Query 024675
Match_columns 264
No_of_seqs 296 out of 1485
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 06:31:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024675.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024675hhsearch_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 4.4E-23 9.5E-28 180.4 10.2 104 53-156 49-152 (198)
2 KOG4577 Transcription factor L 99.7 7.8E-18 1.7E-22 152.9 6.0 116 25-141 126-253 (383)
3 KOG0489 Transcription factor z 99.7 4.9E-17 1.1E-21 148.2 4.8 61 53-113 158-218 (261)
4 KOG0842 Transcription factor t 99.6 1.1E-16 2.4E-21 147.9 3.7 59 61-119 160-218 (307)
5 PF00046 Homeobox: Homeobox do 99.6 1E-15 2.2E-20 107.7 6.9 57 55-111 1-57 (57)
6 KOG0488 Transcription factor B 99.6 4.1E-16 8.8E-21 145.2 6.1 54 60-113 178-231 (309)
7 KOG0487 Transcription factor A 99.6 3E-16 6.5E-21 145.1 4.0 63 53-115 234-296 (308)
8 KOG0843 Transcription factor E 99.6 1.2E-15 2.6E-20 130.6 6.0 64 53-116 101-164 (197)
9 KOG0484 Transcription factor P 99.6 1.4E-15 3.1E-20 119.7 5.7 60 54-113 17-76 (125)
10 KOG0485 Transcription factor N 99.5 9.8E-15 2.1E-19 128.3 5.5 59 55-113 103-163 (268)
11 KOG0492 Transcription factor M 99.5 2.8E-14 6E-19 124.7 6.4 57 57-113 147-203 (246)
12 KOG2251 Homeobox transcription 99.5 1.7E-14 3.7E-19 127.0 4.9 61 53-113 36-96 (228)
13 cd00086 homeodomain Homeodomai 99.5 7.9E-14 1.7E-18 97.9 7.0 57 56-112 2-58 (59)
14 KOG0494 Transcription factor C 99.5 2.5E-14 5.4E-19 128.5 5.3 55 61-115 148-202 (332)
15 KOG0848 Transcription factor C 99.5 1.4E-14 3E-19 130.7 3.4 54 60-113 205-258 (317)
16 smart00389 HOX Homeodomain. DN 99.5 1E-13 2.2E-18 96.7 6.4 55 56-110 2-56 (56)
17 KOG0850 Transcription factor D 99.5 5.2E-14 1.1E-18 124.6 5.6 55 58-112 126-180 (245)
18 COG5576 Homeodomain-containing 99.5 7.5E-14 1.6E-18 118.4 5.6 68 46-113 43-110 (156)
19 KOG0493 Transcription factor E 99.4 1.3E-13 2.8E-18 124.1 5.0 62 55-116 247-308 (342)
20 TIGR01565 homeo_ZF_HD homeobox 99.4 8E-13 1.7E-17 94.5 4.8 52 55-106 2-57 (58)
21 KOG0844 Transcription factor E 99.3 6.3E-13 1.4E-17 121.9 1.9 62 54-115 181-242 (408)
22 KOG3802 Transcription factor O 99.3 1.5E-12 3.2E-17 123.3 2.5 61 53-113 293-353 (398)
23 KOG0491 Transcription factor B 99.3 2.4E-12 5.1E-17 109.1 3.0 56 58-113 104-159 (194)
24 KOG0847 Transcription factor, 99.2 7.8E-12 1.7E-16 110.3 3.5 56 58-113 171-226 (288)
25 KOG0486 Transcription factor P 99.1 3E-11 6.4E-16 111.4 4.7 55 60-114 118-172 (351)
26 KOG0490 Transcription factor, 99.0 1.9E-10 4E-15 101.2 2.5 61 53-113 59-119 (235)
27 KOG1168 Transcription factor A 98.8 8.7E-10 1.9E-14 100.9 1.3 62 52-113 307-368 (385)
28 KOG0849 Transcription factor P 98.8 5.1E-09 1.1E-13 99.6 4.6 60 54-113 176-235 (354)
29 KOG0775 Transcription factor S 98.6 3.1E-08 6.7E-13 90.2 4.6 51 61-111 183-233 (304)
30 PF05920 Homeobox_KN: Homeobox 98.3 5.2E-07 1.1E-11 59.9 3.7 34 75-108 7-40 (40)
31 PF02183 HALZ: Homeobox associ 98.2 2.5E-06 5.3E-11 58.1 5.4 44 112-155 1-44 (45)
32 KOG0774 Transcription factor P 98.2 7.8E-07 1.7E-11 80.7 2.4 60 53-112 187-249 (334)
33 KOG0490 Transcription factor, 97.8 1.5E-05 3.3E-10 69.9 4.2 59 55-113 154-212 (235)
34 KOG2252 CCAAT displacement pro 97.8 2.6E-05 5.5E-10 77.2 5.7 56 54-109 420-475 (558)
35 KOG1146 Homeobox protein [Gene 97.4 0.00018 4E-09 77.1 4.6 62 53-114 902-963 (1406)
36 PF11569 Homez: Homeodomain le 96.4 0.0037 8.1E-08 44.4 3.2 41 66-106 10-50 (56)
37 KOG0773 Transcription factor M 96.0 0.0047 1E-07 58.2 2.7 57 57-113 242-301 (342)
38 KOG3623 Homeobox transcription 94.5 0.057 1.2E-06 55.7 5.3 52 61-113 564-615 (1007)
39 PF02183 HALZ: Homeobox associ 94.5 0.1 2.2E-06 35.4 5.0 36 120-155 2-37 (45)
40 PRK09413 IS2 repressor TnpA; R 94.0 0.55 1.2E-05 37.8 9.2 94 56-154 8-102 (121)
41 PF04218 CENP-B_N: CENP-B N-te 92.6 0.28 6.1E-06 34.1 4.7 47 55-106 1-47 (53)
42 KOG4005 Transcription factor X 91.2 1.1 2.4E-05 40.8 8.0 40 115-154 96-135 (292)
43 smart00340 HALZ homeobox assoc 90.7 0.67 1.5E-05 31.1 4.6 27 125-151 7-33 (44)
44 PF00170 bZIP_1: bZIP transcri 89.3 2.5 5.4E-05 30.2 7.1 36 117-152 27-62 (64)
45 KOG4196 bZIP transcription fac 88.2 14 0.0003 30.7 12.2 84 58-154 21-112 (135)
46 PF06156 DUF972: Protein of un 82.3 5.9 0.00013 31.7 6.6 46 112-157 11-56 (107)
47 smart00340 HALZ homeobox assoc 81.2 3.4 7.4E-05 27.8 4.0 32 113-144 2-33 (44)
48 PF06005 DUF904: Protein of un 81.0 9.8 0.00021 28.3 7.0 34 118-151 20-53 (72)
49 KOG4571 Activating transcripti 80.5 7.4 0.00016 36.4 7.5 49 107-156 240-288 (294)
50 PF00170 bZIP_1: bZIP transcri 77.9 13 0.00028 26.4 6.6 32 122-153 25-56 (64)
51 PRK13169 DNA replication intia 77.8 11 0.00025 30.3 6.9 44 112-155 11-54 (110)
52 PF06005 DUF904: Protein of un 77.8 18 0.00039 26.9 7.5 44 111-154 20-63 (72)
53 PF04967 HTH_10: HTH DNA bindi 76.6 4.9 0.00011 28.2 3.9 39 61-99 1-41 (53)
54 COG4467 Regulator of replicati 75.6 9.5 0.00021 30.7 5.8 43 113-155 12-54 (114)
55 cd06171 Sigma70_r4 Sigma70, re 74.4 7.2 0.00016 24.9 4.3 44 60-108 10-53 (55)
56 KOG3119 Basic region leucine z 73.9 10 0.00022 34.9 6.6 46 106-154 208-253 (269)
57 PF04545 Sigma70_r4: Sigma-70, 73.8 12 0.00026 24.9 5.3 40 60-104 4-43 (50)
58 PRK00888 ftsB cell division pr 73.5 8.2 0.00018 30.6 5.1 49 95-151 14-62 (105)
59 PF01527 HTH_Tnp_1: Transposas 73.5 3 6.5E-05 30.0 2.4 46 56-105 2-47 (76)
60 PF06156 DUF972: Protein of un 71.6 13 0.00028 29.8 5.7 40 112-151 18-57 (107)
61 KOG4673 Transcription factor T 70.9 26 0.00056 36.8 9.0 71 86-156 692-765 (961)
62 PRK13169 DNA replication intia 69.4 15 0.00032 29.6 5.7 40 112-151 18-57 (110)
63 PF07407 Seadorna_VP6: Seadorn 69.1 7 0.00015 37.3 4.3 30 125-154 34-63 (420)
64 PF10224 DUF2205: Predicted co 68.3 33 0.00072 26.1 7.1 42 112-153 19-60 (80)
65 PF07716 bZIP_2: Basic region 68.2 23 0.00049 24.4 5.8 30 122-151 24-53 (54)
66 PF13443 HTH_26: Cro/C1-type H 68.2 7.4 0.00016 26.9 3.4 39 83-121 12-50 (63)
67 PF08172 CASP_C: CASP C termin 67.8 21 0.00046 32.6 7.1 48 104-151 88-135 (248)
68 PF15058 Speriolin_N: Sperioli 65.5 8.9 0.00019 33.9 4.0 34 123-156 5-44 (200)
69 cd00569 HTH_Hin_like Helix-tur 65.2 22 0.00048 20.0 4.7 39 59-102 4-42 (42)
70 KOG4403 Cell surface glycoprot 64.7 29 0.00064 34.5 7.7 29 97-125 227-258 (575)
71 smart00338 BRLZ basic region l 64.6 47 0.001 23.5 8.3 37 117-153 27-63 (65)
72 KOG4343 bZIP transcription fac 63.4 25 0.00054 35.8 7.0 32 119-150 305-336 (655)
73 PF10668 Phage_terminase: Phag 62.9 6.4 0.00014 28.4 2.2 19 84-102 25-43 (60)
74 cd04766 HTH_HspR Helix-Turn-He 62.2 63 0.0014 24.3 7.8 70 84-154 4-89 (91)
75 TIGR02449 conserved hypothetic 60.6 47 0.001 24.3 6.4 36 118-153 9-44 (65)
76 KOG0249 LAR-interacting protei 59.3 55 0.0012 34.6 8.8 48 107-154 214-261 (916)
77 smart00338 BRLZ basic region l 59.0 44 0.00095 23.6 6.0 32 122-153 25-56 (65)
78 KOG3584 cAMP response element 58.9 19 0.00042 33.9 5.1 31 126-156 315-345 (348)
79 PRK14127 cell division protein 58.8 31 0.00068 27.7 5.7 28 127-154 34-61 (109)
80 COG3413 Predicted DNA binding 58.1 21 0.00045 31.3 5.1 47 60-108 155-203 (215)
81 COG3074 Uncharacterized protei 57.8 50 0.0011 24.7 6.1 35 117-151 26-60 (79)
82 PF04977 DivIC: Septum formati 57.3 28 0.00061 25.0 4.9 28 122-149 23-50 (80)
83 PF09607 BrkDBD: Brinker DNA-b 56.1 27 0.00059 25.0 4.4 44 58-103 3-47 (58)
84 TIGR01069 mutS2 MutS2 family p 55.5 69 0.0015 34.0 9.2 21 79-99 480-500 (771)
85 PRK14127 cell division protein 55.3 34 0.00074 27.5 5.4 39 116-154 30-68 (109)
86 KOG2391 Vacuolar sorting prote 54.1 49 0.0011 31.8 7.0 48 106-153 222-269 (365)
87 PF10224 DUF2205: Predicted co 53.6 84 0.0018 23.9 7.0 42 110-151 24-65 (80)
88 PF09744 Jnk-SapK_ap_N: JNK_SA 53.5 1E+02 0.0022 26.3 8.3 105 32-154 9-113 (158)
89 COG3074 Uncharacterized protei 53.4 55 0.0012 24.5 5.7 44 108-151 31-74 (79)
90 PF14197 Cep57_CLD_2: Centroso 52.1 87 0.0019 23.0 6.7 24 127-150 44-67 (69)
91 PRK03975 tfx putative transcri 52.0 50 0.0011 27.7 6.1 48 58-111 4-51 (141)
92 PRK15422 septal ring assembly 51.8 76 0.0016 24.2 6.4 15 117-131 26-40 (79)
93 PRK13922 rod shape-determining 51.8 37 0.00079 30.9 5.8 37 118-154 71-110 (276)
94 KOG0483 Transcription factor H 51.2 25 0.00054 31.2 4.4 41 118-158 107-147 (198)
95 PF10473 CENP-F_leu_zip: Leuci 50.9 77 0.0017 26.6 7.0 38 116-153 59-96 (140)
96 KOG1146 Homeobox protein [Gene 50.9 17 0.00036 40.5 3.8 59 55-113 706-764 (1406)
97 PRK10884 SH3 domain-containing 50.7 83 0.0018 28.0 7.6 31 121-151 137-167 (206)
98 PRK00409 recombination and DNA 50.6 86 0.0019 33.3 9.0 20 81-100 487-506 (782)
99 PF14775 NYD-SP28_assoc: Sperm 50.1 48 0.001 23.7 4.9 30 125-154 28-57 (60)
100 KOG0709 CREB/ATF family transc 49.8 57 0.0012 32.6 6.9 88 60-154 220-317 (472)
101 PF07716 bZIP_2: Basic region 49.4 83 0.0018 21.5 7.2 29 117-145 26-54 (54)
102 PRK00888 ftsB cell division pr 48.9 75 0.0016 25.1 6.4 36 101-136 26-61 (105)
103 PF07334 IFP_35_N: Interferon- 48.5 29 0.00062 26.2 3.7 22 134-155 4-25 (76)
104 TIGR02894 DNA_bind_RsfA transc 48.0 51 0.0011 28.4 5.6 32 122-153 103-134 (161)
105 PF10883 DUF2681: Protein of u 47.7 88 0.0019 24.2 6.4 30 125-154 32-61 (87)
106 PRK10884 SH3 domain-containing 47.5 70 0.0015 28.4 6.7 40 115-154 124-163 (206)
107 KOG4571 Activating transcripti 47.5 75 0.0016 29.9 7.0 36 113-148 252-287 (294)
108 PF15058 Speriolin_N: Sperioli 46.4 46 0.00099 29.5 5.2 24 130-153 5-28 (200)
109 PF13936 HTH_38: Helix-turn-he 46.4 32 0.00069 22.7 3.3 41 58-103 2-42 (44)
110 cd01106 HTH_TipAL-Mta Helix-Tu 46.4 1.3E+02 0.0029 23.0 8.0 35 58-105 36-70 (103)
111 PF05377 FlaC_arch: Flagella a 46.4 87 0.0019 22.2 5.6 33 114-146 5-37 (55)
112 cd04769 HTH_MerR2 Helix-Turn-H 45.4 1.3E+02 0.0029 23.6 7.5 38 57-107 34-71 (116)
113 KOG4343 bZIP transcription fac 45.2 90 0.002 31.9 7.6 40 119-158 298-337 (655)
114 KOG3156 Uncharacterized membra 45.2 83 0.0018 28.4 6.7 43 117-159 102-145 (220)
115 PF00196 GerE: Bacterial regul 45.0 60 0.0013 22.1 4.8 46 60-111 3-48 (58)
116 cd04761 HTH_MerR-SF Helix-Turn 44.9 22 0.00048 23.0 2.4 22 84-105 3-24 (49)
117 KOG4005 Transcription factor X 44.8 69 0.0015 29.5 6.2 43 112-154 100-142 (292)
118 PF12709 Kinetocho_Slk19: Cent 44.4 1.2E+02 0.0027 23.5 6.7 41 116-156 34-75 (87)
119 PRK10072 putative transcriptio 44.3 39 0.00086 26.4 4.1 41 60-107 32-72 (96)
120 PF04899 MbeD_MobD: MbeD/MobD 44.2 98 0.0021 22.9 6.0 36 119-154 24-59 (70)
121 KOG0709 CREB/ATF family transc 43.3 42 0.0009 33.5 4.9 72 78-150 220-299 (472)
122 PF07989 Microtub_assoc: Micro 43.2 1E+02 0.0023 22.9 6.1 28 127-154 40-67 (75)
123 PF00038 Filament: Intermediat 43.2 1.8E+02 0.004 26.5 9.1 62 93-154 184-254 (312)
124 TIGR03752 conj_TIGR03752 integ 43.2 70 0.0015 32.1 6.5 24 130-153 109-132 (472)
125 PRK13729 conjugal transfer pil 43.2 75 0.0016 31.9 6.7 44 110-153 77-120 (475)
126 cd04765 HTH_MlrA-like_sg2 Heli 42.8 62 0.0013 25.1 5.0 20 85-104 4-23 (99)
127 PF13518 HTH_28: Helix-turn-he 42.5 34 0.00074 22.4 3.1 24 83-106 14-37 (52)
128 PF08281 Sigma70_r4_2: Sigma-7 41.9 32 0.0007 22.9 2.9 42 61-107 11-52 (54)
129 PF04880 NUDE_C: NUDE protein, 41.5 20 0.00044 30.9 2.2 24 130-153 24-47 (166)
130 PF03670 UPF0184: Uncharacteri 41.4 74 0.0016 24.4 5.0 40 115-154 25-64 (83)
131 TIGR02894 DNA_bind_RsfA transc 40.5 99 0.0021 26.6 6.2 59 93-151 80-139 (161)
132 PF10226 DUF2216: Uncharacteri 40.3 2E+02 0.0043 25.5 8.2 32 129-160 54-85 (195)
133 TIGR00219 mreC rod shape-deter 39.8 71 0.0015 29.6 5.7 16 141-156 95-110 (283)
134 PF05377 FlaC_arch: Flagella a 39.6 1.2E+02 0.0025 21.6 5.4 36 119-154 3-38 (55)
135 COG2919 Septum formation initi 39.5 1.2E+02 0.0027 24.2 6.4 34 119-152 53-86 (117)
136 TIGR02937 sigma70-ECF RNA poly 39.0 85 0.0018 24.1 5.4 46 60-110 110-155 (158)
137 PRK06759 RNA polymerase factor 39.0 95 0.0021 24.8 5.8 45 60-109 106-150 (154)
138 KOG4196 bZIP transcription fac 38.0 1.7E+02 0.0037 24.4 7.0 52 101-152 64-117 (135)
139 PF13411 MerR_1: MerR HTH fami 37.8 31 0.00067 24.1 2.4 21 84-104 3-23 (69)
140 PF00424 REV: REV protein (ant 37.5 53 0.0012 25.7 3.8 32 66-113 14-47 (91)
141 TIGR03752 conj_TIGR03752 integ 37.1 88 0.0019 31.4 6.1 32 122-153 108-139 (472)
142 PF10481 CENP-F_N: Cenp-F N-te 36.9 2.3E+02 0.0051 26.6 8.4 39 115-153 87-125 (307)
143 PF08826 DMPK_coil: DMPK coile 36.8 1.6E+02 0.0035 21.2 6.8 38 116-153 18-55 (61)
144 PF11559 ADIP: Afadin- and alp 36.6 2.2E+02 0.0047 23.4 7.7 47 107-153 78-124 (151)
145 PRK11924 RNA polymerase sigma 36.1 65 0.0014 26.1 4.5 45 61-110 126-170 (179)
146 PF07407 Seadorna_VP6: Seadorn 36.1 65 0.0014 31.0 4.8 31 117-147 33-63 (420)
147 PRK09652 RNA polymerase sigma 36.0 73 0.0016 25.9 4.8 44 60-108 128-171 (182)
148 smart00421 HTH_LUXR helix_turn 35.8 1.2E+02 0.0026 19.4 5.0 40 60-105 3-42 (58)
149 PF07798 DUF1640: Protein of u 35.3 1.2E+02 0.0027 25.8 6.2 29 130-158 73-101 (177)
150 PF01166 TSC22: TSC-22/dip/bun 35.2 58 0.0013 23.4 3.3 31 124-154 15-45 (59)
151 COG4467 Regulator of replicati 35.2 88 0.0019 25.3 4.8 36 113-148 19-54 (114)
152 PF12808 Mto2_bdg: Micro-tubul 35.0 1.6E+02 0.0034 20.7 5.5 25 126-150 25-49 (52)
153 cd04779 HTH_MerR-like_sg4 Heli 34.8 2.6E+02 0.0056 23.0 9.2 37 57-106 34-70 (134)
154 PRK12514 RNA polymerase sigma 34.7 72 0.0016 26.4 4.6 45 61-110 130-174 (179)
155 TIGR03879 near_KaiC_dom probab 34.5 21 0.00045 26.7 1.1 34 71-104 22-55 (73)
156 PF11932 DUF3450: Protein of u 34.5 1.8E+02 0.0039 26.1 7.4 42 113-154 53-94 (251)
157 cd00131 PAX Paired Box domain 34.3 1.2E+02 0.0027 24.5 5.8 46 60-105 75-127 (128)
158 PRK09646 RNA polymerase sigma 34.3 94 0.002 26.3 5.3 46 60-110 142-187 (194)
159 TIGR02209 ftsL_broad cell divi 34.2 1.1E+02 0.0023 22.5 5.0 24 128-151 36-59 (85)
160 PF08280 HTH_Mga: M protein tr 33.8 59 0.0013 22.6 3.3 34 64-101 6-39 (59)
161 PRK04217 hypothetical protein; 33.7 1.3E+02 0.0027 24.2 5.6 43 60-107 42-84 (110)
162 PF06056 Terminase_5: Putative 33.5 39 0.00085 23.9 2.3 27 83-111 15-41 (58)
163 PF15035 Rootletin: Ciliary ro 33.3 1.9E+02 0.0041 25.2 7.0 40 117-156 82-121 (182)
164 KOG3755 SATB1 matrix attachmen 33.2 19 0.0004 37.2 0.8 44 70-113 708-758 (769)
165 TIGR02051 MerR Hg(II)-responsi 33.1 2.5E+02 0.0055 22.4 7.9 36 57-105 34-69 (124)
166 cd04770 HTH_HMRTR Helix-Turn-H 33.0 2.4E+02 0.0052 22.1 8.7 38 57-107 35-72 (123)
167 PF11932 DUF3450: Protein of u 32.6 1.6E+02 0.0036 26.3 6.8 32 115-146 62-93 (251)
168 PF13384 HTH_23: Homeodomain-l 32.6 41 0.00088 22.0 2.2 23 82-104 18-40 (50)
169 PF12325 TMF_TATA_bd: TATA ele 32.5 2.3E+02 0.005 23.0 7.0 49 108-156 67-115 (120)
170 TIGR02985 Sig70_bacteroi1 RNA 32.3 88 0.0019 24.8 4.6 45 61-110 114-158 (161)
171 PF13815 Dzip-like_N: Iguana/D 32.1 1.8E+02 0.0039 23.2 6.3 34 118-151 82-115 (118)
172 PF07334 IFP_35_N: Interferon- 31.8 97 0.0021 23.4 4.3 29 126-154 3-31 (76)
173 PF07888 CALCOCO1: Calcium bin 31.4 5.9E+02 0.013 26.1 11.4 40 117-156 418-457 (546)
174 PF14662 CCDC155: Coiled-coil 31.3 2.2E+02 0.0047 25.3 7.0 44 111-154 97-140 (193)
175 PF05700 BCAS2: Breast carcino 31.3 2.5E+02 0.0054 24.9 7.7 39 117-155 176-214 (221)
176 cd06170 LuxR_C_like C-terminal 31.2 1.3E+02 0.0027 19.4 4.5 36 62-103 2-37 (57)
177 PF03980 Nnf1: Nnf1 ; InterPr 30.9 1E+02 0.0023 23.9 4.7 30 122-151 79-108 (109)
178 KOG0977 Nuclear envelope prote 30.9 2.3E+02 0.0051 29.0 8.1 42 112-153 151-192 (546)
179 TIGR02449 conserved hypothetic 30.5 2.2E+02 0.0047 20.8 6.8 38 116-153 21-58 (65)
180 COG1382 GimC Prefoldin, chaper 30.4 2E+02 0.0044 23.5 6.3 40 117-156 71-110 (119)
181 PF00376 MerR: MerR family reg 30.4 51 0.0011 21.2 2.3 19 84-102 2-20 (38)
182 PF04977 DivIC: Septum formati 30.3 1.3E+02 0.0029 21.4 4.9 29 114-142 22-50 (80)
183 cd04764 HTH_MlrA-like_sg1 Heli 30.2 54 0.0012 22.9 2.7 21 84-104 3-23 (67)
184 cd04762 HTH_MerR-trunc Helix-T 30.2 55 0.0012 20.5 2.5 24 84-107 3-26 (49)
185 PRK14872 rod shape-determining 30.1 94 0.002 29.8 5.0 26 125-150 59-84 (337)
186 PF10482 CtIP_N: Tumour-suppre 30.0 1.3E+02 0.0028 24.6 5.0 20 127-146 100-119 (120)
187 PTZ00454 26S protease regulato 29.9 1.6E+02 0.0035 28.6 6.7 33 121-153 27-59 (398)
188 KOG3119 Basic region leucine z 29.6 2E+02 0.0043 26.5 6.9 33 122-154 214-246 (269)
189 PRK12526 RNA polymerase sigma 29.4 97 0.0021 26.6 4.6 45 61-110 154-198 (206)
190 PHA01750 hypothetical protein 29.4 2.4E+02 0.0051 20.9 6.7 35 119-153 38-72 (75)
191 cd04763 HTH_MlrA-like Helix-Tu 29.2 55 0.0012 23.0 2.5 21 84-104 3-23 (68)
192 PRK13922 rod shape-determining 29.0 1.1E+02 0.0024 27.7 5.1 28 123-150 69-96 (276)
193 KOG4797 Transcriptional regula 29.0 1.7E+02 0.0037 23.7 5.5 29 116-144 67-95 (123)
194 PF09006 Surfac_D-trimer: Lung 28.9 99 0.0022 21.2 3.5 22 133-154 2-23 (46)
195 PF12999 PRKCSH-like: Glucosid 28.8 2.9E+02 0.0063 24.1 7.3 19 136-154 152-170 (176)
196 PF04568 IATP: Mitochondrial A 28.7 3E+02 0.0064 21.8 6.9 23 131-153 77-99 (100)
197 PF06810 Phage_GP20: Phage min 28.7 2.6E+02 0.0056 23.6 6.9 16 138-153 52-67 (155)
198 KOG1962 B-cell receptor-associ 28.7 1.6E+02 0.0035 26.5 5.9 27 123-149 172-198 (216)
199 TIGR00219 mreC rod shape-deter 28.6 1.1E+02 0.0024 28.3 5.1 10 135-144 96-105 (283)
200 KOG0150 Spliceosomal protein F 28.4 3E+02 0.0065 26.3 7.8 13 98-110 16-28 (336)
201 PRK12519 RNA polymerase sigma 28.4 98 0.0021 25.9 4.4 45 61-110 142-186 (194)
202 PF04999 FtsL: Cell division p 28.2 1.3E+02 0.0028 22.8 4.6 27 125-151 44-70 (97)
203 PHA02955 hypothetical protein; 28.1 66 0.0014 28.9 3.3 43 63-105 60-103 (213)
204 PRK11546 zraP zinc resistance 27.8 2.3E+02 0.0049 23.9 6.3 15 60-74 43-57 (143)
205 COG2433 Uncharacterized conser 27.7 2.1E+02 0.0045 29.8 7.1 37 117-153 430-466 (652)
206 COG4367 Uncharacterized protei 27.5 96 0.0021 24.3 3.7 39 61-99 3-41 (97)
207 PF02796 HTH_7: Helix-turn-hel 27.0 1.1E+02 0.0023 20.0 3.5 38 60-102 5-42 (45)
208 PF12808 Mto2_bdg: Micro-tubul 26.8 2.1E+02 0.0045 20.0 5.0 38 117-154 9-46 (52)
