RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3123
(585 letters)
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 231 bits (590), Expect = 2e-72
Identities = 87/238 (36%), Positives = 139/238 (58%), Gaps = 8/238 (3%)
Query: 62 QRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELL 121
+ ++S V RAH + + DK+ + P+ + QE+
Sbjct: 16 EDVISQVARAHREIFTYAHDKLGSSPGNFNANHAS--------GSPYPHGRSGRTVQEIW 67
Query: 122 QDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMI 181
+DFS F+P +R+VVEFAK IPGF L DQVTLLKAG FEVL+VR A +F+ + +++
Sbjct: 68 EDFSMSFTPAVREVVEFAKHIPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFNVKDQTVM 127
Query: 182 CLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNK 241
L+ + + L+ +MFDF+E+LN L L++ E+GLF+++V++S RSG+ N
Sbjct: 128 FLSRTTYSLQELGAMGMGDLLSAMFDFSEKLNSLALTEEELGLFTAVVLVSADRSGMENS 187
Query: 242 ELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQ 299
VE+++ L L ++ +N P + + +L+ LPDLRTLN +HSEKL++F++ Q
Sbjct: 188 ASVEQLQETLLRALRALVLKNRPLETSRFTKLLLKLPDLRTLNNMHSEKLLSFRVDAQ 245
>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 = 219 bits (560), Expect = 1e-68
Identities = 86/196 (43%), Positives = 135/196 (68%), Gaps = 2/196 (1%)
Query: 103 LACPLNPNSH--PLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAG 160
L CP++ + + P + E+ ++FS F+P +++VVEFAKRIPGF L DQV LLKAG
Sbjct: 2 LVCPMSKSPYVDPHKSGHEIWEEFSMSFTPAVKEVVEFAKRIPGFRDLSQHDQVNLLKAG 61
Query: 161 VFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDT 220
FEVL+VR A +FD++ ++ L+G+ D +HS A L++SMF+F+E+LN L LSD
Sbjct: 62 TFEVLMVRFASLFDAKERTVTFLSGKKYSVDDLHSMGAGDLLNSMFEFSEKLNALQLSDE 121
Query: 221 EIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDL 280
E+ LF+++V++S RSG+ N VE ++ L L ++ +NHP + ++ +L+ LPDL
Sbjct: 122 EMSLFTAVVLVSADRSGIENVNSVEALQETLIRALRTLIMKNHPNEASIFTKLLLKLPDL 181
Query: 281 RTLNQLHSEKLVAFQM 296
R+LN +HSE+L+AF++
Sbjct: 182 RSLNNMHSEELLAFKV 197
>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 = 222 bits (568), Expect = 2e-68
Identities = 74/326 (22%), Positives = 138/326 (42%), Gaps = 33/326 (10%)
Query: 24 VRFGRVPKREKARILAAMQQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCAFTADKI 83
VR R K+++ + T + + + +AH +T
Sbjct: 6 VRNDRNKKKKEPSKQECTESYEMT-----------AELDDLTEKIRKAHQETFPSLCQLG 54
Query: 84 EPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIP 143
+ + H ++ L FSE + I +VEFAKR+P
Sbjct: 55 KYT-------------------TNSSADHRVRLDLGLWDKFSELATKCIIKIVEFAKRLP 95
Query: 144 GFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMD 203
GF+ L DQ+TLLKA ++L++R+ + + ++M +G L R +H++ L D
Sbjct: 96 GFTGLTIADQITLLKAACLDILILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTD 155
Query: 204 SMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH 263
+F FA +L L + DTE GL S+I +I R L V++++ L L + +
Sbjct: 156 LVFTFANQLLPLEMDDTETGLLSAICLICGDRQDLEEPTKVDKLQEPLLEALKIYIRKRR 215
Query: 264 PEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHGEDNSKSPTGSS 323
P + ++ +++ + DLR+++ +E+++ +M Q+ + + T SS
Sbjct: 216 PSKPHMFPKILMKITDLRSISAKGAERVITLKMEIPGSMPPLIQEMLENSEGHEPLTPSS 275
Query: 324 WSDVTMEEVKSPLGSVSSTESVCSNE 349
+ SP S SS E+ ++
Sbjct: 276 SGN---IAEHSPSVSPSSVENSGVSQ 298
>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 = 216 bits (553), Expect = 5e-67
Identities = 63/237 (26%), Positives = 110/237 (46%), Gaps = 19/237 (8%)
Query: 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQE 119
+ +++ V +AH +T + + H +Q
Sbjct: 4 QLEELITKVSKAHQETFPSLCQLGKYT-------------------TNSSADHRVQLDLG 44
Query: 120 LLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNS 179
L FSE + I +VEFAKR+PGF+ L DQ+TLLKA ++L++R+ + + ++
Sbjct: 45 LWDKFSELATKCIIKIVEFAKRLPGFTGLSIADQITLLKAACLDILMLRICTRYTPEQDT 104
Query: 180 MICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLR 239
M +G L R +H++ L D +F FA +L L + DTE GL S+I +I R L
Sbjct: 105 MTFSDGLTLNRTQMHNAGFGPLTDLVFAFAGQLLPLEMDDTETGLLSAICLICGDRMDLE 164
Query: 240 NKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
E V++++ L L + P Q + ++ + DLR ++ +E+ + +M
Sbjct: 165 EPEKVDKLQEPLLEALRLYARRRRPSQPYMFPRMLMKITDLRGISTKGAERAITLKM 221
>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 = 217 bits (553), Expect = 7e-67
Identities = 72/239 (30%), Positives = 127/239 (53%), Gaps = 15/239 (6%)
Query: 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQE 119
+ R+ ++++HL+TC +T +++ + + + ++ + ++
Sbjct: 4 EIDRIAQNIIKSHLETCQYTMEELHQLAWQTHTYE-------------EIKAYQSKSREA 50
Query: 120 LLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNS 179
L Q + + + I+ VVEFAKRI GF LC +DQ+ LLK+G EV+LVR+ F+ N
Sbjct: 51 LWQQCAIQITHAIQYVVEFAKRITGFMELCQNDQILLLKSGCLEVVLVRMCRAFNPLNN- 109
Query: 180 MICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLR 239
+ G+ + + L++ FDFA+ L L L++ EI LFSS V+ISP R+ L
Sbjct: 110 TVLFEGKYGGMQMFKALGSDDLVNEAFDFAKNLCSLQLTEEEIALFSSAVLISPDRAWLL 169
Query: 240 NKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTE 298
V++++ K+ L HV+ +NH + A+LI+ +P + + LH EKL F+ +
Sbjct: 170 EPRKVQKLQEKIYFALQHVIQKNHLDD-ETLAKLIAKIPTITAVCNLHGEKLQVFKQSH 227
>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 = 218 bits (556), Expect = 7e-67
Identities = 59/281 (20%), Positives = 124/281 (44%), Gaps = 18/281 (6%)
Query: 18 RYHNAPVRFGRVPKREKARILAAMQQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCA 77
++ + + P +E+ + A + + L ++ M+ +V A
Sbjct: 4 QHQHQHQHQHQQPLQEEEQAHATSLPPRASS-PPQILPQLSPEQLGMIEKLVAAQQQCNR 62
Query: 78 FTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVE 137
+ R P P+ H + +Q+ F+E +++++V+
Sbjct: 63 RS----FSDRLRVTPWPM------------APDPHSREARQQRFAHFTELAIVSVQEIVD 106
Query: 138 FAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSS- 196
FAK++PGF L +DQ+ LLK EV+L+ + ++ + S+ L R+ +
Sbjct: 107 FAKQLPGFLQLSREDQIALLKTSAIEVMLLETSRRYNPGSESITFLKDFSYNREDFAKAG 166
Query: 197 NARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLM 256
++ +F+F+ +N L L+D E L +I + S R ++++ VER++ L
Sbjct: 167 LQVEFINPIFEFSRAMNELQLNDAEFALLIAISIFSADRPNVQDQLQVERLQHTYVEALH 226
Query: 257 HVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMT 297
++ +HP + ++ L LRTL+ +HSE++ A ++
Sbjct: 227 AYVSIHHPHDRLMFPRMLMKLVSLRTLSSVHSEQVFALRLQ 267
>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 = 215 bits (548), Expect = 9e-66
Identities = 74/256 (28%), Positives = 133/256 (51%), Gaps = 16/256 (6%)
Query: 44 STNTKCTEKALAAELDDEQ-RMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPST 102
S++ + + E + + ++HL+TC + ++++ + +
Sbjct: 2 SSHHHHHHLEVLFQGPAELEHLAQNISKSHLETCQYLREELQQITWQTFLQE-------- 53
Query: 103 LACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVF 162
++ + ++ + Q + + + I+ VVEFAKRI GF LC +DQ+ LLKAG
Sbjct: 54 -----EIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVLLKAGSL 108
Query: 163 EVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEI 222
EV+ +R+ FDSQ N++ +G+ D S + +F+F + L +HL++ EI
Sbjct: 109 EVVFIRMCRAFDSQNNTVYF-DGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHLTEDEI 167
Query: 223 GLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRT 282
LFS+ V++S RS L+ K +E+++ K++ L HVL +NH E + +LI + LR
Sbjct: 168 ALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHRED-GILTKLICKVSTLRA 226
Query: 283 LNQLHSEKLVAFQMTE 298
L H+EKL+AF+
Sbjct: 227 LCGRHTEKLMAFKAIY 242
>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 = 214 bits (546), Expect = 9e-66
Identities = 52/246 (21%), Positives = 104/246 (42%), Gaps = 15/246 (6%)
Query: 57 ELDDEQRML-STVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQ 115
+L EQ L T++ AH ++ A + P+ L
Sbjct: 3 QLSKEQEELIRTLLGAHTRHMGTMFEQFVQFRPPAHLFIHHQPLPT------------LA 50
Query: 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS 175
L+ F++ + + V++F K +P F L +DQ++LLK E+ + L F
Sbjct: 51 PVLPLVTHFADINTFMVLQVIKFTKDLPVFRSLPIEDQISLLKGAAVEICHIVLNTTFCL 110
Query: 176 QTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSR 235
QT + +C + D ++ +F F L L L + E L +++ + SP R
Sbjct: 111 QTQNFLCGPLRYTIEDGARVGFQVEFLELLFHFHGTLRKLQLQEPEYVLLAAMALFSPDR 170
