89 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRW 89 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcch
Confidence 578999999999999999999999 57999999884 9999999999999999999999999999999999999999999
Q ss_pred ccccccCCCC
Q 037024 142 YYLSADSAAG 151 (238)
Q Consensus 142 ~~i~~~~~~~ 151 (238)
..|+...+++
T Consensus 90 skIAk~LPGR 99 (459)
T PLN03091 90 SQIAAQLPGR 99 (459)
T ss_pred HHHHHhcCCC
Confidence 8886555443
No 8
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.80 E-value=2e-20 Score=176.26 Aligned_cols=141 Identities=21% Similarity=0.362 Sum_probs=127.9
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhhC
Q 037024 8 DKANVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTMG 87 (238)
Q Consensus 8 ~k~~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~G 87 (238)
..|.++|..|++|||++|+.+...+|. .+|..||..++++|+..||..||...+. .+....||+|||.+|+.+|....
T Consensus 247 l~P~~nk~~WS~EE~E~L~AiA~A~~~-~~W~~IA~~Lgt~RS~yQC~~kF~t~~~-~L~ekeWsEEed~kL~alV~~~~ 324 (939)
T KOG0049|consen 247 LNPKWNKEHWSNEEVEKLKALAEAPKF-VSWPMIALNLGTNRSSYQCMEKFKTEVS-QLSEKEWSEEEDTKLIALVKITS 324 (939)
T ss_pred cCCccchhccChHHHHHHHHHHhcccc-ccHHHHHHHhCCCcchHHHHHHHHHHHH-HHHhhhcchhhhHHHHHHHHHhh
Confidence 469999999999999999999999998 7999999999988999999999998876 45668999999999999999875
Q ss_pred ----CchhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCCccc-----ccccCCC
Q 037024 88 ----SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNSSYY-----LSADSAA 150 (238)
Q Consensus 88 ----~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~~~~-----i~~~~~~ 150 (238)
-.|.+|-.+||||+..|+--||...|.|.+++|.|+++||.+|..+|++||.+.+. ++++++.
T Consensus 325 ~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSds 396 (939)
T KOG0049|consen 325 INSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDS 396 (939)
T ss_pred ccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHH
Confidence 36999999999999999999999999999999999999999999999999988433 3555554
No 9
>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=99.70 E-value=8.4e-18 Score=115.58 Aligned_cols=60 Identities=45% Similarity=0.925 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHH
Q 037024 17 WSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTII 79 (238)
Q Consensus 17 WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L 79 (238)
||+|||++|+++|..||. +|..||+.|+ +||+.||+.||.++|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~--~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN--DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS---HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc--CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999996 9999999997 89999999999999999999999999999987
No 10
>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=99.66 E-value=1.7e-16 Score=109.08 Aligned_cols=60 Identities=28% Similarity=0.564 Sum_probs=54.6
Q ss_pred CCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHhHHH
Q 037024 71 FTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSV 130 (238)
Q Consensus 71 WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l 130 (238)
||++||++|+++|..||++|..||..|+.||+.+|++||+++|++.+.+++||++|+..|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999999999999999669999999999999999999999999999865
No 11
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.64 E-value=1.2e-16 Score=150.33 Aligned_cols=133 Identities=25% Similarity=0.381 Sum_probs=114.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhhCC
Q 037024 9 KANVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTMGS 88 (238)
Q Consensus 9 k~~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~G~ 88 (238)
....+.|.|+..||+.|..+|+.||. .+|..||..+. .|+++||+.||.++++|.+++..|+.+||..|+.+..++|.
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~-nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGP-NNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhccc-ccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 34568899999999999999999999 69999999998 69999999999999999999999999999999999999999
Q ss_pred chhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCCcccc
Q 037024 89 RWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNSSYYL 144 (238)
Q Consensus 89 ~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~~~~i 144 (238)
.|+.||..+++||+.+|.+||...+..... ..|+..........+..|+..+...
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~d~f~~~~~~~ 147 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKIDPFNENSARR 147 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc-cccccccchhhccccCchhhhhhhh
Confidence 999999999999999999999999988766 4555555444444445555544433
No 12
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.61 E-value=1.2e-16 Score=147.69 Aligned_cols=104 Identities=28% Similarity=0.592 Sum_probs=98.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhhCCchh
Q 037024 12 VKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTMGSRWS 91 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~G~~W~ 91 (238)
++.|.|+.-||++|..+|.+||. ..|..|++.+. -.+++||+.||..+|+|.|++..|+.+||++|+.+...+...|.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~-nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGK-NQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EecceecccHHHHHHHHHHHcch-HHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 57789999999999999999999 69999999998 88999999999999999999999999999999999999999999
Q ss_pred hhcccCCCCCHHHHHHHHHHhhchhhh
Q 037024 92 VIASQLPGRTDNDVKNYWNTKLKKNVL 118 (238)
Q Consensus 92 ~Ia~~l~gRt~~~cr~Rw~~~l~~~~~ 118 (238)
.|+..| ||+++||-.||++++-..+.
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s 108 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVS 108 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHh
Confidence 999999 99999999999988765443
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=99.48 E-value=3e-14 Score=93.68 Aligned_cols=46 Identities=30% Similarity=0.589 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHhhCCc-hhhhcccCC-CCCHHHHHHHHHHhh
Q 037024 68 HGGFTKEEDTIICNLYCTMGSR-WSVIASQLP-GRTDNDVKNYWNTKL 113 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G~~-W~~Ia~~l~-gRt~~~cr~Rw~~~l 113 (238)
|++||++||++|+++|.+||.. |..||..|| +||+.||++||++++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999987 999999999 999999999999875
No 14
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.47 E-value=2.9e-14 Score=135.54 Aligned_cols=108 Identities=25% Similarity=0.517 Sum_probs=95.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCC--CCCCCCCHHHHHHHHHHHH------
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPD--IKHGGFTKEEDTIICNLYC------ 84 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~--i~k~~WT~eED~~L~~~v~------ 84 (238)
.+|.||+||++.|..+|..+|. .|..|++.|+ |.+..|++||+++..++ .++++||.||.++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~--~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~ 458 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN--DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREA 458 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc--cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHh
Confidence 8999999999999999999997 9999999996 99999999999999987 4999999999999999995
Q ss_pred -hh-------------------CCchhhhcccCCCCCHHHHHHHHHHhhchhhh-cCCCCh
Q 037024 85 -TM-------------------GSRWSVIASQLPGRTDNDVKNYWNTKLKKNVL-AGKLSD 124 (238)
Q Consensus 85 -~~-------------------G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~-~~~~t~ 124 (238)
.+ +-.|..|++.+..|+..|||.+|+.++..... .+.+..
T Consensus 459 ~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~ 519 (607)
T KOG0051|consen 459 LQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESK 519 (607)
T ss_pred hcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccc
Confidence 23 12599999988999999999999988776544 445544
No 15
>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=99.43 E-value=2.4e-14 Score=94.15 Aligned_cols=48 Identities=40% Similarity=0.817 Sum_probs=42.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhcccc
Q 037024 14 RGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L 62 (238)
|++||+|||++|+++|.+||. .+|..||..|+.+||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~-~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK-DNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT-THHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCC-cHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999998 359999999988999999999999875
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.40 E-value=4.7e-13 Score=127.38 Aligned_cols=120 Identities=25% Similarity=0.317 Sum_probs=101.7
Q ss_pred CCCCCHHHHHHHHHHHHHh----CCC----------C--------CceecccccCCCCCcchhhhhhccccCCCC-CCCC
Q 037024 14 RGPWSAEEDSILKNYLEQF----GNG----------G--------NWIALPKKAGLNRCGKSCRLRWLNYLRPDI-KHGG 70 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~----g~~----------~--------~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i-~k~~ 70 (238)
-+.|+++||++|.+.|..| |-. . -|..|...++ .|+...++..-++...|-- .+|.