209 cd04765 HTH_MlrA-like_sg2 Heli 26.7 2.7E+02 0.0058 21.4 6.2 39 57-107 35-73 (99)
210 PRK12512 RNA polymerase sigma 26.6 1.4E+02 0.003 24.8 5.0 45 61-110 132-176 (184)
211 PRK09648 RNA polymerase sigma 26.2 1.6E+02 0.0035 24.5 5.4 43 60-107 139-181 (189)
212 PRK10403 transcriptional regul 26.2 1.2E+02 0.0026 24.5 4.5 46 60-111 153-198 (215)
213 PRK05602 RNA polymerase sigma 26.1 1.2E+02 0.0026 25.2 4.6 45 61-110 129-173 (186)
214 cd01104 HTH_MlrA-CarA Helix-Tu 26.1 70 0.0015 22.2 2.6 21 84-104 3-23 (68)
215 TIGR02948 SigW_bacill RNA poly 26.1 1.2E+02 0.0027 25.0 4.5 46 60-110 136-181 (187)
216 PF15035 Rootletin: Ciliary ro 25.9 1.9E+02 0.0042 25.1 5.8 38 117-154 75-112 (182)
217 PF01166 TSC22: TSC-22/dip/bun 25.7 1.3E+02 0.0029 21.6 3.9 27 118-144 16-42 (59)
218 PF13942 Lipoprotein_20: YfhG 25.7 3.8E+02 0.0082 23.5 7.4 90 62-154 57-154 (179)
219 PRK09639 RNA polymerase sigma 25.5 1.9E+02 0.0042 23.3 5.6 45 60-110 112-156 (166)
220 PRK06811 RNA polymerase factor 25.2 1.4E+02 0.0031 25.0 4.9 47 60-111 131-177 (189)
221 PRK14086 dnaA chromosomal repl 24.5 7.4E+02 0.016 25.8 10.5 74 78-154 523-615 (617)
222 KOG0727 26S proteasome regulat 24.4 2E+02 0.0044 27.2 5.8 40 112-151 35-74 (408)
223 PRK06986 fliA flagellar biosyn 24.0 1.6E+02 0.0034 25.9 5.0 46 61-111 185-230 (236)
224 PF08961 DUF1875: Domain of un 24.0 26 0.00056 31.8 0.0 48 104-151 114-164 (243)
225 PF12718 Tropomyosin_1: Tropom 23.8 4.2E+02 0.009 22.0 7.3 44 111-154 23-66 (143)
226 PF12711 Kinesin-relat_1: Kine 23.8 2.8E+02 0.0061 21.4 5.7 19 135-153 49-67 (86)
227 PRK09642 RNA polymerase sigma 23.7 1.1E+02 0.0024 24.7 3.8 46 61-111 107-152 (160)
228 cd01109 HTH_YyaN Helix-Turn-He 23.7 3.5E+02 0.0076 21.0 9.0 36 58-106 36-71 (113)
229 PRK10360 DNA-binding transcrip 23.6 1.5E+02 0.0033 23.9 4.6 45 60-110 137-181 (196)
230 PF13551 HTH_29: Winged helix- 23.3 2.5E+02 0.0053 20.9 5.5 46 58-103 55-109 (112)
231 PF04859 DUF641: Plant protein 23.3 3.1E+02 0.0068 22.7 6.3 8 68-75 59-66 (131)
232 KOG0288 WD40 repeat protein Ti 23.2 3.3E+02 0.0071 27.1 7.2 29 117-145 42-70 (459)
233 TIGR02989 Sig-70_gvs1 RNA poly 23.0 2.3E+02 0.005 22.5 5.5 42 61-107 112-153 (159)
234 cd04783 HTH_MerR1 Helix-Turn-H 23.0 3.9E+02 0.0084 21.2 8.1 36 58-106 36-71 (126)
235 PF08317 Spc7: Spc7 kinetochor 23.0 3.8E+02 0.0081 25.1 7.6 48 99-151 137-184 (325)
236 TIGR02479 FliA_WhiG RNA polyme 23.0 1.7E+02 0.0037 25.4 5.0 44 60-108 175-218 (224)
237 PF11594 Med28: Mediator compl 22.8 4.1E+02 0.0088 21.4 7.4 15 95-109 17-31 (106)
238 PF14197 Cep57_CLD_2: Centroso 22.8 3.1E+02 0.0068 20.0 7.5 22 132-153 42-63 (69)
239 COG3599 DivIVA Cell division i 22.7 2.2E+02 0.0047 25.5 5.6 34 123-156 30-63 (212)
240 PRK11922 RNA polymerase sigma 22.6 2E+02 0.0043 25.1 5.4 33 79-111 163-195 (231)
241 PF10473 CENP-F_leu_zip: Leuci 22.5 4.4E+02 0.0096 22.0 7.1 49 105-153 13-61 (140)
242 KOG1029 Endocytic adaptor prot 22.5 4.4E+02 0.0094 28.6 8.3 11 100-110 412-422 (1118)
243 smart00787 Spc7 Spc7 kinetocho 22.4 3.6E+02 0.0078 25.5 7.3 41 99-144 132-172 (312)
244 PF04899 MbeD_MobD: MbeD/MobD 22.4 3.3E+02 0.0071 20.1 6.5 39 115-153 27-65 (70)
245 cd00093 HTH_XRE Helix-turn-hel 22.4 1E+02 0.0022 18.9 2.7 22 85-106 16-37 (58)
246 PF03234 CDC37_N: Cdc37 N term 22.3 2.8E+02 0.006 24.1 6.1 43 108-154 31-73 (177)
247 PRK09047 RNA polymerase factor 22.3 3.1E+02 0.0068 21.8 6.2 42 60-106 106-147 (161)
248 PRK12518 RNA polymerase sigma 22.2 1.1E+02 0.0024 25.1 3.5 30 82-111 137-166 (175)
249 cd01392 HTH_LacI Helix-turn-he 21.9 51 0.0011 21.6 1.2 21 86-106 2-22 (52)
250 TIGR02959 SigZ RNA polymerase 21.8 2.5E+02 0.0055 23.1 5.6 40 60-104 100-139 (170)
251 PRK12515 RNA polymerase sigma 21.7 2.6E+02 0.0056 23.3 5.8 45 61-110 132-176 (189)
252 PF07989 Microtub_assoc: Micro 21.6 2.3E+02 0.005 21.1 4.7 53 98-153 21-73 (75)
253 TIGR02939 RpoE_Sigma70 RNA pol 21.6 1.2E+02 0.0026 25.1 3.7 43 61-108 139-181 (190)
254 PTZ00454 26S protease regulato 21.6 3.1E+02 0.0067 26.6 6.9 38 114-151 27-64 (398)
255 PF01920 Prefoldin_2: Prefoldi 21.3 3.1E+02 0.0068 20.5 5.7 38 117-154 63-100 (106)
256 PRK09644 RNA polymerase sigma 21.2 1.5E+02 0.0033 24.1 4.2 46 61-111 109-154 (165)
257 PRK13919 putative RNA polymera 21.1 1.9E+02 0.0041 23.9 4.8 41 61-106 136-176 (186)
258 COG2433 Uncharacterized conser 21.1 2.3E+02 0.0049 29.5 6.0 10 145-154 482-491 (652)
259 PF14775 NYD-SP28_assoc: Sperm 21.0 2.9E+02 0.0062 19.7 4.9 27 122-148 32-58 (60)
260 PRK13729 conjugal transfer pil 21.0 3.6E+02 0.0078 27.2 7.2 47 107-153 67-113 (475)
261 KOG3335 Predicted coiled-coil 20.9 5E+02 0.011 22.8 7.2 53 97-156 87-139 (181)
262 PF01381 HTH_3: Helix-turn-hel 20.8 61 0.0013 21.4 1.4 22 85-106 13-34 (55)
263 PRK11511 DNA-binding transcrip 20.8 1.5E+02 0.0032 23.7 3.8 25 80-104 24-48 (127)
264 KOG2391 Vacuolar sorting prote 20.8 3E+02 0.0065 26.7 6.3 37 118-154 241-277 (365)
265 PF05529 Bap31: B-cell recepto 20.7 2E+02 0.0043 24.6 4.9 7 67-73 92-98 (192)
266 PF05278 PEARLI-4: Arabidopsis 20.7 4.8E+02 0.01 24.3 7.5 15 61-75 94-108 (269)
267 PRK15369 two component system 20.5 2.7E+02 0.0059 22.1 5.5 45 60-110 149-193 (211)
268 PRK05657 RNA polymerase sigma 20.4 2.2E+02 0.0048 26.7 5.5 50 60-110 262-311 (325)
269 PRK09935 transcriptional regul 20.4 1.9E+02 0.0041 23.5 4.5 45 60-110 149-193 (210)
270 TIGR02950 SigM_subfam RNA poly 20.2 1.3E+02 0.0029 23.8 3.5 30 79-108 119-148 (154)
No 1
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.89 E-value=4.4e-23 Score=180.40 Aligned_cols=104 Identities=58% Similarity=0.860 Sum_probs=98.9
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHh
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDY 132 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~ 132 (264)
...+|++||+.+|+..||..|+...++.+.++..||++|||.+|||+|||||||||||.++++.+|+.|+..++.|+.++
T Consensus 49 ~~~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~Lk~~~~~l~~~~ 128 (198)
T KOG0483|consen 49 KGKGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESLKRQLESLRSEN 128 (198)
T ss_pred ccccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhhh
Confidence 46788899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 133 NNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 133 ~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
+.|+.++..|.+++..++..++..
T Consensus 129 ~~Lq~e~~eL~~~~~~~~~~~~~~ 152 (198)
T KOG0483|consen 129 DRLQSEVQELVAELSSLKREMQKS 152 (198)
T ss_pred hHHHHHHHHHHHHHhhhhhhhccC
Confidence 999999999999999888888653
No 2
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.71 E-value=7.8e-18 Score=152.88 Aligned_cols=116 Identities=23% Similarity=0.391 Sum_probs=93.2
Q ss_pred ccccccCCchhhhhhcc-------cchhhhhh-----hhcccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhC
Q 024675 25 TKRKQIYGREFQAMMDC-------LEEEDCRE-----EASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELG 92 (264)
Q Consensus 25 s~r~~~~~~~f~~~~d~-------~~~~~~~~-----~~~~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lg 92 (264)
=+|++.+|++|+.|+|. ++.....+ ..+..+|.|+.+|+.||+.|..+|...++|.++.|++|+.++|
T Consensus 126 C~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~~~l~gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTG 205 (383)
T KOG4577|consen 126 CKRQLATGDEFYLMEDARLVCKDDYETAKQKHCNELEGDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETG 205 (383)
T ss_pred hhcccccCCeeEEeccceeehhhhHHHHHhccccccccccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccC
Confidence 35778999999999975 44443332 2345677788899999999999999999999999999999999
Q ss_pred CChHHHhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHH
Q 024675 93 LQPRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEA 141 (264)
Q Consensus 93 L~~rqVqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~ 141 (264)
|..|+|||||||||||+||.+...-...+...+..+|.. ...+.|++.
T Consensus 206 LDMRVVQVWFQNRRAKEKRLKKDAGR~RWgqyfrsmK~s-gs~r~ekds 253 (383)
T KOG4577|consen 206 LDMRVVQVWFQNRRAKEKRLKKDAGRTRWGQYFRSMKRS-GSSRAEKDS 253 (383)
T ss_pred cceeehhhhhhhhhHHHHhhhhhcchhHHHHHHHHhhcc-CCccccccc
Confidence 999999999999999999977666666777777777655 444444444
No 3
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.66 E-value=4.9e-17 Score=148.20 Aligned_cols=61 Identities=34% Similarity=0.637 Sum_probs=56.5
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
..+|.|+.||..|+.+||+.|..++|+++.+|.+||..|.|+++||||||||||+||||..
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 3455666699999999999999999999999999999999999999999999999999865
No 4
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.63 E-value=1.1e-16 Score=147.86 Aligned_cols=59 Identities=32% Similarity=0.573 Sum_probs=56.0
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHHHHh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYG 119 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~~~~ 119 (264)
|+..|+.+||+.|...+|++..+|+.||..|+|++.||||||||||-|.||++.++..+
T Consensus 160 FSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~~~ 218 (307)
T KOG0842|consen 160 FSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKALE 218 (307)
T ss_pred cchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999988766543
No 5
>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=99.62 E-value=1e-15 Score=107.72 Aligned_cols=57 Identities=40% Similarity=0.661 Sum_probs=54.4
Q ss_pred CCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 55 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 55 ~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
+++|++||.+|+.+|+..|..+++|+..+++.||..|||+..+|++||+|||+++|+
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 467788999999999999999999999999999999999999999999999999985
No 6
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.62 E-value=4.1e-16 Score=145.25 Aligned_cols=54 Identities=37% Similarity=0.614 Sum_probs=52.6
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
.||..|+..||+.|++.+|++..+|.+||..|||+..||++||||||+||||..
T Consensus 178 aFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~ 231 (309)
T KOG0488|consen 178 AFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQT 231 (309)
T ss_pred hhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHH
Confidence 399999999999999999999999999999999999999999999999999976
No 7
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.61 E-value=3e-16 Score=145.09 Aligned_cols=63 Identities=32% Similarity=0.537 Sum_probs=57.3
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELE 115 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e 115 (264)
+.++||..+|..|+.+||+.|..|.|++.+.|.+|++.|+|++|||+|||||||+|.||...+
T Consensus 234 ~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~re 296 (308)
T KOG0487|consen 234 RGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNRE 296 (308)
T ss_pred ccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhhh
Confidence 445555569999999999999999999999999999999999999999999999999987643
No 8
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.59 E-value=1.2e-15 Score=130.61 Aligned_cols=64 Identities=31% Similarity=0.495 Sum_probs=58.5
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELER 116 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~ 116 (264)
+.+|.|+.||.+|+..||..|+.+.|..-.+|+.||..|+|++.||+|||||||+|.||.+.+.
T Consensus 101 ~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~ 164 (197)
T KOG0843|consen 101 RPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED 164 (197)
T ss_pred CCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence 4556666799999999999999999999999999999999999999999999999999987543
No 9
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.59 E-value=1.4e-15 Score=119.71 Aligned_cols=60 Identities=28% Similarity=0.498 Sum_probs=55.5
Q ss_pred cCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 54 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 54 ~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
.+|-|+.||..||..||+.|...+||++..|++||.++.|++..|||||||||||.|++.
T Consensus 17 QRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQE 76 (125)
T KOG0484|consen 17 QRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQE 76 (125)
T ss_pred hhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHH
Confidence 445556699999999999999999999999999999999999999999999999999864
No 10
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.52 E-value=9.8e-15 Score=128.26 Aligned_cols=59 Identities=36% Similarity=0.547 Sum_probs=54.6
Q ss_pred CCCCC--CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 55 TEKKR--RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 55 ~rkrr--r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
++||+ .|+..|+..||..|+..+|++..+|..||+.|.|++.||+|||||||.||||+-
T Consensus 103 RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~ 163 (268)
T KOG0485|consen 103 RKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQY 163 (268)
T ss_pred ccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHH
Confidence 44444 499999999999999999999999999999999999999999999999999965
No 11
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.50 E-value=2.8e-14 Score=124.68 Aligned_cols=57 Identities=32% Similarity=0.554 Sum_probs=53.9
Q ss_pred CCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 57 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
.|+.||..||..||+.|...+|+++.+|.+++..|.|++.||+|||||||||.||.+
T Consensus 147 PRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQ 203 (246)
T KOG0492|consen 147 PRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQ 203 (246)
T ss_pred CCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHH
Confidence 345599999999999999999999999999999999999999999999999999866
No 12
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.50 E-value=1.7e-14 Score=126.98 Aligned_cols=61 Identities=26% Similarity=0.447 Sum_probs=56.8
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
+.+|-|++|+..|+++||+.|.+..||+...|++||.+|+|.+.+|+|||+|||+|+|+++
T Consensus 36 kqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq 96 (228)
T KOG2251|consen 36 KQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQ 96 (228)
T ss_pred hcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhh
Confidence 3455566799999999999999999999999999999999999999999999999999876
No 13
>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=99.49 E-value=7.9e-14 Score=97.86 Aligned_cols=57 Identities=46% Similarity=0.770 Sum_probs=53.5
Q ss_pred CCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHH
Q 024675 56 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSK 112 (264)
Q Consensus 56 rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk 112 (264)
+++..++..|+.+|+..|..++||+..++..||..+||+..+|++||+|||++.++.
T Consensus 2 ~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~~~ 58 (59)
T cd00086 2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58 (59)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcc
Confidence 456679999999999999999999999999999999999999999999999998863
No 14
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.49 E-value=2.5e-14 Score=128.54 Aligned_cols=55 Identities=35% Similarity=0.503 Sum_probs=52.8
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELE 115 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e 115 (264)
||..|+..||+.|+..+||+...|+.||.++.|.+..|+||||||||||||+...
T Consensus 148 FT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~ 202 (332)
T KOG0494|consen 148 FTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKR 202 (332)
T ss_pred hhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhh
Confidence 9999999999999999999999999999999999999999999999999997643
No 15
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.48 E-value=1.4e-14 Score=130.66 Aligned_cols=54 Identities=41% Similarity=0.616 Sum_probs=52.0
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
.+|..|..+||+.|...+|.++.++.+||.-|||++|||||||||||||+||..
T Consensus 205 VYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~n 258 (317)
T KOG0848|consen 205 VYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDN 258 (317)
T ss_pred EecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHH
Confidence 399999999999999999999999999999999999999999999999999865
No 16
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.47 E-value=1e-13 Score=96.74 Aligned_cols=55 Identities=42% Similarity=0.710 Sum_probs=51.4
Q ss_pred CCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 56 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 56 rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+.|.+++..|+.+|+..|..++||+..++..||..+||+..+|+.||+|||++.+
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 4456799999999999999999999999999999999999999999999998764
No 17
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.47 E-value=5.2e-14 Score=124.59 Aligned_cols=55 Identities=33% Similarity=0.591 Sum_probs=52.2
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSK 112 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk 112 (264)
|+.++.-||..|.+.|+.+.|+-..+|.+||..|||+..||||||||||.|.||.
T Consensus 126 RTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl 180 (245)
T KOG0850|consen 126 RTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKL 180 (245)
T ss_pred cccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHH
Confidence 4459999999999999999999999999999999999999999999999999974
No 18
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.45 E-value=7.5e-14 Score=118.40 Aligned_cols=68 Identities=32% Similarity=0.580 Sum_probs=61.0
Q ss_pred hhhhhhcccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 46 DCREEASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 46 ~~~~~~~~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
.........+++|+|.|..|+.+|+..|..+++|+...|..|+..|+|+++-|++||||||++.|+..
