GapMind for catabolism of small carbon sources

 

Alignments for a candidate for pta in Burkholderia phytofirmans PsJN

Align phosphotransacetylase (EC 2.3.1.8) (characterized)
to candidate BPHYT_RS21700 BPHYT_RS21700 phosphotransacetylase

Query= metacyc::PTACLOS-MONOMER
         (333 letters)



>FitnessBrowser__BFirm:BPHYT_RS21700
          Length = 344

 Score =  316 bits (810), Expect = 5e-91
 Identities = 166/333 (49%), Positives = 230/333 (69%)

Query: 1   MDLIESIWECAKQDKKRIILAEGEEKRNLIAADKIIKEGLAELVLVGDENKIKEKASELN 60
           M  I  I E A++   RI+L+E E+ R L AA +  +EG+A ++LVGD  +I+E A+  +
Sbjct: 1   MKAINRIIEQARRSPMRIVLSEAEDPRVLQAAQRATREGIARILLVGDATRIREAAAGFD 60

Query: 61  LDISKAEIMDPETSLKTETYARDFYELRKHKGMTIEKSEKMVRDPLYFATMALKDGYVDG 120
           +D+S  E++DP TS    +YA + + LR  KGMT+E++ K + +PL FA + ++ G+ DG
Sbjct: 61  VDLSGMELVDPATSALASSYADELFALRSKKGMTLEQARKEILNPLCFANLMVRLGHADG 120

Query: 121 MVSGAVHTTGDLLRPGLQIIKTAPGVKIVSGFFVMIIPDCDYGEEGLLLFADCAVNPNPT 180
            VSGAV+TT D++R  +QII  AP  K+VS FF+M++ +  +  +G L+F+DCA+   P 
Sbjct: 121 SVSGAVNTTADVVRTAIQIIGIAPSFKLVSSFFLMMLCEPFHTLKGGLIFSDCALVVEPD 180

Query: 181 SDELADIAITTAETARKLCNVEPKVAMLSFSTMGSAKGEMVDKVKNAVEITKKFRPDLAI 240
           + +LA+IA+  A++AR L   EP+VAMLSFST GSA    VDKV NA  I ++ RP LAI
Sbjct: 181 AAQLAEIAMAAADSARSLLMDEPRVAMLSFSTSGSAHHAAVDKVVNATHIVQERRPHLAI 240

Query: 241 DGELQLDAAIDSEVAALKAPSSNVAGNANVLVFPDLQTGNIGYKLVQRFAKAKAIGPICQ 300
           DG++QLDAAI SE+A  K   S V G+ANVLVFP L+ GNIGYKL +R   AKAIGP+ Q
Sbjct: 241 DGDVQLDAAIVSEIALRKVKHSQVEGHANVLVFPSLEAGNIGYKLAERIGGAKAIGPLLQ 300

Query: 301 GFAKPINDLSRGCSSEDIVNVVAITVVQAQRGI 333
           G  KP NDLSRGCS++DI  V A+T VQAQ  +
Sbjct: 301 GLRKPANDLSRGCSADDIYYVTAVTAVQAQAAL 333


Lambda     K      H
   0.316    0.134    0.374 

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: 287
Number of extensions: 12
Number of successful extensions: 1
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: 333
Length of database: 344
Length adjustment: 28
Effective length of query: 305
Effective length of database: 316
Effective search space:    96380
Effective search space used:    96380
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: 49 (23.5 bits)

Align candidate BPHYT_RS21700 BPHYT_RS21700 (phosphotransacetylase)
to HMM TIGR00651 (pta: phosphate acetyltransferase (EC 2.3.1.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.21044.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.21044.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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