Query 007770
Match_columns 590
No_of_seqs 408 out of 1740
Neff 5.4
Searched_HMMs 46136
Date Thu Mar 28 15:06:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007770.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007770hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd08875 START_ArGLABRA2_like C 100.0 4E-96 9E-101 729.1 22.1 229 337-566 1-229 (229)
2 PF01852 START: START domain; 99.8 3.6E-18 7.7E-23 165.8 12.8 205 342-567 1-206 (206)
3 smart00234 START in StAR and p 99.7 1.9E-16 4.2E-21 154.1 16.5 202 343-567 2-206 (206)
4 KOG0842 Transcription factor t 99.7 1.1E-17 2.5E-22 172.9 7.1 69 130-198 149-217 (307)
5 KOG0483 Transcription factor H 99.7 3.8E-17 8.3E-22 160.4 7.2 79 138-216 54-132 (198)
6 KOG0488 Transcription factor B 99.7 7.6E-17 1.6E-21 168.5 6.5 66 130-195 168-233 (309)
7 KOG0485 Transcription factor N 99.6 2.1E-16 4.6E-21 154.5 7.5 64 131-194 101-164 (268)
8 KOG0489 Transcription factor z 99.6 2E-16 4.4E-21 162.0 4.1 65 132-196 157-221 (261)
9 KOG0850 Transcription factor D 99.6 4.9E-15 1.1E-19 146.4 12.2 74 126-199 114-187 (245)
10 KOG0843 Transcription factor E 99.6 6.7E-16 1.5E-20 147.5 4.9 64 133-196 101-164 (197)
11 KOG0487 Transcription factor A 99.6 2E-15 4.3E-20 156.5 7.6 65 132-196 233-297 (308)
12 KOG0848 Transcription factor C 99.6 7.3E-15 1.6E-19 147.5 11.3 66 132-197 197-262 (317)
13 KOG0484 Transcription factor P 99.6 6.9E-16 1.5E-20 135.5 2.7 65 130-194 13-77 (125)
14 KOG0494 Transcription factor C 99.6 3.1E-15 6.8E-20 149.5 6.2 69 138-206 145-213 (332)
15 KOG0492 Transcription factor M 99.5 1.7E-14 3.6E-19 140.5 6.2 63 132-194 142-204 (246)
16 PF00046 Homeobox: Homeobox do 99.5 1.7E-14 3.7E-19 113.9 4.8 57 135-191 1-57 (57)
17 KOG2251 Homeobox transcription 99.5 2.6E-14 5.6E-19 140.7 5.2 67 130-196 33-99 (228)
18 KOG0493 Transcription factor E 99.4 2.6E-13 5.6E-18 136.0 4.4 59 135-193 247-305 (342)
19 smart00389 HOX Homeodomain. DN 99.3 8.9E-13 1.9E-17 103.2 4.4 55 136-190 2-56 (56)
20 cd00086 homeodomain Homeodomai 99.3 1.3E-12 2.9E-17 102.8 5.0 57 136-192 2-58 (59)
21 KOG0491 Transcription factor B 99.3 2.6E-13 5.5E-18 128.2 0.7 65 133-197 99-163 (194)
22 COG5576 Homeodomain-containing 99.3 1.5E-12 3.2E-17 124.0 5.0 65 134-198 51-115 (156)
23 KOG0486 Transcription factor P 99.3 1.9E-12 4.1E-17 132.9 5.9 62 132-193 110-171 (351)
24 KOG0844 Transcription factor E 99.3 1.1E-12 2.3E-17 134.0 3.3 65 130-194 177-241 (408)
25 TIGR01565 homeo_ZF_HD homeobox 99.3 3.5E-12 7.6E-17 102.4 4.9 53 134-186 1-57 (58)
26 cd00177 START Lipid-binding ST 99.2 1.8E-10 3.9E-15 109.3 14.1 190 346-564 2-191 (193)
27 KOG3802 Transcription factor O 99.2 6.8E-12 1.5E-16 133.0 4.0 63 131-193 291-353 (398)
28 KOG0847 Transcription factor, 99.2 8.8E-12 1.9E-16 122.5 2.7 64 131-194 164-227 (288)
29 KOG4577 Transcription factor L 99.1 4.3E-11 9.3E-16 121.6 6.2 73 134-206 167-239 (383)
30 cd08871 START_STARD10-like Lip 99.0 7.4E-09 1.6E-13 103.2 16.4 200 346-578 10-213 (222)
31 KOG0490 Transcription factor, 99.0 3.2E-10 6.9E-15 112.4 3.5 64 131-194 57-120 (235)
32 cd08868 START_STARD1_3_like Ch 98.9 2E-08 4.3E-13 99.2 13.7 196 340-568 6-208 (208)
33 cd08867 START_STARD4_5_6-like 98.9 6.1E-08 1.3E-12 95.7 16.0 194 340-564 3-204 (206)
34 KOG0849 Transcription factor P 98.7 8E-09 1.7E-13 110.5 5.0 63 131-193 173-235 (354)
35 cd08904 START_STARD6-like Lipi 98.6 5E-07 1.1E-11 90.0 14.4 171 340-534 3-176 (204)
36 KOG1168 Transcription factor A 98.6 1.8E-08 4E-13 102.8 3.1 62 132-193 307-368 (385)
37 cd08903 START_STARD5-like Lipi 98.5 3.9E-06 8.4E-11 83.5 15.0 192 340-564 3-204 (208)
38 cd08869 START_RhoGAP C-termina 98.5 1.9E-06 4.1E-11 84.9 12.5 167 345-540 4-173 (197)
39 KOG0775 Transcription factor S 98.4 2.4E-07 5.2E-12 94.4 4.1 51 141-191 183-233 (304)
40 cd08909 START_STARD13-like C-t 98.3 8.5E-06 1.8E-10 81.3 14.0 127 393-534 48-176 (205)
41 cd08905 START_STARD1-like Chol 98.2 9.3E-06 2E-10 80.8 12.0 193 339-566 5-207 (209)
42 PLN00188 enhanced disease resi 98.1 1.1E-05 2.5E-10 92.1 10.0 129 397-538 227-365 (719)
43 cd08910 START_STARD2-like Lipi 98.1 3E-05 6.6E-10 77.1 11.8 184 351-567 16-206 (207)
44 cd08906 START_STARD3-like Chol 98.1 8.9E-05 1.9E-09 74.0 14.7 196 339-566 5-207 (209)
45 cd08877 START_2 Uncharacterize 97.9 0.00011 2.4E-09 73.0 12.6 201 340-567 3-214 (215)
46 cd08902 START_STARD4-like Lipi 97.9 0.00011 2.4E-09 73.0 11.1 178 340-551 3-187 (202)
47 PF05920 Homeobox_KN: Homeobox 97.9 6.2E-06 1.3E-10 61.7 1.6 34 155-188 7-40 (40)
48 KOG0774 Transcription factor P 97.8 1.1E-05 2.4E-10 81.8 3.3 58 135-192 189-249 (334)
49 cd08908 START_STARD12-like C-t 97.7 0.00034 7.3E-09 69.9 11.9 161 344-533 11-174 (204)
50 cd08876 START_1 Uncharacterize 97.7 0.00047 1E-08 66.8 12.5 152 398-565 42-194 (195)
51 KOG2252 CCAAT displacement pro 97.6 5.5E-05 1.2E-09 83.8 5.1 60 131-190 417-476 (558)
52 KOG0490 Transcription factor, 97.6 7.3E-05 1.6E-09 74.2 4.9 64 131-194 150-213 (235)
53 cd08874 START_STARD9-like C-te 97.5 0.00043 9.4E-09 69.2 9.7 130 391-539 44-181 (205)
54 cd08870 START_STARD2_7-like Li 97.5 0.0016 3.6E-08 64.6 13.8 190 349-566 9-207 (209)
55 cd08907 START_STARD8-like C-te 97.4 0.00071 1.5E-08 67.5 8.9 165 344-536 11-178 (205)
56 cd08911 START_STARD7-like Lipi 97.3 0.0024 5.2E-08 63.5 11.5 152 398-567 46-206 (207)
57 cd08872 START_STARD11-like Cer 97.1 0.0069 1.5E-07 61.8 13.2 193 346-564 10-223 (235)
58 KOG1146 Homeobox protein [Gene 96.7 0.0024 5.2E-08 77.1 6.6 62 133-194 902-963 (1406)
59 cd08873 START_STARD14_15-like 96.3 0.023 5E-07 58.1 9.9 127 393-539 78-208 (235)
60 cd08913 START_STARD14-like Lip 95.7 0.076 1.7E-06 54.5 10.4 123 403-541 87-215 (240)
61 KOG0773 Transcription factor M 95.4 0.014 3E-07 62.2 3.8 61 134-194 239-302 (342)
62 cd08914 START_STARD15-like Lip 95.0 0.14 3.1E-06 52.5 9.6 128 399-541 80-211 (236)
63 PF11569 Homez: Homeodomain le 94.7 0.014 3.1E-07 46.9 1.2 43 145-187 9-51 (56)
64 PRK09413 IS2 repressor TnpA; R 92.8 0.47 1E-05 43.4 7.8 40 139-183 11-51 (121)
65 KOG4196 bZIP transcription fac 92.4 2.4 5.3E-05 39.7 11.7 87 139-259 22-109 (135)
66 cd08860 TcmN_ARO-CYC_like N-te 89.5 2.4 5.2E-05 39.9 9.2 139 401-568 5-145 (146)
67 KOG4005 Transcription factor X 88.6 3 6.4E-05 42.8 9.5 61 182-256 81-143 (292)
68 KOG3623 Homeobox transcription 87.9 0.42 9.1E-06 55.4 3.4 47 146-192 568-614 (1007)
69 PF04218 CENP-B_N: CENP-B N-te 86.7 0.9 1.9E-05 35.9 3.7 46 135-185 1-46 (53)
70 PF02183 HALZ: Homeobox associ 86.6 1.4 3.1E-05 34.0 4.6 39 193-259 2-40 (45)
71 cd08866 SRPBCC_11 Ligand-bindi 85.7 8.9 0.00019 34.6 10.3 133 401-567 3-144 (144)
72 cd05018 CoxG Carbon monoxide d 85.6 6.1 0.00013 35.3 9.1 119 403-547 7-125 (144)
73 PF10604 Polyketide_cyc2: Poly 83.4 28 0.00061 30.6 12.3 126 402-566 7-139 (139)
74 cd08861 OtcD1_ARO-CYC_like N-t 83.3 6.2 0.00013 35.6 8.2 138 402-567 4-142 (142)
75 PF06005 DUF904: Protein of un 82.3 3.9 8.4E-05 34.6 5.8 51 193-264 15-69 (72)
76 KOG2761 START domain-containin 81.5 6.1 0.00013 40.2 7.9 139 407-565 64-212 (219)
77 cd07819 SRPBCC_2 Ligand-bindin 81.1 20 0.00043 31.8 10.5 133 401-565 6-140 (140)
78 PRK10724 hypothetical protein; 80.0 26 0.00057 33.6 11.5 137 400-568 18-154 (158)
79 PRK15422 septal ring assembly 79.3 7.3 0.00016 33.6 6.4 61 190-264 12-76 (79)
80 cd07817 SRPBCC_8 Ligand-bindin 78.5 45 0.00097 29.5 12.0 132 404-566 7-138 (139)
81 cd07821 PYR_PYL_RCAR_like Pyra 78.0 37 0.0008 29.8 11.2 50 513-566 91-140 (140)
82 cd08864 SRPBCC_DUF3074 DUF3074 77.4 6.9 0.00015 39.4 6.9 102 433-540 77-184 (208)
83 TIGR00219 mreC rod shape-deter 77.4 3.4 7.3E-05 43.5 4.8 42 197-255 67-108 (283)
84 PF01527 HTH_Tnp_1: Transposas 73.2 1.1 2.3E-05 36.9 -0.1 43 136-183 2-45 (76)
85 cd07813 COQ10p_like Coenzyme Q 72.6 28 0.0006 31.4 9.1 134 402-567 4-137 (138)
86 COG3074 Uncharacterized protei 71.3 15 0.00032 31.2 6.1 59 192-264 14-76 (79)
87 KOG4343 bZIP transcription fac 70.8 9.4 0.0002 43.4 6.4 25 356-382 439-463 (655)
88 PRK13922 rod shape-determining 70.3 6.5 0.00014 40.7 4.9 41 197-255 70-110 (276)
89 PF12711 Kinesin-relat_1: Kine 69.1 13 0.00027 32.7 5.6 45 201-260 22-66 (86)
90 KOG0971 Microtubule-associated 69.0 15 0.00032 44.2 7.7 55 200-260 336-390 (1243)
91 cd08865 SRPBCC_10 Ligand-bindi 65.9 61 0.0013 28.3 9.6 135 403-566 5-139 (140)
92 smart00338 BRLZ basic region l 61.3 34 0.00073 27.7 6.5 40 194-254 24-63 (65)
93 COG4026 Uncharacterized protei 55.7 23 0.00051 36.3 5.5 50 188-258 141-190 (290)
94 TIGR03752 conj_TIGR03752 integ 55.2 20 0.00044 40.4 5.4 56 194-262 78-133 (472)
95 PF00170 bZIP_1: bZIP transcri 53.3 64 0.0014 26.1 6.8 24 194-217 24-47 (64)
96 cd07822 SRPBCC_4 Ligand-bindin 52.1 23 0.0005 31.1 4.5 50 514-566 92-141 (141)
97 PF04880 NUDE_C: NUDE protein, 51.8 15 0.00033 36.0 3.4 21 239-259 25-45 (166)
98 PF14389 Lzipper-MIP1: Leucine 51.5 1E+02 0.0022 27.0 8.1 70 187-259 6-75 (88)
99 smart00340 HALZ homeobox assoc 48.7 19 0.0004 27.7 2.7 19 242-260 16-34 (44)
100 PF07407 Seadorna_VP6: Seadorn 48.4 23 0.0005 38.2 4.3 21 197-217 33-53 (420)
101 KOG1146 Homeobox protein [Gene 47.7 9.4 0.0002 47.5 1.5 92 135-239 445-537 (1406)
102 KOG4571 Activating transcripti 47.6 59 0.0013 34.6 7.1 45 191-256 243-287 (294)
103 cd06171 Sigma70_r4 Sigma70, re 47.4 18 0.00039 26.3 2.6 43 140-187 10-52 (55)
104 COG1792 MreC Cell shape-determ 45.7 47 0.001 35.1 6.2 42 196-255 66-107 (284)
105 KOG0709 CREB/ATF family transc 45.2 58 0.0013 36.7 7.0 97 138-262 218-317 (472)
106 PRK14872 rod shape-determining 44.7 22 0.00048 38.6 3.6 42 196-255 57-98 (337)
107 PRK13169 DNA replication intia 43.8 80 0.0017 29.0 6.5 20 239-258 37-56 (110)
108 PF06785 UPF0242: Uncharacteri 43.3 36 0.00079 36.8 4.9 71 181-263 54-124 (401)
109 PRK03975 tfx putative transcri 43.2 40 0.00086 32.2 4.7 47 139-191 5-51 (141)
110 PRK00888 ftsB cell division pr 43.1 31 0.00068 31.1 3.8 43 176-219 15-57 (105)
111 PF06156 DUF972: Protein of un 43.1 85 0.0018 28.6 6.6 21 239-259 37-57 (107)
112 PF15058 Speriolin_N: Sperioli 42.3 39 0.00085 33.9 4.6 39 199-259 8-46 (200)
113 KOG4403 Cell surface glycoprot 40.6 83 0.0018 35.3 7.1 26 339-365 398-423 (575)
114 cd07818 SRPBCC_1 Ligand-bindin 40.2 45 0.00099 30.2 4.5 51 515-566 99-149 (150)
115 PF04967 HTH_10: HTH DNA bindi 39.2 32 0.00069 27.5 2.8 38 141-178 1-40 (53)
116 TIGR02449 conserved hypothetic 38.5 1.1E+02 0.0025 25.5 6.1 39 200-259 11-49 (65)
117 PF12824 MRP-L20: Mitochondria 38.3 99 0.0021 30.2 6.7 46 139-186 84-129 (164)
118 PF04545 Sigma70_r4: Sigma-70, 38.2 37 0.0008 25.8 3.0 39 140-183 4-42 (50)
119 PRK00118 putative DNA-binding 37.8 1.2E+02 0.0026 27.6 6.6 49 140-193 17-65 (104)
120 TIGR03752 conj_TIGR03752 integ 37.4 76 0.0016 36.0 6.4 10 141-150 42-51 (472)
121 cd07812 SRPBCC START/RHO_alpha 36.4 1.5E+02 0.0032 24.8 6.9 51 513-564 90-140 (141)
122 cd00569 HTH_Hin_like Helix-tur 35.9 62 0.0013 20.8 3.6 38 140-182 5-42 (42)
123 PRK06266 transcription initiat 35.6 43 0.00093 33.0 3.8 34 221-254 136-169 (178)
124 PF07151 DUF1391: Protein of u 34.9 18 0.00039 27.9 0.8 8 552-559 38-45 (49)
125 PF14197 Cep57_CLD_2: Centroso 34.7 1.1E+02 0.0024 25.7 5.5 19 239-257 48-66 (69)
126 KOG4343 bZIP transcription fac 33.6 38 0.00082 38.8 3.3 20 239-258 317-336 (655)
127 KOG3119 Basic region leucine z 31.1 27 0.00059 36.6 1.7 24 240-263 231-254 (269)
128 TIGR00219 mreC rod shape-deter 31.0 81 0.0017 33.3 5.2 44 201-261 64-107 (283)
129 KOG3119 Basic region leucine z 30.9 99 0.0022 32.4 5.8 25 240-264 224-248 (269)
130 cd01106 HTH_TipAL-Mta Helix-Tu 30.5 2.3E+02 0.0049 24.9 7.2 36 138-186 36-71 (103)
131 cd04765 HTH_MlrA-like_sg2 Heli 30.3 27 0.00058 31.0 1.3 21 164-184 3-23 (99)
132 COG5570 Uncharacterized small 30.1 1.5E+02 0.0032 24.0 5.1 35 214-259 20-54 (57)
133 PRK13729 conjugal transfer pil 30.1 1.4E+02 0.0031 33.9 7.1 57 186-256 66-122 (475)
134 PF06156 DUF972: Protein of un 29.8 1.7E+02 0.0037 26.7 6.3 50 196-266 8-57 (107)
135 PF07334 IFP_35_N: Interferon- 28.9 62 0.0013 27.9 3.1 19 242-260 4-22 (76)
136 smart00340 HALZ homeobox assoc 28.1 56 0.0012 25.2 2.4 27 193-219 2-28 (44)
137 PF13936 HTH_38: Helix-turn-he 27.9 36 0.00077 25.7 1.4 40 138-182 2-41 (44)
138 KOG0288 WD40 repeat protein Ti 27.6 1.5E+02 0.0032 33.3 6.4 118 390-529 228-348 (459)
139 KOG3755 SATB1 matrix attachmen 27.2 18 0.00039 41.8 -0.5 44 150-193 708-758 (769)
140 cd04765 HTH_MlrA-like_sg2 Heli 26.9 1.4E+02 0.0029 26.5 5.1 62 138-217 36-97 (99)
141 KOG3156 Uncharacterized membra 25.8 2.1E+02 0.0045 29.4 6.7 47 194-260 92-138 (220)
142 PRK10884 SH3 domain-containing 25.4 2.3E+02 0.005 28.7 7.1 19 201-219 130-148 (206)
143 cd07824 SRPBCC_6 Ligand-bindin 25.1 5.2E+02 0.011 23.5 9.5 133 405-563 9-144 (146)
144 PRK09642 RNA polymerase sigma 25.0 90 0.002 28.9 3.9 48 141-193 107-154 (160)
145 PF08961 DUF1875: Domain of un 24.7 25 0.00053 36.0 0.0 33 197-250 130-162 (243)
146 KOG4005 Transcription factor X 24.6 1.7E+02 0.0036 30.6 5.8 29 337-365 215-243 (292)
147 PF10668 Phage_terminase: Phag 24.6 36 0.00078 28.0 0.9 20 162-181 23-42 (60)
148 KOG4571 Activating transcripti 24.6 2.1E+02 0.0046 30.5 6.8 20 240-259 257-276 (294)
149 PF13443 HTH_26: Cro/C1-type H 24.1 60 0.0013 25.5 2.1 29 163-191 12-40 (63)
150 PF08281 Sigma70_r4_2: Sigma-7 24.0 87 0.0019 23.9 3.0 39 141-184 11-49 (54)
151 PF15392 Joubert: Joubert synd 23.8 5.9E+02 0.013 27.6 9.9 27 393-419 240-268 (329)
152 COG3413 Predicted DNA binding 23.5 75 0.0016 31.7 3.2 38 140-177 155-194 (215)
153 PF05494 Tol_Tol_Ttg2: Toluene 23.2 81 0.0018 30.1 3.3 24 471-494 117-140 (170)
154 TIGR02051 MerR Hg(II)-responsi 23.2 4.6E+02 0.0099 23.9 8.1 68 137-217 34-104 (124)
155 PF00424 REV: REV protein (ant 22.7 84 0.0018 28.0 2.9 35 146-194 14-48 (91)
156 PF00196 GerE: Bacterial regul 22.4 70 0.0015 25.0 2.2 45 140-190 3-47 (58)
157 cd04781 HTH_MerR-like_sg6 Heli 22.3 5.2E+02 0.011 23.3 8.2 67 137-216 34-101 (120)
158 COG1675 TFA1 Transcription ini 22.0 99 0.0021 30.7 3.6 44 215-258 125-169 (176)
159 PRK10884 SH3 domain-containing 21.8 2.9E+02 0.0064 27.9 7.0 39 196-255 132-170 (206)
160 cd04783 HTH_MerR1 Helix-Turn-H 21.7 3.4E+02 0.0073 24.7 6.9 37 137-186 35-71 (126)
161 PRK12526 RNA polymerase sigma 21.6 1.1E+02 0.0024 30.0 3.9 47 141-192 154-200 (206)
162 cd04770 HTH_HMRTR Helix-Turn-H 21.4 4.8E+02 0.01 23.4 7.8 37 137-186 35-71 (123)
163 PRK09644 RNA polymerase sigma 21.2 1.2E+02 0.0025 28.4 3.8 49 140-193 108-156 (165)
164 PF07106 TBPIP: Tat binding pr 20.9 2.3E+02 0.005 27.2 5.9 70 178-259 56-130 (169)
165 KOG0249 LAR-interacting protei 20.9 4.6E+02 0.01 31.6 9.0 22 238-259 237-258 (916)
166 TIGR02209 ftsL_broad cell divi 20.5 2.8E+02 0.0061 23.2 5.7 51 187-266 22-72 (85)
167 PF07989 Microtub_assoc: Micro 20.3 2.6E+02 0.0057 23.8 5.4 58 197-260 8-65 (75)
168 PRK13169 DNA replication intia 20.1 3.9E+02 0.0084 24.6 6.7 47 197-264 9-55 (110)
No 1
>cd08875 START_ArGLABRA2_like C-terminal lipid-binding START domain of the Arabidopsis homeobox protein GLABRA 2 and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of the Arabidopsis homeobox protein GLABRA 2 and related proteins. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Most proteins in this subgroup contain an N-terminal homeobox DNA-binding domain, some contain a leucine zipper. ArGLABRA2 plays a role in the differentiation of hairless epidermal cells of the Arabidopsis root. It acts in a cell-position-dependent manner to suppress root hair formation in those cells.
Probab=100.00 E-value=4e-96 Score=729.12 Aligned_cols=229 Identities=61% Similarity=1.029 Sum_probs=221.1
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHh
Q 007770 337 RSMFLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETL 416 (590)
Q Consensus 337 k~~~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~l 416 (590)
|++|+|||++||+||++|||+++|||+++.+++ +|+||+|||.++|++..|.++.||++|||||||+|+||+.+|||+|
T Consensus 1 k~~~~~lA~~am~Ell~~a~~~~plWi~~~~~~-~~~l~~dey~~~f~~~~~~~~~~~~~eASR~~glV~m~~~~lVe~l 79 (229)
T cd08875 1 KSGLLELAEEAMDELLKLAQGGEPLWIKSPGMK-PEILNPDEYERMFPRHGGSKPGGFTTEASRACGLVMMNAIKLVEIL 79 (229)
T ss_pred ChHHHHHHHHHHHHHHHHhccCCCCceecCCCC-ccccCHHHHhhcccCcCCCCCCCCeEEEEeeeEEEecCHHHHHHHH
Confidence 578999999999999999999999999998877 6999999999999999999999999999999999999999999999
Q ss_pred cChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCccC
Q 007770 417 MDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRE 496 (590)
Q Consensus 417 mD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~ 496 (590)
||+++|.+|||+||++|+|++||++|.+|++||+|||||+|||+||||||+|||||||||||++||+|||||||+|..+.
T Consensus 80 mD~~kW~~~Fp~iv~~a~tl~vistg~~g~~~G~lqlmyael~~pSpLVp~Re~~fLRyc~~l~dG~w~VvdvSld~~~~ 159 (229)
T cd08875 80 MDVNKWSELFPGIVSKAKTLQVISTGNGGNRNGTLQLMYAELQVPSPLVPTREFYFLRYCKQLEDGLWAVVDVSIDGVQT 159 (229)
T ss_pred hChhhhhhhhhhhcceeeEEEEeeCCCCCCCCceehhhhhhcccCcccccCCeEEEEEEEEEeCCCeEEEEEEeeccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998753
Q ss_pred CCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 497 TSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 497 ~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
.+..+.++||||+|||||||||+|||||||||||+|||++.+|.+||+|++||+||||+||+++||||||
T Consensus 160 ~p~~~~~~r~~~~PSGcLIq~~~nG~SkVtwVeH~e~d~~~~~~l~~~l~~sg~AfgA~rw~a~lqRqce 229 (229)
T cd08875 160 APPPASFVRCRRLPSGCLIQDMPNGYSKVTWVEHVEVDEKPVHLLYRYLVSSGLAFGATRWVATLQRQCE 229 (229)
T ss_pred CCCCCCccEEEEecCcEEEEECCCCceEEEEEEEEeccCCcccccchhhhhhhHHHHHHHHHHHHHHhcC
Confidence 3434458999999999999999999999999999999999999999999999999999999999999998
No 2
>PF01852 START: START domain; InterPro: IPR002913 START (StAR-related lipid-transfer) is a lipid-binding domain in StAR, HD-ZIP and signalling proteins []. StAR (Steroidogenic Acute Regulatory protein) is a mitochondrial protein that is synthesised in response to luteinising hormone stimulation []. Expression of the protein in the absence of hormone stimulation is sufficient to induce steroid production, suggesting that this protein is required in the acute regulation of steroidogenesis. Representatives of the START domain family have been shown to bind different ligands such as sterols (StAR protein) and phosphatidylcholine (PC-TP). Ligand binding by the START domain can also regulate the activities of other domains that co-occur with the START domain in multidomain proteins such as Rho-gap, the homeodomain, and the thioesterase domain [, ]. The crystal structure of START domain of human MLN64 shows an alpha/beta fold built around an U-shaped incomplete beta-barrel. Most importantly, the interior of the protein encompasses a 26 x 12 x 11 Angstroms hydrophobic tunnel that is apparently large enough to bind a single cholesterol molecule []. The START domain structure revealed an unexpected similarity to that of the birch pollen allergen Bet v 1 and to bacterial polyketide cyclases/aromatases [, ]. ; PDB: 1JSS_B 2R55_B 1LN3_B 1LN1_A 1LN2_B 3FO5_A 2Z9Y_A 2E3R_A 3H3Q_B 2E3P_B ....
Probab=99.76 E-value=3.6e-18 Score=165.80 Aligned_cols=205 Identities=23% Similarity=0.341 Sum_probs=169.4
Q ss_pred HHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcChh-
Q 007770 342 ELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDPN- 420 (590)
Q Consensus 342 elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~~- 420 (590)
|+|.++|.+++++++.++.-|....+.. +.+.|.+..+... +..+..-|..++|.....++|+.|+|..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~W~~~~~~~-----~~~~~~~~~~~~~-----~~~~~~~k~~~~v~~~~~~~~~~~~~~~~ 70 (206)
T PF01852_consen 1 ELAEELMQEELALAQEDEDGWKLYKDKK-----NGDVYYKKVSPSD-----SCPIKMFKAEGVVPASPEQVVEDLLDDRE 70 (206)
T ss_dssp -HHHHHHHHHHHHHHHTCTTCEEEEEET-----TTCEEEEEEECSS-----STSCEEEEEEEEESSCHHHHHHHHHCGGG
T ss_pred CHHHHHHHHHHHHhhcCCCCCeEeEccC-----CCeEEEEEeCccc-----cccceEEEEEEEEcCChHHHHHHHHhhHh
Confidence 6899999999999999999998865211 1122333332211 1366788999999999999999999988
Q ss_pred hhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCccCCCCC
Q 007770 421 RWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRETSGA 500 (590)
Q Consensus 421 ~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~~~ 500 (590)
+|-.++- .+..++.|+.+ ..|..++.++..++|+.| |||.++|++++..+|.|+|+..|+|.-...+..
T Consensus 71 ~Wd~~~~----~~~~le~~~~~------~~i~~~~~~~~~~~p~~~-RDfv~~~~~~~~~~~~~~i~~~Si~~~~~~~~~ 139 (206)
T PF01852_consen 71 QWDKMCV----EAEVLEQIDED------TDIVYFVMKSPWPGPVSP-RDFVFLRSWRKDEDGTYVIVSRSIDHPQYPPNS 139 (206)
T ss_dssp HHSTTEE----EEEEEEEEETT------EEEEEEEEE-CTTTTSSE-EEEEEEEEEEECTTSEEEEEEEEEEBTTSSTT-
T ss_pred hcccchh----hheeeeecCCC------CeEEEEEecccCCCCCCC-cEEEEEEEEEEeccceEEEEEeeeccccccccc
Confidence 8998855 57888888865 578888889999999999 999999999999999999999999865433212
Q ss_pred CCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHHH
Q 007770 501 PAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCEC 567 (590)
Q Consensus 501 ~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCEr 567 (590)
+.++|+..++||++|++.++|.|+||+|-|++..-+...-+++.++.+++.--++.+.+.|++|+++
T Consensus 140 ~~~VR~~~~~s~~~i~~~~~~~~~vt~~~~~D~~G~iP~~~~n~~~~~~~~~~~~~~~~~~~~~~~~ 206 (206)
T PF01852_consen 140 KGYVRAEILISGWVIRPLGDGRTRVTYVSQVDPKGWIPSWLVNMVVKSQPPNFLKNLRKALKKQKKC 206 (206)
T ss_dssp TTSEEEEEESEEEEEEEETTCEEEEEEEEEEESSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHCCT-
T ss_pred cCcceeeeeeEeEEEEEccCCCceEEEEEEECCCCCChHHHHHHHHHHhHHHHHHHHHHHHHHhccC
Confidence 3489999999999999999999999999999999988999999999999999999999999999874
No 3
>smart00234 START in StAR and phosphatidylcholine transfer protein. putative lipid-binding domain in StAR and phosphatidylcholine transfer protein
Probab=99.71 E-value=1.9e-16 Score=154.11 Aligned_cols=202 Identities=34% Similarity=0.526 Sum_probs=153.1
Q ss_pred HHHHHHHHHHHhhcCCCCCeeeccC--CCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhh-HHHHhcCh
Q 007770 343 LALAAMDELVKMAQTDEPLWIRSFE--GSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLA-LVETLMDP 419 (590)
Q Consensus 343 lA~~Am~El~~ma~~~eplWi~~~~--~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~-LVe~lmD~ 419 (590)
-|+.++.|+++++..++..|....+ .+ ..|.+.+ .+.+....+-|..++|...+.+ ++++|+|.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~W~~~~~~~~~-------~~~~~~~------~~~~~~~~~~k~~~~v~~~~~~~~~~~~~d~ 68 (206)
T smart00234 2 VAEEAAAELLKMAAASEPGWVLSSENENG-------DEVRSIL------SPGRSPGEASRAVGVVPMVCADLVEELMDDL 68 (206)
T ss_pred hHHHHHHHHHHHhhCCCCccEEccccCCc-------ceEEEEc------cCCCCceEEEEEEEEEecChHHHHHHHHhcc
Confidence 3678889999999999999998764 22 1111211 1223567899999999999997 55666665
Q ss_pred hhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCccCCCC
Q 007770 420 NRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRETSG 499 (590)
Q Consensus 420 ~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~~ 499 (590)
.+...+-..+..+.+++.++.+ ..|......+.. +| |..|||.++|++++.++|.|+|+..|++.-.. +.
