RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14045
(287 letters)
>3unc_A Xanthine dehydrogenase/oxidase; oxidoreductase; HET: MTE FAD SAL;
1.65A {Bos taurus} PDB: 3una_A* 3uni_A* 1v97_A* 1fo4_A*
1vdv_A* 3am9_A* 3amz_A* 3ax7_A* 3ax9_A* 3bdj_A* 1n5x_A*
2ckj_A* 2e1q_A* 3an1_A* 2e3t_A* 1wyg_A* 3b9j_B* 1fiq_B*
3b9j_A* 1fiq_A*
Length = 1332
Score = 363 bits (932), Expect = e-116
Identities = 139/242 (57%), Positives = 178/242 (73%), Gaps = 2/242 (0%)
Query: 33 QDACSKLNERLKPYKEKNPTGKWQDWVKAAFFDRTSLAATGYFKTPDIGYDMKKNEGAIF 92
+AC + +RL+P+K+KNP G W+DWV AA+ DR SL+ TG+++TP++GY + N G F
Sbjct: 1091 YEACQTILKRLEPFKKKNPDGSWEDWVMAAYQDRVSLSTTGFYRTPNLGYSFETNSGNAF 1150
Query: 93 NYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEE 152
+YF YG + SEVEIDCLTGDH+ T+IVMDVG SLNPAID+GQVEGAF+QG GL+ +EE
Sbjct: 1151 HYFTYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTLEE 1210
Query: 153 LMFSPSGVLYTRGPGTYKIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSV 212
L +SP G L+TRGP TYKIP F IP EF VSLL+ PN +A+Y+SKAVGEPPL L +SV
Sbjct: 1211 LHYSPEGSLHTRGPSTYKIPAFGSIPTEFRVSLLRDCPNKKAIYASKAVGEPPLFLGASV 1270
Query: 213 YFAIRDAIDAYRKQEL--GREDYYRLDSPATPAKIRLLCEDSITKEFPAPEPGSYKPWNI 270
+FAI+DAI A R Q ++ +RLDSPATP KIR C D T PG+ KPW++
Sbjct: 1271 FFAIKDAIRAARAQHTNNNTKELFRLDSPATPEKIRNACVDKFTTLCVTGAPGNCKPWSL 1330
Query: 271 SI 272
+
Sbjct: 1331 RV 1332
>3nvz_C Xanthine dehydrogenase/oxidase; hydroxylase, homodimer, xanthine
oxidase, indole-3-aldehyde, oxidoreductase; HET: FAD MTE
I3A; 1.60A {Bos taurus} PDB: 3ns1_C* 3etr_C* 3nvv_C*
3nvw_C* 3nrz_C* 3nvy_C* 3eub_C* 3b9j_C* 1fiq_C* 3rca_C*
3sr6_C*
Length = 755
Score = 332 bits (854), Expect = e-109
Identities = 136/234 (58%), Positives = 172/234 (73%), Gaps = 2/234 (0%)
Query: 33 QDACSKLNERLKPYKEKNPTGKWQDWVKAAFFDRTSLAATGYFKTPDIGYDMKKNEGAIF 92
+AC + +RL+P+K+KNP G W+DWV AA+ DR SL+ TG+++TP++GY + N G F
Sbjct: 521 YEACQTILKRLEPFKKKNPDGSWEDWVMAAYQDRVSLSTTGFYRTPNLGYSFETNSGNAF 580
Query: 93 NYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEE 152
+YF YG + SEVEIDCLTGDH+ T+IVMDVG SLNPAID+GQVEGAF+QG GL+ +EE
Sbjct: 581 HYFTYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTLEE 640
Query: 153 LMFSPSGVLYTRGPGTYKIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSV 212
L +SP G L+TRGP TYKIP F IP EF VSLL+ PN +A+Y+SKAVGEPPL L +SV
Sbjct: 641 LHYSPEGSLHTRGPSTYKIPAFGSIPTEFRVSLLRDCPNKKAIYASKAVGEPPLFLGASV 700
Query: 213 YFAIRDAIDAYRKQEL--GREDYYRLDSPATPAKIRLLCEDSITKEFPAPEPGS 264
+FAI+DAI A R Q ++ +RLDSPATP KIR C D T PG+
Sbjct: 701 FFAIKDAIRAARAQHTNNNTKELFRLDSPATPEKIRNACVDKFTTLCVTGAPGN 754
