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_01071 H281DRAFT_01071 muconolactone delta-isomerase (EC 5.3.3.4)

Query= SwissProt::P80573
         (92 letters)



>FitnessBrowser__Burk376:H281DRAFT_01071
          Length = 92

 Score =  149 bits (377), Expect = 5e-42
 Identities = 70/92 (76%), Positives = 80/92 (86%)

Query: 1  MLYLVRMDVNLPHDMPAAQADDIKAREKAYAQQLQHEGKWQQLYRVVGEYANYSIFDVGS 60
          MLYL RMDV+LP DMP  QA++IKAREK Y+Q+LQ +GKWQQL+RVVG+YANYSIFDV S
Sbjct: 1  MLYLARMDVHLPQDMPVVQANEIKAREKEYSQELQRQGKWQQLHRVVGQYANYSIFDVDS 60

Query: 61 HDELHTLLSGLPLFPYMKIHVTPLAKHPSSIR 92
          HDELH +LSGLPLF YM I VT LA+HPSSIR
Sbjct: 61 HDELHEILSGLPLFSYMSIEVTALARHPSSIR 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: 79
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: 92
Length adjustment: 9
Effective length of query: 83
Effective length of database: 83
Effective search space:     6889
Effective search space used:     6889
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_01071 H281DRAFT_01071 (muconolactone delta-isomerase (EC 5.3.3.4))
to HMM TIGR03221 (catC: muconolactone delta-isomerase (EC 5.3.3.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.2241.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.2241.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.