T Consensus 69 -~~r~~Wd~~~~~~~~ie~~~~~------~~i~~~~~~~~~-~p-~~~RDfv~~r~~~~~~~~~~vi~~~Sv~~~~~-p~ 138 (206)
T smart00234 69 -RYRPEWDKNVAKAETLEVIDNG------TVIYHYVSKFVA-GP-VSPRDFVFVRYWRELVDGSYAVVDVSVTHPTS-PP 138 (206)
T ss_pred -cchhhCchhcccEEEEEEECCC------CeEEEEEEeccc-Cc-CCCCeEEEEEEEEEcCCCcEEEEEEECCCCCC-CC
Confidence 3333333334568888888754 233333333333 35 45599999999999999999999999986432 11
Q ss_pred CCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHHH
Q 007770 500 APAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCEC 567 (590)
Q Consensus 500 ~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCEr 567 (590)
.+.++|...++||++|+++++|.|+|||+.|++..-+..+-|.+.++.++....+++|.+.|+++|++
T Consensus 139 ~~~~VR~~~~~~~~~i~p~~~~~t~vt~~~~~D~~G~iP~~lvn~~~~~~~~~~~~~~~~~~~~~~~~ 206 (206)
T smart00234 139 TSGYVRAENLPSGLLIEPLGNGPSKVTWVSHADLKGWLPHWLVRSLIKSGLAEFAKTWVATLQKHCAK 206 (206)
T ss_pred CCCceEEEEeceEEEEEECCCCCeEEEEEEEEecCCCccceeehhhhhhhHHHHHHHHHHHHHHHhcC
Confidence 23479999999999999999999999999999999887889999999999999999999999999974
No 4
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.71 E-value=1.1e-17 Score=172.91 Aligned_cols=69 Identities=32% Similarity=0.425 Sum_probs=63.1
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhh
Q 007770 130 DNPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHEN 198 (590)
Q Consensus 130 ~~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~ 198 (590)
...+|||+|..|+..|+.+||+.|+.++|++..+|+.||+.|+|++.||||||||||.|.||+++.++.
T Consensus 149 ~~~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~~ 217 (307)
T KOG0842|consen 149 GKRKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKAL 217 (307)
T ss_pred ccccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhhh
Confidence 355677888899999999999999999999999999999999999999999999999999998766543
No 5
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.68 E-value=3.8e-17 Score=160.41 Aligned_cols=79 Identities=33% Similarity=0.512 Sum_probs=74.2
Q ss_pred CCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhhhHHHHhhHHHHhhhhhHH
Q 007770 138 YHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHENSLLRQENDKLRAENMSIR 216 (590)
Q Consensus 138 RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~~L~~en~~l~ 216 (590)
+.|||.+|+..||..|+...++.+.++..||++|||.+|||++||||||||||.++.+.++..|+.+.+.|+.+|.+|+
T Consensus 54 k~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~Lk~~~~~l~~~~~~Lq 132 (198)
T KOG0483|consen 54 KRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESLKRQLESLRSENDRLQ 132 (198)
T ss_pred cccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhhhhHHH
Confidence 3469999999999999999999999999999999999999999999999999999999999999999999999865544
No 6
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.66 E-value=7.6e-17 Score=168.51 Aligned_cols=66 Identities=36% Similarity=0.473 Sum_probs=62.1
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHH
Q 007770 130 DNPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLER 195 (590)
Q Consensus 130 ~~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r 195 (590)
..+|+||.|+.||..|+..||+.|++.+|++..+|.+||++|||+..|||+||||||+||||+..+
T Consensus 168 ~pkK~RksRTaFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a~ 233 (309)
T KOG0488|consen 168 TPKKRRKSRTAFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQTAE 233 (309)
T ss_pred CCcccccchhhhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHHHh
Confidence 347778889999999999999999999999999999999999999999999999999999998765
No 7
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.65 E-value=2.1e-16 Score=154.47 Aligned_cols=64 Identities=34% Similarity=0.443 Sum_probs=60.7
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
+.+|||.||.|+..|+..||..|+..+|++..+|..||++|.|++.||||||||||.||||+..
T Consensus 101 ~~RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~a 164 (268)
T KOG0485|consen 101 DDRKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQYA 164 (268)
T ss_pred ccccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHHh
Confidence 4578889999999999999999999999999999999999999999999999999999998764
No 8
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.62 E-value=2e-16 Score=161.96 Aligned_cols=65 Identities=34% Similarity=0.475 Sum_probs=60.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHh
Q 007770 132 PPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERH 196 (590)
Q Consensus 132 ~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~ 196 (590)
.+.||.|+.||..|+.+||+.|+.++|++...|.+||..|.|+++||||||||||+||||.++..
T Consensus 157 ~~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k~~ 221 (261)
T KOG0489|consen 157 GKSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKENKAK 221 (261)
T ss_pred CCCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhhccc
Confidence 45688899999999999999999999999999999999999999999999999999999866543
No 9
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.60 E-value=4.9e-15 Score=146.40 Aligned_cols=74 Identities=27% Similarity=0.355 Sum_probs=66.0
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhhh
Q 007770 126 LDAADNPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHENS 199 (590)
Q Consensus 126 ~~~~~~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~~ 199 (590)
.-.++.+|.||.||.|+.-||+.|.+.|++++|+-..+|.+||..|||+..||||||||||.|.||..+..+..
T Consensus 114 ~~Ngk~KK~RKPRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl~k~g~~~ 187 (245)
T KOG0850|consen 114 RPNGKGKKVRKPRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKLKKQGSGP 187 (245)
T ss_pred ccCCCcccccCCcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHHHhcCCCc
Confidence 33455677788999999999999999999999999999999999999999999999999999999988744433
No 10
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.59 E-value=6.7e-16 Score=147.50 Aligned_cols=64 Identities=34% Similarity=0.479 Sum_probs=61.3
Q ss_pred CCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHh
Q 007770 133 PRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERH 196 (590)
Q Consensus 133 kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~ 196 (590)
+.||.||.||.+|+..||..|+.++|-.-.+|++||+.|+|++.||||||||||+|.||++.+.
T Consensus 101 ~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~ 164 (197)
T KOG0843|consen 101 RPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED 164 (197)
T ss_pred CCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence 6688899999999999999999999999999999999999999999999999999999988775
No 11
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.58 E-value=2e-15 Score=156.48 Aligned_cols=65 Identities=38% Similarity=0.444 Sum_probs=59.8
Q ss_pred CCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHh
Q 007770 132 PPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERH 196 (590)
Q Consensus 132 ~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~ 196 (590)
++.||||.-+|+.|+.+||+.|..|.|++.+.|.+|++.|+|++|||||||||||+|+||..++.
T Consensus 233 ~~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~re~ 297 (308)
T KOG0487|consen 233 RRGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNREN 297 (308)
T ss_pred cccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhhhh
Confidence 45567777899999999999999999999999999999999999999999999999999987543
No 12
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.58 E-value=7.3e-15 Score=147.53 Aligned_cols=66 Identities=32% Similarity=0.415 Sum_probs=60.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhh
Q 007770 132 PPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHE 197 (590)
Q Consensus 132 ~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e 197 (590)
+.|-|.|.++|..|+.+||+.|..++|.++..+.+||.-|+|++|||||||||||+|+||.++++.
T Consensus 197 RTkDKYRvVYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~nKKk~ 262 (317)
T KOG0848|consen 197 RTKDKYRVVYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDNKKKR 262 (317)
T ss_pred ecccceeEEecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHHHHHH
Confidence 445567888999999999999999999999999999999999999999999999999998877654
No 13
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.57 E-value=6.9e-16 Score=135.50 Aligned_cols=65 Identities=31% Similarity=0.533 Sum_probs=60.0
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 130 DNPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 130 ~~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
..+|+||-|+.||..|+.+||+.|.+.+||+...|++||.++.|++.+|||||||||+|.|||.+
T Consensus 13 ekrKQRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQEr 77 (125)
T KOG0484|consen 13 EKRKQRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQER 77 (125)
T ss_pred HHHHhhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHHH
Confidence 34567788999999999999999999999999999999999999999999999999999997643
No 14
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.56 E-value=3.1e-15 Score=149.48 Aligned_cols=69 Identities=32% Similarity=0.451 Sum_probs=64.7
Q ss_pred CCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhhhHHHHhhH
Q 007770 138 YHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHENSLLRQEND 206 (590)
Q Consensus 138 RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~ 206 (590)
||.||..|+.+||+.|++.+||+...|+-||.++.|.+.+|+|||||||+||||+.++.-.....+++.
T Consensus 145 RTiFT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~wg~sT~maeyg 213 (332)
T KOG0494|consen 145 RTIFTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKRWGGSTIMAEYG 213 (332)
T ss_pred cchhhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhhcCcchhhhhhc
Confidence 788999999999999999999999999999999999999999999999999999999888777776654
No 15
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.51 E-value=1.7e-14 Score=140.51 Aligned_cols=63 Identities=40% Similarity=0.512 Sum_probs=58.9
Q ss_pred CCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 132 PPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 132 ~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
+..||.|+-||..|+..||+.|++.+|++..+|.+++..|.|++.||||||||||+|.||.++
T Consensus 142 k~nRkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQe 204 (246)
T KOG0492|consen 142 KPNRKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQE 204 (246)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHHH
Confidence 344778999999999999999999999999999999999999999999999999999998765
No 16
>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=99.50 E-value=1.7e-14 Score=113.93 Aligned_cols=57 Identities=47% Similarity=0.737 Sum_probs=54.7
Q ss_pred CCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHH
Q 007770 135 KKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKT 191 (590)
Q Consensus 135 Kr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr 191 (590)
||+|++||.+|+..||..|..++||+..++..||.+|||+..||++||||||+++|+
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 567889999999999999999999999999999999999999999999999999985
No 17
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.48 E-value=2.6e-14 Score=140.72 Aligned_cols=67 Identities=30% Similarity=0.513 Sum_probs=62.9
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHh
Q 007770 130 DNPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERH 196 (590)
Q Consensus 130 ~~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~ 196 (590)
..+|.||.||+||..|+++||.+|.+..||+...|++||.+|+|.+-+|||||+|||+|+|++++.+
T Consensus 33 ~pRkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~qq 99 (228)
T KOG2251|consen 33 GPRKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQQQQ 99 (228)
T ss_pred cchhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhhhhh
Confidence 3567789999999999999999999999999999999999999999999999999999999887654
No 18
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.38 E-value=2.6e-13 Score=135.96 Aligned_cols=59 Identities=36% Similarity=0.580 Sum_probs=55.9
Q ss_pred CCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 135 KKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 135 Kr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
||.|+.||.+|++.|...|++++|++...|++||.+|+|.+.||||||||+|+|.||..
T Consensus 247 KRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsT 305 (342)
T KOG0493|consen 247 KRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKST 305 (342)
T ss_pred cCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhcc
Confidence 56788899999999999999999999999999999999999999999999999999744
No 19
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.34 E-value=8.9e-13 Score=103.23 Aligned_cols=55 Identities=45% Similarity=0.786 Sum_probs=51.7
Q ss_pred CCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHH
Q 007770 136 KRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMK 190 (590)
Q Consensus 136 r~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~K 190 (590)
+.|++|+.+|+..||..|..++||+..++.+||.++||+..||+.||+|||.+.|
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 4567799999999999999999999999999999999999999999999998864
No 20
>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=99.33 E-value=1.3e-12 Score=102.84 Aligned_cols=57 Identities=47% Similarity=0.818 Sum_probs=53.5
Q ss_pred CCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHH
Q 007770 136 KRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQ 192 (590)
Q Consensus 136 r~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~ 192 (590)
+.+..++.+|+..||..|..++||+..++..||.++||+++||+.||+|||.+.|+.
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 456689999999999999999999999999999999999999999999999998853
No 21
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.32 E-value=2.6e-13 Score=128.18 Aligned_cols=65 Identities=34% Similarity=0.462 Sum_probs=60.6
Q ss_pred CCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhh
Q 007770 133 PRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHE 197 (590)
Q Consensus 133 kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e 197 (590)
+++|-|++|+..|+..||+.|+..+|++..+|.+||..|+|+++|||.||||||+|.||++++.+
T Consensus 99 ~r~K~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~r~~~ 163 (194)
T KOG0491|consen 99 RRRKARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQRNNQ 163 (194)
T ss_pred HhhhhcccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhccC
Confidence 45777899999999999999999999999999999999999999999999999999999876554
No 22
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.31 E-value=1.5e-12 Score=124.04 Aligned_cols=65 Identities=31% Similarity=0.488 Sum_probs=58.8
Q ss_pred CCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhh
Q 007770 134 RKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHEN 198 (590)
Q Consensus 134 kKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~ 198 (590)
.+++|+|.|.+|+.+|++.|+.++||+...|.+|+..|+|+++-||+||||||++.|++......
T Consensus 51 ~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~~~~~ 115 (156)
T COG5576 51 PKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGKVE 115 (156)
T ss_pred CcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhcccchh
Confidence 45566778999999999999999999999999999999999999999999999999987765443
No 23
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.31 E-value=1.9e-12 Score=132.91 Aligned_cols=62 Identities=31% Similarity=0.529 Sum_probs=58.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 132 PPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 132 ~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
.|+||.|+.||.+|+++||..|+++.||+...|++||...+|++.+|++||.|||+||||++
T Consensus 110 ~KqrrQrthFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrE 171 (351)
T KOG0486|consen 110 SKQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 171 (351)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhh
Confidence 46777889999999999999999999999999999999999999999999999999999643
No 24
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.29 E-value=1.1e-12 Score=133.98 Aligned_cols=65 Identities=31% Similarity=0.375 Sum_probs=59.9
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 130 DNPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 130 ~~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
....-||.||.||.+||..||+.|-+..|-+...|.+||..|+|.+.-|||||||||+|+|||..
T Consensus 177 a~dqmRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRl 241 (408)
T KOG0844|consen 177 ADDQMRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRL 241 (408)
T ss_pred ccHHHHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhh
Confidence 34456888999999999999999999999999999999999999999999999999999998654
No 25
>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=99.28 E-value=3.5e-12 Score=102.44 Aligned_cols=53 Identities=15% Similarity=0.378 Sum_probs=50.5
Q ss_pred CCCCCCCCCHHHHHHHHHhhhcCCC----CCHHHHHHHHHHcCCCccchhcccchhh
Q 007770 134 RKKRYHRHTPQQIQELESLFKECPH----PDEKQRLELSKRLCLETRQVKFWFQNRR 186 (590)
Q Consensus 134 kKr~RtrfT~~Ql~~LE~~F~~~~~----Ps~~~R~~LA~~LgLs~rQVkvWFQNRR 186 (590)
+||.||.||.+|+..||..|..++| |+...+.+||.+|||++++||+||||-+
T Consensus 1 ~kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN~k 57 (58)
T TIGR01565 1 KKRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHNNK 57 (58)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCCCHHHeeeecccCC
Confidence 4778999999999999999999999 9999999999999999999999999964
No 26
>cd00177 START Lipid-binding START domain of mammalian STARD1-STARD15 and related proteins. This family includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, and related domains, such as the START domain of the Arabidopsis homeobox protein GLABRA 2. The mammalian STARDs are grouped into 8 subfamilies. This family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. For some members of this family, specific lipids that bind in this pocket are known; these include cholesterol (STARD1/STARD3/ STARD4/STARD5), 25-hydroxycholesterol (STARD5), phosphatidylcholine (STARD2/ STARD7/STARD10), phosphatidylethanolamine (STARD10) and ceramides (STARD11). The START domain is found either alone or in association with other domains. Mammalian STARDs participate in the control of various cellular pro
Probab=99.22 E-value=1.8e-10 Score=109.30 Aligned_cols=190 Identities=18% Similarity=0.252 Sum_probs=138.8
Q ss_pred HHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcChhhhhhh
Q 007770 346 AAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDPNRWAEM 425 (590)
Q Consensus 346 ~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~~~W~~~ 425 (590)
.|..+++.+.+.+ .-|-...+.+ +..-|.+.++.. ...+-|..++|-.++.+++++|+|.+....-
T Consensus 2 ~~~~~~~~~~~~~-~~W~~~~~~~-----~v~vy~~~~~~~--------~~~~~k~~~~i~~~~~~v~~~l~d~~~~~~w 67 (193)
T cd00177 2 EAIEELLELLEEP-EGWKLVKEKD-----GVKIYTKPYEDS--------GLKLLKAEGVIPASPEQVFELLMDIDLRKKW 67 (193)
T ss_pred hHHHHHhhccccC-CCeEEEEECC-----cEEEEEecCCCC--------CceeEEEEEEECCCHHHHHHHHhCCchhhch
Confidence 4567788887766 6798765432 112244443221 2357788999999999999999995433332
Q ss_pred cccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCccCCCCCCCccc
Q 007770 426 FPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRETSGAPAFVN 505 (590)
Q Consensus 426 Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~~~~~~~~ 505 (590)
.+ .+.++..++.++.+ .+++|..+..+.| +..|||.++|++.+.++|.++|+..|+|.-. .+..+.++|
T Consensus 68 ~~-~~~~~~vl~~~~~~--------~~i~~~~~~~p~p-~~~Rdfv~~~~~~~~~~~~~~~~~~Si~~~~-~p~~~~~vR 136 (193)
T cd00177 68 DK-NFEEFEVIEEIDEH--------TDIIYYKTKPPWP-VSPRDFVYLRRRRKLDDGTYVIVSKSVDHDS-HPKEKGYVR 136 (193)
T ss_pred hh-cceEEEEEEEeCCC--------eEEEEEEeeCCCc-cCCccEEEEEEEEEcCCCeEEEEEeecCCCC-CCCCCCcEE
Confidence 23 24445666655432 6889999999999 9999999999999999999999999999741 122224799
Q ss_pred eeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHH
Q 007770 506 CRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQ 564 (590)
Q Consensus 506 ~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRq 564 (590)
++.+++|++|+++++|.|+||++-|++..-+.. ..++++.+...+..++.-++.+
T Consensus 137 ~~~~~~~~~i~~~~~~~~~vt~~~~~D~~g~iP----~~~~~~~~~~~~~~~~~~~~~~ 191 (193)
T cd00177 137 AEIKLSGWIIEPLDPGKTKVTYVLQVDPKGSIP----KSLVNSAAKKQLASFLKDLRKA 191 (193)
T ss_pred EEEEccEEEEEECCCCCEEEEEEEeeCCCCCcc----HHHHHhhhhhccHHHHHHHHHh
Confidence 999999999999999999999999998875433 4466666677777777766653
No 27
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.21 E-value=6.8e-12 Score=132.95 Aligned_cols=63 Identities=25% Similarity=0.411 Sum_probs=59.2
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
..|||||||.|+...+..||++|.+|++|+..++..||.+|+|++..|+|||+|||.|+||..
T Consensus 291 ~~RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~~ 353 (398)
T KOG3802|consen 291 QSRKRKKRTSIEVNVRGALEKHFLKNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRIT 353 (398)
T ss_pred cccccccccceeHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccceEEEEeeccccccccCC
Confidence 347888999999999999999999999999999999999999999999999999999999743
No 28
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.18 E-value=8.8e-12 Score=122.46 Aligned_cols=64 Identities=34% Similarity=0.493 Sum_probs=59.4
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
..++|..|..|+..|+..||..|+..+|+-..+|.+||..+|+++.||+|||||||+||||+..
T Consensus 164 dG~rk~srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkhA 227 (288)
T KOG0847|consen 164 NGQRKQSRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKHA 227 (288)
T ss_pred CccccccCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhhc
Confidence 4566777888999999999999999999999999999999999999999999999999998764
No 29
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.15 E-value=4.3e-11 Score=121.63 Aligned_cols=73 Identities=27% Similarity=0.407 Sum_probs=65.7
Q ss_pred CCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhhhHHHHhhH
Q 007770 134 RKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHENSLLRQEND 206 (590)
Q Consensus 134 kKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~ 206 (590)
.||.||.+|..|++.|...|+..++|-...|++|+.++||.-|.|||||||||+|+||.++..-...+-|-..
T Consensus 167 nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDAGR~RWgqyfr 239 (383)
T KOG4577|consen 167 NKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDAGRTRWGQYFR 239 (383)
T ss_pred cCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHhhhhhcchhHHHHHHH
Confidence 4788999999999999999999999999999999999999999999999999999999887766666655443
No 30
>cd08871 START_STARD10-like Lipid-binding START domain of mammalian STARD10 and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD10 (also known as CGI-52, PTCP-like, and SDCCAG28). The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD10 binds phophatidylcholine and phosphatidylethanolamine. This protein is widely expressed and is synthesized constitutively in many organs. It may function in the liver in the export of phospholipids into bile. It is concentrated in the sperm flagellum, and may play a role in energy metabolism. In the mammary gland it may participate in the enrichment of lipids in milk, and be a potential marker of differentiation. Its expression is induced in this gland during gestation and lactation. It is overe
Probab=99.03 E-value=7.4e-09 Score=103.25 Aligned_cols=200 Identities=13% Similarity=0.188 Sum_probs=146.4
Q ss_pred HHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeE-EechhhHHHHhcCh---hh
Q 007770 346 AAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMV-IINSLALVETLMDP---NR 421 (590)
Q Consensus 346 ~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV-~m~~~~LVe~lmD~---~~ 421 (590)
..+++|+.++..+ .-|-...+.. . .++|.+.. .+...-.-|..+++ -..+..+.+.|+|. .+
T Consensus 10 ~~~~~~~~~~~~~-~~W~~~~~~~--g-------i~iy~r~~----~~~~~~~~k~~~~~~~~s~e~~~~~l~D~~~r~~ 75 (222)
T cd08871 10 ADFEEFKKLCDST-DGWKLKYNKN--N-------VKVWTKNP----ENSSIKMIKVSAIFPDVPAETLYDVLHDPEYRKT 75 (222)
T ss_pred HHHHHHHHHhcCC-CCcEEEEcCC--C-------eEEEEeeC----CCCceEEEEEEEEeCCCCHHHHHHHHHChhhhhh
Confidence 7788999999654 4797764432 1 23332221 22223345666655 46888999999996 56
Q ss_pred hhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCccCCCCCC
Q 007770 422 WAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRETSGAP 501 (590)
Q Consensus 422 W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~~~~ 501 (590)
|-..+ ..+..++.+.- ...++|..+..|-| |..|||.++|..+..+ |.++|+..|++.-. .+...
T Consensus 76 Wd~~~----~e~~~ie~~d~--------~~~i~y~~~~~P~p-vs~RDfV~~r~~~~~~-~~~vi~~~sv~~~~-~P~~~ 140 (222)
T cd08871 76 WDSNM----IESFDICQLNP--------NNDIGYYSAKCPKP-LKNRDFVNLRSWLEFG-GEYIIFNHSVKHKK-YPPRK 140 (222)
T ss_pred hhhhh----ceeEEEEEcCC--------CCEEEEEEeECCCC-CCCCeEEEEEEEEeCC-CEEEEEeccccCCC-CCCCC
Confidence 66652 23566666642 23778888888888 8999999999988766 88899999987432 12223
Q ss_pred CccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHHHHHHHhccCCCC
Q 007770 502 AFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCECLAILMSTSVSA 578 (590)
Q Consensus 502 ~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCErla~l~~~~i~~ 578 (590)
.++|.....+|++|++++++.|+|||+-|++.--+ ++.- |++..+.-.+-.+|..|+++|+.+.-.++.+-|.
T Consensus 141 g~VR~~~~~~g~~i~p~~~~~t~vt~~~~~Dp~G~-IP~~---lvN~~~~~~~~~~l~~l~k~~~~y~~~~~~~~~~ 213 (222)
T cd08871 141 GFVRAISLLTGYLIRPTGPKGCTLTYVTQNDPKGS-LPKW---VVNKATTKLAPKVMKKLHKAALKYPEWKAKNNPE 213 (222)
T ss_pred CeEEeEEEccEEEEEECCCCCEEEEEEEecCCCCC-cCHH---HHHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 47999999999999999888999999999987644 5543 6777777778899999999999999999887664
No 31
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.96 E-value=3.2e-10 Score=112.37 Aligned_cols=64 Identities=27% Similarity=0.326 Sum_probs=59.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
..++|+.|+.|+..|+++||+.|++.+||+...|+.||..+++++..|++||||||+||+++..
T Consensus 57 ~~~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~~ 120 (235)
T KOG0490|consen 57 KFSKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEER 120 (235)
T ss_pred hccccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhhc
Confidence 3466778889999999999999999999999999999999999999999999999999997654
No 32
>cd08868 START_STARD1_3_like Cholesterol-binding START domain of mammalian STARD1, -3 and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD1 (also known as StAR) and STARD3 (also known as metastatic lymph node 64/MLN64). The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. This STARD1-like subfamily has a high affinity for cholesterol. STARD1/StAR can reduce macrophage lipid content and inflammatory status. It plays an essential role in steroidogenic tissues: transferring the steroid precursor, cholesterol, from the outer to the inner mitochondrial membrane, across the aqueous space. Mutations in the gene encoding STARD1/StAR can cause lipid congenital adrenal hyperplasia (CAH), an autosomal recessive disorder characterized by a steroid synth
Probab=98.90 E-value=2e-08 Score=99.22 Aligned_cols=196 Identities=15% Similarity=0.223 Sum_probs=135.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHH-hcC
Q 007770 340 FLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVET-LMD 418 (590)
Q Consensus 340 ~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~-lmD 418 (590)
...++..|++|++.+.. ++-|-...+.. +...+|.+.. .| ..-.-|..++|-.++..+++. |+|
T Consensus 6 y~~~~~~~~~~~~~~~~--~~~W~l~~~~~--------~~i~i~~r~~----~~-~~~~~k~~~~i~~~~~~v~~~l~~d 70 (208)
T cd08868 6 YLKQGAEALARAWSILT--DPGWKLEKNTT--------WGDVVYSRNV----PG-VGKVFRLTGVLDCPAEFLYNELVLN 70 (208)
T ss_pred HHHHHHHHHHHHHHHhc--CCCceEEEecC--------CCCEEEEEEc----CC-CceEEEEEEEEcCCHHHHHHHHHcC
Confidence 57888999999999954 55897654321 1123332221 11 114578889999999998764 556
Q ss_pred h---hhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhcc-ccccccceeeEEeeeeeecCCeEEEEEEeccCc
Q 007770 419 P---NRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVL-SPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTI 494 (590)
Q Consensus 419 ~---~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvl-SPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~ 494 (590)
. .+|-..| ..+..++.+.. ...++|.-+.-+ .++|..|||.++|+.++.+ +.++|+..|++.-
T Consensus 71 ~~~~~~Wd~~~----~~~~~i~~~d~--------~~~i~y~~~~~~~~~~vs~RDfV~~r~~~~~~-~~~~i~~~sv~h~ 137 (208)
T cd08868 71 VESLPSWNPTV----LECKIIQVIDD--------NTDISYQVAAEAGGGLVSPRDFVSLRHWGIRE-NCYLSSGVSVEHP 137 (208)
T ss_pred ccccceecCcc----cceEEEEEecC--------CcEEEEEEecCcCCCcccccceEEEEEEEecC-CeEEEEEEeccCC
Confidence 4 5676662 22455555542 224555323222 3589999999999999866 7799999998732
Q ss_pred cCCCCCCCccceeecCCCceeeecCC--CceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHHHH
Q 007770 495 RETSGAPAFVNCRRLPSGCVVQDMPN--GYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCECL 568 (590)
Q Consensus 495 ~~~~~~~~~~~~rr~PSGclIqd~~n--G~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCErl 568 (590)
. .+..+.++|....++|++|+++++ +.|+|||+-|++.-- .++.- |+++.+.-+.-.|+..|+++|+-|
T Consensus 138 ~-~P~~~g~VR~~~~~~~~~i~p~~~~~~~t~v~~~~~~Dp~G-~iP~~---lvN~~~~~~~~~~~~~Lr~~~~~~ 208 (208)
T cd08868 138 A-MPPTKNYVRGENGPGCWILRPLPNNPNKCNFTWLLNTDLKG-WLPQY---LVDQALASVLLDFMKHLRKRIATL 208 (208)
T ss_pred C-CCCCCCeEEEeccccEEEEEECCCCCCceEEEEEEEECCCC-CCcce---eeehhhHHHHHHHHHHHHHHHhhC
Confidence 1 121234899999999999999987 689999999997663 35543 588888899999999999999854
No 33
>cd08867 START_STARD4_5_6-like Lipid-binding START domain of mammalian STARD4, -5, -6, and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD4, -5, and -6. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD4 plays an important role in steroidogenesis, trafficking cholesterol into mitochondria. It specifically binds cholesterol, and demonstrates limited binding to another sterol, 7a-hydroxycholesterol. STARD4 and STARD5 are ubiquitously expressed, with highest levels in liver and kidney. STRAD5 functions in the kidney within the proximal tubule cells where it is associated with the Endoplasmic Reticulum (ER), and may participate in ER-associated cholesterol transport. It binds cholesterol and 25-hydroxycholesterol. Expression
Probab=98.87 E-value=6.1e-08 Score=95.65 Aligned_cols=194 Identities=15% Similarity=0.194 Sum_probs=137.7
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcC-
Q 007770 340 FLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMD- 418 (590)
Q Consensus 340 ~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD- 418 (590)
+-.+|..|.+|++++.. .+.-|....+.. ..++|.+.. .++..-.-|..+.|..++.++++.|+|
T Consensus 3 ~~~~~~~~~~~~~~~~~-~~~~W~~~~~~~---------~i~v~~~~~----~~~~~~~~k~~~~i~~~~~~v~~~l~d~ 68 (206)
T cd08867 3 FKVIAEKLANEALQYIN-DTDGWKVLKTVK---------NITVSWKPS----TEFTGHLYRAEGIVDALPEKVIDVIIPP 68 (206)
T ss_pred HHHHHHHHHHHHHHHhc-CcCCcEEEEcCC---------CcEEEEecC----CCCCCEEEEEEEEEcCCHHHHHHHHHhc
Confidence 45788899999999987 447797754321 112232211 112222357788888899999999998
Q ss_pred ----hhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhc-cccccccceeeEEeeeeeecCCeEEEEEEeccC
Q 007770 419 ----PNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQV-LSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDT 493 (590)
Q Consensus 419 ----~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqv-lSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~ 493 (590)
..+|... +..+..++-|... ..++|-.+-- ..++|..|||.++||.++.++|.+.|+-+|++.
