GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvE in Pseudomonas fluorescens GW456-L13

Align Branched-chain amino acid aminotransferase (EC 2.6.1.42) (characterized)
to candidate PfGW456L13_3544 Branched-chain amino acid aminotransferase (EC 2.6.1.42)

Query= reanno::pseudo5_N2C3_1:AO356_22970
         (339 letters)



>FitnessBrowser__pseudo13_GW456_L13:PfGW456L13_3544
          Length = 339

 Score =  657 bits (1695), Expect = 0.0
 Identities = 315/339 (92%), Positives = 331/339 (97%)

Query: 1   MGNESINWDKLGFDYIKTDKRYLSHWRDGAWDAGTLTDDNVLHISEGSTALHYGQQCFEG 60
           MGNESINWDKLGFDYIKTDKRYLS++R+G WD GTLT+DNVLHISEGSTALHYGQQCFEG
Sbjct: 1   MGNESINWDKLGFDYIKTDKRYLSYFRNGEWDKGTLTEDNVLHISEGSTALHYGQQCFEG 60

Query: 61  LKAYRCKDGSINLFRPDQNAARMQRSCARLLMPQVETEQFVEACKQVVRANERFIPPYGT 120
           +KAYRCKDGSINLFRPDQNA RMQRSCARLLMPQVETEQF+EACK+VVRANERFIPPYGT
Sbjct: 61  MKAYRCKDGSINLFRPDQNALRMQRSCARLLMPQVETEQFIEACKEVVRANERFIPPYGT 120

Query: 121 GGALYLRPFVIGVGDNIGVRTAPEFIFSIFCIPVGAYFKGGLTPHNFLISSFDRAAPQGT 180
           GGALYLRPFVIGVGDNIGVRTAPEFIFSIFCIPVGAYFKGGLTPHNFLISS+DRAAPQGT
Sbjct: 121 GGALYLRPFVIGVGDNIGVRTAPEFIFSIFCIPVGAYFKGGLTPHNFLISSYDRAAPQGT 180

Query: 181 GAAKVGGNYAASLMPGSQAKKASFADCIYLDPMTHSKIEEVGSANFFGITHDNTFVTPRS 240
           GAAKVGGNYAASLMPGSQAKKA FADCIYLDP+TH+KIEEVGSANFFGITHDN FVTP S
Sbjct: 181 GAAKVGGNYAASLMPGSQAKKAHFADCIYLDPLTHTKIEEVGSANFFGITHDNKFVTPNS 240

Query: 241 PSVLPGITRLSLIELAKSRLGLEVIEGDVFIDKLSDFKEAGACGTAAVITPIGGISYKDK 300
           PSVLPGITRLSLIELA+SRLGL+V+EGDVFIDKL+DFKEAGACGTAAVITPIGGI+Y D 
Sbjct: 241 PSVLPGITRLSLIELARSRLGLDVVEGDVFIDKLADFKEAGACGTAAVITPIGGINYNDH 300

Query: 301 LHVFHSETEVGPITQKLYKELTGVQTGDVEAPAGWIVKV 339
           LHVFHSETEVGPITQKLYKELTGVQTGD+EAPAGWIVKV
Sbjct: 301 LHVFHSETEVGPITQKLYKELTGVQTGDIEAPAGWIVKV 339


Lambda     K      H
   0.320    0.138    0.422 

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: 561
Number of extensions: 14
Number of successful extensions: 1
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: 339
Length of database: 339
Length adjustment: 28
Effective length of query: 311
Effective length of database: 311
Effective search space:    96721
Effective search space used:    96721
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: 49 (23.5 bits)

Align candidate PfGW456L13_3544 (Branched-chain amino acid aminotransferase (EC 2.6.1.42))
to HMM TIGR01123 (ilvE: branched-chain amino acid aminotransferase (EC 2.6.1.42))

Software error:

../bin/blast/fastacmd -i /tmp/list.31972.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.31972.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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