Query 027468
Match_columns 223
No_of_seqs 255 out of 1312
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 10:22:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027468.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027468hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0483 Transcription factor H 99.9 2.4E-22 5.2E-27 171.6 12.3 103 35-137 50-152 (198)
2 KOG0842 Transcription factor t 99.6 2.9E-16 6.2E-21 141.7 5.2 69 34-102 152-220 (307)
3 KOG0488 Transcription factor B 99.6 5.1E-16 1.1E-20 140.9 6.7 64 33-96 170-233 (309)
4 KOG0489 Transcription factor z 99.6 4.8E-16 1E-20 138.0 5.3 63 33-95 157-219 (261)
5 PF00046 Homeobox: Homeobox do 99.6 1.6E-15 3.5E-20 104.1 6.2 57 36-92 1-57 (57)
6 KOG0843 Transcription factor E 99.6 2.5E-15 5.5E-20 125.9 6.2 65 33-97 100-164 (197)
7 KOG0487 Transcription factor A 99.6 1.2E-15 2.7E-20 137.7 3.9 65 33-97 233-297 (308)
8 KOG2251 Homeobox transcription 99.6 3.7E-15 8.1E-20 128.3 6.6 73 25-97 27-99 (228)
9 KOG0485 Transcription factor N 99.6 2.6E-15 5.7E-20 129.1 4.5 66 30-95 99-164 (268)
10 KOG0850 Transcription factor D 99.5 8.1E-15 1.8E-19 126.9 6.1 57 36-92 123-179 (245)
11 KOG0492 Transcription factor M 99.5 4.9E-14 1.1E-18 120.6 8.3 60 36-95 145-204 (246)
12 KOG0494 Transcription factor C 99.5 4.9E-14 1.1E-18 124.0 6.2 68 39-106 145-212 (332)
13 KOG0484 Transcription factor P 99.5 2.7E-14 5.9E-19 110.4 3.9 60 34-93 16-75 (125)
14 cd00086 homeodomain Homeodomai 99.5 1.1E-13 2.5E-18 94.5 6.4 57 37-93 2-58 (59)
15 smart00389 HOX Homeodomain. DN 99.5 1E-13 2.3E-18 94.2 6.0 55 37-91 2-56 (56)
16 KOG0848 Transcription factor C 99.4 5.2E-14 1.1E-18 124.3 4.3 58 38-95 202-259 (317)
17 COG5576 Homeodomain-containing 99.4 3.9E-13 8.5E-18 111.3 6.1 66 31-96 47-112 (156)
18 KOG0493 Transcription factor E 99.4 4.6E-13 1E-17 118.0 4.7 60 37-96 248-307 (342)
19 TIGR01565 homeo_ZF_HD homeobox 99.3 1.5E-12 3.2E-17 91.2 4.8 52 36-87 2-57 (58)
20 KOG4577 Transcription factor L 99.3 1.8E-12 3.9E-17 115.7 4.5 101 31-132 163-263 (383)
21 KOG0491 Transcription factor B 99.3 1.6E-12 3.4E-17 107.9 2.2 59 37-95 102-160 (194)
22 KOG3802 Transcription factor O 99.2 5.7E-12 1.2E-16 116.6 3.4 62 34-95 293-354 (398)
23 KOG0844 Transcription factor E 99.2 6.6E-12 1.4E-16 112.9 3.5 62 35-96 181-242 (408)
24 KOG0847 Transcription factor, 99.1 4E-11 8.7E-16 103.7 3.5 58 38-95 170-227 (288)
25 KOG0486 Transcription factor P 99.0 1.7E-10 3.7E-15 104.0 4.1 62 34-95 111-172 (351)
26 KOG0490 Transcription factor, 98.9 4.3E-10 9.3E-15 96.0 3.3 63 32-94 57-119 (235)
27 KOG0775 Transcription factor S 98.8 1.1E-08 2.5E-13 90.9 5.5 50 42-91 183-232 (304)
28 KOG0849 Transcription factor P 98.7 1.2E-08 2.7E-13 94.4 5.5 63 33-95 174-236 (354)
29 KOG1168 Transcription factor A 98.7 8.5E-09 1.8E-13 92.5 2.0 62 32-93 306-367 (385)
30 PF05920 Homeobox_KN: Homeobox 98.3 4.2E-07 9.1E-12 59.0 3.0 34 56-89 7-40 (40)
31 PF02183 HALZ: Homeobox associ 98.3 1.8E-06 3.8E-11 57.6 6.0 44 93-136 1-44 (45)
32 KOG0774 Transcription factor P 98.2 1.2E-06 2.6E-11 77.9 3.0 58 36-93 189-249 (334)
33 KOG2252 CCAAT displacement pro 98.1 4.5E-06 9.8E-11 80.4 6.2 61 31-91 416-476 (558)
34 KOG0490 Transcription factor, 97.8 3.1E-05 6.7E-10 66.0 4.7 65 31-95 149-213 (235)
35 KOG1146 Homeobox protein [Gene 96.6 0.0017 3.6E-08 68.5 3.8 60 36-95 904-963 (1406)
36 PF11569 Homez: Homeodomain le 96.5 0.0024 5.3E-08 44.4 2.6 43 46-88 9-51 (56)
37 KOG0773 Transcription factor M 96.4 0.0045 9.7E-08 56.7 4.6 66 35-100 239-307 (342)
38 PF02183 HALZ: Homeobox associ 95.9 0.023 5.1E-07 37.7 5.1 38 102-139 3-40 (45)
39 KOG4005 Transcription factor X 94.8 0.35 7.5E-06 43.0 10.1 39 99-137 106-144 (292)
40 PRK09413 IS2 repressor TnpA; R 94.2 0.3 6.6E-06 38.3 7.9 44 37-85 8-52 (121)
41 smart00340 HALZ homeobox assoc 92.6 0.33 7.1E-06 31.9 4.6 37 94-137 2-38 (44)
42 PF04218 CENP-B_N: CENP-B N-te 92.0 0.5 1.1E-05 32.1 5.2 47 36-87 1-47 (53)
43 KOG3623 Homeobox transcription 91.9 0.24 5.2E-06 50.2 4.8 48 47-94 568-615 (1007)
44 PF06005 DUF904: Protein of un 91.5 1.2 2.6E-05 32.4 7.1 40 94-133 15-54 (72)
45 PF00170 bZIP_1: bZIP transcri 91.2 2.3 5E-05 29.6 8.1 39 96-134 25-63 (64)
46 PF06156 DUF972: Protein of un 91.1 1.6 3.6E-05 34.0 7.9 48 92-139 10-57 (107)
47 PRK13169 DNA replication intia 90.3 1.5 3.3E-05 34.5 7.1 46 92-137 10-55 (110)
48 PF10224 DUF2205: Predicted co 89.9 2.5 5.4E-05 31.5 7.6 48 89-136 15-62 (80)
49 smart00340 HALZ homeobox assoc 89.3 1 2.2E-05 29.7 4.5 22 115-136 9-30 (44)
50 PF00170 bZIP_1: bZIP transcri 87.8 3.5 7.5E-05 28.7 6.9 39 89-127 25-63 (64)
51 KOG4196 bZIP transcription fac 87.0 15 0.00032 29.9 10.7 90 40-141 22-118 (135)
52 smart00338 BRLZ basic region l 86.4 5.7 0.00012 27.6 7.4 40 96-135 25-64 (65)
53 PF06005 DUF904: Protein of un 85.8 7.1 0.00015 28.4 7.7 45 90-134 18-62 (72)
54 KOG3119 Basic region leucine z 85.1 4.1 8.9E-05 36.6 7.6 52 86-140 207-258 (269)
55 KOG4571 Activating transcripti 83.9 4.9 0.00011 36.7 7.5 44 92-135 243-286 (294)
56 PRK00888 ftsB cell division pr 81.6 3.8 8.2E-05 31.7 5.2 47 77-131 15-61 (105)
57 COG4467 Regulator of replicati 81.2 6.5 0.00014 31.0 6.2 45 93-137 11-55 (114)
58 PRK13922 rod shape-determining 80.8 4.6 0.0001 35.7 6.2 42 97-138 69-113 (276)
59 TIGR00219 mreC rod shape-deter 80.3 4.9 0.00011 36.3 6.2 39 100-138 69-111 (283)
60 PRK15422 septal ring assembly 79.4 7.8 0.00017 28.8 5.8 38 95-132 23-60 (79)
61 KOG4005 Transcription factor X 78.5 6.7 0.00015 35.1 6.2 54 84-137 82-137 (292)
62 smart00338 BRLZ basic region l 77.8 12 0.00026 25.9 6.3 35 93-127 29-63 (65)
63 COG3074 Uncharacterized protei 77.0 11 0.00024 27.6 5.9 38 94-131 22-59 (79)
64 TIGR03752 conj_TIGR03752 integ 75.6 8.5 0.00018 37.4 6.6 26 41-69 41-66 (472)
65 KOG0483 Transcription factor H 74.7 5.5 0.00012 34.4 4.6 44 99-142 107-150 (198)
66 TIGR02449 conserved hypothetic 74.7 23 0.00049 25.4 7.0 42 93-134 10-51 (65)
67 PRK10884 SH3 domain-containing 74.2 11 0.00023 32.7 6.3 31 102-132 137-167 (206)
68 PF07407 Seadorna_VP6: Seadorn 74.0 4.8 0.0001 37.6 4.3 11 161-171 129-139 (420)
69 PRK10884 SH3 domain-containing 73.0 21 0.00045 30.9 7.8 42 96-137 124-165 (206)
70 PF14775 NYD-SP28_assoc: Sperm 71.1 13 0.00028 26.0 5.0 34 101-135 24-57 (60)
71 TIGR03752 conj_TIGR03752 integ 70.8 27 0.00059 34.0 8.7 22 89-110 72-93 (472)
72 PF04977 DivIC: Septum formati 70.4 15 0.00033 25.8 5.5 25 106-130 26-50 (80)
73 PF14197 Cep57_CLD_2: Centroso 70.3 37 0.00081 24.3 7.7 45 91-135 20-64 (69)
74 PF04545 Sigma70_r4: Sigma-70, 69.9 11 0.00025 24.4 4.3 40 41-85 4-43 (50)
75 PF01527 HTH_Tnp_1: Transposas 69.8 2.1 4.6E-05 30.0 0.9 46 37-86 2-47 (76)
76 KOG0709 CREB/ATF family transc 69.8 21 0.00046 34.6 7.7 34 106-139 288-321 (472)
77 PRK00888 ftsB cell division pr 68.9 15 0.00033 28.4 5.5 23 102-124 39-61 (105)
78 cd04766 HTH_HspR Helix-Turn-He 68.6 32 0.0007 25.2 7.1 72 65-136 4-90 (91)
79 PF15058 Speriolin_N: Sperioli 68.3 16 0.00034 31.7 5.9 41 97-138 5-45 (200)
80 PRK14127 cell division protein 68.0 22 0.00047 28.0 6.2 41 97-137 30-70 (109)
81 KOG2391 Vacuolar sorting prote 67.6 23 0.0005 33.2 7.2 48 86-133 221-268 (365)
82 COG4026 Uncharacterized protei 66.5 27 0.00058 31.2 7.1 47 92-138 144-190 (290)
83 TIGR02449 conserved hypothetic 66.3 40 0.00087 24.1 6.8 41 95-135 5-45 (65)
84 KOG1962 B-cell receptor-associ 66.0 24 0.00052 31.0 6.7 40 98-137 173-212 (216)
85 KOG0709 CREB/ATF family transc 65.9 8.4 0.00018 37.3 4.2 42 102-143 277-318 (472)
86 cd06171 Sigma70_r4 Sigma70, re 65.6 9.2 0.0002 23.7 3.2 44 41-89 10-53 (55)
87 PF06156 DUF972: Protein of un 65.5 25 0.00053 27.4 6.1 41 92-132 17-57 (107)
88 TIGR02894 DNA_bind_RsfA transc 65.2 29 0.00062 29.2 6.7 59 74-132 80-139 (161)
89 PRK13729 conjugal transfer pil 64.3 24 0.00051 34.5 6.9 45 91-135 77-121 (475)
90 PF03670 UPF0184: Uncharacteri 63.8 24 0.00052 26.5 5.4 35 96-130 25-59 (83)
91 PF04967 HTH_10: HTH DNA bindi 62.6 14 0.0003 25.2 3.7 40 42-81 1-42 (53)
92 PF04728 LPP: Lipoprotein leuc 62.5 50 0.0011 23.0 7.3 45 91-135 4-48 (56)
93 PHA01750 hypothetical protein 61.6 59 0.0013 23.5 7.0 39 98-136 36-74 (75)
94 PF07716 bZIP_2: Basic region 61.2 47 0.001 22.2 6.3 27 106-132 27-53 (54)
95 PF13443 HTH_26: Cro/C1-type H 61.0 10 0.00023 25.4 2.9 42 64-105 12-53 (63)
96 PF07989 Microtub_assoc: Micro 60.4 43 0.00094 24.4 6.2 26 110-135 42-67 (75)
97 KOG4343 bZIP transcription fac 60.0 28 0.00061 34.6 6.6 26 110-135 308-333 (655)
98 cd00569 HTH_Hin_like Helix-tur 59.8 24 0.00053 19.3 4.1 39 40-83 4-42 (42)
99 PRK15422 septal ring assembly 58.9 62 0.0013 24.1 6.8 38 91-128 26-63 (79)
100 COG4026 Uncharacterized protei 58.8 32 0.00069 30.7 6.2 37 99-135 137-173 (290)
101 PF04899 MbeD_MobD: MbeD/MobD 58.0 52 0.0011 23.8 6.2 41 96-136 27-67 (70)
102 PF05377 FlaC_arch: Flagella a 57.8 44 0.00096 23.2 5.5 41 95-135 5-45 (55)
103 PF04899 MbeD_MobD: MbeD/MobD 57.8 67 0.0014 23.2 6.8 42 96-137 20-61 (70)
104 PF07716 bZIP_2: Basic region 57.5 55 0.0012 21.8 7.6 30 97-126 25-54 (54)
105 PRK13169 DNA replication intia 57.5 41 0.00089 26.4 6.1 40 93-132 18-57 (110)
106 PF11932 DUF3450: Protein of u 57.2 54 0.0012 28.7 7.5 42 94-135 53-94 (251)
107 KOG3119 Basic region leucine z 56.9 40 0.00086 30.2 6.7 42 99-140 210-251 (269)
108 PRK14127 cell division protein 55.6 27 0.00059 27.4 4.8 42 100-141 26-67 (109)
109 KOG4343 bZIP transcription fac 55.6 50 0.0011 32.9 7.5 50 83-132 287-337 (655)
110 PF10668 Phage_terminase: Phag 55.2 8.1 0.00018 27.2 1.6 19 65-83 25-43 (60)
111 PF08826 DMPK_coil: DMPK coile 54.5 74 0.0016 22.4 7.1 43 94-136 15-57 (61)
112 PTZ00454 26S protease regulato 54.4 45 0.00097 31.6 6.9 44 94-137 19-62 (398)
113 PF08172 CASP_C: CASP C termin 54.2 57 0.0012 29.0 7.2 42 87-128 90-131 (248)
114 PF04880 NUDE_C: NUDE protein, 53.2 21 0.00046 30.0 4.1 24 111-134 24-47 (166)
115 PF05377 FlaC_arch: Flagella a 53.2 74 0.0016 22.1 6.5 35 101-135 4-38 (55)
116 TIGR02209 ftsL_broad cell divi 52.9 46 0.001 23.8 5.4 30 94-123 28-57 (85)
117 PF05700 BCAS2: Breast carcino 52.5 75 0.0016 27.5 7.6 42 97-138 175-216 (221)
118 KOG2391 Vacuolar sorting prote 52.5 48 0.001 31.1 6.6 45 94-138 222-266 (365)
119 PF15035 Rootletin: Ciliary ro 52.4 70 0.0015 27.1 7.1 34 102-135 86-119 (182)
120 PF10481 CENP-F_N: Cenp-F N-te 51.3 94 0.002 28.5 8.0 49 95-143 86-134 (307)
121 PF08961 DUF1875: Domain of un 50.9 5.1 0.00011 35.3 0.0 34 97-130 129-162 (243)
122 PF11932 DUF3450: Protein of u 50.7 70 0.0015 27.9 7.2 39 97-135 49-87 (251)
123 PF08281 Sigma70_r4_2: Sigma-7 50.3 42 0.00091 21.8 4.5 41 42-87 11-51 (54)
124 PRK00409 recombination and DNA 50.3 74 0.0016 32.9 8.2 21 60-80 485-505 (782)
125 PF01166 TSC22: TSC-22/dip/bun 50.1 52 0.0011 23.1 4.9 36 103-138 13-48 (59)
126 PRK03975 tfx putative transcri 50.1 45 0.00098 27.2 5.4 45 39-89 4-48 (141)
127 KOG1146 Homeobox protein [Gene 49.2 16 0.00034 39.8 3.2 56 38-93 447-502 (1406)
128 PF11594 Med28: Mediator compl 49.1 93 0.002 24.4 6.7 58 77-137 18-75 (106)
129 KOG4571 Activating transcripti 49.0 77 0.0017 29.1 7.2 35 93-127 251-285 (294)
130 PF04568 IATP: Mitochondrial A 49.0 1.2E+02 0.0025 23.5 7.3 43 92-134 57-99 (100)
131 PF10226 DUF2216: Uncharacteri 48.8 81 0.0017 27.3 6.9 21 113-133 57-77 (195)
132 KOG3564 GTPase-activating prot 48.7 1E+02 0.0023 30.4 8.4 43 96-138 69-111 (604)
133 PF00038 Filament: Intermediat 48.6 1.3E+02 0.0027 26.8 8.6 55 76-130 186-242 (312)
134 PF00196 GerE: Bacterial regul 48.5 41 0.00088 22.4 4.2 46 41-92 3-48 (58)
135 COG3074 Uncharacterized protei 48.1 94 0.002 22.8 6.1 28 99-126 34-61 (79)
136 PF07334 IFP_35_N: Interferon- 47.8 44 0.00095 24.7 4.5 25 109-133 5-29 (76)
137 COG2919 Septum formation initi 47.7 91 0.002 24.3 6.7 27 107-133 60-86 (117)
138 cd04765 HTH_MlrA-like_sg2 Heli 47.6 59 0.0013 24.5 5.5 20 66-85 4-23 (99)
139 KOG3650 Predicted coiled-coil 47.5 86 0.0019 24.5 6.2 38 97-134 63-100 (120)
140 PRK13922 rod shape-determining 47.2 48 0.001 29.3 5.6 36 93-128 72-110 (276)
141 PF04977 DivIC: Septum formati 47.2 56 0.0012 22.8 5.0 31 93-123 20-50 (80)
142 TIGR02894 DNA_bind_RsfA transc 46.5 98 0.0021 26.0 6.9 42 94-135 108-149 (161)
143 PF15035 Rootletin: Ciliary ro 45.8 97 0.0021 26.3 7.0 50 90-139 67-116 (182)
144 KOG3156 Uncharacterized membra 45.7 79 0.0017 27.8 6.5 25 111-135 116-140 (220)
145 TIGR01069 mutS2 MutS2 family p 45.6 1.1E+02 0.0024 31.5 8.7 21 60-80 480-500 (771)
146 KOG4196 bZIP transcription fac 45.4 90 0.0019 25.4 6.3 53 83-135 65-119 (135)
147 PF12711 Kinesin-relat_1: Kine 45.1 93 0.002 23.5 6.0 38 97-134 24-67 (86)
148 PF04999 FtsL: Cell division p 44.4 70 0.0015 23.7 5.4 22 109-130 47-68 (97)
149 KOG1962 B-cell receptor-associ 44.1 60 0.0013 28.5 5.6 46 93-138 161-206 (216)
150 PF04880 NUDE_C: NUDE protein, 43.9 20 0.00044 30.1 2.6 30 104-134 24-53 (166)
151 PF12325 TMF_TATA_bd: TATA ele 43.4 1.1E+02 0.0025 24.2 6.7 43 93-135 71-113 (120)
152 PF01166 TSC22: TSC-22/dip/bun 43.3 37 0.0008 23.9 3.3 32 96-127 13-44 (59)
153 PF07334 IFP_35_N: Interferon- 43.3 34 0.00074 25.3 3.3 24 114-137 3-26 (76)
154 PF13815 Dzip-like_N: Iguana/D 43.0 1.2E+02 0.0026 23.6 6.7 35 99-133 82-116 (118)
155 COG3413 Predicted DNA binding 42.3 42 0.0009 28.6 4.3 40 41-80 155-196 (215)
156 KOG4403 Cell surface glycoprot 41.9 1.1E+02 0.0023 30.0 7.2 28 78-105 227-257 (575)
157 PF13936 HTH_38: Helix-turn-he 41.9 32 0.0007 22.0 2.8 40 40-84 3-42 (44)
158 PF09738 DUF2051: Double stran 41.2 1.9E+02 0.0042 26.5 8.7 52 87-138 116-174 (302)
159 TIGR00219 mreC rod shape-deter 41.1 66 0.0014 29.0 5.6 36 93-128 69-108 (283)
160 cd04761 HTH_MerR-SF Helix-Turn 40.5 23 0.00049 22.3 1.9 23 65-87 3-25 (49)
161 PF10224 DUF2205: Predicted co 40.3 1.5E+02 0.0033 22.0 7.1 40 91-130 24-63 (80)
162 PF13518 HTH_28: Helix-turn-he 40.3 30 0.00066 22.0 2.5 23 65-87 15-37 (52)
163 PF11559 ADIP: Afadin- and alp 40.0 1.9E+02 0.0042 23.0 7.8 12 120-131 110-121 (151)
164 PF06785 UPF0242: Uncharacteri 39.8 1.3E+02 0.0028 28.4 7.2 16 96-111 98-113 (401)
165 COG1792 MreC Cell shape-determ 39.2 81 0.0018 28.5 5.9 27 114-140 86-112 (284)
166 PF00424 REV: REV protein (ant 39.0 46 0.00099 25.4 3.5 36 47-96 14-49 (91)
167 PF07106 TBPIP: Tat binding pr 39.0 95 0.0021 25.4 5.9 46 94-139 90-137 (169)
168 cd04765 HTH_MlrA-like_sg2 Heli 38.7 1.5E+02 0.0032 22.3 6.5 38 37-86 34-71 (99)
169 PF14662 CCDC155: Coiled-coil 38.5 1.5E+02 0.0032 25.7 7.0 32 106-137 83-114 (193)
170 PF11544 Spc42p: Spindle pole 38.4 1.6E+02 0.0035 21.7 7.8 49 84-132 6-54 (76)
171 PF03980 Nnf1: Nnf1 ; InterPr 37.8 70 0.0015 24.3 4.6 30 102-131 78-107 (109)
172 PRK06759 RNA polymerase factor 37.0 88 0.0019 24.3 5.2 45 41-90 106-150 (154)
173 COG2433 Uncharacterized conser 36.6 1.3E+02 0.0028 30.5 7.2 19 3-21 298-316 (652)
174 TIGR02937 sigma70-ECF RNA poly 36.1 81 0.0018 23.5 4.7 45 42-91 111-155 (158)
175 PF09744 Jnk-SapK_ap_N: JNK_SA 35.8 2.6E+02 0.0056 23.3 10.3 80 45-134 33-112 (158)
176 PF15058 Speriolin_N: Sperioli 35.7 48 0.001 28.7 3.6 27 105-131 6-32 (200)
177 smart00421 HTH_LUXR helix_turn 35.6 1.1E+02 0.0024 19.0 5.1 40 41-86 3-42 (58)
178 TIGR02209 ftsL_broad cell divi 35.4 1.3E+02 0.0029 21.3 5.5 29 102-130 29-57 (85)
179 KOG0288 WD40 repeat protein Ti 35.3 1.6E+02 0.0034 28.6 7.2 16 118-133 55-70 (459)
180 PF14662 CCDC155: Coiled-coil 35.3 1.3E+02 0.0029 26.0 6.2 28 112-139 82-109 (193)
181 PF07798 DUF1640: Protein of u 35.2 1.7E+02 0.0036 24.3 6.8 10 42-51 16-25 (177)
182 PF10473 CENP-F_leu_zip: Leuci 35.2 2.3E+02 0.0049 23.2 7.3 18 115-132 77-94 (140)
183 PRK13729 conjugal transfer pil 35.2 1.5E+02 0.0033 29.0 7.3 44 96-139 89-132 (475)
184 KOG0249 LAR-interacting protei 35.1 1.3E+02 0.0027 31.3 6.9 41 92-132 218-258 (916)
185 cd01106 HTH_TipAL-Mta Helix-Tu 35.1 1.9E+02 0.0041 21.5 9.0 36 38-86 35-70 (103)
186 PRK11924 RNA polymerase sigma 35.0 99 0.0021 24.3 5.2 45 42-91 126-170 (179)
187 KOG3335 Predicted coiled-coil 34.6 1.3E+02 0.0028 25.8 5.9 52 80-138 89-140 (181)
188 PTZ00454 26S protease regulato 34.2 1.5E+02 0.0033 28.0 7.1 41 93-133 25-65 (398)
189 PF04420 CHD5: CHD5-like prote 34.1 1.3E+02 0.0028 24.7 5.9 47 92-138 42-93 (161)
190 PHA03155 hypothetical protein; 34.0 69 0.0015 25.5 3.9 26 113-138 10-35 (115)
191 PRK04217 hypothetical protein; 33.9 1.7E+02 0.0037 22.8 6.2 45 38-87 39-83 (110)
192 PF13384 HTH_23: Homeodomain-l 33.8 31 0.00067 22.0 1.7 22 64-85 19-40 (50)
193 PF05812 Herpes_BLRF2: Herpesv 33.4 66 0.0014 25.7 3.8 27 113-139 5-31 (118)
194 KOG4286 Dystrophin-like protei 33.3 1.4E+02 0.0031 31.1 7.0 44 97-140 841-884 (966)
195 PRK09642 RNA polymerase sigma 33.3 1E+02 0.0023 24.1 5.1 28 65-92 125-152 (160)
196 PRK14872 rod shape-determining 32.5 88 0.0019 29.3 5.1 39 97-135 57-98 (337)
197 PF06056 Terminase_5: Putative 32.5 35 0.00076 23.5 1.9 26 65-92 16-41 (58)
198 PRK09652 RNA polymerase sigma 32.1 78 0.0017 25.0 4.2 44 41-89 128-171 (182)
199 KOG0977 Nuclear envelope prote 32.0 1.3E+02 0.0028 30.0 6.3 37 102-138 153-189 (546)
200 PF07989 Microtub_assoc: Micro 31.9 96 0.0021 22.6 4.2 53 79-134 21-73 (75)
201 PF11559 ADIP: Afadin- and alp 31.9 2.6E+02 0.0057 22.2 7.7 12 124-135 107-118 (151)
202 COG1579 Zn-ribbon protein, pos 31.6 2E+02 0.0043 25.7 6.9 49 92-140 26-81 (239)
203 PRK12514 RNA polymerase sigma 31.6 66 0.0014 25.9 3.7 27 65-91 148-174 (179)
204 cd04766 HTH_HspR Helix-Turn-He 31.3 2.1E+02 0.0045 20.8 7.0 35 38-84 35-69 (91)
205 PF12808 Mto2_bdg: Micro-tubul 31.1 1.7E+02 0.0036 20.1 5.0 20 116-135 27-46 (52)
206 PF12709 Kinetocho_Slk19: Cent 30.9 2.2E+02 0.0047 21.6 6.0 9 65-73 17-25 (87)
207 KOG1853 LIS1-interacting prote 30.8 2.6E+02 0.0057 25.5 7.5 50 83-132 59-112 (333)
208 PRK11546 zraP zinc resistance 30.5 1.2E+02 0.0025 25.0 4.9 17 39-55 41-57 (143)
209 PF13411 MerR_1: MerR HTH fami 30.5 37 0.00081 23.0 1.8 20 66-85 4-23 (69)
210 PRK09646 RNA polymerase sigma 30.5 95 0.0021 25.5 4.6 45 42-91 143-187 (194)
211 PF09607 BrkDBD: Brinker DNA-b 30.5 98 0.0021 21.7 3.8 44 39-84 3-47 (58)
212 KOG0249 LAR-interacting protei 30.4 1.5E+02 0.0032 30.9 6.5 60 77-138 198-257 (916)
213 PF13551 HTH_29: Winged helix- 30.3 1.8E+02 0.0039 21.1 5.7 47 38-84 54-109 (112)
214 PF10212 TTKRSYEDQ: Predicted 30.2 4.1E+02 0.0089 26.4 9.4 41 96-136 440-480 (518)
215 PRK14872 rod shape-determining 29.9 1.5E+02 0.0031 27.8 6.0 32 93-124 60-94 (337)
216 PF04859 DUF641: Plant protein 29.8 2.3E+02 0.005 22.9 6.5 37 96-132 93-129 (131)
217 PF08172 CASP_C: CASP C termin 29.2 2.2E+02 0.0047 25.4 6.8 48 92-139 88-135 (248)
218 PF02344 Myc-LZ: Myc leucine z 29.1 1.5E+02 0.0032 18.4 4.6 23 109-131 6-28 (32)
219 PRK10072 putative transcriptio 29.0 35 0.00076 26.0 1.5 42 41-89 32-73 (96)
220 KOG0971 Microtubule-associated 28.9 1.9E+02 0.0041 30.9 7.1 49 88-136 323-386 (1243)
221 PF04111 APG6: Autophagy prote 28.9 2.5E+02 0.0054 25.7 7.3 25 115-139 110-134 (314)
222 PF12269 zf-CpG_bind_C: CpG bi 28.6 2.9E+02 0.0063 24.6 7.4 60 76-137 10-69 (236)
223 cd04781 HTH_MerR-like_sg6 Heli 28.4 2.7E+02 0.006 21.3 9.6 71 38-134 34-104 (120)
224 PF04999 FtsL: Cell division p 28.3 1.8E+02 0.0038 21.5 5.3 26 99-124 44-69 (97)
225 PF12325 TMF_TATA_bd: TATA ele 28.0 3.1E+02 0.0067 21.7 7.4 14 59-72 12-25 (120)
226 cd04769 HTH_MerR2 Helix-Turn-H 27.7 2.8E+02 0.006 21.2 8.8 39 38-89 34-72 (116)
