Query psy17882
Match_columns 181
No_of_seqs 121 out of 1101
Neff 10.0
Searched_HMMs 46136
Date Fri Aug 16 16:33:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17882.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17882hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06937 NR_LBD_RAR The ligand 100.0 1.4E-45 3.1E-50 270.8 14.4 178 2-181 54-231 (231)
2 cd07069 NR_LBD_Lrh-1 The ligan 100.0 1.9E-44 4.2E-49 266.0 16.6 180 2-181 56-238 (241)
3 cd07070 NR_LBD_SF-1 The ligand 100.0 2.9E-44 6.3E-49 264.8 15.4 180 2-181 54-236 (237)
4 cd06944 NR_LBD_Ftz-F1_like The 100.0 9.2E-44 2E-48 262.5 16.7 180 2-181 54-236 (237)
5 cd07348 NR_LBD_NGFI-B The liga 100.0 5.1E-44 1.1E-48 262.6 14.5 176 2-181 57-234 (238)
6 cd07349 NR_LBD_SHP The ligand 100.0 1.7E-43 3.7E-48 257.7 16.0 177 2-179 35-222 (222)
7 cd06949 NR_LBD_ER Ligand bindi 100.0 1.6E-43 3.4E-48 260.7 15.5 177 2-180 48-233 (235)
8 cd07076 NR_LBD_GR Ligand bindi 100.0 2.9E-43 6.2E-48 258.8 14.5 177 2-180 44-224 (247)
9 cd07071 NR_LBD_Nurr1 The ligan 100.0 6.3E-43 1.4E-47 257.0 15.9 176 2-181 57-234 (238)
10 cd06935 NR_LBD_TR The ligand b 100.0 2.8E-43 6E-48 260.5 13.0 175 2-178 68-243 (243)
11 cd07072 NR_LBD_DHR38_like Liga 100.0 1.1E-42 2.3E-47 255.7 15.0 176 2-181 58-235 (239)
12 cd06945 NR_LBD_Nurr1_like The 100.0 6.6E-43 1.4E-47 257.8 13.7 177 2-181 57-235 (239)
13 cd06951 NR_LBD_Dax1_like The l 100.0 2.4E-42 5.1E-47 252.2 15.2 175 2-177 35-222 (222)
14 cd06948 NR_LBD_COUP-TF Ligand 100.0 8.4E-42 1.8E-46 252.0 16.2 179 2-181 46-225 (236)
15 cd06941 NR_LBD_DmE78_like The 100.0 5.8E-42 1.2E-46 246.7 13.8 177 2-180 18-195 (195)
16 cd07350 NR_LBD_Dax1 The ligand 100.0 1.6E-41 3.4E-46 248.7 15.4 176 2-177 35-232 (232)
17 cd07068 NR_LBD_ER_like The lig 100.0 1.9E-41 4.1E-46 248.2 15.0 178 2-181 43-221 (221)
18 cd06946 NR_LBD_ERR The ligand 100.0 2.2E-41 4.7E-46 248.0 14.8 178 2-181 43-221 (221)
19 cd07073 NR_LBD_AR Ligand bindi 100.0 3.3E-41 7.2E-46 248.8 15.2 177 2-180 44-229 (246)
20 cd06947 NR_LBD_GR_Like Ligand 100.0 3.7E-41 7.9E-46 248.6 14.9 179 2-180 44-229 (246)
21 cd06939 NR_LBD_ROR_like The li 100.0 5E-41 1.1E-45 247.9 13.0 174 2-179 64-241 (241)
22 cd06954 NR_LBD_LXR The ligand 100.0 1.3E-40 2.8E-45 246.2 13.5 177 2-181 59-236 (236)
23 cd07075 NR_LBD_MR Ligand bindi 100.0 2.3E-40 5.1E-45 243.5 14.5 177 2-178 44-227 (248)
24 cd06932 NR_LBD_PPAR The ligand 100.0 1.3E-40 2.9E-45 247.8 13.3 175 2-180 79-257 (259)
25 cd06940 NR_LBD_REV_ERB The lig 100.0 1.7E-40 3.6E-45 237.3 12.9 161 2-164 28-188 (189)
26 cd06950 NR_LBD_Tlx_PNR_like Th 100.0 5.9E-40 1.3E-44 237.6 15.8 165 2-168 42-206 (206)
27 cd06933 NR_LBD_VDR The ligand 100.0 6.3E-40 1.4E-44 241.9 13.6 179 2-181 53-236 (238)
28 cd06934 NR_LBD_PXR_like The li 100.0 1.6E-39 3.6E-44 238.0 12.4 173 2-178 51-226 (226)
29 cd06952 NR_LBD_TR2_like The li 100.0 9E-39 1.9E-43 234.4 15.0 179 1-180 36-221 (222)
30 cd06931 NR_LBD_HNF4_like The l 100.0 3.4E-38 7.3E-43 231.5 15.4 174 2-178 48-222 (222)
31 cd06938 NR_LBD_EcR The ligand 100.0 1.7E-38 3.7E-43 233.8 13.5 175 2-180 55-230 (231)
32 cd06943 NR_LBD_RXR_like The li 100.0 3.3E-38 7.1E-43 229.3 14.0 161 2-164 46-207 (207)
33 cd06936 NR_LBD_Fxr The ligand 100.0 4.8E-38 1E-42 229.7 12.2 168 2-177 52-221 (221)
34 KOG4215|consensus 100.0 3.2E-37 6.9E-42 229.7 11.2 178 1-180 169-350 (432)
35 cd06929 NR_LBD_F1 Ligand-bindi 100.0 5.6E-37 1.2E-41 217.4 11.9 156 2-159 18-173 (174)
36 cd06930 NR_LBD_F2 Ligand-bindi 100.0 3.3E-36 7.1E-41 211.7 14.1 151 2-152 15-165 (165)
37 cd07074 NR_LBD_PR Ligand bindi 100.0 4.6E-36 9.9E-41 220.6 15.3 179 2-180 44-229 (248)
38 cd06953 NR_LBD_DHR4_like The l 100.0 5.3E-36 1.1E-40 217.9 12.1 159 2-161 43-204 (213)
39 cd06942 NR_LBD_Sex_1_like The 100.0 2.9E-34 6.4E-39 205.8 11.6 157 2-162 18-177 (191)
40 cd06157 NR_LBD The ligand bind 100.0 7.6E-29 1.6E-33 174.1 12.2 151 2-152 14-168 (168)
41 PF00104 Hormone_recep: Ligand 100.0 2.3E-29 4.9E-34 182.0 9.5 164 2-166 33-203 (203)
42 smart00430 HOLI Ligand binding 100.0 7.2E-29 1.6E-33 173.4 11.1 150 2-152 8-163 (163)
43 KOG4218|consensus 99.9 4.6E-27 1E-31 174.4 8.5 179 2-180 290-471 (475)
44 KOG4216|consensus 99.9 5.1E-24 1.1E-28 160.4 5.9 175 2-180 298-475 (479)
45 KOG4217|consensus 99.9 1.3E-21 2.8E-26 150.7 9.8 173 3-179 425-599 (605)
46 KOG4846|consensus 90.1 0.054 1.2E-06 42.9 -1.1 149 2-160 378-530 (538)
47 PF10330 Stb3: Putative Sin3 b 63.6 8 0.00017 24.1 2.3 22 6-27 31-52 (92)
48 PF00645 zf-PARP: Poly(ADP-rib 59.6 9.2 0.0002 23.1 2.2 20 6-25 60-79 (82)
49 PRK13988 cell division topolog 56.7 45 0.00097 21.2 4.9 54 77-131 6-59 (97)
50 PF04048 Sec8_exocyst: Sec8 ex 47.4 30 0.00065 23.5 3.3 66 96-161 27-96 (142)
51 smart00453 WSN Worm-specific ( 38.2 60 0.0013 19.1 3.2 38 141-180 5-42 (69)
52 KOG4846|consensus 36.7 1.6E+02 0.0035 24.1 6.2 156 3-160 288-468 (538)
53 PRK00296 minE cell division to 35.7 43 0.00094 20.7 2.4 32 99-130 25-56 (86)
54 PRK13991 cell division topolog 35.6 59 0.0013 20.2 3.0 31 98-129 25-55 (87)
55 PF08483 IstB_IS21_ATP: IstB-l 34.0 36 0.00077 16.5 1.5 18 9-26 6-23 (30)
56 PRK14052 effector protein; Pro 29.6 46 0.001 26.1 2.2 22 132-153 348-371 (387)
57 PF05596 Taeniidae_ag: Taeniid 29.3 1E+02 0.0022 18.0 3.1 20 111-130 41-60 (64)
58 PF02020 W2: eIF4-gamma/eIF5/e 28.1 1.1E+02 0.0024 18.4 3.4 44 115-159 2-45 (84)
59 PF13678 Peptidase_M85: NFkB-p 26.3 2.8E+02 0.0062 20.8 5.8 60 84-143 177-239 (250)
60 PF15612 WHIM1: WSTF, HB1, Itc 26.0 68 0.0015 17.1 2.0 18 11-28 13-30 (50)
61 PF03095 PTPA: Phosphotyrosyl 25.7 2.3E+02 0.0049 22.1 5.4 58 68-142 22-81 (299)
62 COG1658 Small primase-like pro 25.3 44 0.00095 22.4 1.3 24 96-126 58-81 (127)
63 PF02206 WSN: Domain of unknow 24.4 1.4E+02 0.0031 17.2 3.3 16 165-180 27-42 (69)
64 PRK13987 cell division topolog 24.4 92 0.002 19.5 2.5 31 99-130 24-54 (91)
65 PF09150 Carot_N: Orange carot 24.2 69 0.0015 22.3 2.1 17 8-24 18-34 (159)
66 cd07644 I-BAR_IMD_BAIAP2L2 Inv 20.5 1.4E+02 0.003 22.0 3.0 68 95-162 13-90 (215)
67 PF03776 MinE: Septum formatio 20.5 46 0.001 19.6 0.6 30 102-131 15-45 (70)
68 PF09863 DUF2090: Uncharacteri 20.4 85 0.0018 24.5 2.1 34 93-131 142-175 (311)
69 PRK04017 hypothetical protein; 20.2 67 0.0015 21.7 1.4 25 95-126 67-91 (132)
No 1
>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=1.4e-45 Score=270.84 Aligned_cols=178 Identities=20% Similarity=0.308 Sum_probs=163.3
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|+||.|+++++.|+++.+.+ +.+.+++|...++......+.......+.+++.++
T Consensus 54 ~V~wAK~iPgF~~L~~~DQi~LLk~~w~El~~L~~a~~~~~~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 131 (231)
T cd06937 54 IVEFAKRLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQ--DTMTFSDGLTLNRTQMHNAGFGPLTDLVFTFANQL 131 (231)
T ss_pred HHHHHhcCCccccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCC--CeEEecCCceecHHHHhhcChHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999987653 46778777766654433344456677788999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
+++++|..||+||||++||+||++|+.+..+|+++|+++..+|++|+..++|+.+.||++||++||+||+++.+++|.++
T Consensus 132 ~~L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~p~rf~kLLl~Lp~LR~l~~~~~e~l~ 211 (231)
T cd06937 132 LPLEMDDTEIGLLSAICLICGDRQDLEEPDRVEKLQEPLLEALKIYARKRRPDKPHMFPKMLMKITDLRSISAKGAERVI 211 (231)
T ss_pred HHcCCCHHHHHHHHHHHHcCCCCccCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccCCccHHHHHHHHhcC
Q psy17882 162 FAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 162 ~~~~~~~~~~~~ll~e~l~~ 181 (181)
+++++|..++++|+.||+++
T Consensus 212 ~~k~~~~~~~~~Ll~Eml~~ 231 (231)
T cd06937 212 TLKMEIPGPMPPLISEMLEN 231 (231)
T ss_pred HHHhcCCCCCCHHHHHHhcC
Confidence 99999999999999999975
No 2
>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=1.9e-44 Score=266.05 Aligned_cols=180 Identities=24% Similarity=0.404 Sum_probs=161.3
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCC---CccchHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNG---KASQTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~ 78 (181)
+|+|||++|+|.+|+.+||+.|+|+||.|+++++.|+++.+....+.+.+++|...+.... ...+....++.+.+++
T Consensus 56 ~VeWAK~iP~F~~L~~~DQi~LLk~~w~EllvL~~a~~s~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 135 (241)
T cd07069 56 IVEWARSSIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELV 135 (241)
T ss_pred HHHHHhhCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeeEecCCCccCchhhhhhhhhHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999987654455677777765554321 1122344567788999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
.+++++++|..||+||||++|||||++|+.+..+|+++|+++..+|++|+..++|+.+.||++||+++|++|.++..+.|
T Consensus 136 ~~lr~L~ld~~E~a~LKaivLfnpd~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf~kLLl~Lp~LR~is~~~~e 215 (241)
T cd07069 136 AKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEE 215 (241)
T ss_pred HHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHhHHHHHhhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccCCccHHHHHHHHhcC
Q psy17882 159 HIFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 159 ~l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
.+++++++|.+|+++++.||+.+
T Consensus 216 ~l~~~~l~g~~~~~~Ll~Eml~~ 238 (241)
T cd07069 216 YLYYKHLNGDVPYNNLLIEMLHA 238 (241)
T ss_pred HHHhccccCCCcHHHHHHHHHhc
Confidence 99999999999999999999864
No 3
>cd07070 NR_LBD_SF-1 The ligand binding domain of nuclear receptor steroidogenic factor 1, a member of nuclear receptor superfamily. The ligand binding domain of nuclear receptor steroidogenic factor 1 (SF-1): SF-1, a member of the nuclear hormone receptor superfamily, is an essential regulator of endocrine development and function and is considered a master regulator of reproduction. Most nuclear receptors function as homodimer or heterodimers, however SF-1 binds to its target genes as a monomer, recognizing the variations of the DNA sequence motif, T/CCA AGGTCA. SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been determined as potential ligands of SF-1. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, SF-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=100.00 E-value=2.9e-44 Score=264.84 Aligned_cols=180 Identities=21% Similarity=0.354 Sum_probs=160.2
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCC-ccch--HHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGK-ASQT--AADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~ 78 (181)
+|+|||++|+|++|+.+||+.|+|++|.++++++.|+++.+..+.+.+.+++|..++..... ..+. ......+.+++
T Consensus 54 ~VeWaK~lP~F~~L~~~DQi~LLk~~w~el~vL~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~e~~ 133 (237)
T cd07070 54 IVDWARRCMVFKELEVADQMTLLQNCWSELLVFDHIYRQVQHGKEGSILLVTGQEVELSTVAAQAGSLLHSLVLRAQELV 133 (237)
T ss_pred HHHHHHhCCChhhCCHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceeecCCCeechhHHHHHHhHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999987655667788777665533211 1111 12334457899
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
.+++++++|.+||+|||||+|||||++|+++...|+++|++|..+|.+||..++|+.+.||++||+++|+||+++.++.|
T Consensus 134 ~kl~~L~ld~~Ey~~LkaIiLfnpd~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~Rf~kLLl~Lp~LRsis~~~~e 213 (237)
T cd07070 134 LQLHALQLDRQEFVCLKFLILFSLDVKFLNNHSLVKDAQEKANAALLDYTLCHYPHCGDKFQQLLLRLVEVRALSMQAKE 213 (237)
T ss_pred HHHHHhCCCHHHHHHHHHHHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchHHHHHHHHhHHHHHhhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccCCccHHHHHHHHhcC
Q psy17882 159 HIFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 159 ~l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
++++++++|.+|+++++.||+++
T Consensus 214 ~l~~~~l~g~~~~~~Ll~eml~~ 236 (237)
T cd07070 214 YLYHKHLGNEMPRNNLLIEMLQA 236 (237)
T ss_pred HHHHhcccCCCcHHHHHHHHhcC
Confidence 99999999999999999999974
No 4
>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=9.2e-44 Score=262.47 Aligned_cols=180 Identities=25% Similarity=0.432 Sum_probs=163.2
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCc---cchHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKA---SQTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 78 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++...+..+.+.+++|..++...... .+....+..+.+++
T Consensus 54 ~VewaK~lp~F~~L~~~DQi~LLk~~w~el~~L~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~ 133 (237)
T cd06944 54 IVEWARNSVFFKELKVDDQMKLLQNCWSELLVLDHIYRQVHHGKEDSILLVTGQEVDLSTLASQAGLGLSSLVDRAQELV 133 (237)
T ss_pred HHHHHHhCCChhcCCHHHHHHHHHHHhHHHHHHHHHHHhcccCCCCceeecCCCccchhhhhhhccccHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999877545567788877665543111 22345667789999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
.+++++++|.+||+|||||++||||++|+++...|++.|++|..+|.+|+..++|+++.||++|+.++|++|.++.++.|
T Consensus 134 ~~l~~L~ld~~E~~lLkaIiL~npd~~gL~~~~~Ve~~q~~~~~aL~~y~~~~~~~~~~Rf~~LL~~Lp~Lr~is~~~~e 213 (237)
T cd06944 134 NKLRELQFDRQEFVCLKFLILFNPDVKGLENRQLVESVQEQVNAALLDYTLCNYPQQTDKFGQLLLRLPEIRAISMQAEE 213 (237)
T ss_pred HHHHHcCCCHHHHHHHHHHHHcCCCcCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccCCccHHHHHHHHhcC
Q psy17882 159 HIFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 159 ~l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
++++++++|.+|+++++.||+++
T Consensus 214 ~l~~~~l~g~~~~~~Ll~eml~~ 236 (237)
T cd06944 214 YLYYKHLNGEVPCNNLLIEMLHA 236 (237)
T ss_pred HHHhcccCCCCcHHHHHHHHHcC
Confidence 99999999999999999999974
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=5.1e-44 Score=262.58 Aligned_cols=176 Identities=26% Similarity=0.397 Sum_probs=160.8
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||+.|+|+||.|+++++.|+++.+.+ +.+.+++|...++... ..+.....+.+.++..++
T Consensus 57 iVewAK~iPgF~~L~~~DQi~LLk~~w~El~vL~~a~r~~~~~--~~l~f~~~~~~~r~~~-~~~~~~~~~~i~ef~~~l 133 (238)
T cd07348 57 IRKWAEKIPGFSDFCKEDQELLLESAFVELFILRLAYRSNPEE--GKLIFCNGVVLHRTQC-VRGFGDWIDSILEFSQSL 133 (238)
T ss_pred HHHHHccCCCccCCChHHHHHHHHHHHHHHHHHHHHHHcCCCC--CeEEeeCCeeecHHHH-HhhHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998763 3688888877655432 334556778889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc--CCCCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTH--HPAQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~--~~~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
+++++|.+||+||||++|| ||++|+++..+|+++|+++..+|++|+..+ +|+.+.||++||++||.||.++.+++|.
