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= psy16712
         (221 letters)

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

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



>pdb|1M11|2 Chain 2, Structural Model Of Human Decay-accelerating Factor Bound
           To Echovirus 7 From Cryo-electron Microscopy
          Length = 254

 Score = 32.7 bits (73), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 4/77 (5%)

Query: 139 GMIGIPVILNYLERKGTIRHLKWAPTAIQIGLLAVFLTFTTPMCCALFPQQTPIQISSLE 198
           G+ G  ++ +YL R G   H++   +    G L V       M C+    QT  +++++ 
Sbjct: 83  GLFGQNMLYHYLGRAGYTIHVQCNASKFHQGCLLVVCVPEAEMGCS----QTDKEVAAMN 138

Query: 199 PELQERAKKLNPPPTVG 215
               E A K  P  T G
Sbjct: 139 LTKGEAAHKFEPTKTTG 155


>pdb|3IYP|C Chain C, The Interaction Of Decay-Accelerating Factor With
           Echovirus 7
 pdb|2X5I|B Chain B, Crystal Structure Echovirus 7
          Length = 260

 Score = 31.6 bits (70), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 4/77 (5%)

Query: 139 GMIGIPVILNYLERKGTIRHLKWAPTAIQIGLLAVFLTFTTPMCCALFPQQTPIQISSLE 198
           G+ G  ++ +YL R G   H++   +    G L V       M C+    QT  +++++ 
Sbjct: 89  GLFGQNMLYHYLGRAGYTIHVQCNASKFHQGCLLVVCVPEAEMGCS----QTDKEVAAMN 144

Query: 199 PELQERAKKLNPPPTVG 215
               E A K  P  T G
Sbjct: 145 LTKGEAAHKFEPTKTNG 161


>pdb|1ULZ|A Chain A, Crystal Structure Of The Biotin Carboxylase Subunit Of
           Pyruvate Carboxylase
          Length = 451

 Score = 27.7 bits (60), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 17/29 (58%)

Query: 141 IGIPVILNYLERKGTIRHLKWAPTAIQIG 169
           +GIP +  Y E + T RH+K A  A  IG
Sbjct: 24  LGIPTVAIYNEVESTARHVKLADEAYMIG 52


  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
   0.320    0.134    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,465,282
Number of Sequences: 62578
Number of extensions: 232078
Number of successful extensions: 497
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 495
Number of HSP's gapped (non-prelim): 14
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
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: 49 (23.5 bits)