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= 0029.0013.p
         (176 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311915|ref|YP_003776007.1| glycine cleavage system protein...   162   1e-41

>gi|300311915|ref|YP_003776007.1| glycine cleavage system protein T
           [Herbaspirillum seropedicae SmR1]
          Length = 360

 Score =  162 bits (411), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 83/125 (66%), Positives = 97/125 (77%), Gaps = 1/125 (0%)

Query: 33  AAAARXLPDNFVAALNDLGLISLTGDDAASFLHNQITNDVEKLDLASVRLAGYCTPKGRL 92
           AAA + L ++F+A L  LGLI++TG+DAASFLH Q+TNDV+ LD  S RLAGYC+PKGRL
Sbjct: 42  AAAPQSL-ESFMAPLTSLGLIAVTGEDAASFLHGQLTNDVQHLDTGSARLAGYCSPKGRL 100

Query: 93  LATFLMWKDAGQIVLQLPRTLQPAIQKRLQMFVLRAKAKLADISEQRVTLGLAGNAAATX 152
           LATFLMW+D     LQLPR+LQPAIQKRLQMFV+RAKAKLAD S +R  LGLAG A A  
Sbjct: 101 LATFLMWRDDQASWLQLPRSLQPAIQKRLQMFVMRAKAKLADASTERGVLGLAGPATANA 160

Query: 153 TRRQF 157
               F
Sbjct: 161 LAEWF 165


  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
   0.323    0.135    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: 443,807
Number of extensions: 13879
Number of successful extensions: 50
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 1
Length of query: 176
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 97
Effective length of database: 1,245,805
Effective search space: 120843085
Effective search space used: 120843085
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 127 (53.5 bits)