Query 040518
Match_columns 81
No_of_seqs 101 out of 452
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 09:13:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040518.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040518hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00249 Myb_DNA-binding: Myb- 99.5 3.7E-14 8.1E-19 80.6 5.3 46 7-56 2-48 (48)
2 smart00717 SANT SANT SWI3, AD 99.3 3.6E-12 7.9E-17 69.3 5.6 46 7-56 2-47 (49)
3 cd00167 SANT 'SWI3, ADA2, N-Co 99.3 1.3E-11 2.8E-16 66.4 5.2 44 8-55 1-44 (45)
4 PF13921 Myb_DNA-bind_6: Myb-l 99.0 1.8E-09 4E-14 63.0 5.5 41 9-54 1-41 (60)
5 PLN03212 Transcription repress 98.8 1.1E-08 2.5E-13 76.4 7.3 53 3-60 75-127 (249)
6 KOG0724 Zuotin and related mol 98.8 8E-09 1.7E-13 77.5 5.4 68 7-75 32-104 (335)
7 KOG0048 Transcription factor, 98.8 1.7E-08 3.8E-13 73.5 6.9 47 5-56 61-107 (238)
8 PLN03091 hypothetical protein; 98.7 5.8E-08 1.3E-12 77.5 8.1 52 3-59 64-115 (459)
9 PLN03212 Transcription repress 98.7 3.1E-08 6.7E-13 74.1 5.3 49 4-56 23-72 (249)
10 PLN03091 hypothetical protein; 98.4 3.9E-07 8.5E-12 72.9 4.3 48 5-56 13-61 (459)
11 TIGR01557 myb_SHAQKYF myb-like 98.3 4.3E-06 9.4E-11 49.9 6.2 47 6-56 3-54 (57)
12 KOG0457 Histone acetyltransfer 98.1 1E-05 2.2E-10 64.6 6.6 58 6-72 72-129 (438)
13 COG5259 RSC8 RSC chromatin rem 98.1 5.7E-06 1.2E-10 66.9 4.9 44 7-55 280-323 (531)
14 KOG0048 Transcription factor, 97.9 8.4E-06 1.8E-10 59.4 3.4 47 6-56 9-56 (238)
15 KOG1279 Chromatin remodeling f 97.8 3.5E-05 7.5E-10 62.5 5.3 48 3-55 250-297 (506)
16 KOG0049 Transcription factor, 97.8 5.2E-05 1.1E-09 63.9 5.7 52 2-57 356-407 (939)
17 KOG4167 Predicted DNA-binding 97.5 0.00019 4.2E-09 60.9 5.9 48 5-57 618-665 (907)
18 COG5114 Histone acetyltransfer 97.4 0.00035 7.5E-09 55.0 5.4 56 7-71 64-119 (432)
19 PF13837 Myb_DNA-bind_4: Myb/S 97.3 0.00072 1.6E-08 41.3 5.2 59 7-65 2-73 (90)
20 PF13873 Myb_DNA-bind_5: Myb/S 96.7 0.0074 1.6E-07 36.4 5.6 54 7-61 3-74 (78)
21 KOG0050 mRNA splicing protein 96.6 0.0031 6.8E-08 52.0 4.3 48 6-57 7-54 (617)
22 PF09111 SLIDE: SLIDE; InterP 96.5 0.014 3E-07 39.3 6.3 58 3-61 46-115 (118)
23 KOG0050 mRNA splicing protein 96.4 0.0033 7.2E-08 51.9 3.5 56 4-65 57-112 (617)
24 PLN03142 Probable chromatin-re 96.1 0.017 3.7E-07 50.5 6.4 46 7-56 825-870 (1033)
25 COG5147 REB1 Myb superfamily p 96.1 0.0099 2.2E-07 48.6 4.7 52 5-61 71-122 (512)
26 KOG0051 RNA polymerase I termi 95.8 0.015 3.2E-07 48.4 4.6 48 5-58 383-430 (607)
27 PF12776 Myb_DNA-bind_3: Myb/S 95.7 0.024 5.3E-07 34.9 4.4 55 8-62 1-68 (96)
28 KOG1194 Predicted DNA-binding 95.3 0.036 7.9E-07 45.3 5.0 44 7-55 188-231 (534)
29 KOG0049 Transcription factor, 95.2 0.043 9.3E-07 46.9 5.4 52 6-61 412-464 (939)
30 COG5118 BDP1 Transcription ini 94.8 0.091 2E-06 42.5 5.8 45 5-54 364-408 (507)
31 KOG4329 DNA-binding protein [G 94.3 0.093 2E-06 42.1 4.9 45 5-54 276-321 (445)
32 TIGR02894 DNA_bind_RsfA transc 93.7 0.14 3E-06 36.5 4.4 51 6-57 4-56 (161)
33 smart00595 MADF subfamily of S 93.4 0.17 3.6E-06 30.8 3.9 28 31-59 28-55 (89)
34 KOG4468 Polycomb-group transcr 92.6 0.31 6.7E-06 41.3 5.6 55 6-65 88-152 (782)
35 KOG4282 Transcription factor G 92.1 0.77 1.7E-05 34.8 6.8 61 6-66 54-123 (345)
36 PF11035 SnAPC_2_like: Small n 90.9 0.99 2.2E-05 35.5 6.4 54 6-61 21-75 (344)
37 PF08914 Myb_DNA-bind_2: Rap1 90.8 0.86 1.9E-05 27.6 4.8 50 7-56 3-57 (65)
38 PRK13923 putative spore coat p 90.4 0.62 1.3E-05 33.4 4.5 49 7-57 6-57 (170)
39 KOG0051 RNA polymerase I termi 90.3 0.47 1E-05 39.8 4.4 54 5-58 435-509 (607)
40 PF10545 MADF_DNA_bdg: Alcohol 89.2 0.76 1.6E-05 27.0 3.6 32 30-61 26-58 (85)
41 COG5147 REB1 Myb superfamily p 88.4 0.28 6.1E-06 40.3 1.7 44 6-53 20-63 (512)
42 KOG3554 Histone deacetylase co 88.2 0.65 1.4E-05 38.7 3.7 44 6-53 285-328 (693)
43 PF13404 HTH_AsnC-type: AsnC-t 85.2 1.9 4.2E-05 23.7 3.6 37 14-55 5-41 (42)
44 PF04504 DUF573: Protein of un 85.1 3.1 6.8E-05 26.8 5.0 71 6-76 4-86 (98)
45 cd00086 homeodomain Homeodomai 85.1 4.6 9.9E-05 22.1 5.9 47 6-54 4-50 (59)
46 KOG2656 DNA methyltransferase 85.1 0.64 1.4E-05 37.6 2.1 50 7-61 131-186 (445)
47 PF00046 Homeobox: Homeobox do 83.8 5.6 0.00012 22.1 5.2 47 6-54 4-50 (57)
48 PF05263 DUF722: Protein of un 82.3 4.7 0.0001 27.6 5.2 48 9-61 82-129 (130)
49 smart00426 TEA TEA domain. 80.2 2.7 5.9E-05 26.1 3.1 21 6-27 3-23 (68)
50 smart00389 HOX Homeodomain. DN 79.4 8.1 0.00018 21.0 5.9 47 6-54 4-50 (56)
51 PRK11179 DNA-binding transcrip 77.2 9.5 0.00021 25.6 5.4 41 13-58 10-50 (153)
52 PF13325 MCRS_N: N-terminal re 77.0 12 0.00026 27.4 6.2 50 5-56 72-126 (199)
53 KOG2009 Transcription initiati 76.0 2.7 6E-05 35.2 2.9 46 4-54 407-452 (584)
54 PLN03142 Probable chromatin-re 74.6 13 0.00028 33.1 6.7 54 4-61 924-989 (1033)
55 PF06461 DUF1086: Domain of Un 73.9 14 0.00031 25.9 5.7 51 8-60 40-90 (145)
56 KOG1194 Predicted DNA-binding 72.0 2.4 5.2E-05 35.0 1.6 43 7-55 471-513 (534)
57 PRK11169 leucine-responsive tr 71.9 11 0.00024 25.7 4.7 40 14-58 16-55 (164)
58 PF04282 DUF438: Family of unk 71.3 3.3 7.2E-05 25.7 1.8 22 41-62 11-32 (71)
59 PF07030 DUF1320: Protein of u 70.8 10 0.00022 25.1 4.3 28 45-72 84-111 (130)
60 PF01466 Skp1: Skp1 family, di 70.3 4.3 9.4E-05 24.7 2.2 21 33-53 36-56 (78)
61 KOG3841 TEF-1 and related tran 70.0 16 0.00034 29.8 5.7 52 7-59 77-145 (455)
62 PF00674 DUP: DUP family; Int 68.4 5.7 0.00012 25.6 2.6 26 14-40 44-69 (108)
63 PF07750 GcrA: GcrA cell cycle 67.0 9.6 0.00021 26.6 3.6 42 8-55 2-43 (162)
64 smart00344 HTH_ASNC helix_turn 66.4 28 0.00061 21.4 5.5 42 12-58 3-44 (108)
65 COG1522 Lrp Transcriptional re 64.9 11 0.00024 24.6 3.4 40 14-58 10-49 (154)
66 PF13325 MCRS_N: N-terminal re 63.1 16 0.00035 26.7 4.3 45 8-58 1-48 (199)
67 PF08281 Sigma70_r4_2: Sigma-7 62.6 23 0.00051 19.2 5.7 26 31-57 27-52 (54)
68 PF04545 Sigma70_r4: Sigma-70, 62.5 23 0.0005 19.2 6.0 44 10-60 6-49 (50)
69 TIGR03830 CxxCG_CxxCG_HTH puta 62.3 37 0.0008 21.4 6.0 63 8-71 41-107 (127)
70 smart00501 BRIGHT BRIGHT, ARID 62.3 19 0.00041 22.2 4.0 32 30-61 53-89 (93)
71 PF11626 Rap1_C: TRF2-interact 62.0 15 0.00033 22.8 3.6 12 6-17 47-58 (87)
72 cd08307 Death_Pelle Death doma 61.9 12 0.00026 24.3 3.2 21 28-48 19-39 (97)
73 TIGR02937 sigma70-ECF RNA poly 61.8 32 0.0007 21.0 5.1 30 31-61 127-156 (158)
74 PF01285 TEA: TEA/ATTS domain 61.3 9.2 0.0002 30.8 3.0 49 6-55 49-112 (431)
75 PF13560 HTH_31: Helix-turn-he 61.1 10 0.00022 21.6 2.5 31 41-71 13-43 (64)
76 PF01388 ARID: ARID/BRIGHT DNA 60.7 18 0.00039 22.0 3.7 28 31-58 58-90 (92)
77 PF08259 Periviscerokin: Periv 58.3 4.8 0.0001 16.9 0.5 8 64-71 3-10 (11)
78 PF14775 NYD-SP28_assoc: Sperm 58.2 18 0.00038 21.5 3.2 31 32-62 2-38 (60)
79 PLN03162 golden-2 like transcr 58.1 38 0.00082 27.8 5.9 53 7-61 238-292 (526)
80 COG5269 ZUO1 Ribosome-associat 55.1 24 0.00052 27.9 4.3 49 7-56 246-300 (379)
81 PF10743 Phage_Cox: Regulatory 54.2 19 0.0004 23.4 3.0 36 21-69 5-40 (87)
82 COG4387 Mu-like prophage prote 53.6 19 0.00042 25.0 3.2 32 42-73 80-111 (139)
83 PRK04654 sec-independent trans 52.8 22 0.00048 26.4 3.6 41 16-61 12-52 (214)
84 TIGR02985 Sig70_bacteroi1 RNA 51.6 60 0.0013 20.5 5.3 29 32-61 131-159 (161)
85 PF05524 PEP-utilisers_N: PEP- 49.6 23 0.00049 22.7 2.9 48 11-60 34-81 (123)
86 TIGR01765 tspaseT_teng_N trans 49.3 44 0.00095 19.9 4.0 44 9-56 8-51 (73)
87 PRK00404 tatB sec-independent 48.3 33 0.00072 23.9 3.7 41 16-61 12-52 (141)
88 PF00887 ACBP: Acyl CoA bindin 47.4 23 0.0005 21.7 2.6 23 39-61 62-84 (87)
89 KOG2941 Beta-1,4-mannosyltrans 45.7 10 0.00022 30.7 1.0 20 5-24 260-280 (444)
90 smart00386 HAT HAT (Half-A-TPR 45.5 33 0.00071 15.7 2.7 24 14-39 7-30 (33)
91 cd00435 ACBP Acyl CoA binding 44.8 37 0.00079 21.2 3.2 23 39-61 60-82 (85)
92 PF00196 GerE: Bacterial regul 44.5 56 0.0012 18.1 4.6 44 9-60 4-47 (58)
93 PF09197 Rap1-DNA-bind: Rap1, 44.4 92 0.002 20.6 6.4 62 9-70 2-99 (105)
94 COG4281 ACB Acyl-CoA-binding p 44.0 49 0.0011 21.3 3.7 30 31-61 54-83 (87)
95 PRK02220 4-oxalocrotonate taut 43.8 47 0.001 18.5 3.4 24 39-62 8-31 (61)
96 COG3053 CitC Citrate lyase syn 43.7 31 0.00067 27.4 3.3 38 17-61 309-346 (352)
97 COG1549 Queuine tRNA-ribosyltr 42.5 7.3 0.00016 32.4 -0.3 46 6-57 303-348 (519)
98 PF00600 Flu_NS1: Influenza no 42.4 32 0.00068 25.4 3.0 22 39-60 165-186 (217)
99 PTZ00458 acyl CoA binding prot 42.2 42 0.00091 21.4 3.3 23 39-61 62-84 (90)
100 cd08308 Death_Tube Death domai 41.9 14 0.00031 25.2 1.1 35 28-64 20-55 (125)
101 PRK14857 tatA twin arginine tr 41.3 53 0.0011 21.2 3.6 42 16-62 14-55 (90)
102 PF12451 VPS11_C: Vacuolar pro 41.3 17 0.00037 20.6 1.2 26 12-43 19-44 (49)
103 KOG0488 Transcription factor B 40.8 64 0.0014 24.8 4.6 47 4-54 174-222 (309)
104 PF15508 NAAA-beta: beta subun 39.5 33 0.00072 21.5 2.5 28 30-58 15-42 (95)
105 PF08784 RPA_C: Replication pr 39.5 52 0.0011 20.4 3.4 45 10-57 46-91 (102)
106 COG1654 BirA Biotin operon rep 39.0 39 0.00085 21.1 2.7 35 30-65 19-53 (79)
107 cd08793 Death_IRAK4 Death doma 38.8 50 0.0011 21.7 3.3 24 17-42 10-33 (100)
108 cd08315 Death_TRAILR_DR4_DR5 D 38.5 75 0.0016 20.2 4.0 32 15-48 4-36 (96)
109 cd00580 CHMI 5-carboxymethyl-2 37.7 51 0.0011 21.0 3.2 24 39-62 67-90 (113)
110 cd06257 DnaJ DnaJ domain or J- 37.6 48 0.001 17.7 2.7 20 41-60 10-29 (55)
111 PRK12423 LexA repressor; Provi 37.1 1.3E+02 0.0028 21.0 5.5 48 10-58 5-53 (202)
112 PRK01371 sec-independent trans 36.9 51 0.0011 22.9 3.2 41 16-61 12-52 (137)
113 PF10124 Mu-like_gpT: Mu-like 36.9 11 0.00023 29.1 -0.1 29 14-47 9-37 (291)
114 PRK05716 methionine aminopepti 36.5 1.5E+02 0.0033 20.8 6.2 41 10-58 117-157 (252)
115 PRK14861 tatA twin arginine tr 36.3 68 0.0015 19.1 3.3 43 17-64 14-56 (61)
116 cd07216 Pat17_PNPLA8_PNPLA9_li 35.9 48 0.001 24.6 3.2 27 35-61 54-82 (309)
117 PRK14858 tatA twin arginine tr 35.8 68 0.0015 21.4 3.6 41 16-61 12-52 (108)
118 COG4476 Uncharacterized protei 34.3 1.3E+02 0.0029 19.5 6.1 63 7-69 9-88 (90)
119 COG1003 GcvP Glycine cleavage 34.0 42 0.00091 27.8 2.8 33 40-72 42-74 (496)
120 TIGR02269 Myxococcus xanthus p 33.9 1E+02 0.0022 22.9 4.5 36 30-67 173-208 (211)
121 PRK10664 transcriptional regul 33.5 82 0.0018 19.6 3.6 37 34-71 8-46 (90)
122 PF01726 LexA_DNA_bind: LexA D 33.5 1.1E+02 0.0023 18.1 4.9 47 10-57 5-52 (65)
123 PF10046 BLOC1_2: Biogenesis o 33.0 1.3E+02 0.0027 19.1 4.4 46 11-63 20-69 (99)
124 PHA01632 hypothetical protein 32.9 83 0.0018 19.1 3.3 33 38-70 22-56 (64)
125 PF14164 YqzH: YqzH-like prote 32.7 31 0.00066 21.1 1.4 27 14-41 7-39 (64)
126 TIGR02950 SigM_subfam RNA poly 32.5 1.3E+02 0.0029 19.0 5.4 44 15-60 97-150 (154)
127 PF14966 DNA_repr_REX1B: DNA r 32.4 70 0.0015 20.5 3.2 44 15-66 20-63 (97)
128 PF14552 Tautomerase_2: Tautom 32.3 62 0.0014 20.1 2.8 21 41-61 38-58 (82)
129 PRK15411 rcsA colanic acid cap 32.0 1.5E+02 0.0032 20.7 5.0 45 9-61 138-182 (207)
130 PF14003 YlbE: YlbE-like prote 31.9 81 0.0018 19.3 3.2 31 10-40 21-51 (65)
131 PF05491 RuvB_C: Holliday junc 31.6 57 0.0012 20.5 2.6 43 10-54 7-51 (76)
132 KOG4559 Uncharacterized conser 31.5 1.7E+02 0.0036 19.8 5.9 47 11-64 50-100 (120)
133 PF13748 ABC_membrane_3: ABC t 31.5 58 0.0013 24.5 3.0 29 29-57 169-197 (237)
134 PF02416 MttA_Hcf106: mttA/Hcf 31.5 45 0.00098 19.1 2.0 38 18-60 11-48 (53)
135 PRK11924 RNA polymerase sigma 31.3 1.5E+02 0.0032 19.1 5.1 30 31-61 142-171 (179)
136 PRK09646 RNA polymerase sigma 31.2 1.3E+02 0.0029 20.3 4.6 48 12-61 131-188 (194)
137 PRK12541 RNA polymerase sigma 31.1 1.5E+02 0.0033 19.2 5.0 31 32-63 130-160 (161)
138 TIGR01410 tatB twin arginine-t 30.5 70 0.0015 19.8 2.8 40 17-61 12-51 (80)
139 PF00557 Peptidase_M24: Metall 30.4 1.7E+02 0.0038 19.7 5.4 42 10-59 101-142 (207)
140 cd08777 Death_RIP1 Death Domai 30.4 1.4E+02 0.003 18.6 4.6 18 31-49 14-31 (86)
141 PRK00575 tatA twin arginine tr 30.1 60 0.0013 21.1 2.5 42 16-62 12-53 (92)
142 KOG0385 Chromatin remodeling c 29.8 1.5E+02 0.0031 26.7 5.4 42 7-53 796-837 (971)
143 PF05873 Mt_ATP-synt_D: ATP sy 29.4 74 0.0016 22.1 3.1 30 32-61 11-43 (161)
144 PRK09652 RNA polymerase sigma 29.3 1.6E+02 0.0035 18.9 5.2 30 31-61 145-174 (182)
145 PRK10430 DNA-binding transcrip 29.1 2E+02 0.0043 19.9 5.3 61 9-72 159-222 (239)
146 TIGR03070 couple_hipB transcri 29.0 96 0.0021 16.3 3.5 27 42-68 15-41 (58)
147 smart00271 DnaJ DnaJ molecular 28.8 92 0.002 16.9 2.9 18 42-59 12-29 (60)
148 PRK14064 exodeoxyribonuclease 28.6 57 0.0012 20.1 2.2 24 48-71 8-31 (75)
149 PRK12522 RNA polymerase sigma 28.6 1.2E+02 0.0027 19.9 4.0 48 12-61 108-165 (173)
150 COG1497 Predicted transcriptio 28.5 66 0.0014 24.6 2.9 34 32-66 27-60 (260)
151 PF01638 HxlR: HxlR-like helix 28.2 83 0.0018 19.1 2.9 30 29-58 17-46 (90)
152 PF12324 HTH_15: Helix-turn-he 28.0 1.6E+02 0.0034 18.6 4.1 40 14-55 23-62 (77)
153 COG1722 XseB Exonuclease VII s 27.9 55 0.0012 20.6 2.0 22 49-70 13-34 (81)
154 PRK00199 ihfB integration host 27.5 1.4E+02 0.003 18.3 3.9 38 34-71 8-47 (94)
155 KOG0721 Molecular chaperone (D 27.3 55 0.0012 24.6 2.3 21 39-59 107-127 (230)
156 PF13174 TPR_6: Tetratricopept 27.2 59 0.0013 15.1 1.7 13 14-27 20-32 (33)
157 PF00325 Crp: Bacterial regula 27.1 1E+02 0.0023 16.1 2.9 25 32-57 4-28 (32)
158 TIGR02787 codY_Gpos GTP-sensin 27.0 2.3E+02 0.0051 21.6 5.6 48 9-58 177-225 (251)
159 TIGR00988 hip integration host 26.9 1.5E+02 0.0032 18.1 3.9 38 34-71 8-47 (94)
160 PRK00745 4-oxalocrotonate taut 26.9 1.2E+02 0.0025 16.8 3.2 22 40-61 9-30 (62)
161 PRK10360 DNA-binding transcrip 26.9 1.8E+02 0.0038 18.6 5.0 45 8-60 137-181 (196)
162 PF05138 PaaA_PaaC: Phenylacet 26.8 2.5E+02 0.0054 20.9 5.7 59 10-72 163-228 (263)
163 KOG1724 SCF ubiquitin ligase, 26.5 47 0.001 23.4 1.7 41 12-53 96-140 (162)
164 TIGR02952 Sig70_famx2 RNA poly 26.5 1.8E+02 0.004 18.7 4.8 28 32-60 140-167 (170)
165 KOG3411 40S ribosomal protein 26.5 74 0.0016 22.3 2.6 31 40-72 1-33 (143)
166 PRK00708 sec-independent trans 26.2 1.1E+02 0.0024 22.6 3.7 39 16-59 12-50 (209)
167 PRK09648 RNA polymerase sigma 26.2 2E+02 0.0044 19.1 5.0 30 31-61 156-185 (189)
168 smart00005 DEATH DEATH domain, 26.1 1.5E+02 0.0032 17.4 3.9 19 29-48 16-34 (88)
169 PF13730 HTH_36: Helix-turn-he 25.9 1.2E+02 0.0026 16.3 4.9 24 33-57 28-51 (55)
170 COG1559 Aminodeoxychorismate l 25.8 50 0.0011 25.9 1.9 38 12-50 179-216 (342)
171 PRK12896 methionine aminopepti 25.7 2.4E+02 0.0052 19.8 6.2 44 8-59 120-163 (255)
172 PF13413 HTH_25: Helix-turn-he 25.0 54 0.0012 19.2 1.5 27 41-67 9-35 (62)
173 COG2345 Predicted transcriptio 24.9 1.6E+02 0.0035 21.8 4.3 30 28-58 23-52 (218)
174 COG0193 Pth Peptidyl-tRNA hydr 24.9 1.4E+02 0.003 21.8 3.9 39 7-54 150-188 (190)
175 PRK09641 RNA polymerase sigma 24.9 2.1E+02 0.0045 18.8 5.3 30 30-60 152-181 (187)
176 PRK14068 exodeoxyribonuclease 24.8 73 0.0016 19.7 2.2 22 50-71 10-31 (76)
177 cd01021 GEWL Goose Egg White L 24.5 34 0.00073 24.2 0.7 11 45-55 153-163 (166)
178 PTZ00100 DnaJ chaperone protei 24.3 91 0.002 20.9 2.7 29 31-59 65-93 (116)
179 PRK10803 tol-pal system protei 24.1 1.7E+02 0.0037 21.6 4.4 41 16-57 202-245 (263)
180 TIGR00635 ruvB Holliday juncti 24.1 2.2E+02 0.0047 20.5 4.9 41 13-56 240-281 (305)
181 PRK14066 exodeoxyribonuclease 24.1 77 0.0017 19.5 2.2 22 50-71 8-29 (75)
182 PRK13719 conjugal transfer tra 23.9 2.3E+02 0.0051 20.9 5.0 45 8-60 143-187 (217)
183 PLN02279 ent-kaur-16-ene synth 23.9 1.5E+02 0.0032 25.9 4.5 15 10-24 538-552 (784)
184 PF11842 DUF3362: Domain of un 23.9 1E+02 0.0022 21.7 2.9 26 12-40 41-66 (150)
185 cd08309 Death_IRAK Death domai 23.8 43 0.00093 21.1 1.0 13 29-41 22-34 (95)
186 COG5201 SKP1 SCF ubiquitin lig 23.8 53 0.0011 23.2 1.5 42 12-53 91-135 (158)
187 PHA02564 V virion protein; Pro 23.6 1.1E+02 0.0025 21.1 3.1 37 33-70 88-128 (141)
188 PF08424 NRDE-2: NRDE-2, neces 23.5 3E+02 0.0065 20.6 5.7 57 8-66 78-139 (321)
189 PRK14069 exodeoxyribonuclease 23.4 78 0.0017 20.6 2.2 22 50-71 12-33 (95)
190 PF11112 PyocinActivator: Pyoc 23.4 1.2E+02 0.0025 18.8 2.9 15 59-73 34-48 (76)
191 PRK00080 ruvB Holliday junctio 23.4 2E+02 0.0043 21.4 4.6 50 10-62 258-307 (328)
192 PRK09642 RNA polymerase sigma 23.3 2.1E+02 0.0046 18.3 4.7 44 16-61 99-152 (160)
193 PHA02943 hypothetical protein; 23.3 36 0.00078 24.4 0.6 46 33-79 27-74 (165)
194 COG3620 Predicted transcriptio 23.3 1.3E+02 0.0029 21.9 3.6 39 29-68 6-44 (187)
195 KOG1540 Ubiquinone biosynthesi 23.2 61 0.0013 25.2 1.9 43 10-61 216-258 (296)
196 TIGR01636 phage_rinA phage tra 23.2 2.3E+02 0.005 18.7 5.8 30 31-61 101-130 (134)
197 COG2255 RuvB Holliday junction 23.0 2E+02 0.0042 22.9 4.6 60 9-70 258-319 (332)
198 TIGR02983 SigE-fam_strep RNA p 23.0 2E+02 0.0043 18.5 4.1 29 33-62 129-157 (162)
199 PF02609 Exonuc_VII_S: Exonucl 22.9 74 0.0016 17.9 1.8 20 50-69 3-22 (53)
200 KOG1577 Aldo/keto reductase fa 22.7 1.2E+02 0.0026 23.5 3.4 57 8-73 187-256 (300)
201 PRK15201 fimbriae regulatory p 22.7 2.7E+02 0.0058 20.6 5.0 46 8-61 133-178 (198)
202 TIGR03042 PS_II_psbQ_bact phot 22.7 1.1E+02 0.0023 21.3 2.8 30 34-63 83-112 (142)
203 PRK12516 RNA polymerase sigma 22.5 2.6E+02 0.0055 19.0 4.8 46 14-61 107-162 (187)
204 PRK14102 nifW nitrogenase stab 22.4 1.9E+02 0.0042 19.1 3.9 28 31-58 43-70 (105)
205 PRK00977 exodeoxyribonuclease 22.3 88 0.0019 19.4 2.2 21 50-70 14-34 (80)
206 cd01087 Prolidase Prolidase. E 22.2 2.8E+02 0.0062 19.4 6.2 42 8-57 100-141 (243)
207 PRK06266 transcription initiat 22.0 1.2E+02 0.0026 21.4 3.0 25 33-58 39-63 (178)
208 PRK10753 transcriptional regul 22.0 1.8E+02 0.004 17.9 3.7 37 34-71 8-46 (90)
209 PF08535 KorB: KorB domain; I 21.9 75 0.0016 19.5 1.8 34 34-68 7-43 (93)
210 COG4710 Predicted DNA-binding 21.5 1.4E+02 0.003 19.0 3.0 35 26-61 13-51 (80)
211 PF13340 DUF4096: Putative tra 21.4 81 0.0018 18.7 1.9 16 29-44 2-17 (75)
212 PRK10100 DNA-binding transcrip 21.2 3E+02 0.0065 19.5 5.1 45 9-61 156-200 (216)
213 TIGR01280 xseB exodeoxyribonuc 21.2 98 0.0021 18.5 2.2 21 51-71 6-26 (67)
214 cd01090 Creatinase Creatine am 21.0 3.1E+02 0.0068 19.4 6.1 42 9-58 107-148 (228)
215 PF08679 DsrD: Dissimilatory s 20.9 1.6E+02 0.0034 18.2 3.0 27 33-59 22-48 (67)
216 PF01381 HTH_3: Helix-turn-hel 20.8 1.1E+02 0.0025 16.2 2.3 26 42-67 9-34 (55)
217 PF15313 HEXIM: Hexamethylene 20.7 78 0.0017 21.5 1.8 27 37-63 98-124 (124)
218 PF11334 DUF3136: Protein of u 20.7 1.7E+02 0.0037 17.9 3.1 23 31-53 37-61 (64)
219 PF02954 HTH_8: Bacterial regu 20.6 1.5E+02 0.0033 15.6 3.9 35 13-53 6-40 (42)
220 PRK14063 exodeoxyribonuclease 20.5 1E+02 0.0022 19.0 2.2 22 50-71 9-30 (76)
221 cd00491 4Oxalocrotonate_Tautom 20.5 1.6E+02 0.0035 15.8 3.2 22 40-61 8-29 (58)
222 PF11740 KfrA_N: Plasmid repli 20.5 2.3E+02 0.005 17.7 5.8 57 16-73 6-63 (120)
223 PRK12534 RNA polymerase sigma 20.4 2.7E+02 0.0058 18.4 4.7 46 14-61 128-183 (187)
224 cd07211 Pat_PNPLA8 Patatin-lik 20.3 1.3E+02 0.0027 22.2 3.0 26 35-60 53-80 (308)
225 cd08318 Death_NMPP84 Death dom 20.2 2.2E+02 0.0049 17.4 4.7 17 31-48 19-35 (86)
226 PRK01770 sec-independent trans 20.2 1.7E+02 0.0036 21.0 3.5 40 16-60 12-51 (171)
227 KOG2527 Sorting nexin SNX11 [I 20.2 1.4E+02 0.003 21.0 3.0 33 46-78 54-88 (144)
228 COG1426 Predicted transcriptio 20.1 1.5E+02 0.0034 22.3 3.5 37 31-68 6-42 (284)
229 COG2461 Uncharacterized conser 20.0 1.5E+02 0.0032 24.2 3.5 37 12-63 4-40 (409)
No 1
>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=99.51 E-value=3.7e-14 Score=80.56 Aligned_cols=46 Identities=24% Similarity=0.563 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVP-TKTIDEIKVHFKKLM 56 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vp-gKS~~ev~~ry~~L~ 56 (81)
..||.+|+.+|..|+.+| +.+ +|.+||..|| |||..||+.||..++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~-g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKY-GKD---NWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHS-TTT---HHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHh-CCc---HHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 579999999999999999 543 7999999999 999999999999873
No 2
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.34 E-value=3.6e-12 Score=69.34 Aligned_cols=46 Identities=24% Similarity=0.531 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLM 56 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~ 56 (81)
..||.+|+.+|..++.+| +. .+|..||..+|+||..+|+.||..++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~-g~---~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKY-GK---NNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHH-Cc---CCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 579999999999999999 53 46999999999999999999999875
No 3
>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=99.27 E-value=1.3e-11 Score=66.40 Aligned_cols=44 Identities=25% Similarity=0.549 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
.||.+|++.|..++.+| +. .+|..||..+|+||..+|+.||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~-g~---~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKY-GK---NNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHH-Cc---CCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 59999999999999999 53 4699999999999999999999876
No 4
>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=98.97 E-value=1.8e-09 Score=62.96 Aligned_cols=41 Identities=22% Similarity=0.475 Sum_probs=35.5
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
||.+|+.+|..++..| +. .|.+||..||.||..+|+.||..