T Consensus 134 ~~L~ld~~E~a~LkAIvLf-~Dr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~p~rf~kLLl~Lp~LRsl~~~~~e~ 212 (238)
T cd07348 134 HRMNLDVSAFSCLAALVII-TDRHGLKEPKRVEELQNRLISCLKEHVSGSASEPQRPNCLSRLLGKLPELRTLCTQGLQR 212 (238)
T ss_pred HHcCCCHHHHHHHHHHHHc-CCCcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccccHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999 899999999999999999999999999875 4799999999999999999999999999
Q ss_pred HhhccccCCccHHHHHHHHhcC
Q psy17882 160 IFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 160 l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
+++++++|.+++++|+.||+++
T Consensus 213 lf~~kl~~~~~~~pLl~e~~~~ 234 (238)
T cd07348 213 IFYLKLEDLVPPPPIVDKIFMD 234 (238)
T ss_pred HHHHHhCCCCCCCHHHHHHHhc
Confidence 9999999999999999999874
No 6
>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=1.7e-43 Score=257.69 Aligned_cols=177 Identities=32% Similarity=0.563 Sum_probs=152.1
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCc--------cccCCcccccCCCC---CccchHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSP--------LFNASEHVAAVPNG---KASQTAAD 70 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~--------~~~~~~~~~~~~~~---~~~~~~~~ 70 (181)
+|+|||++|+|.+|+.+||+.|+|++|.|+++++.|+++.+.+.... +...+... ....+ ........
T Consensus 35 ~V~WAK~iP~F~~L~~~DQi~LLk~~W~EL~iL~laq~s~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~ 113 (222)
T cd07349 35 TVAFMRNLPSFWQLPPQDQLLLLQNCWGPLFLLGLAQDRVTFEVAEAPVPSMLKKILLEGQSS-SGGSGQPDRPQPSLAA 113 (222)
T ss_pred HHHHHhcCCCcccCChHHHHHHHHHccHHHHHHHHHHHccccccccccchhHHHHHHhccccc-ccccchhhhhhhHHHH
Confidence 68999999999999999999999999999999999999977643210 22222111 11110 11122334
Q ss_pred HHHHHHHHHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhh
Q psy17882 71 VRVLNGVLQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCR 150 (181)
Q Consensus 71 ~~~~~~~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr 150 (181)
.+.+.+++.+++++++|.+||+||||++|||||++|+++..+|+++|+++..+|++|+..+||+.+.||++|+++||++|
T Consensus 114 ~~~l~e~~~~l~~L~ld~~Eya~LkaivLf~pd~~gl~~~~~V~~lqe~~~~aL~~~~~~~~p~~~~r~~kLLl~Lp~LR 193 (222)
T cd07349 114 VQWLQCCLNKFWSLDLSPKEYAYLKGTILFNPDVPGLTASSHVGHLQQEAQWALCEVLEPLHPQDQGRFARILLTASTLK 193 (222)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCcccCCCHHHHHHHHHHHHHHHHHHHHHHCCCcccHHHHHHHHhHHHh
Confidence 56688999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhHHHHhhccccCCccHHHHHHHHh
Q psy17882 151 NIPSARVQHIFFAKTVANTSMEKLLCDMY 179 (181)
Q Consensus 151 ~~~~~~~e~l~~~~~~~~~~~~~ll~e~l 179 (181)
+++.+.+|+++|.+++|.+++++++.||+
T Consensus 194 ~i~~~~ie~lff~~~~g~~~i~~Ll~eml 222 (222)
T cd07349 194 SIPPSLITDLFFRPIIGDADIAELLGDML 222 (222)
T ss_pred cCCHHHHHHHhCccccCCCcHHHHHHHhC
Confidence 99999999999999999999999999996
No 7
>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=1.6e-43 Score=260.66 Aligned_cols=177 Identities=28% Similarity=0.462 Sum_probs=160.3
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCC-ccchHHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGK-ASQTAADVRVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 80 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++.+.+ +.+.+.+|..++..... ..+.....+.+.+++.+
T Consensus 48 ~VewAK~iP~F~~L~~~DQi~LLk~~w~el~~L~~a~rs~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 (235)
T cd06949 48 MINWAKKIPGFVDLSLHDQVHLLESAWLELLMLGLVWRSMEHP--GKLLFAPDLLLDRNQGSCVEGMVEIFDMLLATASR 125 (235)
T ss_pred HHHHHHhCCCcccCCHHHHHHHHHHhHHHHHHHHHHHHhcCCC--CeEEeeCCceecHHHhhhcccHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998763 35677777666554332 23344566778899999
Q ss_pred hhhcCCChhhhhhhhhhhhccCCCCC-----CCCHHHHHHHHHHHHHHHHHHHhhcC---CCCcchHHHHHhhhhhhhcc
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSETRG-----LKDSLQVENLQDQAQVMLAQHVRTHH---PAQPARFGRLLLMTSQCRNI 152 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd~~~-----l~~~~~i~~~~~~~~~~L~~~~~~~~---~~~~~r~~~Ll~~l~~lr~~ 152 (181)
|+++++|.+||+|||||++||||++| +.+..+|+++|+++..+|++|+..++ |+++.||++||+++|.||++
T Consensus 126 l~~L~ld~~EyalLKAIvLfnpd~~g~~~~~l~~~~~Ve~lq~~~~~aL~~y~~~~~~~~p~~~~Rf~~LLl~Lp~LR~l 205 (235)
T cd06949 126 FRELQLQREEYVCLKAIILLNSSVYTFLLESLESRRQVQRLLDKITDALVHACSKRGLSLQQQSRRLAQLLLILSHIRHV 205 (235)
T ss_pred HHHhCCCHHHHHHHHHHHHcCCCcCCcccccccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCcccHHHHHHHhchHHHHh
Confidence 99999999999999999999999999 88999999999999999999999998 89999999999999999999
Q ss_pred chhhHHHHhhccccCCccHHHHHHHHhc
Q psy17882 153 PSARVQHIFFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 153 ~~~~~e~l~~~~~~~~~~~~~ll~e~l~ 180 (181)
+++++|++++++++|.+++++|+.||++
T Consensus 206 ~~~~~e~l~~~k~~~~~~~~~Ll~Eml~ 233 (235)
T cd06949 206 SNKGMEHLYSMKCKNVVPLYDLLLEMLD 233 (235)
T ss_pred hHHHHHHHHHHHhCCCCChHHHHHHHhc
Confidence 9999999999999999999999999986
No 8
>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=2.9e-43 Score=258.76 Aligned_cols=177 Identities=20% Similarity=0.274 Sum_probs=158.3
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||++|+|+||.|+++++.|||+.+..+...+++++|..++++.....+.....+.+.++..+|
T Consensus 44 ~VeWAK~IPgF~~L~l~DQi~LLk~sW~Ellvl~~a~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~~~~~l~e~~~~~ 123 (247)
T cd07076 44 AVKWAKAIPGFRNLHLDDQMTLLQYSWMFLMAFALGWRSYRQSNGNLLCFAPDLIINEQRMTLPCMYDQCKHMLYVSSEL 123 (247)
T ss_pred HHHHHhcCCCcccCCHHHHHHHHHHhHHHHHHHHHHHhccCCCCCceEEecCCeeecHHHHhhhhHHHHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999999988655456788888887765544445555667789999999
Q ss_pred hhcCCChhhhhhhhhhhhccC-CCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcc---hHHHHHhhhhhhhccchhhH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKS-ETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPA---RFGRLLLMTSQCRNIPSARV 157 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~p-d~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~---r~~~Ll~~l~~lr~~~~~~~ 157 (181)
+++++|.+||+||||++|||| |++|+++..+|+++|++|..+|.+|+..++|+.++ ||++|+++||.+|.++.+..
T Consensus 124 r~L~ld~~EfacLKAIvLfnp~d~~GL~~~~~Ve~lqe~~~~aL~~yi~~~~p~~~~~~~RF~kLLllLp~Lr~i~~~~~ 203 (247)
T cd07076 124 HRLQVSYEEYLCMKTLLLLSTVPKDGLKSQELFDEIRMTYIKELGKAIVKREGNSSQNWQRFYQLTKLLDSMHEVVENLL 203 (247)
T ss_pred HHcCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchhhhHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999 99999999999999999999999999998886554 99999999999999999999
Q ss_pred HHHhhccccCCccHHHHHHHHhc
Q psy17882 158 QHIFFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 158 e~l~~~~~~~~~~~~~ll~e~l~ 180 (181)
| ++.+++++.++..++.||+.
T Consensus 204 e--f~~~~~~~~~~~~~~~~ml~ 224 (247)
T cd07076 204 N--FCFQTFLDKTMSIEFPEMLA 224 (247)
T ss_pred H--HHHHHhcccchhhhhHHHHH
Confidence 9 88888999988888888763
No 9
>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=6.3e-43 Score=257.00 Aligned_cols=176 Identities=23% Similarity=0.370 Sum_probs=160.0
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||+.|+|++|.|+++++.|+++.+.+ +.+.+++|...++... ..+.....+.+.++..++
T Consensus 57 iVewAK~iPgF~~L~~~DQi~LLk~~~~Ell~L~~a~~~~~~~--~~l~~~~g~~~~~~~~-~~~~~~~~~~i~ef~~~l 133 (238)
T cd07071 57 IRGWAEKIPGFTDLPKADQDLLFESAFLELFVLRLAYRSNPVE--GKLIFCNGVVLHRLQC-VRGFGEWIDSIVEFSSNL 133 (238)
T ss_pred HHHHhccCCCccCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCC--CceEeeCCceechhhh-hhcHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998763 4688888877665432 334556778889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc--CCCCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTH--HPAQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~--~~~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
+++++|.+||+|||||+|| +|++|+.+..+|+++|+++..+|++|+..+ +|+.+.||++||++||++|+++.++.|.
T Consensus 134 ~~L~ld~~E~alLkAIvLf-~D~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~~~rf~kLLl~Lp~LRsl~~~~~e~ 212 (238)
T cd07071 134 QNMNIDISAFSCIAALAMV-TERHGLKEPKRVEELQNKIVNCLKDHVTFNNGGLNRPNYLSKLLGKLPELRTLCTQGLQR 212 (238)
T ss_pred HhcCCCHHHHHHHHHHHHc-CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCcccHHHHHHHHhHHHHHHHHHHHHH
Confidence 9999999999999999999 699999999999999999999999999966 4589999999999999999999999999
Q ss_pred HhhccccCCccHHHHHHHHhcC
Q psy17882 160 IFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 160 l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
+++.+++|.+|+++++.||+.+
T Consensus 213 l~~~k~~~~~p~~~Ll~e~~~~ 234 (238)
T cd07071 213 IFYLKLEDLVPPPAIIDKLFLD 234 (238)
T ss_pred HHHHHcCCCCCCcHHHHHHHHh
Confidence 9999999999999999999864
No 10
>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=2.8e-43 Score=260.52 Aligned_cols=175 Identities=25% Similarity=0.310 Sum_probs=161.2
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||++|+.+||+.|+|+||.|+++++.|+++.+. .+.+.+++|..++++..+..+.....+.+.+++.++
T Consensus 68 iVefAK~iPgF~~L~~~DQi~LLk~~~~ElliL~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~f~~~l 145 (243)
T cd06935 68 VVDFAKKLPMFTELPCEDQIILLKGCCMEIMSLRAAVRYDPE--SETLTLSGEMAVTREQLKNGGLGVVSDAIFDLGVSL 145 (243)
T ss_pred HHHHHhcCCccccCChHHHHHHHHHhHHHHHHHHHHHHhCcC--CCeEEeeCCeEeeHHHHHhcChHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999998765 346788888776655444455667788899999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
+++++|++||+||+|++|||||++|+.+..+|+++|+++..+|++|+..++|+.+.||++||+++|.||.++.++.|.++
T Consensus 146 ~~L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~rf~kLL~~L~~LR~i~~~~~e~l~ 225 (243)
T cd06935 146 SSFNLDDTEVALLQAVLLMSSDRPGLACVERIEKLQDSFLLAFEHYINYRKHHVPHFWPKLLMKVTDLRMIGACHASRFL 225 (243)
T ss_pred HhcCCCHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccCCccH-HHHHHHH
Q psy17882 162 FAKTVANTSM-EKLLCDM 178 (181)
Q Consensus 162 ~~~~~~~~~~-~~ll~e~ 178 (181)
++++.+..++ ++|+.||
T Consensus 226 ~~k~~~~~~~~~~L~~Em 243 (243)
T cd06935 226 HMKVECPTELFPPLFLEV 243 (243)
T ss_pred HHHhcCCCCCCChhhhcC
Confidence 9999999986 9999986
No 11
>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=1.1e-42 Score=255.70 Aligned_cols=176 Identities=25% Similarity=0.339 Sum_probs=158.8
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||+.|+|++|.|+++++.|+++.+.+ +.+.+++|...++..... +.+...+.+.++..++
T Consensus 58 iv~wAK~IPgF~~L~~~DQi~LLk~~w~Ell~L~~a~r~~~~~--~~l~~~~g~~~~~~~~~~-~~~~~~~~i~ef~~~l 134 (239)
T cd07072 58 IKTFAEKIPGFPDLCKEDQELLFQSASLELFVLRLAYRTAPED--TKLTFCNGVVLHKQQCQR-SFGDWLHAILEFSKSL 134 (239)
T ss_pred HHHHhccCCCccCCCHHHHHHHHHHhHHHHHHHHHHHHccCCC--CeEEeeCCeeecHHHHHh-hHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998763 468888887766543222 4455678889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcC--CCCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHH--PAQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~--~~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
+++++|.+||+||||++|| +|++|+.+..+|+++|+++..+|++|+..++ ++.+.||++||++||+||+++.+++|+
T Consensus 135 ~~L~ld~~E~a~LkAivLf-~dr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~rf~kLLl~Lp~LRsl~~~~~e~ 213 (239)
T cd07072 135 HAMDIDISAFACLCALTLI-TERHGLKEPHKVEQLQMKIISSLRDHVTYNAEAQKKPHYFSRLLGKLPELRSLSVQGLQR 213 (239)
T ss_pred HHcCCCHHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhHHHHhhHHHHHHH
Confidence 9999999999999999999 4999999999999999999999999998755 468899999999999999999999999
Q ss_pred HhhccccCCccHHHHHHHHhcC
Q psy17882 160 IFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 160 l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
+++++++|.+|+++|+.||+.+
T Consensus 214 lf~~k~~~~~p~~~Ll~Em~~~ 235 (239)
T cd07072 214 IFYLKLEDLVPAPPLIENMFVA 235 (239)
T ss_pred HHHHHcCCCCCCcHHHHHHHhc
Confidence 9999999999999999999875
No 12
>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=6.6e-43 Score=257.76 Aligned_cols=177 Identities=26% Similarity=0.366 Sum_probs=161.2
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||+.|+|++|.|+++++.|+++.+.+ +.+.+++|..+.+... ..+.....+.+.++..++
T Consensus 57 iv~wAK~IPgF~~L~~~DQi~LLk~~w~El~~L~~a~r~~~~~--~~l~~~~~~~~~~~~~-~~~~~~~~~~i~~f~~~l 133 (239)
T cd06945 57 IRQWAEKIPGFKDLHREDQDLLLESAFLELFVLRLAYRSNPVD--GKLVFCNGLVLHRLQC-VRGFGEWLDSILAFSSSL 133 (239)
T ss_pred HHHHHHhCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHhcCCC--CceEeeCCceecHHHH-HHhHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998763 3677777766654321 223456678889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC--CCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHP--AQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~--~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
++++++..||+||+|+++|+||++|+.+..+|+++|+++..+|++|+..++| +.+.||++||++||+||.++.++.|+
T Consensus 134 ~~L~ld~~E~~~LkaivL~~pD~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~~~rf~kLLl~Lp~LR~ls~~~~e~ 213 (239)
T cd06945 134 QSLLLDDISAFCCLALLLLITERHGLKEPKKVEELQNKIISCLRDHVTSNYPGQDKPNRLSKLLLKLPELRTLSKKGLQR 213 (239)
T ss_pred HHHhCChHHHHHHHHHHHhCCCccccCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999 99999999999999999999999999
Q ss_pred HhhccccCCccHHHHHHHHhcC
Q psy17882 160 IFFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 160 l~~~~~~~~~~~~~ll~e~l~~ 181 (181)
+++++++|.+++++++.||+.+
T Consensus 214 l~~~k~~~~~~~~~Ll~e~~~~ 235 (239)
T cd06945 214 IFFLKLEDLLPPPPLIDKRFLD 235 (239)
T ss_pred HHHHHccCCCCCChHHHHHHHh
Confidence 9999999999999999999863
No 13
>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=2.4e-42 Score=252.22 Aligned_cols=175 Identities=31% Similarity=0.443 Sum_probs=149.8
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCC--------ccccCCcccccCCCC-----CccchH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESS--------PLFNASEHVAAVPNG-----KASQTA 68 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~--------~~~~~~~~~~~~~~~-----~~~~~~ 68 (181)
+|+|||++|+|.+|+.+||+.|+|++|.|+++++.|+++.+.+... .+...++........ ......
