RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6602
(367 letters)
>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 = 215 bits (549), Expect = 7e-69
Identities = 57/194 (29%), Positives = 96/194 (49%), Gaps = 1/194 (0%)
Query: 85 LMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWD 144
+ S E+ L + V W + + F L DQ+ LL+ E LL + S+ +
Sbjct: 40 IASIADVCESMKEQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEHLLLGATKRSMVFK 99
Query: 145 LSLLINCEKARERLPPDDVRVNNE-IKLIQEILARFRQLSPDGSECGCMKAVILFTPETP 203
LL+ + R P+ ++ I+++ E++ F++L D +E +KA+I F P+
Sbjct: 100 DVLLLGNDYIVPRHCPELAEMSRVSIRILDELVLPFQELQIDDNEYAYLKAIIFFDPDAK 159
Query: 204 GLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKET 263
GL D ++ L+ Q Q L DY+ R RFG LLL+LP+L+++ IE++ F +
Sbjct: 160 GLSDPGKIKRLRSQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQSITWQMIEQIQFIKL 219
Query: 264 IGDIPIQRLLGDMY 277
G I LL +M
Sbjct: 220 FGMAKIDNLLQEML 233
Score = 102 bits (255), Expect = 2e-25
Identities = 27/77 (35%), Positives = 41/77 (53%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ GL D ++ L+ Q Q L DY+ R RFG LLL+LP+L+++ IE++ F
Sbjct: 157 DAKGLSDPGKIKRLRSQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQSITWQMIEQIQF 216
Query: 344 KETIGDIPIQRLLGDMY 360
+ G I LL +M
Sbjct: 217 IKLFGMAKIDNLLQEML 233
>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 = 214 bits (547), Expect = 2e-68
Identities = 51/227 (22%), Positives = 86/227 (37%), Gaps = 5/227 (2%)
Query: 61 PSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQ 120
P + P + V W R F+ L DQ
Sbjct: 20 PEEDQVRARIVGCLQEPAKSRSDQPAPFSLLCRMADQTFISIVDWARRCMVFKELEVADQ 79
Query: 121 LLLLQESWKELFLLHLAQWSIPWD----LSLLINCEKARERLPPDDVRVNNE-IKLIQEI 175
+ LLQ SW EL +L + + + L+ E + + + + QE+
Sbjct: 80 MTLLQNSWSELLVLDHIYRQVQYGKEDSILLVTGQEVELSTVAVQAGSLLHSLVLRAQEL 139
Query: 176 LARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPT 235
+ + L D E C+K +ILF+ + L + V+ Q++A L DY Y
Sbjct: 140 VLQLHALQLDRQEFVCLKFLILFSLDVKFLNNHSLVKDAQEKANAALLDYTLSHYPHSGD 199
Query: 236 RFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKS 282
+F +LLL L +RA+ E L+ K ++P LL +M +++
Sbjct: 200 KFQQLLLSLVEVRALSMQAKEYLYHKHLGNEMPRNNLLIEMLQAKQT 246
Score = 106 bits (265), Expect = 8e-27
Identities = 22/82 (26%), Positives = 38/82 (46%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ L + V+ Q++A L DY Y +F +LLL L +RA+ E L+
Sbjct: 165 DVKFLNNHSLVKDAQEKANAALLDYTLSHYPHSGDKFQQLLLSLVEVRALSMQAKEYLYH 224
Query: 344 KETIGDIPIQRLLGDMYTMEKS 365
K ++P LL +M +++
Sbjct: 225 KHLGNEMPRNNLLIEMLQAKQT 246
>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 = 212 bits (541), Expect = 1e-67
Identities = 58/210 (27%), Positives = 108/210 (51%), Gaps = 1/210 (0%)
Query: 74 QPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFL 133
P + + + + T + LF V+W + + F +L DQ+ LL+ W EL +
Sbjct: 25 DPLVALVVNENNTTVNNICQATHKQLFQLVQWAKLVPHFTSLPLTDQVQLLRAGWNELLI 84
Query: 134 LHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNE-IKLIQEILARFRQLSPDGSECGCM 192
+ S+ ++++ + V V N +++ E++ + +++ D +E GC+
Sbjct: 85 AAFSHRSMQAQDAIVLATGLTVNKSTAHAVGVGNIYDRVLSELVNKMKEMKMDKTELGCL 144
Query: 193 KAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQ 252
+A+IL+ P+ G+ Q VEML+++ +L +Y R + +P RF +LLL LP+LR++
Sbjct: 145 RAIILYNPDVRGIKSVQEVEMLREKIYGVLEEYTRTTHPNEPGRFAKLLLRLPALRSIGL 204
Query: 253 STIERLFFKETIGDIPIQRLLGDMYTMEKS 282
+E LFF + IGD+PI L +M
Sbjct: 205 KCLEHLFFFKLIGDVPIDTFLMEMLEGTTD 234
Score = 102 bits (256), Expect = 1e-25
Identities = 30/82 (36%), Positives = 47/82 (57%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ G+ Q VEML+++ +L +Y R + +P RF +LLL LP+LR++ +E LFF
Sbjct: 153 DVRGIKSVQEVEMLREKIYGVLEEYTRTTHPNEPGRFAKLLLRLPALRSIGLKCLEHLFF 212
Query: 344 KETIGDIPIQRLLGDMYTMEKS 365
+ IGD+PI L +M
Sbjct: 213 FKLIGDVPIDTFLMEMLEGTTD 234
>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 = 208 bits (532), Expect = 4e-66
Identities = 64/233 (27%), Positives = 103/233 (44%), Gaps = 5/233 (2%)
Query: 55 LKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQT 114
LK P + Q + + L + + + LF V W R F+
Sbjct: 25 LKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARSSIFFRE 84
Query: 115 LSKRDQLLLLQESWKELFLLHLAQWSIPWDLS---LLINCEKARERLPPDDVR--VNNEI 169
L DQ+ LLQ W EL +L + L+ ++ + +NN +
Sbjct: 85 LKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLM 144
Query: 170 KLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGR 229
QE++A+ R L D E C+K ++LF+ + L + Q VE +Q+Q L DY
Sbjct: 145 SHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYTMCN 204
Query: 230 YSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKS 282
Y +Q +FG+LLL LP +RA+ E L++K GD+P LL +M +++
Sbjct: 205 YPQQTEKFGQLLLRLPEIRAISMQAEEYLYYKHLNGDVPYNNLLIEMLHAKRA 257
Score = 102 bits (256), Expect = 1e-25
Identities = 29/82 (35%), Positives = 45/82 (54%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ L + Q VE +Q+Q L DY Y +Q +FG+LLL LP +RA+ E L++
Sbjct: 176 DVKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEEYLYY 235
Query: 344 KETIGDIPIQRLLGDMYTMEKS 365
K GD+P LL +M +++
Sbjct: 236 KHLNGDVPYNNLLIEMLHAKRA 257
>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 = 206 bits (525), Expect = 3e-65
Identities = 89/234 (38%), Positives = 128/234 (54%), Gaps = 12/234 (5%)
Query: 55 LKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQT 114
L++ P P+ S P+ +M E E AR+LF AV W R + F
Sbjct: 16 LRAEPYPTSRFGS-----QCMQPNN-----IMGIENICELAARMLFSAVEWARNIPFFPD 65
Query: 115 LSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINC-EKARERLPPDDVRVNNE-IKLI 172
L DQ+ LL+ +W ELF+L+ AQ S+P ++ L+ + D V + I++
Sbjct: 66 LQITDQVALLRLTWSELFVLNAAQCSMPLHVAPLLAAAGLHASPMSADRVVAFMDHIRIF 125
Query: 173 QEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSR 232
QE + + + L D +E C+KA++LFT + GL D VE LQ+++QC L +YVR +Y
Sbjct: 126 QEQVEKLKALHVDSAEYSCLKAIVLFTSDACGLSDVAHVESLQEKSQCALEEYVRSQYPN 185
Query: 233 QPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKSYETP 286
QPTRFG+LLL LPSLR V S IE+LFF +G PI+ L+ DM S+ P
Sbjct: 186 QPTRFGKLLLRLPSLRTVSSSVIEQLFFVRLVGKTPIETLIRDMLLSGSSFNWP 239
Score = 100 bits (250), Expect = 9e-25
Identities = 42/85 (49%), Positives = 55/85 (64%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ + GL D VE LQ+++QC L +YVR +Y QPTRFG+LLL LPSLR V S IE+L
Sbjct: 152 TSDACGLSDVAHVESLQEKSQCALEEYVRSQYPNQPTRFGKLLLRLPSLRTVSSSVIEQL 211
Query: 342 FFKETIGDIPIQRLLGDMYTMEKSY 366
FF +G PI+ L+ DM S+
Sbjct: 212 FFVRLVGKTPIETLIRDMLLSGSSF 236
>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 = 205 bits (524), Expect = 5e-65
Identities = 55/251 (21%), Positives = 107/251 (42%), Gaps = 11/251 (4%)
Query: 30 SPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAE 89
SP+ L P + K P + L + P + P P L L
Sbjct: 3 SPEFLNPQLVQPAKKPYNKIVS-HLLVAEPEKIYAMPDP----TVPDSDIKALTTL---- 53
Query: 90 KCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLI 149
+ R L + + W + + F TLS DQ+ LLQ +W E+ +L + S+ ++ L+
Sbjct: 54 --CDLADRELVVIIGWAKHIPGFSTLSLADQMSLLQSAWMEILILGVVYRSLSFEDELVY 111
Query: 150 NCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQ 209
+ + + + I +++ +++ + + E +KA+ L ++ + D +
Sbjct: 112 ADDYIMDEDQSKLAGLLDLNNAILQLVKKYKSMKLEKEEFVTLKAIALANSDSMHIEDVE 171
Query: 210 PVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPI 269
V+ LQD L DY G++ P R G++L+ LP LR ++ + + G +P+
Sbjct: 172 AVQKLQDVLHEALQDYEAGQHMEDPRRAGKMLMTLPLLRQTSTKAVQHFYNIKLEGKVPM 231
Query: 270 QRLLGDMYTME 280
+L +M +
Sbjct: 232 HKLFLEMLEAK 242
Score = 96.7 bits (241), Expect = 2e-23
Identities = 21/80 (26%), Positives = 40/80 (50%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
++ + D + V+ LQD L DY G++ P R G++L+ LP LR ++ +
Sbjct: 163 DSMHIEDVEAVQKLQDVLHEALQDYEAGQHMEDPRRAGKMLMTLPLLRQTSTKAVQHFYN 222
Query: 344 KETIGDIPIQRLLGDMYTME 363
+ G +P+ +L +M +
Sbjct: 223 IKLEGKVPMHKLFLEMLEAK 242
>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 = 206 bits (527), Expect = 5e-65
Identities = 71/278 (25%), Positives = 116/278 (41%), Gaps = 28/278 (10%)
Query: 1 VQHERGPRKPKIHNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPP 60
VQ ER K + N S P +L P T Y + + P
Sbjct: 25 VQEERQRGKDRNENEVESTSSANEDMPVER--ILEAELAVE---PKTETYVEANMGLNPS 79
Query: 61 PSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQ 120
+ + + + LF V W + + F L DQ
Sbjct: 80 SPNDPVTNI----------------------CQAADKQLFTLVEWAKRIPHFSELPLDDQ 117
Query: 121 LLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNN-EIKLIQEILARF 179
++LL+ W EL + + SI +L+ R V +++ E++++
Sbjct: 118 VILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKM 177
Query: 180 RQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGR 239
R + D +E GC++A++LF P++ GL + VE L+++ L Y + +Y QP RF +
Sbjct: 178 RDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAK 237
Query: 240 LLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
LLL LP+LR++ +E LFF + IGD PI L +M
Sbjct: 238 LLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEML 275
Score = 97.9 bits (244), Expect = 1e-23
Identities = 30/77 (38%), Positives = 45/77 (58%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
++ GL + VE L+++ L Y + +Y QP RF +LLL LP+LR++ +E LFF
Sbjct: 199 DSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFF 258
Query: 344 KETIGDIPIQRLLGDMY 360
+ IGD PI L +M
Sbjct: 259 FKLIGDTPIDTFLMEML 275
>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 = 204 bits (521), Expect = 1e-64
Identities = 66/238 (27%), Positives = 106/238 (44%), Gaps = 10/238 (4%)
Query: 57 SPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLS 116
+ P P + ++ E+ +RLLF+++ W R + FQ L
Sbjct: 7 IIEVEGPLLSDTHVTFKLTMPSP--MPEYLNVHYICESASRLLFLSMHWARSIPAFQALG 64
Query: 117 KRDQLLLLQESWKELFLLHLAQWSIPWDLSLLI--------NCEKARERLPPDDVRVNNE 168
+ L++ W ELF L LAQ + LS ++ N + + +V
Sbjct: 65 QDCNTSLVRACWNELFTLGLAQCAQVMSLSTILAAIVNHLQNSIQEDKLSGDRIKQVMEH 124
Query: 169 IKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRG 228
I +QE +L DG E +KA++LF+P+ PGL +E Q+ AQ L DYV+