T Consensus 1 WT~eEd~~L~~~~~~~-g~----~W~~Ia~~l~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKY-GN----DWKKIAEHLGNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHH-TS-----HHHHHHHSTTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHH-Cc----CHHHHHHHHCcCCHHHHHHHHHH
Confidence 9999999999999999 42 69999999966999999999999
No 5
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.85 E-value=1.1e-08 Score=76.40 Aligned_cols=53 Identities=17% Similarity=0.201 Sum_probs=46.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 3 GSNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 3 ~~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
+.....||.||+.++..+...| + .+|.+||..|||||..+|++||..++....
T Consensus 75 ~I~kgpWT~EED~lLlel~~~~-G----nKWs~IAk~LpGRTDnqIKNRWns~LrK~l 127 (249)
T PLN03212 75 SVKRGGITSDEEDLILRLHRLL-G----NRWSLIAGRIPGRTDNEIKNYWNTHLRKKL 127 (249)
T ss_pred hcccCCCChHHHHHHHHHHHhc-c----ccHHHHHhhcCCCCHHHHHHHHHHHHhHHH
Confidence 4567899999999999998888 3 589999999999999999999998887653
No 6
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=8e-09 Score=77.48 Aligned_cols=68 Identities=22% Similarity=0.393 Sum_probs=63.8
Q ss_pred CCCCHHHHHHHHHHHHhhccCC----CchHHHHHHHhCCC-CCHHHHHHHHHHHHHHHhhhhcCCCCCCCCccc
Q 040518 7 KQWSWEENKAFENGVALYYKEG----QDEEWVKIHSLVPT-KTIDEIKVHFKKLMEDLELIEFGFEPVSIDYHQ 75 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~----~~~RWekIA~~vpg-KS~~ev~~ry~~L~~dv~~Ie~g~v~~P~~~~~ 75 (81)
..|+.++.+.|++||+.| ... ++++|.++++.||+ ++..+++.+|..++.||..|++|+++||.|...
T Consensus 32 ~~~~~~~~k~i~ka~~i~-~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~ 104 (335)
T KOG0724|consen 32 SLWTEEEFKKIEKALAIL-DDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKS 104 (335)
T ss_pred hhhHHHHHHHHHHHHHHH-hccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCcc
Confidence 559999999999999999 544 89999999999999 999999999999999999999999999999774
No 7
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.80 E-value=1.7e-08 Score=73.48 Aligned_cols=47 Identities=26% Similarity=0.375 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLM 56 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~ 56 (81)
-...||.||+.++.++.+.+ + +||..||..|||||..+||+|++--+
T Consensus 61 krg~fT~eEe~~Ii~lH~~~-G----NrWs~IA~~LPGRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 61 KRGNFSDEEEDLIIKLHALL-G----NRWSLIAGRLPGRTDNEVKNHWNTHL 107 (238)
T ss_pred cCCCCCHHHHHHHHHHHHHH-C----cHHHHHHhhCCCcCHHHHHHHHHHHH
Confidence 45689999999999999999 3 69999999999999999999998664
No 8
>PLN03091 hypothetical protein; Provisional
Probab=98.72 E-value=5.8e-08 Score=77.54 Aligned_cols=52 Identities=19% Similarity=0.301 Sum_probs=46.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 3 GSNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 3 ~~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
+.....||.||+.+|..+.++| + .+|.+||..|||||..+||+||..+++..
T Consensus 64 ~IkKgpWT~EED~lLLeL~k~~-G----nKWskIAk~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 64 DLKRGTFSQQEENLIIELHAVL-G----NRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred cccCCCCCHHHHHHHHHHHHHh-C----cchHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 3456789999999999999999 4 48999999999999999999999887764
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.68 E-value=3.1e-08 Score=74.08 Aligned_cols=49 Identities=10% Similarity=0.239 Sum_probs=42.7
Q ss_pred CCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhC-CCCCHHHHHHHHHHHH
Q 040518 4 SNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLV-PTKTIDEIKVHFKKLM 56 (81)
Q Consensus 4 ~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~v-pgKS~~ev~~ry~~L~ 56 (81)
.....||+|||.+|..++++| +. .+|..||..+ ||||.+||++||...+
T Consensus 23 lKRg~WT~EEDe~L~~lV~ky-G~---~nW~~IAk~~g~gRT~KQCReRW~N~L 72 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKE-GE---GRWRSLPKRAGLLRCGKSCRLRWMNYL 72 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHh-Cc---ccHHHHHHhhhcCCCcchHHHHHHHhh
Confidence 345689999999999999999 43 5799999988 5999999999998765
No 10
>PLN03091 hypothetical protein; Provisional
Probab=98.37 E-value=3.9e-07 Score=72.85 Aligned_cols=48 Identities=13% Similarity=0.304 Sum_probs=41.3
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVP-TKTIDEIKVHFKKLM 56 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vp-gKS~~ev~~ry~~L~ 56 (81)
....||.|||++|..++.+| +. ..|..||..++ |||.+||++||...+
T Consensus 13 rKg~WTpEEDe~L~~~V~ky-G~---~nWs~IAk~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 13 RKGLWSPEEDEKLLRHITKY-GH---GCWSSVPKQAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHh-Cc---CCHHHHhhhhccCcCcchHhHHHHhcc
Confidence 34579999999999999999 54 47999999884 899999999998543
No 11
>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=98.28 E-value=4.3e-06 Score=49.87 Aligned_cols=47 Identities=21% Similarity=0.397 Sum_probs=39.5
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHH---HHHHHhCCC-C-CHHHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEW---VKIHSLVPT-K-TIDEIKVHFKKLM 56 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RW---ekIA~~vpg-K-S~~ev~~ry~~L~ 56 (81)
+-.||.||...|..||..| +.+ .| .+|++.+.. + |..+|+.|+++..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~-G~g---~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKL-GGP---DWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHh-CCC---cccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4579999999999999999 532 39 999998753 5 9999999999764
No 12
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.09 E-value=1e-05 Score=64.58 Aligned_cols=58 Identities=24% Similarity=0.381 Sum_probs=47.9
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCCCCCC
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEPVSID 72 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~~ 72 (81)
...||.+|.-+|..|+..| +-| .|+-||..|+.||.++|++||.+.. |++-..|+|.-
T Consensus 72 ~~~WtadEEilLLea~~t~-G~G---NW~dIA~hIGtKtkeeck~hy~k~f-----v~s~~~~~~~i 129 (438)
T KOG0457|consen 72 DPSWTADEEILLLEAAETY-GFG---NWQDIADHIGTKTKEECKEHYLKHF-----VNSPIFPLPDI 129 (438)
T ss_pred CCCCChHHHHHHHHHHHHh-CCC---cHHHHHHHHcccchHHHHHHHHHHH-----hcCcccccccc
Confidence 4579999999999999999 554 4999999998899999999998753 45556666643
No 13
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.07 E-value=5.7e-06 Score=66.88 Aligned_cols=44 Identities=34% Similarity=0.640 Sum_probs=40.7
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
..||.+|.-+|..++.+| + +.|.+||..|+.||++||+-||..|
T Consensus 280 k~WS~qE~~LLLEGIe~y-g----DdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMY-G----DDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHh-h----hhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 479999999999999999 3 6899999999889999999999865
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.94 E-value=8.4e-06 Score=59.43 Aligned_cols=47 Identities=9% Similarity=0.236 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVP-TKTIDEIKVHFKKLM 56 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vp-gKS~~ev~~ry~~L~ 56 (81)
.+.||.|||..|...+.+| ++ .+|..||..+| ||+.++|+.||-..+
T Consensus 9 kGpWt~EED~~L~~~V~~~-G~---~~W~~i~k~~gl~R~GKSCRlRW~NyL 56 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSF-GK---HNGTALPKLAGLRRCGKSCRLRWTNYL 56 (238)
T ss_pred CCCCChHHHHHHHHHHHHh-CC---CCcchhhhhcCCCccchHHHHHhhccc
Confidence 4889999999999999999 44 48999999999 999999999997654
No 15
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.81 E-value=3.5e-05 Score=62.54 Aligned_cols=48 Identities=23% Similarity=0.512 Sum_probs=43.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 3 GSNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 3 ~~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
.+....||.+|.-+|..++.+| . +.|.+||..|.+||.+||+-||..|
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y-~----ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMY-G----DDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHh-c----ccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3456789999999999999999 3 5799999999999999999999865
No 16
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.77 E-value=5.2e-05 Score=63.91 Aligned_cols=52 Identities=15% Similarity=0.482 Sum_probs=45.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 2 SGSNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 2 ~~~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
+|.+.+.||.+||.+|-.|+++| +. ..|-+|-+.|||||..||+.||...+.
T Consensus 356 Psikhg~wt~~ED~~L~~AV~~Y-g~---kdw~k~R~~vPnRSdsQcR~RY~nvL~ 407 (939)
T KOG0049|consen 356 PSVKHGRWTDQEDVLLVCAVSRY-GA---KDWAKVRQAVPNRSDSQCRERYTNVLN 407 (939)
T ss_pred ccccCCCCCCHHHHHHHHHHHHh-Cc---cchhhHHHhcCCccHHHHHHHHHHHHH
Confidence 45677889999999999999999 33 579999999999999999999986543
No 17
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=97.54 E-value=0.00019 Score=60.87 Aligned_cols=48 Identities=17% Similarity=0.391 Sum_probs=40.6
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
.+..||+.|.++|.+||..| .+ .+.+|+..|+|||+.||.+.|-.-..
T Consensus 618 gSd~WTp~E~~lF~kA~y~~-~K----DF~~v~km~~~KtVaqCVeyYYtWKK 665 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTY-SK----DFIFVQKMVKSKTVAQCVEYYYTWKK 665 (907)
T ss_pred CcccccHHHHHHHHHHHHHh-cc----cHHHHHHHhccccHHHHHHHHHHHHH
Confidence 34579999999999999999 54 58999999999999999988754333
No 18
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.40 E-value=0.00035 Score=55.03 Aligned_cols=56 Identities=21% Similarity=0.414 Sum_probs=46.8
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCCCCC
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
..|+.+|.-+|..++... +-| .|+-||..|+.|+++||+.||-+.. |||..+|+|.
T Consensus 64 e~WgadEEllli~~~~Tl-GlG---NW~dIadyiGsr~kee~k~HylK~y-----~es~~ypl~~ 119 (432)
T COG5114 64 EGWGADEELLLIECLDTL-GLG---NWEDIADYIGSRAKEEIKSHYLKMY-----DESKYYPLPD 119 (432)
T ss_pred CCcCchHHHHHHHHHHhc-CCC---cHHHHHHHHhhhhhHHHHHHHHHHH-----hhcccccccc
Confidence 479999999999999777 433 5999999998899999999998764 5677777765
No 19
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.31 E-value=0.00072 Score=41.34 Aligned_cols=59 Identities=17% Similarity=0.301 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHHh--h---cc--CCC--chHHHHHHHhCC----CCCHHHHHHHHHHHHHHHhhhhcC
Q 040518 7 KQWSWEENKAFENGVAL--Y---YK--EGQ--DEEWVKIHSLVP----TKTIDEIKVHFKKLMEDLELIEFG 65 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~--~---~p--~~~--~~RWekIA~~vp----gKS~~ev~~ry~~L~~dv~~Ie~g 65 (81)
..||.+|..+|..+... + .. ... ..-|+.||..|- .||+.||+.+++.|..+.+.+...
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~ 73 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDR 73 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 47999999999988777 2 02 122 237999999874 499999999999999999987554
No 20
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.69 E-value=0.0074 Score=36.44 Aligned_cols=54 Identities=20% Similarity=0.319 Sum_probs=44.3
Q ss_pred CCCCHHHHHHHHHHHHhhccCC-------------CchHHHHHHHhC----C-CCCHHHHHHHHHHHHHHHhh
Q 040518 7 KQWSWEENKAFENGVALYYKEG-------------QDEEWVKIHSLV----P-TKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~-------------~~~RWekIA~~v----p-gKS~~ev~~ry~~L~~dv~~ 61 (81)
..||.+|..+|...+.+| +.- ...-|+.||..| | .||..+|+..|..|...++.
T Consensus 3 ~~fs~~E~~~Lv~~v~~~-~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKH-KDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCHHHHHHHHHHHHHh-HHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 569999999999998888 321 245799999877 3 39999999999999988765
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.58 E-value=0.0031 Score=52.02 Aligned_cols=48 Identities=23% Similarity=0.516 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
+..|+.-|+.++..|+.+| +. +.|.+||+.++-||+.+|+.||.+.+.
T Consensus 7 ggvwrntEdeilkaav~ky-g~---nqws~i~sll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKY-GK---NQWSRIASLLNRKTARQCKARWEEWLD 54 (617)
T ss_pred cceecccHHHHHHHHHHHc-ch---HHHHHHHHHHhhcchhHHHHHHHHHhC
Confidence 4679999999999999999 43 689999999999999999999986543
No 22
>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=96.49 E-value=0.014 Score=39.29 Aligned_cols=58 Identities=21% Similarity=0.316 Sum_probs=47.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhC------------CCCCHHHHHHHHHHHHHHHhh
Q 040518 3 GSNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLV------------PTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 3 ~~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~v------------pgKS~~ev~~ry~~L~~dv~~ 61 (81)
+.++..+|.+||+.+..++.+| +-+.++.|++|-+.+ -.||+.++.+|...|+.-|..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~-G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKY-GYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHH-TTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred CCCCCCcCcHHHHHHHHHHHHh-CCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 4566789999999999999999 888899999998864 368999999999999877653
No 23
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.42 E-value=0.0033 Score=51.88 Aligned_cols=56 Identities=16% Similarity=0.350 Sum_probs=46.1
Q ss_pred CCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcC
Q 040518 4 SNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFG 65 (81)
Q Consensus 4 ~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g 65 (81)
.....||.+|+..+..+-..+ | ..|.-||..| |||..+|.+||..|+.....-..+
T Consensus 57 i~~tews~eederlLhlakl~-p----~qwrtIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 57 IKKTEWSREEDERLLHLAKLE-P----TQWRTIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred HhhhhhhhhHHHHHHHHHHhc-C----CccchHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 345689999999888776555 4 5899999999 999999999999999887665444
No 24
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.09 E-value=0.017 Score=50.45 Aligned_cols=46 Identities=24% Similarity=0.296 Sum_probs=39.4
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLM 56 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~ 56 (81)
+.||.-+=..|.+|..+| +. +.-+.||..|.|||++||+..++..-
T Consensus 825 ~~w~~~~f~~f~~~~~~~-gr---~~~~~i~~~~~~k~~~ev~~y~~~f~ 870 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKY-GR---NDIKSIASEMEGKTEEEVERYAKVFW 870 (1033)
T ss_pred CcccHHHHHHHHHHHHHh-CH---hHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 469999999999999999 54 56999999999999999986555444
No 25
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=96.09 E-value=0.0099 Score=48.59 Aligned_cols=52 Identities=21% Similarity=0.345 Sum_probs=45.9
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
....||.+|++.+..+-.++ + .+|.-||..+||+|..+|.++|..+.++...
T Consensus 71 k~~~~~~eed~~li~l~~~~-~----~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 71 KKKNWSEEEDEQLIDLDKEL-G----TQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred ccccccHHHHHHHHHHHHhc-C----chhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 45679999999998887777 3 4699999999999999999999999998877
No 26
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.81 E-value=0.015 Score=48.45 Aligned_cols=48 Identities=13% Similarity=0.315 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
.++.||++|++.|-+..+++ + .+|..|+..| ||.+.+|+.||...+.-
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~-g----~~W~~Ig~~l-gr~P~~crd~wr~~~~~ 430 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEH-G----NDWKEIGKAL-GRMPMDCRDRWRQYVKC 430 (607)
T ss_pred ccCCCCcchHHHHHHHHHHh-c----ccHHHHHHHH-ccCcHHHHHHHHHhhcc
Confidence 46789999999999999888 3 4899999999 99999999999887653
No 27
>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=95.74 E-value=0.024 Score=34.92 Aligned_cols=55 Identities=20% Similarity=0.311 Sum_probs=42.4
Q ss_pred CCCHHHHHHHHHHHHhhc-----c-CC--CchHHHHHHHhCC---C--CCHHHHHHHHHHHHHHHhhh
Q 040518 8 QWSWEENKAFENGVALYY-----K-EG--QDEEWVKIHSLVP---T--KTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~-----p-~~--~~~RWekIA~~vp---g--KS~~ev~~ry~~L~~dv~~I 62 (81)
.||+++.+.|..+|.... | .+ .+.-|..|+..|- | .|..+|++||+.|..+-..+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~ 68 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIW 68 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHH
Confidence 499999999988876551 2 11 4678999998763 3 57899999999999887765
No 28
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=95.29 E-value=0.036 Score=45.29 Aligned_cols=44 Identities=16% Similarity=0.461 Sum_probs=38.8
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
..||.||.-+|++|...| ++ ++.+|-+.||-||...++..|-..
T Consensus 188 d~WT~Ed~vlFe~aF~~~-GK----~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 188 DEWTAEDIVLFEQAFQFF-GK----DFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred ccchHHHHHHHHHHHHHh-cc----cHHHHHHHccCccHHHHHHHHHHH
Confidence 479999999999999999 54 799999999999999998877543
No 29
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.24 E-value=0.043 Score=46.88 Aligned_cols=52 Identities=25% Similarity=0.580 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHH-HHHHHHHHHHhh
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIK-VHFKKLMEDLEL 61 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~-~ry~~L~~dv~~ 61 (81)
...||-.|+..|-.++.+| +.| .|-+||..||.||..|.. .|-+.++..+..
T Consensus 412 ~~rW~l~edeqL~~~V~~Y-G~g---~WakcA~~Lp~~t~~q~~rrR~R~~~~k~rl 464 (939)
T KOG0049|consen 412 VERWTLVEDEQLLYAVKVY-GKG---NWAKCAMLLPKKTSRQLRRRRLRLIAAKLRL 464 (939)
T ss_pred cCceeecchHHHHHHHHHH-ccc---hHHHHHHHccccchhHHHHHHHHHHHHHHHH
Confidence 4579999999999999999 554 699999999999997754 344445544443
No 30
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.77 E-value=0.091 Score=42.46 Aligned_cols=45 Identities=27% Similarity=0.515 Sum_probs=39.7
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
....||.+|...|=+||.++ + + .+..|++.+|.|+..||+..|.+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~w-G--t--dF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIW-G--T--DFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CCCcccHHHHHHHHHHHHHh-c--c--hHHHHHHhcCchhHHHHHHHHHH
Confidence 34579999999999999999 3 3 68999999999999999998874
No 31
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=94.28 E-value=0.093 Score=42.10 Aligned_cols=45 Identities=29% Similarity=0.497 Sum_probs=36.8
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHH-HHhCCCCCHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKI-HSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekI-A~~vpgKS~~ev~~ry~~ 54 (81)
....||.+|=+.||..|..| +++ +-.| |..|+.||+-+|...|-.
T Consensus 276 ~l~~wsEeEcr~FEegl~~y-GKD----F~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 276 DLSGWSEEECRNFEEGLELY-GKD----FHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccccCCHHHHHHHHHHHHHh-ccc----HHHHHhcccccchHHHHHHHHHH
Confidence 45679999999999999999 653 4444 678999999999987753
No 32
>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=93.70 E-value=0.14 Score=36.46 Aligned_cols=51 Identities=18% Similarity=0.320 Sum_probs=41.4
Q ss_pred CCCCCHHHHHHHHHHHHhhccCC--CchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEG--QDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~--~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
...||.|||.+|-..+-.|.-.| .-.-++-+|..| +||...|-=||+..|.
