RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2180
(129 letters)
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX,
paired domain, DNA-binding protein, gene regulation/DNA
complex; HET: DNA; 2.50A {Drosophila melanogaster}
SCOP: a.4.1.5
Length = 128
Score = 77.0 bits (189), Expect = 2e-19
Identities = 26/41 (63%), Positives = 32/41 (78%)
Query: 14 GHSGINQLGGVYVNGRPLPDSTRQKIVELAHSGARPCDISR 54
G +NQLGGV++NGRPLP++ R KIVE+A G RPC ISR
Sbjct: 1 GQGRVNQLGGVFINGRPLPNNIRLKIVEMAADGIRPCVISR 41
>2k27_A Paired box protein PAX-8; paired domain, solution structure,
triple frequency, 3D NMR, induced FIT, alternative
splicing, developmental protein; NMR {Homo sapiens}
Length = 159
Score = 76.8 bits (188), Expect = 5e-19
Identities = 32/76 (42%), Positives = 44/76 (57%), Gaps = 4/76 (5%)
Query: 13 AGHSGINQLGGVYVNGRPLPDSTRQKIVELAHSGARPCDISR----TCSAVRRPATRGST 68
+GH G+NQLGG +VNGRPLP+ RQ+IV+LAH G RPCDISR + V + R
Sbjct: 8 SGHGGLNQLGGAFVNGRPLPEVVRQRIVDLAHQGVRPCDISRQLRVSHGCVSKILGRYYE 67
Query: 69 SWAAFTSTGAPYRTQR 84
+ + + +
Sbjct: 68 TGSIRPGVIGGSKPKV 83
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription
factor, transcription/DNA complex; 2.25A {Homo sapiens}
SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Length = 149
Score = 75.6 bits (185), Expect = 1e-18
Identities = 36/78 (46%), Positives = 45/78 (57%), Gaps = 4/78 (5%)
Query: 11 SAAGHSGINQLGGVYVNGRPLPDSTRQKIVELAHSGARPCDISR----TCSAVRRPATRG 66
S GH G+NQLGGV+VNGRPLPD RQ+IVELAH G RPCDISR + V + R
Sbjct: 13 SRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRY 72
Query: 67 STSWAAFTSTGAPYRTQR 84
+ + + +
Sbjct: 73 YETGSIKPGVIGGSKPKV 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 = 33.5 bits (76), Expect = 0.015
Identities = 31/132 (23%), Positives = 40/132 (30%), Gaps = 50/132 (37%)
Query: 3 QSGALFGCSAAGHSGINQLGGVYVNGRPLPDSTRQKIVE---LAH-SGARPCDISRTCSA 58
+ A F AGHS LG E LA + I
Sbjct: 1754 PADATF----AGHS----LG------------------EYAALASLADVMS--IESLVEV 1785
Query: 59 VRRPATRGSTSWAAFTSTGAPYRTQRDR--RSWNWRTLARDPVISRASCRSPTDVCRKFS 116
V RG T A P RD RS N+ +A +P R + + +
Sbjct: 1786 VFY---RGMTMQVA-----VP----RDELGRS-NYGMIAINP--GRVAASFSQEALQYV- 1829
Query: 117 AEQTGKRPNQSV 128
E+ GKR V
Sbjct: 1830 VERVGKRTGWLV 1841
Score = 32.3 bits (73), Expect = 0.038
Identities = 19/152 (12%), Positives = 39/152 (25%), Gaps = 59/152 (38%)
Query: 2 AQSGALFGCSAAGHSGI-NQLGG-------------VYVNGRPLP----DSTRQKIVELA 43
+ S ALF G++ + GG +Y L + + + EL
Sbjct: 141 SNS-ALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 44 HSGA-------RPCDISRTCSAVRRPATRGSTSWAAFTSTGAPYRTQRDRRSWNWRTLAR 96
+ + +I + P+ + S P S
Sbjct: 200 RTTLDAEKVFTQGLNIL---EWLENPSNTPDKDY--LLS--IPI-------SC------- 238
Query: 97 DPVIS-------RASCR----SPTDVCRKFSA 117
P+I + + +P ++
Sbjct: 239 -PLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Score = 28.1 bits (62), Expect = 0.98
Identities = 23/127 (18%), Positives = 34/127 (26%), Gaps = 36/127 (28%)
Query: 17 GINQLGGVYVNGRPL---PDSTRQKIVELAHSGARPC--DISRTCSAVRRPATRGSTSWA 71
G+ QL V + L P R + GA + +AV A + SW
Sbjct: 242 GVIQLAHYVVTAKLLGFTPGELRSYL-----KGATGHSQGL---VTAV---AIAETDSWE 290
Query: 72 AFTSTGAP---------YRTQRDRRSWNWRTLARDPVISRASCR------SPTDVCRKFS 116
+F + R + + P I S SP +
Sbjct: 291 SFFVSVRKAITVLFFIGVRCYE-----AYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 117 AEQTGKR 123
EQ
Sbjct: 346 QEQVQDY 352
>3ryd_A Inositol monophosphatase family protein; impase fold, FIG
superfamily protein, hydrolase; HET: SRT; 2.37A
{Staphylococcus aureus} PDB: 3qmf_A
Length = 273
Score = 26.4 bits (59), Expect = 2.4
Identities = 8/53 (15%), Positives = 18/53 (33%), Gaps = 10/53 (18%)
Query: 22 GGVYVNGRPLPDSTRQKIVE-LAHSGARP------CDISRTCSAVRRPATRGS 67
G + NG + + K+ + + A+ D+ + R G+
Sbjct: 143 EGAFCNGIKMEEPPSLKLEDAIISFNAQVMNLDTVQDLFDASFSYRLV---GA 192
>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 146
Score = 25.3 bits (56), Expect = 5.8
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 4/24 (16%)
Query: 22 GGVYVNGRPL----PDSTRQKIVE 41
G + VNGRPL P + + K++E
Sbjct: 30 GLIKVNGRPLEMIEPRTLQYKLLE 53
>3bfx_A Sulfotransferase 1C2; PAP, structural genomics, PSI, protein
structure initiative, structural genomics consortium,
SGC, alternative splicing; HET: A3P; 1.80A {Homo
sapiens} SCOP: c.37.1.5
Length = 296
Score = 25.5 bits (56), Expect = 6.7
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 24 VYVNGRPLPDSTRQKIVELAHSGARPCDI 52
V G L +T ++ A+P D+
Sbjct: 14 KEVEGTLLQPATVDNWSQIQSFEAKPDDL 42
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon
DNA, bipartite DNA-binding, HTH- motif, DNA binding
protein/DNA complex; 2.69A {Caenorhabditis elegans}
SCOP: a.4.1.2 a.4.1.2
Length = 141
Score = 25.0 bits (54), Expect = 7.1
Identities = 10/64 (15%), Positives = 21/64 (32%), Gaps = 4/64 (6%)
Query: 28 GRPLPDSTRQKIVELAHSGARPCDISRTC----SAVRRPATRGSTSWAAFTSTGAPYRTQ 83
G L D+ R ++ + ++SR +R + + + +
Sbjct: 4 GSALSDTERAQLDVMKLLNVSLHEMSRKISRSRHCIRVYLKDPVSYGTSKRAPRRKALSV 63
Query: 84 RDRR 87
RD R
Sbjct: 64 RDER 67
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 0.129 0.408
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,929,474
Number of extensions: 99321
Number of successful extensions: 452
Number of sequences better than 10.0: 1
Number of HSP's gapped: 452
Number of HSP's successfully gapped: 22
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
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 (21.8 bits)
S2: 52 (23.7 bits)