Query psy3123
Match_columns 585
No_of_seqs 287 out of 1394
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 17:01:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3123.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3123hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06939 NR_LBD_ROR_like The li 100.0 3.8E-42 8.2E-47 347.3 25.8 235 61-310 3-241 (241)
2 cd06932 NR_LBD_PPAR The ligand 100.0 2.9E-40 6.3E-45 336.8 26.8 251 60-312 2-258 (259)
3 cd06937 NR_LBD_RAR The ligand 100.0 4.1E-40 9E-45 330.5 25.5 198 114-311 33-230 (231)
4 cd06935 NR_LBD_TR The ligand b 100.0 4.9E-40 1.1E-44 332.3 25.4 240 61-309 3-243 (243)
5 cd07348 NR_LBD_NGFI-B The liga 100.0 9.9E-40 2.2E-44 328.9 27.0 231 63-313 3-235 (238)
6 cd07072 NR_LBD_DHR38_like Liga 100.0 2.3E-39 4.9E-44 326.6 26.9 231 62-312 3-235 (239)
7 cd07071 NR_LBD_Nurr1 The ligan 100.0 7.5E-39 1.6E-43 322.7 27.2 230 63-312 3-234 (238)
8 cd06945 NR_LBD_Nurr1_like The 100.0 2.7E-38 5.9E-43 318.9 25.4 230 63-312 3-235 (239)
9 cd06933 NR_LBD_VDR The ligand 100.0 3.9E-38 8.4E-43 317.6 25.7 228 60-313 4-237 (238)
10 cd06954 NR_LBD_LXR The ligand 100.0 6.2E-38 1.3E-42 315.2 25.5 233 62-311 2-235 (236)
11 cd06941 NR_LBD_DmE78_like The 100.0 7E-38 1.5E-42 306.1 22.7 193 119-311 2-195 (195)
12 cd06934 NR_LBD_PXR_like The li 100.0 2.6E-37 5.6E-42 309.4 23.0 219 60-309 4-226 (226)
13 cd06940 NR_LBD_REV_ERB The lig 100.0 5.4E-37 1.2E-41 299.1 22.5 183 114-296 7-189 (189)
14 cd06949 NR_LBD_ER Ligand bindi 100.0 1.3E-36 2.7E-41 306.1 24.3 197 116-312 29-234 (235)
15 cd06938 NR_LBD_EcR The ligand 100.0 1.9E-35 4.1E-40 296.6 26.1 228 62-311 2-230 (231)
16 cd06936 NR_LBD_Fxr The ligand 100.0 2.8E-35 6.1E-40 293.7 22.9 218 60-308 2-221 (221)
17 KOG4216|consensus 100.0 6E-36 1.3E-40 308.2 14.7 239 60-314 237-478 (479)
18 cd07069 NR_LBD_Lrh-1 The ligan 100.0 7.3E-35 1.6E-39 294.3 22.1 197 117-313 38-239 (241)
19 cd07068 NR_LBD_ER_like The lig 100.0 2.3E-34 4.9E-39 286.8 24.4 198 114-311 22-220 (221)
20 cd06944 NR_LBD_Ftz-F1_like The 100.0 1.2E-34 2.5E-39 292.1 22.5 195 118-312 37-236 (237)
21 cd07076 NR_LBD_GR Ligand bindi 100.0 1.3E-34 2.8E-39 292.8 22.6 198 116-315 25-228 (247)
22 cd06946 NR_LBD_ERR The ligand 100.0 3.1E-34 6.6E-39 285.8 24.8 197 115-311 23-220 (221)
23 cd07070 NR_LBD_SF-1 The ligand 100.0 2.1E-34 4.6E-39 290.3 21.9 195 118-312 37-236 (237)
24 cd06947 NR_LBD_GR_Like Ligand 100.0 1.5E-33 3.3E-38 285.4 24.3 197 117-313 26-231 (246)
25 cd07073 NR_LBD_AR Ligand bindi 100.0 2.6E-33 5.7E-38 283.6 25.2 196 117-314 26-232 (246)
26 KOG4217|consensus 100.0 9E-34 1.9E-38 297.4 20.7 268 8-313 333-602 (605)
27 cd07349 NR_LBD_SHP The ligand 100.0 9.7E-34 2.1E-38 282.9 18.6 192 119-310 19-222 (222)
28 cd06951 NR_LBD_Dax1_like The l 100.0 7.7E-34 1.7E-38 283.6 17.7 189 119-308 19-222 (222)
29 cd07075 NR_LBD_MR Ligand bindi 100.0 6.5E-33 1.4E-37 280.6 22.2 196 116-312 25-226 (248)
30 cd06948 NR_LBD_COUP-TF Ligand 100.0 3.2E-33 6.8E-38 281.5 19.8 195 118-312 29-225 (236)
31 cd07350 NR_LBD_Dax1 The ligand 100.0 3.8E-33 8.3E-38 280.2 17.5 192 117-308 17-232 (232)
32 cd06929 NR_LBD_F1 Ligand-bindi 100.0 1.2E-32 2.6E-37 262.9 19.2 172 119-290 2-173 (174)
33 cd06950 NR_LBD_Tlx_PNR_like Th 100.0 2.5E-32 5.5E-37 269.6 20.2 182 118-299 25-206 (206)
34 cd06942 NR_LBD_Sex_1_like The 100.0 3.9E-32 8.4E-37 265.1 20.1 173 119-293 2-177 (191)
35 cd06943 NR_LBD_RXR_like The li 100.0 4.4E-32 9.4E-37 267.2 20.3 176 120-295 31-207 (207)
36 cd06931 NR_LBD_HNF4_like The l 100.0 7.4E-30 1.6E-34 254.1 22.0 192 117-309 30-222 (222)
37 cd06952 NR_LBD_TR2_like The li 100.0 6.7E-30 1.5E-34 254.7 18.7 192 121-312 23-222 (222)
38 cd06953 NR_LBD_DHR4_like The l 100.0 1.1E-29 2.4E-34 252.1 19.8 175 116-290 24-202 (213)
39 cd06930 NR_LBD_F2 Ligand-bindi 100.0 3.1E-29 6.7E-34 236.6 17.5 162 122-283 2-165 (165)
40 cd07074 NR_LBD_PR Ligand bindi 100.0 2.6E-28 5.6E-33 247.0 23.9 198 116-313 25-231 (248)
41 KOG4215|consensus 100.0 1.7E-28 3.7E-33 252.0 22.7 195 119-313 154-352 (432)
42 PF00104 Hormone_recep: Ligand 99.9 6.1E-24 1.3E-28 204.2 22.7 181 116-296 14-202 (203)
43 cd06157 NR_LBD The ligand bind 99.9 4.6E-23 9.9E-28 192.0 15.5 160 123-282 2-167 (168)
44 smart00430 HOLI Ligand binding 99.9 1.1E-22 2.4E-27 188.6 14.4 154 129-282 2-162 (163)
45 KOG4218|consensus 99.8 8E-18 1.7E-22 172.2 16.1 195 118-312 273-472 (475)
46 KOG4846|consensus 99.6 2.6E-16 5.5E-21 164.5 -0.1 272 16-294 198-533 (538)
47 cd06968 NR_DBD_ROR DNA-binding 93.2 0.035 7.6E-07 48.9 0.9 24 17-40 71-94 (95)
48 KOG4846|consensus 93.1 0.34 7.3E-06 52.6 8.3 195 115-313 284-491 (538)
49 cd06965 NR_DBD_Ppar DNA-bindin 90.1 0.093 2E-06 45.1 0.1 22 16-37 63-84 (84)
50 cd07166 NR_DBD_REV_ERB DNA-bin 83.9 0.28 6.1E-06 42.6 -0.4 20 16-35 69-88 (89)
51 cd07165 NR_DBD_DmE78_like DNA- 73.4 1.1 2.3E-05 38.3 -0.0 17 17-33 64-80 (81)
52 cd06957 NR_DBD_PNR_like_2 DNA- 49.1 5.1 0.00011 34.2 -0.3 18 16-33 64-81 (82)
53 cd07163 NR_DBD_TLX DNA-binding 46.4 5.9 0.00013 34.6 -0.3 18 16-33 73-90 (92)
54 cd07179 2DBD_NR_DBD2 The secon 43.5 7.9 0.00017 32.4 0.0 11 17-27 64-74 (74)
55 cd06961 NR_DBD_TR DNA-binding 40.7 7.1 0.00015 33.6 -0.7 18 17-34 65-82 (85)
56 cd07164 NR_DBD_PNR_like_1 DNA- 40.1 10 0.00022 32.1 0.1 15 17-31 64-78 (78)
57 cd07169 NR_DBD_GCNF_like DNA-b 36.9 12 0.00025 32.7 0.0 16 16-31 71-86 (90)
58 cd06970 NR_DBD_PNR DNA-binding 35.9 13 0.00027 32.7 0.1 17 16-32 72-88 (92)
59 cd06964 NR_DBD_RAR DNA-binding 34.0 13 0.00028 32.0 -0.1 16 16-31 69-84 (85)
60 cd06967 NR_DBD_TR2_like DNA-bi 32.8 15 0.00033 31.7 0.1 16 16-31 68-83 (87)
61 cd07168 NR_DBD_DHR4_like DNA-b 32.6 15 0.00032 32.0 0.0 15 17-31 72-86 (90)
62 PF15178 TOM_sub5: Mitochondri 30.6 30 0.00064 26.7 1.3 15 501-515 8-25 (51)
63 cd07155 NR_DBD_ER_like DNA-bin 24.1 24 0.00052 29.5 -0.1 12 17-28 64-75 (75)
64 KOG0506|consensus 21.9 46 0.001 37.4 1.4 17 364-380 379-396 (622)
No 1
>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=100.00 E-value=3.8e-42 Score=347.28 Aligned_cols=235 Identities=34% Similarity=0.591 Sum_probs=208.4
Q ss_pred HHHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhh
Q psy3123 61 EQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAK 140 (585)
Q Consensus 61 ~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK 140 (585)
.+.++..+++||.+||+|+.++++.+..+. |.... .. .....++.++|++|++.++..|+.+|+|||
T Consensus 3 ~~~l~~~v~~ah~~~~~~~~~~~~~~~~~~-----~~~~~--~~------~~~~~~~~~~~~~~~~~~t~~i~~vVefAK 69 (241)
T cd06939 3 LEHLAQNICKAHLETCQYLREELQQLRWKT-----FSQEE--IL------AYQNKSREEMWQLCAEKITEAIQYVVEFAK 69 (241)
T ss_pred HHHHHHHHHHHHHHHccCcHHHHHHHhcCc-----CCccc--cc------ccccccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356889999999999999999988884432 11100 00 112345789999999999999999999999
Q ss_pred cCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChh
Q psy3123 141 RIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDT 220 (585)
Q Consensus 141 ~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~ 220 (585)
+||||.+|+++||++|||+||+|+++|++|++|+..++.+.+ +|.+++++.++..+..++++.+++|+.+|+.|+||++
T Consensus 70 ~IPgF~~L~~~DQi~LLk~~~~Ellll~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~L~ld~~ 148 (241)
T cd06939 70 RIPGFMELCQNDQIVLLKAGSLEVVLVRMSRAFNPSNNTVLF-DGKYAPIDLFKSLGCDDLISAVFDFAKSLCELKLTED 148 (241)
T ss_pred cCCCcccCCHHHHHHHHHHhHHHHHHHHHHHHhCCCCCEEEE-CCccccHHHHHHcCcHHHHHHHHHHHHHHHhcCCCHH
Confidence 999999999999999999999999999999999998888776 5667788877766677889999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccc-
Q psy3123 221 EIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQ- 299 (585)
Q Consensus 221 E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~- 299 (585)
||+||+||+||+|||+||.+...|+++|+++..+|+.|+..+| +.+.||++||++||+||+++..|.|.++++|+...
T Consensus 149 E~all~AivL~~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~-~~~~rf~kLL~~Lp~LR~l~~~~~e~l~~~k~~~p~ 227 (241)
T cd06939 149 EIALFSALVLISADRPGLQEKRKVEKLQQKIELALRHVLQKNH-GDDTILTKLLAKMPTLRALCSLHMEKLQKFKQSYPD 227 (241)
T ss_pred HHHHHHHHHHhcCCCcCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 9999999999999999999999999999999999999999999 88999999999999999999999999999999854
Q ss_pred ---cchhHHHHHHh
Q psy3123 300 ---QQQLAAQQQQW 310 (585)
Q Consensus 300 ---i~l~~Ll~Emf 310 (585)
..+|+|++|||
T Consensus 228 ~~~~~~ppL~~Elf 241 (241)
T cd06939 228 IVHLEFPPLYKELF 241 (241)
T ss_pred cccCCCCcHHHhhC
Confidence 36899999997
No 2
>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=100.00 E-value=2.9e-40 Score=336.83 Aligned_cols=251 Identities=29% Similarity=0.450 Sum_probs=211.8
Q ss_pred hHHHHHHHHHHHhhhcccChhhhhhhhhhhhc-CCCCcCCCCCCCCC-CCCCCCCCccchHHHHHHHHHhhhHHHHHHHH
Q psy3123 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAR-EHPTYTACPSTLAC-PLNPNSHPLQGQQELLQDFSERFSPTIRDVVE 137 (585)
Q Consensus 60 d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~-~~~~~~~~~~~~~c-~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVe 137 (585)
|...++..+..||.++|+++.++++.+..+.. .++.|......... ..+..+.....+.++|++|...++..|+.+|+
T Consensus 2 dl~~l~~~~~~a~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vVe 81 (259)
T cd06932 2 DLRALAKHLYVAYLKQFPLTKAKARKILTGKTTDHAPFVIYDIESLKLNKDGQPQEKTIRIRLFQRCQVRSVETIRELTE 81 (259)
T ss_pred cHHHHHHHHHHHHHHhccccHHHHHHhccCCCCCCCceeeecchhhhccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999999988755432 22333321111111 11222344567889999999999999999999
Q ss_pred hhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCC-eeecchhhcccc--hHHHHHHHHHHHHHHhh
Q psy3123 138 FAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNG-EVLVRDSIHSSN--ARFLMDSMFDFAERLNG 214 (585)
Q Consensus 138 FAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG-~~i~rd~l~~~~--~~~li~~m~~f~~~L~~ 214 (585)
|||+||||.+|+.+||++|||++|+|++++++|++++.+ .+.+.+| .++.++..+..+ ...+++.+++|+.+|++
T Consensus 82 wAK~IPgF~~L~~~DQi~LLk~~~~Ellil~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~ 159 (259)
T cd06932 82 FAKSLPGFRNLDLNDQVTLLKYGVHEVIFTMLASLYNKD--GLLFPEGNGYVTREFLESLRKPFCDIMEPKFEFAEKFNA 159 (259)
T ss_pred HHhcCCCcccCChhHHHHHHHHhhHHHHHHHHHHhcCCC--CeEEeCCCEEeeHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999988653 4666654 667888766433 35788999999999999
Q ss_pred cCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHH
Q psy3123 215 LHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAF 294 (585)
Q Consensus 215 LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~ 294 (585)
|+||++||+||+||+||+||++||.+...|+++|++++.+|+.||..+||+.+.||++||++||+||+++..|.|.++++
T Consensus 160 L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~~i~~~~p~~~~rf~kLLl~L~~LRsl~~~~~e~l~~~ 239 (259)
T cd06932 160 LELTDSELALFCAVIILSPDRPGLINRKPVERIQEHVLQALELQLKKNHPDSPQLFAKLLQKMVDLRQLVTDHVQMVQQI 239 (259)
T ss_pred cCCCHHHHHHHHHHHHhCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcc-ccchhHHHHHHhcC
Q psy3123 295 QMTE-QQQQLAAQQQQWHG 312 (585)
Q Consensus 295 kl~~-~i~l~~Ll~Emf~~ 312 (585)
+... ...+++|+.|||.+
T Consensus 240 k~~~~~~~~~pLl~Ei~~~ 258 (259)
T cd06932 240 KKTETDASLPPLLQEIYKD 258 (259)
T ss_pred HccCCCCCCCcHHHHHhhc
Confidence 8654 68899999999963
No 3
>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=4.1e-40 Score=330.52 Aligned_cols=198 Identities=29% Similarity=0.483 Sum_probs=190.6
Q ss_pred ccchHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhh
Q psy3123 114 LQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSI 193 (585)
Q Consensus 114 ~~~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l 193 (585)
...+..+|+++++.+++.|+.+|+|||+||||.+|+.+||++|||+||+|++++++|++|++..+.+.|.+|..+.++..
T Consensus 33 ~~~~~~~~~~l~e~~~~~l~~~V~wAK~iPgF~~L~~~DQi~LLk~~w~El~~L~~a~~~~~~~~~l~~~~~~~~~~~~~ 112 (231)
T cd06937 33 VRLDLGLWDKFSELSTKCIIKIVEFAKRLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQM 112 (231)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhcCCccccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEecCCceecHHHH
Confidence 44577899999999999999999999999999999999999999999999999999999999999999999999999888
Q ss_pred cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHH
Q psy3123 194 HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAEL 273 (585)
Q Consensus 194 ~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kL 273 (585)
+..+.+.+++.+++|+.+|++|++|++||+|||||+||+||++||.+...|+++|++++.+|+.|+..+||+.|.||++|
T Consensus 113 ~~~~~~~~~~~~~~~~~~l~~L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~p~rf~kL 192 (231)
T cd06937 113 HNAGFGPLTDLVFTFANQLLPLEMDDTEIGLLSAICLICGDRQDLEEPDRVEKLQEPLLEALKIYARKRRPDKPHMFPKM 192 (231)
T ss_pred hhcChHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCccCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHH
Confidence 76666788899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhc
Q psy3123 274 ISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWH 311 (585)
Q Consensus 274 LllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~ 311 (585)
|++||+||+++..|.|.++++++++..++++|+.|||+
T Consensus 193 Ll~Lp~LR~l~~~~~e~l~~~k~~~~~~~~~Ll~Eml~ 230 (231)
T cd06937 193 LMKITDLRSISAKGAERVITLKMEIPGPMPPLISEMLE 230 (231)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHhc
Confidence 99999999999999999999999999999999999996
No 4
>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=100.00 E-value=4.9e-40 Score=332.29 Aligned_cols=240 Identities=21% Similarity=0.374 Sum_probs=206.4
Q ss_pred HHHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhh
Q psy3123 61 EQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAK 140 (585)
Q Consensus 61 ~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK 140 (585)
++.++..+.+||.++. +..+++..+ ..|..... ...+..+.+.....+.++|.+|++.+++.|+.+|+|||
T Consensus 3 ~~~~~~~~~~ah~~~~-~~~~~~~~~-------~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~iVefAK 73 (243)
T cd06935 3 EWELIRTVTEAHVATN-AQGSHWKQK-------RKFLPEDI-GQAPIVSAPDGDKVDLEAFSHFTKIITPAITRVVDFAK 73 (243)
T ss_pred HHHHHHHHHHhhcccc-cchhHHhhc-------cCcCHHHh-hcCCCCCCCccccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4568899999999554 444433322 01110000 00011222222345678999999999999999999999
Q ss_pred cCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChh
Q psy3123 141 RIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDT 220 (585)
Q Consensus 141 ~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~ 220 (585)
+||||.+|+.+||++|||+||+|++++++|++|+...+++.|.+|..+.++.++..+.+.+++.+++|+.+|++|++|++
T Consensus 74 ~iPgF~~L~~~DQi~LLk~~~~ElliL~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~f~~~l~~L~ld~~ 153 (243)
T cd06935 74 KLPMFTELPCEDQIILLKGCCMEIMSLRAAVRYDPESETLTLSGEMAVTREQLKNGGLGVVSDAIFDLGVSLSSFNLDDT 153 (243)
T ss_pred cCCccccCChHHHHHHHHHhHHHHHHHHHHHHhCcCCCeEEeeCCeEeeHHHHHhcChHHHHHHHHHHHHHHHhcCCCHH
Confidence 99999999999999999999999999999999999999999999999999988877777899999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhcccc
Q psy3123 221 EIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQ 300 (585)
Q Consensus 221 E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i 300 (585)
||+||+||+|||||++||.+...|+++|++++.+|+.|+..++|+.+.||++||++||+||+++..|.|.++++|+.+..