227 PF07888 CALCOCO1: Calcium bin 27.6 2.8E+02 0.006 27.8 7.8 29 98-126 186-214 (546)
228 cd04762 HTH_MerR-trunc Helix-T 27.2 53 0.0011 20.0 1.9 24 65-88 3-26 (49)
229 PRK12512 RNA polymerase sigma 27.1 1.4E+02 0.0031 24.0 5.0 45 42-91 132-176 (184)
230 PHA03162 hypothetical protein; 27.0 1E+02 0.0022 25.2 3.9 27 113-139 15-41 (135)
231 TIGR02989 Sig-70_gvs1 RNA poly 26.9 1.5E+02 0.0031 23.1 4.9 42 42-88 112-153 (159)
232 COG3883 Uncharacterized protei 26.8 2.5E+02 0.0054 25.5 6.8 43 93-135 48-90 (265)
233 KOG0288 WD40 repeat protein Ti 26.7 2.3E+02 0.0051 27.4 6.8 23 91-113 49-71 (459)
234 TIGR02985 Sig70_bacteroi1 RNA 26.6 1.7E+02 0.0036 22.4 5.1 44 42-90 114-157 (161)
235 PF08280 HTH_Mga: M protein tr 26.5 74 0.0016 21.5 2.7 35 45-83 6-40 (59)
236 cd04764 HTH_MlrA-like_sg1 Heli 26.5 54 0.0012 22.3 2.0 21 65-85 3-23 (67)
237 PF12718 Tropomyosin_1: Tropom 26.3 3.5E+02 0.0076 21.8 7.2 37 99-135 23-59 (143)
238 cd04763 HTH_MlrA-like Helix-Tu 25.8 54 0.0012 22.4 1.9 21 65-85 3-23 (68)
239 PF06810 Phage_GP20: Phage min 25.7 3.3E+02 0.0073 22.3 6.9 8 98-105 28-35 (155)
240 PRK12526 RNA polymerase sigma 25.7 1.5E+02 0.0033 24.6 5.1 27 65-91 172-198 (206)
241 PRK10803 tol-pal system protei 25.6 2.3E+02 0.0051 25.1 6.4 42 94-135 58-99 (263)
242 KOG0977 Nuclear envelope prote 25.5 1.8E+02 0.0038 29.1 6.0 44 94-137 152-195 (546)
243 PF10883 DUF2681: Protein of u 25.5 2.8E+02 0.0061 20.9 5.9 10 80-89 20-29 (87)
244 TIGR03879 near_KaiC_dom probab 25.5 29 0.00062 25.3 0.5 24 62-85 32-55 (73)
245 TIGR02948 SigW_bacill RNA poly 25.5 1.5E+02 0.0032 23.7 4.8 45 42-91 137-181 (187)
246 PRK09639 RNA polymerase sigma 25.5 1.8E+02 0.0039 22.8 5.2 44 42-91 113-156 (166)
247 PF13863 DUF4200: Domain of un 25.5 3.1E+02 0.0066 20.9 7.0 16 111-126 88-103 (126)
248 PF10186 Atg14: UV radiation r 25.2 3.1E+02 0.0067 23.7 7.1 21 190-210 214-234 (302)
249 COG2433 Uncharacterized conser 25.2 2E+02 0.0043 29.2 6.3 34 99-132 431-464 (652)
250 PF02403 Seryl_tRNA_N: Seryl-t 25.1 2E+02 0.0044 21.5 5.2 14 116-129 79-92 (108)
251 PF09755 DUF2046: Uncharacteri 25.1 1.8E+02 0.004 26.9 5.7 9 99-107 36-44 (310)
252 PF10883 DUF2681: Protein of u 24.9 2E+02 0.0043 21.7 4.9 20 88-107 21-40 (87)
253 PRK00118 putative DNA-binding 24.7 3.3E+02 0.0072 21.0 8.4 46 41-91 17-62 (104)
254 COG4367 Uncharacterized protei 24.6 94 0.002 23.8 3.1 39 42-80 3-41 (97)
255 KOG3156 Uncharacterized membra 24.6 3.1E+02 0.0068 24.2 6.7 25 102-126 114-138 (220)
256 PHA02955 hypothetical protein; 24.4 86 0.0019 27.5 3.3 42 44-85 60-102 (213)
257 PF00376 MerR: MerR family reg 24.3 57 0.0012 20.4 1.7 18 66-83 3-20 (38)
258 PF05266 DUF724: Protein of un 24.2 4.2E+02 0.009 22.6 7.4 20 56-75 83-102 (190)
259 cd07429 Cby_like Chibby, a nuc 24.2 1.3E+02 0.0027 23.7 3.9 25 111-135 72-96 (108)
260 PRK06664 fliD flagellar hook-a 24.2 3.5E+02 0.0076 27.6 8.0 55 85-139 606-660 (661)
261 PF13851 GAS: Growth-arrest sp 24.1 4.4E+02 0.0096 22.4 7.7 36 89-124 92-127 (201)
262 PF07412 Geminin: Geminin; In 24.0 2E+02 0.0044 24.9 5.5 43 97-139 125-170 (200)
263 PTZ00361 26 proteosome regulat 23.8 2.4E+02 0.0053 27.1 6.6 47 85-131 53-101 (438)
264 COG4985 ABC-type phosphate tra 23.8 1.9E+02 0.0041 26.1 5.3 28 109-136 219-246 (289)
265 PF08614 ATG16: Autophagy prot 23.6 4.4E+02 0.0095 22.0 7.9 27 104-130 151-177 (194)
266 PF12808 Mto2_bdg: Micro-tubul 23.5 2.2E+02 0.0047 19.5 4.5 26 107-132 25-50 (52)
267 COG4238 Murein lipoprotein [Ce 23.4 3.1E+02 0.0068 20.3 6.7 48 89-136 24-71 (78)
268 PRK05602 RNA polymerase sigma 23.4 1.3E+02 0.0028 24.4 4.1 26 65-90 147-172 (186)
269 PF02796 HTH_7: Helix-turn-hel 23.4 1.3E+02 0.0028 19.2 3.2 39 40-83 4-42 (45)
270 PRK09648 RNA polymerase sigma 23.2 1.5E+02 0.0032 24.0 4.4 42 42-88 140-181 (189)
271 PRK12519 RNA polymerase sigma 23.1 96 0.0021 25.2 3.3 28 64-91 159-186 (194)
272 PF03234 CDC37_N: Cdc37 N term 23.1 3.1E+02 0.0068 23.2 6.4 25 89-113 31-55 (177)
273 KOG3584 cAMP response element 23.1 2.1E+02 0.0045 26.6 5.5 41 96-136 303-344 (348)
274 PRK03992 proteasome-activating 23.1 2.7E+02 0.0059 25.9 6.6 35 101-135 12-46 (389)
275 KOG3863 bZIP transcription fac 23.0 3.1E+02 0.0067 27.8 7.2 55 81-135 500-556 (604)
276 PF13815 Dzip-like_N: Iguana/D 23.0 2.7E+02 0.0058 21.6 5.6 34 102-135 78-111 (118)
277 PRK12530 RNA polymerase sigma 22.7 2.4E+02 0.0053 23.0 5.7 45 42-91 135-179 (189)
278 PF12999 PRKCSH-like: Glucosid 22.7 4.4E+02 0.0096 22.4 7.2 20 117-136 152-171 (176)
279 PF08961 DUF1875: Domain of un 22.3 29 0.00063 30.7 0.0 43 97-139 122-164 (243)
280 TIGR02959 SigZ RNA polymerase 22.3 1.9E+02 0.0041 23.1 4.9 39 41-84 100-138 (170)
281 PRK12543 RNA polymerase sigma 22.2 2.3E+02 0.0051 22.7 5.4 27 65-91 136-162 (179)
282 PRK08295 RNA polymerase factor 22.2 2.2E+02 0.0047 23.3 5.3 26 64-89 172-197 (208)
283 PF15294 Leu_zip: Leucine zipp 22.1 3E+02 0.0064 25.1 6.4 40 95-134 130-176 (278)
284 PF07106 TBPIP: Tat binding pr 22.1 1.8E+02 0.0039 23.7 4.7 10 79-88 56-65 (169)
285 cd01104 HTH_MlrA-CarA Helix-Tu 21.9 71 0.0015 21.5 1.9 21 65-85 3-23 (68)
286 PRK09047 RNA polymerase factor 21.9 3.1E+02 0.0066 21.2 5.9 43 42-89 107-149 (161)
287 TIGR03689 pup_AAA proteasome A 21.8 1.9E+02 0.0042 28.5 5.5 40 100-139 4-43 (512)
288 COG2919 Septum formation initi 21.8 2.5E+02 0.0054 21.8 5.2 50 76-126 37-86 (117)
289 PRK10698 phage shock protein P 21.7 4.8E+02 0.01 22.6 7.5 40 91-130 93-132 (222)
290 PF14197 Cep57_CLD_2: Centroso 21.7 3.1E+02 0.0067 19.6 6.4 15 113-127 49-63 (69)
291 TIGR00721 tfx DNA-binding prot 21.5 4.4E+02 0.0096 21.3 6.8 41 39-85 4-44 (137)
292 PRK12515 RNA polymerase sigma 21.5 2.5E+02 0.0055 22.7 5.5 45 42-91 132-176 (189)
293 PF01381 HTH_3: Helix-turn-hel 21.5 59 0.0013 20.9 1.4 23 65-87 12-34 (55)
294 KOG3755 SATB1 matrix attachmen 21.5 78 0.0017 32.1 2.7 44 51-94 708-758 (769)
295 TIGR02999 Sig-70_X6 RNA polyme 21.4 2.1E+02 0.0047 22.8 5.0 27 65-91 153-179 (183)
296 PF11418 Scaffolding_pro: Phi2 21.3 3.8E+02 0.0082 20.4 6.4 43 93-135 29-71 (97)
297 PF06785 UPF0242: Uncharacteri 21.3 3.3E+02 0.0072 25.8 6.6 45 99-143 143-194 (401)
298 cd06170 LuxR_C_like C-terminal 21.3 2.2E+02 0.0047 17.7 4.8 36 43-84 2-37 (57)
299 PF09311 Rab5-bind: Rabaptin-l 21.1 59 0.0013 27.2 1.6 36 104-139 15-50 (181)
300 cd04779 HTH_MerR-like_sg4 Heli 21.1 4.3E+02 0.0094 21.0 10.2 37 38-87 34-70 (134)
301 PF12824 MRP-L20: Mitochondria 20.9 5E+02 0.011 21.7 7.4 45 38-84 82-126 (164)
302 PF12718 Tropomyosin_1: Tropom 20.8 4.5E+02 0.0098 21.2 7.3 47 91-137 22-68 (143)
303 PRK06811 RNA polymerase factor 20.8 1.5E+02 0.0033 24.1 4.1 45 42-91 132-176 (189)
304 TIGR01557 myb_SHAQKYF myb-like 20.8 2.2E+02 0.0048 19.5 4.2 51 38-88 2-55 (57)
305 PF08781 DP: Transcription fac 20.6 3.9E+02 0.0085 21.9 6.3 43 98-140 2-44 (142)
306 PF08614 ATG16: Autophagy prot 20.6 5.1E+02 0.011 21.6 7.9 17 116-132 149-165 (194)
307 PF10146 zf-C4H2: Zinc finger- 20.6 3.8E+02 0.0083 23.6 6.7 45 93-137 56-100 (230)
308 PF09730 BicD: Microtubule-ass 20.2 2.6E+02 0.0056 28.9 6.2 24 112-135 122-145 (717)
309 KOG4001 Axonemal dynein light 20.2 5E+02 0.011 23.0 7.1 23 114-136 231-253 (259)
310 TIGR01242 26Sp45 26S proteasom 20.2 2.8E+02 0.0061 25.3 6.0 32 99-130 8-39 (364)
No 1
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.88 E-value=2.4e-22 Score=171.60 Aligned_cols=103 Identities=50% Similarity=0.721 Sum_probs=97.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 027468 35 TGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYE 114 (223)
Q Consensus 35 ~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~ 114 (223)
..+++.||+.+|+..||..|+.+.++.+..+..||++|||++|||+|||||||||||.++++.+|+.|+..++.|+.++.
T Consensus 50 ~~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~Lk~~~~~l~~~~~ 129 (198)
T KOG0483|consen 50 GKGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESLKRQLESLRSEND 129 (198)
T ss_pred cccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhhhh
Confidence 45567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Q 027468 115 LMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 115 ~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
.|+.+++.|..++..++..+...
T Consensus 130 ~Lq~e~~eL~~~~~~~~~~~~~~ 152 (198)
T KOG0483|consen 130 RLQSEVQELVAELSSLKREMQKS 152 (198)
T ss_pred HHHHHHHHHHHHHhhhhhhhccC
Confidence 99999999999999888888774
No 2
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.62 E-value=2.9e-16 Score=141.69 Aligned_cols=69 Identities=32% Similarity=0.496 Sum_probs=62.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHH
Q 027468 34 GTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKL 102 (223)
Q Consensus 34 ~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~l 102 (223)
+++|+|.-|+..|+..||+.|...+|++..+|+.||..|.|++.||||||||||-|.||++.++.++.+
T Consensus 152 ~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~~~~~ 220 (307)
T KOG0842|consen 152 KKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKALEAL 220 (307)
T ss_pred cccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhhhhcc
Confidence 344455569999999999999999999999999999999999999999999999999999887777654
No 3
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.62 E-value=5.1e-16 Score=140.91 Aligned_cols=64 Identities=33% Similarity=0.452 Sum_probs=59.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHH
Q 027468 33 FGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIE 96 (223)
Q Consensus 33 ~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~ 96 (223)
.+++|.|+.||..|+..||..|+..+|++..+|++||..|||+..||++||||||+|||+...+
T Consensus 170 kK~RksRTaFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a~ 233 (309)
T KOG0488|consen 170 KKRRKSRTAFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQTAE 233 (309)
T ss_pred cccccchhhhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHHHh
Confidence 5555578999999999999999999999999999999999999999999999999999987654
No 4
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.61 E-value=4.8e-16 Score=137.98 Aligned_cols=63 Identities=27% Similarity=0.376 Sum_probs=58.2
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 33 FGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 33 ~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
...+|.|+.||..|+..||+-|+.|+|++...|.+||..|.|+++||+|||||||+||||...
T Consensus 157 ~~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k 219 (261)
T KOG0489|consen 157 GKSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKENK 219 (261)
T ss_pred CCCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhhc
Confidence 345677899999999999999999999999999999999999999999999999999997543
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=99.60 E-value=1.6e-15 Score=104.06 Aligned_cols=57 Identities=40% Similarity=0.701 Sum_probs=54.6
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhh
Q 027468 36 GNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKT 92 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Kr 92 (223)
+++|++|+.+|+..|+..|..++||+..++..||..|||+..+|.+||+|||++.|+
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 467899999999999999999999999999999999999999999999999999885
No 6
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.58 E-value=2.5e-15 Score=125.86 Aligned_cols=65 Identities=31% Similarity=0.490 Sum_probs=60.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHH
Q 027468 33 FGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIER 97 (223)
Q Consensus 33 ~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~ 97 (223)
.+.+|.|+.|+.+|+..||..|+.++|..-.+|..||..|+|++.||+|||||||.|.||.+.+.
T Consensus 100 ~~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~ 164 (197)
T KOG0843|consen 100 MRPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED 164 (197)
T ss_pred cCCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence 36677899999999999999999999999999999999999999999999999999999877654
No 7
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.57 E-value=1.2e-15 Score=137.67 Aligned_cols=65 Identities=26% Similarity=0.359 Sum_probs=60.1
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHH
Q 027468 33 FGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIER 97 (223)
Q Consensus 33 ~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~ 97 (223)
...+|+|..+|+.|+..||+-|-.|.|++.+.|.+|++.|+|++|||+|||||||+|.||...+.
T Consensus 233 ~~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~re~ 297 (308)
T KOG0487|consen 233 RRGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNREN 297 (308)
T ss_pred cccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhhhh
Confidence 56677888999999999999999999999999999999999999999999999999999876543
No 8
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.57 E-value=3.7e-15 Score=128.27 Aligned_cols=73 Identities=23% Similarity=0.473 Sum_probs=64.7
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHH
Q 027468 25 DMQQPIASFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIER 97 (223)
Q Consensus 25 ~~~~p~~s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~ 97 (223)
....+.+.++.+|.|+.|+..|+.+||..|.+.+||+...|++||.+|+|++.+|+|||+|||+|+|+++...
T Consensus 27 ~vP~~~~pRkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~qq 99 (228)
T KOG2251|consen 27 GVPYSSGPRKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQQQQ 99 (228)
T ss_pred CCCcCccchhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhhhhh
Confidence 3344456677777899999999999999999999999999999999999999999999999999999866543
No 9
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.55 E-value=2.6e-15 Score=129.13 Aligned_cols=66 Identities=32% Similarity=0.396 Sum_probs=60.7
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 30 IASFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 30 ~~s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
++..+++|.|++|+..|+..||..|+...|++..+|..||++|.|++.||+|||||||.||||+..
T Consensus 99 ~g~~RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~a 164 (268)
T KOG0485|consen 99 LGDDRKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQYA 164 (268)
T ss_pred ccccccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHHh
Confidence 344567778999999999999999999999999999999999999999999999999999998643
No 10
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.54 E-value=8.1e-15 Score=126.86 Aligned_cols=57 Identities=30% Similarity=0.476 Sum_probs=54.4
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhh
Q 027468 36 GNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKT 92 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Kr 92 (223)
+|.|+.++.-|+..|.+.|+.++|+.-.+|.+||..|||+..||+|||||||.|.||
T Consensus 123 RKPRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KK 179 (245)
T KOG0850|consen 123 RKPRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKK 179 (245)
T ss_pred cCCcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHH
Confidence 446899999999999999999999999999999999999999999999999999986
No 11
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.51 E-value=4.9e-14 Score=120.59 Aligned_cols=60 Identities=30% Similarity=0.454 Sum_probs=56.2
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 36 GNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
++.|+.||..|+..||+-|.+.+|++..+|.+++..|.|++.||+|||||||+|.||-+.
T Consensus 145 RkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQe 204 (246)
T KOG0492|consen 145 RKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQE 204 (246)
T ss_pred CCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHHH
Confidence 346888999999999999999999999999999999999999999999999999998554
No 12
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.48 E-value=4.9e-14 Score=124.04 Aligned_cols=68 Identities=25% Similarity=0.476 Sum_probs=61.0
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHHHHHH
Q 027468 39 KRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKLKAEF 106 (223)
Q Consensus 39 R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~ 106 (223)
|+.||..|+..||..|++.+||+...|+.||.++.|++..|+|||||||+|||++..+--..+.-++|
T Consensus 145 RTiFT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~wg~sT~maey 212 (332)
T KOG0494|consen 145 RTIFTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKRWGGSTIMAEY 212 (332)
T ss_pred cchhhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhhcCcchhhhhh
Confidence 77899999999999999999999999999999999999999999999999999987765555554444
No 13
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.47 E-value=2.7e-14 Score=110.38 Aligned_cols=60 Identities=27% Similarity=0.512 Sum_probs=55.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhH
Q 027468 34 GTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTK 93 (223)
Q Consensus 34 ~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krk 93 (223)
+.+|-|+.||..|+..||+.|.+.+||+.-.|++||.++.|++..|+|||||||+|.|++
T Consensus 16 KQRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQ 75 (125)
T KOG0484|consen 16 KQRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQ 75 (125)
T ss_pred HhhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHH
Confidence 334568889999999999999999999999999999999999999999999999999864
No 14
>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=99.47 E-value=1.1e-13 Score=94.54 Aligned_cols=57 Identities=44% Similarity=0.740 Sum_probs=53.8
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhH
Q 027468 37 NNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTK 93 (223)
Q Consensus 37 r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krk 93 (223)
+.+..|+..++.+|+..|..++||+..++..||..+||+..+|++||+|||++.++.
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 467789999999999999999999999999999999999999999999999998863
No 15
>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=94.19 Aligned_cols=55 Identities=38% Similarity=0.695 Sum_probs=51.8
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 37 NNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 37 r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+.|.+|+..|+.+|+..|..++||+..++..||..+||+..+|+.||+|||++.+
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 4567899999999999999999999999999999999999999999999998864
No 16
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.45 E-value=5.2e-14 Score=124.25 Aligned_cols=58 Identities=36% Similarity=0.544 Sum_probs=54.0
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
-|.++|..|.-.||+.|..++|+++..|.+||..|||++|||+|||||||+|+||...
T Consensus 202 YRvVYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~nK 259 (317)
T KOG0848|consen 202 YRVVYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDNK 259 (317)
T ss_pred eeEEecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHHH
Confidence 3667999999999999999999999999999999999999999999999999997543
No 17
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.40 E-value=3.9e-13 Score=111.28 Aligned_cols=66 Identities=38% Similarity=0.555 Sum_probs=60.0
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHH
Q 027468 31 ASFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIE 96 (223)
Q Consensus 31 ~s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~ 96 (223)
.+...+++|+|.+..|+.+|+..|..++||+...|..|+..|+|+++.|+|||||||++.|+....