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHH
Confidence 35799999999998888884333 246789999999 8999999888888776
No 33
>smart00595 MADF subfamily of SANT domain.
Probab=93.35 E-value=0.17 Score=30.84 Aligned_cols=28 Identities=21% Similarity=0.455 Sum_probs=23.8
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
.-|..||..+ |.|+++|+.+++.|....
T Consensus 28 ~aW~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 28 KAWEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 4699999999 669999999999886543
No 34
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=92.61 E-value=0.31 Score=41.34 Aligned_cols=55 Identities=22% Similarity=0.501 Sum_probs=45.4
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHH----------HHhCCCCCHHHHHHHHHHHHHHHhhhhcC
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKI----------HSLVPTKTIDEIKVHFKKLMEDLELIEFG 65 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekI----------A~~vpgKS~~ev~~ry~~L~~dv~~Ie~g 65 (81)
...||..|...|-.||.+| ++ .+++| -..+--||..+|+.||-.++.-+...-.|
T Consensus 88 ktaWt~~E~~~Ffdal~~~-GK----dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~F~ 152 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQV-GK----DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLLFG 152 (782)
T ss_pred ccccchhhHHHHHHHHHHh-cc----cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 4579999999999999999 65 47888 55666699999999999888877765544
No 35
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.13 E-value=0.77 Score=34.75 Aligned_cols=61 Identities=11% Similarity=0.125 Sum_probs=45.5
Q ss_pred CCCCCHHHHHHHHHHHHhhc-----cCCCchHHHHHHHhCC--C--CCHHHHHHHHHHHHHHHhhhhcCC
Q 040518 6 QKQWSWEENKAFENGVALYY-----KEGQDEEWVKIHSLVP--T--KTIDEIKVHFKKLMEDLELIEFGF 66 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~-----p~~~~~RWekIA~~vp--g--KS~~ev~~ry~~L~~dv~~Ie~g~ 66 (81)
...||.+|-..|..+....+ ......-|+.||..+. | ||..+|+.+++.|..-.+....+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~ 123 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKK 123 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhccc
Confidence 37899999999888854432 1112445999998432 3 999999999999999999865553
No 36
>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=90.93 E-value=0.99 Score=35.52 Aligned_cols=54 Identities=13% Similarity=0.233 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHhhccCC-CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 6 QKQWSWEENKAFENGVALYYKEG-QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~-~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
...||.-|.+.|.++|..- ... .+| -..||..|+|||..||+..-+.|..-|.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar-~g~~epd-~ael~~~l~~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQAR-RGQPEPD-AAELAKELPGRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHh-cCCCCcC-HHHHHhhccCcCHHHHHHHHHHHHHHHHH
Confidence 3579999999999998766 222 344 34599999999999999999988887765
No 37
>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=90.82 E-value=0.86 Score=27.60 Aligned_cols=50 Identities=14% Similarity=0.253 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHHHHHhhccC----CCchHHHHHHHhCC-CCCHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKE----GQDEEWVKIHSLVP-TKTIDEIKVHFKKLM 56 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~----~~~~RWekIA~~vp-gKS~~ev~~ry~~L~ 56 (81)
...|.+||.++..-++.+.+. ....=|..+|+.-| ..|-...++||..-+
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L 57 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHL 57 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 568999999999999776211 24677999999988 899999999997544
No 38
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=90.36 E-value=0.62 Score=33.37 Aligned_cols=49 Identities=8% Similarity=0.172 Sum_probs=38.8
Q ss_pred CCCCHHHHHHHHHHHHhhccCCC---chHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQ---DEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~---~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
..||.|++.+|...+-.| -... -+-.+.++..| +||.-.|--||+..+.
T Consensus 6 dawt~e~d~llae~vl~~-i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vr 57 (170)
T PRK13923 6 DAWTQERDGLLAEVVLRH-IREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhhHHHHHHHHHHHHH-HhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHH
Confidence 469999999998888888 3332 35567778888 8999999999976664
No 39
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=90.34 E-value=0.47 Score=39.82 Aligned_cols=54 Identities=22% Similarity=0.372 Sum_probs=41.3
Q ss_pred CCCCCCHHHHHHHHHHHH-------hh-----------ccCC---CchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVA-------LY-----------YKEG---QDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~-------~~-----------~p~~---~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
.+..||-||...|.+++. +| -|.+ .+=.|.-|++.+.+|+..+|+.+|..|+-.
T Consensus 435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 435 NRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTS 509 (607)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhh
Confidence 677899999998888773 22 0221 344799999999889999999998887643
No 40
>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=89.22 E-value=0.76 Score=26.99 Aligned_cols=32 Identities=22% Similarity=0.427 Sum_probs=25.8
Q ss_pred chHHHHHHHhCCC-CCHHHHHHHHHHHHHHHhh
Q 040518 30 DEEWVKIHSLVPT-KTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 30 ~~RWekIA~~vpg-KS~~ev~~ry~~L~~dv~~ 61 (81)
.+-|..||..+++ -++++|+.+++.|......
T Consensus 26 ~~aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~ 58 (85)
T PF10545_consen 26 EEAWQEIARELGKEFSVDDCKKRWKNLRDRYRR 58 (85)
T ss_pred HHHHHHHHHHHccchhHHHHHHHHHHHHHHHHH
Confidence 3569999999964 6889999999988876544
No 41
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=88.43 E-value=0.28 Score=40.31 Aligned_cols=44 Identities=18% Similarity=0.334 Sum_probs=37.9
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~ 53 (81)
.+.|+..||..+..+...| .++.|.+||+.++-++.++|+.|+.
T Consensus 20 ~gsw~~~EDe~l~~~vk~l----~~nnws~vas~~~~~~~kq~~~rw~ 63 (512)
T COG5147 20 GGSWKRTEDEDLKALVKKL----GPNNWSKVASLLISSTGKQSSNRWN 63 (512)
T ss_pred CCCCCCcchhHHHHHHhhc----ccccHHHHHHHhcccccccccchhh
Confidence 3579999999999998888 3455999999998899999999984
No 42
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=88.21 E-value=0.65 Score=38.68 Aligned_cols=44 Identities=20% Similarity=0.366 Sum_probs=35.2
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~ 53 (81)
...||..|-.+||.||.+| +++.. +-=+.+||=||..++.+.|-
T Consensus 285 mEEWSasEanLFEeALeKy-GKDFn---dIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 285 MEEWSASEANLFEEALEKY-GKDFN---DIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhhccchhhHHHHHHHHHh-cccHH---HHHHhhcchHHHHHHHHHHH
Confidence 4579999999999999999 66532 23367889999999987774
No 43
>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=85.21 E-value=1.9 Score=23.71 Aligned_cols=37 Identities=3% Similarity=0.104 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
|+.+..+|..- ..-.+..||+.| |-|...|.+|.+.|
T Consensus 5 D~~Il~~Lq~d----~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 5 DRKILRLLQED----GRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHH-----TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHc----CCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 45556666544 345699999999 99999999999887
No 44
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=85.10 E-value=3.1 Score=26.77 Aligned_cols=71 Identities=15% Similarity=0.281 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHhhc-cCC--CchHHHH----HHHhCCC-CCHHHHHHHHHHHHHH----HhhhhcCCCCCCCCc
Q 040518 6 QKQWSWEENKAFENGVALYY-KEG--QDEEWVK----IHSLVPT-KTIDEIKVHFKKLMED----LELIEFGFEPVSIDY 73 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~-p~~--~~~RWek----IA~~vpg-KS~~ev~~ry~~L~~d----v~~Ie~g~v~~P~~~ 73 (81)
...||.++.-.|.++|..|- ..| ....|.. |...+.- =|..|+....+.|... +..+..|..|.|.-.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k~~~g~~~~~~~~ 83 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKKSKNGKDPSFSKP 83 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhhcccCcCCCCCCH
Confidence 34699999999999999992 112 1133444 4444432 3677776665555443 333567887777666
Q ss_pred ccc
Q 040518 74 HQQ 76 (81)
Q Consensus 74 ~~~ 76 (81)
+|+
T Consensus 84 hd~ 86 (98)
T PF04504_consen 84 HDR 86 (98)
T ss_pred hHH
Confidence 553
No 45
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=85.06 E-value=4.6 Score=22.13 Aligned_cols=47 Identities=15% Similarity=0.185 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
...+|.++..+|+...... +.-+...=+.||..+ |-|..+|..-|..
T Consensus 4 r~~~~~~~~~~Le~~f~~~-~~P~~~~~~~la~~~-~l~~~qV~~WF~n 50 (59)
T cd00086 4 RTRFTPEQLEELEKEFEKN-PYPSREEREELAKEL-GLTERQVKIWFQN 50 (59)
T ss_pred CCcCCHHHHHHHHHHHHhC-CCCCHHHHHHHHHHH-CcCHHHHHHHHHH
Confidence 4568999999999998888 766778889999999 8999999887664
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=85.06 E-value=0.64 Score=37.56 Aligned_cols=50 Identities=16% Similarity=0.273 Sum_probs=38.4
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHh-----CCC-CCHHHHHHHHHHHHHHHhh
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSL-----VPT-KTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~-----vpg-KS~~ev~~ry~~L~~dv~~ 61 (81)
..||.+|-..|=..-..| +- ||-.||.+ .+. ||++|+++||=..+..+..
T Consensus 131 n~WskeETD~LF~lck~f-DL----Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~k 186 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRF-DL----RFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLK 186 (445)
T ss_pred ccccHHHHHHHHHHHHhc-Ce----eEEEEeeccchhhccccccHHHHHHHHHHHHHHHHH
Confidence 569999988555555777 43 66666665 666 9999999999988887765
No 47
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=83.76 E-value=5.6 Score=22.06 Aligned_cols=47 Identities=17% Similarity=0.150 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
...+|.++.+.|+...... +.-+...-+.||..+ |-|..+|..=|..
T Consensus 4 r~~~t~~q~~~L~~~f~~~-~~p~~~~~~~la~~l-~l~~~~V~~WF~n 50 (57)
T PF00046_consen 4 RTRFTKEQLKVLEEYFQEN-PYPSKEEREELAKEL-GLTERQVKNWFQN 50 (57)
T ss_dssp SSSSSHHHHHHHHHHHHHS-SSCHHHHHHHHHHHH-TSSHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHh-ccccccccccccccc-cccccccccCHHH
Confidence 4568999999999998877 666778899999999 9999999877664
No 48
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=82.26 E-value=4.7 Score=27.58 Aligned_cols=48 Identities=13% Similarity=0.161 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+.++.++| -..| ......-|..||..+ ..+...|+..+....++|..
T Consensus 82 l~de~k~Ii---~lry-~~r~~~TW~~IA~~l-~i~erta~r~~~~fK~~i~~ 129 (130)
T PF05263_consen 82 LIDEEKRII---KLRY-DRRSRRTWYQIAQKL-HISERTARRWRDRFKNDIYR 129 (130)
T ss_pred hCHHHHHHH---HHHH-cccccchHHHHHHHh-CccHHHHHHHHHHHHHHhcC
Confidence 345555555 2345 444556799999999 79999999999999888864
No 49
>smart00426 TEA TEA domain.
Probab=80.16 E-value=2.7 Score=26.06 Aligned_cols=21 Identities=29% Similarity=0.621 Sum_probs=18.2
Q ss_pred CCCCCHHHHHHHHHHHHhhccC
Q 040518 6 QKQWSWEENKAFENGVALYYKE 27 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~ 27 (81)
...|+++=..+|..||..| |+
T Consensus 3 ~~vWp~~lE~Af~~aL~~~-~~ 23 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIY-PP 23 (68)
T ss_pred CCcCcHHHHHHHHHHHHHc-Cc
Confidence 4579999999999999999 54
No 50
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=79.37 E-value=8.1 Score=21.04 Aligned_cols=47 Identities=15% Similarity=0.181 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
...+|.++..+|+...... +.-+...=+.||..+ |-|..+|..=|..
T Consensus 4 r~~~~~~~~~~L~~~f~~~-~~P~~~~~~~la~~~-~l~~~qV~~WF~n 50 (56)
T smart00389 4 RTSFTPEQLEELEKEFQKN-PYPSREEREELAAKL-GLSERQVKVWFQN 50 (56)
T ss_pred CCcCCHHHHHHHHHHHHhC-CCCCHHHHHHHHHHH-CcCHHHHHHhHHH
Confidence 3458999999999998887 655667789999999 8999999876654
No 51
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=77.23 E-value=9.5 Score=25.63 Aligned_cols=41 Identities=7% Similarity=0.131 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 13 ENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 13 E~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
-|..+..+|.+- + --.|..||+.+ |-|...|.+|.+.|.+.
T Consensus 10 ~D~~Il~~Lq~d-~---R~s~~eiA~~l-glS~~tV~~Ri~rL~~~ 50 (153)
T PRK11179 10 LDRGILEALMEN-A---RTPYAELAKQF-GVSPGTIHVRVEKMKQA 50 (153)
T ss_pred HHHHHHHHHHHc-C---CCCHHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 455666677555 3 34699999999 99999999999998753
No 52
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=76.97 E-value=12 Score=27.36 Aligned_cols=50 Identities=14% Similarity=0.258 Sum_probs=38.0
Q ss_pred CCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHH-----hCCCCCHHHHHHHHHHHH
Q 040518 5 NQKQWSWEENKAFENGVALYYKEGQDEEWVKIHS-----LVPTKTIDEIKVHFKKLM 56 (81)
Q Consensus 5 s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~-----~vpgKS~~ev~~ry~~L~ 56 (81)
+...||.+|+.+|-+.-... ..+.+.+++|=. .-++||+.++..||+.+.
T Consensus 72 ~kalfS~~EE~lL~~v~s~~--~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmk 126 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSS--QPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMK 126 (199)
T ss_pred ccCCCCHHHHHHHHhhhhcc--CCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHH
Confidence 56789999999998865444 234577888754 446899999999999544
No 53
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=76.05 E-value=2.7 Score=35.21 Aligned_cols=46 Identities=24% Similarity=0.445 Sum_probs=39.7
Q ss_pred CCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 4 SNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 4 ~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
.....||.++-.+|.++|..+ +. ...-|++..|+|+..+|+..|..
T Consensus 407 ~~~~~w~~se~e~fyka~~~~-gs----~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSER-GS----DFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred cccCcccchhhHHhhhHHhhh-cc----cccccccccccccHHHHHHHHhh
Confidence 355689999999999999999 43 36789999999999999988864
No 54
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=74.57 E-value=13 Score=33.11 Aligned_cols=54 Identities=15% Similarity=0.177 Sum_probs=44.4
Q ss_pred CCCCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhC------------CCCCHHHHHHHHHHHHHHHhh
Q 040518 4 SNQKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLV------------PTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 4 ~s~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~v------------pgKS~~ev~~ry~~L~~dv~~ 61 (81)
..+..+|.+||+.+..++.+| +- ++|++|-..+ -.||+.++.+|...|+.-|..
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~-g~---~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~~ 989 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKL-GY---GNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIEK 989 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHh-cc---chHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHHH
Confidence 345679999999999999999 43 3599996554 379999999999999988865
No 55
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=73.93 E-value=14 Score=25.91 Aligned_cols=51 Identities=25% Similarity=0.282 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
..+..|.++|-+|+-.| +-+ .-.|.-+-..+.+||.++++..-...+.-|.
T Consensus 40 GFn~rQR~~Fln~vMR~-G~~-~f~~~w~~~~Lr~Ks~~ei~aY~~LFm~HL~ 90 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRY-GMG-AFDWKWFVPRLRGKSEKEIRAYGSLFMRHLC 90 (145)
T ss_pred ccCHHHHHHHHHHHHHH-CcC-cccchHHhhhhccccHHHHHHHHHHHHHHhc
Confidence 47899999999999999 553 2357777888999999999877665554443
No 56
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=71.97 E-value=2.4 Score=34.99 Aligned_cols=43 Identities=26% Similarity=0.369 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
-.||++|-+ ++.-| + --.+-.+.||+.+..||+.|++++|-.-
T Consensus 471 ~~wSp~e~s----~ircf-~-~y~~~fe~ia~l~~tktp~Q~~~fy~~n 513 (534)
T KOG1194|consen 471 YGWSPEEKS----AIRCF-H-WYKDNFELIAELMATKTPEQIKKFYMDN 513 (534)
T ss_pred CCCCCcccc----cccCc-h-hhccchHHHHHHhcCCCHHHHHHHhcCc
Confidence 369999988 44444 2 2335689999999999999999999643
No 57
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=71.87 E-value=11 Score=25.66 Aligned_cols=40 Identities=10% Similarity=0.028 Sum_probs=31.4
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
|..+..+|.+- ..-.|..||+.| |-|..-|.+|.+.|.+.
T Consensus 16 D~~IL~~Lq~d----~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~ 55 (164)
T PRK11169 16 DRNILNELQKD----GRISNVELSKRV-GLSPTPCLERVRRLERQ 55 (164)
T ss_pred HHHHHHHhccC----CCCCHHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 44555577544 334689999999 99999999999999764
No 58
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=71.34 E-value=3.3 Score=25.67 Aligned_cols=22 Identities=32% Similarity=0.471 Sum_probs=18.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhh
Q 040518 41 PTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 41 pgKS~~ev~~ry~~L~~dv~~I 62 (81)
-|.+.++|+++|+.++.+|...
T Consensus 11 ~G~~~e~vk~~F~~~~~~Vs~~ 32 (71)
T PF04282_consen 11 EGEDPEEVKEEFKKLFSDVSAS 32 (71)
T ss_pred CCCCHHHHHHHHHHHHCCCCHH
Confidence 4789999999999999988763
No 59
>PF07030 DUF1320: Protein of unknown function (DUF1320); InterPro: IPR009752 This entry is represented by the Bacteriophage Mu, Gp36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=70.82 E-value=10 Score=25.11 Aligned_cols=28 Identities=18% Similarity=0.261 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCCCCC
Q 040518 45 IDEIKVHFKKLMEDLELIEFGFEPVSID 72 (81)
Q Consensus 45 ~~ev~~ry~~L~~dv~~Ie~g~v~~P~~ 72 (81)
.+.++++|+.-+.-++.|-.|++.|+--
T Consensus 84 ~e~~~~rY~~A~~~L~~ia~G~~~L~~~ 111 (130)
T PF07030_consen 84 TEPVRERYKDAIKWLEDIAKGKISLGLP 111 (130)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCccCCCC
Confidence 7889999999999999999999988754
No 60
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=70.34 E-value=4.3 Score=24.69 Aligned_cols=21 Identities=24% Similarity=0.328 Sum_probs=17.4
Q ss_pred HHHHHHhCCCCCHHHHHHHHH
Q 040518 33 WVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~ry~ 53 (81)
-..||..+-|||+++++..|.
T Consensus 36 ~~~iA~~i~gks~eeir~~fg 56 (78)
T PF01466_consen 36 CKYIANMIKGKSPEEIRKYFG 56 (78)
T ss_dssp HHHHHHHHTTS-HHHHHHHHT
T ss_pred HHHHHHHhcCCCHHHHHHHcC
Confidence 467899999999999999884
No 61
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=69.99 E-value=16 Score=29.81 Aligned_cols=52 Identities=17% Similarity=0.271 Sum_probs=40.9
Q ss_pred CCCCHHHHHHHHHHHHhhccCCC------------chHHHHHHHhCC---C--CCHHHHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQ------------DEEWVKIHSLVP---T--KTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~------------~~RWekIA~~vp---g--KS~~ev~~ry~~L~~dv 59 (81)
+.||++=+..|-.||+.| |+.. =.|=+.||..+- | ||.+||-.|-+-|.+-.
T Consensus 77 gvWSpdIEqsFqEALaiy-ppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk 145 (455)
T KOG3841|consen 77 GVWSPDIEQSFQEALAIY-PPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRK 145 (455)
T ss_pred cccChhHHHHHHHHHhhc-CCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHH
Confidence 469999999999999999 6542 357889998763 3 78899999988776543
No 62
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=68.38 E-value=5.7 Score=25.60 Aligned_cols=26 Identities=15% Similarity=0.139 Sum_probs=19.6
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHhC
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSLV 40 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~v 40 (81)
.+++.+.++.= |...+..|+.||+.+
T Consensus 44 ~kfl~eIi~~~-P~~d~~~Wd~IA~~m 69 (108)
T PF00674_consen 44 MKFLKEIIEVK-PGVDMKKWDIIASRM 69 (108)
T ss_pred HHHHHHHHhcC-CCCCcccHHHHHHHH
Confidence 35566666555 777889999999988
No 63
>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=66.98 E-value=9.6 Score=26.62 Aligned_cols=42 Identities=14% Similarity=0.145 Sum_probs=32.2
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
.||.|....|.+.. ..|. .=..||..|+|-|.+.|+-+..-|
T Consensus 2 ~Wtde~~~~L~~lw----~~G~--SasqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLW----AEGL--SASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHH----HcCC--CHHHHHHHhCCcchhhhhhhhhcc
Confidence 59999998777665 4443 357899999879999998766654
No 64
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=66.41 E-value=28 Score=21.44 Aligned_cols=42 Identities=12% Similarity=0.117 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 12 EENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
+.|+.+-.+|... +. -.+..||..+ |-|...|.++.+.|.+.
T Consensus 3 ~~D~~il~~L~~~-~~---~~~~~la~~l-~~s~~tv~~~l~~L~~~ 44 (108)
T smart00344 3 EIDRKILEELQKD-AR---ISLAELAKKV-GLSPSTVHNRVKRLEEE 44 (108)
T ss_pred HHHHHHHHHHHHh-CC---CCHHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 3456666777666 43 3499999999 99999999999999874
No 65
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=64.87 E-value=11 Score=24.58 Aligned_cols=40 Identities=10% Similarity=0.031 Sum_probs=30.1
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
|..+.+.|..- ....+..||..| |.|...|.+|-+.|.++
T Consensus 10 D~~IL~~L~~d----~r~~~~eia~~l-glS~~~v~~Ri~~L~~~ 49 (154)
T COG1522 10 DRRILRLLQED----ARISNAELAERV-GLSPSTVLRRIKRLEEE 49 (154)
T ss_pred HHHHHHHHHHh----CCCCHHHHHHHH-CCCHHHHHHHHHHHHHC
Confidence 33444455433 335689999999 89999999999999865
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=63.14 E-value=16 Score=26.71 Aligned_cols=45 Identities=24% Similarity=0.345 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCC---CCCHHHHHHHHHHHHHH
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVP---TKTIDEIKVHFKKLMED 58 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vp---gKS~~ev~~ry~~L~~d 58 (81)
.|++.+|-+|.+|+.+- ..-+-|+..|+ .-|..||.+||..|+.|
T Consensus 1 rW~~~DDl~Li~av~~~------~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQT------NDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHHh------cCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 49999999999998554 34677776654 26899999999999876
No 67
>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=62.63 E-value=23 Score=19.25 Aligned_cols=26 Identities=8% Similarity=0.235 Sum_probs=19.7
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
-.+..||..+ |.|...|+.++..-..
T Consensus 27 ~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 27 MSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp --HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred cCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4799999999 8999999988876543
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=62.48 E-value=23 Score=19.16 Aligned_cols=44 Identities=11% Similarity=0.141 Sum_probs=31.8
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
|++|..+|..-. | . +-.+..||..+ |-|..-|+.+.+..++.++
T Consensus 6 ~~~er~vi~~~y--~--~--~~t~~eIa~~l-g~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 6 PPREREVIRLRY--F--E--GLTLEEIAERL-GISRSTVRRILKRALKKLR 49 (50)
T ss_dssp -HHHHHHHHHHH--T--S--T-SHHHHHHHH-TSCHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHh--c--C--CCCHHHHHHHH-CCcHHHHHHHHHHHHHHhc
Confidence 456666665443 2 2 23599999999 9999999999988877665
No 69
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=62.34 E-value=37 Score=21.44 Aligned_cols=63 Identities=17% Similarity=0.013 Sum_probs=47.6
Q ss_pred CCCHHHHHHHHHHHHhhc----cCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCCCCC
Q 040518 8 QWSWEENKAFENGVALYY----KEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~----p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
..+.+..+.+..++..+. ..-++.+...+-... |-|..++-.....-..-|.++|+|.+.++.
T Consensus 41 ~~~~e~~~~~~~~i~~~~~~~~~~~~~~~i~~~r~~~-gltq~~lA~~lg~~~~tis~~e~g~~~p~~ 107 (127)
T TIGR03830 41 LLDPEESKRNSAALADFYRKVDGLLTPPEIRRIRKKL-GLSQREAAELLGGGVNAFSRYERGEVRPSK 107 (127)
T ss_pred EEcHHHHHHHHHHHHHHHHHccCCcCHHHHHHHHHHc-CCCHHHHHHHhCCCHHHHHHHHCCCCCCCH
Confidence 467777777777776552 233677888887776 899999888887778889999999986553
No 70
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=62.25 E-value=19 Score=22.24 Aligned_cols=32 Identities=16% Similarity=0.432 Sum_probs=24.5
Q ss_pred chHHHHHHHhCCCCC-----HHHHHHHHHHHHHHHhh
Q 040518 30 DEEWVKIHSLVPTKT-----IDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 30 ~~RWekIA~~vpgKS-----~~ev~~ry~~L~~dv~~ 61 (81)
.++|..||..+.-.. ...++.+|...+.....
