RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1277
(1312 letters)
>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 = 74.9 bits (183), Expect = 1e-13
Identities = 103/710 (14%), Positives = 195/710 (27%), Gaps = 266/710 (37%)
Query: 594 EQIVKK--DFALDPDEGRMRSAAHHIARNLTAGMAM-ITCRDQLQQSIKANLKHLFTTAI 650
E++V+K + L + + S R + M I RD+L + K+
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY------ 129
Query: 651 TVIENLLDGHTHIPNDPELTLRYKDLHLRIVKALQDLRA------FGVQWTNKQITRCLI 704
++ R +L++ +AL +LR GV + K +
Sbjct: 130 -----------NVS-------R-LQPYLKLRQALLELRPAKNVLIDGVLGSGKT---WV- 166
Query: 705 ECREEYRYNLEAVDTLIRAQLIHLPQYDLALAHSMENGLNYVAVAFC---MQLLQHYLVE 761
A+D + M+ + ++ + C +L+
Sbjct: 167 -----------ALDVC----------LSYKVQCKMDFKIFWLNLKNCNSPETVLE----- 200
Query: 762 ERGTAGVTESDMLNTLEVLIR-----IASHHRQPPEGLTALIDMLRANHHDQPMLVERAP 816
ML L I + H + ++ LR L++ P
Sbjct: 201 -----------MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR-------RLLKSKP 242
Query: 817 GAQTLNSGLPNFSLNAATGPAVHIHSGILQVRGIRDLDDPPGLFEKTEYLLREWVTIYHS 876
L L L +
Sbjct: 243 YENCL---L--------------------------VLLN--------------------- 252
Query: 877 PAGVKDPN--KAFTLFVHQMNCHGILKSDELITRFFRFATSLVVGVSPTPT---RSKMF- 930
V++ AF L +C IL L TRF + L + + S
Sbjct: 253 ---VQNAKAWNAFNL-----SCK-IL----LTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 931 --QTLDAYAK----------------------LIALLVKHSGSGEHAN--SNTKINLLNK 964
+ K +IA ++ + N K +K
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR-----DGLATWDNWKHVNCDK 354
Query: 965 VLGIISGVL--ITDQEARQHEFHQLPYHRIFIMLFLE-LNVPDPVLEAI--------NFQ 1013
+ II L + E R+ + R+ + F ++P +L I
Sbjct: 355 LTTIIESSLNVLEPAEYRKM------FDRLSV--FPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 1014 VLSAYCSVLHILRPSKQPGFAYA----WLEIVAHRTFIGRMLVITPHQKVLSAY----CS 1065
V++ + + K+ + +LE+ + H+ ++ Y
Sbjct: 407 VVNKLHKYSLVEKQPKE--STISIPSIYLELKVKLENEYAL-----HRSIVDHYNIPKTF 459
Query: 1066 VLHILRPSKQPGFAYAWLEIVAHRTFIGRMLVITPHQKGWPLYAQLLIDIFKFLAPFLRN 1125
L P + Y + IG L H + L+ + +D F+FL +R+
Sbjct: 460 DSDDLIPPYLDQYFY---------SHIGHHLKNIEHPERMTLFRMVFLD-FRFLEQKIRH 509
Query: 1126 VELSKPNLTFYKGVLRVLLVLLHDFPEFLCDYHYQFCDVIPANCIQMRNLILSAFPGNMR 1185
+L L L +F Y CD P ++ N IL
Sbjct: 510 ---DSTAWNASGSILNTLQQL-----KF---YKPYICDNDPKY-ERLVNAILD------- 550
Query: 1186 LPDPFTPNLKVDTLADINQAPRMHADFASLIQPATFKKDLDAYLKTRSPV 1235
F P ++ + + + + L++ A +D + + V
Sbjct: 551 ----FLPKIEENLI---------CSKYTDLLRIALMAEDEAIFEEAHKQV 587
Score = 71.4 bits (174), Expect = 2e-12
Identities = 78/620 (12%), Positives = 169/620 (27%), Gaps = 161/620 (25%)
Query: 321 HHIARNLTAGMAMITCRDQL---QQSIKANL---------KHLFTTA----ITNATPQQK 364
HH + G +D L + + N K + + I +
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS-KDAV 61
Query: 365 ELMDQTVTICAGDNMELACAFIQKTAIEKALPDIDKHLAGEY-----ERRKHARSEQRRY 419
+ E+ F+ + + + + E R + R Y
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFV-EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 420 CDSQVLT-YQAERMPEQIRLK--------VGGVTPQQMA----------------VYEEF 454
D+QV Y R+ ++L+ V + V +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 455 ARNIPGF-----------------QPLSERDAALFLPKPEPPPPGPPVSAFNGVDEMGTI 497
I F Q L + + + + + +
Sbjct: 181 DFKI--FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK-----LRIHSIQAE 233
Query: 498 YDKLISEVEIFLASLVTLVGVQN------------TLLPSSLHALIEALVALRRTR---- 541
+L+ + + L+ L+ VQN LL + + + L A T
Sbjct: 234 LRRLLKS-KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 542 DAHSAVALIQKLALF-------------QAQPVLKPLVRTAVERSIHEWISLVVERAVKI 588
+ + +L + P + + SI + ++ + +
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN-PRRLSIIAESIRDGLATW-DNWKHV 350
Query: 589 AVNTAEQIVKKDF-ALDPDEGRMRSAAHHIAR---NLTAGMAMI--------TCRDQLQQ 636
+ I++ L+P E R + ++ + + + +
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 637 SIKANL--KHLFTTAITVIENLLDGHTHIPNDPELTLRYKDLHLRIVKALQDLRAFGVQW 694
