Query psy16761
Match_columns 261
No_of_seqs 202 out of 1648
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 21:20:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16761.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16761hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07349 NR_LBD_SHP The ligand 100.0 7.6E-34 1.6E-38 243.5 16.1 163 73-257 42-222 (222)
2 cd06937 NR_LBD_RAR The ligand 100.0 4.6E-34 9.9E-39 246.6 13.8 164 73-259 61-231 (231)
3 cd07070 NR_LBD_SF-1 The ligand 100.0 2.4E-33 5.3E-38 243.0 15.5 165 73-259 61-236 (237)
4 cd07348 NR_LBD_NGFI-B The liga 100.0 1.8E-33 4E-38 243.3 13.9 164 73-260 64-235 (238)
5 cd06948 NR_LBD_COUP-TF Ligand 100.0 5.6E-33 1.2E-37 240.7 16.4 166 73-260 53-226 (236)
6 cd07069 NR_LBD_Lrh-1 The ligan 100.0 7.9E-33 1.7E-37 240.2 16.9 166 73-260 63-239 (241)
7 cd06944 NR_LBD_Ftz-F1_like The 100.0 5.9E-33 1.3E-37 240.7 15.4 165 73-259 61-236 (237)
8 cd06951 NR_LBD_Dax1_like The l 100.0 4.1E-33 8.9E-38 239.3 13.7 160 73-255 42-222 (222)
9 cd06949 NR_LBD_ER Ligand bindi 100.0 1.1E-32 2.5E-37 238.5 16.0 165 73-260 55-235 (235)
10 cd07350 NR_LBD_Dax1 The ligand 100.0 9.4E-33 2E-37 238.1 14.9 161 73-255 42-232 (232)
11 cd06945 NR_LBD_Nurr1_like The 100.0 1.8E-32 4E-37 237.7 14.8 165 73-260 64-236 (239)
12 cd07071 NR_LBD_Nurr1 The ligan 100.0 2.2E-32 4.7E-37 236.7 14.4 164 73-260 64-235 (238)
13 cd07072 NR_LBD_DHR38_like Liga 100.0 6.1E-32 1.3E-36 234.0 15.7 164 73-260 65-236 (239)
14 cd07076 NR_LBD_GR Ligand bindi 100.0 4.8E-32 1E-36 234.9 13.9 162 73-258 51-224 (247)
15 cd06935 NR_LBD_TR The ligand b 100.0 1.6E-31 3.5E-36 232.4 12.1 161 73-256 75-243 (243)
16 cd06946 NR_LBD_ERR The ligand 100.0 1.1E-30 2.3E-35 224.4 14.9 164 73-259 50-221 (221)
17 cd06950 NR_LBD_Tlx_PNR_like Th 100.0 1.2E-30 2.7E-35 221.7 14.8 151 73-244 49-205 (206)
18 cd07073 NR_LBD_AR Ligand bindi 100.0 1.3E-30 2.8E-35 226.6 14.2 163 73-259 51-230 (246)
19 cd07068 NR_LBD_ER_like The lig 100.0 1.8E-30 3.9E-35 223.0 14.6 164 73-259 50-221 (221)
20 cd06947 NR_LBD_GR_Like Ligand 100.0 1.2E-29 2.5E-34 220.6 14.8 167 73-260 51-231 (246)
21 cd06941 NR_LBD_DmE78_like The 100.0 4.4E-30 9.6E-35 216.5 11.8 163 73-258 25-195 (195)
22 cd06932 NR_LBD_PPAR The ligand 100.0 1.3E-29 2.8E-34 222.1 13.7 162 73-259 86-258 (259)
23 cd06952 NR_LBD_TR2_like The li 100.0 3.9E-29 8.5E-34 214.8 16.1 164 73-258 44-221 (222)
24 cd06939 NR_LBD_ROR_like The li 100.0 3.9E-29 8.4E-34 217.1 12.7 162 73-257 71-241 (241)
25 cd06954 NR_LBD_LXR The ligand 100.0 8.5E-29 1.8E-33 214.6 13.7 162 73-258 66-235 (236)
26 cd07075 NR_LBD_MR Ligand bindi 100.0 1E-28 2.2E-33 214.3 14.1 164 73-258 51-225 (248)
27 cd06940 NR_LBD_REV_ERB The lig 100.0 1.5E-28 3.3E-33 206.1 13.3 147 73-241 35-188 (189)
28 cd06933 NR_LBD_VDR The ligand 100.0 8E-28 1.7E-32 208.6 14.8 166 73-260 60-237 (238)
29 cd06936 NR_LBD_Fxr The ligand 99.9 2E-27 4.4E-32 204.0 11.4 160 73-255 59-221 (221)
30 cd06934 NR_LBD_PXR_like The li 99.9 5E-27 1.1E-31 202.1 13.2 159 73-256 58-226 (226)
31 cd06943 NR_LBD_RXR_like The li 99.9 1.1E-26 2.3E-31 197.5 13.9 147 73-241 53-207 (207)
32 cd06938 NR_LBD_EcR The ligand 99.9 9.4E-27 2E-31 201.2 13.4 161 73-258 62-230 (231)
33 cd06931 NR_LBD_HNF4_like The l 99.9 2.2E-26 4.8E-31 197.7 13.9 169 59-256 47-222 (222)
34 cd06953 NR_LBD_DHR4_like The l 99.9 1.2E-26 2.5E-31 198.2 11.3 148 73-241 50-208 (213)
35 KOG4215|consensus 99.9 1E-26 2.2E-31 204.8 9.4 186 45-259 155-351 (432)
36 cd06929 NR_LBD_F1 Ligand-bindi 99.9 5E-25 1.1E-29 182.0 12.2 142 73-236 25-173 (174)
37 cd06930 NR_LBD_F2 Ligand-bindi 99.9 1.4E-23 3E-28 171.6 15.4 136 73-229 22-165 (165)
38 cd07074 NR_LBD_PR Ligand bindi 99.9 1.1E-23 2.5E-28 182.6 14.7 165 73-259 51-230 (248)
39 cd06942 NR_LBD_Sex_1_like The 99.9 3E-23 6.4E-28 174.4 12.2 145 73-239 25-177 (191)
40 cd06157 NR_LBD The ligand bind 99.8 2.4E-18 5.1E-23 139.6 14.7 136 73-229 21-168 (168)
41 smart00430 HOLI Ligand binding 99.8 1.6E-18 3.4E-23 140.0 12.6 136 73-229 15-163 (163)
42 PF00104 Hormone_recep: Ligand 99.8 3.9E-18 8.4E-23 142.7 11.9 149 73-242 40-202 (203)
43 KOG4217|consensus 99.7 1.4E-17 3.1E-22 151.1 12.4 172 65-260 423-602 (605)
44 KOG4218|consensus 99.7 1.7E-16 3.7E-21 139.4 8.4 172 66-259 287-472 (475)
45 cd07350 NR_LBD_Dax1 The ligand 99.6 1.4E-15 3E-20 131.4 12.3 136 1-152 54-219 (232)
46 cd07076 NR_LBD_GR Ligand bindi 99.6 1E-15 2.2E-20 133.1 10.3 102 1-102 63-173 (247)
47 cd07349 NR_LBD_SHP The ligand 99.6 1.8E-15 4E-20 129.9 11.8 135 1-151 54-206 (222)
48 cd07075 NR_LBD_MR Ligand bindi 99.6 2.4E-15 5.2E-20 130.8 12.5 138 1-151 63-209 (248)
49 cd06937 NR_LBD_RAR The ligand 99.6 1.2E-15 2.6E-20 131.9 10.2 101 1-101 73-179 (231)
50 cd07348 NR_LBD_NGFI-B The liga 99.6 2.1E-15 4.6E-20 130.6 11.6 101 1-102 76-181 (238)
51 cd06947 NR_LBD_GR_Like Ligand 99.6 2.6E-15 5.7E-20 130.7 11.9 138 1-151 63-209 (246)
52 cd07069 NR_LBD_Lrh-1 The ligan 99.6 3.9E-15 8.5E-20 129.4 11.9 134 1-150 75-219 (241)
53 cd07071 NR_LBD_Nurr1 The ligan 99.6 7.9E-15 1.7E-19 127.1 12.1 100 1-101 76-180 (238)
54 cd07072 NR_LBD_DHR38_like Liga 99.6 6.9E-15 1.5E-19 127.5 11.7 101 1-102 77-182 (239)
55 cd07073 NR_LBD_AR Ligand bindi 99.6 4.3E-15 9.4E-20 129.3 10.2 101 1-101 63-172 (246)
56 cd06940 NR_LBD_REV_ERB The lig 99.6 5.7E-15 1.2E-19 123.9 9.7 101 1-101 47-153 (189)
57 cd06935 NR_LBD_TR The ligand b 99.6 7.6E-15 1.6E-19 127.8 10.2 102 1-102 87-194 (243)
58 cd06951 NR_LBD_Dax1_like The l 99.6 1.2E-14 2.5E-19 125.0 10.9 100 1-101 54-174 (222)
59 cd06950 NR_LBD_Tlx_PNR_like Th 99.6 2.3E-14 5E-19 121.8 12.6 100 2-101 62-167 (206)
60 cd07070 NR_LBD_SF-1 The ligand 99.6 1.9E-14 4.2E-19 124.8 11.0 135 2-152 74-219 (237)
61 cd06949 NR_LBD_ER Ligand bindi 99.6 1.5E-14 3.3E-19 125.3 10.2 103 1-103 67-181 (235)
62 cd06945 NR_LBD_Nurr1_like The 99.6 1.1E-14 2.3E-19 126.6 9.2 102 1-102 76-182 (239)
63 cd07074 NR_LBD_PR Ligand bindi 99.5 8.3E-14 1.8E-18 121.1 12.7 104 1-104 63-175 (248)
64 cd06944 NR_LBD_Ftz-F1_like The 99.5 1.1E-13 2.4E-18 120.1 12.2 100 2-101 74-184 (237)
65 cd06939 NR_LBD_ROR_like The li 99.5 7.6E-14 1.6E-18 121.3 10.0 103 1-103 83-190 (241)
66 cd06933 NR_LBD_VDR The ligand 99.5 2.3E-13 5E-18 118.1 11.8 101 1-102 72-181 (238)
67 cd06941 NR_LBD_DmE78_like The 99.5 2.7E-13 5.9E-18 114.2 11.6 101 1-101 37-143 (195)
68 cd06948 NR_LBD_COUP-TF Ligand 99.5 3.2E-13 7E-18 117.1 12.1 100 2-101 66-173 (236)
69 cd06954 NR_LBD_LXR The ligand 99.5 2E-13 4.3E-18 118.4 9.8 101 1-101 78-185 (236)
70 cd06934 NR_LBD_PXR_like The li 99.5 5.5E-13 1.2E-17 114.9 11.5 101 1-102 70-177 (226)
71 cd06953 NR_LBD_DHR4_like The l 99.5 8.3E-13 1.8E-17 112.8 12.0 101 2-102 63-173 (213)
72 cd06943 NR_LBD_RXR_like The li 99.4 1.1E-12 2.3E-17 111.5 11.7 100 2-101 66-172 (207)
73 cd06946 NR_LBD_ERR The ligand 99.4 1.4E-12 2.9E-17 112.1 10.7 100 2-101 63-168 (221)
74 KOG4216|consensus 99.4 1.9E-13 4.1E-18 122.0 4.4 169 69-260 298-477 (479)
75 cd06932 NR_LBD_PPAR The ligand 99.4 1.9E-12 4.2E-17 113.7 10.4 100 1-102 98-206 (259)
76 cd06952 NR_LBD_TR2_like The li 99.4 4.3E-12 9.3E-17 109.0 11.4 100 2-101 57-170 (222)
77 cd06936 NR_LBD_Fxr The ligand 99.4 4.9E-12 1.1E-16 108.7 11.1 99 2-100 72-173 (221)
78 cd06929 NR_LBD_F1 Ligand-bindi 99.4 9E-12 2E-16 102.7 11.8 100 2-101 38-143 (174)
79 cd07068 NR_LBD_ER_like The lig 99.3 6.8E-12 1.5E-16 107.7 10.4 100 2-101 63-168 (221)
80 cd06938 NR_LBD_EcR The ligand 99.3 1.3E-11 2.7E-16 106.8 11.1 101 1-102 74-180 (231)
81 cd06930 NR_LBD_F2 Ligand-bindi 99.3 2.1E-11 4.5E-16 99.4 10.5 100 2-101 35-142 (165)
82 cd06942 NR_LBD_Sex_1_like The 99.3 4.5E-11 9.7E-16 100.4 12.3 97 2-100 38-143 (191)
83 KOG4215|consensus 99.3 1.8E-11 3.9E-16 108.8 8.6 104 1-104 189-301 (432)
84 cd06931 NR_LBD_HNF4_like The l 99.1 3.3E-10 7.2E-15 97.3 10.2 98 2-99 68-171 (222)
85 KOG4218|consensus 99.0 3.4E-09 7.3E-14 93.8 10.9 136 2-153 310-456 (475)
86 smart00430 HOLI Ligand binding 98.8 3.6E-08 7.9E-13 79.1 8.6 100 2-101 28-139 (163)
87 cd06157 NR_LBD The ligand bind 98.7 7.9E-08 1.7E-12 77.5 9.9 100 2-101 34-144 (168)
88 PF00104 Hormone_recep: Ligand 98.6 8.8E-07 1.9E-11 73.7 12.3 99 2-100 53-163 (203)
89 KOG4217|consensus 98.5 4.6E-07 1E-11 83.4 8.5 102 2-104 444-550 (605)
90 KOG4216|consensus 96.9 0.0022 4.7E-08 58.4 6.0 97 1-97 317-418 (479)
91 KOG4846|consensus 76.3 7.3 0.00016 36.4 6.0 153 43-237 375-530 (538)
No 1
>cd07349 NR_LBD_SHP The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the Small Heterodimer Partner (SHP): SHP is a member of the nuclear receptor superfamily. SHP has a ligand binding domain, but lacks the DNA binding domain, typical to almost all of the nuclear receptors. It functions as a transcriptional coregulator by directly interacting with other nuclear receptors through its AF-2 motif. The closest relative of SHP is DAX1 and they can form heterodimer. SHP is an orphan receptor, lacking an identified ligand.
Probab=100.00 E-value=7.6e-34 Score=243.52 Aligned_cols=163 Identities=31% Similarity=0.474 Sum_probs=145.9
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcc---------ccccccc---------cchhHHHHHHHHHHHH
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGE---------LVESCKS---------RHVDIEEEVIRFQSVL 134 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~---------ll~~~~~---------~~~~~~~~~~~l~~~~ 134 (261)
.|+|.+|+.+||+.+||.+|.|++++++||++.+++... ++..+.. ........++.+++++
T Consensus 42 iP~F~~L~~~DQi~LLk~~W~EL~iL~laq~s~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~e~~ 121 (222)
T cd07349 42 LPSFWQLPPQDQLLLLQNCWGPLFLLGLAQDRVTFEVAEAPVPSMLKKILLEGQSSSGGSGQPDRPQPSLAAVQWLQCCL 121 (222)
T ss_pred CCCcccCChHHHHHHHHHccHHHHHHHHHHHccccccccccchhHHHHHHhcccccccccchhhhhhhHHHHHHHHHHHH
Confidence 599999999999999999999999999999998876432 2222110 0122344567788999
Q ss_pred HHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCcc
Q psy16761 135 NEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPT 214 (261)
Q Consensus 135 ~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~ 214 (261)
.+|++|++|.+||+|||||+||||| ++|+++..+|+.+|++++.+|++|+..+||++|.
T Consensus 122 ~~l~~L~ld~~Eya~LkaivLf~pd---------------------~~gl~~~~~V~~lqe~~~~aL~~~~~~~~p~~~~ 180 (222)
T cd07349 122 NKFWSLDLSPKEYAYLKGTILFNPD---------------------VPGLTASSHVGHLQQEAQWALCEVLEPLHPQDQG 180 (222)
T ss_pred HHHHHcCCCHHHHHHHHHHHHcCCC---------------------cccCCCHHHHHHHHHHHHHHHHHHHHHHCCCccc
Confidence 9999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHHH
Q psy16761 215 RFCKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMY 257 (261)
Q Consensus 215 Rf~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml 257 (261)
||+|||++||.||+++.+.+|++||++++| ++||++++.||+
T Consensus 181 r~~kLLl~Lp~LR~i~~~~ie~lff~~~~g-~~~i~~Ll~eml 222 (222)
T cd07349 181 RFARILLTASTLKSIPPSLITDLFFRPIIG-DADIAELLGDML 222 (222)
T ss_pred HHHHHHHHhHHHhcCCHHHHHHHhCccccC-CCcHHHHHHHhC
Confidence 999999999999999999999999999999 999999999996
No 2
>cd06937 NR_LBD_RAR The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily. The ligand binding domain (LBD) of retinoic acid receptor (RAR): Retinoic acid receptors are members of the nuclear receptor (NR) superfamily of ligand-regulated transcription factors. RARs mediate the biological effect of retinoids, including both naturally dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RARs function as heterodimers with retinoic X receptors by binding to specific RAR response elements (RAREs) found in the promoter regions of retinoid target genes. In the absence of ligand, the RAR-RXR heterodimer recruits the corepressor proteins NCoR or AMRT, and associated factors such as histone deacetylases or DNA-methyltransferases, leading to
Probab=100.00 E-value=4.6e-34 Score=246.61 Aligned_cols=164 Identities=18% Similarity=0.139 Sum_probs=150.3
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.+|+.+|.|++++++|+++.+.+ +.+.+++|... .++.+.+..+.+++.+|++|++|.+
T Consensus 61 iPgF~~L~~~DQi~LLk~~w~El~~L~~a~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~ 139 (231)
T cd06937 61 LPGFTTLTIADQITLLKAACLDILILRICTRYTPEQ-DTMTFSDGLTLNRTQMHNAGFGPLTDLVFTFANQLLPLEMDDT 139 (231)
T ss_pred CCccccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCC-CeEEecCCceecHHHHhhcChHHHHHHHHHHHHHHHHcCCCHH
Confidence 699999999999999999999999999999987754 33555555422 3455667788899999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhccc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPR 225 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~ 225 (261)
||+|||||+||||| ++|+.+.++|+++|++++.+|++|+..+||++|.||++||++||.
T Consensus 140 E~alLkAivLf~pD---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~p~rf~kLLl~Lp~ 198 (231)
T cd06937 140 EIGLLSAICLICGD---------------------RQDLEEPDRVEKLQEPLLEALKIYARKRRPDKPHMFPKMLMKITD 198 (231)
T ss_pred HHHHHHHHHHcCCC---------------------CccCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHH
Confidence 99999999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 226 LKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 226 Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
||+++++++|++||.+++| ++|+++|+.||+.+
T Consensus 199 LR~l~~~~~e~l~~~k~~~-~~~~~~Ll~Eml~~ 231 (231)
T cd06937 199 LRSISAKGAERVITLKMEI-PGPMPPLISEMLEN 231 (231)
T ss_pred HHHHHHHHHHHHHHHHhcC-CCCCCHHHHHHhcC
Confidence 9999999999999999999 99999999999864
No 3
>cd07070 NR_LBD_SF-1 The ligand binding domain of nuclear receptor steroidogenic factor 1, a member of nuclear receptor superfamily. The ligand binding domain of nuclear receptor steroidogenic factor 1 (SF-1): SF-1, a member of the nuclear hormone receptor superfamily, is an essential regulator of endocrine development and function and is considered a master regulator of reproduction. Most nuclear receptors function as homodimer or heterodimers, however SF-1 binds to its target genes as a monomer, recognizing the variations of the DNA sequence motif, T/CCA AGGTCA. SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been determined as potential ligands of SF-1. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, SF-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=100.00 E-value=2.4e-33 Score=242.96 Aligned_cols=165 Identities=16% Similarity=0.243 Sum_probs=148.1
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCC-CCccccccccccc--hh--------HHHHHHHHHHHHHHHHhcC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSL-DLGELVESCKSRH--VD--------IEEEVIRFQSVLNEFKVLN 141 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~-~~~~ll~~~~~~~--~~--------~~~~~~~l~~~~~~l~~L~ 141 (261)
.|+|..|+.+||+.++|.+|.++++++.|+++.+. +.+.+++++|..+ .. ....+..+.+++.+|++|+
T Consensus 61 lP~F~~L~~~DQi~LLk~~w~el~vL~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~e~~~kl~~L~ 140 (237)
T cd07070 61 CMVFKELEVADQMTLLQNCWSELLVFDHIYRQVQHGKEGSILLVTGQEVELSTVAAQAGSLLHSLVLRAQELVLQLHALQ 140 (237)
T ss_pred CCChhhCCHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceeecCCCeechhHHHHHHhHHHHHHHHHHHHHHHHHHHhC
Confidence 59999999999999999999999999999999765 3445666666432 11 1123345678999999999
Q ss_pred CChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHh
Q psy16761 142 IDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQL 221 (261)
Q Consensus 142 l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~ 221 (261)
+|.+||+|||||+||||| ++|+++...|+++|+++..||++||..+||+.+.||++||+
T Consensus 141 ld~~Ey~~LkaIiLfnpd---------------------~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~Rf~kLLl 199 (237)
T cd07070 141 LDRQEFVCLKFLILFSLD---------------------VKFLNNHSLVKDAQEKANAALLDYTLCHYPHCGDKFQQLLL 199 (237)
T ss_pred CCHHHHHHHHHHHhcCCC---------------------ccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchHHHHHHH
Confidence 999999999999999999 99999999999999999999999999999999999999999
Q ss_pred hcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 222 ILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 222 ~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
+||.||+++.+.+|++||++++| .+|+++++.||+.+
T Consensus 200 ~Lp~LRsis~~~~e~l~~~~l~g-~~~~~~Ll~eml~~ 236 (237)
T cd07070 200 RLVEVRALSMQAKEYLYHKHLGN-EMPRNNLLIEMLQA 236 (237)
T ss_pred HhHHHHHhhHHHHHHHHHhcccC-CCcHHHHHHHHhcC
Confidence 99999999999999999999999 99999999999976
No 4
>cd07348 NR_LBD_NGFI-B The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of Nerve growth factor-induced-B (NGFI-B): NGFI-B is a member of the nuclear#steroid receptor superfamily. NGFI-B is classified as an orphan receptor because no ligand has yet been identified. NGFI-B is an early immediate gene product of the embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as neuronal differentiation and function. NGFI-B regulates transcription by binding to a specific DNA target upstream of its target genes and regulating the rate of transcriptional initiation. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, NGFI-B has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LB
Probab=100.00 E-value=1.8e-33 Score=243.27 Aligned_cols=164 Identities=16% Similarity=0.225 Sum_probs=150.3
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHHhcCCChhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFKVLNIDPYE 146 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~~L~l~~~E 146 (261)
.|+|..|+.+||+.+||.+|.|++++++|+++.+.+. .+++++|... .++.+.+..+++++.++++|++|.+|
T Consensus 64 iPgF~~L~~~DQi~LLk~~w~El~vL~~a~r~~~~~~-~l~f~~~~~~~r~~~~~~~~~~~~~i~ef~~~l~~L~ld~~E 142 (238)
T cd07348 64 IPGFSDFCKEDQELLLESAFVELFILRLAYRSNPEEG-KLIFCNGVVLHRTQCVRGFGDWIDSILEFSQSLHRMNLDVSA 142 (238)
T ss_pred CCCccCCChHHHHHHHHHHHHHHHHHHHHHHcCCCCC-eEEeeCCeeecHHHHHhhHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 6999999999999999999999999999999988654 3555555432 45667788899999999999999999
Q ss_pred hhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhc--CCCCccHHHHHHhhcc
Q psy16761 147 YDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTV--YPSQPTRFCKIQLILP 224 (261)
Q Consensus 147 ~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~--~~~~~~Rf~~LL~~Lp 224 (261)
|+|||||+|| || ++||+++++|+++|++++.+|++|+..+ +|++|.||+|||++||
T Consensus 143 ~a~LkAIvLf-~D---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~p~rf~kLLl~Lp 200 (238)
T cd07348 143 FSCLAALVII-TD---------------------RHGLKEPKRVEELQNRLISCLKEHVSGSASEPQRPNCLSRLLGKLP 200 (238)
T ss_pred HHHHHHHHHc-CC---------------------CcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccccHHHHHHHHHH
Confidence 9999999999 79 9999999999999999999999999875 4899999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
.||+++.+++|++|+.+++| ++|+++|+.||+.++
T Consensus 201 ~LRsl~~~~~e~lf~~kl~~-~~~~~pLl~e~~~~~ 235 (238)
T cd07348 201 ELRTLCTQGLQRIFYLKLED-LVPPPPIVDKIFMDT 235 (238)
T ss_pred HHHHHHHHHHHHHHHHHhCC-CCCCCHHHHHHHhcc
Confidence 99999999999999999999 999999999999864
No 5
>cd06948 NR_LBD_COUP-TF Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family. The ligand binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs): COUP-TFs are orphan members of the steroid/thyroid hormone receptor superfamily. They are expressed in many tissues and are involved in the regulation of several important biological processes, such as neurogenesis, organogenesis, cell fate determination, and metabolic homeostasis. In mammals two isoforms named COUP-TFI and COUP-TFII have been identified. Both genes show an exceptional homology and overlapping expression patterns, suggesting that they may serve redundant functions. Although COUP-TF was originally characterized as a transcriptional activator of the chicken ovalbumin gene, COUP-TFs are generally considered to be repressors of transcription for other nuclear hormone receptors, such as retinoic acid receptor (RAR), thyroid hormone
Probab=100.00 E-value=5.6e-33 Score=240.73 Aligned_cols=166 Identities=33% Similarity=0.534 Sum_probs=152.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc--------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH--------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~--------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.++|++|.++++++.|+++.+.+.+.++.++|... ..+.+.++.+.+++.+|++|++|.
T Consensus 53 lp~F~~L~~~DQi~LLk~~w~el~lL~~a~~s~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~L~ld~ 132 (236)
T cd06948 53 IPFFPDLQVTDQVALLRLSWSELFVLNAAQCCMPLHVAPLLAAAGLHASPMSADRVVAFMDHIRIFQEQVEKLKALHVDS 132 (236)
T ss_pred CcCcccCCHHHHHHHHHHhhHHHHHHHHHHHcccccchhhhhccccccCccchhhHhHHHHHHHHHHHHHHHHHHcCCCH
Confidence 599999999999999999999999999999998887776766666543 233344556778999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcc
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILP 224 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp 224 (261)
+||+|||||+||||| ++|+++.++|+++|++|..+|++||..++|++|.||++||++||
T Consensus 133 ~E~~lLkaiiL~npd---------------------~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~Lp 191 (236)
T cd06948 133 AEFSCLKAIVLFTSD---------------------ACGLSDPAHIESLQEKSQCALEEYVRTQYPNQPTRFGKLLLRLP 191 (236)
T ss_pred HHHHHHHHHHHcCcc---------------------cccccCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHH
Confidence 999999999999999 89999999999999999999999999999999999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
.||+++.+.+|+++|.+++| ++|+++++.||+.++
T Consensus 192 ~Lr~is~~~~e~l~~~~l~g-~~~~~~ll~e~l~~~ 226 (236)
T cd06948 192 SLRTVSSSVIEQLFFVRLVG-KTPIETLIRDMLLSG 226 (236)
T ss_pred HHHhccHHHHHHhhcccccC-CCcHHHHHHHHHhCC
Confidence 99999999999999999999 999999999999875
No 6
>cd07069 NR_LBD_Lrh-1 The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,. The ligand binding domain (LBD) of the liver receptor homolog-1 (LRH-1): LRH-1 belongs to nuclear hormone receptor superfamily, and is expressed mainly in the liver, intestine, exocrine pancreas, and ovary. Most nuclear receptors function as homodimer or heterodimers. However, LRH-1 binds DNA as a monomer, and is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. Recently, phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, LRH-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=100.00 E-value=7.9e-33 Score=240.16 Aligned_cols=166 Identities=19% Similarity=0.310 Sum_probs=149.8
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCC-Cccccccccccc----------hhHHHHHHHHHHHHHHHHhcC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLD-LGELVESCKSRH----------VDIEEEVIRFQSVLNEFKVLN 141 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~-~~~ll~~~~~~~----------~~~~~~~~~l~~~~~~l~~L~ 141 (261)
.|+|..|+.+||+.+|+++|.|+++++.++++.... .+.++.++|... .++...++.+++++.+|++|+
T Consensus 63 iP~F~~L~~~DQi~LLk~~w~EllvL~~a~~s~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~lr~L~ 142 (241)
T cd07069 63 SIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQ 142 (241)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeeEecCCCccCchhhhhhhhhHHHHHHHHHHHHHHHHHHcC
Confidence 699999999999999999999999999999987543 344555554321 123445677889999999999
Q ss_pred CChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHh
Q psy16761 142 IDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQL 221 (261)
Q Consensus 142 l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~ 221 (261)
+|.+||+|||||+||||| ++|+++..+|+.+|++++.+|++|+..+||+++.||++||+
T Consensus 143 ld~~E~a~LKaivLfnpd---------------------~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf~kLLl 201 (241)
T cd07069 143 FDQREFVCLKFLVLFSLD---------------------VKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFGQLLL 201 (241)
T ss_pred CCHHHHHHHHHHHHcCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHH
Confidence 999999999999999999 99999999999999999999999999999999999999999
Q ss_pred hcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 222 ILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 222 ~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
+||+||+++...+|++||++++| .+|+++|+.||+.+.