>2w3s_B Xanthine dehydrogenase; XO, XDH, GOUT, iron, 2Fe-2S, iron-sulfur,
oxidoreductase, purine metabolism, molybdenum cofactor,
hypoxanthine; HET: MPN FAD XAN; 2.60A {Rhodobacter
capsulatus} PDB: 1jrp_B* 2w3r_B* 1jro_B* 2w54_B* 2w55_B*
Length = 777
Score = 298 bits (766), Expect = 3e-96
Identities = 89/238 (37%), Positives = 129/238 (54%), Gaps = 25/238 (10%)
Query: 33 QDACSKLNERLKPY-------------------KEKNPTGKWQDWVKAAFFDRTSLAATG 73
+DAC L RL + + + ++ + V AA+ R SL+ATG
Sbjct: 541 KDACETLRGRLAGFVAAREGCAARDVIFDAGQVQASGKSWRFAEIVAAAYMARISLSATG 600
Query: 74 YFKTPDIGYDMKKNEGAIFNYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESLNPAID 133
++ TP + +D + +G F YF YGA+++EV ID LTG++++ T+I+ D G SLNPA+D
Sbjct: 601 FYATPKLSWDRLRGQGRPFLYFAYGAAITEVVIDRLTGENRILRTDILHDAGASLNPALD 660
Query: 134 VGQVEGAFMQGYGLYVMEELMFSPSGVLYTRGPGTYKIPGFADIPAEFNVSLLKGAPNPR 193
+GQ+EGA++QG G EEL++ G L T P TYKIP F+D P FNV+L
Sbjct: 661 IGQIEGAYVQGAGWLTTEELVWDHCGRLMTHAPSTYKIPAFSDRPRIFNVALWDQPNREE 720
Query: 194 AVYSSKAVGEPPLLLASSVYFAIRDAIDAYRKQELGREDYYRLDSPATPAKIRLLCED 251
++ SKAVGEPP LL S + A+ DA A + L +PATP +
Sbjct: 721 TIFRSKAVGEPPFLLGISAFLALHDACAACGPH------WPDLQAPATPEAVLAAVRR 772
>1vlb_A Aldehyde oxidoreductase; iron-sulphur cluster; HET: PCD; 1.28A
{Desulfovibrio gigas} SCOP: a.56.1.1 d.15.4.2 d.41.1.1
d.133.1.1 PDB: 1sij_A* 1zcs_A* 3fah_A* 3fc4_A* 3l4p_A*
Length = 907
Score = 213 bits (545), Expect = 1e-63
Identities = 47/218 (21%), Positives = 79/218 (36%), Gaps = 20/218 (9%)
Query: 33 QDACSKLNERLKPYKEKNPTGKWQDWVKAAFFDRTSLAATGYFKTPDIGYDMKKNEGAIF 92
+ AC L + + P G + + + D+ + + + D G F
Sbjct: 709 RVACENLLKACE-----KPGGGYYTYDELKAADKPTKITGNWTASGATHCDAVTGLGKPF 763
Query: 93 NYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEE 152
+ YG ++EV +D TG V ++ D+G N GQ+ G QG GL + E+
Sbjct: 764 VVYMYGVFMAEVTVDVATGQTTVDGMTLMADLGSLCNQLATDGQIYGGLAQGIGLALSED 823
Query: 153 LMFSPSGVLYTRGPGTYKIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSV 212
P IP + ++ + P P + + VGE PL +S
Sbjct: 824 FEDIKKHATLV----GAGFPFIKQIPDKLDIVYVN-HPRPDGPFGASGVGELPL---TSP 875
Query: 213 YFAIRDAIDAYRKQELGREDYYRLDSPATPAKIRLLCE 250
+ AI +AI + PA P K+ +
Sbjct: 876 HAAIINAIKSAT-------GVRIYRLPAYPEKVLEALK 906
>1dgj_A Aldehyde oxidoreductase; beta half-barrel, four-helix bundle, beta
barrel; HET: MCN; 2.80A {Desulfovibrio desulfuricans}
SCOP: a.56.1.1 d.15.4.2 d.41.1.1 d.133.1.1
Length = 907
Score = 195 bits (499), Expect = 4e-57
Identities = 49/215 (22%), Positives = 82/215 (38%), Gaps = 24/215 (11%)
Query: 33 QDACSKLNERLKPYKEKNPTGKWQDWVKAAFFDRTSLAATGYFKTPDIGYDMKKNEGAIF 92
+ AC L E ++ P G + + + + G + P D K +G+ F