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 LKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKRGK 386 (607)
T ss_pred hhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCccccccCC
Confidence 3889999999999999988 210 1 2467777787 6999888773333333322 9999
Q ss_pred CCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhchhh--hcCCCChHHhHHHHhhhH
Q 037024 71 FTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKKNV--LAGKLSDNTQVSVSTIPE 135 (238)
Q Consensus 71 WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~--~~~~~t~~ed~~l~~~~~ 135 (238)
||++|++.|..+|.++|+.|..|+..| ||.+..|++||.++.+..- +++.||.+|...|+++|+
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-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred CCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHH
Confidence 999999999999999999999999999 9999999999999999884 799999999999999996
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.28 E-value=5.6e-12 Score=81.53 Aligned_cols=47 Identities=40% Similarity=0.794 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 68 HGGFTKEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
+++||++||.+|+.++..|| .+|..||..||+||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998765
No 18
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.16 E-value=4.8e-11 Score=75.87 Aligned_cols=44 Identities=34% Similarity=0.690 Sum_probs=41.8
Q ss_pred CCCHHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhh
Q 037024 70 GFTKEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
+||++||..|+.++..+| .+|..||..+++||+.+|++||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998763
No 19
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.07 E-value=6.7e-11 Score=76.38 Aligned_cols=48 Identities=35% Similarity=0.871 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccC
Q 037024 14 RGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLR 63 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~ 63 (238)
+++||++||++|+.++..||. .+|..||..++ +||+.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~-~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGK-NNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-CCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 468999999999999999995 49999999998 9999999999998764
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=98.96 E-value=3.3e-10 Score=71.96 Aligned_cols=45 Identities=40% Similarity=0.889 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhcccc
Q 037024 16 PWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L 62 (238)
+||++||++|+.++..||. .+|..||..++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~-~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK-NNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc-CCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 5999999999999999996 59999999998 899999999998753
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.87 E-value=1.4e-09 Score=102.93 Aligned_cols=87 Identities=22% Similarity=0.351 Sum_probs=80.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCCccc
Q 037024 65 DIKHGGFTKEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNSSYY 143 (238)
Q Consensus 65 ~i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~~~~ 143 (238)
.++.|.|+..||+.|..+|+.|| ++|+.||..|.-|++++|++||++++.+.++.+.|+.+|+..|+.+..++|+.|..
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wst 96 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhh
Confidence 45778999999999999999999 67999999998899999999999999999999999999999999999999999988
Q ss_pred ccccCCCC
Q 037024 144 LSADSAAG 151 (238)
Q Consensus 144 i~~~~~~~ 151 (238)
|+.-.+..
T Consensus 97 ia~~~d~r 104 (512)
T COG5147 97 IADYKDRR 104 (512)
T ss_pred hccccCcc
Confidence 87766643
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.79 E-value=3.6e-09 Score=98.73 Aligned_cols=81 Identities=21% Similarity=0.289 Sum_probs=76.2
Q ss_pred CCCCCCCHHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhchhhhcCCCChHHhHHHHhhhHHhCCCcccc
Q 037024 66 IKHGGFTKEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAGKLSDNTQVSVSTIPEEFGNSSYYL 144 (238)
Q Consensus 66 i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~~~t~~ed~~l~~~~~~~g~~~~~i 144 (238)
++.|.|+.-||+.|-..|.+|| +.|+.|+..++-.|+.||++||..++.|.+++..|+.+||..|+.+...+...|..|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtI 84 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTI 84 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchH
Confidence 5678999999999999999999 679999999999999999999999999999999999999999999999999998877
Q ss_pred cc
Q 037024 145 SA 146 (238)
Q Consensus 145 ~~ 146 (238)
+.
T Consensus 85 a~ 86 (617)
T KOG0050|consen 85 AD 86 (617)
T ss_pred HH
Confidence 53
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=97.87 E-value=1e-05 Score=55.09 Aligned_cols=49 Identities=10% Similarity=0.256 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCc---eecccccCCCC-Ccchhhhhhcccc
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNW---IALPKKAGLNR-CGKSCRLRWLNYL 62 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W---~~Ia~~~~~~R-t~~qcr~Rw~~~L 62 (238)
++-.||+||..+++++|+.+|. ++| ..|++.|...| |..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~-g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGG-PDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCC-CcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4567999999999999999997 699 99999887566 9999999887653
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.74 E-value=1.2e-05 Score=74.34 Aligned_cols=51 Identities=24% Similarity=0.604 Sum_probs=46.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccC
Q 037024 11 NVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLR 63 (238)
Q Consensus 11 ~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~ 63 (238)
.+-...||++|+-+|++++..||. +||..||.+|| .|+..+|+++|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~-GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGF-GNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCC-CcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 445677999999999999999999 79999999999 9999999999988763
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.74 E-value=3.7e-05 Score=71.09 Aligned_cols=49 Identities=20% Similarity=0.392 Sum_probs=44.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhh
Q 037024 65 DIKHGGFTKEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 65 ~i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
.+-...||.+|+.+|++++..|| ++|..||.+++.|+..+|+.+|.+++
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 34566899999999999999999 99999999999999999999998654
No 26
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.66 E-value=0.00011 Score=50.05 Aligned_cols=47 Identities=13% Similarity=0.136 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHhhCC-ch---hhhcccCC-CC-CHHHHHHHHHHhhc
Q 037024 68 HGGFTKEEDTIICNLYCTMGS-RW---SVIASQLP-GR-TDNDVKNYWNTKLK 114 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G~-~W---~~Ia~~l~-gR-t~~~cr~Rw~~~l~ 114 (238)
+-.||+||...+++++..+|. +| ..|+..|. .| |..||+.+...|.-
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 457999999999999999995 99 99999884 45 99999999987653
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=97.59 E-value=4.7e-05 Score=61.87 Aligned_cols=51 Identities=24% Similarity=0.409 Sum_probs=44.8
Q ss_pred CCCCCCHHHHHHHHHHHHhh---CC----chhhhcccCCCCCHHHHHHHHHHhhchhhh
Q 037024 67 KHGGFTKEEDTIICNLYCTM---GS----RWSVIASQLPGRTDNDVKNYWNTKLKKNVL 118 (238)
Q Consensus 67 ~k~~WT~eED~~L~~~v~~~---G~----~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~ 118 (238)
+...||.|||.+|.+.|-.| |+ -...++..| +||+.+|.=||+.++++...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 56789999999999999887 42 389999999 99999999999999998653
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.48 E-value=4.4e-05 Score=71.08 Aligned_cols=46 Identities=24% Similarity=0.621 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccc
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNY 61 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~ 61 (238)
....||.+|..+|++.|+.||. +|.+||.+++ +|+..||..|+.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD--dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD--DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh--hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5568999999999999999997 9999999999 99999999999865
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.26 E-value=0.0005 Score=58.12 Aligned_cols=97 Identities=20% Similarity=0.325 Sum_probs=68.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccccC--CCCCcchhhhhhccccC-CC--------------------CCCCCCC
Q 037024 16 PWSAEEDSILKNYLEQFGNGGNWIALPKKAG--LNRCGKSCRLRWLNYLR-PD--------------------IKHGGFT 72 (238)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~--~~Rt~~qcr~Rw~~~L~-p~--------------------i~k~~WT 72 (238)
+|++++|-+|+.+|..-. +-..|+.-+. ..-|...+.+||...|. |. ..+.+||
T Consensus 1 rW~~~DDl~Li~av~~~~---~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS 77 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN---DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFS 77 (199)
T ss_pred CCCchhhHHHHHHHHHhc---CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCC
Confidence 599999999999999742 4444544332 34577788899988763 22 1456899
Q ss_pred HHHHHHHHHHHHhhCC---chhhhcc-----cCCCCCHHHHHHHHHHhhch
Q 037024 73 KEEDTIICNLYCTMGS---RWSVIAS-----QLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 73 ~eED~~L~~~v~~~G~---~W~~Ia~-----~l~gRt~~~cr~Rw~~~l~~ 115 (238)
.+|+++|........+ .+.+|=. +-++||++++.++|..+.+.
T Consensus 78 ~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy 128 (199)
T PF13325_consen 78 KEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQY 128 (199)
T ss_pred HHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHh
Confidence 9999999997765543 3555432 23689999999999855443
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.26 E-value=0.00015 Score=69.14 Aligned_cols=48 Identities=23% Similarity=0.652 Sum_probs=44.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccc
Q 037024 11 NVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNY 61 (238)
Q Consensus 11 ~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~ 61 (238)
..-+..||.+|+-+|+++|+.||. +|.+||.+++ +||..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d--dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD--DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc--cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 445778999999999999999998 9999999999 99999999998765
No 31
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.21 E-value=0.0004 Score=48.47 Aligned_cols=50 Identities=16% Similarity=0.312 Sum_probs=32.9
Q ss_pred CCCCCHHHHHHHHHHHHhhC--------Cc-hhhhcccCC-CCCHHHHHHHHHHhhchhh
Q 037024 68 HGGFTKEEDTIICNLYCTMG--------SR-WSVIASQLP-GRTDNDVKNYWNTKLKKNV 117 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G--------~~-W~~Ia~~l~-gRt~~~cr~Rw~~~l~~~~ 117 (238)
+.+||.+||..|++.|..+. +. |..++..-| .+|-.+.|+||...|++..
