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= 0248.0031.p
         (342 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...   248   5e-67
gi|300309677|ref|YP_003773769.1| rod shape-determining (RodA pro...   221   6e-59

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

 Score =  248 bits (633), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 124/155 (80%), Positives = 140/155 (90%)

Query: 5   PFQLKRLMPADALRIRGLHNALNGLAALALCRAVDLPLAPLLHGLREYTGEPHRVELVTT 64
           P  LKRLMPADAL+IRG HNA+N LAALALCRA+DLP+APLLHGLR+YTGEPHRVELV  
Sbjct: 508 PVTLKRLMPADALKIRGAHNAMNALAALALCRAIDLPMAPLLHGLRDYTGEPHRVELVGV 567

Query: 65  IQDVEYYDDSKGTNVGATVAALNGLGHGGTPNRLLLIAGGEGKGQDFAPLAEPLSKYGRA 124
           IQ+V+YYDDSKGTNVGATVAALNGLG GG PNR++LIAGG+GKGQDF+PL  P+ KY RA
Sbjct: 568 IQEVDYYDDSKGTNVGATVAALNGLGLGGRPNRIVLIAGGDGKGQDFSPLDLPVQKYARA 627

Query: 125 VFLIGRDAGAIRSAVADSGIELIDCATLEEAVEKA 159
           V LIGRDA AIR+A+ADSG+ELIDCA+LE AVEKA
Sbjct: 628 VLLIGRDAPAIRAALADSGVELIDCASLEAAVEKA 662


>gi|300309677|ref|YP_003773769.1| rod shape-determining (RodA
           protein) transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 421

 Score =  221 bits (564), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 120/151 (79%), Positives = 133/151 (88%)

Query: 152 LEEAVEKAVSLLAGLLVFRIKIETWQKLAPYLFVGTLILLAMVLIPGIGKGVNGAKRWLS 211
           + +A+   +S++AG L FR++IETWQK APYLF  TLILL MVL+PG+GKGVNGAKRWLS
Sbjct: 90  IRQAIFIVLSIIAGALAFRVRIETWQKWAPYLFGITLILLLMVLVPGVGKGVNGAKRWLS 149

Query: 212 FKVFNLQPSELMKLFIVLYAADYTVRKQEVMHKLTKGFMPMTLAVGVVGLLLLLEPDLGA 271
            K+ NLQPSELMKLFIVLYAADYTVRKQ VMHKL KGF PM  AVG+VGLLLLLEPDLGA
Sbjct: 150 LKIINLQPSELMKLFIVLYAADYTVRKQAVMHKLVKGFFPMAAAVGLVGLLLLLEPDLGA 209

Query: 272 FGVIVCIAMGILFLGGINGIWFGGIGATLPG 302
           FGVIVCIAMGILFLGGING+WFGGIGATL G
Sbjct: 210 FGVIVCIAMGILFLGGINGVWFGGIGATLVG 240


  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
   0.324    0.141    0.433 

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: 961,298
Number of extensions: 37772
Number of successful extensions: 116
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 2
Length of query: 342
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 256
Effective length of database: 1,212,660
Effective search space: 310440960
Effective search space used: 310440960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 131 (55.1 bits)