T Consensus 69 ~~~~r~~Wd~~----~~~~~~le~id~~--------~~i~~~~~p~~~~~~vs~RDfV~~~~~~~~~~~~~~i~~~Sv~h 136 (206)
T cd08867 69 CGGLRLKWDKS----LKHYEVLEKISED--------LCVGRTITPSAAMGLISPRDFVDLVYVKRYEDNQWSSSGKSVDI 136 (206)
T ss_pred Ccccccccccc----ccceEEEEEeCCC--------eEEEEEEccccccCccCCcceEEEEEEEEeCCCeEEEEEEeccC
Confidence 3678755 4557777777522 1345542211 135799999999999999999999999999864
Q ss_pred ccCCCCCCCccceeecCCCceeeecC--CCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHH
Q 007770 494 IRETSGAPAFVNCRRLPSGCVVQDMP--NGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQ 564 (590)
Q Consensus 494 ~~~~~~~~~~~~~rr~PSGclIqd~~--nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRq 564 (590)
-. .+..+.++|....++|++|++.+ ++.|+|||+-|++.-= .++ +-|+++.++=+.--|+..|+++
T Consensus 137 p~-~p~~~~~VR~~~~~~g~~i~p~~~~~~~t~~~~~~~~DpkG-~iP---~~lvn~~~~~~~~~~~~~lr~~ 204 (206)
T cd08867 137 PE-RPPTPGFVRGYNHPCGYFCSPLKGSPDKSFLVLYVQTDLRG-MIP---QSLVESAMPSNLVNFYTDLVKG 204 (206)
T ss_pred CC-CCCCCCcEEEEeecCEEEEEECCCCCCceEEEEEEEeccCC-CCc---HHHHHhhhhhhHHHHHHHHHHh
Confidence 42 22223479999999999999875 5789999999997652 344 5578888888888899998876
No 34
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.74 E-value=8e-09 Score=110.53 Aligned_cols=63 Identities=32% Similarity=0.539 Sum_probs=58.4
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
.++.+|.|+.|+..|+..||+.|+.++||+...|++||+++++++..|++||+|||+|++|+.
T Consensus 173 ~~~~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~ 235 (354)
T KOG0849|consen 173 QRGGRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQH 235 (354)
T ss_pred cccccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhcc
Confidence 455566788999999999999999999999999999999999999999999999999999765
No 35
>cd08904 START_STARD6-like Lipid-binding START domain of mammalian STARD6 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD6 and related domains. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD6 is expressed in male germ cells of normal rats, and in the steroidogenic Leydig cells of perinatal hypothyroid testes. It may play a pivotal role in the steroidogenesis as well as in the spermatogenesis of normal rats. STARD6 has also been detected in the rat nervous system, and may participate in neurosteroid synthesis.
Probab=98.65 E-value=5e-07 Score=89.95 Aligned_cols=171 Identities=16% Similarity=0.185 Sum_probs=122.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcCh
Q 007770 340 FLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDP 419 (590)
Q Consensus 340 ~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~ 419 (590)
...|+.+|++|++++-+ +.--|-.-.++. ..+ ++.+. ...+..---|..|+|-.++.+|+|.|.|.
T Consensus 3 ~~~~~~~~~~~~l~~~~-~~~gWk~~k~~~-~~~--------v~~k~----~~~~~gkl~k~egvi~~~~e~v~~~l~~~ 68 (204)
T cd08904 3 FKKIAQETSQEVLGYSR-DTSGWKVVKTSK-KIT--------VSWKP----SRKYHGNLYRVEGIIPESPAKLIQFMYQP 68 (204)
T ss_pred HHHHHHHHHHHHHhhhh-cccCCeEEecCC-ceE--------EEEEE----cCCCCceEEEEEEEecCCHHHHHHHHhcc
Confidence 35789999999999987 567897654332 111 11111 12333356788999999999999999987
Q ss_pred hhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhh-ccccccccceeeEEeeeeeecCCeEEEEEEeccCccCCC
Q 007770 420 NRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQ-VLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRETS 498 (590)
Q Consensus 420 ~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElq-vlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~ 498 (590)
+...+-=+ .+..+..++-|... ..+.|.-++ .+-++|-+|||..+||.++..+|.++|..+|++.-.- |
T Consensus 69 e~r~~Wd~-~~~~~~iie~Id~~--------T~I~~~~~~~~~~~~vspRDfV~vr~~~r~~~~~~ii~~~sv~Hp~~-P 138 (204)
T cd08904 69 EHRIKWDK-SLQVYKMLQRIDSD--------TFICHTITQSFAMGSISPRDFVDLVHIKRYEGNMNIVSSVSVEYPQC-P 138 (204)
T ss_pred chhhhhcc-cccceeeEEEeCCC--------cEEEEEecccccCCcccCceEEEEEEEEEeCCCEEEEEEEecccCCC-C
Confidence 64443222 44556666666522 245554432 4557899999999999999999999999999874321 2
Q ss_pred CCCCccceeecCCCceeeecCCC--ceeEEEEEeeeec
Q 007770 499 GAPAFVNCRRLPSGCVVQDMPNG--YSKVTWVEHAEYD 534 (590)
Q Consensus 499 ~~~~~~~~rr~PSGclIqd~~nG--~skVtWVeH~e~d 534 (590)
..+.++|+.-.|+||+|++.+++ +|++||+-+++..
T Consensus 139 p~~g~VRa~n~~~G~~i~pl~~~p~~t~l~~~~~~Dlk 176 (204)
T cd08904 139 PSSNYIRGYNHPCGYVCSPLPENPAYSKLVMFVQPELR 176 (204)
T ss_pred CCCCcEEEeeeccEEEEEECCCCCCceEEEEEEEeCCC
Confidence 12348999999999999999874 8999999996654
No 36
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.61 E-value=1.8e-08 Score=102.81 Aligned_cols=62 Identities=23% Similarity=0.433 Sum_probs=57.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 132 PPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 132 ~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
..|||+||.+...+.+.||++|..++.|+.+....+|++|+|.+..|+|||+|.|+|.||.+
T Consensus 307 ~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKRm~ 368 (385)
T KOG1168|consen 307 GEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRMK 368 (385)
T ss_pred cccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHHhh
Confidence 34677888999999999999999999999999999999999999999999999999999743
No 37
>cd08903 START_STARD5-like Lipid-binding START domain of mammalian STARD5 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD5, and related domains. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD5 is ubiquitously expressed, with highest levels in liver and kidney. STARD5 functions in the kidney within the proximal tubule cells where it is associated with the Endoplasmic Reticulum (ER), and may participate in ER-associated cholesterol transport. It binds cholesterol and 25-hydroxycholesterol. Expression of the gene encoding STARD5 is increased by ER stress, and its mRNA and protein levels are elevated in a type I diabetic mouse model of human diabetic nephropathy.
Probab=98.46 E-value=3.9e-06 Score=83.48 Aligned_cols=192 Identities=14% Similarity=0.204 Sum_probs=128.5
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcCh
Q 007770 340 FLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDP 419 (590)
Q Consensus 340 ~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~ 419 (590)
..+++++|+++++.+-+ ++.-|-...+.. +.++|.+..... .| =.-|.-|+|-.++.+|++.|+|.
T Consensus 3 ~~~~~~~~~~~~l~~~~-~~~~W~~~~~~~---------~i~v~~~~~~~~-~~---~~~k~e~~i~~s~~~~~~~l~d~ 68 (208)
T cd08903 3 YAELAESVADKMLLYRR-DESGWKTCRRTN---------EVAVSWRPSAEF-AG---NLYKGEGIVYATLEQVWDCLKPA 68 (208)
T ss_pred HHHHHHHHHHHHHhhhc-cccCCEEEEcCC---------CEEEEeeecCCC-CC---cEEEEEEEecCCHHHHHHHHHhc
Confidence 36789999999999975 677897654331 223342311000 11 11678889999999999999976
Q ss_pred -----hhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhcccc---ccccceeeEEeeeeeecCCeEEEEEEec
Q 007770 420 -----NRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSP---LVPVREVNFLRFCKQHAEGVWAVVDVSI 491 (590)
Q Consensus 420 -----~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSP---LVP~Re~~flRyckq~~~g~WaVvDVS~ 491 (590)
.+|-..+ ..++-++-|... ..+.|. ..+.| +|-.|||..+|+.++.++|.++|.-.|+
T Consensus 69 ~~~~r~~W~~~~----~~~~vle~id~~--------~~i~~~--~~p~~~~~~vs~RDfV~~~~~~~~~d~~i~i~~~sv 134 (208)
T cd08903 69 AGGLRVKWDQNV----KDFEVVEAISDD--------VSVCRT--VTPSAAMKIISPRDFVDVVLVKRYEDGTISSNATNV 134 (208)
T ss_pred cchhhhhhhhcc----ccEEEEEEecCC--------EEEEEE--ecchhcCCCcCCCceEEEEEEEecCCceEEEeEEec
Confidence 5888773 335555555521 122333 44555 6999999999999999999988777676
Q ss_pred cCccCCCCCCCccceeecCCCceeeecCC--CceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHH
Q 007770 492 DTIRETSGAPAFVNCRRLPSGCVVQDMPN--GYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQ 564 (590)
Q Consensus 492 d~~~~~~~~~~~~~~rr~PSGclIqd~~n--G~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRq 564 (590)
..-. -+..+.++|....|+|++|...++ +.|+|||+-|++.- ..++ +.++++.++=...--+..|+++
T Consensus 135 ~h~~-~P~~~~~VR~~~~~~g~~~~~~~~~~~~t~v~~~~~~Dpk-G~iP---~~lvn~~~~~~~~~~~~~Lr~~ 204 (208)
T cd08903 135 EHPL-CPPQAGFVRGFNHPCGCFCEPVPGEPDKTQLVSFFQTDLS-GYLP---QTVVDSFFPASMAEFYNNLTKA 204 (208)
T ss_pred cCCC-CCCCCCeEEEeeeccEEEEEECCCCCCceEEEEEEEeccC-CCcC---HHHHHHHhhHHHHHHHHHHHHH
Confidence 5421 111224899999999999999864 58999999887653 2455 4466655554555556666655
No 38
>cd08869 START_RhoGAP C-terminal lipid-binding START domain of mammalian STARD8, -12, -13 and related proteins, which also have an N-terminal Rho GTPase-activating protein (RhoGAP) domain. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD8 (also known as deleted in liver cancer 3/DLC3, and Arhgap38), STARD12 (also known as DLC-1, Arhgap7, and p122-RhoGAP), and STARD13 (also known as DLC-2, Arhgap37, and SDCCAG13). The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Proteins belonging to this subfamily also have a RhoGAP domain. Some, including STARD12, -and -13, also have an N-terminal SAM (sterile alpha motif) domain; these have a SAM-RhoGAP-START domain organization. This subfamily is involved in cancer development. A large spectrum of cancers have dysregul
Probab=98.46 E-value=1.9e-06 Score=84.93 Aligned_cols=167 Identities=13% Similarity=0.246 Sum_probs=118.9
Q ss_pred HHHHHHHHHhhcCCCCCeeeccC-CCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcChh-hh
Q 007770 345 LAAMDELVKMAQTDEPLWIRSFE-GSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDPN-RW 422 (590)
Q Consensus 345 ~~Am~El~~ma~~~eplWi~~~~-~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~~-~W 422 (590)
+.+.++|++-+...+.-|....+ .+ ..| |.|.. +.++..-+=|..++|.-.+.++++.|+|.. +|
T Consensus 4 ~~~~~~ll~~~~~~~~~W~~~~~~~g-i~I-----~~k~~-------~~~~~l~~~K~~~~v~a~~~~v~~~l~d~r~~W 70 (197)
T cd08869 4 ERCVQDLLREARDKSKGWVSVSSSDH-VEL-----AFKKV-------DDGHPLRLWRASTEVEAPPEEVLQRILRERHLW 70 (197)
T ss_pred HHHHHHHHHHHhhccCCceEEecCCc-EEE-----EEEeC-------CCCCcEEEEEEEEEeCCCHHHHHHHHHHHHhcc
Confidence 46788999999988999986532 23 222 22222 234445567778888888999998887753 56
Q ss_pred hhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeee-ecCCeEEEEEEeccCccCCCCCC
Q 007770 423 AEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQ-HAEGVWAVVDVSIDTIRETSGAP 501 (590)
Q Consensus 423 ~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq-~~~g~WaVvDVS~d~~~~~~~~~ 501 (590)
-.. +..+..++.|+. ...+.|..+..|-| |+.|||..+|+++. .++|..+|.=.|++....-+ +
T Consensus 71 d~~----~~~~~vie~id~--------~~~i~y~~~~~p~p-v~~RDfV~~r~~~~~~~~g~~~i~~~Sv~~~~~~p--~ 135 (197)
T cd08869 71 DDD----LLQWKVVETLDE--------DTEVYQYVTNSMAP-HPTRDYVVLRTWRTDLPKGACVLVETSVEHTEPVP--L 135 (197)
T ss_pred chh----hheEEEEEEecC--------CcEEEEEEeeCCCC-CCCceEEEEEEEEecCCCCcEEEEEECCcCCCCCC--C
Confidence 655 234666666642 23567777777777 59999999999875 57888999989986321111 1
Q ss_pred CccceeecCCCceeeecCCCceeEEEEEeeeecCccccc
Q 007770 502 AFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQ 540 (590)
Q Consensus 502 ~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~ 540 (590)
.++|...+++|++|++..+|.|+|||+-|++.- ..++.
T Consensus 136 g~VR~~~~~~g~~i~p~~~~~t~vty~~~~Dp~-G~iP~ 173 (197)
T cd08869 136 GGVRAVVLASRYLIEPCGSGKSRVTHICRVDLR-GRSPE 173 (197)
T ss_pred CCEEEEEEeeeEEEEECCCCCeEEEEEEEECCC-CCCCc
Confidence 489999999999999999999999999998753 23554
No 39
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.38 E-value=2.4e-07 Score=94.39 Aligned_cols=51 Identities=25% Similarity=0.464 Sum_probs=47.7
Q ss_pred CCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHH
Q 007770 141 HTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKT 191 (590)
Q Consensus 141 fT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr 191 (590)
|...-...|..+|..++||+..++.+||+.+||+..||-.||.|||+|+|.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDRa 233 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDRA 233 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhhh
Confidence 556668899999999999999999999999999999999999999999983
No 40
>cd08909 START_STARD13-like C-terminal lipid-binding START domain of mammalian STARD13 and related proteins, which also have an N-terminal Rho GTPase-activating protein (RhoGAP) domain. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD13 (also known as DLC-2, Arhgap37, and SDCCAG13) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Proteins belonging to this subfamily also have a RhoGAP domain. The precise function of the START domain in this subgroup is unclear.
Probab=98.34 E-value=8.5e-06 Score=81.32 Aligned_cols=127 Identities=17% Similarity=0.236 Sum_probs=94.1
Q ss_pred CCceeeeecceeEEechhhHH-HHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceee
Q 007770 393 GFVTEASRETGMVIINSLALV-ETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVN 471 (590)
Q Consensus 393 g~~~EASR~sgvV~m~~~~LV-e~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~ 471 (590)
+...-+-|....|--.+..++ .+|-+...|-..|-. +++++.|.- ...+.|--+.-+-|+ |.|+|+
T Consensus 48 ~~~lk~~r~~~ei~~~p~~VL~~vl~~R~~WD~~~~~----~~~ie~ld~--------~tdi~~y~~~~~~P~-~~RD~v 114 (205)
T cd08909 48 GNPLRLWKVSVEVEAPPSVVLNRVLRERHLWDEDFLQ----WKVVETLDK--------QTEVYQYVLNCMAPH-PSRDFV 114 (205)
T ss_pred CCceEEEEEEEEeCCCHHHHHHHHHhhHhhHHhhcce----eEEEEEeCC--------CcEEEEEEeecCCCC-CCCEEE
Confidence 333446666666666666664 456677788877543 777777652 234555555556675 999999
Q ss_pred EEeeeeee-cCCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeec
Q 007770 472 FLRFCKQH-AEGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYD 534 (590)
Q Consensus 472 flRyckq~-~~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d 534 (590)
.+|+-++. ++|.++|+..|++.....+ ..++|...+=+|++|+++++|.|+||++-|++.-
T Consensus 115 ~~R~w~~~~~~G~~vi~~~Sv~H~~~p~--~g~VRa~~~~~gylI~P~~~g~trvt~i~~vDpk 176 (205)
T cd08909 115 VLRSWRTDLPKGACSLVSVSVEHEEAPL--LGGVRAVVLDSQYLIEPCGSGKSRLTHICRVDLK 176 (205)
T ss_pred EEEEEEEeCCCCcEEEEEecCCCCcCCC--CCcEEEEEEcCcEEEEECCCCCEEEEEEEEecCC
Confidence 99997654 6999999999999764322 2478999999999999999999999999999764
No 41
>cd08905 START_STARD1-like Cholesterol-binding START domain of mammalian STARD1 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD1 (also known as StAR) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD1 has a high affinity for cholesterol. It can reduce macrophage lipid content and inflammatory status. It plays an essential role in steroidogenic tissues: transferring the steroid precursor, cholesterol, from the outer to the inner mitochondrial membrane, across the aqueous space. Mutations in the gene encoding STARD1/StAR can cause lipid congenital adrenal hyperplasia (CAH), an autosomal recessive disorder characterized by a steroid synthesis deficiency and an accumulation of cholesterol in
Probab=98.25 E-value=9.3e-06 Score=80.83 Aligned_cols=193 Identities=13% Similarity=0.199 Sum_probs=131.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCeeecc--CCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHh
Q 007770 339 MFLELALAAMDELVKMAQTDEPLWIRSF--EGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETL 416 (590)
Q Consensus 339 ~~~elA~~Am~El~~ma~~~eplWi~~~--~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~l 416 (590)
-...++.+|++|++++.+ ++.-|-... +.| .++ |.+.||.. | -+-|..++|-.++.+|++.|
T Consensus 5 ~y~~~~~~~~~~~~~~~~-~~~~W~~~~~~~~g--i~v----~s~~~~~~------~---k~~k~e~~i~~~~~~l~~~l 68 (209)
T cd08905 5 SYIKQGEEALQKSLSILQ-DQEGWKTEIVAENG--DKV----LSKVVPDI------G---KVFRLEVVVDQPLDNLYSEL 68 (209)
T ss_pred HHHHHHHHHHHHHHHHhc-cccCCEEEEecCCC--CEE----EEEEcCCC------C---cEEEEEEEecCCHHHHHHHH
Confidence 357889999999999986 666897652 222 111 22333221 1 35566678999999999555
Q ss_pred c-Ch---hhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhcccc--ccccceeeEEeeeeeecCCeEEEEEEe
Q 007770 417 M-DP---NRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSP--LVPVREVNFLRFCKQHAEGVWAVVDVS 490 (590)
Q Consensus 417 m-D~---~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSP--LVP~Re~~flRyckq~~~g~WaVvDVS 490 (590)
. |. .+|... +.-.+||..-. ...-++|. ...+.| +|-.|||..+|+.++..++. +++..|
T Consensus 69 ~~d~e~~~~W~~~-------~~~~~vl~~id-----~~~~i~y~-~~~p~p~~~vs~RD~V~~~~~~~~~~~~-~~~~~s 134 (209)
T cd08905 69 VDRMEQMGEWNPN-------VKEVKILQRIG-----KDTLITHE-VAAETAGNVVGPRDFVSVRCAKRRGSTC-VLAGMA 134 (209)
T ss_pred Hhchhhhceeccc-------chHHHHHhhcC-----CCceEEEE-EeccCCCCccCccceEEEEEEEEcCCcE-EEEEEe
Confidence 5 53 466665 33344444322 11235564 556665 79999999999999986665 455677
Q ss_pred ccCccCCCCCCCccceeecCCCceeeecCC--CceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 491 IDTIRETSGAPAFVNCRRLPSGCVVQDMPN--GYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 491 ~d~~~~~~~~~~~~~~rr~PSGclIqd~~n--G~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
.+.-. -+..+.++|.+..+.|++|+++++ |.++|||+-|++.--+ ++ ..|++..++=..-.++..|+++-+
T Consensus 135 ~~~~~-~P~~~~~VR~~~~~~~w~l~p~~~~~~~t~v~~~~~~DpkG~-iP---~~lvN~~~~~~~~~~~~~Lr~~~~ 207 (209)
T cd08905 135 THFGL-MPEQKGFIRAENGPTCIVLRPLAGDPSKTKLTWLLSIDLKGW-LP---KSIINQVLSQTQVDFANHLRQRMA 207 (209)
T ss_pred ecCCC-CCCCCCeEEEEeeccEEEEEECCCCCCceEEEEEEeecCCCC-CC---HHHHHHHhHHhHHHHHHHHHHHHh
Confidence 55321 111124899999999999999988 9999999999976543 55 347887777778888999988754
No 42
>PLN00188 enhanced disease resistance protein (EDR2); Provisional
Probab=98.10 E-value=1.1e-05 Score=92.05 Aligned_cols=129 Identities=17% Similarity=0.288 Sum_probs=101.4
Q ss_pred eeeecceeEEechhhHHHHhcChh----hhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhh--cccccccccee
Q 007770 397 EASRETGMVIINSLALVETLMDPN----RWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQ--VLSPLVPVREV 470 (590)
Q Consensus 397 EASR~sgvV~m~~~~LVe~lmD~~----~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElq--vlSPLVP~Re~ 470 (590)
-+=|+.|||-.++.+|+|.+|+.+ +|=.. +..++-|+.|. |...++|.-++ .+...+-+|+|
T Consensus 227 ~~mKavGVV~aspE~Ifd~Vm~~~~~R~eWD~~----~~~~~vIE~ID--------~htdI~Y~~~~~~~~~~~ispRDF 294 (719)
T PLN00188 227 RAMKAVGVVEATCEEIFELVMSMDGTRFEWDCS----FQYGSLVEEVD--------GHTAILYHRLQLDWFPMFVWPRDL 294 (719)
T ss_pred ceeEEEEEecCCHHHHHHHHhccCcccccchhc----ccceEEEEEec--------CCeEEEEEEeccccccCccCccee
Confidence 567889999999999999999777 66555 45578777764 45567776664 44466777999
Q ss_pred eEEeeeeeecCCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecC--C--CceeEEEEEeeeecCccc
Q 007770 471 NFLRFCKQHAEGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMP--N--GYSKVTWVEHAEYDESQV 538 (590)
Q Consensus 471 ~flRyckq~~~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~--n--G~skVtWVeH~e~d~~~v 538 (590)
+++||-++.+||+++|+=+|+..-.-.+ .+.++|....|+||+|.+++ | -.|.|+|+-|++..-|..
T Consensus 295 V~~Rywrr~eDGsYvil~~Sv~Hp~cPP-~kG~VRg~~~pGGwiIsPL~~~~g~~r~lv~~~lqtDlkGW~~ 365 (719)
T PLN00188 295 CYVRYWRRNDDGSYVVLFRSREHENCGP-QPGFVRAHLESGGFNISPLKPRNGRPRTQVQHLMQIDLKGWGV 365 (719)
T ss_pred EEEEEEEEcCCCcEEEeeeeeecCCCCC-CCCeEEEEEeCCEEEEEECCCCCCCCceEEEEEEEEccCcccc
Confidence 9999999999999999999987432111 22489999999999999964 3 379999999998877653
No 43
>cd08910 START_STARD2-like Lipid-binding START domain of mammalian STARD2 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD2 (also known as phosphatidylcholine transfer protein/PC-TP) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD2 is a cytosolic phosphatidycholine (PtdCho) transfer protein, which traffics PtdCho, the most common class of phospholipids in eukaryotes, between membranes. It represents a minimal START domain structure. STARD2 plays roles in hepatic cholesterol metabolism, in the development of atherosclerosis, and may have a mitochondrial function.
Probab=98.09 E-value=3e-05 Score=77.12 Aligned_cols=184 Identities=15% Similarity=0.215 Sum_probs=126.1
Q ss_pred HHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEE-echhhHHHHhcChh---hhhhhc
Q 007770 351 LVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVI-INSLALVETLMDPN---RWAEMF 426 (590)
Q Consensus 351 l~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~-m~~~~LVe~lmD~~---~W~~~F 426 (590)
++..-+.+.+-|-...+.. . .++|.+.. .|...-.=|..+++. +.+..|++.|+|.+ +|...
T Consensus 16 ~~~~~~~~~~~W~l~~~~~--~-------i~Vy~r~~----~~s~~~~~k~~~~~~~~s~~~~~~~l~D~~~r~~Wd~~- 81 (207)
T cd08910 16 ELQQPALDGAAWELLVESS--G-------ISIYRLLD----EQSGLYEYKVFGVLEDCSPSLLADVYMDLEYRKQWDQY- 81 (207)
T ss_pred HhcCCCCCCCCeEEEEecC--C-------eEEEEecc----CCCCcEEEEEEEEEcCCCHHHHHHHHhCHHHHHHHHHH-
Confidence 3444556667898765432 1 12332221 122223577777887 78999999999976 56665
Q ss_pred ccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeee-eecCC--eEEEEEEeccCccCCCCCCCc
Q 007770 427 PCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCK-QHAEG--VWAVVDVSIDTIRETSGAPAF 503 (590)
Q Consensus 427 p~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyck-q~~~g--~WaVvDVS~d~~~~~~~~~~~ 503 (590)
++. .++.++. + ..++|-.+..|-| |-.||+.++|-.. ...+| .|+|+.-|++.- .-+....+
T Consensus 82 --~~~---~~~~~~~-------~-~~i~y~~~k~PwP-vs~RD~V~~r~~~~~~~~~~~~~iv~~~s~~~p-~~P~~~~~ 146 (207)
T cd08910 82 --VKE---LYEKECD-------G-ETVIYWEVKYPFP-LSNRDYVYIRQRRDLDVEGRKIWVILARSTSLP-QLPEKPGV 146 (207)
T ss_pred --HHh---heeecCC-------C-CEEEEEEEEcCCC-CCCceEEEEEEeccccCCCCeEEEEEecCCCCC-CCCCCCCC
Confidence 221 2333322 2 2567888999999 9999999996444 33344 688888877632 11212248
Q ss_pred cceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHHH
Q 007770 504 VNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCEC 567 (590)
Q Consensus 504 ~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCEr 567 (590)
+|....-+|.+|+...++.|+||++-|++-- ..++. -|++.-...+.-.|+..|+..|.+
T Consensus 147 VRv~~~~~~~~i~p~~~~~t~i~~~~~~DPg-G~IP~---wlvN~~~~~~~~~~l~~l~ka~~~ 206 (207)
T cd08910 147 IRVKQYKQSLAIESDGKKGSKVFMYYFDNPG-GMIPS---WLINWAAKNGVPNFLKDMQKACQN 206 (207)
T ss_pred EEEEEEEEEEEEEeCCCCceEEEEEEEeCCC-CcchH---HHHHHHHHHhhHHHHHHHHHHHhc
Confidence 9999999999999998888999999998742 34654 378888899999999999999963
No 44
>cd08906 START_STARD3-like Cholesterol-binding START domain of mammalian STARD3 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD3 (also known as metastatic lymph node 64/MLN64) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD3 has a high affinity for cholesterol. It may function in trafficking endosomal cholesterol to a cytosolic acceptor or membrane. In addition to having a cytoplasmic START cholesterol-binding domain, STARD3 also contains an N-terminal MENTAL cholesterol-binding and protein-protein interaction domain. The MENTAL domain contains transmembrane helices and anchors MLN64 to endosome membranes. The gene encoding STARD3 is overexpressed in about 25% of breast cancers.
Probab=98.07 E-value=8.9e-05 Score=74.02 Aligned_cols=196 Identities=10% Similarity=0.177 Sum_probs=126.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCeeec-cC-CCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHH-HH
Q 007770 339 MFLELALAAMDELVKMAQTDEPLWIRS-FE-GSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALV-ET 415 (590)
Q Consensus 339 ~~~elA~~Am~El~~ma~~~eplWi~~-~~-~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LV-e~ 415 (590)
-....+.+||+++.++... +.-|.-. .+ .| . ++|.+........| |.-++|-..+..|. +.
T Consensus 5 ~~~~~~~~~~~~~~~~l~~-~~~W~l~~~~~~g-i---------~V~s~~~~~~~~~f-----k~~~~v~~~~~~l~~~l 68 (209)
T cd08906 5 EYVRQGKEALAVVEQILAQ-EENWKFEKNNDNG-D---------TVYTLEVPFHGKTF-----ILKAFMQCPAELVYQEV 68 (209)
T ss_pred HHHHHHHHHHHHHHHHhhc-ccCCEEEEecCCC-C---------EEEEeccCCCCcEE-----EEEEEEcCCHHHHHHHH
Confidence 3577899999999999865 4579853 22 33 1 33322221011233 55566777888885 68
Q ss_pred hcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhcccc--ccccceeeEEeeeeeecCCeEEEEEEeccC
Q 007770 416 LMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSP--LVPVREVNFLRFCKQHAEGVWAVVDVSIDT 493 (590)
Q Consensus 416 lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSP--LVP~Re~~flRyckq~~~g~WaVvDVS~d~ 493 (590)
|.|.+...+=.+.+ ..+..|+-|+.. --+.| .+-.|.+ .|-.|||-.+|+.++.+++ ++++..|++.
T Consensus 69 l~D~~~~~~W~~~~-~~~~vi~~~~~~--------~~i~Y-~v~~p~~~~pv~~RDfV~~r~~~~~~~~-~i~~~~sv~~ 137 (209)
T cd08906 69 ILQPEKMVLWNKTV-SACQVLQRVDDN--------TLVSY-DVAAGAAGGVVSPRDFVNVRRIERRRDR-YVSAGISTTH 137 (209)
T ss_pred HhChhhccccCccc-hhhhheeeccCC--------cEEEE-EEccccccCCCCCCceEEEEEEEecCCc-EEEEEEEEec
Confidence 88887555444443 224444444421 13456 5445543 6899999999999998888 5677788764
Q ss_pred ccCCCCCCCccceeecCCCceeeec--CCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 494 IRETSGAPAFVNCRRLPSGCVVQDM--PNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 494 ~~~~~~~~~~~~~rr~PSGclIqd~--~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
-. .+..+.++|.+..++|++|+.. .++.|+|||+-|++.-- .++ +.|++..++=..-.-+..|.++-+
T Consensus 138 ~~-~P~~~~~VR~~~~~~G~~i~~~~~~~~~t~vt~~~~~Dp~G-~lP---~~lvN~~~~~~~~~~~~~LR~~~~ 207 (209)
T cd08906 138 SH-KPPLSKYVRGENGPGGFVVLKSASNPSVCTFIWILNTDLKG-RLP---RYLIHQSLAATMFEFASHLRQRIR 207 (209)
T ss_pred CC-CCCCCCeEEEeeeccEEEEEECCCCCCceEEEEEEecCCCC-CCC---HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 31 1112248999999999999985 57799999999997653 344 346777666556566666666543
No 45
>cd08877 START_2 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family. Functionally uncharacterized subgroup of the START domain family. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. For some mammalian members of the START family (STARDs), it is known which lipids bind in this pocket; these include cholesterol (STARD1, -3, -4, and -5), 25-hydroxycholesterol (STARD5), phosphatidylcholine (STARD2, -7, and -10), phosphatidylethanolamine (STARD10) and ceramides (STARD11). Mammalian STARDs participate in the control of various cellular processes, including lipid trafficking between intracellular compartments, lipid metabolism, and modulation of signaling events. Mutation or altered expression of STARDs is linked to diseases such as cancer, genetic disorders, a
Probab=97.94 E-value=0.00011 Score=73.00 Aligned_cols=201 Identities=15% Similarity=0.075 Sum_probs=140.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcCh
Q 007770 340 FLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDP 419 (590)
Q Consensus 340 ~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~ 419 (590)
+++=+...|+|+.+..+. +.-|....+.. +.++|-+.. ++-..-+-|.-|+|-.+...++.+|.|.