T Consensus 53 ~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE~ 89 (93)
T smart00501 53 DKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFER 89 (93)
T ss_pred CCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHHH
Confidence 468999999995432 56789999988876654
No 71
>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=61.96 E-value=15 Score=22.75 Aligned_cols=12 Identities=17% Similarity=0.515 Sum_probs=7.7
Q ss_pred CCCCCHHHHHHH
Q 040518 6 QKQWSWEENKAF 17 (81)
Q Consensus 6 ~~~WT~eE~k~f 17 (81)
.+.||+++|..|
T Consensus 47 ~GiWT~eDD~~L 58 (87)
T PF11626_consen 47 PGIWTPEDDEML 58 (87)
T ss_dssp TT---HHHHHHH
T ss_pred CCCcCHHHHHHH
Confidence 457999999998
No 72
>cd08307 Death_Pelle Death domain of the protein kinase Pelle. Death domain (DD) of the protein kinase Pelle from Drosophila melanogaster and simlar proteins. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and in mediating innate immune responses to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Pelle also functions in photoreceptor axon targeting. 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=61.87 E-value=12 Score=24.28 Aligned_cols=21 Identities=14% Similarity=0.374 Sum_probs=15.8
Q ss_pred CCchHHHHHHHhCCCCCHHHH
Q 040518 28 GQDEEWVKIHSLVPTKTIDEI 48 (81)
Q Consensus 28 ~~~~RWekIA~~vpgKS~~ev 48 (81)
++.+.|+++|..+++=|..+|
T Consensus 19 D~~~~W~~LA~~i~~ys~~~v 39 (97)
T cd08307 19 DTDNVWEELAFVMMGYSNDDV 39 (97)
T ss_pred CCcCcHHHHHHHHhcCCHHHH
Confidence 344799999999986666554
No 73
>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=61.80 E-value=32 Score=21.00 Aligned_cols=30 Identities=13% Similarity=0.264 Sum_probs=23.6
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
-.+..||..+ |-|...|.++.......++.
T Consensus 127 ~s~~eIA~~l-~~s~~~v~~~~~~~~~kl~~ 156 (158)
T TIGR02937 127 LSYKEIAEIL-GISVGTVKRRLKRARKKLRE 156 (158)
T ss_pred CCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 3678899888 78888888888887776653
No 74
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=61.31 E-value=9.2 Score=30.77 Aligned_cols=49 Identities=18% Similarity=0.323 Sum_probs=32.1
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCC----------chHHHHHHHhCC---C--CCHHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQ----------DEEWVKIHSLVP---T--KTIDEIKVHFKKL 55 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~----------~~RWekIA~~vp---g--KS~~ev~~ry~~L 55 (81)
...|+++=..+|..||+.| |+.. ..|=+-||..|= | ||.+||-.|.+-|
T Consensus 49 ~~vw~~~~e~af~~al~~~-~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 49 EGVWPPDIEQAFQEALAIY-PPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp S--S-HHHHHHHHHHHHHS--SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHhC-CCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 4579999999999999999 6542 223355666542 4 7889999999988
No 75
>PF13560 HTH_31: Helix-turn-helix domain; PDB: 3F51_C 3F52_A 3PXP_A 2OFY_A.
Probab=61.14 E-value=10 Score=21.65 Aligned_cols=31 Identities=13% Similarity=0.074 Sum_probs=23.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhhcCCCCCCC
Q 040518 41 PTKTIDEIKVHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 41 pgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
-|.|..++-.+-..-..-|..||.|+.+.|.
T Consensus 13 ~gls~~~lA~~~g~s~s~v~~iE~G~~~~p~ 43 (64)
T PF13560_consen 13 AGLSQAQLADRLGVSQSTVSRIERGRRPRPS 43 (64)
T ss_dssp HTS-HHHHHHHHTS-HHHHHHHHTTSSSS-B
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHCCCCCCCC
Confidence 3778888888888888899999999997553
No 76
>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=60.71 E-value=18 Score=22.00 Aligned_cols=28 Identities=11% Similarity=0.405 Sum_probs=21.2
Q ss_pred hHHHHHHHhCCCCC-----HHHHHHHHHHHHHH
Q 040518 31 EEWVKIHSLVPTKT-----IDEIKVHFKKLMED 58 (81)
Q Consensus 31 ~RWekIA~~vpgKS-----~~ev~~ry~~L~~d 58 (81)
..|..||..+.--+ ..+++++|...+.+
T Consensus 58 ~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 58 KKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp TTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred chHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 46999999994432 37899999987765
No 77
>PF08259 Periviscerokin: Periviscerokinin family; InterPro: IPR013231 Perviscerokinin neuropeptides are found in the abdominal perisympathetic organs of insects. They mediate visceral muscle contractile activity (myotropic activity). CAPA, which are in the periviscerokinin and pyrokinin peptide families, has potential medical importance. This is due to its myotropic effects on, for example, heart muscles and due to its occurrence in the Ixodoidea (ticks), which are important vectors in the transmission of many animal diseases []. These peptides also have a strong diuretic or anti-diuretic effect, suggesting they have significant medical implications [].
Probab=58.29 E-value=4.8 Score=16.85 Aligned_cols=8 Identities=25% Similarity=0.368 Sum_probs=6.8
Q ss_pred cCCCCCCC
Q 040518 64 FGFEPVSI 71 (81)
Q Consensus 64 ~g~v~~P~ 71 (81)
+|.++||+
T Consensus 3 sGlI~fpR 10 (11)
T PF08259_consen 3 SGLIPFPR 10 (11)
T ss_pred ccccccCC
Confidence 68999986
No 78
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=58.23 E-value=18 Score=21.50 Aligned_cols=31 Identities=16% Similarity=0.500 Sum_probs=22.5
Q ss_pred HHHHHHHhCCCCCHH------HHHHHHHHHHHHHhhh
Q 040518 32 EWVKIHSLVPTKTID------EIKVHFKKLMEDLELI 62 (81)
Q Consensus 32 RWekIA~~vpgKS~~------ev~~ry~~L~~dv~~I 62 (81)
-|+++|..+|+.+.. ...++|...+.|-..+
T Consensus 2 yW~~~~~vip~~~~~~W~~L~~~l~rY~~vL~~R~~l 38 (60)
T PF14775_consen 2 YWERLANVIPDEKIRLWDALENFLKRYNKVLLDRAAL 38 (60)
T ss_pred HHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 499999999987654 3457777776665554
No 79
>PLN03162 golden-2 like transcription factor; Provisional
Probab=58.13 E-value=38 Score=27.79 Aligned_cols=53 Identities=17% Similarity=0.199 Sum_probs=42.8
Q ss_pred CCCCHHHHHHHHHHHHhhcc--CCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 7 KQWSWEENKAFENGVALYYK--EGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p--~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
-.||.|=.+.|..|+.+. + +-+|.+--++= .|+|-|...|+.|-++..--++.
T Consensus 238 LrWTpELH~rFVeAV~qL-G~dKATPK~ILelM-nV~GLTRenVKSHLQKYRl~rk~ 292 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQL-GVEKAFPSRILELM-GVQCLTRHNIASHLQKYRSHRRH 292 (526)
T ss_pred ccCCHHHHHHHHHHHHHh-CcCccchHHHHHHc-CCCCcCHHHHHHHHHHHHHhccc
Confidence 469999999999999998 4 33777776653 59999999999998887766654
No 80
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=55.11 E-value=24 Score=27.85 Aligned_cols=49 Identities=14% Similarity=0.167 Sum_probs=37.8
Q ss_pred CCCCHHHHHHHHHHHHhhccCC-CchHHHHHHHhCCC-----CCHHHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEG-QDEEWVKIHSLVPT-----KTIDEIKVHFKKLM 56 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~-~~~RWekIA~~vpg-----KS~~ev~~ry~~L~ 56 (81)
..|++++-..++.+++.+ .+. ..++|+-+|+.+.| |+.+++++..+..-
T Consensus 246 rkWereagar~~a~aa~k-~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~~ 300 (379)
T COG5269 246 RKWEREAGARLKALAALK-GKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKME 300 (379)
T ss_pred hccchhhhhhHHHHHHHh-hhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHHH
Confidence 469999999999999999 544 47899999998876 45667776655443
No 81
>PF10743 Phage_Cox: Regulatory phage protein cox; InterPro: IPR019679 Phage Cox proteins are expressed by Enterobacteria phages. The Cox protein is a 79-residue basic protein with a predicted strong helix-turn-helix DNA-binding motif. It inhibits integrative recombination and it activates site-specific excision of the HP1 genome from the Haemophilus influenzae chromosome, Hp1. Cox appears to function as a tetramer. Cox binding sites consist of two direct repeats of the consensus motif 5'-GGTMAWWWWA, one Cox tetramer binding to each motif. Cox binding interferes with the interaction of HP1 integrase with one of its binding sites, IBS5. This competition is central to directional control. Both Cox binding sites are needed for full inhibition of integration and for activating excision, because it plays a positive role in assembling the nucleoprotein complexes that produce excisive recombination, by inducing the formation of a critical conformation in those complexes [].
Probab=54.18 E-value=19 Score=23.36 Aligned_cols=36 Identities=25% Similarity=0.330 Sum_probs=25.5
Q ss_pred HHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCCC
Q 040518 21 VALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEPV 69 (81)
Q Consensus 21 L~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~ 69 (81)
+..| |.+ .---++.|..+ |||...|+.. |++|+.|+
T Consensus 5 ~~~~-p~d-~v~~~~FA~~I-GKt~sAVr~M----------i~~gKLP~ 40 (87)
T PF10743_consen 5 VSEY-PSD-AVTYEKFAEYI-GKTPSAVRKM----------IKAGKLPV 40 (87)
T ss_pred HHhh-hcc-ccCHHHHHHHH-CCCHHHHHHH----------HHcCCCCe
Confidence 4455 433 23368999999 9999999864 67787775
No 82
>COG4387 Mu-like prophage protein gp36 [Function unknown]
Probab=53.63 E-value=19 Score=25.02 Aligned_cols=32 Identities=16% Similarity=0.309 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHHHHHHhhhhcCCCCCCCCc
Q 040518 42 TKTIDEIKVHFKKLMEDLELIEFGFEPVSIDY 73 (81)
Q Consensus 42 gKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~~~ 73 (81)
+|--+|+++||+.-+.-++..-+|.|++-...
T Consensus 80 ~r~Tdq~r~rYe~av~~L~~va~G~V~lGvdd 111 (139)
T COG4387 80 NRATDQARQRYEDAVRFLEKVASGAVSLGVDD 111 (139)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHcCCCccccCC
Confidence 47789999999999999999999999986553
No 83
>PRK04654 sec-independent translocase; Provisional
Probab=52.77 E-value=22 Score=26.42 Aligned_cols=41 Identities=10% Similarity=0.131 Sum_probs=31.9
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++.-+|..| .|+|+=+++..| ||....+++.++...+++.+
T Consensus 12 I~VVALlV~----GPerLPe~aRtl-Gk~irk~R~~~~~vk~El~~ 52 (214)
T PRK04654 12 IAVVALVVL----GPERLPKAARFA-GLWVRRARMQWDSVKQELER 52 (214)
T ss_pred HHHHHHHhc----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 444556666 578999999999 89999998888877777654
No 84
>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=51.61 E-value=60 Score=20.51 Aligned_cols=29 Identities=14% Similarity=0.338 Sum_probs=23.3
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 32 EWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 32 RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+..||..+ |.|...|+.+.......++.
T Consensus 131 ~~~eIA~~l-gis~~tv~~~~~ra~~~Lr~ 159 (161)
T TIGR02985 131 SYKEIAEEL-GISVKTVEYHISKALKELRK 159 (161)
T ss_pred CHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 578899888 88999998888877777653
No 85
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=49.58 E-value=23 Score=22.72 Aligned_cols=48 Identities=17% Similarity=0.098 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 11 WEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 11 ~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
..|...|.+||.+. -.....--+++...++.... ++-+-+..|++|=.
T Consensus 34 ~~E~~rl~~Al~~~-~~eL~~l~~~~~~~~~~~~a-~If~ah~~~L~D~~ 81 (123)
T PF05524_consen 34 EAEIERLEQALEKA-REELEQLAERAESKLGEEEA-AIFEAHLMMLEDPE 81 (123)
T ss_dssp HHHHHHHHHHHHHH-HHHHHHHHHHHHHHCHSSCT-HHHHHHHHHHT-HH
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHhccccHH-HHHHHHHHHhcCHh
Confidence 57888999999888 33232333444444644444 89999999998843
No 86
>TIGR01765 tspaseT_teng_N transposase, putative, N-terminal domain. This model represents the N-terminal region of a family of putative transposases found in the largest copy number in Thermoanaerobacter tengcongensis. The three homologs in Bacillus anthracis are each split into two ORFs and This model represents the upstream ORF.
Probab=49.30 E-value=44 Score=19.90 Aligned_cols=44 Identities=14% Similarity=0.169 Sum_probs=29.7
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHH
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLM 56 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~ 56 (81)
.+.|+...|...+..| ...-+.+-+.+ +.|++..+.+..-+.++
T Consensus 8 ~~~e~~~~L~~tm~~f--~~A~n~~~~~~--~e~~~~~~~k~~L~~l~ 51 (73)
T TIGR01765 8 FEDKEKEYLLDLIRAF--SSAVNFVIKRL--LEGKSHSELKKELQRLY 51 (73)
T ss_pred cChhhHHHHHHHHHHH--HHHHHHHHHHH--HCCCChhHHHHHHHHHH
Confidence 4677888899999999 23334444665 78999887665444333
No 87
>PRK00404 tatB sec-independent translocase; Provisional
Probab=48.30 E-value=33 Score=23.92 Aligned_cols=41 Identities=12% Similarity=0.055 Sum_probs=31.6
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++.-||..| .|.|+=.++..| |+....+++.++...+++.+
T Consensus 12 I~VVaLlV~----GPkkLP~laR~l-G~~i~~~rr~~~~~k~ei~~ 52 (141)
T PRK00404 12 VGLVALLVL----GPERLPGAARTA-GLWIGRLKRSFNAIKQEVER 52 (141)
T ss_pred HHHHHHHhc----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 344456566 468999999999 89888888888887777766
No 88
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=47.36 E-value=23 Score=21.72 Aligned_cols=23 Identities=17% Similarity=0.212 Sum_probs=19.9
Q ss_pred hCCCCCHHHHHHHHHHHHHHHhh
Q 040518 39 LVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+.|.|.++.+++|-.+++.+..
T Consensus 62 ~l~gms~~eA~~~Yi~~v~~~~~ 84 (87)
T PF00887_consen 62 ALKGMSKEEAMREYIELVEELIP 84 (87)
T ss_dssp TTTTTHHHHHHHHHHHHHHHHHH
T ss_pred HccCCCHHHHHHHHHHHHHHHHH
Confidence 46799999999999999988753
No 89
>KOG2941 consensus Beta-1,4-mannosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=45.70 E-value=10 Score=30.74 Aligned_cols=20 Identities=15% Similarity=0.494 Sum_probs=17.0
Q ss_pred CCCCCCHHHHH-HHHHHHHhh
Q 040518 5 NQKQWSWEENK-AFENGVALY 24 (81)
Q Consensus 5 s~~~WT~eE~k-~fE~aL~~~ 24 (81)
|+++||++||- +|-.||..|
T Consensus 260 sSTswTpDEdf~ILL~AL~~y 280 (444)
T KOG2941|consen 260 SSTSWTPDEDFGILLEALVIY 280 (444)
T ss_pred ecCCCCCcccHHHHHHHHHhh
Confidence 56789999887 888999988
No 90
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=45.48 E-value=33 Score=15.74 Aligned_cols=24 Identities=21% Similarity=0.463 Sum_probs=18.5
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHh
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSL 39 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~ 39 (81)
.++|+++|..+ | ..++=|-.-+..
T Consensus 7 r~i~e~~l~~~-~-~~~~~W~~y~~~ 30 (33)
T smart00386 7 RKIYERALEKF-P-KSVELWLKYAEF 30 (33)
T ss_pred HHHHHHHHHHC-C-CChHHHHHHHHH
Confidence 45899999999 6 677888776654
No 91
>cd00435 ACBP Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a role in regulation of intermediary metabolism and gene regulation. The suggested role of ACBP is to act as a intracellular acyl-CoA transporter and pool former. ACBPs are present in a large group of eukaryotic species and several tissue-specific isoforms have been detected.
Probab=44.79 E-value=37 Score=21.18 Aligned_cols=23 Identities=9% Similarity=0.078 Sum_probs=19.9
Q ss_pred hCCCCCHHHHHHHHHHHHHHHhh
Q 040518 39 LVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+.|.|.++.++.|-.|++.+..
T Consensus 60 ~l~~ms~~eA~~~YV~~~~~l~~ 82 (85)
T cd00435 60 SLKGMSKEDAMKAYIAKVEELIA 82 (85)
T ss_pred HcCCCCHHHHHHHHHHHHHHHhh
Confidence 46799999999999999998753
No 92
>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=44.51 E-value=56 Score=18.15 Aligned_cols=44 Identities=14% Similarity=0.071 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
-|+.|-.+|.-...-+ .=..||..+ |.|..-|+.|-..+...+.
T Consensus 4 LT~~E~~vl~~l~~G~-------~~~eIA~~l-~is~~tV~~~~~~i~~Kl~ 47 (58)
T PF00196_consen 4 LTERELEVLRLLAQGM-------SNKEIAEEL-GISEKTVKSHRRRIMKKLG 47 (58)
T ss_dssp S-HHHHHHHHHHHTTS--------HHHHHHHH-TSHHHHHHHHHHHHHHHHT
T ss_pred cCHHHHHHHHHHHhcC-------CcchhHHhc-CcchhhHHHHHHHHHHHhC
Confidence 4677777777776544 346899999 8999999999998887664
No 93
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=44.39 E-value=92 Score=20.63 Aligned_cols=62 Identities=11% Similarity=0.230 Sum_probs=39.7
Q ss_pred CCHHHHHHHHHHHHhhc--------cCCC------------------chHHHHHHHhCCCCCHHHHHHHHHHHHHHH---
Q 040518 9 WSWEENKAFENGVALYY--------KEGQ------------------DEEWVKIHSLVPTKTIDEIKVHFKKLMEDL--- 59 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~--------p~~~------------------~~RWekIA~~vpgKS~~ev~~ry~~L~~dv--- 59 (81)
.|.+||-.|+.++.+|. +... -.-....|+.-|..|...=+.||++.+..-
T Consensus 2 fTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~~gi~ 81 (105)
T PF09197_consen 2 FTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSEYGIQ 81 (105)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHHH-HH
T ss_pred CChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHHcChH
Confidence 58899999999987762 1100 234677889999999999999999877653
Q ss_pred -------hhhhcCCCCCC
Q 040518 60 -------ELIEFGFEPVS 70 (81)
Q Consensus 60 -------~~Ie~g~v~~P 70 (81)
+.++.|.+|-|
T Consensus 82 ~Yi~Yye~~~~~g~~Pe~ 99 (105)
T PF09197_consen 82 SYIEYYEKCRANGEEPEP 99 (105)
T ss_dssp HHHHHHHHHHHTT-----
T ss_pred HHHHHHHHHHHcCCCCcc
Confidence 33567777655
No 94
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=44.01 E-value=49 Score=21.29 Aligned_cols=30 Identities=13% Similarity=0.287 Sum_probs=25.2
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
-.|+.-|. |-|||.++-+..|-.||+.++.
T Consensus 54 ~K~eAW~~-LKGksqedA~qeYialVeeLka 83 (87)
T COG4281 54 YKYEAWAG-LKGKSQEDARQEYIALVEELKA 83 (87)
T ss_pred hhHHHHhh-ccCccHHHHHHHHHHHHHHHHh
Confidence 46777774 5599999999999999998875
No 95
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=43.79 E-value=47 Score=18.46 Aligned_cols=24 Identities=17% Similarity=0.257 Sum_probs=19.8
Q ss_pred hCCCCCHHHHHHHHHHHHHHHhhh
Q 040518 39 LVPTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv~~I 62 (81)
.++|||.++-++-++.+.+.+...
T Consensus 8 ~~~Grs~eqk~~l~~~it~~l~~~ 31 (61)
T PRK02220 8 LIEGRTEEQLKALVKDVTAAVSKN 31 (61)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHH
Confidence 467999999999999888887763
No 96
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=43.69 E-value=31 Score=27.37 Aligned_cols=38 Identities=21% Similarity=0.331 Sum_probs=30.3
Q ss_pred HHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 17 FENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 17 fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+++|++. .|+.||..||--|..=+..|+.....|+..
T Consensus 309 VR~~l~~~-------~~~~ia~lVP~tTl~Yl~~~~a~~~~~~~~ 346 (352)
T COG3053 309 VRQLLAKN-------DLEAIANLVPATTLNYLQQHLAEHIIDIAA 346 (352)
T ss_pred HHHHHHhC-------CHHHHHhhCcHHHHHHHHHHHHHhHHHHhh
Confidence 45566665 699999999998888888888888777654
No 97
>COG1549 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]
Probab=42.54 E-value=7.3 Score=32.35 Aligned_cols=46 Identities=22% Similarity=0.328 Sum_probs=30.9
Q ss_pred CCCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 6 QKQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 6 ~~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
++.|+.||.+.-...|+.|. +-+ .-.+|=++||| .+..+++...++
T Consensus 303 tG~WseEE~~~v~~~l~~yl-~k~--~~~~vIAhv~g---r~~~E~~~e~v~ 348 (519)
T COG1549 303 TGHWSEEEKEFVAELLKSYL-EKT--DYRKVIAHVPG---REAVERVLEAVD 348 (519)
T ss_pred cccccHHHHHHHHHHHHHHh-hhc--CCceEEEEcCc---hhHHHHHhhccC
Confidence 45899999999999999994 323 34566668888 333444444443
No 98
>PF00600 Flu_NS1: Influenza non-structural protein (NS1); InterPro: IPR000256 NS1 is a homodimeric RNA-binding protein found in influenza virus that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA [].; GO: 0003723 RNA binding; PDB: 2Z0A_C 3P39_E 3P38_C 3P31_C 3M8A_H 3M5R_D 3EE9_B 3KWI_A 3KWG_B 2RHK_A ....
Probab=42.38 E-value=32 Score=25.38 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=15.6
Q ss_pred hCCCCCHHHHHHHHHHHHHHHh
Q 040518 39 LVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
.+||.|.++|++.+-.|+--+.
T Consensus 165 slpGht~EDVKnAigvligGlE 186 (217)
T PF00600_consen 165 SLPGHTNEDVKNAIGVLIGGLE 186 (217)
T ss_dssp TSS---HHHHHHHHHHHHHHHH
T ss_pred CCCCCCchhHHHhhhhccccee
Confidence 4899999999999998876553
No 99
>PTZ00458 acyl CoA binding protein; Provisional
Probab=42.18 E-value=42 Score=21.42 Aligned_cols=23 Identities=9% Similarity=0.192 Sum_probs=20.0
Q ss_pred hCCCCCHHHHHHHHHHHHHHHhh
Q 040518 39 LVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+.|.|.++.+++|-.|++.+..
T Consensus 62 ~l~~ms~~eA~~~YI~l~~~l~~ 84 (90)
T PTZ00458 62 SIENLNREDAKKRYVEIVTELFP 84 (90)
T ss_pred HcCCCCHHHHHHHHHHHHHHHhh
Confidence 35799999999999999998754
No 100
>cd08308 Death_Tube Death domain of Tube. Death domains (DDs) similar to the DD in the protein Tube from Drosophila melanogaster. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and also in mediating innate immune response to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Some members of this subfamily contain a C-terminal kinase domain, like Pelle, in addition to the DD. Tube has no counterpart in vertebrates. It contains an N-terminal DD and a C-terminal region with five copies of the Tube repeat, an 8-amino acid motif. 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 (D
Probab=41.89 E-value=14 Score=25.19 Aligned_cols=35 Identities=23% Similarity=0.490 Sum_probs=21.0
Q ss_pred CCchHHHHHHHhCCCCCHH-HHHHHHHHHHHHHhhhhc
Q 040518 28 GQDEEWVKIHSLVPTKTID-EIKVHFKKLMEDLELIEF 64 (81)
Q Consensus 28 ~~~~RWekIA~~vpgKS~~-ev~~ry~~L~~dv~~Ie~ 64 (81)
+..+.|++++..+|-.... ....+| -.++|+.||.
T Consensus 20 D~~d~Wk~L~~~Ip~~~~~~~~~~~Y--~~~hv~~ie~ 55 (125)
T cd08308 20 DINDGWKKLMAIIPSDDDDFNNLAKY--NAEHFKLIEQ 55 (125)
T ss_pred CccccHHHHHHhcCCccccccccccc--CHHHHHHHHH
Confidence 4558999999999864442 133344 2335555543
No 101
>PRK14857 tatA twin arginine translocase protein A; Provisional
Probab=41.32 E-value=53 Score=21.17 Aligned_cols=42 Identities=10% Similarity=0.139 Sum_probs=32.6
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~I 62 (81)
++.-+|-.| .|.|+-.++..| ||...++++.-+...+++..-
T Consensus 14 IlvVaLlvf----GP~KLP~lar~l-Gk~i~~fkk~~~~~~~e~~~~ 55 (90)
T PRK14857 14 ILVIALLVF----GPKKLPEIGRSL-GKTLKGFQEASKEFENEIKRE 55 (90)
T ss_pred HHHHHHHHc----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 344456666 467999999999 899999998888877777663
No 102
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=41.25 E-value=17 Score=20.62 Aligned_cols=26 Identities=12% Similarity=0.314 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHhhccCCCchHHHHHHHhCCCC
Q 040518 12 EENKAFENGVALYYKEGQDEEWVKIHSLVPTK 43 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgK 43 (81)
+...+|..+| .+..||..-||..+ ||
T Consensus 19 ~~~d~F~~~L-----~~s~D~F~vIaeyf-Gr 44 (49)
T PF12451_consen 19 DQHDLFFKQL-----EESEDRFSVIAEYF-GR 44 (49)
T ss_pred hcHHHHHHHH-----HhCCCCchhHHHHH-cc
Confidence 4456788888 24568999999998 65
No 103
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=40.81 E-value=64 Score=24.78 Aligned_cols=47 Identities=13% Similarity=0.197 Sum_probs=38.4
Q ss_pred CCCCCCCHHHHHHHHHHH--HhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 4 SNQKQWSWEENKAFENGV--ALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 4 ~s~~~WT~eE~k~fE~aL--~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
.++..+|.-+.+-||+-. .+| -..+|| ..+|+.| |-|-.|||-=|++
T Consensus 174 ksRTaFT~~Ql~~LEkrF~~QKY--LS~~DR-~~LA~~L-gLTdaQVKtWfQN 222 (309)
T KOG0488|consen 174 KSRTAFSDHQLFELEKRFEKQKY--LSVADR-IELAASL-GLTDAQVKTWFQN 222 (309)
T ss_pred cchhhhhHHHHHHHHHHHHHhhc--ccHHHH-HHHHHHc-CCchhhHHHHHhh
Confidence 356678999999888873 445 467899 9999999 9999999987775
No 104
>PF15508 NAAA-beta: beta subunit of N-acylethanolamine-hydrolyzing acid amidase
Probab=39.51 E-value=33 Score=21.47 Aligned_cols=28 Identities=29% Similarity=0.516 Sum_probs=18.6
Q ss_pred chHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 30 DEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 30 ~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
.+||..|+... ......+.+.++.++..
