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= 028973
         (201 letters)

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

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



>pdb|1ZCU|A Chain A, Apo Form Of The 162s Mutant Of Glycogenin
 pdb|1ZDF|A Chain A, Ser162 Mutant Of Glycogenin Complexed With Udp-Glucose And
           Manganese
          Length = 353

 Score = 29.3 bits (64), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 9/48 (18%)

Query: 88  IRANNSTFDCQHGPSECLLNTVEACAIDSWP--ELNKHFPFIYCIESL 133
           + +   +FD   G S+ LLNT      +SW   ++ KH PFIY + S+
Sbjct: 172 VASEQGSFD---GGSQGLLNTF----FNSWATTDIRKHLPFIYNLSSI 212


>pdb|1FN4|A Chain A, Crystal Structure Of Fab198, An Efficient Protector Of
           Acetylcholine Receptor Against Myasthenogenic Antibodies
 pdb|1FN4|C Chain C, Crystal Structure Of Fab198, An Efficient Protector Of
           Acetylcholine Receptor Against Myasthenogenic Antibodies
          Length = 211

 Score = 29.3 bits (64), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 14/25 (56%), Positives = 17/25 (68%)

Query: 158 DCYTSGYGTQLELKYAAETNSLVPP 182
           + YT G GT+LELK  A T S+ PP
Sbjct: 93  NGYTFGAGTKLELKRTAPTVSIFPP 117


  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
   0.321    0.137    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,092,004
Number of Sequences: 62578
Number of extensions: 249384
Number of successful extensions: 627
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 626
Number of HSP's gapped (non-prelim): 12
length of query: 201
length of database: 14,973,337
effective HSP length: 94
effective length of query: 107
effective length of database: 9,091,005
effective search space: 972737535
effective search space used: 972737535
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)