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= 042429
         (304 letters)

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

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



>pdb|1MAB|B Chain B, Rat Liver F1-Atpase
 pdb|2F43|B Chain B, Rat Liver F1-atpase
          Length = 479

 Score = 29.3 bits (64), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 7/69 (10%)

Query: 38  FSEELSLPIFTGRKITDIENNPLQIVVVETRSSGRITPANLSQPIKILMVVLDWDFPSGD 97
            SEE  L +   RKI    + P Q+  V T   G++ P  L + IK    +L     +GD
Sbjct: 396 LSEEDKLTVSRARKIQRFLSQPFQVAEVFTGHMGKLVP--LKETIKGFQQIL-----AGD 448

Query: 98  HDDWSQEEF 106
           +D   ++ F
Sbjct: 449 YDHLPEQAF 457


>pdb|3PRB|A Chain A, Structural Analysis Of Protein Folding By The
           Methanococcus Jannaschii Chaperone Fkbp26
 pdb|3PRB|B Chain B, Structural Analysis Of Protein Folding By The
           Methanococcus Jannaschii Chaperone Fkbp26
 pdb|3PRD|A Chain A, Structural Analysis Of Protein Folding By The
           Methanococcus Jannaschii Chaperone Fkbp26
          Length = 231

 Score = 28.9 bits (63), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 27/53 (50%)

Query: 109 NIVKERIGKQPLLTGDVNVTIRNGVAPVEDIEFTDNSSWIRSRKFKISAKVAQ 161
           NIVKE +        DV VTIRNG   +E  EF      I++ K  I+ ++ +
Sbjct: 154 NIVKEIVKMYVPRLSDVKVTIRNGTVKIELPEFAPFIPNIQTAKMAIANEILK 206


>pdb|3EMV|A Chain A, Crystal Structure Of Plasmodium Vivax Pnp With Sulphate
          Length = 253

 Score = 28.5 bits (62), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 8/85 (9%)

Query: 39  SEELSLPIFTGRKITDIENNPLQIVVVETRSSGRITPANLSQPIKILMVVLDWD------ 92
           +EEL +P+F G  ++     P +I+        +   A +   +  LMV+          
Sbjct: 143 AEELKVPVFNGISLSSDMYYPHKIIPTRLEDYSKANVAVVEMEVATLMVMGTLRKVKTGG 202

Query: 93  --FPSGDHDDWSQEEFESNIVKERI 115
                G    W + +F++N+V ER+
Sbjct: 203 IFIVDGCPLKWDEGDFDNNLVPERL 227


>pdb|1WCH|A Chain A, Crystal Structure Of Ptpl1 Human Tyrosine Phosphatase
          Mutated In Colorectal Cancer - Evidence For A Second
          Phosphotyrosine Substrate Recognition Pocket
          Length = 315

 Score = 27.7 bits (60), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 1/42 (2%)

Query: 55 IENNPLQIV-VVETRSSGRITPANLSQPIKILMVVLDWDFPS 95
          + N+ L ++ VV+   SG+ T ANL   I++L  +LD   PS
Sbjct: 11 LTNDELAVLPVVKVLPSGKYTGANLKSVIRVLRGLLDQGIPS 52


  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    0.136    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,233,304
Number of Sequences: 62578
Number of extensions: 372123
Number of successful extensions: 894
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 891
Number of HSP's gapped (non-prelim): 10
length of query: 304
length of database: 14,973,337
effective HSP length: 98
effective length of query: 206
effective length of database: 8,840,693
effective search space: 1821182758
effective search space used: 1821182758
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: 51 (24.3 bits)