GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ald-dh-CoA in Cupriavidus basilensis 4G11

Align acylating aldehyde dehydrogenase (EC 1.2.1.10) (characterized)
to candidate RR42_RS27895 RR42_RS27895 acetaldehyde dehydrogenase

Query= metacyc::MONOMER-11388
         (316 letters)



>FitnessBrowser__Cup4G11:RR42_RS27895
          Length = 316

 Score =  496 bits (1278), Expect = e-145
 Identities = 255/316 (80%), Positives = 276/316 (87%), Gaps = 1/316 (0%)

Query: 1   MTRKVKAAIIGSGNIGTDLMIKILRHGQHIEMGAMVGIDPASDGLARGERMGVAITHEGV 60
           MTRK+KAAIIGSGNIGTDLMIKILRHG H+EMGAMVGIDPASDGLAR  R+GVA THEGV
Sbjct: 1   MTRKLKAAIIGSGNIGTDLMIKILRHGAHVEMGAMVGIDPASDGLARAARLGVATTHEGV 60

Query: 61  EGLTRLPVFNEIDVVFDATSAGAHVKNEALLRERKPGLRMIDLTPAAIAPYCIPVVNGDD 120
           +GLTRLPVF EIDVVFDATSAGAHVKN+A LR  +P LRMIDLTPAAI PYCIPVVNGD 
Sbjct: 61  QGLTRLPVFGEIDVVFDATSAGAHVKNDAFLRGLRPSLRMIDLTPAAIGPYCIPVVNGDA 120

Query: 121 HLDATNVNMVTCGGQATIPMVAAVSRVAKVHYAEIIASISSKSAGPGTRANIDEFTETTS 180
           HLDA NVNMVTCGGQATIPMVAAVSRVA V YAEI+ASISSKSAGPGTRANIDEFTETTS
Sbjct: 121 HLDAHNVNMVTCGGQATIPMVAAVSRVAPVLYAEIVASISSKSAGPGTRANIDEFTETTS 180

Query: 181 KAIEVVGGAAKGKAIIVLNPAEPPLMMRDAVYTLSDFADIDQIEESVQRMADAVQAYVPG 240
           KAIE +GGA KGKAIIVLNPAEPPL+MRD VY LS+ AD   I  S+  MA  V+ YVPG
Sbjct: 181 KAIEAIGGAGKGKAIIVLNPAEPPLIMRDTVYCLSEMADEAAIAASIDAMAAEVRQYVPG 240

Query: 241 YRLKQRVQFDRIEADCPIRIPGVGDRMNGLKTSIFLEVEGAAHYLPAYAGNLDIMTSAAL 300
           YRLKQ+VQFDRI AD P+ +PGVG R++GLKTS+FLEVEGAAHYLPAYAGNLDIMTSAAL
Sbjct: 241 YRLKQKVQFDRIPADAPLVVPGVG-RVSGLKTSVFLEVEGAAHYLPAYAGNLDIMTSAAL 299

Query: 301 RTAEKLAERLLASLVA 316
             AE++A  +LA   A
Sbjct: 300 TIAERMASAMLAQRAA 315


Lambda     K      H
   0.319    0.135    0.379 

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: 397
Number of extensions: 5
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: 316
Length of database: 316
Length adjustment: 27
Effective length of query: 289
Effective length of database: 289
Effective search space:    83521
Effective search space used:    83521
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: 48 (23.1 bits)

Align candidate RR42_RS27895 RR42_RS27895 (acetaldehyde dehydrogenase)
to HMM TIGR03215 (acetaldehyde dehydrogenase (acetylating) (EC 1.2.1.10))

Software error:

../bin/blast/fastacmd -i /tmp/list.25368.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.25368.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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