T Consensus 47 ~s~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~~ 112 (156)
T COG5576 47 GSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSG 112 (156)
T ss_pred CCCcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhccc
Confidence 344556788999999999999999999999999999999999999999999999999999986553
No 18
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.36 E-value=4.6e-13 Score=118.04 Aligned_cols=60 Identities=33% Similarity=0.561 Sum_probs=55.6
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHH
Q 027468 37 NNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIE 96 (223)
Q Consensus 37 r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~ 96 (223)
|.|+.||.+|+..|...|+.+.|++...|.+||.+|||.+.||+|||||+|+|.|+..--
T Consensus 248 RPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsTgs 307 (342)
T KOG0493|consen 248 RPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKSTGS 307 (342)
T ss_pred CccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhccCC
Confidence 347779999999999999999999999999999999999999999999999999986543
No 19
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=99.33 E-value=1.5e-12 Score=91.16 Aligned_cols=52 Identities=15% Similarity=0.392 Sum_probs=49.9
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCC----CCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 027468 36 GNNKRRFSDEQVKSLEFMFESEAR----PESRMKHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~~~~~----p~~~~r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
+|.|+.||.+|+..|+..|..++| |+...+.+||..+||++++|+|||||-+
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 678999999999999999999999 9999999999999999999999999964
No 20
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.30 E-value=1.8e-12 Score=115.71 Aligned_cols=101 Identities=21% Similarity=0.394 Sum_probs=82.8
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHH
Q 027468 31 ASFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKLKAEFETLA 110 (223)
Q Consensus 31 ~s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~ 110 (223)
+....+|+|+.+|+.|++.|...|+..++|....|++|+.++||..|.|+|||||||||.||-+...-...+.+.|..++
T Consensus 163 gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDAGR~RWgqyfrsmK 242 (383)
T KOG4577|consen 163 GDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDAGRTRWGQYFRSMK 242 (383)
T ss_pred cccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHhhhhhcchhHHHHHHHHhh
Confidence 45566889999999999999999999999999999999999999999999999999999998777666677888888887
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027468 111 SSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 111 ~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
.. .+-+.|+.+=..|+.-..+
T Consensus 243 ~s-gs~r~ekdsd~sel~~~~d 263 (383)
T KOG4577|consen 243 RS-GSSRAEKDSDDSELSFIND 263 (383)
T ss_pred cc-CCcccccccccCccccccc
Confidence 65 4455555543444433333
No 21
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.27 E-value=1.6e-12 Score=107.91 Aligned_cols=59 Identities=34% Similarity=0.537 Sum_probs=55.6
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 37 NNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 37 r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
|-|++|+..|+..|++.|+...|++..++.+||..|+|++.||+.||||||+|.|+.+.
T Consensus 102 K~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~r 160 (194)
T KOG0491|consen 102 KARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQR 160 (194)
T ss_pred hhcccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Confidence 35888999999999999999999999999999999999999999999999999998654
No 22
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.22 E-value=5.7e-12 Score=116.61 Aligned_cols=62 Identities=23% Similarity=0.367 Sum_probs=58.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 34 GTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 34 ~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
++||+|+.|.......||.+|..|++|+..++..||.+|+|....|+|||||||.|.||...
T Consensus 293 RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~~~ 354 (398)
T KOG3802|consen 293 RKRKKRTSIEVNVRGALEKHFLKNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRITP 354 (398)
T ss_pred cccccccceeHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccceEEEEeeccccccccCCC
Confidence 67778999999999999999999999999999999999999999999999999999998543
No 23
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.21 E-value=6.6e-12 Score=112.87 Aligned_cols=62 Identities=26% Similarity=0.464 Sum_probs=58.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHH
Q 027468 35 TGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIE 96 (223)
Q Consensus 35 ~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~ 96 (223)
-+|-|+-||.+|+..||+.|-...|-+...|.+||..|+|++..|+|||||||+|+||+.+.
T Consensus 181 mRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 181 MRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 35568889999999999999999999999999999999999999999999999999998775
No 24
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.11 E-value=4e-11 Score=103.66 Aligned_cols=58 Identities=29% Similarity=0.525 Sum_probs=54.6
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
.|..|+..|+..|+..|+..+||--..+.+||..+|+++.||+|||||||+|||++..
T Consensus 170 srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkhA 227 (288)
T KOG0847|consen 170 SRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKHA 227 (288)
T ss_pred cCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhhc
Confidence 4667999999999999999999999999999999999999999999999999998644
No 25
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.03 E-value=1.7e-10 Score=104.02 Aligned_cols=62 Identities=23% Similarity=0.484 Sum_probs=56.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 34 GTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 34 ~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
+++|.|+.|+..|+..||..|..+.||+...|++||.-.+|++..|++||.|||+|||+...
T Consensus 111 KqrrQrthFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrEr 172 (351)
T KOG0486|consen 111 KQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRER 172 (351)
T ss_pred hhhhhhhhhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhh
Confidence 33445778999999999999999999999999999999999999999999999999997544
No 26
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.95 E-value=4.3e-10 Score=95.98 Aligned_cols=63 Identities=27% Similarity=0.407 Sum_probs=58.7
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHH
Q 027468 32 SFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQ 94 (223)
Q Consensus 32 s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq 94 (223)
..++++.|+.|+..|+..|++.|...+||+...++.||..+++++..|++||||||++|+++.
T Consensus 57 ~~~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~ 119 (235)
T KOG0490|consen 57 KFSKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE 119 (235)
T ss_pred hccccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence 456677889999999999999999999999999999999999999999999999999999754
No 27
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.75 E-value=1.1e-08 Score=90.92 Aligned_cols=50 Identities=30% Similarity=0.561 Sum_probs=47.6
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
|...-..+|..+|..++||++.++.+||+.+||+..||-.||+|||.|+|
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDR 232 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDR 232 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhh
Confidence 66667889999999999999999999999999999999999999999998
No 28
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.73 E-value=1.2e-08 Score=94.40 Aligned_cols=63 Identities=32% Similarity=0.547 Sum_probs=57.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 33 FGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 33 ~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
.+.++.|+.|+..|+..|+..|+.++||+...|+.||.++++++..|++||+|||+++++...
T Consensus 174 ~~~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~~ 236 (354)
T KOG0849|consen 174 RGGRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQHR 236 (354)
T ss_pred ccccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhccc
Confidence 344456788999999999999999999999999999999999999999999999999997653
No 29
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.66 E-value=8.5e-09 Score=92.49 Aligned_cols=62 Identities=24% Similarity=0.432 Sum_probs=57.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhH
Q 027468 32 SFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTK 93 (223)
Q Consensus 32 s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krk 93 (223)
...++|+|+.+.....+.||.+|...++|+.+.+..||.+|.|....|+|||||+|.|.||.
T Consensus 306 ~~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKRm 367 (385)
T KOG1168|consen 306 GGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRM 367 (385)
T ss_pred ccccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHHh
Confidence 34567788899999999999999999999999999999999999999999999999998873
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=98.33 E-value=4.2e-07 Score=59.03 Aligned_cols=34 Identities=32% Similarity=0.626 Sum_probs=29.1
Q ss_pred hCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 56 SEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 56 ~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
.++||+..++..||..+||+..||..||-|.|.|
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 4799999999999999999999999999999975
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=98.33 E-value=1.8e-06 Score=57.57 Aligned_cols=44 Identities=36% Similarity=0.674 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
+|++++|+.|+..|+.|+++|++|++|++.|++|+..|+..+..
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 47899999999999999999999999999999999999998763
No 32
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.16 E-value=1.2e-06 Score=77.87 Aligned_cols=58 Identities=31% Similarity=0.497 Sum_probs=53.7
Q ss_pred CCCCCCCCHHHHHHHHHHHh---hCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhH
Q 027468 36 GNNKRRFSDEQVKSLEFMFE---SEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTK 93 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~---~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krk 93 (223)
+|+|+.|+..-..+|..+|- .++||+.+.+++||+++|++..||..||.|+|-+.|+.
T Consensus 189 rRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~ 249 (334)
T KOG0774|consen 189 RRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKN 249 (334)
T ss_pred HHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhh
Confidence 56788899999999999996 67999999999999999999999999999999998863
No 33
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=98.11 E-value=4.5e-06 Score=80.45 Aligned_cols=61 Identities=28% Similarity=0.458 Sum_probs=55.5
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 31 ASFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 31 ~s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
.....+|.|.+||..|...|..+|+.+++|+.+..+.|+.+|+|....|.+||.|-|.|.+
T Consensus 416 ~~~~~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRRsl 476 (558)
T KOG2252|consen 416 KMLQTKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRRSL 476 (558)
T ss_pred ccccCCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhhcc
Confidence 3344567799999999999999999999999999999999999999999999999998863
No 34
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.77 E-value=3.1e-05 Score=66.00 Aligned_cols=65 Identities=26% Similarity=0.598 Sum_probs=58.1
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 31 ASFGTGNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 31 ~s~~~~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
...+.++.++.+...|+..+...|...++|+...+..|+..+|++.+.|++||+|+|++.++...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~~ 213 (235)
T KOG0490|consen 149 SNKKPRRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHKR 213 (235)
T ss_pred CccccCCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhcc
Confidence 33455567888999999999999999999999999999999999999999999999999987544
No 35
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.63 E-value=0.0017 Score=68.45 Aligned_cols=60 Identities=28% Similarity=0.520 Sum_probs=55.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHH
Q 027468 36 GNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQI 95 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~ 95 (223)
+..|++++..|+.+|..+|....+|...+.+.|...+++.++.|.+||||-|++.|+..+
T Consensus 904 ~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~~ 963 (1406)
T KOG1146|consen 904 RAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAKL 963 (1406)
T ss_pred hhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhhh
Confidence 346889999999999999999999999999999999999999999999999999997655
No 36
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=96.46 E-value=0.0024 Score=44.41 Aligned_cols=43 Identities=16% Similarity=0.314 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHh
Q 027468 46 QVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRA 88 (223)
Q Consensus 46 Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRa 88 (223)
.+..|+.+|...+++.......|..+.+|+..||+.||--|+.
T Consensus 9 d~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~~~ 51 (56)
T PF11569_consen 9 DIQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAERMQ 51 (56)
T ss_dssp --HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHHS-
T ss_pred chHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHhcc
Confidence 3567999999999999999999999999999999999976543
No 37
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=96.37 E-value=0.0045 Score=56.67 Aligned_cols=66 Identities=29% Similarity=0.353 Sum_probs=53.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHhh---CCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHH
Q 027468 35 TGNNKRRFSDEQVKSLEFMFES---EARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYT 100 (223)
Q Consensus 35 ~~r~R~rft~~Ql~~LE~~F~~---~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~ 100 (223)
..|++..+......+|+.+... .+||+...+..||.++||+..||.+||-|.|.|..+-.....+.
T Consensus 239 ~~r~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~~~~~~~ 307 (342)
T KOG0773|consen 239 KWRPQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPMIEEMYL 307 (342)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCchHHHHHH
Confidence 3445667999999999977432 47999999999999999999999999999998877655544443
No 38
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=95.91 E-value=0.023 Score=37.74 Aligned_cols=38 Identities=24% Similarity=0.399 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
|-..|+.|++++++|+.++++|+.|++.|+.++.+..+
T Consensus 3 lE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~ 40 (45)
T PF02183_consen 3 LERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKE 40 (45)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45689999999999999999999999999999886543
No 39
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=94.78 E-value=0.35 Score=43.05 Aligned_cols=39 Identities=21% Similarity=0.174 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
.+.|+.+++.|+..++.|..+++.|..++..|++.|...
T Consensus 106 n~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~ 144 (292)
T KOG4005|consen 106 NEILQNENDSLRAINESLLAKNHELDSELELLRQELAEL 144 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhh
Confidence 344444444444444455555555555555555555433
No 40
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=94.23 E-value=0.3 Score=38.31 Aligned_cols=44 Identities=18% Similarity=0.332 Sum_probs=29.4
Q ss_pred CCCCCCCHHHHH-HHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 027468 37 NNKRRFSDEQVK-SLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 37 r~R~rft~~Ql~-~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQN 85 (223)
++|++|+.+... ++...+. +.. ....+|.++|+++.+|..|.+-
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~-~g~----sv~evA~e~gIs~~tl~~W~r~ 52 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFE-PGM----TVSLVARQHGVAASQLFLWRKQ 52 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHc-CCC----CHHHHHHHHCcCHHHHHHHHHH
Confidence 345678887644 4444443 222 3456899999999999999654
No 41
>smart00340 HALZ homeobox associated leucin zipper.
Probab=92.65 E-value=0.33 Score=31.92 Aligned_cols=37 Identities=24% Similarity=0.234 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
|.+.+++- |+.+.++|.+||.+|+.|++.|+.....+
T Consensus 2 QTEvdCe~-------LKrcce~LteeNrRL~ke~~eLralk~~~ 38 (44)
T smart00340 2 QTEVDCEL-------LKRCCESLTEENRRLQKEVQELRALKLSP 38 (44)
T ss_pred chHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHhcccCC
Confidence 44555554 55677888889999999999998766544
No 42
>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=92.00 E-value=0.5 Score=32.06 Aligned_cols=47 Identities=19% Similarity=0.275 Sum_probs=33.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 027468 36 GNNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 36 ~r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
+|+|..+|-++...+-..++... ....||..+|++..+|..|..|+.
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 45778899988777777776665 467899999999999999998854
No 43
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=91.86 E-value=0.24 Score=50.19 Aligned_cols=48 Identities=19% Similarity=0.387 Sum_probs=44.6
Q ss_pred HHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHH
Q 027468 47 VKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQ 94 (223)
Q Consensus 47 l~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq 94 (223)
...|..+|..|..|+..+...+|.+.||+.+.|+.||+++++......
T Consensus 568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~sv~ 615 (1007)
T KOG3623|consen 568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMSVE 615 (1007)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhhhc
Confidence 788999999999999999999999999999999999999999877544
No 44
>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=91.54 E-value=1.2 Score=32.38 Aligned_cols=40 Identities=23% Similarity=0.203 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~ 133 (223)
+.-.-+..|+.+++.|+.++..|..++..|..++++|++.
T Consensus 15 ~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e 54 (72)
T PF06005_consen 15 QAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQE 54 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555555555555555555555555543
No 45
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=91.17 E-value=2.3 Score=29.56 Aligned_cols=39 Identities=26% Similarity=0.309 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
...+..|......|..++..|+.++..|..++..|..++
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~ 63 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSEN 63 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345556666667777777777777777777777776654
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=91.13 E-value=1.6 Score=34.04 Aligned_cols=48 Identities=21% Similarity=0.297 Sum_probs=41.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
-.+.++....+-.+...|+.....|.+||..|+.||..|++.|.....
T Consensus 10 l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 10 LDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 346678888888889999999999999999999999999999987655
No 47
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=90.29 E-value=1.5 Score=34.46 Aligned_cols=46 Identities=20% Similarity=0.223 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
-.+.++....+-.+...|+.....|.+||..|+.||..|++.|...
T Consensus 10 l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 10 LDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3466788888888899999999999999999999999999999975
No 48
>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=89.92 E-value=2.5 Score=31.46 Aligned_cols=48 Identities=19% Similarity=0.364 Sum_probs=40.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 89 RSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 89 r~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
+..+..+.++...|+..++.|....+..+.|+..|..||+-|++=+..
T Consensus 15 ~e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~n 62 (80)
T PF10224_consen 15 KEEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGN 62 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444566778888999999999999999999999999999999876653
No 49
>smart00340 HALZ homeobox associated leucin zipper.
Probab=89.32 E-value=1 Score=29.67 Aligned_cols=22 Identities=18% Similarity=0.285 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc
Q 027468 115 LMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 115 ~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
-|+.=.++|..||.+|+.+++.
T Consensus 9 ~LKrcce~LteeNrRL~ke~~e 30 (44)
T smart00340 9 LLKRCCESLTEENRRLQKEVQE 30 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555566666666555543
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=87.85 E-value=3.5 Score=28.66 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=28.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 89 RSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQL 127 (223)
Q Consensus 89 r~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~ 127 (223)
+.....++.....|..+++.|..++..|+.++..|..++
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~ 63 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSEN 63 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 334456677777788888888888888888888887775
No 51
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=87.00 E-value=15 Score=29.90 Aligned_cols=90 Identities=19% Similarity=0.217 Sum_probs=58.3
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhh-------HHHHHHHHHHHHHHHHHHHH
Q 027468 40 RRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKT-------KQIEREYTKLKAEFETLASS 112 (223)
Q Consensus 40 ~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Kr-------kq~~~e~~~lk~~~~~L~~~ 112 (223)
.+|+.+++..|- .|+.--.--|++...|-.|=|.||+-.-+ -+.......|..+.-.|..+
T Consensus 22 d~lsDd~LvsmS------------VReLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~qq 89 (135)
T KOG4196|consen 22 DRLSDDELVSMS------------VRELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQQ 89 (135)
T ss_pred CCcCHHHHHHhh------------HHHHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678998877662 22221233488888999999988863221 12223333444455567777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 027468 113 YELMRREHQLLLVQLQKLKNLLGKGHEDT 141 (223)
Q Consensus 113 ~~~l~~e~~~L~~e~~~L~~~~~~~~~~~ 141 (223)
.+.|+.|+.++..|+.-++..+.+..+..
T Consensus 90 v~~L~~e~s~~~~E~da~k~k~e~l~~~~ 118 (135)
T KOG4196|consen 90 VEKLKEENSRLRRELDAYKSKYEALQNSA 118 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 77888888888888888888887776643
No 52
>smart00338 BRLZ basic region leucin zipper.
Probab=86.43 E-value=5.7 Score=27.57 Aligned_cols=40 Identities=30% Similarity=0.396 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
......|......|..++..|..+...|..++..|++++.
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~~ 64 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSELE 64 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455566666777777777777777777777777776653
No 53
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=85.82 E-value=7.1 Score=28.35 Aligned_cols=45 Identities=18% Similarity=0.208 Sum_probs=34.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 90 SKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 90 ~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
.....++.+.+.|+..+..|..++..|+.+++.|+.+-...+..|
T Consensus 18 eti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl 62 (72)
T PF06005_consen 18 ETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERL 62 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445567788888888888888888888888888887765544443
No 54
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=85.12 E-value=4.1 Score=36.57 Aligned_cols=52 Identities=25% Similarity=0.326 Sum_probs=33.7
Q ss_pred hHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 027468 86 KRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHED 140 (223)
Q Consensus 86 RRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~ 140 (223)
||.|.++++.+.+ ++.....|..+++.|+.++..|+.|+..|++.+......
T Consensus 207 ~kSR~~~k~~~~e---~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~~~~~~ 258 (269)
T KOG3119|consen 207 RKSRDKRKQKEDE---MAHRVAELEKENEALRTQVEQLKKELATLRRLFLQLPKP 258 (269)
T ss_pred HHhhhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4556666555533 334445566777778888888888888887777765443
No 55
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=83.89 E-value=4.9 Score=36.68 Aligned_cols=44 Identities=23% Similarity=0.246 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|++.+.+.+.+--+...|..+|+.||...++|..|++.||+.+.
T Consensus 243 RqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~ 286 (294)
T KOG4571|consen 243 RQKKRAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLIL 286 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445667777777888888888899999999999999988765
No 56
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=81.60 E-value=3.8 Score=31.74 Aligned_cols=47 Identities=15% Similarity=0.405 Sum_probs=21.2
Q ss_pred chhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 77 RQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLK 131 (223)
Q Consensus 77 rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~ 131 (223)
-+...||...-- ..+..++++.+.+..++..++.+|+.|..|+..|+
T Consensus 15 l~y~l~~g~~G~--------~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 15 LQYSLWFGKNGI--------LDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHhccCCcH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 355678754311 12223333333444444444444555555555544
No 57
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=81.21 E-value=6.5 Score=30.98 Aligned_cols=45 Identities=24% Similarity=0.321 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
...++...++-++...|+....+|.+||..|+.|+.+|++.|.-+
T Consensus 11 ~~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~~ 55 (114)
T COG4467 11 DNLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGEP 55 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCCc
Confidence 356677778888888999999999999999999999999999873
No 58
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=80.83 E-value=4.6 Score=35.74 Aligned_cols=42 Identities=21% Similarity=0.202 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhcCC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQ---LLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~---~L~~e~~~L~~~~~~~~ 138 (223)
..+..++++++.|+.++..|+.+.. .++.|+++|++.|.-..
T Consensus 69 ~~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~~ 113 (276)
T PRK13922 69 ASLFDLREENEELKKELLELESRLQELEQLEAENARLRELLNLKE 113 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence 3455666666666666666666554 77899999999887543
No 59
>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=80.27 E-value=4.9 Score=36.31 Aligned_cols=39 Identities=21% Similarity=0.135 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhcCC
Q 027468 100 TKLKAEFETLASSYELMRRE----HQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 100 ~~lk~~~~~L~~~~~~l~~e----~~~L~~e~~~L~~~~~~~~ 138 (223)
..++++|+.|+.++..|.++ .+.|+.||++|+++|.-..
T Consensus 69 ~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~~ 111 (283)
T TIGR00219 69 NNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSPL 111 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence 34445555555554444222 3348899999999888653
No 60
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=79.38 E-value=7.8 Score=28.82 Aligned_cols=38 Identities=18% Similarity=0.243 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 95 IEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 95 ~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
++.+.+.||..+..|..+...+...+..|..++++|++
T Consensus 23 LqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~ 60 (79)
T PRK15422 23 LQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKE 60 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 34555555555555554444322223334444444443
No 61
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=78.55 E-value=6.7 Score=35.09 Aligned_cols=54 Identities=28% Similarity=0.280 Sum_probs=34.9
Q ss_pred hhhHhhhhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 84 QNKRARSKTKQI--EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 84 QNRRar~Krkq~--~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
|+-|-|.|-+.. +.++.-|-.++++|..+++.|+..++.|..++.+|...|.-.
T Consensus 82 QtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~ 137 (292)
T KOG4005|consen 82 QTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELL 137 (292)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 444555444333 344445777777777777777777777777777777777643
No 62
>smart00338 BRLZ basic region leucin zipper.
Probab=77.76 E-value=12 Score=25.93 Aligned_cols=35 Identities=37% Similarity=0.493 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQL 127 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~ 127 (223)
..++.....|..++..|..+...|..++..|..++
T Consensus 29 ~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 29 EELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555555566666666666666655555544
No 63
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.00 E-value=11 Score=27.58 Aligned_cols=38 Identities=18% Similarity=0.252 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLK 131 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~ 131 (223)
.++.+.+.||..+..|..+...+....+.|..++++|+
T Consensus 22 LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk 59 (79)
T COG3074 22 LLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLK 59 (79)
T ss_pred HHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555666666665555444433333444444444443
No 64
>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=75.63 E-value=8.5 Score=37.42 Aligned_cols=26 Identities=23% Similarity=0.428 Sum_probs=13.9
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMA 69 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA 69 (223)
.+++++++.|.- ....|....|-.+|
T Consensus 41 ~ltpee~kalGi---egDTP~DTlrTlva 66 (472)
T TIGR03752 41 ELSPEELKALGI---EGDTPADTLRTLVA 66 (472)
T ss_pred cCCcchhHhcCC---CCCCccchHHHHHH
Confidence 577777766643 23445544444444
No 65
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=74.75 E-value=5.5 Score=34.44 Aligned_cols=44 Identities=23% Similarity=0.344 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCC
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHEDTN 142 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~~~ 142 (223)
...+-.+|+.|+.++++|+.++++|+.++..|+.++........
T Consensus 107 ~kqlE~d~~~Lk~~~~~l~~~~~~Lq~e~~eL~~~~~~~~~~~~ 150 (198)
T KOG0483|consen 107 TKQLEKDYESLKRQLESLRSENDRLQSEVQELVAELSSLKREMQ 150 (198)
T ss_pred chhhhhhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhc
Confidence 34556678999999999999999999999999999997765443
No 66
>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=74.72 E-value=23 Score=25.38 Aligned_cols=42 Identities=19% Similarity=0.230 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
.++-.-|+.|+.+|..|+.+...+..|...|...+...+..|
T Consensus 10 e~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rv 51 (65)
T TIGR02449 10 EHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKV 51 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666776666666666666666666665444443
No 67
>PRK10884 SH3 domain-containing protein; Provisional
Probab=74.17 E-value=11 Score=32.74 Aligned_cols=31 Identities=19% Similarity=0.229 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
|+.+|+.|+.+...++.+++.|..++..+++
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~ 167 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQR 167 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444444444443
No 68
>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=73.96 E-value=4.8 Score=37.56 Aligned_cols=11 Identities=9% Similarity=-0.176 Sum_probs=6.3
Q ss_pred CCCccccccCC
Q 027468 161 RPSQIYVPSSD 171 (223)
Q Consensus 161 ~~~~~~~~~~~ 171 (223)
+|.+++.++|.
T Consensus 129 ~~lIg~Yf~D~ 139 (420)
T PF07407_consen 129 HPLIGRYFNDA 139 (420)
T ss_pred hhHHhhhcCcc
Confidence 44455666654
No 69
>PRK10884 SH3 domain-containing protein; Provisional
Probab=72.96 E-value=21 Score=30.94 Aligned_cols=42 Identities=5% Similarity=0.076 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
++...........|..+|..|+++.+.++.++..|+.++...
T Consensus 124 ~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~ 165 (206)
T PRK10884 124 QQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDK 165 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555566666666666666666666666655543
No 70
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=71.14 E-value=13 Score=26.04 Aligned_cols=34 Identities=24% Similarity=0.160 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 101 KLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 101 ~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.++..+ .+..+...+..|+.+|..||..|+..|.
