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= psy7947
         (173 letters)

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

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



>pdb|3L4C|A Chain A, Structural Basis Of Membrane-Targeting By Dock180
 pdb|3L4C|B Chain B, Structural Basis Of Membrane-Targeting By Dock180
          Length = 220

 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 30/44 (68%), Gaps = 4/44 (9%)

Query: 97  LPGDVRNDLYVTLVNAEF----KSSDKTIQVTVQVCTEAGVILK 136
           +PGDVRND+YVTLV  +F    K++ K ++VTV V  E G  L+
Sbjct: 21  MPGDVRNDIYVTLVQGDFDKGSKTTAKNVEVTVSVYDEDGKRLE 64


>pdb|1N3L|A Chain A, Crystal Structure Of A Human Aminoacyl-Trna Synthetase
           Cytokine
 pdb|1Q11|A Chain A, Crystal Structure Of An Active Fragment Of Human
           Tyrosyl-Trna Synthetase With Tyrosinol
          Length = 372

 Score = 28.9 bits (63), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 33  LCEKDNLENTLKRLISSLKDISSQKSAGMYVSLKFHCGDNKTESVAVAMTNTFIARKMGF 92
            CE  N+EN    ++S +K +     +   +      G NKT +  V +   F A     
Sbjct: 249 FCEPGNVENN--GVLSFIKHVLFPLKSEFVILRDEKWGGNKTYTAYVDLEKDFAA----- 301

Query: 93  PEIILPGDVRNDLYVTL 109
            E++ PGD++N + V L
Sbjct: 302 -EVVHPGDLKNSVEVAL 317


>pdb|3TQW|A Chain A, Structure Of A Abc Transporter, Periplasmic
           Substrate-Binding Protein From Coxiella Burnetii
 pdb|3TQW|B Chain B, Structure Of A Abc Transporter, Periplasmic
           Substrate-Binding Protein From Coxiella Burnetii
          Length = 240

 Score = 27.3 bits (59), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 13/28 (46%), Positives = 19/28 (67%)

Query: 23  PLSPYHSVVKLCEKDNLENTLKRLISSL 50
           P SPY +VV + E D  +  LK+L+S+L
Sbjct: 193 PNSPYANVVAVREDDKNDPRLKQLVSAL 220


>pdb|1F8Q|A Chain A, Crystal Structure Of Alpha-momorcharin In
          Acetonitrile-water Mixture
 pdb|1MRI|A Chain A, Studies On Crystal Structures Active Center Geometry And
          Depurine Mechanism Of Two Ribosome-Inactivating
          Proteins
 pdb|1MRH|A Chain A, Studies On Crystal Structures Active Center Geometry And
          Depurine Mechanism Of Two Ribosome-inactivating
          Proteins
          Length = 263

 Score = 27.3 bits (59), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 53 ISSQKSAGMYVSLKFHCGDNKTESVAVAMTNTFIARKMGF 92
          + S   AG Y+ +     D KT +VAV +TN +I   MG+
Sbjct: 38 LPSVSGAGRYLLMHLFNRDGKTITVAVDVTNVYI---MGY 74


>pdb|2Z2F|A Chain A, X-Ray Crystal Structure Of Bovine Stomach Lysozyme
          Length = 129

 Score = 26.9 bits (58), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 12/44 (27%), Positives = 22/44 (50%)

Query: 39  LENTLKRLISSLKDISSQKSAGMYVSLKFHCGDNKTESVAVAMT 82
           +EN + + ++  K I S++    +V+ K HC D+   S     T
Sbjct: 85  MENDIAKAVACAKHIVSEQGITAWVAWKSHCRDHDVSSYVEGCT 128


  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
   0.318    0.130    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,953,446
Number of Sequences: 62578
Number of extensions: 131123
Number of successful extensions: 381
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 375
Number of HSP's gapped (non-prelim): 9
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)