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= 036958
         (312 letters)

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

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



>pdb|1MEC|3 Chain 3, Conformational Variability Of A Picornavirus Capsid: Ph-
           Dependent Structural Changes Of Mengo Virus Related To
           Its Host Receptor Attachment Site And Disassembly
          Length = 231

 Score = 35.8 bits (81), Expect = 0.027,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 8/49 (16%)

Query: 115 IPSVRGWVTVKNVTPMY---GCENSTR-----ESEKDLSLKIPLRPQGW 155
           I +V GWVTV  +TP+    GC  S +      + KD SLK+P+ P  W
Sbjct: 180 ITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPW 228


>pdb|2MEV|3 Chain 3, Structural Refinement And Analysis Of Mengo Virus
          Length = 231

 Score = 35.8 bits (81), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 8/49 (16%)

Query: 115 IPSVRGWVTVKNVTPMY---GCENSTR-----ESEKDLSLKIPLRPQGW 155
           I +V GWVTV  +TP+    GC  S +      + KD SLK+P+ P  W
Sbjct: 180 ITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPW 228


>pdb|1TME|3 Chain 3, Three-Dimensional Structure Of Theiler Virus
          Length = 236

 Score = 29.6 bits (65), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 115 IPSVRGWVTVKNVTPMYGCENSTRESE--------KDLSLKIPLRPQGW 155
           I SV GWVTV  +TP+     +   S+         D +L++P+ P  W
Sbjct: 181 IASVDGWVTVWQLTPLTYPSGTPVNSDILTLVSAGDDFTLRMPISPTKW 229


>pdb|1TMF|3 Chain 3, Three-Dimensional Structure Of Theiler Murine
           Encephalomyelitis Virus (Bean Strain)
          Length = 232

 Score = 29.3 bits (64), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 115 IPSVRGWVTVKNVTPMYGCENSTRESE--------KDLSLKIPLRPQGW 155
           I SV GWVTV  +TP+     +   S+         D +L++P+ P  W
Sbjct: 181 ITSVDGWVTVWQLTPLTYPSGTPTNSDILTLVSAGDDFTLRMPISPTKW 229


  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
   0.314    0.131    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,673,370
Number of Sequences: 62578
Number of extensions: 254885
Number of successful extensions: 248
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 246
Number of HSP's gapped (non-prelim): 4
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)