RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1615
(295 letters)
>3cjw_A COUP transcription factor 2; COUP-TFII, nuclear receptor, ligand
binding domain, orphan receptor, three-layered helical
sandwich, DNA-binding; 1.48A {Homo sapiens}
Length = 244
Score = 163 bits (415), Expect = 1e-49
Identities = 109/117 (93%), Positives = 116/117 (99%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
MGI+NICELAAR+LFSAVEWARNIPFFPDLQ+TDQVALLRL WSELFVLNA+QCSMPLHV
Sbjct: 37 MGIENICELAARMLFSAVEWARNIPFFPDLQITDQVALLRLTWSELFVLNAAQCSMPLHV 96
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
APLLAAAGLHASPM+ADRVVAFMDHIR+FQEQVEKLKALHVDSAEYSCLKAIVLFT+
Sbjct: 97 APLLAAAGLHASPMSADRVVAFMDHIRIFQEQVEKLKALHVDSAEYSCLKAIVLFTS 153
Score = 88.7 bits (220), Expect = 4e-21
Identities = 59/68 (86%), Positives = 63/68 (92%), Gaps = 2/68 (2%)
Query: 221 GLNGHSSYLSSYISLLLRAEPYPTARY-SQCMQPNNIMGIDNICELAARLLFSAVEWARN 279
G N HS YLS YISLLLRAEPYPT+R+ SQCMQPNNIMGI+NICELAAR+LFSAVEWARN
Sbjct: 1 GSNSHS-YLSGYISLLLRAEPYPTSRFGSQCMQPNNIMGIENICELAARMLFSAVEWARN 59
Query: 280 IPFFPDLQ 287
IPFFPDLQ
Sbjct: 60 IPFFPDLQ 67
>3oll_A Estrogen receptor beta; steroid binding, phosphorylation, hormone
receptor-activator; HET: PTR EST; 1.50A {Homo sapiens}
PDB: 1u3s_A* 1u3q_A* 1x78_A* 1x7b_A* 1x7j_A* 1x76_A*
2yjd_A* 3ols_A* 3omo_A* 3omp_A* 3omq_A* 1u3r_A* 1u9e_A*
1qkm_A* 2giu_A* 1nde_A* 2jj3_A* 2i0g_A* 2qtu_A* 2z4b_A*
...
Length = 240
Score = 159 bits (405), Expect = 3e-48
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 1/118 (0%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ +LA + L + WA+ IP F +L + DQV LL W E+ ++ S+ H
Sbjct: 35 MMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSID-HPGK 93
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
L+ A L V ++ + + + L + EY C+KA++L +
Sbjct: 94 LIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMY 151
Score = 70.9 bits (174), Expect = 1e-14
Identities = 14/60 (23%), Positives = 23/60 (38%)
Query: 230 SSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQHR 289
+ LL AEP + ++ +LA + L + WA+ IP F +L
Sbjct: 6 EQLVLTLLEAEPPHVLISRPSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELSLF 65
>2nxx_A Ultraspiracle (USP, NR2B4); hormone receptor, APO and holo ligand
binding pocket, hormone/growth factor complex; HET: P1A;
2.75A {Tribolium castaneum}
Length = 235
Score = 156 bits (396), Expect = 6e-47
Identities = 44/117 (37%), Positives = 63/117 (53%), Gaps = 1/117 (0%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
++NIC+ + LF V+WA+ +P F L +TDQV LLR W+EL + S SM
Sbjct: 37 TTVNNICQATHKQLFQLVQWAKLVPHFTSLPLTDQVQLLRAGWNELLIAAFSHRSMQAQD 96
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
A +L A GL + A V + RV E V K+K + +D E CL+AI+L+
Sbjct: 97 AIVL-ATGLTVNKSTAHAVGVGNIYDRVLSELVNKMKEMKMDKTELGCLRAIILYNP 152
Score = 64.0 bits (156), Expect = 3e-12
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 233 ISLLLRAEPY--PTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
+ ++ AE + N ++NIC+ + LF V+WA+ +P F L
Sbjct: 11 LERIIEAEKRVECNDPLVALVVNENNTTVNNICQATHKQLFQLVQWAKLVPHFTSLP 67
>2ocf_A Estrogen receptor; estrogen receptor, LBD, monobody, estradiol,
hormone-growth complex; HET: CME EST; 2.95A {Homo
sapiens}
Length = 298
Score = 157 bits (399), Expect = 1e-46
Identities = 36/129 (27%), Positives = 58/129 (44%), Gaps = 1/129 (0%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ + LA R L + WA+ +P F DL + DQV LL W E+ ++ SM H
Sbjct: 46 MGLLTNLADRELVHMINWAKRVPGFVDLTLHDQVHLLECAWLEILMIGLVWRSME-HPGK 104
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKRIF 122
LL A L V ++ + + + +++ E+ CLK+I+L +G F
Sbjct: 105 LLFAPNLLLDRNQGKCVEGMVEIFDMLLATSSRFRMMNLQGEEFVCLKSIILLNSGVYTF 164
Query: 123 TGVLLKALH 131
LK+L
Sbjct: 165 LSSTLKSLE 173
Score = 67.6 bits (165), Expect = 3e-13
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 226 SSYLSSYISLLLRAEPYPT-ARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
S +S LL AEP + Y + + + LA R L + WA+ +P F
Sbjct: 12 SLTADQMVSALLDAEPPILYSEYDPTRPFSEASMMGLLTNLADRELVHMINWAKRVPGFV 71
Query: 285 DLQ 287
DL
Sbjct: 72 DLT 74
>1xpc_A Estrogen receptor; nuclear receptor, transcription factor,
ER-alpha, antagonist hormone-growth factor receptor
complex; HET: AIT; 1.60A {Homo sapiens} SCOP: a.123.1.1
PDB: 1sj0_A* 1xp1_A* 1xp9_A* 1xp6_A* 1yim_A* 1yin_A*
3ert_A* 1r5k_A* 3erd_A* 1l2i_A* 2iok_A* 1a52_A* 2ouz_A*
1ere_A* 1err_A* 2qxs_A* 3q95_A* 3q97_A* 2b1z_A* 1zky_A*
...
Length = 248
Score = 155 bits (394), Expect = 2e-46
Identities = 36/129 (27%), Positives = 58/129 (44%), Gaps = 1/129 (0%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ + LA R L + WA+ +P F DL + DQV LL W E+ ++ SM H
Sbjct: 37 MGLLTNLADRELVHMINWAKRVPGFVDLTLHDQVHLLECAWLEILMIGLVWRSME-HPGK 95
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKRIF 122
LL A L V ++ + + + +++ E+ CLK+I+L +G F
Sbjct: 96 LLFAPNLLLDRNQGKCVEGMVEIFDMLLATSSRFRMMNLQGEEFVCLKSIILLNSGVYTF 155
Query: 123 TGVLLKALH 131
LK+L
Sbjct: 156 LSSTLKSLE 164
Score = 68.3 bits (167), Expect = 1e-13
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 233 ISLLLRAEPYPT-ARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
+S LL AEP + Y + + + LA R L + WA+ +P F DL
Sbjct: 10 VSALLDAEPPILYSEYDPTRPFSEASMMGLLTNLADRELVHMINWAKRVPGFVDLT 65
>1pzl_A Hepatocyte nuclear factor 4-alpha; transcription; HET: MYR; 2.10A
{Homo sapiens} SCOP: a.123.1.1 PDB: 3fs1_A* 1m7w_A*
1lv2_A*
Length = 237
Score = 155 bits (393), Expect = 2e-46
Identities = 39/116 (33%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
I ++CE L VEWA+ IP F +L + DQVALLR E +L A++ SM
Sbjct: 41 ASIADVCESMKEQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEHLLLGATKRSMVFKD 100
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
LL + IR+ E V + L +D EY+ LKAI+ F
Sbjct: 101 VLLL-GNDYIVPRHCPELAEMSRVSIRILDELVLPFQELQIDDNEYAYLKAIIFFD 155
Score = 67.8 bits (166), Expect = 1e-13
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 6/61 (9%)
Query: 233 ISLLLRAEP------YPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDL 286
I+ LL+AE P + + ++ I I ++CE L VEWA+ IP F +L
Sbjct: 11 INALLQAEVLSRQITSPVSGINGDIRAKKIASIADVCESMKEQLLVLVEWAKYIPAFCEL 70
Query: 287 Q 287
Sbjct: 71 P 71
>2iz2_A FTZ-F1 alpha, nuclear hormone receptor FTZ-F1; nuclear protein,
phosphorylation, PAIR-RULE protein; 2.8A {Drosophila
melanogaster} PDB: 2xhs_A
Length = 243
Score = 152 bits (385), Expect = 4e-45
Identities = 33/118 (27%), Positives = 56/118 (47%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ +C++ + LFS V+WARN FF DL+V DQ+ LL+ WS++ VL+ + +
Sbjct: 48 FELMCKVLDQNLFSQVDWARNTVFFKDLKVDDQMKLLQHSWSDMLVLDHLHHRIHNGLPD 107
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
+ + ++ F E KL+ L D +Y C+K ++L R
Sbjct: 108 ETQLNNGQVFNLMSLGLLGVPQLGDYFNELQNKLQDLKFDMGDYVCMKFLILLNPSVR 165
Score = 67.5 bits (165), Expect = 2e-13
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 226 SSYLSSYISLLLRAEPYPTARYSQCMQPNNIMGID---NICELAARLLFSAVEWARNIPF 282
S + ++ + E Q N + +D +C++ + LFS V+WARN F
Sbjct: 12 SPMIREFVQSIDDREWQTQLFALLQKQTYNQVEVDLFELMCKVLDQNLFSQVDWARNTVF 71
Query: 283 FPDLQ 287
F DL+
Sbjct: 72 FKDLK 76
>1lbd_A RXR_LBD, retinoid X receptor; transcription factor, nuclear
receptor, structural proteomic europe, spine, structural
genomics; 2.70A {Homo sapiens} SCOP: a.123.1.1 PDB:
1z5x_U* 2q60_A
Length = 282
Score = 151 bits (382), Expect = 3e-44