T Consensus 3 ~~~~~~~~~~~~~~~l~~-~~~W~~~~~~~---------~i~v~~r~~----~~~~~~~~k~e~~i~~~~~~~~~vl~d~ 68 (215)
T cd08877 3 KIRQEATIMQENLKDLDE-SDGWTLQKESE---------GIRVYYKFE----PDGSLLSLRMEGEIDGPLFNLLALLNEV 68 (215)
T ss_pred hHHHHHHHHHHHHhcccC-CCCcEEeccCC---------CeEEEEEeC----CCCCEEEEEEEEEecCChhHeEEEEehh
Confidence 355566889999998876 55698764431 223332221 1222457788889999999999999999
Q ss_pred hhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEE-eeeeee-cCCeEEEEEEeccCccC-
Q 007770 420 NRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFL-RFCKQH-AEGVWAVVDVSIDTIRE- 496 (590)
Q Consensus 420 ~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~fl-Ryckq~-~~g~WaVvDVS~d~~~~- 496 (590)
+...+-+|.. ..+..++.++-. -++.|-.+-+|-| |-.||+.+. +.|.++ ++|..+|+=.|++.-..
T Consensus 69 ~~~~~W~p~~-~~~~~l~~~~~~--------~~v~y~~~~~PwP-v~~RD~v~~~~~~~~~~~~~~i~i~~~si~~~~~~ 138 (215)
T cd08877 69 ELYKTWVPFC-IRSKKVKQLGRA--------DKVCYLRVDLPWP-LSNREAVFRGFGVDRLEENGQIVILLKSIDDDPEF 138 (215)
T ss_pred hhHhhhcccc-eeeEEEeecCCc--------eEEEEEEEeCceE-ecceEEEEEEEEEeeeccCCCEEEEEecCCCCccc
Confidence 8777777763 345555555422 2566766666777 888999975 667777 89999999999984322
Q ss_pred -------CCCCC-CccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHHH
Q 007770 497 -------TSGAP-AFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCEC 567 (590)
Q Consensus 497 -------~~~~~-~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCEr 567 (590)
-+..+ .++|....-+|.+|+.+++|-++|+++-|++-.-+-|+. -|++...--.+..-+..|+++|+-
T Consensus 139 ~~~~~~~iP~~~~~~vR~~~~~~~~~i~p~~~~~t~v~~~~~~DP~g~~IP~---~liN~~~k~~~~~~~~~l~k~~~~ 214 (215)
T cd08877 139 LKLTDLDIPSTSAKGVRRIIKYYGFVITPISPTKCYLRFVANVDPKMSLVPK---SLLNFVARKFAGLLFEKIQKAAKN 214 (215)
T ss_pred ccccCCcCCCCCCCceEEEEecceEEEEEcCCCCeEEEEEEEcCCCcccCCH---HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 12223 478899999999999999999999999996532221664 356666666777788889998873
No 46
>cd08902 START_STARD4-like Lipid-binding START domain of mammalian STARD4 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD4 and related domains. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD4 plays an important role in steroidogenesis, trafficking cholesterol into mitochondria. It specifically binds cholesterol, and demonstrates limited binding to another sterol, 7alpha-hydroxycholesterol. STARD4 is ubiquitously expressed, with highest levels in liver and kidney.
Probab=97.87 E-value=0.00011 Score=73.04 Aligned_cols=178 Identities=15% Similarity=0.167 Sum_probs=124.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCeeeccCCCcccccChhhhhhhcCCCCCCC-CCCCceeeeecceeEEechhhHHHHhcC
Q 007770 340 FLELALAAMDELVKMAQTDEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLK-PNGFVTEASRETGMVIINSLALVETLMD 418 (590)
Q Consensus 340 ~~elA~~Am~El~~ma~~~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~-~~g~~~EASR~sgvV~m~~~~LVe~lmD 418 (590)
...+|.+.-++|++--+.++-.|-.-.+.+ ..+. ..+ ..-|..---|.-|+|--....||+.+-+
T Consensus 3 ~~~~~~~~~~~~~~y~~~~~~~Wkl~k~~~-~~~v-------------~~k~~~ef~gkl~R~Egvv~~~~~ev~d~v~~ 68 (202)
T cd08902 3 IASKTTKLQNTLIQYHSILEEEWRVAKKSK-DVTV-------------WRKPSEEFGGYLYKAQGVVEDVYNRIVDHIRP 68 (202)
T ss_pred HHHHHHHHHHHHHHhccccccCcEEEEeCC-CEEE-------------EEecCCcCCCceEEEEEEecCCHHHHHHHHhc
Confidence 356788888899998888999997653332 1121 112 1133334456667888889999999988
Q ss_pred ---hhhhhhhcccccccceEeEEeeCCCCCCCCchhhhh-hhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCc
Q 007770 419 ---PNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLM-HAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTI 494 (590)
Q Consensus 419 ---~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM-~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~ 494 (590)
..+|-+. |..+..++-|.-+. .++ |.=.-.+-++|-+|||.-|||+++.++|. ..+=||++.-
T Consensus 69 ~~~r~~Wd~~----v~~~~Iie~Id~dt--------~I~~yvt~~~~~~iISpRDFVdv~~~~~~~d~~-~s~gvs~~~~ 135 (202)
T cd08902 69 GPYRLDWDSL----MTSMDIIEEFEENC--------CVMRYTTAGQLLNIISPREFVDFSYTTQYEDGL-LSCGVSIEYE 135 (202)
T ss_pred ccchhcccch----hhheeHhhhhcCCc--------EEEEEEcccCCcCccCccceEEEEEEEEeCCCe-EEEEeeecCC
Confidence 4489876 45566666555322 222 43344566789999999999999999999 6778888754
Q ss_pred cCCCCCCCccceeecCCCceeeecCCC--ceeEEEEEeeeecCccccchhhhhhccchh
Q 007770 495 RETSGAPAFVNCRRLPSGCVVQDMPNG--YSKVTWVEHAEYDESQVHQLYKPLIISGMG 551 (590)
Q Consensus 495 ~~~~~~~~~~~~rr~PSGclIqd~~nG--~skVtWVeH~e~d~~~vh~lyrpl~~SG~a 551 (590)
.. ++.++|....|+||++.+.+|+ .|+.||+-+++..=+ ++ +.+++.-++
T Consensus 136 ~~---ppg~VRgen~p~g~i~~Pl~~~p~k~~~t~~lq~DLkG~-LP---qsiIdq~~~ 187 (202)
T cd08902 136 EA---RPNFVRGFNHPCGWFCVPLKDNPSHSLLTGYIQTDLRGM-LP---QSAVDTAMA 187 (202)
T ss_pred CC---CCCeEeecccccEEEEEECCCCCCceEEEEEEEecCCCC-cc---HHHHHHHhh
Confidence 32 2258999999999999999988 688889999665533 33 345555444
No 47
>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=97.86 E-value=6.2e-06 Score=61.71 Aligned_cols=34 Identities=32% Similarity=0.630 Sum_probs=29.0
Q ss_pred cCCCCCHHHHHHHHHHcCCCccchhcccchhhhH
Q 007770 155 ECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQ 188 (590)
Q Consensus 155 ~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK 188 (590)
.+|||+..++.+||+++||+.+||..||-|.|.|
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 4799999999999999999999999999999865
No 48
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=97.82 E-value=1.1e-05 Score=81.81 Aligned_cols=58 Identities=28% Similarity=0.501 Sum_probs=52.1
Q ss_pred CCCCCCCCHHHHHHHHHhh---hcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHH
Q 007770 135 KKRYHRHTPQQIQELESLF---KECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQ 192 (590)
Q Consensus 135 Kr~RtrfT~~Ql~~LE~~F---~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~ 192 (590)
+|+|..|+..-.++|...| ..+|||+...+++||++++++-.||-.||.|+|-+.||-
T Consensus 189 rRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~ 249 (334)
T KOG0774|consen 189 RRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKN 249 (334)
T ss_pred HHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhh
Confidence 4445579999999999999 458999999999999999999999999999999999863
No 49
>cd08908 START_STARD12-like C-terminal lipid-binding START domain of mammalian STARD12 and related proteins, which also have an N-terminal Rho GTPase-activating protein (RhoGAP) domain. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD12 (also known as DLC-1, Arhgap7, and p122-RhoGAP) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Proteins belonging to this subgroup also have an N-terminal SAM (sterile alpha motif) domain and a RhoGAP domain, and have a SAM-RhoGAP-START domain organization. The precise function of the START domain in this subgroup is unclear.
Probab=97.72 E-value=0.00034 Score=69.94 Aligned_cols=161 Identities=19% Similarity=0.258 Sum_probs=111.1
Q ss_pred HHHHHHHHHHhhcCCCCCeeecc-CCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEEechhhHHHHhcCh-hh
Q 007770 344 ALAAMDELVKMAQTDEPLWIRSF-EGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVIINSLALVETLMDP-NR 421 (590)
Q Consensus 344 A~~Am~El~~ma~~~eplWi~~~-~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~m~~~~LVe~lmD~-~~ 421 (590)
-+..+++|++-|..--=-|+.-. ... .|+- |.| +..|-..-.=|....+.-.+..++..|+|. .+
T Consensus 11 ~~~~~~~l~~e~~~k~k~w~~~~~~~~-~el~----~~k--------~~~gs~l~~~r~~~~i~a~~~~vl~~lld~~~~ 77 (204)
T cd08908 11 LQDCVDGLFKEVKEKFKGWVSYSTSEQ-AELS----YKK--------VSEGPPLRLWRTTIEVPAAPEEILKRLLKEQHL 77 (204)
T ss_pred HHHHHHHHHHHHHHHhcCCcccCCCCc-EEEE----Eec--------cCCCCCcEEEEEEEEeCCCHHHHHHHHHhhHHH
Confidence 34778888888865555566521 111 1221 112 223444455666666777788888666554 57
Q ss_pred hhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeee-eecCCeEEEEEEeccCccCCCCC
Q 007770 422 WAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCK-QHAEGVWAVVDVSIDTIRETSGA 500 (590)
Q Consensus 422 W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyck-q~~~g~WaVvDVS~d~~~~~~~~ 500 (590)
|-.. +..++.++-|+... .+.|-.+..|-| +|.|||.++|-.+ +.++|..+|+-.|++.-. . +
T Consensus 78 Wd~~----~~e~~vIe~ld~~~--------~I~Yy~~~~PwP-~~~RD~V~~Rs~~~~~~~g~~~I~~~Sv~h~~--~-P 141 (204)
T cd08908 78 WDVD----LLDSKVIEILDSQT--------EIYQYVQNSMAP-HPARDYVVLRTWRTNLPKGACALLATSVDHDR--A-P 141 (204)
T ss_pred HHHH----hhheEeeEecCCCc--------eEEEEEccCCCC-CCCcEEEEEEEEEEeCCCCeEEEEEeecCccc--C-C
Confidence 8777 33466767666321 467777788888 7999999997765 478999999999988432 1 1
Q ss_pred CCccceeecCCCceeeecCCCceeEEEEEeeee
Q 007770 501 PAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEY 533 (590)
Q Consensus 501 ~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~ 533 (590)
...+|.+.+-+|++|++.++|.|+||.+-|++-
T Consensus 142 ~~~VR~~~~~~~w~i~P~g~g~t~vtyi~~~DP 174 (204)
T cd08908 142 VAGVRVNVLLSRYLIEPCGSGKSKLTYMCRIDL 174 (204)
T ss_pred cCceEEEEEeeEEEEEECCCCcEEEEEEEEeCC
Confidence 236899999999999999999999999999875
No 50
>cd08876 START_1 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family. Functionally uncharacterized subgroup of the START domain family. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. For some mammalian members of the START family (STARDs), it is known which lipids bind in this pocket; these include cholesterol (STARD1, -3, -4, and -5), 25-hydroxycholesterol (STARD5), phosphatidylcholine (STARD2, -7, and -10), phosphatidylethanolamine (STARD10) and ceramides (STARD11). Mammalian STARDs participate in the control of various cellular processes, including lipid trafficking between intracellular compartments, lipid metabolism, and modulation of signaling events. Mutation or altered expression of STARDs is linked to diseases such as cancer, genetic disorders, a
Probab=97.71 E-value=0.00047 Score=66.84 Aligned_cols=152 Identities=14% Similarity=0.137 Sum_probs=104.0
Q ss_pred eeecceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeee
Q 007770 398 ASRETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCK 477 (590)
Q Consensus 398 ASR~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyck 477 (590)
.-|.+++|-.++.++.++++|.+.|.+-=|. +...+||..... + -.++|..+..+=| |..|||.+++...
T Consensus 42 ~~k~~~~i~~s~e~v~~vi~d~e~~~~w~~~----~~~~~vie~~~~----~-~~i~~~~~~~p~p-vs~Rdfv~~~~~~ 111 (195)
T cd08876 42 EFKAVAEVDASIEAFLALLRDTESYPQWMPN----CKESRVLKRTDD----N-ERSVYTVIDLPWP-VKDRDMVLRSTTE 111 (195)
T ss_pred EEEEEEEEeCCHHHHHHHHhhhHhHHHHHhh----cceEEEeecCCC----C-cEEEEEEEecccc-cCCceEEEEEEEE
Confidence 4578888999999999999999988766555 344455553321 1 2445555554444 7889999876443
Q ss_pred ee-cCCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHH
Q 007770 478 QH-AEGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQR 556 (590)
Q Consensus 478 q~-~~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~R 556 (590)
.. .+|..+|.=.|++... +....++|.+.+-+|..|++.++|.|+||++-|++..-+...-+.+.+ +.=+..+
T Consensus 112 ~~~~~~~~~i~~~s~~~~~--P~~~~~vR~~~~~~~~~i~~~~~~~t~vt~~~~~dp~g~iP~~lv~~~----~~~~~~~ 185 (195)
T cd08876 112 QDADDGSVTITLEAAPEAL--PEQKGYVRIKTVEGQWTFTPLGNGKTRVTYQAYADPGGSIPGWLANAF----AKDAPYN 185 (195)
T ss_pred EcCCCCEEEEEeecCCccC--CCCCCeEEceeceeeEEEEECCCCeEEEEEEEEeCCCCCCCHHHHHHH----HHHHHHH
Confidence 33 3677666666665421 211247889999999999999999999999998887644333343444 4446678
Q ss_pred HHHHHHHHH
Q 007770 557 WVATLQRQC 565 (590)
Q Consensus 557 WlatLqRqC 565 (590)
+++.|.++|
T Consensus 186 ~l~~l~~~~ 194 (195)
T cd08876 186 TLENLRKQL 194 (195)
T ss_pred HHHHHHHhh
Confidence 899998876
No 51
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.62 E-value=5.5e-05 Score=83.81 Aligned_cols=60 Identities=28% Similarity=0.309 Sum_probs=55.4
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMK 190 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~K 190 (590)
..+.||.|.+||..|...|..+|+++++|+....+.|+.+|+|...-|..||-|-|.|.+
T Consensus 417 ~~~~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRRsl 476 (558)
T KOG2252|consen 417 MLQTKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRRSL 476 (558)
T ss_pred cccCCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhhcc
Confidence 345677899999999999999999999999999999999999999999999999888753
No 52
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.59 E-value=7.3e-05 Score=74.18 Aligned_cols=64 Identities=30% Similarity=0.610 Sum_probs=59.0
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 131 NPPRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 131 ~~kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
..+.++.++.++..|+..++..|...++|+...+.+|+..++++++.|++||||+|++.++...
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~~ 213 (235)
T KOG0490|consen 150 NKKPRRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHKR 213 (235)
T ss_pred ccccCCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhcc
Confidence 4566777888999999999999999999999999999999999999999999999999997654
No 53
>cd08874 START_STARD9-like C-terminal START domain of mammalian STARD9, and related domains; lipid binding. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD9 (also known as KIAA1300), and related domains. The START domain family belongs to the SRPBCC (START/RHO_alpha_C /PITP /Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Some members of this subfamily have N-terminal kinesin motor domains. STARD9 interacts with supervillin, a protein important for efficient cytokinesis, perhaps playing a role in coordinating microtubule motors with actin and myosin II functions at membranes. The human gene encoding STARD9 lies within a target region for LGMD2A, an autosomal recessive form of limb-girdle muscular dystrophy.
Probab=97.54 E-value=0.00043 Score=69.16 Aligned_cols=130 Identities=17% Similarity=0.203 Sum_probs=89.0
Q ss_pred CCCCceeeeecceeEEechhhHHHHhcChh---hhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccc-cc
Q 007770 391 PNGFVTEASRETGMVIINSLALVETLMDPN---RWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPL-VP 466 (590)
Q Consensus 391 ~~g~~~EASR~sgvV~m~~~~LVe~lmD~~---~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPL-VP 466 (590)
..+|+. -++|-..+.+|++.|.|.. +|-.+ ..+.+||..-. ....++|..+..|=|+ ++
T Consensus 44 ~~~~~g-----e~~v~as~~~v~~ll~D~~~r~~Wd~~-------~~~~~vl~~~~-----~d~~i~y~~~~~Pwp~~~~ 106 (205)
T cd08874 44 YHGFLG-----AGVIKAPLATVWKAVKDPRTRFLYDTM-------IKTARIHKTFT-----EDICLVYLVHETPLCLLKQ 106 (205)
T ss_pred cceEEE-----EEEEcCCHHHHHHHHhCcchhhhhHHh-------hhheeeeeecC-----CCeEEEEEEecCCCCCCCC
Confidence 456664 3477888999999999986 56665 45566665322 2235566665555444 39
Q ss_pred cceeeEEeeeeeecCCeEEEEEEeccC-ccCCCCCCCccceeecCCCceeeec---CCCceeEEEEEeeeecCcccc
Q 007770 467 VREVNFLRFCKQHAEGVWAVVDVSIDT-IRETSGAPAFVNCRRLPSGCVVQDM---PNGYSKVTWVEHAEYDESQVH 539 (590)
Q Consensus 467 ~Re~~flRyckq~~~g~WaVvDVS~d~-~~~~~~~~~~~~~rr~PSGclIqd~---~nG~skVtWVeH~e~d~~~vh 539 (590)
.|||..+|-....+++.. |.=.|++. ..+.. ...++|.+.+++|++|+++ ++|.|+||.+-|++---..|+
T Consensus 107 ~RDfV~l~~~~~~~~~~v-i~~~SV~~~~~P~~-~~~~VR~~~~~~gw~i~P~~~~g~~~t~vty~~q~DPggg~iP 181 (205)
T cd08874 107 PRDFCCLQVEAKEGELSV-VACQSVYDKSMPEP-GRSLVRGEILPSAWILEPVTVEGNQYTRVIYIAQVALCGPDVP 181 (205)
T ss_pred CCeEEEEEEEEECCCcEE-EEEEecccccCCCC-CCCeEEeeeEeeeEEEEECccCCCCcEEEEEEEEECCCCCCCC
Confidence 999999985555555544 65567665 22111 1137999999999999999 999999999999986422344
No 54
>cd08870 START_STARD2_7-like Lipid-binding START domain of mammalian STARD2, -7, and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD2 (also known as phosphatidylcholine transfer protein/PC-TP), and STARD7 (also known as gestational trophoblastic tumor 1/GTT1). The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD2 is a cytosolic phosphatidycholine (PtdCho) transfer protein, which traffics PtdCho, the most common class of phospholipids in eukaryotes, between membranes. It represents a minimal START domain structure. STARD2 plays roles in hepatic cholesterol metabolism, in the development of atherosclerosis, and may also have a mitochondrial function. The gene encoding STARD7 is overexpressed in choriocarcinoma. STARD7 appears to be invo
Probab=97.54 E-value=0.0016 Score=64.62 Aligned_cols=190 Identities=13% Similarity=0.141 Sum_probs=130.9
Q ss_pred HHHHHhhcCCC--CCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeE-EechhhHHHHhcChh---hh
Q 007770 349 DELVKMAQTDE--PLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMV-IINSLALVETLMDPN---RW 422 (590)
Q Consensus 349 ~El~~ma~~~e--plWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV-~m~~~~LVe~lmD~~---~W 422 (590)
+||+.+.+.+. .-|-..++.. .+-....-|.|.- .|...-.=|..+++ -+++..|.+.|+|.+ +|
T Consensus 9 ~~~~~~~~~~~~~~~W~~~~~k~-~~~~~i~vy~r~~--------~~s~~~~~k~~~~~~~~s~~~~~~~l~D~~~r~~W 79 (209)
T cd08870 9 RDLVQELQEGAEGQAWQQVMDKS-TPDMSYQAWRRKP--------KGTGLYEYLVRGVFEDCTPELLRDFYWDDEYRKKW 79 (209)
T ss_pred HHHHHHhcCcCCCCcceEhhhcc-CCCceEEEEeccc--------CCCCceEEEEEEEEcCCCHHHHHHHHcChhhHhhh
Confidence 45666655543 4687765432 0011122233322 12223356777777 469999999999976 56
Q ss_pred hhhcccccccceEeEEeeCCCCCCCC-chhhhhhhhhhccccccccceeeEEeeeeeecCCeEEEEEEeccCccCCCCCC
Q 007770 423 AEMFPCMIARTATTDVISSGMGGTRN-GALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVWAVVDVSIDTIRETSGAP 501 (590)
Q Consensus 423 ~~~Fp~iVs~a~T~~Vis~G~~g~~~-GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~~~~ 501 (590)
-.. +.-.++|.... + | ..++|-.+..|-|| -.||+.+.|-..+..+|..+|+=-|++.-. .+..
T Consensus 80 d~~-------~~~~~~le~~~----~~~-~~i~y~~~~~P~P~-s~RD~V~~r~~~~~~~~~~~i~~~sv~~~~-~P~~- 144 (209)
T cd08870 80 DET-------VIEHETLEEDE----KSG-TEIVRWVKKFPFPL-SDREYVIARRLWESDDRSYVCVTKGVPYPS-VPRS- 144 (209)
T ss_pred hhh-------eeeEEEEEecC----CCC-cEEEEEEEECCCcC-CCceEEEEEEEEEcCCCEEEEEEeCCcCCC-CCCC-
Confidence 655 23344444311 1 2 47899999999988 899999998777777899988888877521 1111
Q ss_pred CccceeecCCCceeeec--CCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 502 AFVNCRRLPSGCVVQDM--PNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 502 ~~~~~rr~PSGclIqd~--~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
.++|.+..=||++|+.. .+|.++|+++-|.+- .-.|+. -|++.....|+-.||..|.++|.
T Consensus 145 ~~vRv~~~~~~~~i~p~~~~~~~t~~~~~~~~dp-~G~IP~---wlvN~~~~~~~~~~l~~l~~a~~ 207 (209)
T cd08870 145 GRKRVDDYESSLVIRAVKGDGQGSACEVTYFHNP-DGGIPR---ELAKLAVKRGMPGFLKKLENALR 207 (209)
T ss_pred CcEEEEEEEeEEEEEEecCCCCceEEEEEEEECC-CCCCCH---HHHHHHHHhhhHHHHHHHHHHHh
Confidence 37899999999999999 788999999998863 234664 48999999999999999999995
No 55
>cd08907 START_STARD8-like C-terminal lipid-binding START domain of mammalian STARD8 and related proteins, which also have an N-terminal Rho GTPase-activating protein (RhoGAP) domain. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD8 (also known as deleted in liver cancer 3/DLC3, and Arhgap38) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Proteins belonging to this subfamily also have a RhoGAP domain. The precise function of the START domain in this subgroup is unclear.
Probab=97.38 E-value=0.00071 Score=67.52 Aligned_cols=165 Identities=16% Similarity=0.169 Sum_probs=107.9
Q ss_pred HHHHHHHHHHhhcCCCCCeeeccCC-CcccccChhhhhhhcCCCCCCCCCCCceeeeecceeE-EechhhHHHHhcChhh
Q 007770 344 ALAAMDELVKMAQTDEPLWIRSFEG-SGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMV-IINSLALVETLMDPNR 421 (590)
Q Consensus 344 A~~Am~El~~ma~~~eplWi~~~~~-~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV-~m~~~~LVe~lmD~~~ 421 (590)
-+..+++|++-+....=-|+...+. + .|+- .+.-+. |...--=|.+.-| -..+.-|-++|.|+..
T Consensus 11 l~~~~~~~lre~~ek~kgW~~~~~~~~-vev~-----~kk~~d-------~~~l~lwk~s~ei~~~p~~vl~rvL~dR~~ 77 (205)
T cd08907 11 LEDNVQCLLREASERFKGWHSAPGPDN-TELA-----CKKVGD-------GHPLRLWKVSTEVEAPPSVVLQRVLRERHL 77 (205)
T ss_pred HHHHHHHHHHHhhhccCCceeecCCCC-cEEE-----EEeCCC-------CCceEEEEEEEEecCCCHHHHHHHhhchhh
Confidence 3478889999998777789874322 2 3333 111111 1111111222222 2244556699999999
Q ss_pred hhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeee-eecCCeEEEEEEeccCccCCCCC
Q 007770 422 WAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCK-QHAEGVWAVVDVSIDTIRETSGA 500 (590)
Q Consensus 422 W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyck-q~~~g~WaVvDVS~d~~~~~~~~ 500 (590)
|=+.+ -..++|+.|.--. -..|. =+.-| +.+|.|+|.+||.=+ .+..|.-+|+.+||+.....+
T Consensus 78 WD~~m----~e~~~Ie~Ld~n~-----dI~yY---~~~~~-~p~p~RDfv~lRsW~~~l~~g~~iI~~~SV~H~~~pp-- 142 (205)
T cd08907 78 WDEDL----LHSQVIEALENNT-----EVYHY---VTDSM-APHPRRDFVVLRMWRSDLPRGGCLLVSQSVDHDNPQL-- 142 (205)
T ss_pred hhHHH----HhhhhheeecCCC-----EEEEE---EecCC-CCCCCceEEEEEEEccCCCCCCEEEEEecccCCcCCC--
Confidence 98873 4578888886221 11111 11122 568999999999864 467788999999998654322
Q ss_pred CCccceeecCCCceeeecCCCceeEEEEEeeeecCc
Q 007770 501 PAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDES 536 (590)
Q Consensus 501 ~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~ 536 (590)
..-+|.--+=||+||++++.|.|+||-|-|++..=+
T Consensus 143 ~~gVRa~~l~sgYlIep~g~g~s~ltyi~rvD~rG~ 178 (205)
T cd08907 143 EAGVRAVLLTSQYLIEPCGMGRSRLTHICRADLRGR 178 (205)
T ss_pred CCCeEEEEEeccEEEEECCCCCeEEEEEEEeCCCCC
Confidence 123889999999999999999999999999876543
No 56
>cd08911 START_STARD7-like Lipid-binding START domain of mammalian STARD7 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD7 (also known as gestational trophoblastic tumor 1/GTT1). It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. The gene encoding STARD7 is overexpressed in choriocarcinoma. STARD7 appears to be involved in the intracellular trafficking of phosphatidycholine (PtdCho) to mitochondria. STARD7 was shown to be surface active and to interact differentially with phospholipid monolayers, it showed a preference for phosphatidylserine, cholesterol, and phosphatidylglycerol.
Probab=97.29 E-value=0.0024 Score=63.52 Aligned_cols=152 Identities=11% Similarity=0.122 Sum_probs=111.1
Q ss_pred eeecceeE-EechhhHHHHhcChh---hhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEE
Q 007770 398 ASRETGMV-IINSLALVETLMDPN---RWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFL 473 (590)
Q Consensus 398 ASR~sgvV-~m~~~~LVe~lmD~~---~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~fl 473 (590)
.=|..+++ -..+..|++.|+|.+ +|-.. +...++|.-.. +-...++|..+..|-|| -.||+.+.
T Consensus 46 ~~k~~~~~~d~s~~~~~~~~~D~~~r~~Wd~~-------~~~~~~le~~~----~~~~~i~y~~~~~P~P~-s~RD~V~~ 113 (207)
T cd08911 46 EYKVYGSFDDVTARDFLNVQLDLEYRKKWDAT-------AVELEVVDEDP----ETGSEIIYWEMQWPKPF-ANRDYVYV 113 (207)
T ss_pred EEEEEEEEcCCCHHHHHHHHhCHHHHHHHHhh-------heeEEEEEccC----CCCCEEEEEEEECCCCC-CCccEEEE
Confidence 45665544 688899999999986 56665 33445555321 11237789999999996 89999988
Q ss_pred eeeeeec-CCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecC---CCceeEEEEEeeeecCcc-ccchhhhhhcc
Q 007770 474 RFCKQHA-EGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMP---NGYSKVTWVEHAEYDESQ-VHQLYKPLIIS 548 (590)
Q Consensus 474 Ryckq~~-~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~---nG~skVtWVeH~e~d~~~-vh~lyrpl~~S 548 (590)
|-..+.. +|.++|+--|++.-. .+....++|.....+|++|+... ++.++|+++-|. |... ++.- |++.
T Consensus 114 r~~~~~~~~~~~~i~~~sv~hp~-~P~~~g~VRv~~~~~~~~i~p~~~~~~~~~~~~~~~~~--dPgG~IP~~---lvN~ 187 (207)
T cd08911 114 RRYIIDEENKLIVIVSKAVQHPS-YPESPKKVRVEDYWSYMVIRPHKSFDEPGFEFVLTYFD--NPGVNIPSY---ITSW 187 (207)
T ss_pred EEEEEcCCCCEEEEEEecCCCCC-CCCCCCCEEEEEeEEEEEEEeCCCCCCCCeEEEEEEEe--CCCCccCHH---HHHH
Confidence 8766664 577888888887421 11112479999999999999983 567999988885 6663 7653 6777
Q ss_pred chhHhHHHHHHHHHHHHHH
Q 007770 549 GMGFGAQRWVATLQRQCEC 567 (590)
Q Consensus 549 G~afGA~RWlatLqRqCEr 567 (590)
-...++-.||..|+..|..
