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= 0009.0180.p
         (177 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H...   276   7e-76
gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal...   100   8e-23
gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal...    67   7e-13

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

 Score =  276 bits (706), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 128/160 (80%), Positives = 144/160 (90%)

Query: 1   MFEEHAPLAIRPDGTLQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFRELRAATG 60
           MF+EHAPLAIR DG+  QLRWMWQMLRNC+A+RYAVNKERMVRLAEYSRDC R+LRA  G
Sbjct: 68  MFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLRDLRADVG 127

Query: 61  IDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQSGVPFELLSREQLAGAEPALAKVSHKLT 120
           I YEGRQQGTLQLFR+QEQ +GAAKDIAVL+++GVPFELL+ +QL  AEPALAKV  KLT
Sbjct: 128 IPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALAKVRDKLT 187

Query: 121 GGLRLPNDETGDCQLFTTKLAKMAEELGVQFRYDVDIQAL 160
           GGLRLPNDETGDCQLFTT+LA MAE++GV+FRY VDI AL
Sbjct: 188 GGLRLPNDETGDCQLFTTRLATMAEQIGVKFRYGVDIDAL 227


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

 Score =  100 bits (248), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 57/158 (36%), Positives = 82/158 (51%)

Query: 3   EEHAPLAIRPDGTLQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFRELRAATGID 62
           +E APL  R      Q +W    LR C+A R   N   +V L EYSR   + +RA TGI 
Sbjct: 70  KEDAPLLYRFRPEWLQWKWAVAFLRECTAARTDENIRNIVALCEYSRQTLQAVRAETGIQ 129

Query: 63  YEGRQQGTLQLFRTQEQFDGAAKDIAVLRQSGVPFELLSREQLAGAEPALAKVSHKLTGG 122
           Y+   +G L  +  +++F  +     ++R  G P E +  +++   EPALA + +K+ GG
Sbjct: 130 YDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEPALASIRNKIVGG 189

Query: 123 LRLPNDETGDCQLFTTKLAKMAEELGVQFRYDVDIQAL 160
                DE+GD    TT LAK + E GV+FRY   I  L
Sbjct: 190 DFTATDESGDVFKLTTGLAKKSAEAGVEFRYSTTITRL 227


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

 Score = 67.4 bits (163), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 47/171 (27%), Positives = 76/171 (44%), Gaps = 1/171 (0%)

Query: 1   MFEEHAPLAIRPDGTLQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFRELRAATG 60
           +F + +PL I+P     Q RW+   LR C+A         +++LA YSRD   +      
Sbjct: 68  LFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQLTQWNGRLK 127

Query: 61  IDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQSGVPFELLSREQLAGAEPALAKVSHKLT 120
           + ++ ++ G L +F   +  + AA  +    Q G   E+L   Q    EPAL +      
Sbjct: 128 LSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPALGRSQRDWV 187

Query: 121 GGLRLPNDETGDCQLFTTKL-AKMAEELGVQFRYDVDIQALXACSSATTST 170
           GG+   ++E GDC  F   L A M  +   +F     I A+    SA ++ 
Sbjct: 188 GGVYTRSEEAGDCPAFCRALVAAMQADPNFRFIGGARITAVRRQGSALSAV 238


  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
   0.320    0.133    0.387 

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: 495,375
Number of extensions: 18798
Number of successful extensions: 53
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 55
Number of HSP's successfully gapped: 3
Length of query: 177
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 98
Effective length of database: 1,245,805
Effective search space: 122088890
Effective search space used: 122088890
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: 127 (53.5 bits)