K +L K + I++ L+ + N+ L H IV + F
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL-------HRSIVDHYNIPKTF--DS 461
Query: 695 TNKQITRCLIECREEYRYNLEAVDTLIRAQLI--HLPQYDLALAHSMENGLNYVAVAFCM 752
+ + ++Y Y+ I HL + ++ + ++ F
Sbjct: 462 DD-----LIPPYLDQYFYS-----------HIGHHLKNIEHPERMTLFRMV-FLDFRFLE 504
Query: 753 QLLQHYLVEERGTAGVTESDMLNTLEVLIR----IASHHRQPPEGLTALIDML-RANHHD 807
Q ++H TA +LNTL+ L I + + + A++D L + +
Sbjct: 505 QKIRH-----DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN- 558
Query: 808 QPMLVERAPGAQTLNSGLPN 827
+ + L L
Sbjct: 559 ----LICSKYTDLLRIALMA 574
Score = 64.9 bits (157), Expect = 1e-10
Identities = 91/644 (14%), Positives = 181/644 (28%), Gaps = 247/644 (38%)
Query: 830 LNAATGPAVHIHSGILQV---RGIRDLDDPPGLFEKTEYLLREWVT------IYHSPAGV 880
++ TG + + IL V + + D + + + + ++ I S
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFD-----CKDVQDMPKSILSKEEIDHIIMSK--- 58
Query: 881 KDPNKAFTLFVHQMNCHGIL--KSDELITRF--------FRFATSLVVGVSPTPT----- 925
+ LF L K +E++ +F ++F S + P+
Sbjct: 59 DAVSGTLRLF-------WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 926 ----RSKMFQTLDAYAKLIALLVKHSGSGEHANSNTKINLLNKVL-------GII----- 969
R +++ +AK + + L + L ++
Sbjct: 112 YIEQRDRLYNDNQVFAKY------------NVSRLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 970 -SG--VLITDQEARQHEFHQLPYHRIFIMLFLELNVPDPVLEAIN---FQVLSAYCSVLH 1023
SG + D ++ +IF + N P+ VLE + +Q+ + S
Sbjct: 160 GSGKTWVALDV-CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 1024 ILRPSKQPGFAYAWLEIVAHRTFIGRMLVITPHQKVLSAYCSVLHILRPSKQPGFAYAWL 1083
K + + + R+L P++ L L +L +
Sbjct: 219 HSSNIKLR------IHSIQAE--LRRLLKSKPYENCL------L-VLLNVQNA------- 256
Query: 1084 EIVAHRTF-IG-RMLVITPHQKGWPLYAQLLIDIFKFLAPFLR-NVELSKPNLTFYKG-- 1138
+ F + ++L+ T + FL+ ++ L ++T
Sbjct: 257 KAW--NAFNLSCKILLTTRF-----------KQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 1139 ---VLRVLLVLLHDFPEFLCDYHYQFCDVIPA---------------NCIQMRNLI---- 1176
+L+ L D P + + + +I NC ++ +I
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
Query: 1177 --------------LSAFPGNMRLP---------------------------------DP 1189
LS FP + +P
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 1190 FT---PNLKVDTLADINQAPRMHADFASLIQ----PATFKKD------LDAY-------- 1228
T P++ ++ + +H S++ P TF D LD Y
Sbjct: 424 STISIPSIYLELKVKLENEYALH---RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480
Query: 1229 LKTRS--------PVTFL------AEVRAAVQVSHEPGSRYNT----------------- 1257
LK + FL ++R + GS NT
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK 540
Query: 1258 --ELMNAIVLYVGTQAILSIRAK-------SLSPNNKTIAHSAH 1292
L+NAI+ ++ I +K +L ++ I AH
Sbjct: 541 YERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAH 584
Score = 58.3 bits (140), Expect = 2e-08
Identities = 84/602 (13%), Positives = 165/602 (27%), Gaps = 201/602 (33%)
Query: 11 HVLYSNFLDEIKLPDVTDM------------VIKE------TYRNIKVLLRS-DKGIANF 51
V F+D DV DM +I T R LL ++ + F
Sbjct: 23 SVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF 82
Query: 52 SDRTLLKNLGHWLGMLTLGRNRPILMVDLDLKSLVAEAYKKGQQELLYVVPFVAKVMESC 111
+ L N +L PI S++ Y + + L AK +
Sbjct: 83 VEEVLRINYK-FLM-------SPIKTEQRQ-PSMMTRMYIEQRDRLYNDNQVFAKY--NV 131
Query: 112 SRSKLISEVEIFLASL-----VTLVG---------VQNTLLPSSLHALIEALV---ALRR 154
SR + ++ L L V + G + L + ++ + L+
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 155 TRDAHSAVALIQK---DLVPSYYLKDPDN-----LKFSELQLAVTH---KKPPPQALTQP 203
+ + ++QK + P+ + D+ L+ +Q + KP L
Sbjct: 192 CNSPETVLEMLQKLLYQIDPN-WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-- 248
Query: 204 AI--NAQSSGAAAQTMAAQSSTPPLTMQQPPEPRYSYTSVNVANI--GNIAPHIVINSQ- 258
+ N Q++ A T R+ V + HI ++
Sbjct: 249 -VLLNVQNA-KAWNAFNLSCKILLTT-------RFK----QVTDFLSAATTTHISLDHHS 295
Query: 259 --------LALF-------------QAQPVLKPLVRTAVERSIHEWISLVVERAVKIAVN 297
+L + P + + SI + ++ + + +
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTN-PRRLSIIAESIRDGLAT-WDNWKHVNCD 353