Sbjct: 711 RVACEMLIEGMRK-----PGGGFFTPAEMKA-EGRPMRYDGKWTAPAKDCD-AKGQGSPF 763
Query: 93 NYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEE 152
+ YG ++EV ++ TG V V D+G+ N + GQ+ G QG GL + E+
Sbjct: 764 ACYMYGLFLTEVAVEVATGKATVEKMVCVADIGKICNKLVVDGQIYGGLAQGVGLALSED 823
Query: 153 LMFSPSGVLYTRGPGTYKIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLL-ASS 211
+ G IP IP + + ++ P + + VGE PL ++
Sbjct: 824 Y----EDLKKHSTMGGAGIPSIKMIPDDIEIVYVE-TPRKDGPFGASGVGEMPLTAPHAA 878
Query: 212 VYFAIRDAIDAYRKQELGREDYYRLDSPATPAKIR 246
+ I +A A PA P K+
Sbjct: 879 IINGIYNACGA-----------RVRHLPARPEKVL 902
>3hrd_B Nicotinate dehydrogenase medium molybdopterin subunit; selenium
ligand, iron, iron-sulfur, metal-binding,
oxidoreductase; HET: MCN FAD; 2.20A {Eubacterium
barkeri}
Length = 330
Score = 163 bits (415), Expect = 1e-48
Identities = 50/193 (25%), Positives = 80/193 (41%), Gaps = 15/193 (7%)
Query: 55 WQDWVKAAFFDRTSLAATGYFKTPDIGYDMKKNEGAIFNYFGYGASVSEVEIDCLTGDHQ 114
+ + + A G + G + G F + Y +++EVE+D TG+
Sbjct: 142 YGELMAAMKAAGRMAVGAGSYNPNTTGLAPENMSGIPFEVYSYATTIAEVEVDTETGEVD 201
Query: 115 VRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEELMF-SPSGVLYTRGPGTYKIPG 173
V DVG +N ++ GQ+EG G G +MEE+ + +G + Y IP
Sbjct: 202 VLKVVSAHDVGTPINRSMVEGQIEGGVTMGQGFVLMEEIEVNTKNGAIKNPSMSKYIIPS 261
Query: 174 FADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLL-ASSVYFAIRDAIDAYRKQELGRED 232
D+P E + L++ + + +K VGEP L+ +V AI DA LG
Sbjct: 262 NRDVP-EIHSILVE-SEGGPGPFGAKGVGEPALIPMIPAVVAAIEDA--------LGTRF 311
Query: 233 YYRLDSPATPAKI 245
+P P I
Sbjct: 312 ---THTPIMPKDI 321
>1rm6_A 4-hydroxybenzoyl-COA reductase alpha subunit; xanthine oxidase
family, dimer heterotrimers, oxidoreductase; HET: PCD
FAD SF4 EPE; 1.60A {Thauera aromatica} SCOP: d.41.1.1
d.133.1.1 PDB: 1sb3_A*
Length = 769
Score = 104 bits (262), Expect = 2e-25
Identities = 50/195 (25%), Positives = 85/195 (43%), Gaps = 18/195 (9%)
Query: 55 WQDWVKAAFFDRTSLAATGYFKTPDIGYDMKKNEGAIFNY---FGYGASVSEVEIDCLTG 111
+Q+ VKAA D ++ G + P KK G+ F Y A V E +D +TG
Sbjct: 578 FQEVVKAAMVDSGTITVKGTYTCPTEFQGDKKIRGSAIGATMGFCYAAQVVEASVDEITG 637
Query: 112 DHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEELMFSPSGVLYTRGPGTYKI 171
+ +DVG++LNP GQ +G G G + EE ++ +G + Y++
Sbjct: 638 KVTAHKVWVAVDVGKALNPLAVEGQTQGGVWMGMGQALSEETVYD-NGRMVHGNILDYRV 696
Query: 172 PGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSVYFAIRDAI-DAYRKQELGR 230
P + P + V +++ + +P + +K E L AI +A+ +A +G
Sbjct: 697 PTIVESP-DIEVIIVE-SMDPNGPFGAKEASEGMLAGFLP---AIHEAVYEA-----VGV 746
Query: 231 EDYYRLDSPATPAKI 245
D P +P +I
Sbjct: 747 RAT---DFPLSPDRI 758
