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= 0001.0129.p
         (272 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980649|ref|YP_001355095.1| small subunit ribosomal protein...   459   e-131

>gi|152980649|ref|YP_001355095.1| small subunit ribosomal protein S3
           [Janthinobacterium sp. Marseille]
          Length = 283

 Score =  459 bits (1182), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 236/286 (82%), Positives = 245/286 (85%), Gaps = 17/286 (5%)

Query: 1   MGQKIHPTGFRLAVTRNWGSRWYAGNNNFADMLNEDLKVRAYLKKKLKNASVGRVVIERP 60
           MGQKIHPTGFRLAV+RNW SRWYAGN+NFA MLNEDLKVRAYLK KLKNASVGRVVIERP
Sbjct: 1   MGQKIHPTGFRLAVSRNWASRWYAGNSNFATMLNEDLKVRAYLKTKLKNASVGRVVIERP 60

Query: 61  AKNARITIYSSRPGVVIGKKGEDIEVLKTALAKLMGVPVHVNIEEIRKPEADAQLIADSI 120
           AKNARITIYSSRPGVVIGKKGEDIEVLK+AL K+MGVPVHVNIEEIRKPE DAQLIADSI
Sbjct: 61  AKNARITIYSSRPGVVIGKKGEDIEVLKSALTKMMGVPVHVNIEEIRKPETDAQLIADSI 120

Query: 121 CQQLEKRIMFRRAMKRAMQNAMRLGAQGIKIMSSGRLNGIEIARTEWYREGRVPLHTLRA 180
            QQLEKRIMFRRAMKRAMQNAMRLGAQGIKIMSSGRLNGIEIAR EWYREGRVPLHTLRA
Sbjct: 121 AQQLEKRIMFRRAMKRAMQNAMRLGAQGIKIMSSGRLNGIEIARKEWYREGRVPLHTLRA 180

Query: 181 DIDYGFGEAETTYGIIGVKVWVYKGDRLANGEAPVLVGEPEDDKKRRGPRRDDGKPGARP 240
           DIDYGFGEAETTYGIIG+KVWVYKGDRLANGEAPV+    +DDKKRRGPRRDDGKP  RP
Sbjct: 181 DIDYGFGEAETTYGIIGIKVWVYKGDRLANGEAPVIDVASDDDKKRRGPRRDDGKPSGRP 240

Query: 241 RS--------------KTGAPGAGAKRGGGRPQAADAGVSAEKAGE 272
           R+                 A    AK+  G   A DA VSAEKAGE
Sbjct: 241 RAPRPEGQPGAAAPGSAPAAKRVRAKKPDG---AVDAAVSAEKAGE 283


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.317    0.136    0.398 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 550,625
Number of extensions: 21375
Number of successful extensions: 44
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 43
Number of HSP's successfully gapped: 1
Length of query: 272
Length of database: 1,221,021
Length adjustment: 82
Effective length of query: 190
Effective length of database: 917,867
Effective search space: 174394730
Effective search space used: 174394730
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: 129 (54.3 bits)