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= 014330
         (426 letters)

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

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



>pdb|1O61|A Chain A, Crystal Structure Of A Plp-Dependent Enzyme With Plp
 pdb|1O61|B Chain B, Crystal Structure Of A Plp-Dependent Enzyme With Plp
 pdb|1O62|A Chain A, Crystal Structure Of The Apo Form Of A Plp-Dependent
           Enzyme
 pdb|1O62|B Chain B, Crystal Structure Of The Apo Form Of A Plp-Dependent
           Enzyme
 pdb|1O69|A Chain A, Crystal Structure Of A Plp-Dependent Enzyme
 pdb|1O69|B Chain B, Crystal Structure Of A Plp-Dependent Enzyme
          Length = 394

 Score = 34.7 bits (78), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 30/99 (30%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 183 LTHL-APLSIFADIVDL-GAMGLVMVEDV---MISMKQRPALKAFGDFSVFSYGIGVAVY 237
           LTHL    +   +IV++     +V++ED    + S  +  AL  FG+F V+SY  G  + 
Sbjct: 128 LTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYN-GNKII 186

Query: 238 AFEGVGMILPLESETRNKQRF--GRILGWCMAFISLLYG 274
              G GM++    E   K RF   +    C+ +  L YG
Sbjct: 187 TTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYG 225


>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
          Length = 319

 Score = 28.5 bits (62), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 10/77 (12%)

Query: 26  LLTKSKPLSTRSKTFANVFISIVGAGVLGLPYTFKKTG----------WIMGLLMLFSVA 75
           ++T SK +   S TF +  ++ VGAG L    TF+ T            +   L  F   
Sbjct: 70  IITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALRVGSDLSAFYRC 129

Query: 76  ALTYYCMMLLVHTRRKL 92
            +  Y   L VH+ R+ 
Sbjct: 130 DILAYQDSLYVHSNRQF 146


  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
   0.328    0.143    0.447 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,774,172
Number of Sequences: 62578
Number of extensions: 462160
Number of successful extensions: 1007
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1006
Number of HSP's gapped (non-prelim): 5
length of query: 426
length of database: 14,973,337
effective HSP length: 102
effective length of query: 324
effective length of database: 8,590,381
effective search space: 2783283444
effective search space used: 2783283444
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)