Identities = 46/117 (39%), Positives = 64/117 (54%), Gaps = 1/117 (0%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ NIC+ A + LF+ VEWA+ IP F +L + DQV LLR W+EL + + S S+ +
Sbjct: 83 DPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIAVKD 142
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
LL A GLH +A RV E V K++ + +D E CL+AIVLF
Sbjct: 143 GILL-ATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMDKTELGCLRAIVLFNP 198
Score = 61.7 bits (150), Expect = 3e-11
Identities = 23/109 (21%), Positives = 39/109 (35%), Gaps = 19/109 (17%)
Query: 179 AVQRGRVPPNQSCLPGGLGPGQFAALTNGDSASAASAAIAAAGLNGHSSYLSSYISLLLR 238
AVQ R + + + +A L + +++ +
Sbjct: 24 AVQEERQRGKDR------------------NENEVESTSSANEDMPVERILEAELAVEPK 65
Query: 239 AEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
E Y A + + NIC+ A + LF+ VEWA+ IP F +L
Sbjct: 66 TETYVEANMGL-NPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSELP 113
>3plz_A FTZ-F1 related protein; alpha helical sandwhich, family five, TRAN
factor, transcription-receptor-agonist comple; HET: 470;
1.75A {Homo sapiens} PDB: 1yok_A* 1yuc_A* 4dor_A*
1zdu_A* 4dos_A* 1zh7_A 1pk5_A 3f5c_A
Length = 257
Score = 149 bits (377), Expect = 8e-44
Identities = 40/119 (33%), Positives = 63/119 (52%), Gaps = 3/119 (2%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+C++A + LFS VEWAR+ FF +L+V DQ+ LL+ WSEL +L+ +
Sbjct: 56 STFGLMCKMADQTLFSIVEWARSSIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGK 115
Query: 61 AP---LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L+ + S +A+ + + QE V KL++L D E+ CLK +VLF+
Sbjct: 116 EGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFS 174
Score = 64.4 bits (157), Expect = 3e-12
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 11/73 (15%)
Query: 226 SSYLSSYISLLLRAEP-----------YPTARYSQCMQPNNIMGIDNICELAARLLFSAV 274
+ I LL+ EP Y + + + +C++A + LFS V
Sbjct: 14 RGSIPHLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIV 73
Query: 275 EWARNIPFFPDLQ 287
EWAR+ FF +L+
Sbjct: 74 EWARSSIFFRELK 86
>1yye_A ER-beta, estrogen receptor beta; ER-beta, nuclear receptor,
transcription factor, agonist; HET: 196; 2.03A {Homo
sapiens} SCOP: a.123.1.1 PDB: 1yy4_A*
Length = 268
Score = 148 bits (376), Expect = 1e-43
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 1/118 (0%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ +LA + L + WA+ IP F +L + DQV LL W E+ ++ S+ H
Sbjct: 33 MMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSID-HPGK 91
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
L+ A L V ++ + + + L + EY C+KA++L +
Sbjct: 92 LIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMY 149
Score = 63.8 bits (155), Expect = 6e-12
Identities = 14/55 (25%), Positives = 23/55 (41%)
Query: 233 ISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
+ LL AEP + ++ +LA + L + WA+ IP F +L
Sbjct: 7 VLTLLEAEPPHVLISRPSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELS 61
>3k6p_A Steroid hormone receptor ERR1; estrogen related receptor alpha,
DNA-binding, isopeptide BON binding, nucleus,
phosphoprotein, transcription; HET: 5FB; 2.00A {Homo
sapiens} PDB: 1xb7_A 2pjl_A* 3d24_A
Length = 248
Score = 147 bits (373), Expect = 3e-43
Identities = 34/117 (29%), Positives = 58/117 (49%), Gaps = 2/117 (1%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ +C+L R + + WA++IP F L ++DQ+++L+ VW E+ VL +Q S+PL
Sbjct: 48 PAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLGVAQRSLPLQD 107
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
A L R + + V +L+AL ++ EY LKA+ L +
Sbjct: 108 ELAF-AEDLV-LDEEGARAAGLGELGAALLQLVRRLQALRLEREEYVLLKALALANS 162
Score = 72.1 bits (177), Expect = 5e-15
Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 226 SSYLSSYISLLLRAEPYPT-ARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
+++ +S LL EP A ++ + +C+L R + + WA++IP F
Sbjct: 16 QGPVNALVSHLLVVEPEKLYAMPDPAGPDGHLPAVATLCDLFDREIVVTISWAKSIPGFS 75
Query: 285 DLQ 287
L
Sbjct: 76 SLS 78
>2p1t_A Retinoic acid receptor RXR-alpha; protein-ligand complex, hormone
receptor; HET: 3TN; 1.80A {Homo sapiens} SCOP: a.123.1.1
PDB: 1mvc_A* 1mzn_A* 1mv9_A* 2p1u_A* 2p1v_A* 2zxz_A*
2zy0_A* 3fug_A* 3nsp_A 3nsq_A* 3r29_A 3r2a_A* 3r5m_A*
3e94_A* 3kwy_A* 1fby_A* 3uvv_B* 3fc6_A* 1rdt_A* 3fal_A*
...
Length = 240
Score = 147 bits (372), Expect = 3e-43
Identities = 46/117 (39%), Positives = 64/117 (54%), Gaps = 1/117 (0%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ NIC+ A + LF+ VEWA+ IP F +L + DQV LLR W+EL + + S S+ +
Sbjct: 41 DPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIAVKD 100
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
LL A GLH +A RV E V K++ + +D E CL+AIVLF
Sbjct: 101 GILL-ATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMDKTELGCLRAIVLFNP 156
Score = 63.2 bits (154), Expect = 7e-12
Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 229 LSSYISLLLRAEPYPTARYSQCMQPN---NIMGIDNICELAARLLFSAVEWARNIPFFPD 285
+ + L EP M N + NIC+ A + LF+ VEWA+ IP F +
Sbjct: 10 VERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSE 69
Query: 286 LQ 287
L
Sbjct: 70 LP 71
>1ymt_A Steroidogenic factor 1; SF-1, ligand-binding domain, ligand,
phosphatidyl glycerol, CO-repressor peptide,
transcription; HET: DR9; 1.20A {Mus musculus} PDB:
3f7d_A* 1yp0_A* 1yow_A* 1zdt_A*
Length = 246
Score = 146 bits (371), Expect = 5e-43
Identities = 36/119 (30%), Positives = 56/119 (47%), Gaps = 3/119 (2%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+C +A + S V+WAR F +L+V DQ+ LL+ WSEL VL+ +
Sbjct: 45 APFSLLCRMADQTFISIVDWARRCMVFKELEVADQMTLLQNSWSELLVLDHIYRQVQYGK 104
Query: 61 AP---LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L+ + S +A + QE V +L AL +D E+ CLK ++LF+
Sbjct: 105 EDSILLVTGQEVELSTVAVQAGSLLHSLVLRAQELVLQLHALQLDRQEFVCLKFLILFS 163
Score = 64.4 bits (157), Expect = 3e-12
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 9/71 (12%)
Query: 226 SSYLSSYISLLLRAEPYP---TARYSQCMQPNN------IMGIDNICELAARLLFSAVEW 276
+ I LL+ EP AR C+Q +C +A + S V+W
Sbjct: 5 GPNVPELILQLLQLEPEEDQVRARIVGCLQEPAKSRSDQPAPFSLLCRMADQTFISIVDW 64
Query: 277 ARNIPFFPDLQ 287
AR F +L+
Sbjct: 65 ARRCMVFKELE 75
>2e2r_A Estrogen-related receptor gamma; ERR gamma, BPA, nuclear receptor,
transcription; HET: 2OH; 1.60A {Homo sapiens} SCOP:
a.123.1.1 PDB: 2zas_A* 2zbs_A 2zkc_A* 2p7g_A* 1vjb_A*
1tfc_A 2p7a_A* 2p7z_A* 2gpu_A* 1kv6_A 2gp7_A 2gpp_A*
2gpo_A* 2gpv_A* 1s9q_A* 1s9p_A* 2ewp_A*
Length = 244
Score = 146 bits (369), Expect = 1e-42
Identities = 30/117 (25%), Positives = 56/117 (47%), Gaps = 2/117 (1%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ +C+LA R L + WA++IP F L + DQ++LL+ W E+ +L S+
Sbjct: 48 KALTTLCDLADRELVVIIGWAKHIPGFSTLSLADQMSLLQSAWMEILILGVVYRSLSFED 107
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
+ A + ++ +D + V+K K++ ++ E+ LKAI L +
Sbjct: 108 ELVYADD--YIMDEDQSKLAGLLDLNNAILQLVKKYKSMKLEKEEFVTLKAIALANS 162
Score = 71.3 bits (175), Expect = 8e-15
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 1/77 (1%)
Query: 212 AASAAIAAAGLNGHSSYLSSYISLLLRAEPYPT-ARYSQCMQPNNIMGIDNICELAARLL 270
+ + + + +S LL AEP A + ++I + +C+LA R L
Sbjct: 2 GSPEFLNPQLVQPAKKPYNKIVSHLLVAEPEKIYAMPDPTVPDSDIKALTTLCDLADREL 61
Query: 271 FSAVEWARNIPFFPDLQ 287
+ WA++IP F L
Sbjct: 62 VVIIGWAKHIPGFSTLS 78
>1ovl_A Orphan nuclear receptor NURR1 (MSe 414, 496, 511); NUUR1, LBD,
transcription; 2.20A {Homo sapiens} SCOP: a.123.1.1
Length = 271
Score = 144 bits (366), Expect = 5e-42