>1t3q_B Quinoline 2-oxidoreductase large subunit; QOR, molybdenum, MCD;
HET: FAD MCN; 1.80A {Pseudomonas putida} SCOP: d.41.1.1
d.133.1.1
Length = 788
Score = 99.6 bits (249), Expect = 1e-23
Identities = 48/178 (26%), Positives = 71/178 (39%), Gaps = 24/178 (13%)
Query: 69 LAATGYFKTPDIGYDMKKNEGAIFNYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESL 128
L AT + D+ G + VEID T +V V D G +
Sbjct: 624 LEATATYDPSDLVL-------------ANGGHAAIVEIDASTYATRVTDFFAVEDCGTMI 670
Query: 129 NPAIDVGQVEGAFMQGYGLYVMEELMFSPSGVLYTRGPGTYKIPGFADIPAEFNVSLLKG 188
NP I GQ+ G Q G ++EE+++ G L T Y IP D+P + + L
Sbjct: 671 NPMIVEGQIRGGIAQAIGQTLLEEVIYDDFGQLVTTTLMDYLIPTTLDVP-DIRIRHL-E 728
Query: 189 APNPRAVYSSKAVGEPPLLLASSVYFAIRDAI-DAYRKQELGREDYYRLDSPATPAKI 245
P+P K +GE ++ A + A+ A+ DA L + P TP +I
Sbjct: 729 TPSPLVPGGIKGMGESAMISAPA---AVVAAVNDA-----LAHLEVVIETVPITPERI 778
>1n62_B Carbon monoxide dehydrogenase large chain; CODH, molybdenum,
molybdopterin, oxidoreductase; HET: CUB MCN FAD; 1.09A
{Oligotropha carboxidovorans} SCOP: d.41.1.1 d.133.1.1
PDB: 1n5w_B* 1n61_B* 1n60_B* 1n63_B* 1zxi_B*
Length = 809
Score = 96.9 bits (242), Expect = 8e-23
Identities = 39/197 (19%), Positives = 72/197 (36%), Gaps = 29/197 (14%)
Query: 55 WQDWVKAAFFDRT-----SLAATGYFKTPDIGYDMKKNEGAIFNYFGYGASVSEVEIDCL 109
++ A++ L A Y+ P++ Y +GA ++ID
Sbjct: 625 MKELAWASYNSPPPNLEPGLEAVNYYDPPNMTY-------------PFGAYFCIMDIDVD 671
Query: 110 TGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEELMFSPSGVLYTRGPGTY 169
TG + R + D G +NP I GQV G + + + + +E+ + G + +
Sbjct: 672 TGVAKTRRFYALDDCGTRINPMIIEGQVHGGLTEAFAVAMGQEIRYDEQGNVLGASFMDF 731
Query: 170 KIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSVYFAIRDAI-DAYRKQEL 228
+P + P ++ P+P +K VGE P + +A+ DAY L
Sbjct: 732 FLPTAVETP-KWETDYT-VTPSPHHPIGAKGVGESPHVGGVP---CFSNAVNDAYA--FL 784
Query: 229 GREDYYRLDSPATPAKI 245
P ++
Sbjct: 785 NAGHI---QMPHDAWRL 798
>1ffv_B CUTL, molybdoprotein of carbon monoxide dehydrogenase; hydrolase;
HET: ARO PCD FAD; 2.25A {Hydrogenophaga pseudoflava}
SCOP: d.41.1.1 d.133.1.1 PDB: 1ffu_B*
Length = 803
Score = 97.0 bits (242), Expect = 1e-22
Identities = 44/197 (22%), Positives = 73/197 (37%), Gaps = 29/197 (14%)
Query: 55 WQDWVKAAFFDRT-----SLAATGYFKTPDIGYDMKKNEGAIFNYFGYGASVSEVEIDCL 109
D A+ L A Y+ P+ Y +G + V+ID
Sbjct: 619 MADIAWQAYHQPPAGLEPGLEAVHYYDPPNFTY-------------PFGIYLCVVDIDRA 665
Query: 110 TGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEELMFSPSGVLYTRGPGTY 169
TG+ +VR + D G +NP I GQ+ G +GY + + +++ F G L Y
Sbjct: 666 TGETKVRRFYALDDCGTRINPMIIEGQIHGGLTEGYAVAMGQQMPFDAQGNLLGNTLMDY 725