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 45899999999999996542 22 999999888 9999999999998887653
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.13 E-value=0.00043 Score=64.69 Aligned_cols=46 Identities=11% Similarity=0.222 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHh
Q 037024 67 KHGGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 67 ~k~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~ 112 (238)
....||.+|..+|++.|..||..|.+||.+++.||..||-.||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 3458999999999999999999999999999999999999999754
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.06 E-value=0.0007 Score=64.70 Aligned_cols=46 Identities=11% Similarity=0.249 Sum_probs=42.9
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHh
Q 037024 67 KHGGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 67 ~k~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~ 112 (238)
-+..||.+|..+|++.|..||..|.+||.++.+||..||-.++..+
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 4568999999999999999999999999999999999999999755
No 34
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.04 E-value=0.00033 Score=51.14 Aligned_cols=51 Identities=27% Similarity=0.470 Sum_probs=36.0
Q ss_pred CCCCCHHHHHHHHHHHHh------hC--C------chhhhcccC----CCCCHHHHHHHHHHhhchhhh
Q 037024 68 HGGFTKEEDTIICNLYCT------MG--S------RWSVIASQL----PGRTDNDVKNYWNTKLKKNVL 118 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~------~G--~------~W~~Ia~~l----~gRt~~~cr~Rw~~~l~~~~~ 118 (238)
+..||.+|...||.++.. ++ + -|..||..| ..||+.||+++|.++.+...+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 399999887 269999999999987776433
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=96.73 E-value=0.00044 Score=48.27 Aligned_cols=53 Identities=28% Similarity=0.425 Sum_probs=33.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-------CCceecccccCCCCCcchhhhhhccccCCCC
Q 037024 14 RGPWSAEEDSILKNYLEQFGNG-------GNWIALPKKAGLNRCGKSCRLRWLNYLRPDI 66 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~g~~-------~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i 66 (238)
+.+||.|||++|+..|..+... .=|.++++.-++.+|-.+-|+||.+.|.+..
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 4579999999999999766221 2488888877668899999999999987643
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.69 E-value=0.0011 Score=54.68 Aligned_cols=51 Identities=18% Similarity=0.345 Sum_probs=43.2
Q ss_pred CCCCCCCHHHHHHHHHHHHhhCC-------chhhhcccCCCCCHHHHHHHHHHhhchhh
Q 037024 66 IKHGGFTKEEDTIICNLYCTMGS-------RWSVIASQLPGRTDNDVKNYWNTKLKKNV 117 (238)
Q Consensus 66 i~k~~WT~eED~~L~~~v~~~G~-------~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~ 117 (238)
.+...||.|+|.+|.+.|-.|+. -...++..| +||+.+|..||+.++++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 35678999999999999888862 267777888 9999999999999999764
No 37
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.64 E-value=0.00044 Score=56.26 Aligned_cols=50 Identities=26% Similarity=0.602 Sum_probs=41.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC-----CceecccccCCCCCcchhhhhhccccC
Q 037024 12 VKRGPWSAEEDSILKNYLEQFGNGG-----NWIALPKKAGLNRCGKSCRLRWLNYLR 63 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~g~~~-----~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~ 63 (238)
.+...||.|||.+|-+.|.+|-..| ...+++..+ +||+..|..||+.+++
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L--~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL--NRTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH--cccHHHhcchHHHHHH
Confidence 3567899999999999999993322 466788887 5999999999998886
No 38
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.99 E-value=0.0054 Score=55.04 Aligned_cols=47 Identities=19% Similarity=0.443 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 68 HGGFTKEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
-..|+..|+.+|++.....| ++|..||.+++.|+...||.+|..+.-
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34799999999999999999 899999999999999999999986554
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.95 E-value=0.0014 Score=47.81 Aligned_cols=49 Identities=27% Similarity=0.626 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHH--h----C---CC---CCceeccccc---CCCCCcchhhhhhcccc
Q 037024 14 RGPWSAEEDSILKNYLEQ--F----G---NG---GNWIALPKKA---GLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~--~----g---~~---~~W~~Ia~~~---~~~Rt~~qcr~Rw~~~L 62 (238)
+..||.+|...|+.++.. + + .. .-|..||..| |..||+.||+.+|.++.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 357999999999999988 2 1 11 1599999876 45899999999998753
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.83 E-value=0.01 Score=42.23 Aligned_cols=48 Identities=27% Similarity=0.455 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHHHHHhhC----C-------------chhhhcccC-----CCCCHHHHHHHHHHhhch
Q 037024 68 HGGFTKEEDTIICNLYCTMG----S-------------RWSVIASQL-----PGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G----~-------------~W~~Ia~~l-----~gRt~~~cr~Rw~~~l~~ 115 (238)
+..||.+|...|++++.+|. + -|..|+..| +.||..+++.+|.++...
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 45799999999999998862 1 299999876 269999999999987654
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.71 E-value=0.0029 Score=56.75 Aligned_cols=49 Identities=24% Similarity=0.559 Sum_probs=44.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccC
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLR 63 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~ 63 (238)
----|+..|+-+|+++.+..|. ++|..||.++| .|+...|+++|..++.
T Consensus 62 ~~e~WgadEEllli~~~~TlGl-GNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGL-GNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCC-CcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 3346999999999999999999 79999999999 9999999999998875
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.32 E-value=0.036 Score=57.58 Aligned_cols=99 Identities=13% Similarity=0.264 Sum_probs=76.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhh-------hhcccc--------------------------
Q 037024 16 PWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRL-------RWLNYL-------------------------- 62 (238)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~-------Rw~~~L-------------------------- 62 (238)
.|+.-+=..++.+..+||. .+-..||..|. ++|...++. ||..+-
T Consensus 826 ~w~~~~f~~f~~~~~~~gr-~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGR-NDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred cccHHHHHHHHHHHHHhCH-hHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4888888888888889997 68889999997 788887762 222110
Q ss_pred -----------------CCCCCCCCCCHHHHHHHHHHHHhhC-Cchhhhcc------------cCCCCCHHHHHHHHHHh
Q 037024 63 -----------------RPDIKHGGFTKEEDTIICNLYCTMG-SRWSVIAS------------QLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 63 -----------------~p~i~k~~WT~eED~~L~~~v~~~G-~~W~~Ia~------------~l~gRt~~~cr~Rw~~~ 112 (238)
.+..++..+|++||..|+-.+.+|| .+|..|-. ++..||+..+..|..++
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 1223445699999999999999999 78999843 22579999999999988
Q ss_pred hchh
Q 037024 113 LKKN 116 (238)
Q Consensus 113 l~~~ 116 (238)
++--
T Consensus 984 ~~~~ 987 (1033)
T PLN03142 984 IRLI 987 (1033)
T ss_pred HHHH
Confidence 8764
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.21 E-value=0.0036 Score=51.59 Aligned_cols=50 Identities=20% Similarity=0.521 Sum_probs=38.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC-----CceecccccCCCCCcchhhhhhccccC
Q 037024 12 VKRGPWSAEEDSILKNYLEQFGNGG-----NWIALPKKAGLNRCGKSCRLRWLNYLR 63 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~g~~~-----~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~ 63 (238)
.+...||.|||.+|-+.|..|+..+ -...++..+ +||+.+|..||+.+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L--~rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL--KRTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH--hhhHHHHHhHHHHHHH
Confidence 4678899999999999999996532 233444555 6999999999977765
No 44
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=94.10 E-value=0.069 Score=49.23 Aligned_cols=52 Identities=27% Similarity=0.360 Sum_probs=45.2
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhhccc-----CCC-CCHHHHHHHHHHhhchhhhc
Q 037024 68 HGGFTKEEDTIICNLYCTMGSRWSVIASQ-----LPG-RTDNDVKNYWNTKLKKNVLA 119 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G~~W~~Ia~~-----l~g-Rt~~~cr~Rw~~~l~~~~~~ 119 (238)
...||.+|-+.|.++++.|.-+|-.||.. ++. ||-..+|+||+...+..++.
