Query 025268
Match_columns 255
No_of_seqs 276 out of 1458
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:09:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025268.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025268hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0483 Transcription factor H 99.9 2.2E-22 4.8E-27 174.7 11.7 105 43-147 48-152 (198)
2 KOG4577 Transcription factor L 99.7 2.5E-18 5.5E-23 154.9 6.7 115 17-132 127-253 (383)
3 KOG0489 Transcription factor z 99.7 1.1E-18 2.5E-23 157.8 4.2 61 44-104 158-218 (261)
4 KOG0842 Transcription factor t 99.6 1.6E-16 3.4E-21 145.8 4.2 57 52-108 160-216 (307)
5 KOG0488 Transcription factor B 99.6 8.7E-16 1.9E-20 142.0 6.9 54 51-104 178-231 (309)
6 PF00046 Homeobox: Homeobox do 99.6 2.3E-15 4.9E-20 105.3 6.1 57 46-102 1-57 (57)
7 KOG0487 Transcription factor A 99.6 8.9E-16 1.9E-20 140.9 4.5 63 43-105 233-295 (308)
8 KOG0843 Transcription factor E 99.6 3.7E-15 8.1E-20 126.6 5.7 63 44-106 101-163 (197)
9 KOG0848 Transcription factor C 99.5 2E-15 4.2E-20 135.1 2.8 54 51-104 205-258 (317)
10 KOG0484 Transcription factor P 99.5 6.7E-15 1.5E-19 115.0 4.8 60 45-104 17-76 (125)
11 KOG0492 Transcription factor M 99.5 1.4E-14 2.9E-19 125.6 6.5 58 47-104 146-203 (246)
12 KOG0485 Transcription factor N 99.5 1E-14 2.3E-19 127.1 4.2 59 46-104 103-163 (268)
13 KOG2251 Homeobox transcription 99.5 1.6E-14 3.5E-19 126.2 4.9 62 43-104 35-96 (228)
14 KOG0850 Transcription factor D 99.5 3.5E-14 7.5E-19 124.8 5.3 57 48-104 125-181 (245)
15 cd00086 homeodomain Homeodomai 99.4 1.7E-13 3.8E-18 95.5 6.2 56 47-102 2-57 (59)
16 COG5576 Homeodomain-containing 99.4 7.8E-14 1.7E-18 117.4 5.2 68 37-104 43-110 (156)
17 smart00389 HOX Homeodomain. DN 99.4 2E-13 4.3E-18 94.6 5.7 55 47-101 2-56 (56)
18 KOG0494 Transcription factor C 99.4 9.2E-14 2E-18 124.0 4.9 56 51-106 147-202 (332)
19 KOG3802 Transcription factor O 99.4 6.8E-14 1.5E-18 131.4 2.9 61 44-104 293-353 (398)
20 KOG0493 Transcription factor E 99.4 2E-13 4.4E-18 121.9 4.6 62 46-107 247-308 (342)
21 TIGR01565 homeo_ZF_HD homeobox 99.3 1.5E-12 3.2E-17 92.4 4.8 52 46-97 2-57 (58)
22 KOG0844 Transcription factor E 99.3 1.7E-12 3.8E-17 118.2 2.3 62 45-106 181-242 (408)
23 KOG0491 Transcription factor B 99.2 5.6E-12 1.2E-16 106.0 2.2 57 48-104 103-159 (194)
24 KOG0847 Transcription factor, 99.1 2E-11 4.3E-16 106.9 2.9 59 46-104 168-226 (288)
25 KOG0486 Transcription factor P 99.1 6.9E-11 1.5E-15 108.1 3.9 54 51-104 118-171 (351)
26 KOG1168 Transcription factor A 99.0 6.5E-11 1.4E-15 107.4 0.5 63 42-104 306-368 (385)
27 KOG0490 Transcription factor, 98.9 5.3E-10 1.1E-14 97.7 3.1 61 44-104 59-119 (235)
28 KOG0849 Transcription factor P 98.7 1.3E-08 2.8E-13 96.2 4.1 60 45-104 176-235 (354)
29 KOG0775 Transcription factor S 98.7 7.7E-08 1.7E-12 86.9 8.7 51 52-102 183-233 (304)
30 PF05920 Homeobox_KN: Homeobox 98.2 8.6E-07 1.9E-11 58.4 2.8 34 66-99 7-40 (40)
31 PF02183 HALZ: Homeobox associ 98.1 5.6E-06 1.2E-10 55.9 5.4 44 103-146 1-44 (45)
32 KOG0774 Transcription factor P 98.1 1.8E-06 3.8E-11 77.9 3.0 60 44-103 187-249 (334)
33 KOG2252 CCAAT displacement pro 97.9 1.6E-05 3.6E-10 77.9 5.2 56 45-100 420-475 (558)
34 KOG0490 Transcription factor, 97.7 4E-05 8.6E-10 66.9 3.8 60 45-104 153-212 (235)
35 KOG1146 Homeobox protein [Gene 97.1 0.0004 8.8E-09 74.1 3.6 62 44-105 902-963 (1406)
36 PF11569 Homez: Homeodomain le 96.0 0.0047 1E-07 43.5 2.3 42 57-98 10-51 (56)
37 KOG0773 Transcription factor M 95.3 0.015 3.3E-07 54.3 3.5 55 50-104 244-301 (342)
38 PF02183 HALZ: Homeobox associ 94.1 0.15 3.3E-06 34.3 5.0 35 112-146 3-37 (45)
39 KOG3623 Homeobox transcription 93.9 0.076 1.7E-06 54.4 4.6 48 57-104 568-615 (1007)
40 PRK09413 IS2 repressor TnpA; R 93.4 0.53 1.1E-05 37.6 8.0 98 47-148 8-105 (121)
41 PF04218 CENP-B_N: CENP-B N-te 92.3 0.36 7.8E-06 33.3 4.8 47 46-97 1-47 (53)
42 smart00340 HALZ homeobox assoc 90.0 0.76 1.6E-05 30.6 4.3 28 115-142 6-33 (44)
43 KOG4196 bZIP transcription fac 88.5 13 0.00028 30.7 11.6 87 46-145 18-112 (135)
44 KOG4005 Transcription factor X 87.1 3.2 6.9E-05 37.6 7.7 38 108-145 98-135 (292)
45 PF00170 bZIP_1: bZIP transcri 86.5 4.8 0.0001 28.4 7.1 36 108-143 27-62 (64)
46 smart00338 BRLZ basic region l 77.2 15 0.00033 25.9 6.8 37 108-144 27-63 (65)
47 smart00340 HALZ homeobox assoc 77.2 5.6 0.00012 26.5 4.0 32 104-135 2-33 (44)
48 PF06156 DUF972: Protein of un 73.9 15 0.00033 29.1 6.6 45 104-148 12-56 (107)
49 PF06005 DUF904: Protein of un 73.6 22 0.00047 26.2 7.0 35 108-142 19-53 (72)
50 KOG4571 Activating transcripti 69.2 23 0.0005 33.0 7.6 43 106-148 247-289 (294)
51 COG4467 Regulator of replicati 68.1 19 0.0004 28.9 5.8 43 104-146 12-54 (114)
52 PF00170 bZIP_1: bZIP transcri 67.9 33 0.00072 24.0 6.7 33 112-144 24-56 (64)
53 PF06005 DUF904: Protein of un 67.1 47 0.001 24.5 7.5 43 103-145 21-63 (72)
54 PRK13169 DNA replication intia 66.9 30 0.00065 27.6 6.9 43 104-146 12-54 (110)
55 PRK00888 ftsB cell division pr 66.2 15 0.00032 28.9 5.1 48 87-142 15-62 (105)
56 PF01527 HTH_Tnp_1: Transposas 64.9 6.3 0.00014 28.1 2.5 47 47-97 2-48 (76)
57 PF04545 Sigma70_r4: Sigma-70, 63.9 14 0.00031 24.3 4.0 40 51-95 4-43 (50)
58 cd06171 Sigma70_r4 Sigma70, re 63.8 13 0.00029 23.4 3.8 43 52-99 11-53 (55)
59 COG4026 Uncharacterized protei 63.3 23 0.0005 32.0 6.2 28 108-135 129-156 (290)
60 PF06156 DUF972: Protein of un 62.4 26 0.00055 27.8 5.7 40 103-142 18-57 (107)
61 KOG3119 Basic region leucine z 61.9 26 0.00056 32.1 6.5 29 117-145 225-253 (269)
62 PF07716 bZIP_2: Basic region 61.0 37 0.00081 23.1 5.7 30 113-142 24-53 (54)
63 KOG4673 Transcription factor T 60.7 52 0.0011 34.4 8.8 70 76-145 691-763 (961)
64 PF07407 Seadorna_VP6: Seadorn 60.6 13 0.00028 35.3 4.3 30 116-145 34-63 (420)
65 PRK13169 DNA replication intia 58.9 31 0.00068 27.5 5.7 40 103-142 18-57 (110)
66 PF13443 HTH_26: Cro/C1-type H 58.0 12 0.00027 25.6 2.9 38 74-111 12-49 (63)
67 PF15058 Speriolin_N: Sperioli 57.4 14 0.00031 32.3 3.8 38 109-147 7-44 (200)
68 PF04967 HTH_10: HTH DNA bindi 55.1 16 0.00034 25.3 3.0 39 52-90 1-41 (53)
69 cd00569 HTH_Hin_like Helix-tur 54.7 29 0.00063 19.4 3.9 38 50-92 4-41 (42)
70 PF10668 Phage_terminase: Phag 54.4 7.9 0.00017 27.7 1.4 19 75-93 25-43 (60)
71 cd04766 HTH_HspR Helix-Turn-He 54.0 90 0.0019 23.3 7.6 70 75-145 4-89 (91)
72 PF14775 NYD-SP28_assoc: Sperm 53.4 40 0.00086 23.9 4.9 30 116-145 28-57 (60)
73 PF09744 Jnk-SapK_ap_N: JNK_SA 53.4 85 0.0018 26.6 7.8 106 22-145 8-113 (158)
74 PF10224 DUF2205: Predicted co 52.6 90 0.0019 23.5 7.0 36 105-140 28-63 (80)
75 PRK14127 cell division protein 51.5 44 0.00095 26.7 5.4 28 118-145 34-61 (109)
76 PRK14127 cell division protein 50.9 38 0.00082 27.0 5.0 40 106-145 29-68 (109)
77 TIGR02449 conserved hypothetic 50.1 91 0.002 22.6 6.4 34 111-144 11-44 (65)
78 PF08281 Sigma70_r4_2: Sigma-7 49.3 30 0.00066 22.9 3.7 42 52-98 11-52 (54)
79 KOG0249 LAR-interacting protei 48.7 55 0.0012 34.3 6.8 49 98-146 214-262 (916)
80 PF08172 CASP_C: CASP C termin 48.5 69 0.0015 29.1 6.9 45 96-140 89-133 (248)
81 KOG4403 Cell surface glycoprot 47.7 81 0.0018 31.2 7.5 26 89-114 228-256 (575)
82 PF10224 DUF2205: Predicted co 47.4 1.1E+02 0.0025 23.0 6.8 46 100-145 16-61 (80)
83 PF09607 BrkDBD: Brinker DNA-b 47.4 32 0.0007 24.4 3.6 44 49-94 3-47 (58)
84 KOG4343 bZIP transcription fac 47.3 46 0.00099 33.7 5.9 32 109-140 304-335 (655)
85 PF07888 CALCOCO1: Calcium bin 46.3 3.4E+02 0.0073 27.7 11.9 38 111-148 421-458 (546)
86 PF04977 DivIC: Septum formati 45.5 57 0.0012 23.2 4.9 28 113-140 23-50 (80)
87 PF07334 IFP_35_N: Interferon- 45.5 77 0.0017 23.7 5.5 22 125-146 4-25 (76)
88 PRK00888 ftsB cell division pr 45.0 77 0.0017 24.8 5.9 25 111-135 38-62 (105)
89 KOG1146 Homeobox protein [Gene 44.9 22 0.00048 39.3 3.6 56 49-104 709-764 (1406)
90 PF07989 Microtub_assoc: Micro 44.3 84 0.0018 23.2 5.6 28 118-145 40-67 (75)
91 PF15058 Speriolin_N: Sperioli 43.7 54 0.0012 28.8 5.2 38 112-149 3-40 (200)
92 KOG4571 Activating transcripti 43.2 95 0.0021 29.0 7.0 34 106-139 254-287 (294)
93 KOG3156 Uncharacterized membra 42.1 92 0.002 27.8 6.4 43 108-150 102-145 (220)
94 COG3074 Uncharacterized protei 41.9 1.1E+02 0.0024 22.7 5.7 35 108-142 26-60 (79)
95 PRK03975 tfx putative transcri 41.7 54 0.0012 27.3 4.8 48 49-102 4-51 (141)
96 TIGR01069 mutS2 MutS2 family p 40.6 1.4E+02 0.0031 31.4 8.7 21 70-90 480-500 (771)
97 PRK13922 rod shape-determining 40.2 72 0.0016 28.7 5.8 39 108-146 70-111 (276)
98 PF10883 DUF2681: Protein of u 39.7 1.1E+02 0.0024 23.4 5.8 32 116-147 32-63 (87)
99 KOG0709 CREB/ATF family transc 39.4 43 0.00093 33.2 4.3 88 51-145 220-310 (472)
100 smart00338 BRLZ basic region l 39.2 1.3E+02 0.0029 20.9 6.0 33 113-145 25-57 (65)
101 TIGR02894 DNA_bind_RsfA transc 39.0 93 0.002 26.6 5.8 34 112-145 102-135 (161)
102 KOG0483 Transcription factor H 38.0 52 0.0011 29.0 4.3 40 110-149 108-147 (198)
103 KOG2391 Vacuolar sorting prote 37.5 1.3E+02 0.0028 28.9 7.0 47 97-143 222-268 (365)
104 KOG4343 bZIP transcription fac 37.3 1.3E+02 0.0028 30.6 7.2 38 112-149 300-337 (655)
105 PF07716 bZIP_2: Basic region 35.7 1.4E+02 0.003 20.2 7.1 29 108-136 26-54 (54)
106 cd04761 HTH_MerR-SF Helix-Turn 35.7 27 0.00059 22.3 1.7 23 75-97 3-25 (49)
107 PRK09646 RNA polymerase sigma 35.2 74 0.0016 26.7 4.8 45 52-101 143-187 (194)
108 PRK10884 SH3 domain-containing 35.1 1.6E+02 0.0034 26.0 6.9 26 118-143 136-161 (206)
109 KOG0150 Spliceosomal protein F 35.1 2.2E+02 0.0047 27.0 8.0 13 89-101 16-28 (336)
110 COG3074 Uncharacterized protei 35.1 1.9E+02 0.0041 21.5 6.1 25 117-141 42-66 (79)
111 KOG4005 Transcription factor X 34.7 1.2E+02 0.0027 27.6 6.1 42 104-145 101-142 (292)
112 PRK00409 recombination and DNA 34.7 1.9E+02 0.0042 30.5 8.6 21 70-90 485-505 (782)
113 PRK10884 SH3 domain-containing 34.6 1.6E+02 0.0036 25.9 6.9 39 107-145 132-170 (206)
114 COG3413 Predicted DNA binding 34.5 60 0.0013 28.2 4.2 48 51-100 155-204 (215)
115 KOG3584 cAMP response element 34.2 84 0.0018 29.5 5.1 40 108-147 305-345 (348)
116 PF13936 HTH_38: Helix-turn-he 34.0 37 0.0008 22.1 2.1 40 50-94 3-42 (44)
117 TIGR03752 conj_TIGR03752 integ 33.5 75 0.0016 31.6 5.0 26 51-79 41-66 (472)
118 PRK06759 RNA polymerase factor 33.2 77 0.0017 25.1 4.4 44 52-100 107-150 (154)
119 KOG3755 SATB1 matrix attachmen 33.1 16 0.00035 37.3 0.4 44 61-104 708-758 (769)
120 PF13518 HTH_28: Helix-turn-he 32.9 41 0.00089 21.8 2.3 24 74-97 14-37 (52)
121 PF00424 REV: REV protein (ant 32.7 63 0.0014 25.0 3.5 34 57-104 14-47 (91)
122 PRK15422 septal ring assembly 32.3 2.2E+02 0.0048 21.5 6.6 17 126-142 51-67 (79)
123 PF05377 FlaC_arch: Flagella a 31.5 1.6E+02 0.0035 20.7 5.1 28 117-144 10-37 (55)
124 PRK09652 RNA polymerase sigma 31.4 92 0.002 25.1 4.6 43 52-99 129-171 (182)
125 COG4467 Regulator of replicati 30.6 1.2E+02 0.0026 24.3 4.8 36 104-139 19-54 (114)
126 PRK11924 RNA polymerase sigma 30.6 90 0.0019 25.1 4.4 46 52-102 126-171 (179)
127 TIGR02937 sigma70-ECF RNA poly 30.3 94 0.002 23.7 4.3 45 52-101 111-155 (158)
128 PRK13729 conjugal transfer pil 29.5 1.7E+02 0.0037 29.2 6.7 44 101-144 77-120 (475)
129 PRK12526 RNA polymerase sigma 29.4 97 0.0021 26.4 4.6 45 52-101 154-198 (206)
130 PF05377 FlaC_arch: Flagella a 29.2 2.1E+02 0.0045 20.1 5.6 38 104-141 4-41 (55)
131 cd04765 HTH_MlrA-like_sg2 Heli 29.1 2.1E+02 0.0045 21.9 5.9 38 48-97 35-72 (99)
132 PF13411 MerR_1: MerR HTH fami 29.0 37 0.0008 23.5 1.6 21 75-95 3-23 (69)
133 PF04899 MbeD_MobD: MbeD/MobD 28.7 2.4E+02 0.0051 20.7 6.0 35 111-145 25-59 (70)
134 TIGR00219 mreC rod shape-deter 28.7 1.4E+02 0.0031 27.4 5.8 36 112-147 71-110 (283)
135 KOG4196 bZIP transcription fac 28.4 2.9E+02 0.0064 22.8 6.8 50 94-143 66-117 (135)
136 PHA01750 hypothetical protein 28.4 2.4E+02 0.0052 20.7 6.7 36 110-145 38-73 (75)
137 PRK09642 RNA polymerase sigma 28.4 1.2E+02 0.0027 24.2 4.9 46 52-102 107-152 (160)
138 PF15035 Rootletin: Ciliary ro 28.1 2.7E+02 0.0058 24.0 7.0 45 104-148 78-122 (182)
139 PRK12512 RNA polymerase sigma 28.0 1.2E+02 0.0025 25.1 4.7 45 52-101 132-176 (184)
140 PF07407 Seadorna_VP6: Seadorn 27.7 1.1E+02 0.0024 29.3 4.8 29 109-137 34-62 (420)
141 PF06056 Terminase_5: Putative 27.5 43 0.00093 23.5 1.7 26 75-102 16-41 (58)
142 cd04769 HTH_MerR2 Helix-Turn-H 27.5 3E+02 0.0064 21.4 6.9 37 49-98 35-71 (116)
143 PF05700 BCAS2: Breast carcino 27.5 3.1E+02 0.0066 24.1 7.5 36 111-146 179-214 (221)
144 PF04880 NUDE_C: NUDE protein, 27.5 45 0.00099 28.5 2.1 24 121-144 24-47 (166)
145 KOG3119 Basic region leucine z 27.5 2.1E+02 0.0046 26.1 6.7 31 117-147 218-248 (269)
146 PF00196 GerE: Bacterial regul 27.2 1.2E+02 0.0025 20.5 3.9 45 51-101 3-47 (58)
147 TIGR02985 Sig70_bacteroi1 RNA 27.0 1.2E+02 0.0026 23.8 4.5 45 52-101 114-158 (161)
148 PRK15422 septal ring assembly 27.0 2.8E+02 0.0061 20.9 6.4 15 130-144 48-62 (79)
149 TIGR02989 Sig-70_gvs1 RNA poly 26.8 1.2E+02 0.0025 24.2 4.4 42 52-98 112-153 (159)
150 PF02796 HTH_7: Helix-turn-hel 26.8 98 0.0021 20.1 3.2 39 50-93 4-42 (45)
151 PRK09644 RNA polymerase sigma 26.7 1.2E+02 0.0025 24.6 4.5 45 52-101 109-153 (165)
152 PF12325 TMF_TATA_bd: TATA ele 26.7 2.6E+02 0.0057 22.5 6.3 46 101-146 69-114 (120)
153 PRK12514 RNA polymerase sigma 26.7 1.3E+02 0.0028 24.7 4.7 45 52-101 130-174 (179)
154 PF08280 HTH_Mga: M protein tr 26.4 75 0.0016 21.9 2.8 34 55-92 6-39 (59)
155 PRK12530 RNA polymerase sigma 26.3 1.6E+02 0.0035 24.6 5.4 45 52-101 135-179 (189)
156 PF13384 HTH_23: Homeodomain-l 26.0 46 0.00099 21.6 1.5 22 74-95 19-40 (50)
157 PRK04217 hypothetical protein; 26.0 1.4E+02 0.003 23.8 4.5 44 50-98 41-84 (110)
158 smart00421 HTH_LUXR helix_turn 25.8 1.3E+02 0.0028 19.0 3.8 40 51-96 3-42 (58)
159 TIGR02209 ftsL_broad cell divi 25.7 1.9E+02 0.0041 21.0 5.0 24 118-141 35-58 (85)
160 PF03980 Nnf1: Nnf1 ; InterPr 25.6 1.5E+02 0.0033 22.8 4.7 34 109-142 75-108 (109)
161 TIGR02894 DNA_bind_RsfA transc 25.3 2.6E+02 0.0056 23.9 6.2 33 108-140 105-137 (161)
162 PF11594 Med28: Mediator compl 25.3 3.4E+02 0.0074 21.6 6.5 14 87-100 18-31 (106)
163 COG1382 GimC Prefoldin, chaper 25.0 3E+02 0.0065 22.3 6.3 41 107-147 70-110 (119)
164 PRK12519 RNA polymerase sigma 25.0 1E+02 0.0022 25.6 3.9 45 52-101 142-186 (194)
165 TIGR03879 near_KaiC_dom probab 25.0 30 0.00065 25.7 0.5 33 63-95 23-55 (73)
166 KOG2129 Uncharacterized conser 24.9 6.7E+02 0.015 25.0 9.6 13 132-144 289-301 (552)
167 PRK09648 RNA polymerase sigma 24.8 1.4E+02 0.003 24.7 4.7 43 52-99 140-182 (189)
168 PHA02955 hypothetical protein; 24.7 96 0.0021 27.7 3.7 42 55-96 61-103 (213)
169 TIGR02948 SigW_bacill RNA poly 24.6 1.2E+02 0.0026 24.8 4.2 45 52-101 137-181 (187)
170 PF01166 TSC22: TSC-22/dip/bun 24.5 1.2E+02 0.0025 21.7 3.4 30 106-135 13-42 (59)
171 TIGR02959 SigZ RNA polymerase 24.4 1.4E+02 0.0031 24.4 4.6 39 52-95 101-139 (170)
172 PF04977 DivIC: Septum formati 24.4 2E+02 0.0044 20.2 4.9 28 106-133 23-50 (80)
173 cd01106 HTH_TipAL-Mta Helix-Tu 24.3 3.2E+02 0.0069 20.7 8.0 35 49-96 36-70 (103)
174 PF07798 DUF1640: Protein of u 24.3 3.1E+02 0.0067 23.1 6.7 26 122-147 74-99 (177)
175 KOG0709 CREB/ATF family transc 24.2 1.1E+02 0.0024 30.4 4.3 52 96-147 268-319 (472)
176 PF03670 UPF0184: Uncharacteri 24.1 2.2E+02 0.0048 21.7 5.1 38 107-144 26-63 (83)
177 PF04999 FtsL: Cell division p 24.0 1.7E+02 0.0038 21.9 4.6 27 116-142 44-70 (97)
178 PRK09639 RNA polymerase sigma 23.9 1.4E+02 0.0031 23.9 4.4 44 52-101 113-156 (166)
179 KOG4797 Transcriptional regula 23.9 2.8E+02 0.0061 22.3 5.8 29 107-135 67-95 (123)
180 PF12709 Kinetocho_Slk19: Cent 23.7 3.4E+02 0.0074 20.8 7.2 39 109-147 36-75 (87)
181 smart00787 Spc7 Spc7 kinetocho 23.6 3.1E+02 0.0068 25.7 7.1 42 91-137 133-174 (312)
182 cd04762 HTH_MerR-trunc Helix-T 23.6 61 0.0013 20.1 1.8 24 75-98 3-26 (49)
183 PRK12515 RNA polymerase sigma 23.4 1.5E+02 0.0032 24.6 4.6 45 52-101 132-176 (189)
184 PF00376 MerR: MerR family reg 23.1 57 0.0012 20.7 1.5 19 75-93 2-20 (38)
185 TIGR02999 Sig-70_X6 RNA polyme 23.0 1.5E+02 0.0033 24.2 4.6 45 52-101 135-179 (183)
186 PF13565 HTH_32: Homeodomain-l 22.9 2.7E+02 0.0059 19.4 5.7 33 53-85 32-65 (77)