Query: 236 SGLRNKELVERMRGKLENMLMHVL--NQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVA 293
G+ ++ +++++ ++ L + Q P L A+L+ +L +LR++N+ + ++
Sbjct: 171 PGVTQRDEIDQLQEEMALTLQSYIKGQQRRPRDRFLYAKLLGLLAELRSINEAYGYQIQH 230
Query: 294 FQMTEQ 299
Q
Sbjct: 231 IQGLSA 236
>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 = 213 bits (543), Expect = 4e-65
Identities = 52/239 (21%), Positives = 109/239 (45%), Gaps = 9/239 (3%)
Query: 59 DDEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQ 118
+E ++ AH T A +R + P P+ +
Sbjct: 19 PEEWDLIHIATEAHRSTNAQG----SHWKQRRKFLP-----DDIGQSPIVSMPDGDKVDL 69
Query: 119 ELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTN 178
E +F++ +P I VV+FAK++P FS L +DQ+ LLK E++ +R A +D +++
Sbjct: 70 EAFSEFTKIITPAITRVVDFAKKLPMFSELPXEDQIILLKGCCMEIMSLRAAVRYDPESD 129
Query: 179 SMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGL 238
++ + R+ + + + D++F+ + L+ +L DTE+ L +++++S RSGL
Sbjct: 130 TLTLSGEMAVKREQLKNGGLGVVSDAIFELGKSLSAFNLDDTEVALLQAVLLMSTDRSGL 189
Query: 239 RNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMT 297
+ +E+ + H +N + +L+ + DLR + H+ + + ++
Sbjct: 190 LXVDKIEKSQEAYLLAFEHYVNHRKHNIPHFWPKLLMKVTDLRMIGAXHASRFLHMKVE 248
>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 = 212 bits (541), Expect = 5e-65
Identities = 67/249 (26%), Positives = 114/249 (45%), Gaps = 17/249 (6%)
Query: 53 ALAAELDDEQRML-STVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNS 111
AL +L +EQ+ + + ++ AH T T R + +
Sbjct: 1 ALRPKLSEEQQRIIAILLDAHHKTYDPTYSDFCQFRPPVRVNDGGGSVT----------- 49
Query: 112 HPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLAC 171
Q +L ++ S +I+ V+ FAK IPGF L +DQ+ LLK+ EV+++R
Sbjct: 50 -LELSQLSMLPHLADLVSYSIQKVIGFAKMIPGFRDLTSEDQIVLLKSSAIEVIMLRSNE 108
Query: 172 MFDSQTNSMICLNGEVLVR--DSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIV 229
F S C N + R D + ++ L++ + F L L+L + E L +I
Sbjct: 109 SFTMDDMSWTCGNQDYKYRVSDVTKAGHSLELIEPLIKFQVGLKKLNLHEEEHVLLMAIC 168
Query: 230 VISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQ--MNLCAELISMLPDLRTLNQLH 287
++SP R G+++ L+E ++ +L N L + HP L A++I L DLR+LN+ H
Sbjct: 169 IVSPDRPGVQDAALIEAIQDRLSNTLQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEH 228
Query: 288 SEKLVAFQM 296
S++
Sbjct: 229 SKQYRCLSF 237
>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 = 211 bits (539), Expect = 2e-64
Identities = 58/237 (24%), Positives = 111/237 (46%), Gaps = 19/237 (8%)
Query: 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQE 119
+ ++ V +AH +T + N + + +
Sbjct: 28 EVGELIEKVRKAHQETFPALCQLGKYT-------------------TNNSSEQRVSLDID 68
Query: 120 LLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNS 179
L FSE + I VEFAK++PGF+ L DQ+TLLKA ++L++R+ + + ++
Sbjct: 69 LWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTRYTPEQDT 128
Query: 180 MICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLR 239
M +G L R +H++ L D +F FA +L L + D E GL S+I +I R L
Sbjct: 129 MTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQDLE 188
Query: 240 NKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
+ V+ ++ L L + + P + ++ +++ + DLR+++ +E+++ +M
Sbjct: 189 QPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVITLKM 245
>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 = 208 bits (531), Expect = 2e-63
Identities = 62/258 (24%), Positives = 109/258 (42%), Gaps = 16/258 (6%)
Query: 60 DEQRMLSTVVRAHLDTCAFTADKIE-----------PMLRRAREHPTYTACPSTLACPLN 108
D + + + +++ + T K P +
Sbjct: 3 DLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITP 62
Query: 109 PNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVR 168
+ + Q R ++++ E+AK IPGF L +DQVTLLK GV E++
Sbjct: 63 LQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTM 122
Query: 169 LACMFDSQTNSMICLNGEVLVRDSIHSS-NARF--LMDSMFDFAERLNGLHLSDTEIGLF 225
LA + + + ++ G+ + S F M+ F+FA + N L L D+++ +F
Sbjct: 123 LASLMN--KDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIF 180
Query: 226 SSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQ 285
+++++S R GL N + +E ++ L L L NHPE L A+L+ + DLR +
Sbjct: 181 IAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVT 240
Query: 286 LHSEKLVAFQMTEQQQQL 303
H + L + TE L
Sbjct: 241 EHVQLLQVIKKTETDMSL 258
>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 = 203 bits (518), Expect = 1e-61
Identities = 60/243 (24%), Positives = 111/243 (45%), Gaps = 23/243 (9%)
Query: 57 ELDDEQRML-STVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQ 115
+ EQ L +V + EHP+ + P++
Sbjct: 9 GISPEQEELIHRLVYFQNEY----------------EHPSEEDVKRIINQPMDGED---- 48
Query: 116 GQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDS 175
+ +E T++ +VEFAKR+PGF L +DQ+ LLKA EV++ R+A +D
Sbjct: 49 QCDVRFRHITEITILTVQLIVEFAKRLPGFDKLLREDQIALLKACSSEVMMFRMARRYDV 108
Query: 176 QTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSR 235
QT+S++ +N + RDS + + ++ + F + + + + E L ++IV+ S R
Sbjct: 109 QTDSILFVNNQPYSRDSYNLAGMGETIEDLLHFCRTMYSMRVDNAEYALLTAIVIFS-ER 167
Query: 236 SGLRNKELVERMRGKLENMLMHVLNQNH-PEQMNLCAELISMLPDLRTLNQLHSEKLVAF 294
L VE+++ L ++ P+ + A+L+S+L +LRTL +SE +
Sbjct: 168 PALIEGWKVEKIQEIYLEALRAYVDNRRKPKPGTIFAKLLSVLTELRTLGNQNSEMCFSL 227
Query: 295 QMT 297
++
Sbjct: 228 KLK 230
>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 = 202 bits (516), Expect = 2e-61
Identities = 66/247 (26%), Positives = 119/247 (48%), Gaps = 17/247 (6%)
Query: 52 KALAAELDDEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNS 111
+A A L + + ++ +V +++ +TC + + S +
Sbjct: 2 EAPYASLTEIEHLVQSVCKSYRETCQLRLEDL-------------LRQRSNIFSREEVTG 48
Query: 112 HPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLAC 171
+ + E+ + + + I+ VVEFAKR+ GF LC +DQ+ LLKAG EV+LVR+
Sbjct: 49 YQRKSMWEMWERCAHHLTEAIQYVVEFAKRLSGFMELCQNDQIVLLKAGAMEVVLVRMCR 108
Query: 172 MFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVI 231
+++ ++ G+ + + L+ S+FDF+ L+ LH S+ EI L++++V+I
Sbjct: 109 AYNADNRTVFF-EGKYGGMELFRALGCSELISSIFDFSHSLSALHFSEDEIALYTALVLI 167
Query: 232 SPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
+ R GL+ K VE+++ LE H L + H + + LR+L H E+L
Sbjct: 168 NAHRPGLQEKRKVEQLQYNLELAFHHHLCKTHRQS---ILAKLPPKGKLRSLCSQHVERL 224
Query: 292 VAFQMTE 298
FQ
Sbjct: 225 QIFQHLH 231
>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 = 203 bits (517), Expect = 4e-61
Identities = 70/255 (27%), Positives = 118/255 (46%), Gaps = 19/255 (7%)
Query: 51 EKALAAELDDEQRML-STVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNP 109
+ +L +L +EQ+ + + ++ AH T T P ST + L+
Sbjct: 2 KDSLRPKLSEEQQHIIAILLDAHHKTYDPTYADF------RDFRPPVRMDGSTGSVTLDL 55
Query: 110 NSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRL 169
+ +L ++ S +I+ V+ FAK IPGF L DDQ+ LLK+ EV+++R
Sbjct: 56 S------PLSMLPHLADLVSYSIQKVIGFAKMIPGFRDLTSDDQIVLLKSSAIEVIMLRS 109
Query: 170 ACMFDSQTNSMICLNGEVLVRDSIHSSNARF---LMDSMFDFAERLNGLHLSDTEIGLFS 226
F S C + D S A L++ + F L L+L + E L
Sbjct: 110 NQSFTMDDMSWDC-GSQDYKYDVTDVSKAGHTLELIEPLIKFQVGLKKLNLHEEEHVLLM 168
Query: 227 SIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPE--QMNLCAELISMLPDLRTLN 284
+I ++SP R G+++ +LVE ++ +L N L + HP L A++I L DLR+LN
Sbjct: 169 AICIVSPDRPGVQDAKLVEAIQDRLSNTLQTYIRCRHPPPGSHQLYAKMIQKLADLRSLN 228
Query: 285 QLHSEKLVAFQMTEQ 299
+ HS++ + +
Sbjct: 229 EEHSKQYRSLSFQPE 243
>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 = 201 bits (512), Expect = 1e-60
Identities = 52/267 (19%), Positives = 112/267 (41%), Gaps = 23/267 (8%)
Query: 38 LAAMQQSTNTKCTEKALAAELDDEQRML-STVVRAHLDTCAFTADKIEPMLRRAREHPTY 96
+A+M L Q+ L + +V +
Sbjct: 4 MASMTGGQQMGRDPLKNVPPLTANQKSLIARLVWYQ------------------EGYEQP 45
Query: 97 TACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTL 156
+ + + + +E T++ +VEFAK +PGF+ + DQ+TL
Sbjct: 46 SEEDLKRVTQTWQSDEDDEDSDMPFRQITEMTILTVQLIVEFAKGLPGFAKISQSDQITL 105
Query: 157 LKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLH 216
LKA EV+++R+A +D+ T+S++ N + RD+ + ++++ + F + +
Sbjct: 106 LKACSSEVMMLRVARRYDAATDSVLFANNQAYTRDNYRKAGMAYVIEDLLHFCRCMYSMM 165