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kA 187 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKA 187 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHc
Confidence 35699999999999999999999999976 564 99999999999887766553
No 45
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.09 E-value=0.014 Score=41.55 Aligned_cols=49 Identities=22% Similarity=0.390 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC----------CCCceeccccc----CCCCCcchhhhhhcccc
Q 037024 14 RGPWSAEEDSILKNYLEQF-----GN----------GGNWIALPKKA----GLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~-----g~----------~~~W~~Ia~~~----~~~Rt~~qcr~Rw~~~L 62 (238)
+..||.+|.++|+++|.+| |. ..-|..|+..+ +..|+..|++.+|.++.
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 5679999999999999998 31 12699998765 23799999999998764
No 46
>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=93.68 E-value=0.08 Score=41.27 Aligned_cols=51 Identities=24% Similarity=0.430 Sum_probs=40.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhCC----chhhhcccC------------CCCCHHHHHHHHHHhhch
Q 037024 65 DIKHGGFTKEEDTIICNLYCTMGS----RWSVIASQL------------PGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 65 ~i~k~~WT~eED~~L~~~v~~~G~----~W~~Ia~~l------------~gRt~~~cr~Rw~~~l~~ 115 (238)
..++..||++||..|+-++.+||- .|..|-..+ ..||+..+..|..++++-
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 556779999999999999999995 698887532 469999999999988764
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.36 E-value=0.17 Score=46.67 Aligned_cols=46 Identities=22% Similarity=0.319 Sum_probs=42.3
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 69 GGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 69 ~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.+||.+|-++..++...+|..+..|+..+|.|..+||+.+|.+--+
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 3799999999999999999999999999999999999999975433
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=90.76 E-value=0.3 Score=44.58 Aligned_cols=50 Identities=20% Similarity=0.318 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHhh----------CCchhhhcccCC----CCCHHHHHHHHHHhhchhh
Q 037024 68 HGGFTKEEDTIICNLYCTM----------GSRWSVIASQLP----GRTDNDVKNYWNTKLKKNV 117 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~----------G~~W~~Ia~~l~----gRt~~~cr~Rw~~~l~~~~ 117 (238)
...|+.+|-..||++..+. +..|..||+.+. -||+.+|+.+|.++.+...
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 3689999999999988653 234999998652 4999999999998887653
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=90.60 E-value=0.41 Score=35.00 Aligned_cols=46 Identities=28% Similarity=0.511 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHhh---CC----------chhhhcccC---C--CCCHHHHHHHHHHhhch
Q 037024 70 GFTKEEDTIICNLYCTM---GS----------RWSVIASQL---P--GRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~---G~----------~W~~Ia~~l---~--gRt~~~cr~Rw~~~l~~ 115 (238)
.||++++..|++++.+. |+ .|..|+..| + ..+..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998553 21 299999877 2 36889999999765543
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.77 E-value=0.37 Score=44.43 Aligned_cols=46 Identities=17% Similarity=0.257 Sum_probs=41.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccc
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNY 61 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~ 61 (238)
.--+||.+|-++..++...+|+ +...|+..++ +|..+|+...|.+-
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt--dF~LIs~lfP-~R~RkqIKaKfi~E 409 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT--DFSLISSLFP-NRERKQIKAKFIKE 409 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc--hHHHHHHhcC-chhHHHHHHHHHHH
Confidence 3347999999999999999998 9999999998 99999999988653
No 51
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=86.77 E-value=2.5 Score=35.90 Aligned_cols=67 Identities=12% Similarity=0.155 Sum_probs=49.4
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhcccCC---CCCHHHHHHHHHHhhchh---------------------hhcCCCChH
Q 037024 70 GFTKEEDTIICNLYCTMGSRWSVIASQLP---GRTDNDVKNYWNTKLKKN---------------------VLAGKLSDN 125 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~G~~W~~Ia~~l~---gRt~~~cr~Rw~~~l~~~---------------------~~~~~~t~~ 125 (238)
.|++.+|-.|+.+|.. |+.-..|+..++ .-|-..+..||+.+|-.. -.+-.||.+
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~ 79 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKE 79 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHH
Confidence 4999999999998865 455566665543 468899999999887532 124568999
Q ss_pred HhHHHHhhhHHh
Q 037024 126 TQVSVSTIPEEF 137 (238)
Q Consensus 126 ed~~l~~~~~~~ 137 (238)
|+..|..+....
T Consensus 80 EE~lL~~v~s~~ 91 (199)
T PF13325_consen 80 EEQLLGTVASSS 91 (199)
T ss_pred HHHHHHhhhhcc
Confidence 999888876544
No 52
>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=83.38 E-value=1.2 Score=32.59 Aligned_cols=25 Identities=24% Similarity=0.668 Sum_probs=14.1
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCC
Q 037024 10 ANVKRGPWSAEEDSIL--------KNYLEQFGN 34 (238)
Q Consensus 10 ~~~~kg~WT~eED~~L--------~~~v~~~g~ 34 (238)
|.-..|-||+|+|+.| .+++++||.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 4456889999999999 445667764
No 53
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=83.02 E-value=1.8 Score=40.96 Aligned_cols=48 Identities=19% Similarity=0.279 Sum_probs=42.9
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 67 KHGGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 67 ~k~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
....||.||-.++-++...||.+..+|-+.||.|+-..+...|+...+
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 456899999999999999999999999999999999999998875443
No 54
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=82.23 E-value=2.2 Score=27.63 Aligned_cols=41 Identities=27% Similarity=0.258 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 73 KEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 73 ~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
++++..++.++-..|-.|.+||..+ |.+...|+.+....++
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 4667788888888899999999999 9999999998775543
No 55
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=81.94 E-value=1 Score=35.04 Aligned_cols=36 Identities=33% Similarity=0.572 Sum_probs=28.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC--CCCceeccccc
Q 037024 10 ANVKRGPWSAEEDSILKNYLEQFGN--GGNWIALPKKA 45 (238)
Q Consensus 10 ~~~~kg~WT~eED~~L~~~v~~~g~--~~~W~~Ia~~~ 45 (238)
|+-++..||.+||.-|+-++.+||- .+.|..|-..+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3667889999999999999999997 34898887654
No 56
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=80.89 E-value=1.4 Score=40.28 Aligned_cols=49 Identities=27% Similarity=0.449 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHHh----CC----CCCceecccc---cCCCCCcchhhhhhcccc
Q 037024 14 RGPWSAEEDSILKNYLEQF----GN----GGNWIALPKK---AGLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~----g~----~~~W~~Ia~~---~~~~Rt~~qcr~Rw~~~L 62 (238)
...|+.+|-..|+.+.... .. ...|..||.. .+..||+.||+.+|.++.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3789999999999988754 11 1369999984 345799999999998754
No 57
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=76.59 E-value=3.6 Score=25.89 Aligned_cols=38 Identities=24% Similarity=0.312 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHh
Q 037024 74 EEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 74 eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~ 112 (238)
+=|..|+.+...-| ..|..||+.+ |=|...|..|+..+
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 34778888888888 4699999999 99999999998754
No 58
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=73.95 E-value=4.2 Score=40.77 Aligned_cols=45 Identities=13% Similarity=0.192 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHh
Q 037024 68 HGGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~ 112 (238)
...||+.|-.+.-+++-.|...+..|++.++++|-.+|-..|++.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 347999999999999999999999999999999999999887644
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=72.94 E-value=3.4 Score=30.09 Aligned_cols=17 Identities=35% Similarity=0.561 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 037024 64 PDIKHGGFTKEEDTIIC 80 (238)
Q Consensus 64 p~i~k~~WT~eED~~L~ 80 (238)
|....|-||+++|..|.