T Consensus 188 ~~~~~~~~~l~~l~~a~~~ 206 (207)
T cd08911 188 VAMSGMPDFLERLRNAALK 206 (207)
T ss_pred HHHhhccHHHHHHHHHHhc
Confidence 7888999999999999864
No 57
>cd08872 START_STARD11-like Ceramide-binding START domain of mammalian STARD11 and related domains. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD11 and related domains. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD11 can mediate transfer of the natural ceramide isomers, dihydroceramide and phytoceramide, as well as ceramides having C14, C16, C18, and C20 chains. They can also transfer diacylglycerol, but with a lower efficiency. STARD11 is synthesized from two major transcripts: a larger one encoding Goodpasture antigen-binding protein (GPBP)/ceramide transporter long form (CERTL); and a smaller one encoding GPBPdelta26/CERT, which is deleted for 26 amino acids. Both splicing variants mediate ceramide transfer from the ER to the Golg
Probab=97.14 E-value=0.0069 Score=61.75 Aligned_cols=193 Identities=13% Similarity=0.207 Sum_probs=120.0
Q ss_pred HHHHHHHHhhcC--CCCCeeeccCCCcccccChhhhhhhcCCCCCCCCCCCceeeeecceeEE-echhhHHHHhcChhhh
Q 007770 346 AAMDELVKMAQT--DEPLWIRSFEGSGRQVLNHEEYLRTFTPCIGLKPNGFVTEASRETGMVI-INSLALVETLMDPNRW 422 (590)
Q Consensus 346 ~Am~El~~ma~~--~eplWi~~~~~~~~e~Ln~~eY~~~F~~~~g~~~~g~~~EASR~sgvV~-m~~~~LVe~lmD~~~W 422 (590)
+-.+|.+++|+. ++.-|--..+.+ + .++|.+... ..|+....=|+.++|. ..+..+.+.|.|.+..
T Consensus 10 ~~~~~~~~~~~~~~~~~~W~l~~~~~--g-------ikVy~r~~~--~sg~~~~~~Ka~~~v~~vt~~~~~~~l~D~~~r 78 (235)
T cd08872 10 EKVQEQLTYALEDVGADGWQLFAEEG--E-------MKVYRREVE--EDGVVLDPLKATHAVKGVTGHEVCHYFFDPDVR 78 (235)
T ss_pred HHHHHHHHHHHccCCCCCCEEEEeCC--c-------eEEEEEECC--CCCceeeeEEEEEEECCCCHHHHHHHHhChhhH
Confidence 556788999865 555797654332 1 234433221 1244455678888888 8899999999998743
Q ss_pred hhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecC-------CeEEEEEEeccCcc
Q 007770 423 AEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAE-------GVWAVVDVSIDTIR 495 (590)
Q Consensus 423 ~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~-------g~WaVvDVS~d~~~ 495 (590)
.+=... +..++.++-|+. ...+.|..+..|=| +-.|||.|+|+-++.++ +.|+|+..|++.-.
T Consensus 79 ~~Wd~~-~~~~~vie~l~~--------~~~I~Y~~~k~PwP-vs~RD~V~~~~~~~~~d~~~~~~~~~~vii~~Sv~h~~ 148 (235)
T cd08872 79 MDWETT-LENFHVVETLSQ--------DTLIFHQTHKRVWP-AAQRDALFVSHIRKIPALEEPNAHDTWIVCNFSVDHDS 148 (235)
T ss_pred HHHHhh-hheeEEEEecCC--------CCEEEEEEccCCCC-CCCcEEEEEEEEEecCccccccCCCeEEEEEecccCcc
Confidence 333222 222344444442 22456777778888 69999999999998776 78999999987432
Q ss_pred CCCCCCCccceee---cCCCceeee------c--CCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHH
Q 007770 496 ETSGAPAFVNCRR---LPSGCVVQD------M--PNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQ 564 (590)
Q Consensus 496 ~~~~~~~~~~~rr---~PSGclIqd------~--~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRq 564 (590)
.+..+.++|.+. +=.|.+|.. + .||-|+||++-|++---+ ++. .+++.....++-.+|..|--.
T Consensus 149 -~P~~~g~VRv~~~~~~~~~~~i~~~~g~~~~t~~~~~~~ity~~~~dPgG~-iP~---wvvn~~~k~~~P~~l~~~~~~ 223 (235)
T cd08872 149 -APLNNKCVRAKLTVAMICQTFVSPPDGNQEITRDNILCKITYVANVNPGGW-APA---SVLRAVYKREYPKFLKRFTSY 223 (235)
T ss_pred -CCCCCCeEEEEEEeeeeeeeeeecCCCcccccCCCCeEEEEEEEEeCCCCC-ccH---HHHHHHHHhhchHHHHHHHHH
Confidence 111123555554 222333332 1 588999999999864433 442 356666667777777776544
No 58
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.73 E-value=0.0024 Score=77.05 Aligned_cols=62 Identities=19% Similarity=0.338 Sum_probs=57.7
Q ss_pred CCCCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 133 PRKKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 133 kkKr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
.+++.|++++..|+..+..+|....||...+.+.|...+++.++.|++||||-|+|.|+..+
T Consensus 902 ~r~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~~ 963 (1406)
T KOG1146|consen 902 GRRAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAKL 963 (1406)
T ss_pred hhhhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhhh
Confidence 35667889999999999999999999999999999999999999999999999999998665
No 59
>cd08873 START_STARD14_15-like Lipid-binding START domain of mammalian STARDT14, -15, and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian brown fat-inducible STARD14 (also known as Acyl-Coenzyme A Thioesterase 11 or ACOT11, BFIT, THEA, THEM1, KIAA0707, and MGC25974), STARD15/ACOT12 (also known as cytoplasmic acetyl-CoA hydrolase/CACH, THEAL, and MGC105114), and related domains. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD14/ACOT11 and STARD15/ACOT12 are type II acetyl-CoA thioesterases; they catalyze the hydrolysis of acyl-CoAs to free fatty acid and CoASH. Human STARD14 displays acetyl-CoA thioesterase activity towards medium(C12)- and long(C16)-chain fatty acyl-CoA substrates. Rat CACH hydrolyzes acetyl-CoA to acetate an
Probab=96.33 E-value=0.023 Score=58.14 Aligned_cols=127 Identities=15% Similarity=0.183 Sum_probs=86.3
Q ss_pred CCceeeeecceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeE
Q 007770 393 GFVTEASRETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNF 472 (590)
Q Consensus 393 g~~~EASR~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~f 472 (590)
.|++|+. |-..+.+|++.|.|.+...+=.+- +...++|..-. ....++|..+..|. -+..|||.+
T Consensus 78 ~fk~e~~-----vd~s~~~v~dlL~D~~~R~~WD~~----~~e~evI~~id-----~d~~iyy~~~p~Pw-Pvk~RDfV~ 142 (235)
T cd08873 78 SFCVELK-----VQTCASDAFDLLSDPFKRPEWDPH----GRSCEEVKRVG-----EDDGIYHTTMPSLT-SEKPNDFVL 142 (235)
T ss_pred EEEEEEE-----ecCCHHHHHHHHhCcchhhhhhhc----ccEEEEEEEeC-----CCcEEEEEEcCCCC-CCCCceEEE
Confidence 4566654 788999999999998754433332 44455554211 12244564444444 488999999
Q ss_pred EeeeeeecCC--eEEEEEEecc--CccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCcccc
Q 007770 473 LRFCKQHAEG--VWAVVDVSID--TIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVH 539 (590)
Q Consensus 473 lRyckq~~~g--~WaVvDVS~d--~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh 539 (590)
+|+-++..++ ..+|.=-|+. ...+. +.++|.+.+=.|.+|++..+|.|+||.+-|++ +.-++
T Consensus 143 ~~s~~~~~~~~~~~~I~~~SV~h~~~Pp~---kgyVR~~~~~ggW~I~p~~~~~t~VtY~~~~d--Pg~~~ 208 (235)
T cd08873 143 LVSRRKPATDGDPYKVAFRSVTLPRVPQT---PGYSRTEVACAGFVIRQDCGTCTEVSYYNETN--PKLLS 208 (235)
T ss_pred EEEEEeccCCCCeEEEEEeeeecccCCCC---CCeEEEEEEeeeEEEEECCCCcEEEEEEEEcC--CCccc
Confidence 9999984443 3766666654 22222 24899999999999999999999999999985 44443
No 60
>cd08913 START_STARD14-like Lipid-binding START domain of mammalian STARDT14 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian brown fat-inducible STARD14 (also known as Acyl-Coenzyme A Thioesterase 11 or ACOT11, BFIT, THEA, THEM1, KIAA0707, and MGC25974) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD14/ACOT11 is a type II acetyl-CoA thioesterase; it catalyzes the hydrolysis of acyl-CoAs to free fatty acid and CoASH. Human STARD14 displays acetyl-CoA thioesterase activity towards medium(C12)- and long(C16)-chain fatty acyl-CoA substrates. In addition to having a START domain, most proteins in this subgroup have two tandem copies of the hotdog domain. There are two splice variants of
Probab=95.70 E-value=0.076 Score=54.51 Aligned_cols=123 Identities=14% Similarity=0.165 Sum_probs=80.8
Q ss_pred eeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccc-c---ccccceeeEEeeeee
Q 007770 403 GMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLS-P---LVPVREVNFLRFCKQ 478 (590)
Q Consensus 403 gvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlS-P---LVP~Re~~flRyckq 478 (590)
++|-..+..|++.|.|.+...+=.+. +...+||..-.. + . . . .++.+ | -|..|||-.++.-.+
T Consensus 87 ~~vd~s~e~v~~lL~D~~~r~~Wd~~----~~e~~vIe~id~---~-~-~-v---Y~v~~~p~~~pvs~RDfV~~~s~~~ 153 (240)
T cd08913 87 MVVHVDAAQAFLLLSDLRRRPEWDKH----YRSCELVQQVDE---D-D-A-I---YHVTSPSLSGHGKPQDFVILASRRK 153 (240)
T ss_pred EEEcCCHHHHHHHHhChhhhhhhHhh----ccEEEEEEecCC---C-c-E-E---EEEecCCCCCCCCCCeEEEEEEEEe
Confidence 68888999999999999755544333 344445443321 1 1 1 1 22332 2 588999999988866
Q ss_pred ecC-C-eEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccch
Q 007770 479 HAE-G-VWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQL 541 (590)
Q Consensus 479 ~~~-g-~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~l 541 (590)
..+ | .++|+=.|+..-. -|..+.++|.+.+..|++|+...+|.|+||++-|++ ...++..
T Consensus 154 ~~~~g~~yii~~~sv~~P~-~Pp~kgyVR~~~~~ggw~i~p~~~~~t~vtY~~~~d--PG~LP~~ 215 (240)
T cd08913 154 PCDNGDPYVIALRSVTLPT-HPPTPEYTRGETLCSGFCIWEESDQLTKVSYYNQAT--PGVLPYI 215 (240)
T ss_pred ccCCCccEEEEEEEeecCC-CCCCCCcEEeeecccEEEEEECCCCcEEEEEEEEeC--CccccHH
Confidence 544 3 4555444443211 122224899999999999999999999999999987 3355544
No 61
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=95.35 E-value=0.014 Score=62.25 Aligned_cols=61 Identities=21% Similarity=0.339 Sum_probs=50.1
Q ss_pred CCCCCCCCCHHHHHHHHHhhh---cCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 134 RKKRYHRHTPQQIQELESLFK---ECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 134 kKr~RtrfT~~Ql~~LE~~F~---~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
++|++..+......+|+.... ..+||+..++..||+++||+..||..||-|.|-|..+-..
T Consensus 239 ~~r~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~~ 302 (342)
T KOG0773|consen 239 KWRPQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPMI 302 (342)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCchH
Confidence 445556788998999987743 2589999999999999999999999999999888665443
No 62
>cd08914 START_STARD15-like Lipid-binding START domain of mammalian STARD15 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD15/ACOT12 (also known as cytoplasmic acetyl-CoA hydrolase/CACH, THEAL, and MGC105114) and related domains. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD15/ACOT12 is a type II acetyl-CoA thioesterase; it catalyzes the hydrolysis of acyl-CoAs to free fatty acid and CoASH. Rat CACH hydrolyzes acetyl-CoA to acetate and CoA. In addition to having a START domain, most proteins in this subgroup have two tandem copies of the hotdog domain. Human STARD15/ACOT12 may have roles in cholesterol metabolism and in beta-oxidation.
Probab=95.00 E-value=0.14 Score=52.48 Aligned_cols=128 Identities=12% Similarity=0.078 Sum_probs=84.9
Q ss_pred eecceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccc-cccccceeeEEeeee
Q 007770 399 SRETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLS-PLVPVREVNFLRFCK 477 (590)
Q Consensus 399 SR~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlS-PLVP~Re~~flRyck 477 (590)
-|....|-..+..|++.|.|.+...+=.+- +...+||..-... . . +|...-.|= | |..|||-++|--.
T Consensus 80 fk~e~~vdvs~~~l~~LL~D~~~r~~Wd~~----~~e~~vI~qld~~----~-~-vY~~~~pPw~P-vk~RD~V~~~s~~ 148 (236)
T cd08914 80 VWVEKHVKRPAHLAYRLLSDFTKRPLWDPH----FLSCEVIDWVSED----D-Q-IYHITCPIVNN-DKPKDLVVLVSRR 148 (236)
T ss_pred EEEEEEEcCCHHHHHHHHhChhhhchhHHh----hceEEEEEEeCCC----c-C-EEEEecCCCCC-CCCceEEEEEEEE
Confidence 344447788999999999999755444333 3444444432211 1 1 344332221 3 4889999987766
Q ss_pred eec-CCe-EEEEEEeccC-ccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccch
Q 007770 478 QHA-EGV-WAVVDVSIDT-IRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQL 541 (590)
Q Consensus 478 q~~-~g~-WaVvDVS~d~-~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~l 541 (590)
+.. +|. ++|.=-|+.. ..+. .+.++|.+.+=+|++|+..++|-|+||.+-|++ ...++..
T Consensus 149 ~~~~dg~~~~I~~~SVp~~~~Pp--~kg~VRv~~~~~G~~I~pl~~~~~~VtY~~~~d--Pg~lp~~ 211 (236)
T cd08914 149 KPLKDGNTYVVAVKSVILPSVPP--SPQYIRSEIICAGFLIHAIDSNSCTVSYFNQIS--ASILPYF 211 (236)
T ss_pred ecCCCCCEEEEEEeecccccCCC--CCCcEEeEEEEEEEEEEEcCCCcEEEEEEEEcC--Cccchhe
Confidence 665 885 8888788764 2221 124788998889999999999999999999995 4555543
No 63
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=94.69 E-value=0.014 Score=46.90 Aligned_cols=43 Identities=28% Similarity=0.429 Sum_probs=31.4
Q ss_pred HHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhh
Q 007770 145 QIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRT 187 (590)
Q Consensus 145 Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRa 187 (590)
.++.|++.|...+++.......|..+.+|+..||+.||-.|+.
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 4567999999999999999999999999999999999976543
No 64
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=92.84 E-value=0.47 Score=43.40 Aligned_cols=40 Identities=15% Similarity=0.221 Sum_probs=27.3
Q ss_pred CCCCHHHHH-HHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccc
Q 007770 139 HRHTPQQIQ-ELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQ 183 (590)
Q Consensus 139 trfT~~Ql~-~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQ 183 (590)
.+||.++.. .+...+... ....++|+++|+++.+|..|.+
T Consensus 11 r~ys~EfK~~aV~~~~~~g-----~sv~evA~e~gIs~~tl~~W~r 51 (121)
T PRK09413 11 RRRTTQEKIAIVQQSFEPG-----MTVSLVARQHGVAASQLFLWRK 51 (121)
T ss_pred CCCCHHHHHHHHHHHHcCC-----CCHHHHHHHHCcCHHHHHHHHH
Confidence 357776644 444444432 2456789999999999999953
No 65
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=92.36 E-value=2.4 Score=39.68 Aligned_cols=87 Identities=24% Similarity=0.303 Sum_probs=55.0
Q ss_pred CCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHc-CCCccchhcccchhhhHHHHHHHHhhhhHHHHhhHHHHhhhhhHHh
Q 007770 139 HRHTPQQIQELESLFKECPHPDEKQRLELSKRL-CLETRQVKFWFQNRRTQMKTQLERHENSLLRQENDKLRAENMSIRD 217 (590)
Q Consensus 139 trfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~L-gLs~rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~~L~~en~~l~e 217 (590)
.+|+.+++..| .-.+|=++| |++...|-.|=|.||+-.-+-.........-++.+.|.+++..|..
T Consensus 22 d~lsDd~Lvsm-------------SVReLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~q 88 (135)
T KOG4196|consen 22 DRLSDDELVSM-------------SVRELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQ 88 (135)
T ss_pred CCcCHHHHHHh-------------hHHHHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888877655 122334444 8999999999999998655444333333333444555566555554
Q ss_pred hhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHH
Q 007770 218 AMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 218 a~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
+..+|+.||++++.|++-...
T Consensus 89 ---------------------qv~~L~~e~s~~~~E~da~k~ 109 (135)
T KOG4196|consen 89 ---------------------QVEKLKEENSRLRRELDAYKS 109 (135)
T ss_pred ---------------------HHHHHHHHHHHHHHHHHHHHH
Confidence 345688888888888875543
No 66
>cd08860 TcmN_ARO-CYC_like N-terminal aromatase/cyclase domain of the multifunctional protein tetracenomycin (TcmN) and related domains. This family includes the N-terminal aromatase/cyclase (ARO/CYC) domain of Streptomyces glaucescens TcmN, and related domains. It belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. ARO/CYC domains participate in the diversification of aromatic polyketides by promoting polyketide cyclization. They occur in two architectural forms, monodomain and didomain. Monodomain aromatase/cyclases have a single ARO/CYC domain. For some, such as TcmN, this single domain is linked to a second domain of unrelated function. TcmN is a multifunctional cyclase-dehydratase-O-methyl transferase. Its N-terminal ARO/CYC domain participates in polyketide binding and catalysis; it promotes C9-C14 first-ring (and C7-C16 second-ring) cyclizations.
Probab=89.47 E-value=2.4 Score=39.92 Aligned_cols=139 Identities=12% Similarity=0.124 Sum_probs=75.0
Q ss_pred cceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeec
Q 007770 401 ETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHA 480 (590)
Q Consensus 401 ~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~ 480 (590)
.+-+|.-.+..+-+++-|+.+|-+.||.+ .-++|++.|..| -| +.+++-.+.-..+.-+.-|.+..
T Consensus 5 ~si~i~a~~~~v~~lvaDv~~~P~~~~~~----~~~~~l~~~~~~--~~------~r~~i~~~~~g~~~~w~s~~~~~-- 70 (146)
T cd08860 5 NSIVIDAPLDLVWDMTNDIATWPDLFSEY----AEAEVLEEDGDT--VR------FRLTMHPDANGTVWSWVSERTLD-- 70 (146)
T ss_pred eEEEEcCCHHHHHHHHHhhhhhhhhccce----EEEEEEEecCCe--EE------EEEEEEeccCCEEEEEEEEEEec--
Confidence 34455667889999999999999999994 667778765422 11 22321111111222222243322
Q ss_pred CCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecC-cc-ccchhhhhhccchhHhHHHHH
Q 007770 481 EGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDE-SQ-VHQLYKPLIISGMGFGAQRWV 558 (590)
Q Consensus 481 ~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~-~~-vh~lyrpl~~SG~afGA~RWl 558 (590)
...|-|.=..+.. .+ + ..+=--..+++.++| |+|++..+.+... .. ...+.+.++.. .-..=+
T Consensus 71 ~~~~~i~~~~~~~---~p----~---~~m~~~W~f~~~~~g-T~V~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l 135 (146)
T cd08860 71 PVNRTVRARRVET---GP----F---AYMNIRWEYTEVPEG-TRMRWVQDFEMKPGAPVDDAAMTDRLNT----NTRAQM 135 (146)
T ss_pred CCCcEEEEEEecC---CC----c---ceeeeeEEEEECCCC-EEEEEEEEEEECCCCccchHHHHHHHhc----ccHHHH
Confidence 2233222101111 11 1 111122336788888 9999999988653 22 22233333333 445668
Q ss_pred HHHHHHHHHH
Q 007770 559 ATLQRQCECL 568 (590)
Q Consensus 559 atLqRqCErl 568 (590)
++|.+.+|+-
T Consensus 136 ~~Lk~~aE~~ 145 (146)
T cd08860 136 ARIKKKIEAA 145 (146)
T ss_pred HHHHHHhhhc
Confidence 8899999873
No 67
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=88.61 E-value=3 Score=42.84 Aligned_cols=61 Identities=30% Similarity=0.341 Sum_probs=38.5
Q ss_pred cchhhhHHHHHHHHh--hhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHH
Q 007770 182 FQNRRTQMKTQLERH--ENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDR 256 (590)
Q Consensus 182 FQNRRaK~Kr~~~r~--e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r 256 (590)
-|+-|-|.|.+..+. +-..|..+|++|+.||++|++..++.. .+.+.|+.+-..|++||..
T Consensus 81 AQtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~--------------~~n~el~~~le~~~~~l~~ 143 (292)
T KOG4005|consen 81 AQTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLL--------------AKNHELDSELELLRQELAE 143 (292)
T ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------hhhHHHHHHHHHHHHHHHh
Confidence 356666666555544 445678899999999999998766421 2344555555555555543
No 68
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=87.93 E-value=0.42 Score=55.40 Aligned_cols=47 Identities=17% Similarity=0.329 Sum_probs=43.5
Q ss_pred HHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHH
Q 007770 146 IQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQ 192 (590)
Q Consensus 146 l~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~ 192 (590)
...|...|..|..|+..+...+|.+.||..+.||.||+++++....-
T Consensus 568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~sv 614 (1007)
T KOG3623|consen 568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMSV 614 (1007)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhhh
Confidence 67889999999999999999999999999999999999999887643
No 69
>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=86.69 E-value=0.9 Score=35.91 Aligned_cols=46 Identities=13% Similarity=0.238 Sum_probs=34.3
Q ss_pred CCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchh
Q 007770 135 KKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNR 185 (590)
Q Consensus 135 Kr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNR 185 (590)
||+|..+|.++...+-..++... ...+||+++|++..+|..|..||
T Consensus 1 krkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~k 46 (53)
T PF04218_consen 1 KRKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKNK 46 (53)
T ss_dssp SSSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHCH
T ss_pred CCCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHhH
Confidence 45677899988888777787776 57889999999999999999885
No 70
>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=86.58 E-value=1.4 Score=33.95 Aligned_cols=39 Identities=26% Similarity=0.372 Sum_probs=29.3
Q ss_pred HHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHH
Q 007770 193 LERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 193 ~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
+.+.++..|++..+.|++++.+|. .||..|+.|+..+..
T Consensus 2 QlE~Dy~~LK~~yd~Lk~~~~~L~----------------------------~E~~~L~aev~~L~~ 40 (45)
T PF02183_consen 2 QLERDYDALKASYDSLKAEYDSLK----------------------------KENEKLRAEVQELKE 40 (45)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHH----------------------------HHHHHHHHHHHHHHH
Confidence 456788889999999998876655 477777777776654
No 71
>cd08866 SRPBCC_11 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=85.74 E-value=8.9 Score=34.64 Aligned_cols=133 Identities=14% Similarity=0.159 Sum_probs=74.8
Q ss_pred cceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccce-eeEEeeeeee
Q 007770 401 ETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVRE-VNFLRFCKQH 479 (590)
Q Consensus 401 ~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re-~~flRyckq~ 479 (590)
.+-.|-..+..+-++|.|.+.|.+.+|.+ ...+++..+. ++.. ++.. .|. +.+++|+..
T Consensus 3 ~~~~i~a~~~~Vw~~l~D~~~~~~w~p~v----~~~~~l~~~~----~~~~--~~~~---------~~~~~~~~~~~~~- 62 (144)
T cd08866 3 ARVRVPAPPETVWAVLTDYDNLAEFIPNL----AESRLLERNG----NRVV--LEQT---------GKQGILFFKFEAR- 62 (144)
T ss_pred EEEEECCCHHHHHHHHhChhhHHhhCcCc----eEEEEEEcCC----CEEE--EEEe---------eeEEEEeeeeeEE-
Confidence 34556667888999999999999999995 5566665432 1211 1110 111 223334332
Q ss_pred cCCeEEEEEEeccCccCCCCCCCccceeec----C--CCc-eeeecCC-CceeEEEEEeeeecCccccchhhhhhccchh
Q 007770 480 AEGVWAVVDVSIDTIRETSGAPAFVNCRRL----P--SGC-VVQDMPN-GYSKVTWVEHAEYDESQVHQLYKPLIISGMG 551 (590)
Q Consensus 480 ~~g~WaVvDVS~d~~~~~~~~~~~~~~rr~----P--SGc-lIqd~~n-G~skVtWVeH~e~d~~~vh~lyrpl~~SG~a 551 (590)
++.++.... +.. ...+.+.. + .|+ -+++.++ |.+.|||--|++..- . ++-+|++.-+-
T Consensus 63 -----v~~~~~~~~--~~~---~~i~~~~~~g~~~~~~g~w~~~~~~~~~~t~v~~~~~~~~~~-~---~p~~l~~~~~~ 128 (144)
T cd08866 63 -----VVLELRERE--EFP---RELDFEMVEGDFKRFEGSWRLEPLADGGGTLLTYEVEVKPDF-F---APVFLVEFVLR 128 (144)
T ss_pred -----EEEEEEEec--CCC---ceEEEEEcCCchhceEEEEEEEECCCCCeEEEEEEEEEEeCC-C---CCHHHHHHHHH
Confidence 122221100 000 01111111 0 121 2577777 789999988877653 2 33467766667
Q ss_pred HhHHHHHHHHHHHHHH
Q 007770 552 FGAQRWVATLQRQCEC 567 (590)
Q Consensus 552 fGA~RWlatLqRqCEr 567 (590)
=+..+=++.|.++||.
T Consensus 129 ~~~~~~l~~lr~~ae~ 144 (144)
T cd08866 129 QDLPTNLLAIRAEAES 144 (144)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 7788999999999983
No 72
>cd05018 CoxG Carbon monoxide dehydrogenase subunit G (CoxG). CoxG has been shown, in Oligotropha carboxidovorans, to anchor the carbon monoxide (CO) dehydrogenase to the cytoplasmic membrane. The gene encoding CoxG is part of the Cox cluster (coxBCMSLDEFGHIK) located on a low-copy-number, circular, megaplasmid pHCG3. This cluster includes genes encoding subunits of CO dehydrogenase and several accessory components involved in the utilization of CO. This family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands.
Probab=85.58 E-value=6.1 Score=35.31 Aligned_cols=119 Identities=15% Similarity=0.176 Sum_probs=62.6
Q ss_pred eeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCC
Q 007770 403 GMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEG 482 (590)
Q Consensus 403 gvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g 482 (590)
-.+-..+.++.++|.|.+.|.+-+|.+. .+++++.| ...+ +....+ .|+ ..|-....+|..--++.
T Consensus 7 ~~i~a~~e~v~~~l~D~~~~~~w~p~~~----~~~~~~~~-------~~~~-~~~~~~-~~~-~~~~~~~~~~~~~~~~~ 72 (144)
T cd05018 7 FRIPAPPEEVWAALNDPEVLARCIPGCE----SLEKIGPN-------EYEA-TVKLKV-GPV-KGTFKGKVELSDLDPPE 72 (144)
T ss_pred EEecCCHHHHHHHhcCHHHHHhhccchh----hccccCCC-------eEEE-EEEEEE-ccE-EEEEEEEEEEEecCCCc
Confidence 3456678899999999999999999864 35555422 1111 111122 232 22322234554433445
Q ss_pred eEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhc
Q 007770 483 VWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLII 547 (590)
Q Consensus 483 ~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~ 547 (590)
.+++....... .. +. ..=--+-|.+. +|.++|||.-+++..- .+..|..++++
T Consensus 73 ~~~~~~~~~~~---~~----~~---~~~~~~~l~~~-~~gT~v~~~~~~~~~g-~l~~l~~~~~~ 125 (144)
T cd05018 73 SYTITGEGKGG---AG----FV---KGTARVTLEPD-GGGTRLTYTADAQVGG-KLAQLGSRLID 125 (144)
T ss_pred EEEEEEEEcCC---Cc----eE---EEEEEEEEEec-CCcEEEEEEEEEEEcc-ChhhhCHHHHH
Confidence 55444222111 00 10 11112336677 5669999999998653 34455555543
No 73
>PF10604 Polyketide_cyc2: Polyketide cyclase / dehydrase and lipid transport; InterPro: IPR019587 This family contains polyketide cylcases/dehydrases which are enzymes involved in polyketide synthesis. It also includes other proteins of the START superfamily []. ; PDB: 3QRZ_C 3CNW_A 3P9V_A 3OQU_B 3NEF_B 3JRQ_B 3KAY_A 3JRS_A 3KDJ_A 3NMN_C ....
Probab=83.41 E-value=28 Score=30.58 Aligned_cols=126 Identities=21% Similarity=0.314 Sum_probs=67.2
Q ss_pred ceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecC
Q 007770 402 TGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAE 481 (590)
Q Consensus 402 sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~ 481 (590)
+..|...+.++-+.|.|...|.+-+|.+ ..+++++.|. . |. ..++.+... ..
T Consensus 7 ~~~v~a~~e~V~~~l~d~~~~~~w~~~~----~~~~~~~~~~--~--~~----~~~~~~~g~----------------~~ 58 (139)
T PF10604_consen 7 SIEVPAPPEAVWDLLSDPENWPRWWPGV----KSVELLSGGG--P--GT----ERTVRVAGR----------------GT 58 (139)
T ss_dssp EEEESS-HHHHHHHHTTTTGGGGTSTTE----EEEEEEEECS--T--EE----EEEEEECSC----------------SE
T ss_pred EEEECCCHHHHHHHHhChhhhhhhhhce----EEEEEccccc--c--ce----eEEEEeccc----------------cc
Confidence 3466678889999999999999988875 4566666221 1 11 011111111 01
Q ss_pred CeEEEEEEeccCccCCCCCCCccceeecCCC-------ceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhH
Q 007770 482 GVWAVVDVSIDTIRETSGAPAFVNCRRLPSG-------CVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGA 554 (590)
Q Consensus 482 g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSG-------clIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA 554 (590)
-.|-|+++. + . .. ....+-.+.| ..+++.++| |.|||..|++. .-.-.+-.+++...+.=..
