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= 048818
         (284 letters)

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

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



>pdb|3T1B|B Chain B, Crystal Structure Of The Full-Length Aphb N100e Variant
 pdb|3T1B|C Chain C, Crystal Structure Of The Full-Length Aphb N100e Variant
 pdb|3T1B|A Chain A, Crystal Structure Of The Full-Length Aphb N100e Variant
 pdb|3T1B|D Chain D, Crystal Structure Of The Full-Length Aphb N100e Variant
          Length = 291

 Score = 28.9 bits (63), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 12/62 (19%)

Query: 158 EKYCLPPHVHLKGNTRCKLVLNELPDDVYNREWDVIFIDGPR---GYYAEAPGRMATIFT 214
           EKY   P +H++      L+++   DD+   EWDVIF  GP+      A   G +  I  
Sbjct: 115 EKY---PDIHIE------LMMSNQADDLDPTEWDVIFRVGPQRDSSLIARKIGEVKDILV 165

Query: 215 AA 216
           A+
Sbjct: 166 AS 167


>pdb|3SZP|A Chain A, Full-Length Structure Of The Vibrio Cholerae Virulence
           Activator, Aphb, A Member Of The Lttr Protein Family
 pdb|3SZP|B Chain B, Full-Length Structure Of The Vibrio Cholerae Virulence
           Activator, Aphb, A Member Of The Lttr Protein Family
          Length = 291

 Score = 28.9 bits (63), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 12/62 (19%)

Query: 158 EKYCLPPHVHLKGNTRCKLVLNELPDDVYNREWDVIFIDGPR---GYYAEAPGRMATIFT 214
           EKY   P +H++      L+++   DD+   EWDVIF  GP+      A   G +  I  
Sbjct: 115 EKY---PDIHIE------LMMSNQADDLDPTEWDVIFRVGPQRDSSLIARKIGEVKDILV 165

Query: 215 AA 216
           A+
Sbjct: 166 AS 167


>pdb|3HLK|A Chain A, Crystal Structure Of Human Mitochondrial Acyl-Coa
           Thioesterase (Acot2)
 pdb|3HLK|B Chain B, Crystal Structure Of Human Mitochondrial Acyl-Coa
           Thioesterase (Acot2)
          Length = 446

 Score = 27.7 bits (60), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 3/64 (4%)

Query: 105 WASLNPRGTTIFLEEDSKLVHTIL--ARAPALRVHTVTYRTHLYEADHLMSSYRYEKYCL 162
           +A L P G    LE +  LV  +    R P L V       H  +   L+   R+E+Y L
Sbjct: 89  FAGLEPXGLLWALEPEKPLVRLVKRDVRTP-LAVELEVLDGHDPDPGRLLCQTRHERYFL 147

Query: 163 PPHV 166
           PP V
Sbjct: 148 PPGV 151


  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
   0.326    0.140    0.439 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,321,198
Number of Sequences: 62578
Number of extensions: 337360
Number of successful extensions: 840
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 840
Number of HSP's gapped (non-prelim): 3
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)