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 66678899999999993
No 60
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=72.93 E-value=4.4 Score=32.45 Aligned_cols=45 Identities=11% Similarity=0.149 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhchhhhc
Q 037024 74 EEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLA 119 (238)
Q Consensus 74 eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~ 119 (238)
+-|.+|+.+.++-| ..|+.||+.+ |-+...|+.|+..+....+.+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888888888888 5799999999 999999999999888776654
No 61
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=70.72 E-value=5.8 Score=38.91 Aligned_cols=51 Identities=14% Similarity=0.360 Sum_probs=41.7
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhhc----------ccCCCCCHHHHHHHHHHhhchhhh
Q 037024 68 HGGFTKEEDTIICNLYCTMGSRWSVIA----------SQLPGRTDNDVKNYWNTKLKKNVL 118 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~G~~W~~Ia----------~~l~gRt~~~cr~Rw~~~l~~~~~ 118 (238)
+..||-+|..-...+++++|..+..|- ....-+|-.|+|.+|+..+++..+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k 148 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNK 148 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHh
Confidence 668999999999999999999998882 223347888999999988876544
No 62
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=68.07 E-value=4.1 Score=37.91 Aligned_cols=50 Identities=16% Similarity=0.337 Sum_probs=42.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCceecccc-----cCCCCCcchhhhhhcccc
Q 037024 11 NVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKK-----AGLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 11 ~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~-----~~~~Rt~~qcr~Rw~~~L 62 (238)
.++-..||++|.+-|..+.++|-- .|-.||.. .+..||.....+||+.+.
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL--Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL--RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe--eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 345577999999999999999987 99999987 665699999999997653
No 63
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=66.75 E-value=5.9 Score=32.17 Aligned_cols=46 Identities=11% Similarity=0.042 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhchhhhc
Q 037024 73 KEEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLA 119 (238)
Q Consensus 73 ~eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~ 119 (238)
.+-|.+|+.+.++-| -.|..||+.+ |-+...|+.|+..+....+..
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 456888888888887 5799999999 999999999999988877654
No 64
>smart00595 MADF subfamily of SANT domain.
Probab=64.54 E-value=4.3 Score=29.08 Aligned_cols=26 Identities=27% Similarity=0.608 Sum_probs=21.8
Q ss_pred chhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 89 RWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 89 ~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
-|..||..| |-+...|+.+|.++-..
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 399999999 55999999999876543
No 65
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=63.35 E-value=4 Score=40.94 Aligned_cols=43 Identities=14% Similarity=0.359 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhc
Q 037024 14 RGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWL 59 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~ 59 (238)
.-.||+.|-.+..+++-.|.. +...|++.+. ++|..||-+-|+
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K--DF~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK--DFIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc--cHHHHHHHhc-cccHHHHHHHHH
Confidence 347999999999999999986 9999999998 999999987654
No 66
>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=62.50 E-value=11 Score=27.17 Aligned_cols=38 Identities=16% Similarity=0.290 Sum_probs=28.3
Q ss_pred HHHHHHHhhCC--------chhhhcccCCC---CC--HHHHHHHHHHhhch
Q 037024 78 IICNLYCTMGS--------RWSVIASQLPG---RT--DNDVKNYWNTKLKK 115 (238)
Q Consensus 78 ~L~~~v~~~G~--------~W~~Ia~~l~g---Rt--~~~cr~Rw~~~l~~ 115 (238)
.|..+|...|+ .|..||..|.- -+ +.+++..|..+|.+
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 47777888873 59999999832 22 46899999988865
No 67
>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=62.40 E-value=2.7 Score=26.47 Aligned_cols=38 Identities=21% Similarity=0.278 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhcc
Q 037024 20 EEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLN 60 (238)
Q Consensus 20 eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 60 (238)
+=|..|+.+.+.-|. ..|.+||+.+| =+...|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r-~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGR-RSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TT-S-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCC-ccHHHHHHHHC--cCHHHHHHHHHH
Confidence 348889999999887 79999999996 778888888754
No 68
>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=61.64 E-value=12 Score=23.77 Aligned_cols=41 Identities=24% Similarity=0.289 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 74 EEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 74 eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
+++..++.++-..|-.+..||..+ |-+...|+.+....+++
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 445555555555667899999999 88999998887766554
No 69
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=61.32 E-value=12 Score=36.83 Aligned_cols=46 Identities=17% Similarity=0.359 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHh
Q 037024 67 KHGGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 67 ~k~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~ 112 (238)
..++|+.+|-++........|...+.|+..+|+|..+|+|.+|..-
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 4468999999999999999999999999999999999999999743
No 70
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=56.79 E-value=16 Score=26.69 Aligned_cols=39 Identities=18% Similarity=0.278 Sum_probs=29.1
Q ss_pred HHHHHHHhhCC--------chhhhcccCCC-----CCHHHHHHHHHHhhchh
Q 037024 78 IICNLYCTMGS--------RWSVIASQLPG-----RTDNDVKNYWNTKLKKN 116 (238)
Q Consensus 78 ~L~~~v~~~G~--------~W~~Ia~~l~g-----Rt~~~cr~Rw~~~l~~~ 116 (238)
.|..+|.+.|+ .|..||..|.- ....+++..|..+|.+-
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 46777777773 59999998832 24678899999888763
No 71
>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=54.29 E-value=12 Score=30.74 Aligned_cols=41 Identities=29% Similarity=0.268 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHH
Q 037024 70 GFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNT 111 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~ 111 (238)
.||+|+.+.|.+|. .-|-.=++||..|++.|.+.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999887 447778899999977888888766553
No 72
>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=51.40 E-value=34 Score=27.82 Aligned_cols=47 Identities=15% Similarity=0.120 Sum_probs=38.7
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhcccCC----CCCHHHHHHHHHHhh
Q 037024 67 KHGGFTKEEDTIICNLYCTMGSRWSVIASQLP----GRTDNDVKNYWNTKL 113 (238)
Q Consensus 67 ~k~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~----gRt~~~cr~Rw~~~l 113 (238)
....-|+.|...|..||.+||.++..++.-.. -.|..||+.+...+.
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 44578999999999999999999999986542 489999998887654
No 73
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=48.14 E-value=16 Score=39.03 Aligned_cols=77 Identities=16% Similarity=0.206 Sum_probs=48.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHhh-CCchh
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCTM-GSRWS 91 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~~-G~~W~ 91 (238)
.-.-|..++|..|+-.|-+||- ++|..|-.--.++=+. ...+...+..+.|=..+-..|+.++..+ +.+|.
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGy-gswe~Ir~Dp~L~l~d-------Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~ 1203 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGY-GSWEAIRLDPDLGLTD-------KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTP 1203 (1373)
T ss_pred cccCCCchhhhhHhhhhhhccc-ccHHHhccCccccchh-------hhcccccCCchHHHHHHHHHHHHHHhhcccCCCc
Confidence 3456999999999999999999 7999884211111111 0111112445566677777788887777 56676
Q ss_pred hhcccC
Q 037024 92 VIASQL 97 (238)
Q Consensus 92 ~Ia~~l 97 (238)
...+..
T Consensus 1204 ~~~~~~ 1209 (1373)
T KOG0384|consen 1204 KKLKRE 1209 (1373)
T ss_pred hhhhcc
Confidence 655433
No 74
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=47.44 E-value=7.6 Score=31.07 Aligned_cols=44 Identities=16% Similarity=0.119 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCC
Q 037024 20 EEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDI 66 (238)
Q Consensus 20 eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i 66 (238)
+-|.+|+.+.++-|. ..|.+||+.++ -+...|+.|+.+....++
T Consensus 9 ~~D~~Il~~Lq~d~R-~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENAR-TPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCC-CCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 579999999999988 79999999986 888999999988765543
No 75
>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=47.40 E-value=27 Score=27.00 Aligned_cols=36 Identities=28% Similarity=0.270 Sum_probs=26.5
Q ss_pred HHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 79 ICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 79 L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
++.+.-..|-.+..||..+ |.+...++.+....+++
T Consensus 121 il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 121 IFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334334467899999999 99999999998765443
No 76
>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=46.59 E-value=20 Score=26.01 Aligned_cols=29 Identities=24% Similarity=0.525 Sum_probs=23.8
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCCCHHHH
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGRTDNDV 105 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gRt~~~c 105 (238)
|+.|..+....|..|..+|..| |=|..++
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678889999999999999999 6555544
No 77
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=45.36 E-value=14 Score=35.10 Aligned_cols=45 Identities=16% Similarity=0.276 Sum_probs=38.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhc
Q 037024 12 VKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWL 59 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~ 59 (238)
-....||.||--++-++...||. +..+|-+.|+ .|+-.+++.-|.