T Consensus 154 E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~rf~kLL~~L~~LR~i~~~~~e~l~~~k~~~~~ 233 (243)
T cd06935 154 EVALLQAVLLMSSDRPGLACVERIEKLQDSFLLAFEHYINYRKHHVPHFWPKLLMKVTDLRMIGACHASRFLHMKVECPT 233 (243)
T ss_pred HHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred ch-hHHHHHH
Q psy3123 301 QQ-LAAQQQQ 309 (585)
Q Consensus 301 ~l-~~Ll~Em 309 (585)
++ ++|+.||
T Consensus 234 ~~~~~L~~Em 243 (243)
T cd06935 234 ELFPPLFLEV 243 (243)
T ss_pred CCCChhhhcC
Confidence 85 9999986
No 5
>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=9.9e-40 Score=328.94 Aligned_cols=231 Identities=23% Similarity=0.426 Sum_probs=202.2
Q ss_pred HHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhcC
Q psy3123 63 RMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRI 142 (585)
Q Consensus 63 ~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~L 142 (585)
.+|.++++||.++++... ++... .|.. ...+.....+...|++|++.++..|+.+|+|||+|
T Consensus 3 ~~~~~~~~~~~~~~~~~~-~~~~~--------~~~~---------~~~~~~~~~~~~~~~~~~el~t~~l~~iVewAK~i 64 (238)
T cd07348 3 NLIASLVRAHIDSNPSSA-KLDYS--------KFQE---------SVSPLFEKEDASDIQQFYDLLSGSLEVIRKWAEKI 64 (238)
T ss_pred hHHHHHHHHHhccCCchh-hcCcc--------cCCC---------CCCccccccchHHHHHHHHHHHHHHHHHHHHHccC
Confidence 578899999999987322 21110 1100 01112233445779999999999999999999999
Q ss_pred CCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChhHH
Q psy3123 143 PGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEI 222 (585)
Q Consensus 143 PgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E~ 222 (585)
|||.+|+.+||++|||++|+|+++|++|++++..+++++|.+|..++++.. ..+.+.+++.+++|+.+|++|++|++||
T Consensus 65 PgF~~L~~~DQi~LLk~~w~El~vL~~a~r~~~~~~~l~f~~~~~~~r~~~-~~~~~~~~~~i~ef~~~l~~L~ld~~E~ 143 (238)
T cd07348 65 PGFSDFCKEDQELLLESAFVELFILRLAYRSNPEEGKLIFCNGVVLHRTQC-VRGFGDWIDSILEFSQSLHRMNLDVSAF 143 (238)
T ss_pred CCccCCChHHHHHHHHHHHHHHHHHHHHHHcCCCCCeEEeeCCeeecHHHH-HhhHHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 999999999999999999999999999999999999999999999988764 3456688999999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhc--CCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhcccc
Q psy3123 223 GLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQN--HPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQ 300 (585)
Q Consensus 223 ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~--~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i 300 (585)
+|||||+|| ||++||.+...|+++|++++++|+.|+..+ +|+.+.||++||++||+||+++..+.|.++++|+++.+
T Consensus 144 a~LkAIvLf-~Dr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~p~rf~kLLl~Lp~LRsl~~~~~e~lf~~kl~~~~ 222 (238)
T cd07348 144 SCLAALVII-TDRHGLKEPKRVEELQNRLISCLKEHVSGSASEPQRPNCLSRLLGKLPELRTLCTQGLQRIFYLKLEDLV 222 (238)
T ss_pred HHHHHHHHc-CCCcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 999999999 799999999999999999999999999885 48999999999999999999999999999999999999
Q ss_pred chhHHHHHHhcCC
Q psy3123 301 QQLAAQQQQWHGE 313 (585)
Q Consensus 301 ~l~~Ll~Emf~~~ 313 (585)
++++|+.|||...
T Consensus 223 ~~~pLl~e~~~~~ 235 (238)
T cd07348 223 PPPPIVDKIFMDT 235 (238)
T ss_pred CCCHHHHHHHhcc
Confidence 9999999999753
No 6
>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=100.00 E-value=2.3e-39 Score=326.56 Aligned_cols=231 Identities=21% Similarity=0.402 Sum_probs=204.6
Q ss_pred HHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhc
Q psy3123 62 QRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKR 141 (585)
Q Consensus 62 ~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~ 141 (585)
..+|..+++||.+|++.... + ....|.. .....+..++.+.|++|++.++..|+.+|+|||+
T Consensus 3 ~~~~~~~~~ah~~~~~~~~~-~--------~~~~~~~---------~~~~~~~~~~~~~~~~~~~l~t~~i~~iv~wAK~ 64 (239)
T cd07072 3 VSLITALVRAHVDTSPDFAN-L--------DYSQYRE---------PSPLEPPMSEAEKVQQFYSLLTSSIDVIKTFAEK 64 (239)
T ss_pred hhHHHHHHHHhhcCCCcccc-c--------cccccCC---------CCcccCCcchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 46889999999999985432 0 1112211 0112345677899999999999999999999999
Q ss_pred CCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChhH
Q psy3123 142 IPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTE 221 (585)
Q Consensus 142 LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E 221 (585)
||||.+|+.+||++|||++|+|+++|++|+++...+++++|++|..++++.... +.+.+++.+++|+.+|++|++|++|
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 IPGFPDLCKEDQELLFQSASLELFVLRLAYRTAPEDTKLTFCNGVVLHKQQCQR-SFGDWLHAILEFSKSLHAMDIDISA 143 (239)
T ss_pred CCCccCCCHHHHHHHHHHhHHHHHHHHHHHHccCCCCeEEeeCCeeecHHHHHh-hHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 999999999999999999999999999999999999999999999998887654 4556889999999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcC--CCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccc
Q psy3123 222 IGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH--PEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQ 299 (585)
Q Consensus 222 ~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~--p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~ 299 (585)
|+|||||+||+ |++||.+...|+++|++++++|+.|+..++ |+.+.||++||++||+||+++..+.|.++++|+++.
T Consensus 144 ~a~LkAivLf~-dr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~rf~kLLl~Lp~LRsl~~~~~e~lf~~k~~~~ 222 (239)
T cd07072 144 FACLCALTLIT-ERHGLKEPHKVEQLQMKIISSLRDHVTYNAEAQKKPHYFSRLLGKLPELRSLSVQGLQRIFYLKLEDL 222 (239)
T ss_pred HHHHHHHHHhC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhHHHHhhHHHHHHHHHHHHcCCC
Confidence 99999999995 999999999999999999999999998765 467999999999999999999999999999999999
Q ss_pred cchhHHHHHHhcC
Q psy3123 300 QQQLAAQQQQWHG 312 (585)
Q Consensus 300 i~l~~Ll~Emf~~ 312 (585)
+++++|+.|||..
T Consensus 223 ~p~~~Ll~Em~~~ 235 (239)
T cd07072 223 VPAPPLIENMFVA 235 (239)
T ss_pred CCCcHHHHHHHhc
Confidence 9999999999975
No 7
>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=7.5e-39 Score=322.66 Aligned_cols=230 Identities=23% Similarity=0.383 Sum_probs=199.9
Q ss_pred HHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhcC
Q psy3123 63 RMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRI 142 (585)
Q Consensus 63 ~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~L 142 (585)
.+|..+++||.++++.... .....|.. .+.+.......+.|++|++.++..|+.+|+|||+|
T Consensus 3 ~~i~~~~~a~~~~~~~~~~---------~~~~~~~~---------~~~~~~~~~~~~~~~~~~e~~~~~i~~iVewAK~i 64 (238)
T cd07071 3 SLISALVRAHVDSNPAMTS---------LDYSRFQA---------NPDYQMSGDDTQHIQQFYDLLTGSMEIIRGWAEKI 64 (238)
T ss_pred hHHHHHHHHhhccCCchhh---------ccccccCC---------CCCCCCCcchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 5788999999999763211 01111110 01111122356889999999999999999999999
Q ss_pred CCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChhHH
Q psy3123 143 PGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEI 222 (585)
Q Consensus 143 PgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E~ 222 (585)
|||.+|+.+||++|||++|+|+++|++|++++..++++.|.+|..+.+... ..+.+.+++.+++|+.+|++|+||++||
T Consensus 65 PgF~~L~~~DQi~LLk~~~~Ell~L~~a~~~~~~~~~l~~~~g~~~~~~~~-~~~~~~~~~~i~ef~~~l~~L~ld~~E~ 143 (238)
T cd07071 65 PGFTDLPKADQDLLFESAFLELFVLRLAYRSNPVEGKLIFCNGVVLHRLQC-VRGFGEWIDSIVEFSSNLQNMNIDISAF 143 (238)
T ss_pred CCccCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCCceEeeCCceechhhh-hhcHHHHHHHHHHHHHHHHhcCCCHHHH
Confidence 999999999999999999999999999999999999999999998887764 3456678999999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcC--CCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhcccc
Q psy3123 223 GLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH--PEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQ 300 (585)
Q Consensus 223 ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~--p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i 300 (585)
+|||||+|| +|++||.+...|+++|+++..+|+.|+..++ |+.+.||++||++||+||+++..|.|.++++++.+.+
T Consensus 144 alLkAIvLf-~D~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~~~rf~kLLl~Lp~LRsl~~~~~e~l~~~k~~~~~ 222 (238)
T cd07071 144 SCIAALAMV-TERHGLKEPKRVEELQNKIVNCLKDHVTFNNGGLNRPNYLSKLLGKLPELRTLCTQGLQRIFYLKLEDLV 222 (238)
T ss_pred HHHHHHHHc-CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCcccHHHHHHHHhHHHHHHHHHHHHHHHHHHcCCCC
Confidence 999999999 5999999999999999999999999999774 6899999999999999999999999999999999999
Q ss_pred chhHHHHHHhcC
Q psy3123 301 QQLAAQQQQWHG 312 (585)
Q Consensus 301 ~l~~Ll~Emf~~ 312 (585)
++++|+.|||..
T Consensus 223 p~~~Ll~e~~~~ 234 (238)
T cd07071 223 PPPAIIDKLFLD 234 (238)
T ss_pred CCcHHHHHHHHh
Confidence 999999999964
No 8
>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=2.7e-38 Score=318.91 Aligned_cols=230 Identities=22% Similarity=0.362 Sum_probs=202.9
Q ss_pred HHHHHHHHHhhhcccCh-hhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhc
Q psy3123 63 RMLSTVVRAHLDTCAFT-ADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKR 141 (585)
Q Consensus 63 ~Li~~Iv~Ah~~tc~~T-~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~ 141 (585)
.++..+++||.++++-. ..++ +.|. ++.. +.+.......|+.|++.++..++.+|+|||+
T Consensus 3 ~~~~~l~~~~~~~~~~~~~~~~----------~~~~--~~~~-------~~~~~~~~~~~~~~~~~~~~~l~~iv~wAK~ 63 (239)
T cd06945 3 SLITALVRAHVDSTPRKTDLDY----------SKIQ--ENVD-------PVPPKPDSQQVQQFYDLLTGSVDVIRQWAEK 63 (239)
T ss_pred hHHHHHHHHhcccCCCccccch----------hhcc--CCCC-------CCCCCcchHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47888999999988742 1111 1111 1110 0112234678999999999999999999999
Q ss_pred CCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChhH
Q psy3123 142 IPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTE 221 (585)
Q Consensus 142 LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E 221 (585)
||||.+|+.+||++|||++|+|+++|+.|++++..++.+.|++|..+.++... .+...+++.+++|+.+|++|+++++|
T Consensus 64 IPgF~~L~~~DQi~LLk~~w~El~~L~~a~r~~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~i~~f~~~l~~L~ld~~E 142 (239)
T cd06945 64 IPGFKDLHREDQDLLLESAFLELFVLRLAYRSNPVDGKLVFCNGLVLHRLQCV-RGFGEWLDSILAFSSSLQSLLLDDIS 142 (239)
T ss_pred CCCcccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceEeeCCceecHHHHH-HhHHHHHHHHHHHHHHHHHHhCChHH
Confidence 99999999999999999999999999999999999999999999999888753 34567889999999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCC--CchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccc
Q psy3123 222 IGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHP--EQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQ 299 (585)
Q Consensus 222 ~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p--~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~ 299 (585)
|+||+||+||+||++||.+...|+++|++++.+|+.|+..+|| +.+.||++||++||+||+++..|.|.+++++.++.
T Consensus 143 ~~~LkaivL~~pD~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~~~rf~kLLl~Lp~LR~ls~~~~e~l~~~k~~~~ 222 (239)
T cd06945 143 AFCCLALLLLITERHGLKEPKKVEELQNKIISCLRDHVTSNYPGQDKPNRLSKLLLKLPELRTLSKKGLQRIFFLKLEDL 222 (239)
T ss_pred HHHHHHHHHhCCCccccCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhHHHHHHHHHHHHHHHHHHccCC
Confidence 9999999999999999999999999999999999999999999 89999999999999999999999999999999999
Q ss_pred cchhHHHHHHhcC
Q psy3123 300 QQQLAAQQQQWHG 312 (585)
Q Consensus 300 i~l~~Ll~Emf~~ 312 (585)
+++++|+.|||..
T Consensus 223 ~~~~~Ll~e~~~~ 235 (239)
T cd06945 223 LPPPPLIDKRFLD 235 (239)
T ss_pred CCCChHHHHHHHh
Confidence 9999999999974
No 9
>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=100.00 E-value=3.9e-38 Score=317.57 Aligned_cols=228 Identities=25% Similarity=0.425 Sum_probs=196.3
Q ss_pred hHHHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhh
Q psy3123 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFA 139 (585)
Q Consensus 60 d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFA 139 (585)
+++.++..++.||.++++++.+++..+. ...+..+|.+|++.++..|+.+|+||
T Consensus 4 ~q~~li~~l~~a~~~~~~~~~~~~~~~~--------------------------~~~~~~l~~~l~~l~~~~l~~iI~wA 57 (238)
T cd06933 4 EQQKIIDILLEAHHKTYDTTYSDFNKFR--------------------------PPVRLSMLPHLADLVSYSIQKVIGFA 57 (238)
T ss_pred HHHHHHHHHHHHHHHhcccchhHHhccC--------------------------CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778999999999999998876543320 11357899999999999999999999
Q ss_pred hcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCe-eecchhhc-ccchHHHHHHHHHHHHHHhhcCC
Q psy3123 140 KRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGE-VLVRDSIH-SSNARFLMDSMFDFAERLNGLHL 217 (585)
Q Consensus 140 K~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~-~i~rd~l~-~~~~~~li~~m~~f~~~L~~LqL 217 (585)
|+||||.+|+.+||++|||+||+|+++++.+++|+.++..+.+.++. .+.++... .+...++++.+++|+.+|++|++
T Consensus 58 K~iPgF~~L~~~DQi~LLk~~~~ElliL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~l~~~~~~l~~L~l 137 (238)
T cd06933 58 KMIPGFRDLTAEDQIALLKSSAIEVIMLRSNQSFSLDDMSWTCGSPDFKYKVSDVTKAGHSLELLEPLVKFQVGLKKLNL 137 (238)
T ss_pred cCCCccccCChHHHHHHHHHhHHHHHHHHHHHhcCcCCCeeEecCCceeecHHHHHHccCcHHHHHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999988877777776643 34444443 23334688899999999999999
Q ss_pred ChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCC--CchhHHHHHHHhhHHHHHHHHHHHHHHHHHh
Q psy3123 218 SDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHP--EQMNLCAELISMLPDLRTLNQLHSEKLVAFQ 295 (585)
Q Consensus 218 de~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p--~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~k 295 (585)
|++||+|||||+|||||++||.+...|+++|++|..+|+.||..+|| +.+.||++||++||+||+|+..|.+.++.++
T Consensus 138 d~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~~~~f~kLLl~L~~LRsi~~~h~~~~~~~~ 217 (238)
T cd06933 138 HEEEHVLLMAICILSPDRPGVQDHALIEAIQDRLSDTLQTYIRCRHPPPGSRLLYAKMIQKLADLRSLNEEHSKQYRSLS 217 (238)
T ss_pred CHHHHHHHHHHHHHCCCCCCCcchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHhHHHHhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999987 5567899999999999999999999988766
Q ss_pred hcc--ccchhHHHHHHhcCC
Q psy3123 296 MTE--QQQQLAAQQQQWHGE 313 (585)
Q Consensus 296 l~~--~i~l~~Ll~Emf~~~ 313 (585)
... ...+++|+.|||+.+
T Consensus 218 ~~~~~~~~~~pL~~Ei~~~~ 237 (238)
T cd06933 218 FQPEHSMKLTPLVLEVFGNE 237 (238)
T ss_pred hccCCCCCCCcHHHHHhccC
Confidence 554 335899999999743
No 10
>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=100.00 E-value=6.2e-38 Score=315.22 Aligned_cols=233 Identities=22% Similarity=0.426 Sum_probs=206.0
Q ss_pred HHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhc
Q psy3123 62 QRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKR 141 (585)
Q Consensus 62 ~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~ 141 (585)
+.+|..++.||.++|..+.+.+..+.... ....+....+....|.+++++.+..++.+|+|||+
T Consensus 2 ~~li~~l~~a~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~~~VefaK~ 65 (236)
T cd06954 2 REMIEQLVAAQQQCNKRSFEDVPKVTPWP----------------EGQDPQSREARQQRFAHFTELAILSVQEIVDFAKQ 65 (236)
T ss_pred hHHHHHHHHHHHhhcCCChHHHhccCCCc----------------cccccccchHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 45899999999999988777654332110 00011112235678999999999999999999999
Q ss_pred CCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhc-ccchHHHHHHHHHHHHHHhhcCCChh
Q psy3123 142 IPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIH-SSNARFLMDSMFDFAERLNGLHLSDT 220 (585)
Q Consensus 142 LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~-~~~~~~li~~m~~f~~~L~~LqLde~ 220 (585)
||||.+|+.+||+.|||++|+|+++|+.|++|+...+.+.|++|..+.++... .+....+++.+++|+.+|++|++|++
T Consensus 66 lP~F~~L~~~DQi~LLK~~~~el~iL~~a~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~L~ld~~ 145 (236)
T cd06954 66 LPGFLTLTREDQIALLKASTIEVMLLETARRYNPESEAITFLKDFPYSRDDFARAGLQVEFINPIFEFSKSMRELQLDDA 145 (236)
T ss_pred CCCcccCChHHHHHHHHHhHHHHHHHHHHHHhcCCCCeEEeeCCccccHHHHHHhcChHHHHHHHHHHHHHHHHcCCCHH
Confidence 99999999999999999999999999999999999999999999988888765 34456788999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhcccc
Q psy3123 221 EIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQ 300 (585)
Q Consensus 221 E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i 300 (585)
||+||+||+|||||++||++...|+++|++|.++|++||..+||+++.||++||++|++||+++..|.|.+++++..+ .
