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= 0010.0212.p
         (259 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309533|ref|YP_003773625.1| diaminopimelate decarboxylase [...   372   e-104

>gi|300309533|ref|YP_003773625.1| diaminopimelate decarboxylase
           [Herbaspirillum seropedicae SmR1]
          Length = 430

 Score =  372 bits (956), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 197/276 (71%), Positives = 206/276 (74%), Gaps = 63/276 (22%)

Query: 1   MSHFSYRNGALHAEDVSLQALADQFGTPLYVYSKSALVQNFSAYADACRAAXQVGAGAEF 60
           MSHFSYRNG LHAE VSL  LA+QFGTPLYVYSK+ALV+NFSAYA+AC+ A         
Sbjct: 1   MSHFSYRNGVLHAEQVSLATLAEQFGTPLYVYSKAALVENFSAYANACQQAG-------- 52

Query: 61  LGLCRRAEGGKGGALVCYSVKSNSNLAVLNLLGKLGSGFDIVSGGELLRVVX-------- 112
                RA+GGKGGALVCYSVKSNSNLAVLNLLG+LGSGFDIVSGGELLRVV         
Sbjct: 53  -----RADGGKGGALVCYSVKSNSNLAVLNLLGRLGSGFDIVSGGELLRVVAAGGDARKV 107

Query: 113 ------------------------------------------KRARISLRVNPNVDAKTH 130
                                                     KRARISLRVNPNVDAKTH
Sbjct: 108 IFSGVGKGRDEMKLALEHDILCFNVESIPEVARLNEVAGALGKRARISLRVNPNVDAKTH 167

Query: 131 PYISTGLKENKFGVAYEDALNCYRAAAALPNIDVVGIDCHIGSQLLDDSPLLEALDKIID 190
           PYISTGLKENKFGVAYEDALNCYRAAAALP+I+VVGIDCHIGSQLLDDSPLLEALDKIID
Sbjct: 168 PYISTGLKENKFGVAYEDALNCYRAAAALPHIEVVGIDCHIGSQLLDDSPLLEALDKIID 227

Query: 191 MVDALEAEGIPIHHLDIGGGIGIRYDDEQPVAIGDY 226
           MVDALEAEGIPIHHLDIGGGIGIRYDDEQPVAIGDY
Sbjct: 228 MVDALEAEGIPIHHLDIGGGIGIRYDDEQPVAIGDY 263


  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
   0.319    0.136    0.405 

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: 695,267
Number of extensions: 27210
Number of successful extensions: 70
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 2
Length of query: 259
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 176
Effective length of database: 1,226,865
Effective search space: 215928240
Effective search space used: 215928240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 129 (54.3 bits)