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= 0001.0819.p
         (299 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310359|ref|YP_003774451.1| regulator protein PecM [Herbasp...   403   e-113

>gi|300310359|ref|YP_003774451.1| regulator protein PecM
           [Herbaspirillum seropedicae SmR1]
          Length = 290

 Score =  403 bits (1035), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 240/290 (82%), Positives = 261/290 (90%)

Query: 1   MPTTHPLRHWSDVVLTALAPAIWGSTYIVTSQLLPPDRPFTAALLRSLPAGLLLLLITRE 60
           M +TH    W D++LTA+APAIWGSTYIVTSQLLPPDRPFTAAL+R LPAGLLLLL+TR 
Sbjct: 1   MSSTHSAPPWRDIMLTAIAPAIWGSTYIVTSQLLPPDRPFTAALIRCLPAGLLLLLMTRR 60

Query: 61  LPARRHWWRLLVLGALNIGIFQALLFVAAYRLPGGLAAVLGAIQPLLVMILAWVVDGRSP 120
           LPAR  WWRLLVLGA NIG+FQALLFVAAYRLPGGLAAVLGAIQPLLVM+LAW VDGR+P
Sbjct: 61  LPARADWWRLLVLGAFNIGLFQALLFVAAYRLPGGLAAVLGAIQPLLVMVLAWAVDGRAP 120

Query: 121 AQITLWSAVAGVAGMAILLLSPQTHFEPVGIAAALAGAACMASGVWLTRRWQLKLPVLAL 180
           AQITLW+AVAGVAGMA+LLLSPQT  EP+G+AAALAG  CMA+GVWLTRRWQL+LPVLAL
Sbjct: 121 AQITLWAAVAGVAGMAVLLLSPQTRIEPIGVAAALAGTGCMAAGVWLTRRWQLRLPVLAL 180

Query: 181 TGWQLLIGGLMLAPVAWLADPPLPTLGMTQYAAYAYLSLAGALLAYALWFRGITRLPTVA 240
           TGWQL IGGLMLAP AWL D PLP+LG+TQ  AYAYLSLAGALLAYALWFRGI RLPTVA
Sbjct: 181 TGWQLTIGGLMLAPAAWLVDAPLPSLGLTQELAYAYLSLAGALLAYALWFRGIGRLPTVA 240

Query: 241 VASLGLLSPLTAVLLGWAILGQAISGIALVGLVIVLASVFAVQWTATQKN 290
           VASLGLLSPLTAV+LGW IL Q+ISGIAL GLV+VL SVFAVQWTA + N
Sbjct: 241 VASLGLLSPLTAVVLGWVILSQSISGIALAGLVVVLGSVFAVQWTAARTN 290


  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
   0.325    0.137    0.437 

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: 949,750
Number of extensions: 38086
Number of successful extensions: 335
Number of sequences better than 1.0e-08: 7
Number of HSP's gapped: 329
Number of HSP's successfully gapped: 7
Length of query: 299
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 214
Effective length of database: 1,217,395
Effective search space: 260522530
Effective search space used: 260522530
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: 40 (21.6 bits)
S2: 130 (54.7 bits)