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 33333455778888999999999999999999999999999999999999999999999999999865
No 19
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.42 E-value=1.3e-13 Score=124.11 Aligned_cols=62 Identities=34% Similarity=0.642 Sum_probs=56.0
Q ss_pred CCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHH
Q 024675 55 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELER 116 (264)
Q Consensus 55 ~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~ 116 (264)
+|.|+-||.+||..|+..|..++|++..+|++||.+|||.+.||+|||||+|+|.||..-.+
T Consensus 247 KRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsTgsk 308 (342)
T KOG0493|consen 247 KRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKSTGSK 308 (342)
T ss_pred cCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhccCCC
Confidence 34445599999999999999999999999999999999999999999999999999876443
No 20
>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=99.36 E-value=8e-13 Score=94.55 Aligned_cols=52 Identities=17% Similarity=0.371 Sum_probs=49.1
Q ss_pred CCCCCCCCHHHHHHHHHhhhhcCC----CCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 55 TEKKRRLTVDQVKALEKNFEVDNK----LEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 55 ~rkrrr~t~~Ql~~LE~~F~~~~~----p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
+|.|+.||.+|+..|+..|+...| |+...+.+||..|||++++|+|||||-+
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 567778999999999999999999 9999999999999999999999999954
No 21
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.30 E-value=6.3e-13 Score=121.90 Aligned_cols=62 Identities=35% Similarity=0.547 Sum_probs=57.8
Q ss_pred cCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHH
Q 024675 54 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELE 115 (264)
Q Consensus 54 ~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e 115 (264)
-+|.|+-||.+|+..||+.|-+.+|.++.+|.+||..|+|++..|+|||||||+|+||+.+-
T Consensus 181 mRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 181 MRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 45667779999999999999999999999999999999999999999999999999998754
No 22
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.27 E-value=1.5e-12 Score=123.29 Aligned_cols=61 Identities=31% Similarity=0.465 Sum_probs=55.8
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
++||||+.|+......||++|..|++|+..++-.||.+|+|...+|+|||+|||.|.||..
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 3445555699999999999999999999999999999999999999999999999999865
No 23
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.26 E-value=2.4e-12 Score=109.08 Aligned_cols=56 Identities=34% Similarity=0.566 Sum_probs=53.4
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
|+.|+..|+..|++.|+..+|++..+|.+||..|+|++.||+.||||||+|.||.+
T Consensus 104 Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~ 159 (194)
T KOG0491|consen 104 RTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQ 159 (194)
T ss_pred cccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 45599999999999999999999999999999999999999999999999999865
No 24
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.20 E-value=7.8e-12 Score=110.30 Aligned_cols=56 Identities=36% Similarity=0.624 Sum_probs=53.3
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
|..|+..|+..||..|+..+||--.+|.+||-.+|+++.||+|||||||+||||+.
T Consensus 171 rPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkh 226 (288)
T KOG0847|consen 171 RPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKH 226 (288)
T ss_pred CCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhh
Confidence 44599999999999999999999999999999999999999999999999999976
No 25
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.15 E-value=3e-11 Score=111.35 Aligned_cols=55 Identities=27% Similarity=0.496 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKEL 114 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~ 114 (264)
.||..|+..||..|.+++||+...|++||..++|++..|+|||.|||+|||+...
T Consensus 118 hFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrEr 172 (351)
T KOG0486|consen 118 HFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRER 172 (351)
T ss_pred hhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhh
Confidence 4999999999999999999999999999999999999999999999999998653
No 26
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.98 E-value=1.9e-10 Score=101.19 Aligned_cols=61 Identities=30% Similarity=0.352 Sum_probs=56.2
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
..++.|+.|+..|++.||+.|...+||+...++.||..+++++..|+|||||||++|++..
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 3455666799999999999999999999999999999999999999999999999999865
No 27
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.83 E-value=8.7e-10 Score=100.87 Aligned_cols=62 Identities=24% Similarity=0.478 Sum_probs=57.1
Q ss_pred cccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 52 SQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 52 ~~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
+.+||||+.+.....+.||++|...++|+.+.+..||++|+|...+|+|||+|.|.|.||..
T Consensus 307 ~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKRm~ 368 (385)
T KOG1168|consen 307 GEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRMK 368 (385)
T ss_pred cccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHHhh
Confidence 45677777899999999999999999999999999999999999999999999999998843
No 28
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.78 E-value=5.1e-09 Score=99.56 Aligned_cols=60 Identities=30% Similarity=0.513 Sum_probs=55.6
Q ss_pred cCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 54 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 54 ~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
.+++|+.|+..|+..|++.|+.++||+...|+.||.++|+++..|+|||+|||++++|..
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 344556799999999999999999999999999999999999999999999999999865
No 29
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.63 E-value=3.1e-08 Score=90.15 Aligned_cols=51 Identities=29% Similarity=0.453 Sum_probs=48.4
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
|...-...|..+|..++||++.++.+||+.+||+.-||-.||.|||.|+|.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDRa 233 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDRA 233 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhhh
Confidence 667788999999999999999999999999999999999999999999984
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=98.35 E-value=5.2e-07 Score=59.88 Aligned_cols=34 Identities=35% Similarity=0.565 Sum_probs=29.0
Q ss_pred hcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 75 VDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 75 ~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
.++||+.+++..||..+||+..||..||-|.|.|
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 4799999999999999999999999999999875
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=98.25 E-value=2.5e-06 Score=58.10 Aligned_cols=44 Identities=57% Similarity=0.887 Sum_probs=41.5
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 155 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 155 (264)
++++++|+.|+..|+.|+.+|+.|.+||+.|++|+..|+.++..
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 47899999999999999999999999999999999999998863
No 32
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.18 E-value=7.8e-07 Score=80.70 Aligned_cols=60 Identities=25% Similarity=0.443 Sum_probs=55.7
Q ss_pred ccCCCCCCCCHHHHHHHHHhhh---hcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFE---VDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSK 112 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~---~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk 112 (264)
..+||||.|+..-.++|..+|- .++||+.+.+++||+++|++..||-.||.|+|-++||.
T Consensus 187 darRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~ 249 (334)
T KOG0774|consen 187 DARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKN 249 (334)
T ss_pred HHHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhh
Confidence 4678888899999999999995 68999999999999999999999999999999999974
No 33
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.85 E-value=1.5e-05 Score=69.91 Aligned_cols=59 Identities=41% Similarity=0.673 Sum_probs=53.9
Q ss_pred CCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 55 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 55 ~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
++.++.++..|+..|...|....+|+...+..|+..+|++++.|++||+|+|++.++..
T Consensus 154 ~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~ 212 (235)
T KOG0490|consen 154 RRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHK 212 (235)
T ss_pred CCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhc
Confidence 34445699999999999999999999999999999999999999999999999999865
No 34
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.83 E-value=2.6e-05 Score=77.17 Aligned_cols=56 Identities=18% Similarity=0.291 Sum_probs=50.6
Q ss_pred cCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHh
Q 024675 54 ATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARL 109 (264)
Q Consensus 54 ~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~ 109 (264)
.|+.|..||..|.+.|.++|+.+++|+.+..+.|+.+|||...-|..||-|-|.|.
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 34444459999999999999999999999999999999999999999999988764
No 35
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=97.36 E-value=0.00018 Score=77.14 Aligned_cols=62 Identities=29% Similarity=0.398 Sum_probs=57.4
Q ss_pred ccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHH
Q 024675 53 QATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKEL 114 (264)
Q Consensus 53 ~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~ 114 (264)
..+++|++++..||+++..+|....+|...+.+.|...+++..+.|+|||||-|+|.|+..+
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 34567788999999999999999999999999999999999999999999999999998765
No 36
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=96.37 E-value=0.0037 Score=44.42 Aligned_cols=41 Identities=20% Similarity=0.429 Sum_probs=31.2
Q ss_pred HHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 66 VKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 66 l~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
+..|+..|...+.+.......|..+.+|+..||+.||--|+
T Consensus 10 ~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~~ 50 (56)
T PF11569_consen 10 IQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAERM 50 (56)
T ss_dssp -HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHHS
T ss_pred hHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHhc
Confidence 45699999999999999999999999999999999997654
No 37
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=95.96 E-value=0.0047 Score=58.19 Aligned_cols=57 Identities=30% Similarity=0.396 Sum_probs=48.0
Q ss_pred CCCCCCHHHHHHHHHhhh---hcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 57 KKRRLTVDQVKALEKNFE---VDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~---~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
+++.+....+.+|+.+.. ..+||+..++..||+++||+..||..||-|.|-|..+--
T Consensus 242 ~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~ 301 (342)
T KOG0773|consen 242 PQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPM 301 (342)
T ss_pred CCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCch
Confidence 344599999999997743 357999999999999999999999999999988777644
No 38
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=94.54 E-value=0.057 Score=55.73 Aligned_cols=52 Identities=19% Similarity=0.363 Sum_probs=46.6
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
|+.. +..|...|..|..|+.++...+|...||+.+.|++||+++++......
T Consensus 564 ~~~p-~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~sv~ 615 (1007)
T KOG3623|consen 564 FNHP-TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMSVE 615 (1007)
T ss_pred cCCc-HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhhhc
Confidence 4443 788999999999999999999999999999999999999999887654
No 39
>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=94.53 E-value=0.1 Score=35.43 Aligned_cols=36 Identities=33% Similarity=0.608 Sum_probs=31.8
Q ss_pred hHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 024675 120 LLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 155 (264)
Q Consensus 120 ~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 155 (264)
.+...|+.|+..|+.|+.++++|..|+..|++.+..
T Consensus 2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~ 37 (45)
T PF02183_consen 2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQE 37 (45)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999999999999999999998753
No 40
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=94.00 E-value=0.55 Score=37.82 Aligned_cols=94 Identities=20% Similarity=0.195 Sum_probs=51.3
Q ss_pred CCCCCCCHHHHHHH-HHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHH
Q 024675 56 EKKRRLTVDQVKAL-EKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNN 134 (264)
Q Consensus 56 rkrrr~t~~Ql~~L-E~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~ 134 (264)
.++++++.+..... ...+. +. ....++|.++||++..|..|.+--+......-..............+..++..
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~-~g----~sv~evA~e~gIs~~tl~~W~r~y~~~~~~~~~~~~~~~~~~~~~~~~~ei~~ 82 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFE-PG----MTVSLVARQHGVAASQLFLWRKQYQEGSLTAVAAGEQVVPASELAAAMKQIKE 82 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHc-CC----CCHHHHHHHHCcCHHHHHHHHHHHhhcccccccccccCCchhHHHHHHHHHHH
Confidence 45667888765433 33333 22 23457899999999999999654322100000000000001112234556667
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 024675 135 LQQENEALTAELRELKAKLC 154 (264)
Q Consensus 135 l~~en~~l~~e~~~l~~~l~ 154 (264)
|++++..|+.|+.=||.++.
T Consensus 83 L~~el~~L~~E~diLKKa~~ 102 (121)
T PRK09413 83 LQRLLGKKTMENELLKEAVE 102 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 77777777777777777764
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=92.61 E-value=0.28 Score=34.14 Aligned_cols=47 Identities=21% Similarity=0.415 Sum_probs=34.4
Q ss_pred CCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 55 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 55 ~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
+++|+.+|.++...+-..++... ....||..+|++..+|..|..|+.
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 46777899998877777777665 467899999999999999998853
No 42
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=91.20 E-value=1.1 Score=40.76 Aligned_cols=40 Identities=28% Similarity=0.314 Sum_probs=23.5
Q ss_pred HHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 115 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 115 e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
+.+..-|-..+..|+.+++.|+..|+.|..++.+|...|.
T Consensus 96 e~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le 135 (292)
T KOG4005|consen 96 EYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELE 135 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 3344455556666666666666666666665555555543
No 43
>smart00340 HALZ homeobox associated leucin zipper.
Probab=90.70 E-value=0.67 Score=31.10 Aligned_cols=27 Identities=33% Similarity=0.491 Sum_probs=21.7
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 125 YDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 125 ~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
++-|+..++.|..||.+|+.|+++|++
T Consensus 7 Ce~LKrcce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 7 CELLKRCCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345667788888899999999998886
No 44
>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=89.33 E-value=2.5 Score=30.16 Aligned_cols=36 Identities=25% Similarity=0.355 Sum_probs=24.6
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAK 152 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 152 (264)
....|......|..+++.|..++..|..++..|+..
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 455666666777777777777777777777766654
No 45
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=88.17 E-value=14 Score=30.74 Aligned_cols=84 Identities=23% Similarity=0.262 Sum_probs=57.3
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHH-HHhCCChHHHhhhhHHHHHHhhH-------HHHHHHHhhHHHhhHHHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLA-EELGLQPRQIAVWFQNRRARLKS-------KELERDYGLLKANYDALR 129 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA-~~lgL~~rqVqvWFQNRRak~Kr-------k~~e~~~~~lk~~~~~l~ 129 (264)
..+|+.++|..+ ..| +|= ..-|++...|-.|=|.||+-.-| -+.-..-..|......|.
T Consensus 21 ~d~lsDd~Lvsm------------SVR-eLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~ 87 (135)
T KOG4196|consen 21 GDRLSDDELVSM------------SVR-ELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQ 87 (135)
T ss_pred CCCcCHHHHHHh------------hHH-HHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357888877665 222 333 33489999999999999863322 122234455666677778
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 130 LDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 130 ~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+.+.|..||..+..|+..++.+..
T Consensus 88 qqv~~L~~e~s~~~~E~da~k~k~e 112 (135)
T KOG4196|consen 88 QQVEKLKEENSRLRRELDAYKSKYE 112 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888888888888887763
No 46
>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=82.30 E-value=5.9 Score=31.68 Aligned_cols=46 Identities=26% Similarity=0.402 Sum_probs=35.5
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQEN 157 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~ 157 (264)
.+++.....+-.....|+.....|..||..|+-|+..|+..|....
T Consensus 11 ~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~ 56 (107)
T PF06156_consen 11 DQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELE 56 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3556667777777788888888888888888888888888886443
No 47
>smart00340 HALZ homeobox associated leucin zipper.
Probab=81.24 E-value=3.4 Score=27.77 Aligned_cols=32 Identities=34% Similarity=0.396 Sum_probs=21.8
Q ss_pred HHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHH
Q 024675 113 ELERDYGLLKANYDALRLDYNNLQQENEALTA 144 (264)
Q Consensus 113 ~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~ 144 (264)
+++-+++-||.-++.|..+|..|++|.+.|++
T Consensus 2 QTEvdCe~LKrcce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 2 QTEVDCELLKRCCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667777777777777777777777655543
No 48
>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=80.97 E-value=9.8 Score=28.31 Aligned_cols=34 Identities=35% Similarity=0.496 Sum_probs=15.0
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 118 YGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
+..|+...+.|+.++..+..+|+.|..|+..|+.
T Consensus 20 i~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~ 53 (72)
T PF06005_consen 20 IALLQMENEELKEKNNELKEENEELKEENEQLKQ 53 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444444444443
No 49
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=80.50 E-value=7.4 Score=36.44 Aligned_cols=49 Identities=20% Similarity=0.312 Sum_probs=38.4
Q ss_pred HHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 107 ARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 107 ak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
+|+|.++ +.+.+.+......|...|+.|+.+...|..|++.||..+.+.
T Consensus 240 tRYRqKk-Rae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 240 TRYRQKK-RAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444433 446677888888999999999999999999999999988643
No 50
>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=77.89 E-value=13 Score=26.43 Aligned_cols=32 Identities=34% Similarity=0.496 Sum_probs=16.1
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
+.....|......|..+|..|..++..|+..+
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~ 56 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKELEQLKKEI 56 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555555555555554443
No 51
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=77.82 E-value=11 Score=30.27 Aligned_cols=44 Identities=32% Similarity=0.485 Sum_probs=33.5
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 155 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 155 (264)
.+++.....+-.....|+.....|..||..|+-|+..|+..|.+
T Consensus 11 ~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~ 54 (110)
T PRK13169 11 DDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEE 54 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667777777778888888888888888888888888864
No 52
>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=77.81 E-value=18 Score=26.86 Aligned_cols=44 Identities=25% Similarity=0.315 Sum_probs=31.4
Q ss_pred HHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 111 SKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 111 rk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
-..++.+.+.|+..+..|..++..|+.+|+.|+.+-...+.++.
T Consensus 20 i~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~ 63 (72)
T PF06005_consen 20 IALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLR 63 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777777777777788888877777666666553
No 53
>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=76.58 E-value=4.9 Score=28.17 Aligned_cols=39 Identities=28% Similarity=0.307 Sum_probs=32.2
Q ss_pred CCHHHHHHHHHhhhhcCC--CCHHHHHHHHHHhCCChHHHh
Q 024675 61 LTVDQVKALEKNFEVDNK--LEPDRKVKLAEELGLQPRQIA 99 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~--p~~~~r~~LA~~lgL~~rqVq 99 (264)
+|..|..+|...|...-| |-.....+||.+||+++.-|-
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 588999999999998766 555666899999999987654
No 54
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=75.62 E-value=9.5 Score=30.74 Aligned_cols=43 Identities=33% Similarity=0.486 Sum_probs=37.3
Q ss_pred HHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 024675 113 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 155 (264)
Q Consensus 113 ~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 155 (264)
.++....++-+....++.....+..||-.|+-|+..|+++|..
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 4566777788888889999999999999999999999999975
No 55
>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=74.42 E-value=7.2 Score=24.93 Aligned_cols=44 Identities=14% Similarity=0.170 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
.+++.+..++...|... ....++|..+|++...|..|....+.+
T Consensus 10 ~l~~~~~~~~~~~~~~~-----~~~~~ia~~~~~s~~~i~~~~~~~~~~ 53 (55)
T cd06171 10 KLPEREREVILLRFGEG-----LSYEEIAEILGISRSTVRQRLHRALKK 53 (55)
T ss_pred hCCHHHHHHHHHHHhcC-----CCHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 36777777887776422 235678999999999999998765443
No 56
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=73.94 E-value=10 Score=34.93 Aligned_cols=46 Identities=24% Similarity=0.287 Sum_probs=28.6
Q ss_pred HHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 106 RARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 106 Rak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
|.|.++++.+ ..++....-|..+++.|+.+++.|+.|+..|+..+.
T Consensus 208 kSR~~~k~~~---~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~ 253 (269)
T KOG3119|consen 208 KSRDKRKQKE---DEMAHRVAELEKENEALRTQVEQLKKELATLRRLFL 253 (269)
T ss_pred HhhhhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455554433 333444455667777777777777777777777664
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=73.82 E-value=12 Score=24.88 Aligned_cols=40 Identities=15% Similarity=0.270 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQN 104 (264)
.+++.+..+|...| .....-.++|..+|++...|+.+...
T Consensus 4 ~L~~~er~vi~~~y-----~~~~t~~eIa~~lg~s~~~V~~~~~~ 43 (50)
T PF04545_consen 4 QLPPREREVIRLRY-----FEGLTLEEIAERLGISRSTVRRILKR 43 (50)
T ss_dssp TS-HHHHHHHHHHH-----TST-SHHHHHHHHTSCHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHh-----cCCCCHHHHHHHHCCcHHHHHHHHHH
Confidence 47888899999888 22334568999999999999877643
No 58
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=73.51 E-value=8.2 Score=30.61 Aligned_cols=49 Identities=27% Similarity=0.378 Sum_probs=30.1
Q ss_pred hHHHhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 95 PRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 95 ~rqVqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
--++..||++.-- ..+..++.....++.+++.++.+|+.|..|+..|+.
T Consensus 14 ~l~y~l~~g~~G~--------~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 14 WLQYSLWFGKNGI--------LDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHhccCCcH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3456688865311 112233444556677777777888888888877776
No 59
>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=73.45 E-value=3 Score=30.02 Aligned_cols=46 Identities=17% Similarity=0.342 Sum_probs=29.2
Q ss_pred CCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHH
Q 024675 56 EKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNR 105 (264)
Q Consensus 56 rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNR 105 (264)
+++++||+++...+-..+.. .......+|..+||++.+|..|-.--
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~----~g~sv~~va~~~gi~~~~l~~W~~~~ 47 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLE----SGESVSEVAREYGISPSTLYNWRKQY 47 (76)
T ss_dssp -SS----HHHHHHHHHHHHH----HHCHHHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHH----CCCceEeeecccccccccccHHHHHH
Confidence 45677999887776665521 23556789999999999999997543
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=71.56 E-value=13 Score=29.77 Aligned_cols=40 Identities=30% Similarity=0.343 Sum_probs=35.3
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
..+-.+.+.||.....|..+|..|+.||+.|++.+.++..
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 4566788899999999999999999999999999888877
No 61
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=70.92 E-value=26 Score=36.77 Aligned_cols=71 Identities=27% Similarity=0.280 Sum_probs=41.3
Q ss_pred HHHHHhCCChHHHhhhhHHHHHHhhHHHHHH---HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 86 KLAEELGLQPRQIAVWFQNRRARLKSKELER---DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 86 ~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~---~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
.|+..++|....++.-.-..-+-.-++.+++ ....++..|..++.+.+.|+..-..|..+++++|.++...
T Consensus 692 lL~~~~~l~s~~~q~sllraE~~~l~~~le~e~nr~~~~~~e~~~~qeE~~~l~~r~~~le~e~r~~k~~~~q~ 765 (961)
T KOG4673|consen 692 LLSLNFSLPSSPIQLSLLRAEQGQLSKSLEKERNRAAENRQEYLAAQEEADTLEGRANQLEVEIRELKRKHKQE 765 (961)
T ss_pred HHHHhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677788877666654422221112222222 2234455666777777777777777777777777777543
No 62
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=69.43 E-value=15 Score=29.65 Aligned_cols=40 Identities=33% Similarity=0.419 Sum_probs=35.1
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
..+-.+.+.||.....|..+|..|+.||+.|++.+.++..
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 3566788899999999999999999999999999998854
No 63
>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=69.15 E-value=7 Score=37.33 Aligned_cols=30 Identities=30% Similarity=0.482 Sum_probs=19.5
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 125 YDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 125 ~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.-+|+.||.+|++||+.|+.|+.+|++.+-
T Consensus 34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 34 NFALRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 345666777777777777777766665543
No 64
>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=68.25 E-value=33 Score=26.09 Aligned_cols=42 Identities=26% Similarity=0.309 Sum_probs=22.4
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
..+.++...|+.....|-...+..+.+++.|..|++-|+.=+
T Consensus 19 ~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI 60 (80)
T PF10224_consen 19 EELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYI 60 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555555555555555555555444
No 65
>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=68.19 E-value=23 Score=24.37 Aligned_cols=30 Identities=30% Similarity=0.481 Sum_probs=19.1
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
+.....+......|..+|..|..++..|+.
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 334455666666677777777777766653
No 66
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=68.18 E-value=7.4 Score=26.92 Aligned_cols=39 Identities=15% Similarity=0.205 Sum_probs=24.0
Q ss_pred HHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHHHHhhH
Q 024675 83 RKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDYGLL 121 (264)
Q Consensus 83 ~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~~~~~l 121 (264)
....||+.+|++...|..|+.++.....-..+.+-+..|
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~~~~~~~~l~~ia~~l 50 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKPSNPSLDTLEKIAKAL 50 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-----HHHHHHHHHHH
T ss_pred CHHHHHHHHCcCHHHHHHHHhcccccccHHHHHHHHHHc
Confidence 356899999999999999999886666665555544444
No 67
>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=67.80 E-value=21 Score=32.63 Aligned_cols=48 Identities=25% Similarity=0.384 Sum_probs=36.9
Q ss_pred HHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 104 NRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 104 NRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
.=|-|.|-..+|++...++.....|+.+.+.|+.+|..|.+.++=|..