T Consensus 24 ~l~rY~-~vL~~R~~l~~e~~~L~~qN~eLr~lLk 57 (60)
T PF14775_consen 24 FLKRYN-KVLLDRAALIQEKESLEQQNEELRSLLK 57 (60)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344433 3445567788899999999999998875
No 71
>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=70.83 E-value=27 Score=34.05 Aligned_cols=22 Identities=36% Similarity=0.398 Sum_probs=10.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 027468 89 RSKTKQIEREYTKLKAEFETLA 110 (223)
Q Consensus 89 r~Krkq~~~e~~~lk~~~~~L~ 110 (223)
|.+-.....+++.|+++++.|+
T Consensus 72 r~~~~~l~~~N~~l~~eN~~L~ 93 (472)
T TIGR03752 72 RKRLAKLISENEALKAENERLQ 93 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444555555555555554
No 72
>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=70.42 E-value=15 Score=25.76 Aligned_cols=25 Identities=20% Similarity=0.400 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 106 FETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 106 ~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
...|..+...++++++.|+.+++.|
T Consensus 26 i~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 26 IAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333344444444444444444444
No 73
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=70.27 E-value=37 Score=24.35 Aligned_cols=45 Identities=20% Similarity=0.152 Sum_probs=27.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|-...+..+..|..+.+.........-.++..|+.|+..|+.++.
T Consensus 20 k~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~ 64 (69)
T PF14197_consen 20 KNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELE 64 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444556666666666665555555667777777777766654
No 74
>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=69.86 E-value=11 Score=24.38 Aligned_cols=40 Identities=10% Similarity=0.232 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQN 85 (223)
.+++.+..+|...|-. ...-.++|..+|++...|+.+...
T Consensus 4 ~L~~~er~vi~~~y~~-----~~t~~eIa~~lg~s~~~V~~~~~~ 43 (50)
T PF04545_consen 4 QLPPREREVIRLRYFE-----GLTLEEIAERLGISRSTVRRILKR 43 (50)
T ss_dssp TS-HHHHHHHHHHHTS-----T-SHHHHHHHHTSCHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcC-----CCCHHHHHHHHCCcHHHHHHHHHH
Confidence 4788899999999822 223567899999999999877643
No 75
>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=69.82 E-value=2.1 Score=29.96 Aligned_cols=46 Identities=20% Similarity=0.304 Sum_probs=28.1
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 027468 37 NNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNK 86 (223)
Q Consensus 37 r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNR 86 (223)
++|++||+++...+-..+.. .......+|.++|+++.++..|-.--
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 45678999876655555421 12456789999999999999997543
No 76
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=69.78 E-value=21 Score=34.64 Aligned_cols=34 Identities=26% Similarity=0.287 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 106 FETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 106 ~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
+..|..+.+.|..+|.+|.+++.+|+.++....+
T Consensus 288 NqeL~kkV~~Le~~N~sLl~qL~klQt~v~q~an 321 (472)
T KOG0709|consen 288 NQELQKKVEELELSNRSLLAQLKKLQTLVIQVAN 321 (472)
T ss_pred cHHHHHHHHHHhhccHHHHHHHHHHHHHHhhccc
Confidence 3444444555556677777777777777765544
No 77
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=68.88 E-value=15 Score=28.37 Aligned_cols=23 Identities=13% Similarity=0.003 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 027468 102 LKAEFETLASSYELMRREHQLLL 124 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~ 124 (223)
++++++.|..++..|+.+.+.|+
T Consensus 39 ~~~e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 39 QQQTNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 33333333344444444444443
No 78
>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=68.61 E-value=32 Score=25.22 Aligned_cols=72 Identities=15% Similarity=0.183 Sum_probs=42.4
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhhh------HHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHH
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSKT------KQIEREYTKLKAEFETLA---------SSYELMRREHQLLLVQLQK 129 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~Kr------kq~~~e~~~lk~~~~~L~---------~~~~~l~~e~~~L~~e~~~ 129 (223)
..++|..+|++++.|+.|-+..--.-.+ .-...+...++.-..-.. ...-.|.++.+.|+.++.+
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~~ 83 (91)
T cd04766 4 ISVAAELSGMHPQTLRLYERLGLLSPSRTDGGTRRYSERDIERLRRIQRLTQELGVNLAGVKRILELEEELAELRAELDE 83 (91)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCcCCCcCCCCCeeECHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3468999999999999998543322111 111223332222111110 1234577888889999999
Q ss_pred HHHHHhc
Q 027468 130 LKNLLGK 136 (223)
Q Consensus 130 L~~~~~~ 136 (223)
|++.+.+
T Consensus 84 l~~~~~~ 90 (91)
T cd04766 84 LRARLRR 90 (91)
T ss_pred HHHHhcc
Confidence 8887764
No 79
>PF15058 Speriolin_N: Speriolin N terminus
Probab=68.34 E-value=16 Score=31.67 Aligned_cols=41 Identities=24% Similarity=0.420 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
..|+.|+..++.|-.+|+.||+... |..|+++||..|...+
T Consensus 5 ~~yeGlrhqierLv~ENeeLKKlVr-LirEN~eLksaL~ea~ 45 (200)
T PF15058_consen 5 TNYEGLRHQIERLVRENEELKKLVR-LIRENHELKSALGEAC 45 (200)
T ss_pred cchHHHHHHHHHHHhhhHHHHHHHH-HHHHHHHHHHHHHHhh
Confidence 3577788888888888888887764 5567777877766543
No 80
>PRK14127 cell division protein GpsB; Provisional
Probab=68.01 E-value=22 Score=27.96 Aligned_cols=41 Identities=17% Similarity=0.327 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
.+...+-..|+.|..++..|+.++..|+.++..++.++...
T Consensus 30 ~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~ 70 (109)
T PRK14127 30 KFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVSVG 70 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 44445555666666677777777777777777777766644
No 81
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=67.61 E-value=23 Score=33.20 Aligned_cols=48 Identities=23% Similarity=0.239 Sum_probs=27.2
Q ss_pred hHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 86 KRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 86 RRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~ 133 (223)
+|.+.+-.+...+.++++.--+.|+.-..+|+.+.+.|+.++..|+..
T Consensus 221 ~r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~n 268 (365)
T KOG2391|consen 221 RRREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKN 268 (365)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 344445555555666666666666655555666666666665555433
No 82
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=66.52 E-value=27 Score=31.17 Aligned_cols=47 Identities=26% Similarity=0.376 Sum_probs=32.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
-....++.+.|..+++.|.++++.+.....+|..|+.+|.+++.+..
T Consensus 144 l~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~ 190 (290)
T COG4026 144 LEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLP 190 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Confidence 34445566666677777777777777777777777777777776654
No 83
>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=66.34 E-value=40 Score=24.10 Aligned_cols=41 Identities=17% Similarity=0.157 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 95 IEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 95 ~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
++...+.|-..++.|+.+|..|..+...+..|...|.++..
T Consensus 5 Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne 45 (65)
T TIGR02449 5 LAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNE 45 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555566556666666666655544
No 84
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=66.02 E-value=24 Score=30.97 Aligned_cols=40 Identities=23% Similarity=0.325 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 98 EYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 98 e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
+.+.+....+.|+.+.+.+..|-++|..+.++|++++...
T Consensus 173 ~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~~ 212 (216)
T KOG1962|consen 173 KLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIESG 212 (216)
T ss_pred HHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhcc
Confidence 3334444444444445555556666666777777666543
No 85
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=65.87 E-value=8.4 Score=37.35 Aligned_cols=42 Identities=12% Similarity=0.110 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHEDTNE 143 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~~~~ 143 (223)
|-..+.....+|.+|++..+.|..+|..|-++|.+-+.....
T Consensus 277 LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~klQt~v~q 318 (472)
T KOG0709|consen 277 LESRVSAFTAENQELQKKVEELELSNRSLLAQLKKLQTLVIQ 318 (472)
T ss_pred HhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHHHHHHhh
Confidence 333344444688999999999999999999999988876544
No 86
>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=65.63 E-value=9.2 Score=23.68 Aligned_cols=44 Identities=11% Similarity=0.229 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
.+++.+..++...|.... ....+|..+|++...|..|...-+.+
T Consensus 10 ~l~~~~~~~~~~~~~~~~-----~~~~ia~~~~~s~~~i~~~~~~~~~~ 53 (55)
T cd06171 10 KLPEREREVILLRFGEGL-----SYEEIAEILGISRSTVRQRLHRALKK 53 (55)
T ss_pred hCCHHHHHHHHHHHhcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 467778888887774332 34567999999999999998655443
No 87
>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=65.52 E-value=25 Score=27.43 Aligned_cols=41 Identities=24% Similarity=0.335 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
-..+-.+...||.....|..+|..|+-||+.|+..+.++..
T Consensus 17 l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 17 LGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34566788888888888888999999999999888888766
No 88
>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=65.21 E-value=29 Score=29.17 Aligned_cols=59 Identities=22% Similarity=0.360 Sum_probs=27.0
Q ss_pred CCcchhhhhhhhhHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 74 LQPRQVAIWFQNKRARSK-TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 74 L~~rQVkiWFQNRRar~K-rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
|+-..|-...|+-..... .+..+.+...|+.++..|..+++.|.++++.|..++..+++
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 444555555554332211 22333444455555555555555555555555444444433
No 89
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=64.33 E-value=24 Score=34.47 Aligned_cols=45 Identities=16% Similarity=0.232 Sum_probs=33.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|...++++++.|+++.+.+......+.+..+.|..|++.|++++.
T Consensus 77 kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~ 121 (475)
T PRK13729 77 TAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVK 121 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 455667777777777776667777777777788888888888874
No 90
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=63.83 E-value=24 Score=26.50 Aligned_cols=35 Identities=29% Similarity=0.495 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
.++|..+-..++.|.++.+.|.+.++.|..+++.|
T Consensus 25 ~~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~L 59 (83)
T PF03670_consen 25 EEEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQEL 59 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence 56788999999999999999988888888887766
No 91
>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=62.65 E-value=14 Score=25.23 Aligned_cols=40 Identities=25% Similarity=0.342 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhCCCcchhhh
Q 027468 42 FSDEQVKSLEFMFESEAR--PESRMKHRMADELGLQPRQVAI 81 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~--p~~~~r~~LA~~LgL~~rQVki 81 (223)
+|+.|..+|...|...-| |-.....+||.+||+++.-|..
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~ 42 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVSE 42 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHH
Confidence 578999999999987754 6566777899999999876543
No 92
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=62.49 E-value=50 Score=22.99 Aligned_cols=45 Identities=18% Similarity=0.266 Sum_probs=36.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|-.++..+..+|....+.|..+...|+.+.+..+.|-.+.++.|.
T Consensus 4 kid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN~RlD 48 (56)
T PF04728_consen 4 KIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARANQRLD 48 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677788888888888888888888888888888887777764
No 93
>PHA01750 hypothetical protein
Probab=61.55 E-value=59 Score=23.53 Aligned_cols=39 Identities=21% Similarity=0.293 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 98 EYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 98 e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
-.+..+++.++|+.+.+.++...+.|+.++..++..+.+
T Consensus 36 vkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~dk 74 (75)
T PHA01750 36 VKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKLDK 74 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcc
Confidence 345678888999999888888888899999999887764
No 94
>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=61.17 E-value=47 Score=22.20 Aligned_cols=27 Identities=19% Similarity=0.272 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 106 FETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 106 ~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
...|......|..++..|..++..|+.
T Consensus 27 ~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 27 EEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334445555666666666666666654
No 95
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=61.03 E-value=10 Score=25.44 Aligned_cols=42 Identities=12% Similarity=0.233 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHHHHH
Q 027468 64 MKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKLKAE 105 (223)
Q Consensus 64 ~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~lk~~ 105 (223)
....||+.+|++...|..|+.++...........=+..|...
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~~~~~~~~l~~ia~~l~~~ 53 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKPSNPSLDTLEKIAKALNCS 53 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-----HHHHHHHHHHHT--
T ss_pred CHHHHHHHHCcCHHHHHHHHhcccccccHHHHHHHHHHcCCC
Confidence 355789999999999999998876666655555555554443
No 96
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=60.36 E-value=43 Score=24.38 Aligned_cols=26 Identities=27% Similarity=0.197 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 110 ASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 110 ~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
..+|-.|+.++..|+.+++.++..|.
T Consensus 42 ~keNieLKve~~~L~~el~~~~~~l~ 67 (75)
T PF07989_consen 42 LKENIELKVEVESLKRELQEKKKLLK 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444455555555555544443
No 97
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=60.04 E-value=28 Score=34.63 Aligned_cols=26 Identities=19% Similarity=0.201 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 110 ASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 110 ~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
......|.+|++.|+.|+.-|+++|.
T Consensus 308 e~rLq~ll~Ene~Lk~ENatLk~qL~ 333 (655)
T KOG4343|consen 308 EARLQALLSENEQLKKENATLKRQLD 333 (655)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 33444444555555555555555544
No 98
>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=59.77 E-value=24 Score=19.25 Aligned_cols=39 Identities=13% Similarity=0.282 Sum_probs=26.2
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhh
Q 027468 40 RRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWF 83 (223)
Q Consensus 40 ~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWF 83 (223)
..++......+...|.... ....+|..+|++...|..|.
T Consensus 4 ~~~~~~~~~~i~~~~~~~~-----s~~~ia~~~~is~~tv~~~~ 42 (42)
T cd00569 4 PKLTPEQIEEARRLLAAGE-----SVAEIARRLGVSRSTLYRYL 42 (42)
T ss_pred CcCCHHHHHHHHHHHHcCC-----CHHHHHHHHCCCHHHHHHhC
Confidence 3456666666666665322 34578899999988887763
No 99
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=58.88 E-value=62 Score=24.08 Aligned_cols=38 Identities=18% Similarity=0.256 Sum_probs=26.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQ 128 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~ 128 (223)
....++.....|..+.+.+++....|..+++.|+.|..
T Consensus 26 EieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~ 63 (79)
T PRK15422 26 EIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQN 63 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 34555666777777777777777777777777777763
No 100
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=58.83 E-value=32 Score=30.71 Aligned_cols=37 Identities=24% Similarity=0.364 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
++.+|..++.+..++..|.+++..|++++..+++.+.
T Consensus 137 ~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk 173 (290)
T COG4026 137 YEELKEKLEELQKEKEELLKELEELEAEYEEVQERLK 173 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333334444444444444444444444444
No 101
>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=57.96 E-value=52 Score=23.82 Aligned_cols=41 Identities=22% Similarity=0.339 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
+..|..|+..+..-..++..|...+..|..+|..|.+.+.+
T Consensus 27 q~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~~Ls~ql~r 67 (70)
T PF04899_consen 27 QSSYADLQHMFEQTSQENAALSEQVNNLSQQVQRLSEQLER 67 (70)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444444555555555555555555555543
No 102
>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=57.82 E-value=44 Score=23.16 Aligned_cols=41 Identities=15% Similarity=0.270 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 95 IEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 95 ~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
++.+...+....+.++.+++.++++.+.+..-+++|=..+.
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll~lYE 45 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEISESVEKIEENVKDLLSLYE 45 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555555555555555555555544443
No 103
>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=57.82 E-value=67 Score=23.23 Aligned_cols=42 Identities=17% Similarity=0.290 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
.+....++..|..|...+...+.++..|..+|..|..++..-
T Consensus 20 ~~q~~~Wq~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~~L 61 (70)
T PF04899_consen 20 EKQQQEWQSSYADLQHMFEQTSQENAALSEQVNNLSQQVQRL 61 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 345567788888888888888888888888888888877654
No 104
>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=57.48 E-value=55 Score=21.85 Aligned_cols=30 Identities=23% Similarity=0.281 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQ 126 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e 126 (223)
.....|......|..++..|..++..|+.|
T Consensus 25 ~~~~~le~~~~~L~~en~~L~~~i~~L~~E 54 (54)
T PF07716_consen 25 QREEELEQEVQELEEENEQLRQEIAQLERE 54 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 444555566666667777777776666654
No 105
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=57.45 E-value=41 Score=26.41 Aligned_cols=40 Identities=23% Similarity=0.295 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
..+-.+...||.....|..+|..|+-||+.|+..+.++..
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 4566788899999999999999999999999999998744
No 106
>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=57.23 E-value=54 Score=28.68 Aligned_cols=42 Identities=24% Similarity=0.320 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.+..++..+..+.+.|...+..+......++.++..|+.++.
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 334444455555555554444444444444444444444444
No 107
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=56.86 E-value=40 Score=30.24 Aligned_cols=42 Identities=21% Similarity=0.209 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHED 140 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~ 140 (223)
...-|...+.+......|.+||+.|+.+|.+|+.++......
T Consensus 210 R~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~ 251 (269)
T KOG3119|consen 210 RDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKELATLRRL 251 (269)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444556666677778888888888888888888765543
No 108
>PRK14127 cell division protein GpsB; Provisional
Probab=55.63 E-value=27 Score=27.38 Aligned_cols=42 Identities=14% Similarity=0.238 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 027468 100 TKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHEDT 141 (223)
Q Consensus 100 ~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~~ 141 (223)
+..-.-++.+..+++.+..|+..|+.++.+|+.++...+...
T Consensus 26 ~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~ 67 (109)
T PRK14127 26 DEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQV 67 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445555677777888888888888888888888887665543
No 109
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=55.58 E-value=50 Score=32.91 Aligned_cols=50 Identities=22% Similarity=0.354 Sum_probs=31.7
Q ss_pred hhhhHhhhhhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 83 FQNKRARSKTKQIE-REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 83 FQNRRar~Krkq~~-~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
.+||-.-.-.+..+ +-...|...+..|..+++.|+.||-.|+.++.-|-.
T Consensus 287 IKNResA~~SRkKKKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~ 337 (655)
T KOG4343|consen 287 IKNRESACQSRKKKKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVS 337 (655)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence 34554333322223 334557777788888888888888888887776643
No 110
>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=55.22 E-value=8.1 Score=27.21 Aligned_cols=19 Identities=21% Similarity=0.531 Sum_probs=16.6
Q ss_pred HHHHHHHhCCCcchhhhhh
Q 027468 65 KHRMADELGLQPRQVAIWF 83 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWF 83 (223)
-..||.+||+++.+|+.|=
T Consensus 25 lkdIA~~Lgvs~~tIr~WK 43 (60)
T PF10668_consen 25 LKDIAEKLGVSESTIRKWK 43 (60)
T ss_pred HHHHHHHHCCCHHHHHHHh
Confidence 4468999999999999993
No 111
>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=54.45 E-value=74 Score=22.41 Aligned_cols=43 Identities=21% Similarity=0.303 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
.+..+....+..+-.+.+........+..|..++..|+.++..
T Consensus 15 ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee 57 (61)
T PF08826_consen 15 AIQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEE 57 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666666667777788888888888877753
No 112
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=54.39 E-value=45 Score=31.55 Aligned_cols=44 Identities=20% Similarity=0.252 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
........++.+++.|..++..+..+..+++.|+.+|++++.+.
T Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (398)
T PTZ00454 19 DLYEKLKELEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRI 62 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444555555566666666666666666666666665544
No 113
>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=54.23 E-value=57 Score=29.03 Aligned_cols=42 Identities=21% Similarity=0.370 Sum_probs=20.9
Q ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 87 RARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQ 128 (223)
Q Consensus 87 Rar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~ 128 (223)
|-|.|-..++++...++.....|+.+.++|+.+|-.|=..+.
T Consensus 90 RFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiR 131 (248)
T PF08172_consen 90 RFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIR 131 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555544444444444443333
No 114
>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=53.24 E-value=21 Score=30.02 Aligned_cols=24 Identities=38% Similarity=0.349 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 111 SSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 111 ~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
.+.+.|+.++|+|+.|+..|++++
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 345667777777777777777777
No 115
>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=53.18 E-value=74 Score=22.06 Aligned_cols=35 Identities=17% Similarity=0.345 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 101 KLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 101 ~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.+-.....+......++.|++.+...++++++-+.
T Consensus 4 elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk 38 (55)
T PF05377_consen 4 ELENELPRIESSINTVKKENEEISESVEKIEENVK 38 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556667777777888888888888887777654
No 116
>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=52.90 E-value=46 Score=23.83 Aligned_cols=30 Identities=27% Similarity=0.385 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLL 123 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L 123 (223)
....+...++++.+.+..++..|+.|...|
T Consensus 28 ~~~~~~~~~~~~~~~l~~en~~L~~ei~~l 57 (85)
T TIGR02209 28 QLNNELQKLQLEIDKLQKEWRDLQLEVAEL 57 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444443333
No 117
>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=52.53 E-value=75 Score=27.47 Aligned_cols=42 Identities=17% Similarity=0.154 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
.+...|......+...+-.+..++..|..|+.+|+.+.....
T Consensus 175 ~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~~~ 216 (221)
T PF05700_consen 175 EELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAELK 216 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334455555555556667777788889999988887766543
No 118
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=52.52 E-value=48 Score=31.15 Aligned_cols=45 Identities=27% Similarity=0.268 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
..+++.+.+.++.+.|+..-+.|+.-.+.|.++.+.|.+++...+
T Consensus 222 r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~ 266 (365)
T KOG2391|consen 222 RREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQ 266 (365)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 344556666666666666666666666666666666666655543
No 119
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=52.36 E-value=70 Score=27.14 Aligned_cols=34 Identities=21% Similarity=0.350 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|+.+++.....|+.|..+.++|..+..+|+++|.
T Consensus 86 LReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL~ 119 (182)
T PF15035_consen 86 LREQLEQARKANEALQEDLQKLTQDWERLRDELE 119 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444445555555555555555555555544
No 120
>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=51.30 E-value=94 Score=28.50 Aligned_cols=49 Identities=10% Similarity=0.222 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 027468 95 IEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHEDTNE 143 (223)
Q Consensus 95 ~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~~~~ 143 (223)
+..+...--....-|--.+.+.++..+.|..++.+++.+|.+.+....+
T Consensus 86 lshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~~~ 134 (307)
T PF10481_consen 86 LSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAASS 134 (307)
T ss_pred hhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3344444444444455556677788889999999999999988765543
No 121
>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=50.86 E-value=5.1 Score=35.35 Aligned_cols=34 Identities=26% Similarity=0.339 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
..+.-|+...+.|.++|+.|++||++|.+++.+|
T Consensus 129 T~I~dLrrlVe~L~aeNErLr~EnkqL~ae~arL 162 (243)
T PF08961_consen 129 TKIADLRRLVEFLLAENERLRRENKQLKAENARL 162 (243)
T ss_dssp ----------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666667777777777777777777776
No 122
>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=50.69 E-value=70 Score=27.94 Aligned_cols=39 Identities=23% Similarity=0.216 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.+...|..+++.|..+.+.|+..++.+...+..++.++.
T Consensus 49 ~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~ 87 (251)
T PF11932_consen 49 DEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELA 87 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333444444444444444444444444433333
No 123
>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=50.33 E-value=42 Score=21.76 Aligned_cols=41 Identities=15% Similarity=0.215 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
+++.+..++...|-. ...-.++|..+|+++..|+.|.+.-|
T Consensus 11 L~~~~r~i~~l~~~~-----g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 11 LPERQREIFLLRYFQ-----GMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp S-HHHHHHHHHHHTS--------HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH-----CcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 566666666665532 33456789999999999999987443
No 124
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=50.30 E-value=74 Score=32.89 Aligned_cols=21 Identities=24% Similarity=0.408 Sum_probs=13.2
Q ss_pred CCHHHHHHHHHHhCCCcchhh
Q 027468 60 PESRMKHRMADELGLQPRQVA 80 (223)
Q Consensus 60 p~~~~r~~LA~~LgL~~rQVk 80 (223)
|....-..+|+.+|+++.-|.
T Consensus 485 ~g~S~a~~iA~~~Glp~~ii~ 505 (782)
T PRK00409 485 PGKSNAFEIAKRLGLPENIIE 505 (782)
T ss_pred CCCcHHHHHHHHhCcCHHHHH
Confidence 444455567777777776654
No 125
>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=50.12 E-value=52 Score=23.15 Aligned_cols=36 Identities=17% Similarity=0.139 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 103 KAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 103 k~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
+.+-+.|+.....|...+..|+.|+..|+......+
T Consensus 13 rEEVevLK~~I~eL~~~n~~Le~EN~~Lk~~~~pe~ 48 (59)
T PF01166_consen 13 REEVEVLKEQIAELEERNSQLEEENNLLKQNASPEQ 48 (59)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHH
Confidence 344556666667777778888888888887765443
No 126
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=50.09 E-value=45 Score=27.24 Aligned_cols=45 Identities=18% Similarity=0.234 Sum_probs=33.2
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 39 KRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 39 R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
...+++.|..+|...++ . ....++|..||++...|..|-.+.+.+
T Consensus 4 ~~~Lt~rqreVL~lr~~--G----lTq~EIAe~LGiS~~tVs~ie~ra~kk 48 (141)
T PRK03975 4 ESFLTERQIEVLRLRER--G----LTQQEIADILGTSRANVSSIEKRAREN 48 (141)
T ss_pred ccCCCHHHHHHHHHHHc--C----CCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 35789999999987431 1 224578999999999999998754433
No 127
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=49.21 E-value=16 Score=39.81 Aligned_cols=56 Identities=18% Similarity=0.225 Sum_probs=48.7
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhH
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTK 93 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krk 93 (223)
.+++++.-|..+|..+|+...+|.-.....++..||+..|.+-.||++++.++..-
T Consensus 447 ~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~ 502 (1406)
T KOG1146|consen 447 ESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQN 502 (1406)
T ss_pred hhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccc
Confidence 57788889999999999999999999999999999999999888888766666543
No 128
>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=49.14 E-value=93 Score=24.40 Aligned_cols=58 Identities=21% Similarity=0.225 Sum_probs=28.8
Q ss_pred chhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 77 RQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 77 rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
||...||-.+|.-- ........++.+.+.|+.+...-.+-.+++...+...+..|...