T Consensus 146 E~~lL~aivLf~pd~~gL~~~~~V~~lQ~~~~~aL~~y~~~~~p~~~~rf~klL~~L~~Lr~l~~~~~e~l~~~k~~~-~ 224 (236)
T cd06954 146 EYALLIAINIFSADRPNVQDHHRVERLQETYVEALHSYIKIKRPSDRLMFPRMLMKLVSLRTLSSVHSEQVFALRLQD-K 224 (236)
T ss_pred HHHHHHHHhhccCCcccCCCHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-C
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999864 6
Q ss_pred chhHHHHHHhc
Q psy3123 301 QQLAAQQQQWH 311 (585)
Q Consensus 301 ~l~~Ll~Emf~ 311 (585)
++++|+.|||+
T Consensus 225 ~~~~L~~El~~ 235 (236)
T cd06954 225 KLPPLLSEIWD 235 (236)
T ss_pred CCCcHHHHHhc
Confidence 89999999996
No 11
>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=100.00 E-value=7e-38 Score=306.12 Aligned_cols=193 Identities=33% Similarity=0.554 Sum_probs=182.1
Q ss_pred HHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccch
Q psy3123 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNA 198 (585)
Q Consensus 119 e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~ 198 (585)
++|++|++.++..|+.+|+|||+||||++|+.+||++|||++|+|+++++.+++|+..++++.|.+|..+.++..+..+.
T Consensus 2 ~~w~~~~~~~~~~l~~iI~waK~iP~F~~L~~~DQi~LLk~~~~el~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (195)
T cd06941 2 WLWQQLSEALTPSVQRVVEFAKRIPGFCDLSQDDQLLLIKAGFFEVWLVRISRLINSKSGSITFDDGISISRQQLDIIYD 81 (195)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCeEEecCCeEeeHHHHHhccc
Confidence 57999999999999999999999999999999999999999999999999999999988999999999998887665555
Q ss_pred HHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhH
Q psy3123 199 RFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLP 278 (585)
Q Consensus 199 ~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp 278 (585)
..+.+.+++|+.+|++|++|++||+|||||+||+||++||.+...|+++|+++.++|+.||..+||+.+.||++||++||
T Consensus 82 ~~~~~~~~~~~~~l~~L~ld~~E~allkAi~Lf~pd~~gl~~~~~Ve~lq~~~~~aL~~~i~~~~p~~~~rf~~Ll~~Lp 161 (195)
T cd06941 82 SDFVKALFEFSDSFNSLGLSDTEVALFCAVVLLSPDRIGLSEPKKVAILQDRVLEALKVQVSRNRPAEAQLFASLLMKIP 161 (195)
T ss_pred hHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhH
Confidence 57889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcc-ccchhHHHHHHhc
Q psy3123 279 DLRTLNQLHSEKLVAFQMTE-QQQQLAAQQQQWH 311 (585)
Q Consensus 279 ~LR~Ls~~h~E~L~~~kl~~-~i~l~~Ll~Emf~ 311 (585)
+||+++..|.+.++.++... ..++++|+.|||+
T Consensus 162 ~Lr~l~~~~~e~l~~~~~~~~~~~~p~L~~E~~~ 195 (195)
T cd06941 162 ELRSIGAKHQMHLDWYRVNWPLLRLPPLFAEIYD 195 (195)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHhcC
Confidence 99999999999999777764 4689999999985
No 12
>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=100.00 E-value=2.6e-37 Score=309.35 Aligned_cols=219 Identities=22% Similarity=0.418 Sum_probs=187.4
Q ss_pred hHHHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhh
Q psy3123 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFA 139 (585)
Q Consensus 60 d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFA 139 (585)
+++.++..++.||.++++++..+...+. .....|.++++.++..|+.+|+||
T Consensus 4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------------------~~~~~~~~~~~~~~~~l~~iV~wA 55 (226)
T cd06934 4 EQEELIRELVGAHTKTFDTTFSQFKQFR----------------------------PPFSLLPHFADLTTYMIKQIIKFA 55 (226)
T ss_pred HHHHHHHHHHHHHHhhcCccHHHHHhcC----------------------------cHhhHHHHHHHHHHHHHHHHHHHh
Confidence 5677899999999999988776543320 015689999999999999999999
Q ss_pred hcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhc-ccchHHHHHHHHHHHHHHhhcCCC
Q psy3123 140 KRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIH-SSNARFLMDSMFDFAERLNGLHLS 218 (585)
Q Consensus 140 K~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~-~~~~~~li~~m~~f~~~L~~LqLd 218 (585)
|+||||.+|+.+||++|||+||+|+++++++++|+...+.+.+.+ ..+...... .+....+.+.+++|+.+|++|++|
T Consensus 56 K~iPgF~~L~~~DQi~LLk~~~~Ellil~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~~~~~l~~L~ld 134 (226)
T cd06934 56 KDLPYFRSLPIEDQISLLKGATFEICQIRFNTVFNEETGTWECGP-LTYCIEDAARAGFQQLLLEPLLRFHYTLRKLQLQ 134 (226)
T ss_pred cCCcccccCCcchHHHHHHHhHHHHHHHHHHHHhcccCCeEeeCC-EeecHHHHHHccchHHHHHHHHHHHHHHHHcCCC
Confidence 999999999999999999999999999999999998877776544 444433333 333345778899999999999999
Q ss_pred hhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCc--hhHHHHHHHhhHHHHHHHHHHHHHHHHHhh
Q psy3123 219 DTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQ--MNLCAELISMLPDLRTLNQLHSEKLVAFQM 296 (585)
Q Consensus 219 e~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~--p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl 296 (585)
++||+||+||+|||||++||.+...|+++|++|.++|+.||..+||.. +.+|++||++||.||+++..|.+.+..++.
T Consensus 135 ~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~r~~f~kLLl~L~~LRsl~~~~~~~~~~~~~ 214 (226)
T cd06934 135 EEEYVLMQAMSLFSPDRPGVTQHDVIDQLQEKMALTLKSYIDSKRPGPEKRFLYPKILACLTELRTINEEYTKQILHIQD 214 (226)
T ss_pred HHHHHHHHHHHHhCCCCcCCcChHHHHHHHHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhHHHhcchHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999754 455999999999999999999999876665
Q ss_pred ccccc-hhHHHHHH
Q psy3123 297 TEQQQ-QLAAQQQQ 309 (585)
Q Consensus 297 ~~~i~-l~~Ll~Em 309 (585)
. .+ +++|+.||
T Consensus 215 ~--~~~~~pl~~Ei 226 (226)
T cd06934 215 I--QPMATPLMQEI 226 (226)
T ss_pred c--CCCCCchhhcC
Confidence 4 45 59999885
No 13
>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=100.00 E-value=5.4e-37 Score=299.12 Aligned_cols=183 Identities=50% Similarity=0.828 Sum_probs=175.0
Q ss_pred ccchHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhh
Q psy3123 114 LQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSI 193 (585)
Q Consensus 114 ~~~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l 193 (585)
..+..++|++|++.++..|+.+|+|||+||||.+|+.+||++|||++|+|+++|+.+++|+...+++.+.+|..++++..
T Consensus 7 ~~~~~~~~~~~~~~~~~~i~~~V~waK~iPgF~~L~~~DQi~LLk~~w~Ell~L~~a~~~~~~~~~l~~~~~~~~~~~~~ 86 (189)
T cd06940 7 PKSGHEIWEEFSMSFTPAVREVVEFAKRIPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFDAKERSVTFLSGQKYSVDDL 86 (189)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccCChhhHHHHHHHhhHHHHHHHHHHHhccCCCeEEecCCcEEcHHHH
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999998887
Q ss_pred cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHH
Q psy3123 194 HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAEL 273 (585)
Q Consensus 194 ~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kL 273 (585)
+..+...+++.+++|+.+|++|++|++||+|||||+|||||++||.+...|+++|++++.+|+.|+..+||+.+.||++|
T Consensus 87 ~~~~~~~~~~~~~~~~~~l~~L~ld~~E~a~LkAivLf~pd~~~L~~~~~Ve~lq~~~~~aL~~~~~~~~p~~~~rf~kL 166 (189)
T cd06940 87 HSMGAGDLLNSMFDFSEKLNSLQLSDEEMGLFTAVVLVSADRSGLENVNLVEALQETLIRALRTLIAKNHPNEPSIFTKL 166 (189)
T ss_pred HHcCcHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHH
Confidence 76566788999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhh
Q psy3123 274 ISMLPDLRTLNQLHSEKLVAFQM 296 (585)
Q Consensus 274 LllLp~LR~Ls~~h~E~L~~~kl 296 (585)
|++||+||++++.|.|.++++|+
T Consensus 167 L~~L~~LR~l~~~~~e~l~~~~~ 189 (189)
T cd06940 167 LLKLPDLRTLNNLHSEKLLAFKV 189 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999998863
No 14
>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=1.3e-36 Score=306.07 Aligned_cols=197 Identities=20% Similarity=0.293 Sum_probs=185.7
Q ss_pred chHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhc-
Q psy3123 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIH- 194 (585)
Q Consensus 116 ~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~- 194 (585)
+..+.+..+++++++.|+.+|+|||+||||.+|+.+||++|||++|+|+++|+.|+++....+.+.+.+|..+.++...
T Consensus 29 ~~~~~~~~l~~la~~~l~~~VewAK~iP~F~~L~~~DQi~LLk~~w~el~~L~~a~rs~~~~~~~~~~~~~~~~~~~~~~ 108 (235)
T cd06949 29 TEASLMMLLTNLADRELVHMINWAKKIPGFVDLSLHDQVHLLESAWLELLMLGLVWRSMEHPGKLLFAPDLLLDRNQGSC 108 (235)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHhCCCcccCCHHHHHHHHHHhHHHHHHHHHHHHhcCCCCeEEeeCCceecHHHhhh
Confidence 4678899999999999999999999999999999999999999999999999999987666788999999888877765
Q ss_pred ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCC-----CCcHHHHHHHHHHHHHHHHHHHHhcC---CCc
Q psy3123 195 SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSG-----LRNKELVERMRGKLENMLMHVLNQNH---PEQ 266 (585)
Q Consensus 195 ~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~G-----Lsd~~~Ve~lQer~l~aL~~yi~~~~---p~~ 266 (585)
..+...+.+.+++|+.+|++|++|++||+|||||+|||||++| +.+...|+++|+++..+|+.||..+| |++
T Consensus 109 ~~~~~~~~~~~~~~~~~l~~L~ld~~EyalLKAIvLfnpd~~g~~~~~l~~~~~Ve~lq~~~~~aL~~y~~~~~~~~p~~ 188 (235)
T cd06949 109 VEGMVEIFDMLLATASRFRELQLQREEYVCLKAIILLNSSVYTFLLESLESRRQVQRLLDKITDALVHACSKRGLSLQQQ 188 (235)
T ss_pred cccHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcCCcccccccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCc
Confidence 5556678889999999999999999999999999999999999 88999999999999999999999998 899
Q ss_pred hhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 267 MNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 267 p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
+.||++||++||.||+++.+|.|.++++++++.+++++|+.|||+.
T Consensus 189 ~~Rf~~LLl~Lp~LR~l~~~~~e~l~~~k~~~~~~~~~Ll~Eml~~ 234 (235)
T cd06949 189 SRRLAQLLLILSHIRHVSNKGMEHLYSMKCKNVVPLYDLLLEMLDA 234 (235)
T ss_pred ccHHHHHHHhchHHHHhhHHHHHHHHHHHhCCCCChHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999975
No 15
>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=100.00 E-value=1.9e-35 Score=296.65 Aligned_cols=228 Identities=25% Similarity=0.415 Sum_probs=200.1
Q ss_pred HHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhc
Q psy3123 62 QRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKR 141 (585)
Q Consensus 62 ~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~ 141 (585)
+.++.+++.+|.+....+.+....+.. +. .+ ........|.+++++....|+.+|+|||+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~------~~-------~~~~~~~~~~~~~~~~~~~i~~iIefaK~ 61 (231)
T cd06938 2 EELINRLVYYQEEFEQPSEEDLKRITE-------HP------QN-------DEDQSDMRFRHITEMTILTVQLIVEFAKR 61 (231)
T ss_pred hHHHHHHHHHHHhccCCChHHHhhcCC-------CC------Cc-------ccchhhhHHHHHHHHHHHHHHHHHHHHhc
Confidence 357888888888766555544332200 00 00 01123578999999999999999999999
Q ss_pred CCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChhH
Q psy3123 142 IPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTE 221 (585)
Q Consensus 142 LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E 221 (585)
||||..|+.+||++|||++|+|+++|+.|++|+...+.++|++|..+.++..+..+.+.+++.+++|+.+|++|++|++|
T Consensus 62 lp~F~~L~~~DQi~LLK~~~~el~~L~~a~~~~~~~~~~~f~~g~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~ld~~E 141 (231)
T cd06938 62 LPGFDKLSREDQITLLKACSSEVMMLRVARRYDAKTDSIVFANNQPYTRDSYRKAGMGDSAEDLFRFCRAMCSMKVDNAE 141 (231)
T ss_pred CCccccCChhHHHHHHHHHHHHHHHHHHHHHhCCCCCeEEeeCCEEecHHHHhhcCHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 99999999999999999999999999999999999999999999999988876656667889999999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCC-chhHHHHHHHhhHHHHHHHHHHHHHHHHHhhcccc
Q psy3123 222 IGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPE-QMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQ 300 (585)
Q Consensus 222 ~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~-~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i 300 (585)
|+||+||+||+ |++||++...|+++|++|.++|+.||..+||. ++.||++||++|++||+++..|.|.+++++++ ..
T Consensus 142 ~~lL~AI~Lf~-d~~~L~~~~~Ve~~Q~~~~~aL~~y~~~~~~~~~~~rf~kLL~~L~~Lr~l~~~~~e~~~~~k~~-~~ 219 (231)
T cd06938 142 YALLTAIVIFS-DRPGLLQPKKVEKIQEIYLEALRAYVDNRRPPSQRVIFAKLLSILTELRTLGNQNSEMCFSLKLK-NR 219 (231)
T ss_pred HHHHHHHHHcc-CCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CC
Confidence 99999999997 78899999999999999999999999999986 89999999999999999999999999999998 67
Q ss_pred chhHHHHHHhc
Q psy3123 301 QQLAAQQQQWH 311 (585)
Q Consensus 301 ~l~~Ll~Emf~ 311 (585)
.+++|+.|||+
T Consensus 220 ~~~pl~~Ei~d 230 (231)
T cd06938 220 KLPPFLAEIWD 230 (231)
T ss_pred CCCcHHHHHhC
Confidence 89999999996
No 16
>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=100.00 E-value=2.8e-35 Score=293.70 Aligned_cols=218 Identities=27% Similarity=0.463 Sum_probs=183.3
Q ss_pred hHHHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhh
Q psy3123 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFA 139 (585)
Q Consensus 60 d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFA 139 (585)
+++.+|..|+.||.+. .+..+....+..+ .....+.|.+++++++..++.+|+||
T Consensus 2 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~------------------------~~~~~~~~~~~~e~a~~~l~~~Iefa 56 (221)
T cd06936 2 EQQTLLDYIVDAYQKQ-RIPQEITKKLLQE------------------------EFSPEENFLILTEMATSHVQVLVEFT 56 (221)
T ss_pred hHHHHHHHHHHHHHHh-cCChHHHHHHccc------------------------CCCHhHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999999884 4433332222110 11234789999999999999999999
Q ss_pred hcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCee-ecchhhcc-cchHHHHHHHHHHHHHHhhcCC
Q psy3123 140 KRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEV-LVRDSIHS-SNARFLMDSMFDFAERLNGLHL 217 (585)
Q Consensus 140 K~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~-i~rd~l~~-~~~~~li~~m~~f~~~L~~LqL 217 (585)
|+||||.+|+.+||++|||++|+|+++++.|++|+.. +++|.. +..+.... .....+++.+++|+.+|++|++
T Consensus 57 K~iP~F~~L~~~DQi~LLk~~~~el~iL~~a~~~~~~-----~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~kl~~L~l 131 (221)
T cd06936 57 KGLPGFETLDHEDQIALLKGSAVEAMFLRSAQIYNKK-----LPAGHADLLEERIRSSGISDEFITPMFNFYKSMGELKM 131 (221)
T ss_pred hCCCchhhCChhHHHHHHHHhHHHHHHHHHHHHhccc-----ccCCCchhhHHHHHhccchHHHHHHHHHHHHHHHHcCC
Confidence 9999999999999999999999999999999888643 344442 22223332 2345788999999999999999
Q ss_pred ChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhc
Q psy3123 218 SDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMT 297 (585)
Q Consensus 218 de~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~ 297 (585)
|++||+||+||+|||||++||++...|+.+|++|.++|++||..+||++|.||++||++||+||+++..|.|.++++|+.
T Consensus 132 ~~~E~~lLkaIvL~npd~~gL~~~~~Ve~~Q~~~~~aL~~y~~~~~p~~p~rf~~LL~~L~~LR~l~~~~~e~l~~~k~~ 211 (221)
T cd06936 132 TQEEYALLTAITILFPDRPYLKDKEAVEKLQEPLLDLLQKFCKLYHPEDPQHFACLLGRLTELRTLNHHHAEMLMSWKVN 211 (221)
T ss_pred CHHHHHHHHHHHHhcCCCcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cccchhHHHHH
Q psy3123 298 EQQQQLAAQQQ 308 (585)
Q Consensus 298 ~~i~l~~Ll~E 308 (585)
. ..+++|+.|
T Consensus 212 ~-~~~~pl~~e 221 (221)
T cd06936 212 D-HKFTPLLCE 221 (221)
T ss_pred C-CCCCccccC
Confidence 6 468888765
No 17
>KOG4216|consensus
Probab=100.00 E-value=6e-36 Score=308.19 Aligned_cols=239 Identities=31% Similarity=0.534 Sum_probs=206.7
Q ss_pred hHHHHHHHHHHHhhhcccChhhhhhhhhhhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhh
Q psy3123 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFA 139 (585)
Q Consensus 60 d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFA 139 (585)
..+.++..|+++|.+| ++..+.+..+..... .+ ..+.. -...++.++|++++..+++.|+.+||||
T Consensus 237 e~d~laq~i~ksh~et-q~~~e~lh~~~~~~~---~~-----e~I~~-----yq~k~~e~mWe~cA~~lt~~IQ~vVEFA 302 (479)
T KOG4216|consen 237 ELDHLAQNIIKSHLET-QYLLEELHQITWQTF---DQ-----EEIEN-----YQNKGREEMWELCAIKLTPAIQYVVEFA 302 (479)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHhccC---CH-----HHHHH-----HHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456899999999999 888876655543211 00 00000 1245788999999999999999999999
Q ss_pred hcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCCh
Q psy3123 140 KRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSD 219 (585)
Q Consensus 140 K~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde 219 (585)
|.|+||.+|+++|||.|||.+.||+.++++++.|+...+.+++ .|.+...+.+...+..++++.+|+|+..+..|++++
T Consensus 303 K~I~GFM~L~Q~dQI~LLKaGsfEv~lvrm~r~~~v~~ntV~~-e~~~~g~~~f~a~~~~elis~vf~~~ksL~~Lq~te 381 (479)
T KOG4216|consen 303 KRIDGFMELCQNDQIVLLKAGSFEVVLVRMCRAFDVDNNTVYF-EGKYAGPEVFYALGCEELISRVFEFGKSLCSLQLTE 381 (479)
T ss_pred HhhhHhhccCccceEEeeecCceeeeHHHHHHhhcccccceee-cccccchhheeccChHHHHHHHHhhhHHHHhhccCc
Confidence 9999999999999999999999999999999999999877764 666777888888888889999999999999999999
Q ss_pred hHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccc
Q psy3123 220 TEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQ 299 (585)
Q Consensus 220 ~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~ 299 (585)
.|+|||.|+||++|||+||.+..+|+++|+++..+|++++.++|..+ ..+.+|+.+.|.||.++.+|.|.|+.||+..+
T Consensus 382 ~EiAL~~alVL~~~~r~gl~e~~ki~~lq~~~~~a~qhvl~knh~~~-~~l~kl~~k~~~~r~~~~lH~E~Lq~Fk~~hP 460 (479)
T KOG4216|consen 382 DEIALFSALVLMSADRSGLQEKVKIEKLQQKIQLALQHVLQKNHRED-GILTKLICKVSTLRALCGLHTEKLQAFKASHP 460 (479)
T ss_pred HHHHHHHHHHhhCCccccccchHHHHHHHHHHHHHHHHHHHhcCChh-hhHHHhhcccchHHHHHHHHHHHHHHHhhcCc
Confidence 99999999999999999999999999999999999999999998643 37899999999999999999999999999875
Q ss_pred cc---hhHHHHHHhcCCC
Q psy3123 300 QQ---QLAAQQQQWHGED 314 (585)
Q Consensus 300 i~---l~~Ll~Emf~~~~ 314 (585)
.- +|+|++|+|..+.