Sbjct: 125 IWKLQEFCNSMAKLDIDGYEYAYLKAIVLFSPDHPGLTSTSQIEKFQEAAQMELQDYVQA 184
Query: 229 RYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKSYETP 286
YS R R+L+ LP+LR + + E LFF IG++ I ++ + ME +
Sbjct: 185 TYSEDTYRLARILVRLPALRLMSSNITEELFFTGLIGNVSIDSIIPYILKMETAEYNG 242
Score = 97.7 bits (243), Expect = 9e-24
Identities = 30/84 (35%), Positives = 45/84 (53%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
S + PGL +E Q+ AQ L DYV+ YS R R+L+ LP+LR + + E L
Sbjct: 155 SPDHPGLTSTSQIEKFQEAAQMELQDYVQATYSEDTYRLARILVRLPALRLMSSNITEEL 214
Query: 342 FFKETIGDIPIQRLLGDMYTMEKS 365
FF IG++ I ++ + ME +
Sbjct: 215 FFTGLIGNVSIDSIIPYILKMETA 238
>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 = 203 bits (518), Expect = 3e-64
Identities = 61/221 (27%), Positives = 105/221 (47%), Gaps = 10/221 (4%)
Query: 58 PPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSK 117
P ++ +M P + + + + LF V W + + F L
Sbjct: 22 PKTETYVEANM---GLNPSSPNDPVTNI------CQAADKQLFTLVEWAKRIPHFSELPL 72
Query: 118 RDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEI-KLIQEIL 176
DQ++LL+ W EL + + SI +L+ R V +++ E++
Sbjct: 73 DDQVILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELV 132
Query: 177 ARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTR 236
++ R + D +E GC++A++LF P++ GL + VE L+++ L Y + +Y QP R
Sbjct: 133 SKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGR 192
Query: 237 FGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
F +LLL LP+LR++ +E LFF + IGD PI L +M
Sbjct: 193 FAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEML 233
Score = 98.3 bits (245), Expect = 4e-24
Identities = 30/77 (38%), Positives = 45/77 (58%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
++ GL + VE L+++ L Y + +Y QP RF +LLL LP+LR++ +E LFF
Sbjct: 157 DSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFF 216
Query: 344 KETIGDIPIQRLLGDMY 360
+ IGD PI L +M
Sbjct: 217 FKLIGDTPIDTFLMEML 233
>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 = 204 bits (520), Expect = 3e-64
Identities = 59/265 (22%), Positives = 103/265 (38%), Gaps = 25/265 (9%)
Query: 44 IPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAV 103
+ L L + P + ++ PP + L + + + V
Sbjct: 6 LSIERLLEMESLVADPSEEFQFLRVGPDSNVPPKFRAPVSSLC------QIGNKQIAALV 59
Query: 104 RWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPP--- 160
W R + F L DQ+LL++ SW EL L +A S+ + + R
Sbjct: 60 VWARDIPHFSQLEMEDQILLIKGSWNELLLFAIAWRSMEFLTEERDGVDGTGNRTTSPPQ 119
Query: 161 -----DDVRVNNE-----------IKLIQEILARFRQLSPDGSECGCMKAVILFTPETPG 204
+ ++ +++ E+ + R L D +E +KA+IL P+ G
Sbjct: 120 LMCLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDVKG 179
Query: 205 LVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETI 264
L + Q VE+L+++ L +Y R S + RF LLL LP+LR++ + E LFF +
Sbjct: 180 LKNRQEVEVLREKMFLCLDEYCRRSRSSEEGRFAALLLRLPALRSISLKSFEHLFFFHLV 239
Query: 265 GDIPIQRLLGDMYTMEKSYETPGLV 289
D I + D ++
Sbjct: 240 ADTSIAGYIRDALRNHAPPIDTNMM 264
Score = 101 bits (253), Expect = 5e-25
Identities = 26/80 (32%), Positives = 40/80 (50%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ GL + Q VE+L+++ L +Y R S + RF LLL LP+LR++ + E LFF
Sbjct: 176 DVKGLKNRQEVEVLREKMFLCLDEYCRRSRSSEEGRFAALLLRLPALRSISLKSFEHLFF 235
Query: 344 KETIGDIPIQRLLGDMYTME 363
+ D I + D
Sbjct: 236 FHLVADTSIAGYIRDALRNH 255
>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 = 203 bits (517), Expect = 6e-64
Identities = 55/243 (22%), Positives = 96/243 (39%), Gaps = 26/243 (10%)
Query: 60 PPSHHHPSMFLATHQPPPHPGLLQILMSAE---------------------KCQETTARL 98
SHHH Q P L+ L+ E + R
Sbjct: 2 GSSHHHHHHLEVLFQGPV-NALVSHLLVVEPEKLYAMPDPAGPDGHLPAVATLCDLFDRE 60
Query: 99 LFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERL 158
+ + + W + + F +LS DQ+ +LQ W E+ +L +AQ S+P L + +
Sbjct: 61 IVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLGVAQRSLPLQDELAFAEDLVLDEE 120
Query: 159 PPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQA 218
+ + +++ R + L + E +KA+ L ++ + DA+ VE L++
Sbjct: 121 GARAAGLGELGAALLQLVRRLQALRLEREEYVLLKALALANSDSVHIEDAEAVEQLREAL 180
Query: 219 QCILGDYVRGRY----SRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLG 274
L +Y GR + R GRLLL LP LR + + + G +P+ +L
Sbjct: 181 HEALLEYEAGRAGPGGGAERRRAGRLLLTLPLLRQTAGKVLAHFYGVKLEGKVPMHKLFL 240
Query: 275 DMY 277
+M
Sbjct: 241 EML 243
Score = 89.8 bits (223), Expect = 5e-21
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRY----SRQPTRFGRLLLMLPSLRAVRQSTIE 339
++ + DA+ VE L++ L +Y GR + R GRLLL LP LR +
Sbjct: 163 DSVHIEDAEAVEQLREALHEALLEYEAGRAGPGGGAERRRAGRLLLTLPLLRQTAGKVLA 222
Query: 340 RLFFKETIGDIPIQRLLGDMY 360
+ + G +P+ +L +M
Sbjct: 223 HFYGVKLEGKVPMHKLFLEML 243
>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 = 205 bits (523), Expect = 1e-63
Identities = 72/299 (24%), Positives = 111/299 (37%), Gaps = 36/299 (12%)
Query: 20 SKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHP 79
S + P H YP SP + T P P
Sbjct: 54 SPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYMDSYQTSSPASIP 113
Query: 80 GLLQILMSAE-------------------------------KCQETTARLLFMAVRWVRC 108
L+ L+ E + + LF V W R
Sbjct: 114 HLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKMADQTLFSIVEWARS 173
Query: 109 LAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWD----LSLLINCEKARERLPPDDVR 164
F+ L DQ+ LLQ W EL +L + + L+ + +
Sbjct: 174 SIFFRELKVDDQMKLLQNCWSELLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGA 233
Query: 165 -VNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILG 223
+NN + QE++A+ R L D E C+K ++LF+ + L + Q VE +Q+Q L
Sbjct: 234 TLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALL 293
Query: 224 DYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKS 282
DY Y +Q +FG+LLL LP +RA+ E L++K GD+P LL +M +++
Sbjct: 294 DYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEEYLYYKHLNGDVPYNNLLIEMLHAKRA 352
Score = 100 bits (250), Expect = 4e-24
Identities = 29/82 (35%), Positives = 45/82 (54%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ L + Q VE +Q+Q L DY Y +Q +FG+LLL LP +RA+ E L++
Sbjct: 271 DVKNLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEEYLYY 330
Query: 344 KETIGDIPIQRLLGDMYTMEKS 365
K GD+P LL +M +++
Sbjct: 331 KHLNGDVPYNNLLIEMLHAKRA 352
>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 = 200 bits (511), Expect = 4e-63
Identities = 55/241 (22%), Positives = 85/241 (35%), Gaps = 9/241 (3%)
Query: 50 YPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSA-------EKCQETTARLLFMA 102
+ P LLQ E + + LF
Sbjct: 3 HMLEDPLRVSPMIREFVQSIDDREWQTQLFALLQKQTYNQVEVDLFELMCKVLDQNLFSQ 62
Query: 103 VRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDL--SLLINCEKARERLPP 160
V W R F+ L DQ+ LLQ SW ++ +L I L +N + +
Sbjct: 63 VDWARNTVFFKDLKVDDQMKLLQHSWSDMLVLDHLHHRIHNGLPDETQLNNGQVFNLMSL 122
Query: 161 DDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQC 220
+ V E+ + + L D + CMK +IL P G+V+ + V D Q
Sbjct: 123 GLLGVPQLGDYFNELQNKLQDLKFDMGDYVCMKFLILLNPSVRGIVNRKTVSEGHDNVQA 182
Query: 221 ILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTME 280
L DY Y +F L+ +LP + A+ + L+ K G P Q LL +M +
Sbjct: 183 ALLDYTLTCYPSVNDKFRGLVNILPEIHAMAVRGEDHLYTKHCAGSAPTQTLLMEMLHAK 242
Query: 281 K 281
+
Sbjct: 243 R 243
Score = 98.3 bits (245), Expect = 4e-24
Identities = 22/83 (26%), Positives = 36/83 (43%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ G+V+ + V D Q L DY Y +F L+ +LP + A+ + L
Sbjct: 161 NPSVRGIVNRKTVSEGHDNVQAALLDYTLTCYPSVNDKFRGLVNILPEIHAMAVRGEDHL 220
Query: 342 FFKETIGDIPIQRLLGDMYTMEK 364
+ K G P Q LL +M ++
Sbjct: 221 YTKHCAGSAPTQTLLMEMLHAKR 243
>1hg4_A Ultraspiracle; nuclear hormone receptor, transcription factor,
ligand binding; HET: LPP; 2.4A {Drosophila melanogaster}
SCOP: a.123.1.1
Length = 279
Score = 190 bits (485), Expect = 8e-59
Identities = 46/254 (18%), Positives = 91/254 (35%), Gaps = 31/254 (12%)
Query: 55 LKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQT 114
++ + P + + + LF V + R + F
Sbjct: 19 QRAETQCGDRALTFLRVGPYSTVQPDYKGAV---SALCQVVNKQLFQMVEYARMMPHFAQ 75
Query: 115 LSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNE------ 168
+ DQ++LL+ +W EL + ++A SI R +
Sbjct: 76 VPLDDQVILLKAAWIELLIANVAWCSIVSLDDGGAGGGGGGLGHDGSFERRSPGLQPQQL 135
Query: 169 ----------------------IKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLV 206
+++ E+ + ++L+ D E C+KA+IL+ P+ G+
Sbjct: 136 FLNQSFSYHRNSAIKAGVSAIFDRILSELSVKMKRLNLDRRELSCLKAIILYNPDIRGIK 195
Query: 207 DAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGD 266
+EM +++ L ++ R + RF +LLL LP+LR++ + LF D
Sbjct: 196 SRAEIEMCREKVYACLDEHCRLEHPGDDGRFAQLLLRLPALRSISLKCQDHLFLFRITSD 255
Query: 267 IPIQRLLGDMYTME 280
P++ L +
Sbjct: 256 RPLEELFLEQLEAP 269
>3ltx_A Estrogen receptor; constitutive, nuclear receptor, DNA-binding,
metal-binding, nucleus, transcription, transcription
regulation, zinc-finger; 2.60A {Crassostrea gigas}
Length = 243
Score = 187 bits (478), Expect = 3e-58
Identities = 36/185 (19%), Positives = 69/185 (37%), Gaps = 1/185 (0%)
Query: 93 ETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINC- 151
+ R L + W + + + LS DQ+ L++ W EL LL+ A SI L
Sbjct: 43 KLAERELVHLINWAKNVPGYTDLSLSDQVHLIECCWMELLLLNCAFRSIEHGGKSLAFAP 102
Query: 152 EKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPV 211
+ +R V + + + + + Q E ++A++L E L +
Sbjct: 103 DLVLDRSSWSTVEMTEIFEQVAAVSEQMMQNHLHKDELLLLQAMVLVNAEVRRLASYNQI 162
Query: 212 EMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQR 271
+Q + D + + +LL+L +R + I ++ G +
Sbjct: 163 FNMQQSLLDAIVDTAQKYHPDNVRHVPAVLLLLTHIRQAGERGIAFFQRLKSEGVVTFCD 222
Query: 272 LLGDM 276
LL +M
Sbjct: 223 LLKEM 227
Score = 92.1 bits (229), Expect = 8e-22
Identities = 13/76 (17%), Positives = 26/76 (34%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
E L + +Q + D + + +LL+L +R + I
Sbjct: 152 EVRRLASYNQIFNMQQSLLDAIVDTAQKYHPDNVRHVPAVLLLLTHIRQAGERGIAFFQR 211
Query: 344 KETIGDIPIQRLLGDM 359
++ G + LL +M
Sbjct: 212 LKSEGVVTFCDLLKEM 227
>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 = 183 bits (466), Expect = 5e-56