T Consensus 59 ~~~~i~~~~-~--~-~~----~~~~~~~~~~~~~~~~~~~~~~~~~g-t~v~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 127 (139)
T PF10604_consen 59 VREEITEYD-P--E-PR----RITWRFVPSGFTNGTGRWRFEPVGDG-TRVTWTVEFEP--GLPGWLAGPLLRPAVKRIV 127 (139)
T ss_dssp EEEEEEEEE-T--T-TT----EEEEEEESSSSCEEEEEEEEEEETTT-EEEEEEEEEEE--SCTTSCHHHHHHHHHHHHH
T ss_pred eeEEEEEec-C--C-Cc----EEEEEEEecceeEEEEEEEEEEcCCC-EEEEEEEEEEE--eccchhhHHHHHHHHHHHH
Confidence 123333322 0 0 00 0111110222 347788888 99999999998 2122223344443333336
Q ss_pred HHHHHHHHHHHH
Q 007770 555 QRWVATLQRQCE 566 (590)
Q Consensus 555 ~RWlatLqRqCE 566 (590)
+++|+.|.+.+|
T Consensus 128 ~~~l~~l~~~~E 139 (139)
T PF10604_consen 128 REALENLKRAAE 139 (139)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHhcccC
Confidence 788888888877
No 74
>cd08861 OtcD1_ARO-CYC_like N-terminal and C-terminal aromatase/cyclase domains of Streptomyces rimosus OtcD1 and related domains. This family includes the N- and C- terminal aromatase/cyclase (ARO/CYC) domains of Streptomyces rimosus OtcD1 and related domains. It belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. ARO/CYC domains participate in the diversification of aromatic polyketides by promoting polyketide cyclization. They occur in two architectural forms, didomain and monodomain. Didomain aromatase/cyclases (ARO/CYCs), contain two ARO/CYC domains, and are associated with C7-C12 first ring cyclized polyketides. Streptomyces rimosus OtcD1 is a didomain ARO/CYC. The polyketide Oxytetracycline (OTC) is a broad spectrum antibiotic made by Streptomyces rimosus. The gene encoding OtcD1 is part of oxytetracycline (OTC) gene cluster. Disruption of this
Probab=83.30 E-value=6.2 Score=35.57 Aligned_cols=138 Identities=14% Similarity=0.101 Sum_probs=69.3
Q ss_pred ceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecC
Q 007770 402 TGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAE 481 (590)
Q Consensus 402 sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~ 481 (590)
+.+|--.+..+-++|-|.++|-+.+|+ + .++++..+. ++.. ++ +....+.--...++..++|. .+
T Consensus 4 s~~i~ap~~~V~~~l~D~~~~p~~~p~-~----~~~~~~~~~----~~~~--~~--~~~~~~~g~~~~~~~~~~~~--~~ 68 (142)
T cd08861 4 SVTVAAPAEDVYDLLADAERWPEFLPT-V----HVERLELDG----GVER--LR--MWATAFDGSVHTWTSRRVLD--PE 68 (142)
T ss_pred EEEEcCCHHHHHHHHHhHHhhhccCCC-c----eEEEEEEcC----CEEE--EE--EEEEcCCCcEEEEEEEEEEc--CC
Confidence 345556788999999999999998887 2 333444321 2221 11 11111111122222222322 22
Q ss_pred CeEE-EEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHH
Q 007770 482 GVWA-VVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVAT 560 (590)
Q Consensus 482 g~Wa-VvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlat 560 (590)
+..+ ...+...+.... +-.. ..+++.++|.|+|||.-+++.... +. +.-+++.--+.=-..+.|+.
T Consensus 69 ~~~i~~~~~~~~~~~~~-----~~g~------w~~~~~~~~~t~Vt~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~l~~ 135 (142)
T cd08861 69 GRRIVFRQEEPPPPVAS-----MSGE------WRFEPLGGGGTRVTLRHDFTLGID-SP-EAVPWIRRALDRNSRAELAA 135 (142)
T ss_pred CCEEEEEEeeCCCChhh-----heeE------EEEEECCCCcEEEEEEEEEEECCC-Cc-hhHHHHHHHHccccHHHHHH
Confidence 3321 111111111000 1111 235667767899999999987733 22 43344433333345778888
Q ss_pred HHHHHHH
Q 007770 561 LQRQCEC 567 (590)
Q Consensus 561 LqRqCEr 567 (590)
|.+++|+
T Consensus 136 lk~~~E~ 142 (142)
T cd08861 136 LRAAAER 142 (142)
T ss_pred HHHHhhC
Confidence 8888874
No 75
>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=82.26 E-value=3.9 Score=34.65 Aligned_cols=51 Identities=33% Similarity=0.549 Sum_probs=36.1
Q ss_pred HHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH----HHHHHhhhc
Q 007770 193 LERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD----RVCALAGKF 264 (590)
Q Consensus 193 ~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~----r~~~~~~~~ 264 (590)
+.-.....|+.+++.|+.+|..+.+ +...|+.||.+|++|.. |+.++++|+
T Consensus 15 ~aveti~~Lq~e~eeLke~n~~L~~---------------------e~~~L~~en~~L~~e~~~~~~rl~~LL~kl 69 (72)
T PF06005_consen 15 QAVETIALLQMENEELKEKNNELKE---------------------ENEELKEENEQLKQERNAWQERLRSLLGKL 69 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444566788888888888887775 34568899999998865 555555543
No 76
>KOG2761 consensus START domain-containing proteins involved in steroidogenesis/phosphatidylcholine transfer [Lipid transport and metabolism]
Probab=81.48 E-value=6.1 Score=40.24 Aligned_cols=139 Identities=13% Similarity=0.172 Sum_probs=89.7
Q ss_pred echhhHHHHhcCh---hhhhhhcccccccceEeEEee-CCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCC
Q 007770 407 INSLALVETLMDP---NRWAEMFPCMIARTATTDVIS-SGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEG 482 (590)
Q Consensus 407 m~~~~LVe~lmD~---~~W~~~Fp~iVs~a~T~~Vis-~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g 482 (590)
+.|..+-+.|||. .+|=.+ |.+-.||+..+ ||. .++|=+.+.|.|+- .||+-++|---+..+-
T Consensus 64 vtp~~~~Dv~~D~eYRkkWD~~----vi~~e~ie~d~~tg~--------~vv~w~~kfP~p~~-~RdYV~~Rr~~~~~~k 130 (219)
T KOG2761|consen 64 VTPEIVRDVQWDDEYRKKWDDM----VIELETIEEDPVTGT--------EVVYWVKKFPFPMS-NRDYVYVRRWWESDEK 130 (219)
T ss_pred CCHHHHHHHHhhhHHHHHHHHH----hhhheeeeecCCCCc--------eEEEEEEeCCcccC-CccEEEEEEEEecCCc
Confidence 4678889999996 499888 45556666655 443 78999999998886 5999999777776666
Q ss_pred eEEEEEEeccCccCCCCCCCccceeecCCCceee-----ecCCC-ceeEEEEEeeeecCccccchhhhhhccchhHhHHH
Q 007770 483 VWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQ-----DMPNG-YSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQR 556 (590)
Q Consensus 483 ~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIq-----d~~nG-~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~R 556 (590)
.-.||--|+..-.- +.....+|..-.=||.+|+ +-++| -|-++|+.| +.. .|.+-+++=+.-+|+--
T Consensus 131 ~~~i~s~~v~h~s~-P~~~~~vRv~~~~s~~~I~~~~~~~~~~~~~~~~~~~~~----p~~--~iP~~~v~~~~~~gmp~ 203 (219)
T KOG2761|consen 131 DYYIVSKSVQHPSY-PPLKKKVRVTVYRSGWLIRVESRSGDEQGCACEYLYFHN----PGG--GIPKWVVKLAVRKGMPG 203 (219)
T ss_pred eEEEEEecccCCCc-CCcCCcEEEEEEEEEEEEEcccccCCCCccEEEEEEEEC----CCC--CCcHHHHHHHHHhcChH
Confidence 67777776653210 1001246777788999999 66666 355566543 221 34455555555555544
Q ss_pred HHHHHHHHH
Q 007770 557 WVATLQRQC 565 (590)
Q Consensus 557 WlatLqRqC 565 (590)
-|.-|..-|
T Consensus 204 ~vkKm~~a~ 212 (219)
T KOG2761|consen 204 AVKKMEKAL 212 (219)
T ss_pred HHHHHHHHH
Confidence 444444433
No 77
>cd07819 SRPBCC_2 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=81.11 E-value=20 Score=31.78 Aligned_cols=133 Identities=14% Similarity=0.191 Sum_probs=74.8
Q ss_pred cceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeec
Q 007770 401 ETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHA 480 (590)
Q Consensus 401 ~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~ 480 (590)
.+..|-..+.++.+.|.|.+.|.+.+|.+ .-++++..|.. |.-... .+.+ ...+.++.+.++|...-
T Consensus 6 ~s~~i~ap~e~V~~~l~D~~~~~~w~p~~----~~~~~~~~~~~----~~~~~~--~~~~--~~~~~~~~~~~~~~~~~- 72 (140)
T cd07819 6 REFEIEAPPAAVMDVLADVEAYPEWSPKV----KSVEVLLRDND----GRPEMV--RIGV--GAYGIKDTYALEYTWDG- 72 (140)
T ss_pred EEEEEeCCHHHHHHHHhChhhhhhhCcce----EEEEEeccCCC----CCEEEE--EEEE--eeeeEEEEEEEEEEEcC-
Confidence 34566778889999999999999999994 45666655432 211111 1222 22244555556665432
Q ss_pred CC--eEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHH
Q 007770 481 EG--VWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWV 558 (590)
Q Consensus 481 ~g--~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWl 558 (590)
.. .|-+.+.. . +.... .-.-|++..+| |+|||.-+++..- . +...+++.-.--+.+.-+
T Consensus 73 ~~~i~~~~~~~~-------~----~~~~~---~~~~~~~~~~~-t~vt~~~~~~~~~-~---~~~~~~~~~~~~~~~~~~ 133 (140)
T cd07819 73 AGSVSWTLVEGE-------G----NRSQE---GSYTLTPKGDG-TRVTFDLTVELTV-P---LPGFLKRKAEPLVLDEAL 133 (140)
T ss_pred CCcEEEEEeccc-------c----eeEEE---EEEEEEECCCC-EEEEEEEEEEecC-C---CCHHHHHHhhhHHHHHHH
Confidence 22 22222211 0 11111 12457778775 9999999998753 2 334455444445566666
Q ss_pred HHHHHHH
Q 007770 559 ATLQRQC 565 (590)
Q Consensus 559 atLqRqC 565 (590)
..|.++|
T Consensus 134 ~~l~~~~ 140 (140)
T cd07819 134 KGLKKRV 140 (140)
T ss_pred HhHhhhC
Confidence 6666654
No 78
>PRK10724 hypothetical protein; Provisional
Probab=80.05 E-value=26 Score=33.61 Aligned_cols=137 Identities=12% Similarity=0.157 Sum_probs=82.7
Q ss_pred ecceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeee
Q 007770 400 RETGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQH 479 (590)
Q Consensus 400 R~sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~ 479 (590)
+.+.+|.-.+..|.+.+.|.++|-+.+|- |.-.+|+.... ++ |.|++.|--.-+ ...+..-++| .
T Consensus 18 ~~~~~v~~s~~~v~~lv~Dve~yp~flp~----~~~s~vl~~~~----~~----~~a~l~v~~~g~-~~~f~srv~~-~- 82 (158)
T PRK10724 18 SRTALVPYSAEQMYQLVNDVQSYPQFLPG----CTGSRVLESTP----GQ----MTAAVDVSKAGI-SKTFTTRNQL-T- 82 (158)
T ss_pred EEEEEecCCHHHHHHHHHHHHHHHHhCcc----cCeEEEEEecC----CE----EEEEEEEeeCCc-cEEEEEEEEe-c-
Confidence 44577788999999999999999999888 55666776543 22 467776644433 3333333333 2
Q ss_pred cCCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHH
Q 007770 480 AEGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVA 559 (590)
Q Consensus 480 ~~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWla 559 (590)
.++ .+.+ ..+++ + | +.+=.---++++++|-|+|+.--+.|+.- .||..++...+-=-|++=+.
T Consensus 83 ~~~-~I~~-~~~~G----p----F---~~l~g~W~f~p~~~~~t~V~~~l~fef~s----~l~~~~~~~~~~~~~~~mv~ 145 (158)
T PRK10724 83 SNQ-SILM-QLVDG----P----F---KKLIGGWKFTPLSQEACRIEFHLDFEFTN----KLIELAFGRVFKELASNMVQ 145 (158)
T ss_pred CCC-EEEE-EecCC----C----h---hhccceEEEEECCCCCEEEEEEEEEEEch----HHHHHHHHHHHHHHHHHHHH
Confidence 233 3322 22332 2 1 22222233567777779999988888653 45556663333334777787
Q ss_pred HHHHHHHHH
Q 007770 560 TLQRQCECL 568 (590)
Q Consensus 560 tLqRqCErl 568 (590)
+..+-|+.+
T Consensus 146 AF~~Ra~~~ 154 (158)
T PRK10724 146 AFTVRAKEV 154 (158)
T ss_pred HHHHHHHHH
Confidence 777777765
No 79
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=79.27 E-value=7.3 Score=33.64 Aligned_cols=61 Identities=30% Similarity=0.444 Sum_probs=42.9
Q ss_pred HHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH----HHHHHhhhc
Q 007770 190 KTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD----RVCALAGKF 264 (590)
Q Consensus 190 Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~----r~~~~~~~~ 264 (590)
|-++.-..-..|+-+.+.|+.+|..+.+..... ......|..||.+||+|.. |++++++|+
T Consensus 12 KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~--------------~~~r~~L~~en~qLk~E~~~WqerLr~LLGkm 76 (79)
T PRK15422 12 KVQQAIDTITLLQMEIEELKEKNNSLSQEVQNA--------------QHQREELERENNHLKEQQNGWQERLQALLGRM 76 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444455566778888888999888888865421 1234569999999999974 666666553
No 80
>cd07817 SRPBCC_8 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=78.51 E-value=45 Score=29.50 Aligned_cols=132 Identities=9% Similarity=0.002 Sum_probs=75.2
Q ss_pred eEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCe
Q 007770 404 MVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGV 483 (590)
Q Consensus 404 vV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~ 483 (590)
.|--.+..+-++|.|.+.|.+-+|.+ ..+++++.+ + .++.+-.|....+.+ ..++.. ...+.
T Consensus 7 ~I~ap~e~V~~~~~D~~~~~~w~~~~----~~~~~~~~~------~------~~~~~~~~~g~~~~~-~~~v~~-~~~~~ 68 (139)
T cd07817 7 TVNVPVEEVYDFWRDFENLPRFMSHV----ESVEQLDDT------R------SHWKAKGPAGLSVEW-DAEITE-QVPNE 68 (139)
T ss_pred EeCCCHHHHHHHHhChhhhHHHhhhh----cEEEEcCCC------c------eEEEEecCCCCcEEE-EEEEec-cCCCC
Confidence 34456778899999999999999975 344555321 1 122222233333433 334443 33343
Q ss_pred EEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHH
Q 007770 484 WAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQR 563 (590)
Q Consensus 484 WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqR 563 (590)
.++. ...++.. . .....+ +++.++|.++||+.-|.+......-.++-+++..-+--..+.+|..|.+
T Consensus 69 ~i~~-~~~~~~~--~----~~~~~~------f~~~~~~~T~vt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lk~ 135 (139)
T cd07817 69 RIAW-RSVEGAD--P----NAGSVR------FRPAPGRGTRVTLTIEYEPPGGAEGAAVAGLLGGEPERQLREDLRRFKQ 135 (139)
T ss_pred EEEE-EECCCCC--C----cceEEE------EEECCCCCeEEEEEEEEECCcchhhhhHHHHhhhhHHHHHHHHHHHHHH
Confidence 3222 2322211 1 112223 4666767799999999887754333455556655445557888888888
Q ss_pred HHH
Q 007770 564 QCE 566 (590)
Q Consensus 564 qCE 566 (590)
.+|
T Consensus 136 ~aE 138 (139)
T cd07817 136 LVE 138 (139)
T ss_pred Hhh
Confidence 877
No 81
>cd07821 PYR_PYL_RCAR_like Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins. The PYR/PYL/RCAR-like family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. PYR/PYL/RCAR plant proteins are receptors involved in signal transduction. They bind abscisic acid (ABA) and mediate its signaling. ABA is a vital plant hormone, which regulates plant growth, development, and response to environmental stresses. Upon binding ABA, these plant proteins interact with a type 2C protein phosphatase (PP2C), such as ABI1 and ABI2, and inhibit their activity. When ABA is bound, a loop (designated the gate/CL2 loop) closes over the ligand binding pocket, resulting in the weakening of the inactive PYL dimer and facilitating type 2C protein phosphatase binding. In the ABA:PYL1:ABI1 complex, the gate
Probab=78.04 E-value=37 Score=29.78 Aligned_cols=50 Identities=22% Similarity=0.165 Sum_probs=34.5
Q ss_pred ceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 513 CVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 513 clIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
+-+.+.++|.|+|||..+.+.... +.-+++...+-=+-...|+.|.++||
T Consensus 91 ~~~~~~~~~~t~v~~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~L~~~~~ 140 (140)
T cd07821 91 IRVTPEGDGGTRVTWTAEFDPPEG----LTDELARAFLTGVYRAGLAALKAALE 140 (140)
T ss_pred EEEEECCCCccEEEEEEEEecCCC----cchHHHHHHHHHHHHHHHHHHHHhhC
Confidence 456788887899999998887755 33344545445556667777777765
No 82
>cd08864 SRPBCC_DUF3074 DUF3074, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily. Uncharacterized family of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins
Probab=77.41 E-value=6.9 Score=39.41 Aligned_cols=102 Identities=19% Similarity=0.155 Sum_probs=68.5
Q ss_pred ceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEee-eeeecC-CeEEEEEEeccCccCCCCCCCccceeecC
Q 007770 433 TATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRF-CKQHAE-GVWAVVDVSIDTIRETSGAPAFVNCRRLP 510 (590)
Q Consensus 433 a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRy-ckq~~~-g~WaVvDVS~d~~~~~~~~~~~~~~rr~P 510 (590)
+..++++..+. ++...+.|...++|-| +..|+|..|.. +...+. ..++||.++++.-.-......++|.+ -=
T Consensus 77 ~~~l~~~~~~~----~~~~~v~~~~~~~P~P-l~~Rdfv~l~~~~~~~~~~~~~i~vs~p~~~~~~p~~~~~~Vr~~-y~ 150 (208)
T cd08864 77 LEPVEVDGEGD----GVVTYLVQLTYKFPFP-LSPRVFNELVHIKSDLDPASEFMVVSLPITPPLVESLYENAVLGR-YA 150 (208)
T ss_pred eEEeeecCCCc----cceEEEEEEEEECCCC-CCCcEEEEEEEeeccCCCCCeEEEEEEEecCCcCCccCCCcEEEE-EE
Confidence 45555554332 2245677788888888 89999999999 666652 67899999987432110112367776 67
Q ss_pred CCceeeecCC---CceeEEEEEeeeecCcc-ccc
Q 007770 511 SGCVVQDMPN---GYSKVTWVEHAEYDESQ-VHQ 540 (590)
Q Consensus 511 SGclIqd~~n---G~skVtWVeH~e~d~~~-vh~ 540 (590)
||-.|+..|. +-.+|+|+==...|... |+.
T Consensus 151 SgE~~~~~p~~~~~~~~vew~maT~sDpGG~IP~ 184 (208)
T cd08864 151 SVEKISYLPDADGKSNKVEWIMATRSDAGGNIPR 184 (208)
T ss_pred EEEEEEEcCccCCCcCCEEEEEEEeeCCCCcCcH
Confidence 9988998875 47899999844455553 654
No 83
>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=77.38 E-value=3.4 Score=43.51 Aligned_cols=42 Identities=33% Similarity=0.450 Sum_probs=27.2
Q ss_pred hhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH
Q 007770 197 ENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD 255 (590)
Q Consensus 197 e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~ 255 (590)
+...+++||++|+.|+..+++++. ...+.|+.||++||+.|.
T Consensus 67 ~~~~l~~EN~~Lr~e~~~l~~~~~-----------------~~~~~l~~EN~rLr~LL~ 108 (283)
T TIGR00219 67 DVNNLEYENYKLRQELLKKNQQLE-----------------ILTQNLKQENVRLRELLN 108 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHhc
Confidence 344567777777777777655442 122348889999988764
No 84
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=73.23 E-value=1.1 Score=36.92 Aligned_cols=43 Identities=9% Similarity=0.230 Sum_probs=27.9
Q ss_pred CCCCCCCHHHHHHHHHhh-hcCCCCCHHHHHHHHHHcCCCccchhcccc
Q 007770 136 KRYHRHTPQQIQELESLF-KECPHPDEKQRLELSKRLCLETRQVKFWFQ 183 (590)
Q Consensus 136 r~RtrfT~~Ql~~LE~~F-~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQ 183 (590)
++|++||+++...+-..+ .. .....++|+++|+++.++..|-+
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~~-----g~sv~~va~~~gi~~~~l~~W~~ 45 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLES-----GESVSEVAREYGISPSTLYNWRK 45 (76)
T ss_dssp -SS----HHHHHHHHHHHHHH-----HCHHHHHHHHHTS-HHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHC-----CCceEeeecccccccccccHHHH
Confidence 345679998877666555 32 24678899999999999999953
No 85
>cd07813 COQ10p_like Coenzyme Q-binding protein COQ10p and similar proteins. Coenzyme Q-binding protein COQ10p and similar proteins. COQ10p is a hydrophobic protein located in the inner membrane of mitochondria that binds coenzyme Q (CoQ), also called ubiquinone, which is an essential electron carrier of the respiratory chain. Deletion of the gene encoding COQ10p (COQ10 or YOL008W) in Saccharomyces cerevisiae results in respiratory defect because of the inability to oxidize NADH and succinate. COQ10p may function in the delivery of CoQ (Q6 in budding yeast) to its proper location for electron transport. The human homolog, called Q-binding protein COQ10 homolog A (COQ10A), is able to fully complement for the absence of COQ10p in fission yeast. Human COQ10A also has a splice variant COQ10B. COQ10p belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket and the
Probab=72.59 E-value=28 Score=31.41 Aligned_cols=134 Identities=16% Similarity=0.167 Sum_probs=75.2
Q ss_pred ceeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecC
Q 007770 402 TGMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAE 481 (590)
Q Consensus 402 sgvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~ 481 (590)
+..|...+..+.+++-|.+.|.+.+|.+ .-++|+..+. ++ +.+++.+..|. -.|++. .|++-. .+
T Consensus 4 s~~i~ap~~~v~~~i~D~~~~~~~~p~~----~~~~vl~~~~----~~----~~~~~~~~~~~-~~~~~~-~~~~~~-~~ 68 (138)
T cd07813 4 SRLVPYSAEQMFDLVADVERYPEFLPWC----TASRVLERDE----DE----LEAELTVGFGG-IRESFT-SRVTLV-PP 68 (138)
T ss_pred EEEcCCCHHHHHHHHHHHHhhhhhcCCc----cccEEEEcCC----CE----EEEEEEEeecc-ccEEEE-EEEEec-CC
Confidence 4455567778889999999999999995 4556666432 22 22333343332 134443 333211 13
Q ss_pred CeEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHH
Q 007770 482 GVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATL 561 (590)
Q Consensus 482 g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatL 561 (590)
. .+ -=.++++. + ..+=--..+++.++|.++|||.-|++..-. |+..|++--+.=-+++=|..+
T Consensus 69 ~-~i-~~~~~~g~--------~---~~~~g~w~~~p~~~~~T~v~~~~~~~~~~~----l~~~l~~~~~~~~~~~~l~~f 131 (138)
T cd07813 69 E-SI-EAELVDGP--------F---KHLEGEWRFKPLGENACKVEFDLEFEFKSR----LLEALAGLVFDEVAKKMVDAF 131 (138)
T ss_pred C-EE-EEEecCCC--------h---hhceeEEEEEECCCCCEEEEEEEEEEECCH----HHHHHHHHHHHHHHHHHHHHH
Confidence 3 22 11122221 1 011123447888889999999999988632 344444332233366777777
Q ss_pred HHHHHH
Q 007770 562 QRQCEC 567 (590)
Q Consensus 562 qRqCEr 567 (590)
.+.|+.
T Consensus 132 ~~~~~~ 137 (138)
T cd07813 132 EKRAKQ 137 (138)
T ss_pred HHHHhh
Confidence 777764
No 86
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.32 E-value=15 Score=31.16 Aligned_cols=59 Identities=32% Similarity=0.459 Sum_probs=37.8
Q ss_pred HHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHH----HHHHHHhhhc
Q 007770 192 QLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDEL----DRVCALAGKF 264 (590)
Q Consensus 192 ~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el----~r~~~~~~~~ 264 (590)
++.-.--..|+-+.+.|+.+|..|.....+. .....-|..||..||+|- +|++++++|+
T Consensus 14 qqAvdTI~LLQmEieELKEknn~l~~e~q~~--------------q~~reaL~~eneqlk~e~~~WQerlrsLLGkm 76 (79)
T COG3074 14 QQAIDTITLLQMEIEELKEKNNSLSQEVQNA--------------QHQREALERENEQLKEEQNGWQERLRALLGKM 76 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHhHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3333445567777788888877776654310 112346888999999996 4677776654
No 87
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=70.80 E-value=9.4 Score=43.39 Aligned_cols=25 Identities=32% Similarity=0.433 Sum_probs=17.2
Q ss_pred cCCCCCeeeccCCCcccccChhhhhhh
Q 007770 356 QTDEPLWIRSFEGSGRQVLNHEEYLRT 382 (590)
Q Consensus 356 ~~~eplWi~~~~~~~~e~Ln~~eY~~~ 382 (590)
...++|.+.+.+. +-..|.-||.+.
T Consensus 439 ne~p~L~~~s~dc--r~~~n~te~~~l 463 (655)
T KOG4343|consen 439 NEEPLLYIPSPDC--RPLINTTESLRL 463 (655)
T ss_pred cCCCceeccCccc--hhhhhhhhhhhh
Confidence 5567788877544 447777888776
No 88
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=70.33 E-value=6.5 Score=40.73 Aligned_cols=41 Identities=34% Similarity=0.521 Sum_probs=24.1
Q ss_pred hhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH
Q 007770 197 ENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD 255 (590)
Q Consensus 197 e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~ 255 (590)
....+++||++|++|+..++..+. +.+.|+.||.+||+.|.
T Consensus 70 ~~~~l~~en~~L~~e~~~l~~~~~------------------~~~~l~~en~~L~~lL~ 110 (276)
T PRK13922 70 SLFDLREENEELKKELLELESRLQ------------------ELEQLEAENARLRELLN 110 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHhc
Confidence 344455666666666665555432 33457778888887553
No 89
>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=69.09 E-value=13 Score=32.74 Aligned_cols=45 Identities=31% Similarity=0.544 Sum_probs=33.2
Q ss_pred HHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHH
Q 007770 201 LRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCAL 260 (590)
Q Consensus 201 l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~ 260 (590)
+.++++.|..|.+-|++.+.+ -++.-+..+||-+|++|+.|+...
T Consensus 22 ~~~e~~~L~eEI~~Lr~qve~---------------nPevtr~A~EN~rL~ee~rrl~~f 66 (86)
T PF12711_consen 22 LEEENEALKEEIQLLREQVEH---------------NPEVTRFAMENIRLREELRRLQSF 66 (86)
T ss_pred hHHHHHHHHHHHHHHHHHHHh---------------CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445567777777777766543 456668889999999999998765
No 90
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=68.99 E-value=15 Score=44.24 Aligned_cols=55 Identities=29% Similarity=0.364 Sum_probs=39.9
Q ss_pred HHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHH
Q 007770 200 LLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCAL 260 (590)
Q Consensus 200 ~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~ 260 (590)
.++..++.|..+..-|+.+|.+. |..+.+..+++-.||..+|+|||+-|-|++.+
T Consensus 336 ~lkEr~deletdlEILKaEmeek------G~~~~~~ss~qfkqlEqqN~rLKdalVrLRDl 390 (1243)
T KOG0971|consen 336 ALKERVDELETDLEILKAEMEEK------GSDGQAASSYQFKQLEQQNARLKDALVRLRDL 390 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc------CCCCcccchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455566666666678888875 33344445789999999999999999888764
No 91
>cd08865 SRPBCC_10 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=65.91 E-value=61 Score=28.31 Aligned_cols=135 Identities=13% Similarity=0.070 Sum_probs=72.7
Q ss_pred eeEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCC
Q 007770 403 GMVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEG 482 (590)
Q Consensus 403 gvV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g 482 (590)
..|-..+..+-+.|-|.++|.+-.|.+ ..+++++.+.. ..|+.-.+... +-+.+--...|++.--...
T Consensus 5 ~~i~ap~~~Vw~~l~d~~~~~~w~~~~----~~~~~~~~~~~--~~g~~~~~~~~------~~g~~~~~~~~v~~~~p~~ 72 (140)
T cd08865 5 IVIERPVEEVFAYLADFENAPEWDPGV----VEVEKITDGPV--GVGTRYHQVRK------FLGRRIELTYEITEYEPGR 72 (140)
T ss_pred EEEcCCHHHHHHHHHCccchhhhccCc----eEEEEcCCCCC--cCccEEEEEEE------ecCceEEEEEEEEEecCCc
Confidence 345556778889999999999999986 35666654322 23332111111 1111111223344322222
Q ss_pred eEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHH
Q 007770 483 VWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQ 562 (590)
Q Consensus 483 ~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLq 562 (590)
.+.+ .. ..+ .. ....- .-+++.++| |+|||-.+++. ..+-.++..++...+.=+-++++..|.
T Consensus 73 ~~~~-~~-~~~----~~--~~~~~------~~~~~~~~~-t~v~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~lk 135 (140)
T cd08865 73 RVVF-RG-SSG----PF--PYEDT------YTFEPVGGG-TRVRYTAELEP--GGFARLLDPLMAPAFRRRARAALENLK 135 (140)
T ss_pred EEEE-Ee-cCC----Cc--ceEEE------EEEEEcCCc-eEEEEEEEEcc--chhHHHHHHHHHHHHhhhhHHHHHHHH
Confidence 2211 11 110 00 01111 235666665 99999998876 334456666666655556778888888
Q ss_pred HHHH
Q 007770 563 RQCE 566 (590)
Q Consensus 563 RqCE 566 (590)
+.+|
T Consensus 136 ~~~e 139 (140)
T cd08865 136 ALLE 139 (140)
T ss_pred HHhh
Confidence 8776
No 92
>smart00338 BRLZ basic region leucin zipper.
Probab=61.29 E-value=34 Score=27.74 Aligned_cols=40 Identities=33% Similarity=0.485 Sum_probs=27.2
Q ss_pred HHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHH
Q 007770 194 ERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDEL 254 (590)
Q Consensus 194 ~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el 254 (590)
++..-..|..+...|..+|..|+..+ .+|..|+..|++++
T Consensus 24 Kk~~~~~Le~~~~~L~~en~~L~~~~---------------------~~l~~e~~~lk~~~ 63 (65)
T smart00338 24 KKAEIEELERKVEQLEAENERLKKEI---------------------ERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHh
Confidence 44455667777788888877777643 34777777777765
No 93
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=55.68 E-value=23 Score=36.31 Aligned_cols=50 Identities=26% Similarity=0.413 Sum_probs=35.0
Q ss_pred HHHHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHH
Q 007770 188 QMKTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVC 258 (590)
Q Consensus 188 K~Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~ 258 (590)
|.|-+...+++..|..+++.|.++...+++.++ +|+.||++|.+++.++-
T Consensus 141 kekl~E~~~EkeeL~~eleele~e~ee~~erlk---------------------~le~E~s~LeE~~~~l~ 190 (290)
T COG4026 141 KEKLEELQKEKEELLKELEELEAEYEEVQERLK---------------------RLEVENSRLEEMLKKLP 190 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHhch
Confidence 344455566777777888888887777777553 58888888888776543
No 94
>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=55.23 E-value=20 Score=40.40 Aligned_cols=56 Identities=29% Similarity=0.381 Sum_probs=27.3
Q ss_pred HHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHHhh
Q 007770 194 ERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCALAG 262 (590)
Q Consensus 194 ~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~~~ 262 (590)
...+|+.|++||++|+.....+.+.+.+. +.-+.++|..|-..|++|+.++...+.
