RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15840
(161 letters)
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 89.6 bits (223), Expect = 8e-25
Identities = 33/59 (55%), Positives = 42/59 (71%)
Query: 98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTSA 156
RR+ ANARER RM GLN A D LR+V+PC KLSK ETL++A+ YI +L ++L S
Sbjct: 2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEILRSG 60
>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 = 78.6 bits (194), Expect = 2e-20
Identities = 25/62 (40%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 92 PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
RR AA RERRR+S +NEAF+ L+ +L K E L+ A YI L+
Sbjct: 6 KTTNADRRKAATMRERRRLSKVNEAFETLKRSTSSNP-NQRLPKVEILRNAIRYIEGLQA 64
Query: 152 LL 153
LL
Sbjct: 65 LL 66
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic
helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB:
2ql2_A*
Length = 76
Score = 69.1 bits (169), Expect = 1e-16
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 97 KRRLAANARERRRMSGLNEAFDRL-REVIPCIGIEHKLSKFETLQMAQTYIHSLRDLLTS 155
+R NA ER+R +NEAF L R + + +K LQ A I L +
Sbjct: 4 DKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRE 63
Query: 156 AN 157
N
Sbjct: 64 RN 65
>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 = 50.4 bits (121), Expect = 2e-09
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
+R N ER+R + L +F LR+ IP + K K L+ A YI S++
Sbjct: 6 KRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQA 59
>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 = 46.9 bits (112), Expect = 5e-08
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 97 KRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
+R NA ER+R + ++F LR+ +P + E K S+ + L A YI +R
Sbjct: 11 DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGE-KASRAQILDKATEYIQYMR 63
>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 = 45.0 bits (107), Expect = 2e-07
Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 96 KKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEH---KLSKFETLQMAQTYIHSLRD 151
+KRR N ERRR +N +L ++IP +E SK L A YI LR
Sbjct: 3 EKRRAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61
>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 = 45.1 bits (107), Expect = 3e-07
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 93 QVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
Q ++R A NA E+R S +N+ L++++ G E KL+K L+ A YI L+
Sbjct: 1 QSRGEKRTAHNAIEKRYRSSINDKIIELKDLVV--GTEAKLNKSAVLRKAIDYIRFLQ 56
>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 = 43.9 bits (104), Expect = 7e-07
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 98 RRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
+R NA ER+R + ++F LR+ +P + E K S+ + L A YI +R
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGE-KASRAQILDKATEYIQYMRR 54
>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 = 41.7 bits (98), Expect = 4e-06
Identities = 12/53 (22%), Positives = 24/53 (45%)
Query: 99 RLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLRD 151
R N E+ R + L + ++L+ ++P + + L A+ +I L D
Sbjct: 2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSSRHTTLSLLTKAKLHIKKLED 54
>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 = 35.1 bits (80), Expect = 0.001
Identities = 16/59 (27%), Positives = 26/59 (44%)
Query: 92 PQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
M + A + +N + RLRE++P + +LS+ E LQ YI L+
Sbjct: 8 HSHMGGGKGPAAEEPLSLLDDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQ 66
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 33.8 bits (77), Expect = 0.014
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 95 MKKRRLAANARERRRMSGLNEAFDRLREVIP-CIGIEHKLSKFETLQMAQTYIHSLR 150
+K R A + E+RR +N D L ++P C + KL K L+MA ++ +LR
Sbjct: 10 IKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS,
circadian rhythm proteins, transcription-activato; 2.27A
{Mus musculus}
Length = 361
Score = 33.8 bits (77), Expect = 0.015
Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 2/73 (2%)
Query: 87 GSVPPPQVMKKRRLAANARERRRMSGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYI 146
G+V K +R++ N E++R N L ++P G K+ K LQ + ++
Sbjct: 1 GAVEEDDKDKAKRVSRNKSEKKRRDQFNVLIKELGSMLP--GNARKMDKSTVLQKSIDFL 58
Query: 147 HSLRDLLTSANSG 159
++ +++
Sbjct: 59 RKHKETTAQSDAS 71
>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 = 33.1 bits (75), Expect = 0.031
Identities = 22/142 (15%), Positives = 44/142 (30%), Gaps = 58/142 (40%)
Query: 34 EEFDTNY-DSNYDRQYCD------SISNEDMLTVPREFKPILI----SHASSNPRRRRRN 82