Identities = 49/269 (18%), Positives = 95/269 (35%), Gaps = 14/269 (5%)
Query: 11 KIHNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFL 70
+++++ + L + P V+Y + L L
Sbjct: 10 HLYDSYIKSFPLTKAKARAILTG------KTTDKSPFVIYDMNSLMMGEDKIKFKHITPL 63
Query: 71 ATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKE 130
+ Q CQ + + + + + F L DQ+ LL+ E
Sbjct: 64 QEQSKEVAIRIFQG------CQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHE 117
Query: 131 LFLLHLAQWSIPWDLSLLIN-CEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSEC 189
+ LA + + RE L + ++ E +F L D S+
Sbjct: 118 IIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDL 177
Query: 190 GCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRA 249
AVI+ + + PGL++ +P+E +QD L ++ + F +LL + LR
Sbjct: 178 AIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQ 237
Query: 250 VRQSTIERLF-FKETIGDIPIQRLLGDMY 277
+ ++ L K+T D+ + LL ++Y
Sbjct: 238 IVTEHVQLLQVIKKTETDMSLHPLLQEIY 266
Score = 89.1 bits (221), Expect = 2e-20
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLF- 342
+ PGL++ +P+E +QD L ++ + F +LL + LR + ++ L
Sbjct: 189 DRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQV 248
Query: 343 FKETIGDIPIQRLLGDMY 360
K+T D+ + LL ++Y
Sbjct: 249 IKKTETDMSLHPLLQEIY 266
>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 = 181 bits (461), Expect = 3e-55
Identities = 47/206 (22%), Positives = 85/206 (41%), Gaps = 4/206 (1%)
Query: 74 QPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFL 133
P + ++ + + + W + F L K DQ LL + ++ ELF+
Sbjct: 62 ANPDYQMSGDDTQHIQQFYDLLTGSMEIIRGWAEKIPGFADLPKADQDLLFESAFLELFV 121
Query: 134 LHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMK 193
L LA S P + L+ RL I I E + + ++ D S C+
Sbjct: 122 LRLAYRSNPVEGKLIFCNGVVLHRLQCVRG-FGEWIDSIVEFSSNLQNMNIDISAFSCIA 180
Query: 194 AVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRY--SRQPTRFGRLLLMLPSLRAVR 251
A+ + E GL + + VE LQ++ L D+V +P +LL LP LR +
Sbjct: 181 ALAMV-TERHGLKEPKRVEELQNKIVNCLKDHVTFNNGGLNRPNYLSKLLGKLPELRTLC 239
Query: 252 QSTIERLFFKETIGDIPIQRLLGDMY 277
++R+F+ + +P ++ ++
Sbjct: 240 TQGLQRIFYLKLEDLVPPPAIIDKLF 265
Score = 89.0 bits (221), Expect = 1e-20
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRY--SRQPTRFGRLLLMLPSLRAVRQSTIERL 341
E GL + + VE LQ++ L D+V +P +LL LP LR + ++R+
Sbjct: 187 ERHGLKEPKRVEELQNKIVNCLKDHVTFNNGGLNRPNYLSKLLGKLPELRTLCTQGLQRI 246
Query: 342 FFKETIGDIPIQRLLGDMY 360
F+ + +P ++ ++
Sbjct: 247 FYLKLEDLVPPPAIIDKLF 265
>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 = 177 bits (449), Expect = 1e-53
Identities = 54/253 (21%), Positives = 95/253 (37%), Gaps = 28/253 (11%)
Query: 52 PSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQI--LMSAEKCQETTARLLFMAVRWVRCL 109
SG + P PG+ ++ L + E + L +R+V+ L
Sbjct: 11 ASGTPVSADQTPATPQEQPRAPWWDASPGVQRLITLKDPQVVCEAASAGLLKTLRFVKYL 70
Query: 110 APFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNN-- 167
FQ L QL+L++ W L +L LAQ + +++ + +E L
Sbjct: 71 PCFQILPLDQQLVLVRSCWAPLLMLELAQDHLHFEMMEIPETNTTQEMLTTRRQETEGPE 130
Query: 168 ------------------------EIKLIQEILARFRQLSPDGSECGCMKAVILFTPETP 203
++ I+ + L+ D E +K +LF P+ P
Sbjct: 131 PAEPQATEQPQMVSAEAGHLLPAAAVQAIKSFFFKCWSLNIDTKEYAYLKGTVLFNPDLP 190
Query: 204 GLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKET 263
GL + +E LQ + Q IL +++R R L L LR + + LFF+
Sbjct: 191 GLQCVKYIEGLQWRTQQILTEHIRMMQREYQIRSAELNSALFLLRFINSDVVTELFFRPI 250
Query: 264 IGDIPIQRLLGDM 276
IG + + ++ +M
Sbjct: 251 IGAVSMDDMMLEM 263
>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 = 179 bits (456), Expect = 5e-53
Identities = 52/295 (17%), Positives = 101/295 (34%), Gaps = 19/295 (6%)
Query: 1 VQHERGPRKPKIHNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPP 60
++ R P+ K S ++ NP S DL + + ++
Sbjct: 122 IRFGRMPQAEKEKLLAEISSDIDQLNPE-SADLRALAKHLYDSYIKSFPLTKAKARAILT 180
Query: 61 PSHHHPSMFLATHQPPPHPGLLQILMSA----------------EKCQETTARLLFMAVR 104
S F+ G +I + CQ + +
Sbjct: 181 GKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITE 240
Query: 105 WVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVR 164
+ + + F L DQ+ LL+ E+ LA + + +
Sbjct: 241 YAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRK 300
Query: 165 VNNE-IKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILG 223
+ ++ E +F L D S+ AVI+ + + PGL++ +P+E +QD L
Sbjct: 301 PFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALE 360
Query: 224 DYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLF-FKETIGDIPIQRLLGDMY 277
++ + F +LL + LR + ++ L K+T D+ + LL ++Y
Sbjct: 361 LQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETDMSLHPLLQEIY 415
Score = 86.3 bits (213), Expect = 8e-19
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLF- 342
+ PGL++ +P+E +QD L ++ + F +LL + LR + ++ L
Sbjct: 338 DRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQV 397
Query: 343 FKETIGDIPIQRLLGDMY 360
K+T D+ + LL ++Y
Sbjct: 398 IKKTETDMSLHPLLQEIY 415
>2ocf_A Estrogen receptor; estrogen receptor, LBD, monobody, estradiol,
hormone-growth complex; HET: CME EST; 2.95A {Homo
sapiens}
Length = 298
Score = 172 bits (437), Expect = 2e-51
Identities = 49/240 (20%), Positives = 91/240 (37%), Gaps = 18/240 (7%)
Query: 74 QPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFL 133
+P ++ +L R L + W + + F L+ DQ+ LL+ +W E+ +
Sbjct: 38 RPFSEASMMGLLT------NLADRELVHMINWAKRVPGFVDLTLHDQVHLLECAWLEILM 91
Query: 134 LHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEI-KLIQEILARFRQLSPDGSECGCM 192
+ L S+ LL +R V EI ++ +RFR ++ G E C+
Sbjct: 92 IGLVWRSMEHPGKLLFAPNLLLDRNQGKCVEGMVEIFDMLLATSSRFRMMNLQGEEFVCL 151
Query: 193 KAVILFTP--------ETPGLVDAQPVEMLQDQAQCILGDYV---RGRYSRQPTRFGRLL 241
K++IL L + + + D+ L + +Q R +LL
Sbjct: 152 KSIILLNSGVYTFLSSTLKSLEEKDHIHRVLDKITDTLIHLMAKAGLTLQQQHQRLAQLL 211
Query: 242 LMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKSYETPGLVDAQPVEMLQDQA 301
L+L +R + +E L+ + +P+ LL +M + + A E Q
Sbjct: 212 LILSHIRHMSNKGMEHLYSMKCKNVVPLSDLLLEMLDAHRLHAPTSRGGASVEETDQSHL 271
Score = 79.5 bits (196), Expect = 5e-17
Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 3/81 (3%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYV---RGRYSRQPTRFGRLLLMLPSLRAVRQSTI 338
S L + + + D+ L + +Q R +LLL+L +R + +
Sbjct: 166 SSTLKSLEEKDHIHRVLDKITDTLIHLMAKAGLTLQQQHQRLAQLLLILSHIRHMSNKGM 225
Query: 339 ERLFFKETIGDIPIQRLLGDM 359
E L+ + +P+ LL +M
Sbjct: 226 EHLYSMKCKNVVPLSDLLLEM 246
>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 = 167 bits (424), Expect = 4e-50
Identities = 45/195 (23%), Positives = 75/195 (38%), Gaps = 11/195 (5%)
Query: 93 ETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCE 152
+ + L + W + + F LS DQ+ LL+ W E+ ++ L SI L+ +
Sbjct: 40 KLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSIDHPGKLIFAPD 99
Query: 153 KARERLPPDDVRVNNEI-KLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPV 211
+R V EI ++ +RFR+L E C+KA+IL LV A
Sbjct: 100 LVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMYPLVTATQD 159
Query: 212 EMLQDQAQCILGDYV----------RGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFK 261
+ +L +Q R LL++L +R +E L
Sbjct: 160 ADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVRHASNKGMEHLLNM 219
Query: 262 ETIGDIPIQRLLGDM 276
+ +P+ LL +M
Sbjct: 220 KCKNVVPVYDLLLEM 234
Score = 67.9 bits (166), Expect = 3e-13
Identities = 16/86 (18%), Positives = 27/86 (31%), Gaps = 10/86 (11%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYV----------RGRYSRQPTRFGRLLLMLPSLRAV 333
LV A + +L +Q R LL++L +R
Sbjct: 149 SMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVRHA 208
Query: 334 RQSTIERLFFKETIGDIPIQRLLGDM 359
+E L + +P+ LL +M
Sbjct: 209 SNKGMEHLLNMKCKNVVPVYDLLLEM 234
>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 = 166 bits (422), Expect = 8e-50
Identities = 45/215 (20%), Positives = 85/215 (39%), Gaps = 18/215 (8%)
Query: 74 QPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFL 133
+P ++ +L R L + W + + F L+ DQ+ LL+ +W E+ +
Sbjct: 29 RPFSEASMMGLLT------NLADRELVHMINWAKRVPGFVDLTLHDQVHLLECAWLEILM 82
Query: 134 LHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNE-IKLIQEILARFRQLSPDGSECGCM 192
+ L S+ LL +R V E ++ +RFR ++ G E C+
Sbjct: 83 IGLVWRSMEHPGKLLFAPNLLLDRNQGKCVEGMVEIFDMLLATSSRFRMMNLQGEEFVCL 142
Query: 193 KAVILFTP--------ETPGLVDAQPVEMLQDQAQCILGDYV---RGRYSRQPTRFGRLL 241
K++IL L + + + D+ L + +Q R +LL
Sbjct: 143 KSIILLNSGVYTFLSSTLKSLEEKDHIHRVLDKITDTLIHLMAKAGLTLQQQHQRLAQLL 202
Query: 242 LMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDM 276
L+L +R + +E L+ + +P+ LL +M
Sbjct: 203 LILSHIRHMSNKGMEHLYSMKCKNVVPLYDLLLEM 237
Score = 78.3 bits (193), Expect = 6e-17
Identities = 19/91 (20%), Positives = 35/91 (38%), Gaps = 3/91 (3%)
Query: 272 LLGDMYTMEKSYETPGLVDAQPVEMLQDQAQCILGDYV---RGRYSRQPTRFGRLLLMLP 328
LL S L + + + D+ L + +Q R +LLL+L
Sbjct: 147 LLNSGVYTFLSSTLKSLEEKDHIHRVLDKITDTLIHLMAKAGLTLQQQHQRLAQLLLILS 206
Query: 329 SLRAVRQSTIERLFFKETIGDIPIQRLLGDM 359
+R + +E L+ + +P+ LL +M
Sbjct: 207 HIRHMSNKGMEHLYSMKCKNVVPLYDLLLEM 237
>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 = 166 bits (422), Expect = 1e-49
Identities = 61/275 (22%), Positives = 108/275 (39%), Gaps = 18/275 (6%)
Query: 13 HNAHHQDSKLEPHNPH-HSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLA 71
H+ HH S L P H PD P N ++S+ +++ + + +
Sbjct: 4 HHHHHHSSGLVPRGSHMQPPDASPTNLLTSL------------IRAHLDSGPNTAKLDYS 51
Query: 72 THQPPPHPGLLQI-LMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKE 130
Q P + ++ + + L + +W + F LS DQ LLL+ ++ E
Sbjct: 52 KFQELVLPRFGKEDAGDVQQFYDLLSGSLDVIRKWAEKIPGFIELSPGDQDLLLESAFLE 111
Query: 131 LFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECG 190
LF+L LA S P + L+ RL + I I L D
Sbjct: 112 LFILRLAYRSKPGEGKLIFCSGLVLHRLQCAR-GFGDWIDNILAFSRSLHSLGVDVPAFA 170
Query: 191 CMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSR--QPTRFGRLLLMLPSLR 248
C+ A++L + GL D + VE LQ++ L +++ + RLL LP LR
Sbjct: 171 CLSALVLI-TDRHGLQDPRRVEELQNRIASCLKEHMAAVAGDPQPASCLSRLLGKLPELR 229