Identities = 31/116 (26%), Positives = 49/116 (42%), Gaps = 3/116 (2%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
I +L + WA IP F DL DQ L + ELFVL + S P+
Sbjct: 74 QHIQQFYDLLTGSMEIIRGWAEKIPGFADLPKADQDLLFESAFLELFVLRLAYRSNPVE- 132
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L+ G+ + R F + I E L+ +++D + +SC+ A+ + T
Sbjct: 133 GKLIFCNGVVLHRLQCVR--GFGEWIDSIVEFSSNLQNMNIDISAFSCIAALAMVT 186
Score = 57.8 bits (140), Expect = 5e-10
Identities = 17/74 (22%), Positives = 23/74 (31%), Gaps = 12/74 (16%)
Query: 226 SSYLSSYISLLLRAEPYPTARYSQ------------CMQPNNIMGIDNICELAARLLFSA 273
S S IS L+RA + M ++ I +L +
Sbjct: 31 PSPPVSLISALVRAHVDSNPAMTSLDYSRFQANPDYQMSGDDTQHIQQFYDLLTGSMEII 90
Query: 274 VEWARNIPFFPDLQ 287
WA IP F DL
Sbjct: 91 RGWAEKIPGFADLP 104
>3ltx_A Estrogen receptor; constitutive, nuclear receptor, DNA-binding,
metal-binding, nucleus, transcription, transcription
regulation, zinc-finger; 2.60A {Crassostrea gigas}
Length = 243
Score = 143 bits (363), Expect = 8e-42
Identities = 31/119 (26%), Positives = 55/119 (46%), Gaps = 5/119 (4%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
++++ +LA R L + WA+N+P + DL ++DQV L+ W EL +LN + S+
Sbjct: 36 HLLNSLVKLAERELVHLINWAKNVPGYTDLSLSDQVHLIECCWMELLLLNCAFRSIEHGG 95
Query: 61 APLLAAAGL--HASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
L A L S + + + + E++ H+ E L+A+VL
Sbjct: 96 KSLAFAPDLVLDRSSWSTVEMTEIFEQVAAV---SEQMMQNHLHKDELLLLQAMVLVNA 151
Score = 70.9 bits (174), Expect = 1e-14
Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 223 NGHSSYLSSYISLLLRAEP-YPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIP 281
N S + + L +A + ++ P + ++++ +LA R L + WA+N+P
Sbjct: 2 NAKSQ-TVTILQALNKAALPVLESHHNHGQPPTKVHLLNSLVKLAERELVHLINWAKNVP 60
Query: 282 FFPDLQHR 289
+ DL
Sbjct: 61 GYTDLSLS 68
>1g2n_A Ultraspiracle protein; antiparallel alpha-helical sandwich,
structural proteomics in europe, spine, structural
genomics, gene regulation; HET: EPH; 1.65A {Heliothis
virescens} SCOP: a.123.1.1 PDB: 2r40_A* 1r20_A* 1r1k_A*
3ixp_A*
Length = 264
Score = 142 bits (360), Expect = 3e-41
Identities = 34/134 (25%), Positives = 58/134 (43%), Gaps = 17/134 (12%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ ++C++ + + + V WAR+IP F L++ DQ+ L++ W+EL + + SM
Sbjct: 42 APVSSLCQIGNKQIAALVVWARDIPHFSQLEMEDQILLIKGSWNELLLFAIAWRSMEFLT 101
Query: 61 APLLAAAGLHASPMAADRVVAFMDH-----------------IRVFQEQVEKLKALHVDS 103
G + +++ M RV E K++ L VD
Sbjct: 102 EERDGVDGTGNRTTSPPQLMCLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQ 161
Query: 104 AEYSCLKAIVLFTT 117
AEY LKAI+L
Sbjct: 162 AEYVALKAIILLNP 175
Score = 62.9 bits (153), Expect = 1e-11
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 10/67 (14%)
Query: 233 ISLLLRAEP----------YPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPF 282
I LL E + + P + ++C++ + + + V WAR+IP
Sbjct: 8 IERLLEMESLVADPSEEFQFLRVGPDSNVPPKFRAPVSSLCQIGNKQIAALVVWARDIPH 67
Query: 283 FPDLQHR 289
F L+
Sbjct: 68 FSQLEME 74
>3p0u_A Nuclear receptor subfamily 2 group C member 2; ligand binding
domain, orphan nuclear receptor, testicular R 4,
signaling protein; 3.00A {Homo sapiens}
Length = 249
Score = 141 bits (358), Expect = 5e-41
Identities = 45/126 (35%), Positives = 69/126 (54%), Gaps = 6/126 (4%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ + ICE A+RLLF ++ WAR+IP F L +L+R W+ELF L +QC+ + +
Sbjct: 34 LNVHYICESASRLLFLSMHWARSIPAFQALGQDCNTSLVRACWNELFTLGLAQCAQVMSL 93
Query: 61 APLLAAA------GLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVL 114
+ +LAA + ++ DR+ M+HI QE + L +D EY+ LKAIVL
Sbjct: 94 STILAAIVNHLQNSIQEDKLSGDRIKQVMEHIWKLQEFCNSMAKLDIDGYEYAYLKAIVL 153
Query: 115 FTTGKR 120
F+
Sbjct: 154 FSPDHP 159
Score = 53.0 bits (127), Expect = 2e-08
Identities = 17/53 (32%), Positives = 28/53 (52%)
Query: 237 LRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQHR 289
L ++ + T + + + + ICE A+RLLF ++ WAR+IP F L
Sbjct: 14 LLSDTHVTFKLTMPSPMPEYLNVHYICESASRLLFLSMHWARSIPAFQALGQD 66
>1sqn_A PR, progesterone receptor; nuclear receptor, steroid receptor,
norethindrone, birth control, hormone/growth factor
receptior complex; HET: NDR; 1.45A {Homo sapiens} SCOP:
a.123.1.1 PDB: 3g8o_A* 3g8n_A* 3d90_A* 1e3k_A* 1sr7_A*
1zuc_B* 3zr7_A* 2w8y_A* 3zra_A* 3zrb_A* 4a2j_A* 4apu_A*
1a28_A* 2ovh_A* 2ovm_A* 3hq5_A* 3kba_A*
Length = 261
Score = 141 bits (356), Expect = 1e-40
Identities = 26/115 (22%), Positives = 50/115 (43%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ +L R L S V+W++++P F +L + DQ+ L++ W L V S
Sbjct: 43 LTSLNQLGERQLLSVVKWSKSLPGFRNLHIDDQITLIQYSWMSLMVFGLGWRSYKHVSGQ 102
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
+L A + +F + ++ L V E+ C+K ++L T
Sbjct: 103 MLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKLQVSQEEFLCMKVLLLLNT 157
Score = 61.8 bits (150), Expect = 2e-11
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 226 SSYLSSYISLLLRAEPYPTARYSQCMQPN-NIMGIDNICELAARLLFSAVEWARNIPFFP 284
+ I+LL+ EP +P+ + + ++ +L R L S V+W++++P F
Sbjct: 9 IQLIPPLINLLMSIEPDVIYAGHDNTKPDTSSSLLTSLNQLGERQLLSVVKWSKSLPGFR 68
Query: 285 DLQ 287
+L
Sbjct: 69 NLH 71
>1yje_A Orphan nuclear receptor NR4A1; NGFI-B, NUR77, ligand-binding
domain, novel coregulator interface, cell-specific;
2.40A {Rattus norvegicus} PDB: 2qw4_A
Length = 264
Score = 140 bits (355), Expect = 2e-40
Identities = 32/116 (27%), Positives = 50/116 (43%), Gaps = 3/116 (2%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ +L + L +WA IP F +L DQ LL + ELF+L + S P
Sbjct: 67 GDVQQFYDLLSGSLDVIRKWAEKIPGFIELSPGDQDLLLESAFLELFILRLAYRSKPGEG 126
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ + + A ++D+I F L +L VD ++CL A+VL T
Sbjct: 127 KLIFCSGLVLHRLQCARGFGDWIDNILAF---SRSLHSLGVDVPAFACLSALVLIT 179
Score = 56.7 bits (137), Expect = 1e-09
Identities = 11/76 (14%), Positives = 23/76 (30%), Gaps = 12/76 (15%)
Query: 226 SSYLSSYISLLLRAEP------------YPTARYSQCMQPNNIMGIDNICELAARLLFSA 273
+ ++ ++ L+RA + + +L + L
Sbjct: 24 DASPTNLLTSLIRAHLDSGPNTAKLDYSKFQELVLPRFGKEDAGDVQQFYDLLSGSLDVI 83
Query: 274 VEWARNIPFFPDLQHR 289
+WA IP F +L
Sbjct: 84 RKWAEKIPGFIELSPG 99
>1l2j_A Estrogen receptor beta; nuclear receptor, transcription factor,
antagonist transcription receptor; HET: ETC; 2.95A {Homo
sapiens} SCOP: a.123.1.1
Length = 271
Score = 140 bits (353), Expect = 4e-40
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 1/118 (0%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ +LA + L + WA+ IP F +L + DQV LL W E+ ++ S+ H
Sbjct: 61 MMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSID-HPGK 119
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
L+ A L V ++ + + + L + EY C+KA++L +
Sbjct: 120 LIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMY 177
Score = 64.2 bits (156), Expect = 4e-12
Identities = 14/54 (25%), Positives = 23/54 (42%)
Query: 233 ISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDL 286
+ LL AEP + ++ +LA + L + WA+ IP F +L
Sbjct: 35 VLTLLEAEPPHVLISRPSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVEL 88
>1t7r_A Androgen receptor; nuclear receptor, transcription factor, ligand
binding domain, AF-2, androgen, testosterone, DHT,
alpha-helical sandwich; HET: DHT; 1.40A {Pan
troglodytes} SCOP: a.123.1.1 PDB: 1t73_A* 1t76_A*
1t74_A* 1t79_A* 1t7m_A* 1t7f_A* 1t7t_A* 2am9_A* 2ama_A*
2amb_A* 2pnu_A* 1e3g_A* 2q7i_A* 1xj7_A* 2q7j_A* 3g0w_A*
2ihq_A* 2nw4_A* 1i37_A* 2q7k_A* ...