T Consensus 88 RDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqS 135 (248)
T PF08172_consen 88 RDRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQS 135 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 335566667788888888888888888888888888888887765544
No 68
>PF15058 Speriolin_N: Speriolin N terminus
Probab=65.50 E-value=8.9 Score=33.91 Aligned_cols=34 Identities=41% Similarity=0.576 Sum_probs=18.7
Q ss_pred HhhHHHHHHhHHHHHHHHHHHH------HHHHHHHHHhhh
Q 024675 123 ANYDALRLDYNNLQQENEALTA------ELRELKAKLCQE 156 (264)
Q Consensus 123 ~~~~~l~~~~~~l~~en~~l~~------e~~~l~~~l~~~ 156 (264)
..|+.|++.++.|..||+.|++ |+.+||.+|.+.
T Consensus 5 ~~yeGlrhqierLv~ENeeLKKlVrLirEN~eLksaL~ea 44 (200)
T PF15058_consen 5 TNYEGLRHQIERLVRENEELKKLVRLIRENHELKSALGEA 44 (200)
T ss_pred cchHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455555555555555555555 445666665543
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=65.16 E-value=22 Score=20.04 Aligned_cols=39 Identities=15% Similarity=0.342 Sum_probs=27.0
Q ss_pred CCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhh
Q 024675 59 RRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWF 102 (264)
Q Consensus 59 rr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWF 102 (264)
+.++..+...+...|.... ....+|..+|++...|..|.
T Consensus 4 ~~~~~~~~~~i~~~~~~~~-----s~~~ia~~~~is~~tv~~~~ 42 (42)
T cd00569 4 PKLTPEQIEEARRLLAAGE-----SVAEIARRLGVSRSTLYRYL 42 (42)
T ss_pred CcCCHHHHHHHHHHHHcCC-----CHHHHHHHHCCCHHHHHHhC
Confidence 3466666666666665322 45678999999999888773
No 70
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=64.72 E-value=29 Score=34.45 Aligned_cols=29 Identities=24% Similarity=0.420 Sum_probs=21.0
Q ss_pred HHhhhh---HHHHHHhhHHHHHHHHhhHHHhh
Q 024675 97 QIAVWF---QNRRARLKSKELERDYGLLKANY 125 (264)
Q Consensus 97 qVqvWF---QNRRak~Krk~~e~~~~~lk~~~ 125 (264)
..-+|| ||+.+|.+-.++.++.+.|+..-
T Consensus 227 v~gcw~ay~Qnk~akehv~km~kdle~Lq~aE 258 (575)
T KOG4403|consen 227 VGGCWFAYRQNKKAKEHVNKMMKDLEGLQRAE 258 (575)
T ss_pred hhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 345798 99999988877777766665443
No 71
>smart00338 BRLZ basic region leucin zipper.
Probab=64.63 E-value=47 Score=23.45 Aligned_cols=37 Identities=30% Similarity=0.430 Sum_probs=23.3
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
....|......|..++..|..+...|..|+..|+..+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455555666666666666666666666666666544
No 72
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=63.43 E-value=25 Score=35.78 Aligned_cols=32 Identities=34% Similarity=0.364 Sum_probs=16.3
Q ss_pred hhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHH
Q 024675 119 GLLKANYDALRLDYNNLQQENEALTAELRELK 150 (264)
Q Consensus 119 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~ 150 (264)
..|++...+|..|++.|+.||..|+.+|..|.
T Consensus 305 ~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~ 336 (655)
T KOG4343|consen 305 LGLEARLQALLSENEQLKKENATLKRQLDELV 336 (655)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence 44555555555555555555555555544443
No 73
>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=62.93 E-value=6.4 Score=28.37 Aligned_cols=19 Identities=32% Similarity=0.548 Sum_probs=16.8
Q ss_pred HHHHHHHhCCChHHHhhhh
Q 024675 84 KVKLAEELGLQPRQIAVWF 102 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWF 102 (264)
-.+||.+||+++.+|+.|=
T Consensus 25 lkdIA~~Lgvs~~tIr~WK 43 (60)
T PF10668_consen 25 LKDIAEKLGVSESTIRKWK 43 (60)
T ss_pred HHHHHHHHCCCHHHHHHHh
Confidence 4578999999999999983
No 74
>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=62.25 E-value=63 Score=24.31 Aligned_cols=70 Identities=26% Similarity=0.329 Sum_probs=39.7
Q ss_pred HHHHHHHhCCChHHHhhhhHHHHHHhhH----------HHHH--HHHhhHHH----hhHHHHHHhHHHHHHHHHHHHHHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQNRRARLKS----------KELE--RDYGLLKA----NYDALRLDYNNLQQENEALTAELR 147 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQNRRak~Kr----------k~~e--~~~~~lk~----~~~~l~~~~~~l~~en~~l~~e~~ 147 (264)
..++|+.+|++++.|+.|-+..--+-.+ .... +....|+. ..+.++. .=.|..+.+.|++++.
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 4578999999999999997542211100 0100 11111111 1122222 2237888888888998
Q ss_pred HHHHHHh
Q 024675 148 ELKAKLC 154 (264)
Q Consensus 148 ~l~~~l~ 154 (264)
+|++++.
T Consensus 83 ~l~~~~~ 89 (91)
T cd04766 83 ELRARLR 89 (91)
T ss_pred HHHHHhc
Confidence 8888875
No 75
>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=60.62 E-value=47 Score=24.32 Aligned_cols=36 Identities=17% Similarity=0.145 Sum_probs=16.3
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 118 YGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.+.|-..+..|+.+|..|+.+...+..|-..|.++.
T Consensus 9 le~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 9 VEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444444444433
No 76
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=59.34 E-value=55 Score=34.60 Aligned_cols=48 Identities=25% Similarity=0.362 Sum_probs=42.1
Q ss_pred HHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 107 ARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 107 ak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
|..++..+.++.+.++..++.+..+.+.|..+++.|+.|+..|+....
T Consensus 214 Ale~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~~~~ 261 (916)
T KOG0249|consen 214 ALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRRSSL 261 (916)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 566777888899999999999999999999999999999999996443
No 77
>smart00338 BRLZ basic region leucin zipper.
Probab=58.96 E-value=44 Score=23.64 Aligned_cols=32 Identities=34% Similarity=0.520 Sum_probs=18.3
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
+.....|......|..+|..|..++..|...+
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~ 56 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKEIERLRREL 56 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555666666666666665555544
No 78
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=58.85 E-value=19 Score=33.87 Aligned_cols=31 Identities=32% Similarity=0.502 Sum_probs=24.7
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 126 DALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 126 ~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
+.|.-...-|..+|..|-+||+.||+--|.+
T Consensus 315 KCLENRVAVLENQNKaLIEELKtLKeLYc~k 345 (348)
T KOG3584|consen 315 KCLENRVAVLENQNKALIEELKTLKELYCHK 345 (348)
T ss_pred HHHHhHHHHHhcccHHHHHHHHHHHHHhhcc
Confidence 5555556668899999999999999987754
No 79
>PRK14127 cell division protein GpsB; Provisional
Probab=58.76 E-value=31 Score=27.72 Aligned_cols=28 Identities=36% Similarity=0.413 Sum_probs=13.7
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 127 ALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 127 ~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+-.+++.+..++..|++++.+|+.++.
T Consensus 34 ~V~~dye~l~~e~~~Lk~e~~~l~~~l~ 61 (109)
T PRK14127 34 DVIKDYEAFQKEIEELQQENARLKAQVD 61 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444445555555555555555443
No 80
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=58.13 E-value=21 Score=31.31 Aligned_cols=47 Identities=26% Similarity=0.249 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHhhhhcCC--CCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNK--LEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~--p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
.+|..|+.+|..+|...-| |-.....+||+++|+++.-+ |.-=|||.
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~--~ehLRrAe 203 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTL--SEHLRRAE 203 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHH--HHHHHHHH
Confidence 4999999999999998765 66666689999999998653 33334443
No 81
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.77 E-value=50 Score=24.72 Aligned_cols=35 Identities=31% Similarity=0.387 Sum_probs=14.2
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
+.+.||..+..|..+...++..++.|..|+..|+.
T Consensus 26 EieELKEknn~l~~e~q~~q~~reaL~~eneqlk~ 60 (79)
T COG3074 26 EIEELKEKNNSLSQEVQNAQHQREALERENEQLKE 60 (79)
T ss_pred HHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444443333333333444444433333
No 82
>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=57.26 E-value=28 Score=25.04 Aligned_cols=28 Identities=29% Similarity=0.489 Sum_probs=17.5
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELREL 149 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l 149 (264)
+.....++.+.+.++.+|+.|+.+++.|
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 3344555666666666677777766666
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=56.06 E-value=27 Score=25.03 Aligned_cols=44 Identities=23% Similarity=0.423 Sum_probs=22.0
Q ss_pred CCCCCHHH-HHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhH
Q 024675 58 KRRLTVDQ-VKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQ 103 (264)
Q Consensus 58 rrr~t~~Q-l~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQ 103 (264)
|+.|+..- |.+++.++. ...--...| ..|.++|++.++|+-|-+
T Consensus 3 rrsy~~~FKL~Vv~~a~~-~~nc~~~~R-Aaarkf~V~r~~Vr~W~k 47 (58)
T PF09607_consen 3 RRSYTAEFKLKVVEYAEK-DNNCKGNQR-AAARKFNVSRRQVRKWRK 47 (58)
T ss_dssp -----HHHHHHHHHHHHH--TTTTT-HH-HHHHHTTS-HHHHHHHHT
T ss_pred ccccChHHHHHHHHHHHH-ccchhhhHH-HHHHHhCccHHHHHHHHH
Confidence 34455543 445544443 322222233 349999999999999964
No 84
>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=55.46 E-value=69 Score=33.98 Aligned_cols=21 Identities=14% Similarity=0.165 Sum_probs=15.4
Q ss_pred CCHHHHHHHHHHhCCChHHHh
Q 024675 79 LEPDRKVKLAEELGLQPRQIA 99 (264)
Q Consensus 79 p~~~~r~~LA~~lgL~~rqVq 99 (264)
|....=..+|+.+||++..|.
T Consensus 480 ~g~S~a~~iA~~~Glp~~ii~ 500 (771)
T TIGR01069 480 PGESYAFEIAQRYGIPHFIIE 500 (771)
T ss_pred CCCcHHHHHHHHhCcCHHHHH
Confidence 333444678999999998876
No 85
>PRK14127 cell division protein GpsB; Provisional
Probab=55.34 E-value=34 Score=27.52 Aligned_cols=39 Identities=28% Similarity=0.433 Sum_probs=32.3
Q ss_pred HHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 116 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 116 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+....-..|+.+..++..|+.++..|++++.+++.++.
T Consensus 30 ~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 30 KFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 344555667788888999999999999999999999885
No 86
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=54.05 E-value=49 Score=31.84 Aligned_cols=48 Identities=21% Similarity=0.315 Sum_probs=30.5
Q ss_pred HHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 106 RARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 106 Rak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
|.+.+-.++..+.+.++...+.|+.....|+.+.+.|..++..|+.+.
T Consensus 222 r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~ni 269 (365)
T KOG2391|consen 222 RREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNI 269 (365)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhh
Confidence 444444455556666666667777777777777777776666666554
No 87
>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=53.59 E-value=84 Score=23.90 Aligned_cols=42 Identities=21% Similarity=0.298 Sum_probs=35.5
Q ss_pred hHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 110 KSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 110 Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
....++.....|-...+.++.+++.|..+|+-|+.=+..|-.
T Consensus 24 ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~ 65 (80)
T PF10224_consen 24 EILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMS 65 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334566777888889999999999999999999999888854
No 88
>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=53.47 E-value=1e+02 Score=26.31 Aligned_cols=105 Identities=25% Similarity=0.240 Sum_probs=55.2
Q ss_pred CchhhhhhcccchhhhhhhhcccCCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 32 GREFQAMMDCLEEEDCREEASQATEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 32 ~~~f~~~~d~~~~~~~~~~~~~~~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
|.+|+.+.+.++.+-..+=. .+...-+..|+.++..+........ .|- ...-+.=.+.+|-|..+
T Consensus 9 g~EfE~lId~~G~e~v~~Lm--------P~VV~vLE~Le~~~~~n~~~~~e~~-~L~------~d~e~L~~q~~~ek~~r 73 (158)
T PF09744_consen 9 GKEFERLIDRYGEEAVKGLM--------PKVVRVLELLESLASRNQEHEVELE-LLR------EDNEQLETQYEREKELR 73 (158)
T ss_pred HHHHHHHHHHhChhHHHHHH--------HHHHHHHHHHHHHHHhhhhhhhHHH-HHH------HHHHHHHHHHHHHHHHH
Confidence 67888888777665332111 1233456666667776663333211 111 11122233455666566
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
++.+..+.. .-+....+...|....+.|+++++.|..++.
T Consensus 74 ~~~e~~l~~---~Ed~~~~e~k~L~~~v~~Le~e~r~L~~~~~ 113 (158)
T PF09744_consen 74 KQAEEELLE---LEDQWRQERKDLQSQVEQLEEENRQLELKLK 113 (158)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 555544332 2345556666666667777777766665553
No 89
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.40 E-value=55 Score=24.47 Aligned_cols=44 Identities=20% Similarity=0.309 Sum_probs=19.3
Q ss_pred HhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 108 RLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 108 k~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
|.|..++..+....+...++|..+++.|+.+...-++-++.|-.
T Consensus 31 KEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsLLG 74 (79)
T COG3074 31 KEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRALLG 74 (79)
T ss_pred HHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444444444444444444444444444444433
No 90
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=52.08 E-value=87 Score=22.98 Aligned_cols=24 Identities=46% Similarity=0.585 Sum_probs=13.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHH
Q 024675 127 ALRLDYNNLQQENEALTAELRELK 150 (264)
Q Consensus 127 ~l~~~~~~l~~en~~l~~e~~~l~ 150 (264)
.+-.++..|+.+++.|++|++.++
T Consensus 44 ~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 44 DAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344455556666666666655443
No 91
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=52.00 E-value=50 Score=27.70 Aligned_cols=48 Identities=19% Similarity=0.209 Sum_probs=35.8
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
...+++.|..+|.. +. .. ....++|..||++...|..|-.+.+.+.++
T Consensus 4 ~~~Lt~rqreVL~l-r~--~G---lTq~EIAe~LGiS~~tVs~ie~ra~kkLr~ 51 (141)
T PRK03975 4 ESFLTERQIEVLRL-RE--RG---LTQQEIADILGTSRANVSSIEKRARENIEK 51 (141)
T ss_pred ccCCCHHHHHHHHH-HH--cC---CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 45689999999977 32 11 234589999999999999999866655444
No 92
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=51.83 E-value=76 Score=24.18 Aligned_cols=15 Identities=20% Similarity=0.295 Sum_probs=6.0
Q ss_pred HHhhHHHhhHHHHHH
Q 024675 117 DYGLLKANYDALRLD 131 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~ 131 (264)
+.+.||..+..|..+
T Consensus 26 EieELKekn~~L~~e 40 (79)
T PRK15422 26 EIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444443
No 93
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=51.81 E-value=37 Score=30.88 Aligned_cols=37 Identities=22% Similarity=0.211 Sum_probs=22.1
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHH---HHHHHHHHHHHHHh
Q 024675 118 YGLLKANYDALRLDYNNLQQENE---ALTAELRELKAKLC 154 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~---~l~~e~~~l~~~l~ 154 (264)
+..+++.++.|+.++..|+.++. .+++|+.+|++.|.
T Consensus 71 ~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~ 110 (276)
T PRK13922 71 LFDLREENEELKKELLELESRLQELEQLEAENARLRELLN 110 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455555555555555555555 55667777777665
No 94
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=51.25 E-value=25 Score=31.17 Aligned_cols=41 Identities=29% Similarity=0.494 Sum_probs=34.7
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 024675 118 YGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQENE 158 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~ 158 (264)
...+...|+.|+.+++.|..++..|+.|+.+|+..+.....
T Consensus 107 ~kqlE~d~~~Lk~~~~~l~~~~~~Lq~e~~eL~~~~~~~~~ 147 (198)
T KOG0483|consen 107 TKQLEKDYESLKRQLESLRSENDRLQSEVQELVAELSSLKR 147 (198)
T ss_pred chhhhhhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhh
Confidence 34567788999999999999999999999999998864433
No 95
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=50.92 E-value=77 Score=26.59 Aligned_cols=38 Identities=26% Similarity=0.467 Sum_probs=17.3
Q ss_pred HHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 116 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 116 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.....+-.....|..+.+.++.+++.|..+++..+.++
T Consensus 59 ~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv 96 (140)
T PF10473_consen 59 EELEELTSELNQLELELDTLRSEKENLDKELQKKQEKV 96 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444444444444444
No 96
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=50.88 E-value=17 Score=40.55 Aligned_cols=59 Identities=15% Similarity=0.187 Sum_probs=52.4
Q ss_pred CCCCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 55 TEKKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 55 ~rkrrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
+.-+..+-.+++..|-.+|-.+..|+...+..|....+.+.+++.+||+|-|.|.++..
T Consensus 706 ~~~~~~~~~~aa~~l~~a~~~~~sps~k~~~civcd~~st~~l~~l~~h~~~~rs~ke~ 764 (1406)
T KOG1146|consen 706 KLLRLTILPEAAMILGRAYMQDNSPSLKVFDCIVCDVFSTDRLDQLWFHNTRERSRKEQ 764 (1406)
T ss_pred ccCcccccHHHHhhhhhcccCCCCHHHHHHHHhhhhhhhhhhHHHHhhcchhhhhhhhc
Confidence 33444566799999999999999999999999999999999999999999999988765
No 97
>PRK10884 SH3 domain-containing protein; Provisional
Probab=50.71 E-value=83 Score=27.96 Aligned_cols=31 Identities=19% Similarity=0.205 Sum_probs=14.2
Q ss_pred HHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 121 LKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 121 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
|+..+..|+.+...++.+++.|.+++..++.
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~ 167 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQR 167 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444444444443
No 98
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=50.61 E-value=86 Score=33.29 Aligned_cols=20 Identities=25% Similarity=0.373 Sum_probs=15.3
Q ss_pred HHHHHHHHHHhCCChHHHhh
Q 024675 81 PDRKVKLAEELGLQPRQIAV 100 (264)
Q Consensus 81 ~~~r~~LA~~lgL~~rqVqv 100 (264)
...=..+|+.+||++..|..
T Consensus 487 ~S~a~~iA~~~Glp~~ii~~ 506 (782)
T PRK00409 487 KSNAFEIAKRLGLPENIIEE 506 (782)
T ss_pred CcHHHHHHHHhCcCHHHHHH
Confidence 33446789999999998863
No 99
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=50.12 E-value=48 Score=23.71 Aligned_cols=30 Identities=37% Similarity=0.475 Sum_probs=22.3
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 125 YDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 125 ~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
|..+..+...+..|++.|.+++.+|+.-|.
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 344556777788888888888888887664
No 100
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=49.80 E-value=57 Score=32.60 Aligned_cols=88 Identities=18% Similarity=0.324 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHh-hhhc-CCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhHHHHHHHH-hhHHHhh-------HHHH
Q 024675 60 RLTVDQVKALEKN-FEVD-NKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKSKELERDY-GLLKANY-------DALR 129 (264)
Q Consensus 60 r~t~~Ql~~LE~~-F~~~-~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Krk~~e~~~-~~lk~~~-------~~l~ 129 (264)
++|.+....|.+. |... .+|-...-+++-+ +|+.=.+|+|.+.-.++..++| +.|...+ ..|+
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 4777777766654 3322 2333333333322 3444445655433222222222 4444444 4445
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 130 LDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 130 ~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.....|..+|+.|.++|+.|+..+.
T Consensus 293 kkV~~Le~~N~sLl~qL~klQt~v~ 317 (472)
T KOG0709|consen 293 KKVEELELSNRSLLAQLKKLQTLVI 317 (472)
T ss_pred HHHHHHhhccHHHHHHHHHHHHHHh
Confidence 5555555555556666666655543
No 101
>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=49.37 E-value=83 Score=21.50 Aligned_cols=29 Identities=24% Similarity=0.224 Sum_probs=19.6
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAE 145 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e 145 (264)
....|......|..++..|..++..|+.|
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 44556666677777777777777777654
No 102
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=48.89 E-value=75 Score=25.10 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=14.3
Q ss_pred hhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHH
Q 024675 101 WFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQ 136 (264)
Q Consensus 101 WFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~ 136 (264)
|+..+.-+.+...++++...++..+..|+.+.+.|+
T Consensus 26 ~~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 26 ILDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 333333333333333444444444444444444333
No 103
>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=48.50 E-value=29 Score=26.25 Aligned_cols=22 Identities=41% Similarity=0.625 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 024675 134 NLQQENEALTAELRELKAKLCQ 155 (264)
Q Consensus 134 ~l~~en~~l~~e~~~l~~~l~~ 155 (264)
.|.++|..|+.|++.|++.|..
T Consensus 4 ei~eEn~~Lk~eiqkle~ELq~ 25 (76)
T PF07334_consen 4 EIQEENARLKEEIQKLEAELQQ 25 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666555543
No 104
>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=47.98 E-value=51 Score=28.38 Aligned_cols=32 Identities=31% Similarity=0.517 Sum_probs=15.5
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
+..+..|+.+...|+.+|+.|..|+..|+.++
T Consensus 103 ~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~ 134 (161)
T TIGR02894 103 QKENERLKNQNESLQKRNEELEKELEKLRQRL 134 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444455555555555555554444
No 105
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=47.73 E-value=88 Score=24.21 Aligned_cols=30 Identities=13% Similarity=0.235 Sum_probs=20.2
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 125 YDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 125 ~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
++.|..++..++.|.....+|++.-+.+-.
T Consensus 32 ~~kL~~en~qlk~Ek~~~~~qvkn~~vrqk 61 (87)
T PF10883_consen 32 NAKLQKENEQLKTEKAVAETQVKNAKVRQK 61 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666777777777777777777666553
No 106
>PRK10884 SH3 domain-containing protein; Provisional
Probab=47.49 E-value=70 Score=28.41 Aligned_cols=40 Identities=8% Similarity=0.099 Sum_probs=25.8
Q ss_pred HHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 115 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 115 e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.............|+.++..|+++.+.++.++..|+.++.
