GapMind for catabolism of small carbon sources

 

Alignments for a candidate for L-LDH in Klebsiella michiganensis M5al

Align L-lactate dehydrogenase 1; L-LDH 1; EC 1.1.1.27 (characterized)
to candidate BWI76_RS15220 BWI76_RS15220 L-lactate dehydrogenase

Query= SwissProt::A6QDL6
         (317 letters)



>FitnessBrowser__Koxy:BWI76_RS15220
          Length = 314

 Score =  251 bits (640), Expect = 2e-71
 Identities = 124/308 (40%), Positives = 190/308 (61%), Gaps = 1/308 (0%)

Query: 5   KGNKVVLIGNGAVGSSYAFSLVNQSIVDELVIIDLDTEKVRGDVMDLKHATPYSPTTVRV 64
           K  KV++IG G VG+S A++L+NQS+ +EL+++DL+  +      DL  A  Y P  + +
Sbjct: 4   KARKVMIIGAGNVGASAAYALLNQSVCEELILVDLNKPRAEAHAQDLSDAAAYMPGMMTI 63

Query: 65  KAGEYSDCHDADLVVIC-AGAAQKPGETRLDLVSKNLKIFKSIVGEVMASKFDGIFLVAT 123
              E SDC D D+ VI  +G A KPG+TRLD ++   KI KS+V ++M   F+GIFLVAT
Sbjct: 64  STREASDCADVDIAVITVSGGALKPGQTRLDELTNTAKIVKSLVPQMMNGGFNGIFLVAT 123

Query: 124 NPVDILAYATWKFSGLPKERVIGSGTILDSARFRLLLSEAFDVAPRSVDAQIIGEHGDTE 183
           NP DI+ +  W+ SGLP+ +V+G+G  LD+ R R +L++A D+  +S+DA I+GEHGD +
Sbjct: 124 NPCDIITWQVWQLSGLPRGQVLGTGVWLDTTRLRRVLAQALDIGAQSIDAFILGEHGDAQ 183

Query: 184 LPVWSHANIAGQPLKTLLEQRPEGKAQIEQIFVQTRDAAYDIIQAKGATYYGVAMGLARI 243
            PVWSH+ + G  +  + ++        + I  + R   ++I   KG T YGVA  +A I
Sbjct: 184 FPVWSHSAVYGSAIADVYQKHTGKALDRDLIADKVRKLGFEIYAGKGCTEYGVAGTIAEI 243

Query: 244 TEAIFRNEDAVLTVSALLEGEYEEEDVYIGVPAVINRNGIRNVVEIPLNDEEQSKFAHSA 303
              IF      L VS +L+GEY       GVPAV+ ++G++ ++E+ L D+E  KF H+ 
Sbjct: 244 CRNIFTGSHRALAVSCILDGEYGVTGAAAGVPAVLTQSGVQQIIELQLADDEAEKFRHAI 303

Query: 304 KTLKDIMA 311
           + +K  +A
Sbjct: 304 EVIKASIA 311


Lambda     K      H
   0.317    0.135    0.377 

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: 265
Number of extensions: 7
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: 317
Length of database: 314
Length adjustment: 27
Effective length of query: 290
Effective length of database: 287
Effective search space:    83230
Effective search space used:    83230
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: 48 (23.1 bits)

Align candidate BWI76_RS15220 BWI76_RS15220 (L-lactate dehydrogenase)
to HMM TIGR01771 (L-lactate dehydrogenase (EC 1.1.1.27))

Software error:

../bin/blast/fastacmd -i /tmp/list.31010.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.31010.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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