RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7884
(240 letters)
>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 = 151 bits (383), Expect = 6e-44
Identities = 59/233 (25%), Positives = 106/233 (45%), Gaps = 14/233 (6%)
Query: 3 QGFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSR 62
+GFFRR+I+ ++ Y D C + + +RN+CQYCRF+KCLAVGMS +++R+GR+P+ +
Sbjct: 74 KGFFRRTIRLKLIYDR-CDLNCRIHKKSRNKCQYCRFQKCLAVGMSHNAIRFGRMPQAEK 132
Query: 63 ERSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHSNC 122
E+ +E S S S L ++A
Sbjct: 133 EKLLAEISSDIDQLNPESADLRALAKHLYDSYIKSF------------PLTKAKARAILT 180
Query: 123 EYTEEGTRRLVRKPVSL-PPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVE 181
T + + ++ SL + + + E + + ++Q +VQ + E
Sbjct: 181 GKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITE 240
Query: 182 FAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLTTDSSLTFSDGMYVTRQQ 234
+AK +PGF +L +DQ+ L+K G E+ ++ L + S+G ++
Sbjct: 241 YAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTRE 293
>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 = 129 bits (325), Expect = 3e-35
Identities = 52/235 (22%), Positives = 95/235 (40%), Gaps = 55/235 (23%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
GFF+R+++K + Y C + CL+ + RNRCQYCR++KCLA+GM R++V+ R + R
Sbjct: 162 GFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRGKDRN 221
Query: 64 RSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHSNCE 123
++ E + ++ ++ +++L
Sbjct: 222 ENEVE-----------------------STSSANEDMPVERILE---------------- 242
Query: 124 YTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFA 183
+ E + + + S + +VE+A
Sbjct: 243 --------------AELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWA 288
Query: 184 KRVPGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLE 236
KR+P F +L DDQ+IL++ G+ EL I S + + + G++V R
Sbjct: 289 KRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAH 343
>1a6y_A Orphan nuclear receptor NR1D1; orphan receptor, DNA-binding,
reverb, REV- ERB, transcription regulation,
transcription/DNA complex; HET: DNA 5IU; 2.30A {Homo
sapiens} SCOP: g.39.1.2 PDB: 1ga5_A* 1hlz_A
Length = 94
Score = 111 bits (280), Expect = 6e-32
Identities = 42/62 (67%), Positives = 55/62 (88%), Gaps = 1/62 (1%)
Query: 4 GFFRRSIQKQIEY-RCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSR 62
GFFRRSIQ+ I+Y RCL++ C ++R+NRNRCQ CRFKKCL+VGMSRD+VR+GR+PKR +
Sbjct: 32 GFFRRSIQQNIQYKRCLKNENCSIVRINRNRCQQCRFKKCLSVGMSRDAVRFGRIPKREK 91
Query: 63 ER 64
+R
Sbjct: 92 QR 93
>1ynw_B Retinoic acid receptor RXR-alpha, retinoid X receptor; VDR,
nuclear receptor, protein-DNA complex, transcripti
complex; 3.00A {Homo sapiens} SCOP: g.39.1.2
Length = 99
Score = 111 bits (279), Expect = 7e-32
Identities = 29/69 (42%), Positives = 48/69 (69%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
GFF+R+++K + Y C + CL+ + RNRCQYCR++KCLA+GM R++V+ R + R
Sbjct: 28 GFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRGKDRN 87
Query: 64 RSDSETGST 72
++ E+ S+
Sbjct: 88 ENEVESTSS 96
>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 = 115 bits (290), Expect = 2e-31
Identities = 37/159 (23%), Positives = 68/159 (42%), Gaps = 20/159 (12%)
Query: 83 SSLETAGPVQ-SLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPP 141
SS ++ EL+ + +S++H C+Y E +++ +
Sbjct: 2 SSHHHHHHLEVLFQGPAELE-------HLAQNISKSHLETCQYLREELQQITWQTFLQE- 53
Query: 142 SEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILI 201
QR +WQ A +T ++Q VVEFAKR+ GF +L Q+DQ++L+
Sbjct: 54 ----------EIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVLL 103
Query: 202 KMGFFELWIGYVSRL-TTDSSLTFSDGMYVTRQQLEVMY 239
K G E+ + R + ++ + DG Y + + +
Sbjct: 104 KAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLG 142
>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 = 114 bits (286), Expect = 4e-31
Identities = 35/133 (26%), Positives = 61/133 (45%), Gaps = 12/133 (9%)
Query: 108 YDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQ 167
+ + ++H C+YT E +L + + + R LWQQ
Sbjct: 6 DRIAQNIIKSHLETCQYTMEELHQLAWQTHTYEEIK-----------AYQSKSREALWQQ 54
Query: 168 FAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL-TTDSSLTFSD 226
A +T ++Q VVEFAKR+ GF +L Q+DQ++L+K G E+ + + R ++ +
Sbjct: 55 CAIQITHAIQYVVEFAKRITGFMELCQNDQILLLKSGCLEVVLVRMCRAFNPLNNTVLFE 114
Query: 227 GMYVTRQQLEVMY 239
G Y Q + +
Sbjct: 115 GKYGGMQMFKALG 127
>2ebl_A COUP transcription factor 1; DNA-binding, metal-binding, nuclear
protein, receptor, transcription regulation, zinc,
EAR3, erbal3 tfcoup1; NMR {Homo sapiens}
Length = 89
Score = 107 bits (270), Expect = 1e-30
Identities = 25/56 (44%), Positives = 38/56 (67%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPK 59
FF+RS+++ + Y C + C + + +RN+CQYCR KKCL VGM R++V+ G P
Sbjct: 32 SFFKRSVRRNLTYTCRANRNCPIDQHHRNQCQYCRLKKCLKVGMRREAVQRGSGPS 87
>1dsz_A RAR-alpha, retinoic acid receptor alpha; RAR, nuclear receptor,
protein-DNA, transcription/DNA complex; HET: DNA; 1.70A
{Homo sapiens} SCOP: g.39.1.2 PDB: 1hra_A
Length = 86
Score = 107 bits (269), Expect = 2e-30
Identities = 33/57 (57%), Positives = 42/57 (73%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKR 60
GFFRRSIQK + Y C RD C++ ++ RNRCQYCR +KC VGMS++SVR R K+
Sbjct: 29 GFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRNDRNKKK 85
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 112 bits (282), Expect = 2e-30
