Query psy7203
Match_columns 92
No_of_seqs 109 out of 787
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 20:48:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7203.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7203hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07348 NR_LBD_NGFI-B The liga 99.9 2.4E-22 5.2E-27 139.2 9.2 83 1-83 153-237 (238)
2 cd06937 NR_LBD_RAR The ligand 99.9 2.5E-22 5.4E-27 138.4 8.7 79 1-79 152-230 (231)
3 cd06945 NR_LBD_Nurr1_like The 99.9 3.9E-22 8.5E-27 138.0 9.1 83 1-83 154-238 (239)
4 cd06948 NR_LBD_COUP-TF Ligand 99.9 5.4E-22 1.2E-26 136.9 9.5 90 1-90 146-235 (236)
5 cd07349 NR_LBD_SHP The ligand 99.9 5.5E-22 1.2E-26 136.1 8.0 78 1-78 145-222 (222)
6 cd07069 NR_LBD_Lrh-1 The ligan 99.9 1.9E-21 4.1E-26 134.8 9.3 82 1-82 159-240 (241)
7 cd07071 NR_LBD_Nurr1 The ligan 99.9 3.5E-21 7.5E-26 133.4 9.2 83 1-83 153-237 (238)
8 cd07070 NR_LBD_SF-1 The ligand 99.9 4E-21 8.7E-26 132.8 9.1 81 1-81 157-237 (237)
9 cd07072 NR_LBD_DHR38_like Liga 99.8 7.6E-21 1.6E-25 131.8 9.2 84 1-84 154-239 (239)
10 cd06949 NR_LBD_ER Ligand bindi 99.8 1.5E-20 3.3E-25 129.8 9.1 80 1-80 147-234 (235)
11 cd06932 NR_LBD_PPAR The ligand 99.8 1.6E-20 3.6E-25 131.3 8.2 80 1-80 178-258 (259)
12 cd07350 NR_LBD_Dax1 The ligand 99.8 1.5E-20 3.3E-25 129.7 7.3 76 1-76 157-232 (232)
13 cd06944 NR_LBD_Ftz-F1_like The 99.8 4.3E-20 9.3E-25 127.6 8.9 81 1-81 157-237 (237)
14 cd06951 NR_LBD_Dax1_like The l 99.8 2.5E-20 5.5E-25 127.8 7.1 75 1-76 148-222 (222)
15 cd06935 NR_LBD_TR The ligand b 99.8 6.2E-20 1.3E-24 127.3 7.3 77 1-77 166-243 (243)
16 cd06941 NR_LBD_DmE78_like The 99.8 2.8E-19 6.1E-24 120.1 8.2 79 1-79 116-195 (195)
17 cd06939 NR_LBD_ROR_like The li 99.8 2E-19 4.4E-24 124.7 7.6 77 1-78 161-241 (241)
18 cd06933 NR_LBD_VDR The ligand 99.8 6.9E-19 1.5E-23 121.7 8.6 81 1-81 153-237 (238)
19 cd07068 NR_LBD_ER_like The lig 99.8 1.5E-18 3.2E-23 118.7 8.8 80 1-80 141-221 (221)
20 cd06946 NR_LBD_ERR The ligand 99.8 4.5E-18 9.7E-23 116.2 9.0 80 1-80 141-221 (221)
21 cd06954 NR_LBD_LXR The ligand 99.8 2.9E-18 6.4E-23 118.1 8.2 79 1-80 158-236 (236)
22 cd06952 NR_LBD_TR2_like The li 99.8 6.1E-18 1.3E-22 115.5 8.5 79 1-79 143-221 (222)
23 cd06936 NR_LBD_Fxr The ligand 99.7 5.6E-18 1.2E-22 116.0 6.6 75 1-76 147-221 (221)
24 cd07073 NR_LBD_AR Ligand bindi 99.7 1.3E-17 2.7E-22 116.1 8.4 80 2-83 146-233 (246)
25 cd06938 NR_LBD_EcR The ligand 99.7 1.6E-17 3.4E-22 114.4 8.1 78 2-80 153-231 (231)
26 cd06947 NR_LBD_GR_Like Ligand 99.7 2.4E-17 5.2E-22 114.7 8.8 82 2-83 146-233 (246)
27 cd07076 NR_LBD_GR Ligand bindi 99.7 3.5E-17 7.5E-22 114.0 8.1 76 2-79 146-224 (247)
28 cd06934 NR_LBD_PXR_like The li 99.7 3.4E-17 7.4E-22 112.6 6.9 75 1-77 149-226 (226)
29 cd06950 NR_LBD_Tlx_PNR_like Th 99.7 9.1E-17 2E-21 109.0 7.2 67 1-67 140-206 (206)
30 cd06940 NR_LBD_REV_ERB The lig 99.7 1.7E-16 3.6E-21 106.5 7.0 64 1-64 126-189 (189)
31 cd06943 NR_LBD_RXR_like The li 99.6 3.6E-15 7.8E-20 100.7 7.0 63 1-63 145-207 (207)
32 cd06931 NR_LBD_HNF4_like The l 99.6 6.1E-15 1.3E-19 100.6 7.6 77 1-77 146-222 (222)
33 cd07075 NR_LBD_MR Ligand bindi 99.5 1.6E-14 3.5E-19 100.7 7.2 78 2-79 146-229 (248)
34 cd06953 NR_LBD_DHR4_like The l 99.4 3.9E-13 8.4E-18 91.7 7.1 59 1-59 145-203 (213)
35 cd06942 NR_LBD_Sex_1_like The 99.4 9.7E-13 2.1E-17 88.2 6.4 73 1-74 115-190 (191)
36 cd06929 NR_LBD_F1 Ligand-bindi 99.3 3.3E-12 7.2E-17 83.7 6.3 59 1-59 116-174 (174)
37 KOG4215|consensus 99.3 6E-12 1.3E-16 91.3 7.0 81 1-81 269-352 (432)
38 KOG4217|consensus 99.1 1.4E-10 3.1E-15 86.5 6.3 81 2-82 521-603 (605)
39 cd06930 NR_LBD_F2 Ligand-bindi 99.1 3.7E-10 8.1E-15 73.1 5.8 51 1-51 115-165 (165)
40 KOG4216|consensus 98.9 4.3E-09 9.4E-14 77.2 7.2 80 1-81 395-477 (479)
41 KOG4218|consensus 98.9 2.9E-09 6.3E-14 77.2 4.8 80 2-81 394-473 (475)
42 cd07074 NR_LBD_PR Ligand bindi 98.9 1.7E-08 3.6E-13 70.6 8.3 80 2-81 146-231 (248)
43 PF00104 Hormone_recep: Ligand 98.6 1.7E-07 3.6E-12 61.6 6.6 63 2-64 136-202 (203)
44 smart00430 HOLI Ligand binding 98.4 3.7E-07 8.1E-12 57.9 4.8 50 2-51 111-163 (163)
45 cd06157 NR_LBD The ligand bind 98.4 9.1E-07 2E-11 56.4 5.7 50 2-51 117-168 (168)
46 KOG4846|consensus 80.9 0.42 9.1E-06 36.3 -0.4 60 2-63 475-534 (538)
47 cd03746 SOCS_WSB1_SWIP1 SOCS ( 63.8 12 0.00025 19.0 2.7 37 44-80 2-38 (40)
48 cd03745 SOCS_WSB2_SWIP2 SOCS ( 57.4 15 0.00032 18.5 2.4 35 45-79 3-37 (39)
49 PRK13991 cell division topolog 53.8 24 0.00051 21.0 3.2 26 2-28 30-55 (87)
50 PF02020 W2: eIF4-gamma/eIF5/e 53.5 42 0.0009 19.3 5.0 49 13-62 1-49 (84)
51 PRK13988 cell division topolog 53.0 19 0.0004 21.9 2.7 28 2-30 32-59 (97)
52 PF03776 MinE: Septum formatio 49.8 17 0.00036 20.5 2.0 29 2-30 16-45 (70)
53 PRK00296 minE cell division to 48.9 25 0.00054 20.8 2.7 27 2-28 29-55 (86)
54 cd03733 SOCS_WSB_SWIP SOCS (su 47.4 26 0.00055 17.6 2.3 34 45-78 3-36 (39)
55 cd03717 SOCS_SOCS_like SOCS (s 41.7 41 0.0009 16.6 2.6 34 45-78 3-36 (39)
56 PRK13987 cell division topolog 41.1 38 0.00083 20.3 2.7 28 2-30 28-55 (91)
57 cd03740 SOCS_SOCS6 SOCS (suppr 40.4 48 0.001 16.7 2.7 35 45-79 3-37 (41)
58 PRK13990 cell division topolog 38.7 49 0.0011 19.8 2.9 22 8-29 41-62 (90)
59 TIGR01215 minE cell division t 38.3 45 0.00097 19.4 2.7 27 2-29 29-55 (81)
60 cd03734 SOCS_CIS1 SOCS (suppre 37.6 49 0.0011 16.8 2.4 33 45-79 3-35 (41)
61 cd09244 BRO1_Rhophilin Protein 33.3 66 0.0014 23.8 3.5 32 19-50 14-45 (350)
62 cd03741 SOCS_SOCS7 SOCS (suppr 33.1 80 0.0017 16.6 3.1 37 45-81 3-39 (49)
63 COG0851 MinE Septum formation 32.9 56 0.0012 19.5 2.5 23 8-30 35-57 (88)
64 PF07525 SOCS_box: SOCS box; 31.9 56 0.0012 16.1 2.1 33 46-78 2-37 (40)
65 cd03735 SOCS_SOCS1 SOCS (suppr 31.6 64 0.0014 16.6 2.3 36 44-79 2-37 (43)
66 PF07742 BTG: BTG family; Int 30.6 88 0.0019 19.5 3.3 31 7-37 22-53 (118)
67 PRK13989 cell division topolog 30.5 78 0.0017 18.6 2.9 23 7-29 35-57 (84)
68 smart00526 H15 Domain in histo 28.2 1E+02 0.0023 16.6 3.0 22 20-41 26-47 (66)
69 PF13060 DUF3921: Protein of u 28.0 85 0.0018 16.8 2.4 18 9-26 31-48 (58)
70 cd09242 BRO1_ScBro1_like Prote 25.8 1.1E+02 0.0023 22.5 3.5 33 19-51 14-46 (348)
71 PF08064 UME: UME (NUC010) dom 25.6 1.6E+02 0.0035 17.7 4.0 63 14-79 30-99 (107)
72 PF13678 Peptidase_M85: NFkB-p 25.4 2.5E+02 0.0054 20.0 5.0 40 3-42 200-239 (250)
73 cd03742 SOCS_Rab40 SOCS (suppr 25.3 83 0.0018 16.2 2.1 35 44-78 2-36 (43)
74 PRK13848 conjugal transfer pro 25.3 82 0.0018 19.1 2.3 31 6-44 6-36 (98)
75 smart00099 btg1 tob/btg1 famil 24.2 1.7E+02 0.0038 18.0 3.7 32 5-36 20-52 (108)
76 PF02944 BESS: BESS motif; In 24.0 80 0.0017 15.3 1.8 16 41-56 8-23 (37)
77 PF10436 BCDHK_Adom3: Mitochon 22.5 97 0.0021 20.2 2.5 40 6-45 49-91 (164)
78 PRK14052 effector protein; Pro 21.9 60 0.0013 24.2 1.5 21 30-50 347-369 (387)
79 KOG4559|consensus 21.9 85 0.0018 19.4 2.0 42 38-79 17-61 (120)
80 cd03736 SOCS_SOCS2 SOCS (suppr 21.8 1.3E+02 0.0027 15.1 2.4 33 45-79 3-35 (41)
81 cd00073 H15 linker histone 1 a 21.6 1.5E+02 0.0033 17.1 3.0 23 20-42 26-48 (88)
82 cd09248 BRO1_Rhophilin_1 Prote 21.6 1.4E+02 0.003 22.6 3.4 33 19-51 14-46 (384)
83 PRK03830 small acid-soluble sp 21.2 1.3E+02 0.0028 17.4 2.5 18 9-26 8-25 (73)
84 cd09239 BRO1_HD-PTP_like Prote 20.7 1.5E+02 0.0032 22.0 3.4 32 19-50 21-52 (361)
85 cd09240 BRO1_Alix Protein-inte 20.4 1.6E+02 0.0035 21.5 3.5 33 19-51 16-50 (346)
86 smart00253 SOCS suppressors of 20.0 1.4E+02 0.003 14.9 2.4 34 45-78 7-40 (43)
87 PF13150 DUF3989: Protein of u 20.0 2E+02 0.0044 16.8 3.7 29 10-38 2-30 (85)
No 1
>cd07348 NR_LBD_NGFI-B The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of Nerve growth factor-induced-B (NGFI-B): NGFI-B is a member of the nuclear#steroid receptor superfamily. NGFI-B is classified as an orphan receptor because no ligand has yet been identified. NGFI-B is an early immediate gene product of the embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as neuronal differentiation and function. NGFI-B regulates transcription by binding to a specific DNA target upstream of its target genes and regulating the rate of transcriptional initiation. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, NGFI-B has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LB
Probab=99.88 E-value=2.4e-22 Score=139.15 Aligned_cols=83 Identities=25% Similarity=0.488 Sum_probs=78.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhh--CCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQ--YPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~--~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
+|++||++..+|+++|++++.||++|+..+ +|+++.||+|||++||+||+++.++++++|+.|..|.+++++|+.|||
T Consensus 153 ~Dr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~p~rf~kLLl~Lp~LRsl~~~~~e~lf~~kl~~~~~~~pLl~e~~ 232 (238)
T cd07348 153 TDRHGLKEPKRVEELQNRLISCLKEHVSGSASEPQRPNCLSRLLGKLPELRTLCTQGLQRIFYLKLEDLVPPPPIVDKIF 232 (238)
T ss_pred CCCcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHH
Confidence 489999999999999999999999999885 489999999999999999999999999999999999999999999999
Q ss_pred hCCCC
Q psy7203 79 LSGSS 83 (92)
Q Consensus 79 ~~~~~ 83 (92)
...-+
T Consensus 233 ~~~~~ 237 (238)
T cd07348 233 MDTLP 237 (238)
T ss_pred hccCC
Confidence 87644
No 2
>cd06937 NR_LBD_RAR The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily. The ligand binding domain (LBD) of retinoic acid receptor (RAR): Retinoic acid receptors are members of the nuclear receptor (NR) superfamily of ligand-regulated transcription factors. RARs mediate the biological effect of retinoids, including both naturally dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RARs function as heterodimers with retinoic X receptors by binding to specific RAR response elements (RAREs) found in the promoter regions of retinoid target genes. In the absence of ligand, the RAR-RXR heterodimer recruits the corepressor proteins NCoR or AMRT, and associated factors such as histone deacetylases or DNA-methyltransferases, leading to
Probab=99.88 E-value=2.5e-22 Score=138.38 Aligned_cols=79 Identities=30% Similarity=0.483 Sum_probs=77.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
+|++||++..+|+++||+++.||++|+.++||+++.||++||++||+||+++.+++++++++|..|..++++|+.|||+
T Consensus 152 pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~p~rf~kLLl~Lp~LR~l~~~~~e~l~~~k~~~~~~~~~Ll~Eml~ 230 (231)
T cd06937 152 GDRQDLEEPDRVEKLQEPLLEALKIYARKRRPDKPHMFPKMLMKITDLRSISAKGAERVITLKMEIPGPMPPLISEMLE 230 (231)
T ss_pred CCCccCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHhc
Confidence 5999999999999999999999999999999999999999999999999999999999999999999999999999996
No 3
>cd06945 NR_LBD_Nurr1_like The ligand binding domain of Nurr1 and related nuclear receptor proteins, members of nuclear receptor superfamily. The ligand binding domain of nuclear receptor Nurr1_like: This family of nuclear receptors, including Nurr1, Nerve growth factor-induced-B (NGFI-B) and DHR38 are involved in the embryo development. Nurr1 is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. NGFI-B is an early immediate gene product of embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as
Probab=99.87 E-value=3.9e-22 Score=138.02 Aligned_cols=83 Identities=34% Similarity=0.592 Sum_probs=79.9
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCC--CchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYP--SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p--~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
+|++||++.++|+++|++++.||++|+.+++| +.+.||++||++||+||+++.++++++++.|..|.+++++|+.|||
T Consensus 154 pD~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~~~rf~kLLl~Lp~LR~ls~~~~e~l~~~k~~~~~~~~~Ll~e~~ 233 (239)
T cd06945 154 TERHGLKEPKKVEELQNKIISCLRDHVTSNYPGQDKPNRLSKLLLKLPELRTLSKKGLQRIFFLKLEDLLPPPPLIDKRF 233 (239)
T ss_pred CCccccCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhHHHHHHHHHHHHHHHHHHccCCCCCChHHHHHH
Confidence 59999999999999999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred hCCCC
Q psy7203 79 LSGSS 83 (92)
Q Consensus 79 ~~~~~ 83 (92)
+.+.+
T Consensus 234 ~~~~~ 238 (239)
T cd06945 234 LDTLP 238 (239)
T ss_pred HhcCC
Confidence 87654
No 4
>cd06948 NR_LBD_COUP-TF Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family. The ligand binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs): COUP-TFs are orphan members of the steroid/thyroid hormone receptor superfamily. They are expressed in many tissues and are involved in the regulation of several important biological processes, such as neurogenesis, organogenesis, cell fate determination, and metabolic homeostasis. In mammals two isoforms named COUP-TFI and COUP-TFII have been identified. Both genes show an exceptional homology and overlapping expression patterns, suggesting that they may serve redundant functions. Although COUP-TF was originally characterized as a transcriptional activator of the chicken ovalbumin gene, COUP-TFs are generally considered to be repressors of transcription for other nuclear hormone receptors, such as retinoic acid receptor (RAR), thyroid hormone
Probab=99.87 E-value=5.4e-22 Score=136.93 Aligned_cols=90 Identities=89% Similarity=1.353 Sum_probs=87.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
+|++||++..+|+++|+++..||.+|+..++|+.+.||++||++||+||+++.+++++++|.|.+|.+++++|+.||+.+
T Consensus 146 pd~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~Lp~Lr~is~~~~e~l~~~~l~g~~~~~~ll~e~l~~ 225 (236)
T cd06948 146 SDACGLSDPAHIESLQEKSQCALEEYVRTQYPNQPTRFGKLLLRLPSLRTVSSSVIEQLFFVRLVGKTPIETLIRDMLLS 225 (236)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHhccHHHHHHhhcccccCCCcHHHHHHHHHhC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCC
Q psy7203 81 GSSFSWPYMN 90 (92)
Q Consensus 81 ~~~~~~~~~~ 90 (92)
+.+++||..+
T Consensus 226 ~~~~~~~~~~ 235 (236)
T cd06948 226 GSSFVWPYLP 235 (236)
T ss_pred CCCCcccCCC
Confidence 9999999865
No 5
>cd07349 NR_LBD_SHP The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the Small Heterodimer Partner (SHP): SHP is a member of the nuclear receptor superfamily. SHP has a ligand binding domain, but lacks the DNA binding domain, typical to almost all of the nuclear receptors. It functions as a transcriptional coregulator by directly interacting with other nuclear receptors through its AF-2 motif. The closest relative of SHP is DAX1 and they can form heterodimer. SHP is an orphan receptor, lacking an identified ligand.
