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= 007620
         (595 letters)

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

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



>pdb|2GOP|A Chain A, The Beta-Propeller Domain Of The Trilobed Protease From
           Pyrococcus Furiosus Reveals An Open Velcro Topology
 pdb|2GOP|B Chain B, The Beta-Propeller Domain Of The Trilobed Protease From
           Pyrococcus Furiosus Reveals An Open Velcro Topology
          Length = 347

 Score = 39.7 bits (91), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 38/73 (52%), Gaps = 11/73 (15%)

Query: 39  SPDGKRIAFSVRVDEEDNVSSCKLRVWIADAETGEAKPLFESPDICLNAVFGSFVWVNNS 98
           SPDGK+IAF +R +EE  VS     +W+AD ET  +K + E+ +I       S  W  +S
Sbjct: 67  SPDGKKIAF-MRANEEKKVSE----IWVADLETLSSKKILEAKNIR------SLEWNEDS 115

Query: 99  TLLIFTIPSSRRD 111
             L+      R D
Sbjct: 116 RKLLIVGFKRRED 128


>pdb|2O1X|A Chain A, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
           Deinococcus Radiodurans
 pdb|2O1X|B Chain B, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
           Deinococcus Radiodurans
 pdb|2O1X|C Chain C, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
           Deinococcus Radiodurans
 pdb|2O1X|D Chain D, 1-deoxy-d-xylulose 5-phosphate Synthase (dxs) From
           Deinococcus Radiodurans
          Length = 629

 Score = 30.8 bits (68), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 32/105 (30%), Positives = 47/105 (44%), Gaps = 14/105 (13%)

Query: 252 DKPSTLYWVEAQDRGDANVEVSPRDIIYTQPA--EPAEGEKPEILHKLDLRFRSVSWCDD 309
           D P+ L+ V  + +G +  E  P  I +  PA  +PA GE         +   + SW   
Sbjct: 278 DGPTILHIVTTKGKGLSYAEADP--IYWHGPAKFDPATGEY--------VPSSAYSWSAA 327

Query: 310 SLALVNETWYKTSQTRTWLVCPGSKDVAPRVLFDRVFENVYSDPG 354
               V E W KT   RT++V P  ++ +  V F RV  + Y D G
Sbjct: 328 FGEAVTE-WAKT-DPRTFVVTPAMREGSGLVEFSRVHPHRYLDVG 370


>pdb|3J1Q|A Chain A, Structure Of Aav-Dj, A Retargeted Gene Therapy Vector:
           Cryo-Electron Microscopy At 4.5a Resolution
          Length = 737

 Score = 28.9 bits (63), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 7/72 (9%)

Query: 402 INTGSKERIWESNREKYFETAVALVFG-QGEEDINLNQLKILTSKESKTEIT------QY 454
           +N G      + + EK+F  +  L+FG QG E  N++  K++ + E +   T      QY
Sbjct: 519 VNPGPAMASHKDDEEKFFPQSGVLIFGKQGSEKTNVDIEKVMITDEEEIRTTNPVATEQY 578

Query: 455 HILSWPLKKSSQ 466
             +S  L++ ++
Sbjct: 579 GSVSTNLQRGNR 590


  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
   0.317    0.136    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,922,914
Number of Sequences: 62578
Number of extensions: 894872
Number of successful extensions: 2132
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2130
Number of HSP's gapped (non-prelim): 10
length of query: 595
length of database: 14,973,337
effective HSP length: 104
effective length of query: 491
effective length of database: 8,465,225
effective search space: 4156425475
effective search space used: 4156425475
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)