GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argA in Paraburkholderia bryophila 376MFSha3.1

Align amino-acid acetyltransferase (characterized)
to candidate H281DRAFT_00444 H281DRAFT_00444 N-acetylglutamate synthase

Query= CharProtDB::CH_024150
         (443 letters)



>FitnessBrowser__Burk376:H281DRAFT_00444
          Length = 462

 Score =  401 bits (1031), Expect = e-116
 Identities = 201/438 (45%), Positives = 297/438 (67%), Gaps = 7/438 (1%)

Query: 8   ELVEGFRHSVPYINTHRGKTFVIMLGGEAIEHENFSSIVNDIGLLHSLGIRLVVVYGARP 67
           + V+  R   PYI+  R KTFV+  GGE +     +++V+DI LL ++GI++V+V+G+RP
Sbjct: 29  QFVDWMRSVAPYIHAFRNKTFVVGFGGEVVHQGLLNALVSDIALLQAMGIQIVLVHGSRP 88

Query: 68  QIDANLAAHHHEPLYHKNIRVTDAKTLELVKQAAGTLQLDITARLSMSLNNTPLQGAHIN 127
           Q++  ++ H  E  +   +R+TDA+ LE  K+AAG ++LDI A +S  L NTP+  AHI+
Sbjct: 89  QVEEQMSLHGVESEFSHGMRITDARALESAKEAAGEVRLDIEAAISQGLPNTPMAHAHIS 148

Query: 128 VVSGNFIIAQPLGVDDGVDYCHSGRIRRIDEDAIHRQLDSGAIVLMGPVAVSVTGESFNL 187
           VVSGNF+ A+P+G+ DGVD+ H+G +R+ID D+I   L S  +VL+ P+  S TGE+FNL
Sbjct: 149 VVSGNFVTARPVGILDGVDFAHTGVVRKIDADSIRHSLASRKLVLLSPLGFSPTGEAFNL 208

Query: 188 TSEEIATQLAIKLKAEKMIGFCSSQGV--TNDDG-DIVSELFPNEAQARVEAQEEKGDYN 244
             E++A+  AI L+A+K++    + G+    +DG +++ EL  ++A    E+ E  GD  
Sbjct: 209 AMEDVASAAAIALRADKIVFLTETPGLMQAGEDGTELIRELSLDDAYKLHESGEVTGDAG 268

Query: 245 SGTVRFLRGAVKACRSGVRRCHLISYQEDGALLQELFSRDGIGTQIVMESAEQIRRATIN 304
                +L+ +++ACR GV R H+I Y  DG+LL ELF  DG+GT I  E+ E +R AT +
Sbjct: 269 F----YLKHSIRACRGGVARAHIIPYALDGSLLLELFLHDGVGTMISYENLESLREATPD 324

Query: 305 DIGGILELIRPLEQQGILVRRSREQLEMEIDKFTIIQRDNTTIACAALYPFPEEKIGEMA 364
           D+GGIL LI PLE  G LVRR R Q+E +ID F++I+ D     CAALYP+ +E+IGEMA
Sbjct: 325 DVGGILALIEPLESDGTLVRRGRHQIERDIDHFSVIEHDGVLFGCAALYPYTQERIGEMA 384

Query: 365 CVAVHPDYRSSSRGEVLLERIAAQAKQSGLSKLFVLTTRSIHWFQERGFTPVDIDLLPES 424
           C+ V P+ + +  GE LL+RI  +A+  GL+++FVLTTR+ HWF +RGF  V +D LPE 
Sbjct: 385 CLTVAPEAQGTGDGERLLKRIEQRARARGLTRIFVLTTRTEHWFLKRGFVKVTVDDLPED 444

Query: 425 KKQLYNYQRKSKVLMADL 442
           +++LYN+QRKS VLM  L
Sbjct: 445 RRRLYNWQRKSLVLMKQL 462


Lambda     K      H
   0.319    0.136    0.384 

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: 508
Number of extensions: 19
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: 443
Length of database: 462
Length adjustment: 33
Effective length of query: 410
Effective length of database: 429
Effective search space:   175890
Effective search space used:   175890
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 (21.8 bits)
S2: 51 (24.3 bits)

Align candidate H281DRAFT_00444 H281DRAFT_00444 (N-acetylglutamate synthase)
to HMM TIGR01890 (argA: amino-acid N-acetyltransferase (EC 2.3.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.17214.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.17214.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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