T Consensus 185 ~~~d~WT~Ed~vlFe~aF~~~GK--~F~kIrq~LP-~rsLaSlvqyYy 229 (534)
T KOG1194|consen 185 EFPDEWTAEDIVLFEQAFQFFGK--DFHKIRQALP-HRSLASLVQYYY 229 (534)
T ss_pred CCcccchHHHHHHHHHHHHHhcc--cHHHHHHHcc-CccHHHHHHHHH
Confidence 35668999999999999999997 9999999998 999988876554
No 78
>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=43.44 E-value=62 Score=29.55 Aligned_cols=45 Identities=18% Similarity=0.436 Sum_probs=35.4
Q ss_pred CCCCCHHHHHHHHHHHHhh-CC---chhhhcccCCCCCHHHHHHHHHHh
Q 037024 68 HGGFTKEEDTIICNLYCTM-GS---RWSVIASQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 68 k~~WT~eED~~L~~~v~~~-G~---~W~~Ia~~l~gRt~~~cr~Rw~~~ 112 (238)
-..||.-|...|+++.+.. |. .-..|++.++||+..+|++.-..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 3579999999999888765 43 356888999999999998855433
No 79
>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=42.05 E-value=16 Score=29.97 Aligned_cols=40 Identities=13% Similarity=0.207 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhc
Q 037024 16 PWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWL 59 (238)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~ 59 (238)
.||.|+.++|.++... |. .=.+||..|+ +.|...+.-+.+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~--SasqIA~~lg-~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL--SASQIARQLG-GVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC--CHHHHHHHhC-Ccchhhhhhhhh
Confidence 4999999999998865 65 7789999998 555555554433
No 80
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=41.91 E-value=40 Score=24.75 Aligned_cols=45 Identities=18% Similarity=0.135 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhchhhhc
Q 037024 74 EEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLA 119 (238)
Q Consensus 74 eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~ 119 (238)
+.|..|+.+....| -.+..||+.+ |-+...|+.+...+....+..
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 46788888888877 4799999999 999999999999887776544
No 81
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=41.59 E-value=7.7 Score=31.45 Aligned_cols=45 Identities=22% Similarity=0.222 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCC
Q 037024 19 AEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDI 66 (238)
Q Consensus 19 ~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i 66 (238)
.+-|.+|+.+.++-|. ..|.+||+.++ -+...|+.|+.++...++
T Consensus 13 D~~D~~IL~~Lq~d~R-~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGR-ISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCC-CCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 5678999999999998 79999999996 788889999988766554
No 82
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=41.35 E-value=43 Score=31.20 Aligned_cols=44 Identities=16% Similarity=0.264 Sum_probs=38.4
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhc-ccCCCCCHHHHHHHHHHh
Q 037024 69 GGFTKEEDTIICNLYCTMGSRWSVIA-SQLPGRTDNDVKNYWNTK 112 (238)
Q Consensus 69 ~~WT~eED~~L~~~v~~~G~~W~~Ia-~~l~gRt~~~cr~Rw~~~ 112 (238)
..|+++|=...-+-++.||..+..|. ..++.|+-..|-..|+-.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 37999999999999999999999995 468999999998877633
No 83
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=39.89 E-value=34 Score=24.82 Aligned_cols=30 Identities=17% Similarity=0.381 Sum_probs=24.0
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCCCHHHHH
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGRTDNDVK 106 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr 106 (238)
|..|..+....|..|..+|..| |=+...+.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~ 33 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEIN 33 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHH
Confidence 5678888899999999999999 65555443
No 84
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=39.59 E-value=15 Score=38.79 Aligned_cols=33 Identities=24% Similarity=0.389 Sum_probs=27.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCceeccccc
Q 037024 12 VKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKA 45 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~ 45 (238)
-++..||.|||..|+-++.+||- ++|..|-..+
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~-~~~~~~~~~i 956 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGY-GNWDELKAAF 956 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhcc-chHHHHHHHH
Confidence 35567999999999999999998 6899985544
No 85
>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=39.47 E-value=17 Score=25.12 Aligned_cols=27 Identities=26% Similarity=0.498 Sum_probs=21.5
Q ss_pred chhhhcccCC-CCCHHHHHHHHHHhhch
Q 037024 89 RWSVIASQLP-GRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 89 ~W~~Ia~~l~-gRt~~~cr~Rw~~~l~~ 115 (238)
-|..||..|+ .-+...|+.||.++...
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 3999999995 36788999999876543
No 86
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=38.38 E-value=29 Score=34.10 Aligned_cols=49 Identities=14% Similarity=0.291 Sum_probs=43.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhcc
Q 037024 9 KANVKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLN 60 (238)
Q Consensus 9 k~~~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 60 (238)
.+....++|+.+|-++...+..+.|. +...|+...+ +|..+|++..+..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs--~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS--DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc--cccccccccc-cccHHHHHHHHhh
Confidence 45567889999999999999999997 8999999988 9999999987753
No 87
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=37.69 E-value=40 Score=26.36 Aligned_cols=46 Identities=17% Similarity=0.156 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhhC-CchhhhcccCCCCCHHHHHHHHHHhhchhhhcC
Q 037024 74 EEDTIICNLYCTMG-SRWSVIASQLPGRTDNDVKNYWNTKLKKNVLAG 120 (238)
Q Consensus 74 eED~~L~~~v~~~G-~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~~~~~ 120 (238)
+-|.+|+++.+.-+ ..+..||+.+ |-+...|+.|-..+.+..+.++
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCceee
Confidence 45778888888877 4699999999 9999999999998888775543
No 88
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=36.60 E-value=17 Score=35.84 Aligned_cols=48 Identities=15% Similarity=0.380 Sum_probs=37.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecc----------cccCCCCCcchhhhhhccccC
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALP----------KKAGLNRCGKSCRLRWLNYLR 63 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia----------~~~~~~Rt~~qcr~Rw~~~L~ 63 (238)
.|..||..|.+-...+++.+|. +...|- .... -++-.|+|..|++.+.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GK--dFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGK--DFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLVR 144 (782)
T ss_pred cccccchhhHHHHHHHHHHhcc--cHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHHH
Confidence 3778999999999999999997 888872 2222 4667788888876653
No 89
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=36.34 E-value=45 Score=27.31 Aligned_cols=37 Identities=19% Similarity=0.197 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhh
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
...++.+....|-.+.+||..| |-+...++.+|...-
T Consensus 140 ~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 140 QRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3444445445677899999999 999999999997543
No 90
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=35.51 E-value=54 Score=23.72 Aligned_cols=21 Identities=19% Similarity=0.452 Sum_probs=18.9
Q ss_pred HHHHHHHHhhCCchhhhcccC
Q 037024 77 TIICNLYCTMGSRWSVIASQL 97 (238)
Q Consensus 77 ~~L~~~v~~~G~~W~~Ia~~l 97 (238)
..|..+....|..|..+|..|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 467888999999999999998
No 91
>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=33.20 E-value=35 Score=24.43 Aligned_cols=29 Identities=28% Similarity=0.658 Sum_probs=22.8
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCCCHHHH
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGRTDNDV 105 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gRt~~~c 105 (238)
|..|..+....|..|..+|..| |=+...+
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 4567788889999999999999 5555444
No 92
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=33.10 E-value=35 Score=23.59 Aligned_cols=23 Identities=22% Similarity=0.488 Sum_probs=18.4
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCC
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGR 100 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gR 100 (238)
+.+|-++|..|| |..++..++=|
T Consensus 12 e~il~~Lv~~yG--W~~L~~~i~i~ 34 (64)
T PF09905_consen 12 ETILTELVEHYG--WEELGERININ 34 (64)
T ss_dssp HHHHHHHHHHT---HHHHHHHTTSS
T ss_pred HHHHHHHHHHhC--HHHHHhhcccc
Confidence 567889999998 99999988644
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=33.03 E-value=34 Score=27.85 Aligned_cols=46 Identities=17% Similarity=0.236 Sum_probs=32.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCceecccccCC---CCCcchhhhhhc
Q 037024 12 VKRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGL---NRCGKSCRLRWL 59 (238)
Q Consensus 12 ~~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~---~Rt~~qcr~Rw~ 59 (238)
.+...=|..|.+-|..+|.+||. ++..++.-..+ -.|..||+.+..
