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= 0035.0015.p
         (418 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312040|ref|YP_003776132.1| diaminopimelate decarboxylase [...   805   0.0  
gi|300309533|ref|YP_003773625.1| diaminopimelate decarboxylase [...   129   6e-31

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

 Score =  805 bits (2079), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/418 (97%), Positives = 411/418 (98%)

Query: 1   MHADPRQKPLHAEQTAFPIVDGMLHVGGMPLDRLALRVGATPFYVYDRAWLRARVAHLRA 60
           MHADPRQKPLHAEQTAFPIVDGMLHVGGMPLDRLALRVGATPFYVYDRA LRARVAHLRA
Sbjct: 1   MHADPRQKPLHAEQTAFPIVDGMLHVGGMPLDRLALRVGATPFYVYDRALLRARVAHLRA 60

Query: 61  HLPAELALHYSIKANPMPALVQAMAQLVDGFDVASGGELATALDTPMPVQHISFTGPGKS 120
           HLPAELALHYSIKANPMPALVQAMAQLVDGFDVASGGELATALDTPMPVQHISFTGPGKS
Sbjct: 61  HLPAELALHYSIKANPMPALVQAMAQLVDGFDVASGGELATALDTPMPVQHISFTGPGKS 120

Query: 121 LAELRRALAAGVMLHVESEREAEAVAALAQELGVRAGLTLRINPPFELKFSGMRMGGGAK 180
           LAELRRALAAGVMLHVESEREAEAVAALAQELGVR G+TLRINPPFELK SGMRMGGGAK
Sbjct: 121 LAELRRALAAGVMLHVESEREAEAVAALAQELGVRPGVTLRINPPFELKSSGMRMGGGAK 180

Query: 181 PFGVDAEVAPALLRRLAGQGVEVAGLQIFCGSQSLDAQAIMAAQSSSFELALQLAGEAGL 240
           PFGVDAE APALLR LAGQGV+VAGLQIFCGSQSLDAQAIMAAQSSSFELALQLAGEAGL
Sbjct: 181 PFGVDAEAAPALLRWLAGQGVQVAGLQIFCGSQSLDAQAIMAAQSSSFELALQLAGEAGL 240

Query: 241 SLRVLNIGGGFGIPYFPGERALEIAPIGAHLAQWLPRLRALHPQLRVVMEMGRYLVGEAG 300
           SLRVLNIGGGFGIPYFPGERALEIAPIGAHLAQWLPRLRALHPQLRVVMEMGRYLVGEAG
Sbjct: 241 SLRVLNIGGGFGIPYFPGERALEIAPIGAHLAQWLPRLRALHPQLRVVMEMGRYLVGEAG 300

Query: 301 LYVSRVIDRKQSRGEVFLVVDGGLHHHLAASGNFGQVIRKNYPVTIVPLQPQRSGGGATE 360
           LYVSRVIDRKQSRGEVFLVVDGGLHHHLAASGNFGQVIRKNYPVTIVP QPQRSGGG TE
Sbjct: 301 LYVSRVIDRKQSRGEVFLVVDGGLHHHLAASGNFGQVIRKNYPVTIVPQQPQRSGGGTTE 360

Query: 361 RVSVVGPLCTPLDVLAAQMLLPAAAVGDLVVVFQSGAYGLSASPTAFLGHPAPAEVLV 418
           RVSVVGPLCTPLDVLAAQMLLPAAAVGDLVVVFQSGAYGLSASPTAFLGHPAPAEVLV
Sbjct: 361 RVSVVGPLCTPLDVLAAQMLLPAAAVGDLVVVFQSGAYGLSASPTAFLGHPAPAEVLV 418


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

 Score =  129 bits (323), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 129/420 (30%), Positives = 195/420 (46%), Gaps = 36/420 (8%)

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

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

Query: 128 LAAGVM-LHVESEREAEAVAALAQELGVRAGLTLRINPPFELKFS-GMRMGGGAKPFGVD 185
           L   ++  +VES  E   +  +A  LG RA ++LR+NP  + K    +  G     FGV 
Sbjct: 123 LEHDILCFNVESIPEVARLNEVAGALGKRARISLRVNPNVDAKTHPYISTGLKENKFGVA 182

Query: 186 AEVAPALLRRLAGQ-GVEVAGLQIFCGSQSLDAQAIMAAQSSSFELALQLAGEAGLSLRV 244
            E A    R  A    +EV G+    GSQ LD   ++ A     ++   L  E G+ +  
Sbjct: 183 YEDALNCYRAAAALPHIEVVGIDCHIGSQLLDDSPLLEALDKIIDMVDALEAE-GIPIHH 241

Query: 245 LNIGGGFGIPYFPGERALEIAPIGAHLAQWLPRLRALHPQ------LRVVMEMGRYLVGE 298
           L+IGGG GI Y   E+ +    IG +LA+   R+ A          ++V+ E GR +VG 
Sbjct: 242 LDIGGGIGIRY-DDEQPV---AIGDYLARVFARVDAWRASKYQGRPIQVMFEPGRSVVGN 297

Query: 299 AGLYVSRVIDRKQSRGEVFLVVDGGLHHHLAASGNFGQVIRKNYPVTIVPLQPQRSGGGA 358
           AGL ++ V   K   G+ F VVD  ++           ++R         ++  +   G 
Sbjct: 298 AGLLLTEVQYLKHGEGKNFAVVDAAMN----------DLMRPAMYEAWHGVKTVKENAGQ 347

Query: 359 TERVSVVGPLCTPLDVLAAQMLLPAAAVGDLVVVFQSGAYGLSASPTAFLGHPAPAEVLV 418
                VVGP+C   D LA    L A   GDL+ +  +GAYG++ +   +      AEVLV
Sbjct: 348 PRIYDVVGPVCESGDWLARSREL-AIGEGDLLALMSAGAYGMTMASN-YNTRGRAAEVLV 405


  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
   0.322    0.138    0.406 

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: 1,339,885
Number of extensions: 58462
Number of successful extensions: 225
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 221
Number of HSP's successfully gapped: 2
Length of query: 418
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 330
Effective length of database: 1,203,190
Effective search space: 397052700
Effective search space used: 397052700
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 (21.9 bits)
S2: 132 (55.5 bits)