Probab=99.87 E-value=5.5e-22 Score=136.12 Aligned_cols=78 Identities=35% Similarity=0.572 Sum_probs=76.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
+|+|||++..+|+++||+++.+|++|+..+||+++.||+|||++||+||+++.+.+|++||.+.+|.++|++|+.||+
T Consensus 145 pd~~gl~~~~~V~~lqe~~~~aL~~~~~~~~p~~~~r~~kLLl~Lp~LR~i~~~~ie~lff~~~~g~~~i~~Ll~eml 222 (222)
T cd07349 145 PDVPGLTASSHVGHLQQEAQWALCEVLEPLHPQDQGRFARILLTASTLKSIPPSLITDLFFRPIIGDADIAELLGDML 222 (222)
T ss_pred CCcccCCCHHHHHHHHHHHHHHHHHHHHHHCCCcccHHHHHHHHhHHHhcCCHHHHHHHhCccccCCCcHHHHHHHhC
Confidence 589999999999999999999999999999999999999999999999999999999999999999999999999985
No 6
>cd07069 NR_LBD_Lrh-1 The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,. The ligand binding domain (LBD) of the liver receptor homolog-1 (LRH-1): LRH-1 belongs to nuclear hormone receptor superfamily, and is expressed mainly in the liver, intestine, exocrine pancreas, and ovary. Most nuclear receptors function as homodimer or heterodimers. However, LRH-1 binds DNA as a monomer, and is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. Recently, phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, LRH-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.86 E-value=1.9e-21 Score=134.80 Aligned_cols=82 Identities=37% Similarity=0.645 Sum_probs=79.8
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
+|+|||.+..+|+++|++++.||++|+..++|+++.||++||++||+||+++..+++++||++..|.+++++|+.||+.+
T Consensus 159 pd~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf~kLLl~Lp~LR~is~~~~e~l~~~~l~g~~~~~~Ll~Eml~~ 238 (241)
T cd07069 159 LDVKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEEYLYYKHLNGDVPYNNLLIEMLHA 238 (241)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHhHHHHHhhHHHHHHHHhccccCCCcHHHHHHHHHhc
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CC
Q psy7203 81 GS 82 (92)
Q Consensus 81 ~~ 82 (92)
++
T Consensus 239 ~~ 240 (241)
T cd07069 239 KR 240 (241)
T ss_pred cc
Confidence 74
No 7
>cd07071 NR_LBD_Nurr1 The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of nuclear receptor Nurr1: Nurr1 belongs to the conserved family of nuclear receptors. It is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Nurr1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.85 E-value=3.5e-21 Score=133.37 Aligned_cols=83 Identities=27% Similarity=0.455 Sum_probs=77.8
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhC--CCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQY--PSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~--p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
+|++||++..+|+++||+++.||++|+.+++ |+++.||+|||++||+||+++.++++++|+.|+.|.+++++|+.|||
T Consensus 153 ~D~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~p~~~~rf~kLLl~Lp~LRsl~~~~~e~l~~~k~~~~~p~~~Ll~e~~ 232 (238)
T cd07071 153 TERHGLKEPKRVEELQNKIVNCLKDHVTFNNGGLNRPNYLSKLLGKLPELRTLCTQGLQRIFYLKLEDLVPPPAIIDKLF 232 (238)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCcccHHHHHHHHhHHHHHHHHHHHHHHHHHHcCCCCCCcHHHHHHH
Confidence 4899999999999999999999999999774 68999999999999999999999999999999999999999999999
Q ss_pred hCCCC
Q psy7203 79 LSGSS 83 (92)
Q Consensus 79 ~~~~~ 83 (92)
.+.-+
T Consensus 233 ~~~~~ 237 (238)
T cd07071 233 LDTLP 237 (238)
T ss_pred HhhCC
Confidence 76543
No 8
>cd07070 NR_LBD_SF-1 The ligand binding domain of nuclear receptor steroidogenic factor 1, a member of nuclear receptor superfamily. The ligand binding domain of nuclear receptor steroidogenic factor 1 (SF-1): SF-1, a member of the nuclear hormone receptor superfamily, is an essential regulator of endocrine development and function and is considered a master regulator of reproduction. Most nuclear receptors function as homodimer or heterodimers, however SF-1 binds to its target genes as a monomer, recognizing the variations of the DNA sequence motif, T/CCA AGGTCA. SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been determined as potential ligands of SF-1. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, SF-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.85 E-value=4e-21 Score=132.80 Aligned_cols=81 Identities=33% Similarity=0.460 Sum_probs=78.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
+|++||.+...|+++|+++..||.+|+..+||+.+.||++||++||+||+++.++++++||.+..|.+++++|+.||+.+
T Consensus 157 pd~~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~Rf~kLLl~Lp~LRsis~~~~e~l~~~~l~g~~~~~~Ll~eml~~ 236 (237)
T cd07070 157 LDVKFLNNHSLVKDAQEKANAALLDYTLCHYPHCGDKFQQLLLRLVEVRALSMQAKEYLYHKHLGNEMPRNNLLIEMLQA 236 (237)
T ss_pred CCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchHHHHHHHHhHHHHHhhHHHHHHHHHhcccCCCcHHHHHHHHhcC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred C
Q psy7203 81 G 81 (92)
Q Consensus 81 ~ 81 (92)
+
T Consensus 237 ~ 237 (237)
T cd07070 237 K 237 (237)
T ss_pred C
Confidence 4
No 9
>cd07072 NR_LBD_DHR38_like Ligand binding domain of DHR38_like proteins, members of the nuclear receptor superfamily. The ligand binding domain of nuclear receptor DHR38_like proteins: DHR38 is a member of the steroid receptor superfamily in Drosophila. DHR38 interacts with the USP component of the ecdysone receptor complex, suggesting that DHR38 might modulate ecdysone-triggered signals in the fly, in addition to the ECR/USP pathway. At least four differentially expressed mRNA isoforms have been detected during development. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR38 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.85 E-value=7.6e-21 Score=131.76 Aligned_cols=84 Identities=29% Similarity=0.513 Sum_probs=78.1
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhC--CCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQY--PSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~--p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
+||+||++.++|+++|++++.+|++|+..++ |+++.||+|||++||+||+++.++++++|+.|+.|.+++++|+.|||
T Consensus 154 ~dr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~rf~kLLl~Lp~LRsl~~~~~e~lf~~k~~~~~p~~~Ll~Em~ 233 (239)
T cd07072 154 TERHGLKEPHKVEQLQMKIISSLRDHVTYNAEAQKKPHYFSRLLGKLPELRSLSVQGLQRIFYLKLEDLVPAPPLIENMF 233 (239)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHhHHHHhhHHHHHHHHHHHHcCCCCCCcHHHHHHH
Confidence 3899999999999999999999999998765 46889999999999999999999999999999999999999999999
Q ss_pred hCCCCC
Q psy7203 79 LSGSSF 84 (92)
Q Consensus 79 ~~~~~~ 84 (92)
.+.-+|
T Consensus 234 ~~~~~~ 239 (239)
T cd07072 234 VASLPF 239 (239)
T ss_pred hccCCC
Confidence 876543
No 10
>cd06949 NR_LBD_ER Ligand binding domain of Estrogen receptor, which are activated by the hormone 17beta-estradiol (estrogen). The ligand binding domain (LBD) of Estrogen receptor (ER): Estrogen receptor, a member of nuclear receptor superfamily, is activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well conserved DNA binding domain (DBD), a variable N-terminal doma
Probab=99.84 E-value=1.5e-20 Score=129.79 Aligned_cols=80 Identities=26% Similarity=0.375 Sum_probs=77.5
Q ss_pred CCCCC-----CCChhHHHHHHHHHHHHHHHHHHhhC---CCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhH
Q psy7203 1 MDACG-----LSDVSHIESLQEKSQCALEEYCRTQY---PSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIET 72 (92)
Q Consensus 1 ~Dr~g-----L~~~~~V~~lQe~~~~aL~~~v~~~~---p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~ 72 (92)
+|++| +++..+|+++|++++.+|++|+.++| |+++.||++||++||+||+++.+++++++++|..|.+++++
T Consensus 147 pd~~g~~~~~l~~~~~Ve~lq~~~~~aL~~y~~~~~~~~p~~~~Rf~~LLl~Lp~LR~l~~~~~e~l~~~k~~~~~~~~~ 226 (235)
T cd06949 147 SSVYTFLLESLESRRQVQRLLDKITDALVHACSKRGLSLQQQSRRLAQLLLILSHIRHVSNKGMEHLYSMKCKNVVPLYD 226 (235)
T ss_pred CCcCCcccccccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCcccHHHHHHHhchHHHHhhHHHHHHHHHHHhCCCCChHH
Confidence 58899 99999999999999999999999999 89999999999999999999999999999999999999999
Q ss_pred HHHHHHhC
Q psy7203 73 LIRDMLLS 80 (92)
Q Consensus 73 Ll~Eml~~ 80 (92)
|+.|||++
T Consensus 227 Ll~Eml~~ 234 (235)
T cd06949 227 LLLEMLDA 234 (235)
T ss_pred HHHHHhcC
Confidence 99999975
No 11
>cd06932 NR_LBD_PPAR The ligand binding domain of peroxisome proliferator-activated receptors. The ligand binding domain (LBD) of peroxisome proliferator-activated receptors (PPAR): Peroxisome proliferator-activated receptors (PPARs) are members of the nuclear receptor superfamily of ligand-activated transcription factors. PPARs play important roles in regulating cellular differentiation, development and lipid metabolism. Activated PPAR forms a heterodimer with the retinoid X receptor (RXR) that binds to the hormone response element located upstream of the peroxisome proliferator responsive genes and interacts with co-activators. There are three subtypes of peroxisome proliferator activated receptors, alpha, beta (or delta), and gamma, each with a distinct tissue distribution. Several essential fatty acids, oxidized lipids and prostaglandin J derivatives can bind and activate PPAR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, P
Probab=99.83 E-value=1.6e-20 Score=131.30 Aligned_cols=80 Identities=23% Similarity=0.347 Sum_probs=75.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhh-cCCCChhHHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRL-VGKTPIETLIRDMLL 79 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~-~g~~~i~~Ll~Eml~ 79 (92)
+||+||.+..+|+++||+++.||+.|+..+||+.+.||++||++||+||+++.+|++++++++. .+..++++|+.|||+
T Consensus 178 pDr~gL~~~~~Ve~lQe~~~~aL~~~i~~~~p~~~~rf~kLLl~L~~LRsl~~~~~e~l~~~k~~~~~~~~~pLl~Ei~~ 257 (259)
T cd06932 178 PDRPGLINRKPVERIQEHVLQALELQLKKNHPDSPQLFAKLLQKMVDLRQLVTDHVQMVQQIKKTETDASLPPLLQEIYK 257 (259)
T ss_pred CCcccCcCHHHHHHHHHHHHHHHHHHHhhhCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCcHHHHHhh
Confidence 5999999999999999999999999999999999999999999999999999999999998774 567899999999996
Q ss_pred C
Q psy7203 80 S 80 (92)
Q Consensus 80 ~ 80 (92)
.
T Consensus 258 ~ 258 (259)
T cd06932 258 D 258 (259)
T ss_pred c
Confidence 4
No 12
>cd07350 NR_LBD_Dax1 The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the DAX1 protein: DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) is a nuclear receptor with a typical ligand binding domain, but lacks the DNA binding domain. DAX1 plays an important role in the normal development of several hormone-producing tissues. Duplications of the region of the X chromosome containing DAX1 cause dosage sensitive sex reversal. DAX1 acts as a global repressor of many nuclear receptors, including SF-1, LRH-1, ERR, ER, AR and PR. DAX1 can form homodimer and heterodimerizes with its alternatively spliced isoform DAX1A and other nuclear receptors such as SHP, ERalpha and SF-1.
