GapMind for catabolism of small carbon sources

 

Alignments for a candidate for catC in Burkholderia phytofirmans PsJN

Align Muconolactone Delta-isomerase; MIase; EC 5.3.3.4 (characterized)
to candidate BPHYT_RS07835 BPHYT_RS07835 muconolactone delta-isomerase

Query= SwissProt::P80573
         (92 letters)



>FitnessBrowser__BFirm:BPHYT_RS07835
          Length = 100

 Score =  160 bits (406), Expect = 3e-45
 Identities = 74/91 (81%), Positives = 85/91 (93%)

Query: 1  MLYLVRMDVNLPHDMPAAQADDIKAREKAYAQQLQHEGKWQQLYRVVGEYANYSIFDVGS 60
          MLYLVRMDV+LPHDMP AQAD+IKAREKAY+Q+LQ +GKWQQL+RVVGEYANYS+FDV S
Sbjct: 1  MLYLVRMDVHLPHDMPVAQADEIKAREKAYSQELQRQGKWQQLHRVVGEYANYSVFDVDS 60

Query: 61 HDELHTLLSGLPLFPYMKIHVTPLAKHPSSI 91
          HDELHT+L+GLPLFPYM + VT LA+HPSSI
Sbjct: 61 HDELHTILAGLPLFPYMTMKVTALARHPSSI 91


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: 92
Number of extensions: 2
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: 100
Length adjustment: 10
Effective length of query: 82
Effective length of database: 90
Effective search space:     7380
Effective search space used:     7380
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 BPHYT_RS07835 BPHYT_RS07835 (muconolactone delta-isomerase)
to HMM TIGR03221 (catC: muconolactone delta-isomerase (EC 5.3.3.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.23487.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.23487.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.