Query: 217 LSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH---PEQMNLCAEL 273
+ + L ++IV+ S R GL LVE ++ N L + + P + ++
Sbjct: 166 MDNVHYALLTAIVIFS-DRPGLEQPLLVEEIQRYYLNTLRVYILNQNSASPRCAVIFGKI 224
Query: 274 ISMLPDLRTLNQLHSEKLVAFQMTEQQ 300
+ +L ++RTL +S ++ ++ ++
Sbjct: 225 LGILTEIRTLGMQNSNMCISLKLKNRK 251
>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 = 201 bits (512), Expect = 1e-60
Identities = 68/255 (26%), Positives = 113/255 (44%), Gaps = 11/255 (4%)
Query: 60 DEQRMLSTVVRAHLDTCAFTADKIEPMLR-RAREHP--------TYTACPSTLACPLNPN 110
D + + + A+L K +L +A +P T TL L N
Sbjct: 1 DLKSLAKRIYEAYLKNFNMNKVKARVILSGKASNNPPFVIHDMETLCMAEKTLVAKLVAN 60
Query: 111 S-HPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRL 169
+ + + T+ ++ EFAK IPGF+ L +DQVTLLK GV+E + L
Sbjct: 61 GIQNKEAEVRIFHCCQCTSVETVTELTEFAKAIPGFANLDLNDQVTLLKYGVYEAIFAML 120
Query: 170 ACMFDSQTNSMICLNGEVLVRD-SIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSI 228
+ + + + NG + +M+ FDFA + N L L D++I LF +
Sbjct: 121 SSVMNKDGMLVAYGNGFITREFLKSLRKPFCDIMEPKFDFAMKFNALELDDSDISLFVAA 180
Query: 229 VVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHS 288
++ R GL N +E+M+ + ++L L NHP+ + L +L+ + DLR L H+
Sbjct: 181 IICCGDRPGLLNVGHIEKMQEGIVHVLRLHLQSNHPDDIFLFPKLLQKMADLRQLVTEHA 240
Query: 289 EKLVAFQMTEQQQQL 303
+ + + TE L
Sbjct: 241 QLVQIIKKTESDAAL 255
>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 = 195 bits (499), Expect = 4e-59
Identities = 57/231 (24%), Positives = 113/231 (48%), Gaps = 12/231 (5%)
Query: 71 AHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSP 130
+H + T D+ +L + P + + +E +E +
Sbjct: 1 SHGEL---TPDQQT-LLHFIMDSYNKQRMPQEITNKILKEEFS---AEENFLILTEMATN 53
Query: 131 TIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVR 190
++ +VEF K++PGF L H+DQ+ LLK E + +R A +F+ + S L+
Sbjct: 54 HVQVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIFNKKLPS----GHSDLLE 109
Query: 191 DSIHSSN-ARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRG 249
+ I +S + + MF F + + L ++ E L ++IV++SP R ++++E VE+++
Sbjct: 110 ERIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKDREAVEKLQE 169
Query: 250 KLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTEQQ 300
L ++L + + PE A L+ L +LRT N H+E L+++++ + +
Sbjct: 170 PLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSWRVNDHK 220
>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 = 195 bits (497), Expect = 6e-58
Identities = 66/280 (23%), Positives = 121/280 (43%), Gaps = 38/280 (13%)
Query: 55 AAELDDEQRML-STVVRAHLDTCAFT-------------ADKIEPMLRRAREH------- 93
+ L DEQ + +++V AH T + R A H
Sbjct: 2 SHMLSDEQMQIINSLVEAHHKTYDDSYSDFVRFRPPVREGPVTRSASRAASLHSLSDASS 61
Query: 94 PTYTACPSTLACPLNPNSHPLQGQQ---------------ELLQDFSERFSPTIRDVVEF 138
++ P ++ LN ++ + Q +L ++ S +I+ V+ F
Sbjct: 62 DSFNHSPESVDTKLNFSNLLMMYQDSGSPDSSEEDQQSRLSMLPHLADLVSYSIQKVIGF 121
Query: 139 AKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEV--LVRDSIHSS 196
AK IPGF L +DQ+ LLK+ E++++R F + S C + + D +
Sbjct: 122 AKMIPGFRDLTAEDQIALLKSSAIEIIMLRSNQSFSLEDMSWSCGGPDFKYCINDVTKAG 181
Query: 197 NARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLM 256
+ L++ + F L L L + E L +I ++SP R G+++ +E ++ +L ++L
Sbjct: 182 HTLELLEPLVKFQVGLKKLKLHEEEHVLLMAICLLSPDRPGVQDHVRIEALQDRLCDVLQ 241
Query: 257 HVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
+ HP L A++I L DLR+LN+ HS++ +
Sbjct: 242 AYIRIQHPGGRLLYAKMIQKLADLRSLNEEHSKQYRSLSF 281
>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 = 195 bits (497), Expect = 6e-58
Identities = 56/275 (20%), Positives = 120/275 (43%), Gaps = 31/275 (11%)
Query: 24 VRFGRVPKREKARILAAMQQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCAFTADKI 83
++ P+R + + + + +++ ++ +V + +
Sbjct: 50 IKQEIDPQR---------LDTDSQLLSVNGVKPITPEQEELIHRLVYFQNEYEHPS---- 96
Query: 84 EPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIP 143
P + +N +E + +E T++ +VEF+KR+P
Sbjct: 97 ----------------PEDIKRIVNAAPEEENVAEERFRHITEITILTVQLIVEFSKRLP 140
Query: 144 GFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMD 203
GF L +DQ+ LLKA EV++ R+A +D++T+S++ + R+S + ++
Sbjct: 141 GFDKLIREDQIALLKACSSEVMMFRMARRYDAETDSILFATNQPYTRESYTVAGMGDTVE 200
Query: 204 SMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENML-MHVLNQN 262
+ F + + + + E L ++IV+ S R L VE+++ L +V N+
Sbjct: 201 DLLRFCRHMCAMKVDNAEYALLTAIVIFS-ERPSLSEGWKVEKIQEIYIEALKAYVENRR 259
Query: 263 HPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMT 297
P + A+L+S+L +LRTL ++SE + ++
Sbjct: 260 KPYATTIFAKLLSVLTELRTLGNMNSETCFSLKLK 294
>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 = 188 bits (480), Expect = 3e-56
Identities = 48/208 (23%), Positives = 97/208 (46%), Gaps = 6/208 (2%)
Query: 91 REHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCH 150
R H T PS L + + + +Q F + + ++ + +FA++IPG+ L
Sbjct: 21 RSHVDTTPDPSCLD--YSHYEEQSMSEADKVQQFYQLLTSSVDVIKQFAEKIPGYFDLLP 78
Query: 151 DDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAE 210
+DQ L ++ E+ ++RLA +I NG VL R S ++ + +F+
Sbjct: 79 EDQELLFQSASLELFVLRLAYRARIDDTKLIFCNGTVLHRTQCLRSFGE-WLNDIMEFSR 137
Query: 211 RLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQ--MN 268
L+ L + + ++ +I+ R GLR + VE+++ K+ L + N Q +
Sbjct: 138 SLHNLEIDISAFACLCALTLIT-ERHGLREPKKVEQLQMKIIGSLRDHVTYNAEAQKKQH 196
Query: 269 LCAELISMLPDLRTLNQLHSEKLVAFQM 296
+ L+ LP+LR+L+ +++ ++
Sbjct: 197 YFSRLLGKLPELRSLSVQGLQRIFYLKL 224
>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 = 187 bits (475), Expect = 1e-54
Identities = 53/292 (18%), Positives = 110/292 (37%), Gaps = 36/292 (12%)
Query: 42 QQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCAFTADK------------------- 82
S T + ++++ M+ ++ A + T T
Sbjct: 10 HGSERTGTQPLGVQGLTEEQRMMIRELMDAQMKTFDTTFSHFKNFRLPGVLSSGCELPES 69
Query: 83 --------------IEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERF 128
+ L + ++ P + LL ++
Sbjct: 70 LQAPSREEAAKWSQVRKDLCSLKVSLQLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMS 129
Query: 129 SPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVL 188
+ + ++ FAK I F L +DQ++LLK FE+ +R +F+++T + C
Sbjct: 130 TYMFKGIISFAKVISYFRDLPIEDQISLLKGAAFELCQLRFNTVFNAETGTWEC-GRLSY 188
Query: 189 VRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMR 248
+ + L++ M F L L L + E L +I + SP R G+ +V++++
Sbjct: 189 CLEDTAGGFQQLLLEPMLKFHYMLKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQ 248
Query: 249 GKLENMLMHVLNQNHPEQ--MNLCAELISMLPDLRTLNQLHSEKLVAFQMTE 298
+ L + N P+ L ++++ML +LR++N H+++L+ Q
Sbjct: 249 EQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRLLRIQDIH 300
>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 = 183 bits (465), Expect = 9e-54
Identities = 51/237 (21%), Positives = 103/237 (43%), Gaps = 22/237 (9%)
Query: 62 QRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELL 121
+L++++RAHLD+ TA + + +
Sbjct: 28 TNLLTSLIRAHLDSGPNTAKLDYSKFQE------------------LVLPRFGKEDAGDV 69
Query: 122 QDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMI 181
Q F + S ++ + ++A++IPGF L DQ LL++ E+ ++RLA +I
Sbjct: 70 QQFYDLLSGSLDVIRKWAEKIPGFIELSPGDQDLLLESAFLELFILRLAYRSKPGEGKLI 129
Query: 182 CLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNK 241
+G VL R +D++ F+ L+ L + S++V+I+ R GL++
Sbjct: 130 FCSGLVLHRLQCARG-FGDWIDNILAFSRSLHSLGVDVPAFACLSALVLIT-DRHGLQDP 187
Query: 242 ELVERMRGKLENMLMHVLNQ--NHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
VE ++ ++ + L + P+ + + L+ LP+LRTL +++ ++
Sbjct: 188 RRVEELQNRIASCLKEHMAAVAGDPQPASCLSRLLGKLPELRTLCTQGLQRIFCLKL 244
>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 = 184 bits (469), Expect = 1e-52
Identities = 76/289 (26%), Positives = 132/289 (45%), Gaps = 22/289 (7%)
Query: 24 VRFGRVPKREKARILAAMQQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCAFTADKI 83
+RFGR+P+ EK ++LA + + E A D + + + +++ + T K
Sbjct: 122 IRFGRMPQAEKEKLLAEISSDIDQLNPESA------DLRALAKHLYDSYIKSFPLTKAKA 175
Query: 84 EPMLRRAREHP------TYTACPSTLACPLNPNSHPLQGQQE-----LLQDFSERFSPTI 132