T Consensus 202 ~Lp~LR~is~~~~e~l~~~~l~g-~~~~~~Ll~Eml~~~ 239 (241)
T cd07069 202 RLPEIRAISMQAEEYLYYKHLNG-DVPYNNLLIEMLHAK 239 (241)
T ss_pred HhHHHHHhhHHHHHHHHhccccC-CCcHHHHHHHHHhcc
Confidence 99999999999999999999999 999999999999874
No 7
>cd06944 NR_LBD_Ftz-F1_like The ligand binding domain of FTZ-F1 like nuclear receptors. The ligand binding domain of FTZ-F1 like nuclear receptors: This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which required at several stages of development. Particularly, FTZ-F1 genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. SF-1 is an essential regulator of endocrine development and function and is considered a master regulator of reproduction; SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). However, the ligand for FTZ-F1 has not
Probab=100.00 E-value=5.9e-33 Score=240.67 Aligned_cols=165 Identities=19% Similarity=0.312 Sum_probs=152.3
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCC-Cccccccccccc----------hhHHHHHHHHHHHHHHHHhcC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLD-LGELVESCKSRH----------VDIEEEVIRFQSVLNEFKVLN 141 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~-~~~ll~~~~~~~----------~~~~~~~~~l~~~~~~l~~L~ 141 (261)
.|+|..|+.+||+.++|++|.+++++..+++++..+ .+.++.++|..+ ..+.+.+..+.+++.+|++|+
T Consensus 61 lp~F~~L~~~DQi~LLk~~w~el~~L~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~L~ 140 (237)
T cd06944 61 SVFFKELKVDDQMKLLQNCWSELLVLDHIYRQVHHGKEDSILLVTGQEVDLSTLASQAGLGLSSLVDRAQELVNKLRELQ 140 (237)
T ss_pred CCChhcCCHHHHHHHHHHHhHHHHHHHHHHHhcccCCCCceeecCCCccchhhhhhhccccHHHHHHHHHHHHHHHHHcC
Confidence 699999999999999999999999999999998775 566777776532 123456778899999999999
Q ss_pred CChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHh
Q psy16761 142 IDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQL 221 (261)
Q Consensus 142 l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~ 221 (261)
+|.+||+|||||+||||| ++|+++...|+++|+++..||.+||..+||++|.||++||+
T Consensus 141 ld~~E~~lLkaIiL~npd---------------------~~gL~~~~~Ve~~q~~~~~aL~~y~~~~~~~~~~Rf~~LL~ 199 (237)
T cd06944 141 FDRQEFVCLKFLILFNPD---------------------VKGLENRQLVESVQEQVNAALLDYTLCNYPQQTDKFGQLLL 199 (237)
T ss_pred CCHHHHHHHHHHHHcCCC---------------------cCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHH
Confidence 999999999999999999 89999999999999999999999999999999999999999
Q ss_pred hcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 222 ILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 222 ~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
++|.||+++.+.++++||++++| .+|+++++.||+.+
T Consensus 200 ~Lp~Lr~is~~~~e~l~~~~l~g-~~~~~~Ll~eml~~ 236 (237)
T cd06944 200 RLPEIRAISMQAEEYLYYKHLNG-EVPCNNLLIEMLHA 236 (237)
T ss_pred HhHHHHHHHHHHHHHHHhcccCC-CCcHHHHHHHHHcC
Confidence 99999999999999999999999 99999999999976
No 8
>cd06951 NR_LBD_Dax1_like The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of DAX1-like proteins: This orphan nuclear receptor family includes DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) and the Small Heterodimer Partner (SHP). Both receptors have a typical ligand binding domain, but lack the DNA binding domain, typical to almost all of the nuclear receptors. They function as a transcriptional coregulator by directly interacting with other nuclear receptors. DAX1 and SHP can form heterodimers with each other, as well as with many other nuclear receptors. In addition, DAX1 can also form homodimers. DAX1 plays an important role in the normal development of several hormone-producing tissues. SHP has shown to regulate a variety of target genes.
Probab=100.00 E-value=4.1e-33 Score=239.26 Aligned_cols=160 Identities=29% Similarity=0.377 Sum_probs=141.6
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcc---------ccccccccc------------hhHHHHHHHHH
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGE---------LVESCKSRH------------VDIEEEVIRFQ 131 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~---------ll~~~~~~~------------~~~~~~~~~l~ 131 (261)
.|+|.+|+.+||+.+||.+|.|++++++||++.+++... ++...+... ......++.++
T Consensus 42 iP~F~~L~~~DQi~LLk~~w~El~iL~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 121 (222)
T cd06951 42 LPCFTYLPPDDQLRLLRRSWAPLLLLGLAQDKVPFDTVEVPAPSILCEILTGAEMHWGGTPPPTLTMPPCIPLADVQDIQ 121 (222)
T ss_pred CCCcccCChHHHHHHHHHHhHHHHHHHHHHHhccccccccccchHHHHHHhccccccccccccccccchhhHHHHHHHHH
Confidence 599999999999999999999999999999998875431 122222111 11223467899
Q ss_pred HHHHHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy16761 132 SVLNEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPS 211 (261)
Q Consensus 132 ~~~~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~ 211 (261)
+++.+|++|++|.+||+|||||+||||| ++|+ +..+|+++|++++.+|++|+..+||+
T Consensus 122 e~~~~l~~L~ld~~Eya~LkAivLfnpD---------------------~~gl-~~~~Ve~lQe~~~~aL~~yi~~~~p~ 179 (222)
T cd06951 122 QFLMKCWSLDLDCKEYAYLKGAVLFTPV---------------------PPLL-CPHYIEALQKEAQQALNEHTMMTRPL 179 (222)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhCCC---------------------CCcc-CHHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 9999999999999999999999999999 9999 99999999999999999999999999
Q ss_pred CccHHHHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHH
Q psy16761 212 QPTRFCKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWH 255 (261)
Q Consensus 212 ~~~Rf~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~e 255 (261)
++.||+|||++||.||+++.+.+|++||++++| ++||++++.|
T Consensus 180 ~~~Rf~kLLl~Lp~LRsl~~~~~e~lff~~~~g-~~~i~~ll~~ 222 (222)
T cd06951 180 EQLRSARLLLMLSLLRGIKTEPVTELFFRPIIG-NVSMDDVLLQ 222 (222)
T ss_pred cccHHHHHHHHhHHhhcCCHHHHHHHhCccccC-CCcHHHHhcC
Confidence 999999999999999999999999999999999 9999999864
No 9
>cd06949 NR_LBD_ER Ligand binding domain of Estrogen receptor, which are activated by the hormone 17beta-estradiol (estrogen). The ligand binding domain (LBD) of Estrogen receptor (ER): Estrogen receptor, a member of nuclear receptor superfamily, is activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well conserved DNA binding domain (DBD), a variable N-terminal doma
Probab=100.00 E-value=1.1e-32 Score=238.47 Aligned_cols=165 Identities=17% Similarity=0.172 Sum_probs=149.5
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc--------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH--------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~--------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.++|++|.|+++++.|+++.+.+.. +++..+... .++.+.+..+.+++.+|++|++|.
T Consensus 55 iP~F~~L~~~DQi~LLk~~w~el~~L~~a~rs~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~ 133 (235)
T cd06949 55 IPGFVDLSLHDQVHLLESAWLELLMLGLVWRSMEHPGK-LLFAPDLLLDRNQGSCVEGMVEIFDMLLATASRFRELQLQR 133 (235)
T ss_pred CCCcccCCHHHHHHHHHHhHHHHHHHHHHHHhcCCCCe-EEeeCCceecHHHhhhcccHHHHHHHHHHHHHHHHHhCCCH
Confidence 59999999999999999999999999999999876543 444443321 235556778889999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcC-----cCcHHHHHHHHHHHHHHHHHHHHhcC---CCCccHH
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESC-----LRDVIAIAAIQGHTQIFLNKYIHTVY---PSQPTRF 216 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~-----l~~~~~i~~lq~~~~~~L~~~~~~~~---~~~~~Rf 216 (261)
+||+|||||+||||| ++| +++..+|+++|++++.+|++||..+| |++|.||
T Consensus 134 ~EyalLKAIvLfnpd---------------------~~g~~~~~l~~~~~Ve~lq~~~~~aL~~y~~~~~~~~p~~~~Rf 192 (235)
T cd06949 134 EEYVCLKAIILLNSS---------------------VYTFLLESLESRRQVQRLLDKITDALVHACSKRGLSLQQQSRRL 192 (235)
T ss_pred HHHHHHHHHHHcCCC---------------------cCCcccccccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCcccHH
Confidence 999999999999999 888 88999999999999999999999998 8999999
Q ss_pred HHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 217 CKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 217 ~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
++||++||.||+++++++|++++++++| ++|+++|+.||+.+.
T Consensus 193 ~~LLl~Lp~LR~l~~~~~e~l~~~k~~~-~~~~~~Ll~Eml~~~ 235 (235)
T cd06949 193 AQLLLILSHIRHVSNKGMEHLYSMKCKN-VVPLYDLLLEMLDAH 235 (235)
T ss_pred HHHHHhchHHHHhhHHHHHHHHHHHhCC-CCChHHHHHHHhcCC
Confidence 9999999999999999999999999999 999999999999763
No 10
>cd07350 NR_LBD_Dax1 The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the DAX1 protein: DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) is a nuclear receptor with a typical ligand binding domain, but lacks the DNA binding domain. DAX1 plays an important role in the normal development of several hormone-producing tissues. Duplications of the region of the X chromosome containing DAX1 cause dosage sensitive sex reversal. DAX1 acts as a global repressor of many nuclear receptors, including SF-1, LRH-1, ERR, ER, AR and PR. DAX1 can form homodimer and heterodimerizes with its alternatively spliced isoform DAX1A and other nuclear receptors such as SHP, ERalpha and SF-1.
Probab=100.00 E-value=9.4e-33 Score=238.14 Aligned_cols=161 Identities=25% Similarity=0.392 Sum_probs=142.2
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccc---------cccccc---------------------cchh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGEL---------VESCKS---------------------RHVD 122 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~l---------l~~~~~---------------------~~~~ 122 (261)
.|+|.+|+.+||+.+||.+|.|++++++||++.+.+.... +..... ....
T Consensus 42 iP~F~~L~~~DQi~LLk~~W~El~iL~~a~~s~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 121 (232)
T cd07350 42 VPCFQELPLDDQLVLVRSCWAPLLVLGLAQDGVDFETVETSEPSMLQRILTTRPPPTSGAEPGEPQALPQMPQAEASHLP 121 (232)
T ss_pred CcCcccCChHHHHHHHHHhhHHHHHHHHHHHcCCCccccccchhHHHHHHhcccccccccccccccccccccchhhcccc
Confidence 5999999999999999999999999999999987765321 111100 0011
Q ss_pred HHHHHHHHHHHHHHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHH
Q psy16761 123 IEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLN 202 (261)
Q Consensus 123 ~~~~~~~l~~~~~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~ 202 (261)
....++.+++++.+|++|++|.+||+|||||+||||| ++|+++..+|+++|++++.+|+
T Consensus 122 ~~~~i~~l~e~~~~l~~L~ld~~E~a~LkAivLf~pD---------------------~~~L~~~~~Ve~lQe~~~~aL~ 180 (232)
T cd07350 122 SAADIRAIKAFLAKCWSLDISTKEYAYLKGTVLFNPD---------------------LPGLQCVQYIQGLQWEAQQALN 180 (232)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC---------------------cccCCCHHHHHHHHHHHHHHHH
Confidence 2234678999999999999999999999999999999 9999999999999999999999
Q ss_pred HHHHhcCCCCccHHHHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHH
Q psy16761 203 KYIHTVYPSQPTRFCKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWH 255 (261)
Q Consensus 203 ~~~~~~~~~~~~Rf~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~e 255 (261)
+|+..+||+++.||+|||++||.||+++.+.+|++||++++| ++||++++.|
T Consensus 181 ~yi~~~~p~~~~rf~kLLl~Lp~LRsi~~~~iE~lff~~l~g-~v~i~~ll~E 232 (232)
T cd07350 181 EHVRMIHRGDQARFAKLNIALSLLRAINANVIAELFFRPIIG-TVNMDDMLLE 232 (232)
T ss_pred HHHHhhCCChhhHHHHHHHHhHHHHccCHHHHHHHhccccCC-CCcHHHHhcC
Confidence 999999999999999999999999999999999999999999 9999999864
No 11
>cd06945 NR_LBD_Nurr1_like The ligand binding domain of Nurr1 and related nuclear receptor proteins, members of nuclear receptor superfamily. The ligand binding domain of nuclear receptor Nurr1_like: This family of nuclear receptors, including Nurr1, Nerve growth factor-induced-B (NGFI-B) and DHR38 are involved in the embryo development. Nurr1 is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. NGFI-B is an early immediate gene product of embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as
Probab=100.00 E-value=1.8e-32 Score=237.69 Aligned_cols=165 Identities=21% Similarity=0.245 Sum_probs=152.3
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHHhcCCChhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFKVLNIDPYE 146 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~~L~l~~~E 146 (261)
.|+|..|+.+||+.+|+++|.|++++++|+++.+.+.. +++++|... .++.+.++.+.+++.++++|++|++|
T Consensus 64 IPgF~~L~~~DQi~LLk~~w~El~~L~~a~r~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~i~~f~~~l~~L~ld~~E 142 (239)
T cd06945 64 IPGFKDLHREDQDLLLESAFLELFVLRLAYRSNPVDGK-LVFCNGLVLHRLQCVRGFGEWLDSILAFSSSLQSLLLDDIS 142 (239)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCc-eEeeCCceecHHHHHHhHHHHHHHHHHHHHHHHHHhCChHH
Confidence 69999999999999999999999999999999876444 666555432 34566778899999999999999999
Q ss_pred hhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCC--CCccHHHHHHhhcc
Q psy16761 147 YDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYP--SQPTRFCKIQLILP 224 (261)
Q Consensus 147 ~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~--~~~~Rf~~LL~~Lp 224 (261)
|+||||++||+|| ++|+++.++|+++|++++.+|++|+..+|| +++.||+|||++||
T Consensus 143 ~~~LkaivL~~pD---------------------~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~~~rf~kLLl~Lp 201 (239)
T cd06945 143 AFCCLALLLLITE---------------------RHGLKEPKKVEELQNKIISCLRDHVTSNYPGQDKPNRLSKLLLKLP 201 (239)
T ss_pred HHHHHHHHHhCCC---------------------ccccCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhH
Confidence 9999999999999 999999999999999999999999999999 89999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
+||+++.+++|++||.+++| ++||++++.||+.++
T Consensus 202 ~LR~ls~~~~e~l~~~k~~~-~~~~~~Ll~e~~~~~ 236 (239)
T cd06945 202 ELRTLSKKGLQRIFFLKLED-LLPPPPLIDKRFLDT 236 (239)
T ss_pred HHHHHHHHHHHHHHHHHccC-CCCCChHHHHHHHhc
Confidence 99999999999999999999 999999999999764
No 12
>cd07071 NR_LBD_Nurr1 The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of nuclear receptor Nurr1: Nurr1 belongs to the conserved family of nuclear receptors. It is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Nurr1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=100.00 E-value=2.2e-32 Score=236.74 Aligned_cols=164 Identities=18% Similarity=0.224 Sum_probs=149.1
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHHhcCCChhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFKVLNIDPYE 146 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~~L~l~~~E 146 (261)
.|+|..|+.+||+.+||.+|.|++++++|+++.+.+. .+++++|... .++.+.+..+.+++.+|++|++|.+|
T Consensus 64 iPgF~~L~~~DQi~LLk~~~~Ell~L~~a~~~~~~~~-~l~~~~g~~~~~~~~~~~~~~~~~~i~ef~~~l~~L~ld~~E 142 (238)
T cd07071 64 IPGFTDLPKADQDLLFESAFLELFVLRLAYRSNPVEG-KLIFCNGVVLHRLQCVRGFGEWIDSIVEFSSNLQNMNIDISA 142 (238)
T ss_pred CCCccCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCC-ceEeeCCceechhhhhhcHHHHHHHHHHHHHHHHhcCCCHHH
Confidence 6999999999999999999999999999999987654 4666555432 35666778889999999999999999
Q ss_pred hhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhc--CCCCccHHHHHHhhcc
Q psy16761 147 YDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTV--YPSQPTRFCKIQLILP 224 (261)
Q Consensus 147 ~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~--~~~~~~Rf~~LL~~Lp 224 (261)
|+|||||+|| +| ++|++++++|+++|++++.+|++|+..+ +|++|.||+|||++||
T Consensus 143 ~alLkAIvLf-~D---------------------~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~~~rf~kLLl~Lp 200 (238)
T cd07071 143 FSCIAALAMV-TE---------------------RHGLKEPKRVEELQNKIVNCLKDHVTFNNGGLNRPNYLSKLLGKLP 200 (238)
T ss_pred HHHHHHHHHc-CC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCcccHHHHHHHHhH
Confidence 9999999999 58 8999999999999999999999999876 4689999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
.||+++.+++|++|+.+++| .+|+++|+.||+.+.
T Consensus 201 ~LRsl~~~~~e~l~~~k~~~-~~p~~~Ll~e~~~~~ 235 (238)
T cd07071 201 ELRTLCTQGLQRIFYLKLED-LVPPPAIIDKLFLDT 235 (238)
T ss_pred HHHHHHHHHHHHHHHHHcCC-CCCCcHHHHHHHHhh
Confidence 99999999999999999999 999999999999764
No 13
>cd07072 NR_LBD_DHR38_like Ligand binding domain of DHR38_like proteins, members of the nuclear receptor superfamily. The ligand binding domain of nuclear receptor DHR38_like proteins: DHR38 is a member of the steroid receptor superfamily in Drosophila. DHR38 interacts with the USP component of the ecdysone receptor complex, suggesting that DHR38 might modulate ecdysone-triggered signals in the fly, in addition to the ECR/USP pathway. At least four differentially expressed mRNA isoforms have been detected during development. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR38 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.98 E-value=6.1e-32 Score=233.95 Aligned_cols=164 Identities=18% Similarity=0.200 Sum_probs=148.7
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHHhcCCChhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFKVLNIDPYE 146 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~~L~l~~~E 146 (261)
.|+|..|+.+||+.+||.+|.|++++++|+++.+.+. .+++++|... .++.+.++.+++++.++++|++|.+|
T Consensus 65 IPgF~~L~~~DQi~LLk~~w~Ell~L~~a~r~~~~~~-~l~~~~g~~~~~~~~~~~~~~~~~~i~ef~~~l~~L~ld~~E 143 (239)
T cd07072 65 IPGFPDLCKEDQELLFQSASLELFVLRLAYRTAPEDT-KLTFCNGVVLHKQQCQRSFGDWLHAILEFSKSLHAMDIDISA 143 (239)
T ss_pred CCCccCCCHHHHHHHHHHhHHHHHHHHHHHHccCCCC-eEEeeCCeeecHHHHHhhHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 6999999999999999999999999999999987654 3556555432 35666788899999999999999999
Q ss_pred hhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcC--CCCccHHHHHHhhcc
Q psy16761 147 YDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVY--PSQPTRFCKIQLILP 224 (261)
Q Consensus 147 ~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~--~~~~~Rf~~LL~~Lp 224 (261)
|+|||||+||+ | ++|++++++|+++|++++.+|++|+..++ |++|.||+|||++||
T Consensus 144 ~a~LkAivLf~-d---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~rf~kLLl~Lp 201 (239)
T cd07072 144 FACLCALTLIT-E---------------------RHGLKEPHKVEQLQMKIISSLRDHVTYNAEAQKKPHYFSRLLGKLP 201 (239)
T ss_pred HHHHHHHHHhC-C---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhH
Confidence 99999999995 8 89999999999999999999999998755 478999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
.||+++.+++|++||.+++| .+|+++|+.||+.+.
T Consensus 202 ~LRsl~~~~~e~lf~~k~~~-~~p~~~Ll~Em~~~~ 236 (239)
T cd07072 202 ELRSLSVQGLQRIFYLKLED-LVPAPPLIENMFVAS 236 (239)
T ss_pred HHHhhHHHHHHHHHHHHcCC-CCCCcHHHHHHHhcc
Confidence 99999999999999999999 999999999999864
No 14
>cd07076 NR_LBD_GR Ligand binding domain of the glucocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the glucocorticoid receptor (GR): GR is a ligand-activated transcription factor belonging to the nuclear receptor superfamily. It binds with high affinity to cortisol and other glucocorticoids. GR is expressed in almost every cell in the body and regulates genes controlling a wide variety of processes including the development, metabolism, and immune response of the organism. In the absence of hormone, the glucocorticoid receptor (GR) is complexes with a variety of heat shock proteins in the cytosol. The binding of the glucocorticoids results in release of the heat shock proteins and transforms it to its active state. One mechanism of action of GR is by direct activation of gene transcription. The activated form of GR forms dimers, translocates into the nucleus, and binds to specific hormone responsive elements, activating gene transcription
Probab=99.98 E-value=4.8e-32 Score=234.93 Aligned_cols=162 Identities=17% Similarity=0.131 Sum_probs=145.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcc-ccccccccc-------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGE-LVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~-ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|.+|+.+||+.+||.+|.|+++++++||+++.+.+. ++++++... ..+.+....+.+++.+|++|++|.
T Consensus 51 IPgF~~L~l~DQi~LLk~sW~Ellvl~~a~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~~~~~l~e~~~~~r~L~ld~ 130 (247)
T cd07076 51 IPGFRNLHLDDQMTLLQYSWMFLMAFALGWRSYRQSNGNLLCFAPDLIINEQRMTLPCMYDQCKHMLYVSSELHRLQVSY 130 (247)
T ss_pred CCCcccCCHHHHHHHHHHhHHHHHHHHHHHhccCCCCCceEEecCCeeecHHHHhhhhHHHHHHHHHHHHHHHHHcCCCH
Confidence 599999999999999999999999999999999875553 556555432 344555667889999999999999
Q ss_pred hhhhhhhHhhhccc-CcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCcc---HHHHHH
Q psy16761 145 YEYDYIRAITLFKT-VIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPT---RFCKIQ 220 (261)
Q Consensus 145 ~E~~lLkai~l~~p-d~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~---Rf~~LL 220 (261)
+||+|||||+|||| | ++|++++.+|+++|++++.+|.+|+..++|+.+. ||++||
T Consensus 131 ~EfacLKAIvLfnp~d---------------------~~GL~~~~~Ve~lqe~~~~aL~~yi~~~~p~~~~~~~RF~kLL 189 (247)
T cd07076 131 EEYLCMKTLLLLSTVP---------------------KDGLKSQELFDEIRMTYIKELGKAIVKREGNSSQNWQRFYQLT 189 (247)
T ss_pred HHHHHHHHHHhCCCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchhhhHHHHHH
Confidence 99999999999999 8 8999999999999999999999999999887555 999999
Q ss_pred hhcccccCCCcccchhhhcccccCCCCcHHHHHHHHHh
Q psy16761 221 LILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYK 258 (261)
Q Consensus 221 ~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~ 258 (261)
++||.||+++.+.+| ||.+++| +.|+...++||+.
T Consensus 190 llLp~Lr~i~~~~~e--f~~~~~~-~~~~~~~~~~ml~ 224 (247)
T cd07076 190 KLLDSMHEVVENLLN--FCFQTFL-DKTMSIEFPEMLA 224 (247)
T ss_pred HHHHHHHHHHHHHHH--HHHHHhc-ccchhhhhHHHHH
Confidence 999999999999999 9999999 9999999999884
No 15
>cd06935 NR_LBD_TR The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors. The ligand binding domain (LBD) of thyroid hormone receptors: Thyroid hormone receptors are members of a superfamily of nuclear receptors. Thyroid hormone receptors (TR) mediate the actions of thyroid hormones, which play critical roles in growth, development, and homeostasis in mammals. They regulate overall metabolic rate, cholesterol and triglyceride levels, and heart rate, and affect mood. TRs are expressed from two separate genes (alpha and beta) in human and each gene generates two isoforms of the receptor through differential promoter usage or splicing. TRalpha functions in the heart to regulate heart rate and rhythm and TRbeta is active in the liver and other tissues. The unliganded TRs function as transcription repressors, by binding to thyroid hormone response elements (TRE) predominantly as homodimers, or as heterodimers with retinoid X-receptors (RXR), a
Probab=99.97 E-value=1.6e-31 Score=232.42 Aligned_cols=161 Identities=16% Similarity=0.097 Sum_probs=147.7
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.+||.+|.|++++++|+++.+. .+.+.+++|... .++...+..+.+++.+|++|++|++
T Consensus 75 iPgF~~L~~~DQi~LLk~~~~ElliL~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~f~~~l~~L~ld~~ 153 (243)
T cd06935 75 LPMFTELPCEDQIILLKGCCMEIMSLRAAVRYDPE-SETLTLSGEMAVTREQLKNGGLGVVSDAIFDLGVSLSSFNLDDT 153 (243)
T ss_pred CCccccCChHHHHHHHHHhHHHHHHHHHHHHhCcC-CCeEEeeCCeEeeHHHHHhcChHHHHHHHHHHHHHHHhcCCCHH
Confidence 69999999999999999999999999999997654 344666666532 4566678889999999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhccc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPR 225 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~ 225 (261)
||+|||||+||||| ++|+++..+|+++|+.++.+|++|+..++|+.+.||+|||++||.
T Consensus 154 E~alLkAivLf~pD---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~rf~kLL~~L~~ 212 (243)
T cd06935 154 EVALLQAVLLMSSD---------------------RPGLACVERIEKLQDSFLLAFEHYINYRKHHVPHFWPKLLMKVTD 212 (243)
T ss_pred HHHHHHHHHHhCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Confidence 99999999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCCCcccchhhhcccccCCCCcH-HHHHHHH
Q psy16761 226 LKSIPSLVLEELFFRNIIGHNTTI-KKTIWHM 256 (261)
Q Consensus 226 Lr~~~~~~~e~l~f~~~~g~~~~i-~~ll~em 256 (261)
||+++.+++|++++.++.| +.|+ ++|+.||
T Consensus 213 LR~i~~~~~e~l~~~k~~~-~~~~~~~L~~Em 243 (243)
T cd06935 213 LRMIGACHASRFLHMKVEC-PTELFPPLFLEV 243 (243)
T ss_pred HHHHHHHHHHHHHHHHhcC-CCCCCChhhhcC
Confidence 9999999999999999999 8886 9999886
No 16
>cd06946 NR_LBD_ERR The ligand binding domain of estrogen receptor-related nuclear receptors. The ligand binding domain of estrogen receptor-related receptors (ERRs): The family of estrogen receptor-related receptors (ERRs), a subfamily of nuclear receptors, is closely related to the estrogen receptor (ER) family, but it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signaling pathway, positively or negatively. ERRs share target genes, co-regulators and promoters with the estrogen receptor (ER) family. There are three subtypes of ERRs: alpha, beta and gamma. ERRs bind at least two types of DNA sequence, the estrogen response element and another site, originally characterized as SF-1 (steroidogenic factor 1) response element. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ERR has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-
Probab=99.97 E-value=1.1e-30 Score=224.35 Aligned_cols=164 Identities=20% Similarity=0.228 Sum_probs=148.8
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.++|++|.++++++.|+++.+.+. .+.++.+... .+.....+.+.+++.++++|++|.+
T Consensus 50 lp~F~~L~~~DQi~LLk~~~~el~lL~~a~~s~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~ 128 (221)
T cd06946 50 IPGFSSLSLNDQMSLLQSAWMEILTLGVVFRSLPFNG-ELVFAEDFILDEELAREAGLLELYSACLQLVRRLQRLRLEKE 128 (221)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHHccCCCC-ceeecCCeEEcHHHHhhcCHHHHHHHHHHHHHHHHHcCCCHH
Confidence 5999999999999999999999999999999988764 3444443322 3344556778899999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCC-CCccHHHHHHhhcc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYP-SQPTRFCKIQLILP 224 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~-~~~~Rf~~LL~~Lp 224 (261)
||+|||||+||||| ++|+++.++|+++|+++.++|.+||..+|| ++|.||++||+++|
T Consensus 129 E~~lLkai~L~npd---------------------~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~p~Rf~~LL~~l~ 187 (221)
T cd06946 129 EYVLLKALALANSD---------------------SVHIEDVEAVRQLRDALLEALSDYEAGRHPGEAPRRAGQLLLTLP 187 (221)
T ss_pred HHHHHHHHHHcCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHhhch
Confidence 99999999999999 899999999999999999999999998999 89999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
.+|+++.++++++++.+++| .+|+++++.||+.+
T Consensus 188 ~Lr~~~~~~~e~l~~~~~~~-~~~~~~Ll~eml~~ 221 (221)
T cd06946 188 LLRQTDGKARRFFYGVKREG-KVPMHKLFLEMLEA 221 (221)
T ss_pred hHHHHHHHHHHHHHHHHhcC-CCCHHHHHHHHhcC
Confidence 99999999999999999999 99999999999964
No 17
>cd06950 NR_LBD_Tlx_PNR_like The ligand binding domain of Tailless-like proteins, orphan nuclear receptors. The ligand binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like family: This family includes photoreceptor cell-specific nuclear receptor (PNR), Tailless (TLX), and related receptors. TLX is an orphan receptor that is expressed by neural stem/progenitor cells in the adult brain of the subventricular zone (SVZ) and the dentate gyrus (DG). It plays a key role in neural development by promoting cell cycle progression and preventing apoptosis in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX and PNR have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge
Probab=99.97 E-value=1.2e-30 Score=221.66 Aligned_cols=151 Identities=40% Similarity=0.604 Sum_probs=138.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHHhcCCChhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFKVLNIDPYE 146 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~~L~l~~~E 146 (261)
.|+|..|+.+||+.++|++|.|++++++|+++.+.+...++.+.+... ..+.+.++.+.+++.+|++|++|.+|
T Consensus 49 ip~F~~L~~~DQi~LLk~~w~el~iL~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~L~ld~~E 128 (206)
T cd06950 49 IPAFSTLPFRDQLILLEESWSELFLLGAAQWSLPLDSCPLLAVPGLSPDNTEAERTFLSEVRALQETLSRFRQLRVDATE 128 (206)
T ss_pred CCccccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCcceeecCCcccccccchhhHHHHHHHHHHHHHHHHHHhCCCHHH
Confidence 599999999999999999999999999999998877666665544432 23445567789999999999999999
Q ss_pred hhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcccc
Q psy16761 147 YDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPRL 226 (261)
Q Consensus 147 ~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~L 226 (261)
|+|||||+||||| ++|+++.++|+++|++++.+|++|+..+||+++.||++||++||.|
T Consensus 129 yalLKai~L~npd---------------------~~~L~~~~~Ve~lq~~~~~aL~~y~~~~~~~~~~Rf~kLLl~Lp~l 187 (206)
T cd06950 129 FACLKAIVLFKPE---------------------TRGLKDPAQVEALQDQAQLMLNKHIRTRYPTQPARFGKLLLLLPSL 187 (206)
T ss_pred HHHHHHHHHhCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHH
Confidence 9999999999999 9999999999999999999999999999999999999999999999
Q ss_pred cCCCcccchhhhcccccC
Q psy16761 227 KSIPSLVLEELFFRNIIG 244 (261)
Q Consensus 227 r~~~~~~~e~l~f~~~~g 244 (261)
|+++.+.+|++||++++|
T Consensus 188 r~ls~~~~e~l~~~~~~g 205 (206)
T cd06950 188 RFISSSTIEELFFKKTIG 205 (206)
T ss_pred HhhhHHHHHHHhccCcCC
Confidence 999999999999999999
No 18
>cd07073 NR_LBD_AR Ligand binding domain of the nuclear receptor androgen receptor, ligand activated transcription regulator. The ligand binding domain of the androgen receptor (AR): AR is a member of the nuclear receptor family. It is activated by binding either of the androgenic hormones, testosterone or dihydrotestosterone, which are responsible for male primary sexual characteristics and for secondary male characteristics, respectively. The primary mechanism of action of ARs is by direct regulation of gene transcription. The binding of an androgen results in a conformational change in the androgen receptor which causes its transport from the cytosol into the cell nucleus, and dimerization. The receptor dimer binds to a hormone response element of AR-regulated genes and modulates their expression. Another mode of action is independent of their interactions with DNA. The receptors interact directly with signal transduction proteins in the cytoplasm, causing rapid changes in cell funct
Probab=99.97 E-value=1.3e-30 Score=226.61 Aligned_cols=163 Identities=15% Similarity=0.187 Sum_probs=141.9
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCC-CCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSL-DLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~-~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|.+|+.+||+.+||.+|.|++++++||++.+. +.+.+.++.+... .++.+.+..+.+++.+|++|++|.