Identities = 41/134 (30%), Positives = 64/134 (47%), Gaps = 8/134 (5%)
Query: 108 YDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQ 167
DVI V++AH Y + +L P + + S + + +W+
Sbjct: 16 EDVISQVARAHREIFTYAHD---KLGSSPGNFNANHASGSPYPHGRSGRTVQE---IWED 69
Query: 168 FAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL--TTDSSLTFS 225
F+ TP+V+ VVEFAK +PGF DLSQ DQ+ L+K G FE+ + + L D ++ F
Sbjct: 70 FSMSFTPAVREVVEFAKHIPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFNVKDQTVMFL 129
Query: 226 DGMYVTRQQLEVMY 239
+ Q+L M
Sbjct: 130 SRTTYSLQELGAMG 143
>2han_A Protein ultraspiracle; transcription regulation, transcription
factor, DNA-binding, nuclear protein, nuclear receptor,
zinc finger; 1.95A {Drosophila melanogaster} SCOP:
g.39.1.2
Length = 93
Score = 106 bits (266), Expect = 6e-30
Identities = 24/57 (42%), Positives = 38/57 (66%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKR 60
GFF+R+++K + Y C + C++ + RNRCQYCR++KCL GM R++V+ R
Sbjct: 35 GFFKRTVRKDLTYACRENRNCIIDKRQRNRCQYCRYQKCLTCGMKREAVQEERQGIH 91
>1cit_A NGFI-B, protein (orphan nuclear receptor NGFI-B); early immediate
response gene product, transcription factor, monomeric
protein-DNA complex; HET: DNA; 2.70A {Rattus
norvegicus} SCOP: g.39.1.2
Length = 89
Score = 106 bits (266), Expect = 6e-30
Identities = 29/59 (49%), Positives = 40/59 (67%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSR 62
GFF+R++QK +Y CL + C V + RNRCQ+CRF+KCLAVGM ++ VR + R
Sbjct: 25 GFFKRTVQKSAKYICLANKDCPVDKRRRNRCQFCRFQKCLAVGMVKEVVRTDSLKGRRG 83
>2a66_A Orphan nuclear receptor NR5A2; protein-DNA complex, zinc finger,
DNA- binding domain, transcription factor, FTZ-F1,
C-terminal extension; 2.20A {Homo sapiens} PDB: 2ff0_A
Length = 113
Score = 105 bits (265), Expect = 2e-29
Identities = 24/60 (40%), Positives = 37/60 (61%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
GFF+R++Q Y C+ + C + + R RC YCRF+KCL+VGM ++VR R+ +
Sbjct: 34 GFFKRTVQNNKRYTCIENQNCQIDKTQRKRCPYCRFQKCLSVGMKLEAVRADRMRGGRNK 93
>1lo1_A Steroid hormone receptor ERR2; estrogen related receptor 2, DNA
binding domain, HERR2, hormone nuclear receptor; NMR
{Homo sapiens} SCOP: g.39.1.2
Length = 98
Score = 103 bits (258), Expect = 1e-28
Identities = 29/69 (42%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPK---R 60
FF+R+IQ IEY C +C + + R CQ CRF K L VGM ++ VR RV +
Sbjct: 29 AFFKRTIQGNIEYSCPATNECEITKRRRKSCQACRFMKALKVGMLKEGVRLDRVRGGRQK 88
Query: 61 SRERSDSET 69
+ R DSE
Sbjct: 89 YKRRLDSEN 97
>2han_B Ecdysone receptor; transcription regulation, transcription factor,
DNA-binding, nuclear protein, nuclear receptor, zinc
finger; 1.95A {Drosophila melanogaster} SCOP: g.39.1.2
PDB: 1r0o_B 1r0n_B
Length = 119
Score = 103 bits (259), Expect = 1e-28
Identities = 29/90 (32%), Positives = 40/90 (44%), Gaps = 4/90 (4%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
GFFRRS+ K Y C C + R +CQ CR KKCLAVGM + V R
Sbjct: 33 GFFRRSVTKSAVYCCKFGRACEMDMYMRRKCQECRLKKCLAVGMRPECVVPENQCAMKRR 92
Query: 64 RSDSETGSTRVSTTGAEPPSSLETAGPVQS 93
++ +++T PSS + +
Sbjct: 93 EKKAQKEKDKMTT----SPSSQHGSPGIHR 118
>1dsz_B RXR-alpha, retinoic acid receptor RXR-alpha; RAR, nuclear
receptor, protein-DNA, transcription/DNA complex; HET:
DNA; 1.70A {Homo sapiens} SCOP: g.39.1.2 PDB: 1by4_A*
1rxr_A 1r0n_A 1r0o_A 2nll_A*
Length = 85
Score = 102 bits (257), Expect = 1e-28
Identities = 26/55 (47%), Positives = 40/55 (72%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVP 58
GFF+R+++K + Y C + CL+ + RNRCQYCR++KCLA+GM R++V+ R
Sbjct: 30 GFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQR 84
>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 = 107 bits (268), Expect = 2e-28
Identities = 33/146 (22%), Positives = 63/146 (43%), Gaps = 14/146 (9%)
Query: 95 PSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTA 154
P + ++ ++ +V +++ C+ E R S +
Sbjct: 1 PEAPYASLTEI--EHLVQSVCKSYRETCQLRLEDLLRQRSNIFSREEVTGYQRK------ 52
Query: 155 ECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVS 214
+W++ A H+T ++Q VVEFAKR+ GF +L Q+DQ++L+K G E+ + +
Sbjct: 53 -----SMWEMWERCAHHLTEAIQYVVEFAKRLSGFMELCQNDQIVLLKAGAMEVVLVRMC 107
Query: 215 RL-TTDSSLTFSDGMYVTRQQLEVMY 239
R D+ F +G Y + +
Sbjct: 108 RAYNADNRTVFFEGKYGGMELFRALG 133
>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 = 106 bits (266), Expect = 1e-27
Identities = 39/217 (17%), Positives = 70/217 (32%), Gaps = 48/217 (22%)
Query: 24 CLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPS 83
C V R + Q + K S D ++ P+R + P
Sbjct: 23 CAVKRK-EKKAQKDKDKPNSTTSCSPDGIKQEIDPQR-LDTDSQLLSVN------GVKPI 74
Query: 84 SLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSE 143
+ E + L + + E +R+V
Sbjct: 75 TPEQEELIHRL--------------------VYFQNEYEHPSPEDIKRIV---------- 104
Query: 144 VSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKM 203
+ A E+ ++ +VQ +VEF+KR+PGF L ++DQ+ L+K
Sbjct: 105 --------NAAPEEENVAEERFRHITEITILTVQLIVEFSKRLPGFDKLIREDQIALLKA 156
Query: 204 GFFELWIGYVSRL--TTDSSLTFSDGMYVTRQQLEVM 238
E+ + ++R S+ F+ TR+ V
Sbjct: 157 CSSEVMMFRMARRYDAETDSILFATNQPYTRESYTVA 193
>3g9m_A Glucocorticoid receptor; glucocorticoid, DNA-binding, allostery,
lever ARM, transcription, hormone; HET: DNA; 1.61A
{Rattus norvegicus} PDB: 3g6p_A* 3g6q_B* 3g6r_B*
3g6u_A* 3g8u_A* 3g8x_A* 3g97_B* 3g99_A* 3g9i_A* 3g9j_A*
3fyl_A* 3g9o_B* 3g9p_B* 3g6t_A* 1r4o_A 1r4r_A 1glu_A*
1gdc_A 2gda_A 1rgd_A ...
