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= 015612
         (403 letters)

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

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



>pdb|3QC1|A Chain A, Protein Phosphatase Subunit: Alpha4
          Length = 243

 Score = 59.3 bits (142), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 48/161 (29%), Positives = 78/161 (48%), Gaps = 21/161 (13%)

Query: 15  FERGRKIHQ---IATE---SGCDPDAVRKGCEVLEKCEDMVGKLGLFSSNETKDDISTAN 68
           FE  +K+ +   +ATE   S    D V KG E+LEK   M+ +L LFS NE  ++I++ +
Sbjct: 37  FETSKKLLEDVEVATEPTGSRTIQDKVSKGLELLEKAAGMLSQLDLFSRNEDLEEIASTD 96

Query: 69  LKYILVPYFLGEL-IEKIAQDDRLQIL-KASQAKLKFISFC-----------EIMXXXXX 115
           LKY++VP   G L ++++    RL  L +A +  + F++ C           +       
Sbjct: 97  LKYLMVPALQGALTMKQVNPSKRLDHLQRAREHFVHFLTQCHCYHVAEFQLPQTKTNSAE 156

Query: 116 XXXXXXXQAKP--TAFTDQRARKIARFKRQRAAESKLQEIK 154
                   A P   A   QR  KI R+K+++  E +L  +K
Sbjct: 157 NNTASSSMAYPNLVAMASQRQAKIERYKQKKEVEHRLSALK 197


>pdb|2V0P|A Chain A, The Structure Of Tap42 Alpha4 Subunit
 pdb|2V0P|B Chain B, The Structure Of Tap42 Alpha4 Subunit
          Length = 234

 Score = 48.5 bits (114), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 43/70 (61%), Gaps = 7/70 (10%)

Query: 48  MVGKLGLFSSNETKDDISTANLKYILVPYFLGELIEK-------IAQDDRLQILKASQAK 100
           +  +L LFS+NET DD+STA++K++ V Y+LG LI +       +AQ    +++   ++ 
Sbjct: 49  IFDRLALFSTNETIDDVSTASIKFLAVDYYLGLLISRRQSNDSDVAQRQSXKLIYLKKSV 108

Query: 101 LKFISFCEIM 110
             FI+F  ++
Sbjct: 109 ESFINFLTLL 118


>pdb|1CM8|A Chain A, Phosphorylated Map Kinase P38-Gamma
 pdb|1CM8|B Chain B, Phosphorylated Map Kinase P38-Gamma
          Length = 367

 Score = 32.7 bits (73), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 42/71 (59%), Gaps = 10/71 (14%)

Query: 46  EDMVGKLGLFSSNETKDDISTANLKYILVPYF---LGELI--EKIAQDDRLQILKASQAK 100
           E+++G L +F+ +ET DD +     Y+++P+    LG+L+  EK+ + DR+Q L     K
Sbjct: 84  ENVIGLLDVFTPDETLDDFTDF---YLVMPFMGTDLGKLMKHEKLGE-DRIQFLVYQMLK 139

Query: 101 -LKFISFCEIM 110
            L++I    I+
Sbjct: 140 GLRYIHAAGII 150


  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
   0.316    0.129    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,515,151
Number of Sequences: 62578
Number of extensions: 313835
Number of successful extensions: 656
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 647
Number of HSP's gapped (non-prelim): 10
length of query: 403
length of database: 14,973,337
effective HSP length: 101
effective length of query: 302
effective length of database: 8,652,959
effective search space: 2613193618
effective search space used: 2613193618
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: 53 (25.0 bits)