GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argE in Magnetospirillum magneticum AMB-1

Align Acetylornithine deacetylase; AO; Acetylornithinase; EC 3.5.1.16; N-acetylornithinase; NAO (uncharacterized)
to candidate WP_011384771.1 AMB_RS11990 acetylornithine deacetylase

Query= curated2:O68873
         (380 letters)



>NCBI__GCF_000009985.1:WP_011384771.1
          Length = 404

 Score =  196 bits (499), Expect = 7e-55
 Identities = 137/386 (35%), Positives = 187/386 (48%), Gaps = 18/386 (4%)

Query: 5   LPALRATLTELVAMDTTSFRPNVPLIDYAQARLEAAGFSAERQKFLDDAGVEKVNLVAVK 64
           LPA   T+ +L+A+DTTS++ N+ LID     L   G S  R     D    K N+ A  
Sbjct: 24  LPASIETIAKLIAIDTTSYKTNLQLIDLVDKILSGLGASVRRTW---DESKNKANIFATI 80

Query: 65  GGSGSGRAALALVGHSDCVPYDAA-WT-DALRLTEKDGRLYARGACDTKGFIACALHAA- 121
           G S      + L GH+D VP D   W+ D   L + DG+LY RG  D K FIA  L  A 
Sbjct: 81  GPSDV--PGIVLSGHTDVVPVDGQDWSRDPFHLVQADGKLYGRGTADMKSFIAICLAMAP 138

Query: 122 -LNAEQLKAPLMVVLTADEEVGLTGAKKLVE--AGLG-RARHAIVGEPTRLIPVRANKGY 177
              A  L+ P+    + DEEVG  G ++L++  A L  R    IVGEPT +  V  +KG 
Sbjct: 139 QFAAAPLRMPVHFAFSYDEEVGCVGVRRLIDDLAHLPVRPALCIVGEPTDMKAVIGHKGK 198

Query: 178 CLAEVEVRGKEGHSAYPDSGASAIFRAGRFLQRLEHLALTVLRED-LDEGFQPPFTTVNV 236
                 V G E HSA    G +AI  A   + RL  L   +  +   D G+QPP+TTV+ 
Sbjct: 199 KSVRCHVEGHECHSALNHQGVNAIEIAAEMVTRLRALQRRIREQGPFDLGYQPPYTTVHT 258

Query: 237 GVIQGGKAKNVIPGACRFVVEWRPIPGQPPERVSQLLETIRQELVRDEPAFEAQIRVVRT 296
           G +QGG A N++P +C F  E R +P   PE +   +    Q+LV +  A      +   
Sbjct: 259 GTMQGGTALNIVPKSCSFEFEIRNLPDHDPETLMAEVRGWAQDLVPEMLAVSEASGITLD 318

Query: 297 DRGVNT-----RADAEVVRFLAEASGNAPETVSFGTEAPQMTELGAEAVVFGPGDIRVAH 351
           +            DA V    A +  N    V+F TEA    + G  AVV GPG I  AH
Sbjct: 319 EHNSTPGLGMDEMDAAVRLVCALSGANQTSKVAFTTEAGLFQQAGIPAVVIGPGSITQAH 378

Query: 352 QTGEYVPVEDLVRCEAVLARAVAHFC 377
           +  E++ +E + +CE  L R +AH C
Sbjct: 379 RPDEFITLEQVAQCEDFLRRLLAHMC 404


Lambda     K      H
   0.319    0.136    0.396 

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: 345
Number of extensions: 16
Number of successful extensions: 5
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: 380
Length of database: 404
Length adjustment: 31
Effective length of query: 349
Effective length of database: 373
Effective search space:   130177
Effective search space used:   130177
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 (21.8 bits)
S2: 50 (23.9 bits)

Align candidate WP_011384771.1 AMB_RS11990 (acetylornithine deacetylase)
to HMM TIGR01892 (argE: acetylornithine deacetylase (ArgE) (EC 3.5.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.25248.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.25248.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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