T Consensus 78 l~~~N~~l~~eN~~L~~r~~~id~~i~~a-------------v~~~~~~~~~~~~ql~~~~~~~~~~l~ 133 (472)
T TIGR03752 78 LISENEALKAENERLQKREQSIDQQIQQA-------------VQSETQELTKEIEQLKSERQQLQGLID 133 (472)
T ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHHHHH-------------HHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555444433333321 112344555566666666665554433
No 95
>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=53.26 E-value=64 Score=26.06 Aligned_cols=24 Identities=17% Similarity=0.322 Sum_probs=15.7
Q ss_pred HHhhhhHHHHhhHHHHhhhhhHHh
Q 007770 194 ERHENSLLRQENDKLRAENMSIRD 217 (590)
Q Consensus 194 ~r~e~~~l~~en~~L~~en~~l~e 217 (590)
+...-..|....+.|..+|..|+.
T Consensus 24 Kk~~~~~Le~~~~~L~~en~~L~~ 47 (64)
T PF00170_consen 24 KKQYIEELEEKVEELESENEELKK 47 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHH
Confidence 444556677777777777766665
No 96
>cd07822 SRPBCC_4 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=52.09 E-value=23 Score=31.13 Aligned_cols=50 Identities=12% Similarity=0.098 Sum_probs=35.8
Q ss_pred eeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 514 VVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 514 lIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
.+.+...|.|+|+|.+... ...-.+...++..++.=+-++|++.|.++||
T Consensus 92 ~~~~~~~~~T~~~~~~~~~---g~~~~~~~~~~~~~~~~~~~~~~~~L~~~~E 141 (141)
T cd07822 92 ELEPLGDGGTRFVHRETFS---GLLAPLVLLGLGRDLRAGFEAMNEALKARAE 141 (141)
T ss_pred EEEEcCCCcEEEEEeeEEE---EEEhHHhhhhhHHHHhHhHHHHHHHHHHhhC
Confidence 4577766779999864222 1123346667778888889999999999997
No 97
>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=51.78 E-value=15 Score=35.97 Aligned_cols=21 Identities=48% Similarity=0.593 Sum_probs=6.0
Q ss_pred hhhHHHHHHHHhHHHHHHHHH
Q 007770 239 EEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 239 ~~~~L~~ENa~Lk~el~r~~~ 259 (590)
|+..|++|+.|||||+..+.-
T Consensus 25 EKE~L~~~~QRLkDE~RDLKq 45 (166)
T PF04880_consen 25 EKENLREEVQRLKDELRDLKQ 45 (166)
T ss_dssp HHHHHHHCH------------
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455677777777777765543
No 98
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=51.46 E-value=1e+02 Score=27.02 Aligned_cols=70 Identities=13% Similarity=0.130 Sum_probs=49.5
Q ss_pred hHHHHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHH
Q 007770 187 TQMKTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 187 aK~Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
.+.++...+++...|+.+.++=..-+..|..++....++-+..|. .+....+.|..|-|.|..|+.++..
T Consensus 6 ~~~~r~~LeqeV~~Lq~~L~~E~~~r~aLe~al~~~~~~~~~~~~---~lp~~~keLL~EIA~lE~eV~~LE~ 75 (88)
T PF14389_consen 6 LHERRSALEQEVAELQKQLQEEQDLRRALEKALGRSSGSLPSSPS---SLPKKAKELLEEIALLEAEVAKLEQ 75 (88)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccCCccc---cCChHHHHHHHHHHHHHHHHHHHHH
Confidence 445666677888888888887777777788888776655433333 3445667888888888888876654
No 99
>smart00340 HALZ homeobox associated leucin zipper.
Probab=48.74 E-value=19 Score=27.68 Aligned_cols=19 Identities=42% Similarity=0.546 Sum_probs=15.5
Q ss_pred HHHHHHHHhHHHHHHHHHH
Q 007770 242 HLRIENARLKDELDRVCAL 260 (590)
Q Consensus 242 ~L~~ENa~Lk~el~r~~~~ 260 (590)
.|..||.||+.|++.++++
T Consensus 16 ~LteeNrRL~ke~~eLral 34 (44)
T smart00340 16 SLTEENRRLQKEVQELRAL 34 (44)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 5777889999999888865
No 100
>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=48.43 E-value=23 Score=38.17 Aligned_cols=21 Identities=43% Similarity=0.520 Sum_probs=11.4
Q ss_pred hhhHHHHhhHHHHhhhhhHHh
Q 007770 197 ENSLLRQENDKLRAENMSIRD 217 (590)
Q Consensus 197 e~~~l~~en~~L~~en~~l~e 217 (590)
|+..|++||++|+.||..|+.
T Consensus 33 e~~aLr~EN~~LKkEN~~Lk~ 53 (420)
T PF07407_consen 33 ENFALRMENHSLKKENNDLKI 53 (420)
T ss_pred hhhhHHHHhHHHHHHHHHHHH
Confidence 444555555555555555554
No 101
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=47.68 E-value=9.4 Score=47.55 Aligned_cols=92 Identities=18% Similarity=0.173 Sum_probs=67.4
Q ss_pred CCCCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhhhHHHHhhHHHHhhhhh
Q 007770 135 KKRYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHENSLLRQENDKLRAENMS 214 (590)
Q Consensus 135 Kr~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~~L~~en~~ 214 (590)
+-.+++++.-|...|..+|+...+|.-.++..++.-|++..|.+-.|||++++++.+...+.. +-..
T Consensus 445 ~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~a-------------rg~~ 511 (1406)
T KOG1146|consen 445 LLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLA-------------RGEV 511 (1406)
T ss_pred hhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhcccccccc-------------cccc
Confidence 445677899999999999999999999999999999999999999999998888875443221 1112
Q ss_pred HHhhhcCCCCCCCCCCCcc-CCCchh
Q 007770 215 IRDAMRNPICTNCGGPAII-GDISLE 239 (590)
Q Consensus 215 l~ea~~~~~C~~Cg~p~~~-~~~~~~ 239 (590)
...--...-|-.|-..+.. +..+..
T Consensus 512 ~~~~~~p~~C~~C~~stttng~Lsih 537 (1406)
T KOG1146|consen 512 YRCPGKPYPCRACNYSTTTNGNLSIH 537 (1406)
T ss_pred ccCCCCcccceeeeeeeecchHHHHH
Confidence 2222233458888887754 443333
No 102
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=47.60 E-value=59 Score=34.63 Aligned_cols=45 Identities=27% Similarity=0.247 Sum_probs=32.5
Q ss_pred HHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHH
Q 007770 191 TQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDR 256 (590)
Q Consensus 191 r~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r 256 (590)
|+++|.|...+..+.+.|..+|.+||+.. .+|..|-.+||+-+..
T Consensus 243 RqKkRae~E~l~ge~~~Le~rN~~LK~qa---------------------~~lerEI~ylKqli~e 287 (294)
T KOG4571|consen 243 RQKKRAEKEALLGELEGLEKRNEELKDQA---------------------SELEREIRYLKQLILE 287 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHH
Confidence 45567777788888888999988888743 4566677777775543
No 103
>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=47.36 E-value=18 Score=26.28 Aligned_cols=43 Identities=12% Similarity=0.090 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhh
Q 007770 140 RHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRT 187 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRa 187 (590)
.+++.+...++..|... ..-.++|..+|++...|+.|.+.-+.
T Consensus 10 ~l~~~~~~~~~~~~~~~-----~~~~~ia~~~~~s~~~i~~~~~~~~~ 52 (55)
T cd06171 10 KLPEREREVILLRFGEG-----LSYEEIAEILGISRSTVRQRLHRALK 52 (55)
T ss_pred hCCHHHHHHHHHHHhcC-----CCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 46788888888877433 24667899999999999988765443
No 104
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=45.67 E-value=47 Score=35.09 Aligned_cols=42 Identities=33% Similarity=0.388 Sum_probs=24.2
Q ss_pred hhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH
Q 007770 196 HENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD 255 (590)
Q Consensus 196 ~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~ 255 (590)
.+...+..+|+.|++++..+.+.. .+.+.|+.||.+||+.|.
T Consensus 66 ~~~~~~~~en~~Lk~~l~~~~~~~------------------~~~~~l~~EN~~Lr~lL~ 107 (284)
T COG1792 66 KSLKDLALENEELKKELAELEQLL------------------EEVESLEEENKRLKELLD 107 (284)
T ss_pred HHhHHHHHHhHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHhC
Confidence 344455556666666655555432 244567777777777653
No 105
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=45.24 E-value=58 Score=36.71 Aligned_cols=97 Identities=18% Similarity=0.187 Sum_probs=58.7
Q ss_pred CCCCCHHHHHHHHHh-hhc-CCCCCHHHHHHHHHHcCCCccchhcccchhhhHH-HHHHHHhhhhHHHHhhHHHHhhhhh
Q 007770 138 YHRHTPQQIQELESL-FKE-CPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQM-KTQLERHENSLLRQENDKLRAENMS 214 (590)
Q Consensus 138 RtrfT~~Ql~~LE~~-F~~-~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~-Kr~~~r~e~~~l~~en~~L~~en~~ 214 (590)
--++|.+....|.+. |.. ..+|..+.-+++-++. +.=.+|+|.+. +|++++.--..|........+||.+
T Consensus 218 ~L~LteeEkrLL~kEG~slPs~lPLTKaEEriLKrv-------RRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqe 290 (472)
T KOG0709|consen 218 PLVLTEEEKRLLTKEGYSLPSKLPLTKAEERILKRV-------RRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQE 290 (472)
T ss_pred ceeccHHHHHHHHhccCcCcccCCchHHHHHHHHHH-------HHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHH
Confidence 346788888877665 222 3456555555544443 33334555433 3333333334455666667777777
Q ss_pred HHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHHhh
Q 007770 215 IRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCALAG 262 (590)
Q Consensus 215 l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~~~ 262 (590)
|++ +.++|..+|..|-++|.++.++..
T Consensus 291 L~k---------------------kV~~Le~~N~sLl~qL~klQt~v~ 317 (472)
T KOG0709|consen 291 LQK---------------------KVEELELSNRSLLAQLKKLQTLVI 317 (472)
T ss_pred HHH---------------------HHHHHhhccHHHHHHHHHHHHHHh
Confidence 776 456788999999999998877543
No 106
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=44.69 E-value=22 Score=38.56 Aligned_cols=42 Identities=12% Similarity=0.142 Sum_probs=25.5
Q ss_pred hhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH
Q 007770 196 HENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD 255 (590)
Q Consensus 196 ~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~ 255 (590)
.....+++||++|+.||..|+..+. +.+.+..||++|++.+.
T Consensus 57 ~~y~~L~~EN~~Lk~Ena~L~~~l~------------------~~e~l~~En~~Lr~ll~ 98 (337)
T PRK14872 57 SHALVLETENFLLKERIALLEERLK------------------SYEEANQTPPLFSEILS 98 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHhhc
Confidence 3445566666666666666665543 23456678887775543
No 107
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=43.79 E-value=80 Score=29.00 Aligned_cols=20 Identities=35% Similarity=0.679 Sum_probs=14.6
Q ss_pred hhhHHHHHHHHhHHHHHHHH
Q 007770 239 EEQHLRIENARLKDELDRVC 258 (590)
Q Consensus 239 ~~~~L~~ENa~Lk~el~r~~ 258 (590)
+..+|++||..||+.|+++.
T Consensus 37 EN~~L~iEN~~Lr~~l~~~~ 56 (110)
T PRK13169 37 ENTALRLENDKLRERLEELE 56 (110)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 44578888888888877653
No 108
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=43.35 E-value=36 Score=36.83 Aligned_cols=71 Identities=24% Similarity=0.355 Sum_probs=35.0
Q ss_pred ccchhhhHHHHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHH
Q 007770 181 WFQNRRTQMKTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCAL 260 (590)
Q Consensus 181 WFQNRRaK~Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~ 260 (590)
||=-=|.++| +.+....+.|+....|+.+.+.-|++.-. ...+...|.++|+..|.+|+.||-++..+
T Consensus 54 wff~i~~re~-qlk~aa~~llq~kirk~~e~~eglr~i~e-----------s~~e~q~e~~qL~~qnqkL~nqL~~~~~v 121 (401)
T PF06785_consen 54 WFFAIGRREK-QLKTAAGQLLQTKIRKITEKDEGLRKIRE-----------SVEERQQESEQLQSQNQKLKNQLFHVREV 121 (401)
T ss_pred HHHHhhHHHH-HHHHHHHHHHHHHHHHHHhccHHHHHHHH-----------HHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 5533333332 33444555666666666655554444211 01122334456666666666666655554
Q ss_pred hhh
Q 007770 261 AGK 263 (590)
Q Consensus 261 ~~~ 263 (590)
..|
T Consensus 122 f~k 124 (401)
T PF06785_consen 122 FMK 124 (401)
T ss_pred HHH
Confidence 433
No 109
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=43.20 E-value=40 Score=32.19 Aligned_cols=47 Identities=17% Similarity=0.065 Sum_probs=36.2
Q ss_pred CCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHH
Q 007770 139 HRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKT 191 (590)
Q Consensus 139 trfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr 191 (590)
..+|+.|.+.|+..+ +. ....++|+.||++...|+.|-++.+.+.|+
T Consensus 5 ~~Lt~rqreVL~lr~-~G-----lTq~EIAe~LGiS~~tVs~ie~ra~kkLr~ 51 (141)
T PRK03975 5 SFLTERQIEVLRLRE-RG-----LTQQEIADILGTSRANVSSIEKRARENIEK 51 (141)
T ss_pred cCCCHHHHHHHHHHH-cC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 468999999998843 22 246789999999999999998765555553
No 110
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=43.13 E-value=31 Score=31.12 Aligned_cols=43 Identities=21% Similarity=0.291 Sum_probs=25.0
Q ss_pred cchhcccchhhhHHHHHHHHhhhhHHHHhhHHHHhhhhhHHhhh
Q 007770 176 RQVKFWFQNRRTQMKTQLERHENSLLRQENDKLRAENMSIRDAM 219 (590)
Q Consensus 176 rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~~L~~en~~l~ea~ 219 (590)
-+...||++.=- .+-.+.+++...+++++++++.+|..|++.+
T Consensus 15 l~y~l~~g~~G~-~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI 57 (105)
T PRK00888 15 LQYSLWFGKNGI-LDYWRVNDQVAAQQQTNAKLKARNDQLFAEI 57 (105)
T ss_pred HHHHHhccCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356678865411 1222244555667777777777776666543
No 111
>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=43.12 E-value=85 Score=28.59 Aligned_cols=21 Identities=38% Similarity=0.653 Sum_probs=13.8
Q ss_pred hhhHHHHHHHHhHHHHHHHHH
Q 007770 239 EEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 239 ~~~~L~~ENa~Lk~el~r~~~ 259 (590)
+..+|++||..|++.|.....
T Consensus 37 EN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 37 ENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 345677777777777766543
No 112
>PF15058 Speriolin_N: Speriolin N terminus
Probab=42.34 E-value=39 Score=33.92 Aligned_cols=39 Identities=33% Similarity=0.483 Sum_probs=28.6
Q ss_pred hHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHH
Q 007770 199 SLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 199 ~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
+-++.++++|-.||.+||+.. +|..||.+||.-|...|+
T Consensus 8 eGlrhqierLv~ENeeLKKlV----------------------rLirEN~eLksaL~ea~~ 46 (200)
T PF15058_consen 8 EGLRHQIERLVRENEELKKLV----------------------RLIRENHELKSALGEACA 46 (200)
T ss_pred HHHHHHHHHHHhhhHHHHHHH----------------------HHHHHHHHHHHHHHHhhc
Confidence 445667777778888887754 377799999988776665
No 113
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=40.61 E-value=83 Score=35.33 Aligned_cols=26 Identities=23% Similarity=0.365 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCeeec
Q 007770 339 MFLELALAAMDELVKMAQTDEPLWIRS 365 (590)
Q Consensus 339 ~~~elA~~Am~El~~ma~~~eplWi~~ 365 (590)
.|++ |..||.|+-.+.+-.---|.+.
T Consensus 398 kIle-ak~al~evtt~lrErl~RWqQI 423 (575)
T KOG4403|consen 398 KILE-AKSALSEVTTLLRERLHRWQQI 423 (575)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444 6789999888776666668664
No 114
>cd07818 SRPBCC_1 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=40.16 E-value=45 Score=30.25 Aligned_cols=51 Identities=20% Similarity=0.122 Sum_probs=36.4
Q ss_pred eeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHHHH
Q 007770 515 VQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQCE 566 (590)
Q Consensus 515 Iqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRqCE 566 (590)
+++.+ |.|+|||..+.++.-.....++..++...+.=...+.|..|.+.+|
T Consensus 99 ~~~~~-~gT~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lk~~~E 149 (150)
T cd07818 99 LEPVG-GGTKVTWGMSGELPFPLKLMYLFLDMDKMIGKDFEKGLANLKAVLE 149 (150)
T ss_pred EEEcC-CceEEEEEEEecCCchHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 56664 4599999999888765555566666655555556778888888877
No 115
>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=39.16 E-value=32 Score=27.50 Aligned_cols=38 Identities=21% Similarity=0.206 Sum_probs=31.9
Q ss_pred CCHHHHHHHHHhhhcCCC--CCHHHHHHHHHHcCCCccch
Q 007770 141 HTPQQIQELESLFKECPH--PDEKQRLELSKRLCLETRQV 178 (590)
Q Consensus 141 fT~~Ql~~LE~~F~~~~~--Ps~~~R~~LA~~LgLs~rQV 178 (590)
+|+.|.+.|...|+..-| |-...-.+||++||+++.-+
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~ 40 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTV 40 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHH
Confidence 588999999999987755 66777889999999998654
No 116
>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=38.46 E-value=1.1e+02 Score=25.54 Aligned_cols=39 Identities=26% Similarity=0.329 Sum_probs=22.9
Q ss_pred HHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHH
Q 007770 200 LLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 200 ~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
.|-..++.|+.||..|++. ...+..|++.|++..+-+..
T Consensus 11 ~Li~~~~~L~~EN~~Lr~q---------------------~~~~~~ER~~L~ekne~Ar~ 49 (65)
T TIGR02449 11 HLLEYLERLKSENRLLRAQ---------------------EKTWREERAQLLEKNEQARQ 49 (65)
T ss_pred HHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHH
Confidence 4445566666666666653 33466677777666654443
No 117
>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=38.32 E-value=99 Score=30.24 Aligned_cols=46 Identities=26% Similarity=0.304 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhh
Q 007770 139 HRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRR 186 (590)
Q Consensus 139 trfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRR 186 (590)
..+|+++++++.+.-.++ |....+..||+++|+++.-|.+=.+--.
T Consensus 84 y~Lt~e~i~Eir~LR~~D--P~~wTr~~LAkkF~~S~~fV~~v~~~~~ 129 (164)
T PF12824_consen 84 YHLTPEDIQEIRRLRAED--PEKWTRKKLAKKFNCSPLFVSMVAPAPK 129 (164)
T ss_pred ccCCHHHHHHHHHHHHcC--chHhhHHHHHHHhCCCHHHHHHhcCCCH
Confidence 469999999999988776 6788999999999999988877665444
No 118
>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=38.23 E-value=37 Score=25.78 Aligned_cols=39 Identities=15% Similarity=0.221 Sum_probs=29.8
Q ss_pred CCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccc
Q 007770 140 RHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQ 183 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQ 183 (590)
.+++.+...|...|-.. ..-.++|+.+|++...|+.+..
T Consensus 4 ~L~~~er~vi~~~y~~~-----~t~~eIa~~lg~s~~~V~~~~~ 42 (50)
T PF04545_consen 4 QLPPREREVIRLRYFEG-----LTLEEIAERLGISRSTVRRILK 42 (50)
T ss_dssp TS-HHHHHHHHHHHTST------SHHHHHHHHTSCHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcCC-----CCHHHHHHHHCCcHHHHHHHHH
Confidence 47889999999999433 3467899999999999887653
No 119
>PRK00118 putative DNA-binding protein; Validated
Probab=37.79 E-value=1.2e+02 Score=27.56 Aligned_cols=49 Identities=10% Similarity=0.013 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 140 RHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
.+++.|...+...|.... ...++|+.+|+++.-|+.|...-|.+.|...
T Consensus 17 ~L~ekqRevl~L~y~eg~-----S~~EIAe~lGIS~~TV~r~L~RArkkLr~~~ 65 (104)
T PRK00118 17 LLTEKQRNYMELYYLDDY-----SLGEIAEEFNVSRQAVYDNIKRTEKLLEDYE 65 (104)
T ss_pred cCCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHH
Confidence 356777777766665442 4667999999999999999876666655433
No 120
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=37.36 E-value=76 Score=36.01 Aligned_cols=10 Identities=20% Similarity=0.604 Sum_probs=5.6
Q ss_pred CCHHHHHHHH
Q 007770 141 HTPQQIQELE 150 (590)
Q Consensus 141 fT~~Ql~~LE 150 (590)
+++++++.|.
T Consensus 42 ltpee~kalG 51 (472)
T TIGR03752 42 LSPEELKALG 51 (472)
T ss_pred CCcchhHhcC
Confidence 5666655554
No 121
>cd07812 SRPBCC START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket; they bind diverse ligands. Included in this superfamily are the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, and the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), as well as the SRPBCC domains of phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of this superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=36.35 E-value=1.5e+02 Score=24.79 Aligned_cols=51 Identities=10% Similarity=0.172 Sum_probs=33.7
Q ss_pred ceeeecCCCceeEEEEEeeeecCccccchhhhhhccchhHhHHHHHHHHHHH
Q 007770 513 CVVQDMPNGYSKVTWVEHAEYDESQVHQLYKPLIISGMGFGAQRWVATLQRQ 564 (590)
Q Consensus 513 clIqd~~nG~skVtWVeH~e~d~~~vh~lyrpl~~SG~afGA~RWlatLqRq 564 (590)
.-+.+..++.++|+|-...+...... .++.+++...+.-.+.+.+..|+++
T Consensus 90 ~~~~~~~~~~t~v~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (141)
T cd07812 90 WRLEPEGDGGTRVTYTVEYDPPGPLL-KVFALLLAGALKRELAALLRALKAR 140 (141)
T ss_pred EEEEECCCCcEEEEEEEEEecCCcch-hhhhHHHHHHHHhHHHHHHHHHHhh
Confidence 44566666679999988888765443 5566666666555566666666554
No 122
>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=35.94 E-value=62 Score=20.77 Aligned_cols=38 Identities=24% Similarity=0.394 Sum_probs=26.6
Q ss_pred CCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhccc
Q 007770 140 RHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWF 182 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWF 182 (590)
.++.++...+...|.... ...++|+.++++...|..|.
T Consensus 5 ~~~~~~~~~i~~~~~~~~-----s~~~ia~~~~is~~tv~~~~ 42 (42)
T cd00569 5 KLTPEQIEEARRLLAAGE-----SVAEIARRLGVSRSTLYRYL 42 (42)
T ss_pred cCCHHHHHHHHHHHHcCC-----CHHHHHHHHCCCHHHHHHhC
Confidence 356666666666665332 46678999999988887773
No 123
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=35.65 E-value=43 Score=33.01 Aligned_cols=34 Identities=26% Similarity=0.265 Sum_probs=19.3
Q ss_pred CCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHH
Q 007770 221 NPICTNCGGPAIIGDISLEEQHLRIENARLKDEL 254 (590)
Q Consensus 221 ~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el 254 (590)
+-.||.||++...-|-+-..+.|...-..|++++
T Consensus 136 ~F~Cp~Cg~~L~~~dn~~~~~~l~~~I~~l~~~~ 169 (178)
T PRK06266 136 GFRCPQCGEMLEEYDNSELIKELKEQIKELEEEL 169 (178)
T ss_pred CCcCCCCCCCCeecccHHHHHHHHHHHHHHHHHh
Confidence 3469999999876554434444444444444443
No 124
>PF07151 DUF1391: Protein of unknown function (DUF1391); InterPro: IPR009821 This family consists of several Enterobacterial proteins of around 50 residues in length. Members of this family are found in Escherichia coli and Salmonella typhi where they are often known as YdfA. The function of this family is unknown.
Probab=34.94 E-value=18 Score=27.89 Aligned_cols=8 Identities=63% Similarity=1.282 Sum_probs=6.3
Q ss_pred HhHHHHHH
Q 007770 552 FGAQRWVA 559 (590)
Q Consensus 552 fGA~RWla 559 (590)
-||+|||+
T Consensus 38 ~garrwl~ 45 (49)
T PF07151_consen 38 SGARRWLA 45 (49)
T ss_pred hhhhHHHh
Confidence 38899986
No 125
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=34.66 E-value=1.1e+02 Score=25.68 Aligned_cols=19 Identities=37% Similarity=0.637 Sum_probs=12.6
Q ss_pred hhhHHHHHHHHhHHHHHHH
Q 007770 239 EEQHLRIENARLKDELDRV 257 (590)
Q Consensus 239 ~~~~L~~ENa~Lk~el~r~ 257 (590)
+..+|+.||..|++|++..
T Consensus 48 e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 48 ENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4456777777777776643
No 126
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=33.55 E-value=38 Score=38.80 Aligned_cols=20 Identities=45% Similarity=0.685 Sum_probs=13.3
Q ss_pred hhhHHHHHHHHhHHHHHHHH
Q 007770 239 EEQHLRIENARLKDELDRVC 258 (590)
Q Consensus 239 ~~~~L~~ENa~Lk~el~r~~ 258 (590)
|.++|+.||+.||++|+.+-
T Consensus 317 Ene~Lk~ENatLk~qL~~l~ 336 (655)
T KOG4343|consen 317 ENEQLKKENATLKRQLDELV 336 (655)
T ss_pred HHHHHHhhhHHHHHHHHHHh
Confidence 45667777777777776543
No 127
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=31.12 E-value=27 Score=36.56 Aligned_cols=24 Identities=29% Similarity=0.328 Sum_probs=13.4
Q ss_pred hhHHHHHHHHhHHHHHHHHHHhhh
Q 007770 240 EQHLRIENARLKDELDRVCALAGK 263 (590)
Q Consensus 240 ~~~L~~ENa~Lk~el~r~~~~~~~ 263 (590)
...|+.++..|++|+..++.+...
T Consensus 231 n~~lr~~v~~l~~el~~~~~~~~~ 254 (269)
T KOG3119|consen 231 NEALRTQVEQLKKELATLRRLFLQ 254 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334555666666666666655433
No 128
>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=31.00 E-value=81 Score=33.28 Aligned_cols=44 Identities=27% Similarity=0.336 Sum_probs=31.0
Q ss_pred HHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHHh
Q 007770 201 LRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCALA 261 (590)
Q Consensus 201 l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~~ 261 (590)
.-.....+.+||++|++.+.. -.++|......|++|.+|++.++
T Consensus 64 ~~~~~~~l~~EN~~Lr~e~~~-----------------l~~~~~~~~~~l~~EN~rLr~LL 107 (283)
T TIGR00219 64 NLKDVNNLEYENYKLRQELLK-----------------KNQQLEILTQNLKQENVRLRELL 107 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHh
Confidence 345667789999999987641 12455555666899999988764
No 129
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=30.93 E-value=99 Score=32.41 Aligned_cols=25 Identities=16% Similarity=0.255 Sum_probs=16.0
Q ss_pred hhHHHHHHHHhHHHHHHHHHHhhhc
Q 007770 240 EQHLRIENARLKDELDRVCALAGKF 264 (590)
Q Consensus 240 ~~~L~~ENa~Lk~el~r~~~~~~~~ 264 (590)
...|..||+.|+.+++.+...+.++
T Consensus 224 ~~~leken~~lr~~v~~l~~el~~~ 248 (269)
T KOG3119|consen 224 VAELEKENEALRTQVEQLKKELATL 248 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777777777766654443
No 130
>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=30.49 E-value=2.3e+02 Score=24.87 Aligned_cols=36 Identities=17% Similarity=0.335 Sum_probs=25.8
Q ss_pred CCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhh
Q 007770 138 YHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRR 186 (590)
Q Consensus 138 RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRR 186 (590)
+..|+.+++..|..... .+.+|++-.+++-+++...
T Consensus 36 ~R~y~~~di~~l~~i~~-------------lr~~g~~l~~i~~~~~~~~ 71 (103)
T cd01106 36 YRLYTEEDLERLQQILF-------------LKELGFSLKEIKELLKDPS 71 (103)
T ss_pred ceeeCHHHHHHHHHHHH-------------HHHcCCCHHHHHHHHHcCc
Confidence 44699999998865432 3567888888888876654
No 131
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=30.30 E-value=27 Score=30.98 Aligned_cols=21 Identities=19% Similarity=0.382 Sum_probs=17.6
Q ss_pred HHHHHHHcCCCccchhcccch
Q 007770 164 RLELSKRLCLETRQVKFWFQN 184 (590)
Q Consensus 164 R~~LA~~LgLs~rQVkvWFQN 184 (590)
..++|+.+|+++..++.|-++
T Consensus 3 i~EvA~~~gVs~~tLR~ye~~ 23 (99)
T cd04765 3 IGEVAEILGLPPHVLRYWETE 23 (99)
T ss_pred HHHHHHHHCcCHHHHHHHHHH
Confidence 357899999999999999654
No 132
>COG5570 Uncharacterized small protein [Function unknown]
Probab=30.11 E-value=1.5e+02 Score=23.97 Aligned_cols=35 Identities=31% Similarity=0.550 Sum_probs=23.7
Q ss_pred hHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHH
Q 007770 214 SIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 214 ~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
.+.++|..+.| .+ ..-..|....-+||+|++++.+
T Consensus 20 ei~ea~n~Ps~---dd--------~~i~eLKRrKL~lKeeIEkLka 54 (57)
T COG5570 20 EIQEAMNSPSS---DD--------LAIRELKRRKLRLKEEIEKLKA 54 (57)
T ss_pred HHHHHhcCCCc---ch--------HHHHHHHHHHHHHHHHHHHHhc
Confidence 46677765443 32 2344577788899999999865
No 133
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=30.06 E-value=1.4e+02 Score=33.92 Aligned_cols=57 Identities=14% Similarity=0.147 Sum_probs=31.9
Q ss_pred hhHHHHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHH
Q 007770 186 RTQMKTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDR 256 (590)
Q Consensus 186 RaK~Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r 256 (590)
..+.+-.+.+.....|+++.++|+.|...|...... ..-.-+.|..||.+|+++++.
T Consensus 66 VnqSALteqQ~kasELEKqLaaLrqElq~~saq~~d--------------le~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 66 VRQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGD--------------DQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh--------------HHHHHHHHHHHHHHHHHHHHh
Confidence 444444445555666677777776665533322211 011223677899999998843
No 134
>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=29.77 E-value=1.7e+02 Score=26.66 Aligned_cols=50 Identities=24% Similarity=0.213 Sum_probs=35.8
Q ss_pred hhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHHhhhccC
Q 007770 196 HENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCALAGKFLG 266 (590)
Q Consensus 196 ~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~~~~~~~ 266 (590)
..-..+.+....+.++-..|+..+ ..|..||++|+-|.+.++..+.+...
T Consensus 8 ~~l~~le~~l~~l~~~~~~LK~~~---------------------~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 8 DRLDQLEQQLGQLLEELEELKKQL---------------------QELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344455666666666666666644 46899999999999999987766544
No 135
>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=28.88 E-value=62 Score=27.91 Aligned_cols=19 Identities=42% Similarity=0.611 Sum_probs=13.1
Q ss_pred HHHHHHHHhHHHHHHHHHH
Q 007770 242 HLRIENARLKDELDRVCAL 260 (590)
Q Consensus 242 ~L~~ENa~Lk~el~r~~~~ 260 (590)
.|..||++||.||+++.+.
