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/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096315|ref|YP_001101390.1| 30S ribosomal protein S3 [Hermi...   446   e-127

>gi|134096315|ref|YP_001101390.1| 30S ribosomal protein S3
           [Herminiimonas arsenicoxydans]
          Length = 283

 Score =  446 bits (1146), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 230/284 (80%), Positives = 243/284 (85%), Gaps = 13/284 (4%)

Query: 1   MGQKIHPTGFRLAVTRNWGSRWYAGNNNFADMLNEDLKVRAYLKKKLKNASVGRVVIERP 60
           MGQKIHPTGFRL+VTRNW SRWYAGN+NFA MLNEDLKVRAYLK KLKNASVGRV+IERP
Sbjct: 1   MGQKIHPTGFRLSVTRNWASRWYAGNSNFATMLNEDLKVRAYLKTKLKNASVGRVIIERP 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
           +IDYGFGEAETTYGIIG+KVWVYKGDRL +GE PV + + EDD KRRGPRRDDGKP +RP
Sbjct: 181 EIDYGFGEAETTYGIIGIKVWVYKGDRLPSGEPPVDLTK-EDDTKRRGPRRDDGKPSSRP 239

Query: 241 RS----------KTGAPGAGAKR-GGGRPQAA-DAGVSAEKAGE 272
           R+                  AKR    +P AA D  V AEKAGE
Sbjct: 240 RTARPEGQPGAAAAPGAAPAAKRVRAKKPDAAVDGAVPAEKAGE 283


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
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: 3295
Number of Hits to DB: 449,621
Number of extensions: 17654
Number of successful extensions: 53
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 52
Number of HSP's successfully gapped: 1
Length of query: 272
Length of database: 1,000,347
Length adjustment: 80
Effective length of query: 192
Effective length of database: 736,747
Effective search space: 141455424
Effective search space used: 141455424
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)