RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6235
(76 letters)
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 49.9 bits (120), Expect = 2e-10
Identities = 17/38 (44%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHH-EGEKLSK 73
RR AN+ ER RM +NA +LR ++P + + +KLSK
Sbjct: 2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSK 39
>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 = 48.1 bits (115), Expect = 2e-09
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 29 CTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
+ +R N+ ER+R I F SLR +P +GEK S+
Sbjct: 4 IEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASR 48
>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 = 45.8 bits (109), Expect = 9e-09
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
RR+ A ERRR+ +N F++L+ + ++L K
Sbjct: 12 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPK 48
>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 = 42.0 bits (99), Expect = 4e-07
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
+R N+ ER+R I F SLR +P +GEK S+
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASR 38
>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 = 41.9 bits (99), Expect = 5e-07
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPH-HEGEKLSK 73
++R N ER+R + F +LR +P EK K
Sbjct: 2 HMNVKRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPK 43
>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 = 39.3 bits (92), Expect = 4e-06
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 32 KEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
+ + +R N+ E+R SIN L+ L+ E KL+K
Sbjct: 1 QSRGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEA-KLNK 41
>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 = 33.5 bits (77), Expect = 7e-04
Identities = 14/43 (32%), Positives = 16/43 (37%), Gaps = 4/43 (9%)
Query: 35 RIRREIANSNERRRMQSINAGFQSLRTLLPHHEGE----KLSK 73
RR N ERRR IN L ++P E SK
Sbjct: 3 EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSK 45
>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 = 0.003
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 37 RREIANSNERRRMQSINAGFQSL-RTLLPHHEGEK 70
+R N+ ER+R + IN F+ L R H + +K
Sbjct: 5 KRAHHNALERKRRRDINEAFRELGRMCQMHLKSDK 39
>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 = 28.3 bits (63), Expect = 0.091
Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 38 REIANSNERRRMQSINAGFQSLRTLLPH-HEGEKLSK 73
R N E+ R + + L+ L+P + + +
Sbjct: 2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTT 38
>3aqp_A Probable secdf protein-export membrane protein; translocon, cell
membrane, MEM protein transport, translocation,
transmembrane, transport; 3.30A {Thermus thermophilus}
PDB: 2rrn_A
Length = 741
Score = 25.9 bits (57), Expect = 1.4
Identities = 6/30 (20%), Positives = 9/30 (30%), Gaps = 2/30 (6%)
Query: 35 RIRREIANSNERRRMQSINAGFQS--LRTL 62
RIR + +N RT+
Sbjct: 644 RIRENQKLLRHLPYAELVNRSINQTLSRTV 673
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 25.4 bits (55), Expect = 2.2
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 31 DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGE--KLSKT 74
+ RE + E+RR +N+ L +L+P KL K
Sbjct: 7 QGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKL 52
>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 = 25.4 bits (55), Expect = 2.3
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 9/37 (24%)
Query: 39 EIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI 75
EI N N Q + AG LR L + ++ +
Sbjct: 1842 EIVNYNV-ENQQYVAAG--DLRAL------DTVTNVL 1869
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH,
PAS, circadian rhythm proteins, transcription-activato;
2.27A {Mus musculus}
Length = 361
Score = 24.9 bits (54), Expect = 2.8
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 31 DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSK 73
DK+K +R N +E++R N + L ++LP K+ K
Sbjct: 7 DKDKA-KRVSRNKSEKKRRDQFNVLIKELGSMLP-GNARKMDK 47
>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 = 23.2 bits (50), Expect = 4.9
Identities = 7/40 (17%), Positives = 15/40 (37%)
Query: 36 IRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI 75
++RE E+ R + L +L+P ++
Sbjct: 1 MKRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAA 40
>3qm3_A Fructose-bisphosphate aldolase; structural genomics, center for
structural genomics of infec diseases, csgid, TIM
beta/alpha-barrel, lyase; 1.85A {Campylobacter jejuni}
Length = 357
Score = 23.9 bits (52), Expect = 5.8
Identities = 5/30 (16%), Positives = 9/30 (30%)
Query: 29 CTDKEKRIRREIANSNERRRMQSINAGFQS 58
K + +N + + A F S
Sbjct: 109 AARKLLPWIDGLIEANAQYKKTHGQALFSS 138
>2z5d_A Ubiquitin-conjugating enzyme E2 H; UBE2H, SGC, ligase, structural
genomics, structural genomics consortium; 2.10A {Homo
sapiens}
Length = 179
Score = 23.5 bits (51), Expect = 7.9
Identities = 5/36 (13%), Positives = 15/36 (41%)
Query: 7 MKSNLGSENESPPRGPSHLLTPCTDKEKRIRREIAN 42
M S+ + S P ++ + ++R+ ++
Sbjct: 1 MGSSHHHHHHSSGLVPRGSMSSPSPGKRRMDTDVIK 36
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
0.316 0.131 0.381
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: 1,080,445
Number of extensions: 46993
Number of successful extensions: 118
Number of sequences better than 10.0: 1
Number of HSP's gapped: 118
Number of HSP's successfully gapped: 16
Length of query: 76
Length of database: 6,701,793
Length adjustment: 45
Effective length of query: 31
Effective length of database: 5,445,348
Effective search space: 168805788
Effective search space used: 168805788
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)