Query: 249 AVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKSY 283
+ ++R+F + +P ++ ++ S+
Sbjct: 230 TLCTQGLQRIFCLKLEDLVPPPPIVDKIFMDTLSF 264
Score = 85.6 bits (212), Expect = 2e-19
Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 2/85 (2%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSR--QPTRFGRLLLMLPSLRAVRQSTIERL 341
+ GL D + VE LQ++ L +++ + RLL LP LR + ++R+
Sbjct: 180 DRHGLQDPRRVEELQNRIASCLKEHMAAVAGDPQPASCLSRLLGKLPELRTLCTQGLQRI 239
Query: 342 FFKETIGDIPIQRLLGDMYTMEKSY 366
F + +P ++ ++ S+
Sbjct: 240 FCLKLEDLVPPPPIVDKIFMDTLSF 264
>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 = 158 bits (401), Expect = 2e-46
Identities = 44/251 (17%), Positives = 85/251 (33%), Gaps = 31/251 (12%)
Query: 51 PPSGLKSPPPPSHHHPSMFLATH----------------QPPPHPGLLQILMSAEKCQET 94
SG + QP LL L E
Sbjct: 4 GISGGGGGSHIEGYECQPIFLNVLEAIEPGVVCAGHDNNQPDSFAALLSSLN------EL 57
Query: 95 TARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLIN--CE 152
R L V+W + L F+ L DQ+ ++Q SW L + + S S ++ +
Sbjct: 58 GERQLVHVVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPD 117
Query: 153 KARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFT-PETPGLVDAQPV 211
R+ ++ ++ + F L E CMKA++LF+ GL + +
Sbjct: 118 LVFNEYRMHKSRMYSQCVRMRHLSQEFGWLQITPQEFLCMKALLLFSIIPVDGLKNQKFF 177
Query: 212 EMLQDQAQCILGDYVRGRY---SRQPTRFGRLLLMLPSLRAVRQSTIERLF---FKETIG 265
+ L+ L + + + RF +L +L S++ + + + F K +
Sbjct: 178 DELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIARELHQFTFDLLIKSHMV 237
Query: 266 DIPIQRLLGDM 276
+ ++ ++
Sbjct: 238 SVDFPEMMAEI 248
Score = 73.8 bits (181), Expect = 4e-15
Identities = 11/84 (13%), Positives = 31/84 (36%), Gaps = 6/84 (7%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRY---SRQPTRFGRLLLMLPSLRAVRQSTI 338
GL + + + L+ L + + + RF +L +L S++ + +
Sbjct: 165 IIPVDGLKNQKFFDELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIARELH 224
Query: 339 ERLF---FKETIGDIPIQRLLGDM 359
+ F K + + ++ ++
Sbjct: 225 QFTFDLLIKSHMVSVDFPEMMAEI 248
>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 = 157 bits (399), Expect = 7e-46
Identities = 56/257 (21%), Positives = 95/257 (36%), Gaps = 20/257 (7%)
Query: 40 SSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQ--------------PPPHPGLLQIL 85
+ +PP PP L P +A Q P P
Sbjct: 24 HATSLPPRASSPPQILPQLSPEQLGMIEKLVAAQQQCNRRSFSDRLRVTPWPMAPDPHSR 83
Query: 86 MSAEK----CQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSI 141
+ ++ E + V + + L F LS+ DQ+ LL+ S E+ LL ++
Sbjct: 84 EARQQRFAHFTELAIVSVQEIVDFAKQLPGFLQLSREDQIALLKTSAIEVMLLETSRRYN 143
Query: 142 PWDLSLLINCEKARERLPPDDVRVNNE-IKLIQEILARFRQLSPDGSECGCMKAVILFTP 200
P S+ + + R + E I I E +L + +E + A+ +F+
Sbjct: 144 PGSESITFLKDFSYNREDFAKAGLQVEFINPIFEFSRAMNELQLNDAEFALLIAISIFSA 203
Query: 201 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 260
+ P + D VE LQ L YV + F R+L+ L SLR + E++F
Sbjct: 204 DRPNVQDQLQVERLQHTYVEALHAYVSIHHPHDRLMFPRMLMKLVSLRTLSSVHSEQVFA 263
Query: 261 KETIGDIPIQRLLGDMY 277
+ D + LL +++
Sbjct: 264 L-RLQDKKLPPLLSEIW 279
Score = 74.4 bits (183), Expect = 3e-15
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
S + P + D VE LQ L YV + F R+L+ L SLR + E++
Sbjct: 202 SADRPNVQDQLQVERLQHTYVEALHAYVSIHHPHDRLMFPRMLMKLVSLRTLSSVHSEQV 261
Query: 342 FFKETIGDIPIQRLLGDMY 360
F + D + LL +++
Sbjct: 262 FAL-RLQDKKLPPLLSEIW 279
>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 = 161 bits (409), Expect = 1e-45
Identities = 69/278 (24%), Positives = 122/278 (43%), Gaps = 28/278 (10%)
Query: 1 VQHERGPRKPKIHNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPP 60
VQ ER K + ++ E + + + +P I + P
Sbjct: 210 VQEERQRGKDR--------NENEVESTSSANEDMPVERI------------LEAELAVEP 249
Query: 61 PSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQ 120
+ + + + P+ + I + + LF V W + + F L DQ
Sbjct: 250 KTETYVEANMGLNPSSPNDPVTNI-------CQAADKQLFTLVEWAKRIPHFSELPLDDQ 302
Query: 121 LLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNE-IKLIQEILARF 179
++LL+ W EL + + SI +L+ R V +++ E++++
Sbjct: 303 VILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKM 362
Query: 180 RQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGR 239
R + D +E GC++A++LF P++ GL + VE L+++ L Y + +Y QP RF +
Sbjct: 363 RDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAK 422
Query: 240 LLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
LLL LP+LR++ +E LFF + IGD PI L +M
Sbjct: 423 LLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEML 460
Score = 78.6 bits (193), Expect = 3e-16
Identities = 30/77 (38%), Positives = 45/77 (58%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
++ GL + VE L+++ L Y + +Y QP RF +LLL LP+LR++ +E LFF
Sbjct: 384 DSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFF 443
Query: 344 KETIGDIPIQRLLGDMY 360
+ IGD PI L +M
Sbjct: 444 FKLIGDTPIDTFLMEML 460
Score = 28.9 bits (64), Expect = 3.1
Identities = 18/84 (21%), Positives = 24/84 (28%), Gaps = 17/84 (20%)
Query: 13 HNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIP------------PTVLYPPSGLKSPP- 59
H+ HH D + + + L P G S+ P P L+ P S P
Sbjct: 4 HHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLSSPI 63
Query: 60 ----PPSHHHPSMFLATHQPPPHP 79
PP S P
Sbjct: 64 NGMGPPFSVISSPMGPHSMSVPTT 87
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 155 bits (393), Expect = 2e-45
Identities = 48/238 (20%), Positives = 91/238 (38%), Gaps = 5/238 (2%)
Query: 25 HNPHHSPDLLPPNGISSVKI--PPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLL 82
H+ HH P+ + IS V Y L S P + + + +
Sbjct: 5 HHHHHGPEPTVEDVISQVARAHREIFTYAHDKLGSSPGNFNANHASGSPYPHGRSGRTVQ 64
Query: 83 QILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIP 142
+I E + + V + + + F+ LS+ DQ+ LL+ E+ ++ A
Sbjct: 65 EIW---EDFSMSFTPAVREVVEFAKHIPGFRDLSQHDQVTLLKAGTFEVLMVRFASLFNV 121
Query: 143 WDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPET 202
D +++ + + + + + + + L+ E G AV+L + +
Sbjct: 122 KDQTVMFLSRTTYSLQELGAMGMGDLLSAMFDFSEKLNSLALTEEELGLFTAVVLVSADR 181
Query: 203 PGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 260
G+ ++ VE LQ+ L V + +RF +LLL LP LR + E+L
Sbjct: 182 SGMENSASVEQLQETLLRALRALVLKNRPLETSRFTKLLLKLPDLRTLNNMHSEKLLS 239
Score = 66.4 bits (162), Expect = 8e-13
Identities = 19/62 (30%), Positives = 29/62 (46%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
S + G+ ++ VE LQ+ L V + +RF +LLL LP LR + E+L
Sbjct: 178 SADRSGMENSASVEQLQETLLRALRALVLKNRPLETSRFTKLLLKLPDLRTLNNMHSEKL 237
Query: 342 FF 343
Sbjct: 238 LS 239
>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 = 155 bits (393), Expect = 2e-45
Identities = 40/215 (18%), Positives = 88/215 (40%), Gaps = 6/215 (2%)
Query: 66 PSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQ 125
P+ HQP P +L + ++ +++ + L F++L DQ+ LL+
Sbjct: 36 PAHLFIHHQPLPTLA--PVLPLVTHFADINTFMVLQVIKFTKDLPVFRSLPIEDQISLLK 93
Query: 126 ESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPD 185
+ E+ + L + L + ++L+ R+L
Sbjct: 94 GAAVEICHIVLNTTFCLQTQNFLCGPLRYTIEDGARVGFQVEFLELLFHFHGTLRKLQLQ 153
Query: 186 GSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRY--SRQPTRFGRLLLM 243
E + A+ LF+P+ PG+ ++ LQ++ L Y++G+ R + +LL +
Sbjct: 154 EPEYVLLAAMALFSPDRPGVTQRDEIDQLQEEMALTLQSYIKGQQRRPRDRFLYAKLLGL 213
Query: 244 LPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYT 278
L LR++ ++ ++ + G + LL ++ +
Sbjct: 214 LAELRSINEAYGYQIQHIQ--GLSAMMPLLQEICS 246
Score = 70.8 bits (174), Expect = 2e-14
Identities = 16/80 (20%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRY--SRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ PG+ ++ LQ++ L Y++G+ R + +LL +L LR++ ++ ++
Sbjct: 169 DRPGVTQRDEIDQLQEEMALTLQSYIKGQQRRPRDRFLYAKLLGLLAELRSINEAYGYQI 228
Query: 342 FFKETIGDIPIQRLLGDMYT 361
+ G + LL ++ +
Sbjct: 229 QHIQ--GLSAMMPLLQEICS 246
>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 = 154 bits (392), Expect = 2e-45
Identities = 43/223 (19%), Positives = 81/223 (36%), Gaps = 4/223 (1%)
Query: 55 LKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQT 114
++ P ++ L +K E + + V + + L F
Sbjct: 17 QETFPSLCQLGKYTTNSSADHRVQLDLGLW----DKFSELATKCIIKIVEFAKRLPGFTG 72
Query: 115 LSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQE 174
LS DQ+ LL+ + ++ +L + P ++ + R + L+
Sbjct: 73 LSIADQITLLKAACLDILMLRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFA 132
Query: 175 ILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP 234
+ L D +E G + A+ L + L + + V+ LQ+ L Y R R QP
Sbjct: 133 FAGQLLPLEMDDTETGLLSAICLICGDRMDLEEPEKVDKLQEPLLEALRLYARRRRPSQP 192
Query: 235 TRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
F R+L+ + LR + ER + P+ L+ +M
Sbjct: 193 YMFPRMLMKITDLRGISTKGAERAITLKMEIPGPMPPLIREML 235
Score = 76.6 bits (189), Expect = 2e-16
Identities = 20/79 (25%), Positives = 33/79 (41%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ L + + V+ LQ+ L Y R R QP F R+L+ + LR + ER
Sbjct: 157 CGDRMDLEEPEKVDKLQEPLLEALRLYARRRRPSQPYMFPRMLMKITDLRGISTKGAERA 216
Query: 342 FFKETIGDIPIQRLLGDMY 360
+ P+ L+ +M
Sbjct: 217 ITLKMEIPGPMPPLIREML 235
>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 = 152 bits (386), Expect = 3e-44
Identities = 51/265 (19%), Positives = 99/265 (37%), Gaps = 9/265 (3%)
Query: 25 HNPHHSPDLLPPNGISSVKIPPTVLYPPSGL-----KSPPPPSHHHPSMFLATHQPPPHP 79
H+ HHS L+P S + P V + ++ P T
Sbjct: 6 HHHHHSSGLVPRGSHESYTLTPEVGELIEKVRKAHQETFPALCQLGKY----TTNNSSEQ 61
Query: 80 GLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQW 139
+ + +K E + + + V + + L F TL+ DQ+ LL+ + ++ +L +
Sbjct: 62 RVSLDIDLWDKFSELSTKCIIKTVEFAKQLPGFTTLTIADQITLLKAACLDILILRICTR 121
Query: 140 SIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFT 199
P ++ + R + L+ + L D +E G + A+ L
Sbjct: 122 YTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSAICLIC 181
Query: 200 PETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLF 259
+ L V+MLQ+ L YVR R +P F ++L+ + LR++ ER+
Sbjct: 182 GDRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVI 241
Query: 260 FKETIGDIPIQRLLGDMYTMEKSYE 284
+ + L+ +M + +
Sbjct: 242 TLKMEIPGSMPPLIQEMLENSEGLD 266
Score = 74.4 bits (183), Expect = 2e-15
