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= 0035.0031.p
         (250 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309676|ref|YP_003773768.1| UDP-N-acetylmuramoylalanine-D-g...   384   e-108

>gi|300309676|ref|YP_003773768.1|
           UDP-N-acetylmuramoylalanine-D-glutamate ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 710

 Score =  384 bits (987), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 193/250 (77%), Positives = 219/250 (87%), Gaps = 1/250 (0%)

Query: 1   MGEPTRAGDFGLVDENGMLWLANAMAIEDEEKPEGRRRKKDPKEVVEQPFLLKRLMPADA 60
           + EPT    FGLV++NGMLWLANA   ED+E PEG+RR+K  K+++  P  LKRLMPADA
Sbjct: 461 LDEPTAPNSFGLVNDNGMLWLANAFVHEDDEVPEGKRRRKQ-KDMLPPPVTLKRLMPADA 519

Query: 61  LRIRGLHNALNGLAALALCRAVDLPLAPLLHGLREYTGEPHRVELVTTIQDVEYYDDSKG 120
           L+IRG HNA+N LAALALCRA+DLP+APLLHGLR+YTGEPHRVELV  IQ+V+YYDDSKG
Sbjct: 520 LKIRGAHNAMNALAALALCRAIDLPMAPLLHGLRDYTGEPHRVELVGVIQEVDYYDDSKG 579

Query: 121 TNVGATVAALNGLGHGGKPNRLLLIAGGDGKGQDFTPLAEPLSKYARAVFLIGRDAGAIR 180
           TNVGATVAALNGLG GG+PNR++LIAGGDGKGQDF+PL  P+ KYARAV LIGRDA AIR
Sbjct: 580 TNVGATVAALNGLGLGGRPNRIVLIAGGDGKGQDFSPLDLPVQKYARAVLLIGRDAPAIR 639

Query: 181 SAVTDSGVELIDCATLEEAVEKAGAMAQGGDAVLLSPACASLDMFRNYAHRAEVFVDAVR 240
           +A+ DSGVELIDCA+LE AVEKAG +A  GD VLLSPACASLDMFRNYAHRAEVFVDAVR
Sbjct: 640 AALADSGVELIDCASLEAAVEKAGEIATAGDIVLLSPACASLDMFRNYAHRAEVFVDAVR 699

Query: 241 ELALSRGEVM 250
           ELALSRGEV+
Sbjct: 700 ELALSRGEVL 709


  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
   0.318    0.137    0.397 

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: 805,213
Number of extensions: 34809
Number of successful extensions: 93
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: 250
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 167
Effective length of database: 1,226,865
Effective search space: 204886455
Effective search space used: 204886455
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 (21.7 bits)
S2: 129 (54.3 bits)