BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy12865
(227 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NZ8|B Chain B, N-Terminal Dhph Cassette Of Trio In Complex With
Nucleotide- Free Rac1
Length = 313
Score = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 41/59 (69%), Positives = 49/59 (83%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVWTGRAPISDCRILLKASSLEAKQLWVKRLREVIQE 60
K +L TSELGVTEH+EGD CKFA+W GR P SD +I+LKASS+E KQ W+K +REVIQE
Sbjct: 253 KSKLFTSELGVTEHVEGDPCKFALWVGRTPTSDNKIVLKASSIENKQDWIKHIREVIQE 311
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/33 (57%), Positives = 22/33 (66%), Gaps = 5/33 (15%)
Query: 105 GNTTDSD-----KASSLEAKQLWVKRLREVIQE 132
G T SD KASS+E KQ W+K +REVIQE
Sbjct: 279 GRTPTSDNKIVLKASSIENKQDWIKHIREVIQE 311
>pdb|1NTY|A Chain A, Crystal Structure Of The First DhPH DOMAIN OF TRIO TO 1.7
A
Length = 311
Score = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 41/59 (69%), Positives = 49/59 (83%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVWTGRAPISDCRILLKASSLEAKQLWVKRLREVIQE 60
K +L TSELGVTEH+EGD CKFA+W GR P SD +I+LKASS+E KQ W+K +REVIQE
Sbjct: 251 KSKLFTSELGVTEHVEGDPCKFALWVGRTPTSDNKIVLKASSIENKQDWIKHIREVIQE 309
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/33 (57%), Positives = 22/33 (66%), Gaps = 5/33 (15%)
Query: 105 GNTTDSD-----KASSLEAKQLWVKRLREVIQE 132
G T SD KASS+E KQ W+K +REVIQE
Sbjct: 277 GRTPTSDNKIVLKASSIENKQDWIKHIREVIQE 309
>pdb|2RGN|B Chain B, Crystal Structure Of P63rhogef Complex With Galpha-Q And
Rhoa
pdb|2RGN|E Chain E, Crystal Structure Of P63rhogef Complex With Galpha-Q And
Rhoa
Length = 354
Score = 34.7 bits (78), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVWTGRAPISDC-RILLKASSLEAKQLWVKRLREVIQ 59
K + S LG+ +++GD C+FA+ T R P R +L+A+ Q W+K + ++++
Sbjct: 261 KNSIKVSCLGLEGNLQGDPCRFAL-TSRGPEGGIQRYVLQAADPAISQAWIKHVAQILE 318
>pdb|1RJ2|A Chain A, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
pdb|1RJ2|D Chain D, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
pdb|1RJ2|G Chain G, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
pdb|1RJ2|J Chain J, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
Length = 353
Score = 33.9 bits (76), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%), Gaps = 5/58 (8%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVW-TGRAPISDCRILLKASSLEAKQLWVKRLREVI 58
K L + +G+TE+++GD KF +W R + +++A + E K WV +R+V+
Sbjct: 271 KQSLNMTAVGITENVKGDTKKFEIWYNAREEV----YIIQAPTPEIKAAWVNEIRKVL 324
>pdb|1KZG|A Chain A, Dbscdc42(Y889f)
pdb|1KZG|C Chain C, Dbscdc42(Y889f)
Length = 353
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%), Gaps = 5/58 (8%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVW-TGRAPISDCRILLKASSLEAKQLWVKRLREVI 58
K L + +G+TE+++GD KF +W R + +++A + E K WV +R+V+
Sbjct: 271 KQSLNMTAVGITENVKGDTKKFEIWYNAREEV----YIIQAPTPEIKAAWVNEIRKVL 324
>pdb|1LB1|A Chain A, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
pdb|1LB1|C Chain C, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
pdb|1LB1|E Chain E, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
pdb|1LB1|G Chain G, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
Length = 353
Score = 33.9 bits (76), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%), Gaps = 5/58 (8%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVW-TGRAPISDCRILLKASSLEAKQLWVKRLREVI 58
K L + +G+TE+++GD KF +W R + +++A + E K WV +R+V+
Sbjct: 271 KQSLNMTAVGITENVKGDTKKFEIWYNAREEV----YIIQAPTPEIKAAWVNEIRKVL 324
>pdb|1KZ7|A Chain A, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN
Complex With The Placental Isoform Of Human Cdc42
pdb|1KZ7|C Chain C, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN
Complex With The Placental Isoform Of Human Cdc42
Length = 353
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%), Gaps = 5/58 (8%)
Query: 2 KGRLMTSELGVTEHIEGDECKFAVW-TGRAPISDCRILLKASSLEAKQLWVKRLREVI 58
K L + +G+TE+++GD KF +W R + +++A + E K WV +R+V+
Sbjct: 271 KQSLNXTAVGITENVKGDTKKFEIWYNAREEV----YIIQAPTPEIKAAWVNAIRKVL 324
>pdb|4EO3|A Chain A, Peroxiredoxin Nitroreductase Fusion Enzyme
pdb|4EO3|B Chain B, Peroxiredoxin Nitroreductase Fusion Enzyme
Length = 322
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 4 RLMTSELGVTEHIEGDECKFAVWTGRAPISDCRILLKASSL 44
RL+ +L + +HIE + A+ R P + +L+KA+ L
Sbjct: 136 RLIEEDLSLNKHIEWRRARRALKKDRVPREELELLIKAAHL 176
>pdb|1DD5|A Chain A, Crystal Structure Of Thermotoga Maritima Ribosome
Recycling Factor, Rrf
pdb|1T1M|C Chain C, Binding Position Of Ribosome Recycling Factor (Rrf) On The
E. Coli 70s Ribosome
Length = 185
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 28 GRAPISD---CRILLKASSLEAKQLWVKRLREVIQE 60
G PI+D R++ + + E ++ WVK+ +E+++E
Sbjct: 88 GLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIVEE 123
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.129 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,061,683
Number of Sequences: 62578
Number of extensions: 135144
Number of successful extensions: 219
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 206
Number of HSP's gapped (non-prelim): 15
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)