Length = 269
Score = 138 bits (350), Expect = 1e-39
Identities = 27/115 (23%), Positives = 49/115 (42%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ EL R L V+WA+ +P F +L V DQ+A+++ W L V S +
Sbjct: 51 LSSLNELGERQLVHVVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSR 110
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
+L A + ++ L + E+ C+KA++LF+
Sbjct: 111 MLYFAPDLVFNEYRMHKSRMYSQCVRMRHLSQEFGWLQITPQEFLCMKALLLFSI 165
Score = 69.2 bits (169), Expect = 7e-14
Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 218 AAAGLNGHS-----SYLSSYISLLLRAEPYPTARYSQCMQPNN-IMGIDNICELAARLLF 271
+G G S ++++L EP QP++ + ++ EL R L
Sbjct: 4 GISGGGGGSHIEGYECQPIFLNVLEAIEPGVVCAGHDNNQPDSFAALLSSLNELGERQLV 63
Query: 272 SAVEWARNIPFFPDLQ 287
V+WA+ +P F +L
Sbjct: 64 HVVKWAKALPGFRNLH 79
>3mnp_A Glucocorticoid receptor; protein-ligand complex, steroid nuclear
receptor, mouse GR, hormone receptor; HET: DEX; 1.50A
{Mus musculus} PDB: 3mno_A* 3mne_A* 1m2z_A* 3k22_A*
3cld_A* 3k23_A* 3e7c_A* 1nhz_A* 1p93_A* 3bqd_A* 3h52_A*
3gn8_A* 4e2j_A*
Length = 261
Score = 137 bits (347), Expect = 3e-39
Identities = 30/118 (25%), Positives = 50/118 (42%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ + L R + +AV+WA+ IP F +L + DQ+ LL+ W L V S
Sbjct: 44 MTTLNMLGGRQVIAAVKWAKAIPGFRNLHLDDQMTLLQYSWMFLMVFALGWRSYRQASGN 103
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
LL A + D + +L+ L V EY C+K ++L ++ +
Sbjct: 104 LLCFAPDLIINEQRMTLPCMYDQCKHMLFISTELQRLQVSYEEYLCMKTLLLLSSVPK 161
Score = 61.9 bits (150), Expect = 3e-11
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 226 SSYLSSYISLLLRAEPYPT-ARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
+ +SLL EP A Y + + + + L R + +AV+WA+ IP F
Sbjct: 10 PQLTPTLVSLLEVIEPEVLYAGYDSSVPDSAWRIMTTLNMLGGRQVIAAVKWAKAIPGFR 69
Query: 285 DLQ 287
+L
Sbjct: 70 NLH 72
>3vhv_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, non-steroidal
antagonist; HET: LD1 LD2; 1.35A {Homo sapiens} PDB:
2aax_A* 2aa6_A* 2ab2_A* 2aa2_A* 2aa5_A* 2aa7_A* 2a3i_A*
1y9r_A* 1ya3_A* 2oax_A* 2abi_A* 2q1h_A* 2q1v_A* 2q3y_A*
3ry9_A*
Length = 260
Score = 137 bits (346), Expect = 3e-39
Identities = 24/118 (20%), Positives = 48/118 (40%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ + LA + + V+WA+ +P F +L + DQ+ L++ W L S S +
Sbjct: 42 LSTLNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLSFALSWRSYKHTNSQ 101
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
L A A + + + + L + EY+ +K ++L +T +
Sbjct: 102 FLYFAPDLVFNEEKMHQSAMYELCQGMHQISLQFVRLQLTFEEYTIMKVLLLLSTIPK 159
Score = 56.9 bits (137), Expect = 1e-09
Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 1/59 (1%)
Query: 230 SSYISLLLRAEPYPT-ARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
S + +L EP A Y + + LA + + V+WA+ +P F +L
Sbjct: 12 PSPVMVLENIEPEIVYAGYDSSKPDTAENLLSTLNRLAGKQMIQVVKWAKVLPGFKNLP 70
>1pdu_A DHR38, nuclear hormone receptor HR38; nuclear receptor,
ligand-binding domain, hormone/growth factor receptor
complex; 2.30A {Drosophila melanogaster} SCOP: a.123.1.1
Length = 244
Score = 137 bits (346), Expect = 3e-39
Identities = 27/114 (23%), Positives = 45/114 (39%), Gaps = 3/114 (2%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ +L + ++A IP + DL DQ L + ELFVL + +
Sbjct: 49 VQQFYQLLTSSVDVIKQFAEKIPGYFDLLPEDQELLFQSASLELFVLRLAYRARI-DDTK 107
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L+ G R +F + + E L L +D + ++CL A+ L T
Sbjct: 108 LIFCNGTVLHRTQCLR--SFGEWLNDIMEFSRSLHNLEIDISAFACLCALTLIT 159
Score = 61.6 bits (150), Expect = 2e-11
Identities = 14/76 (18%), Positives = 27/76 (35%), Gaps = 7/76 (9%)
Query: 221 GLNGHSSYLSSYISLLLRA----EPYPTARYSQCMQPNN---IMGIDNICELAARLLFSA 273
G + H S I+ L+R+ P P+ + + + +L +
Sbjct: 4 GHHHHHHGAISLITALVRSHVDTTPDPSCLDYSHYEEQSMSEADKVQQFYQLLTSSVDVI 63
Query: 274 VEWARNIPFFPDLQHR 289
++A IP + DL
Sbjct: 64 KQFAEKIPGYFDLLPE 79
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 138 bits (350), Expect = 5e-39
Identities = 40/119 (33%), Positives = 63/119 (52%), Gaps = 3/119 (2%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+C++A + LFS VEWAR+ FF +L+V DQ+ LL+ WSEL +L+ +
Sbjct: 151 STFGLMCKMADQTLFSIVEWARSSIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGK 210
Query: 61 AP---LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L+ + S +A+ + + QE V KL++L D E+ CLK +VLF+
Sbjct: 211 EGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFS 269
Score = 55.8 bits (134), Expect = 4e-09
Identities = 30/143 (20%), Positives = 48/143 (33%), Gaps = 22/143 (15%)
Query: 156 PLPLNQHYTATISNVPLSSSLSTAVQRGRVPPNQSCLPGGLGPGQFAALTNGDSASAASA 215
P + + L + R ++ P P + DS +S
Sbjct: 50 PFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYMDSYQTSS- 108
Query: 216 AIAAAGLNGHSSYLSSYISLLLRAEPY------PTARYSQCMQPNN-----IMGIDNICE 264
+ + I LL+ EP Y Q Q N + +C+
Sbjct: 109 ----------PASIPHLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCK 158
Query: 265 LAARLLFSAVEWARNIPFFPDLQ 287
+A + LFS VEWAR+ FF +L+
Sbjct: 159 MADQTLFSIVEWARSSIFFRELK 181
>2hc4_A Vitamin D receptor; alpha helical sandwich, gene regulation; HET:
VDX; 2.20A {Danio rerio} PDB: 2hbh_A* 2hcd_A* 3dr1_A*
3o1d_A* 3o1e_A*
Length = 302
Score = 136 bits (345), Expect = 1e-38
Identities = 23/116 (19%), Positives = 48/116 (41%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ ++ +L + + + +A+ IP F DL DQ+ALL+ E+ +L ++Q +
Sbjct: 102 SMLPHLADLVSYSIQKVIGFAKMIPGFRDLTAEDQIALLKSSAIEIIMLRSNQSFSLEDM 161
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ + ++ + + LK L + E+ L AI L +
Sbjct: 162 SWSCGGPDFKYCINDVTKAGHTLELLEPLVKFQVGLKKLKLHEEEHVLLMAICLLS 217
Score = 54.4 bits (131), Expect = 1e-08
Identities = 11/57 (19%), Positives = 29/57 (50%)
Query: 231 SYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
++ +LL+ + + S+ Q + + + ++ +L + + + +A+ IP F DL
Sbjct: 76 NFSNLLMMYQDSGSPDSSEEDQQSRLSMLPHLADLVSYSIQKVIGFAKMIPGFRDLT 132
>1xvp_B Orphan nuclear receptor NR1I3; CAR, RXR, citco, SRC1, DNA binding
protein; HET: F15 CID; 2.60A {Homo sapiens} SCOP:
a.123.1.1 PDB: 1xv9_B* 1xnx_A* 1xls_E*
Length = 246
Score = 135 bits (341), Expect = 2e-38
Identities = 19/116 (16%), Positives = 47/116 (40%), Gaps = 2/116 (1%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ + ++ ++ +++ +++P F L + DQ++LL+ E+ + +
Sbjct: 54 PLVTHFADINTFMVLQVIKFTKDLPVFRSLPIEDQISLLKGAAVEICHIVLNTTFCLQTQ 113
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L + RV ++ + + L+ L + EY L A+ LF+
Sbjct: 114 --NFLCGPLRYTIEDGARVGFQVEFLELLFHFHGTLRKLQLQEPEYVLLAAMALFS 167
Score = 53.9 bits (130), Expect = 9e-09
Identities = 7/62 (11%), Positives = 22/62 (35%), Gaps = 7/62 (11%)
Query: 225 HSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
L + +P PT + + + ++ ++ +++ +++P F
Sbjct: 29 QFVQFRPPAHLFIHHQPLPT-------LAPVLPLVTHFADINTFMVLQVIKFTKDLPVFR 81
Query: 285 DL 286
L
Sbjct: 82 SL 83
>3vhu_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, antagonist,
spironolactone; HET: SNL; 2.11A {Homo sapiens}
Length = 294
Score = 133 bits (337), Expect = 2e-37
Identities = 24/118 (20%), Positives = 48/118 (40%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ + LA + + V+WA+ +P F +L + DQ+ L++ W L S S +
Sbjct: 76 LSTLNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLSFALSWRSYKHTNSQ 135
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR 120
L A A + + + + L + EY+ +K ++L +T +
Sbjct: 136 FLYFAPDLVFNEEKMHQSAMYELCQGMHQISLQFVRLQLTFEEYTIMKVLLLLSTIPK 193
Score = 59.2 bits (143), Expect = 2e-10
Identities = 13/63 (20%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 226 SSYLSSYISLLLRAEPYPTARYSQCMQPN-NIMGIDNICELAARLLFSAVEWARNIPFFP 284
+ S + +L EP +P+ + + LA + + V+WA+ +P F
Sbjct: 42 RALTPSPVMVLENIEPEIVYAGYDSSKPDTAENLLSTLNRLAGKQMIQVVKWAKVLPGFK 101
Query: 285 DLQ 287
+L
Sbjct: 102 NLP 104
>3ipq_A Oxysterols receptor LXR-alpha; LXR homodimer, LXR signaling,
alternative DNA-binding, metal-binding, nucleus,
polymorphism, receptor transcription; HET: 965; 2.00A
{Homo sapiens} PDB: 3ips_A* 3ipu_A* 3fc6_B* 3fal_B*
1uhl_B* 2acl_B* 1upv_A* 1upw_A* 1p8d_A* 1pq9_A* 1pq6_A*
1pqc_A* 3kfc_A* 4dk7_A* 4dk8_A* 3l0e_A*
Length = 283
Score = 133 bits (336), Expect = 2e-37
Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 1/116 (0%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ ELA + V++A+ +P F L DQ+ALL+ E+ +L S+ P
Sbjct: 88 QRFAHFTELAIVSVQEIVDFAKQLPGFLQLSREDQIALLKTSAIEVMLLETSRRYNPGSE 147
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ + + + ++ I E + L ++ AE++ L AI +F+
Sbjct: 148 SITFLKDFSY-NREDFAKAGLQVEFINPIFEFSRAMNELQLNDAEFALLIAISIFS 202
Score = 59.8 bits (145), Expect = 1e-10
Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 1/64 (1%)
Query: 225 HSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
S LR P+P A + + ELA + V++A+ +P F
Sbjct: 57 QQQCNRRSFSDRLRVTPWPMAPDPHSREAR-QQRFAHFTELAIVSVQEIVDFAKQLPGFL 115
Query: 285 DLQH 288
L
Sbjct: 116 QLSR 119
>1hg4_A Ultraspiracle; nuclear hormone receptor, transcription factor,
ligand binding; HET: LPP; 2.4A {Drosophila melanogaster}
SCOP: a.123.1.1
Length = 279
Score = 129 bits (325), Expect = 6e-36
Identities = 37/141 (26%), Positives = 58/141 (41%), Gaps = 26/141 (18%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMP----- 57
+ +C++ + LF VE+AR +P F + + DQV LL+ W EL + N + CS+
Sbjct: 49 VSALCQVVNKQLFQMVEYARMMPHFAQVPLDDQVILLKAAWIELLIANVAWCSIVSLDDG 108
Query: 58 ---------------------LHVAPLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKL 96
L L +A + R+ E K+
Sbjct: 109 GAGGGGGGLGHDGSFERRSPGLQPQQLFLNQSFSYHRNSAIKAGVSAIFDRILSELSVKM 168
Query: 97 KALHVDSAEYSCLKAIVLFTT 117
K L++D E SCLKAI+L+
Sbjct: 169 KRLNLDRRELSCLKAIILYNP 189
Score = 57.7 bits (139), Expect = 6e-10
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 6/61 (9%)
Query: 229 LSSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
LR PY T QP+ + +C++ + LF VE+AR +P F +
Sbjct: 25 CGDRALTFLRVGPYSTV------QPDYKGAVSALCQVVNKQLFQMVEYARMMPHFAQVPL 78
Query: 289 R 289
Sbjct: 79 D 79
>2o4j_A Vitamin D3 receptor; nuclear receptor-ligand complex,
hormone/growth factor receptor complex; HET: VD4; 1.74A
{Rattus norvegicus} SCOP: a.123.1.1 PDB: 1rk3_A* 1rjk_A*
1rkh_A* 1rkg_A* 2o4r_A*
Length = 292
Score = 128 bits (324), Expect = 1e-35
Identities = 22/115 (19%), Positives = 49/115 (42%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ +L + + + +A+ IP F DL DQ+ LL+ E+ +L ++Q ++
Sbjct: 61 LPHLADLVSYSIQKVIGFAKMIPGFRDLTSDDQIVLLKSSAIEVIMLRSNQSFTMDDMSW 120
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
+ + ++ I + LK L++ E+ L AI + +
Sbjct: 121 DCGSQDYKYDVTDVSKAGHTLELIEPLIKFQVGLKKLNLHEEEHVLLMAICIVSP 175
Score = 45.2 bits (107), Expect = 9e-06
Identities = 8/39 (20%), Positives = 20/39 (51%)
Query: 248 SQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDL 286
S + + + + ++ +L + + + +A+ IP F DL
Sbjct: 50 SVTLDLSPLSMLPHLADLVSYSIQKVIGFAKMIPGFRDL 88
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 126 bits (318), Expect = 3e-35
Identities = 23/114 (20%), Positives = 43/114 (37%), Gaps = 2/114 (1%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
++ + VE+A++IP F DL DQV LL+ E+ ++ +
Sbjct: 67 WEDFSMSFTPAVREVVEFAKHIPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFNVKDQTV 126
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ + + D + + EKL +L + E A+VL +
Sbjct: 127 MF--LSRTTYSLQELGAMGMGDLLSAMFDFSEKLNSLALTEEELGLFTAVVLVS 178
Score = 49.4 bits (118), Expect = 3e-07
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 4/64 (6%)
Query: 225 HSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
S ++ + PYP R + +Q ++ + VE+A++IP F
Sbjct: 37 LGSSPGNFNANHASGSPYPHGRSGRTVQEI----WEDFSMSFTPAVREVVEFAKHIPGFR 92
Query: 285 DLQH 288
DL
Sbjct: 93 DLSQ 96
>1xdk_B RAR-beta, retinoic acid receptor, beta; nuclear receptor,
coactivator, ligand, hormone/growth factor receptor
complex; HET: REA; 2.90A {Mus musculus} SCOP: a.123.1.1
Length = 303
Score = 127 bits (322), Expect = 3e-35
Identities = 28/117 (23%), Positives = 45/117 (38%), Gaps = 4/117 (3%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
D ELA + + VE+A+ +P F L + DQ+ LL+ ++ +L P
Sbjct: 71 GLWDKFSELATKCIIKIVEFAKRLPGFTGLTIADQITLLKAACLDILILRICTRYTPEQD 130
Query: 61 APLLA-AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ L+ + M D + F +L L +D E L AI L
Sbjct: 131 TMTFSDGLTLNRTQMHNAGFGPLTDLVFTFA---NQLLPLEMDDTETGLLSAICLIC 184
Score = 52.9 bits (127), Expect = 3e-08
Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 11/74 (14%)
Query: 226 SSYLSSYISLLLRAE-----------PYPTARYSQCMQPNNIMGIDNICELAARLLFSAV 274
++ L + +A Y T + ++ D ELA + + V
Sbjct: 29 TAELDDLTEKIRKAHQETFPSLCQLGKYTTNSSADHRVRLDLGLWDKFSELATKCIIKIV 88
Query: 275 EWARNIPFFPDLQH 288
E+A+ +P F L
Sbjct: 89 EFAKRLPGFTGLTI 102
>3kmr_A Retinoic acid receptor alpha; nuclear receptor transcription factor
ligand binding domain, binding, metal-binding, nucleus,
phosphoprotein; HET: EQN; 1.80A {Homo sapiens} PDB:
3kmz_B* 3a9e_B* 4dm6_A* 1xap_A* 4dm8_A* 2lbd_A* 3lbd_A*
4lbd_A*
Length = 266
Score = 125 bits (317), Expect = 8e-35
Identities = 28/117 (23%), Positives = 46/117 (39%), Gaps = 4/117 (3%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
D EL+ + + VE+A+ +P F L + DQ+ LL+ ++ +L P
Sbjct: 68 DLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQD 127
Query: 61 APLLA-AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ L+ + M D + F +L L +D AE L AI L
Sbjct: 128 TMTFSDGLTLNRTQMHNAGFGPLTDLVFAF---ANQLLPLEMDDAETGLLSAICLIC 181
Score = 52.4 bits (126), Expect = 3e-08
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 11/67 (16%)
Query: 233 ISLLLRAE-----------PYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIP 281
I + +A Y T S+ +I D EL+ + + VE+A+ +P
Sbjct: 33 IEKVRKAHQETFPALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLP 92
Query: 282 FFPDLQH 288
F L
Sbjct: 93 GFTTLTI 99
>3u9q_A Peroxisome proliferator-activated receptor gamma; nuclear receptor,
adipogenesis, RXRA, nucleus, transcription; HET: DKA;
1.52A {Homo sapiens} PDB: 1i7i_A* 3ty0_A* 1zeo_A*
2p4y_A* 3et3_A* 3et0_A* 2hwq_A* 2ath_A* 2f4b_A* 2g0g_A*
2g0h_A* 2gtk_A* 2fvj_A* 2hwr_A* 2prg_A* 2q8s_A* 3fej_A*
3g9e_A* 3gbk_A* 3ia6_A* ...
Length = 269
Score = 125 bits (315), Expect = 2e-34
Identities = 22/111 (19%), Positives = 42/111 (37%), Gaps = 1/111 (0%)
Query: 6 ICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPLLA 65
+ + E+A++IP F +L + DQV LL+ E+ + M +
Sbjct: 78 CQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASL-MNKDGVLISE 136
Query: 66 AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
G F D + E K AL +D ++ + A+++ +
Sbjct: 137 GQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILS 187
Score = 49.0 bits (117), Expect = 5e-07
Identities = 14/92 (15%), Positives = 32/92 (34%), Gaps = 4/92 (4%)
Query: 202 AALTNGDSASAASAAIAAAGLNGHSSYLSSYISLLLRAEPYPTARYSQCMQP----NNIM 257
+ + + A + AI S ++ ++ L+ E ++ +Q I
Sbjct: 14 SYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIR 73
Query: 258 GIDNICELAARLLFSAVEWARNIPFFPDLQHR 289
+ + E+A++IP F +L
Sbjct: 74 IFQGCQFRSVEAVQEITEYAKSIPGFVNLDLN 105
>1fcy_A RAR-gamma-1, retinoic acid receptor gamma-1; isotype selectivity,
retinoid ligand complexes, drug design, antiparallel
alpha-helical sandwich fold; HET: 564 LMU; 1.30A {Homo
sapiens} SCOP: a.123.1.1 PDB: 1fcz_A* 1fcx_A* 1fd0_A*
1exa_A* 1exx_A* 1dkf_B*
Length = 236
Score = 123 bits (312), Expect = 2e-34
Identities = 28/115 (24%), Positives = 45/115 (39%), Gaps = 4/115 (3%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
D ELA + + VE+A+ +P F L + DQ+ LL+ ++ +L P
Sbjct: 46 WDKFSELATKCIIKIVEFAKRLPGFTGLSIADQITLLKAACLDILMLRICTRYTPEQDTM 105
Query: 63 LLA-AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ L+ + M D + F +L L +D E L AI L
Sbjct: 106 TFSDGLTLNRTQMHNAGFGPLTDLVFAF---AGQLLPLEMDDTETGLLSAICLIC 157
Score = 50.4 bits (121), Expect = 1e-07
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 11/74 (14%)
Query: 226 SSYLSSYISLLLRAEP-----------YPTARYSQCMQPNNIMGIDNICELAARLLFSAV 274
S L I+ + +A Y T + ++ D ELA + + V
Sbjct: 2 SPQLEELITKVSKAHQETFPSLCQLGKYTTNSSADHRVQLDLGLWDKFSELATKCIIKIV 61
Query: 275 EWARNIPFFPDLQH 288
E+A+ +P F L
Sbjct: 62 EFAKRLPGFTGLSI 75
>3b0t_A Vitamin D3 receptor; nuclear receptor, transcription, gene
regulation; HET: MCZ; 1.30A {Homo sapiens} PDB: 3a40_X*
1s0z_A* 1s19_A* 2ham_A* 2har_A* 2has_A* 1txi_A* 2hb8_A*
2hb7_A* 3a3z_X* 3a78_A* 3auq_A* 3aur_A* 3ax8_A* 3cs4_A*
3cs6_A* 1ie9_A* 1db1_A* 1ie8_A* 3kpz_A* ...
