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= 0002.0098.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|300309771|ref|YP_003773863.1| thiamine monophosphate synthase...   273   6e-75

>gi|300309771|ref|YP_003773863.1| thiamine monophosphate synthase
           [Herbaspirillum seropedicae SmR1]
          Length = 210

 Score =  273 bits (699), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 139/202 (68%), Positives = 166/202 (82%)

Query: 9   LRGLYIVTPDWDDTDKLVSATEQAIKGGATLVQYRHKTADAAQRKEQAGALLQVCRRHDT 68
           LRGLYIVTPDWDDT +L++ATE A++ GA LVQYRHKTADA QR+ QA ALL +CR++  
Sbjct: 9   LRGLYIVTPDWDDTAQLLAATELALQQGAALVQYRHKTADAQQRQAQASALLALCRQYQV 68

Query: 69  PFIINDYVDLCIELDAEGIHVGGTDASVAEVRAQVGKDKIVGASCYGSLQLARDAHAAGA 128
           P IIND+VDLC+++DA+GIHVGGTDAS+AEVR  VG D+IVGASCYG+L+LA  A+  GA
Sbjct: 69  PLIINDHVDLCLDIDADGIHVGGTDASIAEVRKAVGPDRIVGASCYGTLELAHAAYRDGA 128

Query: 129 TYVAFGGFYPSRVKKYDFKTAPEIVAGSKKEIPLPVVVIGGMTQANCLPLIAQGADMVAA 188
           +YVAFGGFYPSRVKKYDF+TAPEI+A SK+EIPLPVVVIGG+T  N  PL+ QGADMVA 
Sbjct: 129 SYVAFGGFYPSRVKKYDFRTAPEIIAHSKREIPLPVVVIGGITLENAPPLVEQGADMVAV 188

Query: 189 ISSVYMTDDPEASARAFSQLIR 210
           ISSVY+    E   R  + L R
Sbjct: 189 ISSVYLVPVEERKTRELADLYR 210


  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
   0.318    0.133    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: 669,188
Number of extensions: 27944
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 101
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 (21.7 bits)
S2: 128 (53.9 bits)