GapMind for catabolism of small carbon sources

 

Alignments for a candidate for pta in Cupriavidus basilensis 4G11

Align phosphotransacetylase (EC 2.3.1.8) (characterized)
to candidate RR42_RS33690 RR42_RS33690 phosphate acetyltransferase

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



>FitnessBrowser__Cup4G11:RR42_RS33690
          Length = 346

 Score =  303 bits (776), Expect = 4e-87
 Identities = 157/330 (47%), Positives = 226/330 (68%)

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

Query: 61  LDISKAEIMDPETSLKTETYARDFYELRKHKGMTIEKSEKMVRDPLYFATMALKDGYVDG 120
           +D++  +++DP TS  T + AR  + LR+ KGMT+E++ + V  PL FA + ++ G+ DG
Sbjct: 61  IDLAGMDVIDPATSALTPSLARKLFALREKKGMTLEEARREVLKPLCFANLMVRLGHADG 120

Query: 121 MVSGAVHTTGDLLRPGLQIIKTAPGVKIVSGFFVMIIPDCDYGEEGLLLFADCAVNPNPT 180
            V+GAVHTT D++R  +Q+I   P  K+VS FF+M++ +  +  +G L+F+DC +  +P 
Sbjct: 121 SVAGAVHTTADVVRTAIQVIGIHPAFKLVSSFFLMMLCEPFHALKGGLIFSDCGLVVDPG 180

Query: 181 SDELADIAITTAETARKLCNVEPKVAMLSFSTMGSAKGEMVDKVKNAVEITKKFRPDLAI 240
           + ELA+IA+  A++A+ L    P+VAMLSFST GSA+   VDKV  A  + +  RP LAI
Sbjct: 181 AAELAEIAMAAADSAQNLLMDAPRVAMLSFSTSGSARHAAVDKVVQATRLVQAQRPALAI 240

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

Query: 301 GFAKPINDLSRGCSSEDIVNVVAITVVQAQ 330
           G  KP NDLSRGCS++D+  V+A+T VQAQ
Sbjct: 301 GLQKPANDLSRGCSADDVFYVIAVTAVQAQ 330


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: 294
Number of extensions: 8
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: 346
Length adjustment: 28
Effective length of query: 305
Effective length of database: 318
Effective search space:    96990
Effective search space used:    96990
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 RR42_RS33690 RR42_RS33690 (phosphate acetyltransferase)
to HMM TIGR00651 (pta: phosphate acetyltransferase (EC 2.3.1.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.9329.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.9329.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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