RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13711
(580 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 = 61.8 bits (149), Expect = 4e-10
Identities = 87/543 (16%), Positives = 151/543 (27%), Gaps = 156/543 (28%)
Query: 107 GEPVIDSGVRQRLFRHLENCMSEIDLDFSASAEKLGITQDFSSEDDSAFPMLRVRPEP-D 165
SG RLF L + E+ F + F M ++ E
Sbjct: 56 MSKDAVSGTL-RLFWTLLSKQEEMVQKFVEEVL----------RINYKFLMSPIKTEQRQ 104
Query: 166 SSTTTLLPVTHPTP--------TKPNVTPPKKKSKTKMATQQ------------------ 199
S T + + K NV+ + K + A +
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164
Query: 200 SLIMSTTSEHSGDGNNNIGTPDSSTGCQTKPRSTVKK-DTHSPPLKRSLNKTLVVMSSPP 258
+ + + + + P + ++ + + S+
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 259 LVASSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKA-D-- 315
L +SI L+R L++ + L L+L N +++K A +
Sbjct: 225 L--RIHSIQAELRR----LLKSKPYEN---CL-----LVLL-----NVQNAKAWNAFNLS 265
Query: 316 --ILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLETPELHLGLSSTTSSTPTPS 373
IL LT R Q LS+ + S L E+ L
Sbjct: 266 CKIL-LTTRFKQVTDFLSAATTT------HISLDHHSMTLTPDEV-KSLLLKYLDCRP-- 315
Query: 374 GTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENC--MSEIDLDFSASAE 431
+ LP T + L+ + E + D ++H+ NC ++ I +S
Sbjct: 316 ----QDLP-REVLTTNPRRLS--IIAESIRDGLATWDNWKHV-NCDKLTTI---IESSLN 364
Query: 432 KLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMASV- 490
L +E F L V P + P T + S+
Sbjct: 365 VLE-----PAEYRKMFDRLSVFPP-------------------SAHIP-----TILLSLI 395
Query: 491 -GGGGEKTASDISDSNSNQS---SSAVESAMSV--LQLIPSRLPDGQVVF---ILPNYMA 541
+ + + S ES +S+ + L + + I+ +Y
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455
Query: 542 PSTSPPCKDDLKSSPPP------------LSNLDQP----------LDFS-----IKRDD 574
P T DDL PP L N++ P LDF I+ D
Sbjct: 456 PKTF--DSDDL--IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS 511
Query: 575 SMW 577
+ W
Sbjct: 512 TAW 514
Score = 47.2 bits (111), Expect = 1e-05
Identities = 59/372 (15%), Positives = 107/372 (28%), Gaps = 98/372 (26%)
Query: 20 LITDEHTHYQ--VDLTGGPDQVYLIVSDWSKGFPLCPPQVSRFLETPELHLGLSSTTSST 77
L+T T ++ D ++ + S TP+ L
Sbjct: 269 LLT---TRFKQVTDFLSAATTTHISLDHHSMTL------------TPDEVKSLLLKYLDC 313
Query: 78 PTPSGTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQRLFRHLENC--MSEIDLDFS 135
+ LP T + L+ + E + D ++H+ NC ++ I
Sbjct: 314 RP------QDLP-REVLTTNPRRLS--IIAESIRDGLATWDNWKHV-NCDKLTTI---IE 360
Query: 136 ASAEKLGITQDFSSEDDSAFPMLRVRPEPDSS-TTTLLPV--THPTPTKPN--VTPPKKK 190
+S L +E F L V P + T LL + + V K
Sbjct: 361 SSLNVLE-----PAEYRKMFDRLSVFPP-SAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 191 SKTKMATQQSLIMSTTSEHSGDGNNNIGTPDSSTGCQTKPRSTVKKDTHSPPLKRSLNKT 250
S + +Q ST S + + ++ + +L+++
Sbjct: 415 S---LVEKQPK-ESTISIP---------------SIYLELKVKLENE-------YALHRS 448
Query: 251 LVVMSSPPLVASSNSIPPALKRANKPL-----------MEKRRRARINQSLALLKALILD 299
+V + P S+ + P L ++ + + L + + LD
Sbjct: 449 IVDHYNIPKTFDSDDLIP------PYLDQYFYSHIGHHLKNIEHP---ERMTLFRMVFLD 499
Query: 300 ----SAKTENTKHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLET 355
K + + IL LQ+ K I YE + FL
