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= 007871
         (586 letters)

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

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



>pdb|2K7N|A Chain A, Solution Structure Of The Ppil1 Bound To A Fragment Of
           Skip
          Length = 203

 Score = 32.3 bits (72), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 29/95 (30%), Positives = 47/95 (49%), Gaps = 10/95 (10%)

Query: 348 LIDMYMK-----CGSLDE-ARRIFYSMTKKNVISYNVMIAGLGMNGFGEEALKCFA-QME 400
           ++++Y K     C +  E ARR +Y+ TK + I  + MI G    G G      +  Q E
Sbjct: 24  VLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGRGGASIYGKQFE 83

Query: 401 TEGIPKDDLIFLGV-LIACSHSGLATEGYRIFQSM 434
            E  P  DL F G  ++A +++G  T G + F ++
Sbjct: 84  DELHP--DLKFTGAGILAMANAGPDTNGSQFFVTL 116


>pdb|1XWN|A Chain A, Solution Structure Of Cyclophilin Like 1(Ppil1) And
           Insights Into Its Interaction With Skip
          Length = 174

 Score = 32.3 bits (72), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 29/95 (30%), Positives = 47/95 (49%), Gaps = 10/95 (10%)

Query: 348 LIDMYMK-----CGSLDE-ARRIFYSMTKKNVISYNVMIAGLGMNGFGEEALKCFA-QME 400
           ++++Y K     C +  E ARR +Y+ TK + I  + MI G    G G      +  Q E
Sbjct: 24  VLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGRGGASIYGKQFE 83

Query: 401 TEGIPKDDLIFLGV-LIACSHSGLATEGYRIFQSM 434
            E  P  DL F G  ++A +++G  T G + F ++
Sbjct: 84  DELHP--DLKFTGAGILAMANAGPDTNGSQFFVTL 116


>pdb|2X7K|A Chain A, The Crystal Structure Of Ppil1 In Complex With
           Cyclosporine A Suggests A Binding Mode For Skip
          Length = 166

 Score = 32.3 bits (72), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 29/95 (30%), Positives = 47/95 (49%), Gaps = 10/95 (10%)

Query: 348 LIDMYMK-----CGSLDE-ARRIFYSMTKKNVISYNVMIAGLGMNGFGEEALKCFA-QME 400
           ++++Y K     C +  E ARR +Y+ TK + I  + MI G    G G      +  Q E
Sbjct: 24  VLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGRGGASIYGKQFE 83

Query: 401 TEGIPKDDLIFLGV-LIACSHSGLATEGYRIFQSM 434
            E  P  DL F G  ++A +++G  T G + F ++
Sbjct: 84  DELHP--DLKFTGAGILAMANAGPDTNGSQFFVTL 116


  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    0.137    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,705,999
Number of Sequences: 62578
Number of extensions: 610262
Number of successful extensions: 1483
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1483
Number of HSP's gapped (non-prelim): 3
length of query: 586
length of database: 14,973,337
effective HSP length: 104
effective length of query: 482
effective length of database: 8,465,225
effective search space: 4080238450
effective search space used: 4080238450
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: 54 (25.4 bits)