187 PF11932 DUF3450: Protein of u 22.8 3.3E+02 0.0072 24.2 6.9 41 105-145 54-94 (251)
188 PRK05602 RNA polymerase sigma 22.8 1.5E+02 0.0032 24.5 4.4 45 52-101 129-173 (186)
189 PRK14872 rod shape-determining 22.6 1.6E+02 0.0034 28.1 4.9 23 117-139 60-82 (337)
190 COG2919 Septum formation initi 22.6 2.6E+02 0.0056 22.1 5.6 36 108-143 51-86 (117)
191 cd04764 HTH_MlrA-like_sg1 Heli 22.4 64 0.0014 22.4 1.8 21 75-95 3-23 (67)
192 PF09006 Surfac_D-trimer: Lung 22.2 1.6E+02 0.0034 20.0 3.5 22 124-145 2-23 (46)
193 KOG0977 Nuclear envelope prote 22.1 4.3E+02 0.0094 26.9 8.1 41 104-144 152-192 (546)
194 PF10482 CtIP_N: Tumour-suppre 22.1 2.3E+02 0.0049 23.0 5.0 19 119-137 101-119 (120)
195 PRK12541 RNA polymerase sigma 22.0 1.4E+02 0.0031 23.9 4.1 45 52-101 113-157 (161)
196 PF13815 Dzip-like_N: Iguana/D 21.8 3.7E+02 0.008 21.2 6.3 31 111-141 84-114 (118)
197 PRK10072 putative transcriptio 21.8 52 0.0011 25.5 1.3 42 51-99 32-73 (96)
198 PRK07037 extracytoplasmic-func 21.7 1.7E+02 0.0037 23.4 4.5 45 52-101 110-154 (163)
199 TIGR02939 RpoE_Sigma70 RNA pol 21.6 1.3E+02 0.0028 24.7 3.8 26 74-99 156-181 (190)
200 PF04568 IATP: Mitochondrial A 21.6 4E+02 0.0087 20.9 7.0 31 114-144 69-99 (100)
201 cd04763 HTH_MlrA-like Helix-Tu 21.5 66 0.0014 22.4 1.7 21 75-95 3-23 (68)
202 PF11932 DUF3450: Protein of u 21.4 4.3E+02 0.0093 23.4 7.4 32 106-137 62-93 (251)
203 PF07334 IFP_35_N: Interferon- 21.2 2.1E+02 0.0046 21.4 4.4 29 117-145 3-31 (76)
204 PRK09047 RNA polymerase factor 21.1 1.9E+02 0.0042 22.9 4.7 42 52-98 107-148 (161)
205 COG4367 Uncharacterized protei 21.0 1.2E+02 0.0025 23.6 3.0 39 52-90 3-41 (97)
206 PF09798 LCD1: DNA damage chec 21.0 6.9E+02 0.015 26.1 9.5 25 116-140 35-59 (654)
207 PRK12537 RNA polymerase sigma 20.8 1.9E+02 0.0042 23.8 4.7 43 52-99 134-176 (182)
208 PRK06930 positive control sigm 20.7 1.9E+02 0.0041 24.5 4.7 46 52-102 115-160 (170)
209 PRK13922 rod shape-determining 20.6 1.9E+02 0.0041 26.0 5.0 29 113-141 68-96 (276)
210 PRK00118 putative DNA-binding 20.4 4.3E+02 0.0093 20.7 7.8 45 52-101 18-62 (104)
211 TIGR00219 mreC rod shape-deter 20.3 2E+02 0.0044 26.4 5.1 10 126-135 96-105 (283)
212 PF00038 Filament: Intermediat 20.1 6E+02 0.013 22.9 8.2 60 86-145 186-254 (312)
No 1
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.88 E-value=2.2e-22 Score=174.70 Aligned_cols=105 Identities=58% Similarity=0.859 Sum_probs=99.7
Q ss_pred ccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHHHHHhHHHHhHHHHHHH
Q 025268 43 SQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLD 122 (255)
Q Consensus 43 ~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~~~~~~lk~~~~~l~~~ 122 (255)
....+|++||+.+|+..||..|+...++.+.++..||++|||.+|||+|||||||||||.++++.+|+.|+..++.|+.+
T Consensus 48 ~~~~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~Lk~~~~~l~~~ 127 (198)
T KOG0483|consen 48 SKGKGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESLKRQLESLRSE 127 (198)
T ss_pred cccccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhh
Confidence 34677889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 123 YNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 123 ~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
+..|+.++..|.+++..++..++..
T Consensus 128 ~~~Lq~e~~eL~~~~~~~~~~~~~~ 152 (198)
T KOG0483|consen 128 NDRLQSEVQELVAELSSLKREMQKS 152 (198)
T ss_pred hhHHHHHHHHHHHHHhhhhhhhccC
Confidence 9999999999999999988888754
No 2
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.74 E-value=2.5e-18 Score=154.88 Aligned_cols=115 Identities=23% Similarity=0.395 Sum_probs=96.1
Q ss_pred ccccccCcchhhhhcc-------cchhhhhh-----hhccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCC
Q 025268 17 KRKQIYGREFQAMMDC-------LEEEDCRE-----EASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGL 84 (255)
Q Consensus 17 ~~~~~~~~e~~~m~~~-------~~~~~~~~-----~~~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL 84 (255)
+|++.+|+|||+|+|. |+....+. .....+|.|+.+|+.|++.|+..|...++|.+..|+.|+.++||
T Consensus 127 ~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~~~l~gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGL 206 (383)
T KOG4577|consen 127 KRQLATGDEFYLMEDARLVCKDDYETAKQKHCNELEGDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGL 206 (383)
T ss_pred hcccccCCeeEEeccceeehhhhHHHHHhccccccccccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCc
Confidence 6889999999999975 44443333 22345677778999999999999999999999999999999999
Q ss_pred CcchhhhhhhhhHHHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHH
Q 025268 85 QPRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEA 132 (255)
Q Consensus 85 ~~rqVqvWFQNRRak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~ 132 (255)
..|.|||||||||||+|+-++..-...+.+.+..+|.. ...+.|++.
T Consensus 207 DMRVVQVWFQNRRAKEKRLKKDAGR~RWgqyfrsmK~s-gs~r~ekds 253 (383)
T KOG4577|consen 207 DMRVVQVWFQNRRAKEKRLKKDAGRTRWGQYFRSMKRS-GSSRAEKDS 253 (383)
T ss_pred ceeehhhhhhhhhHHHHhhhhhcchhHHHHHHHHhhcc-CCccccccc
Confidence 99999999999999999988777777888888888776 555555554
No 3
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.74 E-value=1.1e-18 Score=157.80 Aligned_cols=61 Identities=34% Similarity=0.637 Sum_probs=56.8
Q ss_pred cCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 44 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 44 ~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
..+|.|+.||..|+.+||+.|..++|+++.+|.+||..|.|+++||+|||||||+||||..
T Consensus 158 ~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~ 218 (261)
T KOG0489|consen 158 KSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKEN 218 (261)
T ss_pred CCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhh
Confidence 3566667799999999999999999999999999999999999999999999999999865
No 4
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.63 E-value=1.6e-16 Score=145.85 Aligned_cols=57 Identities=33% Similarity=0.598 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHHHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERD 108 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~~~ 108 (255)
|+..|+.+||..|...+|++..+|+.||..|+|++.||||||||||-|.||+++++.
T Consensus 160 FSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~ 216 (307)
T KOG0842|consen 160 FSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKA 216 (307)
T ss_pred cchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhh
Confidence 999999999999999999999999999999999999999999999999999886663
No 5
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.61 E-value=8.7e-16 Score=142.04 Aligned_cols=54 Identities=37% Similarity=0.614 Sum_probs=52.4
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.||..|+..||+.|.+.+|++..+|.+||..|||+..||++||||||+|||+..
T Consensus 178 aFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~ 231 (309)
T KOG0488|consen 178 AFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQT 231 (309)
T ss_pred hhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHH
Confidence 499999999999999999999999999999999999999999999999999965
No 6
>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=99.59 E-value=2.3e-15 Score=105.25 Aligned_cols=57 Identities=40% Similarity=0.661 Sum_probs=54.2
Q ss_pred CCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 46 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 46 ~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
+++|++||..|+.+|+..|..+++|+..++..||..|||+..+|++||+|||+++|+
T Consensus 1 kr~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR~k~kk 57 (57)
T PF00046_consen 1 KRKRTRFTKEQLKVLEEYFQENPYPSKEEREELAKELGLTERQVKNWFQNRRRKEKK 57 (57)
T ss_dssp SSSSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCHHHHHHHHHHHHHhccccccccccccccccccccccccCHHHhHHHhCc
Confidence 466778999999999999999999999999999999999999999999999999885
No 7
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.58 E-value=8.9e-16 Score=140.94 Aligned_cols=63 Identities=30% Similarity=0.517 Sum_probs=57.6
Q ss_pred ccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHH
Q 025268 43 SQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKEL 105 (255)
Q Consensus 43 ~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~ 105 (255)
.+.|+||..+|..|+.+||+.|..|.|++.+.|.+|++.|+|++|||+|||||||.|.||...
T Consensus 233 ~~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~r 295 (308)
T KOG0487|consen 233 RRGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNR 295 (308)
T ss_pred cccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhh
Confidence 345666667999999999999999999999999999999999999999999999999998653
No 8
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.56 E-value=3.7e-15 Score=126.59 Aligned_cols=63 Identities=32% Similarity=0.505 Sum_probs=57.9
Q ss_pred cCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHH
Q 025268 44 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELE 106 (255)
Q Consensus 44 ~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~ 106 (255)
+.+|.|+.||.+|+..||..|+.+.|..-.+|..||..|+|++.||+|||||||.|.|+.+.+
T Consensus 101 ~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e 163 (197)
T KOG0843|consen 101 RPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQE 163 (197)
T ss_pred CCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHH
Confidence 455666679999999999999999999999999999999999999999999999999997744
No 9
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.54 E-value=2e-15 Score=135.06 Aligned_cols=54 Identities=41% Similarity=0.616 Sum_probs=52.1
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.+|..|..+||+.|..++|.++.++.+||..|||++|||+|||||||||+||..
T Consensus 205 VYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~n 258 (317)
T KOG0848|consen 205 VYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDN 258 (317)
T ss_pred EecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHH
Confidence 499999999999999999999999999999999999999999999999999865
No 10
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.53 E-value=6.7e-15 Score=115.01 Aligned_cols=60 Identities=28% Similarity=0.498 Sum_probs=55.1
Q ss_pred CCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 45 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 45 ~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.+|-|+.||..|+..||..|...+||++-.|++||.++.|++..|+|||||||||.+++.
T Consensus 17 QRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQE 76 (125)
T KOG0484|consen 17 QRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQE 76 (125)
T ss_pred hhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHH
Confidence 344455699999999999999999999999999999999999999999999999999865
No 11
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.53 E-value=1.4e-14 Score=125.64 Aligned_cols=58 Identities=31% Similarity=0.552 Sum_probs=54.2
Q ss_pred CCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 47 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 47 ~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
+.|+.||..|+..||+.|...+|+++.+|.+++..|.|++.||+|||||||||.||.+
T Consensus 146 kPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQ 203 (246)
T KOG0492|consen 146 KPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQ 203 (246)
T ss_pred CCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHH
Confidence 3355599999999999999999999999999999999999999999999999999866
No 12
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.51 E-value=1e-14 Score=127.13 Aligned_cols=59 Identities=36% Similarity=0.547 Sum_probs=54.5
Q ss_pred CCCCC--cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 46 TEKKR--RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 46 ~~kr~--r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
++||+ .|+..|+..||..|+..+|++..+|..||++|.|++.||+|||||||.|||++-
T Consensus 103 RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~ 163 (268)
T KOG0485|consen 103 RKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQY 163 (268)
T ss_pred ccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHH
Confidence 44444 499999999999999999999999999999999999999999999999999864
No 13
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.50 E-value=1.6e-14 Score=126.17 Aligned_cols=62 Identities=26% Similarity=0.439 Sum_probs=57.9
Q ss_pred ccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 43 SQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 43 ~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.+.+|.|++|+..|+++||..|.+..||+...|++||.+|+|.+.+|+|||+|||||+|+++
T Consensus 35 RkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq 96 (228)
T KOG2251|consen 35 RKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQ 96 (228)
T ss_pred hhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhh
Confidence 45566777899999999999999999999999999999999999999999999999999866
No 14
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.48 E-value=3.5e-14 Score=124.76 Aligned_cols=57 Identities=32% Similarity=0.574 Sum_probs=53.0
Q ss_pred CCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 48 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 48 kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.|+.++.-||..|.+.|..+.|+-..+|.+||..|||+..||+|||||||.|.||..
T Consensus 125 PRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl~ 181 (245)
T KOG0850|consen 125 PRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKLK 181 (245)
T ss_pred CcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHHH
Confidence 345599999999999999999999999999999999999999999999999999743
No 15
>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=99.45 E-value=1.7e-13 Score=95.47 Aligned_cols=56 Identities=46% Similarity=0.783 Sum_probs=52.8
Q ss_pred CCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 47 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 47 ~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
+++..++..++.+|+..|..++||+..++..||..+||+..+|+.||+|||++.++
T Consensus 2 ~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~~ 57 (59)
T cd00086 2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKR 57 (59)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhc
Confidence 45667999999999999999999999999999999999999999999999999876
No 16
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.45 E-value=7.8e-14 Score=117.42 Aligned_cols=68 Identities=32% Similarity=0.580 Sum_probs=61.1
Q ss_pred hhhhhhccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 37 DCREEASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 37 ~~~~~~~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
......+..+++|+|.|..|+.+|+..|..+++|+...|..|+..|+|+++-|+|||||||++.|+..
T Consensus 43 ~~~~~s~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~ 110 (156)
T COG5576 43 RKQDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKR 110 (156)
T ss_pred hcccCCCcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhc
Confidence 33334456778888999999999999999999999999999999999999999999999999999865
No 17
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.43 E-value=2e-13 Score=94.60 Aligned_cols=55 Identities=42% Similarity=0.710 Sum_probs=51.1
Q ss_pred CCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 47 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 47 ~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+.+.+++..|+.+|+..|..++||+..++..||..+||+..+|+.||+|||++.+
T Consensus 2 k~r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~ 56 (56)
T smart00389 2 RKRTSFTPEQLEELEKEFQKNPYPSREEREELAAKLGLSERQVKVWFQNRRAKWK 56 (56)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHhHHHHhhccC
Confidence 3456699999999999999999999999999999999999999999999998764
No 18
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.43 E-value=9.2e-14 Score=123.99 Aligned_cols=56 Identities=34% Similarity=0.480 Sum_probs=53.3
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHH
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELE 106 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~ 106 (255)
.||..|+..||+.|+...||+...|+.||.++.|++..|+||||||||||||+...