T Consensus 35 ~V~wAK~iP~F~~L~~~DQi~LLk~~w~El~iL~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 114 (222)
T cd06951 35 TIRFVRNLPCFTYLPPDDQLRLLRRSWAPLLLLGLAQDKVPFDTVEVPAPSILCEILTGAEMHWGGTPPPTLTMPPCIPL 114 (222)
T ss_pred HHHHHHhCCCcccCChHHHHHHHHHHhHHHHHHHHHHHhccccccccccchHHHHHHhccccccccccccccccchhhHH
Confidence 6899999999999999999999999999999999999987764321 122333322222111 001122
Q ss_pred HHHHHHHHHHHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhh
Q psy17882 69 ADVRVLNGVLQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQ 148 (181)
Q Consensus 69 ~~~~~~~~~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~ 148 (181)
..++.+.+++.+++++++|..||+||||++|||||++|+ +..+|+++|+++..+|++|+..++|+++.||++||++||+
T Consensus 115 ~~~~~l~e~~~~l~~L~ld~~Eya~LkAivLfnpD~~gl-~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf~kLLl~Lp~ 193 (222)
T cd06951 115 ADVQDIQQFLMKCWSLDLDCKEYAYLKGAVLFTPVPPLL-CPHYIEALQKEAQQALNEHTMMTRPLEQLRSARLLLMLSL 193 (222)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCcc-CHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHH
Confidence 346778999999999999999999999999999999999 9999999999999999999999999999999999999999
Q ss_pred hhccchhhHHHHhhccccCCccHHHHHHH
Q psy17882 149 CRNIPSARVQHIFFAKTVANTSMEKLLCD 177 (181)
Q Consensus 149 lr~~~~~~~e~l~~~~~~~~~~~~~ll~e 177 (181)
||+++.+.+|+++|++++|.+++++++.|
T Consensus 194 LRsl~~~~~e~lff~~~~g~~~i~~ll~~ 222 (222)
T cd06951 194 LRGIKTEPVTELFFRPIIGNVSMDDVLLQ 222 (222)
T ss_pred hhcCCHHHHHHHhCccccCCCcHHHHhcC
Confidence 99999999999999999999999999864
No 14
>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=8.4e-42 Score=252.03 Aligned_cols=179 Identities=41% Similarity=0.704 Sum_probs=156.8
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCcc-chHHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKAS-QTAADVRVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 80 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++.+. +.+.+..++|........... ......+.+.+++.+
T Consensus 46 ~VewaK~lp~F~~L~~~DQi~LLk~~w~el~lL~~a~~s~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~ 124 (236)
T cd06948 46 AVEWARNIPFFPDLQVTDQVALLRLSWSELFVLNAAQCCMPL-HVAPLLAAAGLHASPMSADRVVAFMDHIRIFQEQVEK 124 (236)
T ss_pred HHHHHHhCcCcccCCHHHHHHHHHHhhHHHHHHHHHHHcccc-cchhhhhccccccCccchhhHhHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999998876 334456666655433211111 112233556789999
Q ss_pred hhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
++++++|.+||+||||+++||||++|+++..+|+++|++|.++|.+|+..++|+++.||++||+++|++|.++..+.|++
T Consensus 125 l~~L~ld~~E~~lLkaiiL~npd~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~Lp~Lr~is~~~~e~l 204 (236)
T cd06948 125 LKALHVDSAEFSCLKAIVLFTSDACGLSDPAHIESLQEKSQCALEEYVRTQYPNQPTRFGKLLLRLPSLRTVSSSVIEQL 204 (236)
T ss_pred HHHcCCCHHHHHHHHHHHHcCcccccccCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHhccHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccccCCccHHHHHHHHhcC
Q psy17882 161 FFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~l~~ 181 (181)
++++++|.+++++++.||+.+
T Consensus 205 ~~~~l~g~~~~~~ll~e~l~~ 225 (236)
T cd06948 205 FFVRLVGKTPIETLIRDMLLS 225 (236)
T ss_pred hcccccCCCcHHHHHHHHHhC
Confidence 999999999999999999874
No 15
>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=5.8e-42 Score=246.67 Aligned_cols=177 Identities=23% Similarity=0.325 Sum_probs=156.8
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|++|+.+||+.|+|++|.|++++..|+++.+. .+.+.+++|...+.+...........+.+.+++.++
T Consensus 18 iI~waK~iP~F~~L~~~DQi~LLk~~~~el~ll~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 95 (195)
T cd06941 18 VVEFAKRIPGFCDLSQDDQLLLIKAGFFEVWLVRISRLINSK--SGSITFDDGISISRQQLDIIYDSDFVKALFEFSDSF 95 (195)
T ss_pred HHHHHHcCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHcCC--CCeEEecCCeEeeHHHHHhccchHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999998866553 336777777766554333333346678899999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
+++++|++||+|+||+++||||++|+.+..+|+++|+++..+|++|+..++|+++.||++|++++|.||.++.++.+.+.
T Consensus 96 ~~L~ld~~E~allkAi~Lf~pd~~gl~~~~~Ve~lq~~~~~aL~~~i~~~~p~~~~rf~~Ll~~Lp~Lr~l~~~~~e~l~ 175 (195)
T cd06941 96 NSLGLSDTEVALFCAVVLLSPDRIGLSEPKKVAILQDRVLEALKVQVSRNRPAEAQLFASLLMKIPELRSIGAKHQMHLD 175 (195)
T ss_pred HhcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred -hccccCCccHHHHHHHHhc
Q psy17882 162 -FAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 162 -~~~~~~~~~~~~ll~e~l~ 180 (181)
+....+..+++||+.||++
T Consensus 176 ~~~~~~~~~~~p~L~~E~~~ 195 (195)
T cd06941 176 WYRVNWPLLRLPPLFAEIYD 195 (195)
T ss_pred HHHhcCCCCCCCcHHHHhcC
Confidence 5555666899999999985
No 16
>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=1.6e-41 Score=248.71 Aligned_cols=176 Identities=26% Similarity=0.473 Sum_probs=148.6
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCc--------cccCCcccc-----------cCCC-
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSP--------LFNASEHVA-----------AVPN- 61 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~--------~~~~~~~~~-----------~~~~- 61 (181)
+|+|||++|+|.+|+.+||+.|+|+||.|+++++.|+++.+.+.... +...+.... ....
T Consensus 35 ~VeWAK~iP~F~~L~~~DQi~LLk~~W~El~iL~~a~~s~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 114 (232)
T cd07350 35 TLRFVKGVPCFQELPLDDQLVLVRSCWAPLLVLGLAQDGVDFETVETSEPSMLQRILTTRPPPTSGAEPGEPQALPQMPQ 114 (232)
T ss_pred HHHHHHhCcCcccCChHHHHHHHHHhhHHHHHHHHHHHcCCCccccccchhHHHHHHhcccccccccccccccccccccc
Confidence 68999999999999999999999999999999999999877643211 111111000 0000
Q ss_pred CC-c-cchHHHHHHHHHHHHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchH
Q psy17882 62 GK-A-SQTAADVRVLNGVLQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARF 139 (181)
Q Consensus 62 ~~-~-~~~~~~~~~~~~~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~ 139 (181)
.. . ......++.+.+++.+++++++|..||+||||++|||||++|+++..+|+++|+++..+|++|+..++|+++.||
T Consensus 115 ~~~~~~~~~~~i~~l~e~~~~l~~L~ld~~E~a~LkAivLf~pD~~~L~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~rf 194 (232)
T cd07350 115 AEASHLPSAADIRAIKAFLAKCWSLDISTKEYAYLKGTVLFNPDLPGLQCVQYIQGLQWEAQQALNEHVRMIHRGDQARF 194 (232)
T ss_pred hhhccccHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCcccCCCHHHHHHHHHHHHHHHHHHHHhhCCChhhHH
Confidence 00 0 011234577899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhhhhccchhhHHHHhhccccCCccHHHHHHH
Q psy17882 140 GRLLLMTSQCRNIPSARVQHIFFAKTVANTSMEKLLCD 177 (181)
Q Consensus 140 ~~Ll~~l~~lr~~~~~~~e~l~~~~~~~~~~~~~ll~e 177 (181)
++||+++|.+|+++.+.+|+++|++++|.+++++++.|
T Consensus 195 ~kLLl~Lp~LRsi~~~~iE~lff~~l~g~v~i~~ll~E 232 (232)
T cd07350 195 AKLNIALSLLRAINANVIAELFFRPIIGTVNMDDMLLE 232 (232)
T ss_pred HHHHHHhHHHHccCHHHHHHHhccccCCCCcHHHHhcC
Confidence 99999999999999999999999999999999999865
No 17
>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=1.9e-41 Score=248.22 Aligned_cols=178 Identities=29% Similarity=0.508 Sum_probs=161.8
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|++|.+++++..|+++.+.+. .+.+++|...+.+.....+.....+.+.+++.++
T Consensus 43 ~vewaK~lp~F~~L~~~DQi~LLk~~~~~~~~l~~a~~s~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 120 (221)
T cd07068 43 IISWAKHIPGFSDLSLNDQMHLLQSAWLEILMLGLVWRSLPHPG--KLVFAPDLLLDREQARVEGLLEIFDMLLQLVRRF 120 (221)
T ss_pred HHHHHHhCCCcccCCHHHHHHHHHHhhHHHHHHHHHHhhcCCCC--eEEeCCCceECHHHHhhccHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999977533 5777777666554333344555667789999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC-CCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHP-AQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~-~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
+++++|++||++|||+++||||++|+++..+|++.|++|..+|++||..++| +++.||++||+++|.+|+++.+++|.+
T Consensus 121 ~~L~ld~~E~~lLkaIil~npd~~~L~~~~~V~~~q~~~~~aL~~y~~~~~~~~~~~Rf~~LL~~l~~Lr~~~~~~~e~l 200 (221)
T cd07068 121 RELGLQREEYVCLKAIILANSDVRHLEDREAVQQLRDAILDALVDVEAKRHGSQQPRRLAQLLLLLPHLRQASNKGVRHL 200 (221)
T ss_pred HHcCCCHHHHHHHHHHHHcCCCccCccCHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHHHHHhccHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999 999999999999999999999999999
Q ss_pred hhccccCCccHHHHHHHHhcC
Q psy17882 161 FFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~l~~ 181 (181)
++++++|.+|+++++.||+.+
T Consensus 201 ~~~k~~~~~~~~~Ll~e~l~~ 221 (221)
T cd07068 201 YSVKCEGKVPMYKLFLEMLEA 221 (221)
T ss_pred HHHHHcCCccHHHHHHHHhcC
Confidence 999999999999999999864
No 18
>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=2.2e-41 Score=247.99 Aligned_cols=178 Identities=25% Similarity=0.405 Sum_probs=160.2
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++.+.+ +.+.++++...+.......+.....+.+.+++.++
T Consensus 43 ~Ve~aK~lp~F~~L~~~DQi~LLk~~~~el~lL~~a~~s~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 120 (221)
T cd06946 43 IIGWAKHIPGFSSLSLNDQMSLLQSAWMEILTLGVVFRSLPFN--GELVFAEDFILDEELAREAGLLELYSACLQLVRRL 120 (221)
T ss_pred HHHHHHhCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHccCCC--CceeecCCeEEcHHHHhhcCHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998763 35666666555433323334455667788999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC-CCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHP-AQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~-~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
+++++|.+||+||||+++||||++++++.++|++.|++|..+|.+||..++| +++.||++|+.++|.+|+++.++.|++
T Consensus 121 ~~L~l~~~E~~lLkai~L~npd~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~p~Rf~~LL~~l~~Lr~~~~~~~e~l 200 (221)
T cd06946 121 QRLRLEKEEYVLLKALALANSDSVHIEDVEAVRQLRDALLEALSDYEAGRHPGEAPRRAGQLLLTLPLLRQTDGKARRFF 200 (221)
T ss_pred HHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHhhchhHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999998888 899999999999999999999999999
Q ss_pred hhccccCCccHHHHHHHHhcC
Q psy17882 161 FFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~l~~ 181 (181)
++++++|.+|+++++.||+.+
T Consensus 201 ~~~~~~~~~~~~~Ll~eml~~ 221 (221)
T cd06946 201 YGVKREGKVPMHKLFLEMLEA 221 (221)
T ss_pred HHHHhcCCCCHHHHHHHHhcC
Confidence 999999999999999999864
No 19
>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=3.3e-41 Score=248.80 Aligned_cols=177 Identities=23% Similarity=0.364 Sum_probs=153.4
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|+||.|+++++.||++.+..+...+.+++|...+.......+.......+.+++.++
T Consensus 44 ~VeWAK~iP~F~~L~~~DQi~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l 123 (246)
T cd07073 44 VVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYRMHKSRMYSQCVRMRHLSQEF 123 (246)
T ss_pred HHHHHHcCCCccCCCHHHHHHHHHHHHHHHHHHHHHHhccccCCCCeEEecCCeeechhhhccccHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999987544445777777666654333333444455578999999
Q ss_pred hhcCCChhhhhhhhhhhhccC-CCCCCCCHHHHHHHHHHHHHHHHHHHhhcC---CCCcchHHHHHhhhhhhhccchhhH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKS-ETRGLKDSLQVENLQDQAQVMLAQHVRTHH---PAQPARFGRLLLMTSQCRNIPSARV 157 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~p-d~~~l~~~~~i~~~~~~~~~~L~~~~~~~~---~~~~~r~~~Ll~~l~~lr~~~~~~~ 157 (181)
+++++|.+||+||||++|||| |++|+++..+|+.+|+++..+|.+|+..++ ++.+.||++||+++|++|+++.+.
T Consensus 124 ~~L~ld~~EyacLKAIiLfnp~d~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~~Rf~kLLl~Lp~LRsi~~~~- 202 (246)
T cd07073 124 GWLQITPQEFLCMKALLLFSIIPVDGLKNQKFFDELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIAREL- 202 (246)
T ss_pred HHcCCCHHHHHHHHHHHHcCCCCcccccCHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHH-
Confidence 999999999999999999999 999999999999999999999999998764 356899999999999999999998
Q ss_pred HHHhhccccCCc-----cHHHHHHHHhc
Q psy17882 158 QHIFFAKTVANT-----SMEKLLCDMYK 180 (181)
Q Consensus 158 e~l~~~~~~~~~-----~~~~ll~e~l~ 180 (181)
.+++.++++.. +++|++.||+.
T Consensus 203 -~~~~~~l~~~~~~~~~~~~pll~ei~~ 229 (246)
T cd07073 203 -HQFTFDLLIKSHMVSVDFPEMMAEIIS 229 (246)
T ss_pred -HHHHHHHhCccccCccCccHHHHHHHH
Confidence 67788888775 68999999986
No 20
>cd06947 NR_LBD_GR_Like Ligand binding domain of nuclear hormone receptors:glucocorticoid receptor, mineralocorticoid receptor , progesterone receptor, and androgen receptor. The ligand binding domain of GR_like nuclear receptors: This family of NRs includes four distinct, but closely related nuclear hormone receptors: glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), and androgen receptor (AR). These four receptors play key roles in some of the most fundamental physiological functions such as the stress response, metabolism, electrolyte homeostasis, immune function, growth, development, and reproduction. The NRs in this family use multiple signaling pathways and share similar functional mechanisms. The dominant signaling pathway is via direct DNA binding and transcriptional regulation of target genes. Another mechanism is via protein-protein interactions, mainly with other transcription factors such as nuclear factor-kappaB and activator prote
Probab=100.00 E-value=3.7e-41 Score=248.58 Aligned_cols=179 Identities=22% Similarity=0.326 Sum_probs=156.0
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|+||.|+++++.|+++.+..+.+.+.+++|...+.+.....+.......+.++..++
T Consensus 44 ~VeWAK~iPgF~~L~~~DQi~LLk~~w~ElliL~~a~rs~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l 123 (246)
T cd06947 44 VVKWAKALPGFRNLHLDDQMTLIQYSWMSLMVFALGWRSYKHVNSQMLYFAPDLVFNEQRMHQSAMYSLCLGMRQISQEF 123 (246)
T ss_pred HHHHHHcCCCcccCCHHHHHHHHHHhHHHHHHHHHHHhhccCCCCCeEEecCCeeecHHHhhhccHHHHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999999987655555777777776654433344445566788999999
Q ss_pred hhcCCChhhhhhhhhhhhccC-CCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC---CCcchHHHHHhhhhhhhccchhhH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKS-ETRGLKDSLQVENLQDQAQVMLAQHVRTHHP---AQPARFGRLLLMTSQCRNIPSARV 157 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~p-d~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~---~~~~r~~~Ll~~l~~lr~~~~~~~ 157 (181)
+++++|.+||+|||||+|||| |++|+++..+|+++|+++..+|++|+.++++ +.+.||++|+++||.+|+++.+..
