Alignments for a candidate for leuB in Pseudomonas fluorescens FW300-N1B4

Align 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (characterized)
to candidate Pf1N1B4_12 3-isopropylmalate dehydrogenase (EC 1.1.1.85)

Query= BRENDA::P96197
         (360 letters)



>FitnessBrowser__pseudo1_N1B4:Pf1N1B4_12
          Length = 360

 Score =  520 bits (1340), Expect = e-152
 Identities = 283/372 (76%), Positives = 304/372 (81%), Gaps = 24/372 (6%)

Query: 1   MSKQILVLPGDGIGPEIMAEAVKVLQLANEKYQLGFVLGYDELGGAAVDKYGVPLADETL 60
           MSKQIL+LPGDGIGPEIMAEAVKVL+LAN+KY LGF L +D +GGAA+DK+GVPLADETL
Sbjct: 1   MSKQILILPGDGIGPEIMAEAVKVLELANDKYSLGFELSHDVIGGAAIDKHGVPLADETL 60

Query: 61  ERARR------------RCHPARRRRRSEMGRHRPGHPPGARPAENPFATGPVRQPAPGV 108
            RAR             +     R  R E G  +     G          G +R   P +
Sbjct: 61  ARARAADAVLLGAVGGPKWDTIERDIRPERGLLKIRAQLGL--------FGNLR---PAI 109

Query: 109 LYPQLAEASTLRPEVVAGLDILIVRELTGGIYFGAPRESRLLANGERMAYDTLPYSESEI 168
           LYPQLAEAS+L+ E+VAGLDILIVRELTGGIYFGAPR  R L NGER AYDTLPYSE+EI
Sbjct: 110 LYPQLAEASSLKAEIVAGLDILIVRELTGGIYFGAPRGVRELENGERQAYDTLPYSETEI 169

Query: 169 RRIAKVGFDMARVRGKKLCSVDKANVLASSQLWRAVVEEVAKDYPDVVLSHMYVDNAAMQ 228
           RRIA+VGFDMARVRGKKLCSVDKANVLASSQLWR VVE+VAKDYPDV LSHMYVDNAAMQ
Sbjct: 170 RRIARVGFDMARVRGKKLCSVDKANVLASSQLWREVVEQVAKDYPDVELSHMYVDNAAMQ 229

Query: 229 LVRAPKQFDVIVTDNMFGDILSDEASMLTGSIGMLPSASLDADNKGMYEPCHGSRRPDIA 288
           LVRAPKQFDVIVTDN+FGDILSDEASMLTGSIGMLPSASLDA+NKGMYEPCHGS  PDIA
Sbjct: 230 LVRAPKQFDVIVTDNLFGDILSDEASMLTGSIGMLPSASLDANNKGMYEPCHGS-APDIA 288

Query: 289 GKGIANPLATILSVSMMLRYSFGQVEAANAIEQAVSKVLDQGLRTGDIWSEGCRKVGTAE 348
           GKGIANPLATILSVSMMLRYSF   +AA+AIEQAVS VLDQGLRTGDIWS GC KVGT E
Sbjct: 289 GKGIANPLATILSVSMMLRYSFNLQDAADAIEQAVSLVLDQGLRTGDIWSAGCTKVGTQE 348

Query: 349 MGDAVVAALATL 360
           MGDAVVAAL  L
Sbjct: 349 MGDAVVAALRNL 360


Lambda     K      H
   0.318    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: 477
Number of extensions: 5
Number of successful extensions: 3
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 2
Length of query: 360
Length of database: 360
Length adjustment: 29
Effective length of query: 331
Effective length of database: 331
Effective search space:   109561
Effective search space used:   109561
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: 49 (23.5 bits)

Align candidate Pf1N1B4_12 (3-isopropylmalate dehydrogenase (EC 1.1.1.85))
to HMM TIGR00169 (leuB: 3-isopropylmalate dehydrogenase (EC 1.1.1.85))

Software error:

../bin/blast/fastacmd -i /tmp/list.5364.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.5364.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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