T Consensus 461 ~iv~~fP~LYKELFt~d~ 478 (479)
T KOG4216|consen 461 DIVRHFPPLYKELFTSDF 478 (479)
T ss_pred hHHhhccHHHHHHhcccC
Confidence 43 6999999998653
No 18
>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=7.3e-35 Score=294.33 Aligned_cols=197 Identities=20% Similarity=0.228 Sum_probs=179.5
Q ss_pred hHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccC--CCceeEecCCeeecchhhc
Q psy3123 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS--QTNSMICLNGEVLVRDSIH 194 (585)
Q Consensus 117 r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~--~~~~ll~~nG~~i~rd~l~ 194 (585)
....|..+++.+++.++.+|+|||++|+|.+|+.+||+.|||++|+|+++|+.|++... ..+.+++.+|..++.....
T Consensus 38 ~~~~~~~i~~~a~~~L~~~VeWAK~iP~F~~L~~~DQi~LLk~~w~EllvL~~a~~s~~~~~~~~~ll~~~~~~~~~~~~ 117 (241)
T cd07069 38 KLSTFGLMCKMADQTLFSIVEWARSSIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIA 117 (241)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHhhCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeeEecCCCccCchhhh
Confidence 34578999999999999999999999999999999999999999999999999997533 3577899999877655422
Q ss_pred ---ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHH
Q psy3123 195 ---SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCA 271 (585)
Q Consensus 195 ---~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~ 271 (585)
..+...+++.+++|+.+|++|++|..||||||||+|||||++||.+...|+++|++++++|+.|+..+||+.+.||+
T Consensus 118 ~~~~~~~~~~~~~~~e~~~~lr~L~ld~~E~a~LKaivLfnpd~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf~ 197 (241)
T cd07069 118 SQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFG 197 (241)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCchhHHH
Confidence 22344677888999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcCC
Q psy3123 272 ELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHGE 313 (585)
Q Consensus 272 kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~~ 313 (585)
+||++||.||+++..+.|.+++.+.++.+++++|+.||+...
T Consensus 198 kLLl~Lp~LR~is~~~~e~l~~~~l~g~~~~~~Ll~Eml~~~ 239 (241)
T cd07069 198 QLLLRLPEIRAISMQAEEYLYYKHLNGDVPYNNLLIEMLHAK 239 (241)
T ss_pred HHHHHhHHHHHhhHHHHHHHHhccccCCCcHHHHHHHHHhcc
Confidence 999999999999999999999999999999999999999753
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=100.00 E-value=2.3e-34 Score=286.81 Aligned_cols=198 Identities=21% Similarity=0.316 Sum_probs=185.7
Q ss_pred ccchHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhh
Q psy3123 114 LQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSI 193 (585)
Q Consensus 114 ~~~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l 193 (585)
..+..+.|+++++.+++.+..+|+|||++|+|.+|+.+||++|||++|+++++++.|+++....+.+.+.+|.++.++..
T Consensus 22 ~~~~~~~~~~~~~~a~~~l~~~vewaK~lp~F~~L~~~DQi~LLk~~~~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~ 101 (221)
T cd07068 22 PDTEVSLLATLSDLADRELVHIISWAKHIPGFSDLSLNDQMHLLQSAWLEILMLGLVWRSLPHPGKLVFAPDLLLDREQA 101 (221)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHhCCCcccCCHHHHHHHHHHhhHHHHHHHHHHhhcCCCCeEEeCCCceECHHHH
Confidence 45667899999999999999999999999999999999999999999999999999998766666889989988887776
Q ss_pred cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCC-CchhHHHH
Q psy3123 194 HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHP-EQMNLCAE 272 (585)
Q Consensus 194 ~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p-~~p~RF~k 272 (585)
...+...+.+.+++++.+|++|++|++||+|||||+|||||++||.+...|+++|++|+++|+.||..+|| +++.||++
T Consensus 102 ~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~lLkaIil~npd~~~L~~~~~V~~~q~~~~~aL~~y~~~~~~~~~~~Rf~~ 181 (221)
T cd07068 102 RVEGLLEIFDMLLQLVRRFRELGLQREEYVCLKAIILANSDVRHLEDREAVQQLRDAILDALVDVEAKRHGSQQPRRLAQ 181 (221)
T ss_pred hhccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCccCccCHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHH
Confidence 65556677888999999999999999999999999999999999999999999999999999999999999 99999999
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhc
Q psy3123 273 LISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWH 311 (585)
Q Consensus 273 LLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~ 311 (585)
||++++.||+++..+.+.++++++++.+++++|+.|||.
T Consensus 182 LL~~l~~Lr~~~~~~~e~l~~~k~~~~~~~~~Ll~e~l~ 220 (221)
T cd07068 182 LLLLLPHLRQASNKGVRHLYSVKCEGKVPMYKLFLEMLE 220 (221)
T ss_pred HHHhccHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHhc
Confidence 999999999999999999999999999999999999985
No 20
>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=1.2e-34 Score=292.11 Aligned_cols=195 Identities=20% Similarity=0.277 Sum_probs=181.2
Q ss_pred HHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhc-cCC-CceeEecCCeeecchhhcc
Q psy3123 118 QELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMF-DSQ-TNSMICLNGEVLVRDSIHS 195 (585)
Q Consensus 118 ~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~-~~~-~~~ll~~nG~~i~rd~l~~ 195 (585)
.+.++.+++++.+.+..+|+|||++|||.+|+.+||++|||++|+|+++++.|++. ... .+.+.+++|..+.++.+..
T Consensus 37 ~~~~~~~~~~a~~~l~~~VewaK~lp~F~~L~~~DQi~LLk~~w~el~~L~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~ 116 (237)
T cd06944 37 LDTFGLMCKMADQTLFSIVEWARNSVFFKELKVDDQMKLLQNCWSELLVLDHIYRQVHHGKEDSILLVTGQEVDLSTLAS 116 (237)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhCCChhcCCHHHHHHHHHHHhHHHHHHHHHHHhcccCCCCceeecCCCccchhhhhh
Confidence 45678999999999999999999999999999999999999999999999999974 333 5789999999888887542
Q ss_pred ---cchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHH
Q psy3123 196 ---SNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAE 272 (585)
Q Consensus 196 ---~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~k 272 (585)
....++++.+.+++.+|++|++|++||+|||||+|||||++||++...|+++|++|.++|++||..+||+.+.||++
T Consensus 117 ~~~~~~~~~~~~i~~~~~~l~~L~ld~~E~~lLkaIiL~npd~~gL~~~~~Ve~~q~~~~~aL~~y~~~~~~~~~~Rf~~ 196 (237)
T cd06944 117 QAGLGLSSLVDRAQELVNKLRELQFDRQEFVCLKFLILFNPDVKGLENRQLVESVQEQVNAALLDYTLCNYPQQTDKFGQ 196 (237)
T ss_pred hccccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCcCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHH
Confidence 23456788899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 273 LISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 273 LLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
||++||.||+++..+.|.+++.+++|.+++++|+.|||..
T Consensus 197 LL~~Lp~Lr~is~~~~e~l~~~~l~g~~~~~~Ll~eml~~ 236 (237)
T cd06944 197 LLLRLPEIRAISMQAEEYLYYKHLNGEVPCNNLLIEMLHA 236 (237)
T ss_pred HHHHhHHHHHHHHHHHHHHHhcccCCCCcHHHHHHHHHcC
Confidence 9999999999999999999999999999999999999974
No 21
>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=100.00 E-value=1.3e-34 Score=292.78 Aligned_cols=198 Identities=16% Similarity=0.169 Sum_probs=177.2
Q ss_pred chHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccC-CCc-eeEecCCeeecchhh
Q psy3123 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS-QTN-SMICLNGEVLVRDSI 193 (585)
Q Consensus 116 ~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~-~~~-~ll~~nG~~i~rd~l 193 (585)
....++..+++.+++.+..+|+|||+||||.+|+.+||++|||++|+|++++++||+... .+. .++|.+|..++++..
T Consensus 25 ~~~~~~~~l~~la~r~L~~~VeWAK~IPgF~~L~l~DQi~LLk~sW~Ellvl~~a~rs~~~~~~~~l~fa~~~~~~~~~~ 104 (247)
T cd07076 25 STWRIMSTLNMLGGRQVVAAVKWAKAIPGFRNLHLDDQMTLLQYSWMFLMAFALGWRSYRQSNGNLLCFAPDLIINEQRM 104 (247)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHhHHHHHHHHHHHhccCCCCCceEEecCCeeecHHHH
Confidence 356789999999999999999999999999999999999999999999999999997544 333 478889999998887
Q ss_pred cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcC-CCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCch---hH
Q psy3123 194 HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQNHPEQM---NL 269 (585)
Q Consensus 194 ~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsP-Dr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p---~R 269 (585)
+..+...+...+++++.+|++|++|.+||+|||||+|||| |++||.+...|+++|++|+.+|..||..++|+.+ .|
T Consensus 105 ~~~~~~~~~~~l~e~~~~~r~L~ld~~EfacLKAIvLfnp~d~~GL~~~~~Ve~lqe~~~~aL~~yi~~~~p~~~~~~~R 184 (247)
T cd07076 105 TLPCMYDQCKHMLYVSSELHRLQVSYEEYLCMKTLLLLSTVPKDGLKSQELFDEIRMTYIKELGKAIVKREGNSSQNWQR 184 (247)
T ss_pred hhhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchhhhH
Confidence 7666667778899999999999999999999999999999 9999999999999999999999999999988654 49
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcCCCC
Q psy3123 270 CAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHGEDN 315 (585)
Q Consensus 270 F~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~~~~ 315 (585)
|++||++||.||+++..+.| |+++++++.++..++.||+.+-.+
T Consensus 185 F~kLLllLp~Lr~i~~~~~e--f~~~~~~~~~~~~~~~~ml~ei~~ 228 (247)
T cd07076 185 FYQLTKLLDSMHEVVENLLN--FCFQTFLDKTMSIEFPEMLAEIIT 228 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHhcccchhhhhHHHHHHHHH
Confidence 99999999999999999999 889999988766666666665443
No 22
>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=100.00 E-value=3.1e-34 Score=285.77 Aligned_cols=197 Identities=19% Similarity=0.253 Sum_probs=184.0
Q ss_pred cchHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhc
Q psy3123 115 QGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIH 194 (585)
Q Consensus 115 ~~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~ 194 (585)
.+..+.|+.+++.+++.+..+|+|||++|||.+|+.+||++|||++|+++++++.|+++....+.+.+.+|.++.++...
T Consensus 23 ~~~~~~~~~~~~~~~~~l~~~Ve~aK~lp~F~~L~~~DQi~LLk~~~~el~lL~~a~~s~~~~~~~~~~~~~~~~~~~~~ 102 (221)
T cd06946 23 DSDIKALTTLSDLADRELVVIIGWAKHIPGFSSLSLNDQMSLLQSAWMEILTLGVVFRSLPFNGELVFAEDFILDEELAR 102 (221)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHhCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHccCCCCceeecCCeEEcHHHHh
Confidence 34578899999999999999999999999999999999999999999999999999998777788888888777766655
Q ss_pred ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCC-CchhHHHHH
Q psy3123 195 SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHP-EQMNLCAEL 273 (585)
Q Consensus 195 ~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p-~~p~RF~kL 273 (585)
..+...+.+.+++|+.+|++|++|++||+||+||+|||||++|+.+...|+++|++|.++|++||..+|| ++|.||++|
T Consensus 103 ~~~~~~~~~~~~~~~~~l~~L~l~~~E~~lLkai~L~npd~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~p~Rf~~L 182 (221)
T cd06946 103 EAGLLELYSACLQLVRRLQRLRLEKEEYVLLKALALANSDSVHIEDVEAVRQLRDALLEALSDYEAGRHPGEAPRRAGQL 182 (221)
T ss_pred hcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHH
Confidence 5555677788999999999999999999999999999999999999999999999999999999999998 899999999
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhc
Q psy3123 274 ISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWH 311 (585)
Q Consensus 274 LllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~ 311 (585)
|++++.||+++..+.+.++++++++.+++++|+.|||+
T Consensus 183 L~~l~~Lr~~~~~~~e~l~~~~~~~~~~~~~Ll~eml~ 220 (221)
T cd06946 183 LLTLPLLRQTDGKARRFFYGVKREGKVPMHKLFLEMLE 220 (221)
T ss_pred HhhchhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHhc
Confidence 99999999999999999999999999999999999996
No 23
>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=2.1e-34 Score=290.26 Aligned_cols=195 Identities=17% Similarity=0.172 Sum_probs=177.2
Q ss_pred HHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhcc--CCCceeEecCCeeecchhhc-
Q psy3123 118 QELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFD--SQTNSMICLNGEVLVRDSIH- 194 (585)
Q Consensus 118 ~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~--~~~~~ll~~nG~~i~rd~l~- 194 (585)
.+.+..+++++.+.+..+|+|||++|||.+|+.+||++|||++|+|+++|+.|+++- .+.+.+.+.+|..+.++...
T Consensus 37 ~~~~~~l~~~a~~~L~~~VeWaK~lP~F~~L~~~DQi~LLk~~w~el~vL~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~ 116 (237)
T cd07070 37 PAPFGLLCRMADQTFISIVDWARRCMVFKELEVADQMTLLQNCWSELLVFDHIYRQVQHGKEGSILLVTGQEVELSTVAA 116 (237)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHhCCChhhCCHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceeecCCCeechhHHHH
Confidence 346789999999999999999999999999999999999999999999999999753 34578999999988876643
Q ss_pred ccc--hHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHH
Q psy3123 195 SSN--ARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAE 272 (585)
Q Consensus 195 ~~~--~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~k 272 (585)
..+ ...++..+.+|+.+|++|++|++||+|||||+|||||++||++...|+++|++|..+|++||..+||+.+.||++
T Consensus 117 ~~~~~~~~~~~~~~e~~~kl~~L~ld~~Ey~~LkaIiLfnpd~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~Rf~k 196 (237)
T cd07070 117 QAGSLLHSLVLRAQELVLQLHALQLDRQEFVCLKFLILFSLDVKFLNNHSLVKDAQEKANAALLDYTLCHYPHCGDKFQQ 196 (237)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchHHHH
Confidence 211 223445567899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 273 LISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 273 LLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
||++||.||+++..+.|.+++.+++|.+++++|+.||+..
T Consensus 197 LLl~Lp~LRsis~~~~e~l~~~~l~g~~~~~~Ll~eml~~ 236 (237)
T cd07070 197 LLLRLVEVRALSMQAKEYLYHKHLGNEMPRNNLLIEMLQA 236 (237)
T ss_pred HHHHhHHHHHhhHHHHHHHHHhcccCCCcHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999864
No 24
>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=100.00 E-value=1.5e-33 Score=285.39 Aligned_cols=197 Identities=16% Similarity=0.213 Sum_probs=176.7
Q ss_pred hHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhh-ccCCC-ceeEecCCeeecchhhc
Q psy3123 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACM-FDSQT-NSMICLNGEVLVRDSIH 194 (585)
Q Consensus 117 r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r-~~~~~-~~ll~~nG~~i~rd~l~ 194 (585)
....+..+++++++.++.+|+|||+||||.+|+.+||++|||+||+|+++++.|++ ++..+ +.++|.+|..++++..+
T Consensus 26 ~~~~~~~l~ela~~~L~~~VeWAK~iPgF~~L~~~DQi~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~~~~~~~~ 105 (246)
T cd06947 26 TARLLSSLNRLGERQLVSVVKWAKALPGFRNLHLDDQMTLIQYSWMSLMVFALGWRSYKHVNSQMLYFAPDLVFNEQRMH 105 (246)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHhHHHHHHHHHHHhhccCCCCCeEEecCCeeecHHHhh
Confidence 45678999999999999999999999999999999999999999999999999986 44333 44778888888888876
Q ss_pred ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcC-CCCCCCcHHHHHHHHHHHHHHHHHHHHhcCC---CchhHH
Q psy3123 195 SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQNHP---EQMNLC 270 (585)
Q Consensus 195 ~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsP-Dr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p---~~p~RF 270 (585)
..+...+++.+++|+.+|++|++|++||+|||||+|||| |++||.+...|+++|+++..+|+.|+..+++ +.+.||
T Consensus 106 ~~~~~~~~~~~~e~~~~l~~L~ld~~E~acLKAIvLfn~~d~~gL~~~~~Ve~lqe~i~~AL~~yi~~~~~~~~~~~~Rf 185 (246)
T cd06947 106 QSAMYSLCLGMRQISQEFVRLQVTYEEFLCMKVLLLLSTIPKDGLKSQAAFDEMRMNYIKELRKAIVKREKNSSQSWQRF 185 (246)
T ss_pred hccHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHcCCCccccccCHHHHHHHHHHHHHHHHHHHHHhCCCCcccchHH
Confidence 555666778889999999999999999999999999999 8999999999999999999999999998763 568999
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHhhcc---ccchhHHHHHHhcCC
Q psy3123 271 AELISMLPDLRTLNQLHSEKLVAFQMTE---QQQQLAAQQQQWHGE 313 (585)
Q Consensus 271 ~kLLllLp~LR~Ls~~h~E~L~~~kl~~---~i~l~~Ll~Emf~~~ 313 (585)
++||++||.||+++....|.++..+... .+.+++|+.|||+..
T Consensus 186 ~kLLllLp~Lr~i~~~~~e~~~~~~~~~~~~~v~~~~ll~ei~~~~ 231 (246)
T cd06947 186 YQLTKLLDSMHDLVKNLLQFCFYTFIQSHALSVEFPEMLVEIISDQ 231 (246)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHhhcCCCccccHHHHHHHHHcc
Confidence 9999999999999999999988774444 368999999999975
No 25
>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=100.00 E-value=2.6e-33 Score=283.63 Aligned_cols=196 Identities=15% Similarity=0.197 Sum_probs=175.5
Q ss_pred hHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccC--CCceeEecCCeeecchhhc
Q psy3123 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS--QTNSMICLNGEVLVRDSIH 194 (585)
Q Consensus 117 r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~--~~~~ll~~nG~~i~rd~l~ 194 (585)
....++++++++++.+..+|+|||+||||.+|+.+||++|||+||.|++++++||+.-. +.+.+.|.+|..++++...
T Consensus 26 ~~~~~~~l~~la~~~L~~~VeWAK~iP~F~~L~~~DQi~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~l~~~~~~ 105 (246)
T cd07073 26 FAALLSSLNELGERQLVHVVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYRMH 105 (246)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHcCCCccCCCHHHHHHHHHHHHHHHHHHHHHHhccccCCCCeEEecCCeeechhhhc
Confidence 56778999999999999999999999999999999999999999999999999987533 4557999999888877665
Q ss_pred ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcC-CCCCCCcHHHHHHHHHHHHHHHHHHHHhcC---CCchhHH
Q psy3123 195 SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQNH---PEQMNLC 270 (585)
Q Consensus 195 ~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsP-Dr~GLsd~~~Ve~lQer~l~aL~~yi~~~~---p~~p~RF 270 (585)
......++..+++|+.+|++|++|.+||+|||||+|||| |++||.+...|+++|+++..+|.+|+..++ ++.+.||
T Consensus 106 ~~~~~~~~~~l~~~~~~l~~L~ld~~EyacLKAIiLfnp~d~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~~Rf 185 (246)
T cd07073 106 KSRMYSQCVRMRHLSQEFGWLQITPQEFLCMKALLLFSIIPVDGLKNQKFFDELRMNYIKELDRIIACKRKNPTSCSRRF 185 (246)
T ss_pred cccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCcccccCHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHH
Confidence 545556667788999999999999999999999999999 999999999999999999999999998774 3568999
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHhhcccc-----chhHHHHHHhcCCC
Q psy3123 271 AELISMLPDLRTLNQLHSEKLVAFQMTEQQ-----QQLAAQQQQWHGED 314 (585)
Q Consensus 271 ~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i-----~l~~Ll~Emf~~~~ 314 (585)
++||++||.||+++..+ .++++++++.. .+++|+.|||+...