Probab=99.83 E-value=1.5e-20 Score=129.72 Aligned_cols=76 Identities=33% Similarity=0.481 Sum_probs=74.0
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRD 76 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~E 76 (92)
+|++||++..+|+++|++++.+|++|+..+||+++.||+|||++||+||+++.+.+|++||++++|.++|++|+.|
T Consensus 157 pD~~~L~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~rf~kLLl~Lp~LRsi~~~~iE~lff~~l~g~v~i~~ll~E 232 (232)
T cd07350 157 PDLPGLQCVQYIQGLQWEAQQALNEHVRMIHRGDQARFAKLNIALSLLRAINANVIAELFFRPIIGTVNMDDMLLE 232 (232)
T ss_pred CCcccCCCHHHHHHHHHHHHHHHHHHHHhhCCChhhHHHHHHHHhHHHHccCHHHHHHHhccccCCCCcHHHHhcC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999999875
No 13
>cd06944 NR_LBD_Ftz-F1_like The ligand binding domain of FTZ-F1 like nuclear receptors. The ligand binding domain of FTZ-F1 like nuclear receptors: This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which required at several stages of development. Particularly, FTZ-F1 genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. SF-1 is an essential regulator of endocrine development and function and is considered a master regulator of reproduction; SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). However, the ligand for FTZ-F1 has not
Probab=99.82 E-value=4.3e-20 Score=127.60 Aligned_cols=81 Identities=40% Similarity=0.651 Sum_probs=78.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
+|++||++...|+++|+++..||.+|+..+||+.+.||++||++||+||+++.++++++|+.+..|.+++++|+.||+++
T Consensus 157 pd~~gL~~~~~Ve~~q~~~~~aL~~y~~~~~~~~~~Rf~~LL~~Lp~Lr~is~~~~e~l~~~~l~g~~~~~~Ll~eml~~ 236 (237)
T cd06944 157 PDVKGLENRQLVESVQEQVNAALLDYTLCNYPQQTDKFGQLLLRLPEIRAISMQAEEYLYYKHLNGEVPCNNLLIEMLHA 236 (237)
T ss_pred CCcCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHhHHHHHHHHHHHHHHHhcccCCCCcHHHHHHHHHcC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred C
Q psy7203 81 G 81 (92)
Q Consensus 81 ~ 81 (92)
+
T Consensus 237 ~ 237 (237)
T cd06944 237 K 237 (237)
T ss_pred C
Confidence 4
No 14
>cd06951 NR_LBD_Dax1_like The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of DAX1-like proteins: This orphan nuclear receptor family includes DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) and the Small Heterodimer Partner (SHP). Both receptors have a typical ligand binding domain, but lack the DNA binding domain, typical to almost all of the nuclear receptors. They function as a transcriptional coregulator by directly interacting with other nuclear receptors. DAX1 and SHP can form heterodimers with each other, as well as with many other nuclear receptors. In addition, DAX1 can also form homodimers. DAX1 plays an important role in the normal development of several hormone-producing tissues. SHP has shown to regulate a variety of target genes.
Probab=99.82 E-value=2.5e-20 Score=127.81 Aligned_cols=75 Identities=28% Similarity=0.397 Sum_probs=72.7
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRD 76 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~E 76 (92)
+|++|+ +..+|+++|++++.+|++|+..+||+++.||+|||++||+||+++.+.++++||.+++|.++|++++.|
T Consensus 148 pD~~gl-~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf~kLLl~Lp~LRsl~~~~~e~lff~~~~g~~~i~~ll~~ 222 (222)
T cd06951 148 PVPPLL-CPHYIEALQKEAQQALNEHTMMTRPLEQLRSARLLLMLSLLRGIKTEPVTELFFRPIIGNVSMDDVLLQ 222 (222)
T ss_pred CCCCcc-CHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHHhhcCCHHHHHHHhCccccCCCcHHHHhcC
Confidence 599999 999999999999999999999999999999999999999999999999999999999999999999864
No 15
>cd06935 NR_LBD_TR The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors. The ligand binding domain (LBD) of thyroid hormone receptors: Thyroid hormone receptors are members of a superfamily of nuclear receptors. Thyroid hormone receptors (TR) mediate the actions of thyroid hormones, which play critical roles in growth, development, and homeostasis in mammals. They regulate overall metabolic rate, cholesterol and triglyceride levels, and heart rate, and affect mood. TRs are expressed from two separate genes (alpha and beta) in human and each gene generates two isoforms of the receptor through differential promoter usage or splicing. TRalpha functions in the heart to regulate heart rate and rhythm and TRbeta is active in the liver and other tissues. The unliganded TRs function as transcription repressors, by binding to thyroid hormone response elements (TRE) predominantly as homodimers, or as heterodimers with retinoid X-receptors (RXR), a
Probab=99.81 E-value=6.2e-20 Score=127.30 Aligned_cols=77 Identities=25% Similarity=0.361 Sum_probs=74.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCCh-hHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPI-ETLIRDM 77 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i-~~Ll~Em 77 (92)
+|||||++..+|+++|+.+..||++|+..++|+.+.||+|||++||+||+++.++++++++.|..|+.++ ++|+.||
T Consensus 166 pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~rf~kLL~~L~~LR~i~~~~~e~l~~~k~~~~~~~~~~L~~Em 243 (243)
T cd06935 166 SDRPGLACVERIEKLQDSFLLAFEHYINYRKHHVPHFWPKLLMKVTDLRMIGACHASRFLHMKVECPTELFPPLFLEV 243 (243)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCChhhhcC
Confidence 5999999999999999999999999999999999999999999999999999999999999999999885 9999986
No 16
>cd06941 NR_LBD_DmE78_like The ligand binding domain of Drosophila ecdysone-induced protein 78, a member of the nuclear receptor superfamily. The ligand binding domain (LBD) of Drosophila ecdysone-induced protein 78 (E78) like: Drosophila ecdysone-induced protein 78 (E78) is a transcription factor belonging to the nuclear receptor superfamily. E78 is a product of the ecdysone-inducible gene found in an early late puff locus at position 78C during the onset of Drosophila metamorphosis. Two isoforms of E78, E78A and E78B, are expressed from two nested transcription units. An E78 orthologue from the Platyhelminth Schistosoma mansoni (SmE78) has also been identified. It is the first E78 orthologue known outside of the molting animals--the Ecdysozoa. SmE78 may be involved in transduction of an ecdysone signal in S. mansoni, consistent with its function in Drosophila. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, E78-like receptors ha
Probab=99.80 E-value=2.8e-19 Score=120.05 Aligned_cols=79 Identities=22% Similarity=0.300 Sum_probs=73.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhh-hhhcCCCChhHHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFF-VRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~-~~~~g~~~i~~Ll~Eml~ 79 (92)
+|++||.+..+|+++|+.+..+|++|+.+++|+.+.||++||++||+||+++.+|+++++. +...+..++++|+.|||+
T Consensus 116 pd~~gl~~~~~Ve~lq~~~~~aL~~~i~~~~p~~~~rf~~Ll~~Lp~Lr~l~~~~~e~l~~~~~~~~~~~~p~L~~E~~~ 195 (195)
T cd06941 116 PDRIGLSEPKKVAILQDRVLEALKVQVSRNRPAEAQLFASLLMKIPELRSIGAKHQMHLDWYRVNWPLLRLPPLFAEIYD 195 (195)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHhHHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHhcC
Confidence 5899999999999999999999999999999999999999999999999999999999984 444566899999999986
No 17
>cd06939 NR_LBD_ROR_like The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily. The ligand binding domain (LBD) of Retinoid-related orphan receptors (RORs): Retinoid-related orphan receptors (RORs) are transcription factors belonging to the nuclear receptor superfamily. RORs are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. Transcription regulation by RORs is mediated through certain corepressors, as well as coactivators. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma that differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum, particularly in the regulation of the maturation and survival of Purkinje cells. RORbeta expression is largely r
Probab=99.80 E-value=2e-19 Score=124.68 Aligned_cols=77 Identities=25% Similarity=0.355 Sum_probs=72.8
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCC----ChhHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKT----PIETLIRD 76 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~----~i~~Ll~E 76 (92)
+|||||++..+|+++|+.+..||++|+.++| +++.||++||++||+||+++.+|+++++++|..++. .++||+.|
T Consensus 161 pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~-~~~~rf~kLL~~Lp~LR~l~~~~~e~l~~~k~~~p~~~~~~~ppL~~E 239 (241)
T cd06939 161 ADRPGLQEKRKVEKLQQKIELALRHVLQKNH-GDDTILTKLLAKMPTLRALCSLHMEKLQKFKQSYPDIVHLEFPPLYKE 239 (241)
T ss_pred CCCcCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcccCCCCcHHHh
Confidence 6999999999999999999999999999998 899999999999999999999999999999998544 68999999
Q ss_pred HH
Q psy7203 77 ML 78 (92)
Q Consensus 77 ml 78 (92)
||
T Consensus 240 lf 241 (241)
T cd06939 240 LF 241 (241)
T ss_pred hC
Confidence 86
No 18
>cd06933 NR_LBD_VDR The ligand binding domain of vitamin D receptors, a member of the nuclear receptor superfamily. The ligand binding domain of vitamin D receptors (VDR): VDR is a member of the nuclear receptor (NR) superfamily that functions as classical endocrine receptors. VDR controls a wide range of biological activities including calcium metabolism, cell proliferation and differentiation, and immunomodulation. VDR is a high affinity receptor for the biologically most active Vitamin D metabolite, 1alpha,25-dihydroxyvitamin D3 (1alpha,25(OH)2D3). The binding of the ligand to the receptor induces a conformational change of the ligand binding domain (LBD) with consequent dissociation of corepressors. Upon ligand binding, VDR forms heterodimer with the retinoid X receptor (RXR) that binds to vitamin D response elements (VDREs), recruits coactivators. This leads to the expression of a large number of genes. Approximately 200 human genes are considered to be primary targets of VDR and
Probab=99.79 E-value=6.9e-19 Score=121.74 Aligned_cols=81 Identities=20% Similarity=0.356 Sum_probs=71.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCC--CchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcC--CCChhHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYP--SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVG--KTPIETLIRD 76 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p--~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g--~~~i~~Ll~E 76 (92)
+||+||++..+|+++||++..||++|+..+|| +++.||+|||++||+||+++.+|.+.+...+..+ +.+++||+.|
T Consensus 153 pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~~~~f~kLLl~L~~LRsi~~~h~~~~~~~~~~~~~~~~~~pL~~E 232 (238)
T cd06933 153 PDRPGVQDHALIEAIQDRLSDTLQTYIRCRHPPPGSRLLYAKMIQKLADLRSLNEEHSKQYRSLSFQPEHSMKLTPLVLE 232 (238)
T ss_pred CCCCCCcchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHhHHHHhhhHHHHHHHHHHHhccCCCCCCCcHHHH
Confidence 59999999999999999999999999999987 4566899999999999999999999987655543 4469999999
Q ss_pred HHhCC
Q psy7203 77 MLLSG 81 (92)
Q Consensus 77 ml~~~ 81 (92)
||+..
T Consensus 233 i~~~~ 237 (238)
T cd06933 233 VFGNE 237 (238)
T ss_pred HhccC
Confidence 99753
No 19
>cd07068 NR_LBD_ER_like The ligand binding domain of estrogen receptor and estrogen receptor-related receptors. The ligand binding domain of estrogen receptor (ER) and estrogen receptor-related receptors (ERRs): Estrogen receptors are a group of receptors which are activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. ERRs are closely related to the estrogen receptor (ER) family. But, it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signalin
Probab=99.78 E-value=1.5e-18 Score=118.67 Aligned_cols=80 Identities=31% Similarity=0.434 Sum_probs=77.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCC-CchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYP-SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p-~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
+|++||++...|++.|+++..+|..|+..+|| +.+.||++||+++|.||+++.++++++++.|..|.+++++|+.||+.
T Consensus 141 pd~~~L~~~~~V~~~q~~~~~aL~~y~~~~~~~~~~~Rf~~LL~~l~~Lr~~~~~~~e~l~~~k~~~~~~~~~Ll~e~l~ 220 (221)
T cd07068 141 SDVRHLEDREAVQQLRDAILDALVDVEAKRHGSQQPRRLAQLLLLLPHLRQASNKGVRHLYSVKCEGKVPMYKLFLEMLE 220 (221)
T ss_pred CCccCccCHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHhc
Confidence 58999999999999999999999999999999 99999999999999999999999999999999999999999999996
Q ss_pred C
Q psy7203 80 S 80 (92)
Q Consensus 80 ~ 80 (92)
+
T Consensus 221 ~ 221 (221)
T cd07068 221 A 221 (221)
T ss_pred C
Confidence 4
No 20
>cd06946 NR_LBD_ERR The ligand binding domain of estrogen receptor-related nuclear receptors. The ligand binding domain of estrogen receptor-related receptors (ERRs): The family of estrogen receptor-related receptors (ERRs), a subfamily of nuclear receptors, is closely related to the estrogen receptor (ER) family, but it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signaling pathway, positively or negatively. ERRs share target genes, co-regulators and promoters with the estrogen receptor (ER) family. There are three subtypes of ERRs: alpha, beta and gamma. ERRs bind at least two types of DNA sequence, the estrogen response element and another site, originally characterized as SF-1 (steroidogenic factor 1) response element. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ERR has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-
Probab=99.76 E-value=4.5e-18 Score=116.20 Aligned_cols=80 Identities=31% Similarity=0.491 Sum_probs=76.8
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCC-CchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYP-SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p-~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
+|++|+++..+|+++|+++..||.+|+..+|| +.+.||++||+++|.||+++.++++++++.+..|.+++++|+.||++
T Consensus 141 pd~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~p~Rf~~LL~~l~~Lr~~~~~~~e~l~~~~~~~~~~~~~Ll~eml~ 220 (221)
T cd06946 141 SDSVHIEDVEAVRQLRDALLEALSDYEAGRHPGEAPRRAGQLLLTLPLLRQTDGKARRFFYGVKREGKVPMHKLFLEMLE 220 (221)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHhhchhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHhc
Confidence 57899999999999999999999999999999 78999999999999999999999999999999999999999999996
Q ss_pred C
Q psy7203 80 S 80 (92)
Q Consensus 80 ~ 80 (92)
+
T Consensus 221 ~ 221 (221)
T cd06946 221 A 221 (221)
T ss_pred C
Confidence 4
No 21
>cd06954 NR_LBD_LXR The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors. The ligand binding domain of Liver X receptors: Liver X receptors (LXRs) belong to a family of nuclear receptors of ligand-activated transcription factors. LXRs operate as cholesterol sensors which protect from cholesterol overload by stimulating reverse cholesterol transport from peripheral tissues to the liver and its excretion in the bile. Oxidized cholesterol derivatives or oxysterols were identified as specific ligands for LXRs. Upon ligand binding a conformational change leads to recruitment of co-factors, which stimulates expression of target genes. Among the LXR target genes are several genes involved in cholesterol efflux from peripheral tissues such as the ATP-binding-cassette transporters ABCA1, ABCG1 and ApoE. There are two LXR isoforms in mammals, LXRalpha and LXRbeta. LXRalpha is expressed mainly in the liver, intestine, kidney, splee
Probab=99.76 E-value=2.9e-18 Score=118.09 Aligned_cols=79 Identities=33% Similarity=0.463 Sum_probs=75.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
+|++||.+.++|+++|+.+..+|++|+..+||+++.||+++|++||+||+++..+++++++.+..+ .++++|+.|||+.
