GapMind for catabolism of small carbon sources

 

Alignments for a candidate for patA in Klebsiella michiganensis M5al

Align putrescine-2-oxoglutarate transaminase (EC 2.6.1.82) (characterized)
to candidate BWI76_RS24630 BWI76_RS24630 putrescine aminotransferase

Query= BRENDA::P42588
         (459 letters)



>FitnessBrowser__Koxy:BWI76_RS24630
          Length = 468

 Score =  865 bits (2235), Expect = 0.0
 Identities = 433/459 (94%), Positives = 447/459 (97%)

Query: 1   MNRLPSSASALACSAHALNLIEKRTLDHEEMKALNREVIEYFKEHVNPGFLEYRKSVTAG 60
           +NRLPSSASALACSAHALNLIEKRTLDHEEMK+LN+EV EYFKEHVNPGFL YRKSVTAG
Sbjct: 10  LNRLPSSASALACSAHALNLIEKRTLDHEEMKSLNQEVREYFKEHVNPGFLAYRKSVTAG 69

Query: 61  GDYGAVEWQAGSLNTLVDTQGQEFIDCLGGFGIFNVGHRNPVVVSAVQNQLAKQPLHSQE 120
           GDYGAVEWQAG LNTLVDTQGQEFIDCLGGFGIFNVGHRNPVVVSAV+NQLAKQPLHSQE
Sbjct: 70  GDYGAVEWQAGGLNTLVDTQGQEFIDCLGGFGIFNVGHRNPVVVSAVENQLAKQPLHSQE 129

Query: 121 LLDPLRAMLAKTLAALTPGKLKYSFFCNSGTESVEAALKLAKAYQSPRGKFTFIATSGAF 180
           LLDPLRAMLAKTLAALTPGKLKYSFF NSGTESVEAALKLAKAYQSPRGKFTF+ATSGAF
Sbjct: 130 LLDPLRAMLAKTLAALTPGKLKYSFFSNSGTESVEAALKLAKAYQSPRGKFTFVATSGAF 189

Query: 181 HGKSLGALSATAKSTFRKPFMPLLPGFRHVPFGNIEAMRTALNECKKTGDDVAAVILEPI 240
           HGKSLGALSATAKSTFRKPFMPLLPGFRHVPFG+I AMRT L+ECKKTGDDVAAVILEPI
Sbjct: 190 HGKSLGALSATAKSTFRKPFMPLLPGFRHVPFGDINAMRTLLSECKKTGDDVAAVILEPI 249

Query: 241 QGEGGVILPPPGYLTAVRKLCDEFGALMILDEVQTGMGRTGKMFACEHENVQPDILCLAK 300
           QGEGGVILPPPGYL AVRKLCDEFGAL+ILDEVQTGMGRTGKMFACEHENVQPDILCLAK
Sbjct: 250 QGEGGVILPPPGYLPAVRKLCDEFGALLILDEVQTGMGRTGKMFACEHENVQPDILCLAK 309

Query: 301 ALGGGVMPIGATIATEEVFSVLFDNPFLHTTTFGGNPLACAAALATINVLLEQNLPAQAE 360
           ALGGGVMPIGATIATEEVFSVLFDNPFLHTTTFGGNPLACAAALATINVLL QNLPAQAE
Sbjct: 310 ALGGGVMPIGATIATEEVFSVLFDNPFLHTTTFGGNPLACAAALATINVLLTQNLPAQAE 369

Query: 361 QKGDMLLDGFRQLAREYPDLVQEARGKGMLMAIEFVDNEIGYNFASEMFRQRVLVAGTLN 420
           QKGDMLLDGFRQLAREYPDLV E RGKGMLMAIEFVDNEIGY+FASEMFRQRVLVAGTLN
Sbjct: 370 QKGDMLLDGFRQLAREYPDLVNEVRGKGMLMAIEFVDNEIGYDFASEMFRQRVLVAGTLN 429

Query: 421 NAKTIRIEPPLTLTIEQCELVIKAARKALAAMRVSVEEA 459
           NA+TIR+EPPLTLT+EQCE V+KAAR ALAA+RVSVEEA
Sbjct: 430 NARTIRVEPPLTLTLEQCEQVLKAARLALAALRVSVEEA 468


Lambda     K      H
   0.320    0.135    0.393 

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: 848
Number of extensions: 24
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: 459
Length of database: 468
Length adjustment: 33
Effective length of query: 426
Effective length of database: 435
Effective search space:   185310
Effective search space used:   185310
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 BWI76_RS24630 BWI76_RS24630 (putrescine aminotransferase)
to HMM TIGR03372 (ygjG: putrescine aminotransferase (EC 2.6.1.82))

Software error:

../bin/blast/fastacmd -i /tmp/list.306.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.306.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.