Identities = 19/77 (24%), Positives = 34/77 (44%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ L V+MLQ+ L YVR R +P F ++L+ + LR++ ER+
Sbjct: 183 DRQDLEQPDRVDMLQEPLLEALKVYVRKRRPSRPHMFPKMLMKITDLRSISAKGAERVIT 242
Query: 344 KETIGDIPIQRLLGDMY 360
+ + L+ +M
Sbjct: 243 LKMEIPGSMPPLIQEML 259
>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 = 152 bits (385), Expect = 5e-44
Identities = 45/206 (21%), Positives = 75/206 (36%), Gaps = 11/206 (5%)
Query: 93 ETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCE 152
+ + L + W + + F LS DQ+ LL+ W E+ ++ L SI L+ +
Sbjct: 38 KLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWRSIDHPGKLIFAPD 97
Query: 153 KARERLPPDDVRVNNEI-KLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPV 211
+R V EI ++ +RFR+L E C+KA+IL LV A
Sbjct: 98 LVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMYPLVTATQD 157
Query: 212 EMLQDQAQCILGDYV----------RGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFK 261
+ +L +Q R LL++L +R +E L
Sbjct: 158 ADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVRHASNKGMEHLLNM 217
Query: 262 ETIGDIPIQRLLGDMYTMEKSYETPG 287
+ +P+ LL +M
Sbjct: 218 KCKNVVPVYDLLLEMLNAHVLRGCKS 243
Score = 63.8 bits (155), Expect = 9e-12
Identities = 16/88 (18%), Positives = 28/88 (31%), Gaps = 10/88 (11%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYV----------RGRYSRQPTRFGRLLLMLPSLR 331
+ LV A + +L +Q R LL++L +R
Sbjct: 145 NSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVR 204
Query: 332 AVRQSTIERLFFKETIGDIPIQRLLGDM 359
+E L + +P+ LL +M
Sbjct: 205 HASNKGMEHLLNMKCKNVVPVYDLLLEM 232
>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 = 149 bits (378), Expect = 7e-44
Identities = 34/172 (19%), Positives = 68/172 (39%)
Query: 89 EKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLL 148
E+ + + V + + + F+ LS+ DQ+ LL+ E+ ++ A + ++
Sbjct: 23 EEFSMSFTPAVKEVVEFAKRIPGFRDLSQHDQVNLLKAGTFEVLMVRFASLFDAKERTVT 82
Query: 149 INCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDA 208
K + + + + E + L E AV+L + + G+ +
Sbjct: 83 FLSGKKYSVDDLHSMGAGDLLNSMFEFSEKLNALQLSDEEMSLFTAVVLVSADRSGIENV 142
Query: 209 QPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 260
VE LQ+ L + + + + F +LLL LP LR++ E L
Sbjct: 143 NSVEALQETLIRALRTLIMKNHPNEASIFTKLLLKLPDLRSLNNMHSEELLA 194
Score = 66.6 bits (163), Expect = 3e-13
Identities = 17/62 (27%), Positives = 28/62 (45%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
S + G+ + VE LQ+ L + + + + F +LLL LP LR++ E L
Sbjct: 133 SADRSGIENVNSVEALQETLIRALRTLIMKNHPNEASIFTKLLLKLPDLRSLNNMHSEEL 192
Query: 342 FF 343
Sbjct: 193 LA 194
>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 = 151 bits (382), Expect = 1e-43
Identities = 58/269 (21%), Positives = 95/269 (35%), Gaps = 28/269 (10%)
Query: 25 HNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKS-----PPPPSHHHPSMFLATHQPPPHP 79
H+ HH L P G ++ L P + + PP PS P
Sbjct: 5 HHHHHHSSGLVPRGSHMRELLLDALSPEQLVLTLLEAEPPHVLISRPSA------PFTEA 58
Query: 80 GLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQW 139
++ L + + L + W + + F LS DQ+ LL+ W E+ ++ L
Sbjct: 59 SMMMSLT------KLADKELVHMISWAKKIPGFVELSLFDQVRLLESCWMEVLMMGLMWR 112
Query: 140 SIPWDLSLLINCEKARERLPPDDVRVNNE-IKLIQEILARFRQLSPDGSECGCMKAVILF 198
SI L+ + +R V E ++ +RFR+L E C+KA+IL
Sbjct: 113 SIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILL 172
Query: 199 TPETPGLVDAQPVEMLQDQAQCIL----------GDYVRGRYSRQPTRFGRLLLMLPSLR 248
LV A + +L +Q R LL++L +R
Sbjct: 173 NSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVR 232
Query: 249 AVRQSTIERLFFKETIGDIPIQRLLGDMY 277
+E L + +P+ LL +M
Sbjct: 233 HASNKGMEHLLNMKCKNVVPVYDLLLEML 261
Score = 63.1 bits (153), Expect = 1e-11
Identities = 16/89 (17%), Positives = 28/89 (31%), Gaps = 10/89 (11%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCIL----------GDYVRGRYSRQPTRFGRLLLMLPSLR 331
+ LV A + +L +Q R LL++L +R
Sbjct: 173 NSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVIAKSGISSQQQSMRLANLLMLLSHVR 232
Query: 332 AVRQSTIERLFFKETIGDIPIQRLLGDMY 360
+E L + +P+ LL +M
Sbjct: 233 HASNKGMEHLLNMKCKNVVPVYDLLLEML 261
>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 = 149 bits (379), Expect = 2e-43
Identities = 56/236 (23%), Positives = 88/236 (37%), Gaps = 20/236 (8%)
Query: 60 PPSHHHPSMFLATH------QPPPHPGLLQILMSAEK----------CQETTARLLFMAV 103
HHH ++ L T P P L E+ + + +
Sbjct: 5 HHHHHHGAISLITALVRSHVDTTPDPSCLDYSHYEEQSMSEADKVQQFYQLLTSSVDVIK 64
Query: 104 RWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDV 163
++ + + L DQ LL Q + ELF+L LA + D L+ R
Sbjct: 65 QFAEKIPGYFDLLPEDQELLFQSASLELFVLRLAYRARIDDTKLIFCNGTVLHR-TQCLR 123
Query: 164 RVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILG 223
+ I E L D S C+ A+ L E GL + + VE LQ + L
Sbjct: 124 SFGEWLNDIMEFSRSLHNLEIDISAFACLCALTLI-TERHGLREPKKVEQLQMKIIGSLR 182
Query: 224 DYVRGRYSRQP--TRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
D+V Q F RLL LP LR++ ++R+F+ + +P L+ +M+
Sbjct: 183 DHVTYNAEAQKKQHYFSRLLGKLPELRSLSVQGLQRIFYLKLEDLVPAPALIENMF 238
Score = 79.3 bits (196), Expect = 3e-17
Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP--TRFGRLLLMLPSLRAVRQSTIERL 341
E GL + + VE LQ + L D+V Q F RLL LP LR++ ++R+
Sbjct: 160 ERHGLREPKKVEQLQMKIIGSLRDHVTYNAEAQKKQHYFSRLLGKLPELRSLSVQGLQRI 219
Query: 342 FFKETIGDIPIQRLLGDMY 360
F+ + +P L+ +M+
Sbjct: 220 FYLKLEDLVPAPALIENMF 238
>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 = 151 bits (382), Expect = 3e-43
Identities = 39/248 (15%), Positives = 97/248 (39%), Gaps = 6/248 (2%)
Query: 40 SSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLL 99
S + + P + + S+ + L + + +
Sbjct: 56 LSDASSDSFNHSPESVDTKLNFSNLLMMYQDSGSPDSSEEDQQSRLSMLPHLADLVSYSI 115
Query: 100 FMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLP 159
+ + + + F+ L+ DQ+ LL+ S E+ +L Q D+S +
Sbjct: 116 QKVIGFAKMIPGFRDLTAEDQIALLKSSAIEIIMLRSNQSFSLEDMSWSCGGPDFK-YCI 174
Query: 160 PDDVRVNNEIKLIQEILA---RFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQD 216
D + + ++L++ ++ ++L E + A+ L +P+ PG+ D +E LQD
Sbjct: 175 NDVTKAGHTLELLEPLVKFQVGLKKLKLHEEEHVLLMAICLLSPDRPGVQDHVRIEALQD 234
Query: 217 QAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF--KETIGDIPIQRLLG 274
+ +L Y+R ++ + +++ L LR++ + ++ + + + L+
Sbjct: 235 RLCDVLQAYIRIQHPGGRLLYAKMIQKLADLRSLNEEHSKQYRSLSFQPEHSMQLTPLVL 294
Query: 275 DMYTMEKS 282
+++ E S
Sbjct: 295 EVFGSEVS 302
Score = 74.1 bits (182), Expect = 4e-15
Identities = 16/84 (19%), Positives = 40/84 (47%), Gaps = 2/84 (2%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ PG+ D +E LQD+ +L Y+R ++ + +++ L LR++ + ++
Sbjct: 219 DRPGVQDHVRIEALQDRLCDVLQAYIRIQHPGGRLLYAKMIQKLADLRSLNEEHSKQYRS 278
Query: 344 --KETIGDIPIQRLLGDMYTMEKS 365
+ + + L+ +++ E S
Sbjct: 279 LSFQPEHSMQLTPLVLEVFGSEVS 302
>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 = 148 bits (374), Expect = 4e-42
Identities = 40/214 (18%), Positives = 82/214 (38%)
Query: 72 THQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKEL 131
T + L +K E + + V + + L F L+ DQ+ LL+ + ++
Sbjct: 57 TTNSSADHRVRLDLGLWDKFSELATKCIIKIVEFAKRLPGFTGLTIADQITLLKAACLDI 116
Query: 132 FLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGC 191
+L + P ++ + R + L+ + L D +E G
Sbjct: 117 LILRICTRYTPEQDTMTFSDGLTLNRTQMHNAGFGPLTDLVFTFANQLLPLEMDDTETGL 176
Query: 192 MKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVR 251
+ A+ L + L + V+ LQ+ L Y+R R +P F ++L+ + LR++
Sbjct: 177 LSAICLICGDRQDLEEPTKVDKLQEPLLEALKIYIRKRRPSKPHMFPKILMKITDLRSIS 236
Query: 252 QSTIERLFFKETIGDIPIQRLLGDMYTMEKSYET 285
ER+ + + L+ +M + +E
Sbjct: 237 AKGAERVITLKMEIPGSMPPLIQEMLENSEGHEP 270
Score = 74.1 bits (182), Expect = 5e-15
Identities = 17/79 (21%), Positives = 34/79 (43%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ L + V+ LQ+ L Y+R R +P F ++L+ + LR++ ER+
Sbjct: 184 CGDRQDLEEPTKVDKLQEPLLEALKIYIRKRRPSKPHMFPKILMKITDLRSISAKGAERV 243
Query: 342 FFKETIGDIPIQRLLGDMY 360
+ + L+ +M
Sbjct: 244 ITLKMEIPGSMPPLIQEML 262
>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 = 141 bits (356), Expect = 6e-40
Identities = 49/267 (18%), Positives = 98/267 (36%), Gaps = 23/267 (8%)
Query: 31 PDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEK 90
++P + ++ PT++ ++ + + S P ++ L
Sbjct: 2 SHMVPA---ALPQLTPTLVSLLEVIEPEVLYAGYDSS------VPDSAWRIMTTLN---- 48
Query: 91 CQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLIN 150
R + AV+W + + F+ L DQ+ LLQ SW L + L S L+
Sbjct: 49 --MLGGRQVIAAVKWAKAIPGFRNLHLDDQMTLLQYSWMFLMVFALGWRSYRQASGNLLC 106
Query: 151 CEK--ARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPET-PGLVD 207
+ ++ K + I ++L E CMK ++L + GL
Sbjct: 107 FAPDLIINEQRMTLPCMYDQCKHMLFISTELQRLQVSYEEYLCMKTLLLLSSVPKEGLKS 166
Query: 208 AQPVEMLQDQAQCILGDYVRGR---YSRQPTRFGRLLLMLPSLRAVRQSTIERLF--FKE 262
+ + ++ LG + R S+ RF +L +L S+ V ++ + F F +
Sbjct: 167 QELFDEIRMTYIKELGKAIAKRGGNSSQNWQRFYQLTKLLDSMHDVVENLLSYCFQTFLD 226
Query: 263 TIGDIPIQRLLGDMYTMEKSYETPGLV 289
I +L ++ T + + G +
Sbjct: 227 KSMSIEFPEMLAEIITNQIPKYSNGNI 253
Score = 67.6 bits (165), Expect = 4e-13
Identities = 16/79 (20%), Positives = 32/79 (40%), Gaps = 5/79 (6%)
Query: 286 PGLVDAQPVEMLQDQAQCILGDYVRGR---YSRQPTRFGRLLLMLPSLRAVRQSTIERLF 342
GL + + ++ LG + R S+ RF +L +L S+ V ++ + F
Sbjct: 162 EGLKSQELFDEIRMTYIKELGKAIAKRGGNSSQNWQRFYQLTKLLDSMHDVVENLLSYCF 221
Query: 343 --FKETIGDIPIQRLLGDM 359
F + I +L ++
Sbjct: 222 QTFLDKSMSIEFPEMLAEI 240
>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 = 140 bits (354), Expect = 2e-39
Identities = 41/217 (18%), Positives = 79/217 (36%), Gaps = 1/217 (0%)
Query: 66 PSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQ 125
P + G L + + + + V + + L F L DQ++LL+
Sbjct: 50 PDDIGQSPIVSMPDGDKVDLEAFSEFTKIITPAITRVVDFAKKLPMFSELPXEDQIILLK 109
Query: 126 ESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPD 185
E+ L A P +L ++ E A +R + + I E+ + D
Sbjct: 110 GCCMEIMSLRAAVRYDPESDTLTLSGEMAVKREQLKNGGLGVVSDAIFELGKSLSAFNLD 169
Query: 186 GSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLP 245
+E ++AV+L + + GL+ +E Q+ YV R P + +LL+ +
