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= 005529
         (692 letters)

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

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



>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
           (Trigonal Crystal Form)
 pdb|2HYZ|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
           (Orthorombic Crystal Form)
          Length = 136

 Score = 31.2 bits (69), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 9/83 (10%)

Query: 567 VIQLLEEALRCPSDGLRKGQALNNLGSIYVECGKLDQAENCYINA--LDIKHTRAHQGLA 624
            I+  ++AL       R  +A  NLG+ Y + G  D+A   Y  A  LD +   A   L 
Sbjct: 20  AIEYYQKALELDP---RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLG 76

Query: 625 RVYYLKNELKAAYDEMTKLLEKA 647
             YY + +    YDE  +  +KA
Sbjct: 77  NAYYKQGD----YDEAIEYYQKA 95



 Score = 29.3 bits (64), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 6/64 (9%)

Query: 586 QALNNLGSIYVECGKLDQAENCYINA--LDIKHTRAHQGLARVYYLKNELKAAYDEMTKL 643
           +A  NLG+ Y + G  D+A   Y  A  LD +   A   L   YY + +    YDE  + 
Sbjct: 2   EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGD----YDEAIEY 57

Query: 644 LEKA 647
            +KA
Sbjct: 58  YQKA 61


>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha.
 pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha
          Length = 388

 Score = 29.6 bits (65), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 2/67 (2%)

Query: 590 NLGSIYVECGKLDQAENCYINALDI--KHTRAHQGLARVYYLKNELKAAYDEMTKLLEKA 647
           NLG++  E    D+A   Y+ AL +   H   H  LA VYY +  +  A D   + +E  
Sbjct: 208 NLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ 267

Query: 648 QYSASAF 654
            +   A+
Sbjct: 268 PHFPDAY 274


>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
 pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
          Length = 125

 Score = 29.3 bits (64), Expect = 7.2,   Method: Composition-based stats.
 Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 12/103 (11%)

Query: 585 GQALNNLGSIYVECGKLDQAENCYINALDI--KHTRAHQGLARVYYLKNELKAAYDEMTK 642
            +A  NLG+ Y + G  D+A   Y  AL++   +  A   L   YY + +   A +   K
Sbjct: 9   AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQK 68

Query: 643 LLE------KAQYS-ASAFEKRSEYSDREMAKNDLNMATQLDP 678
            LE      +A Y+  +A+ K+ +Y +   A      A +LDP
Sbjct: 69  ALELDPNNAEAWYNLGNAYYKQGDYDE---AIEYYQKALELDP 108


>pdb|2AVP|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
          Length = 70

 Score = 29.3 bits (64), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 6/64 (9%)

Query: 586 QALNNLGSIYVECGKLDQAENCYINA--LDIKHTRAHQGLARVYYLKNELKAAYDEMTKL 643
           +A  NLG+ Y + G  D+A   Y  A  LD +   A   L   YY + +    YDE  + 
Sbjct: 4   EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGD----YDEAIEY 59

Query: 644 LEKA 647
            +KA
Sbjct: 60  YQKA 63


  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
   0.321    0.135    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,624,402
Number of Sequences: 62578
Number of extensions: 699513
Number of successful extensions: 1706
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1692
Number of HSP's gapped (non-prelim): 22
length of query: 692
length of database: 14,973,337
effective HSP length: 106
effective length of query: 586
effective length of database: 8,340,069
effective search space: 4887280434
effective search space used: 4887280434
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)