RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6185
(79 letters)
>3vu4_A KMHSV2; beta-propeller fold, protein transport; 2.60A
{Kluyveromyces marxianus} PDB: 4av9_A 4av8_A 4exv_A
Length = 355
Score = 50.8 bits (121), Expect = 2e-09
Identities = 8/55 (14%), Positives = 20/55 (36%), Gaps = 4/55 (7%)
Query: 11 SLSVGTKSGYRLFSLNSIDTLEQIYENSQEDVCIVERLFSSSLVAVVSLSSPRKL 65
L + T + ++++ + I + V L ++ VA V+ +
Sbjct: 33 CLILSTLKSFEIYNV---HPVAHIMSQEMRHLSKVRMLHRTNYVAFVT-GVKEVV 83
>3qao_A LMO0526 protein, MERR-like transcriptional regulator; structural
genomics, the center for structural genomics of I
diseases, csgid; 1.87A {Listeria monocytogenes}
Length = 249
Score = 32.1 bits (73), Expect = 0.009
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 8 GLLSLSVGTKSGYRLFSLNSIDTLEQI 34
GLL +GYR++S +D L+QI
Sbjct: 27 GLLVPQKDDWNGYRIYSEKDVDKLQQI 53
>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 = 31.6 bits (71), Expect = 0.013
Identities = 17/99 (17%), Positives = 32/99 (32%), Gaps = 30/99 (30%)
Query: 3 SVPLKGLLSLS----VGTKSGYRLFSLNSI--------------------DTLEQIYENS 38
S PL G++ L+ G+ L S D+ E + +
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV 296
Query: 39 QEDVCIVERLF---SSSLVAVVSLSSPRKLTKEEGKNEE 74
++ + LF A + S P + ++ +N E
Sbjct: 297 RK---AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE 332
>1r8d_A Transcription activator MTAN; protein-DNA complex,
transcription/DNA complex; 2.70A {Bacillus subtilis}
SCOP: a.6.1.3 PDB: 1jbg_A
Length = 109
Score = 30.6 bits (70), Expect = 0.019
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 8 GLLSLSVGTKSGYRLFSLNSIDTLEQI 34
LL+ S T +GYRL+S ++ L+QI
Sbjct: 26 ELLNPSALTDAGYRLYSDADLERLQQI 52
>2vz4_A Tipal, HTH-type transcriptional activator TIPA; transcription,
resistance, antibiotic; 2.90A {Streptomyces lividans}
Length = 108
Score = 30.3 bits (69), Expect = 0.023
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 8 GLLSLSVGTKSGYRLFSLNSIDTLEQI 34
GLL S + +G+R +S +D L+QI
Sbjct: 25 GLLVPSERSHAGHRRYSDADLDRLQQI 51
>3hh0_A Transcriptional regulator, MERR family; protein structure
initiative II(PSI II), NYSGXRC, 11183J, structural
genomics; 2.67A {Bacillus cereus atcc 14579}
Length = 146
Score = 30.4 bits (69), Expect = 0.031
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 8 GLLSLSVGTKSGYRLFSLNSIDTLEQI 34
LL S T+ G+RL++ + + L+QI
Sbjct: 28 NLLKPSDYTEGGHRLYTKDDLYVLQQI 54
>3gpv_A Transcriptional regulator, MERR family; protein structure
initiative II(PSI II), NYSGXRC, structural genomics;
1.90A {Bacillus thuringiensis serovarkonkukian}
Length = 148
Score = 29.7 bits (67), Expect = 0.045
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 7 KGLLSLSVGTKSGYRLFSLNSIDTLEQI 34
+GL + G R+F+ ++ LE I
Sbjct: 39 QGLFPFLQRNEKGDRIFNEEALKYLEMI 66
>1r8e_A Multidrug-efflux transporter regulator; protein-DNA complex,
MERR-family transcription activator, MU binding
protein; HET: P4P; 2.40A {Bacillus subtilis} SCOP:
a.6.1.3 d.60.1.1 PDB: 1exi_A* 1exj_A* 3iao_A 3q5p_A*
3d71_A* 3q3d_A* 3q1m_A* 3q2y_A* 3q5r_A* 3q5s_A* 3d70_A
3d6z_A* 3d6y_A* 1bow_A 2bow_A*
Length = 278
Score = 27.8 bits (62), Expect = 0.33
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 8 GLLS-LSVGTKSGYRLFSLNSIDTLEQI 34
L V + YR ++ + + L+ I
