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= 030053
         (183 letters)

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

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



>pdb|2R88|A Chain A, Crystal Structure Of The Long-Chain Fatty Acid Transporter
           Fadl Mutant Delta S3 Kink
 pdb|2R88|B Chain B, Crystal Structure Of The Long-Chain Fatty Acid Transporter
           Fadl Mutant Delta S3 Kink
          Length = 426

 Score = 27.7 bits (60), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 19  NKRF-FVAQITLRILATAFSLAAVSLMITGTQTVLVFLVQMKVTYSSSSAWRFLFGANIV 77
           N +F + A IT   LAT F+       + GT  +    + +   Y  ++AW F  G N V
Sbjct: 89  NDQFGWGASITANDLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAV 148


>pdb|3P54|A Chain A, Crystal Structure Of The Japanese Encephalitis Virus
           Envelope Protein, Strain Sa-14-14-2
          Length = 406

 Score = 26.6 bits (57), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 9/83 (10%)

Query: 71  LFGANIVTCILSVLSLIFVCLISLSASHMKYFLLF-LHDMVTMVLLISGCAAASAI---- 125
           L G + +T + +    + V +I++ AS +     +  H  VT +  ++ C          
Sbjct: 25  LEGDSCLTIMANDKPTLDVRMINIEASQLAEVRSYCYHASVTDISTVARCPTTGEAHNEK 84

Query: 126 ----GYVGKYGELKMGWGPVCGF 144
                YV K G    GWG  CGF
Sbjct: 85  RADSSYVCKQGFTDRGWGNGCGF 107


  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
   0.329    0.135    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,074,283
Number of Sequences: 62578
Number of extensions: 122404
Number of successful extensions: 276
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 275
Number of HSP's gapped (non-prelim): 2
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 48 (23.1 bits)