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= 006257
         (653 letters)

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

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



>pdb|3APG|A Chain A, Crystal Structure Of Hyperthermophilic Beta-Glucosidase
           From Pyrococcus Furiosus
 pdb|3APG|B Chain B, Crystal Structure Of Hyperthermophilic Beta-Glucosidase
           From Pyrococcus Furiosus
 pdb|3APG|C Chain C, Crystal Structure Of Hyperthermophilic Beta-Glucosidase
           From Pyrococcus Furiosus
 pdb|3APG|D Chain D, Crystal Structure Of Hyperthermophilic Beta-Glucosidase
           From Pyrococcus Furiosus
          Length = 473

 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 5/75 (6%)

Query: 51  RKSDNSWKKSKTHHVMTSYIQPLMLWTGAILICRALDPVVLPTEAGEVVKQRLLNFVRSL 110
           RK  + WK+     ++  Y  PL LW    +  R L P   P  AG + ++ ++ FV+  
Sbjct: 132 RKIYSDWKERGKTFILNLYHWPLPLWIHDPIAVRKLGPDRAP--AGWLDEKTVVEFVKFA 189

Query: 111 STVLAFAYCLSSLIQ 125
           + V   AY L  L+ 
Sbjct: 190 AFV---AYHLDDLVD 201


>pdb|3CVQ|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (pts1) Binding
           Domain Of Trypanosoma Brucei Peroxin 5 (tbpex5)complexed
           To Pts1 Peptide (7- Skl)
          Length = 327

 Score = 31.2 bits (69), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 3/58 (5%)

Query: 270 IKTHLAISHLDVHKINSIVADMRKVLAKNPQVEQQ---RLHRRVFLDNINPENQALLI 324
           +   LA+SH + H  N+ +A +R  L   PQ EQ     L   V +D++N +++    
Sbjct: 91  VHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFF 148


>pdb|3CV0|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
           Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
           To T. Brucei Phosphoglucoisomerase (Pgi) Pts1 Peptide
 pdb|3CVL|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
           Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
           To T. Brucei Phosphofructokinase (Pfk) Pts1 Peptide
 pdb|3CVN|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
           Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
           To T. Brucei Glyceraldehyde-3-Phosphate Dehydrogenase
           (Gapdh) Pts1 Peptide
 pdb|3CVP|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
           Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
           To Pts1 Peptide (10-Skl)
          Length = 327

 Score = 31.2 bits (69), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 3/58 (5%)

Query: 270 IKTHLAISHLDVHKINSIVADMRKVLAKNPQVEQQ---RLHRRVFLDNINPENQALLI 324
           +   LA+SH + H  N+ +A +R  L   PQ EQ     L   V +D++N +++    
Sbjct: 91  VHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFF 148


>pdb|1HXI|A Chain A, An Unexpected Extended Conformation For The Third Tpr
           Motif Of The Peroxin Pex5 From Trypanosoma Brucei
          Length = 121

 Score = 29.3 bits (64), Expect = 6.9,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 270 IKTHLAISHLDVHKINSIVADMRKVLAKNPQVEQ 303
           +   LA+SH + H  N+ +A +R  L   PQ EQ
Sbjct: 87  VHAALAVSHTNEHNANAALASLRAWLLSQPQYEQ 120


  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
   0.314    0.129    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,893,277
Number of Sequences: 62578
Number of extensions: 615075
Number of successful extensions: 859
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 855
Number of HSP's gapped (non-prelim): 5
length of query: 653
length of database: 14,973,337
effective HSP length: 105
effective length of query: 548
effective length of database: 8,402,647
effective search space: 4604650556
effective search space used: 4604650556
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)