Length = 90
Score = 99.8 bits (249), Expect = 2e-27
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
FF+R+++ Q Y C C++ ++ R C CR++KCL GM+ ++ + + K ++
Sbjct: 27 VFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRYRKCLQAGMNLEARKTKKKIKGIQQ 86
Query: 64 RS 65
+
Sbjct: 87 AT 88
>3cbb_A HNF-4-alpha, hepatocyte nuclear factor 4-alpha, DNA binding
domain, nuclear; zinc finger; 2.00A {Homo sapiens}
Length = 78
Score = 99.3 bits (248), Expect = 2e-27
Identities = 24/53 (45%), Positives = 35/53 (66%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGR 56
GFFRRS++K Y C +C+V + RN+C+YCR KKC GM +++V+ R
Sbjct: 25 GFFRRSVRKNHMYSCRFSRQCVVDKDKRNQCRYCRLKKCFRAGMKKEAVQNER 77
>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 = 105 bits (263), Expect = 2e-27
Identities = 46/194 (23%), Positives = 75/194 (38%), Gaps = 48/194 (24%)
Query: 47 MSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLL 106
MS++SVR R + +E S E +S + ELD
Sbjct: 1 MSKESVRNDRNK-KKKEPSKQE---------------------CTESYEMTAELD----- 33
Query: 107 TYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQ 166
D+ + +AH P +S+A+ L LW
Sbjct: 34 --DLTEKIRKAHQETF-----------------PSLCQLGKYTTNSSADHRVRLDLGLWD 74
Query: 167 QFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL--TTDSSLTF 224
+F+ T + ++VEFAKR+PGF L+ DQ+ L+K ++ I + ++TF
Sbjct: 75 KFSELATKCIIKIVEFAKRLPGFTGLTIADQITLLKAACLDILILRICTRYTPEQDTMTF 134
Query: 225 SDGMYVTRQQLEVM 238
SDG+ + R Q+
Sbjct: 135 SDGLTLNRTQMHNA 148
>1kb2_A Vitamin D3 receptor; VDR, nuclear receptor, protein-DNA complex,
transcription/DNA complex; 2.70A {Homo sapiens} SCOP:
g.39.1.2 PDB: 1kb4_A 1kb6_A 1ynw_A
Length = 110
Score = 99.9 bits (249), Expect = 3e-27
Identities = 22/61 (36%), Positives = 37/61 (60%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
GFFRRS++++ + C +G C + + NR CQ CR K+C+ +GM ++ + +R RE
Sbjct: 31 GFFRRSMKRKALFTCPFNGDCRITKDNRRHCQACRLKRCVDIGMMKEFILTDEEVQRKRE 90
Query: 64 R 64
Sbjct: 91 M 91
>1hcq_A Protein (estrogen receptor); protein-DNA complex, complexed with
drug, transcription/DNA complex; HET: DNA; 2.40A {Homo
sapiens} SCOP: g.39.1.2 PDB: 1hcp_A 4aa6_A
Length = 84
Score = 99.0 bits (247), Expect = 3e-27
Identities = 21/55 (38%), Positives = 29/55 (52%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVP 58
FF+RSIQ +Y C +C + + R CQ CR +KC VGM + +R R
Sbjct: 29 AFFKRSIQGHNDYMCPATNQCTIDKNRRKSCQACRLRKCYEVGMMKGGIRKDRRG 83
>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 = 103 bits (258), Expect = 6e-27
Identities = 37/140 (26%), Positives = 60/140 (42%), Gaps = 15/140 (10%)
Query: 97 STELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAEC 156
+L +Q +I + AHH + T + R PV + S
Sbjct: 3 RPKLSEEQ---QRIIAILLDAHHKTYDPTYSDFCQF-RPPVRVNDGGGSVTL-------- 50
Query: 157 HESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL 216
E +L + A V+ S+Q+V+ FAK +PGF DL+ +DQ++L+K E+ + +
Sbjct: 51 -ELSQLSMLPHLADLVSYSIQKVIGFAKMIPGFRDLTSEDQIVLLKSSAIEVIMLRSNES 109
Query: 217 TT--DSSLTFSDGMYVTRQQ 234
T D S T + Y R
Sbjct: 110 FTMDDMSWTCGNQDYKYRVS 129
>2nll_B Protein (thyroid hormone receptor); complex (transcription
regulation/DNA), DNA-binding, nuclear protein, zinc-
finger, multigene family; HET: DNA 5IU; 1.90A {Homo
sapiens} SCOP: g.39.1.2 PDB: 3m9e_A*
Length = 103
Score = 97.5 bits (243), Expect = 2e-26
Identities = 30/72 (41%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 4 GFFRRSIQKQIE--YRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRS 61
GFFRR+IQK + Y C +GKC++ ++ RN+CQ CRFKKC+ VGM+ D V
Sbjct: 26 GFFRRTIQKNLHPSYSCKYEGKCVIDKVTRNQCQECRFKKCIYVGMATDLVLDDSKRLAK 85
Query: 62 RERSDSETGSTR 73
R+ + R
Sbjct: 86 RKLIEENREKRR 97
>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 = 101 bits (254), Expect = 3e-26
Identities = 26/143 (18%), Positives = 59/143 (41%), Gaps = 14/143 (9%)
Query: 111 ILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEV----SSPEVASSTAECH--------- 157
+ ++ + T+ R ++ + V +S + +
Sbjct: 8 AKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQS 67
Query: 158 ESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLT 217
+ + ++Q +VQ + E+AK +PGF +L +DQ+ L+K G E+ ++ L
Sbjct: 68 KEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLM 127
Query: 218 TDSSLTFSDG-MYVTRQQLEVMY 239
+ S+G ++TR+ L+ +
Sbjct: 128 NKDGVLISEGQGFMTREFLKSLR 150
>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 = 100 bits (251), Expect = 6e-26
Identities = 32/125 (25%), Positives = 53/125 (42%), Gaps = 5/125 (4%)
Query: 114 VSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVT 173
+ + HH + LVR V P + S E QQF +T
Sbjct: 1 MKKGHHHHHHGAISLITALVRSHVDTTPDP---SCLDYSHYEEQSMSEADKVQQFYQLLT 57
Query: 174 PSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVT 231
SV + +FA+++PG+ DL +DQ +L + EL++ ++ D+ L F +G +
Sbjct: 58 SSVDVIKQFAEKIPGYFDLLPEDQELLFQSASLELFVLRLAYRARIDDTKLIFCNGTVLH 117
Query: 232 RQQLE 236
R Q
Sbjct: 118 RTQCL 122
>1r4i_A Androgen receptor; AR, steroid receptor, protein-DNA complex,
transcription/DNA complex; 3.10A {Rattus norvegicus}
SCOP: g.39.1.2
Length = 105
Score = 95.6 bits (238), Expect = 1e-25
Identities = 14/69 (20%), Positives = 30/69 (43%)
Query: 4 GFFRRSIQKQIEYRCLRDGKCLVIRLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE 63
FF+R+ + + +Y C C + + R C CR +KC GM+ + + ++ +
Sbjct: 32 VFFKRAAEGKQKYLCASRNDCTIDKFRRKNCPSCRLRKCYEAGMTLGARKLKKLGNLKLQ 91
Query: 64 RSDSETGST 72
+ +
Sbjct: 92 EEGENSSAG 100
>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 = 100 bits (250), Expect = 2e-25
Identities = 39/208 (18%), Positives = 69/208 (33%), Gaps = 50/208 (24%)
Query: 31 RNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGP 90
+++ Q+ + P + E++ + T + + PP L P
Sbjct: 4 QHQHQHQHQHQQ---------------PLQEEEQAHA----TSLPPRASSPPQILPQLSP 44
Query: 91 VQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVA 150
Q +I + A + R+ P++ P
Sbjct: 45 EQ---------------LGMIEKLVAAQQQCNRRSFSDRLRVTPWPMAPDPH-------- 81