T Consensus 124 ~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~ 163 (206)
T PRK10884 124 QQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLD 163 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555666777777777777777777777666654
No 107
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=47.48 E-value=75 Score=29.91 Aligned_cols=36 Identities=19% Similarity=0.176 Sum_probs=19.1
Q ss_pred HHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHH
Q 024675 113 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRE 148 (264)
Q Consensus 113 ~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~ 148 (264)
.+..+++.|...++.||..-..+.+|..-|++-+.+
T Consensus 252 ~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e 287 (294)
T KOG4571|consen 252 ALLGELEGLEKRNEELKDQASELEREIRYLKQLILE 287 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555555555554433
No 108
>PF15058 Speriolin_N: Speriolin N terminus
Probab=46.44 E-value=46 Score=29.53 Aligned_cols=24 Identities=33% Similarity=0.461 Sum_probs=13.8
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 130 LDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 130 ~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
..|+.+++++++|-.|+.+||+.+
T Consensus 5 ~~yeGlrhqierLv~ENeeLKKlV 28 (200)
T PF15058_consen 5 TNYEGLRHQIERLVRENEELKKLV 28 (200)
T ss_pred cchHHHHHHHHHHHhhhHHHHHHH
Confidence 345555666666666666665544
No 109
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=46.37 E-value=32 Score=22.66 Aligned_cols=41 Identities=17% Similarity=0.211 Sum_probs=20.4
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQ 103 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQ 103 (264)
.+.||.++...++..+... .-..+||+.||.++.-|..|..
T Consensus 2 ~~~Lt~~eR~~I~~l~~~G-----~s~~~IA~~lg~s~sTV~relk 42 (44)
T PF13936_consen 2 YKHLTPEERNQIEALLEQG-----MSIREIAKRLGRSRSTVSRELK 42 (44)
T ss_dssp ----------HHHHHHCS--------HHHHHHHTT--HHHHHHHHH
T ss_pred ccchhhhHHHHHHHHHHcC-----CCHHHHHHHHCcCcHHHHHHHh
Confidence 3568888888888876533 3455799999999998887654
No 110
>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=46.37 E-value=1.3e+02 Score=23.01 Aligned_cols=35 Identities=20% Similarity=0.379 Sum_probs=25.9
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNR 105 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNR 105 (264)
++.|+..++..|.... ....+|++..+|+-++...
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 4569999998886432 2456799999998888654
No 111
>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=46.35 E-value=87 Score=22.23 Aligned_cols=33 Identities=9% Similarity=0.322 Sum_probs=14.9
Q ss_pred HHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHH
Q 024675 114 LERDYGLLKANYDALRLDYNNLQQENEALTAEL 146 (264)
Q Consensus 114 ~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~ 146 (264)
++.+...+......++.+++.++.+.+.+.+-+
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i~~~ve~i~env 37 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEISESVEKIEENV 37 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444433
No 112
>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=45.45 E-value=1.3e+02 Score=23.62 Aligned_cols=38 Identities=21% Similarity=0.340 Sum_probs=27.5
Q ss_pred CCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 57 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
..|.|+..++..|.. ....+.+|++-.+|+..+.....
T Consensus 34 ~yR~Y~~~d~~~l~~-------------I~~lr~~G~sl~eI~~~l~~~~~ 71 (116)
T cd04769 34 NYRVYDAQHVECLRF-------------IKEARQLGFTLAELKAIFAGHEG 71 (116)
T ss_pred CceeeCHHHHHHHHH-------------HHHHHHcCCCHHHHHHHHhcccc
Confidence 345688888887742 23368899999999998876554
No 113
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=45.24 E-value=90 Score=31.93 Aligned_cols=40 Identities=28% Similarity=0.159 Sum_probs=32.5
Q ss_pred hhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 024675 119 GLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQENE 158 (264)
Q Consensus 119 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~ 158 (264)
...|.....|+....+|..||+.|++|+..||.+|-.-..
T Consensus 298 kKKKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~ 337 (655)
T KOG4343|consen 298 KKKKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVS 337 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence 3445666888999999999999999999999999865444
No 114
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=45.16 E-value=83 Score=28.37 Aligned_cols=43 Identities=30% Similarity=0.529 Sum_probs=32.6
Q ss_pred HHhhHHHhh-HHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 024675 117 DYGLLKANY-DALRLDYNNLQQENEALTAELRELKAKLCQENEE 159 (264)
Q Consensus 117 ~~~~lk~~~-~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~~~~ 159 (264)
+...++... ...+.++..|+.|||.|.-+++++|..|..+...
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 344444443 4556789999999999999999999999866554
No 115
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=44.96 E-value=60 Score=22.12 Aligned_cols=46 Identities=20% Similarity=0.213 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
.||+.++.+|.-...-. ...++|..+|++++-|..+..+=+.|..-
T Consensus 3 ~LT~~E~~vl~~l~~G~------~~~eIA~~l~is~~tV~~~~~~i~~Kl~~ 48 (58)
T PF00196_consen 3 SLTERELEVLRLLAQGM------SNKEIAEELGISEKTVKSHRRRIMKKLGV 48 (58)
T ss_dssp SS-HHHHHHHHHHHTTS-------HHHHHHHHTSHHHHHHHHHHHHHHHHT-
T ss_pred ccCHHHHHHHHHHHhcC------CcchhHHhcCcchhhHHHHHHHHHHHhCC
Confidence 47888888886655432 35689999999999999988776665443
No 116
>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=44.86 E-value=22 Score=23.00 Aligned_cols=22 Identities=18% Similarity=0.218 Sum_probs=18.7
Q ss_pred HHHHHHHhCCChHHHhhhhHHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQNR 105 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQNR 105 (264)
..++|+.+|++++.|+.|.++-
T Consensus 3 ~~e~a~~~gv~~~tlr~~~~~g 24 (49)
T cd04761 3 IGELAKLTGVSPSTLRYYERIG 24 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHCC
Confidence 3578999999999999997654
No 117
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=44.78 E-value=69 Score=29.48 Aligned_cols=43 Identities=30% Similarity=0.452 Sum_probs=26.3
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
+-+..+.+.|+..++.|+..++.|..+|..|..++..|+..|-
T Consensus 100 ~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~ 142 (292)
T KOG4005|consen 100 KDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELA 142 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 3455566666666666666666666666666666665555553
No 118
>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=44.40 E-value=1.2e+02 Score=23.45 Aligned_cols=41 Identities=34% Similarity=0.429 Sum_probs=25.0
Q ss_pred HHHhhHHHhhH-HHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 116 RDYGLLKANYD-ALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 116 ~~~~~lk~~~~-~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
.....|+..|+ .-....+.|..++..|..|+..|+.++...
T Consensus 34 ~KV~~LKksYe~rwek~v~~L~~e~~~l~~E~e~L~~~l~~e 75 (87)
T PF12709_consen 34 TKVKALKKSYEARWEKKVDELENENKALKRENEQLKKKLDTE 75 (87)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455555553 344456667777777777777777776543
No 119
>PRK10072 putative transcriptional regulator; Provisional
Probab=44.27 E-value=39 Score=26.38 Aligned_cols=41 Identities=20% Similarity=0.283 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
+.+...+..|...-. .+ ..+||..+|++..-|..|.+.+|.
T Consensus 32 ~~~~~eik~LR~~~g----lT---Q~elA~~lGvS~~TVs~WE~G~r~ 72 (96)
T PRK10072 32 TTSFTEFEQLRKGTG----LK---IDDFARVLGVSVAMVKEWESRRVK 72 (96)
T ss_pred cCChHHHHHHHHHcC----CC---HHHHHHHhCCCHHHHHHHHcCCCC
Confidence 447777777754322 22 568999999999999999988764
No 120
>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=44.24 E-value=98 Score=22.91 Aligned_cols=36 Identities=22% Similarity=0.371 Sum_probs=22.2
Q ss_pred hhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 119 GLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 119 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
..++..|..|+..+..-.+++..|.+.+..|-..+.
T Consensus 24 ~~Wq~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~ 59 (70)
T PF04899_consen 24 QEWQSSYADLQHMFEQTSQENAALSEQVNNLSQQVQ 59 (70)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666666666666666665553
No 121
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=43.28 E-value=42 Score=33.51 Aligned_cols=72 Identities=24% Similarity=0.302 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHH-------hCCChHHHhhhhHHHHHHhhHHHHHH-HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHH
Q 024675 78 KLEPDRKVKLAEE-------LGLQPRQIAVWFQNRRARLKSKELER-DYGLLKANYDALRLDYNNLQQENEALTAELREL 149 (264)
Q Consensus 78 ~p~~~~r~~LA~~-------lgL~~rqVqvWFQNRRak~Krk~~e~-~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l 149 (264)
+++.+++..|.++ |-|+.++=++==+=|| |.|.++..+ -...-|.+.+.|...+.....||..|+.++.+|
T Consensus 220 ~LteeEkrLL~kEG~slPs~lPLTKaEEriLKrvRR-KIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~L 298 (472)
T KOG0709|consen 220 VLTEEEKRLLTKEGYSLPSKLPLTKAEERILKRVRR-KIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEEL 298 (472)
T ss_pred eccHHHHHHHHhccCcCcccCCchHHHHHHHHHHHH-HHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHH
Confidence 5677777777654 3466777666544444 444444434 344445555888766655555555555554444
Q ss_pred H
Q 024675 150 K 150 (264)
Q Consensus 150 ~ 150 (264)
.
T Consensus 299 e 299 (472)
T KOG0709|consen 299 E 299 (472)
T ss_pred h
Confidence 3
No 122
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=43.24 E-value=1e+02 Score=22.93 Aligned_cols=28 Identities=36% Similarity=0.302 Sum_probs=16.3
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 127 ALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 127 ~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+..++-.|+.+++.|+.|+++++..|.
T Consensus 40 ~~~keNieLKve~~~L~~el~~~~~~l~ 67 (75)
T PF07989_consen 40 ELLKENIELKVEVESLKRELQEKKKLLK 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455566666666666666666554
No 123
>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=43.18 E-value=1.8e+02 Score=26.52 Aligned_cols=62 Identities=21% Similarity=0.465 Sum_probs=36.5
Q ss_pred CChHHHhhhhHHHHHHhhHH---------HHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 93 LQPRQIAVWFQNRRARLKSK---------ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 93 L~~rqVqvWFQNRRak~Krk---------~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
-....+..||+.+-...+.. ....+...++.....|..+...++..|..|...+..|+..+.
T Consensus 184 ~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~ 254 (312)
T PF00038_consen 184 KNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLD 254 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHH
Confidence 34567889998875443322 222344455555566666666666666666666666665554
No 124
>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=43.17 E-value=70 Score=32.07 Aligned_cols=24 Identities=25% Similarity=0.369 Sum_probs=10.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 130 LDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 130 ~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.+...+.++.+.|+.++.+++..|
T Consensus 109 ~~~~~~~~~~~ql~~~~~~~~~~l 132 (472)
T TIGR03752 109 SETQELTKEIEQLKSERQQLQGLI 132 (472)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Confidence 333444445555555444444443
No 125
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=43.16 E-value=75 Score=31.89 Aligned_cols=44 Identities=16% Similarity=0.297 Sum_probs=27.3
Q ss_pred hHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 110 KSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 110 Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
|...+++.++.++...+.+......++...+.|..|++.|+.++
T Consensus 77 kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 77 TAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 34455555666655555555555566666667777777777776
No 126
>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=42.85 E-value=62 Score=25.06 Aligned_cols=20 Identities=35% Similarity=0.607 Sum_probs=14.9
Q ss_pred HHHHHHhCCChHHHhhhhHH
Q 024675 85 VKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 85 ~~LA~~lgL~~rqVqvWFQN 104 (264)
.++|+.+|++++.++.|-++
T Consensus 4 ~EvA~~~gVs~~tLR~ye~~ 23 (99)
T cd04765 4 GEVAEILGLPPHVLRYWETE 23 (99)
T ss_pred HHHHHHHCcCHHHHHHHHHH
Confidence 46788888888888888654
No 127
>PF13518 HTH_28: Helix-turn-helix domain
Probab=42.51 E-value=34 Score=22.36 Aligned_cols=24 Identities=21% Similarity=0.498 Sum_probs=19.7
Q ss_pred HHHHHHHHhCCChHHHhhhhHHHH
Q 024675 83 RKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 83 ~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
...++|.++||+..+|..|.+.-+
T Consensus 14 s~~~~a~~~gis~~tv~~w~~~y~ 37 (52)
T PF13518_consen 14 SVREIAREFGISRSTVYRWIKRYR 37 (52)
T ss_pred CHHHHHHHHCCCHhHHHHHHHHHH
Confidence 345799999999999999986533
No 128
>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=41.90 E-value=32 Score=22.95 Aligned_cols=42 Identities=17% Similarity=0.187 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
+++.+..++.-.|- ....-.++|..+|+++..|+.|...-|.
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 55666666655443 2334578999999999999999975443
No 129
>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=41.52 E-value=20 Score=30.92 Aligned_cols=24 Identities=42% Similarity=0.584 Sum_probs=7.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 130 LDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 130 ~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.|.+.|+.++++|+.|+++||..+
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 566777777888888888887777
No 130
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=41.42 E-value=74 Score=24.44 Aligned_cols=40 Identities=30% Similarity=0.429 Sum_probs=31.7
Q ss_pred HHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 115 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 115 e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.++|..+....+.|-...+.|.+.|+.|..+|++|-+--+
T Consensus 25 ~~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnr 64 (83)
T PF03670_consen 25 EEEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNR 64 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 4567888888888888888888888888888888766443
No 131
>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=40.49 E-value=99 Score=26.63 Aligned_cols=59 Identities=20% Similarity=0.339 Sum_probs=27.2
Q ss_pred CChHHHhhhhHHHHHHhh-HHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 93 LQPRQIAVWFQNRRARLK-SKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 93 L~~rqVqvWFQNRRak~K-rk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
|+-..|=...|+-..... -..+..+...++.....|+..++.|..+++.|..++..+++
T Consensus 80 ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~e 139 (161)
T TIGR02894 80 LTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEE 139 (161)
T ss_pred CCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555554332211 11223344455555555555555555555555554444443
No 132
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=40.28 E-value=2e+02 Score=25.51 Aligned_cols=32 Identities=19% Similarity=0.345 Sum_probs=25.0
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 024675 129 RLDYNNLQQENEALTAELRELKAKLCQENEET 160 (264)
Q Consensus 129 ~~~~~~l~~en~~l~~e~~~l~~~l~~~~~~~ 160 (264)
..++..|+..|.+|++++++|+.-.|.-.++.
T Consensus 54 l~EIR~LKe~NqkLqedNqELRdLCCFLDddR 85 (195)
T PF10226_consen 54 LNEIRGLKEVNQKLQEDNQELRDLCCFLDDDR 85 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcccchhH
Confidence 34677888999999999999998887665543
No 133
>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=39.78 E-value=71 Score=29.59 Aligned_cols=16 Identities=25% Similarity=0.191 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHhhh
Q 024675 141 ALTAELRELKAKLCQE 156 (264)
Q Consensus 141 ~l~~e~~~l~~~l~~~ 156 (264)
.+++|+++|++.|.-.
T Consensus 95 ~l~~EN~rLr~LL~~~ 110 (283)
T TIGR00219 95 NLKQENVRLRELLNSP 110 (283)
T ss_pred HHHHHHHHHHHHhcCc
Confidence 3777888888877643
No 134
>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=39.62 E-value=1.2e+02 Score=21.60 Aligned_cols=36 Identities=14% Similarity=0.321 Sum_probs=29.5
Q ss_pred hhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 119 GLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 119 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
..+......+....++++.+|+.+..++..+++.+.
T Consensus 3 ~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk 38 (55)
T PF05377_consen 3 DELENELPRIESSINTVKKENEEISESVEKIEENVK 38 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346667778888899999999999999999888764
No 135
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=39.54 E-value=1.2e+02 Score=24.22 Aligned_cols=34 Identities=29% Similarity=0.379 Sum_probs=23.0
Q ss_pred hhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 024675 119 GLLKANYDALRLDYNNLQQENEALTAELRELKAK 152 (264)
Q Consensus 119 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 152 (264)
..+......++.+++.|..++..|.+|++.|+..
T Consensus 53 ~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 53 LQLQRQIAAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3344444466777777777777777777777765
No 136
>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=39.00 E-value=85 Score=24.09 Aligned_cols=46 Identities=17% Similarity=0.225 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
.+++.+..++...|-. .....++|..+|+++..|..|...-+.+-|
T Consensus 110 ~L~~~~~~ii~~~~~~-----g~s~~eIA~~l~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 110 KLPEREREVLVLRYLE-----GLSYKEIAEILGISVGTVKRRLKRARKKLR 155 (158)
T ss_pred hCCHHHHHHHhhHHhc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 3667777776554432 224568999999999999988765544433
No 137
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=38.97 E-value=95 Score=24.78 Aligned_cols=45 Identities=13% Similarity=0.107 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARL 109 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~ 109 (264)
.+++.+..++...|-.+ ....++|..+|++...|+.|...-|.+-
T Consensus 106 ~L~~~~r~ii~l~~~~~-----~s~~EIA~~l~is~~tV~~~~~ra~~~L 150 (154)
T PRK06759 106 VLDEKEKYIIFERFFVG-----KTMGEIALETEMTYYQVRWIYRQALEKM 150 (154)
T ss_pred hCCHHHHHHHHHHHhcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 46777777766555332 3367899999999999999886544443
No 138
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=38.01 E-value=1.7e+02 Score=24.42 Aligned_cols=52 Identities=21% Similarity=0.348 Sum_probs=39.7
Q ss_pred hhHHHHHHhh--HHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 024675 101 WFQNRRARLK--SKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAK 152 (264)
Q Consensus 101 WFQNRRak~K--rk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~ 152 (264)
+-||.|.|.- +..++.+...|....+.|+.++..+..|.+.++...+.|..-
T Consensus 64 YA~sCR~KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~ 117 (135)
T KOG4196|consen 64 YAQSCRVKRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNS 117 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3355555432 346677888889999999999999999999999988777653
No 139
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=37.78 E-value=31 Score=24.11 Aligned_cols=21 Identities=19% Similarity=0.377 Sum_probs=17.9
Q ss_pred HHHHHHHhCCChHHHhhhhHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQN 104 (264)
..++|+.+|++++.|+.|=..
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 357899999999999999643
No 140
>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=37.48 E-value=53 Score=25.65 Aligned_cols=32 Identities=19% Similarity=0.491 Sum_probs=18.9
Q ss_pred HHHHHHhhhhcCCCCHHH--HHHHHHHhCCChHHHhhhhHHHHHHhhHHH
Q 024675 66 VKALEKNFEVDNKLEPDR--KVKLAEELGLQPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 66 l~~LE~~F~~~~~p~~~~--r~~LA~~lgL~~rqVqvWFQNRRak~Krk~ 113 (264)
+.+..-.|..++||...- +.. .|||.+|++.+
T Consensus 14 vRiIk~LyqsnPyP~~~GTr~aR----------------RnRRRRWR~rq 47 (91)
T PF00424_consen 14 VRIIKILYQSNPYPSPEGTRQAR----------------RNRRRRWRARQ 47 (91)
T ss_dssp HHHHHHHHHTS-S--S-S-HHHH----------------HHHHHHHHHHH
T ss_pred HHHHHHHHccccCCCCCCccccc----------------cchhhhHHHHH
Confidence 445556688899997542 112 58999999866
No 141
>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=37.12 E-value=88 Score=31.39 Aligned_cols=32 Identities=19% Similarity=0.380 Sum_probs=18.3
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
......+..+.+.|+.+...++..+..|+.+|
T Consensus 108 ~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l 139 (472)
T TIGR03752 108 QSETQELTKEIEQLKSERQQLQGLIDQLQRRL 139 (472)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555666666666666666666555
No 142
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=36.90 E-value=2.3e+02 Score=26.62 Aligned_cols=39 Identities=23% Similarity=0.323 Sum_probs=20.7
Q ss_pred HHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 115 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 115 e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
..+..+-.....-|.-.....+.+.+.|..|+++++..|
T Consensus 87 shdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsEL 125 (307)
T PF10481_consen 87 SHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSEL 125 (307)
T ss_pred hHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444344444444455555556666666666666655
No 143
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=36.77 E-value=1.6e+02 Score=21.20 Aligned_cols=38 Identities=18% Similarity=0.295 Sum_probs=23.4
Q ss_pred HHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 116 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 116 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.+....+..+-.+..........|..|..++..|+..+
T Consensus 18 eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ 55 (61)
T PF08826_consen 18 EELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEM 55 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555666666777777777777666
No 144
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=36.62 E-value=2.2e+02 Score=23.40 Aligned_cols=47 Identities=23% Similarity=0.318 Sum_probs=20.9
Q ss_pred HHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 107 ARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 107 ak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.+.+-...+++....+.....+......+..-+..+++|+.+++..+
T Consensus 78 L~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~ 124 (151)
T PF11559_consen 78 LKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQL 124 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444444444444444444444444444444433
No 145
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=36.14 E-value=65 Score=26.11 Aligned_cols=45 Identities=20% Similarity=0.208 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..++...|-. ...-.+||..+|+++..|..|...-|.+.|
T Consensus 126 L~~~~r~i~~l~~~~-----~~~~~eIA~~lgis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 126 LPVKQREVFLLRYVE-----GLSYREIAEILGVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred CCHHHHHHhhHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 666666666555432 233468999999999999998875555444
No 146
>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=36.07 E-value=65 Score=31.00 Aligned_cols=31 Identities=26% Similarity=0.320 Sum_probs=20.3
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELR 147 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~ 147 (264)
+...|+.++.+|+.|++.|+.+.++|.+|..
T Consensus 33 e~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 33 ENFALRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred hhhhHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 3445666777777777777777777755443
No 147
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=35.99 E-value=73 Score=25.91 Aligned_cols=44 Identities=14% Similarity=0.000 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
.+++.+..+|...|-. .....++|..+|++...|+.|...-+.+
T Consensus 128 ~L~~~~r~vl~l~~~~-----~~s~~eIA~~lgis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 128 SLPEELRTAITLREIE-----GLSYEEIAEIMGCPIGTVRSRIFRAREA 171 (182)
T ss_pred hCCHHHHHHHHHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 4788888888766532 2234578999999999999988743333
No 148
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=35.75 E-value=1.2e+02 Score=19.39 Aligned_cols=40 Identities=20% Similarity=0.227 Sum_probs=28.4
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNR 105 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNR 105 (264)
.++..+..++...+ .. ....++|..+|++...|..|...-
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 36777777775533 21 245789999999999999887643
No 149
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=35.27 E-value=1.2e+02 Score=25.83 Aligned_cols=29 Identities=31% Similarity=0.540 Sum_probs=17.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 024675 130 LDYNNLQQENEALTAELRELKAKLCQENE 158 (264)
Q Consensus 130 ~~~~~l~~en~~l~~e~~~l~~~l~~~~~ 158 (264)
.+...++.+++.|+.++..|+.+|..+..
T Consensus 73 ~~~~~lr~~~e~L~~eie~l~~~L~~ei~ 101 (177)
T PF07798_consen 73 SEFAELRSENEKLQREIEKLRQELREEIN 101 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666666666666666666655433
No 150
>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=35.20 E-value=58 Score=23.44 Aligned_cols=31 Identities=23% Similarity=0.298 Sum_probs=19.4
Q ss_pred hhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 124 NYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 124 ~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.-+.|+.....|...|..|..|+.-||....
T Consensus 15 EVevLK~~I~eL~~~n~~Le~EN~~Lk~~~~ 45 (59)
T PF01166_consen 15 EVEVLKEQIAELEERNSQLEEENNLLKQNAS 45 (59)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3445556666666667777777766666553
No 151
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=35.18 E-value=88 Score=25.28 Aligned_cols=36 Identities=33% Similarity=0.362 Sum_probs=31.2
Q ss_pred HHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHH
Q 024675 113 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRE 148 (264)
Q Consensus 113 ~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~ 148 (264)
.+-++.+.+|+....+-.+|..|+-||+.|++-|-.