+L + + PLQ Q + + Q R +
Sbjct: 176 RAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAV 235
Query: 133 RDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDS 192
+++ E+AK IPGF L +DQVTLLK GV E++ LA + + + ++ G+ +
Sbjct: 236 QEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNK--DGVLISEGQGFMTRE 293
Query: 193 IHSS-NARF--LMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRG 249
S F M+ F+FA + N L L D+++ +F +++++S R GL N + +E ++
Sbjct: 294 FLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQD 353
Query: 250 KLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQMTE 298
L L L NHPE L A+L+ + DLR + H + L + TE
Sbjct: 354 NLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTE 402
>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 = 179 bits (457), Expect = 2e-52
Identities = 54/275 (19%), Positives = 113/275 (41%), Gaps = 31/275 (11%)
Query: 24 VRFGRVPKREKARILAAMQQSTNTKCTEKALAAELDDEQRMLSTVVRAHLDTCAFTADKI 83
VR + R +K + ++S +VRAH+D+
Sbjct: 6 VRTDSLKGRR---------GRLPSKPKSPQEPSPPSPPVSLISALVRAHVDSNPAMTSLD 56
Query: 84 EPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIP 143
+ NP+ + +Q F + + ++ + +A++IP
Sbjct: 57 YSRFQ------------------ANPDYQMSGDDTQHIQQFYDLLTGSMEIIRGWAEKIP 98
Query: 144 GFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMD 203
GF+ L DQ L ++ E+ ++RLA + +I NG VL R +D
Sbjct: 99 GFADLPKADQDLLFESAFLELFVLRLAYRSNPVEGKLIFCNGVVLHRLQCVRGFGE-WID 157
Query: 204 SMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH 263
S+ +F+ L +++ + +++ +++ R GL+ + VE ++ K+ N L + N+
Sbjct: 158 SIVEFSSNLQNMNIDISAFSCIAALAMVT-ERHGLKEPKRVEELQNKIVNCLKDHVTFNN 216
Query: 264 P--EQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
+ N ++L+ LP+LRTL +++ ++
Sbjct: 217 GGLNRPNYLSKLLGKLPELRTLCTQGLQRIFYLKL 251
>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 = 156 bits (397), Expect = 3e-44
Identities = 41/185 (22%), Positives = 70/185 (37%), Gaps = 10/185 (5%)
Query: 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQ 176
++ D T+R V+ AKR+P F+ L D + LLK G+ E+L VR FDS
Sbjct: 39 NEKSPADIMNIMDVTMRRFVKMAKRLPAFNDLSQDGKFALLKGGMIEMLTVRGVRRFDSS 98
Query: 177 TNSMICLNGEVLVRDSIHS-SNARF-----LMDSMFDFAERLN-GLHLSDTEIGLFSSIV 229
+ S SI+ F + + + +D I + IV
Sbjct: 99 SGSWTTPTLGESSEVSINMFDQLNADVRSEQKMRFLQFFKIFHEDIRSNDLVISMIMLIV 158
Query: 230 VISPSRSG--LRNKELVERMRGKLENMLMHVLNQNHPEQ-MNLCAELISMLPDLRTLNQL 286
+ SP S ++ ++ R + +L L + + L +L + L LR ++
Sbjct: 159 LFSPRDSITDPEDRRIIARHHEQFSALLNRYLESLYGDDAHQLNEQLPTALRMLREISAS 218
Query: 287 HSEKL 291
Sbjct: 219 SGMLF 223
>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 = 154 bits (391), Expect = 2e-43
Identities = 43/206 (20%), Positives = 82/206 (39%), Gaps = 10/206 (4%)
Query: 108 NPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLV 167
+ + L ++ D T+R +V+ AKR+ F+ + + +LLK G+ E+L +
Sbjct: 30 DQQASTLAKKEHNPTDILNVMDITMRRLVKMAKRLGAFNEISEAGKFSLLKGGMIEMLTI 89
Query: 168 RLACMFDSQTNSMIC-LNGEVLVRDSIHSS-NARFLMDSMFDFAERLNGLH----LSDTE 221
R +F++ ++G + ++ F N LH +D
Sbjct: 90 RGVTVFNADKGVWQTPVDGHSQISFNMFDKLRPDIKDTQKKGFLHFFNLLHSDVRKNDLA 149
Query: 222 IGLFSSIVVISPSRSGL---RNKELVERMRGKLENMLMHVLNQNHPEQ-MNLCAELISML 277
I + +V+ R GL ++KE VE++ E++L L H E+ A + L
Sbjct: 150 IDIIVLMVLFDSKREGLVSQQDKETVEKLHRNYESLLHRYLYSIHKEEAEQRFASIPKAL 209
Query: 278 PDLRTLNQLHSEKLVAFQMTEQQQQL 303
LR + + + T + L
Sbjct: 210 VALRKVAENAVTLFLGAGNTTEAASL 235
>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 = 156 bits (394), Expect = 9e-42
Identities = 56/220 (25%), Positives = 94/220 (42%), Gaps = 1/220 (0%)
Query: 78 FTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVE 137
T+ E M P T + + + + + +VE
Sbjct: 227 STSSANEDMPVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVE 286
Query: 138 FAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSS- 196
+AKRIP FS L DDQV LL+AG E+L+ + + + ++ G + R+S HS+
Sbjct: 287 WAKRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAG 346
Query: 197 NARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLM 256
+ + ++ + + TE+G +IV+ +P GL N VE +R K+ L
Sbjct: 347 VGAIFDRVLTELVSKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLE 406
Query: 257 HVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
+PEQ A+L+ LP LR++ E L F++
Sbjct: 407 AYCKHKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKL 446
>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 = 148 bits (375), Expect = 3e-41
Identities = 41/195 (21%), Positives = 91/195 (46%), Gaps = 1/195 (0%)
Query: 103 LACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVF 162
+ C + + + + + + +V++AK +P F+ L DQV LL+AG
Sbjct: 21 VECNDPLVALVVNENNTTVNNICQATHKQLFQLVQWAKLVPHFTSLPLTDQVQLLRAGWN 80
Query: 163 EVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMF-DFAERLNGLHLSDTE 221
E+L+ + ++++ G + + + H+ + D + + ++ + + TE
Sbjct: 81 ELLIAAFSHRSMQAQDAIVLATGLTVNKSTAHAVGVGNIYDRVLSELVNKMKEMKMDKTE 140
Query: 222 IGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLR 281
+G +I++ +P G+++ + VE +R K+ +L HP + A+L+ LP LR
Sbjct: 141 LGCLRAIILYNPDVRGIKSVQEVEMLREKIYGVLEEYTRTTHPNEPGRFAKLLLRLPALR 200
Query: 282 TLNQLHSEKLVAFQM 296
++ E L F++
Sbjct: 201 SIGLKCLEHLFFFKL 215
>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 = 148 bits (375), Expect = 3e-41
Identities = 41/224 (18%), Positives = 81/224 (36%), Gaps = 14/224 (6%)
Query: 81 DKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAK 140
D+ P++ E P + T + + E S + + +A+
Sbjct: 2 DQSTPII--EVEGPLLSDTHVTFKLTMPSPMPEYLN----VHYICESASRLLFLSMHWAR 55
Query: 141 RIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNA-- 198
IP F L D +L++A E+ + LA + S I +++SI
Sbjct: 56 SIPAFQALGQDCNTSLVRACWNELFTLGLAQCAQVMSLSTILAAIVNHLQNSIQEDKLSG 115
Query: 199 ------RFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLE 252
+ + +F + L + E +IV+ SP GL + +E+ + +
Sbjct: 116 DRIKQVMEHIWKLQEFCNSMAKLDIDGYEYAYLKAIVLFSPDHPGLTSTSQIEKFQEAAQ 175
Query: 253 NMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQM 296
L + + E A ++ LP LR ++ +E+L +
Sbjct: 176 MELQDYVQATYSEDTYRLARILVRLPALRLMSSNITEELFFTGL 219
>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 = 142 bits (359), Expect = 6e-39
Identities = 54/198 (27%), Positives = 92/198 (46%), Gaps = 1/198 (0%)
Query: 100 PSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKA 159
P T + + + + + +VE+AKRIP FS L DDQV LL+A
Sbjct: 22 PKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLRA 81
Query: 160 GVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMF-DFAERLNGLHLS 218
G E+L+ + + + ++ G + R+S HS+ + D + + ++ + +
Sbjct: 82 GWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMD 141
Query: 219 DTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLP 278
TE+G +IV+ +P GL N VE +R K+ L +PEQ A+L+ LP
Sbjct: 142 KTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAKLLLRLP 201
Query: 279 DLRTLNQLHSEKLVAFQM 296
LR++ E L F++
Sbjct: 202 ALRSIGLKCLEHLFFFKL 219
>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 = 136 bits (345), Expect = 1e-36
Identities = 53/193 (27%), Positives = 89/193 (46%), Gaps = 1/193 (0%)
Query: 100 PSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKA 159
P T + + + + + +VE+AKRIP FS L DDQV LL+A
Sbjct: 64 PKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLRA 123
Query: 160 GVFEVLLVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMF-DFAERLNGLHLS 218
G E+L+ + + + ++ G + R+S HS+ + D + + ++ + +
Sbjct: 124 GWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMD 183
Query: 219 DTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLP 278
TE+G +IV+ +P GL N VE +R K+ L +PEQ A+L+ LP
Sbjct: 184 KTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAKLLLRLP 243
Query: 279 DLRTLNQLHSEKL 291
LR++ E L
Sbjct: 244 ALRSIGLKCLEHL 256
>3ltx_A Estrogen receptor; constitutive, nuclear receptor, DNA-binding,
metal-binding, nucleus, transcription, transcription
regulation, zinc-finger; 2.60A {Crassostrea gigas}
Length = 243
Score = 132 bits (335), Expect = 1e-35