Length = 254
Score = 124 bits (313), Expect = 2e-34
Identities = 21/117 (17%), Positives = 48/117 (41%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ ++ +L + + + +A+ IP F DL DQ+ LL+ E+ +L +++ +
Sbjct: 56 SMLPHLADLVSYSIQKVIGFAKMIPGFRDLTSEDQIVLLKSSAIEVIMLRSNESFTMDDM 115
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
+ + ++ I + LK L++ E+ L AI + +
Sbjct: 116 SWTCGNQDYKYRVSDVTKAGHSLELIEPLIKFQVGLKKLNLHEEEHVLLMAICIVSP 172
Score = 47.5 bits (113), Expect = 1e-06
Identities = 9/64 (14%), Positives = 22/64 (34%)
Query: 225 HSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
S S ++ + + + ++ +L + + + +A+ IP F
Sbjct: 24 TYDPTYSDFCQFRPPVRVNDGGGSVTLELSQLSMLPHLADLVSYSIQKVIGFAKMIPGFR 83
Query: 285 DLQH 288
DL
Sbjct: 84 DLTS 87
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 127 bits (320), Expect = 7e-34
Identities = 46/117 (39%), Positives = 64/117 (54%), Gaps = 1/117 (0%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
+ NIC+ A + LF+ VEWA+ IP F +L + DQV LLR W+EL + + S S+ +
Sbjct: 268 DPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIAVKD 327
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
LL A GLH +A RV E V K++ + +D E CL+AIVLF
Sbjct: 328 GILL-ATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMDKTELGCLRAIVLFNP 383
Score = 52.4 bits (125), Expect = 7e-08
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 225 HSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFP 284
L + +++ + E Y A + + NIC+ A + LF+ VEWA+ IP F
Sbjct: 237 VERILEAELAVEPKTETYVEANMGL-NPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFS 295
Query: 285 DLQH 288
+L
Sbjct: 296 ELPL 299
>1nrl_A Orphan nuclear receptor PXR; PXR, xenobiotic, SRC-1, ligand binding
domain, transcription; HET: SRL; 2.00A {Homo sapiens}
SCOP: a.123.1.1 PDB: 1ilh_A* 1ilg_A* 1m13_A* 2qnv_A*
3r8d_A* 3ctb_A 3ctc_A 3hvl_A* 1skx_A* 2o9i_A*
Length = 316
Score = 124 bits (312), Expect = 9e-34
Identities = 23/114 (20%), Positives = 46/114 (40%), Gaps = 3/114 (2%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ ++ +++ + + +A+ I +F DL + DQ++LL+ EL L +
Sbjct: 122 LPHMADMSTYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTW 181
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
A ++ + F LK L + EY ++AI LF+
Sbjct: 182 ECGRLSYCLEDTAGGFQQLLLEPMLKF---HYMLKKLQLHEEEYVLMQAISLFS 232
Score = 53.0 bits (127), Expect = 3e-08
Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 3/82 (3%)
Query: 209 SASAASAAIAAAGLNGHSSYLSSYISLLLRAEPYPTARYSQCM---QPNNIMGIDNICEL 265
S A S AA S +SL LR E Y + ++ ++
Sbjct: 69 SLQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADM 128
Query: 266 AARLLFSAVEWARNIPFFPDLQ 287
+ + + +A+ I +F DL
Sbjct: 129 STYMFKGIISFAKVISYFRDLP 150
>3ilz_A Thyroid hormone receptor, alpha isoform 1 variant; nuclear
receptor, signaling protein; HET: B72; 1.85A {Homo
sapiens} PDB: 3jzb_A* 3hzf_A* 2h79_A* 2h77_A* 1nav_A*
3uvv_A* 1xzx_X* 1y0x_X* 1nq1_A* 3jzc_A* 1nuo_A* 3imy_A*
1nq0_A* 1bsx_A* 1r6g_A* 1nq2_A* 3gws_X* 1n46_A* 2h6w_X*
2j4a_A* ...
Length = 267
Score = 123 bits (309), Expect = 1e-33
Identities = 24/118 (20%), Positives = 48/118 (40%), Gaps = 4/118 (3%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
++ + V++A+ +P F +L DQ+ LL+ E+ L A+ P
Sbjct: 70 EAFSEFTKIITPAITRVVDFAKKLPMFSELPXEDQIILLKGCCMEIMSLRAAVRYDPESD 129
Query: 61 APLLAA-AGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
L+ + + + D I + L A ++D E + L+A++L +T
Sbjct: 130 TLTLSGEMAVKREQLKNGGLGVVSDAIFEL---GKSLSAFNLDDTEVALLQAVLLMST 184
Score = 45.6 bits (108), Expect = 6e-06
Identities = 5/56 (8%), Positives = 17/56 (30%), Gaps = 2/56 (3%)
Query: 234 SLLLRAEPYPTARYSQCMQPNN--IMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
+ + + + ++ + V++A+ +P F +L
Sbjct: 45 RRKFLPDDIGQSPIVSMPDGDKVDLEAFSEFTKIITPAITRVVDFAKKLPMFSELP 100
>1z5x_E Ecdysone receptor ligand binding domain; ponasterone A, nuclear
receptor, ECR, USP, hormone/growth factor receptor
complex; HET: P1A; 3.07A {Bemisia tabaci}
Length = 310
Score = 123 bits (310), Expect = 2e-33
Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 2/114 (1%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+I E+ + VE+++ +P F L DQ+ALL+ SE+ + ++ +
Sbjct: 118 FRHITEITILTVQLIVEFSKRLPGFDKLIREDQIALLKACSSEVMMFRMARRYDAETDSI 177
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L A + + V D + + A+ VD+AEY+ L AIV+F+
Sbjct: 178 LFATNQPY--TRESYTVAGMGDTVEDLLRFCRHMCAMKVDNAEYALLTAIVIFS 229
Score = 41.7 bits (98), Expect = 1e-04
Identities = 20/119 (16%), Positives = 37/119 (31%), Gaps = 17/119 (14%)
Query: 181 QRGRVPPN--QSCLPGGLGPGQFAALTNGDSASAASAAIAAAGLNGHSSYLSSYISLLLR 238
Q+ + PN SC P G+ + S ++ G+ + I L+
Sbjct: 33 QKDKDKPNSTTSCSPDGIKQEI-----DPQRLDTDSQLLSVNGVKPITPEQEELIHRLVY 87
Query: 239 AE-------PYPTARYSQCMQPNN---IMGIDNICELAARLLFSAVEWARNIPFFPDLQ 287
+ P R +I E+ + VE+++ +P F L
Sbjct: 88 FQNEYEHPSPEDIKRIVNAAPEEENVAEERFRHITEITILTVQLIVEFSKRLPGFDKLI 146
>3f5c_B Nuclear receptor subfamily 0 group B member 1; transcriptional
corepressor, regulatory complex, DNA-binding,
lipid-binding, metal-binding; 3.00A {Mus musculus}
Length = 268
Score = 119 bits (299), Expect = 2e-32
Identities = 25/141 (17%), Positives = 49/141 (34%), Gaps = 24/141 (17%)
Query: 4 DNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPL 63
+CE A+ L + + + +P F L + Q+ L+R W+ L +L +Q + + +
Sbjct: 50 QVVCEAASAGLLKTLRFVKYLPCFQILPLDQQLVLVRSCWAPLLMLELAQDHLHFEMMEI 109
Query: 64 LAAAGLHAS------------------------PMAADRVVAFMDHIRVFQEQVEKLKAL 99
A + ++ + K +L
Sbjct: 110 PETNTTQEMLTTRRQETEGPEPAEPQATEQPQMVSAEAGHLLPAAAVQAIKSFFFKCWSL 169
Query: 100 HVDSAEYSCLKAIVLFTTGKR 120
++D+ EY+ LK VLF
Sbjct: 170 NIDTKEYAYLKGTVLFNPDLP 190
Score = 51.4 bits (122), Expect = 9e-08
Identities = 7/59 (11%), Positives = 18/59 (30%)
Query: 230 SSYISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
+ + + + + +CE A+ L + + + +P F L
Sbjct: 20 QTPATPQEQPRAPWWDASPGVQRLITLKDPQVVCEAASAGLLKTLRFVKYLPCFQILPL 78
>3cqv_A Nuclear receptor subfamily 1 group D member 2; reverb beta, heme,
NR1D2, DNA-binding, metal-binding, nucleus, repressor,
transcription; HET: HEM; 1.90A {Homo sapiens} PDB:
2v7c_A 2v0v_A
Length = 199
Score = 117 bits (294), Expect = 3e-32
Identities = 25/115 (21%), Positives = 43/115 (37%), Gaps = 4/115 (3%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ + VE+A+ IP F DL DQV LL+ E+ ++ +
Sbjct: 22 WEEFSMSFTPAVKEVVEFAKRIPGFRDLSQHDQVNLLKAGTFEVLMVRFASLFDAKERTV 81
Query: 63 LLAAA-GLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ + + ++ + E EKL AL + E S A+VL +
Sbjct: 82 TFLSGKKYSVDDLHSMGAGDLLNSM---FEFSEKLNALQLSDEEMSLFTAVVLVS 133
Score = 42.3 bits (100), Expect = 6e-05
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 259 IDNICELAARLLFSAVEWARNIPFFPDLQH 288
+ + VE+A+ IP F DL
Sbjct: 22 WEEFSMSFTPAVKEVVEFAKRIPGFRDLSQ 51
>1osh_A BIle acid receptor; nuclear receptor, ligand binding domain,
transcription; HET: FEX; 1.80A {Homo sapiens} SCOP:
a.123.1.1 PDB: 3l1b_A* 3bej_A* 3fli_A* 3hc5_A* 3rvf_A*
3dct_A* 3dcu_A* 3ruu_A* 3rut_A* 3olf_A* 3okh_A* 3fxv_A*
3oki_A* 3omk_A* 3omm_A* 3oof_A* 3ook_A* 3hc6_A* 3p89_A*
3p88_A* ...
