RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2848
(86 letters)
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 48.8 bits (117), Expect = 8e-10
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 9 RRNTANKKERRRTQSINNAFSDLRECIPNI 38
RR AN +ER R +N A +LR+ +P
Sbjct: 2 RRMKANARERNRMHGLNAALDNLRKVVPCY 31
>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 = 43.9 bits (104), Expect = 7e-08
Identities = 11/33 (33%), Positives = 14/33 (42%)
Query: 4 IRVVKRRNTANKKERRRTQSINNAFSDLRECIP 36
RR A +ERRR +N AF L+
Sbjct: 7 TTNADRRKAATMRERRRLSKVNEAFETLKRSTS 39
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic
helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB:
2ql2_A*
Length = 76
Score = 35.6 bits (82), Expect = 2e-04
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 7 VKRRNTANKKERRRTQSINNAFSDL-RECIPNI 38
+R N ER+R + IN AF +L R C ++
Sbjct: 3 ADKRAHHNALERKRRRDINEAFRELGRMCQMHL 35
>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 = 33.8 bits (78), Expect = 0.001
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 9 RRNTANKKERRRTQSINNAFSDLRECIPNI 38
+R T N ER+R + +F LR+ IP +
Sbjct: 6 KRRTHNVLERQRRNELKRSFFALRDQIPEL 35
>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 = 32.7 bits (75), Expect = 0.002
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 9 RRNTANKKERRRTQSINNAFSDLRECIPNI 38
+R N ER+R I ++F LR+ +P++
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSL 31
>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 = 0.007
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 8 KRRNTANKKERRRTQSINNAFSDLRECIPNI 38
+R N ER+R I ++F LR+ +P++
Sbjct: 11 DKRAHHNALERKRRDHIKDSFHSLRDSVPSL 41
>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 = 30.8 bits (70), Expect = 0.013
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 8 KRRNTANKKERRRTQSINNAFSDLRECIPN 37
++R N E+R SIN+ +L++ +
Sbjct: 5 EKRTAHNAIEKRYRSSINDKIIELKDLVVG 34
>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 = 30.0 bits (68), Expect = 0.020
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 8 KRRNTANKKERRRTQSINNAFSDLRECIPN 37
KRR N+ ERRR INN L + IP+
Sbjct: 4 KRRAQHNEVERRRRDKINNWIVQLSKIIPD 33
>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 = 29.8 bits (67), Expect = 0.028
Identities = 7/33 (21%), Positives = 16/33 (48%)
Query: 10 RNTANKKERRRTQSINNAFSDLRECIPNILETD 42
R+T N+ E+ R + + L+ +P ++
Sbjct: 2 RSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDSS 34
>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 = 28.9 bits (64), Expect = 0.20
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 29 SDLRECIPNILE--TDDIISID-DFKADLSNHSSH 60
SDLR +I E D II + ++ ++H
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH 500
>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 = 27.9 bits (61), Expect = 0.37
Identities = 13/89 (14%), Positives = 28/89 (31%), Gaps = 14/89 (15%)
Query: 4 IRVVKRRNTANKKERRR--TQSINNAFSDLRECIPNILETDDI----ISIDDFKADLSNH 57
I + T E + + ++ DL E +SI + +
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR------EVLTTNPRRLSI--IAESIRDG 340
Query: 58 SSHRKNKSQYDSPSEISSNQSSQYVMDPS 86
+ N + + +SS V++P+
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPA 369
>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1,
nicotinic acid riboside kinase activity, NAD
biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB:
2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*
Length = 207
Score = 26.7 bits (59), Expect = 0.71
Identities = 10/51 (19%), Positives = 18/51 (35%)
Query: 35 IPNILETDDIISIDDFKADLSNHSSHRKNKSQYDSPSEISSNQSSQYVMDP 85
+ L +IS DDF S + + QYD ++ + +
Sbjct: 41 LQKHLPNCSVISQDDFFKPESEIETDKNGFLQYDVLEALNMEKMMSAISCW 91
>3df8_A Possible HXLR family transcriptional factor; APC89000, structural
genomics, midwest center for structural genomics, MCSG;
1.65A {Thermoplasma volcanium}
Length = 111
Score = 25.0 bits (55), Expect = 3.0
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 11/30 (36%)
Query: 28 FSDLRECIPNI-----------LETDDIIS 46
F+D+R IP I L ++
Sbjct: 45 FNDIRSSIPGISSTILSRRIKDLIDSGLVE 74
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide,
oligosaccharide-binding fold, OB-fold, beta-barrel, RNA
binding protein; 2.50A {Aquifex aeolicus} SCOP:
b.40.4.4
Length = 111
Score = 24.5 bits (54), Expect = 4.4
Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 39 LETDDIISIDDF-KADL 54
+E +I I+DF K DL
Sbjct: 1 MEEKALIGIEDFLKVDL 17
>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding
protein, HTH-type transcription regulators, structural
genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus
subtilis} SCOP: a.4.5.69
Length = 107
Score = 24.0 bits (53), Expect = 4.9
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 11/30 (36%)
Query: 28 FSDLRECIPNI-----------LETDDIIS 46
S+L+ +PNI LE D +I+
Sbjct: 30 TSELKRLMPNITQKMLTQQLRELEADGVIN 59
>2fsw_A PG_0823 protein; alpha-beta structure, helix-turn-helix,
winged-helix-turn-HE structural genomics, PSI, protein
structure initiative; HET: MSE; 2.16A {Porphyromonas
gingivalis} SCOP: a.4.5.69
Length = 107
Score = 24.1 bits (53), Expect = 5.6
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 11/30 (36%)
Query: 28 FSDLRECIPNI-----------LETDDIIS 46
+ +L+ IP I L +I
Sbjct: 41 YGELKRAIPGISEKMLIDELKFLCGKGLIK 70
>1xjv_A Protection of telomeres 1; protein-DNA complex, single-stranded
DNA, transcription/DNA complex; 1.73A {Homo sapiens}
SCOP: b.40.4.3 b.40.4.3 PDB: 3kjo_A 3kjp_A
Length = 294
Score = 24.3 bits (52), Expect = 5.8
Identities = 10/44 (22%), Positives = 16/44 (36%)
Query: 26 NAFSDLRECIPNILETDDIISIDDFKADLSNHSSHRKNKSQYDS 69
FS E +P I + DI+ K + + S + S
Sbjct: 55 LLFSGNYEALPIIYKNGDIVRFHRLKIQVYKKETQGITSSGFAS 98
>3tav_A Methionine aminopeptidase; ssgcid, seattle structural genomics
center for infectious DI protease, hydrolase; 2.15A
{Mycobacterium abscessus}
Length = 286
Score = 24.5 bits (54), Expect = 6.0
Identities = 7/17 (41%), Positives = 11/17 (64%), Gaps = 3/17 (17%)
Query: 35 IPN---ILETDDIISID 48
IP+ +L D++SID
Sbjct: 109 IPSATAVLADGDLVSID 125
>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 = 22.8 bits (49), Expect = 9.4
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 9 RRNTANKKERRRTQSINNAFSDLRECIP 36
+R + E+ R + A +L IP
Sbjct: 2 KRESHKHAEQARRNRLAVALHELASLIP 29
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
0.311 0.126 0.341
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,177,724
Number of extensions: 53250
Number of successful extensions: 125
Number of sequences better than 10.0: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 25
Length of query: 86
Length of database: 6,701,793
Length adjustment: 54
Effective length of query: 32
Effective length of database: 5,194,059
Effective search space: 166209888
Effective search space used: 166209888
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: 51 (23.5 bits)