Query: 151 SSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWI 210
R + F SVQ +V+FAK++PGF LS++DQ+ L+K E+ +
Sbjct: 82 ------SREARQQRFAHFTELAIVSVQEIVDFAKQLPGFLQLSREDQIALLKTSAIEVML 135
Query: 211 GYVSRL--TTDSSLTFSDGMYVTRQQLE 236
SR S+TF R+
Sbjct: 136 LETSRRYNPGSESITFLKDFSYNREDFA 163
>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 = 98.6 bits (246), Expect = 3e-25
Identities = 27/133 (20%), Positives = 45/133 (33%), Gaps = 12/133 (9%)
Query: 109 DVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQF 168
++I + AH + E + R P L P + L L F
Sbjct: 10 ELIRTLLGAHTRHMGTMFEQFVQF-RPPAHLFIHHQPLPT---------LAPVLPLVTHF 59
Query: 169 AAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL--TTDSSLTFSD 226
A T V +V++F K +P F L +DQ+ L+K E+ ++ +
Sbjct: 60 ADINTFMVLQVIKFTKDLPVFRSLPIEDQISLLKGAAVEICHIVLNTTFCLQTQNFLCGP 119
Query: 227 GMYVTRQQLEVMY 239
Y V +
Sbjct: 120 LRYTIEDGARVGF 132
>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 = 98.2 bits (245), Expect = 4e-25
Identities = 30/148 (20%), Positives = 60/148 (40%), Gaps = 23/148 (15%)
Query: 93 SLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASS 152
+ S + +Q ++I + + +EE +R++ +P+
Sbjct: 3 HMNGSKGISPEQE---ELIHRLVYFQNEYEHPSEEDVKRIINQPMD-------------- 45
Query: 153 TAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGY 212
E Q ++ +VQ +VEFAKR+PGF L ++DQ+ L+K E+ +
Sbjct: 46 ----GEDQCDVRFRHITEITILTVQLIVEFAKRLPGFDKLLREDQIALLKACSSEVMMFR 101
Query: 213 VSRL--TTDSSLTFSDGMYVTRQQLEVM 238
++R S+ F + +R +
Sbjct: 102 MARRYDVQTDSILFVNNQPYSRDSYNLA 129
>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 = 97.1 bits (242), Expect = 2e-24
Identities = 36/172 (20%), Positives = 58/172 (33%), Gaps = 28/172 (16%)
Query: 70 GSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGT 129
GS S TG + + L I + + +EE
Sbjct: 1 GSHMASMTGGQQMGRDPLKNVPPLTANQKSL----------IARLVWYQEGYEQPSEEDL 50
Query: 130 RRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGF 189
+R+ + S E ++Q +VQ +VEFAK +PGF
Sbjct: 51 KRVTQTWQSDEDDE----------------DSDMPFRQITEMTILTVQLIVEFAKGLPGF 94
Query: 190 CDLSQDDQLILIKMGFFELWIGYVSRL--TTDSSLTFSDGMYVTRQQLEVMY 239
+SQ DQ+ L+K E+ + V+R S+ F++ TR
Sbjct: 95 AKISQSDQITLLKACSSEVMMLRVARRYDAATDSVLFANNQAYTRDNYRKAG 146
>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 = 96.8 bits (241), Expect = 3e-24
Identities = 34/131 (25%), Positives = 57/131 (43%), Gaps = 11/131 (8%)
Query: 109 DVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQF 168
+I + AHH + T R R PV + S S + L +
Sbjct: 15 HIIAILLDAHHKTYDPTYADFRDF-RPPVRMDGSTGSVTL---------DLSPLSMLPHL 64
Query: 169 AAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLTTDSSLTFSDG- 227
A V+ S+Q+V+ FAK +PGF DL+ DDQ++L+K E+ + ++ T +++ G
Sbjct: 65 ADLVSYSIQKVIGFAKMIPGFRDLTSDDQIVLLKSSAIEVIMLRSNQSFTMDDMSWDCGS 124
Query: 228 MYVTRQQLEVM 238
+V
Sbjct: 125 QDYKYDVTDVS 135
>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 = 96.4 bits (240), Expect = 3e-24
Identities = 37/134 (27%), Positives = 62/134 (46%), Gaps = 9/134 (6%)
Query: 108 YDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQ 167
+D+I ++AH S ++ LP SP V+ + L + +
Sbjct: 22 WDLIHIATEAHRSTNAQGSH----WKQRRKFLPDDIGQSPIVSMPDGD---KVDLEAFSE 74
Query: 168 FAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL--TTDSSLTFS 225
F +TP++ RVV+FAK++P F +L +DQ+IL+K E+ + +LT S
Sbjct: 75 FTKIITPAITRVVDFAKKLPMFSELPXEDQIILLKGCCMEIMSLRAAVRYDPESDTLTLS 134
Query: 226 DGMYVTRQQLEVMY 239
M V R+QL+
Sbjct: 135 GEMAVKREQLKNGG 148
>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 = 94.4 bits (235), Expect = 5e-24
Identities = 32/84 (38%), Positives = 48/84 (57%), Gaps = 2/84 (2%)
Query: 158 ESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRL- 216
+W++F+ TP+V+ VVEFAKR+PGF DLSQ DQ+ L+K G FE+ + + L
Sbjct: 15 HKSGHEIWEEFSMSFTPAVKEVVEFAKRIPGFRDLSQHDQVNLLKAGTFEVLMVRFASLF 74
Query: 217 -TTDSSLTFSDGMYVTRQQLEVMY 239
+ ++TF G + L M
Sbjct: 75 DAKERTVTFLSGKKYSVDDLHSMG 98
>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 = 95.1 bits (237), Expect = 6e-24
Identities = 30/113 (26%), Positives = 54/113 (47%), Gaps = 3/113 (2%)
Query: 130 RRLVR-KPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPG 188
++ + + P +S+A+ L LW +F+ T + ++VEFAKR+PG
Sbjct: 10 TKVSKAHQETFPSLCQLGKYTTNSSADHRVQLDLGLWDKFSELATKCIIKIVEFAKRLPG 69
Query: 189 FCDLSQDDQLILIKMGFFELWIGYVSRL--TTDSSLTFSDGMYVTRQQLEVMY 239
F LS DQ+ L+K ++ + + ++TFSDG+ + R Q+
Sbjct: 70 FTGLSIADQITLLKAACLDILMLRICTRYTPEQDTMTFSDGLTLNRTQMHNAG 122
>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 = 93.6 bits (233), Expect = 3e-23
Identities = 38/167 (22%), Positives = 66/167 (39%), Gaps = 26/167 (15%)
Query: 75 STTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVR 134
S S L G +S + E+ ++I V +AH
Sbjct: 4 SHHHHHHSSGLVPRGSHESYTLTPEVG-------ELIEKVRKAHQETF------------ 44
Query: 135 KPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQ 194
P ++++E S + LW +F+ T + + VEFAK++PGF L+
Sbjct: 45 -----PALCQLGKYTTNNSSEQRVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTI 99
Query: 195 DDQLILIKMGFFELWIGYVSRL--TTDSSLTFSDGMYVTRQQLEVMY 239
DQ+ L+K ++ I + ++TFSDG+ + R Q+
Sbjct: 100 ADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAG 146
>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 = 93.2 bits (232), Expect = 4e-23
Identities = 38/192 (19%), Positives = 69/192 (35%), Gaps = 45/192 (23%)
Query: 47 MSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLL 106
M ++ VR + R R R S+ S + + + P S +
Sbjct: 1 MVKEVVRTDSLKGR-RGRLPSKPKSPQEPSPPSPPVSLIS-------------------- 39
Query: 107 TYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQ 166
A+ +AH + L P S + Q
Sbjct: 40 ------ALVRAHV----DSNPAMTSLDYSRFQANPDYQMSGD------------DTQHIQ 77
Query: 167 QFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSSLTF 224
QF +T S++ + +A+++PGF DL + DQ +L + F EL++ ++ + L F
Sbjct: 78 QFYDLLTGSMEIIRGWAEKIPGFADLPKADQDLLFESAFLELFVLRLAYRSNPVEGKLIF 137
