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= psy18061
         (60 letters)

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

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



>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka
          Ri Beta Holoenzyme
          Length = 381

 Score = 65.9 bits (159), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 25/39 (64%), Positives = 34/39 (87%)

Query: 17 YVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLER 55
          YVQ H +QQ+LKDCIV LC++KP+ P+ FLRE+F+KLE+
Sbjct: 21 YVQLHGIQQVLKDCIVHLCISKPERPMKFLREHFEKLEK 59


>pdb|2EZW|A Chain A, Solution Structure Of The Docking And Dimerization
          Domain Of The Type I Alpha Regulatory Subunit Of
          Protein Kinase A (Rialpha DD)
 pdb|2EZW|B Chain B, Solution Structure Of The Docking And Dimerization
          Domain Of The Type I Alpha Regulatory Subunit Of
          Protein Kinase A (Rialpha DD)
 pdb|3IM3|A Chain A, Crystal Structure Of Pka Ri Alpha DimerizationDOCKING
          Domain
 pdb|3IM4|A Chain A, Crystal Structure Of Camp-Dependent Protein Kinase A
          Regulatory Subunit I Alpha In Complex With
          Dual-Specific A- Kinase Anchoring Protein 2
 pdb|3IM4|B Chain B, Crystal Structure Of Camp-Dependent Protein Kinase A
          Regulatory Subunit I Alpha In Complex With
          Dual-Specific A- Kinase Anchoring Protein 2
          Length = 50

 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 25/39 (64%), Positives = 34/39 (87%)

Query: 17 YVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLER 55
          YVQ+HN+Q +LKD IVQLC  +P+ P++FLREYF+KLE+
Sbjct: 8  YVQKHNIQALLKDSIVQLCTARPERPMAFLREYFEKLEK 46


>pdb|4F9K|A Chain A, Crystal Structure Of Human Camp-Dependent Protein Kinase
          Type I-Beta Regulatory Subunit (Fragment 11-73),
          Northeast Structural Genomics Consortium (Nesg) Target
          Hr8613a
 pdb|4F9K|B Chain B, Crystal Structure Of Human Camp-Dependent Protein Kinase
          Type I-Beta Regulatory Subunit (Fragment 11-73),
          Northeast Structural Genomics Consortium (Nesg) Target
          Hr8613a
 pdb|4F9K|C Chain C, Crystal Structure Of Human Camp-Dependent Protein Kinase
          Type I-Beta Regulatory Subunit (Fragment 11-73),
          Northeast Structural Genomics Consortium (Nesg) Target
          Hr8613a
 pdb|4F9K|D Chain D, Crystal Structure Of Human Camp-Dependent Protein Kinase
          Type I-Beta Regulatory Subunit (Fragment 11-73),
          Northeast Structural Genomics Consortium (Nesg) Target
          Hr8613a
          Length = 95

 Score = 62.0 bits (149), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 25/39 (64%), Positives = 33/39 (84%)

Query: 17 YVQQHNVQQMLKDCIVQLCVTKPDNPISFLREYFQKLER 55
          YVQ H +QQ+LKDCIV LC++KP+ P  FLRE+F+KLE+
Sbjct: 43 YVQLHGIQQVLKDCIVHLCISKPERPXKFLREHFEKLEK 81


  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
   0.328    0.139    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,258,530
Number of Sequences: 62578
Number of extensions: 28558
Number of successful extensions: 113
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 110
Number of HSP's gapped (non-prelim): 3
length of query: 60
length of database: 14,973,337
effective HSP length: 31
effective length of query: 29
effective length of database: 13,033,419
effective search space: 377969151
effective search space used: 377969151
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)