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= 0248.0034.p
         (203 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309674|ref|YP_003773766.1| UDP-N-acetylmuramoyl-tripeptide...   232   2e-62

>gi|300309674|ref|YP_003773766.1|
           UDP-N-acetylmuramoyl-tripeptide---D-alanyl-D-alanine
           ligase [Herbaspirillum seropedicae SmR1]
          Length = 486

 Score =  232 bits (591), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 134/193 (69%), Positives = 150/193 (77%), Gaps = 2/193 (1%)

Query: 11  LFSVGEHNVRNALAATACALGAGISAAAIVRGLEAFAPVNGRLQRKTAVSGALVIDDTYN 70
           L +VGEHNVRNALAA ACALGAGI+  A+VRGLE+FAPVNGRLQRK A SGALVIDDTYN
Sbjct: 296 LAAVGEHNVRNALAAAACALGAGIAIEAVVRGLESFAPVNGRLQRKEARSGALVIDDTYN 355

Query: 71  ANPDSVRAAIDVLAQTAAPRVLALGDMGEVGNEGPKFHREIGAYARERGIEHFFGLGDAM 130
           ANPDSVRAAIDVLA  A PRVL LGDMGEVG++GP+FH EIGAYAR RGI  FFGLG+  
Sbjct: 356 ANPDSVRAAIDVLAAIAGPRVLVLGDMGEVGDQGPQFHAEIGAYARSRGIPLFFGLGELT 415

Query: 131 RDAIEAYNSVPGAAFPARHFDTVDAIGAAAQEVAVAAATVLVKGSRFMKMERVVQHLVGA 190
           + A+ AY + P     A HFD + A+ AA ++ A   ATVLVKGSRFMKMERVVQHLV  
Sbjct: 416 KHAVTAYGATPQGVAQALHFDDIAALNAAVEQAAPQGATVLVKGSRFMKMERVVQHLVNV 475

Query: 191 QLQTGAPLHQETH 203
           +  T     QETH
Sbjct: 476 ESPTQH--QQETH 486


  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
   0.321    0.134    0.386 

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: 561,866
Number of extensions: 19763
Number of successful extensions: 92
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 1
Length of query: 203
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 122
Effective length of database: 1,236,335
Effective search space: 150832870
Effective search space used: 150832870
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 128 (53.9 bits)