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= 0001.0937.p
         (441 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310468|ref|YP_003774560.1| glycine/D-amino acid oxidase [H...   807   0.0  
gi|300309600|ref|YP_003773692.1| glycine/D-amino acid oxidase [H...    82   8e-17

>gi|300310468|ref|YP_003774560.1| glycine/D-amino acid oxidase
           [Herbaspirillum seropedicae SmR1]
          Length = 441

 Score =  807 bits (2084), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/441 (91%), Positives = 422/441 (95%)

Query: 1   MSPPLVHVQTPTTPPASAEVVVIGGGIVGIFTAYYLAKRGVSVVVVEKGRIGAEQSSRNW 60
           MSPPLV VQ+PT PPASA+VVVIGGGI+GIFTAY+LAKRG+SV VVEKGRIGAEQSSRNW
Sbjct: 1   MSPPLVQVQSPTIPPASADVVVIGGGIIGIFTAYFLAKRGISVAVVEKGRIGAEQSSRNW 60

Query: 61  GWCRQQNRDARELPMATKSIDLWEQFSAETGEDTGFNRCGLLYLSNDDEEINRWANWGKF 120
           GWCRQQNRDARELPMATKSIDLWEQFSAETGEDTGFNRCGLLYLSND+EEI RWA WG F
Sbjct: 61  GWCRQQNRDARELPMATKSIDLWEQFSAETGEDTGFNRCGLLYLSNDEEEIARWAAWGDF 120

Query: 121 AKSAGVTTYMLDSKQAAERGRVTGRQWKGGVFSPTDGTADPVKAAPAVARAIMKLGGHVI 180
           AK+AGVTTYMLDSKQAAERG  TGR WKGGVFSPTDGTADP KAAPAVARAIMKLGGHVI
Sbjct: 121 AKTAGVTTYMLDSKQAAERGHATGRAWKGGVFSPTDGTADPGKAAPAVARAIMKLGGHVI 180

Query: 181 QQCAARGIETEGGRVSGVITEAGVIKTKVAILAGGAWASSFCNQLGIRFPQASIRQSIMS 240
           QQCAARGI+TEGGRVSGVITEAGVIKTKVA++AGGAWASSFC+QLGIRFPQAS+RQSIMS
Sbjct: 181 QQCAARGIDTEGGRVSGVITEAGVIKTKVAVMAGGAWASSFCHQLGIRFPQASVRQSIMS 240

Query: 241 VVPQEQNLPGALYTSGVSVTRRSDGSYALAISGRAKVDPTLQFLRFSPQFLPMFAKRWRS 300
           V P E  LPGALYTSGV+VTRRSDGSYALAISGRA+VDPT+QFLRFSPQFLPMFAKRWRS
Sbjct: 241 VAPMEAPLPGALYTSGVAVTRRSDGSYALAISGRARVDPTMQFLRFSPQFLPMFAKRWRS 300

Query: 301 LSPGGLEALRSGHETLSRWRMDAPTPMEKMRILDASADPASIRATLRRAIELLPELAKAE 360
           LSPGGLEA RSGHETLSRWRMDAPTPME+MRILDASADPASIRAT RRA+ELLP+LA+A+
Sbjct: 301 LSPGGLEAWRSGHETLSRWRMDAPTPMERMRILDASADPASIRATHRRAVELLPQLAQAK 360

Query: 361 VTHTWAGYVDSTPDGVPGIGELPQTPGFILAAGFSGHGFGIGPGAGHLIADLASGVEPIV 420
           VTHTWAGYVDSTPDGVPGIGELPQTPG ILAAGFSGHGFGIGPGAGHLIADLASG  PIV
Sbjct: 361 VTHTWAGYVDSTPDGVPGIGELPQTPGLILAAGFSGHGFGIGPGAGHLIADLASGAAPIV 420

Query: 421 DPRPYHPNRFSDSSWGKVADF 441
           DPRPYHPNRFSDSSWGKVADF
Sbjct: 421 DPRPYHPNRFSDSSWGKVADF 441


>gi|300309600|ref|YP_003773692.1| glycine/D-amino acid oxidase
           [Herbaspirillum seropedicae SmR1]
          Length = 425

 Score = 82.0 bits (201), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 115/435 (26%), Positives = 168/435 (38%), Gaps = 81/435 (18%)

Query: 2   SPPLVHVQTPTTPPASAEVVVIGGGIVGIFTAYYLAKRGVSVVVVEKGRIGAEQSSRNWG 61
           SP  V  QT T P  + +VVV+GGGI G   A  LA++G  VVV E   +G   S RN G
Sbjct: 12  SPAFVS-QTQTLPEGACDVVVVGGGITGSAAALALARKGARVVVCEADIVGGAASGRNGG 70

Query: 62  WCRQ-----------------QNRDARELPMATKSIDLWEQFSAETGEDTGFNRCGLLYL 104
            C                    NR  R        +D  E+   E   D  F R G L L
Sbjct: 71  MCNNGFAQDYATLSQRLGVEWANRLYRAF---DAGVDTVERLVREESIDCSFARHGKLKL 127

Query: 105 SNDDEEINRWANWGK-FAKSAGVTTYMLDSKQAAERGRVTGRQWKGGVFSPTDGTADPVK 163
           +   E +++ A   +  A+     T +L   Q   R  +   ++ GG+           +
Sbjct: 128 AAKPEHVDKLARSQELLARHVDGDTRLLSRAQL--RDELGSDRYHGGLLMHKSAGMHVGR 185

Query: 164 AAPAVARAIMKLGGHVIQQCAARGIETEGGRVSGVITEAGVIKTKVAILAGGAWASSFCN 223
               +A+A  + G   +++    GIE + GR + V T AGV+     +LA G       +
Sbjct: 186 YVRGLAQAAQRRGALYLERTPVLGIEAKNGRYA-VRTSAGVLHAGQVLLASG------IS 238

Query: 224 QLGIRFPQASIRQSIMSV---VPQEQNLPGALYTSGVSVTRRSDGSYALAISGRAKVDPT 280
           Q+G   P   IR+ I+ V   +   + LPGAL    +   R    +       RA  D  
Sbjct: 239 QVG---PFGWIRRRIVPVGAFLIVTEPLPGALLKQLLPTQRMYTDTKNFVNYFRATPDQR 295

Query: 281 LQFLRFSPQFLPMFAKRWRSLSPGGLEALRSGHETLSRWRMDAPTPMEKMRILDASADPA 340
           L F                    GG            R R  A  P    R         
Sbjct: 296 LLF--------------------GG------------RARFAASNPQSDAR------SGE 317

Query: 341 SIRATLRRAIELLPELAKAEVTHTWAGYVDSTPDGVPGIGELPQTPGFILAAGFSGHGFG 400
            +RA +   +E+ P LA+  + + W G VD T D +P  G   Q  G   + G+SGHG  
Sbjct: 318 ILRAQM---LEVFPALAQTRIDYCWGGMVDMTTDRLPRAG---QRDGLYYSMGYSGHGTH 371

Query: 401 IGPGAGHLIADLASG 415
           +    G ++A++  G
Sbjct: 372 MATLMGSMMAEIMDG 386


  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    0.134    0.412 

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: 1,438,940
Number of extensions: 59325
Number of successful extensions: 212
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 214
Number of HSP's successfully gapped: 2
Length of query: 441
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 353
Effective length of database: 1,203,190
Effective search space: 424726070
Effective search space used: 424726070
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 132 (55.5 bits)