Identities = 34/192 (17%), Positives = 78/192 (40%), Gaps = 1/192 (0%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
+ N + LL + + ++ +AK +PG++ L DQV L++ E+L
Sbjct: 23 ESHHNHGQPPTKVHLLNSLVKLAERELVHLINWAKNVPGYTDLSLSDQVHLIECCWMELL 82
Query: 166 LVRLA-CMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGL 224
L+ A + S+ VL R S + + + + +E++ HL E+ L
Sbjct: 83 LLNCAFRSIEHGGKSLAFAPDLVLDRSSWSTVEMTEIFEQVAAVSEQMMQNHLHKDELLL 142
Query: 225 FSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLN 284
++V+++ L + + M+ L + ++ + HP+ + ++ +L +R
Sbjct: 143 LQAMVLVNAEVRRLASYNQIFNMQQSLLDAIVDTAQKYHPDNVRHVPAVLLLLTHIRQAG 202
Query: 285 QLHSEKLVAFQM 296
+ +
Sbjct: 203 ERGIAFFQRLKS 214
>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 = 126 bits (318), Expect = 3e-33
Identities = 41/187 (21%), Positives = 75/187 (40%), Gaps = 1/187 (0%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
N + + D E + +VE+AK IP F L DDQV LL+A E L
Sbjct: 28 VSGINGDIRAKKIASIADVCESMKEQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEHL 87
Query: 166 LVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFD-FAERLNGLHLSDTEIGL 224
L+ + ++ N ++ R + + + D L + D E
Sbjct: 88 LLGATKRSMVFKDVLLLGNDYIVPRHCPELAEMSRVSIRILDELVLPFQELQIDDNEYAY 147
Query: 225 FSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLN 284
+I+ P GL + ++R+R +++ L +N + EL+ +LP L+++
Sbjct: 148 LKAIIFFDPDAKGLSDPGKIKRLRSQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQSIT 207
Query: 285 QLHSEKL 291
E++
Sbjct: 208 WQMIEQI 214
>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 = 126 bits (318), Expect = 3e-33
Identities = 39/213 (18%), Positives = 81/213 (38%), Gaps = 5/213 (2%)
Query: 84 EPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIP 143
E +L+ + P + + L + Q T +V++A+R
Sbjct: 10 ELILQLLQLEPEEDQVRARIVGCLQEPAKSRSDQPAPFSLLCRMADQTFISIVDWARRCM 69
Query: 144 GFSLLCHDDQVTLLKAGVFEVLLVRLA--CMFDSQTNSMICLNGEVLVRDSIHSSNARFL 201
F L DQ+TLL+ E+L++ + + +S++ + G+ + ++ L
Sbjct: 70 VFKELEVADQMTLLQNSWSELLVLDHIYRQVQYGKEDSILLVTGQEVELSTVAVQAGSLL 129
Query: 202 MD---SMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHV 258
+ +L+ L L E +++ S L N LV+ + K L+
Sbjct: 130 HSLVLRAQELVLQLHALQLDRQEFVCLKFLILFSLDVKFLNNHSLVKDAQEKANAALLDY 189
Query: 259 LNQNHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
++P + +L+ L ++R L+ E L
Sbjct: 190 TLSHYPHSGDKFQQLLLSLVEVRALSMQAKEYL 222
>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 = 125 bits (316), Expect = 7e-33
Identities = 32/184 (17%), Positives = 74/184 (40%)
Query: 108 NPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLV 167
P+ + L + + ++ +AK IPGFS L DQ++LL++ E+L++
Sbjct: 37 MPDPTVPDSDIKALTTLCDLADRELVVIIGWAKHIPGFSTLSLADQMSLLQSAWMEILIL 96
Query: 168 RLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSS 227
+ S + ++ + ++ D + L +++ ++ + L E +
Sbjct: 97 GVVYRSLSFEDELVYADDYIMDEDQSKLAGLLDLNNAILQLVKKYKSMKLEKEEFVTLKA 156
Query: 228 IVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLH 287
I + + + + E V++++ L L H E +++ LP LR +
Sbjct: 157 IALANSDSMHIEDVEAVQKLQDVLHEALQDYEAGQHMEDPRRAGKMLMTLPLLRQTSTKA 216
Query: 288 SEKL 291
+
Sbjct: 217 VQHF 220
>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 = 123 bits (311), Expect = 3e-32
Identities = 39/210 (18%), Positives = 76/210 (36%), Gaps = 5/210 (2%)
Query: 87 LRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFS 146
L + + + + T+ +VE+A+ F
Sbjct: 24 LLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFR 83
Query: 147 LLCHDDQVTLLKAGVFEVLLVRLA--CMFDSQTNSMICLNGEVLVRDSIHSSNARFLM-- 202
L DDQ+ LL+ E+L++ + + S+ + G+ + I S L
Sbjct: 84 ELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNL 143
Query: 203 -DSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQ 261
+ +L L E +V+ S L N +LVE ++ ++ L+
Sbjct: 144 MSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYTMC 203
Query: 262 NHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
N+P+Q +L+ LP++R ++ E L
Sbjct: 204 NYPQQTEKFGQLLLRLPEIRAISMQAEEYL 233
>1hg4_A Ultraspiracle; nuclear hormone receptor, transcription factor,
ligand binding; HET: LPP; 2.4A {Drosophila melanogaster}
SCOP: a.123.1.1
Length = 279
Score = 124 bits (312), Expect = 5e-32
Identities = 41/214 (19%), Positives = 83/214 (38%), Gaps = 28/214 (13%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
+ P S + + + + + +VE+A+ +P F+ + DDQV LLKA E+L
Sbjct: 34 RVGPYSTVQPDYKGAVSALCQVVNKQLFQMVEYARMMPHFAQVPLDDQVILLKAAWIELL 93
Query: 166 LVRLA---------------------------CMFDSQTNSMICLNGEVLVRDSIHSSNA 198
+ +A Q + R+S +
Sbjct: 94 IANVAWCSIVSLDDGGAGGGGGGLGHDGSFERRSPGLQPQQLFLNQSFSYHRNSAIKAGV 153
Query: 199 RFLMDSMF-DFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMH 257
+ D + + + ++ L+L E+ +I++ +P G++++ +E R K+ L
Sbjct: 154 SAIFDRILSELSVKMKRLNLDRRELSCLKAIILYNPDIRGIKSRAEIEMCREKVYACLDE 213
Query: 258 VLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
HP A+L+ LP LR+++ + L
Sbjct: 214 HCRLEHPGDDGRFAQLLLRLPALRSISLKCQDHL 247
>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 = 118 bits (297), Expect = 2e-30
Identities = 36/213 (16%), Positives = 85/213 (39%), Gaps = 3/213 (1%)
Query: 81 DKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAK 140
++ PM+R + + L L ++ Q + +L + + + V++A+
Sbjct: 9 LRVSPMIREFVQSIDDREWQTQLFALLQKQTYN-QVEVDLFELMCKVLDQNLFSQVDWAR 67
Query: 141 RIPGFSLLCHDDQVTLLKAGVFEVLLVRLA--CMFDSQTNSMICLNGEVLVRDSIHSSNA 198
F L DDQ+ LL+ ++L++ + + + NG+V S+
Sbjct: 68 NTVFFKDLKVDDQMKLLQHSWSDMLVLDHLHHRIHNGLPDETQLNNGQVFNLMSLGLLGV 127
Query: 199 RFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHV 258
L D + +L L + +++++PS G+ N++ V ++ L+
Sbjct: 128 PQLGDYFNELQNKLQDLKFDMGDYVCMKFLILLNPSVRGIVNRKTVSEGHDNVQAALLDY 187
Query: 259 LNQNHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
+P + L+++LP++ + + L
Sbjct: 188 TLTCYPSVNDKFRGLVNILPEIHAMAVRGEDHL 220
>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 = 115 bits (290), Expect = 2e-29
Identities = 46/194 (23%), Positives = 78/194 (40%), Gaps = 6/194 (3%)
Query: 104 ACPLNPNSHPLQGQQE----LLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKA 159
A P + Q Q +++ E + + VE+A+ IP F L DQV LL+
Sbjct: 18 AEPYPTSRFGSQCMQPNNIMGIENICELAARMLFSAVEWARNIPFFPDLQITDQVALLRL 77
Query: 160 GVFEVLLVRLA-CMFDSQTNSMICLNGEVLVRDSIHSSNARF-LMDSMFDFAERLNGLHL 217
E+ ++ A C ++ G S A + + E+L LH+
Sbjct: 78 TWSELFVLNAAQCSMPLHVAPLLAAAGLHASPMSADRVVAFMDHIRIFQEQVEKLKALHV 137
Query: 218 SDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISML 277
E +IV+ + GL + VE ++ K + L + +P Q +L+ L
Sbjct: 138 DSAEYSCLKAIVLFTSDACGLSDVAHVESLQEKSQCALEEYVRSQYPNQPTRFGKLLLRL 197
Query: 278 PDLRTLNQLHSEKL 291
P LRT++ E+L
Sbjct: 198 PSLRTVSSSVIEQL 211
>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 = 112 bits (282), Expect = 3e-28
Identities = 39/190 (20%), Positives = 70/190 (36%), Gaps = 4/190 (2%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
P+ G + + F I + +AK IPGFS L DQ+++L++ EVL
Sbjct: 35 YAMPDPAGPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVL 94
Query: 166 LVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLF 225
++ +A + + VL + ++ L ++ RL L L E L
Sbjct: 95 VLGVAQRSLPLQDELAFAEDLVLDEEGARAAGLGELGAALLQLVRRLQALRLEREEYVLL 154
Query: 226 SSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQNH----PEQMNLCAELISMLPDLR 281
++ + + + + E VE++R L L+ + L+ LP LR
Sbjct: 155 KALALANSDSVHIEDAEAVEQLREALHEALLEYEAGRAGPGGGAERRRAGRLLLTLPLLR 214
Query: 282 TLNQLHSEKL 291
Sbjct: 215 QTAGKVLAHF 224
>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 = 112 bits (282), Expect = 3e-28
Identities = 37/191 (19%), Positives = 74/191 (38%), Gaps = 6/191 (3%)
Query: 107 LNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLL 166
+S + LL + + VV++AK +PGF L +DQ+TL++ +L
Sbjct: 28 AGYDSSKPDTAENLLSTLNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLS 87
Query: 167 VRLA--CMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGL 224
L+ + + + V + +H S L M + + L L+ E +
Sbjct: 88 FALSWRSYKHTNSQFLYFAPDLVFNEEKMHQSAMYELCQGMHQISLQFVRLQLTFEEYTI 147
