GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argB in Shewanella loihica PV-4

Align acetylglutamate kinase; EC 2.7.2.8 (characterized)
to candidate 5207681 Shew_0203 acetylglutamate kinase (RefSeq)

Query= CharProtDB::CH_001694
         (258 letters)



>FitnessBrowser__PV4:5207681
          Length = 261

 Score =  237 bits (605), Expect = 2e-67
 Identities = 126/253 (49%), Positives = 171/253 (67%), Gaps = 1/253 (0%)

Query: 5   LIIKLGGVLLDSEEALERLFSALVNYRESHQRPLVIVHGGGCVVDELMKGLNLPVKKKNG 64
           L++K+GG L+  E  L RL ++  N  +S Q  +++VHGGGC+VDE +K   +   K +G
Sbjct: 8   LVLKVGGALMQCEMGLARLMASAANIIKSGQS-VILVHGGGCLVDEQLKANGMETVKLDG 66

Query: 65  LRVTPADQIDIITGALAGTANKTLLAWAKKHQIAAVGLFLGDGDSVKVTQLDEELGHVGL 124
           LRVTP +Q+ I+ GALAGT+NK L A A K  I +VG+ L DG  V  +  DE+LG VG 
Sbjct: 67  LRVTPEEQVPIVVGALAGTSNKILQASAIKAGITSVGMSLCDGAIVNGSIKDEQLGFVGE 126

Query: 125 AQPGSPKLINSLLENGYLPVVSSIGVTDEGQLMNVNADQAATALAATLGADLILLSDVSG 184
             P  P  +N LL  G++P+VSSI V D G L+NVNADQAAT +A  +   L+LLSDVSG
Sbjct: 127 VSPNDPTYLNFLLAQGWMPIVSSIAVDDAGNLLNVNADQAATVIAKLVEGQLVLLSDVSG 186

Query: 185 ILDGKGQRIAEMTAAKAEQLIEQGIITDGMIVKVNAALDAARTLGRPVDIASWRHAEQLP 244
           +LDGKGQ I  +  A A++L + G+I  GM VKV AAL+ A+ +G+PV +ASWR AEQL 
Sbjct: 187 VLDGKGQLIKTLDKAHADELTKLGVIEKGMKVKVEAALEVAQWMGQPVQVASWRDAEQLS 246

Query: 245 ALFNGMPMGTRIL 257
           AL  G  +GT+++
Sbjct: 247 ALEKGESIGTQVM 259


Lambda     K      H
   0.317    0.136    0.381 

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: 217
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: 258
Length of database: 261
Length adjustment: 24
Effective length of query: 234
Effective length of database: 237
Effective search space:    55458
Effective search space used:    55458
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: 47 (22.7 bits)

Align candidate 5207681 Shew_0203 (acetylglutamate kinase (RefSeq))
to HMM TIGR00761 (argB: acetylglutamate kinase (EC 2.7.2.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.27925.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27925.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.