T Consensus 158 pd~~gL~~~~~V~~lQ~~~~~aL~~y~~~~~p~~~~rf~klL~~L~~Lr~l~~~~~e~l~~~k~~~-~~~~~L~~El~~~ 236 (236)
T cd06954 158 ADRPNVQDHHRVERLQETYVEALHSYIKIKRPSDRLMFPRMLMKLVSLRTLSSVHSEQVFALRLQD-KKLPPLLSEIWDV 236 (236)
T ss_pred CCcccCCCHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCcHHHHHhcC
Confidence 589999999999999999999999999999999999999999999999999999999999999865 6899999999973
No 22
>cd06952 NR_LBD_TR2_like The ligand binding domain of the orphan nuclear receptors TR4 and TR2. The ligand binding domain of the TR4 and TR2 (human testicular receptor 4 and 2): TR4 and TR2 are orphan nuclear receptors. Several isoforms of TR4 and TR2 have been isolated in various tissues. TR2 is abundantly expressed in the androgen-sensitive prostate. TR4 transcripts are expressed in many tissues, including central nervous system, adrenal gland, spleen, thyroid gland, and prostate. The expression of TR2 is negatively regulated by androgen, retinoids, and radiation. The expression of both mouse TR2 and TR4 is up-regulated by neurocytokine ciliary neurotrophic factor (CNTF) in mouse. It has shown that human TR2 binds to a wide spectrum of natural hormone response elements (HREs) with distinct affinities suggesting that TR2 may cross-talk with other gene expression regulation systems. The genes responding to TR2 or TR4 include genes that are regulated by retinoic acid receptor, vitamin D
Probab=99.75 E-value=6.1e-18 Score=115.53 Aligned_cols=79 Identities=41% Similarity=0.656 Sum_probs=76.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
+|++|+++...|+++|++++.+|++|+..++|+++.||++||++||+||+++.++++++++.+++|.+++++++..++.
T Consensus 143 ~d~~~l~~~~~v~~lq~~i~~aL~~y~~~~~p~~~~R~~klLl~Lp~Lr~~~~~~~e~l~~~~~~g~~~~~~ll~~~~~ 221 (222)
T cd06952 143 PDHPGQELRQQIEKLQEKALMELRDYVGKTYPEDEYRLSKLLLRLPPLRSLSPAITEELFFAGLIGNVQIDSVIPYILR 221 (222)
T ss_pred CCCcCCcCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHhHHhhhcCHHHHHHHhcccccCCCcHHHHHHHHHh
Confidence 5899999999999999999999999999899999999999999999999999999999999999999999999999874
No 23
>cd06936 NR_LBD_Fxr The ligand binding domain of Farnesoid X receptor:a member of the nuclear receptor superfamily of ligand-activated transcription factors. The ligand binding domain (LBD) of Farnesoid X receptor: Farnesoid X receptor (FXR) is a member of the nuclear receptor superfamily of ligand-activated transcription factors. FXR is highly expressed in the liver, the intestine, the kidney, and the adrenals. FXR plays key roles in the regulation of bile acid, cholesterol, triglyceride, and glucose metabolism. Evidences show that it also regulates liver regeneration. Upon binding of ligands, such as bile acid, an endogenous ligand, FXRs bind to FXR response elements (FXREs) either as a monomer or as a heterodimer with retinoid X receptor (RXR), and regulate the expression of various genes involved in bile acid, lipid, and glucose metabolism. There are two FXR genes (FXRalpha and FXRbeta) in mammals. A single FXRalpha gene encodes four isoforms resulting from differential use of prom
Probab=99.74 E-value=5.6e-18 Score=116.05 Aligned_cols=75 Identities=29% Similarity=0.390 Sum_probs=71.4
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRD 76 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~E 76 (92)
+|++||++...|+++|+.+..||++|+..+||+++.||++||++||+||+++..|+++++++|+.. .+++||+.|
T Consensus 147 pd~~gL~~~~~Ve~~Q~~~~~aL~~y~~~~~p~~p~rf~~LL~~L~~LR~l~~~~~e~l~~~k~~~-~~~~pl~~e 221 (221)
T cd06936 147 PDRPYLKDKEAVEKLQEPLLDLLQKFCKLYHPEDPQHFACLLGRLTELRTLNHHHAEMLMSWKVND-HKFTPLLCE 221 (221)
T ss_pred CCCcCCCCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHccC-CCCCccccC
Confidence 589999999999999999999999999999999999999999999999999999999999999985 579999875
No 24
>cd07073 NR_LBD_AR Ligand binding domain of the nuclear receptor androgen receptor, ligand activated transcription regulator. The ligand binding domain of the androgen receptor (AR): AR is a member of the nuclear receptor family. It is activated by binding either of the androgenic hormones, testosterone or dihydrotestosterone, which are responsible for male primary sexual characteristics and for secondary male characteristics, respectively. The primary mechanism of action of ARs is by direct regulation of gene transcription. The binding of an androgen results in a conformational change in the androgen receptor which causes its transport from the cytosol into the cell nucleus, and dimerization. The receptor dimer binds to a hormone response element of AR-regulated genes and modulates their expression. Another mode of action is independent of their interactions with DNA. The receptors interact directly with signal transduction proteins in the cytoplasm, causing rapid changes in cell funct
Probab=99.74 E-value=1.3e-17 Score=116.12 Aligned_cols=80 Identities=16% Similarity=0.222 Sum_probs=70.4
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhC---CCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCC-----ChhHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQY---PSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKT-----PIETL 73 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~---p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~-----~i~~L 73 (92)
|++||++..+|+++||+++.||.+|+.+++ |+.+.||++||++||+||+++.++ .+||.+++|.. +++||
T Consensus 146 d~~gL~~~~~Ve~lQe~~~~aL~~yi~~~~~~~~~~~~Rf~kLLl~Lp~LRsi~~~~--~~~~~~l~~~~~~~~~~~~pl 223 (246)
T cd07073 146 PVDGLKNQKFFDELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIAREL--HQFTFDLLIKSHMVSVDFPEM 223 (246)
T ss_pred CcccccCHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHH--HHHHHHHhCccccCccCccHH
Confidence 789999999999999999999999998774 356899999999999999999998 66777776654 79999
Q ss_pred HHHHHhCCCC
Q psy7203 74 IRDMLLSGSS 83 (92)
Q Consensus 74 l~Eml~~~~~ 83 (92)
+.|||+...+
T Consensus 224 l~ei~~~~~~ 233 (246)
T cd07073 224 MAEIISVQVP 233 (246)
T ss_pred HHHHHHhccc
Confidence 9999997643
No 25
>cd06938 NR_LBD_EcR The ligand binding domain (LBD) of the Ecdysone receptor, a member of the nuclear receptors super family. The ligand binding domain (LBD) of the ecdysone receptor: The ecdysone receptor (EcR) belongs to the superfamily of nuclear receptors (NRs) of ligand-dependent transcription factors. Ecdysone receptor is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. ECR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of ecdysone receptor are ecdysteroids#the endogenous steroidal hormones found in invertebrates. In addition, insecticide bisacylhydrazine used against pests has shown to act on EcR. EcR must be dimerised with a USP for high-affinity ligand binding to occur. The ligand binding triggers a conformational change in the C-terminal part of the EcR ligand-binding domain that leads to transcript
Probab=99.73 E-value=1.6e-17 Score=114.36 Aligned_cols=78 Identities=29% Similarity=0.391 Sum_probs=74.4
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCCC-chhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYPS-QPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~-~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
|++||++...|+++|+.+..+|+.|+..+||. .+.||++||++|++||+++..+++++++.|.. ..+++||+.|||+.
T Consensus 153 d~~~L~~~~~Ve~~Q~~~~~aL~~y~~~~~~~~~~~rf~kLL~~L~~Lr~l~~~~~e~~~~~k~~-~~~~~pl~~Ei~d~ 231 (231)
T cd06938 153 DRPGLLQPKKVEKIQEIYLEALRAYVDNRRPPSQRVIFAKLLSILTELRTLGNQNSEMCFSLKLK-NRKLPPFLAEIWDV 231 (231)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCCcHHHHHhCC
Confidence 78999999999999999999999999999987 89999999999999999999999999999998 66899999999973
No 26
>cd06947 NR_LBD_GR_Like Ligand binding domain of nuclear hormone receptors:glucocorticoid receptor, mineralocorticoid receptor , progesterone receptor, and androgen receptor. The ligand binding domain of GR_like nuclear receptors: This family of NRs includes four distinct, but closely related nuclear hormone receptors: glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), and androgen receptor (AR). These four receptors play key roles in some of the most fundamental physiological functions such as the stress response, metabolism, electrolyte homeostasis, immune function, growth, development, and reproduction. The NRs in this family use multiple signaling pathways and share similar functional mechanisms. The dominant signaling pathway is via direct DNA binding and transcriptional regulation of target genes. Another mechanism is via protein-protein interactions, mainly with other transcription factors such as nuclear factor-kappaB and activator prote
Probab=99.73 E-value=2.4e-17 Score=114.73 Aligned_cols=82 Identities=11% Similarity=0.137 Sum_probs=73.2
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCC---CchhhHHHHHhhchhhhhhcHHHHHHhhhhhh---cCCCChhHHHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYP---SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRL---VGKTPIETLIR 75 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p---~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~---~g~~~i~~Ll~ 75 (92)
|++||++..+|+++||+++.||++|+.+++| +.+.||++||++||.||+++.+.+++++.... .+.+++++|+.
T Consensus 146 d~~gL~~~~~Ve~lqe~i~~AL~~yi~~~~~~~~~~~~Rf~kLLllLp~Lr~i~~~~~e~~~~~~~~~~~~~v~~~~ll~ 225 (246)
T cd06947 146 PKDGLKSQAAFDEMRMNYIKELRKAIVKREKNSSQSWQRFYQLTKLLDSMHDLVKNLLQFCFYTFIQSHALSVEFPEMLV 225 (246)
T ss_pred ccccccCHHHHHHHHHHHHHHHHHHHHHhCCCCcccchHHHHHHHhhhhHHHHHHHHHHHHHHHHhhcCCCccccHHHHH
Confidence 6899999999999999999999999998874 55899999999999999999999999987733 33578999999
Q ss_pred HHHhCCCC
Q psy7203 76 DMLLSGSS 83 (92)
Q Consensus 76 Eml~~~~~ 83 (92)
|||++..+
T Consensus 226 ei~~~~~~ 233 (246)
T cd06947 226 EIISDQLP 233 (246)
T ss_pred HHHHcccc
Confidence 99998754
No 27
>cd07076 NR_LBD_GR Ligand binding domain of the glucocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the glucocorticoid receptor (GR): GR is a ligand-activated transcription factor belonging to the nuclear receptor superfamily. It binds with high affinity to cortisol and other glucocorticoids. GR is expressed in almost every cell in the body and regulates genes controlling a wide variety of processes including the development, metabolism, and immune response of the organism. In the absence of hormone, the glucocorticoid receptor (GR) is complexes with a variety of heat shock proteins in the cytosol. The binding of the glucocorticoids results in release of the heat shock proteins and transforms it to its active state. One mechanism of action of GR is by direct activation of gene transcription. The activated form of GR forms dimers, translocates into the nucleus, and binds to specific hormone responsive elements, activating gene transcription
Probab=99.71 E-value=3.5e-17 Score=114.01 Aligned_cols=76 Identities=16% Similarity=0.163 Sum_probs=68.4
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchh---hHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPI---RFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~---rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
|++||++..+|+++|++++.+|.+||..++|+.++ ||++||++||.||+++.++++ ||++.+|+.++..++.||+
T Consensus 146 d~~GL~~~~~Ve~lqe~~~~aL~~yi~~~~p~~~~~~~RF~kLLllLp~Lr~i~~~~~e--f~~~~~~~~~~~~~~~~ml 223 (247)
T cd07076 146 PKDGLKSQELFDEIRMTYIKELGKAIVKREGNSSQNWQRFYQLTKLLDSMHEVVENLLN--FCFQTFLDKTMSIEFPEML 223 (247)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchhhhHHHHHHHHHHHHHHHHHHHHH--HHHHHhcccchhhhhHHHH
Confidence 89999999999999999999999999999987554 999999999999999999999 8889999987766666665
Q ss_pred h
Q psy7203 79 L 79 (92)
Q Consensus 79 ~ 79 (92)
.
T Consensus 224 ~ 224 (247)
T cd07076 224 A 224 (247)
T ss_pred H
Confidence 4
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=99.70 E-value=3.4e-17 Score=112.56 Aligned_cols=75 Identities=25% Similarity=0.468 Sum_probs=65.7
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCch--hhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCC-hhHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQP--IRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTP-IETLIRDM 77 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~--~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~-i~~Ll~Em 77 (92)
+||+||++..+|+++|+++..||++|+..+||..+ .+|++||++||+||+++..|++++..++.. .+ ++||+.||
T Consensus 149 pDr~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~r~~f~kLLl~L~~LRsl~~~~~~~~~~~~~~--~~~~~pl~~Ei 226 (226)
T cd06934 149 PDRPGVTQHDVIDQLQEKMALTLKSYIDSKRPGPEKRFLYPKILACLTELRTINEEYTKQILHIQDI--QPMATPLMQEI 226 (226)
T ss_pred CCCcCCcChHHHHHHHHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhHHHhcchHHHHHHHHHHhcc--CCCCCchhhcC
Confidence 59999999999999999999999999999997654 459999999999999999999988654443 35 59999885
No 29
>cd06950 NR_LBD_Tlx_PNR_like The ligand binding domain of Tailless-like proteins, orphan nuclear receptors. The ligand binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like family: This family includes photoreceptor cell-specific nuclear receptor (PNR), Tailless (TLX), and related receptors. TLX is an orphan receptor that is expressed by neural stem/progenitor cells in the adult brain of the subventricular zone (SVZ) and the dentate gyrus (DG). It plays a key role in neural development by promoting cell cycle progression and preventing apoptosis in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX and PNR have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge
Probab=99.69 E-value=9.1e-17 Score=108.99 Aligned_cols=67 Identities=51% Similarity=0.843 Sum_probs=64.9
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCC
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGK 67 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~ 67 (92)
+|++||++..+|+++|++++.+|++|+..+||+++.||++||++||+||+++.+++|++||.+++|.
T Consensus 140 pd~~~L~~~~~Ve~lq~~~~~aL~~y~~~~~~~~~~Rf~kLLl~Lp~lr~ls~~~~e~l~~~~~~g~ 206 (206)
T cd06950 140 PETRGLKDPAQVEALQDQAQLMLNKHIRTRYPTQPARFGKLLLLLPSLRFISSSTIEELFFKKTIGN 206 (206)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHhhhHHHHHHHhccCcCCC
Confidence 5899999999999999999999999999999999999999999999999999999999999999884
No 30
>cd06940 NR_LBD_REV_ERB The ligand binding domain of REV-ERB receptors, members of the nuclear receptor superfamily. The ligand binding domain (LBD) of REV-ERB receptors: REV-ERBs are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. The LBD domain of REV-ERB is unusual in the nuclear receptor family by lacking the AF-2 region that is responsible for coactivator interaction. REV-ERBs act as constitutive repressors because of their inability to bind coactivators. REV-ERB receptors can bind to two classes of DNA response elements as either a monomer or heterodimer, indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target gene. The porphyrin heme has been demonstrated to function as a ligand for REV-ERB. Like other members of
Probab=99.67 E-value=1.7e-16 Score=106.50 Aligned_cols=64 Identities=38% Similarity=0.557 Sum_probs=61.7
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRL 64 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~ 64 (92)
+|++||++..+|+++|+.+..+|++|+.+++|+.+.||++||++||+||+++..|++++++.|.