Query: 225 SDGMYVTRQQLE 236
+G+ + R Q
Sbjct: 138 CNGVVLHRLQCV 149
>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 = 90.6 bits (225), Expect = 5e-22
Identities = 25/145 (17%), Positives = 59/145 (40%), Gaps = 18/145 (12%)
Query: 94 LPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASST 153
+P + + +++ ++ +AH + +++ +
Sbjct: 14 VPRGSHMQPPDASPTNLLTSLIRAHLDSGP----------------NTAKLDYSKFQELV 57
Query: 154 AECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYV 213
+ QQF ++ S+ + ++A+++PGF +LS DQ +L++ F EL+I +
Sbjct: 58 LPRFGKEDAGDVQQFYDLLSGSLDVIRKWAEKIPGFIELSPGDQDLLLESAFLELFILRL 117
Query: 214 SR--LTTDSSLTFSDGMYVTRQQLE 236
+ + L F G+ + R Q
Sbjct: 118 AYRSKPGEGKLIFCSGLVLHRLQCA 142
>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 = 89.2 bits (221), Expect = 2e-21
Identities = 28/139 (20%), Positives = 55/139 (39%), Gaps = 13/139 (9%)
Query: 114 VSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSP----EVASSTAECHE--------SQR 161
+ +A+ N + R ++ S P V +A T
Sbjct: 9 IYEAYLKNFNMNKVKARVILSGKASNNPPFVIHDMETLCMAEKTLVAKLVANGIQNKEAE 68
Query: 162 LWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLTTDSS 221
+ ++ +V + EFAK +PGF +L +DQ+ L+K G +E +S +
Sbjct: 69 VRIFHCCQCTSVETVTELTEFAKAIPGFANLDLNDQVTLLKYGVYEAIFAMLSSVMNKDG 128
Query: 222 LTFSDG-MYVTRQQLEVMY 239
+ + G ++TR+ L+ +
Sbjct: 129 MLVAYGNGFITREFLKSLR 147
>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 = 84.3 bits (209), Expect = 5e-20
Identities = 23/117 (19%), Positives = 47/117 (40%), Gaps = 4/117 (3%)
Query: 120 SNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRV 179
S+ E T + + L+ + ++ P+ ++ E + T VQ +
Sbjct: 1 SHGELTPD-QQTLLHFIMD-SYNKQRMPQEITNKILKEEFSAEENFLILTEMATNHVQVL 58
Query: 180 VEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLTTDSSLTFSDGMYVTRQQLE 236
VEF K++PGF L +DQ+ L+K E + + + S + +++
Sbjct: 59 VEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIF--NKKLPSGHSDLLEERIR 113
>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 = 84.5 bits (209), Expect = 1e-19
Identities = 32/213 (15%), Positives = 64/213 (30%), Gaps = 60/213 (28%)
Query: 31 RNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGP 90
+ + RF+ + G S + S P S++T
Sbjct: 26 DSYSDFVRFRPPVREGPVTRSASRAASLHSLSDASSDSFNH---------SPESVDTKLN 76
Query: 91 VQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVA 150
+L +
Sbjct: 77 FSNLLMM-----------------------------------------------YQDSGS 89
Query: 151 SSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWI 210
++E + RL + A V+ S+Q+V+ FAK +PGF DL+ +DQ+ L+K E+ +
Sbjct: 90 PDSSEEDQQSRLSMLPHLADLVSYSIQKVIGFAKMIPGFRDLTAEDQIALLKSSAIEIIM 149
Query: 211 GYVSRLTTDSSLTF----SDGMYVTRQQLEVMY 239
++ + +++ D Y + +
Sbjct: 150 LRSNQSFSLEDMSWSCGGPDFKYCINDVTKAGH 182
>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 = 80.2 bits (198), Expect = 4e-18
Identities = 34/208 (16%), Positives = 62/208 (29%), Gaps = 58/208 (27%)
Query: 31 RNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGP 90
+ + R++V+ R + R ++ E+ S+ P + A
Sbjct: 7 HHHHSSGLVPR---GSHKREAVQEERQRGKDRNENEVESTSSANEDM---PVERILEAEL 60
Query: 91 VQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVA 150
+ T ++ L P S
Sbjct: 61 AVEPKTETYVEANMGLN--------------------------------PSSPNDPVTNI 88
Query: 151 SSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWI 210
A + +VE+AKR+P F +L DDQ+IL++ G+ EL I
Sbjct: 89 CQAA------------------DKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNELLI 130
Query: 211 GYVSR--LTTDSSLTFSDGMYVTRQQLE 236
S + + + G++V R
Sbjct: 131 ASFSHRSIAVKDGILLATGLHVHRNSAH 158
>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 = 75.3 bits (185), Expect = 4e-16
Identities = 19/99 (19%), Positives = 34/99 (34%), Gaps = 1/99 (1%)
Query: 138 SLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQ 197
E S A+ + L A T + ++ FAK + F DL +DQ
Sbjct: 95 LQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQ 154
Query: 198 LILIKMGFFELWI-GYVSRLTTDSSLTFSDGMYVTRQQL 235
+ L+K FEL + + ++ + +
Sbjct: 155 ISLLKGAAFELCQLRFNTVFNAETGTWECGRLSYCLEDT 193
Score = 28.7 bits (64), Expect = 1.5
Identities = 12/79 (15%), Positives = 24/79 (30%), Gaps = 1/79 (1%)
Query: 28 RLNRNRCQYCRFKKCLAVGMSRDSVRYGRVPKRSRE-RSDSETGSTRVSTTGAEPPSSLE 86
RL C + L ++ ++ +V K + + S +PP+
Sbjct: 55 RLPGVLSSGCELPESLQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSG 114
Query: 87 TAGPVQSLPSSTELDTKQL 105
LP ++ T
Sbjct: 115 GKEIFSLLPHMADMSTYMF 133
>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 = 68.8 bits (168), Expect = 3e-14
Identities = 11/60 (18%), Positives = 26/60 (43%)
Query: 165 WQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLTTDSSLTF 224
+ +++R+V+ AKR+ F ++S+ + L+K G E+ + +
Sbjct: 43 PTDILNVMDITMRRLVKMAKRLGAFNEISEAGKFSLLKGGMIEMLTIRGVTVFNADKGVW 102
>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 = 66.4 bits (162), Expect = 2e-13
Identities = 21/105 (20%), Positives = 40/105 (38%), Gaps = 3/105 (2%)
Query: 123 EYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEF 182
+ + L + + +T+ + + +++R V+
Sbjct: 4 QLNAAELQALDLIQEAFKGMNDPMEQGRQATSFLKNEKSP---ADIMNIMDVTMRRFVKM 60
Query: 183 AKRVPGFCDLSQDDQLILIKMGFFELWIGYVSRLTTDSSLTFSDG 227
AKR+P F DLSQD + L+K G E+ R SS +++
Sbjct: 61 AKRLPAFNDLSQDGKFALLKGGMIEMLTVRGVRRFDSSSGSWTTP 105
>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 = 61.7 bits (150), Expect = 9e-12
Identities = 23/103 (22%), Positives = 41/103 (39%), Gaps = 2/103 (1%)
Query: 138 SLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQ 197
+ E + + + S + +VE+AKR+P F +L DDQ
Sbjct: 16 AELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQ 75
Query: 198 LILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLEVM 238
+IL++ G+ EL I S + + + G++V R
Sbjct: 76 VILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSA 118
>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 = 60.1 bits (146), Expect = 4e-11