T Consensus 147 iFT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~ 202 (332)
T KOG0494|consen 147 IFTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKR 202 (332)
T ss_pred hhhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhh
Confidence 39999999999999999999999999999999999999999999999999997644
No 19
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.41 E-value=6.8e-14 Score=131.35 Aligned_cols=61 Identities=31% Similarity=0.465 Sum_probs=56.7
Q ss_pred cCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 44 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 44 ~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
++|+||+.|.......||++|..|++|+..++..||.+|+|...+|+|||||||.|.||..
T Consensus 293 RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~~ 353 (398)
T KOG3802|consen 293 RKRKKRTSIEVNVRGALEKHFLKNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRIT 353 (398)
T ss_pred cccccccceeHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccceEEEEeeccccccccCC
Confidence 5566666799999999999999999999999999999999999999999999999999865
No 20
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.40 E-value=2e-13 Score=121.92 Aligned_cols=62 Identities=34% Similarity=0.642 Sum_probs=56.0
Q ss_pred CCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHHH
Q 025268 46 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELER 107 (255)
Q Consensus 46 ~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~~ 107 (255)
+|.|+.||.+||..|+..|..++|++..+|+.||.+|||.+.||+|||||+|+|.|+..-.+
T Consensus 247 KRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsTgsk 308 (342)
T KOG0493|consen 247 KRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKSTGSK 308 (342)
T ss_pred cCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhccCCC
Confidence 34445599999999999999999999999999999999999999999999999999876444
No 21
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=99.33 E-value=1.5e-12 Score=92.43 Aligned_cols=52 Identities=17% Similarity=0.371 Sum_probs=49.1
Q ss_pred CCCCCcCCHHHHHHHHHHhHhcCC----CCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 025268 46 TEKKRRLTVDQVKALEKNFEVDNK----LEPDRKVKLAEELGLQPRQIAVWFQNRR 97 (255)
Q Consensus 46 ~~kr~r~t~~Ql~~Le~~F~~~~~----ps~~~r~~LA~~LgL~~rqVqvWFQNRR 97 (255)
++.|+.||.+|+..|+..|..++| |+...+.+||..|||++++|+|||||.+
T Consensus 2 kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN~k 57 (58)
T TIGR01565 2 KRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHNNK 57 (58)
T ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCCCHHHeeeecccCC
Confidence 566778999999999999999999 9999999999999999999999999964
No 22
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.26 E-value=1.7e-12 Score=118.16 Aligned_cols=62 Identities=35% Similarity=0.547 Sum_probs=57.2
Q ss_pred CCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHH
Q 025268 45 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELE 106 (255)
Q Consensus 45 ~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~ 106 (255)
-+|-|+.||.+||..||+.|-+.+|.++.+|.+||..|+|++.-|+|||||||.|+|++.+.
T Consensus 181 mRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 181 MRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 34556669999999999999999999999999999999999999999999999999998754
No 23
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.20 E-value=5.6e-12 Score=105.99 Aligned_cols=57 Identities=33% Similarity=0.554 Sum_probs=53.6
Q ss_pred CCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 48 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 48 kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
-|+.|+..|+..|++.|+..+|++..+|.+||..|+|++.||+.||||||+|.|+.+
T Consensus 103 ~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~ 159 (194)
T KOG0491|consen 103 ARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQ 159 (194)
T ss_pred hcccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 355699999999999999999999999999999999999999999999999999865
No 24
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.14 E-value=2e-11 Score=106.93 Aligned_cols=59 Identities=34% Similarity=0.603 Sum_probs=54.7
Q ss_pred CCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 46 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 46 ~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
+.-|..|+..|+..|+..|+..+|+--.++.+||..+|+++.||+|||||||+|||++.
T Consensus 168 k~srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkh 226 (288)
T KOG0847|consen 168 KQSRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKH 226 (288)
T ss_pred cccCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhh
Confidence 33455699999999999999999999999999999999999999999999999999976
No 25
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.08 E-value=6.9e-11 Score=108.15 Aligned_cols=54 Identities=28% Similarity=0.519 Sum_probs=52.3
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
-||..|+..||..|.+++||+-..|++||.-.+|++..|+|||.|||||||+++
T Consensus 118 hFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrE 171 (351)
T KOG0486|consen 118 HFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 171 (351)
T ss_pred hhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhh
Confidence 399999999999999999999999999999999999999999999999999865
No 26
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=99.01 E-value=6.5e-11 Score=107.36 Aligned_cols=63 Identities=24% Similarity=0.473 Sum_probs=57.6
Q ss_pred hccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 42 ASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 42 ~~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
++.++|||+.+.+...+.||++|...++|+.+.+..||.+|+|....|+|||||.|.|.||..
T Consensus 306 ~~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKRm~ 368 (385)
T KOG1168|consen 306 GGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRMK 368 (385)
T ss_pred ccccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHHhh
Confidence 445677888899999999999999999999999999999999999999999999999988744
No 27
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.92 E-value=5.3e-10 Score=97.69 Aligned_cols=61 Identities=30% Similarity=0.352 Sum_probs=56.2
Q ss_pred cCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 44 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 44 ~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
..++.|..|+..|++.|++.|...+||+...++.||..+++++..|+|||||||++|++..
T Consensus 59 ~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~ 119 (235)
T KOG0490|consen 59 SKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE 119 (235)
T ss_pred cccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence 4455666799999999999999999999999999999999999999999999999999854
No 28
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.69 E-value=1.3e-08 Score=96.15 Aligned_cols=60 Identities=30% Similarity=0.513 Sum_probs=55.4
Q ss_pred CCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 45 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 45 ~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.+++|+.|+..|+..|++.|+.++||+...|+.||.++++++..|+|||+|||+++++..
T Consensus 176 ~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~ 235 (354)
T KOG0849|consen 176 GRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQH 235 (354)
T ss_pred ccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhcc
Confidence 344456799999999999999999999999999999999999999999999999999865
No 29
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.68 E-value=7.7e-08 Score=86.92 Aligned_cols=51 Identities=29% Similarity=0.453 Sum_probs=47.9
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
|...-...|..+|..++||++.++.+||+.+||+..||-.||.|||.|+|.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDRa 233 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDRA 233 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhhh
Confidence 666778899999999999999999999999999999999999999999884
No 30
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=98.23 E-value=8.6e-07 Score=58.37 Aligned_cols=34 Identities=35% Similarity=0.565 Sum_probs=29.0
Q ss_pred hcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 66 VDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 66 ~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
.++||+.+++..||.++||+..||..||-|.|.|
T Consensus 7 ~nPYPs~~ek~~L~~~tgls~~Qi~~WF~NaRrR 40 (40)
T PF05920_consen 7 HNPYPSKEEKEELAKQTGLSRKQISNWFINARRR 40 (40)
T ss_dssp TSGS--HHHHHHHHHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHcCCCHHHHHHHHHHhHcc
Confidence 3789999999999999999999999999999975
No 31
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=98.15 E-value=5.6e-06 Score=55.90 Aligned_cols=44 Identities=57% Similarity=0.887 Sum_probs=41.3
Q ss_pred HHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 103 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 103 k~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
++++++|++|+..|++|+.+++.|..||+.|++++..|+.++..
T Consensus 1 KQlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl~~ 44 (45)
T PF02183_consen 1 KQLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKEKLQM 44 (45)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 46899999999999999999999999999999999999998863
No 32
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.10 E-value=1.8e-06 Score=77.87 Aligned_cols=60 Identities=25% Similarity=0.443 Sum_probs=55.2
Q ss_pred cCCCCCCcCCHHHHHHHHHHhH---hcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHH
Q 025268 44 QATEKKRRLTVDQVKALEKNFE---VDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSK 103 (255)
Q Consensus 44 ~~~~kr~r~t~~Ql~~Le~~F~---~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk 103 (255)
..+||||.|+..-.++|..+|- .++||+.+.+++||+++|++..||-.||.|+|-+.|+.
T Consensus 187 darRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~ 249 (334)
T KOG0774|consen 187 DARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKN 249 (334)
T ss_pred HHHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhh
Confidence 3578888899999999999996 57899999999999999999999999999999999874
No 33
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.88 E-value=1.6e-05 Score=77.92 Aligned_cols=56 Identities=18% Similarity=0.291 Sum_probs=51.2
Q ss_pred CCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHh
Q 025268 45 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARL 100 (255)
Q Consensus 45 ~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~ 100 (255)
.++.|..||..|.+.|..+|+.+++|+.+..+.|+.+|+|...-|..||.|-|.|.
T Consensus 420 ~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRRs 475 (558)
T KOG2252|consen 420 TKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRRS 475 (558)
T ss_pred CCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhhc
Confidence 44445569999999999999999999999999999999999999999999998775
No 34
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.66 E-value=4e-05 Score=66.88 Aligned_cols=60 Identities=40% Similarity=0.663 Sum_probs=54.2
Q ss_pred CCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 45 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 45 ~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
.++.+..+...|+..|...|....+|....+..|+..+|++.+.|++||+|+|++.++..
T Consensus 153 ~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~ 212 (235)
T KOG0490|consen 153 PRRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHK 212 (235)
T ss_pred cCCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhc
Confidence 344455699999999999999999999999999999999999999999999999998754
No 35
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=97.07 E-value=0.0004 Score=74.09 Aligned_cols=62 Identities=29% Similarity=0.398 Sum_probs=56.7
Q ss_pred cCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHH
Q 025268 44 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKEL 105 (255)
Q Consensus 44 ~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~ 105 (255)
..+.+|++++..|++.|..+|....+|...+.+.|...+++..+.|++||||-|++.|+..+
T Consensus 902 ~r~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~~ 963 (1406)
T KOG1146|consen 902 GRRAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAKL 963 (1406)
T ss_pred hhhhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhhh
Confidence 34556778999999999999999999999999999999999999999999999999998654
No 36
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=96.04 E-value=0.0047 Score=43.54 Aligned_cols=42 Identities=19% Similarity=0.417 Sum_probs=31.3
Q ss_pred HHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHH
Q 025268 57 VKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 57 l~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
+..|+..|...+.+...+...|..+.+|+..||+.||--|+.
T Consensus 10 ~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~~~ 51 (56)
T PF11569_consen 10 IQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAERMQ 51 (56)
T ss_dssp -HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHHS-
T ss_pred hHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHhcc
Confidence 567999999999999999999999999999999999976543
No 37
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=95.30 E-value=0.015 Score=54.32 Aligned_cols=55 Identities=31% Similarity=0.383 Sum_probs=46.5
Q ss_pred CcCCHHHHHHHHHHhHh---cCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 50 RRLTVDQVKALEKNFEV---DNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 50 ~r~t~~Ql~~Le~~F~~---~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
+.+....+.+|+.+... .+||+...+..||.++||+..||..||-|.|-|..+.-
T Consensus 244 ~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~ 301 (342)
T KOG0773|consen 244 RGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPM 301 (342)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCch
Confidence 34888999999977432 47999999999999999999999999999988766543
No 38
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=94.06 E-value=0.15 Score=34.32 Aligned_cols=35 Identities=34% Similarity=0.640 Sum_probs=31.2
Q ss_pred HHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 112 LKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 112 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
+...|+.|+..|+.|..++++|..|+..|++.+..
T Consensus 3 lE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~ 37 (45)
T PF02183_consen 3 LERDYDALKASYDSLKAEYDSLKKENEKLRAEVQE 37 (45)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999999999999999999988764
No 39
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=93.88 E-value=0.076 Score=54.44 Aligned_cols=48 Identities=21% Similarity=0.394 Sum_probs=44.6
Q ss_pred HHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 57 VKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 57 l~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
+..|...|..|..|+.++...+|..+||+.+.|+.||+++++......
T Consensus 568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~sv~ 615 (1007)
T KOG3623|consen 568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMSVE 615 (1007)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhhhc
Confidence 788999999999999999999999999999999999999999877644
No 40
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=93.40 E-value=0.53 Score=37.65 Aligned_cols=98 Identities=17% Similarity=0.107 Sum_probs=52.3
Q ss_pred CCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHHHHHhHHHHhHHHHHHHhHHH
Q 025268 47 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNL 126 (255)
Q Consensus 47 ~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~~~~~~lk~~~~~l~~~~~~l 126 (255)
.++++++.++....-.....+.. ...++|.++|+++..|..|.+-=+.....................+..+...|
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g~----sv~evA~e~gIs~~tl~~W~r~y~~~~~~~~~~~~~~~~~~~~~~~~~ei~~L 83 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPGM----TVSLVARQHGVAASQLFLWRKQYQEGSLTAVAAGEQVVPASELAAAMKQIKEL 83 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCCC----CHHHHHHHHCcCHHHHHHHHHHHhhcccccccccccCCchhHHHHHHHHHHHH
Confidence 44567888765443333222222 34578999999999999996542211000000000000011122345556677
Q ss_pred HHHHHHHHHHHHHHHHHHhhhh
Q 025268 127 QQENEALTAELRELKAKLCQEN 148 (255)
Q Consensus 127 ~~en~~l~~e~~~l~~~l~~~~ 148 (255)
++++..|+.|+.=||.++.--+
T Consensus 84 ~~el~~L~~E~diLKKa~~~~~ 105 (121)
T PRK09413 84 QRLLGKKTMENELLKEAVEYGR 105 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 7777777777777777765433
No 41
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=92.26 E-value=0.36 Score=33.30 Aligned_cols=47 Identities=21% Similarity=0.415 Sum_probs=34.1
Q ss_pred CCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 025268 46 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 97 (255)
Q Consensus 46 ~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRR 97 (255)
+++|+.+|.++...+-..++... ....||.++|++..+|..|..|+.
T Consensus 1 krkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~k~ 47 (53)
T PF04218_consen 1 KRKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKNKD 47 (53)
T ss_dssp SSSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHCHH
T ss_pred CCCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHhHH
Confidence 45677799988877777776555 467899999999999999998854
No 42
>smart00340 HALZ homeobox associated leucin zipper.
Probab=89.99 E-value=0.76 Score=30.58 Aligned_cols=28 Identities=32% Similarity=0.500 Sum_probs=22.2
Q ss_pred hHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 115 NYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 115 ~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
.++-|+..+++|..||.+|+.|+++|+.
T Consensus 6 dCe~LKrcce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 6 DCELLKRCCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455777888888899999999988875
No 43
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=88.52 E-value=13 Score=30.70 Aligned_cols=87 Identities=24% Similarity=0.295 Sum_probs=55.4
Q ss_pred CCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHh-CCCcchhhhhhhhhHHHhhH-------HHHHHHHhHHHHhHH
Q 025268 46 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEEL-GLQPRQIAVWFQNRRARLKS-------KELERDYGLLKANYD 117 (255)
Q Consensus 46 ~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~L-gL~~rqVqvWFQNRRak~Kk-------k~~~~~~~~lk~~~~ 117 (255)
..+..+|+.+++..| ..| +|-..| |++...|-.|=|.||+-.-+ -+.....+.|.+...
T Consensus 18 ~~~~d~lsDd~Lvsm------------SVR-eLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~ 84 (135)
T KOG4196|consen 18 GEGGDRLSDDELVSM------------SVR-ELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKA 84 (135)
T ss_pred CCCCCCcCHHHHHHh------------hHH-HHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 334467888887766 222 333344 89999999999998853221 112224455556666
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 118 ALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 118 ~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.|..+.+.|..||..+..|+..++.+..
T Consensus 85 ~L~qqv~~L~~e~s~~~~E~da~k~k~e 112 (135)
T KOG4196|consen 85 ELQQQVEKLKEENSRLRRELDAYKSKYE 112 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777777777777777777777777664
No 44
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=87.10 E-value=3.2 Score=37.60 Aligned_cols=38 Identities=26% Similarity=0.315 Sum_probs=22.8
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
...-|...++.|..+++.|+..|+.|..++.+|...|.
T Consensus 98 ~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le 135 (292)
T KOG4005|consen 98 EIKDLTEENEILQNENDSLRAINESLLAKNHELDSELE 135 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 44445566666666666666666666666555555543
No 45
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=86.45 E-value=4.8 Score=28.45 Aligned_cols=36 Identities=25% Similarity=0.355 Sum_probs=23.7
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAK 143 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 143 (255)
....|......|..++..|..++..|..++..|+..
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 455566666666777777777777777776666554
No 46
>smart00338 BRLZ basic region leucin zipper.
Probab=77.21 E-value=15 Score=25.87 Aligned_cols=37 Identities=30% Similarity=0.430 Sum_probs=22.6
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
....|......|...+..|..+...|..++..|+..+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4445555566666666666666666666666666544
No 47
>smart00340 HALZ homeobox associated leucin zipper.
Probab=77.21 E-value=5.6 Score=26.53 Aligned_cols=32 Identities=34% Similarity=0.396 Sum_probs=22.7
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHH
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTA 135 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~ 135 (255)
+.+.+++.||.-++.|..+|..|++|...|++
T Consensus 2 QTEvdCe~LKrcce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 2 QTEVDCELLKRCCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44567777777777777777777777766654
No 48
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=73.95 E-value=15 Score=29.12 Aligned_cols=45 Identities=27% Similarity=0.407 Sum_probs=32.3
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQEN 148 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~ 148 (255)
.++.....+-.....|+..-..|..||..|+-|+..|+..|....
T Consensus 12 ~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~ 56 (107)
T PF06156_consen 12 QLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELE 56 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445556666667777777777788888888888888888776543
No 49
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=73.60 E-value=22 Score=26.23 Aligned_cols=35 Identities=34% Similarity=0.482 Sum_probs=17.4
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
-+..|+...+.|+..+..+..+++.|+.++..|+.
T Consensus 19 ti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~ 53 (72)
T PF06005_consen 19 TIALLQMENEELKEKNNELKEENEELKEENEQLKQ 53 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 34444445555555555555555555555555543
No 50
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=69.23 E-value=23 Score=32.97 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=34.4
Q ss_pred HHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025268 106 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQEN 148 (255)
Q Consensus 106 ~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~ 148 (255)
+...+.+-.....|...|+.|+.+...|..||+.||..+.+.-
T Consensus 247 Rae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~~ 289 (294)
T KOG4571|consen 247 RAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEVY 289 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3356677778888888899999999999999999988876543
No 51
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=68.09 E-value=19 Score=28.85 Aligned_cols=43 Identities=33% Similarity=0.486 Sum_probs=35.4
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
.++....++-+....++..-..+..||-.|+-|+..|+.+|.+
T Consensus 12 ~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 12 NLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence 3455566677777888888899999999999999999999986
No 52
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=67.89 E-value=33 Score=24.04 Aligned_cols=33 Identities=33% Similarity=0.460 Sum_probs=17.9
Q ss_pred HHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 112 LKANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 112 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
-+.....|......|..+|..|..++..|+..+
T Consensus 24 Kk~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~ 56 (64)
T PF00170_consen 24 KKQYIEELEEKVEELESENEELKKELEQLKKEI 56 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555555555555544
No 53
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=67.06 E-value=47 Score=24.46 Aligned_cols=43 Identities=26% Similarity=0.336 Sum_probs=29.6
Q ss_pred HHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 103 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 103 k~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
..+......|+..+..+..++..|..+|..|+.+-...+.++.