T Consensus 124 ~~L~ld~~E~acLKAIvLfn~~d~~gL~~~~~Ve~lqe~i~~AL~~yi~~~~~~~~~~~~Rf~kLLllLp~Lr~i~~~~~ 203 (246)
T cd06947 124 VRLQVTYEEFLCMKVLLLLSTIPKDGLKSQAAFDEMRMNYIKELRKAIVKREKNSSQSWQRFYQLTKLLDSMHDLVKNLL 203 (246)
T ss_pred HhcCCCHHHHHHHHHHHHcCCCccccccCHHHHHHHHHHHHHHHHHHHHHhCCCCcccchHHHHHHHhhhhHHHHHHHHH
Confidence 999999999999999999999 7999999999999999999999999998763 568999999999999999999999
Q ss_pred HHHhhccccC---CccHHHHHHHHhc
Q psy17882 158 QHIFFAKTVA---NTSMEKLLCDMYK 180 (181)
Q Consensus 158 e~l~~~~~~~---~~~~~~ll~e~l~ 180 (181)
|++++..... .+++++++.||++
T Consensus 204 e~~~~~~~~~~~~~v~~~~ll~ei~~ 229 (246)
T cd06947 204 QFCFYTFIQSHALSVEFPEMLVEIIS 229 (246)
T ss_pred HHHHHHHhhcCCCccccHHHHHHHHH
Confidence 9987663322 4789999999985
No 21
>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=5e-41 Score=247.88 Aligned_cols=174 Identities=20% Similarity=0.273 Sum_probs=152.6
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||+.|+|++|.|+++++.|+++.+. .+.+.+++ ...+++.....+....++.+.++..++
T Consensus 64 vVefAK~IPgF~~L~~~DQi~LLk~~~~Ellll~~a~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~f~~~l 140 (241)
T cd06939 64 VVEFAKRIPGFMELCQNDQIVLLKAGSLEVVLVRMSRAFNPS--NNTVLFDG-KYAPIDLFKSLGCDDLISAVFDFAKSL 140 (241)
T ss_pred HHHHHhcCCCcccCCHHHHHHHHHHhHHHHHHHHHHHHhCCC--CCEEEECC-ccccHHHHHHcCcHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999776553 22455543 333433323334456778899999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
+++++|+.||+||+|++||+||++|+.+..+|+++|+++..+|++|+..++ +.+.||++||+++|+||+++.++.|.++
T Consensus 141 ~~L~ld~~E~all~AivL~~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~-~~~~rf~kLL~~Lp~LR~l~~~~~e~l~ 219 (241)
T cd06939 141 CELKLTEDEIALFSALVLISADRPGLQEKRKVEKLQQKIELALRHVLQKNH-GDDTILTKLLAKMPTLRALCSLHMEKLQ 219 (241)
T ss_pred HhcCCCHHHHHHHHHHHHhcCCCcCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999888 8999999999999999999999999999
Q ss_pred hccccCCc----cHHHHHHHHh
Q psy17882 162 FAKTVANT----SMEKLLCDMY 179 (181)
Q Consensus 162 ~~~~~~~~----~~~~ll~e~l 179 (181)
+++..++. +++||+.||+
T Consensus 220 ~~k~~~p~~~~~~~ppL~~Elf 241 (241)
T cd06939 220 KFKQSYPDIVHLEFPPLYKELF 241 (241)
T ss_pred HHhccCCCcccCCCCcHHHhhC
Confidence 99998654 6899999985
No 22
>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=1.3e-40 Score=246.18 Aligned_cols=177 Identities=23% Similarity=0.334 Sum_probs=158.4
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCC-ccchHHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGK-ASQTAADVRVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 80 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++.+. .+.+.+++|..+++.... ........+.+.+++.+
T Consensus 59 ~VefaK~lP~F~~L~~~DQi~LLK~~~~el~iL~~a~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~~~~~ 136 (236)
T cd06954 59 IVDFAKQLPGFLTLTREDQIALLKASTIEVMLLETARRYNPE--SEAITFLKDFPYSRDDFARAGLQVEFINPIFEFSKS 136 (236)
T ss_pred HHHHHcCCCCcccCChHHHHHHHHHhHHHHHHHHHHHHhcCC--CCeEEeeCCccccHHHHHHhcChHHHHHHHHHHHHH
Confidence 589999999999999999999999999999999999887654 447778888665543222 22235667888999999
Q ss_pred hhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
++++++|++||+||+|++|||||++|+++..+|+++|++|..+|++|+..+||+++.||++++++||+||+++..+.|.+
T Consensus 137 l~~L~ld~~E~~lL~aivLf~pd~~gL~~~~~V~~lQ~~~~~aL~~y~~~~~p~~~~rf~klL~~L~~Lr~l~~~~~e~l 216 (236)
T cd06954 137 MRELQLDDAEYALLIAINIFSADRPNVQDHHRVERLQETYVEALHSYIKIKRPSDRLMFPRMLMKLVSLRTLSSVHSEQV 216 (236)
T ss_pred HHHcCCCHHHHHHHHHHhhccCCcccCCCHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccccCCccHHHHHHHHhcC
Q psy17882 161 FFAKTVANTSMEKLLCDMYKN 181 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~l~~ 181 (181)
+++++.+ .++++++.||+.+
T Consensus 217 ~~~k~~~-~~~~~L~~El~~~ 236 (236)
T cd06954 217 FALRLQD-KKLPPLLSEIWDV 236 (236)
T ss_pred HHHHhcC-CCCCcHHHHHhcC
Confidence 9999865 6999999999864
No 23
>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=2.3e-40 Score=243.50 Aligned_cols=177 Identities=21% Similarity=0.288 Sum_probs=150.3
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||+.|+|+||.|+++++.|||+.+.++...+.+++|..++.+.....+..+..+.+.++..++
T Consensus 44 iVeWAK~IPgF~~L~~~DQi~LLk~~w~EllvL~~a~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~~~~~~~e~~~~l 123 (248)
T cd07075 44 VVKWAKVLPGFRNLPLEDQITLIQYSWMCLSSFALSWRSYKHTNSQFLYFAPDLVFNEERMHQSAMYELCQGMHQISLQF 123 (248)
T ss_pred HHHHHHcCCCcccCCHHHHHHHHHHHHHHHHHHHHHHhccCCCCCceEEecCCccccHHHHhhccHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999988755556888888777655433344555667889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCC-CCCCCCHHHHHHHHHHHHHHHHHHHhhcCC---CCcchHHHHHhhhhhhhccchhhH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSE-TRGLKDSLQVENLQDQAQVMLAQHVRTHHP---AQPARFGRLLLMTSQCRNIPSARV 157 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd-~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~---~~~~r~~~Ll~~l~~lr~~~~~~~ 157 (181)
+++++|.+||+|||||+||||| ++|+++...|+++|++|..+|++|+.++++ +.+.||++|+++||.+|.++.+..
T Consensus 124 ~~L~Ld~~E~acLKAIvLfn~d~~~gL~~~~~Ve~lqe~~~~aL~~yi~~~~~~~~~~~~RF~~LLllLp~Lr~i~~k~i 203 (248)
T cd07075 124 VRLQLTFEEYTIMKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMVTKAPNNSGQSWQRFYQLTKLLDSMHDLVSDLL 203 (248)
T ss_pred HHcCCCHHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999997 799999999999999999999999996655 456899999999999999999999
Q ss_pred HHHhhccc-cCCccH--HHHHHHH
Q psy17882 158 QHIFFAKT-VANTSM--EKLLCDM 178 (181)
Q Consensus 158 e~l~~~~~-~~~~~~--~~ll~e~ 178 (181)
|.++|.-. .+.+++ +..+.|+
T Consensus 204 E~lff~~~~~~~~~~~~~~~~~~~ 227 (248)
T cd07075 204 EFCFYTFRESQALKVEFPAMLVEI 227 (248)
T ss_pred HHHHHHHccccceeeehHHHHHHH
Confidence 99876433 355544 4444443
No 24
>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=1.3e-40 Score=247.84 Aligned_cols=175 Identities=23% Similarity=0.314 Sum_probs=150.1
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCc-ccccCCCCCcc--chHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASE-HVAAVPNGKAS--QTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~~~~~~~~~~~ 78 (181)
+|+|||++|||.+|+.+||++|+|++|.|++++..|.+.. .. .+.+..| ...+++..... +.....+.+.++.
T Consensus 79 vVewAK~IPgF~~L~~~DQi~LLk~~~~Ellil~~a~~~~---~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 154 (259)
T cd06932 79 LTEFAKSLPGFRNLDLNDQVTLLKYGVHEVIFTMLASLYN---KD-GLLFPEGNGYVTREFLESLRKPFCDIMEPKFEFA 154 (259)
T ss_pred HHHHHhcCCCcccCChhHHHHHHHHhhHHHHHHHHHHhcC---CC-CeEEeCCCEEeeHHHHHHhcccHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999986642 22 2334333 33333221111 1245667788999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
.+|+++++|++||+||+|++|||||++|+.+..+|+++|+++..+|++|+..+||+.+.||++||++||.||+++.+++|
T Consensus 155 ~~l~~L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~~i~~~~p~~~~rf~kLLl~L~~LRsl~~~~~e 234 (259)
T cd06932 155 EKFNALELTDSELALFCAVIILSPDRPGLINRKPVERIQEHVLQALELQLKKNHPDSPQLFAKLLQKMVDLRQLVTDHVQ 234 (259)
T ss_pred HHHHHcCCCHHHHHHHHHHHHhCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhCCCcccHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcc-ccCCccHHHHHHHHhc
Q psy17882 159 HIFFAK-TVANTSMEKLLCDMYK 180 (181)
Q Consensus 159 ~l~~~~-~~~~~~~~~ll~e~l~ 180 (181)
.++.++ ..+..+++||+.||++
T Consensus 235 ~l~~~k~~~~~~~~~pLl~Ei~~ 257 (259)
T cd06932 235 MVQQIKKTETDASLPPLLQEIYK 257 (259)
T ss_pred HHHHHHccCCCCCCCcHHHHHhh
Confidence 999776 4567899999999986
No 25
>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=1.7e-40 Score=237.35 Aligned_cols=161 Identities=22% Similarity=0.298 Sum_probs=144.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|+||.|+++++.|+++.+. .+.+.+.+|...+++.....+.....+.+.++..++
T Consensus 28 ~V~waK~iPgF~~L~~~DQi~LLk~~w~Ell~L~~a~~~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 105 (189)
T cd06940 28 VVEFAKRIPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFDAK--ERSVTFLSGQKYSVDDLHSMGAGDLLNSMFDFSEKL 105 (189)
T ss_pred HHHHHhcCCCcccCChhhHHHHHHHhhHHHHHHHHHHHhccC--CCeEEecCCcEEcHHHHHHcCcHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999987654 335677777766554333334556778899999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
+++++|.+||+||||++|||||++|+.+..+|+++|+++.++|++|+..++|+++.||++||+++|++|+++..++|.++
T Consensus 106 ~~L~ld~~E~a~LkAivLf~pd~~~L~~~~~Ve~lq~~~~~aL~~~~~~~~p~~~~rf~kLL~~L~~LR~l~~~~~e~l~ 185 (189)
T cd06940 106 NSLQLSDEEMGLFTAVVLVSADRSGLENVNLVEALQETLIRALRTLIAKNHPNEPSIFTKLLLKLPDLRTLNNLHSEKLL 185 (189)
T ss_pred HhcCCCHHHHHHHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hcc
Q psy17882 162 FAK 164 (181)
Q Consensus 162 ~~~ 164 (181)
+++
T Consensus 186 ~~~ 188 (189)
T cd06940 186 AFK 188 (189)
T ss_pred Hhh
Confidence 865
No 26
>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=5.9e-40 Score=237.60 Aligned_cols=165 Identities=58% Similarity=0.948 Sum_probs=143.4
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++.+. +...+..+.+...+. ...........+.+.+++.+|
T Consensus 42 ~VewaK~ip~F~~L~~~DQi~LLk~~w~el~iL~~a~~s~~~-~~~~ll~~~~~~~~~-~~~~~~~~~~~~~i~~~~~~~ 119 (206)
T cd06950 42 AVKWAKSIPAFSTLPFRDQLILLEESWSELFLLGAAQWSLPL-DSCPLLAVPGLSPDN-TEAERTFLSEVRALQETLSRF 119 (206)
T ss_pred HHHHHHhCCccccCCHHHHHHHHHHHHHHHHHHHHHHHhcCC-CcceeecCCcccccc-cchhhHHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999998876 333344444432221 112123334456789999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
+++++|..||+||||+++||||++|+++...|+++|+++..+|++|+..++|+++.||++||+++|.+|.++.++.|+++
T Consensus 120 ~~L~ld~~EyalLKai~L~npd~~~L~~~~~Ve~lq~~~~~aL~~y~~~~~~~~~~Rf~kLLl~Lp~lr~ls~~~~e~l~ 199 (206)
T cd06950 120 RQLRVDATEFACLKAIVLFKPETRGLKDPAQVEALQDQAQLMLNKHIRTRYPTQPARFGKLLLLLPSLRFISSSTIEELF 199 (206)
T ss_pred HHhCCCHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHhhhHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccCC
Q psy17882 162 FAKTVAN 168 (181)
Q Consensus 162 ~~~~~~~ 168 (181)
+++++|.
T Consensus 200 ~~~~~g~ 206 (206)
T cd06950 200 FKKTIGN 206 (206)
T ss_pred ccCcCCC
Confidence 9999884
No 27
>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=6.3e-40 Score=241.92 Aligned_cols=179 Identities=19% Similarity=0.288 Sum_probs=145.6
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCC-CccchHHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNG-KASQTAADVRVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 80 (181)
+|+|||++|||.+|+.+||+.|+|+||.|+++++.++. .+.++....+.+++........ ..+......+.+.++..+
T Consensus 53 iI~wAK~iPgF~~L~~~DQi~LLk~~~~ElliL~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~l~~~~~~ 131 (238)
T cd06933 53 VIGFAKMIPGFRDLTAEDQIALLKSSAIEVIMLRSNQS-FSLDDMSWTCGSPDFKYKVSDVTKAGHSLELLEPLVKFQVG 131 (238)
T ss_pred HHHHHcCCCccccCChHHHHHHHHHhHHHHHHHHHHHh-cCcCCCeeEecCCceeecHHHHHHccCcHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999998764 4432222233322222222111 112234567889999999
Q ss_pred hhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC--CCcchHHHHHhhhhhhhccchhhHH
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHP--AQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~--~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
++++++|.+||+||||++|||||++|+.+.++|+++|+++..+|++|+..++| +++.||++||++||+||+++.++.+
T Consensus 132 l~~L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~~~~f~kLLl~L~~LRsi~~~h~~ 211 (238)
T cd06933 132 LKKLNLHEEEHVLLMAICILSPDRPGVQDHALIEAIQDRLSDTLQTYIRCRHPPPGSRLLYAKMIQKLADLRSLNEEHSK 211 (238)
T ss_pred HHhcCCCHHHHHHHHHHHHHCCCCCCCcchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHhHHHHhhhHHHHH
Confidence 99999999999999999999999999999999999999999999999998887 4556799999999999999999999
Q ss_pred HHhhccccC--CccHHHHHHHHhcC
Q psy17882 159 HIFFAKTVA--NTSMEKLLCDMYKN 181 (181)
Q Consensus 159 ~l~~~~~~~--~~~~~~ll~e~l~~ 181 (181)
.+...++.+ ..+++||+.|++.+
T Consensus 212 ~~~~~~~~~~~~~~~~pL~~Ei~~~ 236 (238)
T cd06933 212 QYRSLSFQPEHSMKLTPLVLEVFGN 236 (238)
T ss_pred HHHHHHhccCCCCCCCcHHHHHhcc
Confidence 876544443 44689999999864
No 28
>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=1.6e-39 Score=238.01 Aligned_cols=173 Identities=18% Similarity=0.266 Sum_probs=141.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|||.+|+.+||++|+|+||.|+++++.++++... .+.+..++......+....+......+.+.++..++
T Consensus 51 iV~wAK~iPgF~~L~~~DQi~LLk~~~~Ellil~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~l 128 (226)
T cd06934 51 IIKFAKDLPYFRSLPIEDQISLLKGATFEICQIRFNTVFNEE--TGTWECGPLTYCIEDAARAGFQQLLLEPLLRFHYTL 128 (226)
T ss_pred HHHHhcCCcccccCCcchHHHHHHHhHHHHHHHHHHHHhccc--CCeEeeCCEeecHHHHHHccchHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999998876553 223443332222111111122234567889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcc--hHHHHHhhhhhhhccchhhHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPA--RFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~--r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
+++++|..||+||||+++||||++|+.+..+|+++|+++..+|++|+..++|+++. ||++||++||.||+++..+.+.
T Consensus 129 ~~L~ld~~E~alLkAivLf~pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~r~~f~kLLl~L~~LRsl~~~~~~~ 208 (226)
T cd06934 129 RKLQLQEEEYVLMQAMSLFSPDRPGVTQHDVIDQLQEKMALTLKSYIDSKRPGPEKRFLYPKILACLTELRTINEEYTKQ 208 (226)
T ss_pred HHcCCCHHHHHHHHHHHHhCCCCcCCcChHHHHHHHHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhHHHhcchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999875544 5999999999999999999988
Q ss_pred HhhccccCCccH-HHHHHHH
Q psy17882 160 IFFAKTVANTSM-EKLLCDM 178 (181)
Q Consensus 160 l~~~~~~~~~~~-~~ll~e~ 178 (181)
+. ++++..|. +|++.|+
T Consensus 209 ~~--~~~~~~~~~~pl~~Ei 226 (226)
T cd06934 209 IL--HIQDIQPMATPLMQEI 226 (226)
T ss_pred HH--HHhccCCCCCchhhcC
Confidence 75 45555564 9999885
No 29
>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=100.00 E-value=9e-39 Score=234.40 Aligned_cols=179 Identities=27% Similarity=0.441 Sum_probs=149.7
Q ss_pred CcccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccc----cCCCCCccc---hHHHHHH
Q psy17882 1 MAVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVA----AVPNGKASQ---TAADVRV 73 (181)
Q Consensus 1 ~~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~---~~~~~~~ 73 (181)
++|+|||++|+|.+|+.+||+.|+|++|.++++++.++++.+.+.. .+..+.+... ..+...... .......
