GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argD'B in Paraburkholderia bryophila 376MFSha3.1

Align succinylornithine transaminase (EC 2.6.1.81) (characterized)
to candidate H281DRAFT_06478 H281DRAFT_06478 succinylornithine aminotransferase apoenzyme

Query= BRENDA::O30508
         (406 letters)



>FitnessBrowser__Burk376:H281DRAFT_06478
          Length = 411

 Score =  506 bits (1303), Expect = e-148
 Identities = 239/397 (60%), Positives = 308/397 (77%)

Query: 8   VERADFDRYMVPNYAPAAFIPVRGEGSRVWDQSGRELIDFAGGIAVTSLGHAHPALVKAL 67
           V R  FD  MVP +APAAF+P RG GSRVWD  GR+ IDFAGGIAVT+LGHAHP L+K L
Sbjct: 6   VTRKTFDEVMVPVFAPAAFVPDRGLGSRVWDTQGRDYIDFAGGIAVTALGHAHPELLKVL 65

Query: 68  TEQAQRIWHVSNVFTNEPALRLARKLVDATFAERVFLANSGAEANEAAFKLARRYANDVY 127
            EQ  ++WH+ N +TNEP LRLAR+L + TFA+R F ANSGAEANEAA KLARR A + +
Sbjct: 66  HEQGSKLWHIGNGYTNEPVLRLARRLEELTFADRAFFANSGAEANEAALKLARRVAFERH 125

Query: 128 GPQKYEIIAASNSFHGRTLFTVNVGGQPKYSDGFGPKFEGITHVPYNDLEALKAAISDKT 187
           G  KYEII+ + SFHGRT FTV+VGGQPKYS+GFGP  +GI H+PYND++A + AI  KT
Sbjct: 126 GADKYEIISFTQSFHGRTFFTVSVGGQPKYSEGFGPVPQGIVHLPYNDIQAAQKAIGAKT 185

Query: 188 CAVVLEPIQGEGGVLPAQQAYLEGARKLCDEHNALLVFDEVQSGMGRVGELFAYMHYGVV 247
           CAV++EPIQGEGGV+PA  A+L+  R+ CD+H ALL+FDEVQ+G+GR G  +AY   GV 
Sbjct: 186 CAVIVEPIQGEGGVIPADPAFLKALREACDQHGALLIFDEVQTGVGRSGYFYAYQDTGVT 245

Query: 248 PDILSSAKSLGGGFPIGAMLTTGEIAKHLSVGTHGTTYGGNPLASAVAEAALDVINTPEV 307
           PDIL++AK+LG GFPIGAMLTT E+A H  VG HGTTYGGNPL SA+AE  +++I+ P++
Sbjct: 246 PDILTTAKALGNGFPIGAMLTTNELAAHFKVGVHGTTYGGNPLGSAIAEKVVELISDPKL 305

Query: 308 LDGVKAKHERFKSRLQKIGQEYGIFDEIRGMGLLIGAALTDEWKGKARDVLNAAEKEAVM 367
           L+GV+ + E  K  L K+ + +G+FDE+RG GLLIGA LTD +KG+A+D + AA +  V+
Sbjct: 306 LEGVRTRSEVLKGHLAKLNERFGLFDEVRGKGLLIGAQLTDAYKGRAKDFVTAAGQHGVI 365

Query: 368 VLQASPDVVRFAPSLVIDDAEIDEGLERFERAVAKLV 404
           +L A PDV+RF PSL++   +++EG ER  +A+A +V
Sbjct: 366 MLMAGPDVLRFVPSLIMPLDDMNEGFERLAKAIADVV 402


Lambda     K      H
   0.318    0.135    0.394 

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: 554
Number of extensions: 16
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: 406
Length of database: 411
Length adjustment: 31
Effective length of query: 375
Effective length of database: 380
Effective search space:   142500
Effective search space used:   142500
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 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate H281DRAFT_06478 H281DRAFT_06478 (succinylornithine aminotransferase apoenzyme)
to HMM TIGR03246 (astC: succinylornithine transaminase family (EC 2.6.1.81))

Software error:

../bin/blast/fastacmd -i /tmp/list.2866.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.2866.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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