T Consensus 21 ~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~ 63 (72)
T PF06005_consen 21 ALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLR 63 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566777777777777777777777777777666655553
No 54
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=66.93 E-value=30 Score=27.63 Aligned_cols=43 Identities=33% Similarity=0.492 Sum_probs=30.8
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
+++.....+-.....|+..-..+..||..|+-|+..|+..|.+
T Consensus 12 ~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~ 54 (110)
T PRK13169 12 DLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEE 54 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666667777777777777888888888888777764
No 55
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=66.22 E-value=15 Score=28.89 Aligned_cols=48 Identities=27% Similarity=0.421 Sum_probs=29.6
Q ss_pred chhhhhhhhhHHHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 87 RQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 87 rqVqvWFQNRRak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
-++..||.+.=- ..+..++.....++.++..++.+|+.|..++..|+.
T Consensus 15 l~y~l~~g~~G~--------~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 15 LQYSLWFGKNGI--------LDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHhccCCcH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 355678865310 112233445566777777777788888887777766
No 56
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=64.90 E-value=6.3 Score=28.06 Aligned_cols=47 Identities=19% Similarity=0.368 Sum_probs=29.7
Q ss_pred CCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 025268 47 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 97 (255)
Q Consensus 47 ~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRR 97 (255)
+++++||+++...+-..+.. .......+|.++||++..|..|-.--+
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~----~g~sv~~va~~~gi~~~~l~~W~~~~~ 48 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLE----SGESVSEVAREYGISPSTLYNWRKQYR 48 (76)
T ss_dssp -SS----HHHHHHHHHHHHH----HHCHHHHHHHHHTS-HHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHH----CCCceEeeecccccccccccHHHHHHh
Confidence 35677999887777666522 224677899999999999999975433
No 57
>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=63.95 E-value=14 Score=24.33 Aligned_cols=40 Identities=15% Similarity=0.221 Sum_probs=29.3
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQN 95 (255)
.+++.+..+|...|- ....-.++|..+|++...|+.+...
T Consensus 4 ~L~~~er~vi~~~y~-----~~~t~~eIa~~lg~s~~~V~~~~~~ 43 (50)
T PF04545_consen 4 QLPPREREVIRLRYF-----EGLTLEEIAERLGISRSTVRRILKR 43 (50)
T ss_dssp TS-HHHHHHHHHHHT-----ST-SHHHHHHHHTSCHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhc-----CCCCHHHHHHHHCCcHHHHHHHHHH
Confidence 467888899998882 2234568899999999998876643
No 58
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=63.85 E-value=13 Score=23.41 Aligned_cols=43 Identities=14% Similarity=0.153 Sum_probs=31.1
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
++..+..++...|... .....+|..+|++...|..|...-+.+
T Consensus 11 l~~~~~~~~~~~~~~~-----~~~~~ia~~~~~s~~~i~~~~~~~~~~ 53 (55)
T cd06171 11 LPEREREVILLRFGEG-----LSYEEIAEILGISRSTVRQRLHRALKK 53 (55)
T ss_pred CCHHHHHHHHHHHhcC-----CCHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 6677777777776422 234577999999999999988665443
No 59
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=63.30 E-value=23 Score=32.00 Aligned_cols=28 Identities=36% Similarity=0.567 Sum_probs=10.3
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTA 135 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~ 135 (255)
.+.-+|..++.++...+.+..+|+.|..
T Consensus 129 ~~~d~ke~~ee~kekl~E~~~EkeeL~~ 156 (290)
T COG4026 129 EYMDLKEDYEELKEKLEELQKEKEELLK 156 (290)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333
No 60
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=62.39 E-value=26 Score=27.81 Aligned_cols=40 Identities=30% Similarity=0.343 Sum_probs=34.6
Q ss_pred HHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 103 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 103 k~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
..+......||.....|..+|..|+.||+.|+..+.++..
T Consensus 18 ~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 18 GQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3556678889999999999999999999999999888877
No 61
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=61.89 E-value=26 Score=32.06 Aligned_cols=29 Identities=24% Similarity=0.316 Sum_probs=16.3
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 117 DALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 117 ~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.-|..+++.|+.+++.|+.|+..|+..+.
T Consensus 225 ~~leken~~lr~~v~~l~~el~~~~~~~~ 253 (269)
T KOG3119|consen 225 AELEKENEALRTQVEQLKKELATLRRLFL 253 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555556666666666666655555443
No 62
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=60.96 E-value=37 Score=23.07 Aligned_cols=30 Identities=30% Similarity=0.481 Sum_probs=19.4
Q ss_pred HHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 113 KANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 113 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
+.....+......|..+|..|..++..|+.
T Consensus 24 k~~~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 24 KQREEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334455666667777777777777776653
No 63
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=60.66 E-value=52 Score=34.37 Aligned_cols=70 Identities=24% Similarity=0.245 Sum_probs=38.6
Q ss_pred HHHHHHhCCCcchhhhhhhhhHHHhhHHHHHH---HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 76 VKLAEELGLQPRQIAVWFQNRRARLKSKELER---DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 76 ~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~~---~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
+.|+..++|....++.-.-..-+-.-++.+++ ....++..|.+++.+.+.++..-.+|..+++++|.++.
T Consensus 691 ElL~~~~~l~s~~~q~sllraE~~~l~~~le~e~nr~~~~~~e~~~~qeE~~~l~~r~~~le~e~r~~k~~~~ 763 (961)
T KOG4673|consen 691 ELLSLNFSLPSSPIQLSLLRAEQGQLSKSLEKERNRAAENRQEYLAAQEEADTLEGRANQLEVEIRELKRKHK 763 (961)
T ss_pred HHHHHhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777888877776654432211111222222 12234455666666666666666677777777776665
No 64
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=60.61 E-value=13 Score=35.32 Aligned_cols=30 Identities=30% Similarity=0.482 Sum_probs=19.1
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 116 YDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 116 ~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.-+|+.+|.+|++||+.|+.++.+|++.+-
T Consensus 34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 34 NFALRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 345666666667777776666666665543
No 65
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=58.92 E-value=31 Score=27.54 Aligned_cols=40 Identities=33% Similarity=0.419 Sum_probs=34.3
Q ss_pred HHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 103 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 103 k~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
..+......||.....+..+|..|+.||+.|+..+.++..
T Consensus 18 ~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~~~ 57 (110)
T PRK13169 18 GVLLKELGALKKQLAELLEENTALRLENDKLRERLEELEA 57 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3556678889999999999999999999999999988744
No 66
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=57.98 E-value=12 Score=25.57 Aligned_cols=38 Identities=13% Similarity=0.176 Sum_probs=22.6
Q ss_pred HHHHHHHHhCCCcchhhhhhhhhHHHhhHHHHHHHHhH
Q 025268 74 RKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYGL 111 (255)
Q Consensus 74 ~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~~~~~~~~ 111 (255)
....||+.+|++...|..|+.++.....-..+.+-+..
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~~~~~~~~l~~ia~~ 49 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKPSNPSLDTLEKIAKA 49 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-----HHHHHHHHHH
T ss_pred CHHHHHHHHCcCHHHHHHHHhcccccccHHHHHHHHHH
Confidence 45688999999999999999988666665554444333
No 67
>PF15058 Speriolin_N: Speriolin N terminus
Probab=57.40 E-value=14 Score=32.35 Aligned_cols=38 Identities=24% Similarity=0.297 Sum_probs=18.0
Q ss_pred HhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 109 YGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 109 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
|+.++..++++..+|+.|++..+-|+ |+.+||.+|.+.
T Consensus 7 yeGlrhqierLv~ENeeLKKlVrLir-EN~eLksaL~ea 44 (200)
T PF15058_consen 7 YEGLRHQIERLVRENEELKKLVRLIR-ENHELKSALGEA 44 (200)
T ss_pred hHHHHHHHHHHHhhhHHHHHHHHHHH-HHHHHHHHHHHh
Confidence 34444444444444444444443332 446666666543
No 68
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=55.11 E-value=16 Score=25.35 Aligned_cols=39 Identities=28% Similarity=0.307 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHhHhcCC--CCHHHHHHHHHHhCCCcchhh
Q 025268 52 LTVDQVKALEKNFEVDNK--LEPDRKVKLAEELGLQPRQIA 90 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~--ps~~~r~~LA~~LgL~~rqVq 90 (255)
+|..|..+|...|...=| |-.....+||.+||+++.-|-
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~ 41 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVS 41 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHH
Confidence 578899999999875533 556667889999999986543
No 69
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=54.71 E-value=29 Score=19.35 Aligned_cols=38 Identities=16% Similarity=0.336 Sum_probs=25.5
Q ss_pred CcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhh
Q 025268 50 RRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVW 92 (255)
Q Consensus 50 ~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvW 92 (255)
+.++..+...+...|... . ....+|..+|++...|..|
T Consensus 4 ~~~~~~~~~~i~~~~~~~-~----s~~~ia~~~~is~~tv~~~ 41 (42)
T cd00569 4 PKLTPEQIEEARRLLAAG-E----SVAEIARRLGVSRSTLYRY 41 (42)
T ss_pred CcCCHHHHHHHHHHHHcC-C----CHHHHHHHHCCCHHHHHHh
Confidence 346666666666666532 2 4557889999998887776
No 70
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=54.39 E-value=7.9 Score=27.66 Aligned_cols=19 Identities=32% Similarity=0.548 Sum_probs=16.6
Q ss_pred HHHHHHHhCCCcchhhhhh
Q 025268 75 KVKLAEELGLQPRQIAVWF 93 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWF 93 (255)
-.+||.+||+++.+|+.|=
T Consensus 25 lkdIA~~Lgvs~~tIr~WK 43 (60)
T PF10668_consen 25 LKDIAEKLGVSESTIRKWK 43 (60)
T ss_pred HHHHHHHHCCCHHHHHHHh
Confidence 4578999999999999885
No 71
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=54.02 E-value=90 Score=23.26 Aligned_cols=70 Identities=26% Similarity=0.317 Sum_probs=39.4
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHHHhhHH----------HHH--HHHhHHHH----hHHHHHHHhHHHHHHHHHHHHHHH
Q 025268 75 KVKLAEELGLQPRQIAVWFQNRRARLKSK----------ELE--RDYGLLKA----NYDALRLDYNNLQQENEALTAELR 138 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQNRRak~Kkk----------~~~--~~~~~lk~----~~~~l~~~~~~l~~en~~l~~e~~ 138 (255)
..++|..+|++++.|+.|-+..--.-.+. ... +....|+. ..+.++. .-.|..+.+.|+.++.
T Consensus 4 i~e~A~~~gvs~~tLr~ye~~Gli~p~r~~~g~R~y~~~dv~~l~~i~~L~~d~g~~l~~i~~-~l~l~~~~~~l~~~l~ 82 (91)
T cd04766 4 ISVAAELSGMHPQTLRLYERLGLLSPSRTDGGTRRYSERDIERLRRIQRLTQELGVNLAGVKR-ILELEEELAELRAELD 82 (91)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCcCCCcCCCCCeeECHHHHHHHHHHHHHHHHcCCCHHHHHH-HHHHHHHHHHHHHHHH
Confidence 45789999999999999975432211100 000 01111111 1111111 1237788888888998
Q ss_pred HHHHHHh
Q 025268 139 ELKAKLC 145 (255)
Q Consensus 139 ~l~~~l~ 145 (255)
+|+.++.
T Consensus 83 ~l~~~~~ 89 (91)
T cd04766 83 ELRARLR 89 (91)
T ss_pred HHHHHhc
Confidence 8888875
No 72
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=53.42 E-value=40 Score=23.92 Aligned_cols=30 Identities=37% Similarity=0.475 Sum_probs=22.8
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 116 YDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 116 ~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
|-.+..+...+..|++.|++++.+|+.-|.
T Consensus 28 Y~~vL~~R~~l~~e~~~L~~qN~eLr~lLk 57 (60)
T PF14775_consen 28 YNKVLLDRAALIQEKESLEQQNEELRSLLK 57 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667777888888888888888887664
No 73
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=53.37 E-value=85 Score=26.57 Aligned_cols=106 Identities=25% Similarity=0.264 Sum_probs=56.0
Q ss_pred cCcchhhhhcccchhhhhhhhccCCCCCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 22 YGREFQAMMDCLEEEDCREEASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 22 ~~~e~~~m~~~~~~~~~~~~~~~~~~kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
.|.+|+.|.+.++.+-..+=. .+...-+..|+.++..+.....+.. .|-. ..-+.=.+.+|-|..
T Consensus 8 Ig~EfE~lId~~G~e~v~~Lm--------P~VV~vLE~Le~~~~~n~~~~~e~~-~L~~------d~e~L~~q~~~ek~~ 72 (158)
T PF09744_consen 8 IGKEFERLIDRYGEEAVKGLM--------PKVVRVLELLESLASRNQEHEVELE-LLRE------DNEQLETQYEREKEL 72 (158)
T ss_pred HHHHHHHHHHHhChhHHHHHH--------HHHHHHHHHHHHHHHhhhhhhhHHH-HHHH------HHHHHHHHHHHHHHH
Confidence 467888888887775444221 1234456677777777664333221 1111 111222344455544
Q ss_pred HHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 102 SKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 102 kk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
+++.+... -..-+....+...|....+.|+.+++.|..++.
T Consensus 73 r~~~e~~l---~~~Ed~~~~e~k~L~~~v~~Le~e~r~L~~~~~ 113 (158)
T PF09744_consen 73 RKQAEEEL---LELEDQWRQERKDLQSQVEQLEEENRQLELKLK 113 (158)
T ss_pred HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44443322 222355566666666777777777777765554
No 74
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=52.63 E-value=90 Score=23.54 Aligned_cols=36 Identities=22% Similarity=0.342 Sum_probs=21.4
Q ss_pred HHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 025268 105 LERDYGLLKANYDALRLDYNNLQQENEALTAELREL 140 (255)
Q Consensus 105 ~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l 140 (255)
+......|-...+.++.+++.|..+|+.|+.=|..|
T Consensus 28 LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nL 63 (80)
T PF10224_consen 28 LQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNL 63 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555566666666666666666666665555
No 75
>PRK14127 cell division protein GpsB; Provisional
Probab=51.51 E-value=44 Score=26.66 Aligned_cols=28 Identities=36% Similarity=0.413 Sum_probs=14.7
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 118 ALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 118 ~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.+..+++.+..++..|+.++.+|+.++.
T Consensus 34 ~V~~dye~l~~e~~~Lk~e~~~l~~~l~ 61 (109)
T PRK14127 34 DVIKDYEAFQKEIEELQQENARLKAQVD 61 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555554
No 76
>PRK14127 cell division protein GpsB; Provisional
Probab=50.88 E-value=38 Score=27.03 Aligned_cols=40 Identities=28% Similarity=0.444 Sum_probs=33.4
Q ss_pred HHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 106 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 106 ~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
..+-......|+++..++..|+.++..|+.++.+++.++.
T Consensus 29 D~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 29 DKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344556667888899999999999999999999999886
No 77
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=50.12 E-value=91 Score=22.61 Aligned_cols=34 Identities=18% Similarity=0.172 Sum_probs=16.0
Q ss_pred HHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 111 LLKANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 111 ~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
.|-..+..|+.+|..|+.+...+..|-..|.++.
T Consensus 11 ~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 11 HLLEYLERLKSENRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444444444443
No 78
>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=49.28 E-value=30 Score=22.89 Aligned_cols=42 Identities=17% Similarity=0.187 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
+++.+..++...|- ..-...++|..+|+++..|+.|...-|.
T Consensus 11 L~~~~r~i~~l~~~-----~g~s~~eIa~~l~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 11 LPERQREIFLLRYF-----QGMSYAEIAEILGISESTVKRRLRRARK 52 (54)
T ss_dssp S-HHHHHHHHHHHT-----S---HHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH-----HCcCHHHHHHHHCcCHHHHHHHHHHHHh
Confidence 55666666665553 3345678999999999999999975443
No 79
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=48.72 E-value=55 Score=34.31 Aligned_cols=49 Identities=24% Similarity=0.366 Sum_probs=41.6
Q ss_pred HHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 98 ARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 98 ak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
|..++..+......+++.++.+..+.+.|..+++.|+.++..|+.....
T Consensus 214 Ale~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~~~~~ 262 (916)
T KOG0249|consen 214 ALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRRSSLE 262 (916)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHh
Confidence 5566777788889999999999999999999999999999999865443
No 80
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=48.50 E-value=69 Score=29.07 Aligned_cols=45 Identities=27% Similarity=0.388 Sum_probs=29.3
Q ss_pred hHHHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 025268 96 RRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELREL 140 (255)
Q Consensus 96 RRak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l 140 (255)
=|-|.|-.+++.+....+.....|+.+.+.|+.+|..|.+.++=|
T Consensus 89 DRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRyl 133 (248)
T PF08172_consen 89 DRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYL 133 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555566666666666666667777777777777776665544
No 81
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=47.67 E-value=81 Score=31.23 Aligned_cols=26 Identities=27% Similarity=0.525 Sum_probs=18.3
Q ss_pred hhhhh---hhhHHHhhHHHHHHHHhHHHH
Q 025268 89 IAVWF---QNRRARLKSKELERDYGLLKA 114 (255)
Q Consensus 89 VqvWF---QNRRak~Kkk~~~~~~~~lk~ 114 (255)
.-+|| ||+.+|.+-.++.++.+.|+.
T Consensus 228 ~gcw~ay~Qnk~akehv~km~kdle~Lq~ 256 (575)
T KOG4403|consen 228 GGCWFAYRQNKKAKEHVNKMMKDLEGLQR 256 (575)
T ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 45788 888888877776666555543
No 82
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=47.43 E-value=1.1e+02 Score=22.97 Aligned_cols=46 Identities=24% Similarity=0.257 Sum_probs=38.6
Q ss_pred hhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 100 LKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 100 ~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
..+..+.++...|+.....|....+..+.+++.|..|++-|+.=+.
T Consensus 16 e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~ 61 (80)
T PF10224_consen 16 EEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIG 61 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566788889999999999999999999999999999887665
No 83
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=47.38 E-value=32 Score=24.43 Aligned_cols=44 Identities=20% Similarity=0.407 Sum_probs=22.3
Q ss_pred CCcCCHH-HHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 025268 49 KRRLTVD-QVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQ 94 (255)
Q Consensus 49 r~r~t~~-Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQ 94 (255)
|+.|+.. -+.+++..+..+. --...| ..|.++|++.++|+-|-+
T Consensus 3 rrsy~~~FKL~Vv~~a~~~~n-c~~~~R-Aaarkf~V~r~~Vr~W~k 47 (58)
T PF09607_consen 3 RRSYTAEFKLKVVEYAEKDNN-CKGNQR-AAARKFNVSRRQVRKWRK 47 (58)
T ss_dssp -----HHHHHHHHHHHHH-TT-TTT-HH-HHHHHTTS-HHHHHHHHT
T ss_pred ccccChHHHHHHHHHHHHccc-hhhhHH-HHHHHhCccHHHHHHHHH
Confidence 3445554 3445554443322 222233 349999999999999975
No 84
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=47.31 E-value=46 Score=33.70 Aligned_cols=32 Identities=34% Similarity=0.379 Sum_probs=16.7
Q ss_pred HhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 025268 109 YGLLKANYDALRLDYNNLQQENEALTAELREL 140 (255)
Q Consensus 109 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l 140 (255)
...|++...+|..+++.|+.||..|+.++..|
T Consensus 304 ~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l 335 (655)
T KOG4343|consen 304 MLGLEARLQALLSENEQLKKENATLKRQLDEL 335 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 34455555555555555555555555554444
No 85
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=46.34 E-value=3.4e+02 Score=27.67 Aligned_cols=38 Identities=21% Similarity=0.287 Sum_probs=27.9
Q ss_pred HHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025268 111 LLKANYDALRLDYNNLQQENEALTAELRELKAKLCQEN 148 (255)
Q Consensus 111 ~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~ 148 (255)
-+++....+..+.+.|..+++-|...+..|+.+|....