T Consensus 18 Rq~e~~FlqKr~~L---S~~kpe~~lkEEi~eLK~ElqRKe~Ll~Kh~~kI~~w~~lL~d~ 75 (106)
T PF11594_consen 18 RQMEAFFLQKRFEL---SAYKPEQVLKEEINELKEELQRKEQLLQKHYEKIDYWEKLLSDA 75 (106)
T ss_pred HHHHHHHHHHHHHH---HhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67789999888766 23334444555555554333222222333333333334444433
No 129
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=49.00 E-value=77 Score=29.09 Aligned_cols=35 Identities=20% Similarity=0.191 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQL 127 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~ 127 (223)
.....+++.|-..|+.|+.+..+|.+|.+-|+.-+
T Consensus 251 E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli 285 (294)
T KOG4571|consen 251 EALLGELEGLEKRNEELKDQASELEREIRYLKQLI 285 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666666666666666666665555443
No 130
>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=48.99 E-value=1.2e+02 Score=23.50 Aligned_cols=43 Identities=19% Similarity=0.150 Sum_probs=27.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
+...+++.-..+.+.+.|..=.+.|++|....+.++.+|.+.|
T Consensus 57 rE~A~E~~Y~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 57 REAAQEEQYFRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444455555555556666555667777777777777777665
No 131
>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=48.78 E-value=81 Score=27.28 Aligned_cols=21 Identities=24% Similarity=0.260 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027468 113 YELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 113 ~~~l~~e~~~L~~e~~~L~~~ 133 (223)
...|++.|++|+.+++.|++.
T Consensus 57 IR~LKe~NqkLqedNqELRdL 77 (195)
T PF10226_consen 57 IRGLKEVNQKLQEDNQELRDL 77 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555444
No 132
>KOG3564 consensus GTPase-activating protein [General function prediction only]
Probab=48.66 E-value=1e+02 Score=30.44 Aligned_cols=43 Identities=12% Similarity=0.142 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
+.+..--+...+.+..++..++.+.+.+..+.+.+++++.-..
T Consensus 69 dvklkha~~~vda~ik~rr~ae~d~~~~E~~i~~i~d~l~~~~ 111 (604)
T KOG3564|consen 69 DVKLKHARNQVDAEIKRRRRAEADCEKLETQIQLIKDMLKCDI 111 (604)
T ss_pred cchHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccc
Confidence 3334444445555556667778888888888899998887443
No 133
>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=48.56 E-value=1.3e+02 Score=26.80 Aligned_cols=55 Identities=18% Similarity=0.302 Sum_probs=24.4
Q ss_pred cchhhhhhhhhHhhhhhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 76 PRQVAIWFQNKRARSKTKQ--IEREYTKLKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 76 ~rQVkiWFQNRRar~Krkq--~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
...+..||+.+-...+... .......++.+...++....+|..+...|+..+..|
T Consensus 186 ~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~L 242 (312)
T PF00038_consen 186 REELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASL 242 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhh
Confidence 4567888887744433221 222333334444444444444433333333333333
No 134
>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=48.45 E-value=41 Score=22.39 Aligned_cols=46 Identities=13% Similarity=0.301 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKT 92 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Kr 92 (223)
.||+.+..+|.....-.. ..++|..+|++++.|.....+=+.|..-
T Consensus 3 ~LT~~E~~vl~~l~~G~~------~~eIA~~l~is~~tV~~~~~~i~~Kl~~ 48 (58)
T PF00196_consen 3 SLTERELEVLRLLAQGMS------NKEIAEELGISEKTVKSHRRRIMKKLGV 48 (58)
T ss_dssp SS-HHHHHHHHHHHTTS-------HHHHHHHHTSHHHHHHHHHHHHHHHHT-
T ss_pred ccCHHHHHHHHHHHhcCC------cchhHHhcCcchhhHHHHHHHHHHHhCC
Confidence 578888888877754332 5678999999999999988776665543
No 135
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.05 E-value=94 Score=22.77 Aligned_cols=28 Identities=21% Similarity=0.272 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQ 126 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e 126 (223)
..+|..+-..+....+.|..+++.|+.|
T Consensus 34 nn~l~~e~q~~q~~reaL~~eneqlk~e 61 (79)
T COG3074 34 NNSLSQEVQNAQHQREALERENEQLKEE 61 (79)
T ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333444444444444444444
No 136
>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=47.81 E-value=44 Score=24.67 Aligned_cols=25 Identities=24% Similarity=0.218 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 109 LASSYELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 109 L~~~~~~l~~e~~~L~~e~~~L~~~ 133 (223)
|..++..|+.+.+.|.+|+++++..
T Consensus 5 i~eEn~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 5 IQEENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444555555555555555555443
No 137
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=47.73 E-value=91 Score=24.33 Aligned_cols=27 Identities=15% Similarity=0.209 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 107 ETLASSYELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 107 ~~L~~~~~~l~~e~~~L~~e~~~L~~~ 133 (223)
..+..+++.|.+++..|..|+..|++.
T Consensus 60 ~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 60 AAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 344444444555555555555555443
No 138
>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=47.63 E-value=59 Score=24.52 Aligned_cols=20 Identities=30% Similarity=0.597 Sum_probs=16.5
Q ss_pred HHHHHHhCCCcchhhhhhhh
Q 027468 66 HRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 66 ~~LA~~LgL~~rQVkiWFQN 85 (223)
.++|+.+|+++..++.|-++
T Consensus 4 ~EvA~~~gVs~~tLR~ye~~ 23 (99)
T cd04765 4 GEVAEILGLPPHVLRYWETE 23 (99)
T ss_pred HHHHHHHCcCHHHHHHHHHH
Confidence 46788999999999999654
No 139
>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]
Probab=47.53 E-value=86 Score=24.51 Aligned_cols=38 Identities=16% Similarity=0.242 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
.+.-.|+.-++.|....++.|+|+-.|+.|++-|-+-+
T Consensus 63 tQVLELQnTLdDLSqRVdsVKEEnLKLrSENQVLGQYI 100 (120)
T KOG3650|consen 63 TQVLELQNTLDDLSQRVDSVKEENLKLRSENQVLGQYI 100 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHH
Confidence 34445667778888888888888888888888775444
No 140
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=47.18 E-value=48 Score=29.27 Aligned_cols=36 Identities=25% Similarity=0.262 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYE---LMRREHQLLLVQLQ 128 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~---~l~~e~~~L~~e~~ 128 (223)
....++++.|++++..|..+.. .+++|+++|+..+.
T Consensus 72 ~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~ 110 (276)
T PRK13922 72 FDLREENEELKKELLELESRLQELEQLEAENARLRELLN 110 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566777778888777776554 66777877777553
No 141
>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=47.18 E-value=56 Score=22.78 Aligned_cols=31 Identities=29% Similarity=0.408 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLL 123 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L 123 (223)
.+...+...++.+++.+..+++.|+.+.+.|
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3555667777777777777777777777777
No 142
>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=46.54 E-value=98 Score=26.02 Aligned_cols=42 Identities=17% Similarity=0.286 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.++.+...|+..++.|..++..|.++...++..-..|-..|.
T Consensus 108 ~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~ 149 (161)
T TIGR02894 108 RLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMD 149 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444445555555555555554444444444444444333
No 143
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=45.76 E-value=97 Score=26.27 Aligned_cols=50 Identities=18% Similarity=0.176 Sum_probs=40.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 90 SKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 90 ~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.+-...+..++.|-+-|..|+.+.+.....|+.|..++++|...+.+...
T Consensus 67 ~rLeEEqqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~ 116 (182)
T PF15035_consen 67 IRLEEEQQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRD 116 (182)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566788888888889999999999999999999999988887543
No 144
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=45.69 E-value=79 Score=27.80 Aligned_cols=25 Identities=36% Similarity=0.458 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 111 SSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 111 ~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
+++..+..|+++|+.++.+++..+-
T Consensus 116 sEF~~lr~e~EklkndlEk~ks~lr 140 (220)
T KOG3156|consen 116 SEFANLRAENEKLKNDLEKLKSSLR 140 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777777777777766554
No 145
>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=45.62 E-value=1.1e+02 Score=31.53 Aligned_cols=21 Identities=14% Similarity=0.300 Sum_probs=12.9
Q ss_pred CCHHHHHHHHHHhCCCcchhh
Q 027468 60 PESRMKHRMADELGLQPRQVA 80 (223)
Q Consensus 60 p~~~~r~~LA~~LgL~~rQVk 80 (223)
|....-..+|+.+|+++.-|.
T Consensus 480 ~g~S~a~~iA~~~Glp~~ii~ 500 (771)
T TIGR01069 480 PGESYAFEIAQRYGIPHFIIE 500 (771)
T ss_pred CCCcHHHHHHHHhCcCHHHHH
Confidence 444445567777777766554
No 146
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=45.35 E-value=90 Score=25.43 Aligned_cols=53 Identities=23% Similarity=0.293 Sum_probs=40.7
Q ss_pred hhhhHhhhh--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 83 FQNKRARSK--TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 83 FQNRRar~K--rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
-+|-|.|.- +..++.+...|.++.+.|+.++..+..|.+.++..-.+|..=..
T Consensus 65 A~sCR~KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~~~ 119 (135)
T KOG4196|consen 65 AQSCRVKRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNSAV 119 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 344444432 34567778889999999999999999999999999888876654
No 147
>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=45.09 E-value=93 Score=23.46 Aligned_cols=38 Identities=24% Similarity=0.290 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Q 027468 97 REYTKLKAEFETLASSY------ELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~------~~l~~e~~~L~~e~~~L~~~~ 134 (223)
.+...|+.+...|+.+. -....||.+|+.|+.+|+...
T Consensus 24 ~e~~~L~eEI~~Lr~qve~nPevtr~A~EN~rL~ee~rrl~~f~ 67 (86)
T PF12711_consen 24 EENEALKEEIQLLREQVEHNPEVTRFAMENIRLREELRRLQSFY 67 (86)
T ss_pred HHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455555555555433 234567777777777777655
No 148
>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=44.43 E-value=70 Score=23.65 Aligned_cols=22 Identities=18% Similarity=0.391 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027468 109 LASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 109 L~~~~~~l~~e~~~L~~e~~~L 130 (223)
+..+...++.|+..|+.|...|
T Consensus 47 l~~~~~~l~~e~~~L~lE~~~l 68 (97)
T PF04999_consen 47 LEKEIDQLQEENERLRLEIATL 68 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3333444444444444444444
No 149
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=44.13 E-value=60 Score=28.53 Aligned_cols=46 Identities=15% Similarity=0.240 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
...+.+.++....++.+..+...|++..+.+..|-.+|-++..+-+
T Consensus 161 ~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq 206 (216)
T KOG1962|consen 161 EKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQ 206 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence 3344444444444444444555555555555555555555444333
No 150
>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=43.85 E-value=20 Score=30.13 Aligned_cols=30 Identities=23% Similarity=0.233 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 104 AEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 104 ~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
.+-+.|+.+...|+.|...|+.|+ .+++++
T Consensus 24 dEKE~L~~~~QRLkDE~RDLKqEl-~V~ek~ 53 (166)
T PF04880_consen 24 DEKENLREEVQRLKDELRDLKQEL-IVQEKL 53 (166)
T ss_dssp HHHHHHHHCH---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHh
Confidence 344566666666666666666666 444443
No 151
>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=43.41 E-value=1.1e+02 Score=24.20 Aligned_cols=43 Identities=23% Similarity=0.349 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
..++.++..|...|+.+..-++.-.++++.|+.-++.||+++.
T Consensus 71 ~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~myr 113 (120)
T PF12325_consen 71 EELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMYR 113 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555544444445567777777777776654
No 152
>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=43.28 E-value=37 Score=23.89 Aligned_cols=32 Identities=22% Similarity=0.267 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQL 127 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~ 127 (223)
+++.+.||.....|...+..|+.||..|+...
T Consensus 13 rEEVevLK~~I~eL~~~n~~Le~EN~~Lk~~~ 44 (59)
T PF01166_consen 13 REEVEVLKEQIAELEERNSQLEEENNLLKQNA 44 (59)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 35667888888888888888888888887643
No 153
>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=43.25 E-value=34 Score=25.26 Aligned_cols=24 Identities=25% Similarity=0.304 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 114 ELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 114 ~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
..+.+||.+|+.++++|.++|+..
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888999999999888888764
No 154
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=43.02 E-value=1.2e+02 Score=23.58 Aligned_cols=35 Identities=17% Similarity=0.288 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~ 133 (223)
...+...+..+..+.+.++...+.+..++..|+.+
T Consensus 82 ~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~E 116 (118)
T PF13815_consen 82 LEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKKE 116 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444444444444444444444443
No 155
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=42.26 E-value=42 Score=28.58 Aligned_cols=40 Identities=20% Similarity=0.388 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHhhCC--CCCHHHHHHHHHHhCCCcchhh
Q 027468 41 RFSDEQVKSLEFMFESEA--RPESRMKHRMADELGLQPRQVA 80 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~--~p~~~~r~~LA~~LgL~~rQVk 80 (223)
-+|+.|+.+|...|...= +|-......||++||+++.-+.
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~ 196 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLS 196 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHH
Confidence 699999999999998774 4667777899999999986543
No 156
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=41.94 E-value=1.1e+02 Score=30.00 Aligned_cols=28 Identities=25% Similarity=0.548 Sum_probs=20.2
Q ss_pred hhhhhh---hhhHhhhhhHHHHHHHHHHHHH
Q 027468 78 QVAIWF---QNKRARSKTKQIEREYTKLKAE 105 (223)
Q Consensus 78 QVkiWF---QNRRar~Krkq~~~e~~~lk~~ 105 (223)
..-+|| ||+.+|.+-...-++.+.|+..
T Consensus 227 v~gcw~ay~Qnk~akehv~km~kdle~Lq~a 257 (575)
T KOG4403|consen 227 VGGCWFAYRQNKKAKEHVNKMMKDLEGLQRA 257 (575)
T ss_pred hhhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 345888 8999988877777776666543
No 157
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=41.91 E-value=32 Score=22.04 Aligned_cols=40 Identities=18% Similarity=0.274 Sum_probs=20.3
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 027468 40 RRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQ 84 (223)
Q Consensus 40 ~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQ 84 (223)
+.+|.++...++..+... ....+||+.||.++..|..+.+
T Consensus 3 ~~Lt~~eR~~I~~l~~~G-----~s~~~IA~~lg~s~sTV~relk 42 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQG-----MSIREIAKRLGRSRSTVSRELK 42 (44)
T ss_dssp ---------HHHHHHCS--------HHHHHHHTT--HHHHHHHHH
T ss_pred cchhhhHHHHHHHHHHcC-----CCHHHHHHHHCcCcHHHHHHHh
Confidence 568888888888887533 2345689999999998887654
No 158
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=41.25 E-value=1.9e+02 Score=26.53 Aligned_cols=52 Identities=21% Similarity=0.309 Sum_probs=24.1
Q ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 87 RARSKTKQIEREYTKLKAEFETLASSY-------ELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 87 Rar~Krkq~~~e~~~lk~~~~~L~~~~-------~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
--+.+-.-.+..+..++.++.....++ ..|..+...|+.++....+.|.+..
T Consensus 116 ~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~L~~rdeli~khG 174 (302)
T PF09738_consen 116 LLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQLKQRDELIEKHG 174 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 344444444444444544443333333 4444444455555555555554443
No 159
>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=41.12 E-value=66 Score=29.00 Aligned_cols=36 Identities=22% Similarity=0.250 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSY----ELMRREHQLLLVQLQ 128 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~----~~l~~e~~~L~~e~~ 128 (223)
....+|++.||.++..|..+. ..+++||++|+..+.
T Consensus 69 ~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~ 108 (283)
T TIGR00219 69 NNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLN 108 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456788888888877664433 348899999988664
No 160
>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=40.46 E-value=23 Score=22.31 Aligned_cols=23 Identities=13% Similarity=0.156 Sum_probs=18.9
Q ss_pred HHHHHHHhCCCcchhhhhhhhhH
Q 027468 65 KHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
..++|+.+|+++..|+.|.+.-.
T Consensus 3 ~~e~a~~~gv~~~tlr~~~~~g~ 25 (49)
T cd04761 3 IGELAKLTGVSPSTLRYYERIGL 25 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCC
Confidence 35789999999999999976543
No 161
>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=40.33 E-value=1.5e+02 Score=21.95 Aligned_cols=40 Identities=15% Similarity=0.244 Sum_probs=34.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
....++.....|-...+.++.+++.|+.||+-|+.=+.-|
T Consensus 24 ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nL 63 (80)
T PF10224_consen 24 EILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNL 63 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456778888899999999999999999999999988877
No 162
>PF13518 HTH_28: Helix-turn-helix domain
Probab=40.26 E-value=30 Score=22.00 Aligned_cols=23 Identities=26% Similarity=0.528 Sum_probs=18.9
Q ss_pred HHHHHHHhCCCcchhhhhhhhhH
Q 027468 65 KHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
..++|.++|++..+|..|.+.-+
T Consensus 15 ~~~~a~~~gis~~tv~~w~~~y~ 37 (52)
T PF13518_consen 15 VREIAREFGISRSTVYRWIKRYR 37 (52)
T ss_pred HHHHHHHHCCCHhHHHHHHHHHH
Confidence 44689999999999999986433
No 163
>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=39.98 E-value=1.9e+02 Score=23.04 Aligned_cols=12 Identities=42% Similarity=0.279 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 027468 120 HQLLLVQLQKLK 131 (223)
Q Consensus 120 ~~~L~~e~~~L~ 131 (223)
....+.++++|+
T Consensus 110 ~k~~kee~~klk 121 (151)
T PF11559_consen 110 LKQEKEELQKLK 121 (151)
T ss_pred HHHHHHHHHHHH
Confidence 333333444443
No 164
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=39.81 E-value=1.3e+02 Score=28.44 Aligned_cols=16 Identities=19% Similarity=0.372 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 027468 96 EREYTKLKAEFETLAS 111 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~ 111 (223)
+.+.+.|+.++++|..
T Consensus 98 q~e~~qL~~qnqkL~n 113 (401)
T PF06785_consen 98 QQESEQLQSQNQKLKN 113 (401)
T ss_pred HHHHHHHHHhHHHHHH
Confidence 3444445555555543
No 165
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=39.22 E-value=81 Score=28.50 Aligned_cols=27 Identities=26% Similarity=0.240 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 027468 114 ELMRREHQLLLVQLQKLKNLLGKGHED 140 (223)
Q Consensus 114 ~~l~~e~~~L~~e~~~L~~~~~~~~~~ 140 (223)
..+..+.+.|+.|+++|++.+.-....
T Consensus 86 ~~~~~~~~~l~~EN~~Lr~lL~~~~~~ 112 (284)
T COG1792 86 EQLLEEVESLEEENKRLKELLDFKESS 112 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCcccc
Confidence 345667889999999999999876655
No 166
>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=39.02 E-value=46 Score=25.43 Aligned_cols=36 Identities=22% Similarity=0.450 Sum_probs=19.7
Q ss_pred HHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHH
Q 027468 47 VKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIE 96 (223)
Q Consensus 47 l~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~ 96 (223)
+.+..-.|+.++||.+.--.. | =.|||.||++.+.+
T Consensus 14 vRiIk~LyqsnPyP~~~GTr~-a-------------RRnRRRRWR~rq~Q 49 (91)
T PF00424_consen 14 VRIIKILYQSNPYPSPEGTRQ-A-------------RRNRRRRWRARQRQ 49 (91)
T ss_dssp HHHHHHHHHTS-S--S-S-HH-H-------------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHccccCCCCCCccc-c-------------ccchhhhHHHHHHH
Confidence 445566689999997542111 1 15899999976553
No 167
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=38.97 E-value=95 Score=25.38 Aligned_cols=46 Identities=28% Similarity=0.383 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 94 QIEREYTKLKAEFETLASSY--ELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~--~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.++.++..|+.++..|.+.. ..|......|..++..|.++|...+.
T Consensus 90 ~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 90 ELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444444555544444432 45666778888888888888876554
No 168
>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=38.74 E-value=1.5e+02 Score=22.30 Aligned_cols=38 Identities=13% Similarity=0.220 Sum_probs=27.2
Q ss_pred CCCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 027468 37 NNKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNK 86 (223)
Q Consensus 37 r~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNR 86 (223)
..++.|+.+++..|... ..|.+.+|++-..|+....+.
T Consensus 34 ~g~R~Yt~~di~~l~~I------------~~llr~~G~~l~~i~~~l~~~ 71 (99)
T cd04765 34 GGRRYYRPKDVELLLLI------------KHLLYEKGYTIEGAKQALKED 71 (99)
T ss_pred CCCeeeCHHHHHHHHHH------------HHHHHHCCCCHHHHHHHHHhc
Confidence 35678999999888543 335567888888888777543
No 169
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=38.53 E-value=1.5e+02 Score=25.68 Aligned_cols=32 Identities=22% Similarity=0.304 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 106 FETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 106 ~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
+..|.++...+.+|+++|..++..|+++-.+.
T Consensus 83 ~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl 114 (193)
T PF14662_consen 83 NRSLLAQARQLEKEQQSLVAEIETLQEENGKL 114 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 33333444445555555555555555554443
No 170
>PF11544 Spc42p: Spindle pole body component Spc42p; InterPro: IPR021611 Spc42p is a 42kDa component of the S.cerevisiae spindle body that localises to the electron dense central region of the SPB. Spc42p is a phosphoprotein which forms a polymeric layer at the periphery of the SPB central plaque. This functions during SPB duplication and also facilitates the attachment of the SPB to the nuclear membrane. ; PDB: 2Q6Q_B.
Probab=38.37 E-value=1.6e+02 Score=21.72 Aligned_cols=49 Identities=22% Similarity=0.213 Sum_probs=39.6
Q ss_pred hhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 84 QNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 84 QNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
||+--+.+-...+.++..|......|+....++...+..|+.++.-++.
T Consensus 6 qNk~L~~kL~~K~eEI~rLn~lv~sLR~KLiKYt~LnkkLq~~~~~~~~ 54 (76)
T PF11544_consen 6 QNKELKKKLNDKQEEIDRLNILVGSLRGKLIKYTELNKKLQDQLLNLQR 54 (76)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5666677777778888899998899988888888888888888777665
No 171
>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=37.83 E-value=70 Score=24.26 Aligned_cols=30 Identities=23% Similarity=0.307 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLK 131 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~ 131 (223)
++...+.|...+..+..+|..|..+++.++
T Consensus 78 ~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r 107 (109)
T PF03980_consen 78 KKKEREQLNARLQELEEENEALAEEIQEQR 107 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344455555566666666666666666554
No 172
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=36.97 E-value=88 Score=24.26 Aligned_cols=45 Identities=11% Similarity=0.025 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARS 90 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~ 90 (223)
.+++.+..++...|-.+ ....++|..+|++...|+.+...-|.+.