Query: 298 TAEQIVKKDF-ALDPDEGRMRSAAHHIARNLTAGMAMITCRDQLQQSIKANLKHLFTT-A 355
I++ L+P E + +F +
Sbjct: 354 KLTTIIESSLNVLEPAE----------------------------------YRKMFDRLS 379
Query: 356 I----TNATPQQKELM-DQTVTICAGDNMELACAFIQKTAIEK-------ALPDI--DKH 401
+ + L+ + D M + + + +EK ++P I +
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKS---DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 402 LAGEYERRKHAR-----SEQRRYC---------DSQVLTY---------QAERMPEQ--- 435
+ E E H + + + D ++ ERM
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 436 ------IRLKV----------GGVTP--QQMAVYEEF-ARNIPGFQPLSERDAALFLPKP 476
+ K+ G + QQ+ Y+ + N P ++ L FLPK
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERL-VNAILDFLPKI 555
Query: 477 EP 478
E
Sbjct: 556 EE 557
>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 = 73.2 bits (179), Expect = 5e-13
Identities = 91/589 (15%), Positives = 162/589 (27%), Gaps = 190/589 (32%)
Query: 117 ISEVEI------FLASLVTLVGVQNTLLPSSLHALIEALVALRRT----RDAHSAVALI- 165
+ E+ +++SLV + + + L L D H+ A +
Sbjct: 55 TTPAELVGKFLGYVSSLV-----EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLL 109
Query: 166 ---------QKDLVPSYYLKDPDNLKFSELQLAVTHKKPPPQALTQPAINAQSSGAAAQT 216
K+L+ +Y + + K AL A G A Q
Sbjct: 110 QENDTTLVKTKELIKNYIT--------ARIMAKRPFDKKSNSAL----FRAVGEGNA-QL 156
Query: 217 MAA---Q-SSTPPLTMQQPPEPRYSYTSVNVANIGNIAPHIVINSQLALFQAQPVLKPLV 272
+A Q ++ E R Y +V + + L L+
Sbjct: 157 VAIFGGQGNTDDYF-----EELRDLY---------QTYHVLV---GDLIKFSAETLSELI 199
Query: 273 RTAVERS--------IHEWISLVVER---------AVKIAVNTAEQ-----IVKKDFALD 310
RT ++ I EW+ + + Q + K
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
Query: 311 PDE--GRMRSAAHHIARNLTA-GMAMITCRDQLQQSIKANLKHLFT--TAITNATPQQKE 365
P E ++ A H +TA +A + S++ + LF A P
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT-S 318
Query: 366 LMDQTVTICAGDN------MELACAFIQKTAIEKALPDIDKHLAGEYERRKHARSEQRRY 419
L + +N M L+ + + + ++ + + HL
Sbjct: 319 LPPSILEDSLENNEGVPSPM-LSISNLTQEQVQDYVNKTNSHLPA--------------- 362
Query: 420 CDSQVLTYQAERMPEQIRLK-------VGGVTPQQMAVYEEFARNI---PGF-Q---PLS 465
QV +I L V G PQ + R G Q P S
Sbjct: 363 -GKQV----------EISLVNGAKNLVVSG-PPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 466 ERDAAL---FLPKPEPPPPGPPVSA-FNGVDEMGTIYDKLISEVEIFLASLVTLVGVQNT 521
ER FL PV++ F+ + L+ ++ LV +
Sbjct: 411 ERKLKFSNRFL----------PVASPFH------SHL--LVPASDLINKD---LVKNNVS 449
Query: 522 LLPSSLHALIEALVALRRTRDAHSAVALIQKLALFQAQPVLKPLVRTAVERSIHEWISLV 581
+ + + T D ++ L + + + +V + + W
Sbjct: 450 FNAKDIQ------IPVYDTFDGSD----LRVL----SGSISERIVDCIIRLPVK-W---- 490
Query: 582 VERAVKIAVNTAEQIVKKDFALDPDEGRMRSAAHHIARNLTA-GMAMIT 629
E + A I+ DF P G RN G+ +I
Sbjct: 491 -ETTTQ---FKATHIL--DF--GP--GGASGLGVLTHRNKDGTGVRVIV 529
Score = 62.4 bits (151), Expect = 9e-10
Identities = 82/536 (15%), Positives = 149/536 (27%), Gaps = 208/536 (38%)
Query: 452 EEFARNIPGFQPLSERDAALFLPKPEPPPPGPPVSAFNGVDEMGTIYDKLISEVEI---- 507
E+F + +P P F DE + E+
Sbjct: 35 EQFNKILP-----------------------EPTEGFAADDE-------PTTPAELVGKF 64
Query: 508 --FLASLVTLVGVQNTLLPSSLHALIEALVALRRT----RDAHSAVALIQKLALFQAQPV 561
+++SLV + + + L L D H+ A
Sbjct: 65 LGYVSSLV-----EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAA------------K 107
Query: 562 LKPLVRTAVERSIHEWISLVVERAVKIAVNTAEQIVKKDFALDPDEGRMRSAAHHIARNL 621
L T + ++ E I + A A++ P + + SA + R +
Sbjct: 108 LLQENDTTLVKT-KELI-----KNYITARIMAKR---------PFDKKSNSA---LFRAV 149
Query: 622 TAGMAMI-----------TCRDQLQ---QSIKANLKHLFTTAITVIENLLDGHTHIPNDP 667
G A + ++L+ Q+ + L + + L+ D
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRT----TLDA 205
Query: 668 ELTLRYKDLHLRIVKALQD---------LRAFGVQW-----TNKQITRCLIECR------ 707
E + L I++ L++ L + + Q+ ++ +
Sbjct: 206 E---KVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI--QLAHYVVTAKLLGFTP 260
Query: 708 EEYRYNLEAVDT----LIRAQLIHLPQYDLALAHSME----NGLNYVAVAF-----CMQ- 753
E R L+ L+ A I A S E + + V F C +