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd--Dy~aMarD~KLN~~Q~T~~qlrrki~ 160 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD--DYKAMARDRKLNYMQHTPGQLRRKIR 160 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc--cHHHHhccCCCCcccCCHHHHHHHHH
Confidence 45667899999999999999997 78777643321 245555555443
No 94
>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=32.94 E-value=53 Score=24.55 Aligned_cols=30 Identities=30% Similarity=0.268 Sum_probs=23.3
Q ss_pred hhCCchhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 85 TMGSRWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 85 ~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
..|..+..||+.+ |-+...++.+....+++
T Consensus 124 ~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 124 LEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3567899999999 77888888888765543
No 95
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=32.80 E-value=70 Score=25.38 Aligned_cols=27 Identities=30% Similarity=0.313 Sum_probs=21.3
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhh
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
.|-.-.+||..| |.+...|+.|....+
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 889999998876444
No 96
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=31.31 E-value=1.1e+02 Score=22.81 Aligned_cols=18 Identities=11% Similarity=0.219 Sum_probs=15.5
Q ss_pred CCCCHHHHHHHHHHHHhh
Q 037024 69 GGFTKEEDTIICNLYCTM 86 (238)
Q Consensus 69 ~~WT~eED~~L~~~v~~~ 86 (238)
.-||++++..|++.+..|
T Consensus 5 R~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDF 22 (98)
T ss_pred CCCCchHHHHHHHHHHHH
Confidence 359999999999998776
No 97
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=31.31 E-value=1.1e+02 Score=23.33 Aligned_cols=45 Identities=16% Similarity=0.183 Sum_probs=30.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhcccc
Q 037024 13 KRGPWSAEEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYL 62 (238)
Q Consensus 13 ~kg~WT~eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L 62 (238)
++..||.|+-..+...+...|. .-..||..++. +. +-..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~--sv~evA~e~gI--s~-~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM--TVSLVARQHGV--AA-SQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC--CHHHHHHHHCc--CH-HHHHHHHHHH
Confidence 4678999998777777766664 66788888873 33 3344565544
No 98
>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=31.20 E-value=89 Score=28.54 Aligned_cols=86 Identities=21% Similarity=0.328 Sum_probs=56.0
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC-CCCceecccccCCCCCcchhhhhhccccCCCCCCCCCCHHHHHHHHHHHHh-h----
Q 037024 14 RGPWSAEEDSILKNYLEQF-GN-GGNWIALPKKAGLNRCGKSCRLRWLNYLRPDIKHGGFTKEEDTIICNLYCT-M---- 86 (238)
Q Consensus 14 kg~WT~eED~~L~~~v~~~-g~-~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i~k~~WT~eED~~L~~~v~~-~---- 86 (238)
-..||.-|...|+.+.+.. |. ..+-.+|++.+. +|+..++++ |.+.|. +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 3579999999999998876 42 124457778887 999988876 333332 2334444444 1
Q ss_pred -CC------------chhhhcccCCCCCHHHHHHHHHHhh
Q 037024 87 -GS------------RWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 87 -G~------------~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
|. -|..+|..+-|.-...+-.-|-+.|
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 1888888887777776666665444
No 99
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=30.34 E-value=73 Score=19.54 Aligned_cols=34 Identities=21% Similarity=0.128 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHH
Q 037024 74 EEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNY 108 (238)
Q Consensus 74 eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~R 108 (238)
-|...|.++...++++....|+.| |=+...+..+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 367788899999999999999988 5555555444
No 100
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=30.17 E-value=51 Score=27.76 Aligned_cols=45 Identities=24% Similarity=0.158 Sum_probs=36.3
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhchh
Q 037024 69 GGFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKKN 116 (238)
Q Consensus 69 ~~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~~ 116 (238)
...|+.|-+.|.-+.. |-.=..||..| +.+.+.||.+..+++++-
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 3689998888766554 43445999999 999999999999998874
No 101
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=29.41 E-value=37 Score=23.63 Aligned_cols=18 Identities=22% Similarity=0.516 Sum_probs=14.8
Q ss_pred HHHHHHHhhCCchhhhcc
Q 037024 78 IICNLYCTMGSRWSVIAS 95 (238)
Q Consensus 78 ~L~~~v~~~G~~W~~Ia~ 95 (238)
.|.+|.+.||++|..|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 577888999988999863
No 102
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=28.39 E-value=54 Score=23.63 Aligned_cols=31 Identities=16% Similarity=0.405 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCCCHHHHHH
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGRTDNDVKN 107 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~ 107 (238)
|..|..+....|..|..+|+.| |=+...+..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778889999999999999 666665544
No 103
>PRK04217 hypothetical protein; Provisional
Probab=28.02 E-value=84 Score=24.07 Aligned_cols=43 Identities=19% Similarity=0.026 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 70 GFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.-|.+| ..++.++...|-....||+.+ |-+...++.++....+
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArk 84 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARK 84 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 456666 566777777788899999999 9999999999875443
No 104
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=27.85 E-value=74 Score=25.04 Aligned_cols=29 Identities=17% Similarity=0.133 Sum_probs=22.3
Q ss_pred hhCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 85 TMGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 85 ~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
..|-.+..||..| |-+...++.+....++
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~ 170 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRARE 170 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466899999999 8899988887764443
No 105
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=27.27 E-value=60 Score=23.42 Aligned_cols=24 Identities=21% Similarity=0.545 Sum_probs=19.2
Q ss_pred HHHHhhCCchhhhcccCCCCCHHHH
Q 037024 81 NLYCTMGSRWSVIASQLPGRTDNDV 105 (238)
Q Consensus 81 ~~v~~~G~~W~~Ia~~l~gRt~~~c 105 (238)
.+....|..|..+|..| |=+..++
T Consensus 12 ~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 12 VFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 35577899999999999 7676666
No 106
>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=26.71 E-value=1.1e+02 Score=18.38 Aligned_cols=39 Identities=18% Similarity=0.239 Sum_probs=25.3
Q ss_pred CCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHH
Q 037024 71 FTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNT 111 (238)
Q Consensus 71 WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~ 111 (238)
.+++ +..++.++-..|-.+..||..+ |-+...|+.+...
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 3444 3444455545667899999998 7777777665543
No 107
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=26.46 E-value=53 Score=20.50 Aligned_cols=36 Identities=33% Similarity=0.389 Sum_probs=17.7
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHH
Q 037024 70 GFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKN 107 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~ 107 (238)
.+|.+|-..|..++ .-|..=..||+.| ||+...|..
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 56777777776664 5677788999999 999887754
No 108
>PLN03162 golden-2 like transcription factor; Provisional
Probab=25.71 E-value=4.2e+02 Score=24.97 Aligned_cols=45 Identities=13% Similarity=0.008 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHHHHhhCC---chhhhcccC--CCCCHHHHHHHHHHhh
Q 037024 69 GGFTKEEDTIICNLYCTMGS---RWSVIASQL--PGRTDNDVKNYWNTKL 113 (238)
Q Consensus 69 ~~WT~eED~~L~~~v~~~G~---~W~~Ia~~l--~gRt~~~cr~Rw~~~l 113 (238)
-.||+|-.++.+++|..+|. .=+.|=+.| +|=|..+|+.+.+.|.
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYR 287 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYR 287 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHH
Confidence 47999999999999999993 234555554 6889999988766543
No 109
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=25.40 E-value=84 Score=24.64 Aligned_cols=27 Identities=26% Similarity=0.220 Sum_probs=21.4
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhh
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
.|-....||..| |-+...|+.+.....
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~ 166 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRAR 166 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 456789999999 888898988876543
No 110
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=25.28 E-value=65 Score=23.40 Aligned_cols=26 Identities=15% Similarity=0.310 Sum_probs=21.1
Q ss_pred HHHHHHHHHhhCCchhhhcccCCCCCH
Q 037024 76 DTIICNLYCTMGSRWSVIASQLPGRTD 102 (238)
Q Consensus 76 D~~L~~~v~~~G~~W~~Ia~~l~gRt~ 102 (238)
|..|..+....|..|..+|..| |=+.
