GapMind for catabolism of small carbon sources

 

Alignments for a candidate for gabT in Azospirillum brasilense Sp245

Align 4-aminobutyrate-2-oxoglutarate transaminase (EC 2.6.1.19) (characterized)
to candidate AZOBR_RS19630 AZOBR_RS19630 4-aminobutyrate aminotransferase

Query= BRENDA::Q0K2K2
         (423 letters)



>FitnessBrowser__azobra:AZOBR_RS19630
          Length = 428

 Score =  541 bits (1395), Expect = e-158
 Identities = 269/424 (63%), Positives = 325/424 (76%), Gaps = 3/424 (0%)

Query: 3   MKNLELNQRRTLATPRGVGVMCDFYADRAENATLWDVEGRAYTDFAAGIAVLNTGHRHPR 62
           M N     RR  A PRG+      Y DRAENA LWDVEG  + DFA GIAVLNTGHRHP+
Sbjct: 1   MSNQSFQDRRNAAVPRGLANAMPVYVDRAENAELWDVEGNRFIDFAGGIAVLNTGHRHPK 60

Query: 63  VMQAIAAQLERFTHTAYQIVPYQGYVTLAERINALVPIQGLNKTALFTTGAEAVENAIKI 122
           +++A+ AQL+RFTHT   + PY+ +VTLAER+NALVP     KTA FTTGAEAVENA+KI
Sbjct: 61  IIEAVKAQLDRFTHTCAMVTPYESFVTLAERLNALVPGSTPKKTAFFTTGAEAVENAVKI 120

Query: 123 ARAHTGRPGVIAFSGAFHGRTLLGMALTGKVAPYKIGFGPFPSDIYHAPFPSALHGVSTE 182
           ARAHTGRPGVIAFSGAFHGRTLL MALTGKV PYK+GFGPFP+++YHAPFP+A  GVS +
Sbjct: 121 ARAHTGRPGVIAFSGAFHGRTLLAMALTGKVVPYKVGFGPFPAEVYHAPFPNAYRGVSVQ 180

Query: 183 RALQALEGLFKTDIDPARVAAIIVEPVQGEGGFQAAPADFMRGLRAVCDQHGIVLIADEV 242
            +L+ALE LFK+D+D  RVAAIIVEPVQGEGGF  AP +F++ LR +CD++GI+LI DE+
Sbjct: 181 DSLKALEQLFKSDVDATRVAAIIVEPVQGEGGFNIAPPEFLQALRKICDENGILLIIDEI 240

Query: 243 QTGFGRTGKMFAMSHHDVEPDLITMAKSLAGGMPLSAVSGRAAIMDAPLPGGLGGTYAGN 302
           QTGF RTGKMFA+ H  VEPDL+TMAKSLAGG PLSAV+G+A IMDAP+PGG+GGTYAG+
Sbjct: 241 QTGFARTGKMFAIEHSGVEPDLMTMAKSLAGGFPLSAVTGKAEIMDAPIPGGIGGTYAGS 300

Query: 303 PLAVAAAHAVIDVIEEEKLCERSASLGQQL--REHLLAQRKHCPAMAEVRGLGSMVAAEF 360
           PLA  AA AV+DVIEEEKL +RS  LG+++  R   +AQR     + +VR LG M+A E 
Sbjct: 301 PLATTAALAVLDVIEEEKLIQRSNDLGERIAGRFRTMAQRNTLSVIGDVRNLGGMIAMEL 360

Query: 361 C-DPATGQPSAEHAKRVQTRALEAGLVLLTCGTYGNVIRFLYPLTIPQAQFDAALAVLTQ 419
             D  T +P+AE  K +  +A E GLVLL+CGTYGNVIR L PLT   A  D  L ++ +
Sbjct: 361 VKDRGTKEPAAELTKALVAKAAEKGLVLLSCGTYGNVIRILVPLTASDALVDEGLDIIER 420

Query: 420 ALAE 423
           +L E
Sbjct: 421 SLEE 424


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: 587
Number of extensions: 18
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: 423
Length of database: 428
Length adjustment: 32
Effective length of query: 391
Effective length of database: 396
Effective search space:   154836
Effective search space used:   154836
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 AZOBR_RS19630 AZOBR_RS19630 (4-aminobutyrate aminotransferase)
to HMM TIGR00700 (gabT: 4-aminobutyrate transaminase (EC 2.6.1.19))

Software error:

../bin/blast/fastacmd -i /tmp/list.24689.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.24689.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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