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= 0036.0200.p
         (173 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal...   303   7e-84
gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal...   116   9e-28
gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H...   112   1e-26
gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal...   100   1e-22

>gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small
           subunit [Herbaspirillum seropedicae SmR1]
          Length = 423

 Score =  303 bits (775), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 143/171 (83%), Positives = 160/171 (93%)

Query: 1   MRVDAVVVAAGMSSAELLRPLDTDLPLLALQSYSALVPVKNPDDAPSMALHDDSYKVSMT 60
           + +DAVVVAAGM+SA LL+PLDT LPL ALQSYSALVPVKNPDDAP+MAL+DDSYKV+MT
Sbjct: 249 LTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPVKNPDDAPTMALYDDSYKVAMT 308

Query: 61  RLGSRIRISGLLGFVPQSQTLPPKALRNLLKIAGDYYPNAANYNQAHFWSNTMALLPHGL 120
           RLGSRIRISGLLGFVP SQTLPPKALRNLLKIAGDYYPNAANYNQAHFWSN++A++P GL
Sbjct: 309 RLGSRIRISGLLGFVPASQTLPPKALRNLLKIAGDYYPNAANYNQAHFWSNSIAMMPTGL 368

Query: 121 PVVGPTRQGNVFVNVGHGATGWAASVGSARLLCDMISGDDSEIPVEGLLPR 171
           PVVGPTRQGN+FVNVGHG TGWAASVGSARLL DM++G+++EI   GLLPR
Sbjct: 369 PVVGPTRQGNIFVNVGHGVTGWAASVGSARLLSDMMAGEETEIATAGLLPR 419


>gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small
           subunit [Herbaspirillum seropedicae SmR1]
          Length = 436

 Score =  116 bits (291), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 90/163 (55%)

Query: 1   MRVDAVVVAAGMSSAELLRPLDTDLPLLALQSYSALVPVKNPDDAPSMALHDDSYKVSMT 60
           ++ D  VVA G  S +L++PL  DL L   + YSA   + NPD AP+++L DD YK+ ++
Sbjct: 253 LKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITNPDAAPTVSLTDDGYKLVVS 312

Query: 61  RLGSRIRISGLLGFVPQSQTLPPKALRNLLKIAGDYYPNAANYNQAHFWSNTMALLPHGL 120
           RLG R+R++G       ++ L       + +   + +P+  +Y    +W+    L P  +
Sbjct: 313 RLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELFPDGCDYENPTYWTGLRPLTPSNV 372

Query: 121 PVVGPTRQGNVFVNVGHGATGWAASVGSARLLCDMISGDDSEI 163
           P VG T+  N+++N GHG  GW    GS R + ++++G   EI
Sbjct: 373 PYVGKTKFANLYLNTGHGTLGWTMGCGSGRAIAEIVAGHVPEI 415


>gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase
           [Herbaspirillum seropedicae SmR1]
          Length = 433

 Score =  112 bits (281), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 63/170 (37%), Positives = 90/170 (52%), Gaps = 2/170 (1%)

Query: 1   MRVDAVVVAAGMSSAELLR--PLDTDLPLLALQSYSALVPVKNPDDAPSMALHDDSYKVS 58
           ++ D+ VVA G  S +LL   P    +P+  L+ YS  VP+ +   AP   + D++YK++
Sbjct: 244 VQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDASAAPVSTILDETYKIA 303

Query: 59  MTRLGSRIRISGLLGFVPQSQTLPPKALRNLLKIAGDYYPNAANYNQAHFWSNTMALLPH 118
           +TR   RIR+ G+   V     L  K    L  +  D +P A +  QA FW+    + P 
Sbjct: 304 VTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGDTAQASFWTGLRPMTPD 363

Query: 119 GLPVVGPTRQGNVFVNVGHGATGWAASVGSARLLCDMISGDDSEIPVEGL 168
           G PVVG T   N+++N GHG  GW  S GS +LL D+ISG    I  E L
Sbjct: 364 GTPVVGATPVSNLYINTGHGTLGWTMSCGSGQLLADLISGRRPAIAHEDL 413


>gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small
           subunit [Herbaspirillum seropedicae SmR1]
          Length = 421

 Score = 99.8 bits (247), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 55/162 (33%), Positives = 88/162 (54%), Gaps = 5/162 (3%)

Query: 7   VVAAGMSSAELLRPLDTDLPLLALQSYSALVPVKNPDD---APSMALHDDSYKVSMTRLG 63
           V+A G  SA+  R LD  LPL  L+ YS  VP+++      AP +++ D + K+   RLG
Sbjct: 251 VLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSITDIARKIVYARLG 310

Query: 64  SRIRISGLLGFVPQSQTLPPKALRNLLKIAGDYYPNAANYNQAHF--WSNTMALLPHGLP 121
            R+R++G +  V Q +++PP+A+  L +   + +P+      A    W       P G+P
Sbjct: 311 QRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDCVLGEDARLSPWMGFRPATPSGVP 370

Query: 122 VVGPTRQGNVFVNVGHGATGWAASVGSARLLCDMISGDDSEI 163
           +VG     N+++N+G GA GW  + GSA L+ D I+G    I
Sbjct: 371 IVGACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSI 412


  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
   0.318    0.135    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: 541,167
Number of extensions: 21547
Number of successful extensions: 56
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 54
Number of HSP's successfully gapped: 4
Length of query: 173
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 94
Effective length of database: 1,245,805
Effective search space: 117105670
Effective search space used: 117105670
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: 127 (53.5 bits)