T Consensus 421 Elks~lrv~qkEKEql~~EkQeL~~yi~~Le~r~~~~~ 458 (546)
T PF07888_consen 421 ELKSSLRVAQKEKEQLQEEKQELLEYIERLEQRLDKVA 458 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45666666777777788888888888888888886443
No 86
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=45.46 E-value=57 Score=23.18 Aligned_cols=28 Identities=29% Similarity=0.489 Sum_probs=16.8
Q ss_pred HHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 025268 113 KANYDALRLDYNNLQQENEALTAELREL 140 (255)
Q Consensus 113 k~~~~~l~~~~~~l~~en~~l~~e~~~l 140 (255)
+.....+......++.+++.|+.+++.|
T Consensus 23 ~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 23 NQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344555566666666666666666666
No 87
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=45.45 E-value=77 Score=23.75 Aligned_cols=22 Identities=41% Similarity=0.625 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 025268 125 NLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 125 ~l~~en~~l~~e~~~l~~~l~~ 146 (255)
.+.++|.+|+.+++.|++.|+.
T Consensus 4 ei~eEn~~Lk~eiqkle~ELq~ 25 (76)
T PF07334_consen 4 EIQEENARLKEEIQKLEAELQQ 25 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666654
No 88
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=45.03 E-value=77 Score=24.83 Aligned_cols=25 Identities=16% Similarity=0.170 Sum_probs=13.3
Q ss_pred HHHHhHHHHHHHhHHHHHHHHHHHH
Q 025268 111 LLKANYDALRLDYNNLQQENEALTA 135 (255)
Q Consensus 111 ~lk~~~~~l~~~~~~l~~en~~l~~ 135 (255)
.++...+.++..+..|..+.+.|+.
T Consensus 38 ~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 38 AQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3444445555555555555555554
No 89
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=44.93 E-value=22 Score=39.34 Aligned_cols=56 Identities=16% Similarity=0.226 Sum_probs=50.7
Q ss_pred CCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 49 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 49 r~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
+..+-.++...|-.+|-.+.-|+...+..|......+.+++.+||+|-|.|.++..
T Consensus 709 ~~~~~~~aa~~l~~a~~~~~sps~k~~~civcd~~st~~l~~l~~h~~~~rs~ke~ 764 (1406)
T KOG1146|consen 709 RLTILPEAAMILGRAYMQDNSPSLKVFDCIVCDVFSTDRLDQLWFHNTRERSRKEQ 764 (1406)
T ss_pred cccccHHHHhhhhhcccCCCCHHHHHHHHhhhhhhhhhhHHHHhhcchhhhhhhhc
Confidence 34466799999999999999999999999999999999999999999999988755
No 90
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=44.30 E-value=84 Score=23.24 Aligned_cols=28 Identities=36% Similarity=0.302 Sum_probs=15.3
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 118 ALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 118 ~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.+..++-.|+.++..|+.++++++..|.
T Consensus 40 ~~~keNieLKve~~~L~~el~~~~~~l~ 67 (75)
T PF07989_consen 40 ELLKENIELKVEVESLKRELQEKKKLLK 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455666666666665555554
No 91
>PF15058 Speriolin_N: Speriolin N terminus
Probab=43.70 E-value=54 Score=28.84 Aligned_cols=38 Identities=29% Similarity=0.413 Sum_probs=32.1
Q ss_pred HHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 025268 112 LKANYDALRLDYNNLQQENEALTAELRELKAKLCQENE 149 (255)
Q Consensus 112 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~ 149 (255)
+-.+|+.+++..+.|..||+.|++.++-|++.+.-+..
T Consensus 3 ll~~yeGlrhqierLv~ENeeLKKlVrLirEN~eLksa 40 (200)
T PF15058_consen 3 LLTNYEGLRHQIERLVRENEELKKLVRLIRENHELKSA 40 (200)
T ss_pred cccchHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 44688999999999999999999999999988866554
No 92
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=43.17 E-value=95 Score=28.98 Aligned_cols=34 Identities=18% Similarity=0.147 Sum_probs=17.7
Q ss_pred HHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 025268 106 ERDYGLLKANYDALRLDYNNLQQENEALTAELRE 139 (255)
Q Consensus 106 ~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~ 139 (255)
..+++.|...++.||..-..+.+|...|+.-+.+
T Consensus 254 ~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e 287 (294)
T KOG4571|consen 254 LGELEGLEKRNEELKDQASELEREIRYLKQLILE 287 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555555555555554433
No 93
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=42.11 E-value=92 Score=27.85 Aligned_cols=43 Identities=30% Similarity=0.529 Sum_probs=31.7
Q ss_pred HHhHHHHhH-HHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 025268 108 DYGLLKANY-DALRLDYNNLQQENEALTAELRELKAKLCQENEE 150 (255)
Q Consensus 108 ~~~~lk~~~-~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~~ 150 (255)
+...++.+. ...+.++..++.||+.|.-+++++|..|.++...
T Consensus 102 ~f~kiRsel~S~e~sEF~~lr~e~EklkndlEk~ks~lr~ei~~ 145 (220)
T KOG3156|consen 102 DFAKIRSELVSIERSEFANLRAENEKLKNDLEKLKSSLRHEISK 145 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333333333 3456688889999999999999999999876554
No 94
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.88 E-value=1.1e+02 Score=22.71 Aligned_cols=35 Identities=31% Similarity=0.387 Sum_probs=14.4
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
+.+.||..+..|..+-..++...+.|..++..|+.
T Consensus 26 EieELKEknn~l~~e~q~~q~~reaL~~eneqlk~ 60 (79)
T COG3074 26 EIEELKEKNNSLSQEVQNAQHQREALERENEQLKE 60 (79)
T ss_pred HHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444433333333444444444444443
No 95
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=41.75 E-value=54 Score=27.26 Aligned_cols=48 Identities=21% Similarity=0.264 Sum_probs=35.4
Q ss_pred CCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 49 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 49 r~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
...+++.|..+|.. +. ... ...++|..||++...|..|-.+.+.+.++
T Consensus 4 ~~~Lt~rqreVL~l-r~--~Gl---Tq~EIAe~LGiS~~tVs~ie~ra~kkLr~ 51 (141)
T PRK03975 4 ESFLTERQIEVLRL-RE--RGL---TQQEIADILGTSRANVSSIEKRARENIEK 51 (141)
T ss_pred ccCCCHHHHHHHHH-HH--cCC---CHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 45689999999977 32 222 34578999999999999999866655443
No 96
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=40.63 E-value=1.4e+02 Score=31.39 Aligned_cols=21 Identities=14% Similarity=0.165 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHHhCCCcchhh
Q 025268 70 LEPDRKVKLAEELGLQPRQIA 90 (255)
Q Consensus 70 ps~~~r~~LA~~LgL~~rqVq 90 (255)
|....-..+|+.+||++..|.
T Consensus 480 ~g~S~a~~iA~~~Glp~~ii~ 500 (771)
T TIGR01069 480 PGESYAFEIAQRYGIPHFIIE 500 (771)
T ss_pred CCCcHHHHHHHHhCcCHHHHH
Confidence 555566788999999998876
No 97
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=40.20 E-value=72 Score=28.71 Aligned_cols=39 Identities=21% Similarity=0.191 Sum_probs=23.0
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHhh
Q 025268 108 DYGLLKANYDALRLDYNNLQQENE---ALTAELRELKAKLCQ 146 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~---~l~~e~~~l~~~l~~ 146 (255)
.+..+.+.++.|+.++..|+.++. .+++|+++|++-|.-
T Consensus 70 ~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~ 111 (276)
T PRK13922 70 SLFDLREENEELKKELLELESRLQELEQLEAENARLRELLNL 111 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 344455555556666655555555 556677777776653
No 98
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=39.68 E-value=1.1e+02 Score=23.42 Aligned_cols=32 Identities=16% Similarity=0.265 Sum_probs=21.6
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 116 YDALRLDYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 116 ~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
++.|..+++.++.|.....++++.-+.+-..+
T Consensus 32 ~~kL~~en~qlk~Ek~~~~~qvkn~~vrqkne 63 (87)
T PF10883_consen 32 NAKLQKENEQLKTEKAVAETQVKNAKVRQKNE 63 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 45566777777777777777777766655433
No 99
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=39.44 E-value=43 Score=33.16 Aligned_cols=88 Identities=18% Similarity=0.236 Sum_probs=45.1
Q ss_pred cCCHHHHHHHHHH-hHhcC-CCCHHHHHHHHHHhCCCcchhhhhhhhhHH-HhhHHHHHHHHhHHHHhHHHHHHHhHHHH
Q 025268 51 RLTVDQVKALEKN-FEVDN-KLEPDRKVKLAEELGLQPRQIAVWFQNRRA-RLKSKELERDYGLLKANYDALRLDYNNLQ 127 (255)
Q Consensus 51 r~t~~Ql~~Le~~-F~~~~-~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa-k~Kkk~~~~~~~~lk~~~~~l~~~~~~l~ 127 (255)
++|.+....|.+. |-... +|....-+++-+ +|+.=.+|+|. ..+|++...-.+.|...+.+...+|..|+
T Consensus 220 ~LteeEkrLL~kEG~slPs~lPLTKaEEriLK-------rvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~ 292 (472)
T KOG0709|consen 220 VLTEEEKRLLTKEGYSLPSKLPLTKAEERILK-------RVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQ 292 (472)
T ss_pred eccHHHHHHHHhccCcCcccCCchHHHHHHHH-------HHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHH
Confidence 4677776666654 22222 344333333333 34444556653 33333434445556666666666666666
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 025268 128 QENEALTAELRELKAKLC 145 (255)
Q Consensus 128 ~en~~l~~e~~~l~~~l~ 145 (255)
++.+.|..+++.|-++|.
T Consensus 293 kkV~~Le~~N~sLl~qL~ 310 (472)
T KOG0709|consen 293 KKVEELELSNRSLLAQLK 310 (472)
T ss_pred HHHHHHhhccHHHHHHHH
Confidence 655555555555555554
No 100
>smart00338 BRLZ basic region leucin zipper.
Probab=39.16 E-value=1.3e+02 Score=20.92 Aligned_cols=33 Identities=33% Similarity=0.474 Sum_probs=20.0
Q ss_pred HHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 113 KANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 113 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
+.....|......|..+|..|..++..|+..+.
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~ 57 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKEIERLRRELE 57 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666666666666666666666665543
No 101
>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=38.96 E-value=93 Score=26.58 Aligned_cols=34 Identities=32% Similarity=0.527 Sum_probs=17.7
Q ss_pred HHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 112 LKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 112 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
+...+..++.+...|+..++.|..++..|+.++.
T Consensus 102 ~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~ 135 (161)
T TIGR02894 102 LQKENERLKNQNESLQKRNEELEKELEKLRQRLS 135 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555555555555555555443
No 102
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=38.05 E-value=52 Score=28.98 Aligned_cols=40 Identities=30% Similarity=0.522 Sum_probs=32.8
Q ss_pred hHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 025268 110 GLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQENE 149 (255)
Q Consensus 110 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~ 149 (255)
..+...|+.|+..++.|..++..|+.++.+|...+.....
T Consensus 108 kqlE~d~~~Lk~~~~~l~~~~~~Lq~e~~eL~~~~~~~~~ 147 (198)
T KOG0483|consen 108 KQLEKDYESLKRQLESLRSENDRLQSEVQELVAELSSLKR 147 (198)
T ss_pred hhhhhhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhh
Confidence 3455678889999999999999999999999988864433
No 103
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=37.51 E-value=1.3e+02 Score=28.87 Aligned_cols=47 Identities=21% Similarity=0.302 Sum_probs=24.4
Q ss_pred HHHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 025268 97 RARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAK 143 (255)
Q Consensus 97 Rak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 143 (255)
|++.+-.+.....+.++...+.++.....|+.+.+.|..++..|+..
T Consensus 222 r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~n 268 (365)
T KOG2391|consen 222 RREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKN 268 (365)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 34444444444555555555555555555555555555555544443
No 104
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=37.30 E-value=1.3e+02 Score=30.64 Aligned_cols=38 Identities=29% Similarity=0.196 Sum_probs=31.1
Q ss_pred HHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 025268 112 LKANYDALRLDYNNLQQENEALTAELRELKAKLCQENE 149 (255)
Q Consensus 112 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~ 149 (255)
.|.....|+...++|..||+.|++|+..||.+|..-..
T Consensus 300 KKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~ 337 (655)
T KOG4343|consen 300 KKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVS 337 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence 35556778889999999999999999999999875444
No 105
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=35.72 E-value=1.4e+02 Score=20.17 Aligned_cols=29 Identities=24% Similarity=0.224 Sum_probs=17.1
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAE 136 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e 136 (255)
....+......|...+..|..++..|..|
T Consensus 26 ~~~~le~~~~~L~~en~~L~~~i~~L~~E 54 (54)
T PF07716_consen 26 REEELEQEVQELEEENEQLRQEIAQLERE 54 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44455555666666666666666666543
No 106
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=35.66 E-value=27 Score=22.34 Aligned_cols=23 Identities=17% Similarity=0.177 Sum_probs=19.1
Q ss_pred HHHHHHHhCCCcchhhhhhhhhH
Q 025268 75 KVKLAEELGLQPRQIAVWFQNRR 97 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQNRR 97 (255)
..++|+.+|++++.|+.|.++-.
T Consensus 3 ~~e~a~~~gv~~~tlr~~~~~g~ 25 (49)
T cd04761 3 IGELAKLTGVSPSTLRYYERIGL 25 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCC
Confidence 35789999999999999976543
No 107
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=35.22 E-value=74 Score=26.72 Aligned_cols=45 Identities=18% Similarity=0.171 Sum_probs=31.8
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
++..+..+|...|-.. ....++|..||++...|+.+...-|.+.|
T Consensus 143 L~~~~r~vl~l~~~~~-----~s~~EIA~~Lgis~~tVk~~l~ra~~~Lr 187 (194)
T PRK09646 143 LTDTQRESVTLAYYGG-----LTYREVAERLAVPLGTVKTRMRDGLIRLR 187 (194)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCChHhHHHHHHHHHHHHH
Confidence 7777777776655322 24567899999999999988865554444
No 108
>PRK10884 SH3 domain-containing protein; Provisional
Probab=35.12 E-value=1.6e+02 Score=25.96 Aligned_cols=26 Identities=8% Similarity=0.137 Sum_probs=11.4
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHH
Q 025268 118 ALRLDYNNLQQENEALTAELRELKAK 143 (255)
Q Consensus 118 ~l~~~~~~l~~en~~l~~e~~~l~~~ 143 (255)
.|+.++..|+++.+.++.++..|+.+
T Consensus 136 ~L~~~n~~L~~~l~~~~~~~~~l~~~ 161 (206)
T PRK10884 136 GLKEENQKLKNQLIVAQKKVDAANLQ 161 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444433
No 109
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=35.12 E-value=2.2e+02 Score=27.00 Aligned_cols=13 Identities=15% Similarity=0.682 Sum_probs=10.3
Q ss_pred hhhhhhhhHHHhh
Q 025268 89 IAVWFQNRRARLK 101 (255)
Q Consensus 89 VqvWFQNRRak~K 101 (255)
++|||+|.|+-.+
T Consensus 16 CKiWi~dN~~Sv~ 28 (336)
T KOG0150|consen 16 CKIWIKDNPASVR 28 (336)
T ss_pred hhhhhcCChHHHH
Confidence 6899999887654
No 110
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.09 E-value=1.9e+02 Score=21.49 Aligned_cols=25 Identities=24% Similarity=0.310 Sum_probs=11.5
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHH
Q 025268 117 DALRLDYNNLQQENEALTAELRELK 141 (255)
Q Consensus 117 ~~l~~~~~~l~~en~~l~~e~~~l~ 141 (255)
..+...++.|.++|+.|+.|-..-+
T Consensus 42 q~~q~~reaL~~eneqlk~e~~~WQ 66 (79)
T COG3074 42 QNAQHQREALERENEQLKEEQNGWQ 66 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444445555555555443333
No 111
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=34.74 E-value=1.2e+02 Score=27.64 Aligned_cols=42 Identities=29% Similarity=0.438 Sum_probs=26.4
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.+..+.+.|...++.|+..++.|..+|..|..++..|.+.|.
T Consensus 101 dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~ 142 (292)
T KOG4005|consen 101 DLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELA 142 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 345566666666666666666666666666666665555553
No 112
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=34.73 E-value=1.9e+02 Score=30.49 Aligned_cols=21 Identities=24% Similarity=0.336 Sum_probs=16.7
Q ss_pred CCHHHHHHHHHHhCCCcchhh
Q 025268 70 LEPDRKVKLAEELGLQPRQIA 90 (255)
Q Consensus 70 ps~~~r~~LA~~LgL~~rqVq 90 (255)
|....-..+|+.+||++..|.
T Consensus 485 ~g~S~a~~iA~~~Glp~~ii~ 505 (782)
T PRK00409 485 PGKSNAFEIAKRLGLPENIIE 505 (782)
T ss_pred CCCcHHHHHHHHhCcCHHHHH
Confidence 455567788999999998876
No 113
>PRK10884 SH3 domain-containing protein; Provisional
Probab=34.64 E-value=1.6e+02 Score=25.85 Aligned_cols=39 Identities=15% Similarity=0.112 Sum_probs=27.7
Q ss_pred HHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 107 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 107 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.....|+..+..|+.+...++.+++.|.+++..++....
T Consensus 132 ~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~~ 170 (206)
T PRK10884 132 SVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTII 170 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344457777777777777777777777777777776543
No 114
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=34.49 E-value=60 Score=28.16 Aligned_cols=48 Identities=25% Similarity=0.230 Sum_probs=35.4
Q ss_pred cCCHHHHHHHHHHhHhcC--CCCHHHHHHHHHHhCCCcchhhhhhhhhHHHh
Q 025268 51 RLTVDQVKALEKNFEVDN--KLEPDRKVKLAEELGLQPRQIAVWFQNRRARL 100 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~--~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~ 100 (255)
.+|..|+.+|..+|...= +|=.....+||++||+++.- ++..=|||..
