GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ald-dh-CoA in Marinobacter adhaerens HP15

Align Acetaldehyde dehydrogenase; Acetaldehyde dehydrogenase [acetylating]; EC 1.2.1.10 (characterized)
to candidate GFF4095 HP15_4035 acetaldehyde dehydrogenase

Query= SwissProt::Q52060
         (312 letters)



>FitnessBrowser__Marino:GFF4095
          Length = 311

 Score =  498 bits (1282), Expect = e-146
 Identities = 250/311 (80%), Positives = 280/311 (90%)

Query: 1   MNQKLKVAIIGSGNIGTDLMIKVLRNAKYLEMGAMVGIDAASDGLARAQRMGVTTTYAGV 60
           M++K+K AIIGSGNIGTDLMIK+LRN K +EMGAMVGID  SDGLARA RMGV TT+ GV
Sbjct: 1   MSKKIKAAIIGSGNIGTDLMIKILRNGKNIEMGAMVGIDPESDGLARAARMGVATTHEGV 60

Query: 61  EGLIKLPEFADIDFVFDATSASAHVQNEALLRQAKPGIRLIDLTPAAIGPYCVPVVNLEE 120
           +GL+K+PEFADID VFDATSA AH+ NE  LR  K  I++ID+TPAAIGPYCVPVVNLE+
Sbjct: 61  DGLVKMPEFADIDIVFDATSAKAHMHNEVFLRGHKESIKIIDMTPAAIGPYCVPVVNLEQ 120

Query: 121 HLGKLNVNMVTCGGQATIPMVAAVSRVAKVHYAEIVASISSKSAGPGTRANIDEFTETTS 180
            L + NVNMVTCGGQATIPMVAAVSRVAK HYAEIVASISSKSAGPGTRANIDEFT+TTS
Sbjct: 121 QLQEGNVNMVTCGGQATIPMVAAVSRVAKAHYAEIVASISSKSAGPGTRANIDEFTQTTS 180

Query: 181 KAIEVIGGAAKGKAIIIMNPAEPPLIMRDTVYVLSAAADQAAVAASVAEMVQAVQAYVPG 240
           +AIEV+GGA KGKAIII+NPAEPPL+MRDTVYVLS AAD+A V ASV EMVQAV +YVPG
Sbjct: 181 RAIEVVGGAQKGKAIIILNPAEPPLLMRDTVYVLSDAADKAEVEASVEEMVQAVNSYVPG 240

Query: 241 YRLKQQVQFDVIPESAPLNIPGLGRFSGLKTSVFLEVEGAAHYLPAYAGNLDIMTSAALA 300
           YRLKQ+VQFD IPE  P+N+PGLGRFSGLKTS+FLEVEGAAHYLPAYAGNLDIMTSAAL 
Sbjct: 241 YRLKQKVQFDDIPEDQPMNVPGLGRFSGLKTSIFLEVEGAAHYLPAYAGNLDIMTSAALG 300

Query: 301 TAERMAQSMLN 311
           TAER+A+S++N
Sbjct: 301 TAERIAESLVN 311


Lambda     K      H
   0.317    0.132    0.362 

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: 348
Number of extensions: 3
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: 312
Length of database: 311
Length adjustment: 27
Effective length of query: 285
Effective length of database: 284
Effective search space:    80940
Effective search space used:    80940
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: 48 (23.1 bits)

Align candidate GFF4095 HP15_4035 (acetaldehyde dehydrogenase)
to HMM TIGR03215 (acetaldehyde dehydrogenase (acetylating) (EC 1.2.1.10))

Software error:

../bin/blast/fastacmd -i /tmp/list.15572.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15572.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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