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= 0001.1904.p
         (267 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311363|ref|YP_003775455.1| flagellar biosynthesis protein ...   437   e-124

>gi|300311363|ref|YP_003775455.1| flagellar biosynthesis protein
           FliR [Herbaspirillum seropedicae SmR1]
          Length = 267

 Score =  437 bits (1123), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 238/267 (89%), Positives = 258/267 (96%)

Query: 1   MLTFSSQQLYAWVAMFIWPTTRILGLLSIAPPFGSASVPMLVKVLLGIAIGAVLAPDVPV 60
           MLTFSSQQLY WVAMFIWPTTRILGL++IAPPFGSASVPMLVKVLLG+AIGAV+APDVP+
Sbjct: 1   MLTFSSQQLYVWVAMFIWPTTRILGLMAIAPPFGSASVPMLVKVLLGVAIGAVIAPDVPI 60

Query: 61  PPAIDPMSMTGLLILLQQLLIGLSMGFAMRVVFAAVEAAGELTSSTMGLSFAAFFDPQTQ 120
           PPAI+P SMTG++ILLQQLLIGLSMGFAMR+VFAAVEAAGE TS+TMGLSFAAFFDPQTQ
Sbjct: 61  PPAIEPTSMTGIMILLQQLLIGLSMGFAMRIVFAAVEAAGEFTSTTMGLSFAAFFDPQTQ 120

Query: 121 GRTAAISQVFSLLATMVFLSLNGHLMLLQVMAESFHTLPITGVPVTTEGFHQLGLWGAKI 180
           GRTA ISQVFSLLATMVFL+LNGHL+LLQVMAESFHTLPITG P+TTEGFHQL LWGAKI
Sbjct: 121 GRTAVISQVFSLLATMVFLNLNGHLILLQVMAESFHTLPITGQPITTEGFHQLVLWGAKI 180

Query: 181 FSMGVQLSLPLLIALLITNFALGILTRAAPQLNLFGIGFSITMLAGFVLIAFTLPYMLTP 240
           FSMG+QLSLPLLIALLITNFALG+LTRAAPQLNLFGIGFSITMLAGF+LI  TLPYMLTP
Sbjct: 181 FSMGLQLSLPLLIALLITNFALGVLTRAAPQLNLFGIGFSITMLAGFILIGITLPYMLTP 240

Query: 241 LQRFLADGIEMVRLLGSVPPVNALPKP 267
           +Q+ L+DG+EMVRLLGSVPPVNALPKP
Sbjct: 241 VQKLLSDGVEMVRLLGSVPPVNALPKP 267


  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
   0.328    0.141    0.417 

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: 675,820
Number of extensions: 22640
Number of successful extensions: 122
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 1
Length of query: 267
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 183
Effective length of database: 1,222,130
Effective search space: 223649790
Effective search space used: 223649790
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 130 (54.7 bits)