T Consensus 15 ~eRw~~i~~~~-k~~i~~l~~~~~~~~~~ 42 (95)
T PF15508_consen 15 EERWVQIAKDY-KDEIRELIEVLKDLLQS 42 (95)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 48999999887 34444566666665544
No 105
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=39.48 E-value=52 Score=20.40 Aligned_cols=45 Identities=11% Similarity=0.056 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHh-hccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 10 SWEENKAFENGVAL-YYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 10 T~eE~k~fE~aL~~-~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
+.-.+++|.- |+. . .....---..|++.| |-+..+|+..-..|++
T Consensus 46 ~~~~~~Vl~~-i~~~~-~~~~Gv~v~~I~~~l-~~~~~~v~~al~~L~~ 91 (102)
T PF08784_consen 46 SPLQDKVLNF-IKQQP-NSEEGVHVDEIAQQL-GMSENEVRKALDFLSN 91 (102)
T ss_dssp -HHHHHHHHH-HHC-----TTTEEHHHHHHHS-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHH-HHhcC-CCCCcccHHHHHHHh-CcCHHHHHHHHHHHHh
Confidence 3444454443 344 3 223334567899999 9999999999888864
No 106
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=38.97 E-value=39 Score=21.12 Aligned_cols=35 Identities=17% Similarity=-0.036 Sum_probs=30.0
Q ss_pred chHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcC
Q 040518 30 DEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFG 65 (81)
Q Consensus 30 ~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g 65 (81)
+..=++||+.+ |.|-..|.+|-+.|.++=-.||+.
T Consensus 19 ~~SGe~La~~L-giSRtaVwK~Iq~Lr~~G~~I~s~ 53 (79)
T COG1654 19 FVSGEKLAEEL-GISRTAVWKHIQQLREEGVDIESV 53 (79)
T ss_pred cccHHHHHHHH-CccHHHHHHHHHHHHHhCCceEec
Confidence 34458999999 999999999999999887788774
No 107
>cd08793 Death_IRAK4 Death domain of Interleukin-1 Receptor-Associated Kinase 4. Death Domain (DD) of Interleukin-1 Receptor-Associated Kinase 4 (IRAK4). IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. They are involved in signal transduction pathways involving IL-1 and IL-18 receptors, Toll-like receptors, nuclear factor-kappaB, and mitogen-activated protein kinases. IRAKs contain an N-terminal DD domain and a C-terminal kinase domain. IRAK4 is an active kinase that is also involved in T-cell receptor signaling pathways, implying that it may function in acquired immunity and not just in innate immunity. It is known as the master IRAK member because its absence strongly impairs TLR- and IL-1-mediated signaling and innate immune defenses, while the absence of other IRAK proteins only shows slight effects. IRAK4-deficient patients have impaired inflammatory responses and recurrent life-threatening infections. DDs are protein-protein int
Probab=38.77 E-value=50 Score=21.72 Aligned_cols=24 Identities=17% Similarity=0.354 Sum_probs=17.0
Q ss_pred HHHHHHhhccCCCchHHHHHHHhCCC
Q 040518 17 FENGVALYYKEGQDEEWVKIHSLVPT 42 (81)
Q Consensus 17 fE~aL~~~~p~~~~~RWekIA~~vpg 42 (81)
..+.|..|. +..+.|+.||..+++
T Consensus 10 vrkkL~~~L--Dp~~~W~~LA~~i~~ 33 (100)
T cd08793 10 LLRQLSDFL--DPQEGWKKIAVAIKK 33 (100)
T ss_pred HHHHHHHHh--CCcccHHHHHHHHhc
Confidence 345566663 455799999999974
No 108
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. 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=38.49 E-value=75 Score=20.19 Aligned_cols=32 Identities=9% Similarity=0.298 Sum_probs=20.9
Q ss_pred HHHHHHHHhhccCCCc-hHHHHHHHhCCCCCHHHH
Q 040518 15 KAFENGVALYYKEGQD-EEWVKIHSLVPTKTIDEI 48 (81)
Q Consensus 15 k~fE~aL~~~~p~~~~-~RWekIA~~vpgKS~~ev 48 (81)
..|..++-.+ ....| ..|.++|..+ |-|..++
T Consensus 4 ~~l~~~f~~i-~~~V~~~~Wk~laR~L-GLse~~I 36 (96)
T cd08315 4 ETLRRSFDHF-IKEVPFDSWNRLMRQL-GLSENEI 36 (96)
T ss_pred hHHHHHHHHH-HHHCCHHHHHHHHHHc-CCCHHHH
Confidence 3455555555 44455 6799999888 7776654
No 109
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=37.68 E-value=51 Score=21.04 Aligned_cols=24 Identities=8% Similarity=0.152 Sum_probs=20.9
Q ss_pred hCCCCCHHHHHHHHHHHHHHHhhh
Q 040518 39 LVPTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv~~I 62 (81)
.++|||.++-+.-|+.+.+-+...
T Consensus 67 l~~GRs~eqK~~l~~~i~~~l~~~ 90 (113)
T cd00580 67 ILAGRSEEQKQELSEALLAALRAH 90 (113)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHh
Confidence 378999999999999999888763
No 110
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=37.55 E-value=48 Score=17.68 Aligned_cols=20 Identities=30% Similarity=0.473 Sum_probs=16.3
Q ss_pred CCCCHHHHHHHHHHHHHHHh
Q 040518 41 PTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 41 pgKS~~ev~~ry~~L~~dv~ 60 (81)
++-|.++|+++|+.|+.-..
T Consensus 10 ~~~~~~~ik~~y~~l~~~~H 29 (55)
T cd06257 10 PDASDEEIKKAYRKLALKYH 29 (55)
T ss_pred CCCCHHHHHHHHHHHHHHHC
Confidence 45789999999999987553
No 111
>PRK12423 LexA repressor; Provisional
Probab=37.06 E-value=1.3e+02 Score=21.04 Aligned_cols=48 Identities=13% Similarity=0.050 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCC-CCHHHHHHHHHHHHHH
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPT-KTIDEIKVHFKKLMED 58 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpg-KS~~ev~~ry~~L~~d 58 (81)
|+.+.++|..........+.+..=..||+.+ | +|..-|++|.+.|.+.
T Consensus 5 t~~q~~il~~l~~~i~~~g~~Ps~~eia~~~-g~~s~~~v~~~l~~L~~~ 53 (202)
T PRK12423 5 TPKRAAILAFIRERIAQAGQPPSLAEIAQAF-GFASRSVARKHVQALAEA 53 (202)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCCHHHHHHHh-CCCChHHHHHHHHHHHHC
Confidence 5566666555443321233445778999999 7 8999999999999884
No 112
>PRK01371 sec-independent translocase; Provisional
Probab=36.91 E-value=51 Score=22.85 Aligned_cols=41 Identities=12% Similarity=0.130 Sum_probs=32.7
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++.-+|..| .|+|.-.++..+ ||+..++++.-+...++++.
T Consensus 12 IlvVallvf----GPeKLP~~ar~l-g~~ir~~R~~~~~ak~~i~~ 52 (137)
T PRK01371 12 LVVLAVLVF----GPDKLPKAARDA-GRTLRQLREMANNARNDLRS 52 (137)
T ss_pred HHHHHhhee----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 344455556 468999999999 89999999888888888876
No 113
>PF10124 Mu-like_gpT: Mu-like prophage major head subunit gpT; InterPro: IPR018774 This entry represents a conserved domain found in various caudoviral prophage proteins, including the bacteriophage Mu major head subunit GpT and related prophage.
Probab=36.88 E-value=11 Score=29.15 Aligned_cols=29 Identities=31% Similarity=0.589 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHH
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDE 47 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~e 47 (81)
.+.|.++|... + ..|.+||..||.-|..+
T Consensus 9 ~~~F~~~l~~a-~----~~~~~iA~~VpStt~~n 37 (291)
T PF10124_consen 9 KTAFQKGLEAA-P----PQWNKIATEVPSTTASN 37 (291)
T ss_pred HHHHHHHHhhC-C----ChhheEEEEccCCCCcc
Confidence 46788888777 4 47999999999977665
No 114
>PRK05716 methionine aminopeptidase; Validated
Probab=36.53 E-value=1.5e+02 Score=20.80 Aligned_cols=41 Identities=20% Similarity=0.258 Sum_probs=33.4
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
|.++.++++.++..+ ..-|++.-||.+..+|-+..+.++++
T Consensus 117 ~~~~~~~~~~~~~~~--------~~~~~~~~pG~~~~dv~~~~~~~~~~ 157 (252)
T PRK05716 117 SPEDKRLCEVTKEAL--------YLGIAAVKPGARLGDIGHAIQKYAEA 157 (252)
T ss_pred CHHHHHHHHHHHHHH--------HHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 567777888887666 56788889999999999988888776
No 115
>PRK14861 tatA twin arginine translocase protein A; Provisional
Probab=36.30 E-value=68 Score=19.12 Aligned_cols=43 Identities=16% Similarity=0.156 Sum_probs=32.2
Q ss_pred HHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhc
Q 040518 17 FENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEF 64 (81)
Q Consensus 17 fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~ 64 (81)
+--+|..| .|.|--.++..+ ||+..+.++..+...+|+..-++
T Consensus 14 ~vi~llvf----Gp~kLP~l~r~~-G~~~~~fk~~~~~~~~~~~~~~~ 56 (61)
T PRK14861 14 LVVALIIF----GPKKLPELGKAL-GKTLREFKKATKELTDDDFQEKK 56 (61)
T ss_pred HHHHHHhc----CchHHHHHHHHH-HHHHHHHHHHHHHHHhhhhHhhh
Confidence 34456666 357888899999 89999998888888887765443
No 116
>cd07216 Pat17_PNPLA8_PNPLA9_like3 Patatin-like phospholipase. Patatin is a storage protein of the potato tuber that shows Phospholipase A2 activity (PLA2; EC 3.1.1.4). Patatin catalyzes the nonspecific hydrolysis of phospholipids, glycolipids, sulfolipids, and mono- and diacylglycerols, thereby showing lipid acyl hydrolase activity. The active site includes an oxyanion hole with a conserved GGxR motif; it is found in almost all the members of this family. The catalytic dyad is formed by a serine and an aspartate. Patatin belongs to the alpha-beta hydrolase family which is identified by a characteristic nucleophile elbow with a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile). Members of this family have been found also in vertebrates. This family includes subfamily of PNPLA8 (iPLA2-gamma) and PNPLA9 (iPLA2-beta) like phospholipases from human as well as the Pat17 isozyme from Solanum cardiophyllum.
Probab=35.86 E-value=48 Score=24.57 Aligned_cols=27 Identities=19% Similarity=0.208 Sum_probs=21.7
Q ss_pred HHHHhC--CCCCHHHHHHHHHHHHHHHhh
Q 040518 35 KIHSLV--PTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 35 kIA~~v--pgKS~~ev~~ry~~L~~dv~~ 61 (81)
-||..+ +|.|.+||.+.|..+..+|-.
T Consensus 54 iiA~~l~~~~~t~~e~~~~y~~~~~~iF~ 82 (309)
T cd07216 54 LIAIMLGRLRMTVDECIDAYTRLAKKIFS 82 (309)
T ss_pred HHHHHhcccCCCHHHHHHHHHHHhHHhCC
Confidence 366766 478999999999999888753
No 117
>PRK14858 tatA twin arginine translocase protein A; Provisional
Probab=35.80 E-value=68 Score=21.35 Aligned_cols=41 Identities=5% Similarity=0.095 Sum_probs=30.7
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++.-+|-.| .|.+.-.++..+ ||...++++......+++..
T Consensus 12 IlvVallvf----GPkKLPelar~l-Gk~i~~fk~~~~d~k~~i~~ 52 (108)
T PRK14858 12 ILVIALIVI----GPQKLPDLARSL-GRGLAEFKKATDDFKQSMQE 52 (108)
T ss_pred HHHHHHHhc----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 445556666 467999999999 89988888877777766644
No 118
>COG4476 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.27 E-value=1.3e+02 Score=19.53 Aligned_cols=63 Identities=25% Similarity=0.403 Sum_probs=38.8
Q ss_pred CCCCHHHHHH---HHHHHHhhccCCC-----chHHHHHHHhCCCCCHH-HHHHHHH--------HHHHHHhhhhcCCCCC
Q 040518 7 KQWSWEENKA---FENGVALYYKEGQ-----DEEWVKIHSLVPTKTID-EIKVHFK--------KLMEDLELIEFGFEPV 69 (81)
Q Consensus 7 ~~WT~eE~k~---fE~aL~~~~p~~~-----~~RWekIA~~vpgKS~~-ev~~ry~--------~L~~dv~~Ie~g~v~~ 69 (81)
-.||.||.-. |-+++.+++..+. -+...+.-+-||+|+.+ ++-+-|. ..+.+++.++.|+|.+
T Consensus 9 ldWsTEE~~~Vl~Ffn~VE~aYE~gv~~~~ll~~Yr~FK~IVPsK~eEKql~r~FE~~SgyS~Y~~vk~ak~~~~~~i~m 88 (90)
T COG4476 9 LDWSTEEMISVLHFFNAVELAYEKGVDAEDLLGSYRRFKEIVPSKAEEKQLGRDFEKSSGYSLYQAVKKAKESEEGKISM 88 (90)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhcCchHHHHHHhHHHHHhcCccHHHHHHHHHHhhhccccC
Confidence 4699999873 4444444434432 24456667779998865 3333333 3567778888887765
No 119
>COG1003 GcvP Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]
Probab=33.97 E-value=42 Score=27.83 Aligned_cols=33 Identities=18% Similarity=0.352 Sum_probs=30.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhhcCCCCCCCC
Q 040518 40 VPTKTIDEIKVHFKKLMEDLELIEFGFEPVSID 72 (81)
Q Consensus 40 vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~~ 72 (81)
.|..|.-|+.+||..|-+.=-.+..|.+||=+|
T Consensus 42 ~Pe~SE~e~~Rh~~rLs~kn~avd~~m~PLGSC 74 (496)
T COG1003 42 LPEHSETEMVRHYTRLSQKDLAVDRGMIPLGSC 74 (496)
T ss_pred CccccHHHHHHHHHHHHhcccccccCccCCccc
Confidence 488999999999999999888889999999776
No 120
>TIGR02269 Myxococcus xanthus paralogous lipoprotein family TIGR02269. This family consists of at least 9 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. One appears truncated toward the N-terminus; the others are predicted lipoproteins. The function is unknown.
Probab=33.91 E-value=1e+02 Score=22.91 Aligned_cols=36 Identities=25% Similarity=0.356 Sum_probs=31.8
Q ss_pred chHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCC
Q 040518 30 DEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFE 67 (81)
Q Consensus 30 ~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v 67 (81)
.+-|......-||-|.++|.+|.-+|+.-...| |-|
T Consensus 173 N~aWr~f~~~~~~as~e~i~~hageLI~RfeL~--Gpi 208 (211)
T TIGR02269 173 NQAWRDFARRYPGASPEEIWRHAGELIFRFELT--GPI 208 (211)
T ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhcc--CCC
Confidence 467899999999999999999999999999888 644
No 121
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=33.50 E-value=82 Score=19.62 Aligned_cols=37 Identities=8% Similarity=-0.123 Sum_probs=28.7
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHhh--hhcCCCCCCC
Q 040518 34 VKIHSLVPTKTIDEIKVHFKKLMEDLEL--IEFGFEPVSI 71 (81)
Q Consensus 34 ekIA~~vpgKS~~ev~~ry~~L~~dv~~--Ie~g~v~~P~ 71 (81)
..||+.. |-|..++..-++.+++-|.. .+.|.|.||.
T Consensus 8 ~~ia~~~-~~s~~~~~~~v~~~~~~i~~~L~~~~~v~l~g 46 (90)
T PRK10664 8 DKIAAGA-DISKAAAGRALDAIIASVTESLKEGDDVALVG 46 (90)
T ss_pred HHHHHHh-CCCHHHHHHHHHHHHHHHHHHHhCCCEEEECC
Confidence 4577765 89999999999998888854 3666788876
No 122
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=33.49 E-value=1.1e+02 Score=18.13 Aligned_cols=47 Identities=17% Similarity=0.192 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHHHhhc-cCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 10 SWEENKAFENGVALYY-KEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~-p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
|.-|.++|+-. ..|. ..|-|.--..||+.++=+|..-|..|-+.|.+
T Consensus 5 T~rQ~~vL~~I-~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~ 52 (65)
T PF01726_consen 5 TERQKEVLEFI-REYIEENGYPPTVREIAEALGLKSTSTVQRHLKALER 52 (65)
T ss_dssp -HHHHHHHHHH-HHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHH-HHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHH
Confidence 55666665544 3331 23455678899999955999999999888874
No 123
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=32.96 E-value=1.3e+02 Score=19.10 Aligned_cols=46 Identities=20% Similarity=0.325 Sum_probs=32.0
Q ss_pred HHHHHHHHHH----HHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhh
Q 040518 11 WEENKAFENG----VALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIE 63 (81)
Q Consensus 11 ~eE~k~fE~a----L~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie 63 (81)
.++-+++|+. ..+| .....+|+-+ .++.+++...|..|..-+..|.
T Consensus 20 ~~d~~LLe~mN~~~~~kY------~~~~~~~~~l-~~~~~~l~~k~~~l~~~l~~Id 69 (99)
T PF10046_consen 20 NEDYNLLENMNKATSLKY------KKMKDIAAGL-EKNLEDLNQKYEELQPYLQQID 69 (99)
T ss_pred HHHHHHHHHHHHHHHHHH------HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566554 4455 4677888888 6889999998888777666653
No 124
>PHA01632 hypothetical protein
Probab=32.92 E-value=83 Score=19.11 Aligned_cols=33 Identities=30% Similarity=0.398 Sum_probs=24.9
Q ss_pred HhCCCC-CHHHHHHHHHHHHHHHhh-hhcCCCCCC
Q 040518 38 SLVPTK-TIDEIKVHFKKLMEDLEL-IEFGFEPVS 70 (81)
Q Consensus 38 ~~vpgK-S~~ev~~ry~~L~~dv~~-Ie~g~v~~P 70 (81)
..||.| |.+|+++-.-.++.|... ||.|.+.+=
T Consensus 22 eqvp~kpteeelrkvlpkilkdyanmie~gk~ki~ 56 (64)
T PHA01632 22 EQVPQKPTEEELRKVLPKILKDYANMIENGKIKIL 56 (64)
T ss_pred hhcCCCCCHHHHHHHHHHHHHHHHHHHhcCceEEe
Confidence 468885 677888888888888766 599988653
No 125
>PF14164 YqzH: YqzH-like protein
Probab=32.72 E-value=31 Score=21.15 Aligned_cols=27 Identities=26% Similarity=0.438 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhccCC------CchHHHHHHHhCC
Q 040518 14 NKAFENGVALYYKEG------QDEEWVKIHSLVP 41 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~------~~~RWekIA~~vp 41 (81)
.|++.++|.+| +.+ +++-|+.+.+.|-
T Consensus 7 ~Kmi~~~l~QY-g~d~~~~pls~~E~~~L~~~i~ 39 (64)
T PF14164_consen 7 EKMIINCLRQY-GYDVECMPLSDEEWEELCKHIQ 39 (64)
T ss_pred HHHHHHHHHHh-CCcccCCCCCHHHHHHHHHHHH
Confidence 36677788888 333 4677776666553
No 126
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=32.48 E-value=1.3e+02 Score=19.02 Aligned_cols=44 Identities=11% Similarity=0.282 Sum_probs=31.4
Q ss_pred HHHHHHHHhhccCC----------CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 15 KAFENGVALYYKEG----------QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 15 k~fE~aL~~~~p~~----------~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
..+..+|.+. |+. .+-.++.||+.+ |.|...|+.+.......++
T Consensus 97 ~~l~~~l~~L-~~~~r~i~~l~~~~g~s~~eIA~~l-gis~~tv~~~l~Ra~~~Lr 150 (154)
T TIGR02950 97 EEITHHLSRL-PENYRTVLILREFKEFSYKEIAELL-NLSLAKVKSNLFRARKELK 150 (154)
T ss_pred HHHHHHHHhC-CHhheeeeeehhhccCcHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 4566777666 433 245689999999 8999999888776665554
No 127
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=32.45 E-value=70 Score=20.53 Aligned_cols=44 Identities=23% Similarity=0.336 Sum_probs=32.3
Q ss_pred HHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCC
Q 040518 15 KAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGF 66 (81)
Q Consensus 15 k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~ 66 (81)
..|+.+++.| -.+.+. .. . +....+|..-|+.+-.+|..||+..
T Consensus 20 ~~~~~gf~~y-l~~~~~--~~----y-~~~~~~iT~~f~~~S~ei~~ie~~L 63 (97)
T PF14966_consen 20 NRFEEGFKKY-LRSGPE--EA----Y-RQLCHEITQEFSAISKEILAIEAEL 63 (97)
T ss_pred HHHHHHHHHH-HhcCCh--HH----H-HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4688999999 555544 22 2 2456778899999999999998764
No 128
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=32.34 E-value=62 Score=20.06 Aligned_cols=21 Identities=19% Similarity=0.346 Sum_probs=16.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 040518 41 PTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 41 pgKS~~ev~~ry~~L~~dv~~ 61 (81)
+|||.++=++-|+.|++.+..
T Consensus 38 ~gRs~e~K~~ly~~l~~~L~~ 58 (82)
T PF14552_consen 38 AGRSTEQKKALYRALAERLAE 58 (82)
T ss_dssp S---HHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHH
Confidence 489999999999999999875
No 129
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=31.95 E-value=1.5e+02 Score=20.69 Aligned_cols=45 Identities=11% Similarity=0.077 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
=|+-|.+.|.-...-+ .-..||+.+ |-|..-|+.|-..+...+..
T Consensus 138 LT~RE~eVL~lla~G~-------snkeIA~~L-~iS~~TVk~h~~~I~~KL~v 182 (207)
T PRK15411 138 LSRTESSMLRMWMAGQ-------GTIQISDQM-NIKAKTVSSHKGNIKRKIKT 182 (207)
T ss_pred CCHHHHHHHHHHHcCC-------CHHHHHHHc-CCCHHHHHHHHHHHHHHhCC
Confidence 6788887777665433 358999999 89999999999888877653
No 130
>PF14003 YlbE: YlbE-like protein
Probab=31.92 E-value=81 Score=19.33 Aligned_cols=31 Identities=26% Similarity=0.293 Sum_probs=23.6
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhC
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLV 40 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~v 40 (81)
.++|...||.+...|.....|+|=++|+..|
T Consensus 21 ~P~~l~~fe~~a~~~y~kT~p~rVek~~n~l 51 (65)
T PF14003_consen 21 NPEELEAFEKEAKHFYKKTIPHRVEKFSNQL 51 (65)
T ss_pred CHHHHHHHHHHHHHHHhccccHHHHHHHhHH
Confidence 3678888888866664667889988888766
No 131
>PF05491 RuvB_C: Holliday junction DNA helicase ruvB C-terminus; InterPro: IPR008823 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the C-terminal region of the proteins; it is thought to be a helicase DNA-binding domain.; GO: 0003677 DNA binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 3PFI_B 1IXR_C 1HQC_B 1IXS_B 1IN8_A 1IN4_A 1IN5_A 1J7K_A 1IN6_A 1IN7_A.
Probab=31.60 E-value=57 Score=20.47 Aligned_cols=43 Identities=7% Similarity=0.121 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCC--CCHHHHHHHHHH
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPT--KTIDEIKVHFKK 54 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpg--KS~~ev~~ry~~ 54 (81)
...+.+.|+.....| .+.|---+.||+.|.- .|.++|.+-|-.
T Consensus 7 d~~D~~yL~~l~~~f--~ggPvGl~tlA~~l~ed~~Tie~v~EPyLi 51 (76)
T PF05491_consen 7 DELDRRYLKTLIENF--KGGPVGLDTLAAALGEDKETIEDVIEPYLI 51 (76)
T ss_dssp BHHHHHHHHHHHHCS--TTS-B-HHHHHHHTTS-HHHHHHTTHHHHH
T ss_pred CHHHHHHHHHHHHHc--CCCCeeHHHHHHHHCCCHhHHHHHhhHHHH
Confidence 345667777778888 6778889999999943 455556555543
No 132
>KOG4559 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.55 E-value=1.7e+02 Score=19.82 Aligned_cols=47 Identities=28% Similarity=0.390 Sum_probs=34.3
Q ss_pred HHHHHHHHHH----HHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhc
Q 040518 11 WEENKAFENG----VALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEF 64 (81)
Q Consensus 11 ~eE~k~fE~a----L~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~ 64 (81)
-||-|+||.. .++| ..-..||+.|.||+ .++-..|+.|.--+..|++
T Consensus 50 iEdYKLLEeMNkaTaakY------~DMk~iAEkla~k~-deLn~KfenL~P~lqQIDa 100 (120)
T KOG4559|consen 50 IEDYKLLEEMNKATAAKY------KDMKQIAEKLAGKL-DELNLKFENLAPMLQQIDA 100 (120)
T ss_pred HHHHHHHHHHHHHHHHHH------HHHHHHHHHHccch-HHHHHHHHHHHHHHHHHHH
Confidence 4677888876 6677 24678999998765 5677888888766666643
No 133
>PF13748 ABC_membrane_3: ABC transporter transmembrane region
Probab=31.47 E-value=58 Score=24.51 Aligned_cols=29 Identities=10% Similarity=0.307 Sum_probs=25.9
Q ss_pred CchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 29 QDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 29 ~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
-.||+|+=...+.+++...+++||..|..