EF+ Y + N D + E+ T+ + + I + P ++ N
Sbjct: 89 TEFENCYLEGN------DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 83 SAPSGSVPPPQVMKKRRL--AANARERRRMS-----GLNEA-FDRLREVIPCIGIEHKLS 134
SA L A + ++ G + F+ LR++
Sbjct: 143 SA---------------LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL----------- 176
Query: 135 KFETLQMAQTYIHSLRDLLTSA 156
++T Y + DL+ +
Sbjct: 177 -YQT------YHVLVGDLIKFS 191
>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 = 29.4 bits (66), Expect = 0.094
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 98 RRLAANARERRRMSGLNEAFDRLREVIPC----IGIEHKLSKFETLQMAQTYIHSLR 150
+R + E+ R + L A L +IP + SK T++ A YI L+
Sbjct: 2 KRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQ 58
>2zw5_A Bleomycin acetyltransferase; dimer, two domains; HET: COA; 2.40A
{Streptomyces verticillus} PDB: 2zw4_A* 2zw6_A 2zw7_A*
Length = 301
Score = 28.6 bits (64), Expect = 0.86
Identities = 13/52 (25%), Positives = 21/52 (40%)
Query: 60 VPREFKPILISHASSNPRRRRRNSAPSGSVPPPQVMKKRRLAANARERRRMS 111
P EF ++ S+ PR R G V P ++ A++ RR +
Sbjct: 215 DPPEFAEAALTPWSAGPRFRLAAVPGPGPVEPVRLHLDAAGTADSLHRRAVD 266
>3jv7_A ADH-A; dehydrogenase, nucleotide binding, rossmann-fold,
oxidoreduc; HET: NAD; 2.00A {Rhodococcus ruber} PDB:
2xaa_A*
Length = 345
Score = 26.8 bits (60), Expect = 3.0
Identities = 6/17 (35%), Positives = 8/17 (47%)
Query: 106 ERRRMSGLNEAFDRLRE 122
E + A+ RLRE
Sbjct: 318 ETFTLDEGPAAYRRLRE 334
>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 = 27.1 bits (59), Expect = 3.4
Identities = 25/175 (14%), Positives = 54/175 (30%), Gaps = 52/175 (29%)
Query: 10 QVLAGEVLTELEEFDFKQTNQDPREEFDTNYDSNYDRQYCDSISN--EDMLTVPREFKPI 67
+A +V +K + + F N + C+S E + + + P
Sbjct: 164 TWVALDVCL-----SYKVQCKMDFKIFWLNL------KNCNSPETVLEMLQKLLYQIDPN 212
Query: 68 LISHASSNPR-RRRRNSAPSGSVPPPQVMKKRRLAANARERR--------RMSGLNEAFD 118
S + + + R +S + + RRL + + + AF+
Sbjct: 213 WTSRSDHSSNIKLRIHSIQA---------ELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263
Query: 119 ---------RLREVIPCIG--------IEHK---LSKFETLQMAQTYIH-SLRDL 152
R ++V + ++H L+ E + Y+ +DL
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
>1h2b_A Alcohol dehydrogenase; oxidoreductase, archaea, hyperthermophIle,
zinc; HET: OCA NAJ; 1.62A {Aeropyrum pernix} SCOP:
b.35.1.2 c.2.1.1
Length = 359
Score = 26.9 bits (60), Expect = 3.5
Identities = 3/17 (17%), Positives = 10/17 (58%)
Query: 106 ERRRMSGLNEAFDRLRE 122
+ ++ +N+ +RL +
Sbjct: 332 DIHKLDEINDVLERLEK 348
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 26.5 bits (58), Expect = 4.8
Identities = 4/32 (12%), Positives = 9/32 (28%)
Query: 50 DSISNEDMLTVPREFKPILISHASSNPRRRRR 81
++ P L++ N R+
Sbjct: 100 QWALQNELYLNSNSGIPALLTEPVWNSTENRK 131
>2h6e_A ADH-4, D-arabinose 1-dehydrogenase; rossman fold, medium chain
alcohol dehydrogenase, oxidoreduc; 1.80A {Sulfolobus
solfataricus}
Length = 344
Score = 26.4 bits (59), Expect = 5.2
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 106 ERRRMSGLNEAFDRLRE 122
+ + +N+AF L E
Sbjct: 317 IKVPLDDINKAFTNLDE 333
>1ynp_A Oxidoreductase, AKR11C1; aldo-keto reductase, NADPH; HET: SUC;
1.25A {Bacillus halodurans} PDB: 1ynq_A*
Length = 317
Score = 26.0 bits (58), Expect = 5.8
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 76 PRRRRRNSAPSGSVPPPQVMKKRRL 100
+ SG VP MKKR+L
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMKKRQL 26
>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic
hypermutat protein-DNA complex, DNA mispair, cancer;
HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B*
2o8e_B* 2o8f_B*
Length = 1022
Score = 26.2 bits (58), Expect = 6.1
Identities = 6/40 (15%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 111 SGLNEAFDRLREVIPCIGIEHKLSKFETLQMAQTYIHSLR 150
+G + +D+ I E L ++ Q + ++
Sbjct: 593 AGFDSDYDQALADIR--ENEQSLLEYLEKQRNRIGCRTIV 630
>3s2e_A Zinc-containing alcohol dehydrogenase superfamily; FURX,
oxidoreductase; HET: NAD; 1.76A {Ralstonia eutropha}
PDB: 3s1l_A* 3s2f_A* 3s2g_A* 3s2i_A* 1llu_A* 3meq_A*
Length = 340
Score = 26.0 bits (58), Expect = 6.9
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 106 ERRRMSGLNEAFDRLRE 122
++ +N+ F RLRE
Sbjct: 311 STAKLDDVNDVFGRLRE 327
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
0.318 0.132 0.379
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,466,705
Number of extensions: 140217
Number of successful extensions: 358
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 31
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
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 (21.7 bits)
S2: 53 (24.4 bits)