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= 040989
         (700 letters)

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

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



>pdb|1UFO|A Chain A, Crystal Structure Of Tt1662 From Thermus Thermophilus
 pdb|1UFO|B Chain B, Crystal Structure Of Tt1662 From Thermus Thermophilus
 pdb|1UFO|C Chain C, Crystal Structure Of Tt1662 From Thermus Thermophilus
 pdb|1UFO|D Chain D, Crystal Structure Of Tt1662 From Thermus Thermophilus
 pdb|1UFO|E Chain E, Crystal Structure Of Tt1662 From Thermus Thermophilus
 pdb|1UFO|F Chain F, Crystal Structure Of Tt1662 From Thermus Thermophilus
          Length = 238

 Score = 31.6 bits (70), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 418 GTDVIWQIPDSPKAVLFLAHGCNGRAVHFWDRSPN 452
           G  V+ +IP++PKA+L   HG  G   H     P 
Sbjct: 12  GLSVLARIPEAPKALLLALHGLQGSKEHILALLPG 46


>pdb|3G5U|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G5U|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
          Length = 1284

 Score = 30.4 bits (67), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 246 EVSEQQDDIQRLDLSQDDCGDKLPIRRSNTRSAAINP 282
           E  + +D+I  LD+S  D G  L IRR +TR +   P
Sbjct: 636 EACKSKDEIDNLDMSSKDSGSSL-IRRRSTRKSICGP 671


>pdb|3G60|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G60|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G61|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
 pdb|3G61|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
           Poly-Specific Drug Binding
          Length = 1284

 Score = 30.4 bits (67), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 246 EVSEQQDDIQRLDLSQDDCGDKLPIRRSNTRSAAINP 282
           E  + +D+I  LD+S  D G  L IRR +TR +   P
Sbjct: 636 EACKSKDEIDNLDMSSKDSGSSL-IRRRSTRKSICGP 671


  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
   0.319    0.135    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,748,101
Number of Sequences: 62578
Number of extensions: 824606
Number of successful extensions: 1779
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1778
Number of HSP's gapped (non-prelim): 3
length of query: 700
length of database: 14,973,337
effective HSP length: 106
effective length of query: 594
effective length of database: 8,340,069
effective search space: 4954000986
effective search space used: 4954000986
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: 55 (25.8 bits)