GapMind for Amino acid biosynthesis

 

Alignments for a candidate for leuD in Azospirillum brasilense Sp245

Align 3-isopropylmalate dehydratase subunit LeuD (EC 4.2.1.33) (characterized)
to candidate AZOBR_RS27810 AZOBR_RS27810 isopropylmalate isomerase

Query= ecocyc::LEUD-MONOMER
         (201 letters)



>FitnessBrowser__azobra:AZOBR_RS27810
          Length = 208

 Score =  182 bits (461), Expect = 5e-51
 Identities = 99/199 (49%), Positives = 131/199 (65%), Gaps = 3/199 (1%)

Query: 1   MAEKFIKHTGLVVPLDAANVDTDAIIPKQFLQKVTRTGFGAHLFNDWRFLDEKGQQPNPD 60
           M E   + TG+  PL  ANVDTDAIIPK  L  + R+G GA LF++WRF D+ G++  PD
Sbjct: 1   MPEPVNRITGIAAPLPRANVDTDAIIPKAHLLTIHRSGLGAGLFSEWRF-DDDGRE-RPD 58

Query: 61  FVLNFPQYQGASILLARENFGCGSSREHAPWALTDYGFKVVIAPSFADIFYGNSFNNQLL 120
           FVLN   ++ A ILLA ENFGCGSSREHA W+L D+G + VIAPSFA IF+ N   N L 
Sbjct: 59  FVLNQAPWREAKILLAGENFGCGSSREHAVWSLMDFGIRCVIAPSFASIFHENCQKNGLA 118

Query: 121 PVKLSDAEVDELFALVKANPGIHFDVDLEAQEVKAGE-KTYRFTIDAFRRHCMMNGLDSI 179
            V L +A +  L A  +A P     VD++A  V A + + + FT++A RR  ++ GLD I
Sbjct: 119 AVTLDEAALAHLVACAQATPAATTTVDIKASRVTAPDGREFPFTMEAARRQALLEGLDEI 178

Query: 180 GLTLQHDDAIAAYEAKQPA 198
           G +L+HD A+AA+EA+  A
Sbjct: 179 GASLRHDAAMAAFEARDRA 197


Lambda     K      H
   0.322    0.138    0.421 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 144
Number of extensions: 5
Number of successful extensions: 3
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 201
Length of database: 208
Length adjustment: 21
Effective length of query: 180
Effective length of database: 187
Effective search space:    33660
Effective search space used:    33660
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: 45 (21.9 bits)

Align candidate AZOBR_RS27810 AZOBR_RS27810 (isopropylmalate isomerase)
to HMM TIGR00171 (leuD: 3-isopropylmalate dehydratase, small subunit (EC 4.2.1.33))

Software error:

../bin/blast/fastacmd -i /tmp/list.19613.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.19613.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.