Query: 170 KIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSVYFAIRDAI-DAYRKQEL 228
+P + P + P+P +K V E P + + A+ DA+ +
Sbjct: 726 FLPTAVETP-HWETDHT-VTPSPHHPIGAKGVAESPHVGSIP---TFTAAVVDAFA--HV 778
Query: 229 GREDYYRLDSPATPAKI 245
G D P T ++
Sbjct: 779 GVTHL---DMPHTSYRV 792
>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 = 32.3 bits (73), Expect = 0.22
Identities = 45/235 (19%), Positives = 72/235 (30%), Gaps = 71/235 (30%)
Query: 55 WQDWVKAA-------FF--DRTSLAATGYFKTPDIGYDMKKN-EG------AIFNYFGYG 98
W+ + + FF R A P I D +N EG +I
Sbjct: 289 WESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI-----SN 343
Query: 99 ASVSEVE--ID----CLTGDHQVRATEIVMDVGESL-N-PAIDVGQVEGAFMQGYGLYVM 150
+ +V+ ++ L QV EI SL N V V G YGL +
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQV---EI------SLVNGAKNLV--VSGPPQSLYGLNLT 392
Query: 151 EELMFSPSGVLYTRGPGTYKIP----GFADIPAEFNVSLLKGA--------PNPRAVYSS 198
+PSG+ +R P + + F + + F+ LL A +++
Sbjct: 393 LRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA 452
Query: 199 KAVGEPPLLLASSVYFAIRDAIDAYRKQELGREDYYRLDSPATPAKIRLLCEDSI 253
K + P VY D D R L + + + +
Sbjct: 453 KDIQIP-------VY-DTFDGSDL-------RV----LSGSISERIVDCIIRLPV 488
>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 = 30.6 bits (69), Expect = 0.50
Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 4/63 (6%)
Query: 170 KIPGFADIPAEFNVSLLKGAPN----PRAVYSSKAVGEPPLLLASSVYFAIRDAIDAYRK 225
IPGF D+ +E + LLK + R+ S + + D A
Sbjct: 78 MIPGFRDLTSEDQIVLLKSSAIEVIMLRSNESFTMDDMSWTCGNQDYKYRVSDVTKAGHS 137
Query: 226 QEL 228
EL
Sbjct: 138 LEL 140
>1z2z_A Probable tRNA pseudouridine synthase D; alpha-beta protein.,
structural genomics, PSI, protein structure initiative;
2.60A {Methanosarcina mazei}
Length = 446
Score = 30.7 bits (68), Expect = 0.51
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 226 QELGREDYYRLDSPATPAKIRLLCEDSITKEFPAPEPGSYKPW 268
+++G Y D+ ++R ED I KE E G +
Sbjct: 8 KQIGIN-LYSTDTTGLGGQLRQEIEDFIVKEITNREEGEEGKY 49
>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 = 29.8 bits (67), Expect = 0.91
Identities = 17/63 (26%), Positives = 23/63 (36%), Gaps = 4/63 (6%)
Query: 170 KIPGFADIPAEFNVSLLKGAPN----PRAVYSSKAVGEPPLLLASSVYFAIRDAIDAYRK 225
IPGF D+ AE ++LLK + R+ S + I D A
Sbjct: 124 MIPGFRDLTAEDQIALLKSSAIEIIMLRSNQSFSLEDMSWSCGGPDFKYCINDVTKAGHT 183
Query: 226 QEL 228
EL
Sbjct: 184 LEL 186
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human
spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 3s3m_A* 3l2q_A
3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A*
3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A*
3oyb_A* 3oyg_A* ...
