GapMind for catabolism of small carbon sources

 

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

Align hydroxyacylglutathione hydrolase (EC 3.1.2.6) (characterized)
to candidate H281DRAFT_04399 H281DRAFT_04399 hydroxyacylglutathione hydrolase

Query= BRENDA::Q8ZRM2
         (251 letters)



>FitnessBrowser__Burk376:H281DRAFT_04399
          Length = 263

 Score =  205 bits (522), Expect = 7e-58
 Identities = 113/256 (44%), Positives = 151/256 (58%), Gaps = 12/256 (4%)

Query: 6   IPAFQDNYIWVLTNDEGRCVIVDPGEAAPVLKAIAEHKWMPEAIFLTHHHHDHVGGVKEL 65
           +PAF+DNYIWV++ D    V+VDPGEAAPV   +A   W   AI LTHHH DHVGGV +L
Sbjct: 9   VPAFEDNYIWVVS-DGYHAVVVDPGEAAPVRAYLARRGWRLSAILLTHHHQDHVGGVADL 67

Query: 66  LQHFPQMTVYGPAETQDKGATHLVGDGDTIRVLGEKFTL--FATPGHTLGHVCYFSR--- 120
           L     + VYGPA       TH +  GD + +      L     PGHT GH+ YF     
Sbjct: 68  LNG-QAVPVYGPAGEAIGHLTHRLKHGDRVTIAAPALDLSVLEVPGHTSGHIAYFQAADP 126

Query: 121 ---PYLFCGDTLFSGGCGRLFEGTPSQMYQSLMKINSLPDDTLICCAHEYTLANIKFALS 177
              P++FCGDTLF+ GCGRLFEGTPSQM  SL  + +LP  T + CAHEYTL+NI+FAL+
Sbjct: 127 GGTPHVFCGDTLFACGCGRLFEGTPSQMLASLDSLAALPGATEVHCAHEYTLSNIRFALA 186

Query: 178 ILPHDSFINEYYRKVKELRVKKQMTLPVILKNERKINLFLRTEDIDLINEINKETILQQP 237
             P +  +  +  K  +LR +K  TLP  + +ER +N FLR ++  +   + ++     P
Sbjct: 187 CDPDNDELLAWRDKASDLRARKVPTLPTTIAHERAVNPFLRADNPAIQTTLREQLHADVP 246

Query: 238 E--ARFAWLRSKKDTF 251
           +  A F  +R  K+ F
Sbjct: 247 DRLASFTLMREWKNRF 262


Lambda     K      H
   0.323    0.140    0.436 

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: 249
Number of extensions: 15
Number of successful extensions: 5
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: 251
Length of database: 263
Length adjustment: 24
Effective length of query: 227
Effective length of database: 239
Effective search space:    54253
Effective search space used:    54253
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)

Align candidate H281DRAFT_04399 H281DRAFT_04399 (hydroxyacylglutathione hydrolase)
to HMM TIGR03413 (gloB: hydroxyacylglutathione hydrolase (EC 3.1.2.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.24074.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.24074.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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