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= 048020
         (304 letters)

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

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



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

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 19/38 (50%)

Query: 206 PDQGKEGIHPIFTLVTQGTGELDSVLAVTTADQPNPFD 243
           P Q  +G H IF  V QG G ++ V  V T  Q  P D
Sbjct: 118 PTQWLDGKHTIFGRVCQGIGMVNRVGMVETNSQDRPVD 155


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

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 19/38 (50%)

Query: 206 PDQGKEGIHPIFTLVTQGTGELDSVLAVTTADQPNPFD 243
           P Q  +G H IF  V QG G ++ V  V T  Q  P D
Sbjct: 118 PTQWLDGKHTIFGRVCQGIGMVNRVGMVETNSQDRPVD 155


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

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 19/38 (50%)

Query: 206 PDQGKEGIHPIFTLVTQGTGELDSVLAVTTADQPNPFD 243
           P Q  +G H IF  V QG G ++ V  V T  Q  P D
Sbjct: 118 PTQWLDGKHTIFGRVCQGIGMVNRVGMVETNSQDRPVD 155


  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    0.130    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,650,977
Number of Sequences: 62578
Number of extensions: 330524
Number of successful extensions: 571
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: 568
Number of HSP's gapped (non-prelim): 4
length of query: 304
length of database: 14,973,337
effective HSP length: 98
effective length of query: 206
effective length of database: 8,840,693
effective search space: 1821182758
effective search space used: 1821182758
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: 51 (24.3 bits)