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~ 29 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSV 29 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCH
Confidence 5677788899999999999998 4444
No 111
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=25.08 E-value=97 Score=29.03 Aligned_cols=28 Identities=21% Similarity=0.377 Sum_probs=23.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 037024 7 CDKANVKRGPWSAEEDSILKNYLEQFGN 34 (238)
Q Consensus 7 ~~k~~~~kg~WT~eED~~L~~~v~~~g~ 34 (238)
|.-.+--...||+||-.+|.++..+||.
T Consensus 165 CnPHNP~Grvwt~eeL~~i~elc~kh~v 192 (388)
T COG1168 165 CNPHNPTGRVWTKEELRKIAELCLRHGV 192 (388)
T ss_pred eCCCCCCCccccHHHHHHHHHHHHHcCC
Confidence 5544555667999999999999999987
No 112
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=24.44 E-value=74 Score=22.36 Aligned_cols=30 Identities=23% Similarity=0.531 Sum_probs=21.2
Q ss_pred HHHHHHHHHHh-hCCchhhhcccCCCCCHHHH
Q 037024 75 EDTIICNLYCT-MGSRWSVIASQLPGRTDNDV 105 (238)
Q Consensus 75 ED~~L~~~v~~-~G~~W~~Ia~~l~gRt~~~c 105 (238)
-++.|..++.. .|..|..+|+.| |=+...+
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 34566677777 889999999999 4444443
No 113
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=24.09 E-value=97 Score=25.28 Aligned_cols=27 Identities=22% Similarity=0.159 Sum_probs=21.9
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhh
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKL 113 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l 113 (238)
.|-...+||..| |-+...++.|....+
T Consensus 149 ~g~s~~EIA~~l-g~s~~tV~~rl~rar 175 (192)
T PRK09643 149 QGYSVADAARML-GVAEGTVKSRCARGR 175 (192)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 456789999999 899999999986443
No 114
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=24.00 E-value=66 Score=22.92 Aligned_cols=33 Identities=24% Similarity=0.441 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHH
Q 037024 73 KEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKN 107 (238)
Q Consensus 73 ~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~ 107 (238)
.||.++|+.. -..|.+|..+|..| |=+...|.+
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788888732 24678999999999 666665544
No 115
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=23.94 E-value=65 Score=23.36 Aligned_cols=30 Identities=23% Similarity=0.475 Sum_probs=22.4
Q ss_pred HHHHHHHHhhCCchhhhcccCCCCCHHHHHH
Q 037024 77 TIICNLYCTMGSRWSVIASQLPGRTDNDVKN 107 (238)
Q Consensus 77 ~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~ 107 (238)
+.|-.+....|..|..+|+.| |=+...|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345555677899999999999 766666654
No 116
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=22.99 E-value=1e+02 Score=24.66 Aligned_cols=28 Identities=14% Similarity=-0.014 Sum_probs=21.3
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.|..+..||..+ |-+...++++.....+
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 356789999999 8888888888764443
No 117
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=22.79 E-value=56 Score=21.28 Aligned_cols=43 Identities=28% Similarity=0.297 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 70 GFTKEEDTIICNLYCTMGSRWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 70 ~WT~eED~~L~~~v~~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
..|+.|-+.|.-+.. |..=..||..+ |.+...++.+...++++
T Consensus 3 ~LT~~E~~vl~~l~~--G~~~~eIA~~l-~is~~tV~~~~~~i~~K 45 (58)
T PF00196_consen 3 SLTERELEVLRLLAQ--GMSNKEIAEEL-GISEKTVKSHRRRIMKK 45 (58)
T ss_dssp SS-HHHHHHHHHHHT--TS-HHHHHHHH-TSHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHh--cCCcchhHHhc-CcchhhHHHHHHHHHHH
Confidence 356777776655444 44556999999 99999999988877665
No 118
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=21.50 E-value=67 Score=29.97 Aligned_cols=41 Identities=22% Similarity=0.308 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceeccc-ccCCCCCcchhhhhhc
Q 037024 16 PWSAEEDSILKNYLEQFGNGGNWIALPK-KAGLNRCGKSCRLRWL 59 (238)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~~W~~Ia~-~~~~~Rt~~qcr~Rw~ 59 (238)
.|+.+|-...-+.++.||. +...|.. ++. .|+...|.+-|+
T Consensus 279 ~wsEeEcr~FEegl~~yGK--DF~lIr~nkvr-tRsvgElVeyYY 320 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGK--DFHLIRANKVR-TRSVGELVEYYY 320 (445)
T ss_pred cCCHHHHHHHHHHHHHhcc--cHHHHHhcccc-cchHHHHHHHHH
Confidence 5999999999999999997 8887765 454 899999987554
No 119
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=21.46 E-value=1.3e+02 Score=23.31 Aligned_cols=28 Identities=14% Similarity=0.139 Sum_probs=22.0
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.|-.-.+||..| |-+...|+.|....++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 148 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATH 148 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 355689999999 8899999988765443
No 120
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=21.37 E-value=1.1e+02 Score=24.03 Aligned_cols=28 Identities=25% Similarity=0.348 Sum_probs=21.3
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.|-....||..| |-|...|+.+....++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~ 161 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALK 161 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 355688899888 7888888888775443
No 121
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=21.30 E-value=1.2e+02 Score=24.60 Aligned_cols=28 Identities=21% Similarity=0.099 Sum_probs=22.1
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.|-....||..| |-+...|+.+....++
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar~ 148 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGRV 148 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 456789999999 8889999988765443
No 122
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=20.88 E-value=93 Score=24.92 Aligned_cols=28 Identities=14% Similarity=0.081 Sum_probs=21.5
Q ss_pred CCchhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 87 GSRWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 87 G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
|-....||..| |-|...|+.+....++.
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 45689999999 88889998887655443
No 123
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=20.66 E-value=1.3e+02 Score=24.28 Aligned_cols=28 Identities=14% Similarity=0.062 Sum_probs=22.4
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.|-....||..| |-+...++.+....++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~ 173 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARK 173 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 456789999999 8899999998875443
No 124
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=20.65 E-value=1.3e+02 Score=24.23 Aligned_cols=28 Identities=21% Similarity=0.189 Sum_probs=21.8
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 86 MGSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 86 ~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
.|....+||..| |-+...|+.+....++
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~ 181 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALA 181 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 356789999999 8888888888765444
No 125
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=20.61 E-value=1.3e+02 Score=23.78 Aligned_cols=30 Identities=27% Similarity=0.389 Sum_probs=23.0
Q ss_pred hhCCchhhhcccCCCCCHHHHHHHHHHhhch
Q 037024 85 TMGSRWSVIASQLPGRTDNDVKNYWNTKLKK 115 (238)
Q Consensus 85 ~~G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~~ 115 (238)
..|-...+||..+ |-+...|+.+-..-++.
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 133 LDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999998887655443
No 126
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=20.50 E-value=1.1e+02 Score=24.39 Aligned_cols=27 Identities=15% Similarity=0.010 Sum_probs=20.6
Q ss_pred CCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 87 GSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 87 G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
|....+||..| |-+...|+.+....++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 45678899888 8888888888765443
No 127
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=20.24 E-value=39 Score=26.41 Aligned_cols=44 Identities=11% Similarity=0.067 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhCCCCCceecccccCCCCCcchhhhhhccccCCCC
Q 037024 20 EEDSILKNYLEQFGNGGNWIALPKKAGLNRCGKSCRLRWLNYLRPDI 66 (238)
Q Consensus 20 eED~~L~~~v~~~g~~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~L~p~i 66 (238)
+-|.+++++.+.-+. ..+..||+.++ -+...|+.|-.+.....+
T Consensus 8 ~~D~~IL~~L~~d~r-~~~~eia~~lg--lS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDAR-ISNAELAERVG--LSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCC-CCHHHHHHHHC--CCHHHHHHHHHHHHHCCc
Confidence 568889999999888 79999999996 888889988777655443
No 128
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=20.06 E-value=1.2e+02 Score=24.52 Aligned_cols=27 Identities=19% Similarity=0.110 Sum_probs=20.8
Q ss_pred CCchhhhcccCCCCCHHHHHHHHHHhhc
Q 037024 87 GSRWSVIASQLPGRTDNDVKNYWNTKLK 114 (238)
Q Consensus 87 G~~W~~Ia~~l~gRt~~~cr~Rw~~~l~ 114 (238)
|-....||..| |-+...|+.+....++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~ 180 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRARE 180 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 45688999998 8889999888765443
Done!