T Consensus 36 ~~v~wak~iP~F~~L~~~DQ~~LLk~~w~el~lL~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 114 (222)
T cd06952 36 LSIHWARSIPAFQALGAETQTSLVRACWPELFTLGLAQCSQQLSLP-TILAAIINHLQTSIQQDKLSADKVKQVMEHINK 114 (222)
T ss_pred HHHHHHHhCCchhhCChHHHHHHHHHHhHHHHHHHHHHHhcccCch-HHhhhhhhhhhhhHhcCCCchhhhHHHHHHHHH
Confidence 3689999999999999999999999999999999999877655332 2222211111 011111111 1122344
Q ss_pred HHHHHHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccc
Q psy17882 74 LNGVLQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIP 153 (181)
Q Consensus 74 ~~~~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~ 153 (181)
+.+++.+++++++|..||++|||++||+||++|+++.+.|+++|+++.++|++|+..++|+++.||++++++||.+|.++
T Consensus 115 l~~~~~~l~~L~ld~~E~~~LkaiiLf~~d~~~l~~~~~v~~lq~~i~~aL~~y~~~~~p~~~~R~~klLl~Lp~Lr~~~ 194 (222)
T cd06952 115 LQEFVNSMQKLDVDDHEYAYLKAIVLFSPDHPGQELRQQIEKLQEKALMELRDYVGKTYPEDEYRLSKLLLRLPPLRSLS 194 (222)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCcCCcCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHhHHhhhcC
Confidence 67899999999999999999999999999999999999999999999999999999889999999999999999999999
Q ss_pred hhhHHHHhhccccCCccHHHHHHHHhc
Q psy17882 154 SARVQHIFFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 154 ~~~~e~l~~~~~~~~~~~~~ll~e~l~ 180 (181)
.++.|++++++++|.+++++++..++.
T Consensus 195 ~~~~e~l~~~~~~g~~~~~~ll~~~~~ 221 (222)
T cd06952 195 PAITEELFFAGLIGNVQIDSVIPYILR 221 (222)
T ss_pred HHHHHHHhcccccCCCcHHHHHHHHHh
Confidence 999999999999999999999999874
No 30
>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=100.00 E-value=3.4e-38 Score=231.51 Aligned_cols=174 Identities=30% Similarity=0.527 Sum_probs=155.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHH-HHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADV-RVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 80 (181)
+|+|||++|+|.+|+.+||+.|+|++|++++++..|+++.+. .+.+++++|..++..... .+..... +.+.+++.+
T Consensus 48 ~vewak~~p~F~~L~~~Dq~~Llk~~~~~~~~l~~a~~s~~~--~~~l~~~~g~~~~~~~~~-~~~~~~~~~~~~~~~~~ 124 (222)
T cd06931 48 LVEWAKYIPAFCELPLDDQVALLRAHAGEHLLLGVARRSMPY--KDILLLGNDLIIPRHCPE-PEISRVANRILDELVLP 124 (222)
T ss_pred HHHHHHhCCccccCChHHHHHHHHHHHHHHHHHHHHHhccCC--CCeeeeCCCccccccccc-chHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999754 446777888776654332 2222333 446789999
Q ss_pred hhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
++++++|++||++|+|+++||||++|+++..+++++|+++..+|.+|+...+++++.||++|+.++|.+|+++....|++
T Consensus 125 l~~L~l~~~E~~lLkaiil~~p~~~~ls~~~~i~~~r~~~~~aL~~y~~~~~~~~~~Rf~~LL~~l~~lr~~~~~~~e~l 204 (222)
T cd06931 125 LRDLNIDDNEYACLKAIVFFDPDAKGLSDPQKIKRLRFQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQSITWQMIEQI 204 (222)
T ss_pred HHHcCCCHHHHHHHHHHHHcCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999988888999999999999999999999999999
Q ss_pred hhccccCCccHHHHHHHH
Q psy17882 161 FFAKTVANTSMEKLLCDM 178 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~ 178 (181)
++++++|.+++++|+.||
T Consensus 205 ~~~~lf~~~~~~~L~~e~ 222 (222)
T cd06931 205 QFARLFGVAKIDNLLQEM 222 (222)
T ss_pred hhhhhcCCCcHHHHHhhC
Confidence 999999999999999986
No 31
>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=1.7e-38 Score=233.82 Aligned_cols=175 Identities=24% Similarity=0.337 Sum_probs=155.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++... .+.+.+++|...+++.....+.....+.+.+++.++
T Consensus 55 iIefaK~lp~F~~L~~~DQi~LLK~~~~el~~L~~a~~~~~~--~~~~~f~~g~~~~~~~~~~~~~~~~~~~l~~~~~~l 132 (231)
T cd06938 55 IVEFAKRLPGFDKLSREDQITLLKACSSEVMMLRVARRYDAK--TDSIVFANNQPYTRDSYRKAGMGDSAEDLFRFCRAM 132 (231)
T ss_pred HHHHHhcCCccccCChhHHHHHHHHHHHHHHHHHHHHHhCCC--CCeEEeeCCEEecHHHHhhcCHHHHHHHHHHHHHHH
Confidence 589999999999999999999999999999999999876553 446778888665554322334456678888999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCC-CcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPA-QPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~-~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
+++++|++||+||+|+++|+ |++|+++...|+++|++|..+|++||..++|. ++.||++||.++++||+++..+.|.+
T Consensus 133 ~~L~ld~~E~~lL~AI~Lf~-d~~~L~~~~~Ve~~Q~~~~~aL~~y~~~~~~~~~~~rf~kLL~~L~~Lr~l~~~~~e~~ 211 (231)
T cd06938 133 CSMKVDNAEYALLTAIVIFS-DRPGLLQPKKVEKIQEIYLEALRAYVDNRRPPSQRVIFAKLLSILTELRTLGNQNSEMC 211 (231)
T ss_pred HHcCCCHHHHHHHHHHHHcc-CCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999997 67899999999999999999999999999986 89999999999999999999999999
Q ss_pred hhccccCCccHHHHHHHHhc
Q psy17882 161 FFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~l~ 180 (181)
++.+++ ..+++|++.|++.
T Consensus 212 ~~~k~~-~~~~~pl~~Ei~d 230 (231)
T cd06938 212 FSLKLK-NRKLPPFLAEIWD 230 (231)
T ss_pred HHHHHh-CCCCCcHHHHHhC
Confidence 999988 6699999999985
No 32
>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=3.3e-38 Score=229.32 Aligned_cols=161 Identities=33% Similarity=0.612 Sum_probs=140.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHH-HHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADV-RVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 80 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++...++ .+.+++|..+..+.....+..... +.+.+++.+
T Consensus 46 ~Iewak~lp~F~~L~~~DQ~~LLk~~~~e~~~l~~a~~s~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 123 (207)
T cd06943 46 LVEWAKRIPHFSELPLDDQVILLRAGWNELLIAAFAHRSIAVKD--GILLATGLHLHRNSAHQAGVGAIFDRILTELVVK 123 (207)
T ss_pred HHHHHHhCchhhccChhhhHHHHHHHHHHHHHHHHHHHccCCCC--eeEecCCceeccchhhhccchHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999987533 466666666554332222323333 446789999
Q ss_pred hhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
++++++|++||+||||+++||||++|+++..+|++.|++|.++|++|+..++|+++.||++||+++|++|.++.+++|++
T Consensus 124 l~~L~ld~~E~~lLkaI~L~~pd~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~L~~lr~l~~~~~e~l 203 (207)
T cd06943 124 MRDLKMDRTELGCLRAIILFNPDVKGLKSRQEVESLREKVYASLEEYCRQKHPEQPGRFAKLLLRLPALRSIGLKCLEHL 203 (207)
T ss_pred HHHcCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHHHHHHhHhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcc
Q psy17882 161 FFAK 164 (181)
Q Consensus 161 ~~~~ 164 (181)
++++
T Consensus 204 ~~~~ 207 (207)
T cd06943 204 FFFK 207 (207)
T ss_pred hhcC
Confidence 9864
No 33
>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=4.8e-38 Score=229.71 Aligned_cols=168 Identities=23% Similarity=0.305 Sum_probs=142.7
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcc-cccCCC-CCccchHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEH-VAAVPN-GKASQTAADVRVLNGVLQ 79 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~ 79 (181)
+|+|||++|||.+|+.+||+.|+|++|.+++++..|+++... ++.|. .+.... .........++.+.+++.
T Consensus 52 ~IefaK~iP~F~~L~~~DQi~LLk~~~~el~iL~~a~~~~~~-------~~~~~~~~~~~~~~~~~~~~e~~~~i~~~~~ 124 (221)
T cd06936 52 LVEFTKGLPGFETLDHEDQIALLKGSAVEAMFLRSAQIYNKK-------LPAGHADLLEERIRSSGISDEFITPMFNFYK 124 (221)
T ss_pred HHHHHhCCCchhhCChhHHHHHHHHhHHHHHHHHHHHHhccc-------ccCCCchhhHHHHHhccchHHHHHHHHHHHH
Confidence 689999999999999999999999999999999988654211 11111 111101 111223466778889999
Q ss_pred HhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 80 RFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 80 ~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
+|+++++|.+||+||+||++||||++|+++...|+++|++|..+|++||..++|+++.||++||+++|+||.++..++|.
T Consensus 125 kl~~L~l~~~E~~lLkaIvL~npd~~gL~~~~~Ve~~Q~~~~~aL~~y~~~~~p~~p~rf~~LL~~L~~LR~l~~~~~e~ 204 (221)
T cd06936 125 SMGELKMTQEEYALLTAITILFPDRPYLKDKEAVEKLQEPLLDLLQKFCKLYHPEDPQHFACLLGRLTELRTLNHHHAEM 204 (221)
T ss_pred HHHHcCCCHHHHHHHHHHHHhcCCCcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccccCCccHHHHHHH
Q psy17882 160 IFFAKTVANTSMEKLLCD 177 (181)
Q Consensus 160 l~~~~~~~~~~~~~ll~e 177 (181)
++++++.. .+++||+.|
T Consensus 205 l~~~k~~~-~~~~pl~~e 221 (221)
T cd06936 205 LMSWKVND-HKFTPLLCE 221 (221)
T ss_pred HHHHHccC-CCCCccccC
Confidence 99998865 578998765
No 34
>KOG4215|consensus
Probab=100.00 E-value=3.2e-37 Score=229.67 Aligned_cols=178 Identities=26% Similarity=0.471 Sum_probs=161.5
Q ss_pred CcccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccch-HHHHHHHHHHHH
Q psy17882 1 MAVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQT-AADVRVLNGVLQ 79 (181)
Q Consensus 1 ~~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 79 (181)
+.|+|||.+|.|.+|+.+||++|||+...+.++|+.++|+...++ .++++++.+..++..+.+.. ....+.+++++.
T Consensus 169 llVEWAK~i~~F~el~l~DqvaLLk~~a~~hllLg~a~RSm~l~~--v~ll~N~~v~~~~~~~~~eis~v~~RIiDElv~ 246 (432)
T KOG4215|consen 169 LLVEWAKYIPPFCELPLDDQVALLKAHAGQHLLLGAAFRSMHLKD--VCLLNNTYVLHRHAPDLPEISRVAPRIIDELVN 246 (432)
T ss_pred HHHHHHHhccchhcCCchhHHHHHHccchhhhhhhhhhccccccc--eEEecCceeeccCCCChHHHHHHHHHHHHHHhh
Confidence 368999999999999999999999999999999999999987633 78888888877655444332 333578999999
Q ss_pred HhhhcCCChhhhhhhhhhhhccCCCCCCCCHH--HHHHHHHHHHHHHHHHHhhcCC-CCcchHHHHHhhhhhhhccchhh
Q psy17882 80 RFRLVGVDPAEFACLKAVVLFKSETRGLKDSL--QVENLQDQAQVMLAQHVRTHHP-AQPARFGRLLLMTSQCRNIPSAR 156 (181)
Q Consensus 80 ~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~--~i~~~~~~~~~~L~~~~~~~~~-~~~~r~~~Ll~~l~~lr~~~~~~ 156 (181)
+||++++|+.||+|||||++|+|+..|++++. .|+++|++++..|.+|+..+.+ |.+.||++||+++|.|+++++.+
T Consensus 247 Pmr~L~md~~Ey~cLKAi~FfdP~akGis~~s~~~I~~aR~~vl~sLe~yi~d~q~~d~~~R~g~LLLllPsLqsIt~ql 326 (432)
T KOG4215|consen 247 PMRRLQMDEIEYVCLKAIAFFDPDAKGLSDPSQIRIREARNRVLKSLEAYISDRQPYDAPGRFGNLLLLLPSLQSITQQL 326 (432)
T ss_pred HHHHhccchHHHHHHHHHHhcCccccccCCchHhHHHHHHHHHHHHHHHHHhhcCccccccchhhHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999886 9999999999999999998885 89999999999999999999999
Q ss_pred HHHHhhccccCCccHHHHHHHHhc
Q psy17882 157 VQHIFFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 157 ~e~l~~~~~~~~~~~~~ll~e~l~ 180 (181)
+|..++.++||.+.+|+++.|++.
T Consensus 327 iE~iqlaklFGla~vDsll~e~~l 350 (432)
T KOG4215|consen 327 IEQIQLAKLFGLAKVDSLLQEFLL 350 (432)
T ss_pred HHHHHHHHHhhhhhHhHHHHHhhc
Confidence 999999999999999999999874
No 35
>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=5.6e-37 Score=217.40 Aligned_cols=156 Identities=25% Similarity=0.353 Sum_probs=139.0
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|++|+.+||+.|+|++|.++++++.|+++.+. .+.+.+++|...+.......+.....+.+.+++.++
T Consensus 18 ~v~~ak~ip~F~~L~~~Dq~~Llk~~~~~l~~l~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 95 (174)
T cd06929 18 VVEFAKRIPGFRELSQEDQIALLKGGCFEILLLRSATLYDPE--KNSLTFGDGKGNSRDVLLNGGFGEFIEPLFEFAEKM 95 (174)
T ss_pred HHhhccCCcCcccCChhHHHHHHHhcHHHHHHHHHHHHhccc--CCeEEecCCceecHHHHHHcccHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999876543 446777777665443223334566778888999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
+++++|.+||+++||+++||||++|+++..+|++.|++|.++|++|+..++++++.||++|+.++|++|.++..+.|.
T Consensus 96 ~~L~l~~~E~~llkai~l~~pd~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~Ll~~l~~lr~l~~~~~e~ 173 (174)
T cd06929 96 NKLQLDDNEYALLTAIVLFSPDRPGLQDVDTVEKLQERLLEALQRYLKVNHPDAPQMFAKLLKKLTELRTLNELHAEL 173 (174)
T ss_pred HHcCCCHHHHHHHHHHHHhCCCcccCcCHHHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHhHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999998875
No 36
>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=100.00 E-value=3.3e-36 Score=211.71 Aligned_cols=151 Identities=42% Similarity=0.656 Sum_probs=136.7
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||+.|+|++|.+++++..|+++......+.+.+++|..++.......+.....+.+.+++.++
T Consensus 15 ~ie~ak~~p~F~~L~~~Dq~~Llk~~~~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 94 (165)
T cd06930 15 TVDWAKNLPAFRNLPLDDQLTLLQNSWAELLLLGLAQRSVHFELSELLLPSPLLVILTEREALLGLAELVQRLQELLSKL 94 (165)
T ss_pred HHHHHHcCCccccCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCcceeecCCcccchhhhhhhhHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999987755667888888777655433334556678889999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhcc
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNI 152 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~ 152 (181)
+++++|++||++|||+++|+||++|+++...|++.|++|.++|++|+..++++++.||++|+.++|.+|++
T Consensus 95 ~~L~l~~~E~~lLkai~l~~p~~~~l~~~~~v~~~q~~~~~aL~~~~~~~~~~~~~R~~~ll~~l~~lr~~ 165 (165)
T cd06930 95 RSLQLDPKEYACLKAIVLFNPDLPGLKNQQQVEELQEKAQQALQEYIRKRYPQQPARFAKLLLRLPELRSI 165 (165)
T ss_pred HHcCCCHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHhhccC
Confidence 99999999999999999999999999999999999999999999999998999999999999999999864
No 37
>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=100.00 E-value=4.6e-36 Score=220.59 Aligned_cols=179 Identities=20% Similarity=0.309 Sum_probs=144.5
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||++|+|.+|+.+||++|+|++|.++++++.||++.+...++.+.+++|..++.......+..+....+.++..++
T Consensus 44 vVeWAK~lPgF~~L~~~DQi~LLk~sw~ellvL~~a~rS~~~~~~~~l~fa~d~~~~~~~~~~~~~~~~~~~m~e~~~~~ 123 (248)
T cd07074 44 VVKWSKSLPGFRNLHIDDQITLIQYSWMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEF 123 (248)
T ss_pred HHHHHhcCCCcccCCHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCeEEecCCcccchhhhhhccHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999987644556777777776654433223334456677899999
Q ss_pred hhcCCChhhhhhhhhhhhccC-CCCCCCCHHHHHHHHHHHHHHHHHHHhhcC---CCCcchHHHHHhhhhhhhccchhhH
Q psy17882 82 RLVGVDPAEFACLKAVVLFKS-ETRGLKDSLQVENLQDQAQVMLAQHVRTHH---PAQPARFGRLLLMTSQCRNIPSARV 157 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~p-d~~~l~~~~~i~~~~~~~~~~L~~~~~~~~---~~~~~r~~~Ll~~l~~lr~~~~~~~ 157 (181)
+++++|.+||+|||||+|||| |++|+++..+|+++|++|..+|.+|+..++ ++++.||++|+.+++.++.+.....