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 35666666665554332 2356789999999999999876444443
No 173
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=36.63 E-value=1.3e+02 Score=30.46 Aligned_cols=19 Identities=26% Similarity=0.378 Sum_probs=11.8
Q ss_pred CCCchhhHhhhhhcCCCCC
Q 027468 3 SEIPETTAAAAVKFRGLNL 21 (223)
Q Consensus 3 ~~~P~v~~~~a~~~~~~~~ 21 (223)
+|+|....--|-+|+...+
T Consensus 298 tp~P~~V~KiAasf~A~ly 316 (652)
T COG2433 298 TPAPETVKKIAASFNAVLY 316 (652)
T ss_pred CCChHHHHHHHHHcCCccc
Confidence 4667766666666666544
No 174
>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=36.12 E-value=81 Score=23.47 Aligned_cols=45 Identities=13% Similarity=0.237 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..++...|-. .....++|..+|+++..|..+...-+.+.|
T Consensus 111 L~~~~~~ii~~~~~~-----g~s~~eIA~~l~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 111 LPEREREVLVLRYLE-----GLSYKEIAEILGISVGTVKRRLKRARKKLR 155 (158)
T ss_pred CCHHHHHHHhhHHhc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 556666665544322 123457899999999999988765444433
No 175
>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=35.79 E-value=2.6e+02 Score=23.25 Aligned_cols=80 Identities=16% Similarity=0.139 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 45 EQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLL 124 (223)
Q Consensus 45 ~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~ 124 (223)
.-+..|+.++..+........ .|- ...-+.=.+-+|-+..+++.+..+..+ -|.+..+...|......|+
T Consensus 33 ~vLE~Le~~~~~n~~~~~e~~-~L~------~d~e~L~~q~~~ek~~r~~~e~~l~~~---Ed~~~~e~k~L~~~v~~Le 102 (158)
T PF09744_consen 33 RVLELLESLASRNQEHEVELE-LLR------EDNEQLETQYEREKELRKQAEEELLEL---EDQWRQERKDLQSQVEQLE 102 (158)
T ss_pred HHHHHHHHHHHhhhhhhhHHH-HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 345667777777663332211 111 111122234445555555555444422 1333344444444455555
Q ss_pred HHHHHHHHHH
Q 027468 125 VQLQKLKNLL 134 (223)
Q Consensus 125 ~e~~~L~~~~ 134 (223)
.++.+|...+
T Consensus 103 ~e~r~L~~~~ 112 (158)
T PF09744_consen 103 EENRQLELKL 112 (158)
T ss_pred HHHHHHHHHh
Confidence 5555554444
No 176
>PF15058 Speriolin_N: Speriolin N terminus
Probab=35.74 E-value=48 Score=28.70 Aligned_cols=27 Identities=22% Similarity=0.336 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 105 EFETLASSYELMRREHQLLLVQLQKLK 131 (223)
Q Consensus 105 ~~~~L~~~~~~l~~e~~~L~~e~~~L~ 131 (223)
.|+-|+++.+.|..||..|+.+|.-++
T Consensus 6 ~yeGlrhqierLv~ENeeLKKlVrLir 32 (200)
T PF15058_consen 6 NYEGLRHQIERLVRENEELKKLVRLIR 32 (200)
T ss_pred chHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 344455555555555555555554443
No 177
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=35.56 E-value=1.1e+02 Score=18.97 Aligned_cols=40 Identities=18% Similarity=0.342 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNK 86 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNR 86 (223)
.+++.+..++...+. . ....++|..+|++...|..+...-
T Consensus 3 ~l~~~e~~i~~~~~~-g-----~s~~eia~~l~is~~tv~~~~~~~ 42 (58)
T smart00421 3 SLTPREREVLRLLAE-G-----LTNKEIAERLGISEKTVKTHLSNI 42 (58)
T ss_pred CCCHHHHHHHHHHHc-C-----CCHHHHHHHHCCCHHHHHHHHHHH
Confidence 467777777765432 2 134678999999999999887643
No 178
>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=35.44 E-value=1.3e+02 Score=21.34 Aligned_cols=29 Identities=21% Similarity=0.389 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
+..+...+..+...++.++..|+.|...|
T Consensus 29 ~~~~~~~~~~~~~~l~~en~~L~~ei~~l 57 (85)
T TIGR02209 29 LNNELQKLQLEIDKLQKEWRDLQLEVAEL 57 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444444433
No 179
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=35.34 E-value=1.6e+02 Score=28.58 Aligned_cols=16 Identities=19% Similarity=0.036 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 027468 118 REHQLLLVQLQKLKNL 133 (223)
Q Consensus 118 ~e~~~L~~e~~~L~~~ 133 (223)
.+..+|+.|+..|+++
T Consensus 55 ~~l~~Lq~e~~~l~e~ 70 (459)
T KOG0288|consen 55 LELNRLQEENTQLNEE 70 (459)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444444333
No 180
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=35.28 E-value=1.3e+02 Score=25.95 Aligned_cols=28 Identities=14% Similarity=0.026 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 112 SYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 112 ~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
++.+|..+...+..|++.|-..+..-++
T Consensus 82 ~~~~L~aq~rqlEkE~q~L~~~i~~Lqe 109 (193)
T PF14662_consen 82 ENRSLLAQARQLEKEQQSLVAEIETLQE 109 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444444443
No 181
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=35.24 E-value=1.7e+02 Score=24.29 Aligned_cols=10 Identities=30% Similarity=0.690 Sum_probs=4.9
Q ss_pred CCHHHHHHHH
Q 027468 42 FSDEQVKSLE 51 (223)
Q Consensus 42 ft~~Ql~~LE 51 (223)
|++.|-..+-
T Consensus 16 ft~~QAe~i~ 25 (177)
T PF07798_consen 16 FTEEQAEAIM 25 (177)
T ss_pred CCHHHHHHHH
Confidence 5555544443
No 182
>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=35.23 E-value=2.3e+02 Score=23.20 Aligned_cols=18 Identities=33% Similarity=0.355 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027468 115 LMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 115 ~l~~e~~~L~~e~~~L~~ 132 (223)
.+..|+..|..++++.+.
T Consensus 77 ~l~sEk~~L~k~lq~~q~ 94 (140)
T PF10473_consen 77 TLRSEKENLDKELQKKQE 94 (140)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 183
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=35.18 E-value=1.5e+02 Score=29.03 Aligned_cols=44 Identities=16% Similarity=0.086 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
+++.+.+......+.+..+.|+.|+..|+.++..+.........
T Consensus 89 rqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~~~~~~~~ 132 (475)
T PRK13729 89 RRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGANPVTATG 132 (475)
T ss_pred HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCC
Confidence 45555556777788888888999999999998776666554433
No 184
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=35.14 E-value=1.3e+02 Score=31.31 Aligned_cols=41 Identities=20% Similarity=0.374 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
+..+.++.+.++..++.+....+.|..+++.|+.|+.+|+.
T Consensus 218 kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~ 258 (916)
T KOG0249|consen 218 KNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRR 258 (916)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 33344444445555555555555555566666666666664
No 185
>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=35.09 E-value=1.9e+02 Score=21.52 Aligned_cols=36 Identities=17% Similarity=0.453 Sum_probs=26.7
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhh
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNK 86 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNR 86 (223)
.++.|+..++..|.... ....+|++..+|+-.+...
T Consensus 35 g~R~y~~~di~~l~~i~-------------~lr~~g~~l~~i~~~~~~~ 70 (103)
T cd01106 35 GYRLYTEEDLERLQQIL-------------FLKELGFSLKEIKELLKDP 70 (103)
T ss_pred CceeeCHHHHHHHHHHH-------------HHHHcCCCHHHHHHHHHcC
Confidence 45679999998886543 2456788888888888654
No 186
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=34.97 E-value=99 Score=24.28 Aligned_cols=45 Identities=13% Similarity=0.153 Sum_probs=28.5
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..++...|-. ...-.++|..+|+++..|..+...-|.+.|
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 444455555444322 223467899999999999998875444444
No 187
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=34.61 E-value=1.3e+02 Score=25.76 Aligned_cols=52 Identities=21% Similarity=0.279 Sum_probs=30.5
Q ss_pred hhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 80 AIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 80 kiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
.+|-+-|-.+.|..+.+.+.+ .|+...++|..+.+.+...+..|...+.+..
T Consensus 89 Ey~R~~~~e~~kee~~~~e~~-------elr~~~~~l~~~i~~~~~~~~~L~~~l~~~~ 140 (181)
T KOG3335|consen 89 EYWRQARKERKKEEKRKQEIM-------ELRLKVEKLENAIAELTKFFSQLHSKLNKPE 140 (181)
T ss_pred hhHHhhhcchhhHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence 455554444444333344444 4555566666677777777777776666653
No 188
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=34.17 E-value=1.5e+02 Score=27.96 Aligned_cols=41 Identities=17% Similarity=0.278 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNL 133 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~ 133 (223)
+..+.+...+..++..|..+...++++...++.|+.+|+.-
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 (398)
T PTZ00454 25 KELEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQSV 65 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 34556778888888888888889999999999999888643
No 189
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=34.09 E-value=1.3e+02 Score=24.74 Aligned_cols=47 Identities=23% Similarity=0.418 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 92 TKQIEREYTKLKAEFETLA-----SSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~-----~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
-++++.|...++.+...+- ++.-+++...+.+..|++++++.+....
T Consensus 42 ~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~~~~~~~~~ 93 (161)
T PF04420_consen 42 QRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKLNKSLSSEK 93 (161)
T ss_dssp HHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555544432 2345677778888888888877776543
No 190
>PHA03155 hypothetical protein; Provisional
Probab=33.97 E-value=69 Score=25.45 Aligned_cols=26 Identities=27% Similarity=0.218 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 113 YELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 113 ~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
.+.|.+|.++|+.||..|+.+|.+..
T Consensus 10 vEeLaaeL~kL~~ENK~LKkkl~~~~ 35 (115)
T PHA03155 10 VEELEKELQKLKIENKALKKKLLQHG 35 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 56788899999999999999997654
No 191
>PRK04217 hypothetical protein; Provisional
Probab=33.94 E-value=1.7e+02 Score=22.85 Aligned_cols=45 Identities=11% Similarity=0.097 Sum_probs=33.4
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
.-..++.++..++...|...- ...+||+.+|++...|...+..-+
T Consensus 39 p~~~Lt~eereai~l~~~eGl-----S~~EIAk~LGIS~sTV~r~L~RAr 83 (110)
T PRK04217 39 PPIFMTYEEFEALRLVDYEGL-----TQEEAGKRMGVSRGTVWRALTSAR 83 (110)
T ss_pred CcccCCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHH
Confidence 456788999888877764333 355799999999999988775433
No 192
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=33.76 E-value=31 Score=22.04 Aligned_cols=22 Identities=23% Similarity=0.465 Sum_probs=16.8
Q ss_pred HHHHHHHHhCCCcchhhhhhhh
Q 027468 64 MKHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 64 ~r~~LA~~LgL~~rQVkiWFQN 85 (223)
...++|..+|++...|..|.+.
T Consensus 19 s~~~ia~~lgvs~~Tv~~w~kr 40 (50)
T PF13384_consen 19 SIREIAKRLGVSRSTVYRWIKR 40 (50)
T ss_dssp -HHHHHHHHTS-HHHHHHHHT-
T ss_pred CHHHHHHHHCcCHHHHHHHHHH
Confidence 3557899999999999999753
No 193
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=33.43 E-value=66 Score=25.67 Aligned_cols=27 Identities=26% Similarity=0.203 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 113 YELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 113 ~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.+.|.++.++|+.||..|+.+|.+..+
T Consensus 5 ~EeLaaeL~kLqmENk~LKkkl~~~~~ 31 (118)
T PF05812_consen 5 MEELAAELQKLQMENKALKKKLRQSVG 31 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 467888899999999999999986544
No 194
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=33.33 E-value=1.4e+02 Score=31.08 Aligned_cols=44 Identities=20% Similarity=0.348 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHED 140 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~ 140 (223)
.+...|+..-..|.+.+..|.+.|.+|..++++|+..+.++...
T Consensus 841 AEAkaLRqHK~RLE~R~rILEdhNKQLESQLqRLr~LLrQP~s~ 884 (966)
T KOG4286|consen 841 AEAKALRQHKGRLEARMQILEDHNKQLESQLHRLRQLLRQPQAE 884 (966)
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCCc
Confidence 34456677777777888899999999999999999888766543
No 195
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=33.30 E-value=1e+02 Score=24.10 Aligned_cols=28 Identities=14% Similarity=0.126 Sum_probs=21.2
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSKT 92 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~Kr 92 (223)
-.++|..+|+++..|+.....-|.+.|.
T Consensus 125 ~~EIA~~lgis~~tV~~~l~Rar~~Lr~ 152 (160)
T PRK09642 125 YQEIALQEKIEVKTVEMKLYRARKWIKK 152 (160)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 3478999999999999988755555443
No 196
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=32.54 E-value=88 Score=29.26 Aligned_cols=39 Identities=13% Similarity=0.036 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHh
Q 027468 97 REYTKLKAEFETLASSYELMRREH---QLLLVQLQKLKNLLG 135 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~---~~L~~e~~~L~~~~~ 135 (223)
..|-.|+++|+.|+.++..|+.+. +.++.|+..|+..+.
T Consensus 57 ~~y~~L~~EN~~Lk~Ena~L~~~l~~~e~l~~En~~Lr~ll~ 98 (337)
T PRK14872 57 SHALVLETENFLLKERIALLEERLKSYEEANQTPPLFSEILS 98 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 445555566666665555554433 334455666665543
No 197
>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=32.48 E-value=35 Score=23.53 Aligned_cols=26 Identities=27% Similarity=0.446 Sum_probs=20.6
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSKT 92 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~Kr 92 (223)
..+||..||++.+.|..|-+ |-+|..
T Consensus 16 ~~eIA~~Lg~~~~TV~~W~~--r~~W~~ 41 (58)
T PF06056_consen 16 IKEIAEELGVPRSTVYSWKD--RYKWDE 41 (58)
T ss_pred HHHHHHHHCCChHHHHHHHH--hhCccc
Confidence 45789999999999999975 555554
No 198
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=32.07 E-value=78 Score=24.95 Aligned_cols=44 Identities=11% Similarity=0.062 Sum_probs=28.9
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
.+++.+..++...|-.+ ....++|..+|+++..|+.+...-+.+
T Consensus 128 ~L~~~~r~vl~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 128 SLPEELRTAITLREIEG-----LSYEEIAEIMGCPIGTVRSRIFRAREA 171 (182)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 36666666666654322 123468999999999999887643333
No 199
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=31.98 E-value=1.3e+02 Score=30.03 Aligned_cols=37 Identities=24% Similarity=0.350 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
+.+++..++.....|..++..|+.|+.+|...|.+..
T Consensus 153 leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r 189 (546)
T KOG0977|consen 153 LEAEINTLKRRIKALEDELKRLKAENSRLREELARAR 189 (546)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence 3344444444444555555556666555555555443
No 200
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=31.90 E-value=96 Score=22.56 Aligned_cols=53 Identities=23% Similarity=0.223 Sum_probs=37.7
Q ss_pred hhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 79 VAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLL 134 (223)
Q Consensus 79 VkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~ 134 (223)
++|.|-..|.. +......+.+-.++-.|+.+..+|+.|.+.++..+.++...+
T Consensus 21 LrI~fLee~l~---~~~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a~~~~ 73 (75)
T PF07989_consen 21 LRIYFLEERLQ---KLGPESIEELLKENIELKVEVESLKRELQEKKKLLKEAEKAI 73 (75)
T ss_pred HHHHHHHHHHH---hcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56778766665 233455556666677788888888888888888888776654
No 201
>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=31.90 E-value=2.6e+02 Score=22.23 Aligned_cols=12 Identities=25% Similarity=0.205 Sum_probs=4.4
Q ss_pred HHHHHHHHHHHh
Q 027468 124 LVQLQKLKNLLG 135 (223)
Q Consensus 124 ~~e~~~L~~~~~ 135 (223)
...+..+++++.
T Consensus 107 ~~~~k~~kee~~ 118 (151)
T PF11559_consen 107 EAKLKQEKEELQ 118 (151)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 202
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=31.61 E-value=2e+02 Score=25.66 Aligned_cols=49 Identities=24% Similarity=0.392 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHhcCCCC
Q 027468 92 TKQIEREYTKLKAEFETLASSYE-------LMRREHQLLLVQLQKLKNLLGKGHED 140 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~-------~l~~e~~~L~~e~~~L~~~~~~~~~~ 140 (223)
.+....++..++.+.+.+..... .++.+.-.+..+++.+++++.+....
T Consensus 26 ~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~k 81 (239)
T COG1579 26 IKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEK 81 (239)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555555555444 44444455555555555555554443
No 203
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=31.59 E-value=66 Score=25.85 Aligned_cols=27 Identities=7% Similarity=0.290 Sum_probs=20.9
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
..++|..+|+++..|+.....-|.+.|
T Consensus 148 ~~eIA~~lgis~~tV~~~l~Rar~~Lr 174 (179)
T PRK12514 148 YKELAERHDVPLNTMRTWLRRSLLKLR 174 (179)
T ss_pred HHHHHHHHCCChHHHHHHHHHHHHHHH
Confidence 457899999999999988775554444
No 204
>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=31.32 E-value=2.1e+02 Score=20.83 Aligned_cols=35 Identities=26% Similarity=0.520 Sum_probs=25.1
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQ 84 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQ 84 (223)
..+.|+..++..|... ..|...+|++...|+.-+.
T Consensus 35 g~R~y~~~dv~~l~~i------------~~L~~d~g~~l~~i~~~l~ 69 (91)
T cd04766 35 GTRRYSERDIERLRRI------------QRLTQELGVNLAGVKRILE 69 (91)
T ss_pred CCeeECHHHHHHHHHH------------HHHHHHcCCCHHHHHHHHH
Confidence 4567999999888543 3556668888888776553
No 205
>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=31.10 E-value=1.7e+02 Score=20.06 Aligned_cols=20 Identities=20% Similarity=0.104 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 027468 116 MRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 116 l~~e~~~L~~e~~~L~~~~~ 135 (223)
...+...|..||..|+.+|.
T Consensus 27 a~~rl~~l~~EN~~Lr~eL~ 46 (52)
T PF12808_consen 27 ARKRLSKLEGENRLLRAELE 46 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444443
No 206
>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=30.89 E-value=2.2e+02 Score=21.57 Aligned_cols=9 Identities=33% Similarity=0.420 Sum_probs=4.6
Q ss_pred HHHHHHHhC
Q 027468 65 KHRMADELG 73 (223)
Q Consensus 65 r~~LA~~Lg 73 (223)
...+|..|-
T Consensus 17 ve~vA~eLh 25 (87)
T PF12709_consen 17 VEKVARELH 25 (87)
T ss_pred HHHHHHHHH
Confidence 344566653
No 207
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=30.79 E-value=2.6e+02 Score=25.53 Aligned_cols=50 Identities=10% Similarity=0.191 Sum_probs=26.7
Q ss_pred hhhhHhhhhhHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Q 027468 83 FQNKRARSKTKQIEREYTKLKAEFETLASSY----ELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 83 FQNRRar~Krkq~~~e~~~lk~~~~~L~~~~----~~l~~e~~~L~~e~~~L~~ 132 (223)
-+||-...+.+++..+.+.+|..++.-..++ ..|..++..+.+...+|+.
T Consensus 59 trnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~k 112 (333)
T KOG1853|consen 59 TRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRK 112 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666666666655554443 2344444444444444433
No 208
>PRK11546 zraP zinc resistance protein; Provisional
Probab=30.52 E-value=1.2e+02 Score=25.01 Aligned_cols=17 Identities=12% Similarity=0.161 Sum_probs=12.1
Q ss_pred CCCCCHHHHHHHHHHHh
Q 027468 39 KRRFSDEQVKSLEFMFE 55 (223)
Q Consensus 39 R~rft~~Ql~~LE~~F~ 55 (223)
-..+|++|...++..++
T Consensus 41 ~~~LT~EQQa~~q~I~~ 57 (143)
T PRK11546 41 AAPLTTEQQAAWQKIHN 57 (143)
T ss_pred cccCCHHHHHHHHHHHH
Confidence 34588888888876653
No 209
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=30.49 E-value=37 Score=23.01 Aligned_cols=20 Identities=20% Similarity=0.431 Sum_probs=17.4
Q ss_pred HHHHHHhCCCcchhhhhhhh
Q 027468 66 HRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 66 ~~LA~~LgL~~rQVkiWFQN 85 (223)
.++|+.+|++++.|+.|=+.
T Consensus 4 ~eva~~~gvs~~tlr~y~~~ 23 (69)
T PF13411_consen 4 KEVAKLLGVSPSTLRYYERE 23 (69)
T ss_dssp HHHHHHTTTTHHHHHHHHHT
T ss_pred HHHHHHHCcCHHHHHHHHHh
Confidence 47899999999999999653
No 210
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=30.49 E-value=95 Score=25.48 Aligned_cols=45 Identities=16% Similarity=0.228 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..+|...|-.+ ..-.++|..||++...|+.+...-|.+.|
T Consensus 143 L~~~~r~vl~l~~~~~-----~s~~EIA~~Lgis~~tVk~~l~ra~~~Lr 187 (194)
T PRK09646 143 LTDTQRESVTLAYYGG-----LTYREVAERLAVPLGTVKTRMRDGLIRLR 187 (194)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCChHhHHHHHHHHHHHHH
Confidence 5566666665544222 23457899999999999888764444433
No 211
>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=30.46 E-value=98 Score=21.69 Aligned_cols=44 Identities=20% Similarity=0.429 Sum_probs=22.9
Q ss_pred CCCCCHH-HHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 027468 39 KRRFSDE-QVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQ 84 (223)
Q Consensus 39 R~rft~~-Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQ 84 (223)
|+.|+.. -+.+++.++..+..- ...| .-|.++|++.++|+-|-+
T Consensus 3 rrsy~~~FKL~Vv~~a~~~~nc~-~~~R-Aaarkf~V~r~~Vr~W~k 47 (58)
T PF09607_consen 3 RRSYTAEFKLKVVEYAEKDNNCK-GNQR-AAARKFNVSRRQVRKWRK 47 (58)
T ss_dssp -----HHHHHHHHHHHHH-TTTT-T-HH-HHHHHTTS-HHHHHHHHT
T ss_pred ccccChHHHHHHHHHHHHccchh-hhHH-HHHHHhCccHHHHHHHHH
Confidence 3445553 355666555443311 1223 349999999999999964
No 212
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=30.38 E-value=1.5e+02 Score=30.86 Aligned_cols=60 Identities=18% Similarity=0.234 Sum_probs=51.3
Q ss_pred chhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027468 77 RQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGH 138 (223)
Q Consensus 77 rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~ 138 (223)
++|--|.| -+..++.+..++.++|-++.+.++..++.+..++++|...+.+|+.++...+
T Consensus 198 dtvdErlq--lhlkermaAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~ 257 (916)
T KOG0249|consen 198 DTVDERLQ--LHLKERMAALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLR 257 (916)
T ss_pred cccHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 45666766 4666788888999999999999999999999999999999999998888654
No 213
>PF13551 HTH_29: Winged helix-turn helix
Probab=30.34 E-value=1.8e+02 Score=21.09 Aligned_cols=47 Identities=17% Similarity=0.292 Sum_probs=30.2
Q ss_pred CCCCCCHHHHHHHHHHHhhCCC-----CCHHHHHH-H-HHHhC--CCcchhhhhhh
Q 027468 38 NKRRFSDEQVKSLEFMFESEAR-----PESRMKHR-M-ADELG--LQPRQVAIWFQ 84 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~-----p~~~~r~~-L-A~~Lg--L~~rQVkiWFQ 84 (223)
.+.++++++...|...+...+. .+...... | ....| +++..|..|+.
T Consensus 54 ~~~~l~~~~~~~l~~~~~~~p~~g~~~~t~~~l~~~l~~~~~~~~~s~~ti~r~L~ 109 (112)
T PF13551_consen 54 PRKRLSEEQRAQLIELLRENPPEGRSRWTLEELAEWLIEEEFGIDVSPSTIRRILK 109 (112)
T ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCCcccHHHHHHHHHHhccCccCCHHHHHHHHH
Confidence 3334999999999999988763 33444333 3 33334 56677777764
No 214
>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif. It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.
Probab=30.23 E-value=4.1e+02 Score=26.42 Aligned_cols=41 Identities=17% Similarity=0.191 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
..+|+.|....+....+.+.+..+...+...+.+|+++|..
T Consensus 440 ~~Ec~aL~~rL~~aE~ek~~l~eeL~~a~~~i~~LqDEL~T 480 (518)
T PF10212_consen 440 YAECRALQKRLESAEKEKESLEEELKEANQNISRLQDELET 480 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555544455555555566666666666666653
No 215
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=29.90 E-value=1.5e+02 Score=27.83 Aligned_cols=32 Identities=22% Similarity=0.171 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Q 027468 93 KQIEREYTKLKAEFETLASSY---ELMRREHQLLL 124 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~---~~l~~e~~~L~ 124 (223)
..+.++++.|+.++..|..+. +.++.|+..|+
T Consensus 60 ~~L~~EN~~Lk~Ena~L~~~l~~~e~l~~En~~Lr 94 (337)
T PRK14872 60 LVLETENFLLKERIALLEERLKSYEEANQTPPLFS 94 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777777777775544 33445555444
No 216
>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=29.84 E-value=2.3e+02 Score=22.91 Aligned_cols=37 Identities=24% Similarity=0.220 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 96 EREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
+.-.+.|+.+.+.=.++...|+++.+.+...+..|..
T Consensus 93 E~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~Lek 129 (131)
T PF04859_consen 93 EIVVKKLEAELRAKDSEIDRLREKLDELNRANKSLEK 129 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3334444444444445555555555555555555543
No 217
>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=29.20 E-value=2.2e+02 Score=25.36 Aligned_cols=48 Identities=17% Similarity=0.185 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 92 TKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 92 rkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
|..-+..+..|-.+...+......|+.|...|+..|.+|=+++-=.+.
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 344556677777788888888889999999999999999776654433
No 218
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=29.08 E-value=1.5e+02 Score=18.38 Aligned_cols=23 Identities=35% Similarity=0.495 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 027468 109 LASSYELMRREHQLLLVQLQKLK 131 (223)
Q Consensus 109 L~~~~~~l~~e~~~L~~e~~~L~ 131 (223)
|.++.+.|+...+.|+..+++|+
T Consensus 6 L~sekeqLrrr~eqLK~kLeqlr 28 (32)
T PF02344_consen 6 LISEKEQLRRRREQLKHKLEQLR 28 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444445555554443
No 219
>PRK10072 putative transcriptional regulator; Provisional
Probab=28.95 E-value=35 Score=26.00 Aligned_cols=42 Identities=17% Similarity=0.093 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
+.+...+..|...-. .+ ..+||..+|++...|..|.+.+|.-
T Consensus 32 ~~~~~eik~LR~~~g----lT---Q~elA~~lGvS~~TVs~WE~G~r~P 73 (96)
T PRK10072 32 TTSFTEFEQLRKGTG----LK---IDDFARVLGVSVAMVKEWESRRVKP 73 (96)
T ss_pred cCChHHHHHHHHHcC----CC---HHHHHHHhCCCHHHHHHHHcCCCCC
Confidence 446666766654322 22 5678999999999999999887643
No 220
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=28.95 E-value=1.9e+02 Score=30.95 Aligned_cols=49 Identities=24% Similarity=0.411 Sum_probs=0.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHhc
Q 027468 88 ARSKTKQIEREYTKLKAEFETLASSYELMRRE---------------HQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 88 ar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e---------------~~~L~~e~~~L~~~~~~ 136 (223)
+-.|-..++.+.++++..+|.|..+.+-|+.| ..+|..+|.+|++-|.+
T Consensus 323 AEERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVr 386 (1243)
T KOG0971|consen 323 AEERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVR 386 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHH
No 221
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=28.85 E-value=2.5e+02 Score=25.72 Aligned_cols=25 Identities=20% Similarity=0.149 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 115 LMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 115 ~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.+.++.++|..+...+.+++.+.+.
T Consensus 110 ~~~~e~~sl~~q~~~~~~~L~~L~k 134 (314)
T PF04111_consen 110 EFQEERDSLKNQYEYASNQLDRLRK 134 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455677777777777777776643
No 222
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=28.63 E-value=2.9e+02 Score=24.61 Aligned_cols=60 Identities=8% Similarity=0.205 Sum_probs=33.0
Q ss_pred cchhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 76 PRQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 76 ~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
|.+|+-||.+-=.-. .+.+...+.++.+...+..+...|.+..+.|..-+.+++......