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNT----LQQLKFYKPYI-CDNDPKYERLVNAILDFLPK 554
Query: 356 PELHLGLSSTTS 367
E +L S T
Sbjct: 555 IEENLICSKYTD 566
>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 = 58.5 bits (141), Expect = 4e-09
Identities = 70/385 (18%), Positives = 121/385 (31%), Gaps = 119/385 (30%)
Query: 246 SLNKTLVVMSSPPLVAS------SNSIPPA---LKRANKPLMEKRRRARINQSLALLKAL 296
SL L+V ++ +AS + +P ++P + A L
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEP-----------TTPAELVGK 63
Query: 297 ILD--SAKTENTKHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSREVSRFLE 354
L S+ E +K + + +L L + + +LE
Sbjct: 64 FLGYVSSLVEPSKVGQFD--QVLNLCLTEFENC------------------------YLE 97
Query: 355 TPELHLGLSSTTSSTPTPSGTGNKAL------------PLPSKPTPSSLALASLMSGEPV 402
++H + T + + P K + S+L ++ G
Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD-KKSNSAL-FRAVGEGNAQ 155
Query: 403 IDS-----GVRQRLFRHLENCMSEI---------DLDFSASAEKLGITQDFSSEDDSAFP 448
+ + G F L ++ DL SAE L + A
Sbjct: 156 LVAIFGGQGNTDDYFEEL----RDLYQTYHVLVGDL-IKFSAETL---SELIRTTLDAEK 207
Query: 449 M----------LRVRPE--PDSSTTTLLPVTHP------------TPTKPNVTPPKKKSK 484
+ L P PD +P++ P T TP + +S
Sbjct: 208 VFTQGLNILEWLE-NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY 266
Query: 485 TKMASVGGGGEKTASDISDSNSNQS-SSAVESAMSVLQLIPSRLPDGQVVFILPNY-MAP 542
K A+ G TA I++++S +S +V A++VL I R + PN + P
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR---CYEAY--PNTSLPP 321
Query: 543 STSPPCKDDLKSSPPP-LS--NLDQ 564
S ++ + P P LS NL Q
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQ 346
Score = 56.6 bits (136), Expect = 2e-08
Identities = 75/405 (18%), Positives = 131/405 (32%), Gaps = 116/405 (28%)
Query: 36 PDQVYLI---VSDWSKGFPL-CPPQVSRFLETPELHLGLSSTTSSTPTPSGTGNKALPLP 91
PD+ YL+ +S PL Q++ ++ T +L LG + + TG+
Sbjct: 226 PDKDYLLSIPIS-----CPLIGVIQLAHYVVTAKL-LGFTPGELRSYLKGATGH------ 273
Query: 92 SKPTPSSLALASLMSGEPVIDS-----------GVR-QRLFRHLENCMSEIDLDFSASAE 139
S+ +++A+A S E S GVR + + L S +
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT-------SLPPSILED 326
Query: 140 KLGITQDFSSEDDSAFPMLRVRPEPDSSTTTLLPVTHPTPTKPNVTPPKKKSKTKMATQQ 199
L + S PML + + K N P K +
Sbjct: 327 SLENNEGVPS------PMLSISNLTQEQVQDYV-------NKTNSHLPAGK-----QVEI 368
Query: 200 SLIMSTTSEHSGDGNNNI---GTPDSSTGCQT---KPRSTVKKDTHSPPL-KRSL---NK 249
SL+ +G N+ G P S G K ++ D P +R L N+
Sbjct: 369 SLV---------NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
Query: 250 TLVVMSSP---PLVASSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENT 306
L V +SP L L A+ + + + ++ + ++ + D T +
Sbjct: 420 FLPV-ASPFHSHL----------LVPASDLINKDLVKNNVSFNAKDIQIPVYD---TFDG 465
Query: 307 KHSKLEKADILELTVRHLQRQKILSSDIRSKYKAGYEECSR-EVSRFLE-TPELHLGLSS 364
++ I E V + R + +E ++ + + L+ P GL
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVK-----------WETTTQFKATHILDFGPGGASGLGV 514
Query: 365 TTSSTPTPSGTGNKALPLPSKPTPSSLALASLMSGEPVIDSGVRQ 409
T GTG + +A + P D G +Q
Sbjct: 515 LTHRNKD--GTG------------VRVIVAGTLDINPDDDYGFKQ 545
Score = 28.1 bits (62), Expect = 9.7
Identities = 8/42 (19%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 105 MSGEPVIDSGVR-QRLFRHLENCMSEIDLDFSASAEKLGITQ 145