T Consensus 124 ~~L~ld~~Ey~cLKAIvLfnp~d~~gL~~q~~Ve~lR~~y~~aL~~yi~~~~~~~~~~~~RF~~Ll~ll~~l~~~~k~~~ 203 (248)
T cd07074 124 VKLQVSQEEFLCMKALLLLNTIPLEGLRSQTQFDEMRSSYIRELIKAIGLRQKGVVASSQRFYQLTKLMDNMHDLVKQLH 203 (248)
T ss_pred HHcCCCHHHHHHHHHHHHCCCCcCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCccCcHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999 899999999999999999999999976553 3789999999999999995555444
Q ss_pred HHHhhcccc---CCccHHHHHHHHhc
Q psy17882 158 QHIFFAKTV---ANTSMEKLLCDMYK 180 (181)
Q Consensus 158 e~l~~~~~~---~~~~~~~ll~e~l~ 180 (181)
...+..... -.+.++..+.|++.
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 229 (248)
T cd07074 204 LYCLNTFIQSRALSVEFPEMMSEVIA 229 (248)
T ss_pred HHHHHHHHhhhhheeecHHHHHHHHH
Confidence 443322111 13567788777753
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=100.00 E-value=5.3e-36 Score=217.92 Aligned_cols=159 Identities=26% Similarity=0.429 Sum_probs=131.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCC--C-CccchHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPN--G-KASQTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~~ 78 (181)
+|+|||++|+|.+|+.+||+.|+|++|.++++++.|+++.+.+. ..+....+....... . .........+.+.+++
T Consensus 43 ~I~waK~lp~F~~L~~~DQi~LLk~~w~el~iL~~a~~s~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~ 121 (213)
T cd06953 43 QIQWTKKLPFFTELSIKDHTHLLTTKWAELILLSTITVASLQNL-GLLQDCLSKYLPSEDELERFGDEGGEVVERLTYLL 121 (213)
T ss_pred HHHHHhcCCchhhCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-hHHHHhhhccCCchhhHHHHHhhHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999976421 111111111111100 0 0112345567788999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
.+++++++|.+||+|||||++||||++|+++..+|+++|++|..+|++||..++|+++.||++||+++|.+|+++.+..|
T Consensus 122 ~~l~~L~ld~eEy~lLkAIvLfnpd~~gLs~~~~Ve~lQ~~~~~aL~~y~~~~~~~~p~Rf~~LL~~L~~Lr~l~~~~~e 201 (213)
T cd06953 122 AKFRQLKVSNEEYVCLKVINFLNQDIDGLTNASQLESLQKRYWYVLQDFTELNYPNQPNRFSDLLSCLPEIRAAAGKLLH 201 (213)
T ss_pred HHHHHcCCCHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred HHh
Q psy17882 159 HIF 161 (181)
Q Consensus 159 ~l~ 161 (181)
.-.
T Consensus 202 ~~~ 204 (213)
T cd06953 202 SKL 204 (213)
T ss_pred HHH
Confidence 843
No 39
>cd06942 NR_LBD_Sex_1_like The ligand binding domain of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein. The ligand binding domain (LBD) of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein like: Sex-1 protein of C. elegans is a transcription factor belonging to the nuclear receptor superfamily. Sex-1 plays pivotal role in sex fate of C. elegans by regulating the transcription of the sex-determination gene xol-1, which specifies male (XO) fate when active and hermaphrodite (XX) fate when inactive. The Sex-1 protein directly represses xol-1 transcription by binding to its promoter. However, the active ligand for Sex-1 protein has not yet been identified. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Sex-1 like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=100.00 E-value=2.9e-34 Score=205.84 Aligned_cols=157 Identities=15% Similarity=0.112 Sum_probs=133.1
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCC-CccchHHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNG-KASQTAADVRVLNGVLQR 80 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 80 (181)
+|+|||++|||.+|+.+||+.|+|++|.++++++.++++.+. ...+++|........ ...+.....+.+.+++.+
T Consensus 18 ~IefaK~iPgF~~L~~~DQi~LLk~~~~e~~ll~~~~~~~~~----~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (191)
T cd06942 18 IVQFVKSIPGFNQLSGEDRAQLLKGNMFPLYLLRLSRDYNNE----GTVLCDFRPVEFASLLSQLLHGKLIDEMLQFANK 93 (191)
T ss_pred HHHHHhcCCCcccCChhHHHHHHHHHHHHHHHHHHHHHhCcC----CeEEeCCccccHHHHHHhcchHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999887655432 233444433322111 111224556668899999
Q ss_pred hhhcCCChhhhhhhhhhhhccCC--CCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 81 FRLVGVDPAEFACLKAVVLFKSE--TRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 81 l~~l~l~~~E~~ll~ai~l~~pd--~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
++++++|++||+||+|+++|+|| ++++++..+|+++|+.+.++|.+||..+||+.+.||++|+.+++.||.++..+.+
T Consensus 94 l~~L~l~~~E~~lL~Aivl~~pd~~~~~l~~~~~v~~~q~~l~~~L~~~~~~~~~~~~~rf~kLL~~l~~Lr~~~~~~~~ 173 (191)
T cd06942 94 ILTLNLTNAELALLCAAELLQPDSLGIQLEETAKSNLQLSVLFQFLKSVLFKDGEDTEQRLQKLFDILNRLRNMNKEHQN 173 (191)
T ss_pred HHHcCCCHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999 9999999999999999999999999999999999999999999999999999999
Q ss_pred HHhh
Q psy17882 159 HIFF 162 (181)
Q Consensus 159 ~l~~ 162 (181)
.+..
T Consensus 174 ~l~~ 177 (191)
T cd06942 174 ILAD 177 (191)
T ss_pred HHHc
Confidence 7764
No 40
>cd06157 NR_LBD The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators. Ligand-binding domain (LBD) of nuclear receptor (NR): Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions in metazoans, from development, reproduction, to homeostasis and metabolism. The superfamily contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. The members of the family include receptors of steroids, thyroid hormone, retinoids, cholesterol by-products, lipids and heme. With few exceptions, NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.96 E-value=7.6e-29 Score=174.13 Aligned_cols=151 Identities=32% Similarity=0.508 Sum_probs=125.9
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCccc--ccCCCCCccchHHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHV--AAVPNGKASQTAADVRVLNGVLQ 79 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 79 (181)
+++|||++|+|.+|+.+||+.|+|++|.++++++.++++...........+++.. ...............+.+.+++.
T Consensus 14 ~i~~~~~~~~f~~L~~~dq~~Llk~~~~~~~~L~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (168)
T cd06157 14 IVEWAKSIPGFRELPLEDQIVLLKSFWLELLVLDLAYRSYKNGLSLLLAPNGGHTDDDKEDEMKLLLKGELIRLLFEFVN 93 (168)
T ss_pred HHHHHHcCCchhcCChHHHHHHHHHHhHHHHHHHHHHHHHhcCCCcEEeecccccccCchHHHHHhHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999998774433333333321 11111122233455678899999
Q ss_pred HhhhcCCChhhhhhhhhhhhccCCCC-CCCCHHHHHHHHHHHHHHHHHHHhhcCC-CCcchHHHHHhhhhhhhcc
Q psy17882 80 RFRLVGVDPAEFACLKAVVLFKSETR-GLKDSLQVENLQDQAQVMLAQHVRTHHP-AQPARFGRLLLMTSQCRNI 152 (181)
Q Consensus 80 ~l~~l~l~~~E~~ll~ai~l~~pd~~-~l~~~~~i~~~~~~~~~~L~~~~~~~~~-~~~~r~~~Ll~~l~~lr~~ 152 (181)
+++++++|++|+++++|+++|+|+.+ +..+.+.+++.|+++..+|+.|+..+++ +++.||++|+.+++.++++
T Consensus 94 ~~~~L~l~~~E~~~l~ai~l~~~~~~~s~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll~~l~~l~~~ 168 (168)
T cd06157 94 PLRALKLDDEEYALLKAIVLFSPDRKESLEDRKIVEELQERLLEALQDYLRKNYPEEAPSRFAKLLLLLPSLRKL 168 (168)
T ss_pred HHHHhCCCHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHhCCccchhHHHHHHHhchhcccC
Confidence 99999999999999999999999998 6778899999999999999999998887 8999999999999999864
No 41
>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=99.96 E-value=2.3e-29 Score=181.97 Aligned_cols=164 Identities=30% Similarity=0.525 Sum_probs=139.0
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCC---ccchHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGK---ASQTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~ 78 (181)
+++|||++|+|.+|+.+||..|+|++|.+++++..|+++.. .+.+.+.+++|...+..... ........+.+.+++
T Consensus 33 ~v~~~k~~p~f~~L~~~dk~~Llk~~~~~~~~l~~~~~s~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 111 (203)
T PF00104_consen 33 IVDWAKSFPEFSELSMEDKIALLKSSWFELFILELAYRSYQ-CNQDQLMFPNGTFIDKDSFDDFITGIFSEFIQYMNEVL 111 (203)
T ss_dssp HHHHHHTSTTGGGS-HHHHHHHHHHHHHHHHHHHHHHHEEH-TTTTEEEETTTEEEEHHHHHHTSTTTHHHHHHHHHHHH
T ss_pred HHHHHHhCcCHHhhhhhhhhhHHhhhcccccchhhhhhhcc-cccccccccccccccccccccccccccccchhHHHHHH
Confidence 58999999999999999999999999999999999999984 35557788887776442221 123456667899999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCC-CHHH-HHHHHHHHHHHHHHHH-hhcCC-CCcchHHHHHhhhhhhhccch
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLK-DSLQ-VENLQDQAQVMLAQHV-RTHHP-AQPARFGRLLLMTSQCRNIPS 154 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~-~~~~-i~~~~~~~~~~L~~~~-~~~~~-~~~~r~~~Ll~~l~~lr~~~~ 154 (181)
.+++++++|++||++++|+++|+|+.++++ +..+ +++.|+++.++|+.|+ ...++ +.+.|+++|+.++|.++.++.
T Consensus 112 ~~~~~l~l~~~E~~~l~~l~l~~~~~~~~~~~~~~~~~~~r~~~~~~L~~y~~~~~~~~~~~~R~~~ll~ll~~l~~~~~ 191 (203)
T PF00104_consen 112 RPFRRLKLDEEEFALLKALILFNPDYPGLSEETREIVEELRDRIIQALHSYYNQSKGPEDYAQRFGKLLLLLPSLRKISE 191 (203)
T ss_dssp HHHHHTT-BHHHHHHHHHHHHSSTTSTTHS-SHHHHHHHHHHHHHHHHHHHHHHHHSTTTHTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhhhhHHHHHHHHHhhhcccccccccchhHHHHHHHHHHHHHHHHHHhccCCCccHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999998 6655 9999999999999999 66666 458999999999999999999
Q ss_pred hhHHHHhhcccc
Q psy17882 155 ARVQHIFFAKTV 166 (181)
Q Consensus 155 ~~~e~l~~~~~~ 166 (181)
.+.|++++..+|
T Consensus 192 ~~~e~~~~~~lf 203 (203)
T PF00104_consen 192 KHIENMFLSDLF 203 (203)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHhhHHhhC
Confidence 999998876543
No 42
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=99.96 E-value=7.2e-29 Score=173.44 Aligned_cols=150 Identities=30% Similarity=0.449 Sum_probs=127.0
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCC---ccchHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGK---ASQTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~ 78 (181)
+++|||++|+|.+|+.+||..|+|++|.+++++..++++...... .+..+++...+..... ........+.+.+++
T Consensus 8 ~~~~~~~~~~f~~L~~~dq~~Llk~~~~~~~~l~~~~~s~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (163)
T smart00430 8 AVEWAKTFPFFRELSQEDKLILLKHFWFEWLLLESAYRSAKMKKS-LLLLPDGTFIDNDKVDLLRKLFSPFLDRILQELV 86 (163)
T ss_pred HHHHHHhChhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-EEEeCCCcccCcchhHHHHHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999876332 4445555444332211 122344557789999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCH--HHHHHHHHHHHHHHHHHHhhcCC-CCcchHHHHHhhhhhhhcc
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDS--LQVENLQDQAQVMLAQHVRTHHP-AQPARFGRLLLMTSQCRNI 152 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~--~~i~~~~~~~~~~L~~~~~~~~~-~~~~r~~~Ll~~l~~lr~~ 152 (181)
.+++++++|++|+++++|+++|+|+.+++++. +.+++.|+++.++|++|+..+++ +++.||++|+.+++.++++
T Consensus 87 ~~l~~L~l~~~E~~~l~ai~l~~~~~~~l~~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll~~l~~i~~~ 163 (163)
T smart00430 87 KPLRELKLDDEEYALLKAILLFNPAGPGLSEEGKEILEKLQEKLANALHDYYLKNYPMNYPGRFGELLLILNAIQKI 163 (163)
T ss_pred HHHHHcCCCHHHHHHHHHHHHcChhhhhhChHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHHHHHHHHHhhcC
Confidence 99999999999999999999999999999988 89999999999999999998887 7789999999999999863
No 43
>KOG4218|consensus
Probab=99.94 E-value=4.6e-27 Score=174.39 Aligned_cols=179 Identities=24% Similarity=0.336 Sum_probs=163.6
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCc---cchHHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKA---SQTAADVRVLNGVL 78 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 78 (181)
+|+|||+--.|++|+++||++|+++||.++++++..++.+..++++.+...+|..++...... .....++....+++
T Consensus 290 IV~WAr~~~~F~eL~vdDQM~LLQncWselli~DhiyrqV~hgkegsi~lvtGqeV~~~~vA~qags~l~tlvs~aqelV 369 (475)
T KOG4218|consen 290 IVIWARNDQLFSELSVDDQMILLQNCWSELLIVDHIYRQVHHGKEGSIKLVTGQEVPVGLVALQAGSLLQTLVSSAQELV 369 (475)
T ss_pred HHHHHhhhhHHHhcchhhHHHHHHHhhHHHHHHHHHHHHHhcCcccceEEecCCcccchhHhhhhhhHHHHHHHHHHHHH
Confidence 589999999999999999999999999999999999999998888888888887776532221 12356677889999
Q ss_pred HHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHH
Q psy17882 79 QRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQ 158 (181)
Q Consensus 79 ~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e 158 (181)
.++|.+++|..||+|||.++||+-|...+++-+.|+.++++...+|-+|-...+|+-.+.|+++++.|+.+|.++....|
T Consensus 370 ~~Lr~lqfd~~efvclkFl~LFsld~kfLenf~lv~~~qe~~naaLldyt~c~yp~~~~kF~qllL~L~eiRa~smqa~e 449 (475)
T KOG4218|consen 370 IRLRNLQFDNFEFVCLKFLALFSLDMKFLENFELVRRLQEDSNAALLDYTSCCYPNWEQKFPQLLLVLEEIRATSMQAAE 449 (475)
T ss_pred HHHHhcCCccchhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhccCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccCCccHHHHHHHHhc
Q psy17882 159 HIFFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 159 ~l~~~~~~~~~~~~~ll~e~l~ 180 (181)
.+...++-+++|-.+++.||+.
T Consensus 450 yly~khl~~~~p~nnllieml~ 471 (475)
T KOG4218|consen 450 YLYTKHLQVPAPQNNLLIEMLT 471 (475)
T ss_pred HHHHHHhCCCccccchHHHHhh
Confidence 9999999999999999999974
No 44
>KOG4216|consensus
Probab=99.90 E-value=5.1e-24 Score=160.42 Aligned_cols=175 Identities=18% Similarity=0.213 Sum_probs=151.7
Q ss_pred cccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHh
Q psy17882 2 AVKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRF 81 (181)
Q Consensus 2 ~v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (181)
+|+|||+++||.+|+++||+.|||.+.+|+.++.++..+...++ .+.+.+. +.........+..+++....++...+
T Consensus 298 vVEFAK~I~GFM~L~Q~dQI~LLKaGsfEv~lvrm~r~~~v~~n--tV~~e~~-~~g~~~f~a~~~~elis~vf~~~ksL 374 (479)
T KOG4216|consen 298 VVEFAKRIDGFMELCQNDQIVLLKAGSFEVVLVRMCRAFDVDNN--TVYFEGK-YAGPEVFYALGCEELISRVFEFGKSL 374 (479)
T ss_pred HHHHHHhhhHhhccCccceEEeeecCceeeeHHHHHHhhccccc--ceeeccc-ccchhheeccChHHHHHHHHhhhHHH
Confidence 58999999999999999999999999999999999877765422 4555443 33344555666777889999999999
Q ss_pred hhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 82 RLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 82 ~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
..|++++.|.+++.|++|.+|+++|+.+..+|+++++...-++++.+.++|.+.. -+.+|+...|.+|.++..|.|.|+
T Consensus 375 ~~Lq~te~EiAL~~alVL~~~~r~gl~e~~ki~~lq~~~~~a~qhvl~knh~~~~-~l~kl~~k~~~~r~~~~lH~E~Lq 453 (479)
T KOG4216|consen 375 CSLQLTEDEIALFSALVLMSADRSGLQEKVKIEKLQQKIQLALQHVLQKNHREDG-ILTKLICKVSTLRALCGLHTEKLQ 453 (479)
T ss_pred HhhccCcHHHHHHHHHHhhCCccccccchHHHHHHHHHHHHHHHHHHHhcCChhh-hHHHhhcccchHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999988875332 699999999999999999999999
Q ss_pred hccccCCcc---HHHHHHHHhc
Q psy17882 162 FAKTVANTS---MEKLLCDMYK 180 (181)
Q Consensus 162 ~~~~~~~~~---~~~ll~e~l~ 180 (181)
.++..++.. +++|..|+|-
T Consensus 454 ~Fk~~hP~iv~~fP~LYKELFt 475 (479)
T KOG4216|consen 454 AFKASHPDIVRHFPPLYKELFT 475 (479)
T ss_pred HHhhcCchHHhhccHHHHHHhc
Confidence 888888754 5899999874
No 45
>KOG4217|consensus
Probab=99.86 E-value=1.3e-21 Score=150.74 Aligned_cols=173 Identities=29% Similarity=0.415 Sum_probs=154.0
Q ss_pred ccccccCCcCCCCChhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccccCCcccccCCCCCccchHHHHHHHHHHHHHhh
Q psy17882 3 VKWAKNLPSFAALPFRDQVILLEESWSELFLLNAIQWSLPLLESSPLFNASEHVAAVPNGKASQTAADVRVLNGVLQRFR 82 (181)
Q Consensus 3 v~wak~~p~f~~L~~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 82 (181)
-.||.++|+|.+|+.+||-.|+..+++|+++|+.|+|+.+. +++++|.+|.++.+. ...-+.+..++.+.+|...+.