T Consensus 126 pd~~~L~~~~~Ve~lq~~~~~aL~~~~~~~~p~~~~rf~kLL~~L~~LR~l~~~~~e~l~~~~~ 189 (189)
T cd06940 126 ADRSGLENVNLVEALQETLIRALRTLIAKNHPNEPSIFTKLLLKLPDLRTLNNLHSEKLLAFKV 189 (189)
T ss_pred CCCcCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 5999999999999999999999999999999999999999999999999999999999998863
No 31
>cd06943 NR_LBD_RXR_like The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily. The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, func
Probab=99.59 E-value=3.6e-15 Score=100.70 Aligned_cols=63 Identities=51% Similarity=0.867 Sum_probs=60.7
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVR 63 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~ 63 (92)
+|++||++...|+++|+++..+|++|+..++|+.+.||++||++||+||+++.+++++++|.|
T Consensus 145 pd~~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~L~~lr~l~~~~~e~l~~~~ 207 (207)
T cd06943 145 PDVKGLKSRQEVESLREKVYASLEEYCRQKHPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFK 207 (207)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHHHHHHHhHhHHHHHHHhhcC
Confidence 589999999999999999999999999999999999999999999999999999999999875
No 32
>cd06931 NR_LBD_HNF4_like The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes. The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal lig
Probab=99.58 E-value=6.1e-15 Score=100.59 Aligned_cols=77 Identities=42% Similarity=0.638 Sum_probs=74.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDM 77 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Em 77 (92)
+|++|+++.++|+++|+++..+|.+|+..++|+.+.||++||.++|.||+++..+++++++.++.|.+++++|+.||
T Consensus 146 p~~~~ls~~~~i~~~r~~~~~aL~~y~~~~~~~~~~Rf~~LL~~l~~lr~~~~~~~e~l~~~~lf~~~~~~~L~~e~ 222 (222)
T cd06931 146 PDAKGLSDPQKIKRLRFQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQSITWQMIEQIQFARLFGVAKIDNLLQEM 222 (222)
T ss_pred CCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCcHHHHHhhC
Confidence 57899999999999999999999999988899999999999999999999999999999999999999999999986
No 33
>cd07075 NR_LBD_MR Ligand binding domain of the mineralocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the mineralocorticoid receptor (MR): MR, also called aldosterone receptor, is a member of nuclear receptor superfamily involved in the regulation of electrolyte and fluid balance. The receptor is activated by mineralocorticoids such as aldosterone and deoxycorticosterone as well as glucocorticoids, like cortisol and cortisone. Binding of its ligand results in its translocation to the cell nucleus, homodimerization and binding to hormone response elements (HREs) present in the promoter of MR controlled genes. This results in the recruitment of the coactivators and the transcription of the activated genes. MR is expressed in many tissues and its activation results in the expression of proteins regulating electrolyte and fluid balance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, MR h
Probab=99.55 E-value=1.6e-14 Score=100.71 Aligned_cols=78 Identities=15% Similarity=0.182 Sum_probs=63.9
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCC---CchhhHHHHHhhchhhhhhcHHHHHHhhhhhhc-CCCCh--hHHHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYP---SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLV-GKTPI--ETLIR 75 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p---~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~-g~~~i--~~Ll~ 75 (92)
|++||++...|+++|++++.||++|+.++++ +.+.||++|+++||.||+++.+.+|++||.=.. +.+++ +..+.
T Consensus 146 ~~~gL~~~~~Ve~lqe~~~~aL~~yi~~~~~~~~~~~~RF~~LLllLp~Lr~i~~k~iE~lff~~~~~~~~~~~~~~~~~ 225 (248)
T cd07075 146 PKDGLKSQAAFEEMRTNYIKELRKMVTKAPNNSGQSWQRFYQLTKLLDSMHDLVSDLLEFCFYTFRESQALKVEFPAMLV 225 (248)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHccccceeeehHHHHH
Confidence 3799999999999999999999999997665 456899999999999999999999999876443 44444 44455
Q ss_pred HHHh
Q psy7203 76 DMLL 79 (92)
Q Consensus 76 Eml~ 79 (92)
|+..
T Consensus 226 ~~~~ 229 (248)
T cd07075 226 EIIS 229 (248)
T ss_pred HHHH
Confidence 4443
No 34
>cd06953 NR_LBD_DHR4_like The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4. The ligand binding domain of Ecdysone-induced receptor DHR4: Ecdysone-induced orphan receptor DHR4 is a member of the nuclear receptor family. DHR4 is expressed during the early Drosophila larval development and is induced by ecdysone. DHR4 coordinates growth and maturation in Drosophila by mediating endocrine response to the attainment of proper body size during larval development. Mutations in DHR4 result in shorter larval development which translates into smaller and lighter flies. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.44 E-value=3.9e-13 Score=91.67 Aligned_cols=59 Identities=34% Similarity=0.626 Sum_probs=56.2
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQL 59 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l 59 (92)
+|++||++.++|+++|+++..+|++|+..+||+.+.||++||++||+||+++.+.+|+-
T Consensus 145 pd~~gLs~~~~Ve~lQ~~~~~aL~~y~~~~~~~~p~Rf~~LL~~L~~Lr~l~~~~~e~~ 203 (213)
T cd06953 145 QDIDGLTNASQLESLQKRYWYVLQDFTELNYPNQPNRFSDLLSCLPEIRAAAGKLLHSK 203 (213)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHhHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999988854
No 35
>cd06942 NR_LBD_Sex_1_like The ligand binding domain of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein. The ligand binding domain (LBD) of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein like: Sex-1 protein of C. elegans is a transcription factor belonging to the nuclear receptor superfamily. Sex-1 plays pivotal role in sex fate of C. elegans by regulating the transcription of the sex-determination gene xol-1, which specifies male (XO) fate when active and hermaphrodite (XX) fate when inactive. The Sex-1 protein directly represses xol-1 transcription by binding to its promoter. However, the active ligand for Sex-1 protein has not yet been identified. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Sex-1 like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.39 E-value=9.7e-13 Score=88.20 Aligned_cols=73 Identities=15% Similarity=0.026 Sum_probs=63.8
Q ss_pred CC--CCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhh-hhhcCCCChhHHH
Q psy7203 1 MD--ACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFF-VRLVGKTPIETLI 74 (92)
Q Consensus 1 ~D--r~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~-~~~~g~~~i~~Ll 74 (92)
+| ++|+++.++|+++|+.+..+|..|+..+||+.+.||++|+.++++||+++..|.+.+.. .+.. +..++||+
T Consensus 115 pd~~~~~l~~~~~v~~~q~~l~~~L~~~~~~~~~~~~~rf~kLL~~l~~Lr~~~~~~~~~l~~~~~~~-~~~~ppl~ 190 (191)
T cd06942 115 PDSLGIQLEETAKSNLQLSVLFQFLKSVLFKDGEDTEQRLQKLFDILNRLRNMNKEHQNILADRDKRS-NLQLPPLY 190 (191)
T ss_pred CCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHccccCc-cCCCCCcc
Confidence 57 89999999999999999999999999999999999999999999999999999998775 2222 34566654
No 36
>cd06929 NR_LBD_F1 Ligand-binding domain of nuclear receptor family 1. Ligand-binding domain (LBD) of nuclear receptor (NR) family 1: This is one of the major subfamily of nuclear receptors, including thyroid receptor, retinoid acid receptor, ecdysone receptor, farnesoid X receptor, vitamin D receptor, and other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=99.33 E-value=3.3e-12 Score=83.70 Aligned_cols=59 Identities=41% Similarity=0.554 Sum_probs=56.1
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQL 59 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l 59 (92)
+|++||.+...|++.|+++..+|++|+..+||+.+.||++|++++|+||.++..+++.+
T Consensus 116 pd~~~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~Ll~~l~~lr~l~~~~~e~~ 174 (174)
T cd06929 116 PDRPGLQDVDTVEKLQERLLEALQRYLKVNHPDAPQMFAKLLKKLTELRTLNELHAELL 174 (174)
T ss_pred CCcccCcCHHHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHHHHhHHHHHHHHHHHhcC
Confidence 58899999999999999999999999999999999999999999999999999998753
No 37
>KOG4215|consensus
Probab=99.31 E-value=6e-12 Score=91.28 Aligned_cols=81 Identities=41% Similarity=0.689 Sum_probs=76.0
Q ss_pred CCCCCCCChh--HHHHHHHHHHHHHHHHHHhhCC-CchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHH
Q psy7203 1 MDACGLSDVS--HIESLQEKSQCALEEYCRTQYP-SQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDM 77 (92)
Q Consensus 1 ~Dr~gL~~~~--~V~~lQe~~~~aL~~~v~~~~p-~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Em 77 (92)
+|..||.+.. .|+.++.+++.+|.+||....| +.+.||++||++||.|.+|+...+|...+.|++|-+.|+.|+.|+
T Consensus 269 P~akGis~~s~~~I~~aR~~vl~sLe~yi~d~q~~d~~~R~g~LLLllPsLqsIt~qliE~iqlaklFGla~vDsll~e~ 348 (432)
T KOG4215|consen 269 PDAKGLSDPSQIRIREARNRVLKSLEAYISDRQPYDAPGRFGNLLLLLPSLQSITQQLIEQIQLAKLFGLAKVDSLLQEF 348 (432)
T ss_pred ccccccCCchHhHHHHHHHHHHHHHHHHHhhcCccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHh
Confidence 5789999998 9999999999999999998886 457899999999999999999999999999999999999999999
Q ss_pred HhCC
Q psy7203 78 LLSG 81 (92)
Q Consensus 78 l~~~ 81 (92)
+..+
T Consensus 349 ~l~~ 352 (432)
T KOG4215|consen 349 LLGG 352 (432)
T ss_pred hcCC
Confidence 9875
No 38
>KOG4217|consensus
Probab=99.12 E-value=1.4e-10 Score=86.52 Aligned_cols=81 Identities=26% Similarity=0.488 Sum_probs=73.2
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhh--CCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQ--YPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~--~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
||.||++..+||++|.+|..+|++|+..+ ....+.++.++|-+||+||.++.....++|+.|...-++.+.++..||.
T Consensus 521 ErhGL~epkrVeelqnkIi~~LKDHvt~~~~~~~k~~~lSrllgklpeLr~l~tqgLqrifyLklEdlvp~p~iidklf~ 600 (605)
T KOG4217|consen 521 ERHGLKEPKRVEELQNKIINCLKDHVTGSAGKLAKPVYLSRLLGKLPELRTLCTQGLQRIFYLKLEDLVPPPAIIDKLFL 600 (605)
T ss_pred hhhcCCCcchHHHHHHHHHHHHHHHhhhcccccccchHHHHHhhhhHHHHHHHHHhhhhhhcccHhhccCchhhhhhhhh
Confidence 78999999999999999999999999544 4567889999999999999999999999999999988888888888886
Q ss_pred CCC
Q psy7203 80 SGS 82 (92)
Q Consensus 80 ~~~ 82 (92)
..-
T Consensus 601 dtl 603 (605)
T KOG4217|consen 601 DTL 603 (605)
T ss_pred ccC
Confidence 653
No 39
>cd06930 NR_LBD_F2 Ligand-binding domain of nuclear receptor family 2. Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=99.07 E-value=3.7e-10 Score=73.12 Aligned_cols=51 Identities=57% Similarity=0.912 Sum_probs=48.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhh
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTV 51 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l 51 (92)
+|++||.+...|++.|+++..+|..|+..++|+.+.||++||+.||.||++
T Consensus 115 p~~~~l~~~~~v~~~q~~~~~aL~~~~~~~~~~~~~R~~~ll~~l~~lr~~ 165 (165)
T cd06930 115 PDLPGLKNQQQVEELQEKAQQALQEYIRKRYPQQPARFAKLLLRLPELRSI 165 (165)
T ss_pred CCCCCCcCHHHHHHHHHHHHHHHHHHHHhhCCCchhHHHHHHHHhHhhccC
Confidence 588999999999999999999999999999999999999999999999974
No 40
>KOG4216|consensus
Probab=98.92 E-value=4.3e-09 Score=77.16 Aligned_cols=80 Identities=24% Similarity=0.292 Sum_probs=72.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCC---hhHHHHHH
Q psy7203 1 MDACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTP---IETLIRDM 77 (92)
Q Consensus 1 ~Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~---i~~Ll~Em 77 (92)
|||+||.+..+|+++|..+..|++..+.++|-. ..-+.+|+.+.|.+|.++..|.|.|..+|...+.. +++|..|+
T Consensus 395 ~~r~gl~e~~ki~~lq~~~~~a~qhvl~knh~~-~~~l~kl~~k~~~~r~~~~lH~E~Lq~Fk~~hP~iv~~fP~LYKEL 473 (479)
T KOG4216|consen 395 ADRSGLQEKVKIEKLQQKIQLALQHVLQKNHRE-DGILTKLICKVSTLRALCGLHTEKLQAFKASHPDIVRHFPPLYKEL 473 (479)
T ss_pred CccccccchHHHHHHHHHHHHHHHHHHHhcCCh-hhhHHHhhcccchHHHHHHHHHHHHHHHhhcCchHHhhccHHHHHH
Confidence 689999999999999999999999999998853 34899999999999999999999999999988754 59999999
Q ss_pred HhCC
Q psy7203 78 LLSG 81 (92)
Q Consensus 78 l~~~ 81 (92)
|..+
T Consensus 474 Ft~d 477 (479)
T KOG4216|consen 474 FTSD 477 (479)
T ss_pred hccc
Confidence 9765
No 41
>KOG4218|consensus
Probab=98.87 E-value=2.9e-09 Score=77.25 Aligned_cols=80 Identities=33% Similarity=0.427 Sum_probs=75.1
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhCC
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLSG 81 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~~ 81 (92)
|...|++-..|+++|+....+|-+|..+++|+....|++++++|+++|+++....+.++...+.++++-++|+.||+.++
T Consensus 394 d~kfLenf~lv~~~qe~~naaLldyt~c~yp~~~~kF~qllL~L~eiRa~smqa~eyly~khl~~~~p~nnllieml~Ak 473 (475)
T KOG4218|consen 394 DMKFLENFELVRRLQEDSNAALLDYTSCCYPNWEQKFPQLLLVLEEIRATSMQAAEYLYTKHLQVPAPQNNLLIEMLTAK 473 (475)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccccchHHHHhhcc
Confidence 34567888999999999999999999999999999999999999999999999999999999999999999999999875
No 42
>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=98.87 E-value=1.7e-08 Score=70.63 Aligned_cols=80 Identities=10% Similarity=0.148 Sum_probs=61.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCC---CchhhHHHHHhhchhhhhhcHHHHHHhh--hhh-hcCCCChhHHHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYP---SQPIRFGKLLLRLPSLRTVSSQVIEQLF--FVR-LVGKTPIETLIR 75 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p---~~~~rf~~LL~~Lp~LR~l~~~~~~~l~--~~~-~~g~~~i~~Ll~ 75 (92)
|++||++..+|+++|+++..||.+||..++. +.++||++|+..++.|+.+-...-...+ |.+ ..-++.++..+.
T Consensus 146 d~~gL~~q~~Ve~lR~~y~~aL~~yi~~~~~~~~~~~~RF~~Ll~ll~~l~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (248)
T cd07074 146 PLEGLRSQTQFDEMRSSYIRELIKAIGLRQKGVVASSQRFYQLTKLMDNMHDLVKQLHLYCLNTFIQSRALSVEFPEMMS 225 (248)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeecHHHHH
Confidence 7899999999999999999999999876643 5789999999999999944333322222 222 123578899999
Q ss_pred HHHhCC
Q psy7203 76 DMLLSG 81 (92)
Q Consensus 76 Eml~~~ 81 (92)
||....