M E ++D ++ +++F+ + + F + L TQ
Sbjct: 1691 MIFETIVDGKLKTEKIFKEINEHST--SYTFRSEKGLLSATQ 1730
Score = 28.1 bits (62), Expect = 9.7
Identities = 8/42 (19%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 397 MSGEPVIDSGVR-QRLFRHLENCMSEIDLDFSASAEKLGITQ 437
M E ++D ++ +++F+ + + F + L TQ
Sbjct: 1691 MIFETIVDGKLKTEKIFKEINEHST--SYTFRSEKGLLSATQ 1730
>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4);
transcription factor, basic helix loop helix; HET: DNA;
2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1
Length = 63
Score = 46.3 bits (110), Expect = 4e-07
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 270 LKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTV---RHLQR 326
+KR + E+ RR R+ +L L +LI K +N + KA +E RHLQ+
Sbjct: 1 MKRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVS-AAPSKATTVEAACRYIRHLQQ 59
Query: 327 Q 327
Sbjct: 60 N 60
>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double
helix, overhanging base, transcription/DNA complex; HET:
DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1
Length = 65
Score = 46.2 bits (110), Expect = 5e-07
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTV---RHLQRQ 327
+RA +E+RRR +IN + L +I DS+ S K IL + L++
Sbjct: 5 RRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTK--SGQSKGGILSKASDYIQELRQS 62
Query: 328 K 328
Sbjct: 63 N 63
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A);
basic-helix-loop- helix-leucine zipper, transcription
factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1
PDB: 1ukl_C
Length = 82
Score = 43.1 bits (102), Expect = 9e-06
Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 10/64 (15%)
Query: 267 PPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTV---RH 323
KR +EKR R+ IN + LK L++ + KL K+ +L + R
Sbjct: 2 SRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEA-------KLNKSAVLRKAIDYIRF 54
Query: 324 LQRQ 327
LQ
Sbjct: 55 LQHS 58
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B
Length = 83
Score = 40.4 bits (95), Expect = 8e-05
Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQR 326
KRA+ +E++RR I S L+ + + K S+ + IL+ ++Q
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSL---QGEKASRAQ---ILDKATEYIQY 51
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 39.6 bits (93), Expect = 2e-04
Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSK---LEKADILELTVRHLQRQ 327
KR ++E++RR + +S L+ I + N K K L+KA + +Q +
Sbjct: 6 KRRTHNVLERQRRNELKRSFFALRDQIPELE--NNEKAPKVVILKKA--TAY-ILSVQAE 60
>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA
binding, complex (transcription factor MAX/DNA),
transcription/DNA complex; HET: DNA; 2.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 80
Score = 39.2 bits (92), Expect = 2e-04
Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 9/70 (12%)
Query: 262 SSNSIPPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTV 321
A KRA+ +E++RR I S L+ + + K S+ + IL+
Sbjct: 3 DIEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSL---QGEKASRAQ---ILDKAT 56
Query: 322 ---RHLQRQK 328
++++R+
Sbjct: 57 EYIQYMRRKN 66
>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ,