T Consensus 51 iP~F~~L~~~DQi~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~L~ld~ 130 (246)
T cd07073 51 LPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYRMHKSRMYSQCVRMRHLSQEFGWLQITP 130 (246)
T ss_pred CCCccCCCHHHHHHHHHHHHHHHHHHHHHHhccccCCCCeEEecCCeeechhhhccccHHHHHHHHHHHHHHHHHcCCCH
Confidence 59999999999999999999999999999999876 4444666555322 244555666789999999999999
Q ss_pred hhhhhhhHhhhccc-CcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcC---CCCccHHHHHH
Q psy16761 145 YEYDYIRAITLFKT-VIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVY---PSQPTRFCKIQ 220 (261)
Q Consensus 145 ~E~~lLkai~l~~p-d~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~---~~~~~Rf~~LL 220 (261)
+||+|||||+|||| | ++|++++.+|+++|++++.+|.+|+..++ |++|.||+|||
T Consensus 131 ~EyacLKAIiLfnp~d---------------------~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~~Rf~kLL 189 (246)
T cd07073 131 QEFLCMKALLLFSIIP---------------------VDGLKNQKFFDELRMNYIKELDRIIACKRKNPTSCSRRFYQLT 189 (246)
T ss_pred HHHHHHHHHHHcCCCC---------------------cccccCHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHH
Confidence 99999999999999 8 89999999999999999999999998774 35699999999
Q ss_pred hhcccccCCCcccchhhhcccccCCCC-----cHHHHHHHHHhc
Q psy16761 221 LILPRLKSIPSLVLEELFFRNIIGHNT-----TIKKTIWHMYKN 259 (261)
Q Consensus 221 ~~Lp~Lr~~~~~~~e~l~f~~~~g~~~-----~i~~ll~eml~~ 259 (261)
++||+||+++.+. .+||.+++| +. ++++++.||+..
T Consensus 190 l~Lp~LRsi~~~~--~~~~~~l~~-~~~~~~~~~~pll~ei~~~ 230 (246)
T cd07073 190 KLLDSVQPIAREL--HQFTFDLLI-KSHMVSVDFPEMMAEIISV 230 (246)
T ss_pred HHHHHHHHHHHHH--HHHHHHHhC-ccccCccCccHHHHHHHHh
Confidence 9999999999987 778888877 54 799999999874
No 19
>cd07068 NR_LBD_ER_like The ligand binding domain of estrogen receptor and estrogen receptor-related receptors. The ligand binding domain of estrogen receptor (ER) and estrogen receptor-related receptors (ERRs): Estrogen receptors are a group of receptors which are activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. ERRs are closely related to the estrogen receptor (ER) family. But, it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signalin
Probab=99.97 E-value=1.8e-30 Score=222.96 Aligned_cols=164 Identities=20% Similarity=0.222 Sum_probs=149.2
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.++|++|.+++++..|+++...+. .+.++++... .++.+..+.+.+++.++++|++|.+
T Consensus 50 lp~F~~L~~~DQi~LLk~~~~~~~~l~~a~~s~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~ 128 (221)
T cd07068 50 IPGFSDLSLNDQMHLLQSAWLEILMLGLVWRSLPHPG-KLVFAPDLLLDREQARVEGLLEIFDMLLQLVRRFRELGLQRE 128 (221)
T ss_pred CCCcccCCHHHHHHHHHHhhHHHHHHHHHHhhcCCCC-eEEeCCCceECHHHHhhccHHHHHHHHHHHHHHHHHcCCCHH
Confidence 5999999999999999999999999999999987655 3555444322 3444556778899999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCC-CCccHHHHHHhhcc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYP-SQPTRFCKIQLILP 224 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~-~~~~Rf~~LL~~Lp 224 (261)
||+|||||++|||| ++|+++...|++.|++|.++|.+||..+|| ++|.||++||+++|
T Consensus 129 E~~lLkaIil~npd---------------------~~~L~~~~~V~~~q~~~~~aL~~y~~~~~~~~~~~Rf~~LL~~l~ 187 (221)
T cd07068 129 EYVCLKAIILANSD---------------------VRHLEDREAVQQLRDAILDALVDVEAKRHGSQQPRRLAQLLLLLP 187 (221)
T ss_pred HHHHHHHHHHcCCC---------------------ccCccCHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHHHHHhcc
Confidence 99999999999999 899999999999999999999999999999 99999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
.+|+++.+.++++++.+++| .+|+++++.||+.+
T Consensus 188 ~Lr~~~~~~~e~l~~~k~~~-~~~~~~Ll~e~l~~ 221 (221)
T cd07068 188 HLRQASNKGVRHLYSVKCEG-KVPMYKLFLEMLEA 221 (221)
T ss_pred HHHHHHHHHHHHHHHHHHcC-CccHHHHHHHHhcC
Confidence 99999999999999999999 99999999999975
No 20
>cd06947 NR_LBD_GR_Like Ligand binding domain of nuclear hormone receptors:glucocorticoid receptor, mineralocorticoid receptor , progesterone receptor, and androgen receptor. The ligand binding domain of GR_like nuclear receptors: This family of NRs includes four distinct, but closely related nuclear hormone receptors: glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), and androgen receptor (AR). These four receptors play key roles in some of the most fundamental physiological functions such as the stress response, metabolism, electrolyte homeostasis, immune function, growth, development, and reproduction. The NRs in this family use multiple signaling pathways and share similar functional mechanisms. The dominant signaling pathway is via direct DNA binding and transcriptional regulation of target genes. Another mechanism is via protein-protein interactions, mainly with other transcription factors such as nuclear factor-kappaB and activator prote
Probab=99.97 E-value=1.2e-29 Score=220.58 Aligned_cols=167 Identities=15% Similarity=0.161 Sum_probs=143.5
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcc-ccccccccc-------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGE-LVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~-ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.+||.+|.|++++++||++++.+.+. +++++|... .++.+.+..+.+++.+|++|++|.
T Consensus 51 iPgF~~L~~~DQi~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~L~ld~ 130 (246)
T cd06947 51 LPGFRNLHLDDQMTLIQYSWMSLMVFALGWRSYKHVNSQMLYFAPDLVFNEQRMHQSAMYSLCLGMRQISQEFVRLQVTY 130 (246)
T ss_pred CCCcccCCHHHHHHHHHHhHHHHHHHHHHHhhccCCCCCeEEecCCeeecHHHhhhccHHHHHHHHHHHHHHHHhcCCCH
Confidence 599999999999999999999999999999998765443 444444322 244555667789999999999999
Q ss_pred hhhhhhhHhhhccc-CcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCC---CCccHHHHHH
Q psy16761 145 YEYDYIRAITLFKT-VIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYP---SQPTRFCKIQ 220 (261)
Q Consensus 145 ~E~~lLkai~l~~p-d~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~---~~~~Rf~~LL 220 (261)
+||+|||||+|||| | ++|++++.+|+++|++++.+|++|+.+++| +.+.||++||
T Consensus 131 ~E~acLKAIvLfn~~d---------------------~~gL~~~~~Ve~lqe~i~~AL~~yi~~~~~~~~~~~~Rf~kLL 189 (246)
T cd06947 131 EEFLCMKVLLLLSTIP---------------------KDGLKSQAAFDEMRMNYIKELRKAIVKREKNSSQSWQRFYQLT 189 (246)
T ss_pred HHHHHHHHHHHcCCCc---------------------cccccCHHHHHHHHHHHHHHHHHHHHHhCCCCcccchHHHHHH
Confidence 99999999999999 7 899999999999999999999999998764 5689999999
Q ss_pred hhcccccCCCcccchhhhcccccCC--CCcHHHHHHHHHhcC
Q psy16761 221 LILPRLKSIPSLVLEELFFRNIIGH--NTTIKKTIWHMYKNA 260 (261)
Q Consensus 221 ~~Lp~Lr~~~~~~~e~l~f~~~~g~--~~~i~~ll~eml~~~ 260 (261)
++||.||+++.+.+++++......+ ++++++++.||+.+.
T Consensus 190 llLp~Lr~i~~~~~e~~~~~~~~~~~~~v~~~~ll~ei~~~~ 231 (246)
T cd06947 190 KLLDSMHDLVKNLLQFCFYTFIQSHALSVEFPEMLVEIISDQ 231 (246)
T ss_pred HhhhhHHHHHHHHHHHHHHHHhhcCCCccccHHHHHHHHHcc
Confidence 9999999999999999887733331 589999999999753
No 21
>cd06941 NR_LBD_DmE78_like The ligand binding domain of Drosophila ecdysone-induced protein 78, a member of the nuclear receptor superfamily. The ligand binding domain (LBD) of Drosophila ecdysone-induced protein 78 (E78) like: Drosophila ecdysone-induced protein 78 (E78) is a transcription factor belonging to the nuclear receptor superfamily. E78 is a product of the ecdysone-inducible gene found in an early late puff locus at position 78C during the onset of Drosophila metamorphosis. Two isoforms of E78, E78A and E78B, are expressed from two nested transcription units. An E78 orthologue from the Platyhelminth Schistosoma mansoni (SmE78) has also been identified. It is the first E78 orthologue known outside of the molting animals--the Ecdysozoa. SmE78 may be involved in transduction of an ecdysone signal in S. mansoni, consistent with its function in Drosophila. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, E78-like receptors ha
Probab=99.97 E-value=4.4e-30 Score=216.52 Aligned_cols=163 Identities=15% Similarity=0.180 Sum_probs=145.2
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.++|.+|.|++++++++++.. +.+.+.+++|... ....+.++.+.+++.++++|++|++
T Consensus 25 iP~F~~L~~~DQi~LLk~~~~el~ll~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~ 103 (195)
T cd06941 25 IPGFCDLSQDDQLLLIKAGFFEVWLVRISRLINS-KSGSITFDDGISISRQQLDIIYDSDFVKALFEFSDSFNSLGLSDT 103 (195)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHcC-CCCeEEecCCeEeeHHHHHhccchHHHHHHHHHHHHHHhcCCCHH
Confidence 6999999999999999999999999999986654 4445666666432 1123566788999999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhccc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPR 225 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~ 225 (261)
||+|||||+||||| ++|++++++|+++|+++..+|++|+..++|++|.||++|++++|.
T Consensus 104 E~allkAi~Lf~pd---------------------~~gl~~~~~Ve~lq~~~~~aL~~~i~~~~p~~~~rf~~Ll~~Lp~ 162 (195)
T cd06941 104 EVALFCAVVLLSPD---------------------RIGLSEPKKVAILQDRVLEALKVQVSRNRPAEAQLFASLLMKIPE 162 (195)
T ss_pred HHHHHHHHHHcCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHH
Confidence 99999999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCCCcccchhhh-cccccCCCCcHHHHHHHHHh
Q psy16761 226 LKSIPSLVLEELF-FRNIIGHNTTIKKTIWHMYK 258 (261)
Q Consensus 226 Lr~~~~~~~e~l~-f~~~~g~~~~i~~ll~eml~ 258 (261)
||+++.++.++++ |+...+ .+++++|+.||+.
T Consensus 163 Lr~l~~~~~e~l~~~~~~~~-~~~~p~L~~E~~~ 195 (195)
T cd06941 163 LRSIGAKHQMHLDWYRVNWP-LLRLPPLFAEIYD 195 (195)
T ss_pred HHHHHHHHHHHHHHHHhcCC-CCCCCcHHHHhcC
Confidence 9999999999998 667777 8999999999974
No 22
>cd06932 NR_LBD_PPAR The ligand binding domain of peroxisome proliferator-activated receptors. The ligand binding domain (LBD) of peroxisome proliferator-activated receptors (PPAR): Peroxisome proliferator-activated receptors (PPARs) are members of the nuclear receptor superfamily of ligand-activated transcription factors. PPARs play important roles in regulating cellular differentiation, development and lipid metabolism. Activated PPAR forms a heterodimer with the retinoid X receptor (RXR) that binds to the hormone response element located upstream of the peroxisome proliferator responsive genes and interacts with co-activators. There are three subtypes of peroxisome proliferator activated receptors, alpha, beta (or delta), and gamma, each with a distinct tissue distribution. Several essential fatty acids, oxidized lipids and prostaglandin J derivatives can bind and activate PPAR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, P
Probab=99.96 E-value=1.3e-29 Score=222.15 Aligned_cols=162 Identities=14% Similarity=0.124 Sum_probs=142.6
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcccccccccc-c-------h--hHHHHHHHHHHHHHHHHhcCC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSR-H-------V--DIEEEVIRFQSVLNEFKVLNI 142 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~-~-------~--~~~~~~~~l~~~~~~l~~L~l 142 (261)
.|+|..|+.+||+.+||.+|.|+++++++++.. .+.++.+.|.. . . ...+.++.+++++.+|++|++
T Consensus 86 IPgF~~L~~~DQi~LLk~~~~Ellil~~a~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~L~l 162 (259)
T cd06932 86 LPGFRNLDLNDQVTLLKYGVHEVIFTMLASLYN---KDGLLFPEGNGYVTREFLESLRKPFCDIMEPKFEFAEKFNALEL 162 (259)
T ss_pred CCCcccCChhHHHHHHHHhhHHHHHHHHHHhcC---CCCeEEeCCCEEeeHHHHHHhcccHHHHHHHHHHHHHHHHHcCC
Confidence 699999999999999999999999999997642 23344443321 1 1 234667778899999999999
Q ss_pred ChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhh
Q psy16761 143 DPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLI 222 (261)
Q Consensus 143 ~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~ 222 (261)
|++||+|||||+||||| ++|+.+..+|+++|++++.+|+.|+..+||++|.||+|||++
T Consensus 163 d~~E~alLkAivLf~pD---------------------r~gL~~~~~Ve~lQe~~~~aL~~~i~~~~p~~~~rf~kLLl~ 221 (259)
T cd06932 163 TDSELALFCAVIILSPD---------------------RPGLINRKPVERIQEHVLQALELQLKKNHPDSPQLFAKLLQK 221 (259)
T ss_pred CHHHHHHHHHHHHhCCC---------------------cccCcCHHHHHHHHHHHHHHHHHHHhhhCCCcccHHHHHHHH
Confidence 99999999999999999 999999999999999999999999999999999999999999
Q ss_pred cccccCCCcccchhhhccc-ccCCCCcHHHHHHHHHhc
Q psy16761 223 LPRLKSIPSLVLEELFFRN-IIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 223 Lp~Lr~~~~~~~e~l~f~~-~~g~~~~i~~ll~eml~~ 259 (261)
||.||+++.+++|++++.+ ..| ++++++|+.||+..
T Consensus 222 L~~LRsl~~~~~e~l~~~k~~~~-~~~~~pLl~Ei~~~ 258 (259)
T cd06932 222 MVDLRQLVTDHVQMVQQIKKTET-DASLPPLLQEIYKD 258 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHccCC-CCCCCcHHHHHhhc
Confidence 9999999999999999766 667 89999999999863
No 23
>cd06952 NR_LBD_TR2_like The ligand binding domain of the orphan nuclear receptors TR4 and TR2. The ligand binding domain of the TR4 and TR2 (human testicular receptor 4 and 2): TR4 and TR2 are orphan nuclear receptors. Several isoforms of TR4 and TR2 have been isolated in various tissues. TR2 is abundantly expressed in the androgen-sensitive prostate. TR4 transcripts are expressed in many tissues, including central nervous system, adrenal gland, spleen, thyroid gland, and prostate. The expression of TR2 is negatively regulated by androgen, retinoids, and radiation. The expression of both mouse TR2 and TR4 is up-regulated by neurocytokine ciliary neurotrophic factor (CNTF) in mouse. It has shown that human TR2 binds to a wide spectrum of natural hormone response elements (HREs) with distinct affinities suggesting that TR2 may cross-talk with other gene expression regulation systems. The genes responding to TR2 or TR4 include genes that are regulated by retinoic acid receptor, vitamin D
Probab=99.96 E-value=3.9e-29 Score=214.82 Aligned_cols=164 Identities=30% Similarity=0.483 Sum_probs=145.1
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccc-----------c---chhHHHHHHHHHHHHHHHH
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKS-----------R---HVDIEEEVIRFQSVLNEFK 138 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~-----------~---~~~~~~~~~~l~~~~~~l~ 138 (261)
.|+|..|+.+||+.+++++|.+++++++++++.+.+.+.++.+.+. . ...+.+.+..+.+++.+|+
T Consensus 44 iP~F~~L~~~DQ~~LLk~~w~el~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~ 123 (222)
T cd06952 44 IPAFQALGAETQTSLVRACWPELFTLGLAQCSQQLSLPTILAAIINHLQTSIQQDKLSADKVKQVMEHINKLQEFVNSMQ 123 (222)
T ss_pred CCchhhCChHHHHHHHHHHhHHHHHHHHHHHhcccCchHHhhhhhhhhhhhHhcCCCchhhhHHHHHHHHHHHHHHHHHH
Confidence 5999999999999999999999999999988866555443322111 0 1234444566789999999
Q ss_pred hcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHH
Q psy16761 139 VLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCK 218 (261)
Q Consensus 139 ~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~ 218 (261)
+|++|.+||+||||++||+|| ++|+++.+.|+++|+++..+|++|+..++|+++.||++
T Consensus 124 ~L~ld~~E~~~LkaiiLf~~d---------------------~~~l~~~~~v~~lq~~i~~aL~~y~~~~~p~~~~R~~k 182 (222)
T cd06952 124 KLDVDDHEYAYLKAIVLFSPD---------------------HPGQELRQQIEKLQEKALMELRDYVGKTYPEDEYRLSK 182 (222)
T ss_pred HcCCCHHHHHHHHHHHHhCCC---------------------CcCCcCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHH
Confidence 999999999999999999999 99999999999999999999999999899999999999
Q ss_pred HHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHHHh
Q psy16761 219 IQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYK 258 (261)
Q Consensus 219 LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~ 258 (261)
||++||.||+++.+.+|++||++++| ++||++++++++.
T Consensus 183 lLl~Lp~Lr~~~~~~~e~l~~~~~~g-~~~~~~ll~~~~~ 221 (222)
T cd06952 183 LLLRLPPLRSLSPAITEELFFAGLIG-NVQIDSVIPYILR 221 (222)
T ss_pred HHHHhHHhhhcCHHHHHHHhcccccC-CCcHHHHHHHHHh
Confidence 99999999999999999999999999 9999999999984
No 24
>cd06939 NR_LBD_ROR_like The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily. The ligand binding domain (LBD) of Retinoid-related orphan receptors (RORs): Retinoid-related orphan receptors (RORs) are transcription factors belonging to the nuclear receptor superfamily. RORs are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. Transcription regulation by RORs is mediated through certain corepressors, as well as coactivators. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma that differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum, particularly in the regulation of the maturation and survival of Purkinje cells. RORbeta expression is largely r
Probab=99.96 E-value=3.9e-29 Score=217.06 Aligned_cols=162 Identities=12% Similarity=0.135 Sum_probs=142.5
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHHhcCCChhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFKVLNIDPYE 146 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~~L~l~~~E 146 (261)
.|+|..|+.+||+.+||.+|.|++++++|++..+.+ +.+.+++.... .++.+.+..+++++.++++|++|++|
T Consensus 71 IPgF~~L~~~DQi~LLk~~~~Ellll~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~L~ld~~E 149 (241)
T cd06939 71 IPGFMELCQNDQIVLLKAGSLEVVLVRMSRAFNPSN-NTVLFDGKYAPIDLFKSLGCDDLISAVFDFAKSLCELKLTEDE 149 (241)
T ss_pred CCCcccCCHHHHHHHHHHhHHHHHHHHHHHHhCCCC-CEEEECCccccHHHHHHcCcHHHHHHHHHHHHHHHhcCCCHHH
Confidence 699999999999999999999999999997765533 33444332211 24556778899999999999999999
Q ss_pred hhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcccc
Q psy16761 147 YDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPRL 226 (261)
Q Consensus 147 ~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~L 226 (261)
|+|||||+||||| ++||.++.+|+++|+++..+|++|+..+| ++|.||++||++||.|
T Consensus 150 ~all~AivL~~pD---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~-~~~~rf~kLL~~Lp~L 207 (241)
T cd06939 150 IALFSALVLISAD---------------------RPGLQEKRKVEKLQQKIELALRHVLQKNH-GDDTILTKLLAKMPTL 207 (241)
T ss_pred HHHHHHHHHhcCC---------------------CcCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCccHHHHHHHHHHHH
Confidence 9999999999999 99999999999999999999999999988 8999999999999999
Q ss_pred cCCCcccchhhhcccccCC---CCcHHHHHHHHH
Q psy16761 227 KSIPSLVLEELFFRNIIGH---NTTIKKTIWHMY 257 (261)
Q Consensus 227 r~~~~~~~e~l~f~~~~g~---~~~i~~ll~eml 257 (261)
|+++.+++|++++.+...+ ..++++|+.||+
T Consensus 208 R~l~~~~~e~l~~~k~~~p~~~~~~~ppL~~Elf 241 (241)
T cd06939 208 RALCSLHMEKLQKFKQSYPDIVHLEFPPLYKELF 241 (241)
T ss_pred HHHHHHHHHHHHHHhccCCCcccCCCCcHHHhhC
Confidence 9999999999999999852 236899999985
No 25
>cd06954 NR_LBD_LXR The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors. The ligand binding domain of Liver X receptors: Liver X receptors (LXRs) belong to a family of nuclear receptors of ligand-activated transcription factors. LXRs operate as cholesterol sensors which protect from cholesterol overload by stimulating reverse cholesterol transport from peripheral tissues to the liver and its excretion in the bile. Oxidized cholesterol derivatives or oxysterols were identified as specific ligands for LXRs. Upon ligand binding a conformational change leads to recruitment of co-factors, which stimulates expression of target genes. Among the LXR target genes are several genes involved in cholesterol efflux from peripheral tissues such as the ATP-binding-cassette transporters ABCA1, ABCG1 and ApoE. There are two LXR isoforms in mammals, LXRalpha and LXRbeta. LXRalpha is expressed mainly in the liver, intestine, kidney, splee
Probab=99.96 E-value=8.5e-29 Score=214.61 Aligned_cols=162 Identities=17% Similarity=0.168 Sum_probs=146.0
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc--------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH--------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~--------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.++|.+|.|+++++.|+++... .+.+.+++|... +...+.++.+.+++.++++|++|.
T Consensus 66 lP~F~~L~~~DQi~LLK~~~~el~iL~~a~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~L~ld~ 144 (236)
T cd06954 66 LPGFLTLTREDQIALLKASTIEVMLLETARRYNPE-SEAITFLKDFPYSRDDFARAGLQVEFINPIFEFSKSMRELQLDD 144 (236)
T ss_pred CCCcccCChHHHHHHHHHhHHHHHHHHHHHHhcCC-CCeEEeeCCccccHHHHHHhcChHHHHHHHHHHHHHHHHcCCCH
Confidence 69999999999999999999999999999887554 445666666532 112356778889999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcc
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILP 224 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp 224 (261)
+||+|||||+||||| ++|+++.++|+++|+++..+|++||..+||+++.||++++++||
T Consensus 145 ~E~~lL~aivLf~pd---------------------~~gL~~~~~V~~lQ~~~~~aL~~y~~~~~p~~~~rf~klL~~L~ 203 (236)
T cd06954 145 AEYALLIAINIFSAD---------------------RPNVQDHHRVERLQETYVEALHSYIKIKRPSDRLMFPRMLMKLV 203 (236)
T ss_pred HHHHHHHHHhhccCC---------------------cccCCCHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence 999999999999999 99999999999999999999999999999999999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHh
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYK 258 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~ 258 (261)
+||+++.+++|++|+.+..+ .++++++.||+.
T Consensus 204 ~Lr~l~~~~~e~l~~~k~~~--~~~~~L~~El~~ 235 (236)
T cd06954 204 SLRTLSSVHSEQVFALRLQD--KKLPPLLSEIWD 235 (236)
T ss_pred HHHHHHHHHHHHHHHHHhcC--CCCCcHHHHHhc
Confidence 99999999999999999855 699999999985
No 26
>cd07075 NR_LBD_MR Ligand binding domain of the mineralocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the mineralocorticoid receptor (MR): MR, also called aldosterone receptor, is a member of nuclear receptor superfamily involved in the regulation of electrolyte and fluid balance. The receptor is activated by mineralocorticoids such as aldosterone and deoxycorticosterone as well as glucocorticoids, like cortisol and cortisone. Binding of its ligand results in its translocation to the cell nucleus, homodimerization and binding to hormone response elements (HREs) present in the promoter of MR controlled genes. This results in the recruitment of the coactivators and the transcription of the activated genes. MR is expressed in many tissues and its activation results in the expression of proteins regulating electrolyte and fluid balance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, MR h
Probab=99.96 E-value=1e-28 Score=214.31 Aligned_cols=164 Identities=16% Similarity=0.115 Sum_probs=139.7
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCc-cccccccccc-------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLG-ELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~-~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.+||.+|.|+++++++||+++.+.+ .+++++|... .++.+.++.+.+++.+|++|++|.
T Consensus 51 IPgF~~L~~~DQi~LLk~~w~EllvL~~a~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~L~Ld~ 130 (248)
T cd07075 51 LPGFRNLPLEDQITLIQYSWMCLSSFALSWRSYKHTNSQFLYFAPDLVFNEERMHQSAMYELCQGMHQISLQFVRLQLTF 130 (248)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHhccCCCCCceEEecCCccccHHHHhhccHHHHHHHHHHHHHHHHHcCCCH
Confidence 59999999999999999999999999999999887544 3555555422 345566677889999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCC---CCccHHHHHHh
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYP---SQPTRFCKIQL 221 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~---~~~~Rf~~LL~ 221 (261)
+||+|||||+|||||. ++|++++..|+++|++++.+|++|+.++++ +.+.||++|++
T Consensus 131 ~E~acLKAIvLfn~d~--------------------~~gL~~~~~Ve~lqe~~~~aL~~yi~~~~~~~~~~~~RF~~LLl 190 (248)
T cd07075 131 EEYTIMKVLLLLSTIP--------------------KDGLKSQAAFEEMRTNYIKELRKMVTKAPNNSGQSWQRFYQLTK 190 (248)
T ss_pred HHHHHHHHHHHhCCCC--------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCcccchhHHHHHHH
Confidence 9999999999999961 689999999999999999999999996655 45699999999
Q ss_pred hcccccCCCcccchhhhcccccCCCCcHHHHHHHHHh
Q psy16761 222 ILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYK 258 (261)
Q Consensus 222 ~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~ 258 (261)
+||.+|.++.+.+|++||.=.-.+.+|+ .++||+.
T Consensus 191 lLp~Lr~i~~k~iE~lff~~~~~~~~~~--~~~~~~~ 225 (248)
T cd07075 191 LLDSMHDLVSDLLEFCFYTFRESQALKV--EFPAMLV 225 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccceee--ehHHHHH
Confidence 9999999999999999986665327776 6666664
No 27
>cd06940 NR_LBD_REV_ERB The ligand binding domain of REV-ERB receptors, members of the nuclear receptor superfamily. The ligand binding domain (LBD) of REV-ERB receptors: REV-ERBs are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. The LBD domain of REV-ERB is unusual in the nuclear receptor family by lacking the AF-2 region that is responsible for coactivator interaction. REV-ERBs act as constitutive repressors because of their inability to bind coactivators. REV-ERB receptors can bind to two classes of DNA response elements as either a monomer or heterodimer, indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target gene. The porphyrin heme has been demonstrated to function as a ligand for REV-ERB. Like other members of
Probab=99.96 E-value=1.5e-28 Score=206.12 Aligned_cols=147 Identities=18% Similarity=0.214 Sum_probs=132.7
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.++|.+|.|+++++.++++... .+.+.+++|... .++.+.++.+.+++.++++|++|++
T Consensus 35 iPgF~~L~~~DQi~LLk~~w~Ell~L~~a~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~ 113 (189)
T cd06940 35 IPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFDAK-ERSVTFLSGQKYSVDDLHSMGAGDLLNSMFDFSEKLNSLQLSDE 113 (189)
T ss_pred CCCcccCChhhHHHHHHHhhHHHHHHHHHHHhccC-CCeEEecCCcEEcHHHHHHcCcHHHHHHHHHHHHHHHhcCCCHH
Confidence 69999999999999999999999999999987554 333555555432 2455677889999999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhccc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPR 225 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~ 225 (261)
||+|||||+||||| ++|+++..+|+++|++++.+|++|+..+||+++.||++||++||.