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAI-------AETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Query: 754 ---------LLQHYLVEERGTAGVTESDMLN-------TLEVLIRIASHH---------- 787
+L+ L G S ML+ ++ + + H
Sbjct: 314 YPNTSLPPSILEDSLENNEGVP----SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 788 -----RQ-----PPEGLTALIDMLR----ANHHDQPMLVERAPGAQ----TLNSGLPNFS 829
+ PP+ L L LR + DQ R P ++ N LP
Sbjct: 370 LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ----SRIPFSERKLKFSNRFLP--- 422
Query: 830 LNAATGPAVHIHSGILQ--VRGI-RDLDDPPGLFEKTEYLLREWVTIYHSPAGVKD 882
P HS +L I +DL F + ++ + +Y + G D
Sbjct: 423 ---VASP---FHSHLLVPASDLINKDLVKNNVSFNAKD--IQ--IPVYDTFDG-SD 467
Score = 61.2 bits (148), Expect = 2e-09
Identities = 105/643 (16%), Positives = 188/643 (29%), Gaps = 235/643 (36%)
Query: 562 LKPLVRT--AVERSIH----EWISLVVERAVKIAVNTAEQIVKKDFAL---DPDEG---- 608
+PL + ++E + + A Q+ ++ F +P EG
Sbjct: 6 TRPLTLSHGSLEHVLLVPTASFF-------------IASQL-QEQFNKILPEPTEGFAAD 51
Query: 609 -RMRSAAHHIARNL--TAGMAMITCRDQLQQSIKANLKHLFTTAITVIENLLDG---HT- 661
+ A + + L + + + Q Q + L F L+G H
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE-FENCY------LEGNDIHAL 104
Query: 662 --HIPNDPELTLRYKDLHLR--------------------IVKALQDLRA-----FGVQW 694
+ + + TL ++ + +A+ + A FG Q
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 695 TNKQITRCLIECREEYR-YNLEAVDTLIR---AQLIHLPQYDLALAHSMENGLN------ 744
E R+ Y+ Y+ V LI+ L L + L GLN
Sbjct: 165 NT---DDYFEELRDLYQTYH-VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 745 ------------YVAVAF-CMQLLQ--HYLVEERGTAGVTESDMLNTLEVLIRIASHHRQ 789
+ ++ + ++Q HY+V + G T ++ + L+
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAK-LLGFTPGELRSYLK----------- 268
Query: 790 PPEGLTALIDMLRANHHDQPMLVERAP-GAQTLNSGLPNFSLNAATGPAVHI--HSGI-- 844
G T H Q ++ A + S F ++ A+ + G+
Sbjct: 269 ---GATG---------HSQGLVTAVAIAETDSWES----FFVSVRK--AITVLFFIGVRC 310
Query: 845 LQVRGIRDLDDPPGLFEKTEYLLREWVTIYH-----SP-AGVKDPNKAFTL-FVHQMNCH 897
+ L PP + E + + + SP + + + +V++ N H
Sbjct: 311 YEAYPNTSL--PPSILEDS---------LENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 898 GILKSDELITRFFRFATSLVVG-----VSPTPTRSKMFQTLDAYAKLIALLVKHSGSGEH 952
L + + + SLV G VS P Q+L L L K
Sbjct: 360 --LPAGKQV------EISLVNGAKNLVVSGPP------QSLYG---LNLTLRK-----AK 397
Query: 953 ANSNTKINLLNKVLGIISGVLITDQEARQHEFHQLPYH-R--IFIMLFLELNVP------ 1003
A S DQ ++P+ R F FL + P
Sbjct: 398 APSGL------------------DQ-------SRIPFSERKLKFSNRFLPVASPFHSHLL 432
Query: 1004 DPVLEAINFQVLSAYCSV----LHILRPSKQPGFA-YAWLEIVAHRTFIGRMLV--ITPH 1056
P + IN ++ S + I P + + ++ I +V I
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQI------PVYDTFDGSDLRVLSGSISERIVDCII-R 485
Query: 1057 QKV---LSAYCSVLHILR--PSKQPGFAYAWLEIVAHRTFIGR 1094
V + HIL P G L ++ HR G
Sbjct: 486 LPVKWETTTQFKATHILDFGPGGASG-----LGVLTHRNKDGT 523
Score = 56.2 bits (135), Expect = 9e-08
Identities = 66/363 (18%), Positives = 103/363 (28%), Gaps = 145/363 (39%)
Query: 93 GQQEL-----LYVVPFVAKV----MESCSRSKL-ISEVEIFLASLVTLVGVQNTLLPSSL 142
G QE LY A+ ++ + S ++I V N P +L
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDI----------VINN--PVNL 1672
Query: 143 ---------HALIEALVAL--RRTRDAHSAVALIQKDL---VPSYYLKDPDNLKFSELQL 188
+ E A+ D I K++ SY + L L
Sbjct: 1673 TIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL------L 1726
Query: 189 AVTHKKPPPQALTQPAINAQSSGAAAQTMAAQSSTPPLTMQQPPEPRYSYTSVNVANIGN 248
+ T TQPA+ AA + + ++ P A G
Sbjct: 1727 SAT-------QFTQPALTLMEK-AAFEDLKSKGLIPADAT--------------FA--G- 1761
Query: 249 IAPHIVINSQL----ALF-QAQPVLKPLVRTAVERSIHEWISLVVERAVKIAVNTAEQIV 303
H S L AL A V+ SI + +V R T + V
Sbjct: 1762 ---H----S-LGEYAALASLAD-VM----------SIESLVEVVFYRG-----MTMQVAV 1797
Query: 304 KKDFALDPDEGRMRSAAHHIARNLTAGMAMITCRDQLQQSIK------------ANLKHL 351
+D L M IA N +A ++ LQ ++ N
Sbjct: 1798 PRD-ELGRSNYGM------IAINPGR-VAASFSQEALQYVVERVGKRTGWLVEIVNY--- 1846