Query: 225 FSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQ---NHPEQMNLCAELISMLPDL 280
++++S + GL+++ E MR L ++ + N + +L +L +
Sbjct: 148 MKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMVTKCPNNSGQSWQRFYQLTKLLDSM 207
Query: 281 RTLNQLHSEKL 291
L E
Sbjct: 208 HDLVSDLLEFC 218
>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 = 113 bits (285), Expect = 7e-28
Identities = 39/210 (18%), Positives = 76/210 (36%), Gaps = 5/210 (2%)
Query: 87 LRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFS 146
L + + + + T+ +VE+A+ F
Sbjct: 119 LLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFR 178
Query: 147 LLCHDDQVTLLKAGVFEVLLVRLA--CMFDSQTNSMICLNGEVLVRDSIHSSNARFLM-- 202
L DDQ+ LL+ E+L++ + + S+ + G+ + I S L
Sbjct: 179 ELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNL 238
Query: 203 -DSMFDFAERLNGLHLSDTEIGLFSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQ 261
+ +L L E +V+ S L N +LVE ++ ++ L+
Sbjct: 239 MSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYTMC 298
Query: 262 NHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
N+P+Q +L+ LP++R ++ E L
Sbjct: 299 NYPQQTEKFGQLLLRLPEIRAISMQAEEYL 328
>3vhu_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, antagonist,
spironolactone; HET: SNL; 2.11A {Homo sapiens}
Length = 294
Score = 109 bits (273), Expect = 9e-27
Identities = 46/234 (19%), Positives = 89/234 (38%), Gaps = 23/234 (9%)
Query: 64 MLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELLQD 123
LST+ RA + + IEP + A + P++ + LL
Sbjct: 36 QLSTISRALTPSPVMVLENIEPEIVYAGYDSSK------------PDT-----AENLLST 78
Query: 124 FSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLAC--MFDSQTNSMI 181
+ + VV++AK +PGF L +DQ+TL++ +L L+ + + +
Sbjct: 79 LNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLSFALSWRSYKHTNSQFLY 138
Query: 182 CLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVISPS-RSGLRN 240
V + +H S L M + + L L+ E + ++++S + GL++
Sbjct: 139 FAPDLVFNEEKMHQSAMYELCQGMHQISLQFVRLQLTFEEYTIMKVLLLLSTIPKDGLKS 198
Query: 241 KELVERMRGKLENMLMHVLNQ---NHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
+ E MR L ++ + N + +L +L + L E
Sbjct: 199 QAAFEEMRTNYIKELRKMVTKCPNNSGQSWQRFYQLTKLLDSMHDLVSDLLEFC 252
>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 = 106 bits (267), Expect = 4e-26
Identities = 43/181 (23%), Positives = 79/181 (43%), Gaps = 19/181 (10%)
Query: 135 VVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLA------------------CMFDSQ 176
+V +A+ IP FS L +DQ+ L+K E+LL +A S
Sbjct: 58 LVVWARDIPHFSQLEMEDQILLIKGSWNELLLFAIAWRSMEFLTEERDGVDGTGNRTTSP 117
Query: 177 TNSMICLNGEVLVRDSIHSSNARFLMDSMF-DFAERLNGLHLSDTEIGLFSSIVVISPSR 235
M + G L R+S + + D + + + ++ L + E +I++++P
Sbjct: 118 PQLMCLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDV 177
Query: 236 SGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHSEKLVAFQ 295
GL+N++ VE +R K+ L ++ + A L+ LP LR+++ E L F
Sbjct: 178 KGLKNRQEVEVLREKMFLCLDEYCRRSRSSEEGRFAALLLRLPALRSISLKSFEHLFFFH 237
Query: 296 M 296
+
Sbjct: 238 L 238
>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 = 99.2 bits (247), Expect = 2e-23
Identities = 32/192 (16%), Positives = 70/192 (36%), Gaps = 6/192 (3%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
+S ++ + + V++AK IPGF L DDQ+TLL+ ++
Sbjct: 29 YAGYDSSVPDSAWRIMTTLNMLGGRQVIAAVKWAKAIPGFRNLHLDDQMTLLQYSWMFLM 88
Query: 166 LVRLA--CMFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIG 223
+ L + N + ++ + M + L L +S E
Sbjct: 89 VFALGWRSYRQASGNLLCFAPDLIINEQRMTLPCMYDQCKHMLFISTELQRLQVSYEEYL 148
Query: 224 LFSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQ---NHPEQMNLCAELISMLPD 279
+++++S + GL+++EL + +R L + + N + +L +L
Sbjct: 149 CMKTLLLLSSVPKEGLKSQELFDEIRMTYIKELGKAIAKRGGNSSQNWQRFYQLTKLLDS 208
Query: 280 LRTLNQLHSEKL 291
+ + +
Sbjct: 209 MHDVVENLLSYC 220
>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 = 98.3 bits (245), Expect = 2e-23
Identities = 36/198 (18%), Positives = 80/198 (40%), Gaps = 12/198 (6%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
+ + ++ + + ++ +AKR+PGF L DQV LL+ E+L
Sbjct: 22 YSEYDPTRPFSEASMMGLLTNLADRELVHMINWAKRVPGFVDLTLHDQVHLLECAWLEIL 81
Query: 166 LVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARF-LMDSMFDFAERLNGLHLSDTEIGL 224
++ L ++ +L R+ + D + + R ++L E
Sbjct: 82 MIGLVWRSMEHPGKLLFAPNLLLDRNQGKCVEGMVEIFDMLLATSSRFRMMNLQGEEFVC 141
Query: 225 FSSIVVISP--------SRSGLRNKELVERMRGKLENMLMHVLNQ---NHPEQMNLCAEL 273
SI++++ + L K+ + R+ K+ + L+H++ + +Q A+L
Sbjct: 142 LKSIILLNSGVYTFLSSTLKSLEEKDHIHRVLDKITDTLIHLMAKAGLTLQQQHQRLAQL 201
Query: 274 ISMLPDLRTLNQLHSEKL 291
+ +L +R ++ E L
Sbjct: 202 LLILSHIRHMSNKGMEHL 219
>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 = 98.3 bits (245), Expect = 2e-23
Identities = 40/197 (20%), Positives = 72/197 (36%), Gaps = 11/197 (5%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
L + ++ ++ + ++ +AK+IPGF L DQV LL++ EVL
Sbjct: 20 VLISRPSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVL 79
Query: 166 LVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARF-LMDSMFDFAERLNGLHLSDTEIGL 224
++ L +I VL RD + D + R L L E
Sbjct: 80 MMGLMWRSIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLC 139
Query: 225 FSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQ----------NHPEQMNLCAELI 274
++++++ S L KL ++L V + + +Q A L+
Sbjct: 140 VKAMILLNSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLL 199
Query: 275 SMLPDLRTLNQLHSEKL 291
+L +R + E L
Sbjct: 200 MLLSHVRHASNKGMEHL 216
>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 = 98.4 bits (245), Expect = 3e-23
Identities = 26/163 (15%), Positives = 64/163 (39%), Gaps = 6/163 (3%)
Query: 135 VVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLA--CMFDSQTNSMICLNGEVLVRDS 192
VV++AK +PGF L DDQ+ +++ +++ + + + + V
Sbjct: 65 VVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYR 124
Query: 193 IHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIVVIS-PSRSGLRNKELVERMRGKL 251
+H S M ++ L ++ E ++++ S GL+N++ + +R
Sbjct: 125 MHKSRMYSQCVRMRHLSQEFGWLQITPQEFLCMKALLLFSIIPVDGLKNQKFFDELRMNY 184
Query: 252 ENMLMHVLN---QNHPEQMNLCAELISMLPDLRTLNQLHSEKL 291
L ++ +N +L +L ++ + + +
Sbjct: 185 IKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIARELHQFT 227
>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 = 94.6 bits (235), Expect = 7e-22
Identities = 36/189 (19%), Positives = 73/189 (38%), Gaps = 7/189 (3%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
++ LL ++ + VV+++K +PGF L DDQ+TL++ ++
Sbjct: 28 YAGHDNTKPDTSSSLLTSLNQLGERQLLSVVKWSKSLPGFRNLHIDDQITLIQYSWMSLM 87
Query: 166 LVRLAC--MFDSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIG 223
+ L + +L + S+ L +M+ + L +S E
Sbjct: 88 VFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKLQVSQEEFL 147
Query: 224 LFSSIVVISP-SRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLC---AELISMLPD 279
+++++ GLR++ E MR L+ + ++ +L +L +
Sbjct: 148 CMKVLLLLNTIPLEGLRSQTQFEEMRSSYIRELIKAIGLRQKGVVSSSQRFYQLTKLLDN 207
Query: 280 LRTL-NQLH 287
L L QLH
Sbjct: 208 LHDLVKQLH 216
>2ocf_A Estrogen receptor; estrogen receptor, LBD, monobody, estradiol,
hormone-growth complex; HET: CME EST; 2.95A {Homo
sapiens}
Length = 298
Score = 94.9 bits (236), Expect = 1e-21
Identities = 36/187 (19%), Positives = 79/187 (42%), Gaps = 12/187 (6%)
Query: 117 QQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQ 176
+ ++ + + ++ +AKR+PGF L DQV LL+ E+L++ L
Sbjct: 42 EASMMGLLTNLADRELVHMINWAKRVPGFVDLTLHDQVHLLECAWLEILMIGLVWRSMEH 101
Query: 177 TNSMICLNGEVLVRDSIHSSNARF-LMDSMFDFAERLNGLHLSDTEIGLFSSIVVISP-- 233
++ +L R+ + D + + R ++L E SI++++
Sbjct: 102 PGKLLFAPNLLLDRNQGKCVEGMVEIFDMLLATSSRFRMMNLQGEEFVCLKSIILLNSGV 161
Query: 234 ------SRSGLRNKELVERMRGKLENMLMHVLNQ---NHPEQMNLCAELISMLPDLRTLN 284
+ L K+ + R+ K+ + L+H++ + +Q A+L+ +L +R ++
Sbjct: 162 YTFLSSTLKSLEEKDHIHRVLDKITDTLIHLMAKAGLTLQQQHQRLAQLLLILSHIRHMS 221
Query: 285 QLHSEKL 291
E L
Sbjct: 222 NKGMEHL 228
>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 = 92.6 bits (229), Expect = 3e-21
