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= 002718
         (888 letters)

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

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



>pdb|3PT5|A Chain A, Crystal Structure Of Nans
          Length = 337

 Score = 34.3 bits (77), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 3/50 (6%)

Query: 706 FNVMLSDYSLHPQLEHYSCMVDILGRS-GQLNKALKLIQEMPFEADDVIW 754
           F++M SDY+ HPQ  H++ MV+   R   Q +  L  I + P+   D  W
Sbjct: 193 FDLMTSDYASHPQ--HFNHMVEAFRRDLKQYHSQLNNITDAPWFCGDTTW 240


>pdb|2FW3|A Chain A, Crystal Structure Of Rat Carnitine Palmitoyltransferase 2
           In Complex With Antidiabetic Drug St1326
 pdb|2RCU|A Chain A, Crystal Structure Of Rat Carnitine Palmitoyltransferase 2
           In Complex With R-3-(Hexadecanoylamino)-4-
           (Trimethylazaniumyl)butanoate
 pdb|2RCU|B Chain B, Crystal Structure Of Rat Carnitine Palmitoyltransferase 2
           In Complex With R-3-(Hexadecanoylamino)-4-
           (Trimethylazaniumyl)butanoate
          Length = 653

 Score = 30.8 bits (68), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 581 DDFTYATLLDTCGNLATVGLGMQLHAQIIKQEMQSD--VYISSTLVDMY 627
           DD  +      C N  T G+G +LHA ++ Q+ Q+    YIS    DMY
Sbjct: 68  DDSQFRRTEALCKNFET-GVGKELHAHLLAQDKQNKHTSYISGPWFDMY 115


>pdb|2H4T|A Chain A, Crystal Structure Of Rat Carnitine Palmitoyltransferase Ii
 pdb|2H4T|B Chain B, Crystal Structure Of Rat Carnitine Palmitoyltransferase Ii
          Length = 626

 Score = 30.8 bits (68), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 581 DDFTYATLLDTCGNLATVGLGMQLHAQIIKQEMQSD--VYISSTLVDMY 627
           DD  +      C N  T G+G +LHA ++ Q+ Q+    YIS    DMY
Sbjct: 43  DDSQFRRTEALCKNFET-GVGKELHAHLLAQDKQNKHTSYISGPWFDMY 90


>pdb|1WDK|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form I (Native2)
 pdb|1WDK|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form I (Native2)
 pdb|1WDL|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form Ii (Native4)
 pdb|1WDL|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form Ii (Native4)
 pdb|1WDM|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form I (Native3)
 pdb|1WDM|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form I (Native3)
 pdb|2D3T|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form V
 pdb|2D3T|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
           Pseudomonas Fragi, Form V
          Length = 715

 Score = 30.0 bits (66), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 57  THDQAQNPGKQAHARLIVSGFK--PTIFVSNCLIQLYIKCSNLKSALKVFDKMPQ 109
           T  +A N G+     +  +GF        SNCLI L++    LK   KV+DK+ +
Sbjct: 258 TIQKAANFGRDKALEVEAAGFAKLAKTSASNCLIGLFLNDQELKKKAKVYDKIAK 312


  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
   0.322    0.136    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,116,704
Number of Sequences: 62578
Number of extensions: 1000847
Number of successful extensions: 2083
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2080
Number of HSP's gapped (non-prelim): 8
length of query: 888
length of database: 14,973,337
effective HSP length: 107
effective length of query: 781
effective length of database: 8,277,491
effective search space: 6464720471
effective search space used: 6464720471
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)