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= 0001.2411.p
         (345 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...   305   3e-84

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

 Score =  305 bits (782), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 171/351 (48%), Positives = 218/351 (62%), Gaps = 13/351 (3%)

Query: 1   MYEMRILNGYLRGATIPLSDQ-VCIIGASDEADVVLADPGIAARHASLSLGPQGWSLEAL 59
           M E+RILNGY RGAT+PL+D    I+GA ++ADVVLADPGIA +HA L+L P+GW+L A+
Sbjct: 1   MQELRILNGYHRGATLPLADSGERILGAEEDADVVLADPGIAGQHARLALTPEGWTLTAM 60

Query: 60  DGLLLNADDNHKRDFLQLKIDDFARLGSIWLTVTEEGSAWRDPPPEPADSMAEAQDIVAP 119
           DG L  AD N     LQL   + AR   IWLTV ++ + W DPPPEP D+   + D   P
Sbjct: 61  DGCLRRADSNRPESALQLAFGELARADRIWLTVVDQDAPWTDPPPEPVDTPHSSGDQEGP 120

Query: 120 ATPEGSSADGAVP---HDTVVTSDAATATPSADILQPMPVRARRNR--RLLLLPLSLIAL 174
              + ++   A+P    D       A A    D     P  ARR R  R++LLP  +   
Sbjct: 121 PADQETAYSDALPLPATDEDEPQQQAPAPTPDDATAAEPALARRGRGYRMVLLPFFMATA 180

Query: 175 LSAAAAYAITRHYPAGGEESLSANESLLAPLGAKAAIEPPAAKMSPEQLRAAFRKRLAEV 234
           L+ AAAYA++ H PA  +E   A    L  L A         K+   +L AA RKRLAEV
Sbjct: 181 LTGAAAYALSSH-PAPADEQARARAEELKRLAALPR------KLPAAELEAALRKRLAEV 233

Query: 235 DLLKRFNLQLEDREWILQAALDEEESERFQRMLGSFVRTHDIDFPVKVKIGSAESMLPFR 294
           DLL R  L L +  W L+ A+ E+++ER QRML  F + + IDFP+ VKIGS ESMLPFR
Sbjct: 234 DLLSRMTLDLREGAWTLRGAMGEDDAERLQRMLRDFAKAYVIDFPIDVKIGSPESMLPFR 293

Query: 295 IQQVISGSNASIVTDDGRRLYIGDEYRGVVLAGIDGNQVSFTGRHNINVRW 345
           I QV++GS+ SIVTDDGRRLY+GDEYRGV LA + GNQ+ FTG+  +NV W
Sbjct: 294 IVQVLNGSDPSIVTDDGRRLYVGDEYRGVRLAAVAGNQIRFTGKQALNVSW 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
   0.317    0.134    0.388 

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: 977,407
Number of extensions: 37135
Number of successful extensions: 163
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 1
Length of query: 345
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 259
Effective length of database: 1,212,660
Effective search space: 314078940
Effective search space used: 314078940
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: 131 (55.1 bits)