Identities = 34/183 (18%), Positives = 68/183 (37%), Gaps = 26/183 (14%)
Query: 135 VVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLA---------------------CMF 173
+ F K +P F +L D Q+ L+++ +L++ LA
Sbjct: 63 TLRFVKYLPCFQILPLDQQLVLVRSCWAPLLMLELAQDHLHFEMMEIPETNTTQEMLTTR 122
Query: 174 DSQTNSMICLNGEVLVRDSIHSSNARFL-----MDSMFDFAERLNGLHLSDTEIGLFSSI 228
+T + + + S+ A L + ++ F + L++ E
Sbjct: 123 RQETEGPEPAEPQATEQPQMVSAEAGHLLPAAAVQAIKSFFFKCWSLNIDTKEYAYLKGT 182
Query: 229 VVISPSRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPDLRTLNQLHS 288
V+ +P GL+ + +E ++ + + +L + E AEL S L LR +N
Sbjct: 183 VLFNPDLPGLQCVKYIEGLQWRTQQILTEHIRMMQREYQIRSAELNSALFLLRFINSDVV 242
Query: 289 EKL 291
+L
Sbjct: 243 TEL 245
>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 = 87.3 bits (216), Expect = 2e-19
Identities = 40/202 (19%), Positives = 74/202 (36%), Gaps = 11/202 (5%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
L + ++ ++ + ++ +AK+IPGF L DQV LL++ EVL
Sbjct: 18 VLISRPSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVL 77
Query: 166 LVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARF-LMDSMFDFAERLNGLHLSDTEIGL 224
++ L +I VL RD + D + R L L E
Sbjct: 78 MMGLMWRSIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLC 137
Query: 225 FSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQ----------NHPEQMNLCAELI 274
++++++ S L KL ++L V + + +Q A L+
Sbjct: 138 VKAMILLNSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLL 197
Query: 275 SMLPDLRTLNQLHSEKLVAFQM 296
+L +R + E L+ +
Sbjct: 198 MLLSHVRHASNKGMEHLLNMKC 219
>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 = 86.6 bits (214), Expect = 4e-19
Identities = 40/197 (20%), Positives = 72/197 (36%), Gaps = 11/197 (5%)
Query: 106 PLNPNSHPLQGQQELLQDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVL 165
L + ++ ++ + ++ +AK+IPGF L DQV LL++ EVL
Sbjct: 46 VLISRPSAPFTEASMMMSLTKLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVL 105
Query: 166 LVRLACMFDSQTNSMICLNGEVLVRDSIHSSNARF-LMDSMFDFAERLNGLHLSDTEIGL 224
++ L +I VL RD + D + R L L E
Sbjct: 106 MMGLMWRSIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLC 165
Query: 225 FSSIVVISPSRSGLRNKELVERMRGKLENMLMHVLNQ----------NHPEQMNLCAELI 274
++++++ S L KL ++L V + + +Q A L+
Sbjct: 166 VKAMILLNSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLL 225
Query: 275 SMLPDLRTLNQLHSEKL 291
+L +R + E L
Sbjct: 226 MLLSHVRHASNKGMEHL 242
>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 = 59.9 bits (144), Expect = 2e-09
Identities = 40/348 (11%), Positives = 91/348 (26%), Gaps = 94/348 (27%)
Query: 18 RYHNAPVRFGR--VPKREKARIL--AAMQQSTNTK--------CTEKALAAE-LDD---E 61
R +N F + V + + L A ++ + +A + +
Sbjct: 118 RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 62 QRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSHPLQGQQELL 121
+M + +L C +E + + + + S + +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ----------IDPNWTSRSDHSSNIKLRI 227
Query: 122 QDFSERFSPTIRDVVEFAKRIPGFSLLCHDDQV---TLLKAGVFEVLLVRLACMFDSQTN 178
++ K LL + V A F+
Sbjct: 228 HSIQAELRRLLKS-----KPYEN-CLLVLLN-VQNAKAWNA-------------FNLS-- 265
Query: 179 SMICLNGEVLV--RDSIHSSNARFLMDSM---FDFAERLNGLHLSDTEIGLFSSIVVISP 233
C ++L+ R FL + L + + L +
Sbjct: 266 ---C---KILLTTRFK---QVTDFLSAATTTHISLDHHSMTLTPDEVK-SLLLKYL---- 311
Query: 234 SRSGLRNKELVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPD-LRTLNQLHSEKLV 292
R ++L + +P ++++ AE I ++ +KL
Sbjct: 312 ---DCRPQDLPREVL------------TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 293 -AFQMTEQQQQLAAQQQQWHG----EDNSKSPT---GSSWSDVTMEEV 332
+ + + A ++ + ++ PT W DV +V
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Score = 51.8 bits (123), Expect = 5e-07
Identities = 66/506 (13%), Positives = 138/506 (27%), Gaps = 161/506 (31%)
Query: 124 FSERFSPTIRDVVEFAKRIPGFSLLCHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICL 183
+ E+ D FAK + L+ + E+ + + +
Sbjct: 112 YIEQRDRLYNDNQVFAKY-----NVSRLQPYLKLRQALLEL-----------RPAKNVLI 155
Query: 184 NG------EVLVRDSIHSSNARFLMDSMFDFA----------------ERLNGLHLSDTE 221
+G + D S + + DF E L L +
Sbjct: 156 DGVLGSGKTWVALDVCLS----YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY---Q 208
Query: 222 IGLFSSIVVISPSRSGLRNKELVERMRGKL-----ENMLM---HVLNQNHPEQMNL-CAE 272
I + S LR + +R L EN L+ +V N NL C
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-- 266
Query: 273 LISMLPDLRTLNQLHSEKLVAFQMTEQQQQLAAQQQQWHGEDNSKSPTGSSWSDVTMEEV 332
+ L +T + +Q+ + ++ + ++++
Sbjct: 267 --------KIL------------LTTRFKQVTD------------FLSAATTTHISLDHH 294
Query: 333 KSPLGSVSSTESVCSN----EVATL-NEYTSTHAQNAPLLAATLAGAQCPHRNRANSGST 387
L +S+ L E +T+ P + +A + +
Sbjct: 295 SMTLTP-DEVKSLLLKYLDCRPQDLPREVLTTN----PRRLSIIAESIRDGLATWD---- 345
Query: 388 TDGDRRFRKLDSPT-DSGIESGTEKIEKHASAPTSVCSSPRSSFEE-----KDFNHVEDM 441
++ ++ + IES +E P R F+ + +
Sbjct: 346 -----NWKHVNCDKLTTIIESSLNVLE-----PAEY----RKMFDRLSVFPPSAH----I 387
Query: 442 P--VLKRILQAPP----------LDTSSLMDEAYKP-----HKKFRALRQKDSAEAEPLH 484
P +L I L SL+++ K + L+ K E LH
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA-LH 446
Query: 485 PSLASSHSMLAKSLMEGPRMTPDQLKRTEIVHNYIM----------RTDSPPSAYFPRSW 534
S+ +++ + + P L + +++I R + +
Sbjct: 447 RSIVDHYNIPKTFDSDD--LIPPYLD--QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502
Query: 535 HSSSVIKPAPPATVTS---NALLELQ 557
+ + + N L +L+
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLK 528
Score = 49.1 bits (116), Expect = 4e-06
Identities = 66/495 (13%), Positives = 137/495 (27%), Gaps = 161/495 (32%)
Query: 174 DSQTNSMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSS----IV 229
D +T + +D + F+ + FD + D + S +
Sbjct: 8 DFETGEH-----QYQYKDILSVFEDAFVDN--FDCK------DVQDMPKSILSKEEIDHI 54
Query: 230 VISPSRSGLRNKELVERMRGKLENM----LMHVLNQNHPEQMN-LCAELISMLPDLRT-- 282
++S L + K E M + VL N+ M+ + E P + T
Sbjct: 55 IMSKDAV-SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ--PSMMTRM 111
Query: 283 ----LNQLHS--EKLVAFQMT--EQQQQL--AAQQQQ---W---HGEDNSKSPTGSSWSD 326
++L++ + + ++ + +L A + + G +G +W
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG----VLGSGKTW-- 165
Query: 327 VTMEEVKSPLGSVSSTESVCSNEV--ATLNEYTSTHAQNAPLLAATLAGAQCPHRNRANS 384
V ++ S + ++ L S L L ++ N
Sbjct: 166 VALDVCLS-----YKVQCKMDFKIFWLNLKNCNSPETVLEMLQ--KL----L-YQIDPNW 213
Query: 385 GSTTDGDRRFRKLDSPTDSGIESGTEKIEKHASAPTSVCSSPRSSFEEKDFN-------H 437
S +D + I S ++ R + K + +
Sbjct: 214 TSRSDHSSNIK-------LRIHSIQAEL--------------RRLLKSKPYENCLLVLLN 252
Query: 438 VEDMPVLK------RIL-----------------QAPPLDTSSLM---DEAYKPHKKFRA 471
V++ +IL LD S+ DE K+
Sbjct: 253 VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 472 LRQKD-SAEAEPLHPSLASSHSMLAKSLMEGP-------RMTPDQLKRT----------- 512
R +D E +P S++A+S+ +G + D+L
Sbjct: 313 CRPQDLPREVLTTNP-RR--LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369
Query: 513 EIVHNY----IMRTDSP-PSAYFPRSW---------------HSSSVIKPAPPATVTSNA 552
E + + + P+ W H S+++ P + S
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS-- 427
Query: 553 LLELQVAATSQPLNL 567
+ + + + N
Sbjct: 428 IPSIYLELKVKLENE 442
>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 = 57.0 bits (137), Expect = 2e-08
Identities = 61/358 (17%), Positives = 106/358 (29%), Gaps = 120/358 (33%)
Query: 304 AAQQQQWHGEDNSKS---PTGSSWSDVTMEEVKSP-------LGSVSS----TESVCSNE 349
A Q Q E +K PT +D +E +P LG VSS ++ ++
Sbjct: 29 IASQLQ---EQFNKILPEPTEGFAAD---DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ 82
Query: 350 V--ATLNEYTST-------HAQNAPLLAATLAGAQCPHRNRANSGSTTDGDRRFRKLDSP 400
V L E+ + HA LAA L + T + + +
Sbjct: 83 VLNLCLTEFENCYLEGNDIHA-----LAAKLLQE-----------NDTTLVKTKELIKNY 126
Query: 401 TDSGIESGTEKIEKHASAPTSVCSSPRSS--------------FEEKDFNHVEDMPVLKR 446
+ I + +K SA + FEE L+
Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE-----------LRD 175
Query: 447 ILQAPPLDTSSLMDEAYKPHKKFRALRQKDSAEAEPLHPSLASSHSMLAKSLMEGPRMTP 506
+ Q + L+ + + L + + +AE + + +E P TP
