GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argI in Pseudomonas fluorescens FW300-N2E3

Align Ornithine carbamoyltransferase, catabolic; OTCase; EC 2.1.3.3 (characterized)
to candidate AO353_03475 AO353_03475 ornithine carbamoyltransferase

Query= SwissProt::P08308
         (336 letters)



>FitnessBrowser__pseudo3_N2E3:AO353_03475
          Length = 336

 Score =  596 bits (1536), Expect = e-175
 Identities = 289/336 (86%), Positives = 314/336 (93%)

Query: 1   MAFNMHNRNLLSLMHHSTRELRYLLDLSRDLKRAKYTGTEQQHLKRKNIALIFEKTSTRT 60
           MAFNM NR+LLSLMHH+ REL YLLDLSRDLKRAKYTGTEQ HLK KNIALIFEKTSTRT
Sbjct: 1   MAFNMRNRSLLSLMHHTNRELHYLLDLSRDLKRAKYTGTEQPHLKGKNIALIFEKTSTRT 60

Query: 61  RCAFEVAAYDQGANVTYIDPNSSQIGHKESMKDTARVLGRMYDAIEYRGFKQEIVEELAK 120
           RCAFEVAA+DQGA+VTYIDP SSQIGHKESMKDTARVLGRM+DAIEYRGF+QEIVEELA 
Sbjct: 61  RCAFEVAAHDQGAHVTYIDPVSSQIGHKESMKDTARVLGRMFDAIEYRGFEQEIVEELAT 120

Query: 121 FAGVPVFNGLTDEYHPTQMLADVLTMREHSDKPLHDISYAYLGDARNNMGNSLLLIGAKL 180
           FAGVPVFNGLT E+HPTQM+AD LTMREHSDKPLHDISYAYLGDAR NMGNSLL+IGAKL
Sbjct: 121 FAGVPVFNGLTAEFHPTQMIADTLTMREHSDKPLHDISYAYLGDARYNMGNSLLMIGAKL 180

Query: 181 GMDVRIAAPKALWPHDEFVAQCKKFAEESGAKLTLTEDPKEAVKGVDFVHTDVWVSMGEP 240
           GMDVRI APKALWPH +F+ QCK FAEESGA++T+TEDP EAVKGVDF+HTD+WVSMGEP
Sbjct: 181 GMDVRIGAPKALWPHQDFIDQCKAFAEESGARITITEDPAEAVKGVDFIHTDIWVSMGEP 240

Query: 241 VEAWGERIKELLPYQVNMEIMKATGNPRAKFMHCLPAFHNSETKVGKQIAEQYPNLANGI 300
           VEAW ERI++LLPYQVN ++MKA+GNPR KFMHCLPAFHNSETKVGK IA +YP+LANG+
Sbjct: 241 VEAWDERIEQLLPYQVNAKMMKASGNPRVKFMHCLPAFHNSETKVGKDIAARYPHLANGV 300

Query: 301 EVTEDVFESPYNIAFEQAENRMHTIKAILVSTLADI 336
           EVTE+VFESP NIAFEQAENRMHTIKAILVS LADI
Sbjct: 301 EVTEEVFESPANIAFEQAENRMHTIKAILVSALADI 336


Lambda     K      H
   0.318    0.133    0.387 

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: 487
Number of extensions: 6
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: 336
Length of database: 336
Length adjustment: 28
Effective length of query: 308
Effective length of database: 308
Effective search space:    94864
Effective search space used:    94864
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)

Align candidate AO353_03475 AO353_03475 (ornithine carbamoyltransferase)
to HMM TIGR00658 (argF: ornithine carbamoyltransferase (EC 2.1.3.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.7196.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.7196.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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