Query: 352 FTTAITNATPQQKELMDQTVTICAGD--NMELACAF-----IQKTAIEK-----ALPDID 399
N QQ + AGD ++ +QK I + +L +++
Sbjct: 1847 ------NVENQQ--------YVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVE 1892
Query: 400 KHL 402
HL
Sbjct: 1893 GHL 1895
Score = 50.8 bits (121), Expect = 4e-06
Identities = 72/439 (16%), Positives = 130/439 (29%), Gaps = 142/439 (32%)
Query: 7 EFNFHVLYSNFL--DEI-----KLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKN 59
EF + +L ++I KL D + +T IK + + + R K
Sbjct: 90 EFE-----NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA----RIMAKRPFDK- 139
Query: 60 LGHWLGMLTLGRNRPILMVDLDLKSLVAEAYKK-----GQ-------QEL--LYVV--PF 103
++ L +++ + GQ +EL LY
Sbjct: 140 -----------KSNSAL-----FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 104 VAKVMESCSRSKLISEVEIFLASLVTLVGVQNTLLPSSLHALIEALVALRRTRD----AH 159
V LI L+ L+ + L+ ++E L T D
Sbjct: 184 VGD---------LIKFSAETLSELIRTTLDAEKVFTQGLN-ILEWLENPSNTPDKDYLLS 233
Query: 160 SAVA-----LIQKDLVPSYYL------KDPDNLKFSELQLAVTHKKPPPQALTQPAINAQ 208
++ +IQ L Y + P L S L+ A H + A+ AI A+
Sbjct: 234 IPISCPLIGVIQ--LA-HYVVTAKLLGFTPGEL-RSYLKGATGHSQGLVTAV---AI-AE 285
Query: 209 SS-------------------GAAAQTMAAQSSTPPLTMQQPPEPRYSYTSVNVANIGNI 249
+ G +S PP ++ E N G
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE----------NNEGVP 335
Query: 250 APHIVINSQLALFQAQPVLKPLVRTAVERSIHEW-ISLVVERAVKIA-VNTAEQIVKKDF 307
+P L+ + L + V+ +++ L + V+I+ VN A+ +V
Sbjct: 336 SP------MLS-------ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382
Query: 308 ALDPDEGRMRSAAHHIARNLTAGMAMITCRDQLQQSIKANLKHLF--TTA------ITNA 359
+ + R A + R + K + F + + A
Sbjct: 383 PQS-----LYGLNLTL-RKAKAPSGLDQSRIPFSER-KLKFSNRFLPVASPFHSHLLVPA 435
Query: 360 TPQ-QKELMDQTVTICAGD 377
+ K+L+ V+ A D
Sbjct: 436 SDLINKDLVKNNVSFNAKD 454
Score = 43.9 bits (103), Expect = 5e-04
Identities = 59/313 (18%), Positives = 103/313 (32%), Gaps = 84/313 (26%)
Query: 707 REEYRYNLEAVDTLIRAQLIHLPQYDLALAHSMENGLNYVAVAFCMQ----LLQHY--LV 760
+ Y+ + A D RA Y ++ + N + + F + + ++Y ++
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 761 EERGTAGVTESDMLNTLEVLIRIASHHRQPPEGLTALIDMLRANHHDQP--MLVERAPGA 818
E G +++ + E+ S+ + +GL L A QP L+E+A
Sbjct: 1693 FETIVDGKLKTEKIFK-EINEHSTSYTFRSEKGL------LSATQFTQPALTLMEKAAFE 1745
Query: 819 QTLNSGL-PNFSLNAATGPAVHIHSGILQVRGIRDLDDPPGLFEKTEY--LLREWVTIYH 875
+ GL P + A G HS L G EY L
Sbjct: 1746 DLKSKGLIPADATFA--G-----HS----------L----G-----EYAAL--------A 1771
Query: 876 SPAGVKDPNKAFTLFVHQ--MNCHGILKSDELITRFFRFATSLVVGVSPTPTRSKMFQTL 933
S A V + V M + DEL S ++ P R +
Sbjct: 1772 SLADVMSIESLVEV-VFYRGMTMQVAVPRDEL-------GRSNYGMIAINPGRVAASFSQ 1823
Query: 934 DAYAKLIALLVKHSG-----------------SGEHANSNTKINLLN--KVLGIISGVL- 973
+A ++ + K +G +G+ +T N+LN K+ I L
Sbjct: 1824 EALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQ 1883
Query: 974 --ITDQEARQHEF 984
++ +E H F
Sbjct: 1884 KSLSLEEVEGHLF 1896
Score = 42.7 bits (100), Expect = 0.001
Identities = 50/276 (18%), Positives = 78/276 (28%), Gaps = 119/276 (43%)
Query: 257 SQ-----LALFQAQPVLKPLVRTAVERSIHEWISLVVERAVKIAVNT----AEQIVKKDF 307
SQ + L++ + + W RA +T IV +
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDV-----------W-----NRADNHFKDTYGFSILDIVINN- 1668
Query: 308 ALDPDE-----GRMRSAAHHIARNLTAGMAMI--TCRDQLQQSIKANLKHLF------TT 354
P G + I N AMI T D ++ + +F +T
Sbjct: 1669 ---PVNLTIHFGGEKG--KRIRENY---SAMIFETIVDGKLKT-----EKIFKEINEHST 1715
Query: 355 AITNATPQQKELMDQT-VT---ICAGDNMELACAFIQKTAIEKALPDIDKHLAGEYERRK 410
+ T + K L+ T T + ME A K K L D AG
Sbjct: 1716 SYTFRSE--KGLLSATQFTQPALTL---MEKAAFEDLK---SKGLIPADATFAG------ 1761
Query: 411 HARS--EQRRY----CDSQVLTYQA------ER-------MP--EQIRLKVG--GVTPQQ 447
H S E Y + V++ ++ R +P E R G + P +
Sbjct: 1762 H--SLGE---YAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGR 1816
Query: 448 MA----------VYEEFAR-----------NIPGFQ 462
+A V E + N+ Q
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ 1852
