RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15415
(128 letters)
>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer,
monomer, winged-helix, magnesium, transcription/DNA
complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB:
2as5_F 2kiu_A 3qrf_F
Length = 93
Score = 60.0 bits (146), Expect = 3e-13
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 14 ERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDME 60
F Y+ +N WKN+VRHNLS++ F V+ G +W + ++E
Sbjct: 35 RTFAYFRRNAATWKNAVRHNLSLHKCF---VRVENVKGAVWTVDEVE 78
>1vtn_C HNF-3/FORK head DNA-recognition motif; protein-DNA complex,
double helix, transcription-DNA complex; HET: DNA;
2.50A {Homo sapiens} PDB: 1d5v_A
Length = 102
Score = 58.8 bits (143), Expect = 1e-12
Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
+ + FPYY +N RW+NS+RH+LS N F K ++ G G W L
Sbjct: 32 WIMDLFPYYRENQQRWQNSIRHSLSFNDCFVKVARSPDKPGKGSYWAL 79
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 109
Score = 58.1 bits (141), Expect = 2e-12
Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
F RFPYY + W+NS+RHNLS+N F K + G G+ W L
Sbjct: 32 FISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 79
>1kq8_A HFH-1, hepatocyte nuclear factor 3 forkhead homolog 1, winged;
winged helix protein, structure, transcription; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 100
Score = 57.7 bits (140), Expect = 2e-12
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKAS---QGAGHLWNL 56
+ +FP++ + W+NSVRHNLS+N F K ++ G + W L
Sbjct: 31 YLMGKFPFFRGSYTGWRNSVRHNLSLNDCFVKVLRDPSRPWGKDNYWML 79
>2hdc_A Protein (transcription factor); structure, dyanamics, genesis,
winged helix protein, protein/DNA complex; HET: DNA;
NMR {Rattus norvegicus} SCOP: a.4.5.14
Length = 97
Score = 57.6 bits (140), Expect = 3e-12
Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
F RFPYY + W+NS+RHNLS+N F K + G G+ W L
Sbjct: 31 FISNRFPYYREKFPAWQNSIRHNLSLNDCFVKIPREPGNPGKGNYWTL 78
>2c6y_A Forkhead box protein K2; transcription regulation, DNA-binding
domain, forkhead transcription factors, interleukin
enhancer binding factor; 2.4A {Homo sapiens} SCOP:
a.4.5.14 PDB: 1jxs_A 2a3s_A 2d2w_A
Length = 111
Score = 57.7 bits (140), Expect = 4e-12
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 11 FHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQ--GAGHLWNL 56
+ +PYY D W+NS+RHNLS+N +F K ++ + G G W +
Sbjct: 45 HITKNYPYYRTADKGWQNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRI 92
>3bpy_A FORK head domain, forkhead transcription factor FOXO4, DNA
binding domain; forkhead BOX, winged helix; 1.87A {Homo
sapiens} SCOP: a.4.5.14
Length = 85
Score = 55.0 bits (133), Expect = 2e-11
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 14 ERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
PY+ + + WKNS+RHNLS++ F K + G W L
Sbjct: 37 RTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 84
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead
transcription factors, FOXM1, W helix; HET: DNA; 2.21A
{Homo sapiens}
Length = 142
Score = 56.0 bits (135), Expect = 3e-11
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 14 ERFPYY-NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
+ FPY+ + WKNS+RHNLS++ F + ++ G W +
Sbjct: 50 DHFPYFKHIAKPGWKNSIRHNLSLHDMFVR-ETSANGKVSFWTI 92
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 54.4 bits (131), Expect = 5e-11
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 14 ERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
PY+ + + WKNS+RHNLS++ F K + G W L
Sbjct: 56 RTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 103
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 51.5 bits (123), Expect = 2e-09
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 11 FHRERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
+ PY+ + + WKNS+RHNLS++ F K + G W L
Sbjct: 69 WMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 119
>3coa_C Forkhead box protein O1; winged helix, forkhead domain,
chromosomal rearrangement; HET: DNA; 2.20A {Homo
sapiens} PDB: 3co7_C* 2k86_A 2uzk_A
Length = 117
Score = 50.2 bits (120), Expect = 3e-09
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 14 ERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 56
+ PY+ + + WKNS+RHNLS++ F + G W L
Sbjct: 43 KSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQNEGTGKSSWWML 90
>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 = 0.57
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 22/86 (25%)
Query: 30 VRHNLSINPHFRKGVKASQGAGHLWNLSDME--PVEDASKSNWVSIKVTGVKRTGWLAFG 87
+R L F +G+ + W L + P +D S +S + GV +
Sbjct: 199 IRTTLDAEKVFTQGLNILE-----W-LENPSNTPDKDYLLSIPISCPLIGV-----IQLA 247
Query: 88 YYSERPKYDMLNTSGV----LRTCMC 109
+Y G LR+ +
Sbjct: 248 HY-----VVTAKLLGFTPGELRSYLK 268
>3er7_A Uncharacterized NTF2-like protein; YP_001812677.1, NTF2-like
protein of unknown function, struc genomics; HET: MSE;
1.50A {Exiguobacterium sibiricum 255-15} SCOP:
d.17.4.24
Length = 131
Score = 27.1 bits (59), Expect = 1.3
Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 3/48 (6%)
Query: 35 SINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNWVSIKVTGVKRTG 82
+ R A+Q H++ D ++ W V G G
Sbjct: 50 AWKQFVRMVFTANQDIKHMYAGWVPSETGDTMETRWA---VCGKSADG 94
>2pr5_A Blue-light photoreceptor; light-oxygen-voltage, LOV, PER-ARNT-SIM,
PAS, flavoprotein, protein; HET: FMN; 1.45A {Bacillus
subtilis} PDB: 2pr6_A*
Length = 132
Score = 26.3 bits (59), Expect = 2.1
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 54 WNLSDMEPVEDASKSNWVSIK--VTGVKRT 81
WN +++P+E K+ +V I+ +T K
Sbjct: 88 WNELNIDPMEIEDKTYFVGIQNDITKQKEY 117
>2du3_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase/RNA
complex; HET: SEP; 2.60A {Archaeoglobus fulgidus} PDB:
2du4_A 2du5_A* 2du6_A*
Length = 534
Score = 25.2 bits (55), Expect = 8.8
Identities = 8/56 (14%), Positives = 18/56 (32%), Gaps = 2/56 (3%)
Query: 6 NLRLFFHRERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEP 61
++R + + +D ++ + P G+K +Q EP
Sbjct: 342 DVRKMVYPQIHGEIKLSDLDIAREIK--VKEVPQTAVGLKIAQSIVETAEKHASEP 395
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
0.321 0.133 0.435
Gapped
Lambda K H
0.267 0.0573 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,939,727
Number of extensions: 97745
Number of successful extensions: 176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 175
Number of HSP's successfully gapped: 16
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.8 bits)