T Consensus 425 rk~aekiPgf~el~paDq~lLlesaflelfvlRlAyRs~~~--e~kliFcsG~vlhr~-qC~rgfgewidsi~~FS~~l~ 501 (605)
T KOG4217|consen 425 RKWAEKIPGFAELPPADQDLLLESAFLELFVLRLAYRSNPS--EDKLIFCSGLVLHRL-QCLRGFGEWIDSIREFSRSLH 501 (605)
T ss_pred HHHHHhCcCcccCChhhHHHHHHHHHHHHHHHHHHHhcCCC--CCeEEEecchhhhHH-HHHHHHHHHHHHHHHHHHHhh
Confidence 36999999999999999999999999999999999999765 559999999887662 222344577899999999999
Q ss_pred hcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc--CCCCcchHHHHHhhhhhhhccchhhHHHH
Q psy17882 83 LVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTH--HPAQPARFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 83 ~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~--~~~~~~r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
.+++|..-|+||.|+.+. .++.||.++.+|+++|++++.+|.+++.-. ....+.++.+++..+++||.++..+...+
T Consensus 502 ~l~idi~AfacL~aLa~i-TErhGL~epkrVeelqnkIi~~LKDHvt~~~~~~~k~~~lSrllgklpeLr~l~tqgLqri 580 (605)
T KOG4217|consen 502 SLNIDISAFACLSALALI-TERHGLKEPKRVEELQNKIINCLKDHVTGSAGKLAKPVYLSRLLGKLPELRTLCTQGLQRI 580 (605)
T ss_pred hchhhHHHHHHHHHHHhh-hhhhcCCCcchHHHHHHHHHHHHHHHhhhcccccccchHHHHHhhhhHHHHHHHHHhhhhh
Confidence 999999999999999986 588999999999999999999999999543 34677899999999999999999999999
Q ss_pred hhccccCCccHHHHHHHHh
Q psy17882 161 FFAKTVANTSMEKLLCDMY 179 (181)
Q Consensus 161 ~~~~~~~~~~~~~ll~e~l 179 (181)
++.++...++.+.++..|+
T Consensus 581 fyLklEdlvp~p~iidklf 599 (605)
T KOG4217|consen 581 FYLKLEDLVPPPAIIDKLF 599 (605)
T ss_pred hcccHhhccCchhhhhhhh
Confidence 9999999999988887765
No 46
>KOG4846|consensus
Probab=90.14 E-value=0.054 Score=42.88 Aligned_cols=149 Identities=9% Similarity=-0.036 Sum_probs=96.0
Q ss_pred cccccccCCcCCCCC-hhhHHHHHHhhhhHHHHHHHHHHhcccCCCCccc---cCCcccccCCCCCccchHHHHHHHHHH
Q psy17882 2 AVKWAKNLPSFAALP-FRDQVILLEESWSELFLLNAIQWSLPLLESSPLF---NASEHVAAVPNGKASQTAADVRVLNGV 77 (181)
Q Consensus 2 ~v~wak~~p~f~~L~-~~dq~~Llk~~~~~~~il~~a~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (181)
++.||+.+++|..++ ..++..+|+.+-........+...... . ++. ...-.++.. .......++....+..+
T Consensus 378 ~~~fa~hi~~~~~~~~~~~~~~~L~~~q~l~t~~~f~t~f~~~-~--Q~~~mfl~~~~~~~Q-~~~~~~~gd~~~a~~~~ 453 (538)
T KOG4846|consen 378 MLAFANHIITIGCTDGDIALFIVLILCQPLTTEQQFSTNFKSQ-L--QLLEMFLFYKKVLFQ-KMTCRIDGDTYKALMKC 453 (538)
T ss_pred HHHhhhccCCccccccchhHHHHHhccchhHHHHHHHHHHHHH-H--HHHHHHHHHHHHHHH-HHHhhhchHHHHHHHHh
Confidence 468999999999998 799999999988777666655422111 0 111 000000000 11122334667788889
Q ss_pred HHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhH
Q psy17882 78 LQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARV 157 (181)
Q Consensus 78 ~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~ 157 (181)
..++..|...+++. +.++-+-++.+.+...-|+.+|++...++. ...+.|-...++.......+.++.+...+.
T Consensus 454 ~~~ln~L~~~~~~~----~~~l~s~~s~~~e~~~sVe~lqe~~lr~~~--~~~n~pl~~s~~~~~~~~~~d~~sl~~lhs 527 (538)
T KOG4846|consen 454 IHELNRLNELHKQQ----LNILRSNLSFLNEPPLSVEMLQESTLRLPV--NHNNQPLNQSLPHVRHQVKRDVQSLENLHS 527 (538)
T ss_pred hcchhhcCchHHHH----HHHHHHhhhhhccCCchHHHHHhhhhhccc--cccCCcccccCcchhhccCCcCCcccchhc
Confidence 99999999888887 344444455566777889999998877772 223344445567777778888888777666
Q ss_pred HHH
Q psy17882 158 QHI 160 (181)
Q Consensus 158 e~l 160 (181)
+.+
T Consensus 528 ~kv 530 (538)
T KOG4846|consen 528 MKV 530 (538)
T ss_pred ccc
Confidence 554
No 47
>PF10330 Stb3: Putative Sin3 binding protein; InterPro: IPR018818 This entry represents Sin3 binding proteins conserved in fungi. Sin3p does not bind DNA directly even though the yeast SIN3 gene functions as a transcriptional repressor. Sin3p is part of a large multiprotein complex []. Stb3 appears to bind directly to ribosomal RNA Processing Elements (RRPE) although there are no obvious domains which would accord with this, implying that Stb3 may be a novel RNA-binding protein [].
Probab=63.61 E-value=8 Score=24.10 Aligned_cols=22 Identities=23% Similarity=0.369 Sum_probs=19.1
Q ss_pred cccCCcCCCCChhhHHHHHHhh
Q psy17882 6 AKNLPSFAALPFRDQVILLEES 27 (181)
Q Consensus 6 ak~~p~f~~L~~~dq~~Llk~~ 27 (181)
++.+|+|+.|+..-|..|+-++
T Consensus 31 t~~vPgF~~ls~sKqRRLi~~A 52 (92)
T PF10330_consen 31 TTSVPGFSDLSPSKQRRLIMAA 52 (92)
T ss_pred hccCCCcccCCHHHHHHHHHHH
Confidence 4789999999999999988764
No 48
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=59.55 E-value=9.2 Score=23.13 Aligned_cols=20 Identities=20% Similarity=0.265 Sum_probs=16.3
Q ss_pred cccCCcCCCCChhhHHHHHH
Q psy17882 6 AKNLPSFAALPFRDQVILLE 25 (181)
Q Consensus 6 ak~~p~f~~L~~~dq~~Llk 25 (181)
+..++||.+|+.+||..+.+
T Consensus 60 ~~~i~G~~~L~~~Dq~~i~~ 79 (82)
T PF00645_consen 60 IEEIKGFDELKPEDQEKIRK 79 (82)
T ss_dssp GGGCETCCCS-HHHHHHHHH
T ss_pred HHHCCChHHCCHHHHHHHHH
Confidence 56789999999999988765
No 49
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=56.74 E-value=45 Score=21.19 Aligned_cols=54 Identities=13% Similarity=0.137 Sum_probs=35.9
Q ss_pred HHHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy17882 77 VLQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTH 131 (181)
Q Consensus 77 ~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~ 131 (181)
+...|..-+=+..+.+==+.=+++-.|+.+++ ++.++.+++.++.++.+|+...
T Consensus 6 ~l~~lf~~k~~Sa~~AK~RLk~iL~~dR~~~s-p~~l~~mk~dIl~VIskYv~Id 59 (97)
T PRK13988 6 LLEKLFGRQPASASTARERLQLVLAHDRADLS-PELLEQMRKEILEVVARYVEID 59 (97)
T ss_pred HHHHHhcCCCCcHHHHHHHHHHHHHHHccCCC-HHHHHHHHHHHHHHHHHHeeeC
Confidence 44444332333445555444555556777655 7899999999999999998754
No 50
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=47.43 E-value=30 Score=23.49 Aligned_cols=66 Identities=15% Similarity=0.211 Sum_probs=46.8
Q ss_pred hhhhccCCCCCCCC-HHHHHHHHHHHHHHHHHHHhhcCC---CCcchHHHHHhhhhhhhccchhhHHHHh
Q psy17882 96 AVVLFKSETRGLKD-SLQVENLQDQAQVMLAQHVRTHHP---AQPARFGRLLLMTSQCRNIPSARVQHIF 161 (181)
Q Consensus 96 ai~l~~pd~~~l~~-~~~i~~~~~~~~~~L~~~~~~~~~---~~~~r~~~Ll~~l~~lr~~~~~~~e~l~ 161 (181)
|+-++++..-|+.. .+..++.++++-.+|..++...|. ..-..|+.++..+..-+.-.....+.+.
T Consensus 27 al~~ld~ss~g~~~~~~~f~~~~~~~~~~L~~vV~eh~q~Fn~sI~sy~~i~~~i~~sq~~i~~lK~~L~ 96 (142)
T PF04048_consen 27 ALSLLDDSSVGRAHRYQEFEELKKRIEKALQEVVNEHYQGFNSSIGSYSQILSSISESQERIRELKESLQ 96 (142)
T ss_pred HHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566655445543 388899999999999999988775 3445688888877777666666666554
No 51
>smart00453 WSN Worm-specific (usually) N-terminal domain.
Probab=38.22 E-value=60 Score=19.09 Aligned_cols=38 Identities=5% Similarity=0.115 Sum_probs=20.3
Q ss_pred HHHhhhhhhhccchhhHHHHhhccccCCccHHHHHHHHhc
Q psy17882 141 RLLLMTSQCRNIPSARVQHIFFAKTVANTSMEKLLCDMYK 180 (181)
Q Consensus 141 ~Ll~~l~~lr~~~~~~~e~l~~~~~~~~~~~~~ll~e~l~ 180 (181)
..+..++.+-++.+... ++---.-|.++.++++.|+|.
T Consensus 5 ~~~~~~~~laRv~N~I~--LQ~~l~~gsi~~~~vI~ELL~ 42 (69)
T smart00453 5 TVIERLSMLARVTNAIS--LQAGLINGSIPIDDVIAELLN 42 (69)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHcCCCCHHHHHHHHHc
Confidence 34444444444433332 333334667777888777764
No 52
>KOG4846|consensus
Probab=36.70 E-value=1.6e+02 Score=24.14 Aligned_cols=156 Identities=12% Similarity=0.089 Sum_probs=86.6
Q ss_pred cccccc-CCcCCCCChhhHHHHHHhhhhHHHHHHHH--HHhcccCCCCccc---cCCcccccCC----CC---------C
Q psy17882 3 VKWAKN-LPSFAALPFRDQVILLEESWSELFLLNAI--QWSLPLLESSPLF---NASEHVAAVP----NG---------K 63 (181)
Q Consensus 3 v~wak~-~p~f~~L~~~dq~~Llk~~~~~~~il~~a--~~~~~~~~~~~~~---~~~~~~~~~~----~~---------~ 63 (181)
++|+.. .|.+.++..+..+.|.+...+..+.+-.+ ..+....+....+ ..+|...++. .+ -
T Consensus 288 ~~w~n~~~pa~~di~qe~~n~l~q~pvfd~~~~~~g~a~~s~h~~n~~pty~~~~~~g~~Pn~~~~~rsgR~~qlp~~~~ 367 (538)
T KOG4846|consen 288 NAWQNYAHPADVDIKQEVVNFLKQIPVFDKFNFINGNAKASLHRKNAFPTYLLRIVRGMSPNRGLMLRSGRLIQLPFKSL 367 (538)
T ss_pred hHHhhcCCCCcccchHHHHHHHHhCccccccccCCCccchhhhcCCCcchhhhhhcccCCcccccccccccccccCcchh
Confidence 578877 89999999888888888776555444222 1111111111100 1111111000 00 0
Q ss_pred ccchHHHHHHHHHHHHHhhhcCCChhhhhhhhhhhhccCCCCCCC------CHHHHHHHHHHHHHHHHHHHhhcCCCCcc
Q psy17882 64 ASQTAADVRVLNGVLQRFRLVGVDPAEFACLKAVVLFKSETRGLK------DSLQVENLQDQAQVMLAQHVRTHHPAQPA 137 (181)
Q Consensus 64 ~~~~~~~~~~~~~~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~------~~~~i~~~~~~~~~~L~~~~~~~~~~~~~ 137 (181)
.......++.+..+...+..+...+...+++-.+.+..|...... ...+..+.+..+...+......+. ++ .
T Consensus 368 ~ll~~~av~e~~~fa~hi~~~~~~~~~~~~~~~L~~~q~l~t~~~f~t~f~~~~Q~~~mfl~~~~~~~Q~~~~~~-~g-d 445 (538)
T KOG4846|consen 368 QLLYGSAVDEMLAFANHIITIGCTDGDIALFIVLILCQPLTTEQQFSTNFKSQLQLLEMFLFYKKVLFQKMTCRI-DG-D 445 (538)
T ss_pred hhhhhHHHHHHHHhhhccCCccccccchhHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-ch-H
Confidence 112344568889999999999999999999988888887543221 112233333444444443333222 22 4
Q ss_pred hHHHHHhhhhhhhccchhhHHHH
Q psy17882 138 RFGRLLLMTSQCRNIPSARVQHI 160 (181)
Q Consensus 138 r~~~Ll~~l~~lr~~~~~~~e~l 160 (181)
-+..++..+-.+..++..+.+.+
T Consensus 446 ~~~a~~~~~~~ln~L~~~~~~~~ 468 (538)
T KOG4846|consen 446 TYKALMKCIHELNRLNELHKQQL 468 (538)
T ss_pred HHHHHHHhhcchhhcCchHHHHH
Confidence 46777777777777776666554
No 53
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=35.73 E-value=43 Score=20.69 Aligned_cols=32 Identities=13% Similarity=0.167 Sum_probs=24.8
Q ss_pred hccCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy17882 99 LFKSETRGLKDSLQVENLQDQAQVMLAQHVRT 130 (181)
Q Consensus 99 l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~ 130 (181)
++..|+.+...++.++.+++.++..+.+|+..
T Consensus 25 iL~~dR~~~~~p~~l~~lk~dIl~VIsKY~~I 56 (86)
T PRK00296 25 IVAHERSSRGEPDYLPQLRKEILEVIAKYVQI 56 (86)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHHheec
Confidence 34456666556778999999999999999873
No 54
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=35.61 E-value=59 Score=20.20 Aligned_cols=31 Identities=10% Similarity=0.165 Sum_probs=24.7
Q ss_pred hhccCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Q psy17882 98 VLFKSETRGLKDSLQVENLQDQAQVMLAQHVR 129 (181)
Q Consensus 98 ~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~ 129 (181)
+++..|+.++ .++.++.+++.++..+.+|+.
T Consensus 25 liLahdR~~~-~p~~l~~lk~eil~VIsKYv~ 55 (87)
T PRK13991 25 TVLVHDRVKL-TPEMMEQMKADLAEVIKRYVP 55 (87)
T ss_pred HHHHHHcCCC-CHHHHHHHHHHHHHHHHHHhc
Confidence 3344576654 788999999999999999986
No 55
>PF08483 IstB_IS21_ATP: IstB-like ATP binding N-terminal; InterPro: IPR013690 This bacterial domain is found to the N terminus of the IPR002611 from INTERPRO-like ATP binding domain in proteins which are putative transposase subunits [].
Probab=34.03 E-value=36 Score=16.52 Aligned_cols=18 Identities=28% Similarity=0.486 Sum_probs=14.5
Q ss_pred CCcCCCCChhhHHHHHHh
Q psy17882 9 LPSFAALPFRDQVILLEE 26 (181)
Q Consensus 9 ~p~f~~L~~~dq~~Llk~ 26 (181)
-|.+.+|+.+++..|+-.
T Consensus 6 ~p~~~~LsFeERl~LLvd 23 (30)
T PF08483_consen 6 QPDTQELSFEERLGLLVD 23 (30)
T ss_pred CcchhhcCHHHHHHHHHH
Confidence 478889999999888753
No 56
>PRK14052 effector protein; Provisional
Probab=29.65 E-value=46 Score=26.06 Aligned_cols=22 Identities=32% Similarity=0.489 Sum_probs=19.0
Q ss_pred CC--CCcchHHHHHhhhhhhhccc
Q psy17882 132 HP--AQPARFGRLLLMTSQCRNIP 153 (181)
Q Consensus 132 ~~--~~~~r~~~Ll~~l~~lr~~~ 153 (181)
|| |+..|.++||+.+.+||.=+
T Consensus 348 HPFlDGNGRtGRLLInLi~lrn~~ 371 (387)
T PRK14052 348 HGFTDGNGRMGRMLYAIAELRNDS 371 (387)
T ss_pred cCCCCCCcHHHHHHHHHHHHhcCC
Confidence 45 89999999999999998644
No 57
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=29.30 E-value=1e+02 Score=17.96 Aligned_cols=20 Identities=10% Similarity=0.182 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q psy17882 111 LQVENLQDQAQVMLAQHVRT 130 (181)
Q Consensus 111 ~~i~~~~~~~~~~L~~~~~~ 130 (181)
+.+..+|.++..+|.+||+.
