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= 0020.0056.p
         (337 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311368|ref|YP_003775460.1| flagellar motor switch protein ...   610   e-176

>gi|300311368|ref|YP_003775460.1| flagellar motor switch protein
           FliM [Herbaspirillum seropedicae SmR1]
          Length = 334

 Score =  610 bits (1574), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 304/334 (91%), Positives = 318/334 (95%)

Query: 1   MAEHFLSQEEVDALLRGVTGDQDEEKSVEETPGTVRNYNLATQERIVRGRMPTLEIINER 60
           MAEHFLSQEEVDALL+GVTGD+DEEK VEE PGTVR YNLATQERIVRGRMPTLEIINER
Sbjct: 1   MAEHFLSQEEVDALLKGVTGDEDEEKVVEEAPGTVRTYNLATQERIVRGRMPTLEIINER 60

Query: 61  FARLFRIGLFNFLHRTAEISVGPVKVSKYSEFIRNLVVPTNLNLVHIKPFRGIGLVVFDP 120
           FARLFRIGLFNF+HRTAEISVGPVKVSKYSEFIRNLVVPTNLNLVHIKPFRGIGLVVFDP
Sbjct: 61  FARLFRIGLFNFIHRTAEISVGPVKVSKYSEFIRNLVVPTNLNLVHIKPFRGIGLVVFDP 120

Query: 121 QFVFLLVDNMFGGDGRFHTRIEGREFTPTEQRIIMRVLDIVFENYSKSWEPIYPIEFEYI 180
           QFVF+LVDNMFGGDGRFHTRIEGREFTPTEQRIIMRVL+I FE Y+KSWEPIYPIEFE+I
Sbjct: 121 QFVFMLVDNMFGGDGRFHTRIEGREFTPTEQRIIMRVLEITFETYAKSWEPIYPIEFEFI 180

Query: 181 RSELNTQFANIATPNEVVVSTSFTIELGPVSGEIHICTPYSMIEPVRDKLTSSMQGEALE 240
           RSE+NTQFANIATPNEVVVST+FT+ELGPVSGEIHICTPYSMIEPVRD+LTSSMQGEALE
Sbjct: 181 RSEMNTQFANIATPNEVVVSTTFTVELGPVSGEIHICTPYSMIEPVRDRLTSSMQGEALE 240

Query: 241 VDKRWIRLMKQQIQTAEVELIANFGTARVTFTDLLNMQVGDVIQLQTANPVTAQVDGVPV 300
           VDKRWIRLMKQQIQTAEVELI NFGTARV FTDLL+MQVGDVI LQT   V AQVDGVPV
Sbjct: 241 VDKRWIRLMKQQIQTAEVELIVNFGTARVNFTDLLHMQVGDVIPLQTNTTVEAQVDGVPV 300

Query: 301 MECSYGKLNGQYALRVEKLLSITQSETPESIQGE 334
           MECSYG+ NGQYALRVEKLLSIT  ETPES QG+
Sbjct: 301 MECSYGQSNGQYALRVEKLLSITHQETPESFQGD 334


  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
   0.320    0.137    0.391 

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: 964,385
Number of extensions: 36953
Number of successful extensions: 84
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 84
Number of HSP's successfully gapped: 1
Length of query: 337
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 251
Effective length of database: 1,212,660
Effective search space: 304377660
Effective search space used: 304377660
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 131 (55.1 bits)