Length = 232
Score = 116 bits (293), Expect = 1e-31
Identities = 23/114 (20%), Positives = 43/114 (37%), Gaps = 5/114 (4%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+ E+A + VE+ + +P F L DQ+ALL+ E L +++
Sbjct: 44 FLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIF-----NK 98
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
L + ++I + + L + EY+ L AIV+ +
Sbjct: 99 KLPSGHSDLLEERIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILS 152
Score = 45.8 bits (109), Expect = 5e-06
Identities = 8/47 (17%), Positives = 16/47 (34%)
Query: 240 EPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDL 286
P + + + E+A + VE+ + +P F L
Sbjct: 25 MPQEITNKILKEEFSAEENFLILTEMATNHVQVLVEFTKKLPGFQTL 71
>2nxx_E Ecdysone receptor (ECR, NRH1); hormone receptor, APO and holo
ligand binding pocket, hormone/growth factor complex;
HET: P1A; 2.75A {Tribolium castaneum}
Length = 248
Score = 117 bits (294), Expect = 1e-31
Identities = 28/114 (24%), Positives = 51/114 (44%), Gaps = 2/114 (1%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAP 62
+I E+ + VE+A+ +P F L DQ+ALL+ SE+ + ++
Sbjct: 54 FRHITEITILTVQLIVEFAKRLPGFDKLLREDQIALLKACSSEVMMFRMARRYDV-QTDS 112
Query: 63 LLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+L S + + + I + ++ VD+AEY+ L AIV+F+
Sbjct: 113 ILFVNNQPYS-RDSYNLAGMGETIEDLLHFCRTMYSMRVDNAEYALLTAIVIFS 165
Score = 41.2 bits (97), Expect = 2e-04
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 259 IDNICELAARLLFSAVEWARNIPFFPDLQH 288
+I E+ + VE+A+ +P F L
Sbjct: 54 FRHITEITILTVQLIVEFAKRLPGFDKLLR 83
>3dzy_D Peroxisome proliferator-activated receptor gamma; DNA-binding,
HOST-virus interaction, metal-binding, nucleus,
receptor, transcription, transcription regulation,
zinc-FIN activator; HET: DNA REA BRL; 3.10A {Homo
sapiens} PDB: 3dzu_D* 3e00_D* 2env_A
Length = 419
Score = 119 bits (300), Expect = 3e-31
Identities = 22/114 (19%), Positives = 42/114 (36%), Gaps = 1/114 (0%)
Query: 4 DNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPL 63
+ + E+A++IP F +L + DQV LL+ E+ + M +
Sbjct: 225 QGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASL-MNKDGVLI 283
Query: 64 LAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
G F D + E K AL +D ++ + A+++ +
Sbjct: 284 SEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSG 337
Score = 42.4 bits (99), Expect = 1e-04
Identities = 16/112 (14%), Positives = 38/112 (33%), Gaps = 4/112 (3%)
Query: 181 QRGRVPPNQSCLPGGLGPGQFAALTNGDSASAASAAIAAAGLNGHSSYLSSYISLLLRAE 240
++ P + L + + + A + AI S ++ ++ L+ E
Sbjct: 142 DIDQLNPESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGE 201
Query: 241 PYPTARYSQCMQPNN----IMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
++ +Q + I + + E+A++IP F +L
Sbjct: 202 DKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDL 253
>2r40_D Ecdysone receptor, 20-hydroxy-ecdysone receptor; nuclear receptor
ligand-binding domain, anti-parallel alpha- sandwich,
ecdysone receptor, ECR, gene regulation; HET: FLC 20E
EPH; 2.40A {Heliothis virescens} SCOP: a.123.1.1 PDB:
1r1k_D* 3ixp_D* 1r20_D*
Length = 266
Score = 114 bits (288), Expect = 1e-30
Identities = 27/116 (23%), Positives = 49/116 (42%), Gaps = 2/116 (1%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHV 60
M I E+ + VE+A+ +P F + +DQ+ LL+ SE+ +L ++
Sbjct: 68 MPFRQITEMTILTVQLIVEFAKGLPGFAKISQSDQITLLKACSSEVMMLRVARRYDAATD 127
Query: 61 APLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ L A A R I + ++ +D+ Y+ L AIV+F+
Sbjct: 128 SVLF--ANNQAYTRDNYRKAGMAYVIEDLLHFCRCMYSMMMDNVHYALLTAIVIFS 181
Score = 44.7 bits (106), Expect = 1e-05
Identities = 9/49 (18%), Positives = 18/49 (36%)
Query: 240 EPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
+ S ++ M I E+ + VE+A+ +P F +
Sbjct: 51 KRVTQTWQSDEDDEDSDMPFRQITEMTILTVQLIVEFAKGLPGFAKISQ 99
>2p54_A PPAR-alpha, peroxisome proliferator-activated receptor alpha; PPAR
alpha GW735 SRC1 agonist HDLC, transcription; HET: 735;
1.79A {Homo sapiens} SCOP: a.123.1.1 PDB: 3fei_A*
1i7g_A* 3kdu_A* 3kdt_A* 2rew_A* 1kkq_A* 3g8i_A* 3et1_A*
2znn_A* 3sp6_A* 1k7l_A* 2npa_A* 2xyj_A* 2xyw_A* 2xyx_A*
2q5g_A* 3gwx_A* 3dy6_A* 1gwx_A* 3peq_A* ...
Length = 267
Score = 107 bits (268), Expect = 8e-28
Identities = 23/114 (20%), Positives = 40/114 (35%), Gaps = 2/114 (1%)
Query: 5 NICELAARL-LFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPL 63
+ C+ + + E+A+ IP F +L + DQV LL+ E S +
Sbjct: 73 HCCQCTSVETVTELTEFAKAIPGFANLDLNDQVTLLKYGVYEAIFAMLSSVMNK-DGMLV 131
Query: 64 LAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTT 117
G F D + + K AL +D ++ S A ++
Sbjct: 132 AYGNGFITREFLKSLRKPFCDIMEPKFDFAMKFNALELDDSDISLFVAAIICCG 185
Score = 48.0 bits (114), Expect = 1e-06
Identities = 13/80 (16%), Positives = 30/80 (37%), Gaps = 3/80 (3%)
Query: 212 AASAAIAAAGLNGHSSYLSSYISLLLRAEPYPTARY--SQCMQPNNIMGIDNICELAARL 269
+ I + + + ++ + L AE A+ + + I + C+ +
Sbjct: 22 VKARVILSGKASNNPPFVIHDMETLCMAEKTLVAKLVANGIQNKEAEVRIFHCCQCTSVE 81
Query: 270 -LFSAVEWARNIPFFPDLQH 288
+ E+A+ IP F +L
Sbjct: 82 TVTELTEFAKAIPGFANLDL 101
>1nq7_A Nuclear receptor ROR-beta; ligand-binding domain, retinoids,
retinoic acid, synthetic ligand, antagonist,
transcription; HET: ARL; 1.50A {Rattus norvegicus} SCOP:
a.123.1.1 PDB: 1k4w_A* 1n4h_A*
Length = 244
Score = 104 bits (262), Expect = 5e-27
Identities = 20/111 (18%), Positives = 41/111 (36%), Gaps = 3/111 (2%)
Query: 6 ICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPLLA 65
+ VE+A+ I F +L DQ+ LL+ E+ ++ + PL+ L
Sbjct: 55 CAIQITHAIQYVVEFAKRITGFMELCQNDQILLLKSGCLEVVLVRMCRAFNPLNNTVLFE 114
Query: 66 AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
+ + D + + + L +L + E + + VL +
Sbjct: 115 GKYGGMQMF---KALGSDDLVNEAFDFAKNLCSLQLTEEEIALFSSAVLIS 162
Score = 39.8 bits (93), Expect = 5e-04
Identities = 7/52 (13%), Positives = 14/52 (26%)
Query: 237 LRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
L + + + + VE+A+ I F +L
Sbjct: 30 LAWQTHTYEEIKAYQSKSREALWQQCAIQITHAIQYVVEFAKRITGFMELCQ 81
>3gyt_A Nuclear hormone receptor of the steroid/thyroid hormone receptors
superfamily; nuclear receptor, ligand binding domain,
dafachronic acid, nematode, DNA-binding, metal-binding,
nucleus, receptor; HET: DL4; 2.40A {Strongyloides
stercoralis} PDB: 3gyu_A*
Length = 244
Score = 103 bits (257), Expect = 2e-26
Identities = 14/118 (11%), Positives = 38/118 (32%), Gaps = 4/118 (3%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMP---LH 59
+I + + V+ A+ + F ++ + +LL+ E+ + +
Sbjct: 43 PTDILNVMDITMRRLVKMAKRLGAFNEISEAGKFSLLKGGMIEMLTIRGVTVFNADKGVW 102
Query: 60 VAPLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKA-LHVDSAEYSCLKAIVLFT 116
P+ + + + R + F L + + + + +VLF
Sbjct: 103 QTPVDGHSQISFNMFDKLRPDIKDTQKKGFLHFFNLLHSDVRKNDLAIDIIVLMVLFD 160
Score = 40.3 bits (94), Expect = 3e-04
Identities = 7/56 (12%), Positives = 18/56 (32%), Gaps = 1/56 (1%)
Query: 233 ISLLLRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
S EP + + + +I + + V+ A+ + F ++
Sbjct: 18 DSFQCMNEPLDNDQQASTLAKKEHN-PTDILNVMDITMRRLVKMAKRLGAFNEISE 72
>3up3_A Acedaf-12; ligand binding domain, nematode, steroid binding
protein- transcription complex; HET: XCA; 1.25A
{Ancylostoma ceylanicum} PDB: 3up0_A*
Length = 243
Score = 98.8 bits (246), Expect = 8e-25
Identities = 18/119 (15%), Positives = 40/119 (33%), Gaps = 5/119 (4%)
Query: 3 IDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMP----L 58
+I + + V+ A+ +P F DL + ALL+ E+ + +
Sbjct: 43 PADIMNIMDVTMRRFVKMAKRLPAFNDLSQDGKFALLKGGMIEMLTVRGVRRFDSSSGSW 102
Query: 59 HVAPLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKA-LHVDSAEYSCLKAIVLFT 116
L ++ + + + F + + + + S + IVLF+
Sbjct: 103 TTPTLGESSEVSINMFDQLNADVRSEQKMRFLQFFKIFHEDIRSNDLVISMIMLIVLFS 161
Score = 38.7 bits (90), Expect = 0.001
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 240 EPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
