GapMind for catabolism of small carbon sources

 

Alignments for a candidate for deoC in Echinicola vietnamensis KMM 6221, DSM 17526

Align deoxyribose-phosphate aldolase (EC 4.1.2.4) (characterized)
to candidate Echvi_1588 Echvi_1588 deoxyribose-phosphate aldolase

Query= BRENDA::Q9AIP7
         (220 letters)



>FitnessBrowser__Cola:Echvi_1588
          Length = 221

 Score =  189 bits (480), Expect = 4e-53
 Identities = 100/211 (47%), Positives = 138/211 (65%), Gaps = 1/211 (0%)

Query: 3   INQYIDHTLLKPESRQDQIDKLIREAKTYNFASVCINPTWVSYAAKALEGTDIKVCTVIG 62
           IN Y++HT L P     Q++++I EA  Y F  VC+ P WV    + LE T I V TV+G
Sbjct: 4   INTYLEHTALNPVLTDQQVNRVIHEAMKYRFLGVCVPPFWVKKVKRELENTGITVVTVVG 63

Query: 63  FPLGATTSAVKAFETKDAISHGADEVDMVINIGQAKSG-HFAFVEEDIRAVVEASGDKLV 121
           FPLG   +  K FET+ AI +GADE+D+V ++   K+G ++  +E    + V     KL+
Sbjct: 64  FPLGYQMTETKVFETQKAIENGADEIDVVWSLSAFKAGMNWPKIELVKLSSVCHEAGKLL 123

Query: 122 KVIIETCLLTDKEKIKACQAAVAAGADFVKTSTGFSTAGARLDDVRLMRQTVGPDVGVKA 181
           KVI+ET  L   E  +AC+    AG D VKTSTGF+ +GARL++V+LMR+ +   VG+KA
Sbjct: 124 KVIVETAYLETDELRQACKICSDAGVDIVKTSTGFAPSGARLEEVKLMREFLPDQVGIKA 183

Query: 182 AGGTRSLEDAQAFIEAGATRIGTSAGVTIME 212
           +GG ++LE A+AF+ AGA RIGTSAGV IME
Sbjct: 184 SGGIKTLEQAKAFVTAGADRIGTSAGVQIME 214


Lambda     K      H
   0.316    0.131    0.366 

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: 176
Number of extensions: 8
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: 220
Length of database: 221
Length adjustment: 22
Effective length of query: 198
Effective length of database: 199
Effective search space:    39402
Effective search space used:    39402
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 (21.6 bits)
S2: 45 (21.9 bits)

Align candidate Echvi_1588 Echvi_1588 (deoxyribose-phosphate aldolase)
to HMM TIGR00126 (deoC: deoxyribose-phosphate aldolase (EC 4.1.2.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.5301.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.5301.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.