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= 0104.0008.p
         (210 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310124|ref|YP_003774216.1| type III secretion HrpQ protein...   171   4e-44

>gi|300310124|ref|YP_003774216.1| type III secretion HrpQ protein
           [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score =  171 bits (433), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 76/129 (58%), Positives = 101/129 (78%)

Query: 82  KLSPEQLRHAFRQRLAEVDLLKRFNLQLEDRSWSMQAALEEEDAERFQRMLSAFMAKYAI 141
           KL   +L  A R+RLAEVDLL R  L L + +W+++ A+ E+DAER QRML  F   Y I
Sbjct: 216 KLPAAELEAALRKRLAEVDLLSRMTLDLREGAWTLRGAMGEDDAERLQRMLRDFAKAYVI 275

Query: 142 DFPVEVKIGGAEAMLPFKIQQVVSGTNASIVTDDGRRLYVGDEYRGMKLAGIEGNQLSFT 201
           DFP++VKIG  E+MLPF+I QV++G++ SIVTDDGRRLYVGDEYRG++LA + GNQ+ FT
Sbjct: 276 DFPIDVKIGSPESMLPFRIVQVLNGSDPSIVTDDGRRLYVGDEYRGVRLAAVAGNQIRFT 335

Query: 202 GKRSINVTW 210
           GK+++NV+W
Sbjct: 336 GKQALNVSW 344


  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    0.131    0.369 

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: 644,122
Number of extensions: 25126
Number of successful extensions: 67
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 1
Length of query: 210
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 129
Effective length of database: 1,236,335
Effective search space: 159487215
Effective search space used: 159487215
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)