Length = 395
Score = 29.7 bits (67), Expect = 1.2
Identities = 5/31 (16%), Positives = 8/31 (25%)
Query: 164 RGPGTYKIPGFADIPAEFNVSLLKGAPNPRA 194
P T I ++ LK +
Sbjct: 350 LNPRTVVILDHLGNNRTVSIDNLKPTSHQNG 380
>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 = 29.4 bits (66), Expect = 1.3
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++PGF + E ++LLK +
Sbjct: 110 QLPGFLQLSREDQIALLKTS 129
>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 = 29.5 bits (66), Expect = 1.3
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
IPGFA++ V+LLK
Sbjct: 92 AIPGFANLDLNDQVTLLKYG 111
>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 = 29.2 bits (66), Expect = 1.3
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++PGF + E ++LLK
Sbjct: 74 RLPGFDKLLREDQIALLKAC 93
>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 = 28.9 bits (65), Expect = 1.3
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
+IPGF D+ V+LLK
Sbjct: 42 RIPGFRDLSQHDQVNLLKAG 61
>2qjw_A Uncharacterized protein XCC1541; putative hydrolase of the
alpha/beta superfamily, structural genomics; HET: MSE
TLA P6G; 1.35A {Xanthomonas campestris PV}
Length = 176
Score = 28.7 bits (64), Expect = 1.4
Identities = 6/51 (11%), Positives = 16/51 (31%), Gaps = 2/51 (3%)
Query: 92 FNYFGYGASVSEVEIDCLTGDHQVRATEIVMDVGESLNPAIDVGQVEGAFM 142
++ A ++ + G Q + P + G G+++
Sbjct: 39 PDFTDLDARRDLGQLGDVRGRLQRLLE--IARAATEKGPVVLAGSSLGSYI 87
>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 = 1.4
Identities = 7/20 (35%), Positives = 9/20 (45%), Gaps = 1/20 (5%)
Query: 33 QDACSKLNERLKPYK-EKNP 51
+ A KL LK Y + P
Sbjct: 19 KQALKKLQASLKLYADDSAP 38
>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 = 28.8 bits (65), Expect = 1.6
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
K+PGF + E ++LLKG+
Sbjct: 64 KLPGFQTLDHEDQIALLKGS 83
>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 = 28.6 bits (64), Expect = 2.0
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
K+P F+++P E + LLKG
Sbjct: 92 KLPMFSELPXEDQIILLKGC 111
>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 = 28.5 bits (64), Expect = 2.1
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
+P F +P E +SLLKGA
Sbjct: 76 DLPVFRSLPIEDQISLLKGA 95
>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 = 28.6 bits (64), Expect = 2.1
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++PGF + E ++LLK
Sbjct: 138 RLPGFDKLIREDQIALLKAC 157
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 28.6 bits (64), Expect = 2.3
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
IPGF D+ V+LLK
Sbjct: 87 HIPGFRDLSQHDQVTLLKAG 106
>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 = 28.5 bits (64), Expect = 2.3
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
+PGFA I ++LLK
Sbjct: 90 GLPGFAKISQSDQITLLKAC 109
>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 = 28.4 bits (63), Expect = 2.5
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++ F +I SLLKG
Sbjct: 63 RLGAFNEISEAGKFSLLKGG 82
>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 = 28.3 bits (63), Expect = 2.5
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
+I GF ++ + LLK
Sbjct: 72 RITGFMELCQNDQILLLKSG 91
>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 = 28.3 bits (63), Expect = 2.7
