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= 0359.0007.p
         (35 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAP79640.1| NreC [Staphylococcus carnosus]                          64   9e-10
gb|AAD10462.1| orfx; function unknown; similar to response regul...    64   1e-09
ref|NP_765524.1| response regulators of two-component regulatory...    61   9e-09
ref|NP_372915.1| hypothetical protein [Staphylococcus aureus sub...    59   4e-08

>gb|AAP79640.1| NreC [Staphylococcus carnosus]
          Length = 217

 Score = 64.3 bits (155), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 31/35 (88%), Positives = 34/35 (97%)

Query: 1   VKTVEAHKSKIMEKLNLKSRPELVEYALKKKLLDF 35
           VKTVEAHK+ IM+KLNLKS+PELVEYALKKKLLDF
Sbjct: 183 VKTVEAHKTHIMQKLNLKSKPELVEYALKKKLLDF 217


>gb|AAD10462.1| orfx; function unknown; similar to response regulators of
           two-component regulatory systems; Method: conceptual
           translation supplied by author. [Staphylococcus
           carnosus]
          Length = 185

 Score = 63.9 bits (154), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 31/35 (88%), Positives = 34/35 (97%)

Query: 1   VKTVEAHKSKIMEKLNLKSRPELVEYALKKKLLDF 35
           VKTVEAHK+ IM+KLNLKS+PELVEYALKKKLLDF
Sbjct: 151 VKTVEAHKTHIMQKLNLKSKPELVEYALKKKLLDF 185


>ref|NP_765524.1| response regulators of two-component regulatory [Staphylococcus
           epidermidis ATCC 12228]
 gb|AAO05610.1| response regulators of two-component regulatory [Staphylococcus
           epidermidis ATCC 12228]
          Length = 218

 Score = 60.8 bits (146), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 30/35 (85%), Positives = 33/35 (94%)

Query: 1   VKTVEAHKSKIMEKLNLKSRPELVEYALKKKLLDF 35
           VKTVEAHK+ IM KLNLKS+PELVEYALKKKLL+F
Sbjct: 184 VKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLEF 218


>ref|NP_372915.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu50]
 ref|NP_375502.1| hypothetical protein, similar to response regulators of
           two-component regulatory [Staphylococcus aureus subsp.
           aureus N315]
 ref|NP_647130.1| ORFID:MW2313~hypothetical protein, similar to response regulators
           of two-component regulatory [Staphylococcus aureus
           subsp. aureus MW2]
 pir||H90039 hypothetical protein SA2179 [imported] - Staphylococcus aureus
           (strain N315)
 dbj|BAB43481.1| SA2179 [Staphylococcus aureus subsp. aureus N315]
 dbj|BAB58553.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu50]
 dbj|BAB96178.1| MW2313 [Staphylococcus aureus subsp. aureus MW2]
          Length = 217

 Score = 58.5 bits (140), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 29/35 (82%), Positives = 32/35 (91%)

Query: 1   VKTVEAHKSKIMEKLNLKSRPELVEYALKKKLLDF 35
           VKTVEAHK+ IM KL LKS+PELVEYALKKKLL+F
Sbjct: 183 VKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLEF 217


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.314    0.130    0.334 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 42,297,629
Number of extensions: 731598
Number of successful extensions: 2776
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 2776
Number of HSP's successfully gapped: 4
Length of query: 35
Length of database: 757,237,578
Length adjustment: 9
Effective length of query: 26
Effective length of database: 732,801,687
Effective search space: 19052843862
Effective search space used: 19052843862
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 120 (50.8 bits)