+P R + N D I + + V+ A+ +P F DL
Sbjct: 25 DPMEQGRQATSFLKNEKSPAD-IMNIMDVTMRRFVKMAKRLPAFNDLSQ 72
>3l0l_A Nuclear receptor ROR-gamma; nuclear receptor, rorgamma, alternative
splicing, DNA-bindin binding, nucleus, receptor,
zinc-finger, acetylation, activator; HET: HC3; 1.74A
{Homo sapiens} PDB: 3b0w_A* 3kyt_A* 3l0j_A*
Length = 248
Score = 96.9 bits (241), Expect = 5e-24
Identities = 21/111 (18%), Positives = 36/111 (32%), Gaps = 3/111 (2%)
Query: 6 ICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPLLA 65
+ VE+A+ + F +L DQ+ LL+ E+ ++ + +
Sbjct: 61 CAHHLTEAIQYVVEFAKRLSGFMELCQNDQIVLLKAGAMEVVLVRMCRAYNADNRTVFFE 120
Query: 66 AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
A + I F L ALH E + A+VL
Sbjct: 121 GKYGGMELFRALGCSELISSIFDF---SHSLSALHFSEDEIALYTALVLIN 168
Score = 32.2 bits (73), Expect = 0.14
Identities = 10/66 (15%), Positives = 19/66 (28%), Gaps = 2/66 (3%)
Query: 225 HSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMG--IDNICELAARLLFSAVEWARNIPF 282
+ + LLR +R M + + VE+A+ +
Sbjct: 22 YRETCQLRLEDLLRQRSNIFSREEVTGYQRKSMWEMWERCAHHLTEAIQYVVEFAKRLSG 81
Query: 283 FPDLQH 288
F +L
Sbjct: 82 FMELCQ 87
>1n83_A Nuclear receptor ROR-alpha; three-layered alpha helical sandwich,
transcription regulation, nuclear protein, DNA binding,
lipid binding protein; HET: CLR; 1.63A {Homo sapiens}
SCOP: a.123.1.1 PDB: 1s0x_A*
Length = 270
Score = 96.5 bits (240), Expect = 1e-23
Identities = 23/111 (20%), Positives = 43/111 (38%), Gaps = 3/111 (2%)
Query: 6 ICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLNASQCSMPLHVAPLLA 65
+ VE+A+ I F +L DQ+ LL+ E+ + + + +
Sbjct: 70 CAIKITEAIQYVVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQN--NTVY 127
Query: 66 AAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFT 116
G +AS + + D I E + L ++H+ E + A VL +
Sbjct: 128 FDGKYAS-PDVFKSLGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMS 177
Score = 39.1 bits (91), Expect = 0.001
Identities = 6/52 (11%), Positives = 14/52 (26%)
Query: 237 LRAEPYPTARYSQCMQPNNIMGIDNICELAARLLFSAVEWARNIPFFPDLQH 288
+ + + + + VE+A+ I F +L
Sbjct: 45 ITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQ 96
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 46.2 bits (109), Expect = 9e-06
Identities = 48/291 (16%), Positives = 90/291 (30%), Gaps = 87/291 (29%)
Query: 8 ELAARLL-FSAVEWARNIPFFPDLQVTDQVALLRLVWSELF---VLNASQCSMPLHVAPL 63
EL + L + + +V +L L +E F L + +H
Sbjct: 59 ELVGKFLGYVSSL-------VEPSKVGQFDQVLNLCLTE-FENCYLEGND----IHA--- 103
Query: 64 LAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIVLFTTGKR--- 120
LAA L + + I+ + + A + + LF
Sbjct: 104 LAAKLLQENDTTLVKTKEL---IKNY------ITARIMAKRPFDKKSNSALFRAVGEGNA 154
Query: 121 ----IFTG-------------------VLLKALHVDSAEYSCLKAIVLFTTGKRMFGKPL 157
IF G VL+ L + + + + I +++F + L
Sbjct: 155 QLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 158 PL-----------NQHYTATISNVPLSSSLSTAVQRGR--VPPNQSCLPGGLGPGQFAAL 204
+ ++ Y +I P+S L +Q V + G PG+ +
Sbjct: 214 NILEWLENPSNTPDKDYLLSI---PISCPLIGVIQLAHYVV----TAKLLGFTPGELRSY 266
Query: 205 TNGDSASA----ASAAIAAAGLNGHSSY--LSSYISLL----LRA-EPYPT 244
G + + + AIA + S + + I++L +R E YP
Sbjct: 267 LKGATGHSQGLVTAVAIAETD-SWESFFVSVRKAITVLFFIGVRCYEAYPN 316
Score = 44.7 bits (105), Expect = 3e-05
Identities = 61/387 (15%), Positives = 106/387 (27%), Gaps = 140/387 (36%)
Query: 3 IDNICELAARLL-----------------FSAVEWARNIPFFPDLQVTDQVA-------L 38
+ ++ + +A L + +EW N PD + +
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV 243
Query: 39 LRLVWSELFVLNASQCSM-PLHVAPLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKLK 97
++L +V+ A P + L A H+ + +A D F V K
Sbjct: 244 IQLAH---YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV--RK 298
Query: 98 ALHVDSAEYSCLKAIVLFTTGKR---IFTGVLLKA-----------------LHVDSAEY 137
A+ V LF G R + L L + +
Sbjct: 299 AITV------------LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ 346
Query: 138 SCLKAIVLFTTGKRMFGKPLPLNQHYTATISNV-----------PLS-SSLSTAVQRGRV 185
++ V LP + IS V P S L+ +++ +
Sbjct: 347 EQVQDYV------NKTNSHLPAGKQ--VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKA 398
Query: 186 PP--NQSCLPGG----LGPGQFAALTNGDSASAASAAIAAAGLNGHSSYLSSYISLLLRA 239
P +QS +P +F L +A+ HS L L+ +
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRF--LP-----------VASPF---HSHLLVPASDLINKD 442
Query: 240 EPYPTARYSQC--------------MQPNNIMGIDNICELAARLLFSAVEWARNIPF--- 282
++ ++ + + I + RL V+W F
Sbjct: 443 LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL---PVKWETTTQFKAT 499
Query: 283 ----F-P-------DLQHR----SGVR 293
F P L HR +GVR
Sbjct: 500 HILDFGPGGASGLGVLTHRNKDGTGVR 526
Score = 43.5 bits (102), Expect = 7e-05
Identities = 53/317 (16%), Positives = 93/317 (29%), Gaps = 97/317 (30%)
Query: 1 MGIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSEL-FVLNASQCSMPLH 59
MG+D L+ + A+++ D +S L V+N P++
Sbjct: 1631 MGMD---------LYKTSKAAQDV-----WNRADNHFKDTYGFSILDIVINN-----PVN 1671
Query: 60 VAPLLAAAGLHA-----SPMAADRVV-AFMDHIRVFQEQVEKLKALHVDSAEYSCLKAIV 113
+ S M + +V + ++F+E E + S + +
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK------GL 1725
Query: 114 LFTTGKRIFTGVLLKALHVDSAEYSCLKAIVLFTTGKRMFGKPLPLNQH----YTA--TI 167
L T FT L + A + LK+ L G H Y A ++
Sbjct: 1726 LSAT---QFTQPALTLMEK--AAFEDLKSKGLIPADATFAG-------HSLGEYAALASL 1773
Query: 168 SNV-PLSSSLSTAVQRGRVPPNQSCLPGG-----------LGPGQFAALTNGDSASAASA 215
++V + S + RG Q +P + PG+ AA + ++
Sbjct: 1774 ADVMSIESLVEVVFYRGMTM--QVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVE 1831
Query: 216 AIA--------AAGLN---------GHSSYLSSYISLLLRAEPYPTARYSQCMQPNNIMG 258
+ N G L + ++L +
Sbjct: 1832 RVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL---------------NFIKLQK 1876
Query: 259 IDNICELAARLLFSAVE 275
ID I EL L VE
Sbjct: 1877 IDII-ELQKSLSLEEVE 1892
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.30
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 90 QEQVEKLKA---LHV-DSAEYSCLKAIV 113
++ ++KL+A L+ DSA +KA +
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATM 46
>3n79_A PDUT; FES cluster, BMC shell protein, carboxysome, electron T;
1.50A {Salmonella enterica subsp} PDB: 3pac_A
Length = 192
Score = 28.7 bits (64), Expect = 1.9
Identities = 12/63 (19%), Positives = 19/63 (30%), Gaps = 1/63 (1%)
Query: 197 GPGQFAALTNGDSASAASAAIAAAGLNGHSSYLSSYISLLLRAEPYPTARYSQCMQPNNI 256
PG+F + GD A AI + S + + P +
Sbjct: 38 SPGKFLLMLGGD-IGAIQQAIETGTSQAGEMLVDSLVLANIHPSVLPAISGLNSVDKRQA 96
Query: 257 MGI 259
+GI
Sbjct: 97 VGI 99
>2glf_A Probable M18-family aminopeptidase 1; putative, NYSGXRC, structural
genomics, PS protein structure initiative; 2.80A
{Thermotoga maritima}
Length = 450
Score = 28.1 bits (63), Expect = 3.9
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 110 KAIVLFTTGKRIFTGVLLKALHVDS 134
KAI F + G+ L H+DS
Sbjct: 71 KAIAAFRVVDDLKRGLNLVVAHIDS 95
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease,
double strand DNA repair, protein-DNA CO hydrolase-DNA
complex; HET: DNA; 2.80A {Bacillus subtilis} PDB:
3u44_A*
Length = 1232
Score = 27.2 bits (60), Expect = 7.9
Identities = 14/105 (13%), Positives = 35/105 (33%), Gaps = 29/105 (27%)
Query: 21 ARNIP--------FFPDLQVTDQVALLRLV---------------------WSELFVLNA 51
A+ IP +F ++V +++L+++ +EL ++
Sbjct: 604 AQGIPVYANLTSGYFEAVEVAVALSVLKVIDNPYQDIPLASVLRSPIVGADENELSLIRL 663
Query: 52 SQCSMPLHVAPLLAAAGLHASPMAADRVVAFMDHIRVFQEQVEKL 96
P + A A S ++ F H++ ++ +
Sbjct: 664 ENKKAPYYEAMKDYLAAGDRSDELYQKLNTFYGHLQKWRAFSKNH 708
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.134 0.403
Gapped
Lambda K H
0.267 0.0589 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,543,516
Number of extensions: 266542
Number of successful extensions: 792
Number of sequences better than 10.0: 1
Number of HSP's gapped: 733
Number of HSP's successfully gapped: 161
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (26.0 bits)