BLASTP 2.2.26 [Sep-21-2011]


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= 028101
         (214 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|Q2GG30|PDXJ_EHRCR Pyridoxine 5'-phosphate synthase OS=Ehrlichia chaffeensis (strain
           Arkansas) GN=pdxJ PE=3 SV=1
          Length = 239

 Score = 34.3 bits (77), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 36/130 (27%), Positives = 54/130 (41%), Gaps = 27/130 (20%)

Query: 89  RGGVSLDLEDMGESVNTTLSDG---MQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTG 145
           R   ++D  D+ E  N  +S+G   +   LRE  RH         KDD  FR   S K  
Sbjct: 17  RNARNVDYPDIVEVANIAVSNGADFITVHLREDRRHI--------KDDDVFRLKNSLKVP 68

Query: 146 MTYE--PKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMV 203
           +  E  P D  L+         +  +V  K V    + R      +  TE G+ +KR+  
Sbjct: 69  LNLEIAPTDEMLS---------IAIKVRPKCVCLVPEKRQ-----ELTTEGGLDVKRAFS 114

Query: 204 MLLKFLEKTN 213
            L+ F+EK +
Sbjct: 115 YLISFIEKLH 124


>sp|P61680|MURC_LACJO UDP-N-acetylmuramate--L-alanine ligase OS=Lactobacillus johnsonii
           (strain CNCM I-12250 / La1 / NCC 533) GN=murC PE=3 SV=1
          Length = 437

 Score = 32.7 bits (73), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 28/118 (23%), Positives = 53/118 (44%), Gaps = 9/118 (7%)

Query: 37  GNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLDL 96
           GN   Q N E A   ++ +    Y ++ +      ++ ++  +  + G  G     SL  
Sbjct: 73  GNAFKQDNPEVAACLDKNVEWQSYPDTVE------EIVQMHTSIGVSGTHGKTSTTSLLA 126

Query: 97  EDMGESVNTT--LSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKD 152
             +GE   T+  + DG +GK  E +R F Y+++E  +   A+ PD    T + ++  D
Sbjct: 127 HVLGEVAPTSYLIGDG-RGKGVEGSRFFVYEADEYRRHFLAYHPDYQIMTNIDFDHPD 183


>sp|Q1MS11|GLYA_LAWIP Serine hydroxymethyltransferase OS=Lawsonia intracellularis (strain
           PHE/MN1-00) GN=glyA PE=3 SV=1
          Length = 412

 Score = 32.0 bits (71), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 19/27 (70%)

Query: 87  GGRGGVSLDLEDMGESVNTTLSDGMQG 113
           G RGG+ L  EDMG+ +N+ +  G+QG
Sbjct: 230 GPRGGMILSTEDMGKVINSQIFPGIQG 256


>sp|B8J189|GLYA_DESDA Serine hydroxymethyltransferase OS=Desulfovibrio desulfuricans
           (strain ATCC 27774 / DSM 6949) GN=glyA PE=3 SV=1
          Length = 414

 Score = 31.6 bits (70), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 20/27 (74%)

Query: 87  GGRGGVSLDLEDMGESVNTTLSDGMQG 113
           G RGG+ L  EDMG+++N+ +  G+QG
Sbjct: 230 GPRGGMILSTEDMGKTLNSQIFPGIQG 256


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.316    0.134    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 80,642,660
Number of Sequences: 539616
Number of extensions: 3745535
Number of successful extensions: 12487
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 51
Number of HSP's that attempted gapping in prelim test: 12389
Number of HSP's gapped (non-prelim): 123
length of query: 214
length of database: 191,569,459
effective HSP length: 113
effective length of query: 101
effective length of database: 130,592,851
effective search space: 13189877951
effective search space used: 13189877951
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (27.3 bits)