GapMind for catabolism of small carbon sources

 

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

Align 4-aminobutyrate-2-oxoglutarate transaminase (EC 2.6.1.19) (characterized)
to candidate H281DRAFT_03179 H281DRAFT_03179 4-aminobutyrate aminotransferase apoenzyme

Query= BRENDA::Q0K2K2
         (423 letters)



>FitnessBrowser__Burk376:H281DRAFT_03179
          Length = 429

 Score =  601 bits (1549), Expect = e-176
 Identities = 293/423 (69%), Positives = 343/423 (81%)

Query: 1   MTMKNLELNQRRTLATPRGVGVMCDFYADRAENATLWDVEGRAYTDFAAGIAVLNTGHRH 60
           M +KN EL  R+  ATPRGVGVMCDFYA+RA+NA LWDVEGR + DFAAGIAV NTGHRH
Sbjct: 1   MNLKNAELKSRKDAATPRGVGVMCDFYAERAQNAELWDVEGRRFIDFAAGIAVCNTGHRH 60

Query: 61  PRVMQAIAAQLERFTHTAYQIVPYQGYVTLAERINALVPIQGLNKTALFTTGAEAVENAI 120
           P+++ AI  QL+RFTHTAYQIVPY  YV LAE++N   P     KTA FTTGAEAVENAI
Sbjct: 61  PKIVAAIRDQLDRFTHTAYQIVPYASYVELAEKLNERAPGDHPKKTAFFTTGAEAVENAI 120

Query: 121 KIARAHTGRPGVIAFSGAFHGRTLLGMALTGKVAPYKIGFGPFPSDIYHAPFPSALHGVS 180
           KIARA TGRPGVIAF+G FHGRTL+GMALTGKVAPYK GFGPFPSD++HAPFP+ LHGVS
Sbjct: 121 KIARAATGRPGVIAFTGGFHGRTLMGMALTGKVAPYKAGFGPFPSDVFHAPFPNPLHGVS 180

Query: 181 TERALQALEGLFKTDIDPARVAAIIVEPVQGEGGFQAAPADFMRGLRAVCDQHGIVLIAD 240
           T  +L+A+E LFK DIDP RVAAII EPVQGEGGF  APA+F+R LR +C++HGI+LIAD
Sbjct: 181 TADSLKAIEFLFKADIDPKRVAAIIFEPVQGEGGFYPAPAEFVRALRKLCNEHGILLIAD 240

Query: 241 EVQTGFGRTGKMFAMSHHDVEPDLITMAKSLAGGMPLSAVSGRAAIMDAPLPGGLGGTYA 300
           EVQTGF RTGK+FAM H+DV PDL+T+AKSLAGGMPLS V GRA +MDA  PGGLGGTYA
Sbjct: 241 EVQTGFARTGKLFAMHHYDVVPDLMTVAKSLAGGMPLSGVIGRADVMDAAAPGGLGGTYA 300

Query: 301 GNPLAVAAAHAVIDVIEEEKLCERSASLGQQLREHLLAQRKHCPAMAEVRGLGSMVAAEF 360
           GNPLAVAAA AV+D+I+EEKLCER+  LG +++  L+A +   P +A+VRG G MVA EF
Sbjct: 301 GNPLAVAAALAVLDIIDEEKLCERATILGDRVKAKLIALQNEAPQIADVRGPGGMVAVEF 360

Query: 361 CDPATGQPSAEHAKRVQTRALEAGLVLLTCGTYGNVIRFLYPLTIPQAQFDAALAVLTQA 420
           C P + +P AE  KRVQTRAL+ GL+LL CG Y NV+RFL+PLTI    FD ALA+L   
Sbjct: 361 CKPGSTEPDAEFTKRVQTRALKRGLLLLVCGVYSNVVRFLFPLTIEDTVFDEALAILEDV 420

Query: 421 LAE 423
           + +
Sbjct: 421 IKD 423


Lambda     K      H
   0.321    0.136    0.400 

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: 645
Number of extensions: 18
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: 423
Length of database: 429
Length adjustment: 32
Effective length of query: 391
Effective length of database: 397
Effective search space:   155227
Effective search space used:   155227
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 (21.9 bits)
S2: 51 (24.3 bits)

Align candidate H281DRAFT_03179 H281DRAFT_03179 (4-aminobutyrate aminotransferase apoenzyme)
to HMM TIGR00700 (gabT: 4-aminobutyrate transaminase (EC 2.6.1.19))

Software error:

../bin/blast/fastacmd -i /tmp/list.32290.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.32290.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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