T Consensus 226 ~~~~~~ 231 (248)
T cd07074 226 EVIAAQ 231 (248)
T ss_pred HHHHhc
Confidence 998865
No 43
>PF00104 Hormone_recep: Ligand-binding domain of nuclear hormone receptor; InterPro: IPR000536 Steroid or nuclear hormone receptors constitute an important superfamily of transcription regulators that are involved in widely diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. The receptors function as dimeric molecules in nuclei to regulate the transcription of target genes in a ligand-responsive manner. Nuclear hormone receptors consist of a highly conserved DNA-binding domain that recognises specific sequences (IPR001628 from INTERPRO), connected via a linker region to a C-terminal ligand-binding domain. In addition, certain nuclear hormone receptors have an N-terminal modulatory domain (IPR001292 from INTERPRO). The ligand-binding domain acts in response to ligand binding, which caused a conformational change in the receptor to induce a response, thereby acting as a molecular switch to turn on transcriptional activity []. For example, after binding of the glucocorticoid receptor to the corticosteroid ligand, the receptor is induced to perform functions ranging from nuclear translocation, oligomerisation, cofactor/kinase/transcription factor association, and DNA binding []. The ligand-binding domain is a flexible unit, where the binding of a ligand stabilises its conformation, which in turn favours coactivator binding to modify receptor activity []; the coactivator can bind to the activator function 2 (AF2) site at the C-terminal end of the ligand-binding domain []. The binding of different ligands can alter the conformation of the ligand-binding domain, which ultimately affects the DNA-binding specificity of the DNA-binding domain. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components. This entry represents the C-terminal ligand-binding domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0003707 steroid hormone receptor activity, 0006355 regulation of transcription, DNA-dependent, 0043401 steroid hormone mediated signaling pathway, 0005634 nucleus; PDB: 3IXP_D 1R20_D 2R40_D 1R1K_D 1PDU_B 1OSH_A 3GD2_A 3DCT_A 3OMK_C 3FLI_A ....
Probab=98.61 E-value=1.7e-07 Score=61.62 Aligned_cols=63 Identities=43% Similarity=0.690 Sum_probs=55.1
Q ss_pred CCCCCC-ChhH-HHHHHHHHHHHHHHHH-HhhCCCc-hhhHHHHHhhchhhhhhcHHHHHHhhhhhh
Q psy7203 2 DACGLS-DVSH-IESLQEKSQCALEEYC-RTQYPSQ-PIRFGKLLLRLPSLRTVSSQVIEQLFFVRL 64 (92)
Q Consensus 2 Dr~gL~-~~~~-V~~lQe~~~~aL~~~v-~~~~p~~-~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~~ 64 (92)
|.+++. +..+ ++++|+++..+|..|+ ...++.+ +.||++|+..++.++.++..+.+.+++.++
T Consensus 136 ~~~~~~~~~~~~~~~~r~~~~~~L~~y~~~~~~~~~~~~R~~~ll~ll~~l~~~~~~~~e~~~~~~l 202 (203)
T PF00104_consen 136 DYPGLSEETREIVEELRDRIIQALHSYYNQSKGPEDYAQRFGKLLLLLPSLRKISEKHIENMFLSDL 202 (203)
T ss_dssp TSTTHS-SHHHHHHHHHHHHHHHHHHHHHHHHSTTTHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccccchhHHHHHHHHHHHHHHHHHHhccCCCccHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence 667887 6666 9999999999999999 7777766 799999999999999999999999877654
No 44
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=98.45 E-value=3.7e-07 Score=57.92 Aligned_cols=50 Identities=42% Similarity=0.657 Sum_probs=45.2
Q ss_pred CCCCCCCh--hHHHHHHHHHHHHHHHHHHhhCC-CchhhHHHHHhhchhhhhh
Q psy7203 2 DACGLSDV--SHIESLQEKSQCALEEYCRTQYP-SQPIRFGKLLLRLPSLRTV 51 (92)
Q Consensus 2 Dr~gL~~~--~~V~~lQe~~~~aL~~~v~~~~p-~~~~rf~~LL~~Lp~LR~l 51 (92)
|++|+.+. ..|+++|+.+..+|+.|+..+++ +.+.||++|+.+++.+|.+
T Consensus 111 ~~~~l~~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll~~l~~i~~~ 163 (163)
T smart00430 111 AGPGLSEEGKEILEKLQEKLANALHDYYLKNYPMNYPGRFGELLLILNAIQKI 163 (163)
T ss_pred hhhhhChHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHHHHHHHHHhhcC
Confidence 57888888 89999999999999999998888 5689999999999999863
No 45
>cd06157 NR_LBD The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators. Ligand-binding domain (LBD) of nuclear receptor (NR): Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions in metazoans, from development, reproduction, to homeostasis and metabolism. The superfamily contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. The members of the family include receptors of steroids, thyroid hormone, retinoids, cholesterol by-products, lipids and heme. With few exceptions, NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=98.40 E-value=9.1e-07 Score=56.38 Aligned_cols=50 Identities=50% Similarity=0.754 Sum_probs=45.5
Q ss_pred CCC-CCCChhHHHHHHHHHHHHHHHHHHhhCC-CchhhHHHHHhhchhhhhh
Q psy7203 2 DAC-GLSDVSHIESLQEKSQCALEEYCRTQYP-SQPIRFGKLLLRLPSLRTV 51 (92)
Q Consensus 2 Dr~-gL~~~~~V~~lQe~~~~aL~~~v~~~~p-~~~~rf~~LL~~Lp~LR~l 51 (92)
|.+ +..+...+++.|+.+..+|+.|+..+++ +.+.||++|+.+++.+|.+
T Consensus 117 ~~~~s~~~~~~~~~~~~~~~~~L~~y~~~~~~~~~~~R~~~ll~~l~~l~~~ 168 (168)
T cd06157 117 DRKESLEDRKIVEELQERLLEALQDYLRKNYPEEAPSRFAKLLLLLPSLRKL 168 (168)
T ss_pred CCCCCccCHHHHHHHHHHHHHHHHHHHHHhCCccchhHHHHHHHhchhcccC
Confidence 455 6889999999999999999999999987 8899999999999999864
No 46
>KOG4846|consensus
Probab=80.93 E-value=0.42 Score=36.28 Aligned_cols=60 Identities=10% Similarity=-0.121 Sum_probs=48.7
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhhh
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFVR 63 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~~ 63 (92)
++-+.+....|+.+||..+.++- ...+.|....++...+...++++++.+.|.+++.-.+
T Consensus 475 ~s~~~e~~~sVe~lqe~~lr~~~--~~~n~pl~~s~~~~~~~~~~d~~sl~~lhs~kv~~~~ 534 (538)
T KOG4846|consen 475 LSFLNEPPLSVEMLQESTLRLPV--NHNNQPLNQSLPHVRHQVKRDVQSLENLHSMKVHPVP 534 (538)
T ss_pred hhhhccCCchHHHHHhhhhhccc--cccCCcccccCcchhhccCCcCCcccchhcccccccc
Confidence 45677888999999999998883 3355677788999999999999999999887765443
No 47
>cd03746 SOCS_WSB1_SWIP1 SOCS (suppressors of cytokine signaling) box of WSB1/SWiP1-like proteins. This subfamily contains WSB-1 (SOCS-box-containing WD-40 protein), part of an E3 ubiquitin ligase for the thyroid-hormone-activating type 2 iodothyronine deiodinase (D2) and SWiP-1 (SOCS box and WD-repeats in Protein), a WD40-containing protein that is expressed in embryonic structures of chickens and regulated by Sonic Hedgehog (Shh). The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=63.77 E-value=12 Score=18.98 Aligned_cols=37 Identities=19% Similarity=0.322 Sum_probs=27.6
Q ss_pred hchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhC
Q psy7203 44 RLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLS 80 (92)
Q Consensus 44 ~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~ 80 (92)
.++.|.++|...+...+-.+.+...++++.+.+-+..
T Consensus 2 ~v~sLQhLCR~~Ir~~~~~~~i~~LpLP~~Lk~YL~y 38 (40)
T cd03746 2 QVASLQHLCRMAIRRVMPTQQVKELPIPSKLLEFLTY 38 (40)
T ss_pred CCcCHHHHHHHHHHHHccccccccCCCCHHHHHHHhc
Confidence 3677888888888877666666677888888876643
No 48
>cd03745 SOCS_WSB2_SWIP2 SOCS (suppressors of cytokine signaling) box of WSB2/SWiP2-like proteins. This family consists of WSB-2 (SOCS-box-containing WD-40 protein) and SWiP-2 (SOCS box and WD-repeats in Protein). No functional information is available for WSB2 or SWiP-2, but limited information is available for the isoforms WSB-1 and SWiP-1. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=57.40 E-value=15 Score=18.55 Aligned_cols=35 Identities=26% Similarity=0.448 Sum_probs=25.0
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
+|.|+++|...+............++++-|.+-+.
T Consensus 3 v~SLQHLCR~~I~~~~~~~~~~~LPLP~~Lk~yL~ 37 (39)
T cd03745 3 LPSLRHLCRKALRHFLTTYQVLALPIPKKMKEFLT 37 (39)
T ss_pred cccHHHHHHHHHHHhccccccccCCCcHHHHHHHc
Confidence 57888888888877654444455688888877653
No 49
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=53.85 E-value=24 Score=21.01 Aligned_cols=26 Identities=15% Similarity=0.275 Sum_probs=21.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCR 28 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~ 28 (92)
||.++ .+..++.+++.++..+..|+.
T Consensus 30 dR~~~-~p~~l~~lk~eil~VIsKYv~ 55 (87)
T PRK13991 30 DRVKL-TPEMMEQMKADLAEVIKRYVP 55 (87)
T ss_pred HcCCC-CHHHHHHHHHHHHHHHHHHhc
Confidence 55554 788999999999999999986
No 50
>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=53.52 E-value=42 Score=19.26 Aligned_cols=49 Identities=27% Similarity=0.302 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHHHhhCCCchhhHHHHHhhchhhhhhcHHHHHHhhhh
Q psy7203 13 ESLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTVSSQVIEQLFFV 62 (92)
Q Consensus 13 ~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l~~~~~~~l~~~ 62 (92)
++-|-.++.+++.++ ..++.....|+.+|..|=..=-++...+-.++..
T Consensus 1 ~~~Q~~~L~ale~~~-~~~~~~~~~~~~il~~LYd~Dil~Eeail~W~~~ 49 (84)
T PF02020_consen 1 EDDQVDLLNALEEFC-AENPNLMPLFPKILQQLYDEDILEEEAILEWYED 49 (84)
T ss_dssp HHHHHHHHHHHHHHH-HHTCGHGGHHHHHHHHHHHTTSS-HHHHHHHHHC
T ss_pred CHHHHHHHHHHHHHH-HhCccHHHHHHHHHHHHhhhhhccHHHHHHHHHc
Confidence 356778899999999 4567777899999999999999999888887755
No 51
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=53.03 E-value=19 Score=21.91 Aligned_cols=28 Identities=18% Similarity=0.300 Sum_probs=22.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhh
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQ 30 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~ 30 (92)
||.++. +..++++++.++.++..|+...
T Consensus 32 dR~~~s-p~~l~~mk~dIl~VIskYv~Id 59 (97)
T PRK13988 32 DRADLS-PELLEQMRKEILEVVARYVEID 59 (97)
T ss_pred HccCCC-HHHHHHHHHHHHHHHHHHeeeC
Confidence 565544 7899999999999999998643
No 52
>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=49.79 E-value=17 Score=20.54 Aligned_cols=29 Identities=24% Similarity=0.365 Sum_probs=20.7
Q ss_pred CCCCCCC-hhHHHHHHHHHHHHHHHHHHhh
Q psy7203 2 DACGLSD-VSHIESLQEKSQCALEEYCRTQ 30 (92)
Q Consensus 2 Dr~gL~~-~~~V~~lQe~~~~aL~~~v~~~ 30 (92)
||-++.. +..++++++.+..++..|+...
T Consensus 16 dR~~~~~~~~~l~~lk~eil~viskYv~i~ 45 (70)
T PF03776_consen 16 DRGGLSPQPDYLEQLKKEILEVISKYVEID 45 (70)
T ss_dssp ECCSC-CTTSSHHHHHHHHHHHHHHHS---
T ss_pred HccCCCCcHHHHHHHHHHHHHHHHhheecC
Confidence 4544444 4799999999999999998654
No 53
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=48.89 E-value=25 Score=20.78 Aligned_cols=27 Identities=7% Similarity=0.217 Sum_probs=20.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHH
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCR 28 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~ 28 (92)
||.+...+..++.+++.+...+..|+.
T Consensus 29 dR~~~~~p~~l~~lk~dIl~VIsKY~~ 55 (86)
T PRK00296 29 ERSSRGEPDYLPQLRKEILEVIAKYVQ 55 (86)
T ss_pred HhcCCCCHHHHHHHHHHHHHHHHHhee
Confidence 454444577889999999999999875
No 54
>cd03733 SOCS_WSB_SWIP SOCS (suppressors of cytokine signaling) box of WSB/SWiP-like proteins. This subfamily contains WSB-1 (SOCS-box-containing WD-40 protein), part of an E3 ubiquitin ligase for the thyroid-hormone-activating type 2 iodothyronine deiodinase (D2), and SWiP-1 (SOCS box and WD-repeats in Protein), a WD40-containing protein that is expressed in embryonic structures of chickens and regulated by Sonic Hedgehog (Shh), as well as, their isoforms WSB-2 and SWiP-2. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=47.36 E-value=26 Score=17.57 Aligned_cols=34 Identities=18% Similarity=0.355 Sum_probs=24.3
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
.+.|.++|...+......+.+...++++-+.+-+
T Consensus 3 v~sLqhLCR~~Ir~~~~~~~i~~LpLP~~Lk~YL 36 (39)
T cd03733 3 VSSLQHLCRMALRRVMTTQQVLALPIPKKMKEFL 36 (39)
T ss_pred CCCHHHHHHHHHHHHccccccccCCCCHHHHHHH
Confidence 4677888888887776555566678888877754
No 55
>cd03717 SOCS_SOCS_like SOCS (suppressors of cytokine signaling) box of SOCS-like proteins. The CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. These intracellular proteins regulate the responses of immune cells to cytokines. Identified as negative regulators of the cytokine-JAK-STAT pathway, they seem to play a role in many immunological and pathological processes. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. Related SOCS boxes are also present in Rab40-like proteins and insect proteins of unknown function that also contain a NEUZ (domain in neuralized proteins) domain.
Probab=41.66 E-value=41 Score=16.61 Aligned_cols=34 Identities=26% Similarity=0.370 Sum_probs=22.7
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
.+.|.+++...+.+.+-...+...++++-+.+-+
T Consensus 3 ~~sLq~LCR~~Ir~~~~~~~i~~LpLP~~Lk~yL 36 (39)
T cd03717 3 VRSLQHLCRFVIRQCTRRDLIDQLPLPRRLKDYL 36 (39)
T ss_pred CCCHHHHHHHHHHHHccccccccCCCCHHHHHHH
Confidence 3567777777777665545556677777777654
No 56
>PRK13987 cell division topological specificity factor MinE; Provisional
Probab=41.10 E-value=38 Score=20.27 Aligned_cols=28 Identities=14% Similarity=0.266 Sum_probs=22.6
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHhh
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRTQ 30 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~~ 30 (92)
||.++ .+..++.+++.+..++..|+...
T Consensus 28 dR~~~-sp~~l~~lk~eIl~VI~kYv~Id 55 (91)
T PRK13987 28 DRGDI-SPDVLEMIKEDILKVISKYVEID 55 (91)
T ss_pred HcCCC-CHHHHHHHHHHHHHHHHHheeeC
Confidence 55554 57899999999999999998643
No 57
>cd03740 SOCS_SOCS6 SOCS (suppressors of cytokine signaling) box of SOCS6-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=40.36 E-value=48 Score=16.73 Aligned_cols=35 Identities=29% Similarity=0.412 Sum_probs=24.4
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
.+.|.+++...+........+...++++-+.+-+.