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst--~~ehLRrAe~ 204 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKST--LSEHLRRAER 204 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHH--HHHHHHHHHH
Confidence 599999999999997543 36666678899999999854 3344445543
No 115
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=34.17 E-value=84 Score=29.48 Aligned_cols=40 Identities=28% Similarity=0.373 Sum_probs=26.3
Q ss_pred HHhHHHHhHHHHHHHh-HHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 108 DYGLLKANYDALRLDY-NNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~-~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
+|..-|..|-+...+. .-|..+|..|-+||+.||+--|.+
T Consensus 305 ECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKeLYc~k 345 (348)
T KOG3584|consen 305 ECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKELYCHK 345 (348)
T ss_pred HHHHhHhHHHHHHHhHHHHHhcccHHHHHHHHHHHHHhhcc
Confidence 3333344454443333 347889999999999999877754
No 116
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=34.02 E-value=37 Score=22.13 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=19.5
Q ss_pred CcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 025268 50 RRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQ 94 (255)
Q Consensus 50 ~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQ 94 (255)
+.+|.++...++..+... ....+||..||.++.-|..+.+
T Consensus 3 ~~Lt~~eR~~I~~l~~~G-----~s~~~IA~~lg~s~sTV~relk 42 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQG-----MSIREIAKRLGRSRSTVSRELK 42 (44)
T ss_dssp ---------HHHHHHCS--------HHHHHHHTT--HHHHHHHHH
T ss_pred cchhhhHHHHHHHHHHcC-----CCHHHHHHHHCcCcHHHHHHHh
Confidence 457888888888776532 3455789999999888876653
No 117
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=33.54 E-value=75 Score=31.60 Aligned_cols=26 Identities=19% Similarity=0.221 Sum_probs=14.0
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHH
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLA 79 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA 79 (255)
.+++++++.|.- ..-.|...-|..+|
T Consensus 41 ~ltpee~kalGi---egDTP~DTlrTlva 66 (472)
T TIGR03752 41 ELSPEELKALGI---EGDTPADTLRTLVA 66 (472)
T ss_pred cCCcchhHhcCC---CCCCccchHHHHHH
Confidence 477777666542 22345555555554
No 118
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=33.19 E-value=77 Score=25.15 Aligned_cols=44 Identities=14% Similarity=0.124 Sum_probs=31.1
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARL 100 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~ 100 (255)
+++.+..++...|-.. ....+||..+|++...|+.|...-|.+-
T Consensus 107 L~~~~r~ii~l~~~~~-----~s~~EIA~~l~is~~tV~~~~~ra~~~L 150 (154)
T PRK06759 107 LDEKEKYIIFERFFVG-----KTMGEIALETEMTYYQVRWIYRQALEKM 150 (154)
T ss_pred CCHHHHHHHHHHHhcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 6677777776655332 2366899999999999999886544443
No 119
>KOG3755 consensus SATB1 matrix attachment region binding protein [Transcription]
Probab=33.12 E-value=16 Score=37.31 Aligned_cols=44 Identities=18% Similarity=0.145 Sum_probs=31.3
Q ss_pred HHHhHhcCCCCHHHHHHHHHHhCC-------CcchhhhhhhhhHHHhhHHH
Q 025268 61 EKNFEVDNKLEPDRKVKLAEELGL-------QPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 61 e~~F~~~~~ps~~~r~~LA~~LgL-------~~rqVqvWFQNRRak~Kkk~ 104 (255)
+.+|..++.++.....+--.++.+ ..+.|+.||.|||+++|+-+
T Consensus 708 ~~w~~k~~s~s~~~v~eYkee~~~~~~~e~~~~kn~~~~fk~~~ee~~~~k 758 (769)
T KOG3755|consen 708 HHWKLKTRSGSWVDVAEYKEEELLMPYEEKFESKNVQFWFKVRREEEKRLK 758 (769)
T ss_pred hhheecccCchhHHHHHhhHHhhcchhhhhhhhcchHHHHHHHHHHHhhhh
Confidence 445667777777766665555443 45679999999999998744
No 120
>PF13518 HTH_28: Helix-turn-helix domain
Probab=32.92 E-value=41 Score=21.77 Aligned_cols=24 Identities=21% Similarity=0.498 Sum_probs=19.5
Q ss_pred HHHHHHHHhCCCcchhhhhhhhhH
Q 025268 74 RKVKLAEELGLQPRQIAVWFQNRR 97 (255)
Q Consensus 74 ~r~~LA~~LgL~~rqVqvWFQNRR 97 (255)
...++|.++|++..+|..|.+.-+
T Consensus 14 s~~~~a~~~gis~~tv~~w~~~y~ 37 (52)
T PF13518_consen 14 SVREIAREFGISRSTVYRWIKRYR 37 (52)
T ss_pred CHHHHHHHHCCCHhHHHHHHHHHH
Confidence 345689999999999999986543
No 121
>PF00424 REV: REV protein (anti-repression trans-activator protein); InterPro: IPR000625 REV is a viral anti-repression trans-activator protein, which appears to act post-transcriptionally [] to relieve negative repression of GAG and ENV production. It is a phosphoprotein [, ] whose state of phosphorylation is mediated by a specific serine kinase activity present in the nucleus []. REV accumulates in the nucleoli [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1ETF_B 1ETG_B 1ULL_B 3LPH_B 2X7L_R.
Probab=32.66 E-value=63 Score=25.03 Aligned_cols=34 Identities=21% Similarity=0.408 Sum_probs=18.7
Q ss_pred HHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhHHH
Q 025268 57 VKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 104 (255)
Q Consensus 57 l~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kkk~ 104 (255)
+.+..-.|..++||...--.. | =.|||.+|++.+
T Consensus 14 vRiIk~LyqsnPyP~~~GTr~-a-------------RRnRRRRWR~rq 47 (91)
T PF00424_consen 14 VRIIKILYQSNPYPSPEGTRQ-A-------------RRNRRRRWRARQ 47 (91)
T ss_dssp HHHHHHHHHTS-S--S-S-HH-H-------------HHHHHHHHHHHH
T ss_pred HHHHHHHHccccCCCCCCccc-c-------------ccchhhhHHHHH
Confidence 444555688899987541111 1 169999999866
No 122
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=32.34 E-value=2.2e+02 Score=21.48 Aligned_cols=17 Identities=24% Similarity=0.378 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 025268 126 LQQENEALTAELRELKA 142 (255)
Q Consensus 126 l~~en~~l~~e~~~l~~ 142 (255)
|.++|+.|+.|...-++
T Consensus 51 L~~en~qLk~E~~~Wqe 67 (79)
T PRK15422 51 LERENNHLKEQQNGWQE 67 (79)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444444444433333
No 123
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=31.49 E-value=1.6e+02 Score=20.67 Aligned_cols=28 Identities=14% Similarity=0.408 Sum_probs=15.1
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 117 DALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 117 ~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
.++.....+++.+|+.+..+++.+++..
T Consensus 10 ~~~~~~i~tvk~en~~i~~~ve~i~env 37 (55)
T PF05377_consen 10 PRIESSINTVKKENEEISESVEKIEENV 37 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555665655555555544
No 124
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=31.35 E-value=92 Score=25.12 Aligned_cols=43 Identities=14% Similarity=0.015 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
+++.+..+|...|-.. ....++|..+|++...|..|...-+.+
T Consensus 129 L~~~~r~vl~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 129 LPEELRTAITLREIEG-----LSYEEIAEIMGCPIGTVRSRIFRAREA 171 (182)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 7777777777665322 234578999999999999888744433
No 125
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=30.62 E-value=1.2e+02 Score=24.34 Aligned_cols=36 Identities=33% Similarity=0.362 Sum_probs=31.2
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRE 139 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~ 139 (255)
.+-++.+.+|++...+..+|..|+-||+.|++-+.+
T Consensus 19 ~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 19 VLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence 455677889999999999999999999999998776
No 126
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=30.57 E-value=90 Score=25.10 Aligned_cols=46 Identities=20% Similarity=0.205 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
+++.+..++...|-. .....+||..+|+++..|..|...-|.+.|+
T Consensus 126 L~~~~r~i~~l~~~~-----~~~~~eIA~~lgis~~tv~~~~~ra~~~lr~ 171 (179)
T PRK11924 126 LPVKQREVFLLRYVE-----GLSYREIAEILGVPVGTVKSRLRRARQLLRE 171 (179)
T ss_pred CCHHHHHHhhHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 555555555554422 2234689999999999999988755555443
No 127
>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=30.32 E-value=94 Score=23.67 Aligned_cols=45 Identities=18% Similarity=0.210 Sum_probs=29.9
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-. .....+||..+|+++..|..+...-+.+.|
T Consensus 111 L~~~~~~ii~~~~~~-----g~s~~eIA~~l~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 111 LPEREREVLVLRYLE-----GLSYKEIAEILGISVGTVKRRLKRARKKLR 155 (158)
T ss_pred CCHHHHHHHhhHHhc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 566666666554422 224558899999999999988765544433
No 128
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=29.54 E-value=1.7e+02 Score=29.20 Aligned_cols=44 Identities=16% Similarity=0.297 Sum_probs=28.0
Q ss_pred hHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 101 KSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 101 Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
|...+++..+.++...+.+......+....+.|..|++.|+.++
T Consensus 77 kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 77 TAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 33445555555665555555556666666777777777777777
No 129
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=29.39 E-value=97 Score=26.40 Aligned_cols=45 Identities=18% Similarity=0.163 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
++..+..+|...|-. .....+||..+|++...|+++..+-|.+.+
T Consensus 154 L~~~~r~vl~l~~~~-----g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 198 (206)
T PRK12526 154 LPEAQQTVVKGVYFQ-----ELSQEQLAQQLNVPLGTVKSRLRLALAKLK 198 (206)
T ss_pred CCHHHHHHHHHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 555666666544422 224567899999999999887765444443
No 130
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=29.19 E-value=2.1e+02 Score=20.14 Aligned_cols=38 Identities=13% Similarity=0.375 Sum_probs=30.0
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELK 141 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~ 141 (255)
.++.....+......++.+++.+..+.+.+..-++.|-
T Consensus 4 elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll 41 (55)
T PF05377_consen 4 ELENELPRIESSINTVKKENEEISESVEKIEENVKDLL 41 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556677777888899999999999998888877663
No 131
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=29.05 E-value=2.1e+02 Score=21.91 Aligned_cols=38 Identities=16% Similarity=0.045 Sum_probs=26.6
Q ss_pred CCCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 025268 48 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 97 (255)
Q Consensus 48 kr~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRR 97 (255)
.++.|+..++..|. .+..|.+.+|++-..|+.+..+..
T Consensus 35 g~R~Yt~~di~~l~------------~I~~llr~~G~~l~~i~~~l~~~~ 72 (99)
T cd04765 35 GRRYYRPKDVELLL------------LIKHLLYEKGYTIEGAKQALKEDG 72 (99)
T ss_pred CCeeeCHHHHHHHH------------HHHHHHHHCCCCHHHHHHHHHhcc
Confidence 45569999998884 333456778888888877776543
No 132
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=28.96 E-value=37 Score=23.50 Aligned_cols=21 Identities=19% Similarity=0.377 Sum_probs=17.9
Q ss_pred HHHHHHHhCCCcchhhhhhhh
Q 025268 75 KVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQN 95 (255)
..++|+.+|++.+.|+.|=..
T Consensus 3 i~eva~~~gvs~~tlr~y~~~ 23 (69)
T PF13411_consen 3 IKEVAKLLGVSPSTLRYYERE 23 (69)
T ss_dssp HHHHHHHTTTTHHHHHHHHHT
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 357899999999999999654
No 133
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=28.72 E-value=2.4e+02 Score=20.69 Aligned_cols=35 Identities=23% Similarity=0.391 Sum_probs=19.4
Q ss_pred HHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 111 LLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 111 ~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.+...|..++.....-.+++..|.+.+..|...+.
T Consensus 25 ~Wq~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~ 59 (70)
T PF04899_consen 25 EWQSSYADLQHMFEQTSQENAALSEQVNNLSQQVQ 59 (70)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555555555555555555443
No 134
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=28.68 E-value=1.4e+02 Score=27.39 Aligned_cols=36 Identities=22% Similarity=0.198 Sum_probs=19.0
Q ss_pred HHHhHHHHHHHhHHHHHH----HHHHHHHHHHHHHHHhhh
Q 025268 112 LKANYDALRLDYNNLQQE----NEALTAELRELKAKLCQE 147 (255)
Q Consensus 112 lk~~~~~l~~~~~~l~~e----n~~l~~e~~~l~~~l~~~ 147 (255)
+.++++.|+.+...+..+ .+.+++|+++|++-|.-.
T Consensus 71 l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~ 110 (283)
T TIGR00219 71 LEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSP 110 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 344444455444333222 223677788888877644
No 135
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=28.44 E-value=2.9e+02 Score=22.84 Aligned_cols=50 Identities=22% Similarity=0.371 Sum_probs=37.1
Q ss_pred hhhHHHh--hHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 025268 94 QNRRARL--KSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAK 143 (255)
Q Consensus 94 QNRRak~--Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 143 (255)
+|.|.|- .+-.++++...|.+..+.|+.++..+..|.+.++...+.|..-
T Consensus 66 ~sCR~KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~ 117 (135)
T KOG4196|consen 66 QSCRVKRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNS 117 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444442 2346677888888889999999999999999988887776653
No 136
>PHA01750 hypothetical protein
Probab=28.43 E-value=2.4e+02 Score=20.68 Aligned_cols=36 Identities=22% Similarity=0.466 Sum_probs=21.4
Q ss_pred hHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 110 GLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 110 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
+..+...+.|+.+...++...+.|..++++++.++.
T Consensus 38 eIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~d 73 (75)
T PHA01750 38 EIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKLD 73 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 444555555555555555555556777777776653
No 137
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=28.42 E-value=1.2e+02 Score=24.20 Aligned_cols=46 Identities=9% Similarity=0.133 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
+++.+..++...|-..- ...++|..+|++...|+.....-|.+-|.
T Consensus 107 Lp~~~r~v~~l~~~~g~-----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~ 152 (160)
T PRK09642 107 LPENYRDVVLAHYLEEK-----SYQEIALQEKIEVKTVEMKLYRARKWIKK 152 (160)
T ss_pred CCHHHHHHHHHHHHhCC-----CHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 56666666655543222 34578999999999999988655554443
No 138
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=28.11 E-value=2.7e+02 Score=24.03 Aligned_cols=45 Identities=27% Similarity=0.382 Sum_probs=32.3
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQEN 148 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~ 148 (255)
.+..-+..|+...+..+..|+.|..+...|..+...+...|...+
T Consensus 78 ~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL~~ke 122 (182)
T PF15035_consen 78 ELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRDELEQKE 122 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344456667777777788888888888888888777777775443
No 139
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=27.97 E-value=1.2e+02 Score=25.07 Aligned_cols=45 Identities=16% Similarity=0.080 Sum_probs=31.1
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-.. ..-.+||..+|++...|+.++..-|.+.|
T Consensus 132 L~~~~r~v~~l~~~~g-----~s~~eIA~~l~is~~tV~~~l~ra~~~Lr 176 (184)
T PRK12512 132 LPPRQRDVVQSISVEG-----ASIKETAAKLSMSEGAVRVALHRGLAALA 176 (184)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 6666666666654332 23467899999999999998865555444
No 140
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=27.67 E-value=1.1e+02 Score=29.28 Aligned_cols=29 Identities=28% Similarity=0.336 Sum_probs=19.1
Q ss_pred HhHHHHhHHHHHHHhHHHHHHHHHHHHHH
Q 025268 109 YGLLKANYDALRLDYNNLQQENEALTAEL 137 (255)
Q Consensus 109 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~ 137 (255)
.-.|+..+.+|+.++..|+.+.++|..+.
T Consensus 34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~e~ 62 (420)
T PF07407_consen 34 NFALRMENHSLKKENNDLKIEVERLENEM 62 (420)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence 34566667777777777777777774443
No 141
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=27.55 E-value=43 Score=23.46 Aligned_cols=26 Identities=27% Similarity=0.486 Sum_probs=21.0
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 75 KVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
..+||..||++.+.|..|-+ |.+|..
T Consensus 16 ~~eIA~~Lg~~~~TV~~W~~--r~~W~~ 41 (58)
T PF06056_consen 16 IKEIAEELGVPRSTVYSWKD--RYKWDE 41 (58)
T ss_pred HHHHHHHHCCChHHHHHHHH--hhCccc
Confidence 45789999999999999985 555554
No 142
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.53 E-value=3e+02 Score=21.42 Aligned_cols=37 Identities=22% Similarity=0.342 Sum_probs=26.0
Q ss_pred CCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHH
Q 025268 49 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 49 r~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
.+.|+..++..|. .....+.+|++-..|+..+.....
T Consensus 35 yR~Y~~~d~~~l~-------------~I~~lr~~G~sl~eI~~~l~~~~~ 71 (116)
T cd04769 35 YRVYDAQHVECLR-------------FIKEARQLGFTLAELKAIFAGHEG 71 (116)
T ss_pred ceeeCHHHHHHHH-------------HHHHHHHcCCCHHHHHHHHhcccc
Confidence 4558888888873 233357788888888888866554
No 143
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=27.51 E-value=3.1e+02 Score=24.12 Aligned_cols=36 Identities=22% Similarity=0.322 Sum_probs=22.6
Q ss_pred HHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 111 LLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 111 ~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
.|......+...+-.+......|..|+.+|+.+..+
T Consensus 179 ~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~ 214 (221)
T PF05700_consen 179 YLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAE 214 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444445555555556666777777777777776654
No 144
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=27.46 E-value=45 Score=28.54 Aligned_cols=24 Identities=42% Similarity=0.584 Sum_probs=6.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 121 LDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 121 ~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
.+.+.|+.++++|+.|+.+||..+
T Consensus 24 dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 24 DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556667777777777777777776
No 145
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=27.45 E-value=2.1e+02 Score=26.08 Aligned_cols=31 Identities=32% Similarity=0.479 Sum_probs=23.9
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 117 DALRLDYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 117 ~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
+.+......|..||+.|+.++.+|+..+..-
T Consensus 218 ~e~~~r~~~leken~~lr~~v~~l~~el~~~ 248 (269)
T KOG3119|consen 218 DEMAHRVAELEKENEALRTQVEQLKKELATL 248 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666678899999999999998887643
No 146
>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=27.20 E-value=1.2e+02 Score=20.45 Aligned_cols=45 Identities=20% Similarity=0.225 Sum_probs=31.8
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
.||..++.+|.-...- ....++|..+|++++-|..+..+=+.|..
T Consensus 3 ~LT~~E~~vl~~l~~G------~~~~eIA~~l~is~~tV~~~~~~i~~Kl~ 47 (58)
T PF00196_consen 3 SLTERELEVLRLLAQG------MSNKEIAEELGISEKTVKSHRRRIMKKLG 47 (58)
T ss_dssp SS-HHHHHHHHHHHTT------S-HHHHHHHHTSHHHHHHHHHHHHHHHHT
T ss_pred ccCHHHHHHHHHHHhc------CCcchhHHhcCcchhhHHHHHHHHHHHhC
Confidence 4778888887665432 23567899999999999988877665544
No 147
>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=27.02 E-value=1.2e+02 Score=23.76 Aligned_cols=45 Identities=18% Similarity=0.167 Sum_probs=28.1
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
++..+..+|...|-. . ....+||..+|+++..|+.+...-|.+.|
T Consensus 114 L~~~~r~il~l~~~~-~----~~~~eIA~~lgis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 114 LPEQCRKIFILSRFE-G----KSYKEIAEELGISVKTVEYHISKALKELR 158 (161)
T ss_pred CCHHHHHHHHHHHHc-C----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 455555555554421 1 23456899999999999987765444433
No 148
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=26.97 E-value=2.8e+02 Score=20.94 Aligned_cols=15 Identities=33% Similarity=0.348 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHH
Q 025268 130 NEALTAELRELKAKL 144 (255)
Q Consensus 130 n~~l~~e~~~l~~~l 144 (255)
.+.|..++..|+...
T Consensus 48 r~~L~~en~qLk~E~ 62 (79)
T PRK15422 48 REELERENNHLKEQQ 62 (79)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334666666665544
No 149
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=26.85 E-value=1.2e+02 Score=24.15 Aligned_cols=42 Identities=21% Similarity=0.205 Sum_probs=28.5
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
+++.+..++...|- ......++|..+|++...|.++...-|.
