Alignments for a candidate for leuB in Phaeobacter inhibens BS107

Align 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (characterized)
to candidate GFF2936 PGA1_c29830 3-isopropylmalate dehydrogenase LeuB

Query= BRENDA::P24404
         (370 letters)



>FitnessBrowser__Phaeo:GFF2936
          Length = 367

 Score =  423 bits (1088), Expect = e-123
 Identities = 222/364 (60%), Positives = 273/364 (75%), Gaps = 4/364 (1%)

Query: 1   MTVRSLFLLPGDGIGPEAMTEVRKLIEYMNSAHNAGFTVSEGLVGGSAYDAHGVAISDAD 60
           M+  S+ +LPGDGIGPE M EVRK+I +     +  F VSE LVGG+AYD HG  ++D  
Sbjct: 1   MSNPSILILPGDGIGPEVMAEVRKVISWYGEKRDLQFDVSEDLVGGAAYDVHGKPLADET 60

Query: 61  MEKALAADAILFGAVGGPKWDGVPYEHRPEAGLLRLRKDLELFANLRPAICYPALAAASS 120
           MEKA   DA+L GAVGGPK+D + +  +PE GLLRLRK+++L++NLRPA C+ ALA  SS
Sbjct: 61  MEKAQEVDAVLLGAVGGPKYDDLDFSVKPERGLLRLRKEMDLYSNLRPAQCFDALADFSS 120

Query: 121 LKPELVEGLDILIVRELTGGVYFGEPKQIIDLGNGQKRGIDTQIYDTFEIERIASVAFEL 180
           LK ++V GLDI+IVRELT GVYFGEP+ I + GN ++ GI+TQ Y   EIER A  AFEL
Sbjct: 121 LKKDIVAGLDIMIVRELTSGVYFGEPRGIFEEGN-ERVGINTQRYTESEIERAARSAFEL 179

Query: 181 ARSRDNRVCSMEKRNVMKSGVLWNQVVTETHAAKYKDVQLEHMLADAGGMQLVRKPKQFD 240
           A  R+ ++CSMEK NVM+SG+LW +VVT   AA Y +V+L HM AD G MQLVR PKQFD
Sbjct: 180 AMRRNKKLCSMEKANVMESGILWREVVTRV-AADYPEVELSHMYADNGAMQLVRAPKQFD 238

Query: 241 VIVTDNLFGDMLSDVAAMLTGSLGMLPSASLGAPDAKTGKRKAMYEPVHGSAPDIAGKSI 300
           VI+TDNLFGD+LSD AAMLTGSLGMLPSASLGAP A  G+ KA+YEPVHGSAPDIAG+  
Sbjct: 239 VILTDNLFGDILSDCAAMLTGSLGMLPSASLGAPMA-NGRPKALYEPVHGSAPDIAGQGK 297

Query: 301 ANPIAMIASFAMCLRYSFNMVDEATKLEAAIANVLDKGIRTADIMA-DGCRQVGTSDMGD 359
           ANPIA I SFAM LRYSF+   EA +LE A+  VL  G RT D++  +G   + TS+MGD
Sbjct: 298 ANPIACILSFAMALRYSFDQGSEADRLETAVEKVLADGHRTGDLLGEEGVSPISTSEMGD 357

Query: 360 AVLA 363
            ++A
Sbjct: 358 VIIA 361


Lambda     K      H
   0.319    0.135    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: 447
Number of extensions: 17
Number of successful extensions: 5
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: 370
Length of database: 367
Length adjustment: 30
Effective length of query: 340
Effective length of database: 337
Effective search space:   114580
Effective search space used:   114580
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 GFF2936 PGA1_c29830 (3-isopropylmalate dehydrogenase LeuB)
to HMM TIGR00169 (leuB: 3-isopropylmalate dehydrogenase (EC 1.1.1.85))

Software error:

../bin/blast/fastacmd -i /tmp/list.10837.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.10837.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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