T Consensus 3 v~sLqhLCR~~Ir~~~~~~~i~~LpLP~~Lk~yL~ 37 (41)
T cd03740 3 VRSLQYLCRFVIRQYTRIDLIQKLPLPNKMKGYLL 37 (41)
T ss_pred cccHHHHHHHHHHHHcchhhcccCCCCHHHHHHHH
Confidence 45677777777777665555667788888777554
No 58
>PRK13990 cell division topological specificity factor MinE; Provisional
Probab=38.68 E-value=49 Score=19.81 Aligned_cols=22 Identities=9% Similarity=0.203 Sum_probs=19.2
Q ss_pred ChhHHHHHHHHHHHHHHHHHHh
Q psy7203 8 DVSHIESLQEKSQCALEEYCRT 29 (92)
Q Consensus 8 ~~~~V~~lQe~~~~aL~~~v~~ 29 (92)
.++.++++|+.++..+..|+..
T Consensus 41 ~pd~L~~lk~eIl~VI~KYv~I 62 (90)
T PRK13990 41 SSHLLAELKDEIIEVVKKYVAL 62 (90)
T ss_pred CHHHHHHHHHHHHHHHHHheec
Confidence 4689999999999999999854
No 59
>TIGR01215 minE cell division topological specificity factor MinE. This protein is involved in the process of cell division. This protein prevents the proteins MinC and MinD to inhibit cell division at internal sites, but allows inhibiton at polar sites. This allows for correct cell division at the proper sites.
Probab=38.28 E-value=45 Score=19.41 Aligned_cols=27 Identities=15% Similarity=0.217 Sum_probs=20.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHh
Q psy7203 2 DACGLSDVSHIESLQEKSQCALEEYCRT 29 (92)
Q Consensus 2 Dr~gL~~~~~V~~lQe~~~~aL~~~v~~ 29 (92)
||.+ ..+..++++++.++.++..|+..
T Consensus 29 dR~~-~~p~~l~~mk~dil~VIskY~~i 55 (81)
T TIGR01215 29 DRAQ-LAPEYLEELRKEILEVISKYVEI 55 (81)
T ss_pred HhcC-CCHHHHHHHHHHHHHHHHHheec
Confidence 4444 45788899999999999999763
No 60
>cd03734 SOCS_CIS1 SOCS (suppressors of cytokine signaling) box of CIS (cytokine-inducible SH2 protein) 1-like proteins. Together with the SOCS proteins, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. CIS1, like SOCS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. CIS1 binds to cytokine receptors at STAT5-docking sites, which prohibits recruitment of STAT5 to the receptor signaling complex and results in the down-regulation of activation by STAT5.
Probab=37.60 E-value=49 Score=16.81 Aligned_cols=33 Identities=27% Similarity=0.306 Sum_probs=24.0
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
.+.|++++...+.... ..++..++++.+.+-+.
T Consensus 3 ~~sLQHLCR~~I~~~~--~~i~~LpLP~~L~~yL~ 35 (41)
T cd03734 3 ARSLQHLCRLVINRLV--TDVDCLPLPRRMADYLR 35 (41)
T ss_pred CccHHHHHHHHHHHhc--CCcccCCCCHHHHHHHH
Confidence 5678888888887664 34567788888887664
No 61
>cd09244 BRO1_Rhophilin Protein-interacting Bro1-like domain of RhoA-binding protein Rhophilin and related domains. This family contains the Bro1-like domain of RhoA-binding proteins, Rhophilin-1 and -2, and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Rhophilin-1 and -2 bind both GDP- and GTP-bound RhoA. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. In addition to this Bro1-like domain, Rhophilin-1 and -2, contain an N-terminal Rho-binding domain and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1) domain. Their PDZ domains have limited homology. Rhophilin-1 and -2 have different ac
Probab=33.33 E-value=66 Score=23.83 Aligned_cols=32 Identities=13% Similarity=0.312 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhCCCchhhHHHHHhhchhhhh
Q psy7203 19 SQCALEEYCRTQYPSQPIRFGKLLLRLPSLRT 50 (92)
Q Consensus 19 ~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~ 50 (92)
....|..||...+.+++..|..=+..+..||.
T Consensus 14 ~~~~L~~yI~~~Y~e~~~~y~~~l~~l~~LR~ 45 (350)
T cd09244 14 FMEPFKDFILEHYSEDPSLYEDEIADFTDLRQ 45 (350)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999999999996
No 62
>cd03741 SOCS_SOCS7 SOCS (suppressors of cytokine signaling) box of SOCS7-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS7 is important in the functioning of neuronal cells. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=33.08 E-value=80 Score=16.63 Aligned_cols=37 Identities=22% Similarity=0.247 Sum_probs=27.3
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHhCC
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLLSG 81 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~~~ 81 (92)
.+.|.++|...+........++..++++.|.+-+...
T Consensus 3 v~SLQhLCR~~Ir~~~~~~~i~~LPLP~~Lk~YL~~~ 39 (49)
T cd03741 3 VQSLQHLCRFVIRKLVRRDHIPALPLPRRLIDYLREK 39 (49)
T ss_pred CccHHHHHHHHHHHHccccccccCCCCHHHHHHHhcc
Confidence 4677888888887776555566788999888876554
No 63
>COG0851 MinE Septum formation topological specificity factor [Cell division and chromosome partitioning]
Probab=32.89 E-value=56 Score=19.54 Aligned_cols=23 Identities=13% Similarity=0.283 Sum_probs=20.1
Q ss_pred ChhHHHHHHHHHHHHHHHHHHhh
Q psy7203 8 DVSHIESLQEKSQCALEEYCRTQ 30 (92)
Q Consensus 8 ~~~~V~~lQe~~~~aL~~~v~~~ 30 (92)
.++.++.+|+.++..+..||+..
T Consensus 35 ~pd~l~~Lr~eIl~VI~KYV~id 57 (88)
T COG0851 35 QPDYLEQLRKEILEVISKYVQID 57 (88)
T ss_pred CcchHHHHHHHHHHHHHHHheeC
Confidence 57899999999999999998654
No 64
>PF07525 SOCS_box: SOCS box; InterPro: IPR001496 The SOCS box was first identified in SH2-domain-containing proteins of the suppressor of cytokines signalling (SOCS) family [] but was later also found in: the WSB (WD-40-repeat-containing proteins with a SOCS box) family, the SSB (SPRY domain-containing proteins with a SOCS box) family, the ASB (ankyrin-repeat-containing proteins with a SOCS box) family, and ras and ras-like GTPases []. The SOCS box found in these proteins is an about 50 amino acid carboxy-terminal domain composed of two blocks of well-conserved residues separated by between 2 and 10 non-conserved residues []. The C-terminal conserved region is an L/P-rich sequence of unknown function, whereas the N-terminal conserved region is a consensus BC box [], which binds to the Elongin BC complex [, ]. It has been proposed that this association could couple bound proteins to the ubiquitination or proteasomal compartments [].; GO: 0035556 intracellular signal transduction; PDB: 2XAI_A 2JZ3_A 2C9W_A 2FNJ_A 2IZV_A.
Probab=31.93 E-value=56 Score=16.08 Aligned_cols=33 Identities=24% Similarity=0.398 Sum_probs=19.0
Q ss_pred hhhhhhcHHHHHHhhhhhh---cCCCChhHHHHHHH
Q psy7203 46 PSLRTVSSQVIEQLFFVRL---VGKTPIETLIRDML 78 (92)
Q Consensus 46 p~LR~l~~~~~~~l~~~~~---~g~~~i~~Ll~Eml 78 (92)
+.|..++...+.+-+..+. +...++++.+.+-+
T Consensus 2 ~sLq~LCR~~Ir~~l~~~~~~~i~~LpLP~~L~~yL 37 (40)
T PF07525_consen 2 PSLQHLCRLAIRRSLGKKGLERIDKLPLPPRLKDYL 37 (40)
T ss_dssp --HHHHHHHHHHHHSSCCHGGGGGGSSS-HHHHHHH
T ss_pred ccHHHHHHHHHHHHhChhhccccccCCCCHHHHHHH
Confidence 3456666666665554444 56677888777755
No 65
>cd03735 SOCS_SOCS1 SOCS (suppressors of cytokine signaling) box of SOCS1-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS1, like CIS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. SOCS1 has a dual function as a direct potent JAK kinase inhibitor and as a component of an E3 ubiquitin-ligase complex recruiting substrates to the protein degradation machinery.
Probab=31.60 E-value=64 Score=16.58 Aligned_cols=36 Identities=19% Similarity=0.380 Sum_probs=22.6
Q ss_pred hchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 44 RLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 44 ~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
+++.|..+|...+..-.....+...+++.-+.+-+.
T Consensus 2 ~~~sLQhLCR~tI~~~~~~~~i~~lpLP~~LKdyL~ 37 (43)
T cd03735 2 RVRPLQELCRKSIVATFGRENLARIPLNPVLKDYLK 37 (43)
T ss_pred CccCHHHHHHHHHHHhcCccccccCcCCHHHHHHHH
Confidence 356777777777766543333334577787777664
No 66
>PF07742 BTG: BTG family; InterPro: IPR002087 Anti-proliferative proteins have been shown to include mammalian and avian protein BTG1 (which appears to be involved in negative regulation of cell proliferation) and rat/mouse NGF-inducible protein PC3/TIS21 (BTG2) [, , ]. These proteins have from 158 to 363 amino acid residues, that are highly similar and include 3 conserved cysteine residues. BTG2 seems to have a signal sequence; while the other proteins may lack such a domain. The sequence of the N-terminal half of these proteins is well conserved.; PDB: 3DJU_B 3E9V_A 2Z15_D 2D5R_B 3DJN_B.
Probab=30.60 E-value=88 Score=19.49 Aligned_cols=31 Identities=19% Similarity=0.377 Sum_probs=23.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHhh-CCCchhh
Q psy7203 7 SDVSHIESLQEKSQCALEEYCRTQ-YPSQPIR 37 (92)
Q Consensus 7 ~~~~~V~~lQe~~~~aL~~~v~~~-~p~~~~r 37 (92)
-++.+|+.+.+.+...|.+..+.. +|+.|.|
T Consensus 22 l~~~~~~~F~~~L~~~L~~ry~~HW~P~~P~k 53 (118)
T PF07742_consen 22 LPRRQVDRFAEELENLLCERYKGHWYPENPSK 53 (118)
T ss_dssp B-HHHHHHHHHHHHHHHHHHHTTS--TTSTTT
T ss_pred CCHHHHHHHHHHHHHHHHHHHhCCCCCCCCCC
Confidence 456889999999999999877543 5777765
No 67
>PRK13989 cell division topological specificity factor MinE; Provisional
Probab=30.49 E-value=78 Score=18.57 Aligned_cols=23 Identities=13% Similarity=0.286 Sum_probs=19.4
Q ss_pred CChhHHHHHHHHHHHHHHHHHHh
Q psy7203 7 SDVSHIESLQEKSQCALEEYCRT 29 (92)
Q Consensus 7 ~~~~~V~~lQe~~~~aL~~~v~~ 29 (92)
..+..++.+|+.+...+..|+..
T Consensus 35 ~~p~~l~~lk~dil~VIsKYv~I 57 (84)
T PRK13989 35 QPPDYLPALQKELVAVISKYVKI 57 (84)
T ss_pred CCHHHHHHHHHHHHHHHHHheee
Confidence 46788999999999999999864
No 68
>smart00526 H15 Domain in histone families 1 and 5.
Probab=28.16 E-value=1e+02 Score=16.58 Aligned_cols=22 Identities=27% Similarity=0.483 Sum_probs=15.1
Q ss_pred HHHHHHHHHhhCCCchhhHHHH
Q psy7203 20 QCALEEYCRTQYPSQPIRFGKL 41 (92)
Q Consensus 20 ~~aL~~~v~~~~p~~~~rf~~L 41 (92)
..++..||..+|+..+.+|..+
T Consensus 26 ~~aI~kyi~~~~~~~~~~~~~~ 47 (66)
T smart00526 26 LQAIKKYIEANYKVLPNNFRSL 47 (66)
T ss_pred HHHHHHHHHHhCCCChHHHHHH
Confidence 4577888888877555666554
No 69
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=28.02 E-value=85 Score=16.78 Aligned_cols=18 Identities=28% Similarity=0.261 Sum_probs=14.5
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy7203 9 VSHIESLQEKSQCALEEY 26 (92)
Q Consensus 9 ~~~V~~lQe~~~~aL~~~ 26 (92)
.+.|.+.||.++.||..-
T Consensus 31 ~d~i~kaqeeylsals~e 48 (58)
T PF13060_consen 31 ADEIQKAQEEYLSALSHE 48 (58)
T ss_pred HHHHHHHHHHHHHHhhHH
Confidence 356788999999999864
No 70
>cd09242 BRO1_ScBro1_like Protein-interacting, N-terminal, Bro1-like domain of Saccharomyces cerevisiae Bro1 and related proteins. This family contains the N-terminal, Bro1-like domain of Saccharomyces cerevisiae Bro1 and related proteins. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Saccharomyces cerevisiae Rim20 (also known as PalA), Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1 participates in endosomal trafficking. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: Snf7 in the
Probab=25.82 E-value=1.1e+02 Score=22.47 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhhCCCchhhHHHHHhhchhhhhh
Q psy7203 19 SQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTV 51 (92)
Q Consensus 19 ~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l 51 (92)
....|..||...|.+++.-|..-+..+..||.-
T Consensus 14 ~~~~L~~~I~~~y~~~~~~~~~~l~~l~~lR~~ 46 (348)
T cd09242 14 WKKPLSSYLKRSYGSSTFYYEEEIAEFDRLRQD 46 (348)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 457899999999988899999999999999874
No 71
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=25.58 E-value=1.6e+02 Score=17.67 Aligned_cols=63 Identities=11% Similarity=0.224 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHhhCCCchhhHHHHHhhch------hhhhhcHHHHHHh-hhhhhcCCCChhHHHHHHHh
Q psy7203 14 SLQEKSQCALEEYCRTQYPSQPIRFGKLLLRLP------SLRTVSSQVIEQL-FFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 14 ~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~Lp------~LR~l~~~~~~~l-~~~~~~g~~~i~~Ll~Eml~ 79 (92)
..+.++..++..-++...+.-..-.+|++.+|- +||. ...+=+ .|.+......+.+++..++-
T Consensus 30 ~ek~~~l~si~~lI~~~~~~i~~~~pQI~a~L~sal~~~~l~~---~al~~W~~fi~~L~~~~l~~ll~~~~~ 99 (107)
T PF08064_consen 30 PEKKRALRSIEELIKLGGSHISSARPQIMACLQSALEIPELRE---EALSCWNCFIKTLDEEDLGPLLDQIFA 99 (107)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhCChhhHH---HHHHHHHHHHHHCCHHHHHHHHHHHHH
Confidence 345566777777766444433445555555543 4444 344434 45666666777777776653
No 72
>PF13678 Peptidase_M85: NFkB-p65-degrading zinc protease
Probab=25.37 E-value=2.5e+02 Score=20.00 Aligned_cols=40 Identities=18% Similarity=0.157 Sum_probs=29.0
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHH
Q psy7203 3 ACGLSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLL 42 (92)
Q Consensus 3 r~gL~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL 42 (92)
-.|--++..++.++++=..||.+.+.+.+.+...+|.+|.
