RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14654
(122 letters)
>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 = 44.6 bits (106), Expect = 9e-08
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQS 72
+ER+RR +IN + +L +I+ S S K IL ++ +LR+
Sbjct: 11 EVERRRRDKINNWIVQLSKIIPDSSME--STKSGQSKGGILSKASDYIQELRQSNH 64
>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 = 43.3 bits (102), Expect = 3e-07
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 19 ERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQS 72
E+ RR R+ L EL ++ + + + KA +E R++ L++ S
Sbjct: 10 EQARRNRLAVALHELASLIPAEWKQQN-VSAAPSKATTVEAACRYIRHLQQNGS 62
>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 = 39.6 bits (93), Expect = 1e-05
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQ 71
LERKRR I L++ V SLQ E K +A IL+ ++ +RR+
Sbjct: 18 ALERKRRDHIKDSFHSLRD-SVPSLQGE-----KASRAQILDKATEYIQYMRRKN 66
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 41.5 bits (97), Expect = 2e-05
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 19 ERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLR 68
E++RR ++N +DEL + KL+K +L + V+H+ LR
Sbjct: 21 EKRRRDKMNSFIDELAS----LVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
>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 = 38.5 bits (90), Expect = 4e-05
Identities = 13/55 (23%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQ 71
+LER+RR + R L++ + EN K K IL+ ++ ++ ++
Sbjct: 12 VLERQRRNELKRSFFALRDQIPEL-----ENNEKAPKVVILKKATAYILSVQAEE 61
>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 = 37.7 bits (88), Expect = 7e-05
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 6/55 (10%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQ 71
LERKRR I L++ + + K +A IL+ ++ +RR+
Sbjct: 8 ALERKRRDHIKDSFHSLRDSVPSL------QGEKASRAQILDKATEYIQYMRRKN 56
>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 = 35.4 bits (82), Expect = 4e-04
Identities = 13/56 (23%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQS 72
+E++ R+ IN + ELK+++V + KL K+ +L + ++ L+
Sbjct: 12 AIEKRYRSSINDKIIELKDLVVGTEA-------KLNKSAVLRKAIDYIRFLQHSNQ 60
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH,
PAS, circadian rhythm proteins, transcription-activato;
2.27A {Mus musculus}
Length = 361
Score = 36.1 bits (83), Expect = 0.001
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 19 ERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQS 72
E+KRR + N + EL M+ N K++K+ +L+ ++ L K + +
Sbjct: 20 EKKRRDQFNVLIKELGS-MLPG------NARKMDKSTVLQKSIDFLRKHKETTA 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 = 34.4 bits (79), Expect = 0.001
Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQ 71
+E+ RRA + L++LK ++ G + S+ +L H+ KL
Sbjct: 7 EMEKNRRAHLRLSLEKLKGLV-----PLGPDSSRHTTLSLLTKAKLHIKKLEDSD 56
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic
helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB:
2ql2_A*
Length = 76
Score = 32.2 bits (73), Expect = 0.008
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 17 MLERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQ-QSLGL 75
LERKRR IN EL + L+++ K IL+ V+ + L +Q + L
Sbjct: 11 ALERKRRRDINEAFRELGRMCQMHLKSD----KAQTKLLILQQAVQVILGLEQQVRERNL 66
Query: 76 TPEAAY 81
P +
Sbjct: 67 NPLNHH 72
>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 = 31.2 bits (70), Expect = 0.066
Identities = 16/93 (17%), Positives = 32/93 (34%), Gaps = 29/93 (31%)
Query: 26 INRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRRQQSLGLTPEAAYADRF 85
+ +EL+++ T + D+++ + L +L R T +A F