transcription/DNA complex; 2.00A {Homo sapiens} SCOP:
a.38.1.1
Length = 80
Score = 37.5 bits (87), Expect = 8e-04
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 7/67 (10%)
Query: 272 RANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSK---LEKADILELTVRHLQRQK 328
R+ MEK RRA + SL LK L+ ++++H+ L KA + +
Sbjct: 2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGP--DSSRHTTLSLLTKA--KLHIKKLEDSDR 57
Query: 329 ILSSDIR 335
I
Sbjct: 58 KAVHQID 64
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 40.0 bits (93), Expect = 0.002
Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 271 KRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQRQKIL 330
R +EKRRR ++N + L +L+ KL+K +L + V+H++ +
Sbjct: 13 AREAHSQIEKRRRDKMNSFIDELASLVPTCNAM----SRKLDKLTVLRMAVQHMKTLRGA 68
Query: 331 SSD 333
++
Sbjct: 69 TNP 71
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS,
circadian rhythm proteins, transcription-activato; 2.27A
{Mus musculus}
Length = 361
Score = 38.8 bits (90), Expect = 0.004
Identities = 14/67 (20%), Positives = 34/67 (50%), Gaps = 7/67 (10%)
Query: 267 PPALKRANKPLMEKRRRARINQSLALLKALILDSAKTENTKHSKLEKADILELTVRHLQR 326
KR ++ EK+RR + N + L +++ +A K++K+ +L+ ++ L++
Sbjct: 8 KDKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNA-------RKMDKSTVLQKSIDFLRK 60
Query: 327 QKILSSD 333
K ++
Sbjct: 61 HKETTAQ 67
>2db7_A Hairy/enhancer-OF-split related with YRPW motif 1; structural
genomics, unknown function, DNA binding protein, NPPSFA;
1.90A {Homo sapiens} SCOP: a.273.1.1
Length = 64
Score = 33.5 bits (76), Expect = 0.015
Identities = 18/88 (20%), Positives = 28/88 (31%), Gaps = 43/88 (48%)
Query: 337 KYKA-GYEECSREVSRFLETPELHLGLSSTTSSTPTPSGTGNKALPLPSKPTPSSLALAS 395
Y++ G+ EC EV+R+L E GL ++
Sbjct: 18 DYRSLGFRECLAEVARYLSIIE---GLDASDP---------------------------- 46
Query: 396 LMSGEPVIDSGVRQRLFRHLENCMSEID 423
+R RL HL N S+ +
Sbjct: 47 -----------LRVRLVSHLNNYASQRE 63
Score = 29.3 bits (65), Expect = 0.45
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 115 VRQRLFRHLENCMSEID 131
+R RL HL N S+ +
Sbjct: 47 LRVRLVSHLNNYASQRE 63
>3v3t_A Cell division GTPase FTSZ, diverged; TUBZ, tubulin/FTSZ related,
rossmann fold, GTP bindi structural protein; 2.30A
{Clostridium botulinum C}
Length = 360
Score = 29.3 bits (65), Expect = 3.3
Identities = 9/58 (15%), Positives = 21/58 (36%), Gaps = 5/58 (8%)
Query: 479 PKKKSKTKMASVGGGGEKTASDISDSNSNQSSSAVESAMSVLQLIPS-----RLPDGQ 531
P K+K A +G GG + + ++ + ++ L + +P +
Sbjct: 1 PHMKNKIVFAPIGQGGGNIVDTLLGICGDYNALFINTSKKDLDSLKHAKHTYHIPYAE 58
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
0.310 0.127 0.361
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,246,739
Number of extensions: 473559
Number of successful extensions: 710
Number of sequences better than 10.0: 1
Number of HSP's gapped: 699
Number of HSP's successfully gapped: 29
Length of query: 580
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 481
Effective length of database: 3,937,614
Effective search space: 1893992334
Effective search space used: 1893992334
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (27.3 bits)