T Consensus 186 ~kLLl~Lp~LRsi~~~~--~~~~~~l~~~~~~~~~~~~pll~ei~~~~~ 232 (246)
T cd07073 186 YQLTKLLDSVQPIAREL--HQFTFDLLIKSHMVSVDFPEMMAEIISVQV 232 (246)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHhCccccCccCccHHHHHHHHhcc
Confidence 99999999999999998 67888888875 68999999999653
No 26
>KOG4217|consensus
Probab=100.00 E-value=9e-34 Score=297.39 Aligned_cols=268 Identities=23% Similarity=0.342 Sum_probs=228.5
Q ss_pred ccccccccccccCCCccccCCccchHHHHHHHHHhhcCCccchhHHHHhhhhhHHHHHHHHHHHhhhcccChhhhhhhhh
Q psy3123 8 ILKSILKGNARYHNAPVRFGRVPKREKARILAAMQQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCAFTADKIEPML 87 (585)
Q Consensus 8 ~~vGM~kE~VGMSrdAVR~GRvPKreK~~l~~elq~~~~~~s~ed~~~~~l~d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l 87 (585)
+.||||||||+.|..++|+||+|+|.|.. + ..+. .....++..+++||.++.+-+..-....
T Consensus 333 L~VGMVKEVVRtdSLkGRRGRLpSKpKs~-----q--~spp----------SpPi~LltalvrAh~Dstp~~~~ldys~- 394 (605)
T KOG4217|consen 333 LAVGMVKEVVRTDSLKGRRGRLPSKPKSR-----Q--PSPP----------SPPISLLTALVRAHVDSTPSTMTLDYSR- 394 (605)
T ss_pred HHhhhhhhheeccccccccCCCCCCCCCC-----C--CCCC----------CCchHHHHHHHHHhhcCCCCcchhhHHH-
Confidence 57999999999999999999999998884 1 1111 1334588999999999887443211111
Q ss_pred hhhcCCCCcCCCCCCCCCCCCCCCCCccchHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHH
Q psy3123 88 RRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLV 167 (585)
Q Consensus 88 ~~~~~~~~~~~~~~~~~c~l~~~~~~~~~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllL 167 (585)
|. ++. ++-......-.++|+++++-.+..+-.||.+||||.+|..+||-+||.++++|+++|
T Consensus 395 --------~q--------~~~--~~~~~tdA~~vqqfy~lLtgsl~virk~aekiPgf~el~paDq~lLlesaflelfvl 456 (605)
T KOG4217|consen 395 --------FQ--------ELV--PHFSGTDALHVQQFYDLLTGSLEVIRKWAEKIPGFAELPPADQDLLLESAFLELFVL 456 (605)
T ss_pred --------hc--------ccc--ccccccHHHHHHHHHHHhhhhHHHHHHHHHhCcCcccCChhhHHHHHHHHHHHHHHH
Confidence 10 111 111234556689999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCCceeEecCCeeecchhhcccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHH
Q psy3123 168 RLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERM 247 (585)
Q Consensus 168 r~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~l 247 (585)
|+|+|.+..+++++|+||.++++-+.-. ++++|++.|.+|...+..|++|-.-|+||.|+.+.. +|.||.++..||++
T Consensus 457 RlAyRs~~~e~kliFcsG~vlhr~qC~r-gfgewidsi~~FS~~l~~l~idi~AfacL~aLa~iT-ErhGL~epkrVeel 534 (605)
T KOG4217|consen 457 RLAYRSNPSEDKLIFCSGLVLHRLQCLR-GFGEWIDSIREFSRSLHSLNIDISAFACLSALALIT-ERHGLKEPKRVEEL 534 (605)
T ss_pred HHHHhcCCCCCeEEEecchhhhHHHHHH-HHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHhhh-hhhcCCCcchHHHH
Confidence 9999999999999999999999865443 345999999999999999999999999999999987 89999999999999
Q ss_pred HHHHHHHHHHHHHhcC--CCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcCC
Q psy3123 248 RGKLENMLMHVLNQNH--PEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHGE 313 (585)
Q Consensus 248 Qer~l~aL~~yi~~~~--p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~~ 313 (585)
|++++++|++||..+. ...+.++.++|.+|++||+++....+.++++|+.+.++.+.++.-||.+.
T Consensus 535 qnkIi~~LKDHvt~~~~~~~k~~~lSrllgklpeLr~l~tqgLqrifyLklEdlvp~p~iidklf~dt 602 (605)
T KOG4217|consen 535 QNKIINCLKDHVTGSAGKLAKPVYLSRLLGKLPELRTLCTQGLQRIFYLKLEDLVPPPAIIDKLFLDT 602 (605)
T ss_pred HHHHHHHHHHHhhhcccccccchHHHHHhhhhHHHHHHHHHhhhhhhcccHhhccCchhhhhhhhhcc
Confidence 9999999999996553 46789999999999999999999999999999999999999999998764
No 27
>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=9.7e-34 Score=282.85 Aligned_cols=192 Identities=15% Similarity=0.135 Sum_probs=164.9
Q ss_pred HHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCc----------eeEecCCeee
Q psy3123 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTN----------SMICLNGEVL 188 (585)
Q Consensus 119 e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~----------~ll~~nG~~i 188 (585)
..++.+++.+.+.++.+|+|||+||+|.+|+.+||++|||++|.|+++|++|++..+.+. .+++.+....
T Consensus 19 ~~~~~ice~a~~~L~~~V~WAK~iP~F~~L~~~DQi~LLk~~W~EL~iL~laq~s~~~~~~~~~~~~~~~~~l~~~~~~~ 98 (222)
T cd07349 19 CTPHRTCREASDVLVKTVAFMRNLPSFWQLPPQDQLLLLQNCWGPLFLLGLAQDRVTFEVAEAPVPSMLKKILLEGQSSS 98 (222)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhcCCCcccCChHHHHHHHHHccHHHHHHHHHHHccccccccccchhHHHHHHhcccccc
Confidence 457899999999999999999999999999999999999999999999999997533211 1222222111
Q ss_pred cchhh--cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCc
Q psy3123 189 VRDSI--HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQ 266 (585)
Q Consensus 189 ~rd~l--~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~ 266 (585)
..... ........+..+++|+.+|++|++|++||+|||||+|||||++||.+...|+++|+++.++|+.|+..+||+.
T Consensus 99 ~~~~~~~~~~~~~~~~~~l~e~~~~l~~L~ld~~Eya~LkaivLf~pd~~gl~~~~~V~~lqe~~~~aL~~~~~~~~p~~ 178 (222)
T cd07349 99 GGSGQPDRPQPSLAAVQWLQCCLNKFWSLDLSPKEYAYLKGTILFNPDVPGLTASSHVGHLQQEAQWALCEVLEPLHPQD 178 (222)
T ss_pred cccchhhhhhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCcccCCCHHHHHHHHHHHHHHHHHHHHHHCCCc
Confidence 11100 1112233456678999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHh
Q psy3123 267 MNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQW 310 (585)
Q Consensus 267 p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf 310 (585)
+.||++||++||.||+++....|.+++.+++|.++++.|+.||+
T Consensus 179 ~~r~~kLLl~Lp~LR~i~~~~ie~lff~~~~g~~~i~~Ll~eml 222 (222)
T cd07349 179 QGRFARILLTASTLKSIPPSLITDLFFRPIIGDADIAELLGDML 222 (222)
T ss_pred ccHHHHHHHHhHHHhcCCHHHHHHHhCccccCCCcHHHHHHHhC
Confidence 99999999999999999999999999999999999999999986
No 28
>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=7.7e-34 Score=283.62 Aligned_cols=189 Identities=17% Similarity=0.129 Sum_probs=163.3
Q ss_pred HHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCce----------eEecCCeee
Q psy3123 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNS----------MICLNGEVL 188 (585)
Q Consensus 119 e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~----------ll~~nG~~i 188 (585)
..++.+++.+++.++.+|+|||+||||.+|+.+||++|||++|+|+++|+.|+++...++. ++..++..+
T Consensus 19 ~~~~~~ce~a~~~L~~~V~wAK~iP~F~~L~~~DQi~LLk~~w~El~iL~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (222)
T cd06951 19 CAPQMVCRAASQVLLKTIRFVRNLPCFTYLPPDDQLRLLRRSWAPLLLLGLAQDKVPFDTVEVPAPSILCEILTGAEMHW 98 (222)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhCCCcccCChHHHHHHHHHHhHHHHHHHHHHHhccccccccccchHHHHHHhcccccc
Confidence 3468999999999999999999999999999999999999999999999999985443221 233333333
Q ss_pred cchhh---c--ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcC
Q psy3123 189 VRDSI---H--SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH 263 (585)
Q Consensus 189 ~rd~l---~--~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~ 263 (585)
..... . ......+++.+++|+.+|++|++|+.||||||||+|||||++|+ +...|+++|++++++|+.|+..+|
T Consensus 99 ~~~~~~~~~~~~~~~~~~~~~l~e~~~~l~~L~ld~~Eya~LkAivLfnpD~~gl-~~~~Ve~lQe~~~~aL~~yi~~~~ 177 (222)
T cd06951 99 GGTPPPTLTMPPCIPLADVQDIQQFLMKCWSLDLDCKEYAYLKGAVLFTPVPPLL-CPHYIEALQKEAQQALNEHTMMTR 177 (222)
T ss_pred ccccccccccchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCcc-CHHHHHHHHHHHHHHHHHHHHhhC
Confidence 22211 1 11122356789999999999999999999999999999999999 999999999999999999999999
Q ss_pred CCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHH
Q psy3123 264 PEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQ 308 (585)
Q Consensus 264 p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~E 308 (585)
|+++.||++||++||.||+++..+.|.+++.+.+|.+++++++.|
T Consensus 178 p~~~~Rf~kLLl~Lp~LRsl~~~~~e~lff~~~~g~~~i~~ll~~ 222 (222)
T cd06951 178 PLEQLRSARLLLMLSLLRGIKTEPVTELFFRPIIGNVSMDDVLLQ 222 (222)
T ss_pred CCcccHHHHHHHHhHHhhcCCHHHHHHHhCccccCCCcHHHHhcC
Confidence 999999999999999999999999999999999999999998864
No 29
>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=100.00 E-value=6.5e-33 Score=280.62 Aligned_cols=196 Identities=18% Similarity=0.210 Sum_probs=169.9
Q ss_pred chHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhh-ccCCC-ceeEecCCeeecchhh
Q psy3123 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACM-FDSQT-NSMICLNGEVLVRDSI 193 (585)
Q Consensus 116 ~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r-~~~~~-~~ll~~nG~~i~rd~l 193 (585)
.....|..+++.+++.|+.+|+|||+||||.+|+.+||++|||+||+|++++++||+ |+... +.+.|.+|..++++..
T Consensus 25 ~~~~~~~~l~ela~~~L~~iVeWAK~IPgF~~L~~~DQi~LLk~~w~EllvL~~a~rs~~~~~~~~l~fa~~~~~~~~~~ 104 (248)
T cd07075 25 TAENLLSTLNRLAGKQMIQVVKWAKVLPGFRNLPLEDQITLIQYSWMCLSSFALSWRSYKHTNSQFLYFAPDLVFNEERM 104 (248)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHHHHHHHHHHhccCCCCCceEEecCCccccHHHH
Confidence 346779999999999999999999999999999999999999999999999999987 45433 4588899998888887
Q ss_pred cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCC-CCCCCcHHHHHHHHHHHHHHHHHHHHhcCC---CchhH
Q psy3123 194 HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPS-RSGLRNKELVERMRGKLENMLMHVLNQNHP---EQMNL 269 (585)
Q Consensus 194 ~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPD-r~GLsd~~~Ve~lQer~l~aL~~yi~~~~p---~~p~R 269 (585)
...+..++++.+++|+.+|++|+||++||+|||||+||||| ++||++...|+++|++|..+|+.|+..+++ +.+.|
T Consensus 105 ~~~~~~~~~~~~~e~~~~l~~L~Ld~~E~acLKAIvLfn~d~~~gL~~~~~Ve~lqe~~~~aL~~yi~~~~~~~~~~~~R 184 (248)
T cd07075 105 HQSAMYELCQGMHQISLQFVRLQLTFEEYTIMKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMVTKAPNNSGQSWQR 184 (248)
T ss_pred hhccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCcccchhH
Confidence 76566678889999999999999999999999999999996 899999999999999999999999997665 45699
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 270 CAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 270 F~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
|++|+++||.||.++.+..|.+++-... ...++-.+.||+.+
T Consensus 185 F~~LLllLp~Lr~i~~k~iE~lff~~~~-~~~~~~~~~~~~~~ 226 (248)
T cd07075 185 FYQLTKLLDSMHDLVSDLLEFCFYTFRE-SQALKVEFPAMLVE 226 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcc-ccceeeehHHHHHH
Confidence 9999999999999999999998865543 22333355555554
No 30
>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=3.2e-33 Score=281.47 Aligned_cols=195 Identities=20% Similarity=0.233 Sum_probs=173.0
Q ss_pred HHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccC-CCceeEecCCeeecchhhc-c
Q psy3123 118 QELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS-QTNSMICLNGEVLVRDSIH-S 195 (585)
Q Consensus 118 ~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~-~~~~ll~~nG~~i~rd~l~-~ 195 (585)
...++.+++++++.+..+|+|||++|||.+|+.+||++|||++|+|+++++.|+++.. +.+.+++.+|..+...... .
T Consensus 29 ~~~~~~l~~~a~~~L~~~VewaK~lp~F~~L~~~DQi~LLk~~w~el~lL~~a~~s~~~~~~~~~~~~g~~~~~~~~~~~ 108 (236)
T cd06948 29 IMGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLSWSELFVLNAAQCCMPLHVAPLLAAAGLHASPMSADRV 108 (236)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHhCcCcccCCHHHHHHHHHHhhHHHHHHHHHHHcccccchhhhhccccccCccchhhH
Confidence 3557999999999999999999999999999999999999999999999999998644 4455677788766443321 1
Q ss_pred cchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHH
Q psy3123 196 SNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELIS 275 (585)
Q Consensus 196 ~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLl 275 (585)
....+.++.+.+++.+|++|++|++||+|||||+|||||++||++...|+++|++|.++|++||..++|+++.||++||+
T Consensus 109 ~~~~~~~~~~~~l~~~l~~L~ld~~E~~lLkaiiL~npd~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl 188 (236)
T cd06948 109 VAFMDHIRIFQEQVEKLKALHVDSAEFSCLKAIVLFTSDACGLSDPAHIESLQEKSQCALEEYVRTQYPNQPTRFGKLLL 188 (236)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCcccccccCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHH
Confidence 11122334456899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 276 MLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 276 lLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
+||.||+++..+.|.++++++++..++++|+.|||..
T Consensus 189 ~Lp~Lr~is~~~~e~l~~~~l~g~~~~~~ll~e~l~~ 225 (236)
T cd06948 189 RLPSLRTVSSSVIEQLFFVRLVGKTPIETLIRDMLLS 225 (236)
T ss_pred HHHHHHhccHHHHHHhhcccccCCCcHHHHHHHHHhC
Confidence 9999999999999999999999999999999999975
No 31
>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=3.8e-33 Score=280.24 Aligned_cols=192 Identities=17% Similarity=0.132 Sum_probs=163.8
Q ss_pred hHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCcee---------EecCCee
Q psy3123 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSM---------ICLNGEV 187 (585)
Q Consensus 117 r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~l---------l~~nG~~ 187 (585)
+...|+.+++.+++.++.+|+|||+||+|.+|+.+||++|||++|.|+++|++|+++...+... ++.++..
T Consensus 17 ~l~~~~~~ce~a~~~L~~~VeWAK~iP~F~~L~~~DQi~LLk~~W~El~iL~~a~~s~~~~~~~~~~~~~~~~~l~~~~~ 96 (232)
T cd07350 17 TLKSPQVTCKAASAVLVKTLRFVKGVPCFQELPLDDQLVLVRSCWAPLLVLGLAQDGVDFETVETSEPSMLQRILTTRPP 96 (232)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHhCcCcccCChHHHHHHHHHhhHHHHHHHHHHHcCCCccccccchhHHHHHHhcccc
Confidence 4567899999999999999999999999999999999999999999999999999753332221 1222211
Q ss_pred ecchh-------------hc-c-cchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHH
Q psy3123 188 LVRDS-------------IH-S-SNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLE 252 (585)
Q Consensus 188 i~rd~-------------l~-~-~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l 252 (585)
..+.. .. . ......++.+++|+.+|++|+||++||||||||+|||||++||.+...|+++|+++.
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~e~~~~l~~L~ld~~E~a~LkAivLf~pD~~~L~~~~~Ve~lQe~~~ 176 (232)
T cd07350 97 PTSGAEPGEPQALPQMPQAEASHLPSAADIRAIKAFLAKCWSLDISTKEYAYLKGTVLFNPDLPGLQCVQYIQGLQWEAQ 176 (232)
T ss_pred cccccccccccccccccchhhccccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCcccCCCHHHHHHHHHHHH
Confidence 10000 00 0 111234577899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHH
Q psy3123 253 NMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQ 308 (585)
Q Consensus 253 ~aL~~yi~~~~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~E 308 (585)
.+|+.|+..+||+++.||++||++||.||+++....|.+++.+++|.++++.|+.|
T Consensus 177 ~aL~~yi~~~~p~~~~rf~kLLl~Lp~LRsi~~~~iE~lff~~l~g~v~i~~ll~E 232 (232)
T cd07350 177 QALNEHVRMIHRGDQARFAKLNIALSLLRAINANVIAELFFRPIIGTVNMDDMLLE 232 (232)
T ss_pred HHHHHHHHhhCCChhhHHHHHHHHhHHHHccCHHHHHHHhccccCCCCcHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999865
No 32
>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=100.00 E-value=1.2e-32 Score=262.88 Aligned_cols=172 Identities=41% Similarity=0.707 Sum_probs=164.2
Q ss_pred HHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccch
Q psy3123 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNA 198 (585)
Q Consensus 119 e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~ 198 (585)
+.|+++++.++..|+.+|+|||+||+|..|+.+||++|||++|+++++++.|++++...+.+.+++|...+.+.....+.
T Consensus 2 ~~~~~~~~~~~~~l~~~v~~ak~ip~F~~L~~~Dq~~Llk~~~~~l~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (174)
T cd06929 2 EKFDHFTEIMTVAIRRVVEFAKRIPGFRELSQEDQIALLKGGCFEILLLRSATLYDPEKNSLTFGDGKGNSRDVLLNGGF 81 (174)
T ss_pred cHHHHHHHHHHHHHHHHHhhccCCcCcccCChhHHHHHHHhcHHHHHHHHHHHHhcccCCeEEecCCceecHHHHHHccc
Confidence 57999999999999999999999999999999999999999999999999999999999999999999877776665566
Q ss_pred HHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhH
Q psy3123 199 RFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLP 278 (585)
Q Consensus 199 ~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp 278 (585)
..+.+.+++|+.+|++|++|++||+||+||+|||||++||++...|+++|++|.++|+.||..+|++++.||++||.+++
T Consensus 82 ~~~~~~~~~~~~~l~~L~l~~~E~~llkai~l~~pd~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~Ll~~l~ 161 (174)
T cd06929 82 GEFIEPLFEFAEKMNKLQLDDNEYALLTAIVLFSPDRPGLQDVDTVEKLQERLLEALQRYLKVNHPDAPQMFAKLLKKLT 161 (174)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCcccCcCHHHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHhH
Confidence 78889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy3123 279 DLRTLNQLHSEK 290 (585)
Q Consensus 279 ~LR~Ls~~h~E~ 290 (585)
.||.++..|.|.
