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= 0001.2399.p
         (202 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310137|ref|YP_003774229.1| type III secretion HrpE protein...   146   9e-37

>gi|300310137|ref|YP_003774229.1| type III secretion HrpE protein
           [Herbaspirillum seropedicae SmR1]
          Length = 233

 Score =  146 bits (369), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 89/188 (47%), Positives = 123/188 (65%), Gaps = 3/188 (1%)

Query: 2   SDFAVQRVTLPDHLRPANGVLRLTGLTVTSDAEQLAAQMLAQAREEAAQVRKQAEEEAGH 61
           S F    + LP  LRP +GV+      VT DA   AAQ++ QA+ EAA +R+QA  +A  
Sbjct: 6   SSFLAAELCLPPSLRPRHGVVSSVDFRVTEDARLAAAQLVQQAQAEAAGIREQARADALA 65

Query: 62  VVMRQQQEVAQQGAVLLEGLRQAQDDMLERIEEVVVDLAQEVMERLLLELTPRERITAML 121
            +  +++ +A +   LL  LR+ +  MLE +  + VDLA  + +RLL++ T RER+ A  
Sbjct: 66  ALHDEERRIAHEAGQLLARLREREASMLEGVAGLAVDLAHSIFDRLLVDTTARERVMAAC 125

Query: 122 RRIRQEAPPKLHEAVLWVHPDDQPLLP---ASSWEMQTDSALAPGSCRLEAASGEWRSDF 178
           RR+R+EAPPKL EAV W+HP+D   L    A  WE++TD+ LA GSCRLEAASGEWR+DF
Sbjct: 126 RRVREEAPPKLTEAVAWLHPEDAASLAQEDALPWELRTDARLAQGSCRLEAASGEWRADF 185

Query: 179 ALAVQALR 186
           +LA +ALR
Sbjct: 186 SLAAEALR 193


  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
   0.316    0.128    0.356 

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: 550,411
Number of extensions: 18268
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: 202
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 121
Effective length of database: 1,236,335
Effective search space: 149596535
Effective search space used: 149596535
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 (21.6 bits)
S2: 128 (53.9 bits)