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= 047909
         (78 letters)

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

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



>pdb|4A18|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 1
 pdb|4A1B|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 3.
 pdb|4A1D|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 4.
 pdb|4A19|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 2
          Length = 248

 Score = 26.2 bits (56), Expect = 5.5,   Method: Composition-based stats.
 Identities = 11/26 (42%), Positives = 16/26 (61%)

Query: 35  MNIWYAMCGLLVIMIKNAIVENKFRL 60
           +N W A CGL     + ++VEN F+L
Sbjct: 202 VNDWAAFCGLDTTSTEISVVENIFKL 227


>pdb|2QSD|A Chain A, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|B Chain B, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|C Chain C, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|D Chain D, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|E Chain E, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|F Chain F, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|G Chain G, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
 pdb|2QSD|H Chain H, Crystal Structure Of A Protein Il1583 From Idiomarina
          Loihiensis
          Length = 187

 Score = 25.4 bits (54), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 12 HLHSVDGYILDLQMENGDNPDD 33
          HLH VDGY + L  E  + P++
Sbjct: 62 HLHHVDGYRIHLTSEAHEKPEE 83


  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
   0.324    0.138    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,412,490
Number of Sequences: 62578
Number of extensions: 76887
Number of successful extensions: 134
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 132
Number of HSP's gapped (non-prelim): 2
length of query: 78
length of database: 14,973,337
effective HSP length: 47
effective length of query: 31
effective length of database: 12,032,171
effective search space: 372997301
effective search space used: 372997301
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)