T Consensus 114 E~a~LkAivLf~pd---------------------~~~L~~~~~Ve~lq~~~~~aL~~~~~~~~p~~~~rf~kLL~~L~~ 172 (189)
T cd06940 114 EMGLFTAVVLVSAD---------------------RSGLENVNLVEALQETLIRALRTLIAKNHPNEPSIFTKLLLKLPD 172 (189)
T ss_pred HHHHHHHHHHhCCC---------------------CcCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Confidence 99999999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCCCcccchhhhccc
Q psy16761 226 LKSIPSLVLEELFFRN 241 (261)
Q Consensus 226 Lr~~~~~~~e~l~f~~ 241 (261)
||+++.+++|+++|.+
T Consensus 173 LR~l~~~~~e~l~~~~ 188 (189)
T cd06940 173 LRTLNNLHSEKLLAFK 188 (189)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 9999999999999876
No 28
>cd06933 NR_LBD_VDR The ligand binding domain of vitamin D receptors, a member of the nuclear receptor superfamily. The ligand binding domain of vitamin D receptors (VDR): VDR is a member of the nuclear receptor (NR) superfamily that functions as classical endocrine receptors. VDR controls a wide range of biological activities including calcium metabolism, cell proliferation and differentiation, and immunomodulation. VDR is a high affinity receptor for the biologically most active Vitamin D metabolite, 1alpha,25-dihydroxyvitamin D3 (1alpha,25(OH)2D3). The binding of the ligand to the receptor induces a conformational change of the ligand binding domain (LBD) with consequent dissociation of corepressors. Upon ligand binding, VDR forms heterodimer with the retinoid X receptor (RXR) that binds to vitamin D response elements (VDREs), recruits coactivators. This leads to the expression of a large number of genes. Approximately 200 human genes are considered to be primary targets of VDR and
Probab=99.95 E-value=8e-28 Score=208.59 Aligned_cols=166 Identities=19% Similarity=0.128 Sum_probs=138.0
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcccccccc-cc--c------hhHHHHHHHHHHHHHHHHhcCCC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCK-SR--H------VDIEEEVIRFQSVLNEFKVLNID 143 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~-~~--~------~~~~~~~~~l~~~~~~l~~L~l~ 143 (261)
.|+|..|+.+||+.+||.+|.|+++++.+++ +..+....+.+++ .. . +...+.++.+.+++.+|++|++|
T Consensus 60 iPgF~~L~~~DQi~LLk~~~~ElliL~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~l~~~~~~l~~L~ld 138 (238)
T cd06933 60 IPGFRDLTAEDQIALLKSSAIEVIMLRSNQS-FSLDDMSWTCGSPDFKYKVSDVTKAGHSLELLEPLVKFQVGLKKLNLH 138 (238)
T ss_pred CCccccCChHHHHHHHHHhHHHHHHHHHHHh-cCcCCCeeEecCCceeecHHHHHHccCcHHHHHHHHHHHHHHHhcCCC
Confidence 6999999999999999999999999998874 4444433332221 11 1 11225677889999999999999
Q ss_pred hhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCC--CCccHHHHHHh
Q psy16761 144 PYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYP--SQPTRFCKIQL 221 (261)
Q Consensus 144 ~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~--~~~~Rf~~LL~ 221 (261)
.+||+|||||+||||| ++|+.+.++|+++|++++.+|++|+..+|| +++.||+|||+
T Consensus 139 ~~E~alLkAivLf~pD---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~~~~f~kLLl 197 (238)
T cd06933 139 EEEHVLLMAICILSPD---------------------RPGVQDHALIEAIQDRLSDTLQTYIRCRHPPPGSRLLYAKMIQ 197 (238)
T ss_pred HHHHHHHHHHHHHCCC---------------------CCCCcchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHH
Confidence 9999999999999999 999999999999999999999999999987 45667999999
Q ss_pred hcccccCCCcccchhhhcccccC-CCCcHHHHHHHHHhcC
Q psy16761 222 ILPRLKSIPSLVLEELFFRNIIG-HNTTIKKTIWHMYKNA 260 (261)
Q Consensus 222 ~Lp~Lr~~~~~~~e~l~f~~~~g-~~~~i~~ll~eml~~~ 260 (261)
+||.||+++.++.+.++..++.+ ++.++++|+.||+.++
T Consensus 198 ~L~~LRsi~~~h~~~~~~~~~~~~~~~~~~pL~~Ei~~~~ 237 (238)
T cd06933 198 KLADLRSLNEEHSKQYRSLSFQPEHSMKLTPLVLEVFGNE 237 (238)
T ss_pred HhHHHHhhhHHHHHHHHHHHhccCCCCCCCcHHHHHhccC
Confidence 99999999999999877655444 1346999999999754
No 29
>cd06936 NR_LBD_Fxr The ligand binding domain of Farnesoid X receptor:a member of the nuclear receptor superfamily of ligand-activated transcription factors. The ligand binding domain (LBD) of Farnesoid X receptor: Farnesoid X receptor (FXR) is a member of the nuclear receptor superfamily of ligand-activated transcription factors. FXR is highly expressed in the liver, the intestine, the kidney, and the adrenals. FXR plays key roles in the regulation of bile acid, cholesterol, triglyceride, and glucose metabolism. Evidences show that it also regulates liver regeneration. Upon binding of ligands, such as bile acid, an endogenous ligand, FXRs bind to FXR response elements (FXREs) either as a monomer or as a heterodimer with retinoid X receptor (RXR), and regulate the expression of various genes involved in bile acid, lipid, and glucose metabolism. There are two FXR genes (FXRalpha and FXRbeta) in mammals. A single FXRalpha gene encodes four isoforms resulting from differential use of prom
Probab=99.95 E-value=2e-27 Score=203.97 Aligned_cols=160 Identities=19% Similarity=0.183 Sum_probs=135.1
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCC-CCcc-ccccccccchh-HHHHHHHHHHHHHHHHhcCCChhhhhh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSL-DLGE-LVESCKSRHVD-IEEEVIRFQSVLNEFKVLNIDPYEYDY 149 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~-~~~~-ll~~~~~~~~~-~~~~~~~l~~~~~~l~~L~l~~~E~~l 149 (261)
.|+|..|+.+||+.++|.+|.++++++.|++.... ..+. ..........+ ..+.+..+++++.+|++|++|.+||+|
T Consensus 59 iP~F~~L~~~DQi~LLk~~~~el~iL~~a~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~kl~~L~l~~~E~~l 138 (221)
T cd06936 59 LPGFETLDHEDQIALLKGSAVEAMFLRSAQIYNKKLPAGHADLLEERIRSSGISDEFITPMFNFYKSMGELKMTQEEYAL 138 (221)
T ss_pred CCchhhCChhHHHHHHHHhHHHHHHHHHHHHhcccccCCCchhhHHHHHhccchHHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 69999999999999999999999999999654321 1110 01100001112 345677888999999999999999999
Q ss_pred hhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcccccCC
Q psy16761 150 IRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPRLKSI 229 (261)
Q Consensus 150 Lkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~Lr~~ 229 (261)
||||+||||| ++|+++...|+.+|+++..+|++||..+||++|.||++||++||.||++
T Consensus 139 LkaIvL~npd---------------------~~gL~~~~~Ve~~Q~~~~~aL~~y~~~~~p~~p~rf~~LL~~L~~LR~l 197 (221)
T cd06936 139 LTAITILFPD---------------------RPYLKDKEAVEKLQEPLLDLLQKFCKLYHPEDPQHFACLLGRLTELRTL 197 (221)
T ss_pred HHHHHHhcCC---------------------CcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHHHHHH
Confidence 9999999999 9999999999999999999999999999999999999999999999999
Q ss_pred CcccchhhhcccccCCCCcHHHHHHH
Q psy16761 230 PSLVLEELFFRNIIGHNTTIKKTIWH 255 (261)
Q Consensus 230 ~~~~~e~l~f~~~~g~~~~i~~ll~e 255 (261)
+++++|++++.+... .++++|+.|
T Consensus 198 ~~~~~e~l~~~k~~~--~~~~pl~~e 221 (221)
T cd06936 198 NHHHAEMLMSWKVND--HKFTPLLCE 221 (221)
T ss_pred HHHHHHHHHHHHccC--CCCCccccC
Confidence 999999999999976 478888764
No 30
>cd06934 NR_LBD_PXR_like The ligand binding domain of xenobiotic receptors:pregnane X receptor and constitutive androstane receptor. The ligand binding domain of xenobiotic receptors: This xenobiotic receptor family includes pregnane X receptor (PXR), constitutive androstane receptor (CAR) and other related nuclear receptors. They function as sensors of toxic byproducts of cell metabolism and of exogenous chemicals, to facilitate their elimination. The nuclear receptor pregnane X receptor (PXR) is a ligand-regulated transcription factor that responds to a diverse array of chemically distinct ligands, including many endogenous compounds and clinical drugs. The ligand binding domain of PXR shows remarkable flexibility to accommodate both large and small molecules. PXR functions as a heterodimer with retinoic X receptor-alpha (RXRa) and binds to a variety of response elements in the promoter regions of a diverse set of target genes involved in the metabolism, transport, and elimination of
Probab=99.94 E-value=5e-27 Score=202.11 Aligned_cols=159 Identities=16% Similarity=0.178 Sum_probs=132.8
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcccccccccc------chhHH-HHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSR------HVDIE-EEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~------~~~~~-~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|.+|+.+||+.+|+.+|.|+++++.++.+.. +.+.+..+++.. ..++. ..++.+.+++.++++|++|++
T Consensus 58 iPgF~~L~~~DQi~LLk~~~~Ellil~~~~~~~~-~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~l~~L~ld~~ 136 (226)
T cd06934 58 LPYFRSLPIEDQISLLKGATFEICQIRFNTVFNE-ETGTWECGPLTYCIEDAARAGFQQLLLEPLLRFHYTLRKLQLQEE 136 (226)
T ss_pred CcccccCCcchHHHHHHHhHHHHHHHHHHHHhcc-cCCeEeeCCEeecHHHHHHccchHHHHHHHHHHHHHHHHcCCCHH
Confidence 6999999999999999999999999999877654 333333222111 11233 245778899999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccH--HHHHHhhc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTR--FCKIQLIL 223 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~R--f~~LL~~L 223 (261)
||+|||||+||||| ++|+++.++|+++|++++.+|++|+..+||..+.| |+|||++|
T Consensus 137 E~alLkAivLf~pD---------------------r~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~r~~f~kLLl~L 195 (226)
T cd06934 137 EYVLMQAMSLFSPD---------------------RPGVTQHDVIDQLQEKMALTLKSYIDSKRPGPEKRFLYPKILACL 195 (226)
T ss_pred HHHHHHHHHHhCCC---------------------CcCCcChHHHHHHHHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Confidence 99999999999999 99999999999999999999999999999865444 99999999
Q ss_pred ccccCCCcccchhhhcccccCCCCcH-HHHHHHH
Q psy16761 224 PRLKSIPSLVLEELFFRNIIGHNTTI-KKTIWHM 256 (261)
Q Consensus 224 p~Lr~~~~~~~e~l~f~~~~g~~~~i-~~ll~em 256 (261)
|.||+++..+++.++ ++.+ ..|+ ++++.||
T Consensus 196 ~~LRsl~~~~~~~~~--~~~~-~~~~~~pl~~Ei 226 (226)
T cd06934 196 TELRTINEEYTKQIL--HIQD-IQPMATPLMQEI 226 (226)
T ss_pred HHHhcchHHHHHHHH--HHhc-cCCCCCchhhcC
Confidence 999999999988764 5777 7786 9998875
No 31
>cd06943 NR_LBD_RXR_like The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily. The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, func
Probab=99.94 E-value=1.1e-26 Score=197.53 Aligned_cols=147 Identities=26% Similarity=0.374 Sum_probs=129.2
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHH-HHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIR-FQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~-l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.+++++|.++++++.|+++...+.+ +.+.+|..+ .+....... +.+++.+|++|++|.
T Consensus 53 lp~F~~L~~~DQ~~LLk~~~~e~~~l~~a~~s~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~ 131 (207)
T cd06943 53 IPHFSELPLDDQVILLRAGWNELLIAAFAHRSIAVKDG-ILLATGLHLHRNSAHQAGVGAIFDRILTELVVKMRDLKMDR 131 (207)
T ss_pred CchhhccChhhhHHHHHHHHHHHHHHHHHHHccCCCCe-eEecCCceeccchhhhccchHHHHHHHHHHHHHHHHcCCCH
Confidence 59999999999999999999999999999999876554 344444322 122233333 568999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcc
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILP 224 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp 224 (261)
+||+|||||+||||| ++|+++.+.|+++|+++..+|++||..++|++|.||++||++||
T Consensus 132 ~E~~lLkaI~L~~pd---------------------~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~L~ 190 (207)
T cd06943 132 TELGCLRAIILFNPD---------------------VKGLKSRQEVESLREKVYASLEEYCRQKHPEQPGRFAKLLLRLP 190 (207)
T ss_pred HHHHHHHHHHhcCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHHH
Confidence 999999999999999 89999999999999999999999999999999999999999999
Q ss_pred cccCCCcccchhhhccc
Q psy16761 225 RLKSIPSLVLEELFFRN 241 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~ 241 (261)
.||+++.+.+|++||.+
T Consensus 191 ~lr~l~~~~~e~l~~~~ 207 (207)
T cd06943 191 ALRSIGLKCLEHLFFFK 207 (207)
T ss_pred HHHhHhHHHHHHHhhcC
Confidence 99999999999999975
No 32
>cd06938 NR_LBD_EcR The ligand binding domain (LBD) of the Ecdysone receptor, a member of the nuclear receptors super family. The ligand binding domain (LBD) of the ecdysone receptor: The ecdysone receptor (EcR) belongs to the superfamily of nuclear receptors (NRs) of ligand-dependent transcription factors. Ecdysone receptor is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. ECR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of ecdysone receptor are ecdysteroids#the endogenous steroidal hormones found in invertebrates. In addition, insecticide bisacylhydrazine used against pests has shown to act on EcR. EcR must be dimerised with a USP for high-affinity ligand binding to occur. The ligand binding triggers a conformational change in the C-terminal part of the EcR ligand-binding domain that leads to transcript
Probab=99.94 E-value=9.4e-27 Score=201.19 Aligned_cols=161 Identities=17% Similarity=0.201 Sum_probs=144.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.++|.+|.|+++++.|+++.. +.+.+.+++|... .++...+..+.+++.++++|++|.+
T Consensus 62 lp~F~~L~~~DQi~LLK~~~~el~~L~~a~~~~~-~~~~~~f~~g~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~ld~~ 140 (231)
T cd06938 62 LPGFDKLSREDQITLLKACSSEVMMLRVARRYDA-KTDSIVFANNQPYTRDSYRKAGMGDSAEDLFRFCRAMCSMKVDNA 140 (231)
T ss_pred CCccccCChhHHHHHHHHHHHHHHHHHHHHHhCC-CCCeEEeeCCEEecHHHHhhcCHHHHHHHHHHHHHHHHHcCCCHH
Confidence 6999999999999999999999999999987654 4555777776532 3444567788899999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCC-CccHHHHHHhhcc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPS-QPTRFCKIQLILP 224 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~-~~~Rf~~LL~~Lp 224 (261)
||+|||||+||+ | ++|+++...|+++|+++..+|++||..+||. +|.||++||+++|
T Consensus 141 E~~lL~AI~Lf~-d---------------------~~~L~~~~~Ve~~Q~~~~~aL~~y~~~~~~~~~~~rf~kLL~~L~ 198 (231)
T cd06938 141 EYALLTAIVIFS-D---------------------RPGLLQPKKVEKIQEIYLEALRAYVDNRRPPSQRVIFAKLLSILT 198 (231)
T ss_pred HHHHHHHHHHcc-C---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCcccHHHHHHHHHH
Confidence 999999999997 5 6799999999999999999999999999986 8999999999999
Q ss_pred cccCCCcccchhhhcccccCCCCcHHHHHHHHHh
Q psy16761 225 RLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYK 258 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~ 258 (261)
.||+++..+++.+++.++.+ .++++++.|++.
T Consensus 199 ~Lr~l~~~~~e~~~~~k~~~--~~~~pl~~Ei~d 230 (231)
T cd06938 199 ELRTLGNQNSEMCFSLKLKN--RKLPPFLAEIWD 230 (231)
T ss_pred HHHHHHHHHHHHHHHHHHhC--CCCCcHHHHHhC
Confidence 99999999999999999986 589999999975
No 33
>cd06931 NR_LBD_HNF4_like The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes. The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal lig
Probab=99.94 E-value=2.2e-26 Score=197.69 Aligned_cols=169 Identities=24% Similarity=0.296 Sum_probs=146.9
Q ss_pred ChHHHHHHHHHHhhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHH-HH
Q psy16761 59 DPYEYDYIRAITLFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIR-FQ 131 (261)
Q Consensus 59 d~~E~~~Lkaivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~-l~ 131 (261)
...||+ |. .|+|..|+.+||+.++|..|.+.+++..|+++.+. .+.+++++|..+ .++...+.. +.
T Consensus 47 ~~vewa--k~----~p~F~~L~~~Dq~~Llk~~~~~~~~l~~a~~s~~~-~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~ 119 (222)
T cd06931 47 VLVEWA--KY----IPAFCELPLDDQVALLRAHAGEHLLLGVARRSMPY-KDILLLGNDLIIPRHCPEPEISRVANRILD 119 (222)
T ss_pred HHHHHH--Hh----CCccccCChHHHHHHHHHHHHHHHHHHHHHhccCC-CCeeeeCCCcccccccccchHHHHHHHHHH
Confidence 445555 43 49999999999999999999999999999999764 344555655432 122333333 45
Q ss_pred HHHHHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy16761 132 SVLNEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPS 211 (261)
Q Consensus 132 ~~~~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~ 211 (261)
+++.++++|++|.+||+|||||++|+|| ++|+++.++++++|++++.+|.+|+..++|+
T Consensus 120 ~~~~~l~~L~l~~~E~~lLkaiil~~p~---------------------~~~ls~~~~i~~~r~~~~~aL~~y~~~~~~~ 178 (222)
T cd06931 120 ELVLPLRDLNIDDNEYACLKAIVFFDPD---------------------AKGLSDPQKIKRLRFQVQVSLEDYINDRQYD 178 (222)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHcCCC---------------------ccCCCCHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 7999999999999999999999999999 8999999999999999999999999888899
Q ss_pred CccHHHHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHH
Q psy16761 212 QPTRFCKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHM 256 (261)
Q Consensus 212 ~~~Rf~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~em 256 (261)
++.||++|++++|.||.++...++++++.+++| .+|+++|+.||
T Consensus 179 ~~~Rf~~LL~~l~~lr~~~~~~~e~l~~~~lf~-~~~~~~L~~e~ 222 (222)
T cd06931 179 SRGRFGELLLLLPTLQSITWQMIEQIQFARLFG-VAKIDNLLQEM 222 (222)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC-CCcHHHHHhhC
Confidence 999999999999999999999999999999999 99999999886
No 34
>cd06953 NR_LBD_DHR4_like The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4. The ligand binding domain of Ecdysone-induced receptor DHR4: Ecdysone-induced orphan receptor DHR4 is a member of the nuclear receptor family. DHR4 is expressed during the early Drosophila larval development and is induced by ecdysone. DHR4 coordinates growth and maturation in Drosophila by mediating endocrine response to the attainment of proper body size during larval development. Mutations in DHR4 result in shorter larval development which translates into smaller and lighter flies. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.94 E-value=1.2e-26 Score=198.25 Aligned_cols=148 Identities=24% Similarity=0.367 Sum_probs=126.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccc----ccccc--c----hhHHHHHHHHHHHHHHHHhcCC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVE----SCKSR--H----VDIEEEVIRFQSVLNEFKVLNI 142 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~----~~~~~--~----~~~~~~~~~l~~~~~~l~~L~l 142 (261)
.|+|..|+.+||+.++|.+|.|+++++.|+++.+.+...+.. ..+.. . ....+.++.+.+++.+|++|++
T Consensus 50 lp~F~~L~~~DQi~LLk~~w~el~iL~~a~~s~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~L~l 129 (213)
T cd06953 50 LPFFTELSIKDHTHLLTTKWAELILLSTITVASLQNLGLLQDCLSKYLPSEDELERFGDEGGEVVERLTYLLAKFRQLKV 129 (213)
T ss_pred CCchhhCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHhhhccCCchhhHHHHHhhHHHHHHHHHHHHHHHHHcCC
Confidence 699999999999999999999999999999998744322111 11111 1 1244567788899999999999
Q ss_pred ChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhh
Q psy16761 143 DPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLI 222 (261)
Q Consensus 143 ~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~ 222 (261)
|.+||+|||||+||||| ++|+++.++|+++|+++..+|++||..+||++|.||++||++
T Consensus 130 d~eEy~lLkAIvLfnpd---------------------~~gLs~~~~Ve~lQ~~~~~aL~~y~~~~~~~~p~Rf~~LL~~ 188 (213)
T cd06953 130 SNEEYVCLKVINFLNQD---------------------IDGLTNASQLESLQKRYWYVLQDFTELNYPNQPNRFSDLLSC 188 (213)
T ss_pred CHHHHHHHHHHHHhCCC---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence 99999999999999999 899999999999999999999999999999999999999999
Q ss_pred cccccCCCcccch-hhhccc
Q psy16761 223 LPRLKSIPSLVLE-ELFFRN 241 (261)
Q Consensus 223 Lp~Lr~~~~~~~e-~l~f~~ 241 (261)
+|.||+++.+.+| ..++.|
T Consensus 189 L~~Lr~l~~~~~e~~~~~~~ 208 (213)
T cd06953 189 LPEIRAAAGKLLHSKLFYLP 208 (213)
T ss_pred hHHHHHHHHHHHHHHHHhhh
Confidence 9999999999888 344433
No 35
>KOG4215|consensus
Probab=99.94 E-value=1e-26 Score=204.84 Aligned_cols=186 Identities=20% Similarity=0.244 Sum_probs=161.0
Q ss_pred HHHHHHHHhhcCCCChHHHHHHHHHHhhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccc------
Q psy16761 45 RFQSVLNEFKVLNIDPYEYDYIRAITLFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKS------ 118 (261)
Q Consensus 45 ~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~------ 118 (261)
-..++.+.+++--+-..||+ |. .|.|..|+.+|||.+|+....+-++|+.++||+.++...++ ++..
T Consensus 155 t~~Dv~eSm~qqLlllVEWA--K~----i~~F~el~l~DqvaLLk~~a~~hllLg~a~RSm~l~~v~ll-~N~~v~~~~~ 227 (432)
T KOG4215|consen 155 TENDVCESMKQQLLLLVEWA--KY----IPPFCELPLDDQVALLKAHAGQHLLLGAAFRSMHLKDVCLL-NNTYVLHRHA 227 (432)
T ss_pred cHHHHHHHHHHHHHHHHHHH--Hh----ccchhcCCchhHHHHHHccchhhhhhhhhhccccccceEEe-cCceeeccCC
Confidence 35567777777777778887 33 49999999999999999999999999999999987555433 3332
Q ss_pred -cchhHH-HHHHHHHHHHHHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHH--HHHHHH
Q psy16761 119 -RHVDIE-EEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVI--AIAAIQ 194 (261)
Q Consensus 119 -~~~~~~-~~~~~l~~~~~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~i~~lq 194 (261)
.+.++. ..-+.|.+++.+|++|++|+.||+|||||+||+|| ..||++.. .|++.|
T Consensus 228 ~~~~eis~v~~RIiDElv~Pmr~L~md~~Ey~cLKAi~FfdP~---------------------akGis~~s~~~I~~aR 286 (432)
T KOG4215|consen 228 PDLPEISRVAPRIIDELVNPMRRLQMDEIEYVCLKAIAFFDPD---------------------AKGLSDPSQIRIREAR 286 (432)
T ss_pred CChHHHHHHHHHHHHHHhhHHHHhccchHHHHHHHHHHhcCcc---------------------ccccCCchHhHHHHHH
Confidence 222333 23456789999999999999999999999999999 99999987 899999
Q ss_pred HHHHHHHHHHHHhcCC-CCccHHHHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 195 GHTQIFLNKYIHTVYP-SQPTRFCKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 195 ~~~~~~L~~~~~~~~~-~~~~Rf~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
.+++.+|++||..+.| +.+.||++||++||.|.+++...+|.+.+.+++| -+.+++++.||+.+
T Consensus 287 ~~vl~sLe~yi~d~q~~d~~~R~g~LLLllPsLqsIt~qliE~iqlaklFG-la~vDsll~e~~l~ 351 (432)
T KOG4215|consen 287 NRVLKSLEAYISDRQPYDAPGRFGNLLLLLPSLQSITQQLIEQIQLAKLFG-LAKVDSLLQEFLLG 351 (432)
T ss_pred HHHHHHHHHHHhhcCccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHhHHHHHhhcC
Confidence 9999999999999886 7799999999999999999999999999999999 99999999999975
No 36
>cd06929 NR_LBD_F1 Ligand-binding domain of nuclear receptor family 1. Ligand-binding domain (LBD) of nuclear receptor (NR) family 1: This is one of the major subfamily of nuclear receptors, including thyroid receptor, retinoid acid receptor, ecdysone receptor, farnesoid X receptor, vitamin D receptor, and other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.92 E-value=5e-25 Score=182.03 Aligned_cols=142 Identities=21% Similarity=0.259 Sum_probs=128.0
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCChh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDPY 145 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~~ 145 (261)
.|+|..|+.+||+.++|++|.++++++.++++.+ +.+.+.+++|... .......+.+.+++.++++|++|.+
T Consensus 25 ip~F~~L~~~Dq~~Llk~~~~~l~~l~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~ 103 (174)
T cd06929 25 IPGFRELSQEDQIALLKGGCFEILLLRSATLYDP-EKNSLTFGDGKGNSRDVLLNGGFGEFIEPLFEFAEKMNKLQLDDN 103 (174)
T ss_pred CcCcccCChhHHHHHHHhcHHHHHHHHHHHHhcc-cCCeEEecCCceecHHHHHHcccHHHHHHHHHHHHHHHHcCCCHH
Confidence 6999999999999999999999999999987654 4556777777532 2345667888899999999999999
Q ss_pred hhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhccc
Q psy16761 146 EYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILPR 225 (261)
Q Consensus 146 E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp~ 225 (261)
||+|||||+||||| ++|+++...|++.|+++..+|++||..+||++|.||++|++++|.
T Consensus 104 E~~llkai~l~~pd---------------------~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~Ll~~l~~ 162 (174)
T cd06929 104 EYALLTAIVLFSPD---------------------RPGLQDVDTVEKLQERLLEALQRYLKVNHPDAPQMFAKLLKKLTE 162 (174)
T ss_pred HHHHHHHHHHhCCC---------------------cccCcCHHHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHhHH
Confidence 99999999999999 899999999999999999999999999999999999999999999
Q ss_pred ccCCCcccchh
Q psy16761 226 LKSIPSLVLEE 236 (261)
Q Consensus 226 Lr~~~~~~~e~ 236 (261)
||.++.+++|.
T Consensus 163 lr~l~~~~~e~ 173 (174)
T cd06929 163 LRTLNELHAEL 173 (174)
T ss_pred HHHHHHHHHhc
Confidence 99999988775
No 37
>cd06930 NR_LBD_F2 Ligand-binding domain of nuclear receptor family 2. Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.91 E-value=1.4e-23 Score=171.61 Aligned_cols=136 Identities=35% Similarity=0.518 Sum_probs=121.5
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCC-Cccccccccccc-------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLD-LGELVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~-~~~ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.++|.+|.+.+++..|+++...+ .+.+.+++|..+ ....+..+.+.+++.+|++|++|.
T Consensus 22 ~p~F~~L~~~Dq~~Llk~~~~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~ 101 (165)
T cd06930 22 LPAFRNLPLDDQLTLLQNSWAELLLLGLAQRSVHFELSELLLPSPLLVILTEREALLGLAELVQRLQELLSKLRSLQLDP 101 (165)
T ss_pred CCccccCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCcceeecCCcccchhhhhhhhHHHHHHHHHHHHHHHHHcCCCH
Confidence 599999999999999999999999999999998764 334555555433 234556778889999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcc
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILP 224 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp 224 (261)
+||++||||++|+|| ++|+++...|++.|+++..+|++||..++|++|.||++|++++|
T Consensus 102 ~E~~lLkai~l~~p~---------------------~~~l~~~~~v~~~q~~~~~aL~~~~~~~~~~~~~R~~~ll~~l~ 160 (165)
T cd06930 102 KEYACLKAIVLFNPD---------------------LPGLKNQQQVEELQEKAQQALQEYIRKRYPQQPARFAKLLLRLP 160 (165)
T ss_pred HHHHHHHHHHHcCCC---------------------CCCCcCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhH
Confidence 999999999999999 89999999999999999999999999999999999999999999
Q ss_pred cccCC
Q psy16761 225 RLKSI 229 (261)
Q Consensus 225 ~Lr~~ 229 (261)
.+|++
T Consensus 161 ~lr~~ 165 (165)
T cd06930 161 ELRSI 165 (165)
T ss_pred hhccC
Confidence 99974
No 38
>cd07074 NR_LBD_PR Ligand binding domain of the progesterone receptor, a member of the nuclear hormone receptor. The ligand binding domain of the progesterone receptor (PR): PR is a member of the nuclear receptor superfamily of ligand dependent transcription factors, mediating the biological actions of progesterone. PR functions in a variety of biological processes including development of the mammary gland, regulating cell cycle progression, protein processing, and metabolism. When no binding hormone is present the carboxyl terminal inhibits transcription. Binding to a hormone induces a structural change that removes the inhibitory action. After progesterone binds to the receptor, PR forms a dimer and the complex enters the nucleus where it interacts with the hormone response element (HRE) in the promoters of progesterone responsive genes and alters their transcription. In addition, rapid actions of PR that occur independent of transcription, have also been observed in several tissues
Probab=99.91 E-value=1.1e-23 Score=182.63 Aligned_cols=165 Identities=15% Similarity=0.153 Sum_probs=129.1
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcc-ccccccccc-------hhHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGE-LVESCKSRH-------VDIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~-ll~~~~~~~-------~~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.++|++|.++++++.+||+++.+.+. +.++.+... ..+.+.+..+.+++.+|+++++|.
