GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvE in Pseudomonas fluorescens FW300-N2E3

Align Branched-chain amino acid aminotransferase (EC 2.6.1.42) (characterized)
to candidate AO353_26655 AO353_26655 branched-chain amino acid aminotransferase

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



>FitnessBrowser__pseudo3_N2E3:AO353_26655
          Length = 339

 Score =  665 bits (1715), Expect = 0.0
 Identities = 320/339 (94%), Positives = 329/339 (97%)

Query: 1   MGNESINWDKLGFDYIKTDKRYLSHWRDGAWDAGTLTDDNVLHISEGSTALHYGQQCFEG 60
           MGNESINWDKLGFDYIKTDKRYLSHWRDGAWD GTLT DNVLHISEGSTALHYGQQCFEG
Sbjct: 1   MGNESINWDKLGFDYIKTDKRYLSHWRDGAWDKGTLTSDNVLHISEGSTALHYGQQCFEG 60

Query: 61  LKAYRCKDGSINLFRPDQNAARMQRSCARLLMPQVETEQFVEACKQVVRANERFIPPYGT 120
           LKAYRCKDGSINLFRPDQNAARMQRSCARLLMPQV+TEQFVEACK VVRANERFIPPYGT
Sbjct: 61  LKAYRCKDGSINLFRPDQNAARMQRSCARLLMPQVDTEQFVEACKAVVRANERFIPPYGT 120

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

Query: 181 GAAKVGGNYAASLMPGSQAKKASFADCIYLDPMTHSKIEEVGSANFFGITHDNTFVTPRS 240
           GAAKVGGNYAASLMPGSQAKKA FADCIYLDPMTH+KIEEVGSANFFGIT DN FVTP+S
Sbjct: 181 GAAKVGGNYAASLMPGSQAKKAHFADCIYLDPMTHTKIEEVGSANFFGITQDNKFVTPKS 240

Query: 241 PSVLPGITRLSLIELAKSRLGLEVIEGDVFIDKLSDFKEAGACGTAAVITPIGGISYKDK 300
           PSVLPGITRLSLIELAKSRLG+EV+EGDVFIDK+SDFKEAGACGTAAVITPIGGI Y  K
Sbjct: 241 PSVLPGITRLSLIELAKSRLGMEVVEGDVFIDKISDFKEAGACGTAAVITPIGGIEYNGK 300

Query: 301 LHVFHSETEVGPITQKLYKELTGVQTGDVEAPAGWIVKV 339
           LHVFHSETEVGP+TQKLYKELTGVQTGD+EAP GWIVKV
Sbjct: 301 LHVFHSETEVGPVTQKLYKELTGVQTGDIEAPEGWIVKV 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: 567
Number of extensions: 12
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 AO353_26655 AO353_26655 (branched-chain amino acid aminotransferase)
to HMM TIGR01123 (ilvE: branched-chain amino acid aminotransferase (EC 2.6.1.42))

Software error:

../bin/blast/fastacmd -i /tmp/list.11512.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11512.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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