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= 011439
         (485 letters)

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

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



>pdb|1XX1|A Chain A, Structural Basis For Ion-Coordination And The Catalytic
           Mechanism Of Sphingomyelinases D
 pdb|1XX1|B Chain B, Structural Basis For Ion-Coordination And The Catalytic
           Mechanism Of Sphingomyelinases D
 pdb|1XX1|C Chain C, Structural Basis For Ion-Coordination And The Catalytic
           Mechanism Of Sphingomyelinases D
 pdb|1XX1|D Chain D, Structural Basis For Ion-Coordination And The Catalytic
           Mechanism Of Sphingomyelinases D
 pdb|2F9R|A Chain A, Crystal Structure Of The Inactive State Of The Smase I, A
           Sphingomyelinase D From Loxosceles Laeta Venom
 pdb|2F9R|B Chain B, Crystal Structure Of The Inactive State Of The Smase I, A
           Sphingomyelinase D From Loxosceles Laeta Venom
 pdb|2F9R|C Chain C, Crystal Structure Of The Inactive State Of The Smase I, A
           Sphingomyelinase D From Loxosceles Laeta Venom
 pdb|2F9R|D Chain D, Crystal Structure Of The Inactive State Of The Smase I, A
           Sphingomyelinase D From Loxosceles Laeta Venom
          Length = 285

 Score = 30.4 bits (67), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 14/83 (16%)

Query: 312 PAKPTLPVLHEWHFRSGLDRYIWIVGMIYAYYHPTVEKWMEKLEETEVKLRILIKSAIGS 371
           P+ PTL   HE + ++G+D +IW+   +   + P  +  M +L+E           AI S
Sbjct: 171 PSLPTLDATHEAYKKAGVDGHIWLSDGL-TNFSPLGD--MARLKE-----------AIKS 216

Query: 372 LALMVGFLWFEYIYKLDKITYNK 394
                GF+   Y + +DK++  K
Sbjct: 217 RDSANGFINKIYYWSVDKVSTTK 239


  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
   0.329    0.141    0.454 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,164,103
Number of Sequences: 62578
Number of extensions: 565818
Number of successful extensions: 1216
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1215
Number of HSP's gapped (non-prelim): 1
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
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: 53 (25.0 bits)