T Consensus 51 lPgF~~L~~~DQi~LLk~sw~ellvL~~a~rS~~~~~~~~l~fa~d~~~~~~~~~~~~~~~~~~~m~e~~~~~~~L~ld~ 130 (248)
T cd07074 51 LPGFRNLHIDDQITLIQYSWMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKLQVSQ 130 (248)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCeEEecCCcccchhhhhhccHHHHHHHHHHHHHHHHHcCCCH
Confidence 599999999999999999999999999999998765443 444444322 124444556778999999999999
Q ss_pred hhhhhhhHhhhccc-CcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcC---CCCccHHHHHH
Q psy16761 145 YEYDYIRAITLFKT-VIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVY---PSQPTRFCKIQ 220 (261)
Q Consensus 145 ~E~~lLkai~l~~p-d~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~---~~~~~Rf~~LL 220 (261)
+||+|||||+|||| | ++||++..+|+++|++|..+|.+|+..++ +++|+||++|+
T Consensus 131 ~Ey~cLKAIvLfnp~d---------------------~~gL~~q~~Ve~lR~~y~~aL~~yi~~~~~~~~~~~~RF~~Ll 189 (248)
T cd07074 131 EEFLCMKALLLLNTIP---------------------LEGLRSQTQFDEMRSSYIRELIKAIGLRQKGVVASSQRFYQLT 189 (248)
T ss_pred HHHHHHHHHHHCCCCc---------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCccCcHHHHHHH
Confidence 99999999999999 7 89999999999999999999999976653 37899999999
Q ss_pred hhcccccCCCcccchhhhcccccC---CCCcHHHHHHHHHhc
Q psy16761 221 LILPRLKSIPSLVLEELFFRNIIG---HNTTIKKTIWHMYKN 259 (261)
Q Consensus 221 ~~Lp~Lr~~~~~~~e~l~f~~~~g---~~~~i~~ll~eml~~ 259 (261)
++++.++.+-. ....++|..... -.+..+..+.|++.+
T Consensus 190 ~ll~~l~~~~k-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (248)
T cd07074 190 KLMDNMHDLVK-QLHLYCLNTFIQSRALSVEFPEMMSEVIAA 230 (248)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHhhhhheeecHHHHHHHHHh
Confidence 99999993322 222333322221 145667777777653
No 39
>cd06942 NR_LBD_Sex_1_like The ligand binding domain of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein. The ligand binding domain (LBD) of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein like: Sex-1 protein of C. elegans is a transcription factor belonging to the nuclear receptor superfamily. Sex-1 plays pivotal role in sex fate of C. elegans by regulating the transcription of the sex-determination gene xol-1, which specifies male (XO) fate when active and hermaphrodite (XX) fate when inactive. The Sex-1 protein directly represses xol-1 transcription by binding to its promoter. However, the active ligand for Sex-1 protein has not yet been identified. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Sex-1 like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.90 E-value=3e-23 Score=174.41 Aligned_cols=145 Identities=17% Similarity=0.063 Sum_probs=124.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc--h------hHHHHHHHHHHHHHHHHhcCCCh
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH--V------DIEEEVIRFQSVLNEFKVLNIDP 144 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~--~------~~~~~~~~l~~~~~~l~~L~l~~ 144 (261)
.|+|..|+.+||+.+++.+|.+++++++++++.+. . .+.++|... . ...+.++.+.+++.++++|++|+
T Consensus 25 iPgF~~L~~~DQi~LLk~~~~e~~ll~~~~~~~~~--~-~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~ 101 (191)
T cd06942 25 IPGFNQLSGEDRAQLLKGNMFPLYLLRLSRDYNNE--G-TVLCDFRPVEFASLLSQLLHGKLIDEMLQFANKILTLNLTN 101 (191)
T ss_pred CCCcccCChhHHHHHHHHHHHHHHHHHHHHHhCcC--C-eEEeCCccccHHHHHHhcchHHHHHHHHHHHHHHHHcCCCH
Confidence 69999999999999999999999999988765443 2 344444432 1 22455677889999999999999
Q ss_pred hhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHhhcc
Q psy16761 145 YEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKIQLILP 224 (261)
Q Consensus 145 ~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~LL~~Lp 224 (261)
+||+||+||++||||. .++|+++...|+++|+.+..+|.+||..+||+.+.||++|++++|
T Consensus 102 ~E~~lL~Aivl~~pd~-------------------~~~~l~~~~~v~~~q~~l~~~L~~~~~~~~~~~~~rf~kLL~~l~ 162 (191)
T cd06942 102 AELALLCAAELLQPDS-------------------LGIQLEETAKSNLQLSVLFQFLKSVLFKDGEDTEQRLQKLFDILN 162 (191)
T ss_pred HHHHHHHHHHHhCCCC-------------------CCCCccchHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence 9999999999999981 257999999999999999999999999999999999999999999
Q ss_pred cccCCCcccchhhhc
Q psy16761 225 RLKSIPSLVLEELFF 239 (261)
Q Consensus 225 ~Lr~~~~~~~e~l~f 239 (261)
.||+++..+.+.+..
T Consensus 163 ~Lr~~~~~~~~~l~~ 177 (191)
T cd06942 163 RLRNMNKEHQNILAD 177 (191)
T ss_pred HHHHHHHHHHHHHHc
Confidence 999999998885543
No 40
>cd06157 NR_LBD The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators. Ligand-binding domain (LBD) of nuclear receptor (NR): Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions in metazoans, from development, reproduction, to homeostasis and metabolism. The superfamily contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. The members of the family include receptors of steroids, thyroid hormone, retinoids, cholesterol by-products, lipids and heme. With few exceptions, NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.79 E-value=2.4e-18 Score=139.65 Aligned_cols=136 Identities=26% Similarity=0.400 Sum_probs=117.5
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcccccccccc-----c-----hhHHHHHHHHHHHHHHHHhcCC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSR-----H-----VDIEEEVIRFQSVLNEFKVLNI 142 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~-----~-----~~~~~~~~~l~~~~~~l~~L~l 142 (261)
.|+|..|+.+||+.++|..|.+..++..++++..........+++.. . .......+.+.+++.+|++|++
T Consensus 21 ~~~f~~L~~~dq~~Llk~~~~~~~~L~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~l 100 (168)
T cd06157 21 IPGFRELPLEDQIVLLKSFWLELLVLDLAYRSYKNGLSLLLAPNGGHTDDDKEDEMKLLLKGELIRLLFEFVNPLRALKL 100 (168)
T ss_pred CCchhcCChHHHHHHHHHHhHHHHHHHHHHHHHhcCCCcEEeecccccccCchHHHHHhHHHHHHHHHHHHHHHHHHhCC
Confidence 59999999999999999999999999999999887666555444321 0 2223445677899999999999
Q ss_pred ChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCc-CcCcHHHHHHHHHHHHHHHHHHHHhcCC-CCccHHHHHH
Q psy16761 143 DPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPES-CLRDVIAIAAIQGHTQIFLNKYIHTVYP-SQPTRFCKIQ 220 (261)
Q Consensus 143 ~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~i~~lq~~~~~~L~~~~~~~~~-~~~~Rf~~LL 220 (261)
|++||++|+|+++|+|+ .+ +..+...+++.|+++..+|+.|+..+++ +++.||++|+
T Consensus 101 ~~~E~~~l~ai~l~~~~---------------------~~~s~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll 159 (168)
T cd06157 101 DDEEYALLKAIVLFSPD---------------------RKESLEDRKIVEELQERLLEALQDYLRKNYPEEAPSRFAKLL 159 (168)
T ss_pred CHHHHHHHHHHHHhCCC---------------------CCCCccCHHHHHHHHHHHHHHHHHHHHHhCCccchhHHHHHH
Confidence 99999999999999999 66 6778899999999999999999999987 8999999999
Q ss_pred hhcccccCC
Q psy16761 221 LILPRLKSI 229 (261)
Q Consensus 221 ~~Lp~Lr~~ 229 (261)
+++|.+|.+
T Consensus 160 ~~l~~l~~~ 168 (168)
T cd06157 160 LLLPSLRKL 168 (168)
T ss_pred HhchhcccC
Confidence 999999864
No 41
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=99.79 E-value=1.6e-18 Score=140.02 Aligned_cols=136 Identities=22% Similarity=0.269 Sum_probs=117.4
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc----------hhHHHHHHHHHHHHHHHHhcCC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH----------VDIEEEVIRFQSVLNEFKVLNI 142 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~----------~~~~~~~~~l~~~~~~l~~L~l 142 (261)
.|+|..|+.+||+.+++.+|.+..++..++++...+...++.+++... .......+.+.+++.++++|++
T Consensus 15 ~~~f~~L~~~dq~~Llk~~~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l 94 (163)
T smart00430 15 FPFFRELSQEDKLILLKHFWFEWLLLESAYRSAKMKKSLLLLPDGTFIDNDKVDLLRKLFSPFLDRILQELVKPLRELKL 94 (163)
T ss_pred ChhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCEEEeCCCcccCcchhHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 599999999999999999999999999999988766555555555432 1122345677899999999999
Q ss_pred ChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcH--HHHHHHHHHHHHHHHHHHHhcCC-CCccHHHHH
Q psy16761 143 DPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDV--IAIAAIQGHTQIFLNKYIHTVYP-SQPTRFCKI 219 (261)
Q Consensus 143 ~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~i~~lq~~~~~~L~~~~~~~~~-~~~~Rf~~L 219 (261)
|++||++|+|+++|+|+ .+|+++. ..+++.|+.+..+|++|+..+++ +++.||++|
T Consensus 95 ~~~E~~~l~ai~l~~~~---------------------~~~l~~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~l 153 (163)
T smart00430 95 DDEEYALLKAILLFNPA---------------------GPGLSEEGKEILEKLQEKLANALHDYYLKNYPMNYPGRFGEL 153 (163)
T ss_pred CHHHHHHHHHHHHcChh---------------------hhhhChHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHHH
Confidence 99999999999999999 8899888 78999999999999999998888 678999999
Q ss_pred HhhcccccCC
Q psy16761 220 QLILPRLKSI 229 (261)
Q Consensus 220 L~~Lp~Lr~~ 229 (261)
++++|.++.+
T Consensus 154 l~~l~~i~~~ 163 (163)
T smart00430 154 LLILNAIQKI 163 (163)
T ss_pred HHHHHHhhcC
Confidence 9999999863
No 42
>PF00104 Hormone_recep: Ligand-binding domain of nuclear hormone receptor; InterPro: IPR000536 Steroid or nuclear hormone receptors constitute an important superfamily of transcription regulators that are involved in widely diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. The receptors function as dimeric molecules in nuclei to regulate the transcription of target genes in a ligand-responsive manner. Nuclear hormone receptors consist of a highly conserved DNA-binding domain that recognises specific sequences (IPR001628 from INTERPRO), connected via a linker region to a C-terminal ligand-binding domain. In addition, certain nuclear hormone receptors have an N-terminal modulatory domain (IPR001292 from INTERPRO). The ligand-binding domain acts in response to ligand binding, which caused a conformational change in the receptor to induce a response, thereby acting as a molecular switch to turn on transcriptional activity []. For example, after binding of the glucocorticoid receptor to the corticosteroid ligand, the receptor is induced to perform functions ranging from nuclear translocation, oligomerisation, cofactor/kinase/transcription factor association, and DNA binding []. The ligand-binding domain is a flexible unit, where the binding of a ligand stabilises its conformation, which in turn favours coactivator binding to modify receptor activity []; the coactivator can bind to the activator function 2 (AF2) site at the C-terminal end of the ligand-binding domain []. The binding of different ligands can alter the conformation of the ligand-binding domain, which ultimately affects the DNA-binding specificity of the DNA-binding domain. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components. This entry represents the C-terminal ligand-binding domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0003707 steroid hormone receptor activity, 0006355 regulation of transcription, DNA-dependent, 0043401 steroid hormone mediated signaling pathway, 0005634 nucleus; PDB: 3IXP_D 1R20_D 2R40_D 1R1K_D 1PDU_B 1OSH_A 3GD2_A 3DCT_A 3OMK_C 3FLI_A ....
Probab=99.77 E-value=3.9e-18 Score=142.68 Aligned_cols=149 Identities=25% Similarity=0.361 Sum_probs=126.3
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc----------hhHHHHHHHHHHHHHHHHhcCC
Q psy16761 73 KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH----------VDIEEEVIRFQSVLNEFKVLNI 142 (261)
Q Consensus 73 ~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~----------~~~~~~~~~l~~~~~~l~~L~l 142 (261)
.|+|..|+.+||..+++..|.+.+++..++++...+.+.+..++|... ....+.++.+.+++.+|+++++
T Consensus 40 ~p~f~~L~~~dk~~Llk~~~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l 119 (203)
T PF00104_consen 40 FPEFSELSMEDKIALLKSSWFELFILELAYRSYQCNQDQLMFPNGTFIDKDSFDDFITGIFSEFIQYMNEVLRPFRRLKL 119 (203)
T ss_dssp STTGGGS-HHHHHHHHHHHHHHHHHHHHHHHEEHTTTTEEEETTTEEEEHHHHHHTSTTTHHHHHHHHHHHHHHHHHTT-
T ss_pred CcCHHhhhhhhhhhHHhhhcccccchhhhhhhcccccccccccccccccccccccccccccccchhHHHHHHHHHHHhhh
Confidence 699999999999999999999999999999987334455566666532 2345667788999999999999
Q ss_pred ChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcC-cHHH-HHHHHHHHHHHHHHHH-HhcCCCC-ccHHHH
Q psy16761 143 DPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLR-DVIA-IAAIQGHTQIFLNKYI-HTVYPSQ-PTRFCK 218 (261)
Q Consensus 143 ~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-i~~lq~~~~~~L~~~~-~~~~~~~-~~Rf~~ 218 (261)
|.+||++++|+++|+|+ .++++ +..+ ++++|+++..+|.+|+ ...++.+ +.||++
T Consensus 120 ~~~E~~~l~~l~l~~~~---------------------~~~~~~~~~~~~~~~r~~~~~~L~~y~~~~~~~~~~~~R~~~ 178 (203)
T PF00104_consen 120 DEEEFALLKALILFNPD---------------------YPGLSEETREIVEELRDRIIQALHSYYNQSKGPEDYAQRFGK 178 (203)
T ss_dssp BHHHHHHHHHHHHSSTT---------------------STTHS-SHHHHHHHHHHHHHHHHHHHHHHHHSTTTHTTHHHH
T ss_pred hhHHHHHHHHHhhhccc---------------------ccccccchhHHHHHHHHHHHHHHHHHHhccCCCccHHHHHHH
Confidence 99999999999999999 78887 6655 8999999999999999 7677655 899999
Q ss_pred HHhhcccccCCCcccchhhhcccc
Q psy16761 219 IQLILPRLKSIPSLVLEELFFRNI 242 (261)
Q Consensus 219 LL~~Lp~Lr~~~~~~~e~l~f~~~ 242 (261)
|+.++|.++.++....+..++.++
T Consensus 179 ll~ll~~l~~~~~~~~e~~~~~~l 202 (203)
T PF00104_consen 179 LLLLLPSLRKISEKHIENMFLSDL 202 (203)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhHHhh
Confidence 999999999999999998887664
No 43
>KOG4217|consensus
Probab=99.74 E-value=1.4e-17 Score=151.12 Aligned_cols=172 Identities=17% Similarity=0.215 Sum_probs=154.8
Q ss_pred HHHHHHhhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccc------hhHHHHHHHHHHHHHHHH
Q psy16761 65 YIRAITLFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRH------VDIEEEVIRFQSVLNEFK 138 (261)
Q Consensus 65 ~Lkaivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~------~~~~~~~~~l~~~~~~l~ 138 (261)
.+|.+..-+|+|.+|..+||-.+++.+..|+|+|++|+|+.. ..+.+++.+|... .++.++++.+.+|...++
T Consensus 423 virk~aekiPgf~el~paDq~lLlesaflelfvlRlAyRs~~-~e~kliFcsG~vlhr~qC~rgfgewidsi~~FS~~l~ 501 (605)
T KOG4217|consen 423 VIRKWAEKIPGFAELPPADQDLLLESAFLELFVLRLAYRSNP-SEDKLIFCSGLVLHRLQCLRGFGEWIDSIREFSRSLH 501 (605)
T ss_pred HHHHHHHhCcCcccCChhhHHHHHHHHHHHHHHHHHHHhcCC-CCCeEEEecchhhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445556668999999999999999999999999999999865 6677888888754 788899999999999999
Q ss_pred hcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcC--CCCccHH
Q psy16761 139 VLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVY--PSQPTRF 216 (261)
Q Consensus 139 ~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~--~~~~~Rf 216 (261)
.+++|-..|+||.|+++.. + ++||+++..|+++|+++..+|.+|+.... ...+.|+
T Consensus 502 ~l~idi~AfacL~aLa~iT-E---------------------rhGL~epkrVeelqnkIi~~LKDHvt~~~~~~~k~~~l 559 (605)
T KOG4217|consen 502 SLNIDISAFACLSALALIT-E---------------------RHGLKEPKRVEELQNKIINCLKDHVTGSAGKLAKPVYL 559 (605)
T ss_pred hchhhHHHHHHHHHHHhhh-h---------------------hhcCCCcchHHHHHHHHHHHHHHHhhhcccccccchHH
Confidence 9999999999999999876 3 78999999999999999999999996543 3668899
Q ss_pred HHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhcC
Q psy16761 217 CKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKNA 260 (261)
Q Consensus 217 ~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~~ 260 (261)
.++|.+||+||.++...+.++|+.++.. -+|++.+|..|+..+
T Consensus 560 SrllgklpeLr~l~tqgLqrifyLklEd-lvp~p~iidklf~dt 602 (605)
T KOG4217|consen 560 SRLLGKLPELRTLCTQGLQRIFYLKLED-LVPPPAIIDKLFLDT 602 (605)
T ss_pred HHHhhhhHHHHHHHHHhhhhhhcccHhh-ccCchhhhhhhhhcc
Confidence 9999999999999999999999999999 999999998887643
No 44
>KOG4218|consensus
Probab=99.67 E-value=1.7e-16 Score=139.38 Aligned_cols=172 Identities=16% Similarity=0.275 Sum_probs=147.1
Q ss_pred HHHHHhh---ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCC-CCccccccccccc----------hhHHHHHHHHH
Q psy16761 66 IRAITLF---KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSL-DLGELVESCKSRH----------VDIEEEVIRFQ 131 (261)
Q Consensus 66 Lkaivlf---~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~-~~~~ll~~~~~~~----------~~~~~~~~~l~ 131 (261)
++.||.+ .-.|+.|+-+||..+||.+|.+++++...++-... +.+++....|... .-....+..-+
T Consensus 287 l~sIV~WAr~~~~F~eL~vdDQM~LLQncWselli~DhiyrqV~hgkegsi~lvtGqeV~~~~vA~qags~l~tlvs~aq 366 (475)
T KOG4218|consen 287 LKSIVIWARNDQLFSELSVDDQMILLQNCWSELLIVDHIYRQVHHGKEGSIKLVTGQEVPVGLVALQAGSLLQTLVSSAQ 366 (475)
T ss_pred HHHHHHHHhhhhHHHhcchhhHHHHHHHhhHHHHHHHHHHHHHhcCcccceEEecCCcccchhHhhhhhhHHHHHHHHHH
Confidence 4556666 34689999999999999999999999999876543 3344433333321 11334566778
Q ss_pred HHHHHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy16761 132 SVLNEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPS 211 (261)
Q Consensus 132 ~~~~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~ 211 (261)
+++.+++.|++|..||+|||-++||+-| ..-|++.+.|+.+|+....+|-+|...+||+
T Consensus 367 elV~~Lr~lqfd~~efvclkFl~LFsld---------------------~kfLenf~lv~~~qe~~naaLldyt~c~yp~ 425 (475)
T KOG4218|consen 367 ELVIRLRNLQFDNFEFVCLKFLALFSLD---------------------MKFLENFELVRRLQEDSNAALLDYTSCCYPN 425 (475)
T ss_pred HHHHHHHhcCCccchhhHHHHHHHHhhh---------------------HHHHHHHHHHHHHHHHHHHHHHHhhccCCcc
Confidence 9999999999999999999999999999 6788999999999999999999999999999
Q ss_pred CccHHHHHHhhcccccCCCcccchhhhcccccCCCCcHHHHHHHHHhc
Q psy16761 212 QPTRFCKIQLILPRLKSIPSLVLEELFFRNIIGHNTTIKKTIWHMYKN 259 (261)
Q Consensus 212 ~~~Rf~~LL~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~i~~ll~eml~~ 259 (261)
....|+++++.|+.+|.++.+..|-++...+-+ ++|=.+++.||+.+
T Consensus 426 ~~~kF~qllL~L~eiRa~smqa~eyly~khl~~-~~p~nnllieml~A 472 (475)
T KOG4218|consen 426 WEQKFPQLLLVLEEIRATSMQAAEYLYTKHLQV-PAPQNNLLIEMLTA 472 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CccccchHHHHhhc
Confidence 999999999999999999999999999999999 99999999999976
No 45
>cd07350 NR_LBD_Dax1 The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the DAX1 protein: DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) is a nuclear receptor with a typical ligand binding domain, but lacks the DNA binding domain. DAX1 plays an important role in the normal development of several hormone-producing tissues. Duplications of the region of the X chromosome containing DAX1 cause dosage sensitive sex reversal. DAX1 acts as a global repressor of many nuclear receptors, including SF-1, LRH-1, ERR, ER, AR and PR. DAX1 can form homodimer and heterodimerizes with its alternatively spliced isoform DAX1A and other nuclear receptors such as SHP, ERalpha and SF-1.
Probab=99.65 E-value=1.4e-15 Score=131.37 Aligned_cols=136 Identities=15% Similarity=0.197 Sum_probs=99.8
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccc---------ccccccc--------------------cc-chHHHHHHHHHHH
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGEL---------VESCKSR--------------------HV-DIEEEVIRFQSVL 50 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l---------~~~~~~~--------------------~~-~~~~~~~~~~~~~ 50 (261)
++|||+||.|+|+|++|||+++++.... +.+.... .. .....++.+++++
T Consensus 54 i~LLk~~W~El~iL~~a~~s~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~e~~ 133 (232)
T cd07350 54 LVLVRSCWAPLLVLGLAQDGVDFETVETSEPSMLQRILTTRPPPTSGAEPGEPQALPQMPQAEASHLPSAADIRAIKAFL 133 (232)
T ss_pred HHHHHHhhHHHHHHHHHHHcCCCccccccchhHHHHHHhcccccccccccccccccccccchhhccccHHHHHHHHHHHH
Confidence 3799999999999999999998876432 2211100 00 1123467899999
Q ss_pred HHhhcCCCChHHHHHHHHHHhhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHH
Q psy16761 51 NEFKVLNIDPYEYDYIRAITLFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRF 130 (261)
Q Consensus 51 ~~~~~l~ld~~E~~~Lkaivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l 130 (261)
.+|+++++|.+||+|||||++|+||.++|.+.++|+.+|+.+..++.-++..+. +. ....+..+
T Consensus 134 ~~l~~L~ld~~E~a~LkAivLf~pD~~~L~~~~~Ve~lQe~~~~aL~~yi~~~~-p~---------------~~~rf~kL 197 (232)
T cd07350 134 AKCWSLDISTKEYAYLKGTVLFNPDLPGLQCVQYIQGLQWEAQQALNEHVRMIH-RG---------------DQARFAKL 197 (232)
T ss_pred HHHHHcCCCHHHHHHHHHHHHhCCCcccCCCHHHHHHHHHHHHHHHHHHHHhhC-CC---------------hhhHHHHH
Confidence 999999999999999999999999999999999999999999998875554321 10 11234445
Q ss_pred HHHHHHHHhcCCChhhhhhhhH
Q psy16761 131 QSVLNEFKVLNIDPYEYDYIRA 152 (261)
Q Consensus 131 ~~~~~~l~~L~l~~~E~~lLka 152 (261)
...+..+|.+.-...|....+-
T Consensus 198 Ll~Lp~LRsi~~~~iE~lff~~ 219 (232)
T cd07350 198 NIALSLLRAINANVIAELFFRP 219 (232)
T ss_pred HHHhHHHHccCHHHHHHHhccc
Confidence 5666677777777776655443
No 46
>cd07076 NR_LBD_GR Ligand binding domain of the glucocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the glucocorticoid receptor (GR): GR is a ligand-activated transcription factor belonging to the nuclear receptor superfamily. It binds with high affinity to cortisol and other glucocorticoids. GR is expressed in almost every cell in the body and regulates genes controlling a wide variety of processes including the development, metabolism, and immune response of the organism. In the absence of hormone, the glucocorticoid receptor (GR) is complexes with a variety of heat shock proteins in the cytosol. The binding of the glucocorticoids results in release of the heat shock proteins and transforms it to its active state. One mechanism of action of GR is by direct activation of gene transcription. The activated form of GR forms dimers, translocates into the nucleus, and binds to specific hormone responsive elements, activating gene transcription
Probab=99.64 E-value=1e-15 Score=133.07 Aligned_cols=102 Identities=14% Similarity=0.072 Sum_probs=85.4
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCc--ccccccc----c--cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLG--ELVESCK----S--RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLF 72 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~--~l~~~~~----~--~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf 72 (261)
++|||+||+|++++++|||+.+.+++ .+++++. + +..+..+..+.+++++.+|+++++|.+||+|||||++|
T Consensus 63 i~LLk~sW~Ellvl~~a~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~~~~~l~e~~~~~r~L~ld~~EfacLKAIvLf 142 (247)
T cd07076 63 MTLLQYSWMFLMAFALGWRSYRQSNGNLLCFAPDLIINEQRMTLPCMYDQCKHMLYVSSELHRLQVSYEEYLCMKTLLLL 142 (247)
T ss_pred HHHHHHhHHHHHHHHHHHhccCCCCCceEEecCCeeecHHHHhhhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhC
Confidence 37999999999999999999988665 3455541 1 12234455678899999999999999999999999999
Q ss_pred cc-ccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 73 KT-AFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 73 ~p-~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
+| +.+||.+..+|+.+|+++..++.-+...
T Consensus 143 np~d~~GL~~~~~Ve~lqe~~~~aL~~yi~~ 173 (247)
T cd07076 143 STVPKDGLKSQELFDEIRMTYIKELGKAIVK 173 (247)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 99 9999999999999999999988766553
No 47
>cd07349 NR_LBD_SHP The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the Small Heterodimer Partner (SHP): SHP is a member of the nuclear receptor superfamily. SHP has a ligand binding domain, but lacks the DNA binding domain, typical to almost all of the nuclear receptors. It functions as a transcriptional coregulator by directly interacting with other nuclear receptors through its AF-2 motif. The closest relative of SHP is DAX1 and they can form heterodimer. SHP is an orphan receptor, lacking an identified ligand.
Probab=99.64 E-value=1.8e-15 Score=129.86 Aligned_cols=135 Identities=22% Similarity=0.271 Sum_probs=98.0
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcc---------ccccccc--c-------ccchHHHHHHHHHHHHHhhcCCCChHH
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGE---------LVESCKS--R-------HVDIEEEVIRFQSVLNEFKVLNIDPYE 62 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~---------l~~~~~~--~-------~~~~~~~~~~~~~~~~~~~~l~ld~~E 62 (261)
++|||++|.|+|+|++|||+++++... ++.++.. . .......++.+++++.+|+++++|.+|
T Consensus 54 i~LLk~~W~EL~iL~laq~s~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~e~~~~l~~L~ld~~E 133 (222)
T cd07349 54 LLLLQNCWGPLFLLGLAQDRVTFEVAEAPVPSMLKKILLEGQSSSGGSGQPDRPQPSLAAVQWLQCCLNKFWSLDLSPKE 133 (222)
T ss_pred HHHHHHccHHHHHHHHHHHccccccccccchhHHHHHHhcccccccccchhhhhhhHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 379999999999999999999887542 2222210 1 111234467789999999999999999
Q ss_pred HHHHHHHHhhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHHHHHHHHHHhcCC
Q psy16761 63 YDYIRAITLFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRFQSVLNEFKVLNI 142 (261)
Q Consensus 63 ~~~Lkaivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l~~~~~~l~~L~l 142 (261)
|+|||||++|+||.+||.+.++|+.+|+.+.+++.-+.... .+. -...+.++...+..+|.+.-
T Consensus 134 ya~LkaivLf~pd~~gl~~~~~V~~lqe~~~~aL~~~~~~~-~p~---------------~~~r~~kLLl~Lp~LR~i~~ 197 (222)
T cd07349 134 YAYLKGTILFNPDVPGLTASSHVGHLQQEAQWALCEVLEPL-HPQ---------------DQGRFARILLTASTLKSIPP 197 (222)
T ss_pred HHHHHHHHHcCCCcccCCCHHHHHHHHHHHHHHHHHHHHHH-CCC---------------cccHHHHHHHHhHHHhcCCH
Confidence 99999999999999999999999999999999887554422 221 11123344556666777776
Q ss_pred Chhhhhhhh
Q psy16761 143 DPYEYDYIR 151 (261)
Q Consensus 143 ~~~E~~lLk 151 (261)
...|....+
T Consensus 198 ~~ie~lff~ 206 (222)
T cd07349 198 SLITDLFFR 206 (222)
T ss_pred HHHHHHhCc
Confidence 666664433
No 48
>cd07075 NR_LBD_MR Ligand binding domain of the mineralocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the mineralocorticoid receptor (MR): MR, also called aldosterone receptor, is a member of nuclear receptor superfamily involved in the regulation of electrolyte and fluid balance. The receptor is activated by mineralocorticoids such as aldosterone and deoxycorticosterone as well as glucocorticoids, like cortisol and cortisone. Binding of its ligand results in its translocation to the cell nucleus, homodimerization and binding to hormone response elements (HREs) present in the promoter of MR controlled genes. This results in the recruitment of the coactivators and the transcription of the activated genes. MR is expressed in many tissues and its activation results in the expression of proteins regulating electrolyte and fluid balance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, MR h
Probab=99.64 E-value=2.4e-15 Score=130.77 Aligned_cols=138 Identities=14% Similarity=0.121 Sum_probs=102.4
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCc--ccccccc----cc--ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLG--ELVESCK----SR--HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLF 72 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~--~l~~~~~----~~--~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf 72 (261)
++|||+||+|++++++|||+.+.++. ..++++. +. ..+..+.++.+++++.+|+++++|.+||+|||||++|
T Consensus 63 i~LLk~~w~EllvL~~a~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~L~Ld~~E~acLKAIvLf 142 (248)
T cd07075 63 ITLIQYSWMCLSSFALSWRSYKHTNSQFLYFAPDLVFNEERMHQSAMYELCQGMHQISLQFVRLQLTFEEYTIMKVLLLL 142 (248)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCceEEecCCccccHHHHhhccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence 37999999999999999999988655 4555542 11 2244566678889999999999999999999999999
Q ss_pred ccc-cccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHHHHHHHHHHhcCCChhhhhhhh
Q psy16761 73 KTA-FTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIR 151 (261)
Q Consensus 73 ~p~-f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l~~~~~~l~~L~l~~~E~~lLk 151 (261)
+|| .+||.+.++|+.+|+++..++--++.++. + +.. .....+..+......++.+.....|+.+..