Score = 41.6 bits (97), Expect = 0.002
Identities = 73/457 (15%), Positives = 133/457 (29%), Gaps = 153/457 (33%)
Query: 912 FATSLVVGVSPTPTRSKMFQTLDAYAKLIALLVKHSGSGEHANSNTKINLLNKVLGIISG 971
L+V PT + Q + + K++ + + + + L+ K LG +S
Sbjct: 16 LEHVLLV---PTASFFIASQLQEQFNKILPEPTEGFAADDEPTT--PAELVGKFLGYVS- 69
Query: 972 VLITDQEARQHEFHQLPYHRIFIMLFLELNVPDPVLEAINFQVLSAYCSVLHILRPSKQP 1031
+ Q D VL L+ + + L +
Sbjct: 70 -----SLVEPSKVGQF----------------DQVLNL----CLTEFEN--CYLEGN--- 99
Query: 1032 GFAYAWLEIVAHRTFIGRMLVITP-----HQKVLSAYCSVLHIL-RPSKQPGFAYAWLE- 1084
+I H ++L ++++ Y + + RP + + A
Sbjct: 100 -------DI--H-ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS-ALFRA 148
Query: 1085 -------IVAHRTFIG-----------RMLVITPHQKGWPLYAQLLIDIFKFLAPFLRNV 1126
+VA F G R L + Y L+ D+ KF A L
Sbjct: 149 VGEGNAQLVA--IFGGQGNTDDYFEELRDL--------YQTYHVLVGDLIKFSAETLS-- 196
Query: 1127 ELSKPNLT---FYKGVLRVLLVLLH--DFP--EFLCDYHYQFCDVIPANCI-QMRNLILS 1178
EL + L + L +L L + + P ++L P + Q+ + +++
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC----PLIGVIQLAHYVVT 252
Query: 1179 AFPGNMRLPDPFTPNLKVDTLADINQAPRMHADF---ASLIQPAT----FKKDLDAYLK- 1230
A +L FTP L + H+ A I F + +
Sbjct: 253 A-----KLLG-FTP----GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV 302
Query: 1231 -----TRS----PVTFLAEVRAAVQVSHEPGSRYNTELMNAIVLYVGTQAILSIR----- 1276
R P T L + ++ S E + M LSI
Sbjct: 303 LFFIGVRCYEAYPNTSLPP--SILEDSLENNEGVPS-PM------------LSISNLTQE 347
Query: 1277 --AKSLSPNNKTIAHSAHMDIFL-----NFAVDLDTG 1306
++ N + ++I L N V +G
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV---SG 381
Score = 38.5 bits (89), Expect = 0.018
Identities = 49/293 (16%), Positives = 89/293 (30%), Gaps = 106/293 (36%)
Query: 624 GMAMITCRDQLQQSIKANLKHLFTTAITVIENLLDGHTH----------IPNDP-ELTLR 672
GM M D + S A + ++ A D H + N+P LT+
Sbjct: 1630 GMGM----DLYKTSKAA--QDVWNRA--------DNHFKDTYGFSILDIVINNPVNLTIH 1675
Query: 673 ---YKDLHLR------IVKALQDLRAFGVQWTNKQITRCLIECREEYRYNLEAVDTLIR- 722
K +R I + + D + ++I + + E Y + E L
Sbjct: 1676 FGGEKGKRIRENYSAMIFETIVDGKL-----KTEKIFKEINEHSTSYTFRSEK-GLLSAT 1729
Query: 723 --AQ----LIHLPQY-----------DLALA-HSM-ENGLNY---VAVAFCMQL---LQH 757
Q L+ + D A HS+ E Y ++A M + ++
Sbjct: 1730 QFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE----YAALASLADVMSIESLVE- 1784
Query: 758 YLVEERGTA----------GVTESDM--LNTLEVLIRIASHHRQPPEGLTALIDMLRANH 805
+V RG G + M +N V + E L +++ +
Sbjct: 1785 -VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ------EALQYVVERVGK-- 1835
Query: 806 HDQPMLVERA----PGAQTLNSGLPNFSLNAATGPAVHIHSGILQVRGIRDLD 854
LVE Q + +G A+ + +L ++ +D
Sbjct: 1836 -RTGWLVEIVNYNVENQQYVAAG---------DLRALDTVTNVLNFIKLQKID 1878
Score = 38.1 bits (88), Expect = 0.024
Identities = 27/134 (20%), Positives = 46/134 (34%), Gaps = 59/134 (44%)
Query: 108 MESC---SRSKLISEVEIFLASL-------VTLV-GVQNTLL---PSSLHALIEALVALR 153
M S ++ ++ V + L ++LV G +N ++ P SL+ L + LR
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN---LTLR 394
Query: 154 RTRDA----------------------------HS-----AVALIQKDLVPSYYLKDPDN 180
+ + HS A LI KDLV +N
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV-------KNN 447
Query: 181 LKF--SELQLAVTH 192
+ F ++Q+ V
Sbjct: 448 VSFNAKDIQIPVYD 461
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 31.6 bits (71), Expect = 1.5
Identities = 10/54 (18%), Positives = 17/54 (31%), Gaps = 15/54 (27%)
Query: 971 GVLIT---DQEARQHEFHQ------LPYHRIFIMLFLELNVPDPVLEAINFQVL 1015
G+ I E +++ P R I+ LEL+ + L
Sbjct: 117 GMAIQVNYSSEVKENSVDSDDKAKVPPLIR--IVSGLELSDTKQ----KGKKFL 164
>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 = 30.5 bits (69), Expect = 3.4
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 447 QMAVYEEFARNIPGFQPLSERD 468
+ ++A IPGF LS D
Sbjct: 81 DVIR--KWAEKIPGFIELSPGD 100
>1l8q_A Chromosomal replication initiator protein DNAA; AAA+,
helix-turn-helix, nucleotide-binding, DNA binding, REP
initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex
aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*
Length = 324
Score = 30.2 bits (69), Expect = 4.2
Identities = 9/64 (14%), Positives = 16/64 (25%), Gaps = 27/64 (42%)
Query: 1243 AAVQVSHEPGSRYN------------TELMNAI----------VLYVGT-----QAILSI 1275
+ GS YN T L+ A V+Y + +
Sbjct: 25 VVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHL 84
Query: 1276 RAKS 1279
+ +
Sbjct: 85 KKGT 88
>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 = 30.1 bits (68), Expect = 4.7
Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 447 QMAVYEEFARNIPGFQPLSERD 468
++ +A IPGF L + D
Sbjct: 88 EIIR--GWAEKIPGFADLPKAD 107
>3gjy_A Spermidine synthase; APC62791, structural genomics, PSI-2, protein
structure initiative; HET: MSE; 1.47A {Corynebacterium
glutamicum atcc 13032}
Length = 317
Score = 29.9 bits (67), Expect = 5.0
Identities = 12/61 (19%), Positives = 21/61 (34%)
Query: 421 DSQVLTYQAERMPEQIRLKVGGVTPQQMAVYEEFARNIPGFQPLSERDAALFLPKPEPPP 480
D++ + + R +GG P Q + G Q + + L +P P
Sbjct: 246 DTEFFSSNSTEASAITRELLGGGVPAQYKDESWVRKFASGAQARHDGVSTLQMPSDTPQH 305
Query: 481 P 481
P
Sbjct: 306 P 306
>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 = 29.1 bits (64), Expect = 5.0
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 1217 QPATFKKDLDAYLKTRSP--VTFLAEVRAAVQ 1246
+ KK L A LK + LA ++A ++
Sbjct: 18 EKQALKK-LQASLKLYADDSAPALA-IKATME 47
>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 = 29.7 bits (67), Expect = 5.1
Identities = 7/22 (31%), Positives = 10/22 (45%), Gaps = 2/22 (9%)
Query: 447 QMAVYEEFARNIPGFQPLSERD 468
+ +FA IPG+ L D
Sbjct: 61 DVIK--QFAEKIPGYFDLLPED 80
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 29.8 bits (67), Expect = 5.8
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 453 EFARNIPGFQPLSERD 468
EFA++IPGF+ LS+ D
Sbjct: 83 EFAKHIPGFRDLSQHD 98
>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 = 29.6 bits (67), Expect = 6.0
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 453 EFARNIPGFQPLSERD 468
+F +++P F+ L D
Sbjct: 72 KFTKDLPVFRSLPIED 87
>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 = 29.3 bits (66), Expect = 6.4
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 453 EFARNIPGFQPLSERD 468
++A+ +P F L D
Sbjct: 55 QWAKLVPHFTSLPLTD 70
>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 = 29.3 bits (66), Expect = 6.6
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 453 EFARNIPGFQPLSERD 468
EFA+ IPGF+ LS+ D
Sbjct: 38 EFAKRIPGFRDLSQHD 53
>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 = 29.3 bits (66), Expect = 6.8
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 453 EFARNIPGFQPLSERD 468
E+A++IPGF L D
Sbjct: 91 EYAKSIPGFVNLDLND 106
>1hg4_A Ultraspiracle; nuclear hormone receptor, transcription factor,
ligand binding; HET: LPP; 2.4A {Drosophila melanogaster}
SCOP: a.123.1.1
Length = 279
Score = 29.5 bits (66), Expect = 6.8
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 453 EFARNIPGFQPLSERD 468
E+AR +P F + D
Sbjct: 65 EYARMMPHFAQVPLDD 80
>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 = 29.4 bits (66), Expect = 6.9
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 453 EFARNIPGFQPLSERD 468
+FA+ +P F L D
Sbjct: 88 DFAKKLPMFSELPXED 103
>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 = 29.4 bits (66), Expect = 6.9
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 453 EFARNIPGFQPLSERD 468
E+A+ IP F L D
Sbjct: 101 EWAKRIPHFSELPLDD 116
>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 = 29.3 bits (66), Expect = 7.3
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 453 EFARNIPGFQPLSERD 468
E+A+ IP F L D
Sbjct: 59 EWAKRIPHFSELPLDD 74
>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 = 29.0 bits (65), Expect = 7.8
Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 3/65 (4%)
Query: 405 EYERRKHARSEQRRYCDSQVLTYQAERMPEQIRLKVGGVTPQ-QMAVYEEFARNIPGFQP 463