Identities = 23/101 (22%), Positives = 42/101 (41%), Gaps = 7/101 (6%)
Query: 140 PPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLI 199
E + P VA E + + Q + ++V++AK VP F L DQ+
Sbjct: 19 KRVECNDPLVALVVNE--NNTTVNNICQATHKQ---LFQLVQWAKLVPHFTSLPLTDQVQ 73
Query: 200 LIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLEVM 238
L++ G+ EL I S + ++ + G+ V + +
Sbjct: 74 LLRAGWNELLIAAFSHRSMQAQDAIVLATGLTVNKSTAHAV 114
>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 = 59.9 bits (145), Expect = 5e-11
Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 4/79 (5%)
Query: 164 LWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTD 219
L + +VV++AK +PGF +L +DQ+ LI+ + L +S T
Sbjct: 41 LLSTLNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLSFALSWRSYKHTNS 100
Query: 220 SSLTFSDGMYVTRQQLEVM 238
L F+ + +++
Sbjct: 101 QFLYFAPDLVFNEEKMHQS 119
>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 = 58.6 bits (142), Expect = 1e-10
Identities = 25/112 (22%), Positives = 45/112 (40%), Gaps = 15/112 (13%)
Query: 127 EGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRV 186
E R + PVS ++ + ++AS C + + +VE+AK +
Sbjct: 18 EVLSRQITSPVSGINGDIRAKKIASIADVCESMKEQ-------------LLVLVEWAKYI 64
Query: 187 PGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLE 236
P FC+L DDQ+ L++ E + ++ + L + V R E
Sbjct: 65 PAFCELPLDDQVALLRAHAGEHLLLGATKRSMVFKDVLLLGNDYIVPRHCPE 116
>3vhu_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, antagonist,
spironolactone; HET: SNL; 2.11A {Homo sapiens}
Length = 294
Score = 58.4 bits (141), Expect = 2e-10
Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 4/79 (5%)
Query: 164 LWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTD 219
L + +VV++AK +PGF +L +DQ+ LI+ + L +S T
Sbjct: 75 LLSTLNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLSFALSWRSYKHTNS 134
Query: 220 SSLTFSDGMYVTRQQLEVM 238
L F+ + +++
Sbjct: 135 QFLYFAPDLVFNEEKMHQS 153
>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 = 57.4 bits (139), Expect = 4e-10
Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWI-GYVSR-LTTDSSLTFSDGMYV 230
+ ++ +AK +PGF LS DQ+ L++ + E+ I G V R L+ + L ++D +
Sbjct: 58 DRELVVIIGWAKHIPGFSTLSLADQMSLLQSAWMEILILGVVYRSLSFEDELVYADDYIM 117
Query: 231 TRQQLEVM 238
Q ++
Sbjct: 118 DEDQSKLA 125
>3ltx_A Estrogen receptor; constitutive, nuclear receptor, DNA-binding,
metal-binding, nucleus, transcription, transcription
regulation, zinc-finger; 2.60A {Crassostrea gigas}
Length = 243
Score = 57.4 bits (139), Expect = 4e-10
Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 147 PEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFF 206
P + S ++ L + ++ +AK VPG+ DLS DQ+ LI+ +
Sbjct: 20 PVLESHHNHGQPPTKVHLLNSLVKLAERELVHLINWAKNVPGYTDLSLSDQVHLIECCWM 79
Query: 207 ELWI---GYVSRLTTDSSLTFSDGMYVTRQQLE 236
EL + + S SL F+ + + R
Sbjct: 80 ELLLLNCAFRSIEHGGKSLAFAPDLVLDRSSWS 112
>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 = 55.5 bits (134), Expect = 2e-09
Identities = 14/66 (21%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 175 SVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTR 232
+ + +AK +PGF LS DQ+ +++ + E+ + V++ L L F++ + +
Sbjct: 60 EIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLGVAQRSLPLQDELAFAEDLVLDE 119
Query: 233 QQLEVM 238
+
Sbjct: 120 EGARAA 125
>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 = 54.4 bits (131), Expect = 5e-09
Identities = 18/105 (17%), Positives = 36/105 (34%), Gaps = 4/105 (3%)
Query: 136 PVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQD 195
P + A + ++L + ++ +VE+A+ F +L D
Sbjct: 29 PDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFRELKVD 88
Query: 196 DQLILIKMGFFELWIGYVSR----LTTDSSLTFSDGMYVTRQQLE 236
DQ+ L++ + EL I + S+ G V +
Sbjct: 89 DQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIA 133
>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 = 53.7 bits (129), Expect = 8e-09
Identities = 21/99 (21%), Positives = 41/99 (41%), Gaps = 8/99 (8%)
Query: 140 PPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLI 199
PP S + +E + + ++ +AKRVPGF DL+ DQ+
Sbjct: 18 PPILYSEYDPTRPFSEAS------MMGLLTNLADRELVHMINWAKRVPGFVDLTLHDQVH 71
Query: 200 LIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLE 236
L++ + E+ + + + L F+ + + R Q +
Sbjct: 72 LLECAWLEILMIGLVWRSMEHPGKLLFAPNLLLDRNQGK 110
>2ocf_A Estrogen receptor; estrogen receptor, LBD, monobody, estradiol,
hormone-growth complex; HET: CME EST; 2.95A {Homo
sapiens}
Length = 298
Score = 53.7 bits (129), Expect = 9e-09
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 8/101 (7%)
Query: 140 PPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLI 199
PP S + +E + + ++ +AKRVPGF DL+ DQ+
Sbjct: 27 PPILYSEYDPTRPFSEAS------MMGLLTNLADRELVHMINWAKRVPGFVDLTLHDQVH 80
Query: 200 LIKMGFFELWI-GYVSR-LTTDSSLTFSDGMYVTRQQLEVM 238
L++ + E+ + G V R + L F+ + + R Q + +
Sbjct: 81 LLECAWLEILMIGLVWRSMEHPGKLLFAPNLLLDRNQGKCV 121
>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 = 53.2 bits (128), Expect = 1e-08
Identities = 14/64 (21%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 175 SVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTR 232
+ ++ +AK++PGF +LS DQ+ L++ + E+ + + + L F+ + + R
Sbjct: 45 ELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSIDHPGKLIFAPDLVLDR 104
Query: 233 QQLE 236
+ +
Sbjct: 105 DEGK 108
>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 = 52.1 bits (125), Expect = 2e-08
Identities = 11/65 (16%), Positives = 25/65 (38%), Gaps = 4/65 (6%)
Query: 178 RVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTDSSLTFSDGMYVTRQ 233
V++A+ F DL DDQ+ L++ + ++ + ++G
Sbjct: 61 SQVDWARNTVFFKDLKVDDQMKLLQHSWSDMLVLDHLHHRIHNGLPDETQLNNGQVFNLM 120
Query: 234 QLEVM 238
L ++
Sbjct: 121 SLGLL 125
>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 = 52.2 bits (125), Expect = 2e-08
Identities = 19/96 (19%), Positives = 38/96 (39%), Gaps = 4/96 (4%)
Query: 147 PEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFF 206