T Consensus 143 n~d~~~gL~~~~~Ve~lqe~~~~aL~~yi~~~~-~-~~~-----------~~~~RF~~LLllLp~Lr~i~~k~iE~lff~ 209 (248)
T cd07075 143 STIPKDGLKSQAAFEEMRTNYIKELRKMVTKAP-N-NSG-----------QSWQRFYQLTKLLDSMHDLVSDLLEFCFYT 209 (248)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcC-C-Ccc-----------cchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 996 79999999999999999999986665321 1 100 111223344455666677777777776544
No 49
>cd06937 NR_LBD_RAR The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily. The ligand binding domain (LBD) of retinoic acid receptor (RAR): Retinoic acid receptors are members of the nuclear receptor (NR) superfamily of ligand-regulated transcription factors. RARs mediate the biological effect of retinoids, including both naturally dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RARs function as heterodimers with retinoic X receptors by binding to specific RAR response elements (RAREs) found in the promoter regions of retinoid target genes. In the absence of ligand, the RAR-RXR heterodimer recruits the corepressor proteins NCoR or AMRT, and associated factors such as histone deacetylases or DNA-methyltransferases, leading to
Probab=99.63 E-value=1.2e-15 Score=131.88 Aligned_cols=101 Identities=15% Similarity=0.053 Sum_probs=88.1
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
++|||+||.|++++++|||+.|.+++..++++.. ...+.......+.+++++|+++++|.+||+|||||++|+|
T Consensus 73 i~LLk~~w~El~~L~~a~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~alLkAivLf~p 152 (231)
T cd06937 73 ITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFTFANQLLPLEMDDTEIGLLSAICLICG 152 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCeEEecCCceecHHHHhhcChHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCC
Confidence 3799999999999999999999988888877621 1224455677788999999999999999999999999999
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 75 AFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 75 ~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
|.+||.+.++|+.+|+++.+++.-+..
T Consensus 153 Dr~gL~~~~~Ve~lQe~~~~aL~~yi~ 179 (231)
T cd06937 153 DRQDLEEPDRVEKLQEPLLEALKIYAR 179 (231)
T ss_pred CCccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999986554
No 50
>cd07348 NR_LBD_NGFI-B The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of Nerve growth factor-induced-B (NGFI-B): NGFI-B is a member of the nuclear#steroid receptor superfamily. NGFI-B is classified as an orphan receptor because no ligand has yet been identified. NGFI-B is an early immediate gene product of the embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as neuronal differentiation and function. NGFI-B regulates transcription by binding to a specific DNA target upstream of its target genes and regulating the rate of transcriptional initiation. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, NGFI-B has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LB
Probab=99.63 E-value=2.1e-15 Score=130.65 Aligned_cols=101 Identities=17% Similarity=0.130 Sum_probs=88.7
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc--c---ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS--R---HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~--~---~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
++|||+||.|+|+|++|||+.+.+++.+++++.. + ..+..+.++.+++++.+++++++|.+||+|||||++| ||
T Consensus 76 i~LLk~~w~El~vL~~a~r~~~~~~~l~f~~~~~~~r~~~~~~~~~~~~~i~ef~~~l~~L~ld~~E~a~LkAIvLf-~D 154 (238)
T cd07348 76 ELLLESAFVELFILRLAYRSNPEEGKLIFCNGVVLHRTQCVRGFGDWIDSILEFSQSLHRMNLDVSAFSCLAALVII-TD 154 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCeEEeeCCeeecHHHHHhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHc-CC
Confidence 3799999999999999999999999888887621 1 2345667888999999999999999999999999999 89
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
.+||.+.++|+.+|+.+.+++.-+...
T Consensus 155 r~gL~~~~~Ve~lQe~~~~aL~~yi~~ 181 (238)
T cd07348 155 RHGLKEPKRVEELQNRLISCLKEHVSG 181 (238)
T ss_pred CcCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999866553
No 51
>cd06947 NR_LBD_GR_Like Ligand binding domain of nuclear hormone receptors:glucocorticoid receptor, mineralocorticoid receptor , progesterone receptor, and androgen receptor. The ligand binding domain of GR_like nuclear receptors: This family of NRs includes four distinct, but closely related nuclear hormone receptors: glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), and androgen receptor (AR). These four receptors play key roles in some of the most fundamental physiological functions such as the stress response, metabolism, electrolyte homeostasis, immune function, growth, development, and reproduction. The NRs in this family use multiple signaling pathways and share similar functional mechanisms. The dominant signaling pathway is via direct DNA binding and transcriptional regulation of target genes. Another mechanism is via protein-protein interactions, mainly with other transcription factors such as nuclear factor-kappaB and activator prote
Probab=99.63 E-value=2.6e-15 Score=130.70 Aligned_cols=138 Identities=10% Similarity=0.108 Sum_probs=100.6
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCc--ccccccc----c--cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLG--ELVESCK----S--RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLF 72 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~--~l~~~~~----~--~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf 72 (261)
++|||+||.|++++++|||+.+..+. .+++++. + +..+..+.+..+.+++.+|+++++|.+||+|||||++|
T Consensus 63 i~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~L~ld~~E~acLKAIvLf 142 (246)
T cd06947 63 MTLIQYSWMSLMVFALGWRSYKHVNSQMLYFAPDLVFNEQRMHQSAMYSLCLGMRQISQEFVRLQVTYEEFLCMKVLLLL 142 (246)
T ss_pred HHHHHHhHHHHHHHHHHHhhccCCCCCeEEecCCeeecHHHhhhccHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHc
Confidence 36999999999999999999887654 3344431 1 12234455667889999999999999999999999999
Q ss_pred cc-ccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHHHHHHHHHHhcCCChhhhhhhh
Q psy16761 73 KT-AFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIR 151 (261)
Q Consensus 73 ~p-~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l~~~~~~l~~L~l~~~E~~lLk 151 (261)
+| +.+||.+..+|+.+|+++.+++.-+...+... . ......+..+......++.+.....|+.+.+
T Consensus 143 n~~d~~gL~~~~~Ve~lqe~i~~AL~~yi~~~~~~--~-----------~~~~~Rf~kLLllLp~Lr~i~~~~~e~~~~~ 209 (246)
T cd06947 143 STIPKDGLKSQAAFDEMRMNYIKELRKAIVKREKN--S-----------SQSWQRFYQLTKLLDSMHDLVKNLLQFCFYT 209 (246)
T ss_pred CCCccccccCHHHHHHHHHHHHHHHHHHHHHhCCC--C-----------cccchHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 99 79999999999999999999988666533210 0 0111123334455566666666677776655
No 52
>cd07069 NR_LBD_Lrh-1 The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,. The ligand binding domain (LBD) of the liver receptor homolog-1 (LRH-1): LRH-1 belongs to nuclear hormone receptor superfamily, and is expressed mainly in the liver, intestine, exocrine pancreas, and ovary. Most nuclear receptors function as homodimer or heterodimers. However, LRH-1 binds DNA as a monomer, and is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. Recently, phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, LRH-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.62 E-value=3.9e-15 Score=129.40 Aligned_cols=134 Identities=15% Similarity=0.158 Sum_probs=98.1
Q ss_pred ChhhhhccHHHHHHHHHhhcCCC--CCccccccccc--c------c-cchHHHHHHHHHHHHHhhcCCCChHHHHHHHHH
Q psy16761 1 HLLLAESWRELFILGLAQYLPSL--DLGELVESCKS--R------H-VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAI 69 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~--~~~~l~~~~~~--~------~-~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkai 69 (261)
++||++||.|++++++|+|+.++ .++.++.++.. . . .+....++.+++++.+|+++++|.+||+|||||
T Consensus 75 i~LLk~~w~EllvL~~a~~s~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~lr~L~ld~~E~a~LKai 154 (241)
T cd07069 75 MKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFL 154 (241)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccCCCCeeEecCCCccCchhhhhhhhhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 37999999999999999999765 34455555521 1 1 123455688999999999999999999999999
Q ss_pred HhhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHHHHHHHHHHhcCCChhhhhh
Q psy16761 70 TLFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRFQSVLNEFKVLNIDPYEYDY 149 (261)
Q Consensus 70 vlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l~~~~~~l~~L~l~~~E~~l 149 (261)
+||+||.+||.+.++|+.+|+++..++.-+... ..+. ....+..+...+..+|.+.-...|+..
T Consensus 155 vLfnpd~~gL~~~~~Ve~lQe~~~~aL~~yi~~-~~p~---------------~~~Rf~kLLl~Lp~LR~is~~~~e~l~ 218 (241)
T cd07069 155 VLFSLDVKNLENFQLVEGVQEQVNAALLDYTMC-NYPQ---------------QTEKFGQLLLRLPEIRAISMQAEEYLY 218 (241)
T ss_pred HHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHh-cCCC---------------chhHHHHHHHHhHHHHHhhHHHHHHHH
Confidence 999999999999999999999999998754442 2221 112233444555566666655556544
Q ss_pred h
Q psy16761 150 I 150 (261)
Q Consensus 150 L 150 (261)
.
T Consensus 219 ~ 219 (241)
T cd07069 219 Y 219 (241)
T ss_pred h
Confidence 3
No 53
>cd07071 NR_LBD_Nurr1 The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of nuclear receptor Nurr1: Nurr1 belongs to the conserved family of nuclear receptors. It is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Nurr1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.60 E-value=7.9e-15 Score=127.15 Aligned_cols=100 Identities=17% Similarity=0.126 Sum_probs=87.2
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc-----cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS-----RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~-----~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
++|||+||.|++++++|+|+.+.+++.+++++.. ...+..+.+..+++++++|+++++|.+||+|||||++| +|
T Consensus 76 i~LLk~~~~Ell~L~~a~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~i~ef~~~l~~L~ld~~E~alLkAIvLf-~D 154 (238)
T cd07071 76 DLLFESAFLELFVLRLAYRSNPVEGKLIFCNGVVLHRLQCVRGFGEWIDSIVEFSSNLQNMNIDISAFSCIAALAMV-TE 154 (238)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCceEeeCCceechhhhhhcHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHc-CC
Confidence 3799999999999999999999999888877621 12245566778899999999999999999999999999 69
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
.+||.+.++|+.+|+++.+++.-++.
T Consensus 155 ~~gL~~~~~Ve~lQe~~~~aL~~yi~ 180 (238)
T cd07071 155 RHGLKEPKRVEELQNKIVNCLKDHVT 180 (238)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999875554
No 54
>cd07072 NR_LBD_DHR38_like Ligand binding domain of DHR38_like proteins, members of the nuclear receptor superfamily. The ligand binding domain of nuclear receptor DHR38_like proteins: DHR38 is a member of the steroid receptor superfamily in Drosophila. DHR38 interacts with the USP component of the ecdysone receptor complex, suggesting that DHR38 might modulate ecdysone-triggered signals in the fly, in addition to the ECR/USP pathway. At least four differentially expressed mRNA isoforms have been detected during development. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR38 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.60 E-value=6.9e-15 Score=127.53 Aligned_cols=101 Identities=17% Similarity=0.099 Sum_probs=87.5
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc--c---ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS--R---HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~--~---~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
++|||+||.|+|+|++|||+.+.+++.+++++.. + ..+.++.++.+++++.+++++++|.+||+|||||++| +|
T Consensus 77 i~LLk~~w~Ell~L~~a~r~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~i~ef~~~l~~L~ld~~E~a~LkAivLf-~d 155 (239)
T cd07072 77 ELLFQSASLELFVLRLAYRTAPEDTKLTFCNGVVLHKQQCQRSFGDWLHAILEFSKSLHAMDIDISAFACLCALTLI-TE 155 (239)
T ss_pred HHHHHHhHHHHHHHHHHHHccCCCCeEEeeCCeeecHHHHHhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-CC
Confidence 3799999999999999999999988888876621 1 1245567788999999999999999999999999999 58
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
.+||.+.++|+.+|+.+.+++.-+...
T Consensus 156 r~gL~~~~~Ve~lQe~~~~aL~~yi~~ 182 (239)
T cd07072 156 RHGLKEPHKVEQLQMKIISSLRDHVTY 182 (239)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999998866654
No 55
>cd07073 NR_LBD_AR Ligand binding domain of the nuclear receptor androgen receptor, ligand activated transcription regulator. The ligand binding domain of the androgen receptor (AR): AR is a member of the nuclear receptor family. It is activated by binding either of the androgenic hormones, testosterone or dihydrotestosterone, which are responsible for male primary sexual characteristics and for secondary male characteristics, respectively. The primary mechanism of action of ARs is by direct regulation of gene transcription. The binding of an androgen results in a conformational change in the androgen receptor which causes its transport from the cytosol into the cell nucleus, and dimerization. The receptor dimer binds to a hormone response element of AR-regulated genes and modulates their expression. Another mode of action is independent of their interactions with DNA. The receptors interact directly with signal transduction proteins in the cytoplasm, causing rapid changes in cell funct
Probab=99.60 E-value=4.3e-15 Score=129.34 Aligned_cols=101 Identities=15% Similarity=0.169 Sum_probs=82.5
Q ss_pred ChhhhhccHHHHHHHHHhhcCCC-CCc-ccccccc----c--cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSL-DLG-ELVESCK----S--RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLF 72 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~-~~~-~l~~~~~----~--~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf 72 (261)
++|||+||.|+|++++|||+++. +.. ..++++. . ...+..+....+++++.+++++++|.+||+|||||+||
T Consensus 63 i~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~L~ld~~EyacLKAIiLf 142 (246)
T cd07073 63 MAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYRMHKSRMYSQCVRMRHLSQEFGWLQITPQEFLCMKALLLF 142 (246)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCCCCeEEecCCeeechhhhccccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHc
Confidence 37999999999999999999886 333 5555441 1 12233444556789999999999999999999999999
Q ss_pred cc-ccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 73 KT-AFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 73 ~p-~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
+| +.+||.+.++|+.+|+++..++.-+..
T Consensus 143 np~d~~gL~~~~~Ve~lQe~~~~aL~~yi~ 172 (246)
T cd07073 143 SIIPVDGLKNQKFFDELRMNYIKELDRIIA 172 (246)
T ss_pred CCCCcccccCHHHHHHHHHHHHHHHHHHHH
Confidence 99 999999999999999999999875554
No 56
>cd06940 NR_LBD_REV_ERB The ligand binding domain of REV-ERB receptors, members of the nuclear receptor superfamily. The ligand binding domain (LBD) of REV-ERB receptors: REV-ERBs are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. The LBD domain of REV-ERB is unusual in the nuclear receptor family by lacking the AF-2 region that is responsible for coactivator interaction. REV-ERBs act as constitutive repressors because of their inability to bind coactivators. REV-ERB receptors can bind to two classes of DNA response elements as either a monomer or heterodimer, indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target gene. The porphyrin heme has been demonstrated to function as a ligand for REV-ERB. Like other members of
Probab=99.59 E-value=5.7e-15 Score=123.93 Aligned_cols=101 Identities=12% Similarity=0.078 Sum_probs=86.6
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
++|||+||.|++++++||++.+..++..+.++.. +..+..+.++.+++++.+++++++|.+||+|||||++|+|
T Consensus 47 i~LLk~~w~Ell~L~~a~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~a~LkAivLf~p 126 (189)
T cd06940 47 VTLLKAGTFEVLMVRFASLFDAKERSVTFLSGQKYSVDDLHSMGAGDLLNSMFDFSEKLNSLQLSDEEMGLFTAVVLVSA 126 (189)
T ss_pred HHHHHHhhHHHHHHHHHHHhccCCCeEEecCCcEEcHHHHHHcCcHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhCC
Confidence 3799999999999999999988777777766521 1123456677888999999999999999999999999999
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 75 AFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 75 ~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
|.++|.+.++|+.+|+.+.+++.-++.
T Consensus 127 d~~~L~~~~~Ve~lq~~~~~aL~~~~~ 153 (189)
T cd06940 127 DRSGLENVNLVEALQETLIRALRTLIA 153 (189)
T ss_pred CCcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999998875544
No 57
>cd06935 NR_LBD_TR The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors. The ligand binding domain (LBD) of thyroid hormone receptors: Thyroid hormone receptors are members of a superfamily of nuclear receptors. Thyroid hormone receptors (TR) mediate the actions of thyroid hormones, which play critical roles in growth, development, and homeostasis in mammals. They regulate overall metabolic rate, cholesterol and triglyceride levels, and heart rate, and affect mood. TRs are expressed from two separate genes (alpha and beta) in human and each gene generates two isoforms of the receptor through differential promoter usage or splicing. TRalpha functions in the heart to regulate heart rate and rhythm and TRbeta is active in the liver and other tissues. The unliganded TRs function as transcription repressors, by binding to thyroid hormone response elements (TRE) predominantly as homodimers, or as heterodimers with retinoid X-receptors (RXR), a
Probab=99.58 E-value=7.6e-15 Score=127.80 Aligned_cols=102 Identities=13% Similarity=0.029 Sum_probs=88.8
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
++|||+||.|++++++|+|+.+.+++..++++.. +..+..+.++.+.+++++|+++++|.+||+|||||++|+|
T Consensus 87 i~LLk~~~~ElliL~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~f~~~l~~L~ld~~E~alLkAivLf~p 166 (243)
T cd06935 87 IILLKGCCMEIMSLRAAVRYDPESETLTLSGEMAVTREQLKNGGLGVVSDAIFDLGVSLSSFNLDDTEVALLQAVLLMSS 166 (243)
T ss_pred HHHHHHhHHHHHHHHHHHHhCcCCCeEEeeCCeEeeHHHHHhcChHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhCC
Confidence 3799999999999999999988888888877621 1234556778889999999999999999999999999999
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 75 AFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 75 ~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
|.+||.+.++|+.+|+.+.+++.-++..
T Consensus 167 Dr~gL~~~~~Ve~lQe~~~~aL~~yi~~ 194 (243)
T cd06935 167 DRPGLACVERIEKLQDSFLLAFEHYINY 194 (243)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999765553
No 58
>cd06951 NR_LBD_Dax1_like The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of DAX1-like proteins: This orphan nuclear receptor family includes DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) and the Small Heterodimer Partner (SHP). Both receptors have a typical ligand binding domain, but lack the DNA binding domain, typical to almost all of the nuclear receptors. They function as a transcriptional coregulator by directly interacting with other nuclear receptors. DAX1 and SHP can form heterodimers with each other, as well as with many other nuclear receptors. In addition, DAX1 can also form homodimers. DAX1 plays an important role in the normal development of several hormone-producing tissues. SHP has shown to regulate a variety of target genes.
Probab=99.58 E-value=1.2e-14 Score=125.00 Aligned_cols=100 Identities=23% Similarity=0.188 Sum_probs=80.2
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcccc----------cccc--cccc------c---hHHHHHHHHHHHHHhhcCCCC
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELV----------ESCK--SRHV------D---IEEEVIRFQSVLNEFKVLNID 59 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~----------~~~~--~~~~------~---~~~~~~~~~~~~~~~~~l~ld 59 (261)
++|||++|.|+|+|++|||+.++++.... ..+. .... + ....++.+++++.+|+++++|
T Consensus 54 i~LLk~~w~El~iL~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~e~~~~l~~L~ld 133 (222)
T cd06951 54 LRLLRRSWAPLLLLGLAQDKVPFDTVEVPAPSILCEILTGAEMHWGGTPPPTLTMPPCIPLADVQDIQQFLMKCWSLDLD 133 (222)
T ss_pred HHHHHHHhHHHHHHHHHHHhccccccccccchHHHHHHhccccccccccccccccchhhHHHHHHHHHHHHHHHHHcCCC
Confidence 37999999999999999999988653211 1111 0100 1 123467899999999999999
Q ss_pred hHHHHHHHHHHhhccccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 60 PYEYDYIRAITLFKTAFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 60 ~~E~~~Lkaivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
.+||+|||||++|+||.+++ +.++|+.+|+.+..++.-+..
T Consensus 134 ~~Eya~LkAivLfnpD~~gl-~~~~Ve~lQe~~~~aL~~yi~ 174 (222)
T cd06951 134 CKEYAYLKGAVLFTPVPPLL-CPHYIEALQKEAQQALNEHTM 174 (222)
T ss_pred HHHHHHHHHHHHhCCCCCcc-CHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999 999999999999999875444
No 59
>cd06950 NR_LBD_Tlx_PNR_like The ligand binding domain of Tailless-like proteins, orphan nuclear receptors. The ligand binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like family: This family includes photoreceptor cell-specific nuclear receptor (PNR), Tailless (TLX), and related receptors. TLX is an orphan receptor that is expressed by neural stem/progenitor cells in the adult brain of the subventricular zone (SVZ) and the dentate gyrus (DG). It plays a key role in neural development by promoting cell cycle progression and preventing apoptosis in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX and PNR have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge
Probab=99.58 E-value=2.3e-14 Score=121.83 Aligned_cols=100 Identities=30% Similarity=0.423 Sum_probs=83.7
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccc-c-c----cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESC-K-S----RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~-~-~----~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
+|||++|.|++++++|||+.+.++..++.+. . . ......+.++.+++++.+|+++++|.+||+|||||++|+||
T Consensus 62 ~LLk~~w~el~iL~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~L~ld~~EyalLKai~L~npd 141 (206)
T cd06950 62 ILLEESWSELFLLGAAQWSLPLDSCPLLAVPGLSPDNTEAERTFLSEVRALQETLSRFRQLRVDATEFACLKAIVLFKPE 141 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcceeecCCcccccccchhhHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Confidence 6999999999999999999988776666542 1 1 11122344577899999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
.+||++.++|+.+|+.+..++.-++.
T Consensus 142 ~~~L~~~~~Ve~lq~~~~~aL~~y~~ 167 (206)
T cd06950 142 TRGLKDPAQVEALQDQAQLMLNKHIR 167 (206)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999875444
No 60
>cd07070 NR_LBD_SF-1 The ligand binding domain of nuclear receptor steroidogenic factor 1, a member of nuclear receptor superfamily. The ligand binding domain of nuclear receptor steroidogenic factor 1 (SF-1): SF-1, a member of the nuclear hormone receptor superfamily, is an essential regulator of endocrine development and function and is considered a master regulator of reproduction. Most nuclear receptors function as homodimer or heterodimers, however SF-1 binds to its target genes as a monomer, recognizing the variations of the DNA sequence motif, T/CCA AGGTCA. SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been determined as potential ligands of SF-1. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, SF-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.56 E-value=1.9e-14 Score=124.78 Aligned_cols=135 Identities=16% Similarity=0.165 Sum_probs=97.8
Q ss_pred hhhhhccHHHHHHHHHhhcCCC--CCccccccccc----c---ccc--hHHHHHHHHHHHHHhhcCCCChHHHHHHHHHH
Q psy16761 2 LLLAESWRELFILGLAQYLPSL--DLGELVESCKS----R---HVD--IEEEVIRFQSVLNEFKVLNIDPYEYDYIRAIT 70 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~--~~~~l~~~~~~----~---~~~--~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaiv 70 (261)
+|||++|+|+++|++|+|+.++ .+..++.++.. . ..+ ....+..+++++.+++++++|.+||+|||||+
T Consensus 74 ~LLk~~w~el~vL~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~e~~~kl~~L~ld~~Ey~~LkaIi 153 (237)
T cd07070 74 TLLQNCWSELLVFDHIYRQVQHGKEGSILLVTGQEVELSTVAAQAGSLLHSLVLRAQELVLQLHALQLDRQEFVCLKFLI 153 (237)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCCceeecCCCeechhHHHHHHhHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 6999999999999999999865 34555555522 1 111 12334556899999999999999999999999
Q ss_pred hhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHHHHHHHHHHhcCCChhhhhhh
Q psy16761 71 LFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYI 150 (261)
Q Consensus 71 lf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l~~~~~~l~~L~l~~~E~~lL 150 (261)
+||||.+||++..+|+.+|+++.+++.-++.. .++.. ...+..+...+..+|.+.....|+...
T Consensus 154 Lfnpd~~gL~~~~~Ve~lQe~~~~aL~~y~~~-~~p~~---------------~~Rf~kLLl~Lp~LRsis~~~~e~l~~ 217 (237)
T cd07070 154 LFSLDVKFLNNHSLVKDAQEKANAALLDYTLC-HYPHC---------------GDKFQQLLLRLVEVRALSMQAKEYLYH 217 (237)
T ss_pred hcCCCccCCCCHHHHHHHHHHHHHHHHHHHHh-cCCCc---------------chHHHHHHHHhHHHHHhhHHHHHHHHH
Confidence 99999999999999999999999998754442 22211 122334445556666666666666544
Q ss_pred hH
Q psy16761 151 RA 152 (261)
Q Consensus 151 ka 152 (261)
+-
T Consensus 218 ~~ 219 (237)
T cd07070 218 KH 219 (237)
T ss_pred hc
Confidence 43
No 61
>cd06949 NR_LBD_ER Ligand binding domain of Estrogen receptor, which are activated by the hormone 17beta-estradiol (estrogen). The ligand binding domain (LBD) of Estrogen receptor (ER): Estrogen receptor, a member of nuclear receptor superfamily, is activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well conserved DNA binding domain (DBD), a variable N-terminal doma
Probab=99.56 E-value=1.5e-14 Score=125.27 Aligned_cols=103 Identities=17% Similarity=0.174 Sum_probs=87.3
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc------c-ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS------R-HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFK 73 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~-~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~ 73 (261)
++|||++|.|++++++|||+.+.++..++.++.. . ..+..+..+.+++++.+|+++++|.+||+|||||++|+
T Consensus 67 i~LLk~~w~el~~L~~a~rs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~EyalLKAIvLfn 146 (235)
T cd06949 67 VHLLESAWLELLMLGLVWRSMEHPGKLLFAPDLLLDRNQGSCVEGMVEIFDMLLATASRFRELQLQREEYVCLKAIILLN 146 (235)
T ss_pred HHHHHHhHHHHHHHHHHHHhcCCCCeEEeeCCceecHHHhhhcccHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHcC
Confidence 3799999999999999999999888777766521 1 12344556778899999999999999999999999999
Q ss_pred ccccc-----ccchhHHHHHHHHHHHHHHHHHhhh
Q psy16761 74 TAFTS-----RRELAGHLLLAESWRELFILGLAQY 103 (261)
Q Consensus 74 p~f~~-----L~~~dqv~lLq~~~~e~l~L~~a~~ 103 (261)
||.+| +.+..+|+.+|+++..++.-++..+
T Consensus 147 pd~~g~~~~~l~~~~~Ve~lq~~~~~aL~~y~~~~ 181 (235)
T cd06949 147 SSVYTFLLESLESRRQVQRLLDKITDALVHACSKR 181 (235)
T ss_pred CCcCCcccccccCHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999 8899999999999999998666543
No 62
>cd06945 NR_LBD_Nurr1_like The ligand binding domain of Nurr1 and related nuclear receptor proteins, members of nuclear receptor superfamily. The ligand binding domain of nuclear receptor Nurr1_like: This family of nuclear receptors, including Nurr1, Nerve growth factor-induced-B (NGFI-B) and DHR38 are involved in the embryo development. Nurr1 is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. NGFI-B is an early immediate gene product of embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as
Probab=99.56 E-value=1.1e-14 Score=126.55 Aligned_cols=102 Identities=19% Similarity=0.074 Sum_probs=88.5
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc--c---ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS--R---HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~--~---~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
++|||+||.|+|++++|||+.+.+++.+++++.. + ..+..+.++.+++++.+++++++|.+||+|+|||++|+||
T Consensus 76 i~LLk~~w~El~~L~~a~r~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~f~~~l~~L~ld~~E~~~LkaivL~~pD 155 (239)
T cd06945 76 DLLLESAFLELFVLRLAYRSNPVDGKLVFCNGLVLHRLQCVRGFGEWLDSILAFSSSLQSLLLDDISAFCCLALLLLITE 155 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCceEeeCCceecHHHHHHhHHHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHhCCC
Confidence 3699999999999999999999988888876621 1 1234566788899999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
.+||.+.++|+.+|+++.+++.-+...