T Consensus 4 ei~eEn~~Lk~eiqkle~E 22 (76)
T PF07334_consen 4 EIQEENARLKEEIQKLEAE 22 (76)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3667888888888765543
No 136
>smart00340 HALZ homeobox associated leucin zipper.
Probab=28.07 E-value=56 Score=25.18 Aligned_cols=27 Identities=19% Similarity=0.294 Sum_probs=19.7
Q ss_pred HHHhhhhHHHHhhHHHHhhhhhHHhhh
Q 007770 193 LERHENSLLRQENDKLRAENMSIRDAM 219 (590)
Q Consensus 193 ~~r~e~~~l~~en~~L~~en~~l~ea~ 219 (590)
+.+.+...|+.-.+.|..||.+|+..+
T Consensus 2 QTEvdCe~LKrcce~LteeNrRL~ke~ 28 (44)
T smart00340 2 QTEVDCELLKRCCESLTEENRRLQKEV 28 (44)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677778888888888888777644
No 137
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=27.92 E-value=36 Score=25.69 Aligned_cols=40 Identities=25% Similarity=0.353 Sum_probs=19.9
Q ss_pred CCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhccc
Q 007770 138 YHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWF 182 (590)
Q Consensus 138 RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWF 182 (590)
++.+|.+|...++..++.. ....++|+.||.++.-|..|.
T Consensus 2 ~~~Lt~~eR~~I~~l~~~G-----~s~~~IA~~lg~s~sTV~rel 41 (44)
T PF13936_consen 2 YKHLTPEERNQIEALLEQG-----MSIREIAKRLGRSRSTVSREL 41 (44)
T ss_dssp ----------HHHHHHCS--------HHHHHHHTT--HHHHHHHH
T ss_pred ccchhhhHHHHHHHHHHcC-----CCHHHHHHHHCcCcHHHHHHH
Confidence 4578999999999887654 356679999999988776554
No 138
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=27.60 E-value=1.5e+02 Score=33.26 Aligned_cols=118 Identities=15% Similarity=0.097 Sum_probs=64.8
Q ss_pred CCCCCceeeeecce---eEEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccc
Q 007770 390 KPNGFVTEASRETG---MVIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVP 466 (590)
Q Consensus 390 ~~~g~~~EASR~sg---vV~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP 466 (590)
.+.|....|+=-.. +=-+|...|-.+|.-.. +- |..|.-..-=+--+.|+++-++-+= +| .--+-
T Consensus 228 d~~~~~~iAas~d~~~r~Wnvd~~r~~~TLsGHt---dk----Vt~ak~~~~~~~vVsgs~DRtiK~W--Dl---~k~~C 295 (459)
T KOG0288|consen 228 DSDNKHVIAASNDKNLRLWNVDSLRLRHTLSGHT---DK----VTAAKFKLSHSRVVSGSADRTIKLW--DL---QKAYC 295 (459)
T ss_pred cCCCceEEeecCCCceeeeeccchhhhhhhcccc---cc----eeeehhhccccceeeccccchhhhh--hh---hhhhe
Confidence 35566666664444 66668888888886521 11 1111100000001235555555431 12 22556
Q ss_pred cceeeEEeeeeeecCCeEEEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEE
Q 007770 467 VREVNFLRFCKQHAEGVWAVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVE 529 (590)
Q Consensus 467 ~Re~~flRyckq~~~g~WaVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVe 529 (590)
+|++.++=||--+.-+ ++.+-+.+... .+|.+-.=|+=..+.+|-|. +||=|.
T Consensus 296 ~kt~l~~S~cnDI~~~-----~~~~~SgH~Dk----kvRfwD~Rs~~~~~sv~~gg-~vtSl~ 348 (459)
T KOG0288|consen 296 SKTVLPGSQCNDIVCS-----ISDVISGHFDK----KVRFWDIRSADKTRSVPLGG-RVTSLD 348 (459)
T ss_pred eccccccccccceEec-----ceeeeeccccc----ceEEEeccCCceeeEeecCc-ceeeEe
Confidence 7777778888765443 33333333222 47888877888888898886 988874
No 139
>KOG3755 consensus SATB1 matrix attachment region binding protein [Transcription]
Probab=27.20 E-value=18 Score=41.82 Aligned_cols=44 Identities=20% Similarity=0.278 Sum_probs=30.4
Q ss_pred HHhhhcCCCCCHHHHHHHHHHcC-------CCccchhcccchhhhHHHHHH
Q 007770 150 ESLFKECPHPDEKQRLELSKRLC-------LETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 150 E~~F~~~~~Ps~~~R~~LA~~Lg-------Ls~rQVkvWFQNRRaK~Kr~~ 193 (590)
+..|.++.+++.....+--+++. .+.+-|++||.|||.++|+.+
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 44566677777665555444443 356789999999999999754
No 140
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=26.86 E-value=1.4e+02 Score=26.49 Aligned_cols=62 Identities=15% Similarity=0.092 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHHHhhhhHHHHhhHHHHhhhhhHHh
Q 007770 138 YHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLERHENSLLRQENDKLRAENMSIRD 217 (590)
Q Consensus 138 RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~r~e~~~l~~en~~L~~en~~l~e 217 (590)
+..||.+++..|.. ...|.+.+|++-.+|+-+..+.... -.....+.+....+++|...|++
T Consensus 36 ~R~Yt~~di~~l~~------------I~~llr~~G~~l~~i~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~l~~ 97 (99)
T cd04765 36 RRYYRPKDVELLLL------------IKHLLYEKGYTIEGAKQALKEDGAA------AIREEEAEERLPSIRAELLDLRD 97 (99)
T ss_pred CeeeCHHHHHHHHH------------HHHHHHHCCCCHHHHHHHHHhcccc------ccchhhHHHHHHHHHHHHHHHHh
Confidence 44699999988854 3335677888888888877654333 11223455555666666666654
No 141
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=25.78 E-value=2.1e+02 Score=29.35 Aligned_cols=47 Identities=28% Similarity=0.381 Sum_probs=30.5
Q ss_pred HHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHH
Q 007770 194 ERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCAL 260 (590)
Q Consensus 194 ~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~ 260 (590)
++.-..+++...++++.|-.++.+ -+-.-|+.||++||.||+++..-
T Consensus 92 q~~v~~QQ~~~f~kiRsel~S~e~--------------------sEF~~lr~e~EklkndlEk~ks~ 138 (220)
T KOG3156|consen 92 QEKVSYQQKVDFAKIRSELVSIER--------------------SEFANLRAENEKLKNDLEKLKSS 138 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444556666777776544433 12235889999999999998764
No 142
>PRK10884 SH3 domain-containing protein; Provisional
Probab=25.40 E-value=2.3e+02 Score=28.67 Aligned_cols=19 Identities=16% Similarity=0.312 Sum_probs=10.1
Q ss_pred HHHhhHHHHhhhhhHHhhh
Q 007770 201 LRQENDKLRAENMSIRDAM 219 (590)
Q Consensus 201 l~~en~~L~~en~~l~ea~ 219 (590)
..+....|+.+|..|++.+
T Consensus 130 ~~~~~~~L~~~n~~L~~~l 148 (206)
T PRK10884 130 SDSVINGLKEENQKLKNQL 148 (206)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444445666666665544
No 143
>cd07824 SRPBCC_6 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=25.14 E-value=5.2e+02 Score=23.46 Aligned_cols=133 Identities=14% Similarity=0.117 Sum_probs=68.6
Q ss_pred EEechhhHHHHhcChhhhhhhcccccccceEeEEeeCCCCCCCCchhhhhhhhhhccccccccceeeEEeeeeeecCCeE
Q 007770 405 VIINSLALVETLMDPNRWAEMFPCMIARTATTDVISSGMGGTRNGALQLMHAELQVLSPLVPVREVNFLRFCKQHAEGVW 484 (590)
Q Consensus 405 V~m~~~~LVe~lmD~~~W~~~Fp~iVs~a~T~~Vis~G~~g~~~GalqlM~aElqvlSPLVP~Re~~flRyckq~~~g~W 484 (590)
+...+.++-+++.|.++|.+-.|.+ ..+++++.|.....+..++ +. .....|.+.-+-.++...-....|
T Consensus 9 i~ap~e~Vw~~~tD~~~~~~w~~~v----~~~~~~~~~~~~~~g~~~~-~~-----~~~~~~~~~~~~~~v~~~~p~~~~ 78 (146)
T cd07824 9 IPAPPEAVWDVLVDAESWPDWWPGV----ERVVELEPGDEAGIGARRR-YT-----WRGLLPYRLRFELRVTRIEPLSLL 78 (146)
T ss_pred ecCCHHHHHHHHhChhhcchhhhce----EEEEEccCCCCCCcceEEE-EE-----EEecCCcEEEEEEEEEeecCCcEE
Confidence 4446788999999999999999974 6666676322111111222 11 011123222233344443344455
Q ss_pred EEEEEeccCccCCCCCCCccceeecCCCceeeecCCCceeEEEEEeeeecCc---cccchhhhhhccchhHhHHHHHHHH
Q 007770 485 AVVDVSIDTIRETSGAPAFVNCRRLPSGCVVQDMPNGYSKVTWVEHAEYDES---QVHQLYKPLIISGMGFGAQRWVATL 561 (590)
Q Consensus 485 aVvDVS~d~~~~~~~~~~~~~~rr~PSGclIqd~~nG~skVtWVeH~e~d~~---~vh~lyrpl~~SG~afGA~RWlatL 561 (590)
++. . ++... ... . .-|++.++| |+||+-.+++..-- ..+.|+.+|+....-=-...=+..|
T Consensus 79 ~~~-~--~g~~~-----~~~-~------~~~~~~~~g-t~vt~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~L 142 (146)
T cd07824 79 EVR-A--SGDLE-----GVG-R------WTLAPDGSG-TVVRYDWEVRTTKPWMNLLAPLARPVFRWNHRRVMRAGEKGL 142 (146)
T ss_pred EEE-E--EEeee-----EEE-E------EEEEEcCCC-EEEEEEEEEEcCHHHHHhhhHhhhhHHHHhHHHHHHhHHHHH
Confidence 442 2 11100 011 1 235665555 99999888887542 3566666666444433334444444
Q ss_pred HH
Q 007770 562 QR 563 (590)
Q Consensus 562 qR 563 (590)
.|
T Consensus 143 ~~ 144 (146)
T cd07824 143 AR 144 (146)
T ss_pred Hh
Confidence 43
No 144
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=25.01 E-value=90 Score=28.87 Aligned_cols=48 Identities=13% Similarity=0.091 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 141 HTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 141 fT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
+++.+...+...|-... .-.++|..+|+++..|+.....=|.+.|+..
T Consensus 107 Lp~~~r~v~~l~~~~g~-----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l 154 (160)
T PRK09642 107 LPENYRDVVLAHYLEEK-----SYQEIALQEKIEVKTVEMKLYRARKWIKKHW 154 (160)
T ss_pred CCHHHHHHHHHHHHhCC-----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 56666666655543322 3568999999999999998876666655544
No 145
>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=24.68 E-value=25 Score=36.02 Aligned_cols=33 Identities=42% Similarity=0.489 Sum_probs=0.0
Q ss_pred hhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHh
Q 007770 197 ENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARL 250 (590)
Q Consensus 197 e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~L 250 (590)
....|+.-.+-|.+||++|++ +.++|..||+||
T Consensus 130 ~I~dLrrlVe~L~aeNErLr~---------------------EnkqL~ae~arL 162 (243)
T PF08961_consen 130 KIADLRRLVEFLLAENERLRR---------------------ENKQLKAENARL 162 (243)
T ss_dssp ------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHH
Confidence 344456666666777766665 345677788887
No 146
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=24.63 E-value=1.7e+02 Score=30.58 Aligned_cols=29 Identities=17% Similarity=-0.020 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCCCCeeec
Q 007770 337 RSMFLELALAAMDELVKMAQTDEPLWIRS 365 (590)
Q Consensus 337 k~~~~elA~~Am~El~~ma~~~eplWi~~ 365 (590)
-+.+.+|++..+.-.-.--..+.+-|-++
T Consensus 215 Is~~~~lt~~~~~c~~~dl~~~~~as~~s 243 (292)
T KOG4005|consen 215 ISRLEELTESLLACITADLETGAGASSPS 243 (292)
T ss_pred HHHHHHHHHHHHHHhhhcccccCCCCChh
Confidence 45566666544333322234566778776
No 147
>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=24.58 E-value=36 Score=27.98 Aligned_cols=20 Identities=10% Similarity=0.434 Sum_probs=17.6
Q ss_pred HHHHHHHHHcCCCccchhcc
Q 007770 162 KQRLELSKRLCLETRQVKFW 181 (590)
Q Consensus 162 ~~R~~LA~~LgLs~rQVkvW 181 (590)
..-.+||.+||+++.+|+.|
T Consensus 23 i~lkdIA~~Lgvs~~tIr~W 42 (60)
T PF10668_consen 23 IKLKDIAEKLGVSESTIRKW 42 (60)
T ss_pred ccHHHHHHHHCCCHHHHHHH
Confidence 34667999999999999999
No 148
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=24.56 E-value=2.1e+02 Score=30.54 Aligned_cols=20 Identities=25% Similarity=0.267 Sum_probs=11.6
Q ss_pred hhHHHHHHHHhHHHHHHHHH
Q 007770 240 EQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 240 ~~~L~~ENa~Lk~el~r~~~ 259 (590)
.+-|..+|.+||++++++..
T Consensus 257 ~~~Le~rN~~LK~qa~~ler 276 (294)
T KOG4571|consen 257 LEGLEKRNEELKDQASELER 276 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44466666666666655443
No 149
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=24.06 E-value=60 Score=25.48 Aligned_cols=29 Identities=3% Similarity=0.143 Sum_probs=18.5
Q ss_pred HHHHHHHHcCCCccchhcccchhhhHHHH
Q 007770 163 QRLELSKRLCLETRQVKFWFQNRRTQMKT 191 (590)
Q Consensus 163 ~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr 191 (590)
...+||+.+|++..+|..|+.++..+..-
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~~~~~~ 40 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKPSNPSL 40 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-----H
T ss_pred CHHHHHHHHCcCHHHHHHHHhcccccccH
Confidence 46789999999999999999887555554
No 150
>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=23.95 E-value=87 Score=23.87 Aligned_cols=39 Identities=13% Similarity=0.065 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccch
Q 007770 141 HTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQN 184 (590)
Q Consensus 141 fT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQN 184 (590)
+++.+...+...|-.. ..-.++|+.+|+++..|+.|.+.
T Consensus 11 L~~~~r~i~~l~~~~g-----~s~~eIa~~l~~s~~~v~~~l~r 49 (54)
T PF08281_consen 11 LPERQREIFLLRYFQG-----MSYAEIAEILGISESTVKRRLRR 49 (54)
T ss_dssp S-HHHHHHHHHHHTS--------HHHHHHHCTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHC-----cCHHHHHHHHCcCHHHHHHHHHH
Confidence 5666777776665443 46788999999999999999864
No 151
>PF15392 Joubert: Joubert syndrome-associated
Probab=23.80 E-value=5.9e+02 Score=27.64 Aligned_cols=27 Identities=22% Similarity=0.144 Sum_probs=14.7
Q ss_pred CCceeeeecceeEEe--chhhHHHHhcCh
Q 007770 393 GFVTEASRETGMVII--NSLALVETLMDP 419 (590)
Q Consensus 393 g~~~EASR~sgvV~m--~~~~LVe~lmD~ 419 (590)
++.+|--||-.||-= =+.++=.||-|.
T Consensus 240 ~~~~e~eRe~~vvSpWt~P~eI~~iL~~s 268 (329)
T PF15392_consen 240 QVCIEYEREETVVSPWTLPSEIHRILHDS 268 (329)
T ss_pred cchhhhhccccccCCCcCcHHHHHHHhcC
Confidence 445566666666532 244555566555
No 152
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=23.45 E-value=75 Score=31.69 Aligned_cols=38 Identities=21% Similarity=0.237 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHhhhcCCC--CCHHHHHHHHHHcCCCccc
Q 007770 140 RHTPQQIQELESLFKECPH--PDEKQRLELSKRLCLETRQ 177 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~--Ps~~~R~~LA~~LgLs~rQ 177 (590)
.+|+.|++.|...|+..-| |-...-.+||++||+++.-
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst 194 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKST 194 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHH
Confidence 6999999999999988754 7777888999999999854
No 153
>PF05494 Tol_Tol_Ttg2: Toluene tolerance, Ttg2 ; InterPro: IPR008869 Toluene tolerance is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation []. Many proteins are involved in these processes. This family is a transporter which shows similarity to ABC transporters [].; PDB: 2QGU_A.
Probab=23.20 E-value=81 Score=30.15 Aligned_cols=24 Identities=21% Similarity=0.498 Sum_probs=17.5
Q ss_pred eEEeeeeeecCCeEEEEEEeccCc
Q 007770 471 NFLRFCKQHAEGVWAVVDVSIDTI 494 (590)
Q Consensus 471 ~flRyckq~~~g~WaVvDVS~d~~ 494 (590)
.-+-|--...+|.|-|+||.++++
T Consensus 117 i~v~y~l~~~~g~Wki~Dv~ieGv 140 (170)
T PF05494_consen 117 IPVDYRLRKKDGKWKIYDVIIEGV 140 (170)
T ss_dssp EEEEEEEEEETTEEEEEEEEETTE
T ss_pred EEEEEEEEEcCCCeEEEEEEEcce
Confidence 334444444889999999999986
No 154
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=23.16 E-value=4.6e+02 Score=23.93 Aligned_cols=68 Identities=9% Similarity=0.101 Sum_probs=38.3
Q ss_pred CCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhh---HHHHHHHHhhhhHHHHhhHHHHhhhh
Q 007770 137 RYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRT---QMKTQLERHENSLLRQENDKLRAENM 213 (590)
Q Consensus 137 ~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRa---K~Kr~~~r~e~~~l~~en~~L~~en~ 213 (590)
.+..|+..++..|+ .....+.+|++-.+|+-+|..... ...+.........++++.+.|.....
T Consensus 34 g~R~Y~~~~l~~l~-------------~I~~l~~~G~sl~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~ 100 (124)
T TIGR02051 34 GYRRYPEETVKRLR-------------FIKRAQELGFSLEEIGGLLGLVDGTHCREMYELASRKLKSVQAKMADLLRIER 100 (124)
T ss_pred CCEeECHHHHHHHH-------------HHHHHHHCCCCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45569999998883 333467888888888888765431 11122223333444445555554444
Q ss_pred hHHh
Q 007770 214 SIRD 217 (590)
Q Consensus 214 ~l~e 217 (590)
.|.+
T Consensus 101 ~L~~ 104 (124)
T TIGR02051 101 LLEE 104 (124)
T ss_pred HHHH
Confidence 4444
No 155
>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=22.72 E-value=84 Score=28.00 Aligned_cols=35 Identities=17% Similarity=0.458 Sum_probs=19.2
Q ss_pred HHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHHH
Q 007770 146 IQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQLE 194 (590)
Q Consensus 146 l~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~~ 194 (590)
+....-.|+.+|||...--.. |+ .|||.+|++++.
T Consensus 14 vRiIk~LyqsnPyP~~~GTr~-aR-------------RnRRRRWR~rq~ 48 (91)
T PF00424_consen 14 VRIIKILYQSNPYPSPEGTRQ-AR-------------RNRRRRWRARQR 48 (91)
T ss_dssp HHHHHHHHHTS-S--S-S-HH-HH-------------HHHHHHHHHHHH
T ss_pred HHHHHHHHccccCCCCCCccc-cc-------------cchhhhHHHHHH
Confidence 344556689999997441111 11 489999997664
No 156
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=22.42 E-value=70 Score=25.02 Aligned_cols=45 Identities=16% Similarity=0.190 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHH
Q 007770 140 RHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMK 190 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~K 190 (590)
.+|+.+++.|.-...-. ...++|..++++++-|+.+..+=+.|..
T Consensus 3 ~LT~~E~~vl~~l~~G~------~~~eIA~~l~is~~tV~~~~~~i~~Kl~ 47 (58)
T PF00196_consen 3 SLTERELEVLRLLAQGM------SNKEIAEELGISEKTVKSHRRRIMKKLG 47 (58)
T ss_dssp SS-HHHHHHHHHHHTTS-------HHHHHHHHTSHHHHHHHHHHHHHHHHT
T ss_pred ccCHHHHHHHHHHHhcC------CcchhHHhcCcchhhHHHHHHHHHHHhC
Confidence 58899999998777654 4788999999999999988766555543
No 157
>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=22.35 E-value=5.2e+02 Score=23.31 Aligned_cols=67 Identities=16% Similarity=0.244 Sum_probs=38.3
Q ss_pred CCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhh-HHHHHHHHhhhhHHHHhhHHHHhhhhhH
Q 007770 137 RYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRT-QMKTQLERHENSLLRQENDKLRAENMSI 215 (590)
Q Consensus 137 ~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRa-K~Kr~~~r~e~~~l~~en~~L~~en~~l 215 (590)
.+..|+..++..|+. ....+.+|++-.+|+..+.+... +..+..-.+.-..+.++.+.|......|
T Consensus 34 gyR~Y~~~~l~~l~~-------------I~~lr~~G~~L~eI~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~L 100 (120)
T cd04781 34 LRRQYDPQVLDRLAL-------------IALGRAAGFSLDEIQAMLSHDGKPPIDRQLLKAKAAELDQQIQRLQAMRELL 100 (120)
T ss_pred CceecCHHHHHHHHH-------------HHHHHHcCCCHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556799999988843 34577788888888888876531 1112222333334444444444443334
Q ss_pred H
Q 007770 216 R 216 (590)
Q Consensus 216 ~ 216 (590)
.
T Consensus 101 ~ 101 (120)
T cd04781 101 R 101 (120)
T ss_pred H
Confidence 3
No 158
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=21.99 E-value=99 Score=30.67 Aligned_cols=44 Identities=32% Similarity=0.362 Sum_probs=27.1
Q ss_pred HHhhhcC-CCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHH
Q 007770 215 IRDAMRN-PICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVC 258 (590)
Q Consensus 215 l~ea~~~-~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~ 258 (590)
+-+|+.. -.||.||.....-+-+-.-..|..+-.+|++|+.+..
T Consensus 125 fdeA~~~~F~Cp~Cg~~L~~~d~s~~i~~l~~~i~~l~~~l~~~~ 169 (176)
T COG1675 125 FDEAMELGFTCPKCGEDLEEYDSSEEIEELESELDELEEELERND 169 (176)
T ss_pred HHHHHHhCCCCCCCCchhhhccchHHHHHHHHHHHHHHHHHhccc
Confidence 3445544 4599999988766655555555556666666665543
No 159
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.82 E-value=2.9e+02 Score=27.93 Aligned_cols=39 Identities=13% Similarity=0.161 Sum_probs=25.3
Q ss_pred hhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHH
Q 007770 196 HENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELD 255 (590)
Q Consensus 196 ~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~ 255 (590)
.....|+++|++|+.+...++..+ ..|..||..+++.+.
T Consensus 132 ~~~~~L~~~n~~L~~~l~~~~~~~---------------------~~l~~~~~~~~~~~~ 170 (206)
T PRK10884 132 SVINGLKEENQKLKNQLIVAQKKV---------------------DAANLQLDDKQRTII 170 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHH
Confidence 344447777777777777776533 346677777777654
No 160
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=21.75 E-value=3.4e+02 Score=24.75 Aligned_cols=37 Identities=11% Similarity=0.208 Sum_probs=27.7
Q ss_pred CCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhh
Q 007770 137 RYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRR 186 (590)
Q Consensus 137 ~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRR 186 (590)
.+..|+.+++..|+ .....+.+|++-.+|+-+|....
T Consensus 35 gyR~Y~~~~l~~l~-------------~I~~lr~~G~sL~eI~~~l~~~~ 71 (126)
T cd04783 35 GYRRYPEETVTRLR-------------FIKRAQELGFTLDEIAELLELDD 71 (126)
T ss_pred CCeecCHHHHHHHH-------------HHHHHHHcCCCHHHHHHHHhccc
Confidence 45579999998884 34446888888888888886553
No 161
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=21.63 E-value=1.1e+02 Score=30.04 Aligned_cols=47 Identities=15% Similarity=0.148 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHH
Q 007770 141 HTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQ 192 (590)
Q Consensus 141 fT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~ 192 (590)
+++.|...+...|-.. ....++|..+|++...|+.+...-|.+.|+.
T Consensus 154 L~~~~r~vl~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~~ 200 (206)
T PRK12526 154 LPEAQQTVVKGVYFQE-----LSQEQLAQQLNVPLGTVKSRLRLALAKLKVQ 200 (206)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 5566666666544322 2467899999999999998876555555543
No 162
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=21.43 E-value=4.8e+02 Score=23.42 Aligned_cols=37 Identities=11% Similarity=0.169 Sum_probs=26.4
Q ss_pred CCCCCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhh
Q 007770 137 RYHRHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRR 186 (590)
Q Consensus 137 ~RtrfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRR 186 (590)
.+..|+.+++..|+. ....+.+|++-..|+..|.+..
T Consensus 35 gyR~Y~~~~i~~l~~-------------I~~lr~~G~sl~eI~~~l~~~~ 71 (123)
T cd04770 35 GYRLYGEADLARLRF-------------IRRAQALGFSLAEIRELLSLRD 71 (123)
T ss_pred CCccCCHHHHHHHHH-------------HHHHHHCCCCHHHHHHHHHhhh
Confidence 455799999998843 3335777888888887776544
No 163
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=21.23 E-value=1.2e+02 Score=28.39 Aligned_cols=49 Identities=16% Similarity=-0.012 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHhhhcCCCCCHHHHHHHHHHcCCCccchhcccchhhhHHHHHH
Q 007770 140 RHTPQQIQELESLFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMKTQL 193 (590)
Q Consensus 140 rfT~~Ql~~LE~~F~~~~~Ps~~~R~~LA~~LgLs~rQVkvWFQNRRaK~Kr~~ 193 (590)
.+++.|.+.+...|-.. ....++|..+|++...|+.|.+.=|.+.|+.-
T Consensus 108 ~L~~~~r~v~~l~~~~g-----~s~~eIA~~lgis~~tv~~~l~Rar~~Lr~~l 156 (165)
T PRK09644 108 TLPVIEAQAILLCDVHE-----LTYEEAASVLDLKLNTYKSHLFRGRKRLKALL 156 (165)
T ss_pred hCCHHHHHHHHhHHHhc-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 36666666665443222 24678999999999999999876555555443
No 164
>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=20.89 E-value=2.3e+02 Score=27.19 Aligned_cols=70 Identities=21% Similarity=0.252 Sum_probs=38.2
Q ss_pred hhcccchhhhHH-----HHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHH
Q 007770 178 VKFWFQNRRTQM-----KTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKD 252 (590)
Q Consensus 178 VkvWFQNRRaK~-----Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~ 252 (590)
.+|||.|...-. .-.....+...|+.++..|..+...++..+.+..+ .+...+|..+.+.|++
T Consensus 56 qkiY~~~Q~~~~~~s~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~------------~~t~~el~~~i~~l~~ 123 (169)
T PF07106_consen 56 QKIYFANQDELEVPSPEELAELDAEIKELREELAELKKEVKSLEAELASLSS------------EPTNEELREEIEELEE 123 (169)
T ss_pred eEEEeeCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc------------CCCHHHHHHHHHHHHH
Confidence 378887765422 22233344566666666666666666666554322 1123345566666666
Q ss_pred HHHHHHH
Q 007770 253 ELDRVCA 259 (590)
Q Consensus 253 el~r~~~ 259 (590)
|+..+..
T Consensus 124 e~~~l~~ 130 (169)
T PF07106_consen 124 EIEELEE 130 (169)
T ss_pred HHHHHHH
Confidence 6655544
No 165
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=20.88 E-value=4.6e+02 Score=31.57 Aligned_cols=22 Identities=27% Similarity=0.468 Sum_probs=15.1
Q ss_pred hhhhHHHHHHHHhHHHHHHHHH
Q 007770 238 LEEQHLRIENARLKDELDRVCA 259 (590)
Q Consensus 238 ~~~~~L~~ENa~Lk~el~r~~~ 259 (590)
.++.+|+..+.+|+.|++.++.
T Consensus 237 ~~k~rl~~d~E~Lr~e~~qL~~ 258 (916)
T KOG0249|consen 237 HDKDKLRTDIEDLRGELDQLRR 258 (916)
T ss_pred HHHHHHhhhHHHHHHHHHHHHH
Confidence 3566777777777777776663
No 166
>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=20.46 E-value=2.8e+02 Score=23.17 Aligned_cols=51 Identities=33% Similarity=0.319 Sum_probs=0.0
Q ss_pred hHHHHHHHHhhhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHHhhhccC
Q 007770 187 TQMKTQLERHENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCALAGKFLG 266 (590)
Q Consensus 187 aK~Kr~~~r~e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~~~~~~~ 266 (590)
.+....+...+...++++.+++++||..|+. |-..|.+ .+|+..+|.+.+|
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~l~~en~~L~~----------------------------ei~~l~~-~~rIe~~Ar~~lg 72 (85)
T TIGR02209 22 AQHQTRQLNNELQKLQLEIDKLQKEWRDLQL----------------------------EVAELSR-HERIEKIAKKQLG 72 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------------HHHHHcC-HHHHHHHHHHhcC
No 167
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=20.29 E-value=2.6e+02 Score=23.80 Aligned_cols=58 Identities=26% Similarity=0.352 Sum_probs=32.6
Q ss_pred hhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHH
Q 007770 197 ENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCAL 260 (590)
Q Consensus 197 e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~ 260 (590)
.-..|+.+|=.|+-.-.-|.+.+.. .+|....++.-+.-.|..|++.|+.|+++....
T Consensus 8 ~i~~L~KENF~LKLrI~fLee~l~~------~~~~~~~~~~keNieLKve~~~L~~el~~~~~~ 65 (75)
T PF07989_consen 8 QIDKLKKENFNLKLRIYFLEERLQK------LGPESIEELLKENIELKVEVESLKRELQEKKKL 65 (75)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHh------cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666665666666652 122222222334446777777777777766554
No 168
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=20.10 E-value=3.9e+02 Score=24.59 Aligned_cols=47 Identities=21% Similarity=0.112 Sum_probs=32.3
Q ss_pred hhhHHHHhhHHHHhhhhhHHhhhcCCCCCCCCCCCccCCCchhhhHHHHHHHHhHHHHHHHHHHhhhc
Q 007770 197 ENSLLRQENDKLRAENMSIRDAMRNPICTNCGGPAIIGDISLEEQHLRIENARLKDELDRVCALAGKF 264 (590)
Q Consensus 197 e~~~l~~en~~L~~en~~l~ea~~~~~C~~Cg~p~~~~~~~~~~~~L~~ENa~Lk~el~r~~~~~~~~ 264 (590)
.-..+.+....+..+-..|++. ...|..||++|+-|.+.++..+.+.
T Consensus 9 ~l~~le~~l~~l~~el~~LK~~---------------------~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 9 ALDDLEQNLGVLLKELGALKKQ---------------------LAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344555566666666666653 4568889999999998888876654
Done!