GapMind for catabolism of small carbon sources

 

Alignments for a candidate for adiA in Klebsiella michiganensis M5al

Align arginine decarboxylase (EC 4.1.1.19) (characterized)
to candidate BWI76_RS24030 BWI76_RS24030 arginine decarboxylase

Query= BRENDA::P21170
         (658 letters)



>FitnessBrowser__Koxy:BWI76_RS24030
          Length = 658

 Score = 1270 bits (3286), Expect = 0.0
 Identities = 625/658 (94%), Positives = 637/658 (96%)

Query: 1   MSDDMSMGLPSSAGEHGVLRSMQEVAMSSQEASKMLRTYNIAWWGNNYYDVNELGHISVC 60
           MSDDMS+  PSSAG+HGVLRSMQEVAMSSQEASKMLRTYNIAWWGNNYYDVNELGHISVC
Sbjct: 1   MSDDMSLSSPSSAGDHGVLRSMQEVAMSSQEASKMLRTYNIAWWGNNYYDVNELGHISVC 60

Query: 61  PDPDVPEARVDLAQLVKTREAQGQRLPALFCFPQILQHRLRSINAAFKRARESYGYNGDY 120
           PDPDVPEARVDLA+LVK REAQGQRLPALFCFPQILQHRLRSINAAFKRARESYGYNGDY
Sbjct: 61  PDPDVPEARVDLAELVKAREAQGQRLPALFCFPQILQHRLRSINAAFKRARESYGYNGDY 120

Query: 121 FLVYPIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSVIVCNGYKDREYI 180
           FLVYPIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSVIVCNGYKDREYI
Sbjct: 121 FLVYPIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSVIVCNGYKDREYI 180

Query: 181 RLALIGEKMGHKVYLVIEKMSEIAIVLDEAERLNVVPRLGVRARLASQGSGKWQSSGGEK 240
           RLAL+GEKMGHKVYLVIEKMSEIAIVL+EAERLNVVPRLGVRARLASQGSGKWQSSGGEK
Sbjct: 181 RLALVGEKMGHKVYLVIEKMSEIAIVLEEAERLNVVPRLGVRARLASQGSGKWQSSGGEK 240

Query: 241 SKFGLAATQVLQLVETLREAGRLDSLQLLHFHLGSQMANIRDIATGVRESARFYVELHKL 300
           SKFGLAATQVLQLVE LR AG LDSLQLLHFHLGSQMANIRDIATGVRES+RFYVELHKL
Sbjct: 241 SKFGLAATQVLQLVEILRSAGHLDSLQLLHFHLGSQMANIRDIATGVRESSRFYVELHKL 300

Query: 301 GVNIQCFDVGGGLGVDYEGTRSQSDCSVNYGLNEYANNIIWAIGDACEENGLPHPTVITE 360
           GVNIQCFDVGGGLGVDYEGTRSQSDCSVNYGLNEYANNIIWAIGDACEENGLPHPTVITE
Sbjct: 301 GVNIQCFDVGGGLGVDYEGTRSQSDCSVNYGLNEYANNIIWAIGDACEENGLPHPTVITE 360

Query: 361 SGRAVTAHHTVLVSNIIGVERNEYTVPTAPAEDAPRALQSMWETWQEMHEPGTRRSLREW 420
           SGRAVTAHHTVLVSNIIGVERNEYT  T PAEDA R LQSMWETW EM E G RRSLREW
Sbjct: 361 SGRAVTAHHTVLVSNIIGVERNEYTEATPPAEDAARPLQSMWETWLEMQETGNRRSLREW 420

Query: 421 LHDSQMDLHDIHIGYSSGIFSLQERAWAEQLYLSMCHEVQKQLDPQNRAHRPIIDELQER 480
           LHDSQMDLHDIHIGYSSG F+LQERAWAEQLYL+MCHEVQKQLDP NRAHRPIIDELQER
Sbjct: 421 LHDSQMDLHDIHIGYSSGTFNLQERAWAEQLYLNMCHEVQKQLDPSNRAHRPIIDELQER 480

Query: 481 MADKMYVNFSLFQSMPDAWGIDQLFPVLPLEGLDQVPERRAVLLDITCDSDGAIDHYIDG 540
           MADK+YVNFSLFQSMPDAWGIDQLFPV+PLEGL+ VPERRAVLLDITCDSDGAIDHY+DG
Sbjct: 481 MADKIYVNFSLFQSMPDAWGIDQLFPVMPLEGLNMVPERRAVLLDITCDSDGAIDHYVDG 540

Query: 541 DGIATTMPMPEYDPENPPMLGFFMVGAYQEILGNMHNLFGDTEAVDVFVFPDGSVEVELS 600
           DGIATTMPMPEYDPENPPMLGFFMVGAYQEILGNMHNLFGDTEAVDVFVFPDGSVEVELS
Sbjct: 541 DGIATTMPMPEYDPENPPMLGFFMVGAYQEILGNMHNLFGDTEAVDVFVFPDGSVEVELS 600

Query: 601 DEGDTVADMLQYVQLDPKTLLTQFRDQVKKTDLDAELQQQFLEEFEAGLYGYTYLEDE 658
           DEGDTVADMLQYVQLDP TLLTQFRDQVK TDLDA LQQQFLEEFEAGLYGYTYLEDE
Sbjct: 601 DEGDTVADMLQYVQLDPNTLLTQFRDQVKNTDLDAALQQQFLEEFEAGLYGYTYLEDE 658


Lambda     K      H
   0.319    0.136    0.404 

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: 1426
Number of extensions: 44
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: 658
Length of database: 658
Length adjustment: 38
Effective length of query: 620
Effective length of database: 620
Effective search space:   384400
Effective search space used:   384400
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 (21.7 bits)
S2: 54 (25.4 bits)

Align candidate BWI76_RS24030 BWI76_RS24030 (arginine decarboxylase)
to HMM TIGR01273 (speA: arginine decarboxylase (EC 4.1.1.19))

Software error:

../bin/blast/fastacmd -i /tmp/list.22079.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22079.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.