+ + L + VV+++K +PGF +L DDQ+ LI+ +
Sbjct: 25 DVIYAGHDNTKPDTSSSLLTSLNQLGERQLLSVVKWSKSLPGFRNLHIDDQITLIQYSWM 84
Query: 207 ELWI-GYVSR---LTTDSSLTFSDGMYVTRQQLEVM 238
L + G R + L F+ + + Q+++
Sbjct: 85 SLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKES 120
>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 = 51.5 bits (123), Expect = 4e-08
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 4/68 (5%)
Query: 175 SVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTDSSLTFSDGMYV 230
V V++AK +PGF +L DDQ+ L++ + L + + + + L F+ + +
Sbjct: 54 QVIAAVKWAKAIPGFRNLHLDDQMTLLQYSWMFLMVFALGWRSYRQASGNLLCFAPDLII 113
Query: 231 TRQQLEVM 238
Q++ +
Sbjct: 114 NEQRMTLP 121
>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 = 51.3 bits (123), Expect = 5e-08
Identities = 14/64 (21%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 176 VQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWI-GYVSRLTT--DSSLTFSDGMYVTR 232
+ VE+A+ +P F DL DQ+ L+++ + EL++ + L + G++ +
Sbjct: 50 LFSAVEWARNIPFFPDLQITDQVALLRLTWSELFVLNAAQCSMPLHVAPLLAAAGLHASP 109
Query: 233 QQLE 236
+
Sbjct: 110 MSAD 113
>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 = 51.5 bits (123), Expect = 6e-08
Identities = 27/188 (14%), Positives = 58/188 (30%), Gaps = 8/188 (4%)
Query: 57 VPKRSRERSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQ 116
+P +RS T ++ +T G S +E + + I+ S
Sbjct: 41 LPPTDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSY 100
Query: 117 AHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQR----LWLWQQFAAHV 172
++ P ++ + + ++ L +
Sbjct: 101 MDSYQTSSPASIPHLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMA 160
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTDSSLTFSDGM 228
++ +VE+A+ F +L DDQ+ L++ + EL I + S+ G
Sbjct: 161 DQTLFSIVEWARSSIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQ 220
Query: 229 YVTRQQLE 236
V +
Sbjct: 221 QVDYSIIA 228
>1hg4_A Ultraspiracle; nuclear hormone receptor, transcription factor,
ligand binding; HET: LPP; 2.4A {Drosophila melanogaster}
SCOP: a.123.1.1
Length = 279
Score = 51.1 bits (122), Expect = 6e-08
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFEL 208
+ ++VE+A+ +P F + DDQ+IL+K + EL
Sbjct: 57 NKQLFQMVEYARMMPHFAQVPLDDQVILLKAAWIEL 92
>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 = 50.8 bits (121), Expect = 7e-08
Identities = 27/161 (16%), Positives = 58/161 (36%), Gaps = 30/161 (18%)
Query: 78 GAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPV 137
G+ ++G V EL L ++L + +A P
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMRELLLDALSPEQLVLTLLEAE-----------------PP 44
Query: 138 SLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQ 197
+ S S+P +S + + ++ +AK++PGF +LS DQ
Sbjct: 45 HVLISRPSAPFTEAS-----------MMMSLTKLADKELVHMISWAKKIPGFVELSLFDQ 93
Query: 198 LILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLE 236
+ L++ + E+ + + + L F+ + + R + +
Sbjct: 94 VRLLESCWMEVLMMGLMWRSIDHPGKLIFAPDLVLDRDEGK 134
>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 = 50.6 bits (121), Expect = 9e-08
Identities = 14/67 (20%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
Query: 176 VQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTDSSLTFSDGMYVT 231
+V++A+R F +L DQ+ L++ + EL + + S+ G V
Sbjct: 58 FISIVDWARRCMVFKELEVADQMTLLQNSWSELLVLDHIYRQVQYGKEDSILLVTGQEVE 117
Query: 232 RQQLEVM 238
+ V
Sbjct: 118 LSTVAVQ 124
>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 = 49.9 bits (119), Expect = 1e-07
Identities = 15/106 (14%), Positives = 36/106 (33%), Gaps = 7/106 (6%)
Query: 138 SLPPSEVSSPEVASSTAECH-----ESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDL 192
S P EV P ++ + + + + +A+ +P F L
Sbjct: 4 STPIIEVEGPLLSDTHVTFKLTMPSPMPEYLNVHYICESASRLLFLSMHWARSIPAFQAL 63
Query: 193 SQDDQLILIKMGFFELWIGYVSR--LTTDSSLTFSDGMYVTRQQLE 236
QD L++ + EL+ +++ S + + + ++
Sbjct: 64 GQDCNTSLVRACWNELFTLGLAQCAQVMSLSTILAAIVNHLQNSIQ 109
>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 = 49.1 bits (117), Expect = 3e-07
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 176 VQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR----LTTDSSLTFSDGMYVT 231
+ VV++AK +PGF +L DDQ+ +I+ + L + + L F+ +
Sbjct: 62 LVHVVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFN 121
Query: 232 RQQLEVM 238
++
Sbjct: 122 EYRMHKS 128
>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 = 48.3 bits (115), Expect = 5e-07
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 179 VVEFAKRVPGFCDLSQDDQLILIKMGFFEL 208
+V +A+ +P F L +DQ++LIK + EL
Sbjct: 58 LVVWARDIPHFSQLEMEDQILLIKGSWNEL 87
>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 = 47.2 bits (112), Expect = 1e-06
Identities = 14/75 (18%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 164 LWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGFFELWIGYVSR--LTTDSS 221
+ + ++ +AK++PGF +LS DQ+ L++ + E+ + + +
Sbjct: 32 MMMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSIDHPGK 91
Query: 222 LTFSDGMYVTRQQLE 236
L F+ + + R + +
Sbjct: 92 LIFAPDLVLDRDEGK 106
>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 = 42.9 bits (100), Expect = 3e-05
Identities = 11/77 (14%), Positives = 26/77 (33%), Gaps = 4/77 (5%)
Query: 138 SLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRV----VEFAKRVPGFCDLS 193
+ + + + + + + V + + F K +P F L
Sbjct: 18 ADQTPATPQEQPRAPWWDASPGVQRLITLKDPQVVCEAASAGLLKTLRFVKYLPCFQILP 77
Query: 194 QDDQLILIKMGFFELWI 210
D QL+L++ + L +
Sbjct: 78 LDQQLVLVRSCWAPLLM 94
>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 = 37.0 bits (85), Expect = 0.005
Identities = 33/214 (15%), Positives = 60/214 (28%), Gaps = 73/214 (34%)
Query: 33 RCQYCRFKKCLAVGMSRDSVRYGR-VP---------------KRSRERSDSETGSTRVST 76
RC L + DS+ VP + + +V
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 77 -----------TGAEPPSSLE-----------TAGPVQS-LPSSTELDTKQLLTYDVILA 113
+G PP SL +G QS +P S ++L + L