Sbjct: 29 DLFKPAYVDPDTSYRYYTDSQLIHLDLI 56
>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 = 0.34
Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 14/64 (21%)
Query: 6 LKGLLSLSVG------TKSGYRLFSL-----N-SIDTLEQIYENSQEDVC--IVERLFSS 51
L ++ S+ + + S+ + L I+ + + +V +L
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 52 SLVA 55
SLV
Sbjct: 415 SLVE 418
>2dg6_A Putative transcriptional regulator; winged-helix motif, MERR
family, gene regulation; 2.20A {Streptomyces
coelicolor}
Length = 222
Score = 27.4 bits (60), Expect = 0.35
Identities = 4/28 (14%), Positives = 10/28 (35%)
Query: 7 KGLLSLSVGTKSGYRLFSLNSIDTLEQI 34
+GLL + + + + L +
Sbjct: 23 EGLLPPGRQVNATTAEYDEDHLRRLRLV 50
>1q06_A Transcriptional regulator CUER; MERR family transcriptional
regulator, copper efflux regulator; 2.07A {Escherichia
coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Length = 135
Score = 26.9 bits (60), Expect = 0.44
Identities = 7/28 (25%), Positives = 18/28 (64%)
Query: 7 KGLLSLSVGTKSGYRLFSLNSIDTLEQI 34
KGL++ + +++GYR ++ ++ L +
Sbjct: 23 KGLVTPPMRSENGYRTYTQQHLNELTLL 50
>3gp4_A Transcriptional regulator, MERR family; structural genomics,
DNA-BI transcription regulator, PSI-2; 1.85A {Listeria
monocytogenes str}
Length = 142
Score = 26.9 bits (60), Expect = 0.54
Identities = 6/28 (21%), Positives = 10/28 (35%)
Query: 7 KGLLSLSVGTKSGYRLFSLNSIDTLEQI 34
GL+ +SG R F + +
Sbjct: 25 IGLIPPIHRNESGVRKFGAEDLRWILFT 52
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 26.1 bits (58), Expect = 1.3
Identities = 7/33 (21%), Positives = 16/33 (48%)
Query: 27 SIDTLEQIYENSQEDVCIVERLFSSSLVAVVSL 59
S+D++ I + ++ + LF + L +L
Sbjct: 2 SLDSISLIKTPIEAELEDFKALFDTPLSDSNAL 34
>2zhg_A Redox-sensitive transcriptional activator SOXR; oxidative stress,
MERR family, activator; HET: DNA; 2.80A {Escherichia
coli} PDB: 2zhh_A
Length = 154
Score = 25.8 bits (57), Expect = 1.4
Identities = 6/28 (21%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 7 KGLLSLSVGTKSGYRLFSLNSIDTLEQI 34
KGL++ S+ R + + + + I
Sbjct: 34 KGLIT-SIRNSGNQRRYKRDVLRYVAII 60
>3hsk_A Aspartate-semialdehyde dehydrogenase; candida albicans NADP
complex, amino-acid biosynthesis; HET: NAP; 2.20A
{Candida albicans}
Length = 381
Score = 25.4 bits (56), Expect = 2.4
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 66 TKEEGKNEEEEKKI 79
+ EE K E E KKI
Sbjct: 225 SGEEDKLEWETKKI 238
>1ys4_A Aspartate-semialdehyde dehydrogenase; oxidoreductase, asadh; HET:
NAP; 2.29A {Methanocaldococcus jannaschii}
Length = 354
Score = 24.1 bits (53), Expect = 6.6
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 67 KEEGKNEEEEKKI 79
EE K + E K+
Sbjct: 209 NEEEKMQTESLKL 221
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
0.310 0.128 0.334
Gapped
Lambda K H
0.267 0.0550 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,023,298
Number of extensions: 44823
Number of successful extensions: 88
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 16
Length of query: 79
Length of database: 6,701,793
Length adjustment: 48
Effective length of query: 31
Effective length of database: 5,361,585
Effective search space: 166209135
Effective search space used: 166209135
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (23.8 bits)