BLASTP 2.2.18 [Mar-02-2008]


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= 0001.0123.p
         (218 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309456|ref|YP_003773548.1| 50S ribosomal protein L3 [Herba...   434   e-123

>gi|300309456|ref|YP_003773548.1| 50S ribosomal protein L3
           [Herbaspirillum seropedicae SmR1]
          Length = 222

 Score =  434 bits (1117), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/218 (100%), Positives = 218/218 (100%)

Query: 1   MSLGLVGRKVGMMRIFTEDGDSIPVTVLDVSNNRVTQIKTPEVDGYSAVQVTFGQRRASR 60
           MSLGLVGRKVGMMRIFTEDGDSIPVTVLDVSNNRVTQIKTPEVDGYSAVQVTFGQRRASR
Sbjct: 5   MSLGLVGRKVGMMRIFTEDGDSIPVTVLDVSNNRVTQIKTPEVDGYSAVQVTFGQRRASR 64

Query: 61  VVKAAAGHFAKAGVEAGTVLKEFRVDASKAAELKAGDVVGIGMFEAGQKVDVQGVSIGKG 120
           VVKAAAGHFAKAGVEAGTVLKEFRVDASKAAELKAGDVVGIGMFEAGQKVDVQGVSIGKG
Sbjct: 65  VVKAAAGHFAKAGVEAGTVLKEFRVDASKAAELKAGDVVGIGMFEAGQKVDVQGVSIGKG 124

Query: 121 YAGTIKRYNFSSGRATHGNSRSHNVPGSIGMAQDPGRVFPGKRMTGHLGDVKTTVQNLEI 180
           YAGTIKRYNFSSGRATHGNSRSHNVPGSIGMAQDPGRVFPGKRMTGHLGDVKTTVQNLEI
Sbjct: 125 YAGTIKRYNFSSGRATHGNSRSHNVPGSIGMAQDPGRVFPGKRMTGHLGDVKTTVQNLEI 184

Query: 181 ARVDAERQLLLVKGAVPGAKNGQVIVSPAVKVKAKKGA 218
           ARVDAERQLLLVKGAVPGAKNGQVIVSPAVKVKAKKGA
Sbjct: 185 ARVDAERQLLLVKGAVPGAKNGQVIVSPAVKVKAKKGA 222


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.316    0.133    0.369 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 695,062
Number of extensions: 28292
Number of successful extensions: 85
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 85
Number of HSP's successfully gapped: 1
Length of query: 218
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 136
Effective length of database: 1,231,600
Effective search space: 167497600
Effective search space used: 167497600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 128 (53.9 bits)