T Consensus 112 L~~~~r~v~~l~~~-----~g~~~~eIA~~l~is~~tv~~~l~Rar~ 153 (159)
T TIGR02989 112 LPERQRELLQLRYQ-----RGVSLTALAEQLGRTVNAVYKALSRLRV 153 (159)
T ss_pred CCHHHHHHHHHHHh-----cCCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 66666666666442 2234567899999999999987654333
No 150
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=26.78 E-value=98 Score=20.07 Aligned_cols=39 Identities=10% Similarity=0.338 Sum_probs=25.5
Q ss_pred CcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhh
Q 025268 50 RRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWF 93 (255)
Q Consensus 50 ~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWF 93 (255)
+.++.+++..+...+... ....+||..+|++...|..++
T Consensus 4 ~~~~~~~~~~i~~l~~~G-----~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 4 PKLSKEQIEEIKELYAEG-----MSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp SSSSHCCHHHHHHHHHTT-------HHHHHHHTTS-HHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHCC-----CCHHHHHHHHCcCHHHHHHHH
Confidence 346666666666666544 246689999999998877654
No 151
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=26.71 E-value=1.2e+02 Score=24.59 Aligned_cols=45 Identities=22% Similarity=0.067 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-. .....+||..+|++...|++|...-|.+.|
T Consensus 109 L~~~~r~v~~l~~~~-----g~s~~eIA~~lgis~~tv~~~l~Rar~~Lr 153 (165)
T PRK09644 109 LPVIEAQAILLCDVH-----ELTYEEAASVLDLKLNTYKSHLFRGRKRLK 153 (165)
T ss_pred CCHHHHHHHHhHHHh-----cCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 555555555543321 123568899999999999988875554444
No 152
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=26.69 E-value=2.6e+02 Score=22.51 Aligned_cols=46 Identities=26% Similarity=0.359 Sum_probs=32.2
Q ss_pred hHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 025268 101 KSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 146 (255)
Q Consensus 101 Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 146 (255)
+...+......+...|+++...++.-..+++.|+..+..||.-...
T Consensus 69 ~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~myr~ 114 (120)
T PF12325_consen 69 EVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMYRE 114 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH
Confidence 3445556667777777777777777777888888888777775543
No 153
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=26.65 E-value=1.3e+02 Score=24.69 Aligned_cols=45 Identities=20% Similarity=0.346 Sum_probs=29.9
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|- ......+||..+|++...|+++...-|.+.|
T Consensus 130 L~~~~r~i~~l~~~-----~g~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 174 (179)
T PRK12514 130 LEKDRAAAVRRAYL-----EGLSYKELAERHDVPLNTMRTWLRRSLLKLR 174 (179)
T ss_pred CCHHHHHHHHHHHH-----cCCCHHHHHHHHCCChHHHHHHHHHHHHHHH
Confidence 55566665555542 1123568899999999999988765554444
No 154
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=26.44 E-value=75 Score=21.89 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=25.5
Q ss_pred HHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhh
Q 025268 55 DQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVW 92 (255)
Q Consensus 55 ~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvW 92 (255)
.|+..|+-.+. .+..+.. +||..+|++.+.|+.-
T Consensus 6 rq~~Ll~~L~~-~~~~~~~---ela~~l~~S~rti~~~ 39 (59)
T PF08280_consen 6 RQLKLLELLLK-NKWITLK---ELAKKLNISERTIKND 39 (59)
T ss_dssp HHHHHHHHHHH-HTSBBHH---HHHHHCTS-HHHHHHH
T ss_pred HHHHHHHHHHc-CCCCcHH---HHHHHHCCCHHHHHHH
Confidence 47788888888 6666655 8999999999887643
No 155
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=26.28 E-value=1.6e+02 Score=24.58 Aligned_cols=45 Identities=13% Similarity=0.217 Sum_probs=30.7
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-.. ....+||..+|+++..|+++...-|.+-|
T Consensus 135 Lp~~~R~v~~L~~~~g-----~s~~EIA~~lgis~~tVk~~l~RAr~~Lr 179 (189)
T PRK12530 135 LPAQQARVFMMREYLE-----LSSEQICQECDISTSNLHVLLYRARLQLQ 179 (189)
T ss_pred CCHHHHHHHhHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5666666666555322 23568899999999999998865454444
No 156
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=26.03 E-value=46 Score=21.61 Aligned_cols=22 Identities=18% Similarity=0.472 Sum_probs=17.0
Q ss_pred HHHHHHHHhCCCcchhhhhhhh
Q 025268 74 RKVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 74 ~r~~LA~~LgL~~rqVqvWFQN 95 (255)
...++|..+|++...|..|.+.
T Consensus 19 s~~~ia~~lgvs~~Tv~~w~kr 40 (50)
T PF13384_consen 19 SIREIAKRLGVSRSTVYRWIKR 40 (50)
T ss_dssp -HHHHHHHHTS-HHHHHHHHT-
T ss_pred CHHHHHHHHCcCHHHHHHHHHH
Confidence 4567899999999999999753
No 157
>PRK04217 hypothetical protein; Provisional
Probab=26.03 E-value=1.4e+02 Score=23.79 Aligned_cols=44 Identities=11% Similarity=0.050 Sum_probs=32.3
Q ss_pred CcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHH
Q 025268 50 RRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 50 ~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
..++.++..++...|...- ...+||+.+|++...|...+..-+.
T Consensus 41 ~~Lt~eereai~l~~~eGl-----S~~EIAk~LGIS~sTV~r~L~RArk 84 (110)
T PRK04217 41 IFMTYEEFEALRLVDYEGL-----TQEEAGKRMGVSRGTVWRALTSARK 84 (110)
T ss_pred ccCCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 3589999888877664332 4567999999999999887754443
No 158
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=25.80 E-value=1.3e+02 Score=19.01 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=27.8
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNR 96 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNR 96 (255)
.++..+..++...+ .. ....++|..+|++...|..|...-
T Consensus 3 ~l~~~e~~i~~~~~--~g----~s~~eia~~l~is~~tv~~~~~~~ 42 (58)
T smart00421 3 SLTPREREVLRLLA--EG----LTNKEIAERLGISEKTVKTHLSNI 42 (58)
T ss_pred CCCHHHHHHHHHHH--cC----CCHHHHHHHHCCCHHHHHHHHHHH
Confidence 36677777775533 11 144688999999999998887643
No 159
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=25.67 E-value=1.9e+02 Score=20.95 Aligned_cols=24 Identities=38% Similarity=0.524 Sum_probs=12.5
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHH
Q 025268 118 ALRLDYNNLQQENEALTAELRELK 141 (255)
Q Consensus 118 ~l~~~~~~l~~en~~l~~e~~~l~ 141 (255)
.++.....++.+|+.|+.|+..|.
T Consensus 35 ~~~~~~~~l~~en~~L~~ei~~l~ 58 (85)
T TIGR02209 35 KLQLEIDKLQKEWRDLQLEVAELS 58 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344445555555555555555544
No 160
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=25.56 E-value=1.5e+02 Score=22.85 Aligned_cols=34 Identities=29% Similarity=0.398 Sum_probs=23.2
Q ss_pred HhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 109 YGLLKANYDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 109 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
+..++...+.|......+..+|..|..++..++.
T Consensus 75 ~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r~ 108 (109)
T PF03980_consen 75 APYKKKEREQLNARLQELEEENEALAEEIQEQRK 108 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344455566777777888888888888776653
No 161
>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=25.33 E-value=2.6e+02 Score=23.93 Aligned_cols=33 Identities=24% Similarity=0.338 Sum_probs=13.9
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELREL 140 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l 140 (255)
+...++.....|+..+..|..+++.|..++..+
T Consensus 105 e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~ 137 (161)
T TIGR02894 105 ENERLKNQNESLQKRNEELEKELEKLRQRLSTI 137 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444443333
No 162
>PF11594 Med28: Mediator complex subunit 28; InterPro: IPR021640 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Subunit Med28 of the Mediator may function as a scaffolding protein within Mediator by maintaining the stability of a submodule within the head module, and components of this submodule act together in a gene-regulatory programme to suppress smooth muscle cell differentiation. Thus, mammalian Mediator subunit Med28 functions as a repressor of smooth muscle-cell differentiation, which could have implications for disorders associated with abnormalities in smooth muscle cell growth and differentiation, including atherosclerosis, asthma, hypertension, and smooth muscle tumours [].
Probab=25.26 E-value=3.4e+02 Score=21.60 Aligned_cols=14 Identities=36% Similarity=0.695 Sum_probs=11.6
Q ss_pred chhhhhhhhhHHHh
Q 025268 87 RQIAVWFQNRRARL 100 (255)
Q Consensus 87 rqVqvWFQNRRak~ 100 (255)
||...||-.+|.--
T Consensus 18 Rq~e~~FlqKr~~L 31 (106)
T PF11594_consen 18 RQMEAFFLQKRFEL 31 (106)
T ss_pred HHHHHHHHHHHHHH
Confidence 67899999888755
No 163
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=25.02 E-value=3e+02 Score=22.34 Aligned_cols=41 Identities=22% Similarity=0.382 Sum_probs=33.7
Q ss_pred HHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 107 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 107 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
.-..-|+...+.+.....+|.++-+.++.++++|++++...
T Consensus 70 ~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~ 110 (119)
T COG1382 70 EAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKA 110 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455677778888889999999999999999999999754
No 164
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=24.99 E-value=1e+02 Score=25.62 Aligned_cols=45 Identities=20% Similarity=0.280 Sum_probs=29.4
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...| .......+||..+|++...|+.|+..-|.+.+
T Consensus 142 L~~~~~~v~~l~~-----~~g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 186 (194)
T PRK12519 142 LPESQRQVLELAY-----YEGLSQSEIAKRLGIPLGTVKARARQGLLKLR 186 (194)
T ss_pred CCHHHhhhhhhhh-----hcCCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 4555555554443 22234567899999999999999865554444
No 165
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=24.95 E-value=30 Score=25.66 Aligned_cols=33 Identities=15% Similarity=0.217 Sum_probs=23.7
Q ss_pred HhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 025268 63 NFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 63 ~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQN 95 (255)
.|....+...-...+||..+|+++.-|+.|+.+
T Consensus 23 af~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~ 55 (73)
T TIGR03879 23 AAALAREEAGKTASEIAEELGRTEQTVRNHLKG 55 (73)
T ss_pred HHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhc
Confidence 344443333345678999999999999999864
No 166
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=24.88 E-value=6.7e+02 Score=24.97 Aligned_cols=13 Identities=31% Similarity=0.286 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q 025268 132 ALTAELRELKAKL 144 (255)
Q Consensus 132 ~l~~e~~~l~~~l 144 (255)
.++.|+.+|+.+|
T Consensus 289 ~~reen~rlQrkL 301 (552)
T KOG2129|consen 289 DHREENERLQRKL 301 (552)
T ss_pred hHHHHHHHHHHHH
Confidence 3333444444333
No 167
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=24.84 E-value=1.4e+02 Score=24.72 Aligned_cols=43 Identities=26% Similarity=0.177 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
+++.+..++...|-.. ....+||..+|++...|+.+...-|.+
T Consensus 140 L~~~~r~i~~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 140 LPEKQREILILRVVVG-----LSAEETAEAVGSTPGAVRVAQHRALAR 182 (189)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 6677777777655332 245688999999999999877543333
No 168
>PHA02955 hypothetical protein; Provisional
Probab=24.67 E-value=96 Score=27.66 Aligned_cols=42 Identities=7% Similarity=0.145 Sum_probs=33.7
Q ss_pred HHHHHHHHHhHhc-CCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 025268 55 DQVKALEKNFEVD-NKLEPDRKVKLAEELGLQPRQIAVWFQNR 96 (255)
Q Consensus 55 ~Ql~~Le~~F~~~-~~ps~~~r~~LA~~LgL~~rqVqvWFQNR 96 (255)
.++..|-+.|... ..+++++|.++|++||+....|..||.+.
T Consensus 61 ~sf~lli~a~~Et~~~Lp~~qk~~ia~~lgI~~~~~~~d~~t~ 103 (213)
T PHA02955 61 KNFQLLIEALIETIENFPEKEQKEIAADIGINIDDYKAGKKTD 103 (213)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCChhhccCcccch
Confidence 4666676676654 67888999999999999998788899764
No 169
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=24.64 E-value=1.2e+02 Score=24.83 Aligned_cols=45 Identities=16% Similarity=0.149 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|- ......++|..+|+++..|+.+...-|.+-+
T Consensus 137 L~~~~r~v~~l~~~-----~g~s~~eIA~~lgis~~~v~~~l~Rar~~Lr 181 (187)
T TIGR02948 137 LPPKYRMVIVLKYM-----EDLSLKEISEILDLPVGTVKTRIHRGREALR 181 (187)
T ss_pred CCHHHhHHhhhHHh-----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 66666666655442 2234567899999999999998865554443
No 170
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=24.48 E-value=1.2e+02 Score=21.70 Aligned_cols=30 Identities=23% Similarity=0.337 Sum_probs=0.0
Q ss_pred HHHHhHHHHhHHHHHHHhHHHHHHHHHHHH
Q 025268 106 ERDYGLLKANYDALRLDYNNLQQENEALTA 135 (255)
Q Consensus 106 ~~~~~~lk~~~~~l~~~~~~l~~en~~l~~ 135 (255)
..+.++||..+..|...+..|..||..|+.
T Consensus 13 rEEVevLK~~I~eL~~~n~~Le~EN~~Lk~ 42 (59)
T PF01166_consen 13 REEVEVLKEQIAELEERNSQLEEENNLLKQ 42 (59)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 171
>TIGR02959 SigZ RNA polymerase sigma factor, SigZ family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded).
Probab=24.40 E-value=1.4e+02 Score=24.44 Aligned_cols=39 Identities=21% Similarity=0.126 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQN 95 (255)
+++.+..+|...|-.. ....+||..+|+++..|+.+...
T Consensus 101 L~~~~r~v~~l~~~~g-----~s~~eIA~~lgis~~tV~~~l~R 139 (170)
T TIGR02959 101 LPDEYREAIRLTELEG-----LSQQEIAEKLGLSLSGAKSRVQR 139 (170)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHH
Confidence 6666666666655322 23567899999999998876643
No 172
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=24.36 E-value=2e+02 Score=20.20 Aligned_cols=28 Identities=21% Similarity=0.392 Sum_probs=17.8
Q ss_pred HHHHhHHHHhHHHHHHHhHHHHHHHHHH
Q 025268 106 ERDYGLLKANYDALRLDYNNLQQENEAL 133 (255)
Q Consensus 106 ~~~~~~lk~~~~~l~~~~~~l~~en~~l 133 (255)
......++...+.++.+++.|+.+.+.|
T Consensus 23 ~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 23 NQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445556666666666666666666666
No 173
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=24.30 E-value=3.2e+02 Score=20.67 Aligned_cols=35 Identities=20% Similarity=0.379 Sum_probs=24.5
Q ss_pred CCcCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 025268 49 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNR 96 (255)
Q Consensus 49 r~r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNR 96 (255)
.+.|+..++..|.... ....+|++..+|+-++...
T Consensus 36 ~R~y~~~di~~l~~i~-------------~lr~~g~~l~~i~~~~~~~ 70 (103)
T cd01106 36 YRLYTEEDLERLQQIL-------------FLKELGFSLKEIKELLKDP 70 (103)
T ss_pred ceeeCHHHHHHHHHHH-------------HHHHcCCCHHHHHHHHHcC
Confidence 4569999998885433 2355688888888777654
No 174
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=24.30 E-value=3.1e+02 Score=23.14 Aligned_cols=26 Identities=35% Similarity=0.653 Sum_probs=14.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 122 DYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 122 ~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
+...++.+++.|+.++..|+.+|.++
T Consensus 74 ~~~~lr~~~e~L~~eie~l~~~L~~e 99 (177)
T PF07798_consen 74 EFAELRSENEKLQREIEKLRQELREE 99 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555666666666666555543
No 175
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=24.20 E-value=1.1e+02 Score=30.43 Aligned_cols=52 Identities=23% Similarity=0.304 Sum_probs=38.6
Q ss_pred hHHHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 96 RRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 96 RRak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
||.|.....++..+....+.+..|+..-..|..+|+.|.++++.|+..+...
T Consensus 268 rkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~klQt~v~q~ 319 (472)
T KOG0709|consen 268 RKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKLQTLVIQV 319 (472)
T ss_pred HhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHHHHHHhhc
Confidence 5555666677777777777788888888888888888888888777766543
No 176
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=24.10 E-value=2.2e+02 Score=21.67 Aligned_cols=38 Identities=29% Similarity=0.440 Sum_probs=28.5
Q ss_pred HHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 107 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 107 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
.+|..+....+++...-+.|.+-|+.|..++++|-+.-
T Consensus 26 ~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesn 63 (83)
T PF03670_consen 26 EEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESN 63 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 46777777888888888888888888888777765543
No 177
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=24.00 E-value=1.7e+02 Score=21.90 Aligned_cols=27 Identities=33% Similarity=0.497 Sum_probs=17.5
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 025268 116 YDALRLDYNNLQQENEALTAELRELKA 142 (255)
Q Consensus 116 ~~~l~~~~~~l~~en~~l~~e~~~l~~ 142 (255)
...+..+...++.+|..|+.|+..|..
T Consensus 44 l~~l~~~~~~l~~e~~~L~lE~~~l~~ 70 (97)
T PF04999_consen 44 LQQLEKEIDQLQEENERLRLEIATLSS 70 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 445566666677777777777666654
No 178
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=23.92 E-value=1.4e+02 Score=23.90 Aligned_cols=44 Identities=16% Similarity=0.289 Sum_probs=30.1
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..+|...| ... ...+||..+|++...|+.+...-|.+.|
T Consensus 113 L~~~~r~il~l~~-~g~-----s~~eIA~~lgis~~tV~~~i~ra~~~Lr 156 (166)
T PRK09639 113 MTERDRTVLLLRF-SGY-----SYKEIAEALGIKESSVGTTLARAKKKFR 156 (166)
T ss_pred CCHHHHHHHHHHH-cCC-----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 6677777776666 222 3457899999999999988754444333
No 179
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=23.87 E-value=2.8e+02 Score=22.30 Aligned_cols=29 Identities=24% Similarity=0.331 Sum_probs=19.2
Q ss_pred HHHhHHHHhHHHHHHHhHHHHHHHHHHHH
Q 025268 107 RDYGLLKANYDALRLDYNNLQQENEALTA 135 (255)
Q Consensus 107 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~ 135 (255)
.+.++||..+..|...+..|++||.-|+.
T Consensus 67 EEVe~Lk~qI~eL~er~~~Le~EN~lLk~ 95 (123)
T KOG4797|consen 67 EEVEVLKEQIRELEERNSALERENSLLKT 95 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666666666666666677777666654
No 180
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=23.67 E-value=3.4e+02 Score=20.82 Aligned_cols=39 Identities=38% Similarity=0.474 Sum_probs=23.3
Q ss_pred HhHHHHhHHH-HHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025268 109 YGLLKANYDA-LRLDYNNLQQENEALTAELRELKAKLCQE 147 (255)
Q Consensus 109 ~~~lk~~~~~-l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 147 (255)
...|+..|++ -....+.|..++..|..|+..|+.++...