T Consensus 162 ~lr~l~~~~~e~ 173 (174)
T cd06929 162 ELRTLNELHAEL 173 (174)
T ss_pred HHHHHHHHHHhc
Confidence 999999999885
No 33
>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=100.00 E-value=2.5e-32 Score=269.64 Aligned_cols=182 Identities=21% Similarity=0.243 Sum_probs=158.3
Q ss_pred HHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccc
Q psy3123 118 QELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSN 197 (585)
Q Consensus 118 ~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~ 197 (585)
...++.+++.+++.++.+|+|||+||+|.+|+.+||++|||++|+|+++++.|+++....+.+++.++............
T Consensus 25 ~~~~~~~~~~a~~~L~~~VewaK~ip~F~~L~~~DQi~LLk~~w~el~iL~~a~~s~~~~~~~ll~~~~~~~~~~~~~~~ 104 (206)
T cd06950 25 EVSPESVCESAARLLFMAVKWAKSIPAFSTLPFRDQLILLEESWSELFLLGAAQWSLPLDSCPLLAVPGLSPDNTEAERT 104 (206)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHhCCccccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCcceeecCCcccccccchhhH
Confidence 34579999999999999999999999999999999999999999999999999986655555444443222222222223
Q ss_pred hHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhh
Q psy3123 198 ARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISML 277 (585)
Q Consensus 198 ~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllL 277 (585)
....+..+.+++.+|++|+||++||+|||||+|||||++||++...|+++|+++..+|++|+..+||+++.||++||++|
T Consensus 105 ~~~~~~~i~~~~~~~~~L~ld~~EyalLKai~L~npd~~~L~~~~~Ve~lq~~~~~aL~~y~~~~~~~~~~Rf~kLLl~L 184 (206)
T cd06950 105 FLSEVRALQETLSRFRQLRVDATEFACLKAIVLFKPETRGLKDPAQVEALQDQAQLMLNKHIRTRYPTQPARFGKLLLLL 184 (206)
T ss_pred HHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHH
Confidence 34455678899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhccc
Q psy3123 278 PDLRTLNQLHSEKLVAFQMTEQ 299 (585)
Q Consensus 278 p~LR~Ls~~h~E~L~~~kl~~~ 299 (585)
|.||+++..+.|.+++.+++|+
T Consensus 185 p~lr~ls~~~~e~l~~~~~~g~ 206 (206)
T cd06950 185 PSLRFISSSTIEELFFKKTIGN 206 (206)
T ss_pred HHHHhhhHHHHHHHhccCcCCC
Confidence 9999999999999999998763
No 34
>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=100.00 E-value=3.9e-32 Score=265.09 Aligned_cols=173 Identities=24% Similarity=0.402 Sum_probs=160.6
Q ss_pred HHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhh-cccc
Q psy3123 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSI-HSSN 197 (585)
Q Consensus 119 e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l-~~~~ 197 (585)
+.|++|++.+++.|+.+|+|||+||||.+|+.+||++|||++|+|+++++.+++|+.+ .+.+++|..+.++.. ....
T Consensus 2 ~~w~~~~~~~~~~i~~~IefaK~iPgF~~L~~~DQi~LLk~~~~e~~ll~~~~~~~~~--~~~~~~g~~~~~~~~~~~~~ 79 (191)
T cd06942 2 NAWGHFAHEFEMHIQEIVQFVKSIPGFNQLSGEDRAQLLKGNMFPLYLLRLSRDYNNE--GTVLCDFRPVEFASLLSQLL 79 (191)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhcCCCcccCChhHHHHHHHHHHHHHHHHHHHHHhCcC--CeEEeCCccccHHHHHHhcc
Confidence 5799999999999999999999999999999999999999999999999999988877 577888988877654 2333
Q ss_pred hHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCC--CCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHH
Q psy3123 198 ARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPS--RSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELIS 275 (585)
Q Consensus 198 ~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPD--r~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLl 275 (585)
...+++.+++|+.+|++|++|++||+||+||+||+|| ++|+++...|+.+|+.+.++|+.||..+||+.+.||++||.
T Consensus 80 ~~~~~~~~~~~~~~l~~L~l~~~E~~lL~Aivl~~pd~~~~~l~~~~~v~~~q~~l~~~L~~~~~~~~~~~~~rf~kLL~ 159 (191)
T cd06942 80 HGKLIDEMLQFANKILTLNLTNAELALLCAAELLQPDSLGIQLEETAKSNLQLSVLFQFLKSVLFKDGEDTEQRLQKLFD 159 (191)
T ss_pred hHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHH
Confidence 4577888999999999999999999999999999999 99999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy3123 276 MLPDLRTLNQLHSEKLVA 293 (585)
Q Consensus 276 lLp~LR~Ls~~h~E~L~~ 293 (585)
+++.||+++..|.+.+..
T Consensus 160 ~l~~Lr~~~~~~~~~l~~ 177 (191)
T cd06942 160 ILNRLRNMNKEHQNILAD 177 (191)
T ss_pred HHHHHHHHHHHHHHHHHc
Confidence 999999999999998775
No 35
>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=100.00 E-value=4.4e-32 Score=267.18 Aligned_cols=176 Identities=31% Similarity=0.472 Sum_probs=162.3
Q ss_pred HHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccchH
Q psy3123 120 LLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNAR 199 (585)
Q Consensus 120 ~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~~ 199 (585)
..+++++++...+..+|+|||++|+|.+|+.+||++|||++|+|+++++.|+++....+++++.+|..+.++.....+..
T Consensus 31 ~~~~~~~~~~~~l~~~Iewak~lp~F~~L~~~DQ~~LLk~~~~e~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (207)
T cd06943 31 PVSNICQAADKQLFQLVEWAKRIPHFSELPLDDQVILLRAGWNELLIAAFAHRSIAVKDGILLATGLHLHRNSAHQAGVG 110 (207)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCchhhccChhhhHHHHHHHHHHHHHHHHHHHccCCCCeeEecCCceeccchhhhccch
Confidence 35799999999999999999999999999999999999999999999999998777778899999988888776544445
Q ss_pred HHHHHHH-HHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhH
Q psy3123 200 FLMDSMF-DFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLP 278 (585)
Q Consensus 200 ~li~~m~-~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp 278 (585)
.+.+.++ +|+.+|++|++|++||+|||||+||+||++||++...|+++|++|.++|+.||..++|+++.||++||++||
T Consensus 111 ~~~~~~~~~~~~~l~~L~ld~~E~~lLkaI~L~~pd~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~L~ 190 (207)
T cd06943 111 AIFDRILTELVVKMRDLKMDRTELGCLRAIILFNPDVKGLKSRQEVESLREKVYASLEEYCRQKHPEQPGRFAKLLLRLP 190 (207)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHHH
Confidence 5666654 799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy3123 279 DLRTLNQLHSEKLVAFQ 295 (585)
Q Consensus 279 ~LR~Ls~~h~E~L~~~k 295 (585)
.||+++..+.|.|++++
T Consensus 191 ~lr~l~~~~~e~l~~~~ 207 (207)
T cd06943 191 ALRSIGLKCLEHLFFFK 207 (207)
T ss_pred HHHhHhHHHHHHHhhcC
Confidence 99999999999999764
No 36
>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=99.97 E-value=7.4e-30 Score=254.08 Aligned_cols=192 Identities=22% Similarity=0.292 Sum_probs=175.6
Q ss_pred hHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhccc
Q psy3123 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSS 196 (585)
Q Consensus 117 r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~ 196 (585)
+...++.+++.+...+..+|+|||.+|+|.+|+.+||++|||++|++++++..|+++....+.+++++|.+++++..+.
T Consensus 30 ~~~~~~~~~~~~~~~l~~~vewak~~p~F~~L~~~Dq~~Llk~~~~~~~~l~~a~~s~~~~~~l~~~~g~~~~~~~~~~- 108 (222)
T cd06931 30 KIASINDVCESMKQQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEHLLLGVARRSMPYKDILLLGNDLIIPRHCPEP- 108 (222)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHhCCccccCChHHHHHHHHHHHHHHHHHHHHHhccCCCCeeeeCCCcccccccccc-
Confidence 3344789999999999999999999999999999999999999999999999999887778899999998887765442
Q ss_pred chHHHHHHH-HHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHH
Q psy3123 197 NARFLMDSM-FDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELIS 275 (585)
Q Consensus 197 ~~~~li~~m-~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLl 275 (585)
....+...+ .+++.+|++|++|++||+||+||++|+||++||++...|+++|++++++|.+|+..++++.+.||++||.
T Consensus 109 ~~~~~~~~~~~~~~~~l~~L~l~~~E~~lLkaiil~~p~~~~ls~~~~i~~~r~~~~~aL~~y~~~~~~~~~~Rf~~LL~ 188 (222)
T cd06931 109 EISRVANRILDELVLPLRDLNIDDNEYACLKAIVFFDPDAKGLSDPQKIKRLRFQVQVSLEDYINDRQYDSRGRFGELLL 188 (222)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHH
Confidence 223445554 4799999999999999999999999999999999999999999999999999998888999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHhhccccchhHHHHHH
Q psy3123 276 MLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQ 309 (585)
Q Consensus 276 lLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Em 309 (585)
+++.||+++..+.|.+++.++++..++++|+.||
T Consensus 189 ~l~~lr~~~~~~~e~l~~~~lf~~~~~~~L~~e~ 222 (222)
T cd06931 189 LLPTLQSITWQMIEQIQFARLFGVAKIDNLLQEM 222 (222)
T ss_pred HHHHHHHHHHHHHHHHhhhhhcCCCcHHHHHhhC
Confidence 9999999999999999999999999999999986
No 37
>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=99.97 E-value=6.7e-30 Score=254.65 Aligned_cols=192 Identities=19% Similarity=0.246 Sum_probs=164.6
Q ss_pred HHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhcc-CCCceeEecCCeeecch----hhcc
Q psy3123 121 LQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFD-SQTNSMICLNGEVLVRD----SIHS 195 (585)
Q Consensus 121 ~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~-~~~~~ll~~nG~~i~rd----~l~~ 195 (585)
++.+++.+.+.+..+|+|||+||+|..|+.+||++|||++|.|+++++.++++. .+.+.+...++.++... ....
T Consensus 23 ~~~~~~~a~~~l~~~v~wak~iP~F~~L~~~DQ~~LLk~~w~el~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (222)
T cd06952 23 VHYICESASRLLFLSIHWARSIPAFQALGAETQTSLVRACWPELFTLGLAQCSQQLSLPTILAAIINHLQTSIQQDKLSA 102 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCchhhCChHHHHHHHHHHhHHHHHHHHHHHhcccCchHHhhhhhhhhhhhHhcCCCch
Confidence 588999999999999999999999999999999999999999999999997654 33333433333332211 1111
Q ss_pred cc---hHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHH
Q psy3123 196 SN---ARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAE 272 (585)
Q Consensus 196 ~~---~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~k 272 (585)
.. ..+.+..+.+++.+|++|++|+.||+|||||+||+||++|+.+.+.|+++|+++.++|++|+..++|+.+.||++
T Consensus 103 ~~~~~~~~~~~~l~~~~~~l~~L~ld~~E~~~LkaiiLf~~d~~~l~~~~~v~~lq~~i~~aL~~y~~~~~p~~~~R~~k 182 (222)
T cd06952 103 DKVKQVMEHINKLQEFVNSMQKLDVDDHEYAYLKAIVLFSPDHPGQELRQQIEKLQEKALMELRDYVGKTYPEDEYRLSK 182 (222)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCcCCcCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHH
Confidence 11 122334467899999999999999999999999999999999999999999999999999999889999999999
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 273 LISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 273 LLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
||++||.||+++..+.|.+++.+++|.++++.++..++.+
T Consensus 183 lLl~Lp~Lr~~~~~~~e~l~~~~~~g~~~~~~ll~~~~~~ 222 (222)
T cd06952 183 LLLRLPPLRSLSPAITEELFFAGLIGNVQIDSVIPYILRM 222 (222)
T ss_pred HHHHhHHhhhcCHHHHHHHhcccccCCCcHHHHHHHHHhC
Confidence 9999999999999999999999999999999999998753
No 38
>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=99.97 E-value=1.1e-29 Score=252.14 Aligned_cols=175 Identities=18% Similarity=0.241 Sum_probs=149.4
Q ss_pred chHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCcee-EecCCeeecch-hh
Q psy3123 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSM-ICLNGEVLVRD-SI 193 (585)
Q Consensus 116 ~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~l-l~~nG~~i~rd-~l 193 (585)
...+.|..+++.+++.++.+|+|||+||||.+|+.+||++|||++|+|+++++.|+++....... ....+.....+ ..
T Consensus 24 ~~~~~~~~l~~la~~~l~~~I~waK~lp~F~~L~~~DQi~LLk~~w~el~iL~~a~~s~~~~~~~l~~~~~~~~~~~~~~ 103 (213)
T cd06953 24 DQAELFALLCRLGDELLFRQIQWTKKLPFFTELSIKDHTHLLTTKWAELILLSTITVASLQNLGLLQDCLSKYLPSEDEL 103 (213)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHhcCCchhhCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHhhhccCCchhhH
Confidence 34678999999999999999999999999999999999999999999999999999876643211 11011111111 11
Q ss_pred c--ccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHH
Q psy3123 194 H--SSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCA 271 (585)
Q Consensus 194 ~--~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~ 271 (585)
. ......+++.+++++.+|++|++|++||+||+||+|||||++||++...|+++|++|.++|++||..+||++|.||+
T Consensus 104 ~~~~~~~~~~~~~i~~l~~~l~~L~ld~eEy~lLkAIvLfnpd~~gLs~~~~Ve~lQ~~~~~aL~~y~~~~~~~~p~Rf~ 183 (213)
T cd06953 104 ERFGDEGGEVVERLTYLLAKFRQLKVSNEEYVCLKVINFLNQDIDGLTNASQLESLQKRYWYVLQDFTELNYPNQPNRFS 183 (213)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchHHH
Confidence 1 11245678889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhHHHHHHHHHHHHH
Q psy3123 272 ELISMLPDLRTLNQLHSEK 290 (585)
Q Consensus 272 kLLllLp~LR~Ls~~h~E~ 290 (585)
+||+++|.||+++....|.
T Consensus 184 ~LL~~L~~Lr~l~~~~~e~ 202 (213)
T cd06953 184 DLLSCLPEIRAAAGKLLHS 202 (213)
T ss_pred HHHHHhHHHHHHHHHHHHH
Confidence 9999999999999887764
No 39
>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=99.96 E-value=3.1e-29 Score=236.58 Aligned_cols=162 Identities=26% Similarity=0.370 Sum_probs=149.4
Q ss_pred HHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCC--CceeEecCCeeecchhhcccchH
Q psy3123 122 QDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQ--TNSMICLNGEVLVRDSIHSSNAR 199 (585)
Q Consensus 122 ~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~--~~~ll~~nG~~i~rd~l~~~~~~ 199 (585)
+.+++.+.+.+..+|+|||++|+|.+|+.+||++|||++|+++++++.|+++... .+.+.+++|..+..+.....+..
T Consensus 2 ~~~~~~~~~~l~~~ie~ak~~p~F~~L~~~Dq~~Llk~~~~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (165)
T cd06930 2 ESLCELADRVLFKTVDWAKNLPAFRNLPLDDQLTLLQNSWAELLLLGLAQRSVHFELSELLLPSPLLVILTEREALLGLA 81 (165)
T ss_pred hhHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCcceeecCCcccchhhhhhhhHH
Confidence 5688999999999999999999999999999999999999999999999976443 56788999998887776654556
Q ss_pred HHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHhhHH
Q psy3123 200 FLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPD 279 (585)
Q Consensus 200 ~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~kLLllLp~ 279 (585)
.+.+.+++++.+|++|++|++||+||+||+||+||++||++...|+++|++|.++|+.||..++++++.||++||++++.
T Consensus 82 ~~~~~~~~~~~~l~~L~l~~~E~~lLkai~l~~p~~~~l~~~~~v~~~q~~~~~aL~~~~~~~~~~~~~R~~~ll~~l~~ 161 (165)
T cd06930 82 ELVQRLQELLSKLRSLQLDPKEYACLKAIVLFNPDLPGLKNQQQVEELQEKAQQALQEYIRKRYPQQPARFAKLLLRLPE 161 (165)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHh
Confidence 77888999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHH
Q psy3123 280 LRTL 283 (585)
Q Consensus 280 LR~L 283 (585)
||++
T Consensus 162 lr~~ 165 (165)
T cd06930 162 LRSI 165 (165)
T ss_pred hccC
Confidence 9964
No 40
>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=99.96 E-value=2.6e-28 Score=247.02 Aligned_cols=198 Identities=15% Similarity=0.228 Sum_probs=166.0
Q ss_pred chHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhc-cCC-CceeEecCCeeecchhh
Q psy3123 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMF-DSQ-TNSMICLNGEVLVRDSI 193 (585)
Q Consensus 116 ~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~-~~~-~~~ll~~nG~~i~rd~l 193 (585)
....++..+++..++.+..+|+|||+||||.+|+.+||++|||++|+|+++++.||+. ... ++.+.|.+|..+.++..
T Consensus 25 ~~~~~~~~l~~la~r~L~~vVeWAK~lPgF~~L~~~DQi~LLk~sw~ellvL~~a~rS~~~~~~~~l~fa~d~~~~~~~~ 104 (248)
T cd07074 25 TPSSLLTSLNQLCERQLLSVVKWSKSLPGFRNLHIDDQITLIQYSWMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRM 104 (248)
T ss_pred CchhhHHHHHHHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCeEEecCCcccchhhh
Confidence 3456789999999999999999999999999999999999999999999999999864 333 34567777777777766
Q ss_pred cccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcC-CCCCCCcHHHHHHHHHHHHHHHHHHHHhcC---CCchhH
Q psy3123 194 HSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQNH---PEQMNL 269 (585)
Q Consensus 194 ~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsP-Dr~GLsd~~~Ve~lQer~l~aL~~yi~~~~---p~~p~R 269 (585)
+..+...++..+++++.+|++|++|.+||+|||||+|||| |++||+++..|+++|++|.++|..||..++ .++|.|
T Consensus 105 ~~~~~~~~~~~m~e~~~~~~~L~ld~~Ey~cLKAIvLfnp~d~~gL~~q~~Ve~lR~~y~~aL~~yi~~~~~~~~~~~~R 184 (248)
T cd07074 105 KESSFYSLCLTMWQIPQEFVKLQVSQEEFLCMKALLLLNTIPLEGLRSQTQFDEMRSSYIRELIKAIGLRQKGVVASSQR 184 (248)
T ss_pred hhccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHCCCCcCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCccCcHH
Confidence 5444555677788999999999999999999999999999 899999999999999999999999976664 378999
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHhhcc---ccchhHHHHHHhcCC
Q psy3123 270 CAELISMLPDLRTLNQLHSEKLVAFQMTE---QQQQLAAQQQQWHGE 313 (585)
Q Consensus 270 F~kLLllLp~LR~Ls~~h~E~L~~~kl~~---~i~l~~Ll~Emf~~~ 313 (585)
|++|+.+++.|+.+.......++...... .+.+|..+.|+...+
T Consensus 185 F~~Ll~ll~~l~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (248)
T cd07074 185 FYQLTKLMDNMHDLVKQLHLYCLNTFIQSRALSVEFPEMMSEVIAAQ 231 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeecHHHHHHHHHhc
Confidence 99999999999977666555544433332 466788888887754
No 41
>KOG4215|consensus
Probab=99.96 E-value=1.7e-28 Score=252.00 Aligned_cols=195 Identities=22% Similarity=0.267 Sum_probs=178.5
Q ss_pred HHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeecchhhcccch
Q psy3123 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNA 198 (585)
Q Consensus 119 e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~rd~l~~~~~ 198 (585)
....++++.+...+...|||||.||.|.+|+.+||++|||+...++++|..++|.....+.+++.|..+++++..+....
