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= 0034.0011.p
         (67 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BS_yjbJ [M] COG0741 Soluble lytic murein transglycosylase and re...    73   8e-14
AGl317 [S] COG3237 Uncharacterized protein conserved in bacteria       71   5e-13
AGl3171 [L] COG0389 Nucleotidyltransferase/DNA polymerase involv...    71   5e-13
AGl3170 [S] COG4544 Uncharacterized conserved protein                  71   5e-13
AGl3173 [L] COG0587 DNA polymerase III, alpha subunit                  71   5e-13

>BS_yjbJ [M] COG0741 Soluble lytic murein transglycosylase and related
          regulatory proteins (some contain LysM/invasin domains)
          Length = 69

 Score = 73.2 bits (178), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 33/62 (53%), Positives = 48/62 (77%)

Query: 1  MDSNVIKGKWMQLKGEAKKQWGQLTDDDLDVIDGEKDKLIGKLQERYGHTKDDAEAEYRN 60
          M+ +   G W Q KG+ K+QWG+LTDDD+ +I+G++D+L+GK+QERYG+ KD AE E  +
Sbjct: 1  MNKDEAGGNWKQFKGKVKEQWGKLTDDDMTIIEGKRDQLVGKIQERYGYQKDQAEKEVVD 60

Query: 61 WE 62
          WE
Sbjct: 61 WE 62


>AGl317 [S] COG3237 Uncharacterized protein conserved in bacteria
          Length = 144

 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 1/61 (1%), Positives = 9/61 (14%)

Query: 1  MDSNVIKGKWMQLKGEAKKQWGQLTDDDLDVIDGEKDKLIGKLQERYGHTKDDAEAEYRN 60
                     +  G                +  +  + +        +    +  +   
Sbjct: 11 ALIPETLADAAKRLGGGPVVMINFLRFRDRPLYSDGFEHVKTTSRSAYYEGYASAFQQIA 70

Query: 61 W 61
           
Sbjct: 71 T 71


>AGl3171 [L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA
          repair
          Length = 673

 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 6/61 (9%), Positives = 16/61 (26%)

Query: 1  MDSNVIKGKWMQLKGEAKKQWGQLTDDDLDVIDGEKDKLIGKLQERYGHTKDDAEAEYRN 60
          ++        +   G  K +        L    G + + I  +       ++  E   + 
Sbjct: 11 VEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQT 70

Query: 61 W 61
           
Sbjct: 71 L 71


>AGl3170 [S] COG4544 Uncharacterized conserved protein
          Length = 144

 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 1/61 (1%), Positives = 9/61 (14%)

Query: 1  MDSNVIKGKWMQLKGEAKKQWGQLTDDDLDVIDGEKDKLIGKLQERYGHTKDDAEAEYRN 60
                     +  G                +  +  + +        +    +  +   
Sbjct: 11 ALIPETLADAAKRLGGGPVVMINFLRFRDRPLYSDGFEHVKTTSRSAYYEGYASAFQQIA 70

Query: 61 W 61
           
Sbjct: 71 T 71


>AGl3173 [L] COG0587 DNA polymerase III, alpha subunit
          Length = 144

 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 1/61 (1%), Positives = 9/61 (14%)

Query: 1  MDSNVIKGKWMQLKGEAKKQWGQLTDDDLDVIDGEKDKLIGKLQERYGHTKDDAEAEYRN 60
                     +  G                +  +  + +        +    +  +   
Sbjct: 11 ALIPETLADAAKRLGGGPVVMINFLRFRDRPLYSDGFEHVKTTSRSAYYEGYASAFQQIA 70

Query: 61 W 61
           
Sbjct: 71 T 71


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.311    0.133    0.403 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 5,677,777
Number of extensions: 184065
Number of successful extensions: 283
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 273
Number of HSP's successfully gapped: 7
Length of query: 67
Length of database: 38,378,431
Length adjustment: 39
Effective length of query: 28
Effective length of database: 33,880,405
Effective search space: 948651340
Effective search space used: 948651340
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 (21.8 bits)
S2: 109 (46.6 bits)