Sbjct: 170 DTEVALLQAVLLMSTDRSGLLXVDKIEKSQEAYLLAFEHYVNHRKHNIPHFWPKLLMKVT 229
Query: 246 SLRAVRQSTIERLF-FKETIGDIPIQRLLGDMYTMEK 281
LR + R K L +++ ++
Sbjct: 230 DLRMIGAXHASRFLHMKVEXPTELFPPLFLEVFEDQE 266
Score = 63.7 bits (155), Expect = 1e-11
Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 1/82 (1%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLF- 342
+ GL+ +E Q+ YV R P + +LL+ + LR + R
Sbjct: 185 DRSGLLXVDKIEKSQEAYLLAFEHYVNHRKHNIPHFWPKLLMKVTDLRMIGAXHASRFLH 244
Query: 343 FKETIGDIPIQRLLGDMYTMEK 364
K L +++ ++
Sbjct: 245 MKVEXPTELFPPLFLEVFEDQE 266
>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 = 138 bits (350), Expect = 3e-39
Identities = 42/193 (21%), Positives = 75/193 (38%), Gaps = 6/193 (3%)
Query: 89 EKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLL 148
E + + V + + L FQTL DQ+ LL+ S E L A+ I
Sbjct: 45 LILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAE--IFNKKLPS 102
Query: 149 INCEKARERLPPDDVRVNNE-IKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVD 207
+ + ER+ + +++E I + +L E + A+++ +P+ + D
Sbjct: 103 GHSDLLEERIR--NSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKD 160
Query: 208 AQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIGDI 267
+ VE LQ+ +L + P F LL L LR E L + D
Sbjct: 161 REAVEKLQEPLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSW-RVNDH 219
Query: 268 PIQRLLGDMYTME 280
LL +++ ++
Sbjct: 220 KFTPLLCEIWDVQ 232
Score = 71.6 bits (176), Expect = 1e-14
Identities = 18/80 (22%), Positives = 30/80 (37%), Gaps = 1/80 (1%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF 343
+ + D + VE LQ+ +L + P F LL L LR E L
Sbjct: 154 DRQYIKDREAVEKLQEPLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMS 213
Query: 344 KETIGDIPIQRLLGDMYTME 363
+ D LL +++ ++
Sbjct: 214 W-RVNDHKFTPLLCEIWDVQ 232
>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 = 138 bits (349), Expect = 7e-39
Identities = 38/236 (16%), Positives = 81/236 (34%), Gaps = 9/236 (3%)
Query: 51 PPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEK-------CQETTARLLFMAV 103
+ PP H + + + + E CQ T+ +
Sbjct: 28 LSGKASNNPPFVIHDMETLCMAEKTLVAKLVANGIQNKEAEVRIFHCCQCTSVETVTELT 87
Query: 104 RWVRCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDV 163
+ + + F L DQ+ LL+ E L+ + +
Sbjct: 88 EFAKAIPGFANLDLNDQVTLLKYGVYEAIFAMLSSVMNKDGMLVAYGNGFITREFLKSLR 147
Query: 164 RVNNE-IKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCIL 222
+ + ++ + +F L D S+ A I+ + PGL++ +E +Q+ +L
Sbjct: 148 KPFCDIMEPKFDFAMKFNALELDDSDISLFVAAIICCGDRPGLLNVGHIEKMQEGIVHVL 207
Query: 223 GDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLF-FKETIGDIPIQRLLGDMY 277
+++ + F +LL + LR + + + K+T D + LL ++Y
Sbjct: 208 RLHLQSNHPDDIFLFPKLLQKMADLRQLVTEHAQLVQIIKKTESDAALHPLLQEIY 263
Score = 66.9 bits (163), Expect = 8e-13
Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ PGL++ +E +Q+ +L +++ + F +LL + LR + + +
Sbjct: 184 CGDRPGLLNVGHIEKMQEGIVHVLRLHLQSNHPDDIFLFPKLLQKMADLRQLVTEHAQLV 243
Query: 342 F-FKETIGDIPIQRLLGDMY 360
K+T D + LL ++Y
Sbjct: 244 QIIKKTESDAALHPLLQEIY 263
>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 = 139 bits (352), Expect = 9e-39
Identities = 47/287 (16%), Positives = 103/287 (35%), Gaps = 22/287 (7%)
Query: 12 IHNAHHQDSKLE-PHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFL 70
+ +A + H + + +G + + S + L
Sbjct: 36 LMDAQMKTFDTTFSHFKNFRLPGVLSSGCELPESLQAPSREEAAKWSQVRKDLCSLKVSL 95
Query: 71 ---------ATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQL 121
++PP G +I + + + + + + ++ F+ L DQ+
Sbjct: 96 QLRGEDGSVWNYKPPADSGGKEIFSLLPHMADMSTYMFKGIISFAKVISYFRDLPIEDQI 155
Query: 122 LLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILA---R 178
LL+ + EL L + R +D + L++ +L
Sbjct: 156 SLLKGAAFELCQLRFNTVFNAETGTWECG----RLSYCLEDTAGGFQQLLLEPMLKFHYM 211
Query: 179 FRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTR-- 236
++L E M+A+ LF+P+ PG++ + V+ LQ+Q L Y+ + R
Sbjct: 212 LKKLQLHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFL 271
Query: 237 FGRLLLMLPSLRAVRQSTIERLF-FKETIGDIPIQRLLGDMYTMEKS 282
F +++ ML LR++ +RL ++ L+ +++ + S
Sbjct: 272 FLKIMAMLTELRSINAQHTQRLLRIQDIHPFAT--PLMQELFGITGS 316
Score = 61.8 bits (150), Expect = 6e-11
Identities = 18/85 (21%), Positives = 39/85 (45%), Gaps = 5/85 (5%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTR--FGRLLLMLPSLRAVRQSTIERL 341
+ PG++ + V+ LQ+Q L Y+ + R F +++ ML LR++ +RL
Sbjct: 234 DRPGVLQHRVVDQLQEQFAITLKSYIECNRPQPAHRFLFLKIMAMLTELRSINAQHTQRL 293
Query: 342 F-FKETIGDIPIQRLLGDMYTMEKS 365
++ L+ +++ + S
Sbjct: 294 LRIQDIHPFAT--PLMQELFGITGS 316
>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 = 135 bits (341), Expect = 2e-37
Identities = 43/245 (17%), Positives = 94/245 (38%), Gaps = 13/245 (5%)
Query: 60 PPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRD 119
PP S T P L + + + + + + + F+ L+ D
Sbjct: 40 PPVRMDGSTGSVTLDLSPLSMLPH-------LADLVSYSIQKVIGFAKMIPGFRDLTSDD 92
Query: 120 QLLLLQESWKELFLLHLAQWSIPWDLSLLIN-CEKARERLPPDDVRVNNE-IKLIQEILA 177
Q++LL+ S E+ +L Q D+S + + E I+ + +
Sbjct: 93 QIVLLKSSAIEVIMLRSNQSFTMDDMSWDCGSQDYKYDVTDVSKAGHTLELIEPLIKFQV 152
Query: 178 RFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSR--QPT 235
++L+ E + A+ + +P+ PG+ DA+ VE +QD+ L Y+R R+
Sbjct: 153 GLKKLNLHEEEHVLLMAICIVSPDRPGVQDAKLVEAIQDRLSNTLQTYIRCRHPPPGSHQ 212
Query: 236 RFGRLLLMLPSLRAVRQSTIERLFF--KETIGDIPIQRLLGDMYTMEKSYETPGLVDAQP 293
+ +++ L LR++ + ++ + + + L+ +++ E S G +
Sbjct: 213 LYAKMIQKLADLRSLNEEHSKQYRSLSFQPENSMKLTPLVLEVFGNEISLVPRGSMAISD 272
Query: 294 VEMLQ 298
Sbjct: 273 PNSSS 277
Score = 60.2 bits (146), Expect = 2e-10
Identities = 18/87 (20%), Positives = 41/87 (47%), Gaps = 4/87 (4%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSR--QPTRFGRLLLMLPSLRAVRQSTIERL 341
+ PG+ DA+ VE +QD+ L Y+R R+ + +++ L LR++ + ++
Sbjct: 176 DRPGVQDAKLVEAIQDRLSNTLQTYIRCRHPPPGSHQLYAKMIQKLADLRSLNEEHSKQY 235
Query: 342 FF--KETIGDIPIQRLLGDMYTMEKSY 366
+ + + L+ +++ E S
Sbjct: 236 RSLSFQPENSMKLTPLVLEVFGNEISL 262
>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 = 132 bits (334), Expect = 1e-36
Identities = 42/235 (17%), Positives = 73/235 (31%), Gaps = 30/235 (12%)
Query: 72 THQPPPHPGLLQILMSAEKCQ---------------------ETTARLLFMAVRWVRCLA 110
P L+ +LMS E + R L V+W + L
Sbjct: 6 GQDIQLIPPLINLLMSIEPDVIYAGHDNTKPDTSSSLLTSLNQLGERQLLSVVKWSKSLP 65
Query: 111 PFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLS--LLINCEKARERLPPDDVRVNNE 168
F+ L DQ+ L+Q SW L + L S L + + +
Sbjct: 66 GFRNLHIDDQITLIQYSWMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSL 125
Query: 169 IKLIQEILARFRQLSPDGSECGCMKAVILFTP-ETPGLVDAQPVEMLQDQAQCILGDYVR 227
+ +I F +L E CMK ++L GL E ++ L +
Sbjct: 126 CLTMWQIPQEFVKLQVSQEEFLCMKVLLLLNTIPLEGLRSQTQFEEMRSSYIRELIKAIG 185
Query: 228 GRY---SRQPTRFGRLLLMLPSLRAVRQSTIER---LFFKETIGDIPIQRLLGDM 276
R RF +L +L +L + + F + + ++ ++
Sbjct: 186 LRQKGVVSSSQRFYQLTKLLDNLHDLVKQLHLYCLNTFIQSRALSVEFPEMMSEV 240
Score = 56.4 bits (136), Expect = 2e-09
Identities = 11/85 (12%), Positives = 26/85 (30%), Gaps = 6/85 (7%)
Query: 281 KSYETPGLVDAQPVEMLQDQAQCILGDYVRGRY---SRQPTRFGRLLLMLPSLRAVRQST 337
+ GL E ++ L + R RF +L +L +L + +
Sbjct: 156 NTIPLEGLRSQTQFEEMRSSYIRELIKAIGLRQKGVVSSSQRFYQLTKLLDNLHDLVKQL 215
Query: 338 IER---LFFKETIGDIPIQRLLGDM 359
F + + ++ ++
Sbjct: 216 HLYCLNTFIQSRALSVEFPEMMSEV 240
>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 = 128 bits (322), Expect = 4e-35
Identities = 32/220 (14%), Positives = 81/220 (36%), Gaps = 2/220 (0%)
Query: 58 PPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSK 117
H + T++ ++C + V + + + F L +
Sbjct: 22 YTMEELHQLAWQTHTYEEIKAYQSKSREALWQQCAIQITHAIQYVVEFAKRITGFMELCQ 81
Query: 118 RDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILA 177
DQ+LLL+ E+ L+ + + P + ++L + ++ + ++ + +
Sbjct: 82 NDQILLLKSGCLEVVLVRMCRAFNPLNNTVLFEGKYGGMQMF-KALGSDDLVNEAFDFAK 140
Query: 178 RFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRF 237
L E + +L +P+ L++ + V+ LQ++ L ++ +
Sbjct: 141 NLCSLQLTEEEIALFSSAVLISPDRAWLLEPRKVQKLQEKIYFALQHVIQKNH-LDDETL 199
Query: 238 GRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
+L+ +P++ AV E+L + + L +Y
Sbjct: 200 AKLIAKIPTITAVCNLHGEKLQVFKQSHPDIVNTLFPPLY 239
Score = 57.9 bits (140), Expect = 7e-10
Identities = 14/79 (17%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
S + L++ + V+ LQ++ L ++ + +L+ +P++ AV E+L
Sbjct: 162 SPDRAWLLEPRKVQKLQEKIYFALQHVIQKNH-LDDETLAKLIAKIPTITAVCNLHGEKL 220
Query: 342 FFKETIGDIPIQRLLGDMY 360
+ + L +Y
Sbjct: 221 QVFKQSHPDIVNTLFPPLY 239
>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 = 122 bits (308), Expect = 6e-33
Identities = 39/237 (16%), Positives = 91/237 (38%), Gaps = 13/237 (5%)
Query: 47 TVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWV 106
T S PP + T + L + + + + +
Sbjct: 24 TYDPTYSDFCQFRPPVRVNDGGGSVTLELSQLSMLPH-------LADLVSYSIQKVIGFA 76
Query: 107 RCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLI--NCEKARERLPPDDVR 164
+ + F+ L+ DQ++LL+ S E+ +L + D+S K R
Sbjct: 77 KMIPGFRDLTSEDQIVLLKSSAIEVIMLRSNESFTMDDMSWTCGNQDYKYRVSDVTKAGH 136
Query: 165 VNNEIKLIQEILARFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGD 224
I+ + + ++L+ E + A+ + +P+ PG+ DA +E +QD+ L
Sbjct: 137 SLELIEPLIKFQVGLKKLNLHEEEHVLLMAICIVSPDRPGVQDAALIEAIQDRLSNTLQT 196
Query: 225 YVRGRYSRQPTR--FGRLLLMLPSLRAVRQSTIERLFF--KETIGDIPIQRLLGDMY 277
Y+R R+ + + +++ L LR++ + ++ + + + L+ +++
Sbjct: 197 YIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSKQYRCLSFQPECSMKLTPLVLEVF 253
Score = 56.4 bits (136), Expect = 2e-09
Identities = 16/83 (19%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTR--FGRLLLMLPSLRAVRQSTIE 339
S + PG+ DA +E +QD+ L Y+R R+ + + +++ L LR++ + +
Sbjct: 171 SPDRPGVQDAALIEAIQDRLSNTLQTYIRCRHPPPGSHLLYAKMIQKLADLRSLNEEHSK 230
Query: 340 RLFF--KETIGDIPIQRLLGDMY 360
+ + + + L+ +++
Sbjct: 231 QYRCLSFQPECSMKLTPLVLEVF 253
>3vhu_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, antagonist,
spironolactone; HET: SNL; 2.11A {Homo sapiens}
Length = 294