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 455677889999999999999999999999998777
No 152
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=35.03 E-value=1.6e+02 Score=20.66 Aligned_cols=25 Identities=40% Similarity=0.511 Sum_probs=13.8
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHH
Q 024675 126 DALRLDYNNLQQENEALTAELRELK 150 (264)
Q Consensus 126 ~~l~~~~~~l~~en~~l~~e~~~l~ 150 (264)
.........|..+|..|+++|..++
T Consensus 25 ~~a~~rl~~l~~EN~~Lr~eL~~~r 49 (52)
T PF12808_consen 25 SAARKRLSKLEGENRLLRAELERLR 49 (52)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444555556666666666655444
No 153
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located 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=34.83 E-value=2.6e+02 Score=22.98 Aligned_cols=37 Identities=11% Similarity=0.030 Sum_probs=26.2
Q ss_pred CCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 57 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
..|.|+..++..|.. +.. .+.+|++-..|+-++.+..
T Consensus 34 g~R~Y~~~~l~~l~~------------I~~-lr~~G~sL~eI~~~l~~~~ 70 (134)
T cd04779 34 NYRYYDETALDRLQL------------IEH-LKGQRLSLAEIKDQLEEVQ 70 (134)
T ss_pred CCeeECHHHHHHHHH------------HHH-HHHCCCCHHHHHHHHHhhc
Confidence 345699999888843 333 4678888888888886654
No 154
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=34.70 E-value=72 Score=26.39 Aligned_cols=45 Identities=20% Similarity=0.346 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..++...|- ......++|..+|++...|+++...-|.+-|
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 66666665655542 2223568999999999999998865554443
No 155
>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=34.47 E-value=21 Score=26.70 Aligned_cols=34 Identities=15% Similarity=0.207 Sum_probs=25.1
Q ss_pred HhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHH
Q 024675 71 KNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 71 ~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQN 104 (264)
..|...++.......+||..+|+++.-|+.|+.+
T Consensus 22 ~af~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~ 55 (73)
T TIGR03879 22 AAAALAREEAGKTASEIAEELGRTEQTVRNHLKG 55 (73)
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhc
Confidence 3444444444455678999999999999999864
No 156
>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=34.47 E-value=1.8e+02 Score=26.06 Aligned_cols=42 Identities=21% Similarity=0.337 Sum_probs=22.1
Q ss_pred HHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 113 ELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 113 ~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+..++..++...+.|+..++.+......+.+++.+|+..+.
T Consensus 53 ~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~ 94 (251)
T PF11932_consen 53 ELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIE 94 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555555555555555555543
No 157
>cd00131 PAX Paired Box domain
Probab=34.33 E-value=1.2e+02 Score=24.51 Aligned_cols=46 Identities=15% Similarity=0.037 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCC-------ChHHHhhhhHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGL-------QPRQIAVWFQNR 105 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL-------~~rqVqvWFQNR 105 (264)
..+..+...++.....++..+..+..++...-|+ +...|-.||+++
T Consensus 75 ~~~~~~~~~i~~~v~~~p~~Tl~El~~~L~~~gv~~~~~~~s~stI~R~L~~~ 127 (128)
T cd00131 75 VATPEVVKKIEIYKQENPGMFAWEIRDRLLQEGVCDKSNVPSVSSINRILRNK 127 (128)
T ss_pred cCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHcCCcccCCCCCHHHHHHHHHhc
Confidence 4677777777776777777777766554224466 788888887653
No 158
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=34.31 E-value=94 Score=26.27 Aligned_cols=46 Identities=17% Similarity=0.163 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
.++..+..+|...|-.+ ..-.++|+.||++...|+++...-|.+-|
T Consensus 142 ~L~~~~r~vl~l~~~~~-----~s~~EIA~~Lgis~~tVk~~l~ra~~~Lr 187 (194)
T PRK09646 142 ALTDTQRESVTLAYYGG-----LTYREVAERLAVPLGTVKTRMRDGLIRLR 187 (194)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHhCCChHhHHHHHHHHHHHHH
Confidence 37777777776654322 33568999999999999998865444443
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=34.22 E-value=1.1e+02 Score=22.47 Aligned_cols=24 Identities=38% Similarity=0.522 Sum_probs=12.2
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 128 LRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 128 l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
++.+.+.++.+|..|+.|+..|..
T Consensus 36 ~~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 36 LQLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC
Confidence 444444555555555555554443
No 160
>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=33.84 E-value=59 Score=22.60 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=25.7
Q ss_pred HHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhh
Q 024675 64 DQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVW 101 (264)
Q Consensus 64 ~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvW 101 (264)
.|+..|+-.+. ....+.. +||..+|++.+.|+.-
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 57788888888 6666555 8999999999988753
No 161
>PRK04217 hypothetical protein; Provisional
Probab=33.72 E-value=1.3e+02 Score=24.19 Aligned_cols=43 Identities=12% Similarity=0.070 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
.++.++..++...|...- ...+||+.+|++...|...+..-+.
T Consensus 42 ~Lt~eereai~l~~~eGl-----S~~EIAk~LGIS~sTV~r~L~RArk 84 (110)
T PRK04217 42 FMTYEEFEALRLVDYEGL-----TQEEAGKRMGVSRGTVWRALTSARK 84 (110)
T ss_pred cCCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 589999888877664333 4567999999999999987754333
No 162
>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=33.52 E-value=39 Score=23.87 Aligned_cols=27 Identities=26% Similarity=0.465 Sum_probs=21.1
Q ss_pred HHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 83 RKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 83 ~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
...+||..||++.+.|..|-+ |-+|..
T Consensus 15 ~~~eIA~~Lg~~~~TV~~W~~--r~~W~~ 41 (58)
T PF06056_consen 15 SIKEIAEELGVPRSTVYSWKD--RYKWDE 41 (58)
T ss_pred CHHHHHHHHCCChHHHHHHHH--hhCccc
Confidence 356899999999999999974 455544
No 163
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=33.27 E-value=1.9e+02 Score=25.17 Aligned_cols=40 Identities=25% Similarity=0.346 Sum_probs=21.7
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
-+..|+...+..+..|+.|..+..+|..+...+...|..+
T Consensus 82 vN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL~~k 121 (182)
T PF15035_consen 82 VNALLREQLEQARKANEALQEDLQKLTQDWERLRDELEQK 121 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444445555556666666666666555565555433
No 164
>KOG3755 consensus SATB1 matrix attachment region binding protein [Transcription]
Probab=33.19 E-value=19 Score=37.17 Aligned_cols=44 Identities=18% Similarity=0.145 Sum_probs=30.7
Q ss_pred HHhhhhcCCCCHHHHHHHHHHhCC-------ChHHHhhhhHHHHHHhhHHH
Q 024675 70 EKNFEVDNKLEPDRKVKLAEELGL-------QPRQIAVWFQNRRARLKSKE 113 (264)
Q Consensus 70 E~~F~~~~~p~~~~r~~LA~~lgL-------~~rqVqvWFQNRRak~Krk~ 113 (264)
+..|..++.+......+--.++.+ ...-|+.||.|||+++|+-+
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 445667777776666554444433 45679999999999998754
No 165
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=33.10 E-value=2.5e+02 Score=22.36 Aligned_cols=36 Identities=31% Similarity=0.326 Sum_probs=27.4
Q ss_pred CCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHH
Q 024675 57 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNR 105 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNR 105 (264)
..|.++..++..|. ....++.+|++-..|+..+...
T Consensus 34 g~R~Y~~~~l~~l~-------------~I~~l~~~G~sl~eI~~~l~~~ 69 (124)
T TIGR02051 34 GYRRYPEETVKRLR-------------FIKRAQELGFSLEEIGGLLGLV 69 (124)
T ss_pred CCEeECHHHHHHHH-------------HHHHHHHCCCCHHHHHHHHhcc
Confidence 34569999988882 3445789999999999988654
No 166
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located 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=33.01 E-value=2.4e+02 Score=22.14 Aligned_cols=38 Identities=18% Similarity=0.197 Sum_probs=28.6
Q ss_pred CCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 57 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
..|.|+..++..|. .....+.+|++-..|+..+.+...
T Consensus 35 gyR~Y~~~~i~~l~-------------~I~~lr~~G~sl~eI~~~l~~~~~ 72 (123)
T cd04770 35 GYRLYGEADLARLR-------------FIRRAQALGFSLAEIRELLSLRDD 72 (123)
T ss_pred CCccCCHHHHHHHH-------------HHHHHHHCCCCHHHHHHHHHhhhc
Confidence 34569999998883 334468899999999988876543
No 167
>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=32.64 E-value=1.6e+02 Score=26.34 Aligned_cols=32 Identities=22% Similarity=0.281 Sum_probs=13.0
Q ss_pred HHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHH
Q 024675 115 ERDYGLLKANYDALRLDYNNLQQENEALTAEL 146 (264)
Q Consensus 115 e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~ 146 (264)
.++.+.++..++.+.......+.+...|..++
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 33344444444444444444444444444333
No 168
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=32.56 E-value=41 Score=22.04 Aligned_cols=23 Identities=17% Similarity=0.377 Sum_probs=17.0
Q ss_pred HHHHHHHHHhCCChHHHhhhhHH
Q 024675 82 DRKVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 82 ~~r~~LA~~lgL~~rqVqvWFQN 104 (264)
....++|+.+|++...|..|.+.
T Consensus 18 ~s~~~ia~~lgvs~~Tv~~w~kr 40 (50)
T PF13384_consen 18 WSIREIAKRLGVSRSTVYRWIKR 40 (50)
T ss_dssp --HHHHHHHHTS-HHHHHHHHT-
T ss_pred CCHHHHHHHHCcCHHHHHHHHHH
Confidence 34568999999999999999753
No 169
>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=32.55 E-value=2.3e+02 Score=23.05 Aligned_cols=49 Identities=24% Similarity=0.353 Sum_probs=35.4
Q ss_pred HhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 108 RLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 108 k~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
..+...++.+...+...|+.+..-++.-..+++-|+..+.+||......
T Consensus 67 ~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~myr~Q 115 (120)
T PF12325_consen 67 KKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMYREQ 115 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHH
Confidence 3344566677777777777777777777888888888888888766543
No 170
>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=32.30 E-value=88 Score=24.77 Aligned_cols=45 Identities=20% Similarity=0.193 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
++..+..+|...|- ......++|..+|+++..|+.+...-|.+.|
T Consensus 114 L~~~~r~il~l~~~-----~~~~~~eIA~~lgis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 114 LPEQCRKIFILSRF-----EGKSYKEIAEELGISVKTVEYHISKALKELR 158 (161)
T ss_pred CCHHHHHHHHHHHH-----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 55666666655442 1223457899999999999987765444433
No 171
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=32.07 E-value=1.8e+02 Score=23.16 Aligned_cols=34 Identities=21% Similarity=0.339 Sum_probs=14.7
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 118 YGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
...++.....+..+.+.++.....+.++++.|+.
T Consensus 82 ~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~ 115 (118)
T PF13815_consen 82 LEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKK 115 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444444444444444444443
No 172
>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=31.84 E-value=97 Score=23.43 Aligned_cols=29 Identities=24% Similarity=0.346 Sum_probs=24.2
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 126 DALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 126 ~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
..+..++..|+++.+.|.+||++++....
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~~~~~q 31 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQNKREFQ 31 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 35677888999999999999999988754
No 173
>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=31.40 E-value=5.9e+02 Score=26.15 Aligned_cols=40 Identities=20% Similarity=0.289 Sum_probs=30.5
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
+...|++....++.+.+.|..+++-|...+.+|+.+|..-
T Consensus 418 el~Elks~lrv~qkEKEql~~EkQeL~~yi~~Le~r~~~~ 457 (546)
T PF07888_consen 418 ELQELKSSLRVAQKEKEQLQEEKQELLEYIERLEQRLDKV 457 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4445777777778888888888888888888888888543
No 174
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=31.34 E-value=2.2e+02 Score=25.28 Aligned_cols=44 Identities=20% Similarity=0.376 Sum_probs=23.0
Q ss_pred HHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 111 SKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 111 rk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+.+....+.|+..+..+..+.+.+++....|..+...|+..++
T Consensus 97 ~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~ 140 (193)
T PF14662_consen 97 QQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLC 140 (193)
T ss_pred HHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHH
Confidence 33444444555555555555555555555555555555555554
No 175
>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=31.27 E-value=2.5e+02 Score=24.86 Aligned_cols=39 Identities=21% Similarity=0.312 Sum_probs=25.6
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQ 155 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~ 155 (264)
....|......+...+-.+......|..|+.+|+.+..+
T Consensus 176 ~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~ 214 (221)
T PF05700_consen 176 ELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAE 214 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555555666666666777777777777777776654
No 176
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=31.22 E-value=1.3e+02 Score=19.43 Aligned_cols=36 Identities=14% Similarity=0.247 Sum_probs=24.7
Q ss_pred CHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhH
Q 024675 62 TVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQ 103 (264)
Q Consensus 62 t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQ 103 (264)
+..+..++...+ . .....++|+.+|++...|..|..
T Consensus 2 ~~~e~~i~~~~~--~----~~s~~eia~~l~~s~~tv~~~~~ 37 (57)
T cd06170 2 TPREREVLRLLA--E----GKTNKEIADILGISEKTVKTHLR 37 (57)
T ss_pred CHHHHHHHHHHH--c----CCCHHHHHHHHCCCHHHHHHHHH
Confidence 445555554432 1 12456889999999999999875
No 177
>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=30.90 E-value=1e+02 Score=23.94 Aligned_cols=30 Identities=33% Similarity=0.516 Sum_probs=20.9
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
+...+.|......+..+|..|.+++..+++
T Consensus 79 ~~~~~~L~~~l~~l~~eN~~L~~~i~~~r~ 108 (109)
T PF03980_consen 79 KKEREQLNARLQELEEENEALAEEIQEQRK 108 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 334455677777788888888888777653
No 178
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=30.87 E-value=2.3e+02 Score=28.99 Aligned_cols=42 Identities=33% Similarity=0.439 Sum_probs=29.6
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
..++.+...++..+..+..+...|+.+|.+|..+|..++..+
T Consensus 151 ~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l 192 (546)
T KOG0977|consen 151 SELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQL 192 (546)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 345556667777777777777777777777777777777544
No 179
>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=30.47 E-value=2.2e+02 Score=20.83 Aligned_cols=38 Identities=21% Similarity=0.327 Sum_probs=17.4
Q ss_pred HHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 116 RDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 116 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.++..|+.....+..+...|...|+.-+..++.+-..|
T Consensus 21 ~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RL 58 (65)
T TIGR02449 21 SENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRL 58 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444444444444444444444444444444444444
No 180
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=30.38 E-value=2e+02 Score=23.51 Aligned_cols=40 Identities=23% Similarity=0.388 Sum_probs=32.7
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
-...|+...+.|....++|.++-+.++.++++|+++|...
T Consensus 71 ~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~ 110 (119)
T COG1382 71 AVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKA 110 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345666677788889999999999999999999999754
No 181
>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=30.37 E-value=51 Score=21.17 Aligned_cols=19 Identities=26% Similarity=0.433 Sum_probs=15.3
Q ss_pred HHHHHHHhCCChHHHhhhh
Q 024675 84 KVKLAEELGLQPRQIAVWF 102 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWF 102 (264)
+-++|+.+|++.+.|+.|=
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 3578999999999999984
No 182
>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=30.27 E-value=1.3e+02 Score=21.36 Aligned_cols=29 Identities=24% Similarity=0.424 Sum_probs=19.1
Q ss_pred HHHHHhhHHHhhHHHHHHhHHHHHHHHHH
Q 024675 114 LERDYGLLKANYDALRLDYNNLQQENEAL 142 (264)
Q Consensus 114 ~e~~~~~lk~~~~~l~~~~~~l~~en~~l 142 (264)
+..+...++...+.++.+++.|+.+.+.|
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455666666666777777777777666
No 183
>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=30.20 E-value=54 Score=22.92 Aligned_cols=21 Identities=14% Similarity=0.411 Sum_probs=18.4
Q ss_pred HHHHHHHhCCChHHHhhhhHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQN 104 (264)
..++|+.+|++++.|+.|-+.
T Consensus 3 i~evA~~~gvs~~tlR~~~~~ 23 (67)
T cd04764 3 IKEVSEIIGVKPHTLRYYEKE 23 (67)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 357899999999999999865
No 184
>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=30.18 E-value=55 Score=20.49 Aligned_cols=24 Identities=25% Similarity=0.542 Sum_probs=20.0
Q ss_pred HHHHHHHhCCChHHHhhhhHHHHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
..++|+.+|++.+.|..|.++.+-
T Consensus 3 ~~e~a~~lgvs~~tl~~~~~~g~~ 26 (49)
T cd04762 3 TKEAAELLGVSPSTLRRWVKEGKL 26 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHcCCC
Confidence 457899999999999999876543
No 185
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=30.05 E-value=94 Score=29.82 Aligned_cols=26 Identities=15% Similarity=0.107 Sum_probs=13.3
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHH
Q 024675 125 YDALRLDYNNLQQENEALTAELRELK 150 (264)
Q Consensus 125 ~~~l~~~~~~l~~en~~l~~e~~~l~ 150 (264)
|-.|+.+|+.|++||..|+.++.+++
T Consensus 59 y~~L~~EN~~Lk~Ena~L~~~l~~~e 84 (337)
T PRK14872 59 ALVLETENFLLKERIALLEERLKSYE 84 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555544433
No 186
>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=30.05 E-value=1.3e+02 Score=24.56 Aligned_cols=20 Identities=40% Similarity=0.579 Sum_probs=11.2
Q ss_pred HHHHHhHHHHHHHHHHHHHH
Q 024675 127 ALRLDYNNLQQENEALTAEL 146 (264)
Q Consensus 127 ~l~~~~~~l~~en~~l~~e~ 146 (264)
.|.-+...|+.||..|.+|+
T Consensus 100 ~L~nE~n~L~eEN~~L~eEl 119 (120)
T PF10482_consen 100 ELTNEMNTLKEENKKLKEEL 119 (120)
T ss_pred HHHHHHHhHHHHHHHHHHHh
Confidence 34445555666666665554
No 187
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=29.88 E-value=1.6e+02 Score=28.56 Aligned_cols=33 Identities=21% Similarity=0.361 Sum_probs=16.1
Q ss_pred HHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 121 LKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 121 lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
++.....+..++..+..+...++.|+..+++.+
T Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (398)
T PTZ00454 27 LEKELEFLDIQEEYIKEEQKNLKRELIRAKEEV 59 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444455555555555555555555544
No 188
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=29.55 E-value=2e+02 Score=26.48 Aligned_cols=33 Identities=33% Similarity=0.490 Sum_probs=22.5
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
|...+........|.+||+.|+.++.+|+..+.
T Consensus 214 k~~~~e~~~r~~~leken~~lr~~v~~l~~el~ 246 (269)
T KOG3119|consen 214 KQKEDEMAHRVAELEKENEALRTQVEQLKKELA 246 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333345555566677888888888888887774
No 189
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=29.42 E-value=97 Score=26.60 Aligned_cols=45 Identities=18% Similarity=0.186 Sum_probs=29.6
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..+|...|- ......++|..+|++...|+++...-|.+.+
T Consensus 154 L~~~~r~vl~l~~~-----~g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 198 (206)
T PRK12526 154 LPEAQQTVVKGVYF-----QELSQEQLAQQLNVPLGTVKSRLRLALAKLK 198 (206)
T ss_pred CCHHHHHHHHHHHH-----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 56666666654432 2233568999999999999888765444443
No 190
>PHA01750 hypothetical protein
Probab=29.38 E-value=2.4e+02 Score=20.91 Aligned_cols=35 Identities=23% Similarity=0.509 Sum_probs=21.0
Q ss_pred hhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 119 GLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 119 ~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
+..+...+.|+.+...++...+.|.+++++++.++
T Consensus 38 eIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 38 EIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 34445555566666665555555667777776665
No 191
>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=29.19 E-value=55 Score=23.03 Aligned_cols=21 Identities=19% Similarity=0.409 Sum_probs=18.3
Q ss_pred HHHHHHHhCCChHHHhhhhHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQN 104 (264)
..++|+.+|++++.|+.|.+.
T Consensus 3 i~e~A~~~gVs~~tlr~ye~~ 23 (68)
T cd04763 3 IGEVALLTGIKPHVLRAWERE 23 (68)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 357899999999999999764
No 192
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=29.04 E-value=1.1e+02 Score=27.71 Aligned_cols=28 Identities=32% Similarity=0.382 Sum_probs=17.2
Q ss_pred HhhHHHHHHhHHHHHHHHHHHHHHHHHH
Q 024675 123 ANYDALRLDYNNLQQENEALTAELRELK 150 (264)
Q Consensus 123 ~~~~~l~~~~~~l~~en~~l~~e~~~l~ 150 (264)
..+..+..+|+.|++|+..|+.++.+++
T Consensus 69 ~~~~~l~~en~~L~~e~~~l~~~~~~~~ 96 (276)
T PRK13922 69 ASLFDLREENEELKKELLELESRLQELE 96 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666666666554
No 193
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=28.97 E-value=1.7e+02 Score=23.71 Aligned_cols=29 Identities=24% Similarity=0.331 Sum_probs=18.5
Q ss_pred HHHhhHHHhhHHHHHHhHHHHHHHHHHHH
Q 024675 116 RDYGLLKANYDALRLDYNNLQQENEALTA 144 (264)
Q Consensus 116 ~~~~~lk~~~~~l~~~~~~l~~en~~l~~ 144 (264)
++.+.||.....|...+..|++||.-|+.
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 45566666666666666666666666654
No 194
>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=28.89 E-value=99 Score=21.17 Aligned_cols=22 Identities=36% Similarity=0.557 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 024675 133 NNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 133 ~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.+|+++.+.|+.+++.|+..+.
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 3567777777778887777764
No 195
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=28.79 E-value=2.9e+02 Score=24.09 Aligned_cols=19 Identities=26% Similarity=0.478 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 024675 136 QQENEALTAELRELKAKLC 154 (264)
Q Consensus 136 ~~en~~l~~e~~~l~~~l~ 154 (264)
+...+.++.++.+|+..|.
T Consensus 152 ~~~~~e~~~~l~~l~~ei~ 170 (176)
T PF12999_consen 152 KKKREELEKKLEELEKEIQ 170 (176)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555554
No 196
>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=28.73 E-value=3e+02 Score=21.80 Aligned_cols=23 Identities=26% Similarity=0.317 Sum_probs=12.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHH
Q 024675 131 DYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 131 ~~~~l~~en~~l~~e~~~l~~~l 153 (264)
-.+.|.++...-+++|++|.+.+
T Consensus 77 Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 77 LKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 33444555555666666666554
No 197
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=28.71 E-value=2.6e+02 Score=23.60 Aligned_cols=16 Identities=44% Similarity=0.634 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 024675 138 ENEALTAELRELKAKL 153 (264)
Q Consensus 138 en~~l~~e~~~l~~~l 153 (264)
+++.|+.++..|+.+.