T Consensus 156 ~~gL~~~~~Ve~lQe~~~~aL~~y~~~ 182 (239)
T cd06945 156 RHGLKEPKKVEELQNKIISCLRDHVTS 182 (239)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999998755543
No 63
>cd07074 NR_LBD_PR Ligand binding domain of the progesterone receptor, a member of the nuclear hormone receptor. The ligand binding domain of the progesterone receptor (PR): PR is a member of the nuclear receptor superfamily of ligand dependent transcription factors, mediating the biological actions of progesterone. PR functions in a variety of biological processes including development of the mammary gland, regulating cell cycle progression, protein processing, and metabolism. When no binding hormone is present the carboxyl terminal inhibits transcription. Binding to a hormone induces a structural change that removes the inhibitory action. After progesterone binds to the receptor, PR forms a dimer and the complex enters the nucleus where it interacts with the hormone response element (HRE) in the promoters of progesterone responsive genes and alters their transcription. In addition, rapid actions of PR that occur independent of transcription, have also been observed in several tissues
Probab=99.54 E-value=8.3e-14 Score=121.07 Aligned_cols=104 Identities=17% Similarity=0.199 Sum_probs=83.9
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCc--ccccccc----cc--ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLG--ELVESCK----SR--HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLF 72 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~--~l~~~~~----~~--~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf 72 (261)
++|||++|.|++++++||||.+.... ..++++. +. ..+..+.+..+++++.+|+++++|.+||+|||||++|
T Consensus 63 i~LLk~sw~ellvL~~a~rS~~~~~~~~l~fa~d~~~~~~~~~~~~~~~~~~~m~e~~~~~~~L~ld~~Ey~cLKAIvLf 142 (248)
T cd07074 63 ITLIQYSWMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKLQVSQEEFLCMKALLLL 142 (248)
T ss_pred HHHHHHHHHHHHHHHHHHhhhccCCCCeEEecCCcccchhhhhhccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHC
Confidence 37999999999999999999876432 3444441 11 1123344566778999999999999999999999999
Q ss_pred cc-ccccccchhHHHHHHHHHHHHHHHHHhhhc
Q psy16761 73 KT-AFTSRRELAGHLLLAESWRELFILGLAQYL 104 (261)
Q Consensus 73 ~p-~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s 104 (261)
|| +.+||++..+++.+|+++..++.-+.+.+.
T Consensus 143 np~d~~gL~~q~~Ve~lR~~y~~aL~~yi~~~~ 175 (248)
T cd07074 143 NTIPLEGLRSQTQFDEMRSSYIRELIKAIGLRQ 175 (248)
T ss_pred CCCcCCCCCCHHHHHHHHHHHHHHHHHHHHHcC
Confidence 99 799999999999999999999987766543
No 64
>cd06944 NR_LBD_Ftz-F1_like The ligand binding domain of FTZ-F1 like nuclear receptors. The ligand binding domain of FTZ-F1 like nuclear receptors: This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which required at several stages of development. Particularly, FTZ-F1 genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. SF-1 is an essential regulator of endocrine development and function and is considered a master regulator of reproduction; SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). However, the ligand for FTZ-F1 has not
Probab=99.52 E-value=1.1e-13 Score=120.11 Aligned_cols=100 Identities=17% Similarity=0.186 Sum_probs=83.7
Q ss_pred hhhhhccHHHHHHHHHhhcCCCC--Cccccccccc----c--c---cchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHH
Q psy16761 2 LLLAESWRELFILGLAQYLPSLD--LGELVESCKS----R--H---VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAIT 70 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~--~~~l~~~~~~----~--~---~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaiv 70 (261)
+|||++|.|+++++.|+|+.+.. +..++.++.. . . .+..+.+..+++++.+|+++++|.+||+|||||+
T Consensus 74 ~LLk~~w~el~~L~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~L~ld~~E~~lLkaIi 153 (237)
T cd06944 74 KLLQNCWSELLVLDHIYRQVHHGKEDSILLVTGQEVDLSTLASQAGLGLSSLVDRAQELVNKLRELQFDRQEFVCLKFLI 153 (237)
T ss_pred HHHHHHhHHHHHHHHHHHhcccCCCCceeecCCCccchhhhhhhccccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 69999999999999999998775 5555555521 1 1 1234567788999999999999999999999999
Q ss_pred hhccccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 71 LFKTAFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 71 lf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
+|+|+.+||++.++|+.+|+.+..++.-++.
T Consensus 154 L~npd~~gL~~~~~Ve~~q~~~~~aL~~y~~ 184 (237)
T cd06944 154 LFNPDVKGLENRQLVESVQEQVNAALLDYTL 184 (237)
T ss_pred HcCCCcCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999874433
No 65
>cd06939 NR_LBD_ROR_like The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily. The ligand binding domain (LBD) of Retinoid-related orphan receptors (RORs): Retinoid-related orphan receptors (RORs) are transcription factors belonging to the nuclear receptor superfamily. RORs are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. Transcription regulation by RORs is mediated through certain corepressors, as well as coactivators. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma that differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum, particularly in the regulation of the maturation and survival of Purkinje cells. RORbeta expression is largely r
Probab=99.51 E-value=7.6e-14 Score=121.34 Aligned_cols=103 Identities=11% Similarity=0.070 Sum_probs=86.2
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcccccccc-c----cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCK-S----RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~-~----~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
++|||+||.|++++++|++..+.+++.++.+.. . +..+..+.++.+++++.+++++++|.+||+|+|||++|+||
T Consensus 83 i~LLk~~~~Ellll~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~L~ld~~E~all~AivL~~pD 162 (241)
T cd06939 83 IVLLKAGSLEVVLVRMSRAFNPSNNTVLFDGKYAPIDLFKSLGCDDLISAVFDFAKSLCELKLTEDEIALFSALVLISAD 162 (241)
T ss_pred HHHHHHhHHHHHHHHHHHHhCCCCCEEEECCccccHHHHHHcCcHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Confidence 379999999999999998887766665554321 1 11234567788999999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHhhh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLAQY 103 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a~~ 103 (261)
.+||.+.++|+.+|+.+.+++.-++...
T Consensus 163 r~gL~~~~~Ve~lQe~~~~aL~~yi~~~ 190 (241)
T cd06939 163 RPGLQEKRKVEKLQQKIELALRHVLQKN 190 (241)
T ss_pred CcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999998766543
No 66
>cd06933 NR_LBD_VDR The ligand binding domain of vitamin D receptors, a member of the nuclear receptor superfamily. The ligand binding domain of vitamin D receptors (VDR): VDR is a member of the nuclear receptor (NR) superfamily that functions as classical endocrine receptors. VDR controls a wide range of biological activities including calcium metabolism, cell proliferation and differentiation, and immunomodulation. VDR is a high affinity receptor for the biologically most active Vitamin D metabolite, 1alpha,25-dihydroxyvitamin D3 (1alpha,25(OH)2D3). The binding of the ligand to the receptor induces a conformational change of the ligand binding domain (LBD) with consequent dissociation of corepressors. Upon ligand binding, VDR forms heterodimer with the retinoid X receptor (RXR) that binds to vitamin D response elements (VDREs), recruits coactivators. This leads to the expression of a large number of genes. Approximately 200 human genes are considered to be primary targets of VDR and
Probab=99.50 E-value=2.3e-13 Score=118.15 Aligned_cols=101 Identities=19% Similarity=0.031 Sum_probs=80.9
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcc-ccccc-----cc---cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGE-LVESC-----KS---RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITL 71 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~-l~~~~-----~~---~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivl 71 (261)
++|||+||.|+++++++++ .+.++.. +..++ .+ ......+.++.+.++..+|+++++|.+||+|||||++
T Consensus 72 i~LLk~~~~ElliL~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~l~~~~~~l~~L~ld~~E~alLkAivL 150 (238)
T cd06933 72 IALLKSSAIEVIMLRSNQS-FSLDDMSWTCGSPDFKYKVSDVTKAGHSLELLEPLVKFQVGLKKLNLHEEEHVLLMAICI 150 (238)
T ss_pred HHHHHHhHHHHHHHHHHHh-cCcCCCeeEecCCceeecHHHHHHccCcHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 3799999999999999986 4555433 33221 00 1111235678899999999999999999999999999
Q ss_pred hccccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 72 FKTAFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 72 f~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
|+||.+||.+.++|+.+|+++.+++.-++..
T Consensus 151 f~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~ 181 (238)
T cd06933 151 LSPDRPGVQDHALIEAIQDRLSDTLQTYIRC 181 (238)
T ss_pred HCCCCCCCcchHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999866653
No 67
>cd06941 NR_LBD_DmE78_like The ligand binding domain of Drosophila ecdysone-induced protein 78, a member of the nuclear receptor superfamily. The ligand binding domain (LBD) of Drosophila ecdysone-induced protein 78 (E78) like: Drosophila ecdysone-induced protein 78 (E78) is a transcription factor belonging to the nuclear receptor superfamily. E78 is a product of the ecdysone-inducible gene found in an early late puff locus at position 78C during the onset of Drosophila metamorphosis. Two isoforms of E78, E78A and E78B, are expressed from two nested transcription units. An E78 orthologue from the Platyhelminth Schistosoma mansoni (SmE78) has also been identified. It is the first E78 orthologue known outside of the molting animals--the Ecdysozoa. SmE78 may be involved in transduction of an ecdysone signal in S. mansoni, consistent with its function in Drosophila. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, E78-like receptors ha
Probab=99.49 E-value=2.7e-13 Score=114.23 Aligned_cols=101 Identities=14% Similarity=0.142 Sum_probs=85.1
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
++|||+||.|++++++|+++.+.+++..+.++.. ......+..+.+.+++++++++++|.+||+|+|||++|+|
T Consensus 37 i~LLk~~~~el~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~allkAi~Lf~p 116 (195)
T cd06941 37 LLLIKAGFFEVWLVRISRLINSKSGSITFDDGISISRQQLDIIYDSDFVKALFEFSDSFNSLGLSDTEVALFCAVVLLSP 116 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCeEEecCCeEeeHHHHHhccchHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHcCC
Confidence 3699999999999999999887777777766521 1112235677899999999999999999999999999999
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 75 AFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 75 ~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
|.+||.+.++|+.+|+.+..++.-++.
T Consensus 117 d~~gl~~~~~Ve~lq~~~~~aL~~~i~ 143 (195)
T cd06941 117 DRIGLSEPKKVAILQDRVLEALKVQVS 143 (195)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999998875444
No 68
>cd06948 NR_LBD_COUP-TF Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family. The ligand binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs): COUP-TFs are orphan members of the steroid/thyroid hormone receptor superfamily. They are expressed in many tissues and are involved in the regulation of several important biological processes, such as neurogenesis, organogenesis, cell fate determination, and metabolic homeostasis. In mammals two isoforms named COUP-TFI and COUP-TFII have been identified. Both genes show an exceptional homology and overlapping expression patterns, suggesting that they may serve redundant functions. Although COUP-TF was originally characterized as a transcriptional activator of the chicken ovalbumin gene, COUP-TFs are generally considered to be repressors of transcription for other nuclear hormone receptors, such as retinoic acid receptor (RAR), thyroid hormone
Probab=99.49 E-value=3.2e-13 Score=117.12 Aligned_cols=100 Identities=26% Similarity=0.332 Sum_probs=82.1
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCcccccc-ccc----cc---cchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVES-CKS----RH---VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFK 73 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~-~~~----~~---~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~ 73 (261)
+|||++|.|++++++|||+.+.....++.. +.. .. ....+.++.+.+++.+|+++++|.+||+|||+|++|+
T Consensus 66 ~LLk~~w~el~lL~~a~~s~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~L~ld~~E~~lLkaiiL~n 145 (236)
T cd06948 66 ALLRLSWSELFVLNAAQCCMPLHVAPLLAAAGLHASPMSADRVVAFMDHIRIFQEQVEKLKALHVDSAEFSCLKAIVLFT 145 (236)
T ss_pred HHHHHhhHHHHHHHHHHHcccccchhhhhccccccCccchhhHhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcC
Confidence 699999999999999999998776644433 321 11 1122345667899999999999999999999999999
Q ss_pred cccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 74 TAFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 74 p~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
|+.++|++.++|+.+|+.+.+++.-++.
T Consensus 146 pd~~~L~~~~~v~~~q~~~~~aL~~y~~ 173 (236)
T cd06948 146 SDACGLSDPAHIESLQEKSQCALEEYVR 173 (236)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999875554
No 69
>cd06954 NR_LBD_LXR The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors. The ligand binding domain of Liver X receptors: Liver X receptors (LXRs) belong to a family of nuclear receptors of ligand-activated transcription factors. LXRs operate as cholesterol sensors which protect from cholesterol overload by stimulating reverse cholesterol transport from peripheral tissues to the liver and its excretion in the bile. Oxidized cholesterol derivatives or oxysterols were identified as specific ligands for LXRs. Upon ligand binding a conformational change leads to recruitment of co-factors, which stimulates expression of target genes. Among the LXR target genes are several genes involved in cholesterol efflux from peripheral tissues such as the ATP-binding-cassette transporters ABCA1, ABCG1 and ApoE. There are two LXR isoforms in mammals, LXRalpha and LXRbeta. LXRalpha is expressed mainly in the liver, intestine, kidney, splee
Probab=99.47 E-value=2e-13 Score=118.42 Aligned_cols=101 Identities=18% Similarity=0.085 Sum_probs=87.0
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc--c-----ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS--R-----HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFK 73 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~--~-----~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~ 73 (261)
++|||++|.|++++++|+++.+..+...+.++.. + .......++.+.+++.+++++++|.+||+|||||++|+
T Consensus 78 i~LLK~~~~el~iL~~a~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~L~ld~~E~~lL~aivLf~ 157 (236)
T cd06954 78 IALLKASTIEVMLLETARRYNPESEAITFLKDFPYSRDDFARAGLQVEFINPIFEFSKSMRELQLDDAEYALLIAINIFS 157 (236)
T ss_pred HHHHHHhHHHHHHHHHHHHhcCCCCeEEeeCCccccHHHHHHhcChHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhhcc
Confidence 3699999999999999999988888777776632 1 11234567889999999999999999999999999999
Q ss_pred cccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 74 TAFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 74 p~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
||.+||.+.++|+.+|+.+..++.-++.
T Consensus 158 pd~~gL~~~~~V~~lQ~~~~~aL~~y~~ 185 (236)
T cd06954 158 ADRPNVQDHHRVERLQETYVEALHSYIK 185 (236)
T ss_pred CCcccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999986554
No 70
>cd06934 NR_LBD_PXR_like The ligand binding domain of xenobiotic receptors:pregnane X receptor and constitutive androstane receptor. The ligand binding domain of xenobiotic receptors: This xenobiotic receptor family includes pregnane X receptor (PXR), constitutive androstane receptor (CAR) and other related nuclear receptors. They function as sensors of toxic byproducts of cell metabolism and of exogenous chemicals, to facilitate their elimination. The nuclear receptor pregnane X receptor (PXR) is a ligand-regulated transcription factor that responds to a diverse array of chemically distinct ligands, including many endogenous compounds and clinical drugs. The ligand binding domain of PXR shows remarkable flexibility to accommodate both large and small molecules. PXR functions as a heterodimer with retinoic X receptor-alpha (RXRa) and binds to a variety of response elements in the promoter regions of a diverse set of target genes involved in the metabolism, transport, and elimination of
Probab=99.46 E-value=5.5e-13 Score=114.94 Aligned_cols=101 Identities=11% Similarity=-0.001 Sum_probs=81.5
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcccccccc--c----cccchH-HHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCK--S----RHVDIE-EEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFK 73 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~--~----~~~~~~-~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~ 73 (261)
++|||+||.|++++++|+++.+-.+ .+...+. . ...+.. ...+.+++++.+++.+++|.+||+|||||++|+
T Consensus 70 i~LLk~~~~Ellil~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~l~~L~ld~~E~alLkAivLf~ 148 (226)
T cd06934 70 ISLLKGATFEICQIRFNTVFNEETG-TWECGPLTYCIEDAARAGFQQLLLEPLLRFHYTLRKLQLQEEEYVLMQAMSLFS 148 (226)
T ss_pred HHHHHHhHHHHHHHHHHHHhcccCC-eEeeCCEeecHHHHHHccchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC
Confidence 3799999999999999998866333 3333321 0 112233 356789999999999999999999999999999
Q ss_pred cccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 74 TAFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 74 p~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
||.+||.+.++|+.+|+.+..++--+...
T Consensus 149 pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~ 177 (226)
T cd06934 149 PDRPGVTQHDVIDQLQEKMALTLKSYIDS 177 (226)
T ss_pred CCCcCCcChHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999998865543
No 71
>cd06953 NR_LBD_DHR4_like The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4. The ligand binding domain of Ecdysone-induced receptor DHR4: Ecdysone-induced orphan receptor DHR4 is a member of the nuclear receptor family. DHR4 is expressed during the early Drosophila larval development and is induced by ecdysone. DHR4 coordinates growth and maturation in Drosophila by mediating endocrine response to the attainment of proper body size during larval development. Mutations in DHR4 result in shorter larval development which translates into smaller and lighter flies. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.45 E-value=8.3e-13 Score=112.84 Aligned_cols=101 Identities=20% Similarity=0.241 Sum_probs=80.6
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccc-----cccc----c-ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHh
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVE-----SCKS----R-HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITL 71 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~-----~~~~----~-~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivl 71 (261)
+|||++|.|++++++|+|+.+.....+.. .+.+ . .....+.++.+++++.+|+++++|.+||+|||||++
T Consensus 63 ~LLk~~w~el~iL~~a~~s~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~L~ld~eEy~lLkAIvL 142 (213)
T cd06953 63 HLLTTKWAELILLSTITVASLQNLGLLQDCLSKYLPSEDELERFGDEGGEVVERLTYLLAKFRQLKVSNEEYVCLKVINF 142 (213)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHhhhccCCchhhHHHHHhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 69999999999999999998754221110 0111 0 112345577788999999999999999999999999
Q ss_pred hccccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 72 FKTAFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 72 f~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
|+||.+||++.++|+.+|+.+..++.-++..
T Consensus 143 fnpd~~gLs~~~~Ve~lQ~~~~~aL~~y~~~ 173 (213)
T cd06953 143 LNQDIDGLTNASQLESLQKRYWYVLQDFTEL 173 (213)
T ss_pred hCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999998866543
No 72
>cd06943 NR_LBD_RXR_like The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily. The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, func
Probab=99.44 E-value=1.1e-12 Score=111.54 Aligned_cols=100 Identities=19% Similarity=0.212 Sum_probs=83.8
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHH-HHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEE-VIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~-~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
+|||++|.|+++++.|+++.+.++...+.++.. ...+.... .+.+++++.+|+++++|.+||+|||||++|+|
T Consensus 66 ~LLk~~~~e~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~lLkaI~L~~p 145 (207)
T cd06943 66 ILLRAGWNELLIAAFAHRSIAVKDGILLATGLHLHRNSAHQAGVGAIFDRILTELVVKMRDLKMDRTELGCLRAIILFNP 145 (207)
T ss_pred HHHHHHHHHHHHHHHHHHccCCCCeeEecCCceeccchhhhccchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCC
Confidence 699999999999999999998888877776521 11122233 34567899999999999999999999999999
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 75 AFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 75 ~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
+.+||++.++++.+|+.+.+++.-++.
T Consensus 146 d~~~L~~~~~v~~~q~~~~~aL~~y~~ 172 (207)
T cd06943 146 DVKGLKSRQEVESLREKVYASLEEYCR 172 (207)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999875544
No 73
>cd06946 NR_LBD_ERR The ligand binding domain of estrogen receptor-related nuclear receptors. The ligand binding domain of estrogen receptor-related receptors (ERRs): The family of estrogen receptor-related receptors (ERRs), a subfamily of nuclear receptors, is closely related to the estrogen receptor (ER) family, but it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signaling pathway, positively or negatively. ERRs share target genes, co-regulators and promoters with the estrogen receptor (ER) family. There are three subtypes of ERRs: alpha, beta and gamma. ERRs bind at least two types of DNA sequence, the estrogen response element and another site, originally characterized as SF-1 (steroidogenic factor 1) response element. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ERR has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-
Probab=99.41 E-value=1.4e-12 Score=112.09 Aligned_cols=100 Identities=16% Similarity=0.177 Sum_probs=84.7
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCcccccccc--c----cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCK--S----RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~--~----~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
+|||++|.|+++++.|||+.+.++...++.+. . ...+.....+.+.+++.+++++++|.+||+|||||++|+|+
T Consensus 63 ~LLk~~~~el~lL~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~lLkai~L~npd 142 (221)
T cd06946 63 SLLQSAWMEILTLGVVFRSLPFNGELVFAEDFILDEELAREAGLLELYSACLQLVRRLQRLRLEKEEYVLLKALALANSD 142 (221)
T ss_pred HHHHHHHHHHHHHHHHHHccCCCCceeecCCeEEcHHHHhhcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCC
Confidence 69999999999999999999988776665541 1 11234455677889999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
..++.+.++++.+|+.+..++.-++.
T Consensus 143 ~~~l~~~~~v~~~q~~~~~aL~~y~~ 168 (221)
T cd06946 143 SVHIEDVEAVRQLRDALLEALSDYEA 168 (221)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999875443
No 74
>KOG4216|consensus
Probab=99.40 E-value=1.9e-13 Score=122.05 Aligned_cols=169 Identities=15% Similarity=0.141 Sum_probs=140.1
Q ss_pred HHhh---ccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCcccccccccc------chhHHHHHHHHHHHHHHHHh
Q psy16761 69 ITLF---KTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSR------HVDIEEEVIRFQSVLNEFKV 139 (261)
Q Consensus 69 ivlf---~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~------~~~~~~~~~~l~~~~~~l~~ 139 (261)
+|-| +++|-+|+..||+.+|+...+|+.+..++..+.. +...+.+..... ..+..+.+..++++...+..
T Consensus 298 vVEFAK~I~GFM~L~Q~dQI~LLKaGsfEv~lvrm~r~~~v-~~ntV~~e~~~~g~~~f~a~~~~elis~vf~~~ksL~~ 376 (479)
T KOG4216|consen 298 VVEFAKRIDGFMELCQNDQIVLLKAGSFEVVLVRMCRAFDV-DNNTVYFEGKYAGPEVFYALGCEELISRVFEFGKSLCS 376 (479)
T ss_pred HHHHHHhhhHhhccCccceEEeeecCceeeeHHHHHHhhcc-cccceeecccccchhheeccChHHHHHHHHhhhHHHHh
Confidence 4555 6899999999999999999999988888765544 333333332221 15566688889999999999
Q ss_pred cCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHHHHHHHHHhcCCCCccHHHHH
Q psy16761 140 LNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQIFLNKYIHTVYPSQPTRFCKI 219 (261)
Q Consensus 140 L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~~L~~~~~~~~~~~~~Rf~~L 219 (261)
|+++..|.|++.|++|.+|| +.|+.+..+|+++|.....|+++.+.++|..+. -+.+|
T Consensus 377 Lq~te~EiAL~~alVL~~~~---------------------r~gl~e~~ki~~lq~~~~~a~qhvl~knh~~~~-~l~kl 434 (479)
T KOG4216|consen 377 LQLTEDEIALFSALVLMSAD---------------------RSGLQEKVKIEKLQQKIQLALQHVLQKNHREDG-ILTKL 434 (479)
T ss_pred hccCcHHHHHHHHHHhhCCc---------------------cccccchHHHHHHHHHHHHHHHHHHHhcCChhh-hHHHh
Confidence 99999999999999999999 999999999999999999999999988875333 58999
Q ss_pred HhhcccccCCCcccchhhhcccccCCCCc--HHHHHHHHHhcC
Q psy16761 220 QLILPRLKSIPSLVLEELFFRNIIGHNTT--IKKTIWHMYKNA 260 (261)
Q Consensus 220 L~~Lp~Lr~~~~~~~e~l~f~~~~g~~~~--i~~ll~eml~~~ 260 (261)
+.+.|.+|.++..+.|.+...+...|++- +++|-.|+|..+
T Consensus 435 ~~k~~~~r~~~~lH~E~Lq~Fk~~hP~iv~~fP~LYKELFt~d 477 (479)
T KOG4216|consen 435 ICKVSTLRALCGLHTEKLQAFKASHPDIVRHFPPLYKELFTSD 477 (479)
T ss_pred hcccchHHHHHHHHHHHHHHHhhcCchHHhhccHHHHHHhccc
Confidence 99999999999999999999999884444 577777777654
No 75
>cd06932 NR_LBD_PPAR The ligand binding domain of peroxisome proliferator-activated receptors. The ligand binding domain (LBD) of peroxisome proliferator-activated receptors (PPAR): Peroxisome proliferator-activated receptors (PPARs) are members of the nuclear receptor superfamily of ligand-activated transcription factors. PPARs play important roles in regulating cellular differentiation, development and lipid metabolism. Activated PPAR forms a heterodimer with the retinoid X receptor (RXR) that binds to the hormone response element located upstream of the peroxisome proliferator responsive genes and interacts with co-activators. There are three subtypes of peroxisome proliferator activated receptors, alpha, beta (or delta), and gamma, each with a distinct tissue distribution. Several essential fatty acids, oxidized lipids and prostaglandin J derivatives can bind and activate PPAR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, P
Probab=99.39 E-value=1.9e-12 Score=113.66 Aligned_cols=100 Identities=15% Similarity=0.079 Sum_probs=81.3
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcccccccc---cc------ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHh
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCK---SR------HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITL 71 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~---~~------~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivl 71 (261)
++|||+||.|++++++|++.. .+..++..+. .+ +.+..+.++.+++++.+|+++++|.+||+|+|||++
T Consensus 98 i~LLk~~~~Ellil~~a~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~L~ld~~E~alLkAivL 175 (259)
T cd06932 98 VTLLKYGVHEVIFTMLASLYN--KDGLLFPEGNGYVTREFLESLRKPFCDIMEPKFEFAEKFNALELTDSELALFCAVII 175 (259)
T ss_pred HHHHHHhhHHHHHHHHHHhcC--CCCeEEeCCCEEeeHHHHHHhcccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 379999999999999998753 2344554431 11 112345667788999999999999999999999999
Q ss_pred hccccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 72 FKTAFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 72 f~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
|+||.+||.+.++|+.+|+.+..++-.++..
T Consensus 176 f~pDr~gL~~~~~Ve~lQe~~~~aL~~~i~~ 206 (259)
T cd06932 176 LSPDRPGLINRKPVERIQEHVLQALELQLKK 206 (259)
T ss_pred hCCCcccCcCHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999999866553
No 76
>cd06952 NR_LBD_TR2_like The ligand binding domain of the orphan nuclear receptors TR4 and TR2. The ligand binding domain of the TR4 and TR2 (human testicular receptor 4 and 2): TR4 and TR2 are orphan nuclear receptors. Several isoforms of TR4 and TR2 have been isolated in various tissues. TR2 is abundantly expressed in the androgen-sensitive prostate. TR4 transcripts are expressed in many tissues, including central nervous system, adrenal gland, spleen, thyroid gland, and prostate. The expression of TR2 is negatively regulated by androgen, retinoids, and radiation. The expression of both mouse TR2 and TR4 is up-regulated by neurocytokine ciliary neurotrophic factor (CNTF) in mouse. It has shown that human TR2 binds to a wide spectrum of natural hormone response elements (HREs) with distinct affinities suggesting that TR2 may cross-talk with other gene expression regulation systems. The genes responding to TR2 or TR4 include genes that are regulated by retinoic acid receptor, vitamin D
Probab=99.38 E-value=4.3e-12 Score=109.04 Aligned_cols=100 Identities=26% Similarity=0.385 Sum_probs=79.7
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccc---------ccc--c---cchHHHHHHHHHHHHHhhcCCCChHHHHHHH
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESC---------KSR--H---VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIR 67 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~---------~~~--~---~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lk 67 (261)
+|||++|.|+++++++||+.+.+...++... .+. . ....+.++.+++++.+|+++++|.+||+|||
T Consensus 57 ~LLk~~w~el~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~ld~~E~~~Lk 136 (222)
T cd06952 57 SLVRACWPELFTLGLAQCSQQLSLPTILAAIINHLQTSIQQDKLSADKVKQVMEHINKLQEFVNSMQKLDVDDHEYAYLK 136 (222)
T ss_pred HHHHHHhHHHHHHHHHHHhcccCchHHhhhhhhhhhhhHhcCCCchhhhHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 6999999999999999998766655443321 000 1 1122334567889999999999999999999
Q ss_pred HHHhhccccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 68 AITLFKTAFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 68 aivlf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
||++|+||.+++...++++.+|+++.+++.-+..