Sbjct: 176 LYQTYHVLVGDLIKFS---AETLSEL-IRTTLDAEKVFT-----QGLNILEWLENPSNTP 226
Query: 507 DQ--LKR----------TEIVHNYIM--RTDSPPSAYFPR----SWHSSSVIKPAPPATV 548
D+ L ++ H + P + HS ++ A
Sbjct: 227 DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 549 TS---------NAL-------LELQVAA--TSQPLNLSKKTP-----PPSPRLSVVSL 583
S A+ + A TS P ++ + + PSP LS+ +L
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Score = 54.7 bits (131), Expect = 8e-08
Identities = 65/419 (15%), Positives = 125/419 (29%), Gaps = 130/419 (31%)
Query: 53 ALAAELDDEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACPLNPNSH 112
ALAA+L E + V L TA R + P S L + +
Sbjct: 103 ALAAKLLQEND-TTLVKTKELIKNYITA-------RIMAKRPFDKKSNSALFRAVGEGNA 154
Query: 113 PL------QGQQEL----LQDFSERFSPTIRDVVEFA---------------KRIP-GFS 146
L QG + L+D + + + D+++F+ K G +
Sbjct: 155 QLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN 214
Query: 147 LL--------CHDDQVTLLKAGV-FEVL-LVRLAC--------------MFDSQTNSMIC 182
+L D LL + ++ +++LA + +
Sbjct: 215 ILEWLENPSNTPDKDY-LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 183 LNGEVLV------RDSIHS--SNARFLMDSMFDFAERLNGLHLSDT--EIGLFSSIVVIS 232
G ++ DS S + R + +F G+ + L SI+ S
Sbjct: 274 SQG-LVTAVAIAETDSWESFFVSVRKAITVLF-----FIGVRCYEAYPNTSLPPSILEDS 327
Query: 233 -------PSR----SGLRNKEL---VERMRGKL-ENMLMHVLNQNHPEQMNLC---AELI 274
PS S L +++ V + L + + N + + + L
Sbjct: 328 LENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY 387
Query: 275 SMLPDLR------TLNQ---LHSEKLVAFQM-----------------TEQ-QQQLAAQQ 307
+ LR L+Q SE+ + F ++ + L
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN 447
Query: 308 QQWHGEDNSKSP---TGSSWSDVTMEEVKSPLGSVSSTESVCSNEV--ATLNEYTSTHA 361
++ +D + P T SD + + + + + V T ++ +TH
Sbjct: 448 VSFNAKD-IQIPVYDT-FDGSD--LRVLSGSISE-RIVDCIIRLPVKWETTTQFKATHI 501
Score = 37.0 bits (85), Expect = 0.020
Identities = 40/235 (17%), Positives = 66/235 (28%), Gaps = 107/235 (45%)
Query: 115 QGQQELLQ----DFSERFSPTIRDVVEFAKR----IPGFSLL------------------ 148
QG QE Q D + S +DV A GFS+L
Sbjct: 1624 QGSQE--QGMGMDLYKT-SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 149 ---------------CHDDQVTLLKAGVFEVLLVRL-ACMFDS------QTN-------- 178
D ++ K +F+ + + F S T
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEK--IFKEINEHSTSYTFRSEKGLLSATQFTQPALTL 1738
Query: 179 -SMICLNGEVLVRDSIHSSNARFLMDSMFDFAERLNGLHLSDTEIGLFSSIV----VISP 233
E L ++ L+ + FA G H S +G ++++ V+S
Sbjct: 1739 MEKAAF--EDL--------KSKGLIPADATFA----G-H-S---LGEYAALASLADVMSI 1779
Query: 234 SRSGLRNKELVERMRGKL------------ENMLMHVLNQNHPEQM--NLCAELI 274
S + +V RG N M +N P ++ + E +
Sbjct: 1780 E-SLVE---VV-FYRGMTMQVAVPRDELGRSNYGMIAIN---PGRVAASFSQEAL 1826
Score = 33.9 bits (77), Expect = 0.18
Identities = 45/240 (18%), Positives = 81/240 (33%), Gaps = 68/240 (28%)
Query: 42 QQST-NTKCTEKALAAELDDEQ----RMLSTVVRAHLDTCAFTADKIEPMLRRAREH-PT 95
++ NT L L++ + MLS + T ++++ + + H P
Sbjct: 311 YEAYPNTSLPPSILEDSLENNEGVPSPMLS--ISN------LTQEQVQDYVNKTNSHLPA 362
Query: 96 YTACPSTLACPL-N-PNS-----HP--LQGQQELLQDFSERFSPTIRDV--VEFAKRIPG 144
+ L N + P L G L + +P+ D + F++R
Sbjct: 363 ----GKQVEISLVNGAKNLVVSGPPQSLYG---LNLTLRKAKAPSGLDQSRIPFSERKLK 415
Query: 145 FSL--L-----CHDDQVTLLKAGVFEVLLVRLACMFDSQTNSMICLNGEVL---VRDSIH 194
FS L H LL +++ L + + N + + V D+
Sbjct: 416 FSNRFLPVASPFHSH---LL-VPASDLINKDLV-------KNNVSFNAKDIQIPVYDTFD 464
Query: 195 SSNARFLMDSMFDFAERLNGLHLSD----TEIGLFSS--IVVISPSR-SGL-----RNKE 242
S+ R L S+ +ER+ + F + I+ P SGL RNK+
Sbjct: 465 GSDLRVLSGSI---SERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD 521
Score = 31.9 bits (72), Expect = 0.82
Identities = 45/273 (16%), Positives = 70/273 (25%), Gaps = 99/273 (36%)
Query: 362 QNAPLLAATLAGAQCPHRNRANSGSTTDGDRRFRKLDSPTDSGIESGTEKIEKHASAPTS 421
N P+ G + R R N + ++ D +++ EKI K + ++
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRENYSAMI--------FETIVDGKLKT--EKIFKEINEHST 1715
Query: 422 VCSSPRSSFEEKDFNHVEDMPVLKR--ILQAPPLDTSS------LMDEAYKPHKKFRA-- 471
+ F + +L Q P L L + P A
Sbjct: 1716 SYT----------FRSEKG--LLSATQFTQ-PALTLMEKAAFEDLKSKGLIPADATFAGH 1762
Query: 472 -------------------------LRQKDSAEAEPLHPSLASSHSMLA--KSLMEGPRM 504
R A P S++ M+A +
Sbjct: 1763 SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRV-AASF 1821
Query: 505 TPDQL--------KRT----EIVHNYIMRTDSPPSAYFPRSWHSSSVIKPAPPATVTSNA 552
+ + L KRT EIV NY + Y V +
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIV-NY----NVENQQY------------------VAAGD 1858
Query: 553 LLELQVAATSQPLNLSKKTPPPSPRLSV-VSLE 584
L L + LN K L +SLE
Sbjct: 1859 LRALDTV--TNVLNFIKLQKIDIIELQKSLSLE 1889
Score = 30.0 bits (67), Expect = 2.9
Identities = 19/93 (20%), Positives = 28/93 (30%), Gaps = 23/93 (24%)
Query: 53 ALAA-----ELDDEQRMLSTV-VRAHLDTCAFTADKIEPMLRRAREHPTYTACPSTLACP 106
ALA+ ++ ++ V R A D++ R + A
Sbjct: 1769 ALASLADVMSIES---LVEVVFYRGMTMQVAVPRDEL------GRSNYGMIAI------- 1812
Query: 107 LNPNSHPLQGQQELLQDFSERFSPTIRDVVEFA 139
NP QE LQ ER +VE
Sbjct: 1813 -NPGRVAASFSQEALQYVVERVGKRTGWLVEIV 1844
>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure,
transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1
c.55.3.2 PDB: 1c1a_A
Length = 238
Score = 30.0 bits (67), Expect = 2.1
Identities = 11/84 (13%), Positives = 25/84 (29%), Gaps = 11/84 (13%)
Query: 243 LVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPD-LRTLNQLHSEKLVA--FQMTEQ 299
+VER L++ + + + + ++ +L + LN + Q +
Sbjct: 107 MVERANRLLKDRIRVLAEGDGFMKRIPTSKQGELLAKAMYALNHKERGENTKTPIQKHWR 166
Query: 300 QQQLAAQQQ--------QWHGEDN 315
L +W N
Sbjct: 167 PTVLTEGPPVKIRIETGEWEKGWN 190
>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 = 28.1 bits (63), Expect = 2.2
Identities = 11/14 (78%), Positives = 13/14 (92%)
Query: 24 VRFGRVPKREKARI 37
VRFGR+PKREK R+
Sbjct: 81 VRFGRIPKREKQRM 94
>3mxl_A Nitrososynthase; flavin monooxygenase, acyl-COA dehydrogenas
oxidoreductase; 3.15A {Micromonospora carbonacea}
Length = 395
Score = 29.1 bits (66), Expect = 4.7
Identities = 6/40 (15%), Positives = 11/40 (27%), Gaps = 10/40 (25%)
Query: 54 LAAELDDEQRMLSTVVRAHLDTCAFTADKIEPMLRRAREH 93
L A L R + ++ +I A +
Sbjct: 5 LRAPLTPAGRTVVDLLAGV-------IPRISA---EAADR 34
>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 = 28.0 bits (61), Expect = 5.9
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 12/36 (33%)
Query: 338 SVSSTESVCSNEVATLNEYTSTHAQNAPLLA--ATL 371
++ ++ +L Y +AP LA AT+
Sbjct: 21 ALKKLQA-------SLKLYA---DDSAPALAIKATM 46
>1cxq_A Avian sarcoma virus integrase; mixed beta-sheet surrounded by
alpha-helices, transferase; HET: EPE; 1.02A {Avian
sarcoma virus} SCOP: c.55.3.2 PDB: 1cxu_A* 1czb_A*
1cz9_A* 1asu_A* 1asw_A* 1asv_A 1a5v_A* 1a5w_A* 1a5x_A*
1vsf_A* 1vse_A* 3o4n_A* 1vsm_A 3o4q_A* 1vsd_A* 1vsh_A*
1vsi_A* 1vsj_A* 1vsk_A 1vsl_A
Length = 162
Score = 27.9 bits (62), Expect = 6.4
Identities = 7/45 (15%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 243 LVERMRGKLENMLMHVLNQNHPEQMNLCAELISMLPD-LRTLNQL 286
+VER L++ + + + + ++ +L + LN
Sbjct: 108 MVERANRLLKDKIRVLAEGDGFMKRIPTSKQGELLAKAMYALNHF 152
>4g6z_A Glutamate-tRNA ligase; aminoacyl-tRNA synthetase, AARS, class 1B
AARS, ATP-dependen charging, protein synthesis,
structural genomics; HET: GLU; 2.05A {Burkholderia
thailandensis}
Length = 490
Score = 27.9 bits (63), Expect = 9.1
Identities = 11/42 (26%), Positives = 15/42 (35%)
Query: 51 EKALAAELDDEQRMLSTVVRAHLDTCAFTADKIEPMLRRARE 92
ALA + D R A L T +T + I L+
Sbjct: 402 ADALAQHVTDAVRPALVEFAAALKTVEWTKEAIAAALKAVLG 443
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
0.315 0.128 0.365
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,427,351
Number of extensions: 492105
Number of successful extensions: 1097
Number of sequences better than 10.0: 1
Number of HSP's gapped: 996
Number of HSP's successfully gapped: 80
Length of query: 585
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 486
Effective length of database: 3,937,614
Effective search space: 1913680404
Effective search space used: 1913680404
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.8 bits)