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= 0020.0271.p
         (430 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 [...   872   0.0  
gi|300312040|ref|YP_003776132.1| diaminopimelate decarboxylase [...   128   1e-30

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

 Score =  872 bits (2252), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 429/430 (99%), Positives = 429/430 (99%)

Query: 1   MSHFSYRNGVLHAEQVSLATLAEQFGTPLYVYSKAALVENFSAYANACQQAGRADGGKGG 60
           MSHFSYRNGVLHAEQVSLATLAEQFGTPLYVYSKAALVENFSAYANACQQAGRADGGKGG
Sbjct: 1   MSHFSYRNGVLHAEQVSLATLAEQFGTPLYVYSKAALVENFSAYANACQQAGRADGGKGG 60

Query: 61  ALVCYSVKSNSNLAVLNLLGRLGSGFDIVSGGELLRVVAAGGDARKVIFSGVGKGRDEMK 120
           ALVCYSVKSNSNLAVLNLLGRLGSGFDIVSGGELLRVVAAGGDARKVIFSGVGKGRDEMK
Sbjct: 61  ALVCYSVKSNSNLAVLNLLGRLGSGFDIVSGGELLRVVAAGGDARKVIFSGVGKGRDEMK 120

Query: 121 LALEHDILCFNVESIPEVARLNEVAGALGKRARISLRVNPNVDAKTHPYISTGLKENKFG 180
           LALEHDILCFNVESIPEVARLNEVAGALGKRARISLRVNPNVDAKTHPYISTGLKENKFG
Sbjct: 121 LALEHDILCFNVESIPEVARLNEVAGALGKRARISLRVNPNVDAKTHPYISTGLKENKFG 180

Query: 181 VAYEDALNCYRAAAALPHIEVVGIDCHIGSQLLDDSPLLEALDKIIDMVDALEAEGIPIH 240
           VAYEDALNCYRAAAALPHIEVVGIDCHIGSQLLDDSPLLEALDKIIDMVDALEAEGIPIH
Sbjct: 181 VAYEDALNCYRAAAALPHIEVVGIDCHIGSQLLDDSPLLEALDKIIDMVDALEAEGIPIH 240

Query: 241 HLDIGGGIGIRYDDEQPVAIGDYLARVFARVDAWRASKYQGRPIQVMFEPGRSVVGNAGL 300
           HLDIGGGIGIRYDDEQPVAIGDYLARVFARVDAWRASKYQGRPIQVMFEPGRSVVGNAGL
Sbjct: 241 HLDIGGGIGIRYDDEQPVAIGDYLARVFARVDAWRASKYQGRPIQVMFEPGRSVVGNAGL 300

Query: 301 LLTEVQYLKHGEGKNFAVVDAAMNDLMRPAMYEAWHGVKAVKENAGQPRIYDVVGPVCES 360
           LLTEVQYLKHGEGKNFAVVDAAMNDLMRPAMYEAWHGVK VKENAGQPRIYDVVGPVCES
Sbjct: 301 LLTEVQYLKHGEGKNFAVVDAAMNDLMRPAMYEAWHGVKTVKENAGQPRIYDVVGPVCES 360

Query: 361 GDWLARSRELAIGEGDLLALMSAGAYGMTMASNYNTRGRAAEVLVDGERAHLIRARENPA 420
           GDWLARSRELAIGEGDLLALMSAGAYGMTMASNYNTRGRAAEVLVDGERAHLIRARENPA
Sbjct: 361 GDWLARSRELAIGEGDLLALMSAGAYGMTMASNYNTRGRAAEVLVDGERAHLIRARENPA 420

Query: 421 DLFALEKIVS 430
           DLFALEKIVS
Sbjct: 421 DLFALEKIVS 430


>gi|300312040|ref|YP_003776132.1| diaminopimelate decarboxylase
           [Herbaspirillum seropedicae SmR1]
          Length = 418

 Score =  128 bits (321), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 128/424 (30%), Positives = 197/424 (46%), Gaps = 44/424 (10%)

Query: 4   FSYRNGVLHAEQVSLATLAEQFG-TPLYVYSKAALVENFSAYANACQQAGRADGGKGGAL 62
           F   +G+LH   + L  LA + G TP YVY +A L+    A+  A   A  A        
Sbjct: 17  FPIVDGMLHVGGMPLDRLALRVGATPFYVYDRA-LLRARVAHLRAHLPAELA-------- 67

Query: 63  VCYSVKSNSNLAVLNLLGRLGSGFDIVSGGELLRVVAAGGDARKVIFSGVGKGRDEMKLA 122
           + YS+K+N   A++  + +L  GFD+ SGGEL   +      + + F+G GK   E++ A
Sbjct: 68  LHYSIKANPMPALVQAMAQLVDGFDVASGGELATALDTPMPVQHISFTGPGKSLAELRRA 127

Query: 123 LEHDILCFNVESIPEVARLNEVAGALGKRARISLRVNPNVDAKTHPYISTGLK----ENK 178
           L   ++  +VES  E   +  +A  LG R  ++LR+NP  + K     S+G++       
Sbjct: 128 LAAGVM-LHVESEREAEAVAALAQELGVRPGVTLRINPPFELK-----SSGMRMGGGAKP 181

Query: 179 FGVAYEDALNCYRAAAALPHIEVVGIDCHIGSQLLDDSPLLEALDKIIDMVDALEAE-GI 237
           FGV  E A    R  A    ++V G+    GSQ LD   ++ A     ++   L  E G+
Sbjct: 182 FGVDAEAAPALLRWLAGQ-GVQVAGLQIFCGSQSLDAQAIMAAQSSSFELALQLAGEAGL 240

Query: 238 PIHHLDIGGGIGIRY-DDEQPV---AIGDYLARVFARVDAWRASKYQGRPIQVMFEPGRS 293
            +  L+IGGG GI Y   E+ +    IG +LA+   R+ A          ++V+ E GR 
Sbjct: 241 SLRVLNIGGGFGIPYFPGERALEIAPIGAHLAQWLPRLRALHPQ------LRVVMEMGRY 294

Query: 294 VVGNAGLLLTEVQYLKHGEGKNFAVVDAAMN----------DLMRPAMYEAWHGVKAVKE 343
           +VG AGL ++ V   K   G+ F VVD  ++           ++R          +  + 
Sbjct: 295 LVGEAGLYVSRVIDRKQSRGEVFLVVDGGLHHHLAASGNFGQVIRKNYPVTIVPQQPQRS 354

Query: 344 NAGQPRIYDVVGPVCESGDWLARSREL-AIGEGDLLALMSAGAYGMTMASN-YNTRGRAA 401
             G      VVGP+C   D LA    L A   GDL+ +  +GAYG++ +   +      A
Sbjct: 355 GGGTTERVSVVGPLCTPLDVLAAQMLLPAAAVGDLVVVFQSGAYGLSASPTAFLGHPAPA 414

Query: 402 EVLV 405
           EVLV
Sbjct: 415 EVLV 418


  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    0.137    0.400 

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: 1,351,654
Number of extensions: 58746
Number of successful extensions: 189
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 186
Number of HSP's successfully gapped: 2
Length of query: 430
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 342
Effective length of database: 1,203,190
Effective search space: 411490980
Effective search space used: 411490980
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 (21.7 bits)
S2: 132 (55.5 bits)