T Consensus 10 PqRIQEw~~~p~~A~--E~~r~~Le~Ir~kq~~v~~~l~eLe~~~~el~~~i~~~k~~~~~~ 69 (236)
T PF12269_consen 10 PQRIQEWQLSPCVAE--EQNRKLLEEIRKKQQKVRNRLQELEKRFKELEAIIARAKQFTVDQ 69 (236)
T ss_pred hHHHHHhcCCCchhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCc
Confidence 778888886522211 122333444555555555556666666666666666665555443
No 223
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. 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, an
Probab=28.40 E-value=2.7e+02 Score=21.32 Aligned_cols=71 Identities=10% Similarity=0.182 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMR 117 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~ 117 (223)
..+.|+..++..|.. ....+.+|++-..|+..+.+.... ....+.|......+.
T Consensus 34 gyR~Y~~~~l~~l~~-------------I~~lr~~G~~L~eI~~~l~~~~~~-------------~~~~~~l~~~~~~l~ 87 (120)
T cd04781 34 LRRQYDPQVLDRLAL-------------IALGRAAGFSLDEIQAMLSHDGKP-------------PIDRQLLKAKAAELD 87 (120)
T ss_pred CceecCHHHHHHHHH-------------HHHHHHcCCCHHHHHHHHhccCCc-------------HHHHHHHHHHHHHHH
Confidence 567899999988853 356888899999999988764210 011122333444455
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027468 118 REHQLLLVQLQKLKNLL 134 (223)
Q Consensus 118 ~e~~~L~~e~~~L~~~~ 134 (223)
++...|..-...|...+
T Consensus 88 ~~i~~l~~~~~~L~~~~ 104 (120)
T cd04781 88 QQIQRLQAMRELLRHVA 104 (120)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55555555555555544
No 224
>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=28.30 E-value=1.8e+02 Score=21.45 Aligned_cols=26 Identities=27% Similarity=0.321 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLL 124 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~ 124 (223)
...++.+.+.|..++..|+-|...|.
T Consensus 44 l~~l~~~~~~l~~e~~~L~lE~~~l~ 69 (97)
T PF04999_consen 44 LQQLEKEIDQLQEENERLRLEIATLS 69 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44444444444444444444444443
No 225
>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=27.98 E-value=3.1e+02 Score=21.75 Aligned_cols=14 Identities=21% Similarity=0.532 Sum_probs=7.5
Q ss_pred CCCHHHHHHHHHHh
Q 027468 59 RPESRMKHRMADEL 72 (223)
Q Consensus 59 ~p~~~~r~~LA~~L 72 (223)
.|+......|...+
T Consensus 12 ~~~~~~ve~L~s~l 25 (120)
T PF12325_consen 12 GPSVQLVERLQSQL 25 (120)
T ss_pred CchHHHHHHHHHHH
Confidence 45555555555555
No 226
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.75 E-value=2.8e+02 Score=21.16 Aligned_cols=39 Identities=26% Similarity=0.508 Sum_probs=28.5
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
..+.|+..++..|... ...+.+|++...|+..+......
T Consensus 34 ~yR~Y~~~d~~~l~~I-------------~~lr~~G~sl~eI~~~l~~~~~~ 72 (116)
T cd04769 34 NYRVYDAQHVECLRFI-------------KEARQLGFTLAELKAIFAGHEGR 72 (116)
T ss_pred CceeeCHHHHHHHHHH-------------HHHHHcCCCHHHHHHHHhccccC
Confidence 4567999988887532 34678899999999888765543
No 227
>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=27.59 E-value=2.8e+02 Score=27.75 Aligned_cols=29 Identities=31% Similarity=0.350 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 98 EYTKLKAEFETLASSYELMRREHQLLLVQ 126 (223)
Q Consensus 98 e~~~lk~~~~~L~~~~~~l~~e~~~L~~e 126 (223)
++..|+..+..+....+.+..|+..|..+
T Consensus 186 e~e~L~~~~kel~~~~e~l~~E~~~L~~q 214 (546)
T PF07888_consen 186 EMEQLKQQQKELTESSEELKEERESLKEQ 214 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444443433333344443333333
No 228
>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=27.25 E-value=53 Score=20.00 Aligned_cols=24 Identities=21% Similarity=0.537 Sum_probs=19.9
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRA 88 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRa 88 (223)
..++|..+|+++..|..|.++...
T Consensus 3 ~~e~a~~lgvs~~tl~~~~~~g~~ 26 (49)
T cd04762 3 TKEAAELLGVSPSTLRRWVKEGKL 26 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHcCCC
Confidence 357899999999999999876554
No 229
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=27.15 E-value=1.4e+02 Score=24.00 Aligned_cols=45 Identities=11% Similarity=0.056 Sum_probs=29.9
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..++...|-.+ ..-.+||..||++...|+..+..-|.+.|
T Consensus 132 L~~~~r~v~~l~~~~g-----~s~~eIA~~l~is~~tV~~~l~ra~~~Lr 176 (184)
T PRK12512 132 LPPRQRDVVQSISVEG-----ASIKETAAKLSMSEGAVRVALHRGLAALA 176 (184)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 5555555555554322 23457899999999999998875555544
No 230
>PHA03162 hypothetical protein; Provisional
Probab=26.96 E-value=1e+02 Score=25.18 Aligned_cols=27 Identities=22% Similarity=0.272 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 113 YELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 113 ~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.+.|.+|.++|+.||..|+.+|.+..+
T Consensus 15 mEeLaaeL~kLqmENK~LKkkl~~~~~ 41 (135)
T PHA03162 15 MEDLAAEIAKLQLENKALKKKIKEGTD 41 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 467788888999999999999875443
No 231
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=26.93 E-value=1.5e+02 Score=23.07 Aligned_cols=42 Identities=17% Similarity=0.236 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRA 88 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRa 88 (223)
+++.+..++...|- ......++|..+|++...|+.+...-|.
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 2223557899999999999987654333
No 232
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.79 E-value=2.5e+02 Score=25.47 Aligned_cols=43 Identities=21% Similarity=0.365 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
+..+.+.+.|....+.+..+...+++++..++.++.+|+.++.
T Consensus 48 ~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~ 90 (265)
T COG3883 48 KNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIA 90 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555544444445554444444444444443
No 233
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=26.70 E-value=2.3e+02 Score=27.43 Aligned_cols=23 Identities=26% Similarity=0.283 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 027468 91 KTKQIEREYTKLKAEFETLASSY 113 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~ 113 (223)
+-...+.+...|+.++..|..+.
T Consensus 49 ~~~~~E~~l~~Lq~e~~~l~e~~ 71 (459)
T KOG0288|consen 49 KLQEKELELNRLQEENTQLNEER 71 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445666677777776666443
No 234
>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=26.58 E-value=1.7e+02 Score=22.42 Aligned_cols=44 Identities=14% Similarity=0.172 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARS 90 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~ 90 (223)
+++.+..++...|-. . ....++|..+|+++..|+.....-|.+.
T Consensus 114 L~~~~r~il~l~~~~-~----~~~~eIA~~lgis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 114 LPEQCRKIFILSRFE-G----KSYKEIAEELGISVKTVEYHISKALKEL 157 (161)
T ss_pred CCHHHHHHHHHHHHc-C----CCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 455555555553321 1 2245689999999999998776444443
No 235
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=26.52 E-value=74 Score=21.51 Aligned_cols=35 Identities=20% Similarity=0.316 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhh
Q 027468 45 EQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWF 83 (223)
Q Consensus 45 ~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWF 83 (223)
.|+..|+-.+. +...+.. +||..+|++.+.|+.-.
T Consensus 6 rq~~Ll~~L~~-~~~~~~~---ela~~l~~S~rti~~~i 40 (59)
T PF08280_consen 6 RQLKLLELLLK-NKWITLK---ELAKKLNISERTIKNDI 40 (59)
T ss_dssp HHHHHHHHHHH-HTSBBHH---HHHHHCTS-HHHHHHHH
T ss_pred HHHHHHHHHHc-CCCCcHH---HHHHHHCCCHHHHHHHH
Confidence 57788888888 6555544 79999999998876543
No 236
>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=26.51 E-value=54 Score=22.33 Aligned_cols=21 Identities=10% Similarity=0.407 Sum_probs=18.1
Q ss_pred HHHHHHHhCCCcchhhhhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQN 85 (223)
..++|+.+|++++.++.|-+.
T Consensus 3 i~evA~~~gvs~~tlR~~~~~ 23 (67)
T cd04764 3 IKEVSEIIGVKPHTLRYYEKE 23 (67)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 347899999999999999865
No 237
>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=26.35 E-value=3.5e+02 Score=21.85 Aligned_cols=37 Identities=24% Similarity=0.290 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
+..+...+..+-.+..+|...++.|..++.++...|.
T Consensus 23 ~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~ 59 (143)
T PF12718_consen 23 VKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLK 59 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333344444444444444444444443
No 238
>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=25.79 E-value=54 Score=22.44 Aligned_cols=21 Identities=19% Similarity=0.374 Sum_probs=18.1
Q ss_pred HHHHHHHhCCCcchhhhhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQN 85 (223)
..++|+.+|++++.++.|.+.
T Consensus 3 i~e~A~~~gVs~~tlr~ye~~ 23 (68)
T cd04763 3 IGEVALLTGIKPHVLRAWERE 23 (68)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 357899999999999999864
No 239
>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=25.71 E-value=3.3e+02 Score=22.30 Aligned_cols=8 Identities=38% Similarity=0.505 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 027468 98 EYTKLKAE 105 (223)
Q Consensus 98 e~~~lk~~ 105 (223)
++..++.+
T Consensus 28 e~~~~k~q 35 (155)
T PF06810_consen 28 ERDNLKTQ 35 (155)
T ss_pred HHHHHHHH
Confidence 33333333
No 240
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=25.65 E-value=1.5e+02 Score=24.62 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=19.8
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
..++|..+|++...|+.+...-|.+.+
T Consensus 172 ~~EIA~~lgis~~tV~~~l~Ra~~~Lr 198 (206)
T PRK12526 172 QEQLAQQLNVPLGTVKSRLRLALAKLK 198 (206)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 457899999999999887754444433
No 241
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=25.64 E-value=2.3e+02 Score=25.09 Aligned_cols=42 Identities=5% Similarity=0.177 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.+....+.|+.+...|+-+.+.+..+.+.++.....|-..|.
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld 99 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQID 99 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555566666666665555555555555555444443433
No 242
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=25.54 E-value=1.8e+02 Score=29.10 Aligned_cols=44 Identities=20% Similarity=0.341 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 94 QIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 94 q~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
..+.++..++..+..|..+...|+.|+.+|..++.+++.++...
T Consensus 152 ~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~E 195 (546)
T KOG0977|consen 152 ELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDDE 195 (546)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence 45567777888888888777778888777777777777655543
No 243
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=25.52 E-value=2.8e+02 Score=20.88 Aligned_cols=10 Identities=30% Similarity=0.956 Sum_probs=5.0
Q ss_pred hhhhhhhHhh
Q 027468 80 AIWFQNKRAR 89 (223)
Q Consensus 80 kiWFQNRRar 89 (223)
..|||-++++
T Consensus 20 y~~~k~~ka~ 29 (87)
T PF10883_consen 20 YLWWKVKKAK 29 (87)
T ss_pred HHHHHHHHHH
Confidence 4566544444
No 244
>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=25.52 E-value=29 Score=25.35 Aligned_cols=24 Identities=21% Similarity=0.362 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhCCCcchhhhhhhh
Q 027468 62 SRMKHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 62 ~~~r~~LA~~LgL~~rQVkiWFQN 85 (223)
.-...+||..+|+++..|+.|+.+
T Consensus 32 GlS~kEIAe~LGIS~~TVk~~l~~ 55 (73)
T TIGR03879 32 GKTASEIAEELGRTEQTVRNHLKG 55 (73)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHhc
Confidence 334668999999999999999864
No 245
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=25.51 E-value=1.5e+02 Score=23.72 Aligned_cols=45 Identities=11% Similarity=0.124 Sum_probs=28.3
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..++...|- ....-.++|..+|+++..|+..+..-|.+.+
T Consensus 137 L~~~~r~v~~l~~~-----~g~s~~eIA~~lgis~~~v~~~l~Rar~~Lr 181 (187)
T TIGR02948 137 LPPKYRMVIVLKYM-----EDLSLKEISEILDLPVGTVKTRIHRGREALR 181 (187)
T ss_pred CCHHHhHHhhhHHh-----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 55555555544332 2233457899999999999998865444433
No 246
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=25.50 E-value=1.8e+02 Score=22.76 Aligned_cols=44 Identities=16% Similarity=0.288 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..+|...| ... .-.++|..+|+++..|+.....-|.+.|
T Consensus 113 L~~~~r~il~l~~-~g~-----s~~eIA~~lgis~~tV~~~i~ra~~~Lr 156 (166)
T PRK09639 113 MTERDRTVLLLRF-SGY-----SYKEIAEALGIKESSVGTTLARAKKKFR 156 (166)
T ss_pred CCHHHHHHHHHHH-cCC-----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5555555665555 221 2346899999999999988754444333
No 247
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=25.47 E-value=3.1e+02 Score=20.90 Aligned_cols=16 Identities=19% Similarity=0.162 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 027468 111 SSYELMRREHQLLLVQ 126 (223)
Q Consensus 111 ~~~~~l~~e~~~L~~e 126 (223)
.+...|+.+...+...
T Consensus 88 ~~l~~l~~~~~k~e~~ 103 (126)
T PF13863_consen 88 AELEELKSEISKLEEK 103 (126)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 248
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=25.25 E-value=3.1e+02 Score=23.69 Aligned_cols=21 Identities=10% Similarity=-0.134 Sum_probs=11.6
Q ss_pred ccccccccccccccCCCCCcC
Q 027468 190 NVEEQTESSGNWCKFESGFLD 210 (223)
Q Consensus 190 ~~~~~~~~~~~~~~~~~~~~~ 210 (223)
..+..|.-+--+.++-|.+.|
T Consensus 214 yL~v~Lpy~i~~~gs~s~i~d 234 (302)
T PF10186_consen 214 YLGVPLPYPITPSGSRSTIID 234 (302)
T ss_pred HhCCCCCCCcccCccccchhh
Confidence 455566656666555554444
No 249
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=25.16 E-value=2e+02 Score=29.22 Aligned_cols=34 Identities=24% Similarity=0.376 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
.+.|+.++..|...++.|+.+...|..++.+++.
T Consensus 431 ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r 464 (652)
T COG2433 431 VERLEEENSELKRELEELKREIEKLESELERFRR 464 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555554444444444433
No 250
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=25.10 E-value=2e+02 Score=21.47 Aligned_cols=14 Identities=29% Similarity=0.351 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHHH
Q 027468 116 MRREHQLLLVQLQK 129 (223)
Q Consensus 116 l~~e~~~L~~e~~~ 129 (223)
++.+...+..++..
T Consensus 79 lk~~i~~le~~~~~ 92 (108)
T PF02403_consen 79 LKEEIKELEEQLKE 92 (108)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 251
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=25.07 E-value=1.8e+02 Score=26.92 Aligned_cols=9 Identities=44% Similarity=0.464 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 027468 99 YTKLKAEFE 107 (223)
Q Consensus 99 ~~~lk~~~~ 107 (223)
+..|+.+.+
T Consensus 36 n~~Lk~El~ 44 (310)
T PF09755_consen 36 NRVLKRELE 44 (310)
T ss_pred hHHHHHHHH
Confidence 333333333
No 252
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=24.87 E-value=2e+02 Score=21.72 Aligned_cols=20 Identities=30% Similarity=0.305 Sum_probs=9.2
Q ss_pred hhhhhHHHHHHHHHHHHHHH
Q 027468 88 ARSKTKQIEREYTKLKAEFE 107 (223)
Q Consensus 88 ar~Krkq~~~e~~~lk~~~~ 107 (223)
..||.++.+++++.|.++++
T Consensus 21 ~~~k~~ka~~~~~kL~~en~ 40 (87)
T PF10883_consen 21 LWWKVKKAKKQNAKLQKENE 40 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34555555555444443333
No 253
>PRK00118 putative DNA-binding protein; Validated
Probab=24.73 E-value=3.3e+02 Score=21.01 Aligned_cols=46 Identities=11% Similarity=0.157 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
.+++.|..++...|..+. ...++|..+|+++..|..+...-|.+.+
T Consensus 17 ~L~ekqRevl~L~y~eg~-----S~~EIAe~lGIS~~TV~r~L~RArkkLr 62 (104)
T PRK00118 17 LLTEKQRNYMELYYLDDY-----SLGEIAEEFNVSRQAVYDNIKRTEKLLE 62 (104)
T ss_pred cCCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 356667777766654432 2446899999999999999875444443
No 254
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.61 E-value=94 Score=23.77 Aligned_cols=39 Identities=10% Similarity=0.083 Sum_probs=29.6
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVA 80 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVk 80 (223)
++++|...-..-|+.+--+++-..+++|.+|++++-.|.
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 567787777777777766777778899999998885443
No 255
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=24.58 E-value=3.1e+02 Score=24.17 Aligned_cols=25 Identities=20% Similarity=0.324 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQ 126 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e 126 (223)
.+.++.+|++++++|+.|.++++..
T Consensus 114 e~sEF~~lr~e~EklkndlEk~ks~ 138 (220)
T KOG3156|consen 114 ERSEFANLRAENEKLKNDLEKLKSS 138 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666666666666555543
No 256
>PHA02955 hypothetical protein; Provisional
Probab=24.39 E-value=86 Score=27.52 Aligned_cols=42 Identities=7% Similarity=0.083 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhhC-CCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 027468 44 DEQVKSLEFMFESE-ARPESRMKHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 44 ~~Ql~~LE~~F~~~-~~p~~~~r~~LA~~LgL~~rQVkiWFQN 85 (223)
..++..|-+.|.+. ..+++++|..+|++||+....|..||.+
T Consensus 60 ~~sf~lli~a~~Et~~~Lp~~qk~~ia~~lgI~~~~~~~d~~t 102 (213)
T PHA02955 60 EKNFQLLIEALIETIENFPEKEQKEIAADIGINIDDYKAGKKT 102 (213)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCChhhccCcccc
Confidence 45666666666655 6788899999999999999777888865
No 257
>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=24.32 E-value=57 Score=20.43 Aligned_cols=18 Identities=28% Similarity=0.488 Sum_probs=14.6
Q ss_pred HHHHHHhCCCcchhhhhh
Q 027468 66 HRMADELGLQPRQVAIWF 83 (223)
Q Consensus 66 ~~LA~~LgL~~rQVkiWF 83 (223)
-++|+.+|++++.|+.|=
T Consensus 3 ~e~A~~~gvs~~tlR~ye 20 (38)
T PF00376_consen 3 GEVAKLLGVSPRTLRYYE 20 (38)
T ss_dssp HHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHH
Confidence 468999999999999884
No 258
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=24.25 E-value=4.2e+02 Score=22.58 Aligned_cols=20 Identities=15% Similarity=0.204 Sum_probs=8.8
Q ss_pred hCCCCCHHHHHHHHHHhCCC
Q 027468 56 SEARPESRMKHRMADELGLQ 75 (223)
Q Consensus 56 ~~~~p~~~~r~~LA~~LgL~ 75 (223)
.+.+=-..-+.+|-+-|.+.
T Consensus 83 ~~GFnV~~l~~RL~kLL~lk 102 (190)
T PF05266_consen 83 EHGFNVKFLRSRLNKLLSLK 102 (190)
T ss_pred HcCCccHHHHHHHHHHHHHH
Confidence 34444444444455444433
No 259
>cd07429 Cby_like Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins. Chibby(Cby) is a well-conserved nuclear protein that functions as part of the Wnt/beta-catenin signaling pathway. Specifically, Cby binds directly to beta-catenin by interacting with its central region, which harbors armadillo repeats. Cby-beta-catenin interactions may also involve 14-3-3 proteins. By competing with other binding partners of beta-catenin, the Tcf/Lef transcription factors, Cby inhibits transcriptional activation. Cby has been shown to play a role in adipocyte differentiation. The C-terminal region of Cby appears to contain an alpha-helical coiled-coil motif.
Probab=24.23 E-value=1.3e+02 Score=23.70 Aligned_cols=25 Identities=16% Similarity=0.086 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 111 SSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 111 ~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.+...|++.++.|+.||.-|+-++.
T Consensus 72 ~e~~rlkkk~~~LeEENNlLklKie 96 (108)
T cd07429 72 REVLRLKKKNQQLEEENNLLKLKIE 96 (108)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
No 260
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=24.22 E-value=3.5e+02 Score=27.58 Aligned_cols=55 Identities=25% Similarity=0.298 Sum_probs=42.0
Q ss_pred hhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 85 NKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 85 NRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
+.+.+.-.++++.....|....+.|..+|..|.....+|+.+...|...+...++
T Consensus 606 ~~~i~~l~~~i~~~e~rl~~~e~rl~~QFtaME~~msqmnsqss~L~~~~~~~~~ 660 (661)
T PRK06664 606 DERIADNNKKIEEYEKKLESKERKLKGKYLTMDQTVKKMKEQSNYLKNFNKSGRN 660 (661)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 3444444455556666677777888899999999999999999999998876654
No 261
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=24.09 E-value=4.4e+02 Score=22.45 Aligned_cols=36 Identities=31% Similarity=0.517 Sum_probs=21.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 89 RSKTKQIEREYTKLKAEFETLASSYELMRREHQLLL 124 (223)
Q Consensus 89 r~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~ 124 (223)
+.+.+..+++...|+.+++.|...+..+..|.+.|.
T Consensus 92 k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~ 127 (201)
T PF13851_consen 92 KARLKELEKELKDLKWEHEVLEQRFEKLEQERDELY 127 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445566667777777777666666666544444
No 262
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=23.97 E-value=2e+02 Score=24.95 Aligned_cols=43 Identities=21% Similarity=0.250 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhcCCC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLV---QLQKLKNLLGKGHE 139 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~---e~~~L~~~~~~~~~ 139 (223)
.+++.|....+.+..+...|++|+..|+. +++.|-+.|.+..+
T Consensus 125 ~ENe~Lh~~ie~~~eEi~~lk~en~~L~elae~~~~la~~ie~l~~ 170 (200)
T PF07412_consen 125 EENEKLHKEIEQKDEEIAKLKEENEELKELAEHVQYLAEVIERLTG 170 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCC-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444555555555555555555444333 33444555555443
No 263
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=23.77 E-value=2.4e+02 Score=27.10 Aligned_cols=47 Identities=19% Similarity=0.230 Sum_probs=25.7
Q ss_pred hhHhhhhhHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q 027468 85 NKRARSKTKQIEREYTKLKAEFETLASSY--ELMRREHQLLLVQLQKLK 131 (223)
Q Consensus 85 NRRar~Krkq~~~e~~~lk~~~~~L~~~~--~~l~~e~~~L~~e~~~L~ 131 (223)
+.+.+.|...+++...-|..+.+.+..+. ..++.+...++.++.+|+
T Consensus 53 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (438)
T PTZ00361 53 NTKCRLRLLKLERIKDYLLLEEEFITNQEAQKPAQEKNEAELKKVDDLR 101 (438)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhh
Confidence 34455555555566666655555555444 245555555555555554
No 264
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=23.76 E-value=1.9e+02 Score=26.08 Aligned_cols=28 Identities=14% Similarity=0.222 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 109 LASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 109 L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
+..+...|+++.+.|+.++.-|+.++.+
T Consensus 219 ~~ae~seLq~r~~~l~~~L~~L~~e~~r 246 (289)
T COG4985 219 YVAEKSELQKRLAQLQTELDALRAELER 246 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 3344455555555666666666555554
No 265
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=23.56 E-value=4.4e+02 Score=22.03 Aligned_cols=27 Identities=15% Similarity=0.251 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 104 AEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 104 ~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
-++..|.-++..+.+....|+.|+..|
T Consensus 151 DE~~~L~l~~~~~e~k~~~l~~En~~L 177 (194)
T PF08614_consen 151 DELQALQLQLNMLEEKLRKLEEENREL 177 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333444444455555555444
No 266
>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=23.45 E-value=2.2e+02 Score=19.46 Aligned_cols=26 Identities=19% Similarity=0.374 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 107 ETLASSYELMRREHQLLLVQLQKLKN 132 (223)
Q Consensus 107 ~~L~~~~~~l~~e~~~L~~e~~~L~~ 132 (223)
.........|..||..|+.++..++.
T Consensus 25 ~~a~~rl~~l~~EN~~Lr~eL~~~r~ 50 (52)
T PF12808_consen 25 SAARKRLSKLEGENRLLRAELERLRS 50 (52)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455667788888888888887753
No 267
>COG4238 Murein lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=23.40 E-value=3.1e+02 Score=20.27 Aligned_cols=48 Identities=19% Similarity=0.264 Sum_probs=41.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 89 RSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 89 r~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
+-|.-++-.+-.+|....+.|..+.+.+..+.+--+.+..+.++++..
T Consensus 24 ~aK~dqlss~vq~LnAkv~qLe~dv~a~~~~~qAAk~eaarAn~rldn 71 (78)
T COG4238 24 NAKIDQLSSDVQTLNAKVDQLENDVNAMRSDVQAAKDEAARANQRLDN 71 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence 446677888899999999999999999999999999999998888753
No 268
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=23.37 E-value=1.3e+02 Score=24.36 Aligned_cols=26 Identities=8% Similarity=0.051 Sum_probs=19.0
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARS 90 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~ 90 (223)
-.++|..+|++...|+.....-|.+.