T Consensus 154 at~~Dv~eSm~qqLlllVEWAK~i~~F~el~l~DqvaLLk~~a~~hllLg~a~RSm~l~~v~ll~N~~v~~~~~~~~~ei 233 (432)
T KOG4215|consen 154 ATENDVCESMKQQLLLLVEWAKYIPPFCELPLDDQVALLKAHAGQHLLLGAAFRSMHLKDVCLLNNTYVLHRHAPDLPEI 233 (432)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHhccchhcCCchhHHHHHHccchhhhhhhhhhccccccceEEecCceeeccCCCChHHH
Confidence 34578999999999999999999999999999999999999999999999999988777888888888888887775555
Q ss_pred HHHHHHHH-HHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHH--HHHHHHHHHHHHHHHHHHhcCC-CchhHHHHHH
Q psy3123 199 RFLMDSMF-DFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKE--LVERMRGKLENMLMHVLNQNHP-EQMNLCAELI 274 (585)
Q Consensus 199 ~~li~~m~-~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~--~Ve~lQer~l~aL~~yi~~~~p-~~p~RF~kLL 274 (585)
......|+ +++.+|++|++|+.||+|||||+||+||..||++.. .|++++++++..|+.||..+.| +.+.||++||
T Consensus 234 s~v~~RIiDElv~Pmr~L~md~~Ey~cLKAi~FfdP~akGis~~s~~~I~~aR~~vl~sLe~yi~d~q~~d~~~R~g~LL 313 (432)
T KOG4215|consen 234 SRVAPRIIDELVNPMRRLQMDEIEYVCLKAIAFFDPDAKGLSDPSQIRIREARNRVLKSLEAYISDRQPYDAPGRFGNLL 313 (432)
T ss_pred HHHHHHHHHHHhhHHHHhccchHHHHHHHHHHhcCccccccCCchHhHHHHHHHHHHHHHHHHHhhcCccccccchhhHH
Confidence 55555555 699999999999999999999999999999999987 8999999999999999998885 6689999999
Q ss_pred HhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcCC
Q psy3123 275 SMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHGE 313 (585)
Q Consensus 275 llLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~~ 313 (585)
++||.|..|+...+|.+++.|++|...++.|+.||+-.+
T Consensus 314 LllPsLqsIt~qliE~iqlaklFGla~vDsll~e~~l~~ 352 (432)
T KOG4215|consen 314 LLLPSLQSITQQLIEQIQLAKLFGLAKVDSLLQEFLLGG 352 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHhhcCC
Confidence 999999999999999999999999999999999988864
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=99.93 E-value=6.1e-24 Score=204.24 Aligned_cols=181 Identities=24% Similarity=0.438 Sum_probs=162.8
Q ss_pred chHHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhcc-CCCceeEecCCeeecchhhc
Q psy3123 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFD-SQTNSMICLNGEVLVRDSIH 194 (585)
Q Consensus 116 ~r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~-~~~~~ll~~nG~~i~rd~l~ 194 (585)
.+...|+.+++++...+..+|+|||.+|+|.+|+.+||..|+|++|+++++|+.++++. ...+.+.+.+|..+..+.+.
T Consensus 14 ~~~~~~~~~~~~~~~~~~~~v~~~k~~p~f~~L~~~dk~~Llk~~~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~ 93 (203)
T PF00104_consen 14 LRPATFEDLCEIWRRELRLIVDWAKSFPEFSELSMEDKIALLKSSWFELFILELAYRSYQCNQDQLMFPNGTFIDKDSFD 93 (203)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHTSTTGGGS-HHHHHHHHHHHHHHHHHHHHHHHEEHTTTTEEEETTTEEEEHHHHH
T ss_pred CcHhhHHHHHHHHHHHHHHHHHHHHhCcCHHhhhhhhhhhHHhhhcccccchhhhhhhcccccccccccccccccccccc
Confidence 46778999999999999999999999999999999999999999999999999999877 67789999999998887776
Q ss_pred c---cchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCC-cHHH-HHHHHHHHHHHHHHHH-HhcCCCc-h
Q psy3123 195 S---SNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLR-NKEL-VERMRGKLENMLMHVL-NQNHPEQ-M 267 (585)
Q Consensus 195 ~---~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLs-d~~~-Ve~lQer~l~aL~~yi-~~~~p~~-p 267 (585)
. ......++.+.+++.+|++|++|+.||++|+|++||+|+.++++ +... ++++|++|..+|+.|+ ...++.+ +
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~l~l~~~E~~~l~~l~l~~~~~~~~~~~~~~~~~~~r~~~~~~L~~y~~~~~~~~~~~ 173 (203)
T PF00104_consen 94 DFITGIFSEFIQYMNEVLRPFRRLKLDEEEFALLKALILFNPDYPGLSEETREIVEELRDRIIQALHSYYNQSKGPEDYA 173 (203)
T ss_dssp HTSTTTHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHSSTTSTTHS-SHHHHHHHHHHHHHHHHHHHHHHHHSTTTHT
T ss_pred cccccccccchhHHHHHHHHHHHhhhhhHHHHHHHHHhhhcccccccccchhHHHHHHHHHHHHHHHHHHhccCCCccHH
Confidence 3 35567778899999999999999999999999999999999998 6655 9999999999999999 6667654 8
Q ss_pred hHHHHHHHhhHHHHHHHHHHHHHHHHHhh
Q psy3123 268 NLCAELISMLPDLRTLNQLHSEKLVAFQM 296 (585)
Q Consensus 268 ~RF~kLLllLp~LR~Ls~~h~E~L~~~kl 296 (585)
.||++|+.+++.|+.++..+.|.++..++
T Consensus 174 ~R~~~ll~ll~~l~~~~~~~~e~~~~~~l 202 (203)
T PF00104_consen 174 QRFGKLLLLLPSLRKISEKHIENMFLSDL 202 (203)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence 99999999999999999999999887765
No 43
>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=99.90 E-value=4.6e-23 Score=192.04 Aligned_cols=160 Identities=33% Similarity=0.462 Sum_probs=137.1
Q ss_pred HHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCCce-eEecCCee---ecchhhcccch
Q psy3123 123 DFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNS-MICLNGEV---LVRDSIHSSNA 198 (585)
Q Consensus 123 ~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~-ll~~nG~~---i~rd~l~~~~~ 198 (585)
.++++....+..+++|+|++|+|.+|+.+||+.|||++|+++++|+.++++...... ....++.. ...+.......
T Consensus 2 ~~~~~~~~~~~~~i~~~~~~~~f~~L~~~dq~~Llk~~~~~~~~L~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (168)
T cd06157 2 LLCELATRDLLLIVEWAKSIPGFRELPLEDQIVLLKSFWLELLVLDLAYRSYKNGLSLLLAPNGGHTDDDKEDEMKLLLK 81 (168)
T ss_pred cHHHHHHHHHHHHHHHHHcCCchhcCChHHHHHHHHHHhHHHHHHHHHHHHHhcCCCcEEeecccccccCchHHHHHhHH
Confidence 467888999999999999999999999999999999999999999999986554433 33334432 22333334445
Q ss_pred HHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCC-CCCcHHHHHHHHHHHHHHHHHHHHhcCC-CchhHHHHHHHh
Q psy3123 199 RFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRS-GLRNKELVERMRGKLENMLMHVLNQNHP-EQMNLCAELISM 276 (585)
Q Consensus 199 ~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~-GLsd~~~Ve~lQer~l~aL~~yi~~~~p-~~p~RF~kLLll 276 (585)
..+...+.+++.+|.+|++|++||++|+||++|+|+++ +......++++|++|.++|+.|+..+++ +.+.||++||.+
T Consensus 82 ~~~~~~~~~~~~~~~~L~l~~~E~~~l~ai~l~~~~~~~s~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll~~ 161 (168)
T cd06157 82 GELIRLLFEFVNPLRALKLDDEEYALLKAIVLFSPDRKESLEDRKIVEELQERLLEALQDYLRKNYPEEAPSRFAKLLLL 161 (168)
T ss_pred HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHhCCccchhHHHHHHHh
Confidence 56777788999999999999999999999999999999 6889999999999999999999999987 889999999999
Q ss_pred hHHHHH
Q psy3123 277 LPDLRT 282 (585)
Q Consensus 277 Lp~LR~ 282 (585)
++.||.
T Consensus 162 l~~l~~ 167 (168)
T cd06157 162 LPSLRK 167 (168)
T ss_pred chhccc
Confidence 999986
No 44
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=99.89 E-value=1.1e-22 Score=188.58 Aligned_cols=154 Identities=27% Similarity=0.396 Sum_probs=133.7
Q ss_pred hHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccCCC-ceeEecCCeeecchhhc---ccchHHHHHH
Q psy3123 129 SPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQT-NSMICLNGEVLVRDSIH---SSNARFLMDS 204 (585)
Q Consensus 129 ~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~-~~ll~~nG~~i~rd~l~---~~~~~~li~~ 204 (585)
...+..+++|+|.+|+|.+|+.+||+.|||++|+++++++.++++.... ..+.+++|.+...+... ......+...
T Consensus 2 ~~~~~~~~~~~~~~~~f~~L~~~dq~~Llk~~~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (163)
T smart00430 2 ERDLLLAVEWAKTFPFFRELSQEDKLILLKHFWFEWLLLESAYRSAKMKKSLLLLPDGTFIDNDKVDLLRKLFSPFLDRI 81 (163)
T ss_pred hhHHHHHHHHHHhChhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCEEEeCCCcccCcchhHHHHHHHHHHHHHH
Confidence 3568899999999999999999999999999999999999999765443 36677777776654432 2333456666
Q ss_pred HHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcH--HHHHHHHHHHHHHHHHHHHhcCC-CchhHHHHHHHhhHHHH
Q psy3123 205 MFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNK--ELVERMRGKLENMLMHVLNQNHP-EQMNLCAELISMLPDLR 281 (585)
Q Consensus 205 m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~--~~Ve~lQer~l~aL~~yi~~~~p-~~p~RF~kLLllLp~LR 281 (585)
+.+++.+|++|++|++||++|+|+++|+|+++|+++. ..++++|+.+.++|+.|+..+++ +.+.||++|+++++.++
T Consensus 82 ~~~~~~~l~~L~l~~~E~~~l~ai~l~~~~~~~l~~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll~~l~~i~ 161 (163)
T smart00430 82 LQELVKPLRELKLDDEEYALLKAILLFNPAGPGLSEEGKEILEKLQEKLANALHDYYLKNYPMNYPGRFGELLLILNAIQ 161 (163)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHcChhhhhhChHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHHHHHHHHHhh
Confidence 7789999999999999999999999999999999988 89999999999999999999888 67899999999999998
Q ss_pred H
Q psy3123 282 T 282 (585)
Q Consensus 282 ~ 282 (585)
.
T Consensus 162 ~ 162 (163)
T smart00430 162 K 162 (163)
T ss_pred c
Confidence 5
No 45
>KOG4218|consensus
Probab=99.76 E-value=8e-18 Score=172.19 Aligned_cols=195 Identities=19% Similarity=0.176 Sum_probs=172.9
Q ss_pred HHHHHHHHHhhhHHHHHHHHhhhcCCCCccccchhhHHHHHHHHHHHHHHHHHhhccC--CCceeEecCCeeecchhhcc
Q psy3123 118 QELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS--QTNSMICLNGEVLVRDSIHS 195 (585)
Q Consensus 118 ~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~--~~~~ll~~nG~~i~rd~l~~ 195 (585)
.+.+...+..++..+..+|+|||+--.|.+|+.+||++||.+||-|++++...++.-. +.+.+.+.+|..+.......
T Consensus 273 p~~fgl~c~mAdqtl~sIV~WAr~~~~F~eL~vdDQM~LLQncWselli~DhiyrqV~hgkegsi~lvtGqeV~~~~vA~ 352 (475)
T KOG4218|consen 273 PEKFGLSCQMADQTLKSIVIWARNDQLFSELSVDDQMILLQNCWSELLIVDHIYRQVHHGKEGSIKLVTGQEVPVGLVAL 352 (475)
T ss_pred hhhhhhhhhhhHhHHHHHHHHHhhhhHHHhcchhhHHHHHHHhhHHHHHHHHHHHHHhcCcccceEEecCCcccchhHhh
Confidence 3455666788899999999999999999999999999999999999999999998543 44778888888766554432
Q ss_pred c---chHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHH
Q psy3123 196 S---NARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAE 272 (585)
Q Consensus 196 ~---~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~k 272 (585)
. ....++..-.+++.+++.|++|..||+||+-|+||+-|...|.+-..|+.+|+....+|.+|-...||+....|++
T Consensus 353 qags~l~tlvs~aqelV~~Lr~lqfd~~efvclkFl~LFsld~kfLenf~lv~~~qe~~naaLldyt~c~yp~~~~kF~q 432 (475)
T KOG4218|consen 353 QAGSLLQTLVSSAQELVIRLRNLQFDNFEFVCLKFLALFSLDMKFLENFELVRRLQEDSNAALLDYTSCCYPNWEQKFPQ 432 (475)
T ss_pred hhhhHHHHHHHHHHHHHHHHHhcCCccchhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhccCCccHHHHHHH
Confidence 2 2345677788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhhccccchhHHHHHHhcC
Q psy3123 273 LISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHG 312 (585)
Q Consensus 273 LLllLp~LR~Ls~~h~E~L~~~kl~~~i~l~~Ll~Emf~~ 312 (585)
+++.|+++|.++....|.+..-.+.+..+-.+++.||++.
T Consensus 433 llL~L~eiRa~smqa~eyly~khl~~~~p~nnllieml~A 472 (475)
T KOG4218|consen 433 LLLVLEEIRATSMQAAEYLYTKHLQVPAPQNNLLIEMLTA 472 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCccccchHHHHhhc
Confidence 9999999999999999999988888888888999999985
No 46
>KOG4846|consensus
Probab=99.57 E-value=2.6e-16 Score=164.48 Aligned_cols=272 Identities=18% Similarity=0.178 Sum_probs=192.3
Q ss_pred ccccCCCccccCCccchHHHHHHHHHhhcCCccchhH-HHHhhhhhHHHHHHHHHHHhhhcccChhhhhhhhhhhhcC--
Q psy3123 16 NARYHNAPVRFGRVPKREKARILAAMQQSTNTKCTEK-ALAAELDDEQRMLSTVVRAHLDTCAFTADKIEPMLRRARE-- 92 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPKreK~~l~~elq~~~~~~s~ed-~~~~~l~d~~~Li~~Iv~Ah~~tc~~T~ekvr~~l~~~~~-- 92 (585)
.|||||||||||||++|+|.++.++++ ..+..+++. .+....+....++++|.+||....-|+..++.++..+...
T Consensus 198 ~vGMSrDaVRFG~m~~rnka~M~~~~~-p~~V~sp~~sq~~~Q~env~~V~~~V~rAh~t~~~y~~~k~gsi~~~~fnv~ 276 (538)
T KOG4846|consen 198 DVGMSRDAVRFGQMKFRNKAAMRDDKS-PDSVFSPEISQLERQEENVDAVYEAVLRAHTTFSFYTDIKIGSIVARPFNVR 276 (538)
T ss_pred hcccchhhhhhcccccccccccCCCCC-CCCCCChhhhhhhhhhccHHHHHHHHHHhhcchhheehhhcCcccCCCcccc
Confidence 499999999999999999999888766 556666666 4444555577899999999998877777776655443110
Q ss_pred ------------------CCC-----------------cCC-----------CCCCCCCCC---------CCCC--CCcc
Q psy3123 93 ------------------HPT-----------------YTA-----------CPSTLACPL---------NPNS--HPLQ 115 (585)
Q Consensus 93 ------------------~~~-----------------~~~-----------~~~~~~c~l---------~~~~--~~~~ 115 (585)
++. |.. +-....|+. .++. +...
T Consensus 277 ~n~~s~P~~~~~~w~n~~~pa~~di~qe~~n~l~q~pvfd~~~~~~g~a~~s~h~~n~~pty~~~~~~g~~Pn~~~~~rs 356 (538)
T KOG4846|consen 277 INEDSKPMNRLNAWQNYAHPADVDIKQEVVNFLKQIPVFDKFNFINGNAKASLHRKNAFPTYLLRIVRGMSPNRGLMLRS 356 (538)
T ss_pred cccCCccccchhHHhhcCCCCcccchHHHHHHHHhCccccccccCCCccchhhhcCCCcchhhhhhcccCCccccccccc
Confidence 110 000 000011221 1111 1111
Q ss_pred c--hHHHHHHHHHhhhHHHHHHHHhhhcCCCCcccc-chhhHHHHHHHHHHHHHHHHHhhccCCCcee-EecCCeeecch
Q psy3123 116 G--QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLC-HDDQVTLLKAGVFEVLLVRLACMFDSQTNSM-ICLNGEVLVRD 191 (585)
Q Consensus 116 ~--r~e~~~~~~e~~~~~I~~vVeFAK~LPgF~~Ls-~eDQi~LLK~s~~ElllLr~A~r~~~~~~~l-l~~nG~~i~rd 191 (585)
+ ++..|+.+.-.+...+..+++||+.|++|..++ +.|++++|+.+-++....+++..|+.....+ +|.--..+..+
T Consensus 357 gR~~qlp~~~~~ll~~~av~e~~~fa~hi~~~~~~~~~~~~~~~L~~~q~l~t~~~f~t~f~~~~Q~~~mfl~~~~~~~Q 436 (538)
T KOG4846|consen 357 GRLIQLPFKSLQLLYGSAVDEMLAFANHIITIGCTDGDIALFIVLILCQPLTTEQQFSTNFKSQLQLLEMFLFYKKVLFQ 436 (538)
T ss_pred ccccccCcchhhhhhhHHHHHHHHhhhccCCccccccchhHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2 345699999999999999999999999999999 7899999999999999999988776543222 11000001111
Q ss_pred hhcccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCchhHHH
Q psy3123 192 SIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCA 271 (585)
Q Consensus 192 ~l~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLsd~~~Ve~lQer~l~aL~~yi~~~~p~~p~RF~ 271 (585)
.+-....++.+..++++..+++.|+....|. +.++-+-++.+......|+.+|+..+.++-. ..+.|-...++.