T Consensus 52 d~eeLk~~i~~lq~~~ 67 (155)
T PF06810_consen 52 DNEELKKQIEELQAKN 67 (155)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 3444444444444333
No 198
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=28.70 E-value=1.6e+02 Score=26.54 Aligned_cols=27 Identities=19% Similarity=0.338 Sum_probs=10.1
Q ss_pred HhhHHHHHHhHHHHHHHHHHHHHHHHH
Q 024675 123 ANYDALRLDYNNLQQENEALTAELREL 149 (264)
Q Consensus 123 ~~~~~l~~~~~~l~~en~~l~~e~~~l 149 (264)
...+.+..+.++|+++.+.+..|..+|
T Consensus 172 ~~Le~~~~~~~al~Kq~e~~~~EydrL 198 (216)
T KOG1962|consen 172 KKLEKAQKKVDALKKQSEGLQDEYDRL 198 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHcccHHHHH
Confidence 333333333333333333333333333
No 199
>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=28.64 E-value=1.1e+02 Score=28.25 Aligned_cols=10 Identities=50% Similarity=0.564 Sum_probs=5.6
Q ss_pred HHHHHHHHHH
Q 024675 135 LQQENEALTA 144 (264)
Q Consensus 135 l~~en~~l~~ 144 (264)
+++||++|++
T Consensus 96 l~~EN~rLr~ 105 (283)
T TIGR00219 96 LKQENVRLRE 105 (283)
T ss_pred HHHHHHHHHH
Confidence 5555555555
No 200
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=28.41 E-value=3e+02 Score=26.31 Aligned_cols=13 Identities=15% Similarity=0.682 Sum_probs=10.3
Q ss_pred HhhhhHHHHHHhh
Q 024675 98 IAVWFQNRRARLK 110 (264)
Q Consensus 98 VqvWFQNRRak~K 110 (264)
++|||+|.|+-.+
T Consensus 16 CKiWi~dN~~Sv~ 28 (336)
T KOG0150|consen 16 CKIWIKDNPASVR 28 (336)
T ss_pred hhhhhcCChHHHH
Confidence 5899999887554
No 201
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=28.40 E-value=98 Score=25.94 Aligned_cols=45 Identities=20% Similarity=0.280 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..++...| .......++|..+|++...|++|+..-|.+-|
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 5555555554443 22234568999999999999999865554444
No 202
>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=28.19 E-value=1.3e+02 Score=22.82 Aligned_cols=27 Identities=33% Similarity=0.497 Sum_probs=16.5
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 125 YDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 125 ~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
...++.+.+.++.+|..|+-|+..|..
T Consensus 44 l~~l~~~~~~l~~e~~~L~lE~~~l~~ 70 (97)
T PF04999_consen 44 LQQLEKEIDQLQEENERLRLEIATLSS 70 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 344555666666666666666666554
No 203
>PHA02955 hypothetical protein; Provisional
Probab=28.07 E-value=66 Score=28.90 Aligned_cols=43 Identities=7% Similarity=0.127 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhhhc-CCCCHHHHHHHHHHhCCChHHHhhhhHHH
Q 024675 63 VDQVKALEKNFEVD-NKLEPDRKVKLAEELGLQPRQIAVWFQNR 105 (264)
Q Consensus 63 ~~Ql~~LE~~F~~~-~~p~~~~r~~LA~~lgL~~rqVqvWFQNR 105 (264)
..++..|-+.|... ..+++++|.+++++||+....|..||.+.
T Consensus 60 ~~sf~lli~a~~Et~~~Lp~~qk~~ia~~lgI~~~~~~~d~~t~ 103 (213)
T PHA02955 60 EKNFQLLIEALIETIENFPEKEQKEIAADIGINIDDYKAGKKTD 103 (213)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCChhhccCcccch
Confidence 35666666666544 67889999999999999998888898763
No 204
>PRK11546 zraP zinc resistance protein; Provisional
Probab=27.84 E-value=2.3e+02 Score=23.94 Aligned_cols=15 Identities=33% Similarity=0.306 Sum_probs=10.3
Q ss_pred CCCHHHHHHHHHhhh
Q 024675 60 RLTVDQVKALEKNFE 74 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~ 74 (264)
.+|++|...++..+.
T Consensus 43 ~LT~EQQa~~q~I~~ 57 (143)
T PRK11546 43 PLTTEQQAAWQKIHN 57 (143)
T ss_pred cCCHHHHHHHHHHHH
Confidence 478888777766544
No 205
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=27.67 E-value=2.1e+02 Score=29.82 Aligned_cols=37 Identities=22% Similarity=0.376 Sum_probs=19.0
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
-.+.|+..+..|+...+.++.+++.|..++.+++..+
T Consensus 430 ~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~ 466 (652)
T COG2433 430 TVERLEEENSELKRELEELKREIEKLESELERFRREV 466 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555555554444443
No 206
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.54 E-value=96 Score=24.26 Aligned_cols=39 Identities=15% Similarity=0.245 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIA 99 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVq 99 (264)
+.++|...-...|..+.-+++-..+++|.+|++++-.|+
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 566777777777777777777788899999999986654
No 207
>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=27.02 E-value=1.1e+02 Score=20.02 Aligned_cols=38 Identities=11% Similarity=0.355 Sum_probs=25.3
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWF 102 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWF 102 (264)
.++.+++..+...+... ....+||+.+|++...|..++
T Consensus 5 ~~~~~~~~~i~~l~~~G-----~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 5 KLSKEQIEEIKELYAEG-----MSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp SSSHCCHHHHHHHHHTT-------HHHHHHHTTS-HHHHHHHH
T ss_pred CCCHHHHHHHHHHHHCC-----CCHHHHHHHHCcCHHHHHHHH
Confidence 46665666666666554 336689999999999887664
No 208
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=26.84 E-value=2.1e+02 Score=20.04 Aligned_cols=38 Identities=32% Similarity=0.232 Sum_probs=30.4
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
-...|++..++-..+..........|..|+..|+++|.
T Consensus 9 Le~klkaerE~R~~d~~~a~~rl~~l~~EN~~Lr~eL~ 46 (52)
T PF12808_consen 9 LERKLKAEREARSLDRSAARKRLSKLEGENRLLRAELE 46 (52)
T ss_pred HHHHHHHhHHhccCCchhHHHHHHHHHHHHHHHHHHHH
Confidence 33456666677777888899999999999999999885
No 209
>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=26.66 E-value=2.7e+02 Score=21.44 Aligned_cols=39 Identities=18% Similarity=0.066 Sum_probs=28.2
Q ss_pred CCCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 57 KKRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 57 krrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
.+|.|+.+++..|.. ...|.+.+|++-..|+.+..+...
T Consensus 35 g~R~Yt~~di~~l~~------------I~~llr~~G~~l~~i~~~l~~~~~ 73 (99)
T cd04765 35 GRRYYRPKDVELLLL------------IKHLLYEKGYTIEGAKQALKEDGA 73 (99)
T ss_pred CCeeeCHHHHHHHHH------------HHHHHHHCCCCHHHHHHHHHhccc
Confidence 355699999988843 344567889999998888765443
No 210
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=26.56 E-value=1.4e+02 Score=24.76 Aligned_cols=45 Identities=16% Similarity=0.067 Sum_probs=31.2
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..++...|-. ...-.+||..+|++...|++++..-|.+-|
T Consensus 132 L~~~~r~v~~l~~~~-----g~s~~eIA~~l~is~~tV~~~l~ra~~~Lr 176 (184)
T PRK12512 132 LPPRQRDVVQSISVE-----GASIKETAAKLSMSEGAVRVALHRGLAALA 176 (184)
T ss_pred CCHHHHHHHHHHHHc-----CCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 666666666655433 223468999999999999998875555544
No 211
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=26.22 E-value=1.6e+02 Score=24.52 Aligned_cols=43 Identities=23% Similarity=0.139 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
.+++.+..++...|-.. ....+||..+|++...|+.+...-|.
T Consensus 139 ~L~~~~r~i~~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Ra~~ 181 (189)
T PRK09648 139 TLPEKQREILILRVVVG-----LSAEETAEAVGSTPGAVRVAQHRALA 181 (189)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 37777777776654432 33568999999999999987754333
No 212
>PRK10403 transcriptional regulator NarP; Provisional
Probab=26.21 E-value=1.2e+02 Score=24.52 Aligned_cols=46 Identities=17% Similarity=0.194 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
.+|..+..+|...... ..+.+||..++++++-|++...|=|.|-..
T Consensus 153 ~Lt~~e~~vl~~~~~g------~s~~~ia~~l~~s~~tv~~~~~~i~~kl~~ 198 (215)
T PRK10403 153 VLTERELDVLHELAQG------LSNKQIASVLNISEQTVKVHIRNLLRKLNV 198 (215)
T ss_pred cCCHHHHHHHHHHHCC------CCHHHHHHHcCCCHHHHHHHHHHHHHHcCC
Confidence 3888888888755432 335688999999999999988876665543
No 213
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=26.11 E-value=1.2e+02 Score=25.22 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..++...|- ....-.++|..+|++...|+.+...-|.+-|
T Consensus 129 L~~~~r~i~~l~~~-----~g~s~~EIA~~lgis~~tV~~~l~Rar~~Lr 173 (186)
T PRK05602 129 LPERQREAIVLQYY-----QGLSNIEAAAVMDISVDALESLLARGRRALR 173 (186)
T ss_pred CCHHHHHHhhHHHh-----cCCCHHHHHHHhCcCHHHHHHHHHHHHHHHH
Confidence 56666666655432 2223468899999999999998754444333
No 214
>cd01104 HTH_MlrA-CarA Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), 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- and CarA-like proteins in this group appear to lack the long dimerization helix seen i
Probab=26.09 E-value=70 Score=22.15 Aligned_cols=21 Identities=19% Similarity=0.398 Sum_probs=18.2
Q ss_pred HHHHHHHhCCChHHHhhhhHH
Q 024675 84 KVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 84 r~~LA~~lgL~~rqVqvWFQN 104 (264)
..++|+.+|++...|+.|-+.
T Consensus 3 ~~eva~~~gvs~~tlr~w~~~ 23 (68)
T cd01104 3 IGAVARLTGVSPDTLRAWERR 23 (68)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 457899999999999999853
No 215
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=26.09 E-value=1.2e+02 Score=24.95 Aligned_cols=46 Identities=15% Similarity=0.142 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
.+++.+..++...|- ....-.++|..+|+++..|+++...-|.+-|
T Consensus 136 ~L~~~~r~v~~l~~~-----~g~s~~eIA~~lgis~~~v~~~l~Rar~~Lr 181 (187)
T TIGR02948 136 ALPPKYRMVIVLKYM-----EDLSLKEISEILDLPVGTVKTRIHRGREALR 181 (187)
T ss_pred hCCHHHhHHhhhHHh-----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 467777777665433 2234568999999999999998865554443
No 216
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=25.86 E-value=1.9e+02 Score=25.13 Aligned_cols=38 Identities=24% Similarity=0.235 Sum_probs=25.4
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
.++.|...+..|+...+.....|+.|..++.+|.....
T Consensus 75 R~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~ 112 (182)
T PF15035_consen 75 RSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWE 112 (182)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666777777777777777777777666654
No 217
>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=25.75 E-value=1.3e+02 Score=21.60 Aligned_cols=27 Identities=26% Similarity=0.331 Sum_probs=13.0
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHHHHHH
Q 024675 118 YGLLKANYDALRLDYNNLQQENEALTA 144 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~~l~~ 144 (264)
.++||.....|...+..|+.||..|+.
T Consensus 16 VevLK~~I~eL~~~n~~Le~EN~~Lk~ 42 (59)
T PF01166_consen 16 VEVLKEQIAELEERNSQLEEENNLLKQ 42 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444444454555555555544443
No 218
>PF13942 Lipoprotein_20: YfhG lipoprotein
Probab=25.67 E-value=3.8e+02 Score=23.47 Aligned_cols=90 Identities=17% Similarity=0.242 Sum_probs=49.8
Q ss_pred CHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCC----hHH----HhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhH
Q 024675 62 TVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQ----PRQ----IAVWFQNRRARLKSKELERDYGLLKANYDALRLDYN 133 (264)
Q Consensus 62 t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~----~rq----VqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~ 133 (264)
...|-..-....-.+-.|++.+|..+...|+-- |.+ +++|=.+.-..---......|..|+.. -..+.+
T Consensus 57 ~~W~~aFkq~ILL~~A~~T~~ERR~~~~~l~~y~~~~P~~vRPL~QlWRe~Q~lql~L~eEr~Ry~rLQqs---sD~~lD 133 (179)
T PF13942_consen 57 DSWQDAFKQSILLANAEPTPAERRQMVDRLNSYSLQFPASVRPLLQLWREQQVLQLQLSEERARYQRLQQS---SDSELD 133 (179)
T ss_pred CcHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhhhcCHHHhHHHHHHHHhHHHHHHHHHHHHHHHHHHHh---hHHHHH
Confidence 333333333334456789999988877766421 223 556654433222211111122222222 234567
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 024675 134 NLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 134 ~l~~en~~l~~e~~~l~~~l~ 154 (264)
.|++++.+|+.+|..-..||-
T Consensus 134 ~Lr~qq~~Lq~qL~~T~RKLE 154 (179)
T PF13942_consen 134 ALRQQQQRLQYQLDTTTRKLE 154 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 789999999999888888884
No 219
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=25.48 E-value=1.9e+02 Score=23.28 Aligned_cols=45 Identities=16% Similarity=0.293 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
++++.+..+|.-.| .. ..-.+||..+|++...|+.+...-|.+.|
T Consensus 112 ~L~~~~r~il~l~~-~g-----~s~~eIA~~lgis~~tV~~~i~ra~~~Lr 156 (166)
T PRK09639 112 KMTERDRTVLLLRF-SG-----YSYKEIAEALGIKESSVGTTLARAKKKFR 156 (166)
T ss_pred cCCHHHHHHHHHHH-cC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 47777777777666 22 23457899999999999998854444333
No 220
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=25.15 E-value=1.4e+02 Score=24.98 Aligned_cols=47 Identities=17% Similarity=0.294 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
.+++.+..++.-.|-.. ....++|+.+|++...|++..+.-|.+-|+
T Consensus 131 ~L~~~~r~i~~l~~~~g-----~s~~EIAe~lgis~~~V~~~l~Ra~~~Lr~ 177 (189)
T PRK06811 131 DLEKLDREIFIRRYLLG-----EKIEEIAKKLGLTRSAIDNRLSRGRKKLQK 177 (189)
T ss_pred hCCHHHHHHHHHHHHcc-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 36777777766544322 334688999999999999877655544444
No 221
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=24.47 E-value=7.4e+02 Score=25.84 Aligned_cols=74 Identities=18% Similarity=0.328 Sum_probs=44.0
Q ss_pred CCCHHHHH-HHHHHhCCC---------------hHHHhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHH---hHHHHHH
Q 024675 78 KLEPDRKV-KLAEELGLQ---------------PRQIAVWFQNRRARLKSKELERDYGLLKANYDALRLD---YNNLQQE 138 (264)
Q Consensus 78 ~p~~~~r~-~LA~~lgL~---------------~rqVqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~---~~~l~~e 138 (264)
.++...+. .+|..+|++ .|||.+|....-..+--..+-+.++ ..+..+-.. .+....+
T Consensus 523 ~it~d~I~~~Va~~f~v~~~dl~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~IG~~Fg---RdHSTV~~A~~kI~~~~~~ 599 (617)
T PRK14086 523 EITAAAIMAATADYFGLTVEDLCGTSRSRVLVTARQIAMYLCRELTDLSLPKIGQQFG---RDHTTVMHADRKIRALMAE 599 (617)
T ss_pred cCCHHHHHHHHHHHhCCCHHHHhCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHhC---CChhHHHHHHHHHHHHHHh
Confidence 35666554 467777754 5677777776655555544444443 222333222 3334556
Q ss_pred HHHHHHHHHHHHHHHh
Q 024675 139 NEALTAELRELKAKLC 154 (264)
Q Consensus 139 n~~l~~e~~~l~~~l~ 154 (264)
+..|+.++..|+.+|.
T Consensus 600 d~~l~~~V~~L~~~i~ 615 (617)
T PRK14086 600 RRSIYNQVTELTNRIK 615 (617)
T ss_pred CHHHHHHHHHHHHHHh
Confidence 7788888888888874
No 222
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=24.37 E-value=2e+02 Score=27.21 Aligned_cols=40 Identities=28% Similarity=0.432 Sum_probs=30.4
Q ss_pred HHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 112 KELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 112 k~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
++++++.+-+.-.-+-.+.+...|++|..+.++|+++++.
T Consensus 35 k~le~~le~l~vqe~yik~e~~~lkre~~~aqeevkriqs 74 (408)
T KOG0727|consen 35 KKLERELELLEVQEDYIKDEQRNLKRELLHAQEEVKRIQS 74 (408)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3466667777666677788888888888888888888775
No 223
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=23.96 E-value=1.6e+02 Score=25.88 Aligned_cols=46 Identities=13% Similarity=0.203 Sum_probs=33.5
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
+++.+..++...|-.. ..-.++|..+|++...|+.+...-+.+-|+
T Consensus 185 L~~~~r~vl~l~~~~g-----~s~~EIA~~lgis~~tV~~~~~ra~~~Lr~ 230 (236)
T PRK06986 185 LPEREQLVLSLYYQEE-----LNLKEIGAVLGVSESRVSQIHSQAIKRLRA 230 (236)
T ss_pred CCHHHHHHHHhHhccC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 6777777777666322 245789999999999999988766555543
No 224
>PF08961 DUF1875: Domain of unknown function (DUF1875); InterPro: IPR015056 MIT can be found in the Nuclear receptor-binding factor 2, it has no known function. ; PDB: 2CRB_A.
Probab=23.96 E-value=26 Score=31.75 Aligned_cols=48 Identities=21% Similarity=0.248 Sum_probs=0.0
Q ss_pred HHHHHhhHHHHHH---HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 104 NRRARLKSKELER---DYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 104 NRRak~Krk~~e~---~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
.+..|.-+..+++ ..+-|+...+.|..+|+.|++||+.|.+|..+|..
T Consensus 114 sK~pKDdKT~IEEQ~T~I~dLrrlVe~L~aeNErLr~EnkqL~ae~arL~k 164 (243)
T PF08961_consen 114 SKAPKDDKTRIEEQATKIADLRRLVEFLLAENERLRRENKQLKAENARLLK 164 (243)
T ss_dssp ---------------------------------------------------
T ss_pred CCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444444444433 34455566666666777777777777776666533
No 225
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=23.83 E-value=4.2e+02 Score=21.98 Aligned_cols=44 Identities=27% Similarity=0.368 Sum_probs=24.9
Q ss_pred HHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 111 SKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 111 rk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
-+.++.....+...+..|...+..|..+.+.+...+..++.++.
T Consensus 23 ~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~le 66 (143)
T PF12718_consen 23 VKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLE 66 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555666666666666666666665554
No 226
>PF12711 Kinesin-relat_1: Kinesin motor; InterPro: IPR024658 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. Kinesin-like proteins KLP2 (or KIF15) also contain a kinesin 'motor' domain. They are involved in mitotic spindle assembly, playing a role in positioning spindle poles during mitosis, specifically at prometaphase []. This entry represents a domain of unknown function found in this type of kinesin-like proteins.
Probab=23.75 E-value=2.8e+02 Score=21.38 Aligned_cols=19 Identities=37% Similarity=0.434 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 024675 135 LQQENEALTAELRELKAKL 153 (264)
Q Consensus 135 l~~en~~l~~e~~~l~~~l 153 (264)
.-.||.+|++|+++|+.--
T Consensus 49 ~A~EN~rL~ee~rrl~~f~ 67 (86)
T PF12711_consen 49 FAMENIRLREELRRLQSFY 67 (86)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3457777777777776644
No 227
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=23.75 E-value=1.1e+02 Score=24.68 Aligned_cols=46 Identities=9% Similarity=0.130 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
+++.+..++...|-.. ..-.++|..+|+++..|++....-|.+-|.
T Consensus 107 Lp~~~r~v~~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Rar~~Lr~ 152 (160)
T PRK09642 107 LPENYRDVVLAHYLEE-----KSYQEIALQEKIEVKTVEMKLYRARKWIKK 152 (160)
T ss_pred CCHHHHHHHHHHHHhC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 6666666665544322 124589999999999999988655544443
No 228
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located 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 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=23.68 E-value=3.5e+02 Score=20.96 Aligned_cols=36 Identities=25% Similarity=0.353 Sum_probs=26.9
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
.|.++..++..|. .....+.+|++-.+|+..+....
T Consensus 36 yR~Y~~~~l~~l~-------------~I~~lr~~G~sL~eI~~~l~~~~ 71 (113)
T cd01109 36 IRDFTEEDLEWLE-------------FIKCLRNTGMSIKDIKEYAELRR 71 (113)
T ss_pred CccCCHHHHHHHH-------------HHHHHHHcCCCHHHHHHHHHHHc
Confidence 4569999988874 23346789999999998887543
No 229
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=23.59 E-value=1.5e+02 Score=23.89 Aligned_cols=45 Identities=29% Similarity=0.288 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
.+|+.+..+|.-...- ..+.+||..++++.+.|++..++=|.|-.
T Consensus 137 ~Lt~~E~~il~~l~~g------~~~~~Ia~~l~~s~~tv~~~~~~l~~Kl~ 181 (196)
T PRK10360 137 PLTKRERQVAEKLAQG------MAVKEIAAELGLSPKTVHVHRANLMEKLG 181 (196)
T ss_pred CCCHHHHHHHHHHHCC------CCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 5888888777765542 25678899999999999988877665543
No 230
>PF13551 HTH_29: Winged helix-turn helix
Probab=23.32 E-value=2.5e+02 Score=20.95 Aligned_cols=46 Identities=20% Similarity=0.307 Sum_probs=30.2
Q ss_pred CCCCCHHHHHHHHHhhhhcCC-----CCHHHHHH-H-HHHh--CCChHHHhhhhH
Q 024675 58 KRRLTVDQVKALEKNFEVDNK-----LEPDRKVK-L-AEEL--GLQPRQIAVWFQ 103 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~-----p~~~~r~~-L-A~~l--gL~~rqVqvWFQ 103 (264)
+.++++++...|...+...+. .+...... | .... .++...|..|+.
T Consensus 55 ~~~l~~~~~~~l~~~~~~~p~~g~~~~t~~~l~~~l~~~~~~~~~s~~ti~r~L~ 109 (112)
T PF13551_consen 55 RKRLSEEQRAQLIELLRENPPEGRSRWTLEELAEWLIEEEFGIDVSPSTIRRILK 109 (112)
T ss_pred CCCCCHHHHHHHHHHHHHCCCCCCCcccHHHHHHHHHHhccCccCCHHHHHHHHH
Confidence 334999999999999987763 33443333 3 3333 467777887764
No 231
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=23.26 E-value=3.1e+02 Score=22.72 Aligned_cols=8 Identities=13% Similarity=0.501 Sum_probs=3.3
Q ss_pred HHHHhhhh
Q 024675 68 ALEKNFEV 75 (264)
Q Consensus 68 ~LE~~F~~ 75 (264)
.|...|..
