RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1721
(74 letters)
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 63.4 bits (155), Expect = 9e-16
Identities = 19/44 (43%), Positives = 26/44 (59%)
Query: 1 MRILSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLL 44
M L+ A L+ +P K KLSK++TLRLA +YI L +L
Sbjct: 14 MHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEIL 57
>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 = 52.8 bits (127), Expect = 2e-11
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 1 MRILSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLLSQ 46
+ +++AF LK + P + +L K++ LR A YI L+ LL
Sbjct: 24 LSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQALLRD 68
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic
helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB:
2ql2_A*
Length = 76
Score = 44.9 bits (106), Expect = 3e-08
Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 1 MRILSKAFFRLK-TTLPWVPKDTKLSKLDTLRLATSYILHLKMLLSQQQDDPSHTHKEQ 58
R +++AF L + D +KL L+ A IL L+ + ++ +P + H
Sbjct: 17 RRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERNLNPLNHHHHH 75
>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 = 35.0 bits (81), Expect = 2e-04
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 8 FFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLK 41
FF L+ +P + + K K+ L+ AT+YIL ++
Sbjct: 25 FFALRDQIPELENNEKAPKVVILKKATAYILSVQ 58
>2lfh_A DNA-binding protein inhibitor ID-3; structural genomics,
northeast structural genomics consortiu PSI-biology,
protein structure initiative; NMR {Homo sapiens}
Length = 68
Score = 34.3 bits (78), Expect = 3e-04
Identities = 13/40 (32%), Positives = 27/40 (67%)
Query: 4 LSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKML 43
++ + RL+ +P VP+ T+LS+++ L+ YIL L+++
Sbjct: 29 MNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQVV 68
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 34.2 bits (78), Expect = 0.001
Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 4/57 (7%)
Query: 4 LSKAFFRLKTTLPWVPKDT-KLSKLDTLRLATSYILHLKMLLSQQQDDPSHTHKEQW 59
++ L + +P + KL KL LR+A + +K L +K +
Sbjct: 28 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQH---MKTLRGATNPYTEANYKPTF 81
>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 = 31.5 bits (72), Expect = 0.005
Identities = 10/34 (29%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 8 FFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLK 41
F L+ ++P + + K S+ L AT YI +++
Sbjct: 31 FHSLRDSVPSL-QGEKASRAQILDKATEYIQYMR 63
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH,
PAS, circadian rhythm proteins, transcription-activato;
2.27A {Mus musculus}
Length = 361
Score = 32.2 bits (73), Expect = 0.007
Identities = 9/55 (16%), Positives = 18/55 (32%), Gaps = 3/55 (5%)
Query: 4 LSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLLSQQQDDPSHTHKEQ 58
+ L + LP + K+ K L+ + + L + Q D +
Sbjct: 27 FNVLIKELGSMLPGNAR--KMDKSTVLQKSIDF-LRKHKETTAQSDASEIRQDWK 78
>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 = 31.0 bits (70), Expect = 0.007
Identities = 12/55 (21%), Positives = 22/55 (40%)
Query: 4 LSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLLSQQQDDPSHTHKEQ 58
L + +LK +P P ++ + L L A +I L+ + +EQ
Sbjct: 16 LRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLEDSDRKAVHQIDQLQREQ 70
>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 = 29.2 bits (66), Expect = 0.030
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 8 FFRLKTTLPWV---PKDTKLSKLDTLRLATSYILHLK 41
+L +P + SK L A+ YI L+
Sbjct: 24 IVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60
>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 = 28.9 bits (65), Expect = 0.043
Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 8 FFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLLSQQQDDPSHTHKEQ 58
F L+ ++P + + K S+ L AT YI +++ Q D ++
Sbjct: 21 FHSLRDSVPSL-QGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQN 70
>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 = 24.8 bits (54), Expect = 1.5
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 4/39 (10%)
Query: 7 AFFRLKTTLPWVPKD----TKLSKLDTLRLATSYILHLK 41
A L + +P K SK T+ A YI HL+
Sbjct: 20 ALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQ 58
>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 = 25.6 bits (55), Expect = 1.9
Identities = 10/69 (14%), Positives = 20/69 (28%), Gaps = 19/69 (27%)
Query: 7 AFFRLKTTLP-------WVPKDTK-----LSKLDTLRLA-------TSYILHLKMLLSQQ 47
+ F +P W ++KL L T I + + L +
Sbjct: 379 SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438
Query: 48 QDDPSHTHK 56
++ H+
Sbjct: 439 LENEYALHR 447
>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 = 23.9 bits (52), Expect = 4.0
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 8 FFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLLSQQQDD 50
LK + + KL+K LR A YI L+ + + +
Sbjct: 25 IIELKDLVV--GTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQE 65
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
0.324 0.134 0.420
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: 1,005,983
Number of extensions: 39068
Number of successful extensions: 105
Number of sequences better than 10.0: 1
Number of HSP's gapped: 104
Number of HSP's successfully gapped: 16
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.8 bits)