T Consensus 147 ~~EIA~~lgis~~tV~~~l~Rar~~L 172 (186)
T PRK05602 147 NIEAAAVMDISVDALESLLARGRRAL 172 (186)
T ss_pred HHHHHHHhCcCHHHHHHHHHHHHHHH
Confidence 45689999999999998775444333
No 269
>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=23.36 E-value=1.3e+02 Score=19.18 Aligned_cols=39 Identities=15% Similarity=0.348 Sum_probs=25.8
Q ss_pred CCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhh
Q 027468 40 RRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWF 83 (223)
Q Consensus 40 ~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWF 83 (223)
..++.++...+...+... ....++|+.+|++...|..++
T Consensus 4 ~~~~~~~~~~i~~l~~~G-----~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 4 PKLSKEQIEEIKELYAEG-----MSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp SSSSHCCHHHHHHHHHTT-------HHHHHHHTTS-HHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHCC-----CCHHHHHHHHCcCHHHHHHHH
Confidence 346666666666666655 235678999999998887665
No 270
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=23.24 E-value=1.5e+02 Score=24.04 Aligned_cols=42 Identities=17% Similarity=0.156 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRA 88 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRa 88 (223)
+++.+..++...|-.+ ....++|..+|++...|+.....-|.
T Consensus 140 L~~~~r~i~~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Ra~~ 181 (189)
T PRK09648 140 LPEKQREILILRVVVG-----LSAEETAEAVGSTPGAVRVAQHRALA 181 (189)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 5555555665544322 23567899999999999987754333
No 271
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=23.14 E-value=96 Score=25.23 Aligned_cols=28 Identities=14% Similarity=0.184 Sum_probs=21.2
Q ss_pred HHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 64 MKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 64 ~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
...++|..+|++...|+.++..-|.+.|
T Consensus 159 s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 186 (194)
T PRK12519 159 SQSEIAKRLGIPLGTVKARARQGLLKLR 186 (194)
T ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 3557899999999999999865444444
No 272
>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=23.10 E-value=3.1e+02 Score=23.22 Aligned_cols=25 Identities=24% Similarity=0.171 Sum_probs=14.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHH
Q 027468 89 RSKTKQIEREYTKLKAEFETLASSY 113 (223)
Q Consensus 89 r~Krkq~~~e~~~lk~~~~~L~~~~ 113 (223)
|||.++..+..+..+.+.+.|..+.
T Consensus 31 rwk~~~~~e~~~~~~~~~~~l~~~~ 55 (177)
T PF03234_consen 31 RWKHQARHERREERKQEIEELKYER 55 (177)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555566666655555443
No 273
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=23.09 E-value=2.1e+02 Score=26.59 Aligned_cols=41 Identities=22% Similarity=0.377 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027468 96 EREYTKLKAEFETLA-SSYELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 96 ~~e~~~lk~~~~~L~-~~~~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
.+||..-|.+|-++. ....-|+.+|..|..|+..||+++-.
T Consensus 303 ARECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKeLYc~ 344 (348)
T KOG3584|consen 303 ARECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKELYCH 344 (348)
T ss_pred HHHHHHhHhHHHHHHHhHHHHHhcccHHHHHHHHHHHHHhhc
Confidence 345555555555443 45567888899999999999998753
No 274
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=23.08 E-value=2.7e+02 Score=25.95 Aligned_cols=35 Identities=23% Similarity=0.313 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 101 KLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 101 ~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.++..++.|...+..+..+...+..++.+|+.++.
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (389)
T PRK03992 12 ELEEQIRQLELKLRDLEAENEKLERELERLKSELE 46 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555555555555555554
No 275
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=23.01 E-value=3.1e+02 Score=27.78 Aligned_cols=55 Identities=25% Similarity=0.193 Sum_probs=33.4
Q ss_pred hhhhhhHhhh--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 81 IWFQNKRARS--KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 81 iWFQNRRar~--Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|=-||+|.|. +...++.+.+.|+.+-+.|..+...+......++.++..|-..+-
T Consensus 500 vAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er~~~d~~L~~~kqqls~L~~~Vf 556 (604)
T KOG3863|consen 500 VAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRERDELDSTLGVMKQQLSELYQEVF 556 (604)
T ss_pred hhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345554442 334556667777777777777776666666777777666644443
No 276
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=22.96 E-value=2.7e+02 Score=21.58 Aligned_cols=34 Identities=24% Similarity=0.337 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 102 LKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 102 lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
|......|......+..+.++|+..+.++++++.
T Consensus 78 L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k 111 (118)
T PF13815_consen 78 LSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIK 111 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444445444444444443
No 277
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=22.75 E-value=2.4e+02 Score=22.97 Aligned_cols=45 Identities=9% Similarity=0.144 Sum_probs=29.0
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..++...|-.. ..-.++|..+|+++..|+.+...-|.+.|
T Consensus 135 Lp~~~R~v~~L~~~~g-----~s~~EIA~~lgis~~tVk~~l~RAr~~Lr 179 (189)
T PRK12530 135 LPAQQARVFMMREYLE-----LSSEQICQECDISTSNLHVLLYRARLQLQ 179 (189)
T ss_pred CCHHHHHHHhHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4555555555544221 22457899999999999998765444444
No 278
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=22.72 E-value=4.4e+02 Score=22.38 Aligned_cols=20 Identities=15% Similarity=0.312 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHhc
Q 027468 117 RREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 117 ~~e~~~L~~e~~~L~~~~~~ 136 (223)
++....++.++.+|+++|..
T Consensus 152 ~~~~~e~~~~l~~l~~ei~~ 171 (176)
T PF12999_consen 152 KKKREELEKKLEELEKEIQA 171 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33445555555666555554
No 279
>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=22.32 E-value=29 Score=30.71 Aligned_cols=43 Identities=14% Similarity=0.095 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 97 REYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 97 ~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.-++.....+..|+.-.+.|..||++|+.||++|+.+-.+...
T Consensus 122 T~IEEQ~T~I~dLrrlVe~L~aeNErLr~EnkqL~ae~arL~k 164 (243)
T PF08961_consen 122 TRIEEQATKIADLRRLVEFLLAENERLRRENKQLKAENARLLK 164 (243)
T ss_dssp -------------------------------------------
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445566667788888899999999999999999888777654
No 280
>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=22.26 E-value=1.9e+02 Score=23.13 Aligned_cols=39 Identities=18% Similarity=0.221 Sum_probs=23.6
Q ss_pred CCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 027468 41 RFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQ 84 (223)
Q Consensus 41 rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQ 84 (223)
.+++.+..+|...|-.. ....++|..+|+++..|+....
T Consensus 100 ~L~~~~r~v~~l~~~~g-----~s~~eIA~~lgis~~tV~~~l~ 138 (170)
T TIGR02959 100 ELPDEYREAIRLTELEG-----LSQQEIAEKLGLSLSGAKSRVQ 138 (170)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHH
Confidence 35555555555443222 2245678888888888887654
No 281
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=22.23 E-value=2.3e+02 Score=22.71 Aligned_cols=27 Identities=11% Similarity=0.115 Sum_probs=18.6
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
..++|..+|++...|+.-...-|.+.|
T Consensus 136 ~~EIA~~lgis~~tV~~~l~ra~~~Lr 162 (179)
T PRK12543 136 QEEIAQLLQIPIGTVKSRIHAALKKLR 162 (179)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 456788889998888876654444433
No 282
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=22.18 E-value=2.2e+02 Score=23.27 Aligned_cols=26 Identities=15% Similarity=0.236 Sum_probs=18.5
Q ss_pred HHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 64 MKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 64 ~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
.-.++|..+|+++..|+.-...-|.+
T Consensus 172 s~~EIA~~lgis~~tV~~~l~rar~~ 197 (208)
T PRK08295 172 SYQEIAEELNRHVKSIDNALQRVKRK 197 (208)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 34568999999999998755544333
No 283
>PF15294 Leu_zip: Leucine zipper
Probab=22.11 E-value=3e+02 Score=25.15 Aligned_cols=40 Identities=25% Similarity=0.390 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
Q 027468 95 IEREYTKLKAEFETLASSYELMRR-------EHQLLLVQLQKLKNLL 134 (223)
Q Consensus 95 ~~~e~~~lk~~~~~L~~~~~~l~~-------e~~~L~~e~~~L~~~~ 134 (223)
+..++..|+.+|+.|+....++.. |+..|+.++..|+...
T Consensus 130 l~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~~~ 176 (278)
T PF15294_consen 130 LNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQDEQ 176 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446777777777777776655544 5666666666666633
No 284
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=22.07 E-value=1.8e+02 Score=23.72 Aligned_cols=10 Identities=30% Similarity=0.600 Sum_probs=5.8
Q ss_pred hhhhhhhhHh
Q 027468 79 VAIWFQNKRA 88 (223)
Q Consensus 79 VkiWFQNRRa 88 (223)
.+|||.|.-.
T Consensus 56 qkiY~~~Q~~ 65 (169)
T PF07106_consen 56 QKIYFANQDE 65 (169)
T ss_pred eEEEeeCccc
Confidence 3667766544
No 285
>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=21.93 E-value=71 Score=21.52 Aligned_cols=21 Identities=19% Similarity=0.381 Sum_probs=18.1
Q ss_pred HHHHHHHhCCCcchhhhhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQN 85 (223)
..++|+.+|+++..++.|-+.
T Consensus 3 ~~eva~~~gvs~~tlr~w~~~ 23 (68)
T cd01104 3 IGAVARLTGVSPDTLRAWERR 23 (68)
T ss_pred HHHHHHHHCcCHHHHHHHHHh
Confidence 357899999999999999863
No 286
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=21.90 E-value=3.1e+02 Score=21.23 Aligned_cols=43 Identities=9% Similarity=0.084 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRAR 89 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar 89 (223)
+++.+..++.-.|-... .-.++|..||++...|+.....-|.+
T Consensus 107 Lp~~~r~v~~l~~~~g~-----s~~EIA~~lgis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 107 LPARQREAFLLRYWEDM-----DVAETAAAMGCSEGSVKTHCSRATHA 149 (161)
T ss_pred CCHHHHHHHHHHHHhcC-----CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 55556555555442221 24578999999999998876543333
No 287
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=21.78 E-value=1.9e+02 Score=28.48 Aligned_cols=40 Identities=20% Similarity=0.150 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 100 TKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 100 ~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
..++.+++.|...|..|.+.....+.|+.+|+++|.+...
T Consensus 4 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~ 43 (512)
T TIGR03689 4 RELQATNSSLGARNAKLAELLKAARDKLSKLKSQLEQLAQ 43 (512)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4466777777788888888888888888888888876543
No 288
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=21.78 E-value=2.5e+02 Score=21.84 Aligned_cols=50 Identities=22% Similarity=0.287 Sum_probs=30.6
Q ss_pred cchhhhhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 76 PRQVAIWFQNKRARSKTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQ 126 (223)
Q Consensus 76 ~rQVkiWFQNRRar~Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e 126 (223)
.-+.-.||... ..........+.+.+.++++.|..++..|+.+...|+..
T Consensus 37 ~f~~~~~~g~~-~~~~~~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 37 LFQYLAWFGKN-GAADVLQLQRQIAAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 33444555432 222334455556677777777777777777777777777
No 289
>PRK10698 phage shock protein PspA; Provisional
Probab=21.72 E-value=4.8e+02 Score=22.56 Aligned_cols=40 Identities=15% Similarity=0.198 Sum_probs=22.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
+++........|+.+++........|+.....|+..+..+
T Consensus 93 ~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~ea 132 (222)
T PRK10698 93 EKQKLTDLIATLEHEVTLVDETLARMKKEIGELENKLSET 132 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555556666666666655555655555555555444
No 290
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=21.69 E-value=3.1e+02 Score=19.56 Aligned_cols=15 Identities=20% Similarity=0.321 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHH
Q 027468 113 YELMRREHQLLLVQL 127 (223)
Q Consensus 113 ~~~l~~e~~~L~~e~ 127 (223)
+..|+.|+..|+.|+
T Consensus 49 ~~~Lk~E~e~L~~el 63 (69)
T PF14197_consen 49 NNKLKEENEALRKEL 63 (69)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444443
No 291
>TIGR00721 tfx DNA-binding protein, Tfx family. Tfx from Methanobacterium thermoautotrophicum is associated with the operon for molybdenum formyl-methanofuran dehydrogenase and binds a DNA sequence near its promoter.
Probab=21.54 E-value=4.4e+02 Score=21.33 Aligned_cols=41 Identities=22% Similarity=0.234 Sum_probs=29.9
Q ss_pred CCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhh
Q 027468 39 KRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQN 85 (223)
Q Consensus 39 R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQN 85 (223)
...+++.|..+|...+ .. ....++|..+|++...|..+-..
T Consensus 4 ~~~Lte~qr~VL~Lr~--~G----lTq~EIAe~LgiS~stV~~~e~r 44 (137)
T TIGR00721 4 KTFLTERQIKVLELRE--KG----LSQKEIAKELKTTRANVSAIEKR 44 (137)
T ss_pred cCCCCHHHHHHHHHHH--cC----CCHHHHHHHHCcCHHHHHHHHHh
Confidence 3568899999998742 11 13557899999999998877543
No 292
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=21.50 E-value=2.5e+02 Score=22.67 Aligned_cols=45 Identities=11% Similarity=0.241 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..+|...|-.. ..-.++|..+|+++..|+.-...-|.+.+
T Consensus 132 L~~~~r~vl~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 176 (189)
T PRK12515 132 LSPAHREIIDLVYYHE-----KSVEEVGEIVGIPESTVKTRMFYARKKLA 176 (189)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 4555555554443211 22456899999999999887754444443
No 293
>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=21.46 E-value=59 Score=20.91 Aligned_cols=23 Identities=22% Similarity=0.424 Sum_probs=18.9
Q ss_pred HHHHHHHhCCCcchhhhhhhhhH
Q 027468 65 KHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
..+||..+|+++..|..|..+++
T Consensus 12 ~~~la~~~gis~~~i~~~~~g~~ 34 (55)
T PF01381_consen 12 QKELAEKLGISRSTISRIENGKR 34 (55)
T ss_dssp HHHHHHHHTS-HHHHHHHHTTSS
T ss_pred HHHHHHHhCCCcchhHHHhcCCC
Confidence 36799999999999999998844
No 294
>KOG3755 consensus SATB1 matrix attachment region binding protein [Transcription]
Probab=21.46 E-value=78 Score=32.12 Aligned_cols=44 Identities=16% Similarity=0.181 Sum_probs=30.5
Q ss_pred HHHHhhCCCCCHHHHHHHHHHhCC-------CcchhhhhhhhhHhhhhhHH
Q 027468 51 EFMFESEARPESRMKHRMADELGL-------QPRQVAIWFQNKRARSKTKQ 94 (223)
Q Consensus 51 E~~F~~~~~p~~~~r~~LA~~LgL-------~~rQVkiWFQNRRar~Krkq 94 (223)
+.+|-.++.+......+--.++.+ ..+.|+.||.|||.++++-.
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 445566677776666655555443 45679999999999988744
No 295
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=21.35 E-value=2.1e+02 Score=22.77 Aligned_cols=27 Identities=26% Similarity=0.246 Sum_probs=20.0
Q ss_pred HHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 65 KHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 65 r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
-.++|..||+++..|+.....-|.+.+
T Consensus 153 ~~EIA~~lgis~~tVk~~l~Rar~~Lr 179 (183)
T TIGR02999 153 VEEIAELLGVSVRTVERDWRFARAWLA 179 (183)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 456899999999999988765444433
No 296
>PF11418 Scaffolding_pro: Phi29 scaffolding protein; InterPro: IPR024374 This protein is also referred to as Gp7. The protein contains a DNA-binding function and may have a role in mediating the structural transition from prohead to mature virus and also scaffold release [].Gp7 is arranged within the capsid as a series of concentric shells [].; PDB: 1NOH_C 1NO4_C 3MTU_E 3OA7_A.
Probab=21.32 E-value=3.8e+02 Score=20.43 Aligned_cols=43 Identities=30% Similarity=0.471 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
.+.+..|-+.-.+|..|....+++.+++..|..-+.+|=.++.
T Consensus 29 qqlr~~~~sf~sEy~dlT~~~eKl~aek~DL~vsNskLFrQ~~ 71 (97)
T PF11418_consen 29 QQLRESYTSFHSEYEDLTEALEKLTAEKEDLIVSNSKLFRQHG 71 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHhC
Confidence 3556677777788888888888888888888888888865544
No 297
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=21.31 E-value=3.3e+02 Score=25.81 Aligned_cols=45 Identities=18% Similarity=0.178 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhcCCCCCCC
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQL-------QKLKNLLGKGHEDTNE 143 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~-------~~L~~~~~~~~~~~~~ 143 (223)
...++.+.+.+..+.....+|.+.|..|+ +.|.++.+.+-..+++
T Consensus 143 n~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ 194 (401)
T PF06785_consen 143 NQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHS 194 (401)
T ss_pred HHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchh
Confidence 33333344444444444444555554444 3445555555444433
No 298
>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=21.27 E-value=2.2e+02 Score=17.68 Aligned_cols=36 Identities=19% Similarity=0.407 Sum_probs=24.6
Q ss_pred CHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 027468 43 SDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQ 84 (223)
Q Consensus 43 t~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQ 84 (223)
+..+..++...+. . ....++|..+|++...|..+..
T Consensus 2 ~~~e~~i~~~~~~--~----~s~~eia~~l~~s~~tv~~~~~ 37 (57)
T cd06170 2 TPREREVLRLLAE--G----KTNKEIADILGISEKTVKTHLR 37 (57)
T ss_pred CHHHHHHHHHHHc--C----CCHHHHHHHHCCCHHHHHHHHH
Confidence 4555666655431 1 2346789999999999998875
No 299
>PF09311 Rab5-bind: Rabaptin-like protein; InterPro: IPR015390 This domain is predominantly found in Rabaptin and allows for binding to the GTPase Rab5. This interaction is necessary and sufficient for Rab5-dependent recruitment of Rabaptin5 to early endosomal membranes []. ; PDB: 3NF1_A 3CEQ_B 3EDT_H 1X79_C 1TU3_F.
Probab=21.12 E-value=59 Score=27.24 Aligned_cols=36 Identities=14% Similarity=0.214 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027468 104 AEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHE 139 (223)
Q Consensus 104 ~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~ 139 (223)
.....|..+...+..+..+|..+|..|++++...+.
T Consensus 15 ~~L~~l~~erqkl~~qv~rL~qEN~~Lr~el~~tq~ 50 (181)
T PF09311_consen 15 QHLQSLEAERQKLRAQVRRLCQENDWLRGELANTQQ 50 (181)
T ss_dssp HHHHHHHHCCHHHHT---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444455555555555555555555554443
No 300
>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=21.08 E-value=4.3e+02 Score=21.05 Aligned_cols=37 Identities=11% Similarity=0.214 Sum_probs=25.7
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhH
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKR 87 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRR 87 (223)
..+.|+..++..|... ...+.+|++-..|+-.+.+..
T Consensus 34 g~R~Y~~~~l~~l~~I-------------~~lr~~G~sL~eI~~~l~~~~ 70 (134)
T cd04779 34 NYRYYDETALDRLQLI-------------EHLKGQRLSLAEIKDQLEEVQ 70 (134)
T ss_pred CCeeECHHHHHHHHHH-------------HHHHHCCCCHHHHHHHHHhhc
Confidence 4567999998888543 224677887777777776554
No 301
>PF12824 MRP-L20: Mitochondrial ribosomal protein subunit L20; InterPro: IPR024388 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents the essential mitochondrial ribosomal protein L20 family from fungi [].
Probab=20.90 E-value=5e+02 Score=21.65 Aligned_cols=45 Identities=16% Similarity=0.336 Sum_probs=36.0
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhh
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQ 84 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQ 84 (223)
++..++++++..+...-..+ |..-.+..||+++|+++.-|.+=..
T Consensus 82 k~y~Lt~e~i~Eir~LR~~D--P~~wTr~~LAkkF~~S~~fV~~v~~ 126 (164)
T PF12824_consen 82 KKYHLTPEDIQEIRRLRAED--PEKWTRKKLAKKFNCSPLFVSMVAP 126 (164)
T ss_pred ccccCCHHHHHHHHHHHHcC--chHhhHHHHHHHhCCCHHHHHHhcC
Confidence 45689999999988876554 5566788999999999988877654
No 302
>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=20.82 E-value=4.5e+02 Score=21.18 Aligned_cols=47 Identities=28% Similarity=0.332 Sum_probs=27.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 91 KTKQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 91 Krkq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
+.+..+.....+-.++..|...+..|..+.+.+..++..++..+...
T Consensus 22 ~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~ 68 (143)
T PF12718_consen 22 KVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEES 68 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 34455555555555555666666666666666666666666555533
No 303
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=20.78 E-value=1.5e+02 Score=24.09 Aligned_cols=45 Identities=11% Similarity=0.119 Sum_probs=26.4
Q ss_pred CCHHHHHHHHHHHhhCCCCCHHHHHHHHHHhCCCcchhhhhhhhhHhhhh
Q 027468 42 FSDEQVKSLEFMFESEARPESRMKHRMADELGLQPRQVAIWFQNKRARSK 91 (223)
Q Consensus 42 ft~~Ql~~LE~~F~~~~~p~~~~r~~LA~~LgL~~rQVkiWFQNRRar~K 91 (223)
+++.+..++.-.|-.. ....++|..+|++...|+...+.-|.+.|
T Consensus 132 L~~~~r~i~~l~~~~g-----~s~~EIAe~lgis~~~V~~~l~Ra~~~Lr 176 (189)
T PRK06811 132 LEKLDREIFIRRYLLG-----EKIEEIAKKLGLTRSAIDNRLSRGRKKLQ 176 (189)
T ss_pred CCHHHHHHHHHHHHcc-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5555555555433211 22456888999999888876654444433
No 304
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=20.75 E-value=2.2e+02 Score=19.48 Aligned_cols=51 Identities=16% Similarity=0.129 Sum_probs=29.8
Q ss_pred CCCCCCHHHHHHHHHHHhhCCCCCH---HHHHHHHHHhCCCcchhhhhhhhhHh
Q 027468 38 NKRRFSDEQVKSLEFMFESEARPES---RMKHRMADELGLQPRQVAIWFQNKRA 88 (223)
Q Consensus 38 ~R~rft~~Ql~~LE~~F~~~~~p~~---~~r~~LA~~LgL~~rQVkiWFQNRRa 88 (223)
+|.+.|++.-..+...+......+. ..+.++....+|+..||+.=.|--|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 4667787765555555554444333 55444444456778888876665443
No 305
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=20.60 E-value=3.9e+02 Score=21.93 Aligned_cols=43 Identities=21% Similarity=0.244 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 027468 98 EYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKGHED 140 (223)
Q Consensus 98 e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~~~~ 140 (223)
+++.|+.+...+..+...=++..+.|..+..-++..+.|-+..
T Consensus 2 ~~~~Le~ek~~~~~rI~~K~~~LqEL~~Q~va~knLv~RN~~~ 44 (142)
T PF08781_consen 2 ECEELEEEKQRRRERIKKKKEQLQELILQQVAFKNLVQRNRQL 44 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5666777766666666666666777777777777777765543
No 306
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=20.58 E-value=5.1e+02 Score=21.64 Aligned_cols=17 Identities=35% Similarity=0.462 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027468 116 MRREHQLLLVQLQKLKN 132 (223)
Q Consensus 116 l~~e~~~L~~e~~~L~~ 132 (223)
+..|...|+.++..|.+
T Consensus 149 l~DE~~~L~l~~~~~e~ 165 (194)
T PF08614_consen 149 LQDELQALQLQLNMLEE 165 (194)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33344444444433333
No 307
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=20.57 E-value=3.8e+02 Score=23.55 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027468 93 KQIEREYTKLKAEFETLASSYELMRREHQLLLVQLQKLKNLLGKG 137 (223)
Q Consensus 93 kq~~~e~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L~~~~~~~ 137 (223)
+++..|+..|-.....+.++....+....++..|...|++.+.+.
T Consensus 56 rqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~ 100 (230)
T PF10146_consen 56 RQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINEL 100 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666655555555666555555566666666665555543
No 308
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=20.22 E-value=2.6e+02 Score=28.93 Aligned_cols=24 Identities=21% Similarity=0.307 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 027468 112 SYELMRREHQLLLVQLQKLKNLLG 135 (223)
Q Consensus 112 ~~~~l~~e~~~L~~e~~~L~~~~~ 135 (223)
+|+.||.|..+|..|+.-|+.++.
T Consensus 122 efE~~Khei~rl~Ee~~~l~~qle 145 (717)
T PF09730_consen 122 EFEGLKHEIKRLEEEIELLNSQLE 145 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666677777666666655554
No 309
>KOG4001 consensus Axonemal dynein light chain [Cytoskeleton]
Probab=20.18 E-value=5e+02 Score=22.98 Aligned_cols=23 Identities=26% Similarity=0.277 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 027468 114 ELMRREHQLLLVQLQKLKNLLGK 136 (223)
Q Consensus 114 ~~l~~e~~~L~~e~~~L~~~~~~ 136 (223)
..++++++.|+.-|+.|+.+|..
T Consensus 231 kk~~eei~fLk~tN~qLKaQLeg 253 (259)
T KOG4001|consen 231 KKMKEEIEFLKETNRQLKAQLEG 253 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 45667788888888888888763
No 310
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=20.17 E-value=2.8e+02 Score=25.32 Aligned_cols=32 Identities=25% Similarity=0.309 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027468 99 YTKLKAEFETLASSYELMRREHQLLLVQLQKL 130 (223)
Q Consensus 99 ~~~lk~~~~~L~~~~~~l~~e~~~L~~e~~~L 130 (223)
++.|+.+...+..+...++++...++.++.++
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 (364)
T TIGR01242 8 IRKLEDEKRSLEKEKIRLERELERLRSEIERL 39 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444333
Done!