Sbjct: 166 TDDYFEELRDLYQT---------YHVLVGDLIKFSAETLSELIRT-----TLDAEKV--F 209
Query: 86 KAGFTHCAAEVSQYLASSMQQHQQQPSTEPTID 118
G + ++L + PS P D
Sbjct: 210 TQGL-----NILEWL--------ENPSNTPDKD 229
Score = 27.3 bits (60), Expect = 1.4
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 10/42 (23%)
Query: 30 LDELKEIMVTSLQAEGENVSKLEKADILELTVR-HLHKLRRQ 70
LD + ++ N KL+K DI+EL L ++
Sbjct: 1862 LDTVTNVL---------NFIKLQKIDIIELQKSLSLEEVEGH 1894
>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 = 30.6 bits (68), Expect = 0.12
Identities = 16/106 (15%), Positives = 38/106 (35%), Gaps = 16/106 (15%)
Query: 10 YPEVMKPMLER-KRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLR 68
Y +++ + D K I+ E +++ + D + T+R L
Sbjct: 18 YKDILSVFEDAFVDNFDCKDVQDMPKSILSK---EEIDHI--IMSKDAVSGTLRLFWTLL 72
Query: 69 RQQSLGLTPEAAYADRFKAGFTHCAAEVSQYLASSMQQHQQQPSTE 114
+Q + + + + + ++L S ++ Q+QPS
Sbjct: 73 SKQEEMV--QKFVEEVLRINY--------KFLMSPIKTEQRQPSMM 108
Score = 27.5 bits (60), Expect = 1.3
Identities = 23/140 (16%), Positives = 44/140 (31%), Gaps = 36/140 (25%)
Query: 1 MSTLSI---EVVYPEVM--------KPMLER---KRRARINRCLDELKE----------I 36
LS+ +V+ +VM ++E+ + I ELK
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 37 MVTSLQA----EGENVSKLEKAD--ILELTVRHLHKLRRQQSLGLTPEAAYAD-RF---K 86
+V + +++ D HL + + + L + D RF K
Sbjct: 449 IVDHYNIPKTFDSDDLIPP-YLDQYFYSHIGHHLKNIEHPERMTLFRM-VFLDFRFLEQK 506
Query: 87 AGFTHCAAEVSQYLASSMQQ 106
A S + +++QQ
Sbjct: 507 IRHDSTAWNASGSILNTLQQ 526
>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 = 26.9 bits (59), Expect = 0.54
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 77 PEAAYADRFKAGFTHCAAEVSQYLAS 102
A D GF C AEV++YL+
Sbjct: 12 AHALAMDYRSLGFRECLAEVARYLSI 37
>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 = 26.8 bits (58), Expect = 1.4
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 19/45 (42%)
Query: 44 EGENVSKLEKADILELTVRHLHKLRRQQSLGL-TPEAAYADRFKA 87
E + + KL+ SL L ++A A KA
Sbjct: 18 EKQALKKLQ------------------ASLKLYADDSAPALAIKA 44
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 24.1 bits (53), Expect = 5.7
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 5/51 (9%)
Query: 19 ERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRR 69
ER R +N LD L++++ + + KL K + L L ++ L
Sbjct: 10 ERNRMHGLNAALDNLRKVVPCYSKTQ-----KLSKIETLRLAKNYIWALSE 55
>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex,
transcription/DNA complex; HET: DNA; 2.80A {Mus
musculus} SCOP: a.38.1.1 PDB: 1mdy_B*
Length = 68
Score = 23.9 bits (52), Expect = 7.6
Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 19 ERKRRARINRCLDELKEIMVTSLQAEGENVSKLEKADILELTVRHLHKLRR 69
ER+R +++N + LK ++ +L K +IL +R++ L+
Sbjct: 20 ERRRLSKVNEAFETLKRSTSSNPN------QRLPKVEILRNAIRYIEGLQA 64
>1upk_A MO25 protein; transferase, armadillo; HET: MSE; 1.85A {Homo
sapiens} SCOP: a.118.1.15 PDB: 1upl_A 2wtk_A* 3gni_A*
Length = 341
Score = 24.9 bits (54), Expect = 7.6
Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 20 RKRRARINRCLDELKEIMVTSLQAE--GENVSKLEKA----DILELTVRHLHKL 67
K +++ L +KEI+ + + E E V++L + +L V L +
Sbjct: 37 EKATEEVSKNLVAMKEILYGTNEKEPQTEAVAQLAQELYNSGLLSTLVADLQLI 90
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.315 0.127 0.349
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: 1,811,334
Number of extensions: 96543
Number of successful extensions: 225
Number of sequences better than 10.0: 1
Number of HSP's gapped: 218
Number of HSP's successfully gapped: 32
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
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: 51 (23.8 bits)