T Consensus 36 V~~LKksYe~rwek~v~~L~~e~~~l~~E~e~L~~~l~~e 75 (87)
T PF12709_consen 36 VKALKKSYEARWEKKVDELENENKALKRENEQLKKKLDTE 75 (87)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555544 44455666677777777777777666543
No 181
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=23.65 E-value=3.1e+02 Score=25.66 Aligned_cols=42 Identities=31% Similarity=0.421 Sum_probs=28.5
Q ss_pred hhhhhhHHHhhHHHHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHH
Q 025268 91 VWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAEL 137 (255)
Q Consensus 91 vWFQNRRak~Kkk~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~ 137 (255)
+||. ||.+.++.-...|..+.+.|+.+...|....+.+..-+
T Consensus 133 ~WYe-----WR~kllegLk~~L~~~~~~l~~D~~~L~~~~~~l~~~~ 174 (312)
T smart00787 133 MWYE-----WRMKLLEGLKEGLDENLEGLKEDYKLLMKELELLNSIK 174 (312)
T ss_pred HHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7886 55556667777777777888777777776655444433
No 182
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=23.60 E-value=61 Score=20.10 Aligned_cols=24 Identities=25% Similarity=0.542 Sum_probs=20.1
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHH
Q 025268 75 KVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
..++|..+|++.+-|..|.++.+-
T Consensus 3 ~~e~a~~lgvs~~tl~~~~~~g~~ 26 (49)
T cd04762 3 TKEAAELLGVSPSTLRRWVKEGKL 26 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHcCCC
Confidence 457899999999999999876654
No 183
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=23.39 E-value=1.5e+02 Score=24.60 Aligned_cols=45 Identities=11% Similarity=0.205 Sum_probs=29.9
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..+|...|-.. ....++|..+|+++..|++-...-|.+.+
T Consensus 132 L~~~~r~vl~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 176 (189)
T PRK12515 132 LSPAHREIIDLVYYHE-----KSVEEVGEIVGIPESTVKTRMFYARKKLA 176 (189)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 6666777776554322 23457899999999999987654444444
No 184
>PF00376 MerR: MerR family regulatory protein; InterPro: IPR000551 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these is the MerR subfamily. MerR, which is found in many bacterial species mediates the mercuric-dependent induction of the mercury resistance operon. In the absence of mercury merR represses transcription by binding tightly, as a dimer, to the 'mer' operator region; when mercury is present the dimeric complex binds a single ion and becomes a potent transcriptional activator, while remaining bound to the mer site. Members of the family include the mercuric resistance operon regulatory protein merR; Bacillus subtilis bltR and bmrR; Bacillus glnR; Streptomyces coelicolor hspR; Bradyrhizobium japonicum nolA; Escherichia coli superoxide response regulator soxR; and Streptomyces lividans transcriptional activator tipA [, , , , , ]. Other members include hypothetical proteins from E. coli, B. subtilis and Haemophilus influenzae. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3HH0_A 2DG6_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q07_A 1Q06_A 1Q05_B ....
Probab=23.09 E-value=57 Score=20.74 Aligned_cols=19 Identities=26% Similarity=0.433 Sum_probs=15.1
Q ss_pred HHHHHHHhCCCcchhhhhh
Q 025268 75 KVKLAEELGLQPRQIAVWF 93 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWF 93 (255)
+-++|+.+|++.+.|+.|=
T Consensus 2 i~e~A~~~gvs~~tlR~ye 20 (38)
T PF00376_consen 2 IGEVAKLLGVSPRTLRYYE 20 (38)
T ss_dssp HHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHH
Confidence 3578999999999999884
No 185
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=23.04 E-value=1.5e+02 Score=24.17 Aligned_cols=45 Identities=24% Similarity=0.239 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-.. ....++|..||+++..|++....-|.+-+
T Consensus 135 Lp~~~r~v~~l~~~~g-----~s~~EIA~~lgis~~tVk~~l~Rar~~Lr 179 (183)
T TIGR02999 135 VDPRQAEVVELRFFAG-----LTVEEIAELLGVSVRTVERDWRFARAWLA 179 (183)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 4445555554443222 23457899999999999988765444433
No 186
>PF13565 HTH_32: Homeodomain-like domain
Probab=22.88 E-value=2.7e+02 Score=19.40 Aligned_cols=33 Identities=21% Similarity=0.332 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHhHhcCCCCHHHHHH-HHHHhCCC
Q 025268 53 TVDQVKALEKNFEVDNKLEPDRKVK-LAEELGLQ 85 (255)
Q Consensus 53 t~~Ql~~Le~~F~~~~~ps~~~r~~-LA~~LgL~ 85 (255)
+.++...|.+.+..++..+...... |+.++|+.
T Consensus 32 ~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~ 65 (77)
T PF13565_consen 32 DPEQRERIIALIEEHPRWTPREIAEYLEEEFGIS 65 (77)
T ss_pred cHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC
Confidence 6777788899988888878777655 66666643
No 187
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=22.80 E-value=3.3e+02 Score=24.15 Aligned_cols=41 Identities=20% Similarity=0.316 Sum_probs=22.9
Q ss_pred HHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 105 LERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 105 ~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
+...+..++...+.+...+..+......++.++.+|+..+.
T Consensus 54 L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~ 94 (251)
T PF11932_consen 54 LLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIE 94 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555555555555555555555554
No 188
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=22.79 E-value=1.5e+02 Score=24.54 Aligned_cols=45 Identities=13% Similarity=0.159 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-. .....+||..+|++...|+.+...-|.+.|
T Consensus 129 L~~~~r~i~~l~~~~-----g~s~~EIA~~lgis~~tV~~~l~Rar~~Lr 173 (186)
T PRK05602 129 LPERQREAIVLQYYQ-----GLSNIEAAAVMDISVDALESLLARGRRALR 173 (186)
T ss_pred CCHHHHHHhhHHHhc-----CCCHHHHHHHhCcCHHHHHHHHHHHHHHHH
Confidence 555555555554321 223457899999999999987754444433
No 189
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=22.60 E-value=1.6e+02 Score=28.11 Aligned_cols=23 Identities=17% Similarity=0.135 Sum_probs=11.4
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHH
Q 025268 117 DALRLDYNNLQQENEALTAELRE 139 (255)
Q Consensus 117 ~~l~~~~~~l~~en~~l~~e~~~ 139 (255)
-.+..+|+.|+++|..|+.++..
T Consensus 60 ~~L~~EN~~Lk~Ena~L~~~l~~ 82 (337)
T PRK14872 60 LVLETENFLLKERIALLEERLKS 82 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555444444
No 190
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=22.57 E-value=2.6e+02 Score=22.14 Aligned_cols=36 Identities=31% Similarity=0.391 Sum_probs=23.2
Q ss_pred HHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 025268 108 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAK 143 (255)
Q Consensus 108 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 143 (255)
.+..+.....++..+++.|..++..|.++++.|+..
T Consensus 51 ~~~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 51 DVLQLQRQIAAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 333444444566677777777777777777777665
No 191
>cd04764 HTH_MlrA-like_sg1 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.
Probab=22.35 E-value=64 Score=22.36 Aligned_cols=21 Identities=14% Similarity=0.411 Sum_probs=18.2
Q ss_pred HHHHHHHhCCCcchhhhhhhh
Q 025268 75 KVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQN 95 (255)
..++|+.+|++++.|+.|-++
T Consensus 3 i~evA~~~gvs~~tlR~~~~~ 23 (67)
T cd04764 3 IKEVSEIIGVKPHTLRYYEKE 23 (67)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 457899999999999999865
No 192
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=22.25 E-value=1.6e+02 Score=19.99 Aligned_cols=22 Identities=36% Similarity=0.557 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 025268 124 NNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 124 ~~l~~en~~l~~e~~~l~~~l~ 145 (255)
.+|+++.+.|+.+++.|+..+.
T Consensus 2 ~aLrqQv~aL~~qv~~Lq~~fs 23 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRLQAAFS 23 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3577778888888888887764
No 193
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=22.09 E-value=4.3e+02 Score=26.90 Aligned_cols=41 Identities=34% Similarity=0.449 Sum_probs=26.3
Q ss_pred HHHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 104 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 104 ~~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
.++.....++..+..+..+...|+.+|.+|..++..++..+
T Consensus 152 ~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l 192 (546)
T KOG0977|consen 152 ELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQL 192 (546)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 34445666666666666667777777777777666666543
No 194
>PF10482 CtIP_N: Tumour-suppressor protein CtIP N-terminal domain; InterPro: IPR019518 CtIP is predominantly a nuclear protein that complexes with both BRCA1 and the BRCA1-associated RING domain protein (BARD1). At the protein level, CtIP expression varies with cell cycle progression in a pattern identical to that of BRCA1. Thus, the steady-state levels of CtIP polypeptides, which remain low in resting cells and G1 cycling cells, increase dramatically as Dividing cells traverse the G1/S boundary. CtIP can potentially modulate the functions ascribed to BRCA1 in transcriptional regulation, DNA repair, and/or cell cycle checkpoint control []. This N-terminal domain carries a coiled-coil region and is essential for homodimerisation of the protein []. The C-terminal domain is family CtIP_C and carries functionally important CxxC and RHR motifs, absence of which lead cells to grow slowly and show hypersensitivity to genotoxins [].
Probab=22.07 E-value=2.3e+02 Score=22.98 Aligned_cols=19 Identities=42% Similarity=0.609 Sum_probs=10.6
Q ss_pred HHHHhHHHHHHHHHHHHHH
Q 025268 119 LRLDYNNLQQENEALTAEL 137 (255)
Q Consensus 119 l~~~~~~l~~en~~l~~e~ 137 (255)
+..+..+|+.||..|.+|+
T Consensus 101 L~nE~n~L~eEN~~L~eEl 119 (120)
T PF10482_consen 101 LTNEMNTLKEENKKLKEEL 119 (120)
T ss_pred HHHHHHhHHHHHHHHHHHh
Confidence 4445555666666655554
No 195
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=21.98 E-value=1.4e+02 Score=23.88 Aligned_cols=45 Identities=18% Similarity=0.138 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.|..+|.-.|-.. ....++|..+|++...|+.+...-|.+-+
T Consensus 113 L~~~~r~v~~l~~~~~-----~s~~eIA~~lgis~~tv~~~l~Rar~~L~ 157 (161)
T PRK12541 113 LPLERRNVLLLRDYYG-----FSYKEIAEMTGLSLAKVKIELHRGRKETK 157 (161)
T ss_pred CCHHHHHHhhhHHhcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5666666665544221 23467899999999999988765554443
No 196
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=21.83 E-value=3.7e+02 Score=21.17 Aligned_cols=31 Identities=23% Similarity=0.384 Sum_probs=12.5
Q ss_pred HHHHhHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 025268 111 LLKANYDALRLDYNNLQQENEALTAELRELK 141 (255)
Q Consensus 111 ~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~ 141 (255)
.+......+..+.+.++.....+.++++.|+
T Consensus 84 ~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk 114 (118)
T PF13815_consen 84 QLEERLQELQQEIEKLKQKLKKQKEEIKKLK 114 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333344444444444444444444443
No 197
>PRK10072 putative transcriptional regulator; Provisional
Probab=21.77 E-value=52 Score=25.50 Aligned_cols=42 Identities=19% Similarity=0.267 Sum_probs=30.9
Q ss_pred cCCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 51 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 51 r~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
+.+...+..|...- ..+ ..+||..+|++..-|..|...+|.-
T Consensus 32 ~~~~~eik~LR~~~----glT---Q~elA~~lGvS~~TVs~WE~G~r~P 73 (96)
T PRK10072 32 TTSFTEFEQLRKGT----GLK---IDDFARVLGVSVAMVKEWESRRVKP 73 (96)
T ss_pred cCChHHHHHHHHHc----CCC---HHHHHHHhCCCHHHHHHHHcCCCCC
Confidence 34777777775432 233 5689999999999999999887743
No 198
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=21.73 E-value=1.7e+02 Score=23.40 Aligned_cols=45 Identities=18% Similarity=0.248 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
+++.+..++...|-.. ....++|..+|++...|+.....-|.+.+
T Consensus 110 L~~~~r~v~~l~~~~~-----~s~~EIA~~lgis~~tV~~~l~ra~~~lr 154 (163)
T PRK07037 110 LPARTRYAFEMYRLHG-----ETQKDIARELGVSPTLVNFMIRDALVHCR 154 (163)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5666666665554322 23567899999999999986544443333
No 199
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=21.61 E-value=1.3e+02 Score=24.73 Aligned_cols=26 Identities=8% Similarity=-0.001 Sum_probs=20.1
Q ss_pred HHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 74 RKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 74 ~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
.-.+||..+|++...|+++...-|.+
T Consensus 156 s~~EIA~~lgis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 156 SYEDIARIMDCPVGTVRSRIFRAREA 181 (190)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 45688999999999999887544443
No 200
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=21.58 E-value=4e+02 Score=20.86 Aligned_cols=31 Identities=23% Similarity=0.295 Sum_probs=18.1
Q ss_pred HhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 025268 114 ANYDALRLDYNNLQQENEALTAELRELKAKL 144 (255)
Q Consensus 114 ~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 144 (255)
...+.|+.-...|.++...-+++|++|++.+
T Consensus 69 ~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 69 KEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3334455555556666666666777666654
No 201
>cd04763 HTH_MlrA-like Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A) and related proteins, N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen
Probab=21.49 E-value=66 Score=22.41 Aligned_cols=21 Identities=19% Similarity=0.409 Sum_probs=18.2
Q ss_pred HHHHHHHhCCCcchhhhhhhh
Q 025268 75 KVKLAEELGLQPRQIAVWFQN 95 (255)
Q Consensus 75 r~~LA~~LgL~~rqVqvWFQN 95 (255)
..++|+.+|++++.|+.|.+.
T Consensus 3 i~e~A~~~gVs~~tlr~ye~~ 23 (68)
T cd04763 3 IGEVALLTGIKPHVLRAWERE 23 (68)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 457899999999999999764
No 202
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=21.41 E-value=4.3e+02 Score=23.44 Aligned_cols=32 Identities=22% Similarity=0.281 Sum_probs=13.1
Q ss_pred HHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHH
Q 025268 106 ERDYGLLKANYDALRLDYNNLQQENEALTAEL 137 (255)
Q Consensus 106 ~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~ 137 (255)
.+..+.++..++.+.......+.+...|..++
T Consensus 62 ~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi 93 (251)
T PF11932_consen 62 EREIENLEVYNEQLERQVASQEQELASLEQQI 93 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444333
No 203
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=21.24 E-value=2.1e+02 Score=21.41 Aligned_cols=29 Identities=24% Similarity=0.346 Sum_probs=23.7
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 117 DALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 117 ~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
..+..++..|+++.+.|.+|+++++....
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~~~~~q 31 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQNKREFQ 31 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 35677888899999999999998888754
No 204
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=21.14 E-value=1.9e+02 Score=22.91 Aligned_cols=42 Identities=14% Similarity=0.115 Sum_probs=28.3
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 98 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRa 98 (255)
+++.+..++...|-..- ...++|..||++...|++....-|.
T Consensus 107 Lp~~~r~v~~l~~~~g~-----s~~EIA~~lgis~~tV~~~l~ra~~ 148 (161)
T PRK09047 107 LPARQREAFLLRYWEDM-----DVAETAAAMGCSEGSVKTHCSRATH 148 (161)
T ss_pred CCHHHHHHHHHHHHhcC-----CHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 66666666666543222 2467899999999999886654333
No 205
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.04 E-value=1.2e+02 Score=23.59 Aligned_cols=39 Identities=15% Similarity=0.245 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIA 90 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVq 90 (255)
+.++|...-..-|..+--.+.-..+++|..|++++-.|+
T Consensus 3 Ln~eq~~~Tk~elqan~el~~LS~~~iA~~Ln~t~~~le 41 (97)
T COG4367 3 LNPEQKQRTKQELQANFELCPLSDEEIATALNWTEVKLE 41 (97)
T ss_pred CCHHHHHHHHHHHHHhhhhccccHHHHHHHhCCCHHHHH
Confidence 455666666666666655666778899999999885543
No 206
>PF09798 LCD1: DNA damage checkpoint protein; InterPro: IPR018622 This is a family of proteins which regulate checkpoint kinases. In Schizosaccharomyces pombe (Fission yeast) this protein is called Rad26 and in Saccharomyces cerevisiae (Baker's yeast) it is called LCD1 [].
Probab=21.03 E-value=6.9e+02 Score=26.07 Aligned_cols=25 Identities=32% Similarity=0.535 Sum_probs=12.4
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHH
Q 025268 116 YDALRLDYNNLQQENEALTAELREL 140 (255)
Q Consensus 116 ~~~l~~~~~~l~~en~~l~~e~~~l 140 (255)
.++|+.+-+.|+.|+.-|.-|++.+
T Consensus 35 l~~Lk~~vqkLEDEKKFL~nE~r~~ 59 (654)
T PF09798_consen 35 LNKLKSEVQKLEDEKKFLNNELRSL 59 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555554444
No 207
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=20.84 E-value=1.9e+02 Score=23.82 Aligned_cols=43 Identities=12% Similarity=0.245 Sum_probs=28.2
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 99 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak 99 (255)
+++.+..++...|-.+ ....++|..+|++...|+.+...-|.+
T Consensus 134 L~~~~r~i~~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 134 LEPARRNCILHAYVDG-----CSHAEIAQRLGAPLGTVKAWIKRSLKA 176 (182)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCChhhHHHHHHHHHHH
Confidence 5556665555544222 234678999999999999887644443
No 208
>PRK06930 positive control sigma-like factor; Validated
Probab=20.67 E-value=1.9e+02 Score=24.46 Aligned_cols=46 Identities=9% Similarity=0.102 Sum_probs=32.1
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhhH
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 102 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~Kk 102 (255)
+++.+..++...|.... .-.++|..+|++...|+.+..+-|.+.++
T Consensus 115 L~~rer~V~~L~~~eg~-----s~~EIA~~lgiS~~tVk~~l~Ra~~kLr~ 160 (170)
T PRK06930 115 LTEREKEVYLMHRGYGL-----SYSEIADYLNIKKSTVQSMIERAEKKIAR 160 (170)
T ss_pred CCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 67777777666543222 34578999999999999988765555544
No 209
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=20.56 E-value=1.9e+02 Score=25.96 Aligned_cols=29 Identities=31% Similarity=0.345 Sum_probs=17.0
Q ss_pred HHhHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 025268 113 KANYDALRLDYNNLQQENEALTAELRELK 141 (255)
Q Consensus 113 k~~~~~l~~~~~~l~~en~~l~~e~~~l~ 141 (255)
-..+..+..+++.|++|+..|+.++.+++
T Consensus 68 ~~~~~~l~~en~~L~~e~~~l~~~~~~~~ 96 (276)
T PRK13922 68 LASLFDLREENEELKKELLELESRLQELE 96 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666666666666666655443
No 210
>PRK00118 putative DNA-binding protein; Validated
Probab=20.37 E-value=4.3e+02 Score=20.72 Aligned_cols=45 Identities=20% Similarity=0.171 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHHhHhcCCCCHHHHHHHHHHhCCCcchhhhhhhhhHHHhh
Q 025268 52 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 101 (255)
Q Consensus 52 ~t~~Ql~~Le~~F~~~~~ps~~~r~~LA~~LgL~~rqVqvWFQNRRak~K 101 (255)
++..|..++...|.... ...+||..+|+++.-|..|...-|.+.+
T Consensus 18 L~ekqRevl~L~y~eg~-----S~~EIAe~lGIS~~TV~r~L~RArkkLr 62 (104)
T PRK00118 18 LTEKQRNYMELYYLDDY-----SLGEIAEEFNVSRQAVYDNIKRTEKLLE 62 (104)
T ss_pred CCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 56667777766554322 3457899999999999999875554444
No 211
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=20.30 E-value=2e+02 Score=26.37 Aligned_cols=10 Identities=50% Similarity=0.564 Sum_probs=5.3
Q ss_pred HHHHHHHHHH
Q 025268 126 LQQENEALTA 135 (255)
Q Consensus 126 l~~en~~l~~ 135 (255)
+++||++|++
T Consensus 96 l~~EN~rLr~ 105 (283)
T TIGR00219 96 LKQENVRLRE 105 (283)
T ss_pred HHHHHHHHHH
Confidence 5555555554
No 212
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=20.08 E-value=6e+02 Score=22.91 Aligned_cols=60 Identities=22% Similarity=0.489 Sum_probs=30.9
Q ss_pred cchhhhhhhhhHHHhhHHH---------HHHHHhHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 025268 86 PRQIAVWFQNRRARLKSKE---------LERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 145 (255)
Q Consensus 86 ~rqVqvWFQNRRak~Kkk~---------~~~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 145 (255)
...+..||+.+-...+... ...+...++.....+..+...++..|..|...+..|+..+.
T Consensus 186 ~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~ 254 (312)
T PF00038_consen 186 REELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLD 254 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHH
Confidence 4578889988744333221 11233344444444555555555555555555555554443
Done!