T Consensus 200 F~~Y~~peR~~ai~~r~f~aL~~~i~Rh~~~~~~l~eRL~ 239 (250)
T PF13678_consen 200 FKGYADPEREAAIRERNFNALLQTIYRHPSNEEALFERLD 239 (250)
T ss_pred ccCcCCHHHHHHHHHhhHHHHHHHHHhccccHHHHHHHHH
Confidence 3566678899999999999999988644434455555554
No 73
>cd03742 SOCS_Rab40 SOCS (suppressors of cytokine signaling) box of Rab40-like proteins. Rab40 is part of the Rab family of small GTP-binding proteins that form the largest family within the Ras superfamily. Rab proteins regulate vesicular trafficking pathways, behaving as membrane-associated molecular switches. Rab40 is characterized by a SOCS box c-terminal to the GTPase domain. The SOCS boxes interact with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=25.33 E-value=83 Score=16.19 Aligned_cols=35 Identities=26% Similarity=0.351 Sum_probs=22.2
Q ss_pred hchhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 44 RLPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 44 ~Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
+.+.|.+++...|..-.....++..+++.-|.+-+
T Consensus 2 k~~SLQ~LCR~~I~~~t~~~~I~~LPLP~~Lk~yL 36 (43)
T cd03742 2 KVLSLQDLCCRAIVSCTPVYLIDKLPLPVSIKSHL 36 (43)
T ss_pred ccccHHHHHHHHHHHhCCcchhhhCCCCHHHHHHH
Confidence 34567777777776665444555667777776654
No 74
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=25.27 E-value=82 Score=19.10 Aligned_cols=31 Identities=26% Similarity=0.298 Sum_probs=21.7
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHhh
Q psy7203 6 LSDVSHIESLQEKSQCALEEYCRTQYPSQPIRFGKLLLR 44 (92)
Q Consensus 6 L~~~~~V~~lQe~~~~aL~~~v~~~~p~~~~rf~~LL~~ 44 (92)
.+-...|++||++...+.. ....||+++-++
T Consensus 6 s~I~~eI~kLqe~lk~~e~--------keAERigRiAlK 36 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAET--------REAERIGRIALK 36 (98)
T ss_pred HHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHH
Confidence 3445678888888766554 356689888766
No 75
>smart00099 btg1 tob/btg1 family. The tob/btg1 is a family of proteins that inhibit cell proliferation.
Probab=24.18 E-value=1.7e+02 Score=18.04 Aligned_cols=32 Identities=25% Similarity=0.397 Sum_probs=23.5
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHhh-CCCchh
Q psy7203 5 GLSDVSHIESLQEKSQCALEEYCRTQ-YPSQPI 36 (92)
Q Consensus 5 gL~~~~~V~~lQe~~~~aL~~~v~~~-~p~~~~ 36 (92)
|--++.+|+.+-+.+...|.++.+.. +|+.|.
T Consensus 20 ~~l~~~~v~~F~~~L~~~L~~~y~~HWyP~~P~ 52 (108)
T smart00099 20 NKLSKRRVEIFAEKLTRLLKEKYKNHWYPEKPY 52 (108)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhcCCCCCCCC
Confidence 44567889999999999999877533 466554
No 76
>PF02944 BESS: BESS motif; InterPro: IPR004210 The BESS domain has been named after the three proteins that originally defined the domain: BEAF (Boundary element associated factor 32) [], Suvar(3)7 [] and Stonewall []). The BESS domain is 40 amino acid residues long and is predicted to be composed of three alpha helices, as such it might be related to the myb/SANT HTH domain. The BESS domain directs a variety of protein-protein interactions, including interactions with itself, with Dorsal, and with a TBP-associated factor. It is found in a single copy in Drosophila proteins and is often associated with the MADF domain [, , ]. Proteins known to contain a BESS domain include: Drosophila Boundary element associated factor 32 (BEAF-32). Drosophila Suppressor of variegation protein 3-7 (Su(var)3-7), which could play a role in chromosome condensation. Drosophila Ravus, which is homologous to the C-terminal part of Su(var)3-7 []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation. Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3). It functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. ; GO: 0003677 DNA binding
Probab=24.02 E-value=80 Score=15.25 Aligned_cols=16 Identities=25% Similarity=0.436 Sum_probs=12.5
Q ss_pred HHhhchhhhhhcHHHH
Q psy7203 41 LLLRLPSLRTVSSQVI 56 (92)
Q Consensus 41 LL~~Lp~LR~l~~~~~ 56 (92)
++..+|++|+++...-
T Consensus 8 l~Sl~p~~k~L~~~~k 23 (37)
T PF02944_consen 8 LLSLLPHMKRLPPKQK 23 (37)
T ss_pred HHHhHHHHHhCCHHHH
Confidence 6778899999987643
No 77
>PF10436 BCDHK_Adom3: Mitochondrial branched-chain alpha-ketoacid dehydrogenase kinase; InterPro: IPR018955 Catabolism and synthesis of leucine, isoleucine and valine are finely balanced, allowing the body to make the most of dietary input but removing excesses to prevent toxic build-up of their corresponding keto-acids. Regulating the activity of the branched-chain alpha-ketoacid dehydrogenase (BCDH) complex is the primary means by which these processes are coordinated. BCDH kinase regulates BCDH by phosphorylation, thereby inactivating it when synthesis is required. Pyruvate dehydrogenase kinase inhibits the pyruvate dehydrogenase complex by phosphorylation of the E1 alpha subunit, thus contributing to the regulation of glucose metabolism. It is also involved in telomere maintenance. This entry is associated with IPR003594 from INTERPRO which is found towards the C terminus. ; PDB: 1GKX_A 1GJV_A 1GKZ_A 1JM6_B 3CRL_B 3CRK_B 1Y8O_A 2PNR_A 1Y8P_A 1Y8N_A ....
Probab=22.54 E-value=97 Score=20.23 Aligned_cols=40 Identities=25% Similarity=0.265 Sum_probs=30.3
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHhhCCC---chhhHHHHHhhc
Q psy7203 6 LSDVSHIESLQEKSQCALEEYCRTQYPS---QPIRFGKLLLRL 45 (92)
Q Consensus 6 L~~~~~V~~lQe~~~~aL~~~v~~~~p~---~~~rf~~LL~~L 45 (92)
+.....|..+.+-|..++.+......|. +..+|.++|..+
T Consensus 49 l~~~p~i~~V~~~Y~~sF~~L~~~~~~~~~~~~~~F~~~l~~i 91 (164)
T PF10436_consen 49 LVSNPSIQQVYEWYLQSFEELRSFPPPKTLEDNEKFTELLERI 91 (164)
T ss_dssp HHTSHHHHHHHHHHHHHHHHHHTTSTTTSCCHHHHHHHHHHHH
T ss_pred hccChhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence 4456678999999999999988765553 456888877664
No 78
>PRK14052 effector protein; Provisional
Probab=21.89 E-value=60 Score=24.22 Aligned_cols=21 Identities=24% Similarity=0.365 Sum_probs=17.8
Q ss_pred hCC--CchhhHHHHHhhchhhhh
Q psy7203 30 QYP--SQPIRFGKLLLRLPSLRT 50 (92)
Q Consensus 30 ~~p--~~~~rf~~LL~~Lp~LR~ 50 (92)
-|| +..+|.++||+.|-+||.
T Consensus 347 IHPFlDGNGRtGRLLInLi~lrn 369 (387)
T PRK14052 347 YHGFTDGNGRMGRMLYAIAELRN 369 (387)
T ss_pred ecCCCCCCcHHHHHHHHHHHHhc
Confidence 355 567899999999999996
No 79
>KOG4559|consensus
Probab=21.85 E-value=85 Score=19.40 Aligned_cols=42 Identities=19% Similarity=0.276 Sum_probs=25.8
Q ss_pred HHHHHhhchhhhhhcHHHHHHh---hhhhhcCCCChhHHHHHHHh
Q psy7203 38 FGKLLLRLPSLRTVSSQVIEQL---FFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 38 f~~LL~~Lp~LR~l~~~~~~~l---~~~~~~g~~~i~~Ll~Eml~ 79 (92)
|..+=.--|.+|+++.++..+. |.-.+.|+..=..||.||-.
T Consensus 17 ~~a~~~~~PhirqLAdkM~dKt~ef~qHeLe~~iEdYKLLEeMNk 61 (120)
T KOG4559|consen 17 FEALPAHDPHIRQLADKMFDKTEEFFQHELEAPIEDYKLLEEMNK 61 (120)
T ss_pred CcCCCCCCccHHHHHHHHHHhHHHHHHHHHcCcHHHHHHHHHHHH
Confidence 4444455678888888877654 33344455444677777754
No 80
>cd03736 SOCS_SOCS2 SOCS (suppressors of cytokine signaling) box of SOCS2-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS2 has recently been shown to regulate neuronal differentiation by controlling expression of a neurogenic transcription factor, Neurogenin-1. SOCS2 binds to GH receptors and inhibits the activation of STAT5b induced by GH. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=21.83 E-value=1.3e+02 Score=15.15 Aligned_cols=33 Identities=27% Similarity=0.470 Sum_probs=22.4
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHHh
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDMLL 79 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml~ 79 (92)
.+.|.+++...+... .+.++..++++.+.+-+.
T Consensus 3 ~~sLQhLCR~~I~~~--~~~i~~LpLP~~Lk~yL~ 35 (41)
T cd03736 3 TPSLQHLCRITINKC--TRQIQELPLPTRLKDYLT 35 (41)
T ss_pred CCCHHHHHHHHHHHh--cCCCCcCCCCHHHHHHHH
Confidence 466777777777653 335556788888887654
No 81
>cd00073 H15 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber
Probab=21.58 E-value=1.5e+02 Score=17.06 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=16.5
Q ss_pred HHHHHHHHHhhCCCchhhHHHHH
Q psy7203 20 QCALEEYCRTQYPSQPIRFGKLL 42 (92)
Q Consensus 20 ~~aL~~~v~~~~p~~~~rf~~LL 42 (92)
..++..||..+|+....+|..++
T Consensus 26 ~~aI~kyI~~~y~~~~~~~~~~l 48 (88)
T cd00073 26 LQAIKKYIEAKYKVDDENFNKLL 48 (88)
T ss_pred HHHHHHHHHHHCCcchHHHHHHH
Confidence 35788899999887656665544
No 82
>cd09248 BRO1_Rhophilin_1 Protein-interacting Bro1-like domain of RhoA-binding protein Rhophilin-1. This subfamily contains the Bro1-like domain of the RhoA-binding protein, Rhophilin-1. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding protein Rhophilin-2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Rhophilin-1 binds both GDP- and GTP-bound RhoA. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. In addition to this Bro1-like domain, Rhophilin-1 contains an N-terminal Rho-binding domain and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1) domain. The Drosophila knockout of the Rhophilin-1 is embryonic lethal, suggesting an essential role i
Probab=21.57 E-value=1.4e+02 Score=22.56 Aligned_cols=33 Identities=15% Similarity=0.236 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhhCCCchhhHHHHHhhchhhhhh
Q psy7203 19 SQCALEEYCRTQYPSQPIRFGKLLLRLPSLRTV 51 (92)
Q Consensus 19 ~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~l 51 (92)
....|..||...|.+++.-|..=+..|..||.-
T Consensus 14 l~~pL~~yI~~~Y~q~~~~y~~dl~~l~~LR~~ 46 (384)
T cd09248 14 LPTPLKELISEHFGEDGTSYEAEIRELEDLRQA 46 (384)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 457899999999998899999988899999863
No 83
>PRK03830 small acid-soluble spore protein Tlp; Provisional
Probab=21.23 E-value=1.3e+02 Score=17.37 Aligned_cols=18 Identities=33% Similarity=0.422 Sum_probs=14.5
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy7203 9 VSHIESLQEKSQCALEEY 26 (92)
Q Consensus 9 ~~~V~~lQe~~~~aL~~~ 26 (92)
..-|++||+-+...+..+
T Consensus 8 sDNVEkLQ~mi~nTieNi 25 (73)
T PRK03830 8 SDNVEKLQEMIQNTIENI 25 (73)
T ss_pred cchHHHHHHHHHHHHHHH
Confidence 356899999999888754
No 84
>cd09239 BRO1_HD-PTP_like Protein-interacting, N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains. This family contains the N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP) and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. HD-PTP participates in cell migration and endosomal trafficking. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-l
Probab=20.71 E-value=1.5e+02 Score=21.95 Aligned_cols=32 Identities=31% Similarity=0.404 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhhCCCchhhHHHHHhhchhhhh
Q psy7203 19 SQCALEEYCRTQYPSQPIRFGKLLLRLPSLRT 50 (92)
Q Consensus 19 ~~~aL~~~v~~~~p~~~~rf~~LL~~Lp~LR~ 50 (92)
....|..||...+.+++..|..=+..+..||.
T Consensus 21 ~~~~L~~~I~~~y~~~~~~~~~~l~~l~~LR~ 52 (361)
T cd09239 21 FQPALKKYILENYGEDPELYSEELKSLEQLRQ 52 (361)
T ss_pred hHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 56889999999998889999998889999986
No 85
>cd09240 BRO1_Alix Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains. This family contains the N-terminal, Bro1-like domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), also called apoptosis-linked gene-2 interacting protein 1 (AIP1). It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also f
Probab=20.40 E-value=1.6e+02 Score=21.50 Aligned_cols=33 Identities=18% Similarity=0.345 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhhCC--CchhhHHHHHhhchhhhhh
Q psy7203 19 SQCALEEYCRTQYP--SQPIRFGKLLLRLPSLRTV 51 (92)
Q Consensus 19 ~~~aL~~~v~~~~p--~~~~rf~~LL~~Lp~LR~l 51 (92)
....|..||...+. +++.-|..=+..+..||.-
T Consensus 16 ~~~~l~~~I~~~y~~~~~~~~~~~~l~~l~~lR~~ 50 (346)
T cd09240 16 LVKPLEKFIKNTYSSGEEQADYKEAIKELNKLRNN 50 (346)
T ss_pred hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 45789999999887 7889999988899999983
No 86
>smart00253 SOCS suppressors of cytokine signalling. suppressors of cytokine signalling
Probab=20.03 E-value=1.4e+02 Score=14.95 Aligned_cols=34 Identities=21% Similarity=0.351 Sum_probs=20.9
Q ss_pred chhhhhhcHHHHHHhhhhhhcCCCChhHHHHHHH
Q psy7203 45 LPSLRTVSSQVIEQLFFVRLVGKTPIETLIRDML 78 (92)
Q Consensus 45 Lp~LR~l~~~~~~~l~~~~~~g~~~i~~Ll~Eml 78 (92)
.+.|.+++...+...+..+.+...++++-+.+-+
T Consensus 7 ~~sLqhLCR~~I~~~~~~~~i~~LpLP~~lk~yL 40 (43)
T smart00253 7 VPSLQHLCRFTIRRCTRTDQIKTLPLPPKLKDYL 40 (43)
T ss_pred CCCHHHHHHHHHHHHcCCcCcccCCCCHHHHHHH
Confidence 4556667777776665544455567777666544
No 87
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=20.02 E-value=2e+02 Score=16.84 Aligned_cols=29 Identities=24% Similarity=0.571 Sum_probs=23.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhCCCchhhH
Q psy7203 10 SHIESLQEKSQCALEEYCRTQYPSQPIRF 38 (92)
Q Consensus 10 ~~V~~lQe~~~~aL~~~v~~~~p~~~~rf 38 (92)
..++++++++-.-|+.++..-.|....+.
T Consensus 2 ~~~~~~~~~~~~~Lr~~c~~Lsp~~R~~v 30 (85)
T PF13150_consen 2 KKIRKIKDRADDRLRRYCGRLSPKQRLRV 30 (85)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence 46889999999999999988877655443
Done!