Score = 123 bits (309), Expect = 9e-33
Identities = 46/282 (16%), Positives = 91/282 (32%), Gaps = 21/282 (7%)
Query: 4 ERGPRKPKIHNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSH 63
++ H + P + L+P S + P+ + ++ +
Sbjct: 4 DKIIHHHHHHENLYFQGSAPAKEPSVNTALVPQLSTISRALTPSPVMVLENIEPEIVYAG 63
Query: 64 HHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLL 123
+ S +P LL L + + V+W + L F+ L DQ+ L
Sbjct: 64 YDSS------KPDTAENLLSTLN------RLAGKQMIQVVKWAKVLPGFKNLPLEDQITL 111
Query: 124 LQESWKELFLLHLAQWSIPWDLSLLINC--EKARERLPPDDVRVNNEIKLIQEILARFRQ 181
+Q SW L L+ S S + + + + + +I +F +
Sbjct: 112 IQYSWMSLLSFALSWRSYKHTNSQFLYFAPDLVFNEEKMHQSAMYELCQGMHQISLQFVR 171
Query: 182 LSPDGSECGCMKAVILFTPET-PGLVDAQPVEMLQDQAQCILGDYVRGR---YSRQPTRF 237
L E MK ++L + GL E ++ L V + RF
Sbjct: 172 LQLTFEEYTIMKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMVTKCPNNSGQSWQRF 231
Query: 238 GRLLLMLPSLRAVRQSTIERLFFKETIGD---IPIQRLLGDM 276
+L +L S+ + +E F+ + +L ++
Sbjct: 232 YQLTKLLDSMHDLVSDLLEFCFYTFRESHALKVEFPAMLVEI 273
Score = 56.9 bits (137), Expect = 3e-09
Identities = 13/80 (16%), Positives = 26/80 (32%), Gaps = 6/80 (7%)
Query: 286 PGLVDAQPVEMLQDQAQCILGDYVRGR---YSRQPTRFGRLLLMLPSLRAVRQSTIERLF 342
GL E ++ L V + RF +L +L S+ + +E F
Sbjct: 194 DGLKSQAAFEEMRTNYIKELRKMVTKCPNNSGQSWQRFYQLTKLLDSMHDLVSDLLEFCF 253
Query: 343 FKETIGD---IPIQRLLGDM 359
+ + +L ++
Sbjct: 254 YTFRESHALKVEFPAMLVEI 273
>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 = 120 bits (303), Expect = 3e-32
Identities = 43/243 (17%), Positives = 77/243 (31%), Gaps = 29/243 (11%)
Query: 74 QPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFL 133
+P LL L + + V+W + L F+ L DQ+ L+Q SW L
Sbjct: 34 KPDTAENLLSTLN------RLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSWMSLLS 87
Query: 134 LHLAQWSIPWDLSLLINC--EKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGC 191
L+ S S + + + + + +I +F +L E
Sbjct: 88 FALSWRSYKHTNSQFLYFAPDLVFNEEKMHQSAMYELCQGMHQISLQFVRLQLTFEEYTI 147
Query: 192 MKAVILFTPET-PGLVDAQPVEMLQDQAQCILGDYVRGR---YSRQPTRFGRLLLMLPSL 247
MK ++L + GL E ++ L V + RF +L +L S+
Sbjct: 148 MKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMVTKCPNNSGQSWQRFYQLTKLLDSM 207
Query: 248 RAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKSYETPGLVDAQPVEMLQDQAQCILGD 307
+ +E F+ + VE++ DQ +
Sbjct: 208 HDLVSDLLEFCFYTFRESHALKVEFPAML-----------------VEIISDQLPKVESG 250
Query: 308 YVR 310
V+
Sbjct: 251 NVK 253
Score = 57.2 bits (138), Expect = 1e-09
Identities = 13/80 (16%), Positives = 26/80 (32%), Gaps = 6/80 (7%)
Query: 286 PGLVDAQPVEMLQDQAQCILGDYVRGR---YSRQPTRFGRLLLMLPSLRAVRQSTIERLF 342
GL E ++ L V + RF +L +L S+ + +E F
Sbjct: 160 DGLKSQAAFEEMRTNYIKELRKMVTKCPNNSGQSWQRFYQLTKLLDSMHDLVSDLLEFCF 219
Query: 343 FKETIGD---IPIQRLLGDM 359
+ + +L ++
Sbjct: 220 YTFRESHALKVEFPAMLVEI 239
>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 = 119 bits (299), Expect = 1e-31
Identities = 35/238 (14%), Positives = 81/238 (34%), Gaps = 20/238 (8%)
Query: 47 TVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWV 106
T Y L+ + + +Q + Q+ C + V +
Sbjct: 34 TCQYLREELQQITWQTFLQEEI--ENYQNKQREVMWQL------CAIKITEAIQYVVEFA 85
Query: 107 RCLAPFQTLSKRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVN 166
+ + F L + DQ++LL+ E+ + + + + ++ + + PD +
Sbjct: 86 KRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFD----GKYASPDVFKSL 141
Query: 167 NEIKLIQEILA---RFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILG 223
I + + E A +L + + L + +E LQ + Q L
Sbjct: 142 GCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQ 201
Query: 224 DYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFF----KETIGDIPIQRLLGDMY 277
++ + R+ +L+ + +LRA+ E+L I + L +++
Sbjct: 202 HVLQKNH-REDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELF 258
Score = 55.6 bits (134), Expect = 5e-09
Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 5/83 (6%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
S + L + +E LQ + Q L ++ + R+ +L+ + +LRA+ E+L
Sbjct: 177 SADRSWLQEKVKIEKLQQKIQLALQHVLQKNH-REDGILTKLICKVSTLRALCGRHTEKL 235
Query: 342 FF----KETIGDIPIQRLLGDMY 360
I + L +++
Sbjct: 236 MAFKAIYPDIVRLHFPPLYKELF 258
>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 = 116 bits (292), Expect = 1e-30
Identities = 38/192 (19%), Positives = 71/192 (36%), Gaps = 4/192 (2%)
Query: 72 THQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKEL 131
T M + E T + + V + + L F +S+ DQ+ LL+ E+
Sbjct: 54 TQTWQSDEDDEDSDMPFRQITEMTILTVQLIVEFAKGLPGFAKISQSDQITLLKACSSEV 113
Query: 132 FLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGC 191
+L +A+ S+L +A R + I+ + + D
Sbjct: 114 MMLRVARRYDAATDSVLFANNQAYTRDNYRKAGMAYVIEDLLHFCRCMYSMMMDNVHYAL 173
Query: 192 MKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP---TRFGRLLLMLPSLR 248
+ A+++F+ + PGL VE +Q L Y+ + S P FG++L +L +R
Sbjct: 174 LTAIVIFS-DRPGLEQPLLVEEIQRYYLNTLRVYILNQNSASPRCAVIFGKILGILTEIR 232
Query: 249 AVRQSTIERLFF 260
+
Sbjct: 233 TLGMQNSNMCIS 244
Score = 56.3 bits (136), Expect = 3e-09
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 3/63 (4%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP---TRFGRLLLMLPSLRAVRQSTIER 340
+ PGL VE +Q L Y+ + S P FG++L +L +R +
Sbjct: 182 DRPGLEQPLLVEEIQRYYLNTLRVYILNQNSASPRCAVIFGKILGILTEIRTLGMQNSNM 241
Query: 341 LFF 343
Sbjct: 242 CIS 244
>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 = 115 bits (291), Expect = 2e-30
Identities = 43/224 (19%), Positives = 87/224 (38%), Gaps = 7/224 (3%)
Query: 60 PPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRD 119
PS + ++ E T + + V + + L F L + D
Sbjct: 30 HPSEEDVKRIINQPMDGEDQCDVRF----RHITEITILTVQLIVEFAKRLPGFDKLLRED 85
Query: 120 QLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARF 179
Q+ LL+ E+ + +A+ S+L + R + + I+ +
Sbjct: 86 QIALLKACSSEVMMFRMARRYDVQTDSILFVNNQPYSRDSYNLAGMGETIEDLLHFCRTM 145
Query: 180 RQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP-TRFG 238
+ D +E + A+++F+ E P L++ VE +Q+ L YV R +P T F
Sbjct: 146 YSMRVDNAEYALLTAIVIFS-ERPALIEGWKVEKIQEIYLEALRAYVDNRRKPKPGTIFA 204
Query: 239 RLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTMEKS 282
+LL +L LR + E F + + + + L +++ ++
Sbjct: 205 KLLSVLTELRTLGNQNSEMCFSLK-LKNKKLPPFLAEIWDVDLK 247
Score = 57.4 bits (139), Expect = 1e-09
Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 2/81 (2%)
Query: 286 PGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP-TRFGRLLLMLPSLRAVRQSTIERLFFK 344
P L++ VE +Q+ L YV R +P T F +LL +L LR + E F
Sbjct: 168 PALIEGWKVEKIQEIYLEALRAYVDNRRKPKPGTIFAKLLSVLTELRTLGNQNSEMCFSL 227
Query: 345 ETIGDIPIQRLLGDMYTMEKS 365
+ + + + L +++ ++
Sbjct: 228 K-LKNKKLPPFLAEIWDVDLK 247
>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 = 115 bits (290), Expect = 2e-30
Identities = 32/229 (13%), Positives = 69/229 (30%), Gaps = 16/229 (6%)
Query: 64 HHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLL 123
M Q L+ S + V+ + L F LS+ + L
Sbjct: 19 AFKGMNDPMEQGRQATSFLKNEKSPADIMNIMDVTMRRFVKMAKRLPAFNDLSQDGKFAL 78
Query: 124 LQESWKELFLLHLAQWSIP-----WDLSLLINCEKARERLPPDDVRVNNEIKLIQEILAR 178
L+ E+ + + +L + E + D + + + L
Sbjct: 79 LKGGMIEMLTVRGVRRFDSSSGSWTTPTLGESSEVSINMF--DQLNADVRSEQKMRFLQF 136
Query: 179 FR----QLSPDGSECGCMKAVILFTPETPG--LVDAQPVEMLQDQAQCILGDYVRGRYSR 232
F+ + + + ++LF+P D + + +Q +L Y+ Y
Sbjct: 137 FKIFHEDIRSNDLVISMIMLIVLFSPRDSITDPEDRRIIARHHEQFSALLNRYLESLYGD 196
Query: 233 QPTR-FGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTME 280
+ +L L LR + S+ + + L + + +E
Sbjct: 197 DAHQLNEQLPTALRMLREISASSGMLFLGT--VNTSEAEPLPREFFKVE 243
Score = 61.0 bits (148), Expect = 6e-11
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 3/78 (3%)
Query: 287 GLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTR-FGRLLLMLPSLRAVRQSTIERLFFKE 345
D + + +Q +L Y+ Y + +L L LR + S+
Sbjct: 168 DPEDRRIIARHHEQFSALLNRYLESLYGDDAHQLNEQLPTALRMLREISASSGMLFLGT- 226
Query: 346 TIGDIPIQRLLGDMYTME 363
+ + L + + +E
Sbjct: 227 -VNTSEAEPLPREFFKVE 243
>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 = 115 bits (288), Expect = 4e-30
Identities = 36/223 (16%), Positives = 73/223 (32%), Gaps = 10/223 (4%)
Query: 58 PPPPSHHHPSMFLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSK 117
+ + + + E+C + V + + L+ F L +
Sbjct: 28 LRLEDLLRQRSNIFSREEVTGYQRKSMWEMWERCAHHLTEAIQYVVEFAKRLSGFMELCQ 87
Query: 118 RDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILA 177
DQ++LL+ E+ L+ + + + ++ + + R +LI I
Sbjct: 88 NDQIVLLKAGAMEVVLVRMCRAYNADNRTVFFEGKY----GGMELFRALGCSELISSIFD 143
Query: 178 ---RFRQLSPDGSECGCMKAVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP 234
L E A++L PGL + + VE LQ + ++
Sbjct: 144 FSHSLSALHFSEDEIALYTALVLINAHRPGLQEKRKVEQLQYNLELAFHHHLC---KTHR 200
Query: 235 TRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMY 277
L LR++ +ERL + + I +Q +Y
Sbjct: 201 QSILAKLPPKGKLRSLCSQHVERLQIFQHLHPIVVQAAFPPLY 243
Score = 52.6 bits (126), Expect = 4e-08
Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 3/79 (3%)
Query: 282 SYETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERL 341
+ PGL + + VE LQ + ++ L LR++ +ERL
Sbjct: 168 NAHRPGLQEKRKVEQLQYNLELAFHHHLC---KTHRQSILAKLPPKGKLRSLCSQHVERL 224
Query: 342 FFKETIGDIPIQRLLGDMY 360
+ + I +Q +Y
Sbjct: 225 QIFQHLHPIVVQAAFPPLY 243
>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 = 114 bits (287), Expect = 2e-29
Identities = 39/205 (19%), Positives = 77/205 (37%), Gaps = 3/205 (1%)
Query: 74 QPPPHPGLLQILMSAEKCQETTARLLFMAVRWVRCLAPFQTLSKRDQLLLLQESWKELFL 133
E T + + V + + L F L + DQ+ LL+ E+ +
Sbjct: 104 VNAAPEEENVAEERFRHITEITILTVQLIVEFSKRLPGFDKLIREDQIALLKACSSEVMM 163
Query: 134 LHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNEIKLIQEILARFRQLSPDGSECGCMK 193
+A+ S+L + R + + ++ + + D +E +
Sbjct: 164 FRMARRYDAETDSILFATNQPYTRESYTVAGMGDTVEDLLRFCRHMCAMKVDNAEYALLT 223
Query: 194 AVILFTPETPGLVDAQPVEMLQDQAQCILGDYVRGRYS-RQPTRFGRLLLMLPSLRAVRQ 252
A+++F+ E P L + VE +Q+ L YV R T F +LL +L LR +
Sbjct: 224 AIVIFS-ERPSLSEGWKVEKIQEIYIEALKAYVENRRKPYATTIFAKLLSVLTELRTLGN 282
Query: 253 STIERLFFKETIGDIPIQRLLGDMY 277
