GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argG in Acidovorax sp. GW101-3H11

Align argininosuccinate synthase (characterized)
to candidate Ac3H11_2616 Argininosuccinate synthase (EC 6.3.4.5)

Query= CharProtDB::CH_024687
         (447 letters)



>FitnessBrowser__acidovorax_3H11:Ac3H11_2616
          Length = 445

 Score =  700 bits (1807), Expect = 0.0
 Identities = 346/442 (78%), Positives = 386/442 (87%), Gaps = 1/442 (0%)

Query: 1   MTTILKHLPVGQRIGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYDAIPRRA 60
           M TIL++LP+GQ++GIAFSGGLDTSAAL WM+ KGA+PYAYTANLGQPDE DYDAIPR+A
Sbjct: 1   MATILQNLPLGQKVGIAFSGGLDTSAALHWMKLKGAMPYAYTANLGQPDEPDYDAIPRKA 60

Query: 61  MEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKE 120
           MEYGAE ARL+DCR QL  EGIAA+Q GAFH +TGGLTYFNTTPLGRAVTGTMLVAAMKE
Sbjct: 61  MEYGAEKARLVDCRTQLAHEGIAALQAGAFHISTGGLTYFNTTPLGRAVTGTMLVAAMKE 120

Query: 121 DGVNIWGDGSTYKGNDIERFYRYGLLTNAELQIYKPWLDTDFIDELGGRHEMSEFMIACG 180
           D VNIWGDGST+KGNDIERFYRYGLLTN  L+IYKPWLD  FIDELGGR EMS FM   G
Sbjct: 121 DDVNIWGDGSTFKGNDIERFYRYGLLTNPSLKIYKPWLDQLFIDELGGRAEMSAFMTQAG 180

Query: 181 FDYKMSVEKAYSTDSNMLGATHEAKDLEYLNSSVKIVNPIMGVKFWDESVKIPAEEVTVR 240
           F YKMS EKAYSTDSNMLGATHEAKDLE+LNS ++IVNPIMGV FW   V++ AEEV+VR
Sbjct: 181 FGYKMSAEKAYSTDSNMLGATHEAKDLEFLNSGIRIVNPIMGVAFWKPEVEVKAEEVSVR 240

Query: 241 FEQGHPVALNGKTFSDDVEMMLEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALL 300
           FE+G PVALNG  F+D VE++LEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPG+ALL
Sbjct: 241 FEEGQPVALNGVEFNDPVELILEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGLALL 300

Query: 301 HIAYERLLTGIHNEDTIEQYHAHGRQLGRLLYQGRWFDSQALMLRDSLQRWVASQITGEV 360
           HIAYERL+TGIHNEDTIEQY  +G +LGRLLYQGRWFD QA+MLR++ QRWVA  +TG V
Sbjct: 301 HIAYERLVTGIHNEDTIEQYRLNGLKLGRLLYQGRWFDPQAIMLRETAQRWVARAVTGTV 360

Query: 361 TLELRRGNDYSILNTVSENLTYKPERLTMEK-GDSVFSPDDRIGQLTMRNLDITDTREKL 419
           TLELRRGNDYS+LNT S NLTY PERL+MEK  D+ FSP DRIGQLTMRNLDI+DTR+KL
Sbjct: 361 TLELRRGNDYSLLNTESPNLTYAPERLSMEKVEDAPFSPLDRIGQLTMRNLDISDTRDKL 420

Query: 420 FGYAKTGLLSSSAASGVPQVEN 441
             YA+ GLLS    + + Q+EN
Sbjct: 421 GVYARAGLLSLGGNAALAQLEN 442


Lambda     K      H
   0.317    0.135    0.397 

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: 651
Number of extensions: 17
Number of successful extensions: 2
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: 447
Length of database: 445
Length adjustment: 32
Effective length of query: 415
Effective length of database: 413
Effective search space:   171395
Effective search space used:   171395
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: 51 (24.3 bits)

Align candidate Ac3H11_2616 (Argininosuccinate synthase (EC 6.3.4.5))
to HMM TIGR00032 (argG: argininosuccinate synthase (EC 6.3.4.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.5439.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.5439.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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