T Consensus 59 ~LK~~y~~ 66 (131)
T PF04859_consen 59 ELKRRYRK 66 (131)
T ss_pred HHHHHHHc
Confidence 34444443
No 232
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=23.22 E-value=3.3e+02 Score=27.13 Aligned_cols=29 Identities=34% Similarity=0.477 Sum_probs=12.8
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHH
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAE 145 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e 145 (264)
++..+++.+.....+...|++||..|.+|
T Consensus 42 ~~~ai~a~~~~~E~~l~~Lq~e~~~l~e~ 70 (459)
T KOG0288|consen 42 ESRAIKAKLQEKELELNRLQEENTQLNEE 70 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444443
No 233
>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=22.98 E-value=2.3e+02 Score=22.55 Aligned_cols=42 Identities=21% Similarity=0.205 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRA 107 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRa 107 (264)
+++.+..++...|- ......++|..+|++...|+++...-|.
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 66666666665432 2234568999999999999987654333
No 234
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. 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.
Probab=22.97 E-value=3.9e+02 Score=21.20 Aligned_cols=36 Identities=31% Similarity=0.368 Sum_probs=28.1
Q ss_pred CCCCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 58 KRRLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 58 rrr~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
.|.++..++..|. .....+.+|++-..|+-++....
T Consensus 36 yR~Y~~~~l~~l~-------------~I~~lr~~G~sL~eI~~~l~~~~ 71 (126)
T cd04783 36 YRRYPEETVTRLR-------------FIKRAQELGFTLDEIAELLELDD 71 (126)
T ss_pred CeecCHHHHHHHH-------------HHHHHHHcCCCHHHHHHHHhccc
Confidence 4559999998884 34457899999999999887543
No 235
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=22.96 E-value=3.8e+02 Score=25.14 Aligned_cols=48 Identities=27% Similarity=0.443 Sum_probs=28.9
Q ss_pred hhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 99 AVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 99 qvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
..||. ||.+.++.-...|....+.|+.+...|....+.+..-+.+|.+
T Consensus 137 ~~WYe-----WR~~ll~gl~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~ 184 (325)
T PF08317_consen 137 KMWYE-----WRMQLLEGLKEGLEENLELLQEDYAKLDKQLEQLDELLPKLRE 184 (325)
T ss_pred HHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36874 5555666666667777777777776666655555544333333
No 236
>TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family. Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium.
Probab=22.96 E-value=1.7e+02 Score=25.37 Aligned_cols=44 Identities=14% Similarity=0.157 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
.+++.+..+|...|-.. ....++|..+|++...|+.+...-+.+
T Consensus 175 ~L~~~~r~il~l~y~~~-----~s~~eIA~~lgis~~tV~~~~~ra~~~ 218 (224)
T TIGR02479 175 SLSEREQLVLSLYYYEE-----LNLKEIGEVLGLTESRVSQIHSQALKK 218 (224)
T ss_pred hCCHHHHHHHHHHHhCC-----CCHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 37888888888877432 235789999999999999877544443
No 237
>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=22.81 E-value=4.1e+02 Score=21.36 Aligned_cols=15 Identities=33% Similarity=0.656 Sum_probs=11.8
Q ss_pred hHHHhhhhHHHHHHh
Q 024675 95 PRQIAVWFQNRRARL 109 (264)
Q Consensus 95 ~rqVqvWFQNRRak~ 109 (264)
-||...||-.+|.--
T Consensus 17 aRq~e~~FlqKr~~L 31 (106)
T PF11594_consen 17 ARQMEAFFLQKRFEL 31 (106)
T ss_pred HHHHHHHHHHHHHHH
Confidence 478899999888754
No 238
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=22.76 E-value=3.1e+02 Score=20.03 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 024675 132 YNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 132 ~~~l~~en~~l~~e~~~l~~~l 153 (264)
....-.++..|+.|+..|+..+
T Consensus 42 l~~a~~e~~~Lk~E~e~L~~el 63 (69)
T PF14197_consen 42 LGDAYEENNKLKEENEALRKEL 63 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3334456666666666666654
No 239
>COG3599 DivIVA Cell division initiation protein [Cell division and chromosome partitioning]
Probab=22.73 E-value=2.2e+02 Score=25.53 Aligned_cols=34 Identities=38% Similarity=0.485 Sum_probs=25.0
Q ss_pred HhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 123 ANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 123 ~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
...+.+..+|..+..+|..|++++..|+.++...
T Consensus 30 eFLD~V~~dye~~l~e~~~l~~~i~~L~~~l~~~ 63 (212)
T COG3599 30 EFLDDVIDDYEQLLDENEDLEDEIDELKEELKEA 63 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4456677777777788888888888888877643
No 240
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=22.62 E-value=2e+02 Score=25.14 Aligned_cols=33 Identities=21% Similarity=0.286 Sum_probs=24.7
Q ss_pred CCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 79 LEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 79 p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
.......++|..+|++...|++....-|.+.|+
T Consensus 163 ~~g~s~~EIAe~lgis~~tVk~~l~Rar~kLr~ 195 (231)
T PRK11922 163 VEELSVEETAQALGLPEETVKTRLHRARRLLRE 195 (231)
T ss_pred hcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 444556789999999999999877655555554
No 241
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=22.46 E-value=4.4e+02 Score=22.03 Aligned_cols=49 Identities=18% Similarity=0.241 Sum_probs=23.7
Q ss_pred HHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 105 RRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 105 RRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
+|++.++..++.....|.+..+....+...+..+++.-++++..|+..+
T Consensus 13 K~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el 61 (140)
T PF10473_consen 13 KESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEEL 61 (140)
T ss_pred HHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444445555555555444444444444444444444444444
No 242
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.45 E-value=4.4e+02 Score=28.60 Aligned_cols=11 Identities=27% Similarity=0.604 Sum_probs=7.4
Q ss_pred hhhHHHHHHhh
Q 024675 100 VWFQNRRARLK 110 (264)
Q Consensus 100 vWFQNRRak~K 110 (264)
-|=++||+..-
T Consensus 412 ewErar~qem~ 422 (1118)
T KOG1029|consen 412 EWERARRQEML 422 (1118)
T ss_pred HHHHHHHHHHH
Confidence 48888776544
No 243
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=22.38 E-value=3.6e+02 Score=25.46 Aligned_cols=41 Identities=32% Similarity=0.467 Sum_probs=26.1
Q ss_pred hhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHH
Q 024675 99 AVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTA 144 (264)
Q Consensus 99 qvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~ 144 (264)
.+||. ||.+.++.-...|....+.|+.+...|..+.+.+..
T Consensus 132 ~~WYe-----WR~kllegLk~~L~~~~~~l~~D~~~L~~~~~~l~~ 172 (312)
T smart00787 132 KMWYE-----WRMKLLEGLKEGLDENLEGLKEDYKLLMKELELLNS 172 (312)
T ss_pred HHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36885 555556666666777777777777666665555444
No 244
>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=22.38 E-value=3.3e+02 Score=20.13 Aligned_cols=39 Identities=15% Similarity=0.346 Sum_probs=31.7
Q ss_pred HHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 115 ERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 115 e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
+..|..|+.++..-..++..|...+..|...+..|-+.+
T Consensus 27 q~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~~Ls~ql 65 (70)
T PF04899_consen 27 QSSYADLQHMFEQTSQENAALSEQVNNLSQQVQRLSEQL 65 (70)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457788888888888888888888888888888887766
No 245
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=22.37 E-value=1e+02 Score=18.94 Aligned_cols=22 Identities=32% Similarity=0.424 Sum_probs=18.2
Q ss_pred HHHHHHhCCChHHHhhhhHHHH
Q 024675 85 VKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 85 ~~LA~~lgL~~rqVqvWFQNRR 106 (264)
..+|..+|+++..|..|..+.+
T Consensus 16 ~~~a~~~~~~~~~v~~~~~g~~ 37 (58)
T cd00093 16 EELAEKLGVSRSTISRIENGKR 37 (58)
T ss_pred HHHHHHHCCCHHHHHHHHcCCC
Confidence 4789999999999999987653
No 246
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=22.32 E-value=2.8e+02 Score=24.14 Aligned_cols=43 Identities=21% Similarity=0.230 Sum_probs=21.9
Q ss_pred HhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 108 RLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 108 k~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
|||.++..+..+..+...+.|+.+.. .+..+..+++.|-..+.
T Consensus 31 rwk~~~~~e~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~l~~~~ 73 (177)
T PF03234_consen 31 RWKHQARHERREERKQEIEELKYERK----INEKLLKRIQKLLSALD 73 (177)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhh
Confidence 45555555555555555555554433 34445555555555544
No 247
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=22.32 E-value=3.1e+02 Score=21.82 Aligned_cols=42 Identities=14% Similarity=0.143 Sum_probs=29.1
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
.+++.+..++.-.|-... .-.++|..||++...|++....-|
T Consensus 106 ~Lp~~~r~v~~l~~~~g~-----s~~EIA~~lgis~~tV~~~l~ra~ 147 (161)
T PRK09047 106 KLPARQREAFLLRYWEDM-----DVAETAAAMGCSEGSVKTHCSRAT 147 (161)
T ss_pred hCCHHHHHHHHHHHHhcC-----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 477777777766543222 246899999999999998765433
No 248
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=22.17 E-value=1.1e+02 Score=25.06 Aligned_cols=30 Identities=17% Similarity=0.183 Sum_probs=22.9
Q ss_pred HHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 82 DRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 82 ~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
..-.++|..+|+++..|++.+..-|.+.|+
T Consensus 137 ~s~~eIA~~lg~s~~tv~~~l~Rar~~L~~ 166 (175)
T PRK12518 137 LPQKEIAEILNIPVGTVKSRLFYARRQLRK 166 (175)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 345789999999999999988655554443
No 249
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=21.95 E-value=51 Score=21.57 Aligned_cols=21 Identities=10% Similarity=0.249 Sum_probs=19.1
Q ss_pred HHHHHhCCChHHHhhhhHHHH
Q 024675 86 KLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 86 ~LA~~lgL~~rqVqvWFQNRR 106 (264)
+||+.+|++...|..|+.++.
T Consensus 2 ~lA~~~gvs~~tvs~~l~g~~ 22 (52)
T cd01392 2 DIARAAGVSVATVSRVLNGKP 22 (52)
T ss_pred cHHHHHCcCHHHHHHHHcCCC
Confidence 589999999999999998874
No 250
>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=21.79 E-value=2.5e+02 Score=23.08 Aligned_cols=40 Identities=20% Similarity=0.126 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHH
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQN 104 (264)
.+++.+..+|.-.|-.. ....++|..+|+++..|+++-..
T Consensus 100 ~L~~~~r~v~~l~~~~g-----~s~~eIA~~lgis~~tV~~~l~R 139 (170)
T TIGR02959 100 ELPDEYREAIRLTELEG-----LSQQEIAEKLGLSLSGAKSRVQR 139 (170)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHH
Confidence 46677766666554322 23568899999999999987643
No 251
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=21.69 E-value=2.6e+02 Score=23.30 Aligned_cols=45 Identities=11% Similarity=0.181 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
+++.+..+|.-.|-. ...-.++|..+|+++..|++-...-|.+.|
T Consensus 132 L~~~~r~vl~l~~~~-----~~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 176 (189)
T PRK12515 132 LSPAHREIIDLVYYH-----EKSVEEVGEIVGIPESTVKTRMFYARKKLA 176 (189)
T ss_pred CCHHHHHHHHHHHHc-----CCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 677777777655432 223467899999999999987755444444
No 252
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=21.63 E-value=2.3e+02 Score=21.06 Aligned_cols=53 Identities=15% Similarity=0.216 Sum_probs=33.4
Q ss_pred HhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 98 IAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 98 VqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
++|.|-..|-... .....+.+-..+-.|+.+...|+++...++..+.++..++
T Consensus 21 LrI~fLee~l~~~---~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a~~~~ 73 (75)
T PF07989_consen 21 LRIYFLEERLQKL---GPESIEELLKENIELKVEVESLKRELQEKKKLLKEAEKAI 73 (75)
T ss_pred HHHHHHHHHHHhc---ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677766555411 1222333333444488888888888888888888877765
No 253
>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=1.2e+02 Score=25.05 Aligned_cols=43 Identities=16% Similarity=0.037 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
+++.+..++.-.| .....-.++|..+|+++..|+++...-|.+
T Consensus 139 L~~~~r~v~~l~~-----~~~~s~~EIA~~lgis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 139 LPEDLRTAITLRE-----LEGLSYEDIARIMDCPVGTVRSRIFRAREA 181 (190)
T ss_pred CCHHHhhhhhhhh-----hcCCCHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 4455544444332 223335689999999999999987544433
No 254
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=21.59 E-value=3.1e+02 Score=26.64 Aligned_cols=38 Identities=18% Similarity=0.368 Sum_probs=28.4
Q ss_pred HHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 024675 114 LERDYGLLKANYDALRLDYNNLQQENEALTAELRELKA 151 (264)
Q Consensus 114 ~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~ 151 (264)
+++....++.....+..+...++++.+.+++|+..|+.
T Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (398)
T PTZ00454 27 LEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQS 64 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34455666677777778888888888888888888854
No 255
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=21.28 E-value=3.1e+02 Score=20.49 Aligned_cols=38 Identities=26% Similarity=0.368 Sum_probs=27.7
Q ss_pred HHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 117 DYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 117 ~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
-...|....+.+..+.+.+......+..++.+++..|.
T Consensus 63 ~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~ 100 (106)
T PF01920_consen 63 AIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLY 100 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666677777777788888888888888877775
No 256
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=21.21 E-value=1.5e+02 Score=24.05 Aligned_cols=46 Identities=22% Similarity=0.091 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhhH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLKS 111 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~Kr 111 (264)
+++.+..++...|- ......++|..+|++...|++|...-|.+-|+
T Consensus 109 L~~~~r~v~~l~~~-----~g~s~~eIA~~lgis~~tv~~~l~Rar~~Lr~ 154 (165)
T PRK09644 109 LPVIEAQAILLCDV-----HELTYEEAASVLDLKLNTYKSHLFRGRKRLKA 154 (165)
T ss_pred CCHHHHHHHHhHHH-----hcCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 56666665554322 12235689999999999999988755554443
No 257
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=21.12 E-value=1.9e+02 Score=23.93 Aligned_cols=41 Identities=15% Similarity=0.153 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHH
Q 024675 61 LTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRR 106 (264)
++..+..+|.-.|- ....-.++|..+|++...|+++...-|
T Consensus 136 L~~~~r~vl~l~~~-----~~~s~~eIA~~lgis~~~V~~~l~ra~ 176 (186)
T PRK13919 136 LSPEERRVIEVLYY-----QGYTHREAAQLLGLPLGTLKTRARRAL 176 (186)
T ss_pred CCHHHHHHHHHHHH-----cCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 56666666654432 222346789999999999998765433
No 258
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=21.11 E-value=2.3e+02 Score=29.52 Aligned_cols=10 Identities=20% Similarity=0.368 Sum_probs=4.0
Q ss_pred HHHHHHHHHh
Q 024675 145 ELRELKAKLC 154 (264)
Q Consensus 145 e~~~l~~~l~ 154 (264)
++..|+.+|.
T Consensus 482 ~I~~L~~~L~ 491 (652)
T COG2433 482 RIERLEKELE 491 (652)
T ss_pred HHHHHHHHHH
Confidence 3334444443
No 259
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=21.02 E-value=2.9e+02 Score=19.66 Aligned_cols=27 Identities=30% Similarity=0.367 Sum_probs=19.6
Q ss_pred HHhhHHHHHHhHHHHHHHHHHHHHHHH
Q 024675 122 KANYDALRLDYNNLQQENEALTAELRE 148 (264)
Q Consensus 122 k~~~~~l~~~~~~l~~en~~l~~e~~~ 148 (264)
-....++..+.+.|+++|..|+.-+++
T Consensus 32 L~~R~~l~~e~~~L~~qN~eLr~lLkq 58 (60)
T PF14775_consen 32 LLDRAALIQEKESLEQQNEELRSLLKQ 58 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344456778888999999988876543
No 260
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=20.96 E-value=3.6e+02 Score=27.18 Aligned_cols=47 Identities=11% Similarity=0.240 Sum_probs=20.2
Q ss_pred HHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 024675 107 ARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKL 153 (264)
Q Consensus 107 ak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l 153 (264)
.+.+-...+.....|+..++.++.+.+.+..+.+.++++|++|+..+
T Consensus 67 nqSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~ 113 (475)
T PRK13729 67 RQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDN 113 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence 33333333334444444444444444444444444444444444433
No 261
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=20.89 E-value=5e+02 Score=22.79 Aligned_cols=53 Identities=28% Similarity=0.363 Sum_probs=29.8
Q ss_pred HHhhhhHHHHHHhhHHHHHHHHhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 024675 97 QIAVWFQNRRARLKSKELERDYGLLKANYDALRLDYNNLQQENEALTAELRELKAKLCQE 156 (264)
Q Consensus 97 qVqvWFQNRRak~Krk~~e~~~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~~~ 156 (264)
...+|-+-|-.+.|.. ..+.....|+...+.|..+.+.++..+.+|..++.+.
T Consensus 87 v~Ey~R~~~~e~~kee-------~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~~~l~~~ 139 (181)
T KOG3335|consen 87 VFEYWRQARKERKKEE-------KRKQEIMELRLKVEKLENAIAELTKFFSQLHSKLNKP 139 (181)
T ss_pred eehhHHhhhcchhhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc
Confidence 3445655444444422 2233344556666666667777777777777666543
No 262
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=20.82 E-value=61 Score=21.44 Aligned_cols=22 Identities=32% Similarity=0.442 Sum_probs=18.6
Q ss_pred HHHHHHhCCChHHHhhhhHHHH
Q 024675 85 VKLAEELGLQPRQIAVWFQNRR 106 (264)
Q Consensus 85 ~~LA~~lgL~~rqVqvWFQNRR 106 (264)
.+||+.+|+++..|..|..+++
T Consensus 13 ~~la~~~gis~~~i~~~~~g~~ 34 (55)
T PF01381_consen 13 KELAEKLGISRSTISRIENGKR 34 (55)
T ss_dssp HHHHHHHTS-HHHHHHHHTTSS
T ss_pred HHHHHHhCCCcchhHHHhcCCC
Confidence 6899999999999999998744
No 263
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=20.77 E-value=1.5e+02 Score=23.70 Aligned_cols=25 Identities=20% Similarity=0.299 Sum_probs=21.1
Q ss_pred CHHHHHHHHHHhCCChHHHhhhhHH
Q 024675 80 EPDRKVKLAEELGLQPRQIAVWFQN 104 (264)
Q Consensus 80 ~~~~r~~LA~~lgL~~rqVqvWFQN 104 (264)
......+||..+|++++.+..+|+.
T Consensus 24 ~~~sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 24 SPLSLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3456678999999999999999964
No 264
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.77 E-value=3e+02 Score=26.66 Aligned_cols=37 Identities=22% Similarity=0.172 Sum_probs=19.4
Q ss_pred HhhHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 024675 118 YGLLKANYDALRLDYNNLQQENEALTAELRELKAKLC 154 (264)
Q Consensus 118 ~~~lk~~~~~l~~~~~~l~~en~~l~~e~~~l~~~l~ 154 (264)
-+.++.....|+.+.++|+++...|++.+.=|+.+..
T Consensus 241 ~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~ 277 (365)
T KOG2391|consen 241 EEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVR 277 (365)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 3444455555555555555555555555555555443
No 265
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=20.72 E-value=2e+02 Score=24.63 Aligned_cols=7 Identities=43% Similarity=0.790 Sum_probs=2.8
Q ss_pred HHHHHhh
Q 024675 67 KALEKNF 73 (264)
Q Consensus 67 ~~LE~~F 73 (264)
..+.+.|
T Consensus 92 ~~~~~~f 98 (192)
T PF05529_consen 92 QVLAKKF 98 (192)
T ss_pred HHHHHHH
Confidence 3334444
No 266
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=20.69 E-value=4.8e+02 Score=24.33 Aligned_cols=15 Identities=40% Similarity=0.468 Sum_probs=9.1
Q ss_pred CCHHHHHHHHHhhhh
Q 024675 61 LTVDQVKALEKNFEV 75 (264)
Q Consensus 61 ~t~~Ql~~LE~~F~~ 75 (264)
..+.+..+|...|.+
T Consensus 94 Vk~S~~silq~If~K 108 (269)
T PF05278_consen 94 VKPSQVSILQKIFEK 108 (269)
T ss_pred EcHhHHHHHHHHHHh
Confidence 455666666666643
No 267
>PRK15369 two component system sensor kinase SsrB; Provisional
Probab=20.52 E-value=2.7e+02 Score=22.12 Aligned_cols=45 Identities=18% Similarity=0.187 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
.+|+.+..+|.- +..+. ...++|+.++++++-|+.+.+|=+.|-.
T Consensus 149 ~lt~~e~~vl~l-~~~g~-----~~~~Ia~~l~~s~~tv~~~~~~~~~kl~ 193 (211)
T PRK15369 149 LLTPRERQILKL-ITEGY-----TNRDIAEQLSISIKTVETHRLNMMRKLD 193 (211)
T ss_pred CCCHHHHHHHHH-HHCCC-----CHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 488888888876 33222 2568899999999999999887555543
No 268
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=20.39 E-value=2.2e+02 Score=26.70 Aligned_cols=50 Identities=22% Similarity=0.274 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
++++.+..+|...|... +.......+||..+|++...|+.+...-+.+-|
T Consensus 262 ~L~~~~R~vl~lrygL~-~~e~~s~~EIA~~Lgis~~tV~~~~~rAl~kLr 311 (325)
T PRK05657 262 ELNDKQREVLARRFGLL-GYEAATLEDVAREIGLTRERVRQIQVEALRRLR 311 (325)
T ss_pred cCCHHHHHHHHHHhccC-CCCCcCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 48899999998877322 223345578999999999999998765444443
No 269
>PRK09935 transcriptional regulator FimZ; Provisional
Probab=20.36 E-value=1.9e+02 Score=23.47 Aligned_cols=45 Identities=18% Similarity=0.144 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCChHHHhhhhHHHHHHhh
Q 024675 60 RLTVDQVKALEKNFEVDNKLEPDRKVKLAEELGLQPRQIAVWFQNRRARLK 110 (264)
Q Consensus 60 r~t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~lgL~~rqVqvWFQNRRak~K 110 (264)
.+|..+..+|.....- ..+.+||..++++.+-|+++..+=|.|-.
T Consensus 149 ~lt~re~~vl~~l~~g------~s~~eIa~~l~~s~~tv~~~~~~~~~kl~ 193 (210)
T PRK09935 149 VLSNREVTILRYLVSG------LSNKEIADQLLLSNKTVSAHKSNIYGKLG 193 (210)
T ss_pred cCCHHHHHHHHHHHcC------CCHHHHHHHhCCCHHHHHHHHHHHHHHcC
Confidence 4788888887643332 45678999999999999998877665543
No 270
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=20.23 E-value=1.3e+02 Score=23.83 Aligned_cols=30 Identities=17% Similarity=0.119 Sum_probs=22.3
Q ss_pred CCHHHHHHHHHHhCCChHHHhhhhHHHHHH
Q 024675 79 LEPDRKVKLAEELGLQPRQIAVWFQNRRAR 108 (264)
Q Consensus 79 p~~~~r~~LA~~lgL~~rqVqvWFQNRRak 108 (264)
.....-.++|..+|+++..|+++...-|.+
T Consensus 119 ~~g~s~~eIA~~lgis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 119 FKEFSYKEIAELLNLSLAKVKSNLFRARKE 148 (154)
T ss_pred hccCcHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 344456789999999999999877644443
Done!