GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvA in Acidovorax sp. GW101-3H11

Align L-threonine dehydratase biosynthetic IlvA; Threonine deaminase; EC 4.3.1.19 (characterized)
to candidate Ac3H11_2042 Threonine dehydratase biosynthetic (EC 4.3.1.19)

Query= SwissProt::P04968
         (514 letters)



>FitnessBrowser__acidovorax_3H11:Ac3H11_2042
          Length = 519

 Score =  517 bits (1331), Expect = e-151
 Identities = 266/510 (52%), Positives = 361/510 (70%), Gaps = 12/510 (2%)

Query: 14  AEYLRAVLRAPVYEAAQVTPLQKMEKLSSRLDNVILVKREDRQPVHSFKLRGAYAMMAGL 73
           A+YL+ +L A VY+ A  + L+  + LS RL N +L+KRED+QPV SFKLRGAY  MA L
Sbjct: 8   ADYLKKILTARVYDVAVESALEPAKSLSRRLHNKVLLKREDQQPVFSFKLRGAYNKMAHL 67

Query: 74  TEEQKAHGVITASAGNHAQGVAFSSARLGVKALIVMPTATADIKVDAVRGFGGEVLLHGA 133
           T EQ   GVI ASAGNHAQGVA S+ +LG +A++VMPT T  +KVDAV+  GGEV+LHG 
Sbjct: 68  TPEQLQRGVICASAGNHAQGVAMSAHKLGTRAVVVMPTTTPQLKVDAVKTLGGEVVLHGE 127

Query: 134 NFDEAKAKAIELSQQQGFTWVPPFDHPMVIAGQGTLALELLQQ-----DAHLDRVFVPVG 188
           ++ +A   A  L ++QG T+V PFD P+VIAGQGT+A+E+L+Q        LD VFV +G
Sbjct: 128 SYSDAYEHAARLQKEQGLTFVHPFDDPLVIAGQGTIAMEILRQLQSLGSNQLDAVFVAIG 187

Query: 189 GGGLAAGVAVLIKQLMPQIKVIAVEAEDSACLKAALDAGHPVDLPRVGLFAEGVAVKRIG 248
           GGGL +GVA  IK + P+IKVI V+  DS  +  +++A   V LP VGLF++G AVK +G
Sbjct: 188 GGGLVSGVANYIKAVRPEIKVIGVQMNDSDAMIQSVNAHQRVTLPDVGLFSDGTAVKLVG 247

Query: 249 DETFRLCQEYLDDIITVDSDAICAAMKDLFEDVRAVAEPSGALALAGMKKYIALHNIRGE 308
           +ETFR+ Q  +D+ +TVD+DA+CAA+KD+F D R++ EP+GALA+A +K+Y+A H  +GE
Sbjct: 248 EETFRVAQGLVDEFVTVDTDAVCAAIKDIFVDTRSIVEPAGALAVAAIKQYVATHKTKGE 307

Query: 309 RLAHILSGANVNFHGLRYVSERCELGEQREALLAVTIPEEKGSFLKFCQLLGG-----RS 363
             A IL GAN+NF  LR+V+ER E+GE+REAL AVTIPEE+GSF +FC+++GG     R+
Sbjct: 308 TYAAILCGANMNFDRLRFVAERAEVGEEREALFAVTIPEERGSFRRFCEVVGGLPGGPRN 367

Query: 364 VTEFNYRFADAKNACIFVGVRLSRGLEERKEILQMLNDGGYSVVDLSDDEMAKLHVRYMV 423
           VTEFNYR +DA  A +FVG+  + G  E ++I +     G+  +DL+ DE+AK H+R++V
Sbjct: 368 VTEFNYRISDAAQAHVFVGI-TTNGKGESEKIAKNFGRHGFEALDLTHDELAKEHLRHLV 426

Query: 424 GGRPSHPLQERLYSFEFPESPGALLRFLNTLGTYWNISLFHYRSHGTDYGRVLAAFELGD 483
           GG  +    ERL  F FPE PGALL+FL+ +   WNISLFHYR+ G DYGR+L   ++  
Sbjct: 427 GGHSALAQDERLMRFTFPERPGALLKFLSLMQPTWNISLFHYRNQGADYGRILVGIQVPP 486

Query: 484 HE-PDFETRLNELGYDCHDETNNPAFRFFL 512
            +   F+  L  LGY   +ET NPA+R FL
Sbjct: 487 EDTATFDAFLATLGYPYVEETLNPAYRLFL 516


Lambda     K      H
   0.321    0.138    0.403 

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: 700
Number of extensions: 33
Number of successful extensions: 6
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: 514
Length of database: 519
Length adjustment: 35
Effective length of query: 479
Effective length of database: 484
Effective search space:   231836
Effective search space used:   231836
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: 52 (24.6 bits)

Align candidate Ac3H11_2042 (Threonine dehydratase biosynthetic (EC 4.3.1.19))
to HMM TIGR01124 (ilvA: threonine ammonia-lyase, biosynthetic (EC 4.3.1.19))

Software error:

../bin/blast/fastacmd -i /tmp/list.22768.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22768.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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