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= 0001.2003.p
         (359 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311465|ref|YP_003775557.1| alanine racemase [Herbaspirillu...   656   0.0  
gi|300313242|ref|YP_003777334.1| alanine racemase [Herbaspirillu...   123   3e-29

>gi|300311465|ref|YP_003775557.1| alanine racemase [Herbaspirillum
           seropedicae SmR1]
          Length = 359

 Score =  656 bits (1693), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 314/359 (87%), Positives = 338/359 (94%)

Query: 1   MPRPILASISISALQHNLAVARAHAPQARVWGVLKANGYGHGLERAMRGFAAADGLALVE 60
           MPRPI+ASISISALQHNLAVARAHAP ARVWGVLKANGYGHGLERAMRGFAAADGLAL+E
Sbjct: 1   MPRPIVASISISALQHNLAVARAHAPGARVWGVLKANGYGHGLERAMRGFAAADGLALIE 60

Query: 61  PDYAVRLRELGWTKPILLLEGFFDADDLPVLAQHDIQFAVHCDQQIALLEQFVTDSALHV 120
           PDYAVRLRELGWTKPILLLEGFFDADDLPVLAQHDIQFAVHC++QIA LE F   ++LH 
Sbjct: 61  PDYAVRLRELGWTKPILLLEGFFDADDLPVLAQHDIQFAVHCEEQIAQLEAFTAAASLHA 120

Query: 121 HLKMNSGMNRLGFKPEAFRAAYERVQKIASVRSITMMTHFANADDAGNPALPLAEQVRRF 180
           HLKMNSGMNRLGFKPE +RAAY R+QKI SV SIT+MTHFANADDAGNP LPLAEQVRRF
Sbjct: 121 HLKMNSGMNRLGFKPETYRAAYARLQKIPSVASITLMTHFANADDAGNPLLPLAEQVRRF 180

Query: 181 QAGTEGLAGPRSLCNSAADLMHGELANDWIRPGIMLYGGTPGGGSAADFGLRAAMILESK 240
           QAG+EGL GPRSLCNSAADLMH ELANDW+RPG+MLYGGTPGGGSAADFGLRAAM LES+
Sbjct: 181 QAGSEGLDGPRSLCNSAADLMHAELANDWVRPGVMLYGGTPGGGSAADFGLRAAMTLESR 240

Query: 241 IIGVQEVPAGEAIGYGSRFVADKPMRVGVVACGYADGYPRHAPSGTPVLVDGVKTATVGR 300
           IIG+Q+VPAGEAIGYGSRFVADKPM++GVVACGYADGYPRHAP+GTPVLVDGVKT TVGR
Sbjct: 241 IIGIQQVPAGEAIGYGSRFVADKPMKIGVVACGYADGYPRHAPNGTPVLVDGVKTGTVGR 300

Query: 301 VSMDMLCVDLSDVPGATVGSHVELWGNRLPIDEVAFAAGTIGYELMCALAPRVAVREVE 359
           VSMDML VDL+ +P A VGS VELWG++LPIDEVA+AAGTIGYELMCALAPRVAVREV+
Sbjct: 301 VSMDMLTVDLTHIPDADVGSQVELWGSKLPIDEVAYAAGTIGYELMCALAPRVAVREVD 359


>gi|300313242|ref|YP_003777334.1| alanine racemase [Herbaspirillum
           seropedicae SmR1]
          Length = 368

 Score =  123 bits (308), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 107/360 (29%), Positives = 175/360 (48%), Gaps = 23/360 (6%)

Query: 8   SISISALQHNLAVARAHAPQARVWGVLKANGYGHGLERAMRGFAAADG----LALVEPDY 63
           +I + A+  N     A    AR   V+KA+ YG G    +R    A      +ALV    
Sbjct: 10  TIDLPAIVANWKTLSARVAPARCGAVVKADAYGLGATMVVRALLDAGCREFFVALVSEGV 69

Query: 64  AVRLRELG--WTK--PILLLEGFFDADDLPVLAQHDIQFAVHCDQQIALLEQFVT--DSA 117
           +++ + L   W K   + +L G    D+L  L  + +   ++  +Q+   + +    D  
Sbjct: 70  SLK-QTLADRWPKGARLHILNGTLPGDELLCL-HYGLTPVLNSLEQVRSWQGYARQLDFP 127

Query: 118 LHVHLKMNSGMNRLGFKPEAFRAAYERVQKIASVRSITMMTHFANADDAGNPALPLAEQV 177
           L   L++++GM RLG  P       E    +A +    +M+H  +A++  NP      Q+
Sbjct: 128 LAAALQVDTGMARLGLAPAEVAQLTESRAGLAGIAPTFLMSHLVSAEETANPLN--QHQL 185

Query: 178 RRFQAGTE---GLAGPRSLCNSAADLMHGELANDWIRPGIMLYGGTPGGGSAADFGLRAA 234
            RF A       +AG   L NS+   +  +     +RPG  LYG  PGG  A    +R  
Sbjct: 186 ERFVAIRRHWPEIAG--CLANSSGIFLGADFHFGCVRPGAALYGVHPGG--AGPNPMRPV 241

Query: 235 MILESKIIGVQEVPAGEAIGYGSRFVADKPMRVGVVACGYADGYPRHAPSGTPVLVDGVK 294
           + L++ +I  +E+ AGE++GY   + A +P RVG +A GYADGY R A +   + ++GV+
Sbjct: 242 LRLQAPLIQWRELQAGESVGYNHTWQASRPTRVGTIALGYADGYLRSASNRGVLRLEGVE 301

Query: 295 TATVGRVSMDMLCVDLSDVPGATV--GSHVELWGNRLPIDEVAFAAGTIGYELMCALAPR 352
              +GRVSMD + VDLS +  A +  G   ++   +  I+ +A  AGT  YE++ +L  R
Sbjct: 302 APLIGRVSMDSITVDLSAIDPARLRPGLLFDVLDAQQDINALAVQAGTNAYEILTSLRHR 361


  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    0.137    0.415 

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: 1,282,055
Number of extensions: 60597
Number of successful extensions: 166
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 2
Length of query: 359
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 273
Effective length of database: 1,212,660
Effective search space: 331056180
Effective search space used: 331056180
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: 131 (55.1 bits)