T Consensus 169 LNnrlE~eV~~i~~~~~~~l~rHy~~L~~ 197 (237)
T PF13748_consen 169 LNNRLEKEVDIIERRKPASLRRHYRRLSR 197 (237)
T ss_pred HhHHHHHHccHhhcCChHHHHHHHHHHHh
Confidence 36899999999999999999999998864
No 134
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=31.45 E-value=45 Score=19.12 Aligned_cols=38 Identities=18% Similarity=0.281 Sum_probs=26.3
Q ss_pred HHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 18 ENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 18 E~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
.-+|-.| .|+|.-.+|..+ ||+..+.++..+...++..
T Consensus 11 vvalllf----Gp~kLP~~~r~l-G~~ir~fk~~~~~~~~~~~ 48 (53)
T PF02416_consen 11 VVALLLF----GPKKLPELARSL-GKAIREFKKAINEAKEEIE 48 (53)
T ss_dssp HHHHHHS-----TTTHHHHHHHH-HHHHHHHHHHHHHHHH---
T ss_pred HHHHHHh----CchHHHHHHHHH-HHHHHHHHHHHHhhhhhhh
Confidence 3455556 457899999999 8888888888877777643
No 135
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=31.29 E-value=1.5e+02 Score=19.08 Aligned_cols=30 Identities=10% Similarity=0.211 Sum_probs=22.6
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
-....||..+ |.|...|+.+...-...++.
T Consensus 142 ~~~~eIA~~l-gis~~tv~~~~~ra~~~lr~ 171 (179)
T PRK11924 142 LSYREIAEIL-GVPVGTVKSRLRRARQLLRE 171 (179)
T ss_pred CCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 4578899888 88888888777666666544
No 136
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=31.24 E-value=1.3e+02 Score=20.30 Aligned_cols=48 Identities=6% Similarity=0.108 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhhccCC----------CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 12 EENKAFENGVALYYKEG----------QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~----------~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++...|..+|.+. |+. ..-.-..||+.+ |.|..-|+.+-..-...++.
T Consensus 131 ~~~~~l~~~l~~L-~~~~r~vl~l~~~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~Lr~ 188 (194)
T PRK09646 131 LERERVRDCLDAL-TDTQRESVTLAYYGGLTYREVAERL-AVPLGTVKTRMRDGLIRLRD 188 (194)
T ss_pred hHHHHHHHHHHhC-CHHHHHHHHHHHHcCCCHHHHHHHh-CCChHhHHHHHHHHHHHHHH
Confidence 3445666676655 322 123467788888 77888887776655555544
No 137
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=31.10 E-value=1.5e+02 Score=19.16 Aligned_cols=31 Identities=10% Similarity=0.302 Sum_probs=24.9
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhh
Q 040518 32 EWVKIHSLVPTKTIDEIKVHFKKLMEDLELIE 63 (81)
Q Consensus 32 RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie 63 (81)
....||..+ |-|...|+.|.......++.|.
T Consensus 130 s~~eIA~~l-gis~~tv~~~l~Rar~~L~~~~ 160 (161)
T PRK12541 130 SYKEIAEMT-GLSLAKVKIELHRGRKETKSIK 160 (161)
T ss_pred CHHHHHHHH-CCCHHHHHHHHHHHHHHHHhhc
Confidence 457899888 8999999988888877777653
No 138
>TIGR01410 tatB twin arginine-targeting protein translocase TatB. This model represents the TatB protein of a Sec-independent system for transporting folded proteins, often with a bound redox cofactor, across the bacterial inner membrane. TatC is the multiple membrane spanning component. TatB, like the related TatA/E proteins, appears to span the membrane one time. The tat system recognizes proteins with an elongated signal sequence containing a conserved R-R in a motif approximated by RRxFLK N-terminal to the transmembrane helix. TIGRFAMs model TIGR01409 describes this twin-Arg signal sequence. A similar system, termed Delta-pH-dependent transport, operates on chloroplast-encoded proteins.
Probab=30.47 E-value=70 Score=19.83 Aligned_cols=40 Identities=10% Similarity=0.045 Sum_probs=30.8
Q ss_pred HHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 17 FENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 17 fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
+.-||..| .|.|.-.++..+ ||...++++..+...+++..
T Consensus 12 ~vvallv~----GP~kLP~~~r~~-G~~i~~~r~~~~~~~~~~~~ 51 (80)
T TIGR01410 12 AVVALVVL----GPERLPVAIRAV-GKFVRRLRGMASDVKNELDE 51 (80)
T ss_pred HHHHHheE----CchHHHHHHHHH-HHHHHHHHHhhHhHHHHHHH
Confidence 33445555 467999999999 89999988888888887765
No 139
>PF00557 Peptidase_M24: Metallopeptidase family M24 This Prosite entry corresponds to sub-family M24B This Prosite entry corresponds to sub-families M24A and M24C; InterPro: IPR000994 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This entry contains proteins that belong to MEROPS peptidase family M24 (clan MG), which share a common structural-fold, the "pita-bread" fold. The fold contains both alpha helices and an anti-parallel beta sheet within two structurally similar domains that are thought to be derived from an ancient gene duplication. The active site, where conserved, is located between the two domains. The fold is common to methionine aminopeptidase (3.4.11.18 from EC), aminopeptidase P (3.4.11.9 from EC), prolidase (3.4.13.9 from EC), agropine synthase and creatinase (3.5.3.3 from EC). Though many of these peptidases require a divalent cation, creatinase is not a metal-dependent enzyme [, , ]. The entry also contains proteins that have lost catalytic activity, for example Spt16, which is a component of the FACT complex. The crystal structure of the N-terminal domain of Spt16, determined to 2.1A, reveals an aminopeptidase P fold whose enzymatic activity has been lost. This fold binds directly to histones H3-H4 through a interaction with their globular core domains, as well as with their N-terminal tails []. The FACT complex is a stable heterodimer in Saccharomyces cerevisiae (Baker's yeast) comprising Spt16p (P32558 from SWISSPROT, IPR013953 from INTERPRO) and Pob3p (Q04636 from SWISSPROT, IPR000969 from INTERPRO). The complex plays a role in transcription initiation and promotes binding of TATA-binding protein (TBP) to a TATA box in chromatin []; it also facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, , ]. ; GO: 0009987 cellular process; PDB: 4A6V_B 4A6W_A 3CTZ_A 3IG4_B 2B3H_A 2NQ6_A 2NQ7_A 2GZ5_A 2G6P_A 2B3L_A ....
Probab=30.44 E-value=1.7e+02 Score=19.66 Aligned_cols=42 Identities=21% Similarity=0.342 Sum_probs=32.2
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
|+++.++++.++..+ + .-|+..-||.|..||-+.....+++.
T Consensus 101 ~~~~~~~~~~~~~~~------~--~~~~~~~pG~~~~~v~~~~~~~~~~~ 142 (207)
T PF00557_consen 101 TPEQRRAYEAAREAL------E--AAIEALRPGVTGSDVYEAVREVLEEY 142 (207)
T ss_dssp HHHHHHHHHHHHHHH------H--HHHHH-STTSBHHHHHHHHHHHHHHT
T ss_pred cccccchhhhhHHHH------H--hHhhhcccccccchhhHHHHHHHHhh
Confidence 456777888888776 1 34567789999999999999888864
No 140
>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=30.43 E-value=1.4e+02 Score=18.55 Aligned_cols=18 Identities=22% Similarity=0.370 Sum_probs=14.4
Q ss_pred hHHHHHHHhCCCCCHHHHH
Q 040518 31 EEWVKIHSLVPTKTIDEIK 49 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~ 49 (81)
.+|..+|..| |=|-.++.
T Consensus 14 ~~Wk~lar~L-G~s~~eI~ 31 (86)
T cd08777 14 KKWKRCARKL-GFTESEIE 31 (86)
T ss_pred HHHHHHHHHc-CCCHHHHH
Confidence 4799999999 87776654
No 141
>PRK00575 tatA twin arginine translocase protein A; Provisional
Probab=30.11 E-value=60 Score=21.15 Aligned_cols=42 Identities=12% Similarity=0.078 Sum_probs=32.9
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~I 62 (81)
++.-+|..| .+.|--.++..| ||+..++|+--+.+.+|...-
T Consensus 12 Ilvi~LllF----GpkKLPel~r~l-Gk~ir~fK~a~~~~~~e~~~~ 53 (92)
T PRK00575 12 LAVVVILLF----GAKKLPDAARSL-GKSLRIFKSEVKEMQSDNKAE 53 (92)
T ss_pred HHHHHHHhc----cchHHHHHHHHH-HHHHHHHHHHHhhhhhccccc
Confidence 445566677 356899999999 999999999888888777653
No 142
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=29.81 E-value=1.5e+02 Score=26.68 Aligned_cols=42 Identities=17% Similarity=0.258 Sum_probs=34.9
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~ 53 (81)
..||.-+-..|..|-.+| .. +.-+.||+.|-| |++||....+
T Consensus 796 t~w~k~df~~fi~a~eKy-gr---~di~~ia~~~e~-~~eev~~y~r 837 (971)
T KOG0385|consen 796 TNWTKRDFNQFIKANEKY-GR---DDIENIAAEVEG-TPEEVGEYAR 837 (971)
T ss_pred cchhhhhHHHHHHHhhcc-Cc---chhhhhHHhhcC-CHHHHHHHHH
Confidence 469999999999999999 43 568999999988 9999975444
No 143
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=29.38 E-value=74 Score=22.12 Aligned_cols=30 Identities=17% Similarity=0.361 Sum_probs=20.3
Q ss_pred HHHHHHHhCCCCCHHH---HHHHHHHHHHHHhh
Q 040518 32 EWVKIHSLVPTKTIDE---IKVHFKKLMEDLEL 61 (81)
Q Consensus 32 RWekIA~~vpgKS~~e---v~~ry~~L~~dv~~ 61 (81)
.|.+|+..||+.+..+ ++.++..+..-|..
T Consensus 11 dWa~l~~~vp~~~~~~~~afk~r~d~~~~~v~~ 43 (161)
T PF05873_consen 11 DWAKLAERVPPEQKAQFQAFKKRSDEYKRRVSK 43 (161)
T ss_dssp -HHHHHTTS-GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5999999999866554 45666666666654
No 144
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=29.25 E-value=1.6e+02 Score=18.93 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=21.3
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
-....||..+ |.|..-|+.+.......++.
T Consensus 145 ~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~ 174 (182)
T PRK09652 145 LSYEEIAEIM-GCPIGTVRSRIFRAREALRA 174 (182)
T ss_pred CCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3578899888 88888887776655555443
No 145
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=29.11 E-value=2e+02 Score=19.87 Aligned_cols=61 Identities=8% Similarity=-0.017 Sum_probs=38.8
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh---hhcCCCCCCCC
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL---IEFGFEPVSID 72 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~---Ie~g~v~~P~~ 72 (81)
-|..|...+...+... . ..+-....||+.+ |-|..-|+.|-+.|+.-.-. |.-|.+-=|.|
T Consensus 159 Lt~re~~~l~~~i~~~-~-~~g~s~~eIA~~l-~iS~~Tv~~~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (239)
T PRK10430 159 LTPQTLRTLCQWIDAH-Q-DYEFSTDELANAV-NISRVSCRKYLIWLVNCHILFTSIHYGVTGRPVY 222 (239)
T ss_pred CCHHHHHHHHHHHHhC-C-CCCcCHHHHHHHh-CchHHHHHHHHHHHHhCCEEEEEeeccCCCCCCe
Confidence 6666655555444332 1 2223678999999 89999999999988654322 33455555555
No 146
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=29.01 E-value=96 Score=16.27 Aligned_cols=27 Identities=11% Similarity=-0.092 Sum_probs=19.6
Q ss_pred CCCHHHHHHHHHHHHHHHhhhhcCCCC
Q 040518 42 TKTIDEIKVHFKKLMEDLELIEFGFEP 68 (81)
Q Consensus 42 gKS~~ev~~ry~~L~~dv~~Ie~g~v~ 68 (81)
|.|..++-++...-..-|..+|.|...
T Consensus 15 gltq~~lA~~~gvs~~~vs~~e~g~~~ 41 (58)
T TIGR03070 15 GLTQADLADLAGVGLRFIRDVENGKPT 41 (58)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHCCCCC
Confidence 666777666666667778888888754
No 147
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=28.84 E-value=92 Score=16.88 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=15.0
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 040518 42 TKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 42 gKS~~ev~~ry~~L~~dv 59 (81)
+-|..+|++.|+.|+.-+
T Consensus 12 ~~~~~~ik~ay~~l~~~~ 29 (60)
T smart00271 12 DASLDEIKKAYRKLALKY 29 (60)
T ss_pred CCCHHHHHHHHHHHHHHH
Confidence 468999999999997755
No 148
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=28.65 E-value=57 Score=20.12 Aligned_cols=24 Identities=17% Similarity=0.131 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCCC
Q 040518 48 IKVHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 48 v~~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
.-+.+..|-+=|..+|+|.+||-.
T Consensus 8 fEe~l~~LE~IV~~LE~~~l~Lee 31 (75)
T PRK14064 8 FEEAIAELETIVEALENGSASLED 31 (75)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHH
Confidence 335566777778888999998754
No 149
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=28.57 E-value=1.2e+02 Score=19.87 Aligned_cols=48 Identities=10% Similarity=0.216 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhhccCC----------CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 12 EENKAFENGVALYYKEG----------QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~----------~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++...+.++|... |+. ..-.-+.||+.+ |.|..-|+.|...-...++.
T Consensus 108 ~~~~~l~~~l~~L-~~~~r~i~~l~~~~~~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~ 165 (173)
T PRK12522 108 VEAEMIREVIQLL-NEKYKTVLVLYYYEQYSYKEMSEIL-NIPIGTVKYRLNYAKKQMRE 165 (173)
T ss_pred HHHHHHHHHHHhC-CHHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 3445566777666 432 122345677777 77777788776655555543
No 150
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=28.46 E-value=66 Score=24.64 Aligned_cols=34 Identities=18% Similarity=0.196 Sum_probs=26.3
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCC
Q 040518 32 EWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGF 66 (81)
Q Consensus 32 RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~ 66 (81)
+=..||..+ |=|++-|.+|.++|+.+=---+.|+
T Consensus 27 ~q~eIA~~l-giT~QaVsehiK~Lv~eG~i~~~gR 60 (260)
T COG1497 27 KQKEIAKKL-GITLQAVSEHIKELVKEGLIEKEGR 60 (260)
T ss_pred CHHHHHHHc-CCCHHHHHHHHHHHHhccceeecCC
Confidence 446899999 9999999999999987633323444
No 151
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=28.16 E-value=83 Score=19.15 Aligned_cols=30 Identities=13% Similarity=0.219 Sum_probs=25.7
Q ss_pred CchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 29 QDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 29 ~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
.+.|...|.+.+||=|..-+.++-+.|.++
T Consensus 17 g~~rf~el~~~l~~is~~~L~~~L~~L~~~ 46 (90)
T PF01638_consen 17 GPMRFSELQRRLPGISPKVLSQRLKELEEA 46 (90)
T ss_dssp SSEEHHHHHHHSTTS-HHHHHHHHHHHHHT
T ss_pred CCCcHHHHHHhcchhHHHHHHHHHHHHHHc
Confidence 578999999999999999999998888764
No 152
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=27.99 E-value=1.6e+02 Score=18.57 Aligned_cols=40 Identities=10% Similarity=0.164 Sum_probs=27.4
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHH
Q 040518 14 NKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKL 55 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L 55 (81)
-.+|..+|... -.|.|-.=+.+|+.+ |+++++|..--..+
T Consensus 23 ~~L~r~LLr~L-A~G~PVt~~~LA~a~-g~~~e~v~~~L~~~ 62 (77)
T PF12324_consen 23 AWLLRPLLRLL-AKGQPVTVEQLAAAL-GWPVEEVRAALAAM 62 (77)
T ss_dssp HHHHHHHHHHH-TTTS-B-HHHHHHHH-T--HHHHHHHHHH-
T ss_pred HHHHHHHHHHH-HcCCCcCHHHHHHHH-CCCHHHHHHHHHhC
Confidence 34677777777 678888889999999 89999998765443
No 153
>COG1722 XseB Exonuclease VII small subunit [DNA replication, recombination, and repair]
Probab=27.87 E-value=55 Score=20.56 Aligned_cols=22 Identities=27% Similarity=0.297 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHhhhhcCCCCCC
Q 040518 49 KVHFKKLMEDLELIEFGFEPVS 70 (81)
Q Consensus 49 ~~ry~~L~~dv~~Ie~g~v~~P 70 (81)
-.-.+.|.+=|.++|+|.+||-
T Consensus 13 E~~l~eLE~IV~~LE~Gel~Le 34 (81)
T COG1722 13 EEALAELEEIVESLESGELPLE 34 (81)
T ss_pred HHHHHHHHHHHHHHHcCcccHH
Confidence 3445566677788899998874
No 154
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=27.51 E-value=1.4e+02 Score=18.31 Aligned_cols=38 Identities=8% Similarity=0.137 Sum_probs=28.1
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHhh-h-hcCCCCCCC
Q 040518 34 VKIHSLVPTKTIDEIKVHFKKLMEDLEL-I-EFGFEPVSI 71 (81)
Q Consensus 34 ekIA~~vpgKS~~ev~~ry~~L~~dv~~-I-e~g~v~~P~ 71 (81)
+.||+..+|-|..++..-...+++-+.. + +.+.|.||.
T Consensus 8 ~~ia~~~~~~s~~~~~~vv~~~~~~i~~~L~~g~~V~l~g 47 (94)
T PRK00199 8 ERLAARNPHLSAKDVENAVKEILEEMSDALARGDRIEIRG 47 (94)
T ss_pred HHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcC
Confidence 5677766688999998888888887754 3 445777765
No 155
>KOG0721 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=27.25 E-value=55 Score=24.63 Aligned_cols=21 Identities=29% Similarity=0.409 Sum_probs=17.6
Q ss_pred hCCCCCHHHHHHHHHHHHHHH
Q 040518 39 LVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 39 ~vpgKS~~ev~~ry~~L~~dv 59 (81)
.=||-|..|||+||+.|.-..
T Consensus 107 l~pgas~~eIKkaYR~LSik~ 127 (230)
T KOG0721|consen 107 LDPGASEKEIKKAYRRLSIKY 127 (230)
T ss_pred CCCCCCHHHHHHHHHHhhhhh
Confidence 447899999999999997654
No 156
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=27.16 E-value=59 Score=15.08 Aligned_cols=13 Identities=15% Similarity=0.289 Sum_probs=8.1
Q ss_pred HHHHHHHHHhhccC
Q 040518 14 NKAFENGVALYYKE 27 (81)
Q Consensus 14 ~k~fE~aL~~~~p~ 27 (81)
.+.|+..+..| |.
T Consensus 20 ~~~~~~~~~~~-P~ 32 (33)
T PF13174_consen 20 IEYFQRLIKRY-PD 32 (33)
T ss_dssp HHHHHHHHHHS-TT
T ss_pred HHHHHHHHHHC-cC
Confidence 34666677777 53
No 157
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=27.13 E-value=1e+02 Score=16.08 Aligned_cols=25 Identities=20% Similarity=0.163 Sum_probs=18.4
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 32 EWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 32 RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
..+.||..+ |-|.+-|-+-...|.+
T Consensus 4 tr~diA~~l-G~t~ETVSR~l~~l~~ 28 (32)
T PF00325_consen 4 TRQDIADYL-GLTRETVSRILKKLER 28 (32)
T ss_dssp -HHHHHHHH-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHh-CCcHHHHHHHHHHHHH
Confidence 367899999 8888888877777654
No 158
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=27.04 E-value=2.3e+02 Score=21.58 Aligned_cols=48 Identities=23% Similarity=0.037 Sum_probs=38.0
Q ss_pred CCHHHHHHHHHHHHhhccC-CCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 9 WSWEENKAFENGVALYYKE-GQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~-~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
=|..|.+++++.|... .. ..--.=..||..+ |=|..-|+++.+.|...
T Consensus 177 LSySEleAv~~IL~~L-~~~egrlse~eLAerl-GVSRs~ireAlrkLE~a 225 (251)
T TIGR02787 177 LSYSELEAVEHIFEEL-DGNEGLLVASKIADRV-GITRSVIVNALRKLESA 225 (251)
T ss_pred ccHhHHHHHHHHHHHh-ccccccccHHHHHHHH-CCCHHHHHHHHHHHHHC
Confidence 3667889999999888 54 2333457999999 89999999999998753
No 159
>TIGR00988 hip integration host factor, beta subunit. This protein forms a site-specific DNA-binding heterodimer with the homologous integration host factor alpha subunit. It is closely related to the DNA-binding protein HU.
Probab=26.88 E-value=1.5e+02 Score=18.12 Aligned_cols=38 Identities=8% Similarity=0.078 Sum_probs=27.1
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHhh-h-hcCCCCCCC
Q 040518 34 VKIHSLVPTKTIDEIKVHFKKLMEDLEL-I-EFGFEPVSI 71 (81)
Q Consensus 34 ekIA~~vpgKS~~ev~~ry~~L~~dv~~-I-e~g~v~~P~ 71 (81)
+.||+.-++-|..+|..-...+++-+.. + +.+.|.||.
T Consensus 8 ~~i~~~~~~~s~~~v~~vv~~~~~~i~~~L~~g~~V~l~g 47 (94)
T TIGR00988 8 ERIATQQSHLPAKDVEDAVKTMLEHMASALAQGDRIEIRG 47 (94)
T ss_pred HHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcC
Confidence 4566665678888988888888887743 3 445777775
No 160
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=26.87 E-value=1.2e+02 Score=16.84 Aligned_cols=22 Identities=5% Similarity=0.069 Sum_probs=17.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhh
Q 040518 40 VPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 40 vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+|||.++-++-++.+.+-+..
T Consensus 9 ~~grs~eqk~~l~~~it~~l~~ 30 (62)
T PRK00745 9 FEGRTVEQKRKLVEEITRVTVE 30 (62)
T ss_pred cCCCCHHHHHHHHHHHHHHHHH
Confidence 5688988888888888777766
No 161
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=26.86 E-value=1.8e+02 Score=18.62 Aligned_cols=45 Identities=20% Similarity=0.137 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
.-|+.|..+++.....+ .-+.||..+ +-|..-|+.|-..+.+.+.
T Consensus 137 ~Lt~~E~~il~~l~~g~-------~~~~Ia~~l-~~s~~tv~~~~~~l~~Kl~ 181 (196)
T PRK10360 137 PLTKRERQVAEKLAQGM-------AVKEIAAEL-GLSPKTVHVHRANLMEKLG 181 (196)
T ss_pred CCCHHHHHHHHHHHCCC-------CHHHHHHHh-CCCHHHHHHHHHHHHHHhC
Confidence 46777777666654333 478999999 6788888888888887764
No 162
>PF05138 PaaA_PaaC: Phenylacetic acid catabolic protein; InterPro: IPR007814 This family includes proteins such as PaaA and PaaC that are part of a catabolic pathway of phenylacetic acid []. These proteins may form part of a dioxygenase complex.; PDB: 3PWQ_K 3PVT_B 1OTK_B 3PW1_B 3PW8_B 3PVR_B 3PVY_B 3Q1G_A 3PF7_B 3PM5_C ....
Probab=26.81 E-value=2.5e+02 Score=20.91 Aligned_cols=59 Identities=12% Similarity=0.074 Sum_probs=38.2
Q ss_pred CHHHHHHHHHHHHhhcc-------CCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCCCCCC
Q 040518 10 SWEENKAFENGVALYYK-------EGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEPVSID 72 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p-------~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~~ 72 (81)
|.|....+..||...|| .+..+ ..++..+-+.|..+++..|..-+..+-. +.| +.+|..