T Consensus 137 aiiLf~~d~~~l~~~~~v~~lq~~i~~aL~~y~~ 170 (222)
T cd06952 137 AIVLFSPDHPGQELRQQIEKLQEKALMELRDYVG 170 (222)
T ss_pred HHHHhCCCCcCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999998875443
No 77
>cd06936 NR_LBD_Fxr The ligand binding domain of Farnesoid X receptor:a member of the nuclear receptor superfamily of ligand-activated transcription factors. The ligand binding domain (LBD) of Farnesoid X receptor: Farnesoid X receptor (FXR) is a member of the nuclear receptor superfamily of ligand-activated transcription factors. FXR is highly expressed in the liver, the intestine, the kidney, and the adrenals. FXR plays key roles in the regulation of bile acid, cholesterol, triglyceride, and glucose metabolism. Evidences show that it also regulates liver regeneration. Upon binding of ligands, such as bile acid, an endogenous ligand, FXRs bind to FXR response elements (FXREs) either as a monomer or as a heterodimer with retinoid X receptor (RXR), and regulate the expression of various genes involved in bile acid, lipid, and glucose metabolism. There are two FXR genes (FXRalpha and FXRbeta) in mammals. A single FXRalpha gene encodes four isoforms resulting from differential use of prom
Probab=99.37 E-value=4.9e-12 Score=108.66 Aligned_cols=99 Identities=19% Similarity=0.092 Sum_probs=76.9
Q ss_pred hhhhhccHHHHHHHHHhhcCC-CCCcc-ccc-cccccccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcccccc
Q psy16761 2 LLLAESWRELFILGLAQYLPS-LDLGE-LVE-SCKSRHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTAFTS 78 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~-~~~~~-l~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~f~~ 78 (261)
.|||+||.|+++++.|++... .++.. ... ..........+.++.+++++.+|+++++|.+||+|||||++|+||.+|
T Consensus 72 ~LLk~~~~el~iL~~a~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~kl~~L~l~~~E~~lLkaIvL~npd~~g 151 (221)
T cd06936 72 ALLKGSAVEAMFLRSAQIYNKKLPAGHADLLEERIRSSGISDEFITPMFNFYKSMGELKMTQEEYALLTAITILFPDRPY 151 (221)
T ss_pred HHHHHhHHHHHHHHHHHHhcccccCCCchhhHHHHHhccchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCcC
Confidence 699999999999999977632 11111 000 000011123467788889999999999999999999999999999999
Q ss_pred ccchhHHHHHHHHHHHHHHHHH
Q psy16761 79 RRELAGHLLLAESWRELFILGL 100 (261)
Q Consensus 79 L~~~dqv~lLq~~~~e~l~L~~ 100 (261)
|++.++|+.+|+.+..++.-++
T Consensus 152 L~~~~~Ve~~Q~~~~~aL~~y~ 173 (221)
T cd06936 152 LKDKEAVEKLQEPLLDLLQKFC 173 (221)
T ss_pred CCCHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999987544
No 78
>cd06929 NR_LBD_F1 Ligand-binding domain of nuclear receptor family 1. Ligand-binding domain (LBD) of nuclear receptor (NR) family 1: This is one of the major subfamily of nuclear receptors, including thyroid receptor, retinoid acid receptor, ecdysone receptor, farnesoid X receptor, vitamin D receptor, and other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.36 E-value=9e-12 Score=102.69 Aligned_cols=100 Identities=19% Similarity=0.145 Sum_probs=85.1
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
.|||++|.|+++++.|+++.+..+...+.++.. .........+.+.+++.+++++++|.+||+|+|+|++|+|+
T Consensus 38 ~Llk~~~~~l~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~llkai~l~~pd 117 (174)
T cd06929 38 ALLKGGCFEILLLRSATLYDPEKNSLTFGDGKGNSRDVLLNGGFGEFIEPLFEFAEKMNKLQLDDNEYALLTAIVLFSPD 117 (174)
T ss_pred HHHHhcHHHHHHHHHHHHhcccCCeEEecCCceecHHHHHHcccHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC
Confidence 699999999999999999988777776666532 11234456778889999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
.++|...++++..|+.+..++.-++.
T Consensus 118 ~~~l~~~~~v~~~q~~~~~aL~~y~~ 143 (174)
T cd06929 118 RPGLQDVDTVEKLQERLLEALQRYLK 143 (174)
T ss_pred cccCcCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999875443
No 79
>cd07068 NR_LBD_ER_like The ligand binding domain of estrogen receptor and estrogen receptor-related receptors. The ligand binding domain of estrogen receptor (ER) and estrogen receptor-related receptors (ERRs): Estrogen receptors are a group of receptors which are activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. ERRs are closely related to the estrogen receptor (ER) family. But, it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signalin
Probab=99.34 E-value=6.8e-12 Score=107.75 Aligned_cols=100 Identities=18% Similarity=0.186 Sum_probs=84.3
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCcccccccc--c----cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCK--S----RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~--~----~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
+|||++|.++++++.|+|+.+.++...+.++. . ...+.....+.+.+++.+++++++|.+||+|+|||++|+|+
T Consensus 63 ~LLk~~~~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~lLkaIil~npd 142 (221)
T cd07068 63 HLLQSAWLEILMLGLVWRSLPHPGKLVFAPDLLLDREQARVEGLLEIFDMLLQLVRRFRELGLQREEYVCLKAIILANSD 142 (221)
T ss_pred HHHHHhhHHHHHHHHHHhhcCCCCeEEeCCCceECHHHHhhccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCC
Confidence 69999999999999999998887766665541 1 11234455667889999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 76 FTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
.++|...++|+..|+.+..++.-++.
T Consensus 143 ~~~L~~~~~V~~~q~~~~~aL~~y~~ 168 (221)
T cd07068 143 VRHLEDREAVQQLRDAILDALVDVEA 168 (221)
T ss_pred ccCccCHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999885544
No 80
>cd06938 NR_LBD_EcR The ligand binding domain (LBD) of the Ecdysone receptor, a member of the nuclear receptors super family. The ligand binding domain (LBD) of the ecdysone receptor: The ecdysone receptor (EcR) belongs to the superfamily of nuclear receptors (NRs) of ligand-dependent transcription factors. Ecdysone receptor is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. ECR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of ecdysone receptor are ecdysteroids#the endogenous steroidal hormones found in invertebrates. In addition, insecticide bisacylhydrazine used against pests has shown to act on EcR. EcR must be dimerised with a USP for high-affinity ligand binding to occur. The ligand binding triggers a conformational change in the C-terminal part of the EcR ligand-binding domain that leads to transcript
Probab=99.32 E-value=1.3e-11 Score=106.80 Aligned_cols=101 Identities=14% Similarity=0.142 Sum_probs=85.4
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccccc------cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCKS------RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
++|||++|.|++++++|+++.+..++..+.++.. +..+.....+.+.+++.+|+++++|.+||+|||||++|+
T Consensus 74 i~LLK~~~~el~~L~~a~~~~~~~~~~~f~~g~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~ld~~E~~lL~AI~Lf~- 152 (231)
T cd06938 74 ITLLKACSSEVMMLRVARRYDAKTDSIVFANNQPYTRDSYRKAGMGDSAEDLFRFCRAMCSMKVDNAEYALLTAIVIFS- 152 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCeEEeeCCEEecHHHHhhcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcc-
Confidence 3699999999999999999988888888877632 122444567788899999999999999999999999997
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHhh
Q psy16761 75 AFTSRRELAGHLLLAESWRELFILGLAQ 102 (261)
Q Consensus 75 ~f~~L~~~dqv~lLq~~~~e~l~L~~a~ 102 (261)
+.++|.+.+.|+.+|+.+.+++.-++..
T Consensus 153 d~~~L~~~~~Ve~~Q~~~~~aL~~y~~~ 180 (231)
T cd06938 153 DRPGLLQPKKVEKIQEIYLEALRAYVDN 180 (231)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999999998865553
No 81
>cd06930 NR_LBD_F2 Ligand-binding domain of nuclear receptor family 2. Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.30 E-value=2.1e-11 Score=99.43 Aligned_cols=100 Identities=29% Similarity=0.405 Sum_probs=82.6
Q ss_pred hhhhhccHHHHHHHHHhhcCCCC--Ccccccccc----cc--ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLD--LGELVESCK----SR--HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFK 73 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~--~~~l~~~~~----~~--~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~ 73 (261)
+|+|++|.++++++.|+++.+.. +...+.++. +. .....+..+.+.+++.+|+++++|.+||+++|||++|+
T Consensus 35 ~Llk~~~~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~lLkai~l~~ 114 (165)
T cd06930 35 TLLQNSWAELLLLGLAQRSVHFELSELLLPSPLLVILTEREALLGLAELVQRLQELLSKLRSLQLDPKEYACLKAIVLFN 114 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCcceeecCCcccchhhhhhhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcC
Confidence 68999999999999999998763 334444441 11 11334567788899999999999999999999999999
Q ss_pred cccccccchhHHHHHHHHHHHHHHHHHh
Q psy16761 74 TAFTSRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 74 p~f~~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
|+.++|++.+.++..|+.+..++.-.+.
T Consensus 115 p~~~~l~~~~~v~~~q~~~~~aL~~~~~ 142 (165)
T cd06930 115 PDLPGLKNQQQVEELQEKAQQALQEYIR 142 (165)
T ss_pred CCCCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999886554
No 82
>cd06942 NR_LBD_Sex_1_like The ligand binding domain of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein. The ligand binding domain (LBD) of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein like: Sex-1 protein of C. elegans is a transcription factor belonging to the nuclear receptor superfamily. Sex-1 plays pivotal role in sex fate of C. elegans by regulating the transcription of the sex-determination gene xol-1, which specifies male (XO) fate when active and hermaphrodite (XX) fate when inactive. The Sex-1 protein directly represses xol-1 transcription by binding to its promoter. However, the active ligand for Sex-1 protein has not yet been identified. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Sex-1 like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.29 E-value=4.5e-11 Score=100.43 Aligned_cols=97 Identities=16% Similarity=0.116 Sum_probs=78.7
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccccc--c-----ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCKS--R-----HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKT 74 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~--~-----~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p 74 (261)
+|||++|.|++++++++++.+. ...+.++.. . .....+.+..+.+++.+++++++|.+||+||+||++|+|
T Consensus 38 ~LLk~~~~e~~ll~~~~~~~~~--~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~lL~Aivl~~p 115 (191)
T cd06942 38 QLLKGNMFPLYLLRLSRDYNNE--GTVLCDFRPVEFASLLSQLLHGKLIDEMLQFANKILTLNLTNAELALLCAAELLQP 115 (191)
T ss_pred HHHHHHHHHHHHHHHHHHhCcC--CeEEeCCccccHHHHHHhcchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Confidence 6999999999999999887665 334444421 1 112245566678999999999999999999999999999
Q ss_pred c--cccccchhHHHHHHHHHHHHHHHHH
Q psy16761 75 A--FTSRRELAGHLLLAESWRELFILGL 100 (261)
Q Consensus 75 ~--f~~L~~~dqv~lLq~~~~e~l~L~~ 100 (261)
| .+++++..+|+.+|+...+++.-.+
T Consensus 116 d~~~~~l~~~~~v~~~q~~l~~~L~~~~ 143 (191)
T cd06942 116 DSLGIQLEETAKSNLQLSVLFQFLKSVL 143 (191)
T ss_pred CCCCCCccchHHHHHHHHHHHHHHHHHH
Confidence 9 9999999999999999998887433
No 83
>KOG4215|consensus
Probab=99.26 E-value=1.8e-11 Score=108.84 Aligned_cols=104 Identities=14% Similarity=0.065 Sum_probs=86.9
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCcccccccc---ccc----cchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESCK---SRH----VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFK 73 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~---~~~----~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~ 73 (261)
++|||+.-.++++||.|+||+.+.+..++.+.. ... .......+++.|++..|+++++|..||+|||||++|+
T Consensus 189 vaLLk~~a~~hllLg~a~RSm~l~~v~ll~N~~v~~~~~~~~~eis~v~~RIiDElv~Pmr~L~md~~Ey~cLKAi~Ffd 268 (432)
T KOG4215|consen 189 VALLKAHAGQHLLLGAAFRSMHLKDVCLLNNTYVLHRHAPDLPEISRVAPRIIDELVNPMRRLQMDEIEYVCLKAIAFFD 268 (432)
T ss_pred HHHHHccchhhhhhhhhhccccccceEEecCceeeccCCCChHHHHHHHHHHHHHHhhHHHHhccchHHHHHHHHHHhcC
Confidence 379999999999999999999998878777762 111 1223446889999999999999999999999999999
Q ss_pred cccccccchh--HHHHHHHHHHHHHHHHHhhhc
Q psy16761 74 TAFTSRRELA--GHLLLAESWRELFILGLAQYL 104 (261)
Q Consensus 74 p~f~~L~~~d--qv~lLq~~~~e~l~L~~a~~s 104 (261)
|+.+||++.. .|+..++.+...+.-++..+.
T Consensus 269 P~akGis~~s~~~I~~aR~~vl~sLe~yi~d~q 301 (432)
T KOG4215|consen 269 PDAKGLSDPSQIRIREARNRVLKSLEAYISDRQ 301 (432)
T ss_pred ccccccCCchHhHHHHHHHHHHHHHHHHHhhcC
Confidence 9999999998 899999999988875555433
No 84
>cd06931 NR_LBD_HNF4_like The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes. The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal lig
Probab=99.13 E-value=3.3e-10 Score=97.26 Aligned_cols=98 Identities=20% Similarity=0.150 Sum_probs=80.4
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCcccccccc--ccc---cchHHHH-HHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCK--SRH---VDIEEEV-IRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~--~~~---~~~~~~~-~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
+|+|++|.++++++.|+|+.+..+..++.++. .+. .+..... +.+.+++.+++++++|.+||+|||||++|+|+
T Consensus 68 ~Llk~~~~~~~~l~~a~~s~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~lLkaiil~~p~ 147 (222)
T cd06931 68 ALLRAHAGEHLLLGVARRSMPYKDILLLGNDLIIPRHCPEPEISRVANRILDELVLPLRDLNIDDNEYACLKAIVFFDPD 147 (222)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCeeeeCCCcccccccccchHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCC
Confidence 69999999999999999998877776666652 110 1222223 44678999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHHHH
Q psy16761 76 FTSRRELAGHLLLAESWRELFILG 99 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~L~ 99 (261)
.+++++..++..+|+.+..++.-+
T Consensus 148 ~~~ls~~~~i~~~r~~~~~aL~~y 171 (222)
T cd06931 148 AKGLSDPQKIKRLRFQVQVSLEDY 171 (222)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999877643
No 85
>KOG4218|consensus
Probab=99.00 E-value=3.4e-09 Score=93.80 Aligned_cols=136 Identities=16% Similarity=0.209 Sum_probs=106.6
Q ss_pred hhhhhccHHHHHHHHHhhcCCC--CCcccccccccc---------ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHH
Q psy16761 2 LLLAESWRELFILGLAQYLPSL--DLGELVESCKSR---------HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAIT 70 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~--~~~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaiv 70 (261)
.||++||.|++|++..+|.+.+ +++..+.++++- +......+...++++-+++++++|..||+|+|.++
T Consensus 310 ~LLQncWselli~DhiyrqV~hgkegsi~lvtGqeV~~~~vA~qags~l~tlvs~aqelV~~Lr~lqfd~~efvclkFl~ 389 (475)
T KOG4218|consen 310 ILLQNCWSELLIVDHIYRQVHHGKEGSIKLVTGQEVPVGLVALQAGSLLQTLVSSAQELVIRLRNLQFDNFEFVCLKFLA 389 (475)
T ss_pred HHHHHhhHHHHHHHHHHHHHhcCcccceEEecCCcccchhHhhhhhhHHHHHHHHHHHHHHHHHhcCCccchhhHHHHHH
Confidence 6899999999999999998754 456667776431 12234567889999999999999999999999999
Q ss_pred hhccccccccchhHHHHHHHHHHHHHHHHHhhhcCCCCCccccccccccchhHHHHHHHHHHHHHHHHhcCCChhhhhhh
Q psy16761 71 LFKTAFTSRRELAGHLLLAESWRELFILGLAQYLPSLDLGELVESCKSRHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYI 150 (261)
Q Consensus 71 lf~p~f~~L~~~dqv~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~~l~~~~~~l~~L~l~~~E~~lL 150 (261)
||.-+...|++-.+|+.+|+....+++-... +.++ ...+.+..+.-.+...|...+...||.+-
T Consensus 390 LFsld~kfLenf~lv~~~qe~~naaLldyt~-c~yp---------------~~~~kF~qllL~L~eiRa~smqa~eyly~ 453 (475)
T KOG4218|consen 390 LFSLDMKFLENFELVRRLQEDSNAALLDYTS-CCYP---------------NWEQKFPQLLLVLEEIRATSMQAAEYLYT 453 (475)
T ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHhhc-cCCc---------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999998887762222 2222 33444555556667788888899999998
Q ss_pred hHh
Q psy16761 151 RAI 153 (261)
Q Consensus 151 kai 153 (261)
|.+
T Consensus 454 khl 456 (475)
T KOG4218|consen 454 KHL 456 (475)
T ss_pred HHh
Confidence 876
No 86
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=98.77 E-value=3.6e-08 Score=79.13 Aligned_cols=100 Identities=20% Similarity=0.139 Sum_probs=80.7
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccccc-----cc-----cchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHh
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCKS-----RH-----VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITL 71 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~-----~~-----~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivl 71 (261)
.|+|++|.++.+++.|+++........+.++.. .. .......+.+.+++.++++++++.+|+++++++++
T Consensus 28 ~Llk~~~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~~l~ai~l 107 (163)
T smart00430 28 ILLKHFWFEWLLLESAYRSAKMKKSLLLLPDGTFIDNDKVDLLRKLFSPFLDRILQELVKPLRELKLDDEEYALLKAILL 107 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCEEEeCCCcccCcchhHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 589999999999999999977665544443311 10 11223457788999999999999999999999999
Q ss_pred hccccccccch--hHHHHHHHHHHHHHHHHHh
Q psy16761 72 FKTAFTSRREL--AGHLLLAESWRELFILGLA 101 (261)
Q Consensus 72 f~p~f~~L~~~--dqv~lLq~~~~e~l~L~~a 101 (261)
|+|+.++++.. +.++.+|+.+...+.-++.
T Consensus 108 ~~~~~~~l~~~~~~~~~~~~~~~~~~L~~y~~ 139 (163)
T smart00430 108 FNPAGPGLSEEGKEILEKLQEKLANALHDYYL 139 (163)
T ss_pred cChhhhhhChHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999988 8999999999998876554
No 87
>cd06157 NR_LBD The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators. Ligand-binding domain (LBD) of nuclear receptor (NR): Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions in metazoans, from development, reproduction, to homeostasis and metabolism. The superfamily contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. The members of the family include receptors of steroids, thyroid hormone, retinoids, cholesterol by-products, lipids and heme. With few exceptions, NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=98.74 E-value=7.9e-08 Score=77.54 Aligned_cols=100 Identities=25% Similarity=0.229 Sum_probs=79.4
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCcccccccc------cc----ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHh
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCK------SR----HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITL 71 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~------~~----~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivl 71 (261)
.|+|++|.++++|+.|+++........+..+. +. ........+.+.+++.+|.++++|.+|+++++|+++
T Consensus 34 ~Llk~~~~~~~~L~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~l~~~E~~~l~ai~l 113 (168)
T cd06157 34 VLLKSFWLELLVLDLAYRSYKNGLSLLLAPNGGHTDDDKEDEMKLLLKGELIRLLFEFVNPLRALKLDDEEYALLKAIVL 113 (168)
T ss_pred HHHHHHhHHHHHHHHHHHHHhcCCCcEEeecccccccCchHHHHHhHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 68999999999999999997665544433221 00 011234457788999999999999999999999999
Q ss_pred hccccc-cccchhHHHHHHHHHHHHHHHHHh
Q psy16761 72 FKTAFT-SRRELAGHLLLAESWRELFILGLA 101 (261)
Q Consensus 72 f~p~f~-~L~~~dqv~lLq~~~~e~l~L~~a 101 (261)
|+|+.+ +....+.+...|+.+...+.-++.
T Consensus 114 ~~~~~~~s~~~~~~~~~~~~~~~~~L~~y~~ 144 (168)
T cd06157 114 FSPDRKESLEDRKIVEELQERLLEALQDYLR 144 (168)
T ss_pred hCCCCCCCccCHHHHHHHHHHHHHHHHHHHH
Confidence 999988 688889999999999998875554
No 88
>PF00104 Hormone_recep: Ligand-binding domain of nuclear hormone receptor; InterPro: IPR000536 Steroid or nuclear hormone receptors constitute an important superfamily of transcription regulators that are involved in widely diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. The receptors function as dimeric molecules in nuclei to regulate the transcription of target genes in a ligand-responsive manner. Nuclear hormone receptors consist of a highly conserved DNA-binding domain that recognises specific sequences (IPR001628 from INTERPRO), connected via a linker region to a C-terminal ligand-binding domain. In addition, certain nuclear hormone receptors have an N-terminal modulatory domain (IPR001292 from INTERPRO). The ligand-binding domain acts in response to ligand binding, which caused a conformational change in the receptor to induce a response, thereby acting as a molecular switch to turn on transcriptional activity []. For example, after binding of the glucocorticoid receptor to the corticosteroid ligand, the receptor is induced to perform functions ranging from nuclear translocation, oligomerisation, cofactor/kinase/transcription factor association, and DNA binding []. The ligand-binding domain is a flexible unit, where the binding of a ligand stabilises its conformation, which in turn favours coactivator binding to modify receptor activity []; the coactivator can bind to the activator function 2 (AF2) site at the C-terminal end of the ligand-binding domain []. The binding of different ligands can alter the conformation of the ligand-binding domain, which ultimately affects the DNA-binding specificity of the DNA-binding domain. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components. This entry represents the C-terminal ligand-binding domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0003707 steroid hormone receptor activity, 0006355 regulation of transcription, DNA-dependent, 0043401 steroid hormone mediated signaling pathway, 0005634 nucleus; PDB: 3IXP_D 1R20_D 2R40_D 1R1K_D 1PDU_B 1OSH_A 3GD2_A 3DCT_A 3OMK_C 3FLI_A ....
Probab=98.59 E-value=8.8e-07 Score=73.69 Aligned_cols=99 Identities=23% Similarity=0.230 Sum_probs=77.7
Q ss_pred hhhhhccHHHHHHHHHhhcC-CCCCcccccccccc----c-----cchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHh
Q psy16761 2 LLLAESWRELFILGLAQYLP-SLDLGELVESCKSR----H-----VDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITL 71 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~-~~~~~~l~~~~~~~----~-----~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivl 71 (261)
.|+|++|.++++++.|+++. .-.+...+.++... . ....+.++.+.+++.+|+++++|..||++++++++
T Consensus 53 ~Llk~~~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~~E~~~l~~l~l 132 (203)
T PF00104_consen 53 ALLKSSWFELFILELAYRSYQCNQDQLMFPNGTFIDKDSFDDFITGIFSEFIQYMNEVLRPFRRLKLDEEEFALLKALIL 132 (203)
T ss_dssp HHHHHHHHHHHHHHHHHHEEHTTTTEEEETTTEEEEHHHHHHTSTTTHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHH
T ss_pred hHHhhhcccccchhhhhhhcccccccccccccccccccccccccccccccchhHHHHHHHHHHHhhhhhHHHHHHHHHhh
Confidence 68999999999999999997 33344445544211 1 22455667888999999999999999999999999
Q ss_pred hcccccccc-chhH-HHHHHHHHHHHHHHHH
Q psy16761 72 FKTAFTSRR-ELAG-HLLLAESWRELFILGL 100 (261)
Q Consensus 72 f~p~f~~L~-~~dq-v~lLq~~~~e~l~L~~ 100 (261)
|+|+.++++ +..+ +...|+.+...+.-++
T Consensus 133 ~~~~~~~~~~~~~~~~~~~r~~~~~~L~~y~ 163 (203)
T PF00104_consen 133 FNPDYPGLSEETREIVEELRDRIIQALHSYY 163 (203)
T ss_dssp SSTTSTTHS-SHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccccccccchhHHHHHHHHHHHHHHHHHH
Confidence 999999998 5555 8889999888877555
No 89
>KOG4217|consensus
Probab=98.50 E-value=4.6e-07 Score=83.41 Aligned_cols=102 Identities=20% Similarity=0.133 Sum_probs=89.5
Q ss_pred hhhhhccHHHHHHHHHhhcCCCCCccccccccc--c---ccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhcccc
Q psy16761 2 LLLAESWRELFILGLAQYLPSLDLGELVESCKS--R---HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTAF 76 (261)
Q Consensus 2 ~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~~~--~---~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~f 76 (261)
.|+++++.|||+|++|+|+.+-+++.+|.++.- + ..+++++++.+.+|...+..+.+|..-|+||.|+++.. +.
T Consensus 444 lLlesaflelfvlRlAyRs~~~e~kliFcsG~vlhr~qC~rgfgewidsi~~FS~~l~~l~idi~AfacL~aLa~iT-Er 522 (605)
T KOG4217|consen 444 LLLESAFLELFVLRLAYRSNPSEDKLIFCSGLVLHRLQCLRGFGEWIDSIREFSRSLHSLNIDISAFACLSALALIT-ER 522 (605)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCeEEEecchhhhHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHhhh-hh
Confidence 489999999999999999999999999998831 2 23667999999999999999999999999999987765 66
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHhhhc
Q psy16761 77 TSRRELAGHLLLAESWRELFILGLAQYL 104 (261)
Q Consensus 77 ~~L~~~dqv~lLq~~~~e~l~L~~a~~s 104 (261)
.||.+..+|+.||.++..++--.++...
T Consensus 523 hGL~epkrVeelqnkIi~~LKDHvt~~~ 550 (605)
T KOG4217|consen 523 HGLKEPKRVEELQNKIINCLKDHVTGSA 550 (605)
T ss_pred hcCCCcchHHHHHHHHHHHHHHHhhhcc
Confidence 8999999999999999999987776433
No 90
>KOG4216|consensus
Probab=96.88 E-value=0.0022 Score=58.42 Aligned_cols=97 Identities=13% Similarity=0.068 Sum_probs=80.0
Q ss_pred ChhhhhccHHHHHHHHHhhcCCCCCccccccc---cc--cccchHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHhhccc
Q psy16761 1 HLLLAESWRELFILGLAQYLPSLDLGELVESC---KS--RHVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTA 75 (261)
Q Consensus 1 ~~LL~~~w~ell~l~~a~rs~~~~~~~l~~~~---~~--~~~~~~~~~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~ 75 (261)
+.|||++-.|+-+.+.+..+.+-..++.+... .+ ...+..+.+..++++...+..|++...|.|...++||..|+
T Consensus 317 I~LLKaGsfEv~lvrm~r~~~v~~ntV~~e~~~~g~~~f~a~~~~elis~vf~~~ksL~~Lq~te~EiAL~~alVL~~~~ 396 (479)
T KOG4216|consen 317 IVLLKAGSFEVVLVRMCRAFDVDNNTVYFEGKYAGPEVFYALGCEELISRVFEFGKSLCSLQLTEDEIALFSALVLMSAD 396 (479)
T ss_pred EEeeecCceeeeHHHHHHhhcccccceeecccccchhheeccChHHHHHHHHhhhHHHHhhccCcHHHHHHHHHHhhCCc
Confidence 46899999999999888888766566655533 11 12345667888999999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHHH
Q psy16761 76 FTSRRELAGHLLLAESWRELFI 97 (261)
Q Consensus 76 f~~L~~~dqv~lLq~~~~e~l~ 97 (261)
.+||.+..+|+.++....-++-
T Consensus 397 r~gl~e~~ki~~lq~~~~~a~q 418 (479)
T KOG4216|consen 397 RSGLQEKVKIEKLQQKIQLALQ 418 (479)
T ss_pred cccccchHHHHHHHHHHHHHHH
Confidence 9999999999999998777665
No 91
>KOG4846|consensus
Probab=76.34 E-value=7.3 Score=36.42 Aligned_cols=153 Identities=9% Similarity=-0.000 Sum_probs=92.1
Q ss_pred HHHHHHHHHHhhcCCCChHHHHHHHHHHhhccccccccchhH---HHHHHHHHHHHHHHHHhhhcCCCCCcccccccccc
Q psy16761 43 VIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTAFTSRRELAG---HLLLAESWRELFILGLAQYLPSLDLGELVESCKSR 119 (261)
Q Consensus 43 ~~~~~~~~~~~~~l~ld~~E~~~Lkaivlf~p~f~~L~~~dq---v~lLq~~~~e~l~L~~a~~s~~~~~~~ll~~~~~~ 119 (261)
++.+.+|.+....+......|+.+-.+.+..|. ....+ .-..+..|.+.++.+..+-.-.+ ++
T Consensus 375 v~e~~~fa~hi~~~~~~~~~~~~~~~L~~~q~l----~t~~~f~t~f~~~~Q~~~mfl~~~~~~~Q~~--~~-------- 440 (538)
T KOG4846|consen 375 VDEMLAFANHIITIGCTDGDIALFIVLILCQPL----TTEQQFSTNFKSQLQLLEMFLFYKKVLFQKM--TC-------- 440 (538)
T ss_pred HHHHHHhhhccCCccccccchhHHHHHhccchh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--Hh--------
Confidence 344445555555555555455544333222221 11111 23345667777776655432111 11
Q ss_pred chhHHHHHHHHHHHHHHHHhcCCChhhhhhhhHhhhcccCcccccccCCCCCCCCCCCCCCCcCcCcHHHHHHHHHHHHH
Q psy16761 120 HVDIEEEVIRFQSVLNEFKVLNIDPYEYDYIRAITLFKTVIEDEVKDNRSSSSSDDGSEHPESCLRDVIAIAAIQGHTQI 199 (261)
Q Consensus 120 ~~~~~~~~~~l~~~~~~l~~L~l~~~E~~lLkai~l~~pd~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~lq~~~~~ 199 (261)
..+.+.+.++..++.++..|+...+|- +.++-+-+ +.+.+.+..|+.+|+....
T Consensus 441 -~~~gd~~~a~~~~~~~ln~L~~~~~~~----~~~l~s~~---------------------s~~~e~~~sVe~lqe~~lr 494 (538)
T KOG4846|consen 441 -RIDGDTYKALMKCIHELNRLNELHKQQ----LNILRSNL---------------------SFLNEPPLSVEMLQESTLR 494 (538)
T ss_pred -hhchHHHHHHHHhhcchhhcCchHHHH----HHHHHHhh---------------------hhhccCCchHHHHHhhhhh
Confidence 123356677888999999999998887 44454444 5677778889999999988
Q ss_pred HHHHHHHhcCCCCccHHHHHHhhcccccCCCcccchhh
Q psy16761 200 FLNKYIHTVYPSQPTRFCKIQLILPRLKSIPSLVLEEL 237 (261)
Q Consensus 200 ~L~~~~~~~~~~~~~Rf~~LL~~Lp~Lr~~~~~~~e~l 237 (261)
++-.+ .+.|-...|+.......+.++.+...+.+.+
T Consensus 495 ~~~~~--~n~pl~~s~~~~~~~~~~d~~sl~~lhs~kv 530 (538)
T KOG4846|consen 495 LPVNH--NNQPLNQSLPHVRHQVKRDVQSLENLHSMKV 530 (538)
T ss_pred ccccc--cCCcccccCcchhhccCCcCCcccchhcccc
Confidence 88322 3445556778888888899988876554433
Done!