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= 004974
         (721 letters)

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

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



>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 = 31.6 bits (70), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 3/59 (5%)

Query: 336 IKTHLAISHLDVHKINSIVADMRKVLAKNPQVEQQ---RLHRRVFLDNINPENQALLVS 391
           +   LA+SH + H  N+ +A +R  L   PQ EQ     L   V +D++N +++    +
Sbjct: 91  VHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFA 149


>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 = 31.6 bits (70), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 3/59 (5%)

Query: 336 IKTHLAISHLDVHKINSIVADMRKVLAKNPQVEQQ---RLHRRVFLDNINPENQALLVS 391
           +   LA+SH + H  N+ +A +R  L   PQ EQ     L   V +D++N +++    +
Sbjct: 91  VHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFA 149


>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 = 7.5,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 336 IKTHLAISHLDVHKINSIVADMRKVLAKNPQVEQ 369
           +   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
   0.315    0.130    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,817,980
Number of Sequences: 62578
Number of extensions: 694846
Number of successful extensions: 1419
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1415
Number of HSP's gapped (non-prelim): 4
length of query: 721
length of database: 14,973,337
effective HSP length: 106
effective length of query: 615
effective length of database: 8,340,069
effective search space: 5129142435
effective search space used: 5129142435
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)