T Consensus 41 ~~~~~~r~KiR~~L~ey~k~ 60 (64)
T PF05596_consen 41 EICQEVRKKIRAALAEYCKG 60 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 66788899999999999863
No 58
>PF02020 W2: eIF4-gamma/eIF5/eIF2-epsilon; InterPro: IPR003307 This entry represents the W2 domain (two invariant tryptophans) and is a region of ~165 amino acids which is found in the C terminus of the following eIFs [, , , ]: Eukaryotic translation initiation factor 2B epsilon (eIF-2B-epsilon) Eukaryotic translation initiation factor 4 gamma (eIF-4-gamma) Eukaryotic translation initiation factor 5 (eIF-5), a GTPase-activating protein (GAP) specific for eIF2 Translation initiation is a sophisticated, well regulated and highly coordinated cellular process in eukaryotes, in which at least 11 eukayrotic initiation factors (eIFs) are included []. The W2 domain has a globular fold and is exclusively composed out of alpha-helices [, , ]. The structure can be divided into a structural C-terminal core onto which the two N-terminal helices are attached. The core contains two aromatic/acidic residue-rich regions (AA boxes), which are important for mediating protein-protein interactions. For example, the W2 domain of H. sapiens eIF5 binds eIF2-beta, eIF3 and eIF1 [], and therefore plays an important role in multifactor complex assembly. The entry covers the entire W2 domain.; GO: 0005488 binding; PDB: 3D3M_A 3L6A_A 1PAQ_A 2FUL_D 2IU1_A 1UG3_B 3JUI_A.
Probab=28.09 E-value=1.1e+02 Score=18.45 Aligned_cols=44 Identities=11% Similarity=0.066 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCcchHHHHHhhhhhhhccchhhHHH
Q psy17882 115 NLQDQAQVMLAQHVRTHHPAQPARFGRLLLMTSQCRNIPSARVQH 159 (181)
Q Consensus 115 ~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll~~l~~lr~~~~~~~e~ 159 (181)
.-|-.++.+++.||.. .+.....|+.++..+=..--+....+-.
T Consensus 2 ~~Q~~~L~ale~~~~~-~~~~~~~~~~il~~LYd~Dil~Eeail~ 45 (84)
T PF02020_consen 2 DDQVDLLNALEEFCAE-NPNLMPLFPKILQQLYDEDILEEEAILE 45 (84)
T ss_dssp HHHHHHHHHHHHHHHH-TCGHGGHHHHHHHHHHHTTSS-HHHHHH
T ss_pred HHHHHHHHHHHHHHHh-CccHHHHHHHHHHHHhhhhhccHHHHHH
Confidence 3466788889999844 5555567888777776665555554443
No 59
>PF13678 Peptidase_M85: NFkB-p65-degrading zinc protease
Probab=26.26 E-value=2.8e+02 Score=20.80 Aligned_cols=60 Identities=18% Similarity=0.256 Sum_probs=43.8
Q ss_pred cCCChhhhhhhhhhhhcc---CCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCCcchHHHHH
Q psy17882 84 VGVDPAEFACLKAVVLFK---SETRGLKDSLQVENLQDQAQVMLAQHVRTHHPAQPARFGRLL 143 (181)
Q Consensus 84 l~l~~~E~~ll~ai~l~~---pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r~~~Ll 143 (181)
-++.++|...=++..=++ |+-.|..++++++.++++=..+|.+-+.+...+...++.+|.
T Consensus 177 ~rlGPTEILA~rVa~El~w~IP~F~~Y~~peR~~ai~~r~f~aL~~~i~Rh~~~~~~l~eRL~ 239 (250)
T PF13678_consen 177 DRLGPTEILAQRVAQELGWNIPDFKGYADPEREAAIRERNFNALLQTIYRHPSNEEALFERLD 239 (250)
T ss_pred cccChHHHHHHHHHHHcCCCCccccCcCCHHHHHHHHHhhHHHHHHHHHhccccHHHHHHHHH
Confidence 478888888888777555 677788899999999999999998776444334444444443
No 60
>PF15612 WHIM1: WSTF, HB1, Itc1p, MBD9 motif 1; PDB: 2Y9Z_B 2Y9Y_B.
Probab=26.03 E-value=68 Score=17.13 Aligned_cols=18 Identities=11% Similarity=0.215 Sum_probs=14.6
Q ss_pred cCCCCChhhHHHHHHhhh
Q psy17882 11 SFAALPFRDQVILLEESW 28 (181)
Q Consensus 11 ~f~~L~~~dq~~Llk~~~ 28 (181)
+|-+|+.++|+.+++.-+
T Consensus 13 ~y~~L~~~~kl~iL~~L~ 30 (50)
T PF15612_consen 13 EYYELSPEEKLEILRALC 30 (50)
T ss_dssp TCCCS-HHHHHHHHHHHH
T ss_pred CcccCCHHHHHHHHHHHH
Confidence 788999999999998743
No 61
>PF03095 PTPA: Phosphotyrosyl phosphate activator (PTPA) protein; InterPro: IPR004327 Phosphotyrosyl phosphatase activator (PTPA) proteins stimulate the phosphotyrosyl phosphatase (PTPase) activity of the dimeric form of protein phosphatase 2A (PP2A). PTPase activity in PP2A (in vitro) is relatively low when compared to the better recognised phosphoserine/ threonine protein phosphorylase activity. The specific biological role of PTPA is unknown, Basal expression of PTPA depends on the activity of a ubiquitous transcription factor, Yin Yang 1 (YY1). The tumour suppressor protein p53 can inhibit PTPA expression through an unknown mechanism that negatively controls YY1 [].; GO: 0019211 phosphatase activator activity; PDB: 2HV7_H 2HV6_A 2IXM_A 2G62_A 2IXN_B 2IXO_B 2IXP_B.
Probab=25.73 E-value=2.3e+02 Score=22.10 Aligned_cols=58 Identities=24% Similarity=0.284 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHhhhcCCChhhhhhhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhcCC-CC-cchHHHH
Q psy17882 68 AADVRVLNGVLQRFRLVGVDPAEFACLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTHHP-AQ-PARFGRL 142 (181)
Q Consensus 68 ~~~~~~~~~~~~~l~~l~l~~~E~~ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~~~-~~-~~r~~~L 142 (181)
......+..+...++..+++ ....+.++.|.++-+ +++.|.+++....| ++ +.|||+.
T Consensus 22 ~~i~~FI~~l~~sV~g~~~~----------------~~~~~~S~~v~~ll~-iL~~l~~~i~e~PP~~~~p~RFGN~ 81 (299)
T PF03095_consen 22 ADIIGFIQNLNESVKGKKLS----------------TDDYPVSENVQKLLD-ILDTLEQWIDEIPPVDQGPSRFGNK 81 (299)
T ss_dssp HHHHHHHHHHHHHHTT-STT----------------TSTSSSSHHHHHHHH-HHHHHHHHHHTS---SS-STTSS-T
T ss_pred HHHHHHHHHHHHHccCCCCC----------------CcccccChHHHHHHH-HHHHHHHHHHhCCCCCCCCCCCCCH
Confidence 34445566666666666666 122334456666666 78888888888777 55 7888763
No 62
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=25.29 E-value=44 Score=22.38 Aligned_cols=24 Identities=17% Similarity=0.452 Sum_probs=18.3
Q ss_pred hhhhccCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy17882 96 AVVLFKSETRGLKDSLQVENLQDQAQVMLAQ 126 (181)
Q Consensus 96 ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~ 126 (181)
+++|.+||.+| ++++.++.+.|..
T Consensus 58 VIILTD~D~~G-------e~Irk~l~~~l~~ 81 (127)
T COG1658 58 VIILTDPDRKG-------ERIRKKLKEYLPG 81 (127)
T ss_pred EEEEeCCCcch-------HHHHHHHHHHhcc
Confidence 58889999988 6677776666655
No 63
>PF02206 WSN: Domain of unknown function; InterPro: IPR003125 This domain has no known function and is found in Caenorhabditis elegans proteins normally at the N-terminal.
Probab=24.43 E-value=1.4e+02 Score=17.23 Aligned_cols=16 Identities=0% Similarity=0.318 Sum_probs=10.0
Q ss_pred ccCCccHHHHHHHHhc
Q psy17882 165 TVANTSMEKLLCDMYK 180 (181)
Q Consensus 165 ~~~~~~~~~ll~e~l~ 180 (181)
.-|.++.++++.|+|+
T Consensus 27 ~~gsi~~~~vIsElL~ 42 (69)
T PF02206_consen 27 MNGSIDIDDVISELLN 42 (69)
T ss_pred HcCCCCHHHHHHHHHc
Confidence 3456666777766653
No 64
>PRK13987 cell division topological specificity factor MinE; Provisional
Probab=24.40 E-value=92 Score=19.52 Aligned_cols=31 Identities=6% Similarity=0.188 Sum_probs=24.3
Q ss_pred hccCCCCCCCCHHHHHHHHHHHHHHHHHHHhh
Q psy17882 99 LFKSETRGLKDSLQVENLQDQAQVMLAQHVRT 130 (181)
Q Consensus 99 l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~ 130 (181)
++-.|+.++ .++.+..+++.++.++.+|+..
T Consensus 24 iLa~dR~~~-sp~~l~~lk~eIl~VI~kYv~I 54 (91)
T PRK13987 24 ILIHDRGDI-SPDVLEMIKEDILKVISKYVEI 54 (91)
T ss_pred HHHHHcCCC-CHHHHHHHHHHHHHHHHHheee
Confidence 344566554 5789999999999999999874
No 65
>PF09150 Carot_N: Orange carotenoid protein, N-terminal ; InterPro: IPR015233 Carotenoids such as beta-carotene, lycopene, lutein and beta-cryptoxanthine are produced in plants and certain bacteria, algae and fungi, where they function as accessory photosynthetic pigments and as scavengers of oxygen radicals for photoprotection. They are also essential dietary nutrients in animals. Orange carotenoid-binding proteins (OCP) were first identified in cyanobacterial species, where they occur associated with phycobilisome in the cellular thylakoid membrane. These proteins function in photoprotection, and are essential for inhibiting white and blue-green light non-photochemical quenching (NPQ) [, ]. Carotenoids improve the photoprotectant activity by broadening OCP's absorption spectrum and facilitating the dissipation of absorbed energy. OCP acts as a homodimer, and binds one molecule of carotenoid (3'-hydroxyechinenone) and one chloride ion per subunit, where the carotenoid binding site is lined with a striking number of methionine residues. The carotenoid 3'-hydroxyechinenone is not found in higher plants. OCP has two domains: an N-terminal helical domain and a C-terminal domain that resembles a NTF2 (nuclear transport factor 2) domain. OCP can be proteolytically cleaved into a red form (RCP), which lacks 15 residues from the N terminus and approximately 150 residues from the C terminus []. This entry represents the N-terminal domain found predominantly in prokaryotic orange carotenoid proteins and related carotenoid-binding proteins. It adopts an alpha-helical structure consisting of two four-helix bundles [].; GO: 0031404 chloride ion binding, 0016037 light absorption, 0030089 phycobilisome; PDB: 3MG3_B 3MG1_A 3MG2_A 1M98_A.
Probab=24.23 E-value=69 Score=22.31 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=12.9
Q ss_pred cCCcCCCCChhhHHHHH
Q psy17882 8 NLPSFAALPFRDQVILL 24 (181)
Q Consensus 8 ~~p~f~~L~~~dq~~Ll 24 (181)
.+..|+.|+.|||..||
T Consensus 18 ~~~~F~~Ls~DdqLAlL 34 (159)
T PF09150_consen 18 AVARFNQLSVDDQLALL 34 (159)
T ss_dssp HHHHHCCS-HHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHH
Confidence 34579999999998876
No 66
>cd07644 I-BAR_IMD_BAIAP2L2 Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 2. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. This group is composed of uncharacterized proteins known as BAIAP2L2 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 2). They contain an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. The related proteins, BAIAP2L1 and IRSp53, function as regulators of membrane dynamics and the actin cytoskeleton. The IMD domain binds and bundles actin filaments, binds membranes and produces membrane protrusions, and interacts with the small GTPase Rac.
Probab=20.53 E-value=1.4e+02 Score=21.96 Aligned_cols=68 Identities=9% Similarity=0.074 Sum_probs=40.8
Q ss_pred hhhhhccCCCCCCC--------CHHHHHHHHHHHHHHHHHHHhhcCCCCcch-HHHHHhhhhhhh-ccchhhHHHHhh
Q psy17882 95 KAVVLFKSETRGLK--------DSLQVENLQDQAQVMLAQHVRTHHPAQPAR-FGRLLLMTSQCR-NIPSARVQHIFF 162 (181)
Q Consensus 95 ~ai~l~~pd~~~l~--------~~~~i~~~~~~~~~~L~~~~~~~~~~~~~r-~~~Ll~~l~~lr-~~~~~~~e~l~~ 162 (181)
.++==|||+..++- .-..+....+-|.++|...=......+..+ +|.+|+-+.+++ .+...+.+.+..
T Consensus 13 ~imeqFNP~lrnlv~lGk~Y~kA~~a~t~aa~~Yf~Al~KiGe~A~~s~~s~~LG~vLmqisev~r~i~~~le~~lk~ 90 (215)
T cd07644 13 SIMEQFNPALENLVYLGNNYLRAFHALSEAAEVYFSAIAKIGEQALQSLTSQSLGEILIQMSETQRKLSADLEVVFQT 90 (215)
T ss_pred HHHHhcChHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445777765542 124455566678888876544444445555 999999999876 444444444433
No 67
>PF03776 MinE: Septum formation topological specificity factor MinE; InterPro: IPR005527 Cytokinesis needs to be regulated spatially in order to ensure that it occurs between the daughter genomes. In prokaryotes such as Escherichia coli, cytokinesis is initiated by FtsZ, a tubulin-like protein that assembles into a ring structure at the cell centre called the Z ring. A fundamental problem in prokaryotic cell biology is to understand how the midcell division site is identified. Two major negative regulatory systems are known to be involved in preventing Z-ring assembly at all sites except the midcell. One of these systems, called nucleoid occlusion, blocks Z-ring assembly in the area occupied by an unsegregated nucleoid until a critical stage in chromosome replication or segregation is reached. The other system consists of three proteins, MinC, MinD and MinE, which prevent assembly of Z rings in regions of the cell not covered by the nucleoid, such as the cell poles. MinC is an inhibitor of FtsZ polymerisation, resulting in the inhibition of Z ring assembly in the cell; MinD greatly enhances the inhibitory effects of MinC in vivo; and MinE antagonizes the effects of MinC and MinD []. MinE is a small bifunctional protein. The amino terminus of MinE is required to interact with MinD, while the carboxyl terminus is required for `topological specificity' - that is, the ability of MinE to antagonise MinCD inhibition of Z rings at the midcell position but not at the poles.; GO: 0032955 regulation of barrier septum formation, 0051301 cell division; PDB: 2KXO_A 3MCD_B 3KU7_A 3R9J_C 3R9I_E 1EV0_B.
Probab=20.53 E-value=46 Score=19.59 Aligned_cols=30 Identities=17% Similarity=0.267 Sum_probs=21.2
Q ss_pred CCCCCCCC-HHHHHHHHHHHHHHHHHHHhhc
Q psy17882 102 SETRGLKD-SLQVENLQDQAQVMLAQHVRTH 131 (181)
Q Consensus 102 pd~~~l~~-~~~i~~~~~~~~~~L~~~~~~~ 131 (181)
.|+.+.+. ++.+..+++.++.++.+|+...
T Consensus 15 ~dR~~~~~~~~~l~~lk~eil~viskYv~i~ 45 (70)
T PF03776_consen 15 HDRGGLSPQPDYLEQLKKEILEVISKYVEID 45 (70)
T ss_dssp EECCSC-CTTSSHHHHHHHHHHHHHHHS---
T ss_pred HHccCCCCcHHHHHHHHHHHHHHHHhheecC
Confidence 45555544 4789999999999999998753
No 68
>PF09863 DUF2090: Uncharacterized protein conserved in bacteria (DUF2090); InterPro: IPR018659 This domain, found in various prokaryotic carbohydrate kinases, has no known function.
Probab=20.37 E-value=85 Score=24.49 Aligned_cols=34 Identities=18% Similarity=0.280 Sum_probs=27.1
Q ss_pred hhhhhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHhhc
Q psy17882 93 CLKAVVLFKSETRGLKDSLQVENLQDQAQVMLAQHVRTH 131 (181)
Q Consensus 93 ll~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~~~~~~ 131 (181)
+.|++++++|| +...++..|++-+..|.+.|..+
T Consensus 142 vVKcLvfyHPd-----D~~~lr~~Qe~~l~~l~~ac~~s 175 (311)
T PF09863_consen 142 VVKCLVFYHPD-----DDPELRLEQEAQLRRLYDACRRS 175 (311)
T ss_pred EEEEEeecCCC-----CCHHHHHHHHHHHHHHHHHHHhc
Confidence 67899999997 45677788888888888888754
No 69
>PRK04017 hypothetical protein; Provisional
Probab=20.17 E-value=67 Score=21.67 Aligned_cols=25 Identities=20% Similarity=0.385 Sum_probs=18.8
Q ss_pred hhhhhccCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy17882 95 KAVVLFKSETRGLKDSLQVENLQDQAQVMLAQ 126 (181)
Q Consensus 95 ~ai~l~~pd~~~l~~~~~i~~~~~~~~~~L~~ 126 (181)
.+++|.+||.+| ++++.++.+.|+.
T Consensus 67 ~VIILTD~D~~G-------ekIr~~l~~~l~~ 91 (132)
T PRK04017 67 EVIILTDFDRKG-------EELAKKLSEYLQG 91 (132)
T ss_pred eEEEEECCCcch-------HHHHHHHHHHHHh
Confidence 457889999888 6777777776654
Done!