+Y + + + + ++ YQ++ + +T Q V EFA+ I GF
Sbjct: 21 QYTMEELHQLAWQTHTYEEIKAYQSKSREALWQQCAIQITHAIQYVV--EFAKRITGFME 78
Query: 464 LSERD 468
L + D
Sbjct: 79 LCQND 83
>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 = 29.3 bits (66), Expect = 7.9
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 453 EFARNIPGFQPLSERD 468
E+A+ IP F L D
Sbjct: 59 EWAKYIPAFCELPLDD 74
>1mgt_A MGMT, protein (O6-methylguanine-DNA methyltransferase); DNA repair
protein, suicidal enzyme, hyperthermostability; 1.80A
{Thermococcus kodakarensis} SCOP: a.4.2.1 c.55.7.1
Length = 174
Score = 28.6 bits (64), Expect = 8.4
Identities = 14/73 (19%), Positives = 24/73 (32%), Gaps = 5/73 (6%)
Query: 390 AIEKALPDIDKHLAGEYERRKHARSEQRRYCDSQVLTY---QAERMPEQIRLKVGGVTPQ 446
+ K + D+ +HL +V + + L GVTP
Sbjct: 35 TLMKRIHDLAEHLGKRGVSISLDVQPSD--YPEKVFKVLIGELDNASFLRELSFEGVTPF 92
Query: 447 QMAVYEEFARNIP 459
+ VYE +N+
Sbjct: 93 EKKVYEWLTKNVK 105
>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 = 29.1 bits (65), Expect = 8.6
Identities = 14/68 (20%), Positives = 21/68 (30%), Gaps = 10/68 (14%)
Query: 411 HARSEQRRYCDSQVLTYQAERMPEQIRLKVGGVTPQQMAVYE----------EFARNIPG 460
H + Q + Q +T+Q E + EFA+ I G
Sbjct: 31 HLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDG 90
Query: 461 FQPLSERD 468
F L + D
Sbjct: 91 FMELCQND 98
>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 = 29.0 bits (65), Expect = 8.9
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 453 EFARNIPGFQPLSERD 468
E+ARNIP F L D
Sbjct: 55 EWARNIPFFPDLQITD 70
>3sjl_A Methylamine utilization protein MAUG; MAUG, C-heme, quinone cofactor,
oxidoreductase-electron transport complex; HET: 0AF HEC
MES; 1.63A {Paracoccus denitrificans} PDB: 3sle_A*
3svw_A* 3l4m_A* 3l4o_A* 3pxs_A* 3pxt_A* 3pxw_A* 3orv_A*
3rmz_A* 3rlm_A* 3rn0_A* 3rn1_A*
Length = 373
Score = 29.4 bits (66), Expect = 9.3
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 1114 DIFKFLAPFLRNVELSKP 1131
+F P LRNV ++ P
Sbjct: 260 QSGRFKVPSLRNVAVTGP 277
>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 = 29.0 bits (65), Expect = 9.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 453 EFARNIPGFQPLSERD 468
+FA+ +PGF LS D
Sbjct: 106 DFAKQLPGFLQLSRED 121
>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 = 29.1 bits (65), Expect = 10.0
Identities = 25/177 (14%), Positives = 46/177 (25%), Gaps = 37/177 (20%)
Query: 396 PDIDKHLAGEY--ERRKHARSEQRRYCDSQVLTYQAERMPEQIRLKVGGVTPQQMAVYEE 453
D++ E + A Q + + ++ E + E
Sbjct: 41 HDMETLCMAEKTLVAKLVANGIQNKEAEVRIFHCCQCTSVETVTELT------------E 88
Query: 454 FARNIPGFQPLSERD-----------------AALFLPKPEPPPPGPPVSAFNGVDEMGT 496
FA+ IPGF L D +++ G + +
Sbjct: 89 FAKAIPGFANLDLNDQVTLLKYGVYEAIFAMLSSVMNKDGMLVAYGNGFITREFLKSLRK 148
Query: 497 IYDKLISEVEIFLASLVTLVGVQNTLLPSSLHALIEALVALRRTRDAHSAVALIQKL 553
+ ++ F L L S +L A + R V I+K+
Sbjct: 149 PFCDIMEPKFDFAMKFNALE------LDDSDISLFVAAIICCGDRPGLLNVGHIEKM 199
>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 = 28.9 bits (65), Expect = 10.0
Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 7/63 (11%)
Query: 411 HARSEQRRYCDSQVLTYQAERMPEQIRLKVGGVTPQQMAVYE-----EFARNIPGFQPLS 465
E D + + Q +Q ++ +T ++ + EFA+ +PGF L
Sbjct: 25 QNEYEHPSEEDVKRIINQPMDGEDQCDVRFRHIT--EITILTVQLIVEFAKRLPGFDKLL 82
Query: 466 ERD 468
D
Sbjct: 83 RED 85
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 0.136 0.396
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 20,218,740
Number of extensions: 1280299
Number of successful extensions: 2499
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2465
Number of HSP's successfully gapped: 73
Length of query: 1312
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1207
Effective length of database: 3,770,088
Effective search space: 4550496216
Effective search space used: 4550496216
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: 63 (28.5 bits)