Sbjct: 369 SLVNGAKNLVVSG--PPQSLYGLNLTLRKAKAPSGLDQSRIPFS----ERKLKFSNRFLP 422
Query: 114 VSQAHHSNCEY----TEEGTRRLVRKPVSLPPSEVSSP---------------EVASSTA 154
V+ HS ++ + LV+ VS ++ P ++
Sbjct: 423 VASPFHS--HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV 480
Query: 155 ECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPG 188
+C + W+ + +++F PG
Sbjct: 481 DCIIRLPV-KWET-TTQFKAT--HILDFG---PG 507
Score = 32.7 bits (74), Expect = 0.12
Identities = 30/191 (15%), Positives = 58/191 (30%), Gaps = 67/191 (35%)
Query: 85 LETAGPV-QSLPSSTELDTKQLLT--YDVILAVSQAHHS-NCEYTEEGTRRLVRKPVSLP 140
++ + L T LD +++ T +++ + ++ + +Y L+ P+S P
Sbjct: 188 IKFSAETLSEL-IRTTLDAEKVFTQGLNILEWLENPSNTPDKDY-------LLSIPISCP 239
Query: 141 PSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPGFCDLSQDDQLI- 199
V +A TP E + G SQ L+
Sbjct: 240 LIGVIQ--LAHYVVTAK-----------LLGFTPG-----ELRSYLKGATGHSQG--LVT 279
Query: 200 --LIKMG-----FFEL---------WIGYVSRLTT----------DSSLTFSDG----MY 229
I FF +IG + SL ++G M
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 230 ----VTRQQLE 236
+T++Q++
Sbjct: 340 SISNLTQEQVQ 350
>1wth_A Protein GP5, tail-associated lysozyme; triple-stranded beta-helix,
OB fold, pseudohexamer, T4 tail HUB, GP5-GP27; 2.80A
{Enterobacteria phage T4} PDB: 2z6b_A 1k28_A 1pdl_A
Length = 584
Score = 29.7 bits (65), Expect = 1.1
Identities = 14/153 (9%), Positives = 37/153 (24%), Gaps = 2/153 (1%)
Query: 55 GRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAV 114
+ + DS + + S + + + + L + +
Sbjct: 130 NVLNQGGEVGYDSSSNVIQDSNLDTAINPDDRPLSEIPTDDNPNMSMAEMLRRDEGLRLK 189
Query: 115 SQAHHSNCEYTEEGTRRLVRKPVSLPP--SEVSSPEVASSTAECHESQRLWLWQQFAAHV 172
G + + + +S T F +
Sbjct: 190 VYWDTEGYPTIGIGHLIMKQPVRDMAQINKVLSKQVGREITGNPGSITMEEATTLFERDL 249
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLILIKMGF 205
+ + +K P + +++ Q+ L M F
Sbjct: 250 ADMQRDIKSHSKVGPVWQAVNRSRQMALENMAF 282
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 28.7 bits (64), Expect = 1.7
Identities = 7/62 (11%), Positives = 22/62 (35%)
Query: 38 RFKKCLAVGMSRDSVRYGRVPKRSRERSDSETGSTRVSTTGAEPPSSLETAGPVQSLPSS 97
+F++ ++ K + + D+ET ++ A P + + ++
Sbjct: 321 KFREAISQTFPWVLTCCQFDDKETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQK 380
Query: 98 TE 99
+
Sbjct: 381 MQ 382
>3lnn_A Membrane fusion protein (MFP) heavy metal cation ZNEB (CZCB-LIKE);
structural genomics, PSI-2, protein structure
initiative; 2.80A {Cupriavidus metallidurans}
Length = 359
Score = 28.5 bits (64), Expect = 1.8
Identities = 6/53 (11%), Positives = 17/53 (32%), Gaps = 3/53 (5%)
Query: 136 PVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVEFAKRVPG 188
+ +P +A + A + + A + ++V+ + G
Sbjct: 17 RLVVPAESPLRRTLAVAPAT---RETVAAPFNLPAMIEADPAKLVKVLPPLAG 66
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 28.7 bits (63), Expect = 2.1
Identities = 15/107 (14%), Positives = 32/107 (29%), Gaps = 26/107 (24%)
Query: 123 EYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAECHESQRLWLWQQFAAHVTPSVQRVVE- 181
Y E+ RL VS + + R L + + P+ +++
Sbjct: 111 MYIEQ-RDRLYNDNQVFAKYNVSRLQ-------PYLKLRQALLE-----LRPAKNVLIDG 157
Query: 182 ---FAKRVPGFCDLSQD---DQLILIKMGFFELWIGYVSRLTTDSSL 222
K ++ D + KM F W+ + + ++
Sbjct: 158 VLGSGKTW-----VALDVCLSYKVQCKMDFKIFWLN-LKNCNSPETV 198
>2hcf_A Hydrolase, haloacid dehalogenase-like family; NP_662590.1, ST
genomics, PSI-2, protein structure initiative; 1.80A
{Chlorobaculum tepidum} SCOP: c.108.1.6
Length = 234
Score = 27.3 bits (61), Expect = 4.5
Identities = 9/45 (20%), Positives = 14/45 (31%), Gaps = 7/45 (15%)
Query: 76 TTGAEPPSSLETAGPVQSLPSSTELDTKQLLTYDVILAVSQAHHS 120
TG L P + E D +V+ ++ HS
Sbjct: 197 ATGNFTMEELARHKPGTLFKNFAETD-------EVLASILTPKHS 234
>2r91_A 2-keto-3-deoxy-(6-phospho-)gluconate aldolase; TIM barrel,
thermophilic, lyase; 2.00A {Thermoproteus tenax} PDB:
2r94_A
Length = 286
Score = 26.7 bits (60), Expect = 6.7
Identities = 4/28 (14%), Positives = 11/28 (39%)
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLIL 200
S+ + + + +P + D L+
Sbjct: 156 NESLAHTLAYKRYLPQARVYNGSDSLVF 183
>2d1c_A Isocitrate dehydrogenase; structural genomics, NPPSFA, national
project protein structural and functional analyses; HET:
NAP CIT; 1.80A {Thermus thermophilus}
Length = 496
Score = 27.0 bits (60), Expect = 6.9
Identities = 10/56 (17%), Positives = 17/56 (30%), Gaps = 2/56 (3%)
Query: 100 LDTKQLLTYDVILAVSQAHHSNCEYTEEGTRRLVRKPVSLPPSEVSSPEVASSTAE 155
L+ ++LT D + EYTE + L + P +
Sbjct: 325 LEEGRVLTGD--VVGYDRGAKTTEYTEAIIQNLGKTPRKTQVRGYKPFRLPQVDGA 378
>3m5v_A DHDPS, dihydrodipicolinate synthase; TIM barrel, csgid, amino-acid
biosynthesis, diaminopimelate biosynthesis, lyase,
lysine biosynthesis; HET: MSE; 1.80A {Campylobacter
jejuni} PDB: 3ler_A*
Length = 301
Score = 26.3 bits (59), Expect = 8.5
Identities = 5/34 (14%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLIL--IKMG 204
+ ++ + V+ P +S +D + + G
Sbjct: 172 SGNIDKCVDLLAHEPRMMLISGEDAINYPILSNG 205
>2pcq_A Putative dihydrodipicolinate synthase; lyase, lysine biosynthesis,
dihydrodipicoliante, S genomics, NPPSFA; 2.10A {Thermus
thermophilus}
Length = 283
Score = 26.3 bits (59), Expect = 8.9
Identities = 4/28 (14%), Positives = 10/28 (35%)
Query: 173 TPSVQRVVEFAKRVPGFCDLSQDDQLIL 200
+ + R+ + R+ F + L
Sbjct: 155 SGDLSRIAFYQARLQEFRVYTGHAPTFL 182
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
0.320 0.132 0.395
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: 3,452,998
Number of extensions: 184730
Number of successful extensions: 467
Number of sequences better than 10.0: 1
Number of HSP's gapped: 434
Number of HSP's successfully gapped: 85
Length of query: 240
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 149
Effective length of database: 4,160,982
Effective search space: 619986318
Effective search space used: 619986318
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 (21.8 bits)
S2: 56 (25.7 bits)