T Consensus 437 ~~~~~~~gd~~~a~~~~~~~ln~L~~~~~~~----~~~l~s~~s~~~e~~~sVe~lqe~~lr~~~~--~~n~pl~~s~~~ 510 (538)
T KOG4846|consen 437 KMTCRIDGDTYKALMKCIHELNRLNELHKQQ----LNILRSNLSFLNEPPLSVEMLQESTLRLPVN--HNNQPLNQSLPH 510 (538)
T ss_pred HHHhhhchHHHHHHHHhhcchhhcCchHHHH----HHHHHHhhhhhccCCchHHHHHhhhhhcccc--ccCCcccccCcc
Confidence 1111223467788999999999999988887 5566667788888889999999999998832 244566678899
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHH
Q psy3123 272 ELISMLPDLRTLNQLHSEKLVAF 294 (585)
Q Consensus 272 kLLllLp~LR~Ls~~h~E~L~~~ 294 (585)
..+..+++++.+.+.|.+++.-+
T Consensus 511 ~~~~~~~d~~sl~~lhs~kv~~~ 533 (538)
T KOG4846|consen 511 VRHQVKRDVQSLENLHSMKVHPV 533 (538)
T ss_pred hhhccCCcCCcccchhccccccc
Confidence 99999999999999999887644
No 47
>cd06968 NR_DBD_ROR DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ROR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. 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. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma, which 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. RORbe
Probab=93.22 E-value=0.035 Score=48.87 Aligned_cols=24 Identities=25% Similarity=0.544 Sum_probs=22.5
Q ss_pred cccCCCccccCCccchHHHHHHHH
Q psy3123 17 ARYHNAPVRFGRVPKREKARILAA 40 (585)
Q Consensus 17 VGMSrdAVR~GRvPKreK~~l~~e 40 (585)
|||++++||++|+++++|.+|++|
T Consensus 71 vGM~~~~V~~~r~~~~~~~~~~~~ 94 (95)
T cd06968 71 LGMSRDAVKFGRMSKKQRDSLYAE 94 (95)
T ss_pred ccCChhhcccCcCChhhhhhhhhc
Confidence 799999999999999999999876
No 48
>KOG4846|consensus
Probab=93.15 E-value=0.34 Score=52.58 Aligned_cols=195 Identities=17% Similarity=0.288 Sum_probs=130.8
Q ss_pred cchHHHHHHHHHhhhHHHH-HHHHhhhcCC---CCccccchhhHHHHHHHHHHHHHHHHHhhccCCCceeEecCCeeec-
Q psy3123 115 QGQQELLQDFSERFSPTIR-DVVEFAKRIP---GFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLV- 189 (585)
Q Consensus 115 ~~r~e~~~~~~e~~~~~I~-~vVeFAK~LP---gF~~Ls~eDQi~LLK~s~~ElllLr~A~r~~~~~~~ll~~nG~~i~- 189 (585)
..+...|+..+.-+...|. .++.|.|.+| -|...+-.++..+.+...+..++++.+.-..++ ..+..-+|..+.
T Consensus 284 ~~~~~~w~n~~~pa~~di~qe~~n~l~q~pvfd~~~~~~g~a~~s~h~~n~~pty~~~~~~g~~Pn-~~~~~rsgR~~ql 362 (538)
T KOG4846|consen 284 MNRLNAWQNYAHPADVDIKQEVVNFLKQIPVFDKFNFINGNAKASLHRKNAFPTYLLRIVRGMSPN-RGLMLRSGRLIQL 362 (538)
T ss_pred ccchhHHhhcCCCCcccchHHHHHHHHhCccccccccCCCccchhhhcCCCcchhhhhhcccCCcc-ccccccccccccc
Confidence 5667789888777776776 8999999999 555667789999999999999999888755442 244455666543
Q ss_pred -chhhcccchHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHhhcCCCCCCC---cH---HHHHHHHHHHHHHHHHHHHhc
Q psy3123 190 -RDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLR---NK---ELVERMRGKLENMLMHVLNQN 262 (585)
Q Consensus 190 -rd~l~~~~~~~li~~m~~f~~~L~~LqLde~E~ALLkAIvLfsPDr~GLs---d~---~~Ve~lQer~l~aL~~yi~~~ 262 (585)
.+.+... ....++++..|++.+..+.+.+..+++|..+.++.+.....+ +. .+..++...+...+.+++..+
T Consensus 363 p~~~~~ll-~~~av~e~~~fa~hi~~~~~~~~~~~~~~~L~~~q~l~t~~~f~t~f~~~~Q~~~mfl~~~~~~~Q~~~~~ 441 (538)
T KOG4846|consen 363 PFKSLQLL-YGSAVDEMLAFANHIITIGCTDGDIALFIVLILCQPLTTEQQFSTNFKSQLQLLEMFLFYKKVLFQKMTCR 441 (538)
T ss_pred Ccchhhhh-hhHHHHHHHHhhhccCCccccccchhHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444333 345678999999999999999999999999999887543221 11 122233344444444444443
Q ss_pred CCCchhHHHHHHHhhHHHHHHHHHHHHHHHHHhhccccc-hhHHHHHHhcCC
Q psy3123 263 HPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQ-QLAAQQQQWHGE 313 (585)
Q Consensus 263 ~p~~p~RF~kLLllLp~LR~Ls~~h~E~L~~~kl~~~i~-l~~Ll~Emf~~~ 313 (585)
-- + .-+..++..+-.|..|+..|.+.+-...-..... .+.+-.|||++.
T Consensus 442 ~~-g-d~~~a~~~~~~~ln~L~~~~~~~~~~l~s~~s~~~e~~~sVe~lqe~ 491 (538)
T KOG4846|consen 442 ID-G-DTYKALMKCIHELNRLNELHKQQLNILRSNLSFLNEPPLSVEMLQES 491 (538)
T ss_pred hc-h-HHHHHHHHhhcchhhcCchHHHHHHHHHHhhhhhccCCchHHHHHhh
Confidence 22 2 5567777777788888888887765554433222 245667777753
No 49
>cd06965 NR_DBD_Ppar DNA-binding domain of peroxisome proliferator-activated receptors (PPAR) is composed of two C4-type zinc fingers. DNA-binding domain of peroxisome proliferator-activated receptors (PPAR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PPAR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. 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 elements, which are composed of two direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pair located upstream of the peroxisome proliferator responsive gene
Probab=90.07 E-value=0.093 Score=45.12 Aligned_cols=22 Identities=36% Similarity=0.788 Sum_probs=19.2
Q ss_pred ccccCCCccccCCccchHHHHH
Q psy3123 16 NARYHNAPVRFGRVPKREKARI 37 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPKreK~~l 37 (585)
.|||++++||++|+|+++|++|
T Consensus 63 ~vGM~~~~v~~~r~~~~~~~~~ 84 (84)
T cd06965 63 NVGMSHNAIRFGRMPRVEKEKL 84 (84)
T ss_pred hccCCHHHcccCCCCchhhhcC
Confidence 3799999999999999998753
No 50
>cd07166 NR_DBD_REV_ERB DNA-binding domain of REV-ERB receptor-like is composed of two C4-type zinc fingers. DNA-binding domain of REV-ERB receptor- like is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. REV-ERB receptors 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. REV-ERB receptors bind as a monomer to a (A/G)GGTCA half-site with a 5' AT-rich extension or as a homodimer to a direct repeat 2 element (AGGTCA sequence with a 2-bp spacer), indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target genes. The porphyr
Probab=83.94 E-value=0.28 Score=42.64 Aligned_cols=20 Identities=55% Similarity=0.881 Sum_probs=18.1
Q ss_pred ccccCCCccccCCccchHHH
Q psy3123 16 NARYHNAPVRFGRVPKREKA 35 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPKreK~ 35 (585)
-|||++++||.+|+|+++|.
T Consensus 69 ~vGM~~~~v~~~r~~~~~~~ 88 (89)
T cd07166 69 AVGMSRDAVRFGRIPKREKA 88 (89)
T ss_pred cccCCHHHhcCCCCCCcccc
Confidence 38999999999999999875
No 51
>cd07165 NR_DBD_DmE78_like DNA-binding domain of Drosophila ecdysone-induced protein 78 (E78) like is composed of two C4-type zinc fingers. DNA-binding domain of proteins similar to Drosophila ecdysone-induced protein 78 (E78) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. E78 interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. 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. 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. The SmE78 may be involved in transduction of an ecdysone signal in S. mansoni,
Probab=73.38 E-value=1.1 Score=38.25 Aligned_cols=17 Identities=41% Similarity=0.868 Sum_probs=15.3
Q ss_pred cccCCCccccCCccchH
Q psy3123 17 ARYHNAPVRFGRVPKRE 33 (585)
Q Consensus 17 VGMSrdAVR~GRvPKre 33 (585)
|||++++||.+|+|+++
T Consensus 64 vGM~~~~V~~~r~~~~~ 80 (81)
T cd07165 64 AGMSKDSVRYGRIPNRQ 80 (81)
T ss_pred ccCCHHHcccCCCCccc
Confidence 79999999999999865
No 52
>cd06957 NR_DBD_PNR_like_2 DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like is composed of two C4-type zinc fingers. The DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) nuclear receptor-like family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. This family includes nuclear receptor Tailless (TLX), photoreceptor cell-specific nuclear receptor (PNR) and related receptors. TLX is an orphan receptor that plays a key role in neural development by regulating cell cycle progression and exit of neural stem cells 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
Probab=49.06 E-value=5.1 Score=34.23 Aligned_cols=18 Identities=22% Similarity=0.272 Sum_probs=15.7
Q ss_pred ccccCCCccccCCccchH
Q psy3123 16 NARYHNAPVRFGRVPKRE 33 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPKre 33 (585)
-|||++++||.+|.|+++
T Consensus 64 ~vGM~~~~v~~~r~p~~~ 81 (82)
T cd06957 64 AVGMNRAAVQEERGPRKL 81 (82)
T ss_pred cccCCHHHhccccCcCCC
Confidence 389999999999999864
No 53
>cd07163 NR_DBD_TLX DNA-binding domain of Tailless (TLX) is composed of two C4-type zinc fingers. DNA-binding domain of Tailless (TLX) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. TLX interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. 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. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX 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=46.38 E-value=5.9 Score=34.65 Aligned_cols=18 Identities=17% Similarity=0.335 Sum_probs=15.6
Q ss_pred ccccCCCccccCCccchH
Q psy3123 16 NARYHNAPVRFGRVPKRE 33 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPKre 33 (585)
.|||++++||++|.|++.
T Consensus 73 ~vGM~~~~Vq~~r~p~~~ 90 (92)
T cd07163 73 EVGMNKDAVQHERGPRNS 90 (92)
T ss_pred hhcCCHHHhhcccCcCCC
Confidence 389999999999999754
No 54
>cd07179 2DBD_NR_DBD2 The second DNA-binding domain (DBD) of the 2DBD nuclear receptor is composed of two C4-type zinc fingers. The second DNA-binding domain (DBD) of the 2DBD nuclear receptor (NR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. NRs interact with specific DNA sites upstream of the target gene and modulate the rate of transcriptional initiation. The proteins contain two DBDs in tandem, probably resulting from an ancient recombination event. The 2DBD-NRs are found only in flatworm species, mollusks and arthropods. Their biological function is unknown.
Probab=43.47 E-value=7.9 Score=32.37 Aligned_cols=11 Identities=18% Similarity=0.299 Sum_probs=10.3
Q ss_pred cccCCCccccC
Q psy3123 17 ARYHNAPVRFG 27 (585)
Q Consensus 17 VGMSrdAVR~G 27 (585)
|||++++||+|
T Consensus 64 vGM~~~~v~~~ 74 (74)
T cd07179 64 VGMSKTGSRIG 74 (74)
T ss_pred hCCCHhHeeCc
Confidence 79999999997
No 55
>cd06961 NR_DBD_TR DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers. DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. TR interacts with the thyroid response element, which is a DNA site with direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pairs, upstream of target genes and modulates the rate of transcriptional initiation. Thyroid hormone receptor (TR) mediates 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 he
Probab=40.70 E-value=7.1 Score=33.62 Aligned_cols=18 Identities=11% Similarity=-0.045 Sum_probs=13.9
Q ss_pred cccCCCccccCCccchHH
Q psy3123 17 ARYHNAPVRFGRVPKREK 34 (585)
Q Consensus 17 VGMSrdAVR~GRvPKreK 34 (585)
|||++++||.+|.|-.++
T Consensus 65 vGM~~~~v~~~r~~~~~~ 82 (85)
T cd06961 65 VGMAKDLVLDDRKRGAKR 82 (85)
T ss_pred ccCCHHHcccccCccccc
Confidence 788888888888886543
No 56
>cd07164 NR_DBD_PNR_like_1 DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like proteins is composed of two C4-type zinc fingers. DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like proteins is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. PNR is a member of nuclear receptor superfamily of the ligand-activated transcription factors. 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. It most likely binds to DNA as a homodimer. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, PNR has a central well conserved DNA binding domain (DBD), a variable N-t
Probab=40.11 E-value=10 Score=32.08 Aligned_cols=15 Identities=20% Similarity=0.463 Sum_probs=13.2
Q ss_pred cccCCCccccCCccc
Q psy3123 17 ARYHNAPVRFGRVPK 31 (585)
Q Consensus 17 VGMSrdAVR~GRvPK 31 (585)
|||++++||.+|.|.
T Consensus 64 vGM~~~~v~~~r~~~ 78 (78)
T cd07164 64 VNMNRDAVQHERAPR 78 (78)
T ss_pred hcCCHHHhccCCCCC
Confidence 899999999999873
No 57
>cd07169 NR_DBD_GCNF_like DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers. DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. GCNF is a transcription factor expressed in post-meiotic stages of developing male germ cells. In vitro, GCNF has the ability to bind to direct repeat elements of 5'-AGGTCA.AGGTCA-3', as well as to an extended half-site sequence 5'-TCA.AGGTCA-3'. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, GCNF 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=36.91 E-value=12 Score=32.71 Aligned_cols=16 Identities=13% Similarity=0.237 Sum_probs=13.8
Q ss_pred ccccCCCccccCCccc
Q psy3123 16 NARYHNAPVRFGRVPK 31 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPK 31 (585)
.|||++++||.+|+|-
T Consensus 71 ~vGM~~~~v~~~r~~~ 86 (90)
T cd07169 71 QMGMNRKAIREDGMPG 86 (90)
T ss_pred cccCCHHHhccccCCC
Confidence 4899999999999874
No 58
>cd06970 NR_DBD_PNR DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) is composed of two C4-type zinc fingers. DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. PNR is a member of the nuclear receptor superfamily of the ligand-activated transcription factors. 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. It most likely binds to DNA as a homodimer. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, PNR has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hing
Probab=35.90 E-value=13 Score=32.66 Aligned_cols=17 Identities=24% Similarity=0.368 Sum_probs=14.8
Q ss_pred ccccCCCccccCCccch
Q psy3123 16 NARYHNAPVRFGRVPKR 32 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPKr 32 (585)
.|||++++||.+|.|+.
T Consensus 72 ~vGM~~~~V~~~R~~~~ 88 (92)
T cd06970 72 QAGMNKDAVQNERQPRN 88 (92)
T ss_pred HhCCCHHHcccccCccc
Confidence 48999999999999864
No 59
>cd06964 NR_DBD_RAR DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers. DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. RAR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. RARs mediate the biological effect of retinoids, including both natural 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. RAR function as a heterodimer with retinoic X receptor by binding to specific RAR response elements (RAREs), which are composed of two direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pair and found in the promoter reg
Probab=34.00 E-value=13 Score=32.04 Aligned_cols=16 Identities=25% Similarity=0.231 Sum_probs=13.8
Q ss_pred ccccCCCccccCCccc
Q psy3123 16 NARYHNAPVRFGRVPK 31 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPK 31 (585)
-|||++++||.+|.++
T Consensus 69 ~vGM~~~~v~~~R~~~ 84 (85)
T cd06964 69 EVGMSKESVRNDRNKK 84 (85)
T ss_pred hhCCCHHHhhccccCC
Confidence 4799999999998775
No 60
>cd06967 NR_DBD_TR2_like DNA-binding domain of the TR2 and TR4 (human testicular receptor 2 and 4) is composed of two C4-type zinc fingers. DNA-binding domain of the TR2 and TR4 (human testicular receptor 2 and 4) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. TR2 and TR4 interact with specific DNA sites upstream of the target gene and modulate the rate of transcriptional initiation. TR4 and TR2 are orphan nuclear receptors; the physiological ligand is as yet unidentified. 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. It has been 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
Probab=32.84 E-value=15 Score=31.75 Aligned_cols=16 Identities=19% Similarity=0.235 Sum_probs=13.6
Q ss_pred ccccCCCccccCCccc
Q psy3123 16 NARYHNAPVRFGRVPK 31 (585)
Q Consensus 16 ~VGMSrdAVR~GRvPK 31 (585)
.|||+.++||.+|.|.
T Consensus 68 ~vGM~~~~Vq~~R~~~ 83 (87)
T cd06967 68 AMGMKSDSVQCERKPI 83 (87)
T ss_pred HcCCCHHHhccccCCC
Confidence 3899999999999874
No 61
>cd07168 NR_DBD_DHR4_like DNA-binding domain of ecdysone-induced DHR4 orphan nuclear receptor is composed of two C4-type zinc fingers. DNA-binding domain of ecdysone-induced DHR4 orphan nuclear receptor is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. 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
Probab=32.55 E-value=15 Score=32.00 Aligned_cols=15 Identities=33% Similarity=0.310 Sum_probs=13.5
Q ss_pred cccCCCccccCCccc
Q psy3123 17 ARYHNAPVRFGRVPK 31 (585)
Q Consensus 17 VGMSrdAVR~GRvPK 31 (585)
|||++++||++|+|-
T Consensus 72 vGM~~~~V~~~R~~~ 86 (90)
T cd07168 72 KGMMLAAVREDRMPG 86 (90)
T ss_pred cCCCHHHhhcccCCC
Confidence 899999999999883
No 62
>PF15178 TOM_sub5: Mitochondrial import receptor subunit TOM5 homolog
Probab=30.64 E-value=30 Score=26.75 Aligned_cols=15 Identities=40% Similarity=1.170 Sum_probs=12.1
Q ss_pred CCCCCHHhhhh---HHHH
Q psy3123 501 GPRMTPDQLKR---TEIV 515 (585)
Q Consensus 501 ~~~~~~~~~~~---~~~~ 515 (585)
||+|.||+||| .|.|
T Consensus 8 ~pk~DPeE~k~kmR~dvi 25 (51)
T PF15178_consen 8 GPKMDPEEMKRKMREDVI 25 (51)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 79999999996 4554
No 63
>cd07155 NR_DBD_ER_like DNA-binding domain of estrogen receptor (ER) and estrogen related receptors (ERR) is composed of two C4-type zinc fingers. DNA-binding domains of estrogen receptor (ER) and estrogen related receptors (ERR) are composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. ER and ERR interact with the palindromic inverted repeat, 5'GGTCAnnnTGACC-3', upstream of the target gene and modulate the rate of transcriptional initiation. ERR and ER are closely related and share sequence similarity, target genes, co-regulators and promoters. While ER is activated by endogenous estrogen, ERR lacks the ability to bind to estrogen. Estrogen receptor mediates the biological effects of hormone estrogen by the binding of the receptor dimer to estrogen response element of target genes. However, ERRs seem to interfere with the classic ER-mediated estrogen responsive signaling by targeting the same set of genes. E
Probab=24.15 E-value=24 Score=29.50 Aligned_cols=12 Identities=25% Similarity=0.310 Sum_probs=10.6
Q ss_pred cccCCCccccCC
Q psy3123 17 ARYHNAPVRFGR 28 (585)
Q Consensus 17 VGMSrdAVR~GR 28 (585)
|||++++||++|
T Consensus 64 vGM~~~~v~~~r 75 (75)
T cd07155 64 VGMLKEGVRLDR 75 (75)
T ss_pred hCCCHHHcccCC
Confidence 799999999886
No 64
>KOG0506|consensus
Probab=21.86 E-value=46 Score=37.44 Aligned_cols=17 Identities=53% Similarity=0.857 Sum_probs=14.5
Q ss_pred hhhHHHhhh-CCCCCccc
Q psy3123 364 APLLAATLA-GAQCPHRN 380 (585)
Q Consensus 364 ~~~~~~~~~-~~~~~~~~ 380 (585)
+...||||| ||+||+-.
T Consensus 379 ~aVMAaTLANGGvcPit~ 396 (622)
T KOG0506|consen 379 AAVMAATLANGGVCPITG 396 (622)
T ss_pred HHHHHHHHhcCCcCCCCC
Confidence 678899999 99999753
Done!