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= 0001.1466.p
         (125 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310901|ref|YP_003774993.1| glycine cleavage system protein...   236   3e-64

>gi|300310901|ref|YP_003774993.1| glycine cleavage system protein H
           [Herbaspirillum seropedicae SmR1]
          Length = 125

 Score =  236 bits (603), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 112/125 (89%), Positives = 120/125 (96%)

Query: 1   MNIPDHLVYAQTHEWVKLEDDGTLTIGITDFGQEQLGPLVYVDMPSVGKALARGAESGIV 60
           M+IPDHLVYAQTHEWVKLEDDGTLTIGITDFGQEQLGPLVYVDMP+VGK LARGAESGIV
Sbjct: 1   MHIPDHLVYAQTHEWVKLEDDGTLTIGITDFGQEQLGPLVYVDMPAVGKVLARGAESGIV 60

Query: 61  ESNKTASDLHAPVDGEVIAINEVLVERPDAINEAPYEQWIFKLKPTAPFSSEGFLDAAAY 120
           ESNKTASDLHAPVDGEV+A+NE+LVE PDAIN APYEQWIFKLKP APFS+EGFLDAA Y
Sbjct: 61  ESNKTASDLHAPVDGEVVAVNELLVETPDAINGAPYEQWIFKLKPAAPFSAEGFLDAAGY 120

Query: 121 IKLVS 125
           +KL+S
Sbjct: 121 LKLIS 125


  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
   0.315    0.134    0.393 

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: 425,246
Number of extensions: 16816
Number of successful extensions: 30
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 30
Number of HSP's successfully gapped: 1
Length of query: 125
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 50
Effective length of database: 1,264,745
Effective search space: 63237250
Effective search space used: 63237250
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: 42 (22.0 bits)
S2: 125 (52.8 bits)