T Consensus 163 t~es~~r~q~Al~~~wp~~~elF~~~~~~--~~l~~~~~~~~~~~lr~~w~~~v~~~l~-~~g-L~~P~~ 228 (263)
T PF05138_consen 163 TEESRERMQAALDRLWPYTLELFGPDDSE--EALAWGGRAPDNEELRQRWLAEVVPVLE-EAG-LEVPED 228 (263)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHCC-S-HCH--HHHHCTTSSS-HHHHHHHHHHHHHHHHH-HTT----S-S
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCchH--HHHHHCCCCCCHHHHHHHHHHHHHHHHH-HcC-CCCCCC
Confidence 45666677777766652 22122 5566666679999999999999999888 888 778874
No 163
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=26.53 E-value=47 Score=23.39 Aligned_cols=41 Identities=17% Similarity=0.189 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhhccCCCc----hHHHHHHHhCCCCCHHHHHHHHH
Q 040518 12 EENKAFENGVALYYKEGQD----EEWVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~~~----~RWekIA~~vpgKS~~ev~~ry~ 53 (81)
++..+|+-.+|.+ --+.+ -.=..||..+-|||++|++..|+
T Consensus 96 d~~tLfdli~AAn-yLdi~gLl~~~ck~va~mikgktpeEir~~f~ 140 (162)
T KOG1724|consen 96 DQGTLFDLILAAN-YLDIKGLLDLTCKTVANMIKGKTPEEIREIFN 140 (162)
T ss_pred CHHHHHHHHHHhh-hcccHHHHHHHHHHHHHHHccCCHHHHHHHcC
Confidence 3557888888877 23322 23468999999999999998865
No 164
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=26.51 E-value=1.8e+02 Score=18.66 Aligned_cols=28 Identities=14% Similarity=0.228 Sum_probs=18.5
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 32 EWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 32 RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
.-..||+.+ |.|..-|+.+.......++
T Consensus 140 s~~eIA~~l-~is~~tv~~~l~ra~~~Lr 167 (170)
T TIGR02952 140 PIAEVARIL-GKTEGAVKILQFRAIKKLA 167 (170)
T ss_pred CHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 456777777 7777777776666555554
No 165
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=26.46 E-value=74 Score=22.32 Aligned_cols=31 Identities=23% Similarity=0.159 Sum_probs=18.5
Q ss_pred CCCCCHHHHHHHH--HHHHHHHhhhhcCCCCCCCC
Q 040518 40 VPTKTIDEIKVHF--KKLMEDLELIEFGFEPVSID 72 (81)
Q Consensus 40 vpgKS~~ev~~ry--~~L~~dv~~Ie~g~v~~P~~ 72 (81)
+||.|+.||..|- +.+..- +..+|.|.+|.+
T Consensus 1 m~gvtVkdV~~~~f~~a~asf--LK~sgkv~vp~~ 33 (143)
T KOG3411|consen 1 MPGVTVKDVDPHKFTKAYASF--LKRSGKVEVPQW 33 (143)
T ss_pred CCccchhhcCHHHHHHHHHHH--HHhcCCccCcch
Confidence 4788888886442 122222 235788888865
No 166
>PRK00708 sec-independent translocase; Provisional
Probab=26.25 E-value=1.1e+02 Score=22.58 Aligned_cols=39 Identities=3% Similarity=-0.044 Sum_probs=26.7
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
++..+|..| .|.|+=.|+..| |+.+..+++..+....++
T Consensus 12 I~vVaLvV~----GPkrLP~~~R~l-Gk~v~k~R~~a~e~r~~~ 50 (209)
T PRK00708 12 IAIVLIVVV----GPKDLPPMLRAF-GKMTARMRKMAGEFRRQF 50 (209)
T ss_pred HHHHHHhhc----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 444556666 468999999999 888877776555444444
No 167
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=26.19 E-value=2e+02 Score=19.11 Aligned_cols=30 Identities=13% Similarity=0.077 Sum_probs=20.5
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
-..+.||..+ |-|..-|+.+...-+..++.
T Consensus 156 ~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~ 185 (189)
T PRK09648 156 LSAEETAEAV-GSTPGAVRVAQHRALARLRA 185 (189)
T ss_pred CCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 4577788888 78888787776655555543
No 168
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=26.07 E-value=1.5e+02 Score=17.43 Aligned_cols=19 Identities=11% Similarity=0.270 Sum_probs=13.8
Q ss_pred CchHHHHHHHhCCCCCHHHH
Q 040518 29 QDEEWVKIHSLVPTKTIDEI 48 (81)
Q Consensus 29 ~~~RWekIA~~vpgKS~~ev 48 (81)
....|.++|..+ |-+..++
T Consensus 16 ~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 16 LGLDWRELARKL-GLSEADI 34 (88)
T ss_pred cchHHHHHHHHc-CCCHHHH
Confidence 456799999999 5555443
No 169
>PF13730 HTH_36: Helix-turn-helix domain
Probab=25.93 E-value=1.2e+02 Score=16.34 Aligned_cols=24 Identities=13% Similarity=0.059 Sum_probs=21.0
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 33 WVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
=+.||..+ |.|..-|+++-+.|++
T Consensus 28 ~~~la~~~-g~s~~Tv~~~i~~L~~ 51 (55)
T PF13730_consen 28 QETLAKDL-GVSRRTVQRAIKELEE 51 (55)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 48999999 9999999999888875
No 170
>COG1559 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]
Probab=25.80 E-value=50 Score=25.92 Aligned_cols=38 Identities=21% Similarity=0.266 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHH
Q 040518 12 EENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKV 50 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ 50 (81)
....++.++++.+ ......-|+.++..+|++|+.|+.-
T Consensus 179 ~~~~Ii~~mi~~~-~~~l~~~~~~~~~~lp~~t~~e~lt 216 (342)
T COG1559 179 SAEDIIKRMIKAM-DKKLDEAWEKRADDLPGKTPYELLT 216 (342)
T ss_pred CHHHHHHHHHHHH-HHHHHHhhhcccccCCCCCHHHHHH
Confidence 3456777777777 6666778999999999999998753
No 171
>PRK12896 methionine aminopeptidase; Reviewed
Probab=25.70 E-value=2.4e+02 Score=19.78 Aligned_cols=44 Identities=14% Similarity=0.207 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
.-|.+..++++.++..+ +.-|+..-||.+..+|-+....++++-
T Consensus 120 ~~~~~~~~~~~~~~~a~--------~~~~~~~kpG~~~~~v~~~~~~~~~~~ 163 (255)
T PRK12896 120 PVSEEAEKLCRVAEEAL--------WAGIKQVKAGRPLNDIGRAIEDFAKKN 163 (255)
T ss_pred CCCHHHHHHHHHHHHHH--------HHHHHHhcCCCCHHHHHHHHHHHHHHc
Confidence 35677778888888666 677889999999999987777666553
No 172
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=24.99 E-value=54 Score=19.15 Aligned_cols=27 Identities=22% Similarity=0.150 Sum_probs=19.0
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhhcCCC
Q 040518 41 PTKTIDEIKVHFKKLMEDLELIEFGFE 67 (81)
Q Consensus 41 pgKS~~ev~~ry~~L~~dv~~Ie~g~v 67 (81)
-|-|.+||-+.-+.-..-|..||.|.+
T Consensus 9 ~glsl~~va~~t~I~~~~l~aiE~~~~ 35 (62)
T PF13413_consen 9 KGLSLEDVAEETKISVSYLEAIENGDF 35 (62)
T ss_dssp TT--HHHHHHHCS--HHHHHHHHCT-G
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHCcCh
Confidence 378899999888888999999999843
No 173
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=24.90 E-value=1.6e+02 Score=21.76 Aligned_cols=30 Identities=7% Similarity=0.037 Sum_probs=26.2
Q ss_pred CCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 28 GQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 28 ~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
..|-+=..||..| |=|...|+.|.+.|+.+
T Consensus 23 ~g~~sa~elA~~L-gis~~avR~HL~~Le~~ 52 (218)
T COG2345 23 SGPVSADELAEEL-GISPMAVRRHLDDLEAE 52 (218)
T ss_pred cCCccHHHHHHHh-CCCHHHHHHHHHHHHhC
Confidence 4556788999999 99999999999999875
No 174
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=24.88 E-value=1.4e+02 Score=21.78 Aligned_cols=39 Identities=10% Similarity=0.144 Sum_probs=28.2
Q ss_pred CCCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH
Q 040518 7 KQWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK 54 (81)
Q Consensus 7 ~~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~ 54 (81)
+.+|.+|...++.++..- ++.+...+-+ ..+..+++|+.
T Consensus 150 ~~f~~~E~~~l~~~~~~a--------~~~~~~~~~~-~~~~~mn~~~~ 188 (190)
T COG0193 150 GKFSKEERELLDKAIDKA--------ADALELLLEG-DFEKAMNKLNA 188 (190)
T ss_pred CCCCHHHHHHHHHHHHHH--------HHHHHHHHHH-hHHHHHHHHhc
Confidence 468999999999988555 5666666655 66666766654
No 175
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=24.88 E-value=2.1e+02 Score=18.76 Aligned_cols=30 Identities=17% Similarity=0.262 Sum_probs=20.8
Q ss_pred chHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 30 DEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 30 ~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
+-..+.||+.+ |-|..-|+.+.......++
T Consensus 152 ~~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr 181 (187)
T PRK09641 152 DLSLKEISEIL-DLPVGTVKTRIHRGREALR 181 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 34577888888 7888888777665555444
No 176
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.81 E-value=73 Score=19.74 Aligned_cols=22 Identities=5% Similarity=-0.003 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhhhhcCCCCCCC
Q 040518 50 VHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 50 ~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
..+..|-+=|..+|+|.+||..
T Consensus 10 eal~~Le~IV~~LE~gdl~Lee 31 (76)
T PRK14068 10 EMMQELEQIVQKLDNETVSLEE 31 (76)
T ss_pred HHHHHHHHHHHHHHcCCCCHHH
Confidence 4456677777888999988753
No 177
>cd01021 GEWL Goose Egg White Lysozyme domain. Eukaryotic "goose-type" lysozymes (GEWL). These enzymes catalyze the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc). Members include tunicate, Japanese flounder, ostrich, and mouse.
Probab=24.46 E-value=34 Score=24.20 Aligned_cols=11 Identities=0% Similarity=0.072 Sum_probs=6.5
Q ss_pred HHHHHHHHHHH
Q 040518 45 IDEIKVHFKKL 55 (81)
Q Consensus 45 ~~ev~~ry~~L 55 (81)
+.+|+.||+.+
T Consensus 153 v~~Vlar~~~~ 163 (166)
T cd01021 153 SNDVVARAQYY 163 (166)
T ss_pred HHHHHHHHHHH
Confidence 44566666654
No 178
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=24.31 E-value=91 Score=20.91 Aligned_cols=29 Identities=31% Similarity=0.347 Sum_probs=20.9
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
...-+|=..-|+-|.+||+++|+.|+...
T Consensus 65 ~eAy~ILGv~~~As~~eIkkaYRrLa~~~ 93 (116)
T PTZ00100 65 SEAYKILNISPTASKERIREAHKQLMLRN 93 (116)
T ss_pred HHHHHHcCCCCCCCHHHHHHHHHHHHHHh
Confidence 33444444556789999999999998654
No 179
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=24.12 E-value=1.7e+02 Score=21.65 Aligned_cols=41 Identities=12% Similarity=0.278 Sum_probs=19.5
Q ss_pred HHHHHHHhhccCC--CchHHHHHHHhCC-CCCHHHHHHHHHHHHH
Q 040518 16 AFENGVALYYKEG--QDEEWVKIHSLVP-TKTIDEIKVHFKKLME 57 (81)
Q Consensus 16 ~fE~aL~~~~p~~--~~~RWekIA~~vp-gKS~~ev~~ry~~L~~ 57 (81)
.|++++..| |.+ .++-|-+++...- .+-..+.+..|+.+++
T Consensus 202 ~f~~vv~~y-P~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~ 245 (263)
T PRK10803 202 YFASVVKNY-PKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIK 245 (263)
T ss_pred HHHHHHHHC-CCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 455555555 533 3455555544331 1344455555555544
No 180
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=24.09 E-value=2.2e+02 Score=20.48 Aligned_cols=41 Identities=12% Similarity=0.239 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHH-HH
Q 040518 13 ENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKK-LM 56 (81)
Q Consensus 13 E~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~-L~ 56 (81)
|...|...++.+ .+.+-.=..||+.+ |++...+...+.. |+
T Consensus 240 ~~~~L~al~~~~--~~~~~~~~~ia~~l-g~~~~~~~~~~e~~Li 281 (305)
T TIGR00635 240 DRKLLSVLIEQF--QGGPVGLKTLAAAL-GEDADTIEDVYEPYLL 281 (305)
T ss_pred HHHHHHHHHHHh--CCCcccHHHHHHHh-CCCcchHHHhhhHHHH
Confidence 334443344555 34456678999888 8998888887873 54
No 181
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.07 E-value=77 Score=19.55 Aligned_cols=22 Identities=27% Similarity=0.172 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhhhhcCCCCCCC
Q 040518 50 VHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 50 ~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
.....|.+=|..+|+|.+||-.
T Consensus 8 eal~~LE~IV~~LE~g~l~Lee 29 (75)
T PRK14066 8 TALKKLEEVVKKLEGGELSLDD 29 (75)
T ss_pred HHHHHHHHHHHHHHCCCCCHHH
Confidence 4456677778888999998753
No 182
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=23.93 E-value=2.3e+02 Score=20.95 Aligned_cols=45 Identities=13% Similarity=0.073 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
.=|+.|..+|+-...-+ .-..||+.+ +-|..-|+.|-..+.+.+.
T Consensus 143 ~LS~RE~eVL~Lia~G~-------SnkEIA~~L-~IS~~TVk~hvs~I~~KLg 187 (217)
T PRK13719 143 KVTKYQNDVFILYSFGF-------SHEYIAQLL-NITVGSSKNKISEILKFFG 187 (217)
T ss_pred CCCHHHHHHHHHHHCCC-------CHHHHHHHh-CCCHHHHHHHHHHHHHHhC
Confidence 35788888887766444 468999999 8999999988888777654
No 183
>PLN02279 ent-kaur-16-ene synthase
Probab=23.92 E-value=1.5e+02 Score=25.86 Aligned_cols=15 Identities=27% Similarity=0.091 Sum_probs=11.8
Q ss_pred CHHHHHHHHHHHHhh
Q 040518 10 SWEENKAFENGVALY 24 (81)
Q Consensus 10 T~eE~k~fE~aL~~~ 24 (81)
|.||-+.|-.|+.++
T Consensus 538 t~eEL~~ft~aVeRW 552 (784)
T PLN02279 538 SEEELENLIQLVEKW 552 (784)
T ss_pred CHHHHHHHHHHHHHh
Confidence 778899999988444
No 184
>PF11842 DUF3362: Domain of unknown function (DUF3362); InterPro: IPR024560 This domain tends to occur to the C terminus of a radical SAM domain (PF04055 from PFAM) in members of the uncharacterised protein family UPF0313. Radical SAM proteins catalyse diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].
Probab=23.85 E-value=1e+02 Score=21.74 Aligned_cols=26 Identities=15% Similarity=0.466 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHhhccCCCchHHHHHHHhC
Q 040518 12 EENKAFENGVALYYKEGQDEEWVKIHSLV 40 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~~~~RWekIA~~v 40 (81)
++++.+-+||-+| ..|+.|..|-++|
T Consensus 41 ~~er~lqkAll~Y---~~PeN~~lvreAL 66 (150)
T PF11842_consen 41 ERERRLQKALLRY---HDPENWPLVREAL 66 (150)
T ss_pred HHHHHHHHHHHhh---cChhhHHHHHHHH
Confidence 5788999999999 5678899998877
No 185
>cd08309 Death_IRAK Death domain of Interleukin-1 Receptor-Associated Kinases. Death Domains (DDs) found in Interleukin-1 (IL-1) Receptor-Associated Kinases (IRAK1-4) and similar proteins. IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. All four types are involved in signal transduction involving IL-1 and IL-18 receptors, Toll-like receptors, nuclear factor-kappaB, and mitogen-activated protein kinase pathways. IRAK1 and IRAK4 are active kinases while IRAK2 and IRAK-M (also called IRAK3) are inactive. In general, IRAKs are expressed ubiquitously, except for IRAK-M which is detected only in macrophages. The insect homologs, Pelle and Tube, are important components of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and also in the innate immune response. Most members have an N-terminal DD followed by a kinase domain. In general, DDs are protein-protein interaction domains found in a variety of domain a
Probab=23.85 E-value=43 Score=21.14 Aligned_cols=13 Identities=31% Similarity=0.787 Sum_probs=11.0
Q ss_pred CchHHHHHHHhCC
Q 040518 29 QDEEWVKIHSLVP 41 (81)
Q Consensus 29 ~~~RWekIA~~vp 41 (81)
..+.|.++|+.|+
T Consensus 22 ~~~~W~~LA~~i~ 34 (95)
T cd08309 22 ELKGWRQLASLIP 34 (95)
T ss_pred ccCChHHHHHHhc
Confidence 3578999999995
No 186
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=23.78 E-value=53 Score=23.22 Aligned_cols=42 Identities=21% Similarity=0.264 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhhc---cCCCchHHHHHHHhCCCCCHHHHHHHHH
Q 040518 12 EENKAFENGVALYY---KEGQDEEWVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 12 eE~k~fE~aL~~~~---p~~~~~RWekIA~~vpgKS~~ev~~ry~ 53 (81)
++..+|+-.|+.-+ +.-..--=.-||..+-|||.+++++.|+
T Consensus 91 DqemL~eI~laaNYL~ikpLLd~gCKivaemirgkSpeeir~tfn 135 (158)
T COG5201 91 DQEMLLEICLAANYLEIKPLLDLGCKIVAEMIRGKSPEEIRETFN 135 (158)
T ss_pred hHHHHHHHHHhhccccchHHHHHHHHHHHHHHccCCHHHHHHHhC
Confidence 44557776665431 1111112357999999999999998875
No 187
>PHA02564 V virion protein; Provisional
Probab=23.58 E-value=1.1e+02 Score=21.08 Aligned_cols=37 Identities=14% Similarity=0.032 Sum_probs=26.0
Q ss_pred HHHHHHhCCCCCHHHHHH----HHHHHHHHHhhhhcCCCCCC
Q 040518 33 WVKIHSLVPTKTIDEIKV----HFKKLMEDLELIEFGFEPVS 70 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~----ry~~L~~dv~~Ie~g~v~~P 70 (81)
=..||..+ |-++.++.. .+..|+.-+..+|.|..|.+
T Consensus 88 i~~Vs~~~-GV~~~~~idl~d~~l~~l~~Aii~~EnG~~pys 128 (141)
T PHA02564 88 ATAVANAM-GVPPQAGLHLDQDTLAALVTAIIRHENGQQPYS 128 (141)
T ss_pred HHHHHHHH-CCCCCCcCcCCcHHHHHHHHHHHHHhcCCCCCC
Confidence 56677777 655555432 67788888888899987754
No 188
>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function.
Probab=23.51 E-value=3e+02 Score=20.61 Aligned_cols=57 Identities=19% Similarity=0.318 Sum_probs=42.1
Q ss_pred CCCHHH-HHHHHHHHHhhccCCCchHHHHHHHhC----CCCCHHHHHHHHHHHHHHHhhhhcCC
Q 040518 8 QWSWEE-NKAFENGVALYYKEGQDEEWVKIHSLV----PTKTIDEIKVHFKKLMEDLELIEFGF 66 (81)
Q Consensus 8 ~WT~eE-~k~fE~aL~~~~p~~~~~RWekIA~~v----pgKS~~ev~~ry~~L~~dv~~Ie~g~ 66 (81)
.|+.++ .+.++++|..+ | +.+.=|..--... .+=|+.+|+.-|...+..+..+.+|.
T Consensus 78 ~~~~~~l~~~we~~l~~~-~-~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~ 139 (321)
T PF08424_consen 78 VWDSEKLAKKWEELLFKN-P-GSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGR 139 (321)
T ss_pred hCCHHHHHHHHHHHHHHC-C-CChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccc
Confidence 476666 55888888888 5 4556675543333 23579999999999999999988775
No 189
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=23.41 E-value=78 Score=20.61 Aligned_cols=22 Identities=14% Similarity=-0.059 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhhhhcCCCCCCC
Q 040518 50 VHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 50 ~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
..+..|-+=|..||+|.+||-.
T Consensus 12 eal~~LEeIV~~LEsgdl~LEe 33 (95)
T PRK14069 12 DALRELEQIAEKLERQDFSLEE 33 (95)
T ss_pred HHHHHHHHHHHHHHCCCCCHHH
Confidence 4566777778889999998753
No 190
>PF11112 PyocinActivator: Pyocin activator protein PrtN
Probab=23.38 E-value=1.2e+02 Score=18.77 Aligned_cols=15 Identities=13% Similarity=0.013 Sum_probs=11.7
Q ss_pred HhhhhcCCCCCCCCc
Q 040518 59 LELIEFGFEPVSIDY 73 (81)
Q Consensus 59 v~~Ie~g~v~~P~~~ 73 (81)
.+.|-+|.+|||.+-
T Consensus 34 ~rk~~~g~lplPv~r 48 (76)
T PF11112_consen 34 KRKANAGELPLPVFR 48 (76)
T ss_pred HHHHHCCCCCCceee
Confidence 345678999999874
No 191
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=23.38 E-value=2e+02 Score=21.36 Aligned_cols=50 Identities=10% Similarity=0.114 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhh
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~I 62 (81)
+..+.+.|...+..| . +.+-.-+.||+.+ |.+...+-..|+..+=|...|
T Consensus 258 ~~~~~~~l~~~~~~~-~-~~~~~~~~~a~~l-g~~~~~~~~~~e~~Li~~~li 307 (328)
T PRK00080 258 DEMDRKYLRTIIEKF-G-GGPVGLDTLAAAL-GEERDTIEDVYEPYLIQQGFI 307 (328)
T ss_pred CHHHHHHHHHHHHHc-C-CCceeHHHHHHHH-CCCcchHHHHhhHHHHHcCCc
Confidence 445566666677777 4 4456778899999 788777777777333333333
No 192
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=23.34 E-value=2.1e+02 Score=18.35 Aligned_cols=44 Identities=5% Similarity=0.108 Sum_probs=27.5
Q ss_pred HHHHHHHhhccCC----------CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 16 AFENGVALYYKEG----------QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 16 ~fE~aL~~~~p~~----------~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.+..+|.+. |+. .+-.-..||..+ |.|..-|+.|.......++.
T Consensus 99 ~l~~~l~~L-p~~~r~v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~ 152 (160)
T PRK09642 99 LIAQKLREL-PENYRDVVLAHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKWIKK 152 (160)
T ss_pred HHHHHHHhC-CHHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 466666555 432 123456788888 88888888776655555544
No 193
>PHA02943 hypothetical protein; Provisional
Probab=23.29 E-value=36 Score=24.43 Aligned_cols=46 Identities=13% Similarity=0.129 Sum_probs=31.0
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHH--HhhhhcCCCCCCCCccccccc
Q 040518 33 WVKIHSLVPTKTIDEIKVHFKKLMED--LELIEFGFEPVSIDYHQQYKN 79 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~ry~~L~~d--v~~Ie~g~v~~P~~~~~~~~~ 79 (81)
=..||..+ |.|..++.-+-..|..+ |..++.|...+=.-.+|+|.|
T Consensus 27 tseIAkaL-GlS~~qa~~~LyvLErEG~VkrV~~G~~tyw~l~~day~~ 74 (165)
T PHA02943 27 TSRIANKL-GVSHSMARNALYQLAKEGMVLKVEIGRAAIWCLDEDAYTN 74 (165)
T ss_pred HHHHHHHH-CCCHHHHHHHHHHHHHcCceEEEeecceEEEEEChHHHHH
Confidence 45899999 99999998887777654 555566655443334455443
No 194
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=23.28 E-value=1.3e+02 Score=21.89 Aligned_cols=39 Identities=13% Similarity=-0.007 Sum_probs=26.8
Q ss_pred CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCC
Q 040518 29 QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEP 68 (81)
Q Consensus 29 ~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~ 68 (81)
+|+.-.++-..| |-|.+++-++.---.-=|.+||+|.|.
T Consensus 6 ~pedlrk~Rk~L-GitQ~dLA~~aGVSQ~~IArlE~G~vd 44 (187)
T COG3620 6 TPEDLRKRRKEL-GITQKDLARRAGVSQPYIARLEAGKVD 44 (187)
T ss_pred CHHHHHHHHHHc-CCCHHHHHHHcCccHHHHHHHhcCCCC
Confidence 356666666666 677777766665555567788888876
No 195
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=23.23 E-value=61 Score=25.24 Aligned_cols=43 Identities=19% Similarity=0.131 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 10 SWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 10 T~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
+..++..++....+| |-+| =-++|......+++|+.|++-|+.
T Consensus 216 skv~~~~l~~fy~~y--------sf~V-lpvlG~~iagd~~sYqYLveSI~r 258 (296)
T KOG1540|consen 216 SKVENEPLKWFYDQY--------SFDV-LPVLGEIIAGDRKSYQYLVESIRR 258 (296)
T ss_pred cccccHHHHHHHHhh--------hhhh-hchhhHhhhhhHhhhhhHHhhhhc
Confidence 444444555544444 3344 236689999999999999999986
No 196
>TIGR01636 phage_rinA phage transcriptional activator, RinA family. This model represents a family of phage proteins, including RinA, a transcriptional activator in staphylococcal phage phi 11. This family shows similarity to ArpU, a phage-related putative autolysin regulator, and to some sporulation-specific sigma factors.
Probab=23.23 E-value=2.3e+02 Score=18.66 Aligned_cols=30 Identities=7% Similarity=-0.046 Sum_probs=23.9
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
..|..||..+ |-|...|.+.=+..+..++.
T Consensus 101 ~t~~~Ia~~l-~iS~~t~~r~r~~~l~kla~ 130 (134)
T TIGR01636 101 LTLVGLAQQL-FISKSTAYRLRNHIIEAVAE 130 (134)
T ss_pred CCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 4799999999 89999998776666666654
No 197
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=22.96 E-value=2e+02 Score=22.87 Aligned_cols=60 Identities=10% Similarity=0.034 Sum_probs=47.3
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCC--CCHHHHHHHHHHHHHHHhhhhcCCCCCC
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPT--KTIDEIKVHFKKLMEDLELIEFGFEPVS 70 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpg--KS~~ev~~ry~~L~~dv~~Ie~g~v~~P 70 (81)
-..-+.+.|...+.+| .|.|---+.||+.++- .|.++|.+=|..-.--+.+--.|++.-+
T Consensus 258 Ld~~D~k~L~~li~~f--~GgPVGl~tia~~lge~~~TiEdv~EPyLiq~gfi~RTpRGR~aT~ 319 (332)
T COG2255 258 LDEIDRKYLRALIEQF--GGGPVGLDTIAAALGEDRDTIEDVIEPYLIQQGFIQRTPRGRIATA 319 (332)
T ss_pred ccHHHHHHHHHHHHHh--CCCCccHHHHHHHhcCchhHHHHHHhHHHHHhchhhhCCCcceecH
Confidence 3445678888888888 5677889999999954 7899999999888777777777777544
No 198
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=22.96 E-value=2e+02 Score=18.48 Aligned_cols=29 Identities=7% Similarity=0.211 Sum_probs=22.9
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHhhh
Q 040518 33 WVKIHSLVPTKTIDEIKVHFKKLMEDLELI 62 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~ry~~L~~dv~~I 62 (81)
=..||..+ |.|...|+.|.......++..