E F + + + + L +++
Sbjct: 283 MNSETCFSLK-LKNRKVPSFLEEIW 306
Score = 59.8 bits (145), Expect = 2e-10
Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 2/76 (2%)
Query: 286 PGLVDAQPVEMLQDQAQCILGDYVRGRYS-RQPTRFGRLLLMLPSLRAVRQSTIERLFFK 344
P L + VE +Q+ L YV R T F +LL +L LR + E F
Sbjct: 232 PSLSEGWKVEKIQEIYIEALKAYVENRRKPYATTIFAKLLSVLTELRTLGNMNSETCFSL 291
Query: 345 ETIGDIPIQRLLGDMY 360
+ + + + L +++
Sbjct: 292 K-LKNRKVPSFLEEIW 306
>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 = 108 bits (270), Expect = 1e-27
Identities = 32/226 (14%), Positives = 70/226 (30%), Gaps = 16/226 (7%)
Query: 69 FLATHQPPPHPGLLQILMSAEKCQETTARLLFMAVR----WVRCLAPFQTLSKRDQLLLL 124
F ++P + L E ++ + +R + L F +S+ + LL
Sbjct: 20 FQCMNEPLDNDQQASTLAKKEHNPTDILNVMDITMRRLVKMAKRLGAFNEISEAGKFSLL 79
Query: 125 QESWKELFLLHLAQWSIP----WDLSLLINCEKARERLPPDDVRVNNE-IKLIQEILARF 179
+ E+ + W + + + + + + K
Sbjct: 80 KGGMIEMLTIRGVTVFNADKGVWQTPVDGHSQISFNMFDKLRPDIKDTQKKGFLHFFNLL 139
Query: 180 RQ-LSPDGSECGCMKAVILFTPETPGLV---DAQPVEMLQDQAQCILGDYVRGRY-SRQP 234
+ + + ++LF + GLV D + VE L + +L Y+ +
Sbjct: 140 HSDVRKNDLAIDIIVLMVLFDSKREGLVSQQDKETVEKLHRNYESLLHRYLYSIHKEEAE 199
Query: 235 TRFGRLLLMLPSLRAVRQSTIERLFFKETIGDIPIQRLLGDMYTME 280
RF + L +LR V ++ + F L + +
Sbjct: 200 QRFASIPKALVALRKVAENAVTL--FLGAGNTTEAASLPKEFFATN 243
Score = 52.3 bits (125), Expect = 6e-08
Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 3/75 (4%)
Query: 290 DAQPVEMLQDQAQCILGDYVRGRY-SRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETIG 348
D + VE L + +L Y+ + RF + L +LR V ++ + F
Sbjct: 171 DKETVEKLHRNYESLLHRYLYSIHKEEAEQRFASIPKALVALRKVAENAVTL--FLGAGN 228
Query: 349 DIPIQRLLGDMYTME 363
L + +
Sbjct: 229 TTEAASLPKEFFATN 243
>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 = 52.2 bits (124), Expect = 2e-07
Identities = 61/414 (14%), Positives = 124/414 (29%), Gaps = 102/414 (24%)
Query: 11 KIHNAHHQDSK-----LEPHNP-HHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHH 64
I Q S +E + ++ + +V L L
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY---NVSRLQPYLKLRQALLE------L 147
Query: 65 HPSMFLATHQPPPHPGLL----QILMSAEKCQETTARLLF-MAVRWV---RCLAPFQTLS 116
P+ + G+L + + + C + + W+ C +P
Sbjct: 148 RPAKNVLID------GVLGSGKTWV-ALDVCLSYKVQCKMDFKIFWLNLKNCNSP----- 195
Query: 117 KRDQLLLLQESWKELFLLHLAQWSIPWDLSLLINCEKARER----LPP--------DDVR 164
L +LQ+ ++ ++ ++ L I+ +A R P +V+
Sbjct: 196 -ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254
Query: 165 VNNEIKL--IQ-EILA--RFRQLSPDGSECGCMKAVIL------FTP-ETPGL------V 206
+ +IL RF+Q++ D + L TP E L
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVT-DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 207 DAQ--PVEMLQD--QAQCILGDYVRGRYSRQPTRFGRLL-LMLPSLRAVRQSTIE----- 256
Q P E+L + I+ + +R + + L + +S++
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDG----LATWDNWKHVNCDKLTTIIESSLNVLEPA 369
Query: 257 ---RLF-----FKETIGDIPIQRLLGDMYTMEKSYETPGLVDAQPVEMLQDQAQCILGDY 308
++F F + IP L + + +V V L + +
Sbjct: 370 EYRKMFDRLSVFPPSA-HIPTILL--SLIWFDVIKSDVMVV----VNKLHKYS-LVEKQP 421
Query: 309 VRGRYSRQPTRFGRLLLMLPSLRAVRQSTIERLFFKETI--GDIPIQRLLGDMY 360
S P+ + L + L + A+ +S ++ +T D+ L D Y
Sbjct: 422 KESTIS-IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL--DQY 472
>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 = 42.3 bits (99), Expect = 2e-04
Identities = 30/215 (13%), Positives = 62/215 (28%), Gaps = 63/215 (29%)
Query: 139 WSIPWDLSLLINCEKARERL------PPDDVRVNNEIKLIQEILARF-----RQLSPD-- 185
+P + + +E+ P + ++E E++ +F + P
Sbjct: 20 LLVP--TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 186 GSECGCMKAV-------ILFTPETPGLVDA--QPVEMLQDQAQCILGDYVRGRY--SRQP 234
G + L + L Q + + + ++ +Y+ R R
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
Query: 235 TRFGRLLLMLPSLRAVR------------QSTIERLFFKETIGDIPIQRLLGDMYTMEKS 282
+ L RAV Q + +F+E L D+Y ++
Sbjct: 138 DKKSNSAL----FRAVGEGNAQLVAIFGGQGNTDD-YFEE----------LRDLY---QT 179
Query: 283 YETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQP 317
Y LV L + L + +R +
Sbjct: 180 Y--HVLVGD-----LIKFSAETLSELIRTTLDAEK 207
Score = 31.6 bits (71), Expect = 0.47
Identities = 16/68 (23%), Positives = 23/68 (33%), Gaps = 24/68 (35%)
Query: 2 QHERGP---RKPKIHN------AHHQDSKLEPHNPHHSPDLLPP--NGISSVKIPPTVLY 50
Q R P RK K N + P HS LL P + I+ + V +
Sbjct: 404 QS-RIPFSERKLKFSNRFLPVAS-----------PFHSH-LLVPASDLINKDLVKNNVSF 450
Query: 51 PPSGLKSP 58
++ P
Sbjct: 451 NAKDIQIP 458
Score = 30.4 bits (68), Expect = 1.2
Identities = 57/303 (18%), Positives = 92/303 (30%), Gaps = 111/303 (36%)
Query: 76 PPHPGLLQILMSAEKCQE-----TTARLLFMA----VRWVRCLAPFQTLSKRDQLLLLQE 126
G L I SAE E A +F + W+ P T K D LL +
Sbjct: 181 HVLVGDL-IKFSAETLSELIRTTLDAEKVFTQGLNILEWLE--NPSNTPDK-DYLLSIPI 236
Query: 127 SWKELFLLHLAQWSIPWDLSLLINCEKARERLPPDDVRVNNE--IKLIQEIL-ARFRQLS 183
S + ++ LA + ++ + P ++R + Q ++ A +
Sbjct: 237 SCPLIGVIQLAHY--------VVTAKLL--GFTPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 184 PDGSE--CGCMKAV-ILF---------TPETPGLVDAQPVEMLQDQAQCILGDYVRGRYS 231
KA+ +LF P T + P +L+D + G
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNT-----SLPPSILEDSLENNEG-------- 333
Query: 232 RQPTRFGRLLLMLPSLRAVRQSTIE--------RLFFKETI--------------GDIPI 269
P+ ML S+ + Q ++ L + + G P
Sbjct: 334 -VPS------PML-SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG--PP 383
Query: 270 QRLLGDMYTMEKSYETPGLVDAQPVEMLQDQAQCILGDYVRGRYS-RQP---TRFGRLLL 325
Q L G T+ K+ GL DQ+ R +S R+ RF
Sbjct: 384 QSLYGLNLTLRKAKAPSGL----------DQS--------RIPFSERKLKFSNRF----- 420
Query: 326 MLP 328
LP
Sbjct: 421 -LP 422
>2qlv_B Protein SIP2, protein SPM2; heterotrimer, ATP-binding, carbohydrate
metabolism, kinase, membrane, nucleotide-binding,
nucleus; 2.60A {Saccharomyces cerevisiae} SCOP:
b.1.18.21 d.353.1.1
Length = 252
Score = 29.6 bits (65), Expect = 1.5
Identities = 10/66 (15%), Positives = 17/66 (25%)
Query: 18 QDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPP 77
D + + H P + IP P + + + PP
Sbjct: 123 PDDFGDGYTRFHEDLSPRPPLEYTTDIPAVFTDPSVMERYYYTLDRQQSNTDTSWLTPPQ 182
Query: 78 HPGLLQ 83
P L+
Sbjct: 183 LPPQLE 188
>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 = 28.8 bits (63), Expect = 1.8
Identities = 6/30 (20%), Positives = 13/30 (43%), Gaps = 3/30 (10%)
Query: 167 NEIKLIQEILARFRQLSPDGSECGCMKAVI 196
+K +Q A + + D + +KA +
Sbjct: 20 QALKKLQ---ASLKLYADDSAPALAIKATM 46
>3a58_A Exocyst complex component SEC3; protein complex, PH domain, GTPase,
membrane traffic, coiled coil, exocytosis,
phosphoprotein; HET: GNP; 2.60A {Saccharomyces
cerevisiae}
Length = 320
Score = 28.4 bits (62), Expect = 4.1
Identities = 9/74 (12%), Positives = 20/74 (27%)
Query: 6 GPRKPKIHNAHHQDSKLEPHNPHHSPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHH 65
P++ N L+ + + P +S +K P + + P
Sbjct: 222 EGHVPELVNWDLSLFYLDERSYQRAVITNRPGSVSPIKSPTSNFTTNTTQSVGSVPFSAP 281
Query: 66 PSMFLATHQPPPHP 79
+ +P
Sbjct: 282 TERTRRSETESVNP 295
>1lrr_A SEQA protein; protein-DNA complex, replication, methylated GATC,
replication inhibitor/DNA complex; HET: 6MA; 2.65A
{Escherichia coli} SCOP: d.228.1.1
Length = 131
Score = 27.2 bits (60), Expect = 4.3
Identities = 12/47 (25%), Positives = 27/47 (57%)
Query: 201 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSL 247
+P +V+A+PV+ ++D+ + + + Y+ Q R +L+L +L
Sbjct: 2 ASPAIVEAKPVKTIKDKVRAMRELLLSDEYAEQKRAVNRFMLLLSTL 48
Score = 27.2 bits (60), Expect = 4.3
Identities = 12/47 (25%), Positives = 27/47 (57%)
Query: 284 ETPGLVDAQPVEMLQDQAQCILGDYVRGRYSRQPTRFGRLLLMLPSL 330
+P +V+A+PV+ ++D+ + + + Y+ Q R +L+L +L
Sbjct: 2 ASPAIVEAKPVKTIKDKVRAMRELLLSDEYAEQKRAVNRFMLLLSTL 48
>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine
dimers, UV damaged DNA, DNA repai flavoprotein; HET:
FAD; 1.71A {Oryza sativa japonica group}
Length = 506
Score = 28.1 bits (63), Expect = 4.7
Identities = 14/37 (37%), Positives = 16/37 (43%)
Query: 44 IPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPG 80
+PPT + PP P PS HPS H PG
Sbjct: 1 MPPTSVSPPRTAPGPANPSPAHPSRVRVIHPGGGKPG 37
>2g8s_A Glucose/sorbosone dehydrogenases; bladed beta-propellor,
pyrolloquinoline quinone (PQQ), quinoprotein, sugar
binding protein; HET: MSE; 1.50A {Escherichia coli K12}
Length = 353
Score = 28.0 bits (63), Expect = 4.9
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 143 WDLSLLINCEKARE--RLPPDDVRVNNEIKLIQEILARFR--QLSPDGS 187
W L I K ++ + + +V + +++ + R R + PDG
Sbjct: 287 WQQKLFIGALKDKDVIVMSVNGDKVTEDGRILTDRGQRIRDVRTGPDGY 335
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication,
ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus;
2.60A {Saccharomyces cerevisiae}
Length = 371
Score = 27.2 bits (59), Expect = 8.4
Identities = 13/59 (22%), Positives = 20/59 (33%)
Query: 30 SPDLLPPNGISSVKIPPTVLYPPSGLKSPPPPSHHHPSMFLATHQPPPHPGLLQILMSA 88
S L + S++ PPTV + P S +T + PP S+
Sbjct: 1 SLTPLSAITVRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAPPPTNPDASSSSS 59
>3g9h_A Suppressor of yeast profilin deletion; SYP1, MU, adaptor,
endocytosis, phosphoprotein; HET: 1PG; 2.80A
{Saccharomyces cerevisiae}
Length = 328
Score = 27.0 bits (59), Expect = 9.3
Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 8/66 (12%)
Query: 24 PHNPHHSPDLLPPNGISSVKIPPTVLYPP--SGLKSPPPP------SHHHPSMFLATHQP 75
H+ HHS L+P + + P + L L+ P S S+F +
Sbjct: 5 HHHHHHSSGLVPRGSHMASERPVSTLSSQITGELRELNPQATGSSTSLVGQSLFQHSSLD 64
Query: 76 PPHPGL 81
GL
Sbjct: 65 TSQFGL 70
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
0.322 0.139 0.430
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: 5,909,587
Number of extensions: 357325
Number of successful extensions: 1011
Number of sequences better than 10.0: 1
Number of HSP's gapped: 853
Number of HSP's successfully gapped: 138
Length of query: 367
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 272
Effective length of database: 4,049,298
Effective search space: 1101409056
Effective search space used: 1101409056
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 (21.9 bits)
S2: 58 (26.4 bits)