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= psy17978
         (174 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
           Domain
 pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
           Domain
          Length = 3367

 Score = 50.1 bits (118), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 58/121 (47%), Gaps = 5/121 (4%)

Query: 42  EIVKKGYLKKMKIETTWKNLEFTCIPHRDSKNVFILAGLEEVQTILDESLISLATILSSR 101
           EI  + +LK ++    W  LE   + ++  +   ++ G +++   L E L S++ +  S 
Sbjct: 161 EIALEEFLKGVR--EFWTTLELDLVNYQ--RKCKLVRGWDDLFNKLAEHLNSISAMKMSP 216

Query: 102 QVAQIRESAEQWRQMLFLFSKTLDEWINFQNNWLYLESIFTGP-DIQKQLPNESKLFTEV 160
                 E A  W   L      LD WI+ Q  W+YLE IF+G  DI + LP ES  F  +
Sbjct: 217 YYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSI 276

Query: 161 D 161
           +
Sbjct: 277 N 277


>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
           Motor Domain
 pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
           Motor Domain
          Length = 3245

 Score = 50.1 bits (118), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 58/121 (47%), Gaps = 5/121 (4%)

Query: 42  EIVKKGYLKKMKIETTWKNLEFTCIPHRDSKNVFILAGLEEVQTILDESLISLATILSSR 101
           EI  + +LK ++    W  LE   + ++  +   ++ G +++   L E L S++ +  S 
Sbjct: 161 EIALEEFLKGVR--EFWTTLELDLVNYQ--RKCKLVRGWDDLFNKLAEHLNSISAMKMSP 216

Query: 102 QVAQIRESAEQWRQMLFLFSKTLDEWINFQNNWLYLESIFTGP-DIQKQLPNESKLFTEV 160
                 E A  W   L      LD WI+ Q  W+YLE IF+G  DI + LP ES  F  +
Sbjct: 217 YYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSI 276

Query: 161 D 161
           +
Sbjct: 277 N 277


>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
 pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
 pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
 pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
 pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
 pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
          Length = 584

 Score = 26.2 bits (56), Expect = 9.1,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 7/78 (8%)

Query: 76  ILAGLEEVQTILDESLISLATILSSRQVAQIRESAEQWRQMLFLFSKTLDEWINFQNNWL 135
           +LA L+E  T +D   +  A     R   ++ +SAE+          TL + I  + N++
Sbjct: 354 VLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERC-------VSTLLDLIQTKVNYV 406

Query: 136 YLESIFTGPDIQKQLPNE 153
             E+I    DI ++ PN+
Sbjct: 407 VQEAIVVIKDIFRKYPNK 424


  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
   0.320    0.133    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,314,856
Number of Sequences: 62578
Number of extensions: 135042
Number of successful extensions: 341
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 338
Number of HSP's gapped (non-prelim): 6
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)