T Consensus 129 ~~eIA~~l-gis~~tV~~~l~ra~~~Lr~~ 157 (162)
T TIGR02983 129 EAQVAEAL-GISVGTVKSRLSRALARLREL 157 (162)
T ss_pred HHHHHHHh-CCCHHHHHHHHHHHHHHHHHH
Confidence 46788888 888888888888888777764
No 199
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=22.94 E-value=74 Score=17.90 Aligned_cols=20 Identities=25% Similarity=0.229 Sum_probs=13.3
Q ss_pred HHHHHHHHHHhhhhcCCCCC
Q 040518 50 VHFKKLMEDLELIEFGFEPV 69 (81)
Q Consensus 50 ~ry~~L~~dv~~Ie~g~v~~ 69 (81)
+.+..|-+-|..+|+|.+++
T Consensus 3 e~~~~Le~Iv~~Le~~~~sL 22 (53)
T PF02609_consen 3 EAMERLEEIVEKLESGELSL 22 (53)
T ss_dssp HHHHHHHHHHHHHHTT-S-H
T ss_pred HHHHHHHHHHHHHHcCCCCH
Confidence 34567777788888888875
No 200
>KOG1577 consensus Aldo/keto reductase family proteins [General function prediction only]
Probab=22.73 E-value=1.2e+02 Score=23.55 Aligned_cols=57 Identities=16% Similarity=0.159 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHH----HHhhccCCCchH---------HHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCCCCCCc
Q 040518 8 QWSWEENKAFENG----VALYYKEGQDEE---------WVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEPVSIDY 73 (81)
Q Consensus 8 ~WT~eE~k~fE~a----L~~~~p~~~~~R---------WekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~~P~~~ 73 (81)
-|++.+...|.+- +..|.|-|.+.+ -..||... |||+.||.-||. ++.|-+++|..-
T Consensus 187 ~~~Q~~L~~fCk~~~I~v~AYSpLg~~~~~~~ll~~~~l~~iA~K~-~kt~aQIlLrw~--------~q~g~~vipKS~ 256 (300)
T KOG1577|consen 187 YLQQKKLVEFCKSKGIVVTAYSPLGSPGRGSDLLEDPVLKEIAKKY-NKTPAQILLRWA--------LQRGVSVIPKSS 256 (300)
T ss_pred CcChHHHHHHHhhCCcEEEEecCCCCCCCccccccCHHHHHHHHHh-CCCHHHHHHHHH--------HhCCcEEEeccC
Confidence 4666666666655 333445554444 67789887 899999999983 466777777653
No 201
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=22.68 E-value=2.7e+02 Score=20.59 Aligned_cols=46 Identities=15% Similarity=0.215 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
.=|+.|..+|.-...-+ ....||+.+ |-|..-|+.|-..+.+.+..
T Consensus 133 ~LSpRErEVLrLLAqGk-------TnKEIAe~L-~IS~rTVkth~srImkKLgV 178 (198)
T PRK15201 133 HFSVTERHLLKLIASGY-------HLSETAALL-SLSEEQTKSLRRSIMRKLHV 178 (198)
T ss_pred CCCHHHHHHHHHHHCCC-------CHHHHHHHh-CCCHHHHHHHHHHHHHHhCC
Confidence 35777887777665333 478999999 89999999988888776653
No 202
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=22.67 E-value=1.1e+02 Score=21.34 Aligned_cols=30 Identities=23% Similarity=0.262 Sum_probs=22.5
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHhhhh
Q 040518 34 VKIHSLVPTKTIDEIKVHFKKLMEDLELIE 63 (81)
Q Consensus 34 ekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie 63 (81)
..|...+|++-..+.++-+++|.+++..|+
T Consensus 83 ~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD 112 (142)
T TIGR03042 83 TYLNQSLLPKDQKEALALAKELKDDLEKLD 112 (142)
T ss_pred HHHHHccCHHhHHHHHHHHHHHHHHHHHHH
Confidence 345666677777788888888888888774
No 203
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=22.52 E-value=2.6e+02 Score=18.98 Aligned_cols=46 Identities=9% Similarity=0.152 Sum_probs=31.0
Q ss_pred HHHHHHHHHhhccCC----------CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 14 NKAFENGVALYYKEG----------QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~----------~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
...+..+|.+. |.. ..-....||+.+ |-|..-|+.|...-...++.
T Consensus 107 ~~~l~~~L~~L-p~~~r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~Lr~ 162 (187)
T PRK12516 107 LQDFRAALDQL-PDDQREAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQRLQE 162 (187)
T ss_pred HHHHHHHHHhC-CHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 34566666655 432 134567899988 89999999887766666654
No 204
>PRK14102 nifW nitrogenase stabilizing/protective protein; Provisional
Probab=22.39 E-value=1.9e+02 Score=19.14 Aligned_cols=28 Identities=14% Similarity=0.222 Sum_probs=22.5
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
+.-.+|...+||-+..++..+|+.+++.
T Consensus 43 qyl~~~~~~~~~~~e~~~~~~yr~~L~~ 70 (105)
T PRK14102 43 QLIAEIDANFPDLSEEEKLEKYQLALEE 70 (105)
T ss_pred HHHHHhccccCCCCHHHHHHHHHHHHHH
Confidence 4556667678999999999999988764
No 205
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=22.26 E-value=88 Score=19.40 Aligned_cols=21 Identities=24% Similarity=0.222 Sum_probs=15.3
Q ss_pred HHHHHHHHHHhhhhcCCCCCC
Q 040518 50 VHFKKLMEDLELIEFGFEPVS 70 (81)
Q Consensus 50 ~ry~~L~~dv~~Ie~g~v~~P 70 (81)
..+..|-+=|..+|+|.++|-
T Consensus 14 ea~~~LEeIv~~LE~~~l~Le 34 (80)
T PRK00977 14 EALAELEEIVTRLESGDLPLE 34 (80)
T ss_pred HHHHHHHHHHHHHHCCCCCHH
Confidence 455666777778899988874
No 206
>cd01087 Prolidase Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on Pro-Pro.
Probab=22.20 E-value=2.8e+02 Score=19.36 Aligned_cols=42 Identities=14% Similarity=0.254 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 040518 8 QWSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLME 57 (81)
Q Consensus 8 ~WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~ 57 (81)
.-|.++.++++.++..+ +.-|+..-||-+..+|-......+.
T Consensus 100 ~~~~~~~~~~~~~~~a~--------~~~i~~~rpG~~~~~v~~a~~~~~~ 141 (243)
T cd01087 100 KFTDEQRELYEAVLAAQ--------KAAIAACKPGVSYEDIHLLAHRVLA 141 (243)
T ss_pred cCCHHHHHHHHHHHHHH--------HHHHHHhCCCCcHHHHHHHHHHHHH
Confidence 35677888888888666 6779999999999999776665543
No 207
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=22.04 E-value=1.2e+02 Score=21.39 Aligned_cols=25 Identities=12% Similarity=0.121 Sum_probs=22.2
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 33 WVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
=+.||..+ |-+..+|+++-..|.++
T Consensus 39 deeLA~~L-gi~~~~VRk~L~~L~e~ 63 (178)
T PRK06266 39 DEEIAEQT-GIKLNTVRKILYKLYDA 63 (178)
T ss_pred HHHHHHHH-CCCHHHHHHHHHHHHHC
Confidence 46899999 99999999999999876
No 208
>PRK10753 transcriptional regulator HU subunit alpha; Provisional
Probab=21.95 E-value=1.8e+02 Score=17.90 Aligned_cols=37 Identities=8% Similarity=-0.084 Sum_probs=26.5
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHhh--hhcCCCCCCC
Q 040518 34 VKIHSLVPTKTIDEIKVHFKKLMEDLEL--IEFGFEPVSI 71 (81)
Q Consensus 34 ekIA~~vpgKS~~ev~~ry~~L~~dv~~--Ie~g~v~~P~ 71 (81)
..||+.. |-|..++..-.+.+++-+.. .+.+.|.||.
T Consensus 8 ~~ia~~~-~~s~~~~~~~v~~~~~~i~~~L~~g~~V~i~g 46 (90)
T PRK10753 8 DVIADKA-ELSKTQAKAALESTLAAITESLKEGDAVQLVG 46 (90)
T ss_pred HHHHHHh-CCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcC
Confidence 4567665 78899988888888777743 3556777765
No 209
>PF08535 KorB: KorB domain; InterPro: IPR013741 This entry contains several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This domain includes the DNA-binding HTH motif []. ; PDB: 1R71_C.
Probab=21.95 E-value=75 Score=19.53 Aligned_cols=34 Identities=18% Similarity=0.194 Sum_probs=18.7
Q ss_pred HHHHHhCCCCCHHHHHHHHH--HHHHHHhh-hhcCCCC
Q 040518 34 VKIHSLVPTKTIDEIKVHFK--KLMEDLEL-IEFGFEP 68 (81)
Q Consensus 34 ekIA~~vpgKS~~ev~~ry~--~L~~dv~~-Ie~g~v~ 68 (81)
+.||..| |||..-|.+|-. .|=++|.. +++|.+.
T Consensus 7 ~eIA~~l-Gks~s~Vs~~l~Ll~lP~~i~~~v~~g~~~ 43 (93)
T PF08535_consen 7 EEIAKRL-GKSRSWVSNHLALLDLPEEIKELVRSGRIS 43 (93)
T ss_dssp HHHHHHT-T--HHHHHHHHGGGS--HHHHHHHHTTS--
T ss_pred HHHHHHH-CCCHHHHHHHHHHHcCCHHHHHHHHcCCCc
Confidence 5789999 899888877655 23344443 3666654
No 210
>COG4710 Predicted DNA-binding protein with an HTH domain [General function prediction only]
Probab=21.54 E-value=1.4e+02 Score=18.99 Aligned_cols=35 Identities=20% Similarity=0.172 Sum_probs=27.3
Q ss_pred cCCCchHHHHHHHhCCCCC----HHHHHHHHHHHHHHHhh
Q 040518 26 KEGQDEEWVKIHSLVPTKT----IDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 26 p~~~~~RWekIA~~vpgKS----~~ev~~ry~~L~~dv~~ 61 (81)
|..+.+|....+... ||| +.+.+++|-+=++|+..
T Consensus 13 p~E~~eRL~~Ls~~t-grtkayyvrEaIE~~ieemED~yl 51 (80)
T COG4710 13 PLELKERLDNLSKNT-GRTKAYYVREAIEAYIEEMEDFYL 51 (80)
T ss_pred CHHHHHHHHHHHHhc-CCchhHHHHHHHHHHHHHHHHHHH
Confidence 445568999999998 788 45888999888888654
No 211
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096)
Probab=21.39 E-value=81 Score=18.66 Aligned_cols=16 Identities=44% Similarity=0.945 Sum_probs=12.9
Q ss_pred CchHHHHHHHhCCCCC
Q 040518 29 QDEEWVKIHSLVPTKT 44 (81)
Q Consensus 29 ~~~RWekIA~~vpgKS 44 (81)
+.+.|+.|+..||...
T Consensus 2 sD~~W~~i~p~lp~~~ 17 (75)
T PF13340_consen 2 SDEEWALIEPLLPPRK 17 (75)
T ss_pred CHHHHHHHHhhCCCCC
Confidence 4578999999999844
No 212
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=21.19 E-value=3e+02 Score=19.45 Aligned_cols=45 Identities=11% Similarity=0.113 Sum_probs=34.2
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
=|+.|...|.-...-+ --..||+.+ +-|..-|+.|-..+...+..
T Consensus 156 Lt~rE~~Vl~l~~~G~-------s~~eIA~~L-~iS~~TVk~~~~~i~~Kl~v 200 (216)
T PRK10100 156 LTHREKEILNKLRIGA-------SNNEIARSL-FISENTVKTHLYNLFKKIAV 200 (216)
T ss_pred CCHHHHHHHHHHHcCC-------CHHHHHHHh-CCCHHHHHHHHHHHHHHhCC
Confidence 5777777777665322 357899999 89999999999988877653
No 213
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=21.17 E-value=98 Score=18.54 Aligned_cols=21 Identities=14% Similarity=0.102 Sum_probs=15.7
Q ss_pred HHHHHHHHHhhhhcCCCCCCC
Q 040518 51 HFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 51 ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
.+..|-+=|..+|+|.+||-.
T Consensus 6 ~l~~Le~Iv~~LE~~~l~Lee 26 (67)
T TIGR01280 6 ALSELEQIVQKLESGDLALEE 26 (67)
T ss_pred HHHHHHHHHHHHHCCCCCHHH
Confidence 455677778888999988753
No 214
>cd01090 Creatinase Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea.
Probab=21.01 E-value=3.1e+02 Score=19.37 Aligned_cols=42 Identities=17% Similarity=0.189 Sum_probs=33.9
Q ss_pred CCHHHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 040518 9 WSWEENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMED 58 (81)
Q Consensus 9 WT~eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~d 58 (81)
=|.++.++|+.++..+ ..-|+..-||.+..+|-......++.
T Consensus 107 ~~~~~~~~~~~~~ea~--------~~~~~~~rpG~~~~~v~~a~~~~~~~ 148 (228)
T cd01090 107 VSDAHLKIWEANVAVH--------ERGLELIKPGARCKDIAAELNEMYRE 148 (228)
T ss_pred CCHHHHHHHHHHHHHH--------HHHHHHcCCCCcHHHHHHHHHHHHHH
Confidence 4677888898888766 67788999999999998877766655
No 215
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=20.88 E-value=1.6e+02 Score=18.24 Aligned_cols=27 Identities=15% Similarity=0.218 Sum_probs=21.2
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 040518 33 WVKIHSLVPTKTIDEIKVHFKKLMEDL 59 (81)
Q Consensus 33 WekIA~~vpgKS~~ev~~ry~~L~~dv 59 (81)
...++.++|...+.+|++-.+.||.+=
T Consensus 22 fkD~~k~~pd~k~R~vKKi~~~LV~Eg 48 (67)
T PF08679_consen 22 FKDFYKAFPDAKPREVKKIVNELVNEG 48 (67)
T ss_dssp HHHHHHH-TTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHCCCcCHHHHHHHHHHHHhhC
Confidence 467788899999999999999998753
No 216
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=20.84 E-value=1.1e+02 Score=16.21 Aligned_cols=26 Identities=15% Similarity=0.077 Sum_probs=14.2
Q ss_pred CCCHHHHHHHHHHHHHHHhhhhcCCC
Q 040518 42 TKTIDEIKVHFKKLMEDLELIEFGFE 67 (81)
Q Consensus 42 gKS~~ev~~ry~~L~~dv~~Ie~g~v 67 (81)
|.|..|+-++-..-..-|..||.|..
T Consensus 9 gls~~~la~~~gis~~~i~~~~~g~~ 34 (55)
T PF01381_consen 9 GLSQKELAEKLGISRSTISRIENGKR 34 (55)
T ss_dssp TS-HHHHHHHHTS-HHHHHHHHTTSS
T ss_pred CCCHHHHHHHhCCCcchhHHHhcCCC
Confidence 45555555555555556667777744
No 217
>PF15313 HEXIM: Hexamethylene bis-acetamide-inducible protein; PDB: 2GD7_B 3S9G_A.
Probab=20.75 E-value=78 Score=21.48 Aligned_cols=27 Identities=15% Similarity=0.220 Sum_probs=21.5
Q ss_pred HHhCCCCCHHHHHHHHHHHHHHHhhhh
Q 040518 37 HSLVPTKTIDEIKVHFKKLMEDLELIE 63 (81)
Q Consensus 37 A~~vpgKS~~ev~~ry~~L~~dv~~Ie 63 (81)
+..|-+.|+.|+++-|..|-..+..+|
T Consensus 98 ~ErL~~MSK~ELi~eyl~LEk~~~~lE 124 (124)
T PF15313_consen 98 AERLQNMSKQELIQEYLELEKKLSRLE 124 (124)
T ss_dssp HHHHHHS-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhccCHHHHHHHHHHHHHHHHhcC
Confidence 344558999999999999999988775
No 218
>PF11334 DUF3136: Protein of unknown function (DUF3136); InterPro: IPR021483 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=20.65 E-value=1.7e+02 Score=17.91 Aligned_cols=23 Identities=13% Similarity=0.338 Sum_probs=18.0
Q ss_pred hHHHHHHHhCCC--CCHHHHHHHHH
Q 040518 31 EEWVKIHSLVPT--KTIDEIKVHFK 53 (81)
Q Consensus 31 ~RWekIA~~vpg--KS~~ev~~ry~ 53 (81)
+|-+....++|+ ||++.....++
T Consensus 37 ~rL~~Lh~~LP~~YksP~~L~~~~q 61 (64)
T PF11334_consen 37 DRLETLHRSLPRRYKSPEYLMLLLQ 61 (64)
T ss_pred HHHHHHHHhcccccCCHHHHHHHHh
Confidence 466777889999 88888877665
No 219
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=20.62 E-value=1.5e+02 Score=15.61 Aligned_cols=35 Identities=11% Similarity=0.088 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHH
Q 040518 13 ENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFK 53 (81)
Q Consensus 13 E~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~ 53 (81)
|...++.+|..+ .. .-.+.|..+ |-|..-+..+-+
T Consensus 6 E~~~i~~aL~~~-~g----n~~~aA~~L-gisr~tL~~klk 40 (42)
T PF02954_consen 6 EKQLIRQALERC-GG----NVSKAARLL-GISRRTLYRKLK 40 (42)
T ss_dssp HHHHHHHHHHHT-TT-----HHHHHHHH-TS-HHHHHHHHH
T ss_pred HHHHHHHHHHHh-CC----CHHHHHHHH-CCCHHHHHHHHH
Confidence 567889999888 32 467888888 888877765543
No 220
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=20.51 E-value=1e+02 Score=19.02 Aligned_cols=22 Identities=18% Similarity=0.140 Sum_probs=15.9
Q ss_pred HHHHHHHHHHhhhhcCCCCCCC
Q 040518 50 VHFKKLMEDLELIEFGFEPVSI 71 (81)
Q Consensus 50 ~ry~~L~~dv~~Ie~g~v~~P~ 71 (81)
..+..|-+=|..+|+|.+||-.
T Consensus 9 eal~~LE~Iv~~LE~~~l~Lee 30 (76)
T PRK14063 9 EAISQLEHLVSKLEQGDVPLEE 30 (76)
T ss_pred HHHHHHHHHHHHHHCCCCCHHH
Confidence 4556677777888999888753
No 221
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=20.49 E-value=1.6e+02 Score=15.84 Aligned_cols=22 Identities=9% Similarity=0.175 Sum_probs=17.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHhh
Q 040518 40 VPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 40 vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
++|||.++-++-++.+.+-+..
T Consensus 8 ~~grt~eqk~~l~~~i~~~l~~ 29 (58)
T cd00491 8 LEGRTDEQKRELIERVTEAVSE 29 (58)
T ss_pred cCCCCHHHHHHHHHHHHHHHHH
Confidence 5688988888888877777665
No 222
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=20.46 E-value=2.3e+02 Score=17.68 Aligned_cols=57 Identities=14% Similarity=0.120 Sum_probs=40.2
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhh-cCCCCCCCCc
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIE-FGFEPVSIDY 73 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie-~g~v~~P~~~ 73 (81)
+++-+-..+ ..|...-...|-..++|=|...|..+++........-- ....++|...
T Consensus 6 V~~Aa~~L~-~~G~~pT~~~Vr~~lG~GS~~ti~~~l~~w~~~~~~~~~~~~~~lP~~l 63 (120)
T PF11740_consen 6 VIEAADELL-AAGKKPTVRAVRERLGGGSMSTISKHLKEWREEREAQVSEAAPDLPEAL 63 (120)
T ss_pred HHHHHHHHH-HcCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHhhhccccccccCCChhH
Confidence 344444444 45555568899999988999999999998888776644 4556667554
No 223
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=20.44 E-value=2.7e+02 Score=18.42 Aligned_cols=46 Identities=9% Similarity=0.198 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhccCC----------CchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhh
Q 040518 14 NKAFENGVALYYKEG----------QDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLEL 61 (81)
Q Consensus 14 ~k~fE~aL~~~~p~~----------~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~ 61 (81)
...++.+|... |+. .+-..+.||..+ |-|..-|+.+-......++.
T Consensus 128 ~~~l~~~l~~L-~~~~r~i~~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr~ 183 (187)
T PRK12534 128 RRRIDHCLAEL-EPPRSELIRTAFFEGITYEELAART-DTPIGTVKSWIRRGLAKLKA 183 (187)
T ss_pred HHHHHHHHHhC-CHHHHHHHHHHHHcCCCHHHHHHHh-CCChhHHHHHHHHHHHHHHH
Confidence 34666676666 432 133567788888 78888887776666655543
No 224
>cd07211 Pat_PNPLA8 Patatin-like phospholipase domain containing protein 8. PNPLA8 is a Ca-independent myocardial phospholipase which maintains mitochondrial integrity. PNPLA8 is also known as iPLA2-gamma. In humans, it is predominantly expressed in heart tissue. iPLA2-gamma can catalyze both phospholipase A1 and A2 reactions (PLA1 and PLA2 respectively). This family includes PNPLA8 (iPLA2-gamma) from Homo sapiens and iPLA2-2 from Mus musculus.
Probab=20.34 E-value=1.3e+02 Score=22.24 Aligned_cols=26 Identities=23% Similarity=0.324 Sum_probs=20.1
Q ss_pred HHHHhC--CCCCHHHHHHHHHHHHHHHh
Q 040518 35 KIHSLV--PTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 35 kIA~~v--pgKS~~ev~~ry~~L~~dv~ 60 (81)
-||..+ +|.|.+||.+.|..+..+|-
T Consensus 53 iiA~~la~~~~~~~e~~~~y~~~~~~iF 80 (308)
T cd07211 53 ILAFLLGLKKMSLDECEELYRKLGKDVF 80 (308)
T ss_pred HHHHHHhcccccHHHHHHHHHHHHHHhc
Confidence 355555 46899999999999887765
No 225
>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=20.23 E-value=2.2e+02 Score=17.40 Aligned_cols=17 Identities=24% Similarity=0.474 Sum_probs=14.1
Q ss_pred hHHHHHHHhCCCCCHHHH
Q 040518 31 EEWVKIHSLVPTKTIDEI 48 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev 48 (81)
..|.++|..| |-|..+|
T Consensus 19 ~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 19 EDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred hhHHHHHHHc-CCCHHHH
Confidence 5799999999 8887665
No 226
>PRK01770 sec-independent translocase; Provisional
Probab=20.18 E-value=1.7e+02 Score=20.99 Aligned_cols=40 Identities=13% Similarity=0.142 Sum_probs=26.3
Q ss_pred HHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHh
Q 040518 16 AFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLE 60 (81)
Q Consensus 16 ~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~ 60 (81)
++.-||..| +|.|+-.++..| |+....+++......+++.
T Consensus 12 I~vVaLlV~----GPerLP~~~r~l-g~~i~~~R~~~~~~k~e~~ 51 (171)
T PRK01770 12 VFVIGLVVL----GPQRLPVAVKTV-AGWIRALRSLATTVQNELT 51 (171)
T ss_pred HHHHHHHhc----CchHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 445556666 467888888888 7777777765555544443
No 227
>KOG2527 consensus Sorting nexin SNX11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.16 E-value=1.4e+02 Score=21.02 Aligned_cols=33 Identities=9% Similarity=-0.099 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHhhh--hcCCCCCCCCcccccc
Q 040518 46 DEIKVHFKKLMEDLELI--EFGFEPVSIDYHQQYK 78 (81)
Q Consensus 46 ~ev~~ry~~L~~dv~~I--e~g~v~~P~~~~~~~~ 78 (81)
.-|++||....--=... ++|+|.+|.-..-.|+
T Consensus 54 S~VRRRYsdFewlr~~Ler~s~kvvvP~LPgK~~~ 88 (144)
T KOG2527|consen 54 SCVRRRYSDFEWLRKRLERESGKVVVPELPGKALF 88 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccCCCCCcHHHH
Confidence 34788887654322222 7899999987665554
No 228
>COG1426 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]
Probab=20.10 E-value=1.5e+02 Score=22.30 Aligned_cols=37 Identities=14% Similarity=0.052 Sum_probs=29.3
Q ss_pred hHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhhcCCCC
Q 040518 31 EEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIEFGFEP 68 (81)
Q Consensus 31 ~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie~g~v~ 68 (81)
.+...+=... |.|.+||-.+-+.=..-+.+||.|++.
T Consensus 6 e~Lr~~Re~~-gLsL~dva~~t~I~~~~L~aiEeg~~~ 42 (284)
T COG1426 6 ERLRQAREEK-GLSLEDVAARTKIRKSYLRALEEGNFD 42 (284)
T ss_pred HHHHHHHHHc-CCCHHHHHHHhCccHHHHHHHhcCccc
Confidence 4555555566 899999999998888899999999653
No 229
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=20.01 E-value=1.5e+02 Score=24.18 Aligned_cols=37 Identities=24% Similarity=0.450 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhhccCCCchHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhhh
Q 040518 12 EENKAFENGVALYYKEGQDEEWVKIHSLVPTKTIDEIKVHFKKLMEDLELIE 63 (81)
Q Consensus 12 eE~k~fE~aL~~~~p~~~~~RWekIA~~vpgKS~~ev~~ry~~L~~dv~~Ie 63 (81)
|=.++++..|.++ - -|+++.+++++|++++.-|.-||
T Consensus 4 Ek~e~lkell~~l-h--------------eG~d~~~lkk~f~e~~~~is~~E 40 (409)
T COG2461 4 EKKKLLKELLLKL-H--------------EGKDVEEVKKQFKELLKGISPLE 40 (409)
T ss_pred HHHHHHHHHHHHH-h--------------cCCCHHHHHHHHHHHhccCCcee
Confidence 4455677776666 2 27889999999999988776654
Done!