GapMind for catabolism of small carbon sources

 

Alignments for a candidate for glk in Azospirillum brasilense Sp245

Align glucokinase (EC 2.7.1.1; EC 2.7.1.2; EC 2.7.1.8) (characterized)
to candidate AZOBR_RS05405 AZOBR_RS05405 glucokinase

Query= ecocyc::GLUCOKIN-MONOMER
         (321 letters)



>FitnessBrowser__azobra:AZOBR_RS05405
          Length = 311

 Score =  259 bits (663), Expect = 5e-74
 Identities = 138/305 (45%), Positives = 184/305 (60%), Gaps = 4/305 (1%)

Query: 6   LVGDVGGTNARLALCDIASGEISQAKTYSGLDYPSLEAVIRVYLE--EHKVEVKDGCIAI 63
           LV D+G TNAR  L D     I  ++     D+PSLEA    YL    H      G  AI
Sbjct: 1   LVADIGATNARFGLIDGTG--IHGSRVLRCADFPSLEAAALAYLGGVAHDARPSRGAFAI 58

Query: 64  ACPITGDWVAMTNHTWAFSIAEMKKNLGFSHLEIINDFTAVSMAIPMLKKEHLIQFGGAE 123
           A P+TGD V MTN  W+FS AE++  LG   L +INDFTAV++++P L    + Q G   
Sbjct: 59  AGPVTGDAVLMTNRGWSFSTAEVRGKLGLERLAVINDFTAVALSVPRLTAADVRQVGEGA 118

Query: 124 PVEGKPIAVYGAGTGLGVAHLVHVDKRWVSLPGEGGHVDFAPNSEEEAIILEILRAEIGH 183
           PV G+ + V G G+GLGV+ LV   + W +L  EGGHV  AP S+ E+ +L  LR    H
Sbjct: 119 PVPGRVVGVVGPGSGLGVSGLVPGAEGWTALAAEGGHVTMAPVSDRESAVLAQLRKSFEH 178

Query: 184 VSAERVLSGPGLVNLYRAIVKADNRLPENLKPKDITERALADSCTDCRRALSLFCVIMGR 243
           VSAERVLSGPGLVNLY+A+   D++ PE   P  +++ A A++   C  A+ +FC ++G 
Sbjct: 179 VSAERVLSGPGLVNLYQALCVLDHQEPEPFTPAQVSDAATANTNPHCVEAVEMFCAMLGT 238

Query: 244 FGGNLALNLGTFGGVFIAGGIVPRFLEFFKASGFRAAFEDKGRFKEYVHDIPVYLIVHDN 303
             GNLAL LG  GG++IAGGIVP+    F  S FR  F +KGR ++++  IP Y+I H+ 
Sbjct: 239 VAGNLALTLGARGGIYIAGGIVPKLGTLFTHSRFRKRFMEKGRMRDFLAPIPTYVITHEL 298

Query: 304 PGLLG 308
           P  LG
Sbjct: 299 PAFLG 303


Lambda     K      H
   0.322    0.141    0.426 

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: 317
Number of extensions: 17
Number of successful extensions: 3
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: 321
Length of database: 311
Length adjustment: 27
Effective length of query: 294
Effective length of database: 284
Effective search space:    83496
Effective search space used:    83496
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: 41 (21.9 bits)
S2: 48 (23.1 bits)

Align candidate AZOBR_RS05405 AZOBR_RS05405 (glucokinase)
to HMM TIGR00749 (glk: glucokinase (EC 2.7.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.26428.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.26428.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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