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/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134094965|ref|YP_001100040.1| alanine racemase 2, PLP-binding...   448   e-127

>gi|134094965|ref|YP_001100040.1| alanine racemase 2, PLP-binding,
           catabolic [Herminiimonas arsenicoxydans]
          Length = 348

 Score =  448 bits (1152), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 224/346 (64%), Positives = 268/346 (77%)

Query: 14  LQHNLAVARAHAPQARVWGVLKANGYGHGLERAMRGFAAADGLALVEPDYAVRLRELGWT 73
           ++HNL VA+  AP +R+  V+KAN YGHGLER MRGFA ADGL L+E D A RLR+LGW 
Sbjct: 1   MRHNLRVAKNCAPHSRILAVVKANAYGHGLERGMRGFAEADGLGLIEVDNAARLRQLGWQ 60

Query: 74  KPILLLEGFFDADDLPVLAQHDIQFAVHCDQQIALLEQFVTDSALHVHLKMNSGMNRLGF 133
           K ILLLEGFFDADDL  +A H I   VHC +Q+ +LEQ   ++ L VHLK+NSGMNRLGF
Sbjct: 61  KRILLLEGFFDADDLQTIAVHQIDTVVHCVEQLQMLEQASLNAKLDVHLKINSGMNRLGF 120

Query: 134 KPEAFRAAYERVQKIASVRSITMMTHFANADDAGNPALPLAEQVRRFQAGTEGLAGPRSL 193
            P   R  Y+R++ I +VR+I+ +THFANA++A N  LPL+EQ++RFQ  T+GL G R L
Sbjct: 121 MPAVCRDIYQRLRAIPAVRNISFITHFANAENAANANLPLSEQLQRFQTATQGLPGDRCL 180

Query: 194 CNSAADLMHGELANDWIRPGIMLYGGTPGGGSAADFGLRAAMILESKIIGVQEVPAGEAI 253
            NSAADLMH E A DW+RPG+MLYGGTP   SAA FGL+ AM L S+IIG+Q + AG+A+
Sbjct: 181 SNSAADLMHPECAADWVRPGVMLYGGTPADTSAAAFGLQPAMTLSSEIIGIQHIAAGDAV 240

Query: 254 GYGSRFVADKPMRVGVVACGYADGYPRHAPSGTPVLVDGVKTATVGRVSMDMLCVDLSDV 313
           GYGS FVA  PM +GVVACGYADGYPRHAPSGTPV+VDGV+T  VGRVSMDM+ VDL+ V
Sbjct: 241 GYGSSFVASGPMTIGVVACGYADGYPRHAPSGTPVIVDGVRTQMVGRVSMDMITVDLTPV 300

Query: 314 PGATVGSHVELWGNRLPIDEVAFAAGTIGYELMCALAPRVAVREVE 359
             A VGS V LWG  LPIDEVA AAGT+GYELMCA+APRV + E E
Sbjct: 301 ATAGVGSPVILWGQGLPIDEVANAAGTVGYELMCAIAPRVRIVESE 346


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
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: 3295
Number of Hits to DB: 760,977
Number of extensions: 34420
Number of successful extensions: 95
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 95
Number of HSP's successfully gapped: 1
Length of query: 359
Length of database: 1,000,347
Length adjustment: 83
Effective length of query: 276
Effective length of database: 726,862
Effective search space: 200613912
Effective search space used: 200613912
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: 129 (54.3 bits)