GapMind for catabolism of small carbon sources

 

Alignments for a candidate for catC in Paraburkholderia bryophila 376MFSha3.1

Align Muconolactone Delta-isomerase; MIase; EC 5.3.3.4 (characterized)
to candidate H281DRAFT_01644 H281DRAFT_01644 muconolactone delta-isomerase

Query= SwissProt::P80573
         (92 letters)



>FitnessBrowser__Burk376:H281DRAFT_01644
          Length = 96

 Score =  141 bits (355), Expect = 2e-39
 Identities = 65/92 (70%), Positives = 78/92 (84%)

Query: 1  MLYLVRMDVNLPHDMPAAQADDIKAREKAYAQQLQHEGKWQQLYRVVGEYANYSIFDVGS 60
          ML+ VRMDVN PHD+PA  AD+IKAREKAY+Q+LQ  GKW+ ++R+ GEYANYSIFDV S
Sbjct: 1  MLFHVRMDVNFPHDVPAHVADEIKAREKAYSQELQRSGKWRHIWRLAGEYANYSIFDVDS 60

Query: 61 HDELHTLLSGLPLFPYMKIHVTPLAKHPSSIR 92
          + ELH +L+ LPLFPYMKI VTPL +HPSSIR
Sbjct: 61 NAELHDILTALPLFPYMKISVTPLCRHPSSIR 92


Lambda     K      H
   0.321    0.136    0.413 

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: 73
Number of extensions: 1
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: 92
Length of database: 96
Length adjustment: 10
Effective length of query: 82
Effective length of database: 86
Effective search space:     7052
Effective search space used:     7052
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: 39 (21.0 bits)
S2: 39 (19.6 bits)

Align candidate H281DRAFT_01644 H281DRAFT_01644 (muconolactone delta-isomerase)
to HMM TIGR03221 (catC: muconolactone delta-isomerase (EC 5.3.3.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.18537.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.18537.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.