GapMind for catabolism of small carbon sources

 

Alignments for a candidate for kbl in Phaeobacter inhibens BS107

Align 2-amino-3-ketobutyrate coenzyme A ligase (EC 2.3.1.29) (characterized)
to candidate GFF3380 PGA1_c34330 2-amino-3-ketobutyrate coenzyme A ligase Kbl

Query= reanno::Phaeo:GFF3380
         (395 letters)



>FitnessBrowser__Phaeo:GFF3380
          Length = 395

 Score =  786 bits (2030), Expect = 0.0
 Identities = 395/395 (100%), Positives = 395/395 (100%)

Query: 1   MSTDFLTDISKTLEEIKADGLYKRERMITSPQGGEIRVGDAAVINLCANNYLGLADHPDL 60
           MSTDFLTDISKTLEEIKADGLYKRERMITSPQGGEIRVGDAAVINLCANNYLGLADHPDL
Sbjct: 1   MSTDFLTDISKTLEEIKADGLYKRERMITSPQGGEIRVGDAAVINLCANNYLGLADHPDL 60

Query: 61  IAAARGVMDDKGFGMASVRFICGTQDIHRELEQRLAKFLGKDDAILFAACFDANGGLFEP 120
           IAAARGVMDDKGFGMASVRFICGTQDIHRELEQRLAKFLGKDDAILFAACFDANGGLFEP
Sbjct: 61  IAAARGVMDDKGFGMASVRFICGTQDIHRELEQRLAKFLGKDDAILFAACFDANGGLFEP 120

Query: 121 LLGPEDAIISDSLNHASIIDGIRLCKAKRYRYLNSDMNDLEAWLKQAREDGARHIMIATD 180
           LLGPEDAIISDSLNHASIIDGIRLCKAKRYRYLNSDMNDLEAWLKQAREDGARHIMIATD
Sbjct: 121 LLGPEDAIISDSLNHASIIDGIRLCKAKRYRYLNSDMNDLEAWLKQAREDGARHIMIATD 180

Query: 181 GVFSMDGYLAKLPEIRALADKYDAIVMVDDCHATGFMGATGAGTPEHFGVDVDIVTGTLG 240
           GVFSMDGYLAKLPEIRALADKYDAIVMVDDCHATGFMGATGAGTPEHFGVDVDIVTGTLG
Sbjct: 181 GVFSMDGYLAKLPEIRALADKYDAIVMVDDCHATGFMGATGAGTPEHFGVDVDIVTGTLG 240

Query: 241 KALGGAIGGYIAGPQPVIDLLRQRARPYLFSNSLPPSIVAAGLEAIRLVEEGNGLRAQLF 300
           KALGGAIGGYIAGPQPVIDLLRQRARPYLFSNSLPPSIVAAGLEAIRLVEEGNGLRAQLF
Sbjct: 241 KALGGAIGGYIAGPQPVIDLLRQRARPYLFSNSLPPSIVAAGLEAIRLVEEGNGLRAQLF 300

Query: 301 ENAKYWRAGLEKLGFDLLPGEHPIIPVMLGEAQLAQDMASRLFDEGVYVSGFFFPVVPRG 360
           ENAKYWRAGLEKLGFDLLPGEHPIIPVMLGEAQLAQDMASRLFDEGVYVSGFFFPVVPRG
Sbjct: 301 ENAKYWRAGLEKLGFDLLPGEHPIIPVMLGEAQLAQDMASRLFDEGVYVSGFFFPVVPRG 360

Query: 361 QARIRTQMNAALTRDELDRALAAFGKVGKELGILS 395
           QARIRTQMNAALTRDELDRALAAFGKVGKELGILS
Sbjct: 361 QARIRTQMNAALTRDELDRALAAFGKVGKELGILS 395


Lambda     K      H
   0.322    0.141    0.415 

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: 684
Number of extensions: 9
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: 395
Length of database: 395
Length adjustment: 31
Effective length of query: 364
Effective length of database: 364
Effective search space:   132496
Effective search space used:   132496
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: 50 (23.9 bits)

Align candidate GFF3380 PGA1_c34330 (2-amino-3-ketobutyrate coenzyme A ligase Kbl)
to HMM TIGR01822 (kbl: glycine C-acetyltransferase (EC 2.3.1.29))

Software error:

../bin/blast/fastacmd -i /tmp/list.3660.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.3660.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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