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
+I GF ++ + LLK
Sbjct: 87 RIDGFMELCQNDQIVLLKAG 106
>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 = 28.1 bits (63), Expect = 2.7
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++PGF + ++LLK A
Sbjct: 66 RLPGFTGLSIADQITLLKAA 85
>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 = 28.3 bits (63), Expect = 2.7
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
IPGF D+ ++ + LLK +
Sbjct: 81 MIPGFRDLTSDDQIVLLKSS 100
>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 = 28.3 bits (63), Expect = 3.0
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++P F D+ + +LLKG
Sbjct: 63 RLPAFNDLSQDGKFALLKGG 82
>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 = 28.1 bits (63), Expect = 3.3
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
KIPG+ D+ E L + A
Sbjct: 69 KIPGYFDLLPEDQELLFQSA 88
>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 = 28.0 bits (62), Expect = 3.4
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 170 KIPGFADIPAEFNVSLLKGAPNP----RAVYSSKAVGEPPLLLASSVY 213
IP F + + N SL++ N ++ + +L A +
Sbjct: 56 SIPAFQALGQDCNTSLVRACWNELFTLGLAQCAQVMSLSTILAAIVNH 103
>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 = 27.8 bits (62), Expect = 4.0
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++PGF + ++LLK A
Sbjct: 93 RLPGFTGLTIADQITLLKAA 112
>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 = 27.8 bits (62), Expect = 4.1
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
++PGF + ++LLK A
Sbjct: 90 QLPGFTTLTIADQITLLKAA 109
>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 = 27.9 bits (61), Expect = 4.5
Identities = 28/182 (15%), Positives = 59/182 (32%), Gaps = 45/182 (24%)
Query: 106 IDCLTGDHQVRATEIVMDVGESLNPAIDVGQVEGAFMQGYGLYVMEELMFSPSGVLYTRG 165
+D TG+HQ + +I+ ++ D V+ ++ ++ S V
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS---- 62
Query: 166 PGTYKIPGFADIPAEFNVSLLKGAPNPRAVYSSKAVGEPPLLLASSVYFAIRDAIDAYRK 225
GT ++ F L K V K V E +L + Y + I ++
Sbjct: 63 -GTLRL---------FWTLLSKQE---EMVQ--KFVEE---VLRIN-YKFLMSPIKTEQR 103
Query: 226 QELGREDYYRLDSPATPAKIRLLCEDSITKEFPAPEPGSYKPWNISIQTSYRPEIEERKR 285
Q P+ + + + + + + + +N+S R + + R
Sbjct: 104 Q---------------PSMMTRMYIEQRDRLYNDNQV--FAKYNVS-----RLQPYLKLR 141
Query: 286 TG 287
Sbjct: 142 QA 143
>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 = 27.4 bits (61), Expect = 5.4
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
IPGF ++ V+LLK
Sbjct: 95 SIPGFVNLDLNDQVTLLKYG 114
>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 = 26.6 bits (59), Expect = 9.4
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 170 KIPGFADIPAEFNVSLLKGA 189
KIPGF ++ LL+ A
Sbjct: 89 KIPGFIELSPGDQDLLLESA 108
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
0.317 0.135 0.417
Gapped
Lambda K H
0.267 0.0628 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,547,684
Number of extensions: 269541
Number of successful extensions: 543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 523
Number of HSP's successfully gapped: 45
Length of query: 287
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 194
Effective length of database: 4,105,140
Effective search space: 796397160
Effective search space used: 796397160
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: 57 (26.0 bits)