GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ackA in Azospirillum brasilense Sp245

Align acetate kinase (EC 2.7.2.1) (characterized)
to candidate AZOBR_RS04605 AZOBR_RS04605 acetate kinase

Query= BRENDA::Q9WYB1
         (403 letters)



>FitnessBrowser__azobra:AZOBR_RS04605
          Length = 398

 Score =  261 bits (666), Expect = 3e-74
 Identities = 164/405 (40%), Positives = 232/405 (57%), Gaps = 22/405 (5%)

Query: 3   VLVINSGSSSIKYQLIEMEGEK--VLCKGIAERIGIEGSRLVHRVGDEKH-----VIERE 55
           +LVIN+GSSSIK+QL +       V  +G  E IG     +V   G +        +  E
Sbjct: 5   ILVINAGSSSIKFQLFDAADGTLPVRLRGRIEGIGTAPRLIVQESGQDGSRDGGVTLPAE 64

Query: 56  LPDHEEALKLILNTLVDEKLGVIKDLKEIDAVGHRVVHGGERFKESVLVDEEVLKAIEEV 115
             D        L   +  +LG    +    AVGHRVVHGG  +   V VD+ V+  +E  
Sbjct: 65  SGDGVPGALAFLGAWLRGRLGGAMPV----AVGHRVVHGGPAYDSHVAVDDAVIGTLETY 120

Query: 116 SPLAPLHNPANLMGIKAAMKLLPGVPNVAVFDTAFHQTIPQKAYLYAIPYEYYEKYKIRR 175
            PLAPLH P NL  I+A  KLLP V  VA FDTAFH+   + A  YAIP +   +  +RR
Sbjct: 121 VPLAPLHQPNNLAPIRAIRKLLPDVLQVACFDTAFHRHHSEPADRYAIP-DALHREGVRR 179

Query: 176 YGFHGTSHRYVSKRAAEILGKKLEELKIITCHIGNGASVAAVKYGKCVDTSMGFTPLEGL 235
           YGFHG S+ Y++ R  + L   +   +++  H+G+GAS+ A++ G+ VD++MGFT L+GL
Sbjct: 180 YGFHGLSYEYIAGRLPD-LAPGIAGGRVVVAHLGSGASMCAIQDGRSVDSTMGFTALDGL 238

Query: 236 VMGTRSGDLDPAIPFFIMEKEGISPQEMYDILNKKSGVYGLSKGFSSDMRDIEEAALKGD 295
            MGTR G LDP +  ++M+K G+  + +  +L    G+ GLS G S+D+RD+  +    D
Sbjct: 239 PMGTRPGQLDPGVVLYLMDK-GMDARAIERLLYHDCGLKGLS-GISNDVRDLLAST---D 293

Query: 296 EWCKLVLEIYDYRIAKYIGAYAAAMNGVDAIVFTAGVGENSPITREDVCSYLEFLGVKLD 355
              KL L+ + YR +  IGA AAAM G+D +VFTAG+GE +P  R+ +     +LGV LD
Sbjct: 294 PRAKLALDCFVYRASLAIGALAAAMGGIDGLVFTAGIGERAPAIRKAIAERARWLGVDLD 353

Query: 356 KQKNEETIRGKEGIISTPDSRVKVLVVPTNEELMIARDTKEIVEK 400
           +  N          I+TPDSRVK  V+PT+EE MIA  T+ I+ +
Sbjct: 354 EAGNAANAL----CITTPDSRVKGWVIPTDEERMIALHTRAILRR 394


Lambda     K      H
   0.318    0.138    0.391 

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: 401
Number of extensions: 16
Number of successful extensions: 6
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: 403
Length of database: 398
Length adjustment: 31
Effective length of query: 372
Effective length of database: 367
Effective search space:   136524
Effective search space used:   136524
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: 50 (23.9 bits)

Align candidate AZOBR_RS04605 AZOBR_RS04605 (acetate kinase)
to HMM TIGR00016 (ackA: acetate kinase (EC 2.7.2.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.8474.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.8474.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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