Alignments for a candidate for leuB in Dinoroseobacter shibae DFL-12

Align 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (characterized)
to candidate 3606650 Dshi_0081 3-isopropylmalate dehydrogenase (RefSeq)

Query= BRENDA::P24404
         (370 letters)



>FitnessBrowser__Dino:3606650
          Length = 368

 Score =  446 bits (1147), Expect = e-130
 Identities = 235/368 (63%), Positives = 279/368 (75%), Gaps = 3/368 (0%)

Query: 1   MTVRSLFLLPGDGIGPEAMTEVRKLIEYMNSAHNAGFTVSEGLVGGSAYDAHGVAISDAD 60
           M+  SL +L GDGIGPE M EVRK+I++  +  +  F VSE LVGG+AYD HGV ++D  
Sbjct: 1   MSTASLLILAGDGIGPEVMAEVRKIIDWYGAKRDLAFDVSEDLVGGAAYDVHGVPLADET 60

Query: 61  MEKALAADAILFGAVGGPKWDGVPYEHRPEAGLLRLRKDLELFANLRPAICYPALAAASS 120
           M KA A DA+L GAVGGPK+D + +  +PE GLLRLRK+++LFANLRPA C+ ALA  SS
Sbjct: 61  MAKAQAVDAVLLGAVGGPKYDTLDFSLKPERGLLRLRKEMDLFANLRPAQCFDALADFSS 120

Query: 121 LKPELVEGLDILIVRELTGGVYFGEPKQIIDLGNGQKRGIDTQIYDTFEIERIASVAFEL 180
           LK ++V GLDI+IVRELT GVYFGEP+ I   GN ++ GI+TQ Y   EI R+A  AFEL
Sbjct: 121 LKKDIVAGLDIMIVRELTSGVYFGEPRGIHKEGN-ERVGINTQRYTESEIARVARSAFEL 179

Query: 181 ARSRDNRVCSMEKRNVMKSGVLWNQVVTETHAAKYKDVQLEHMLADAGGMQLVRKPKQFD 240
           A+ R N+VCSMEK NVM+SG+LW  VVTE HAA+Y DV+L HM ADAG MQLVR PKQFD
Sbjct: 180 AKKRGNKVCSMEKANVMESGILWRDVVTEIHAAEYADVELSHMYADAGAMQLVRAPKQFD 239

Query: 241 VIVTDNLFGDMLSDVAAMLTGSLGMLPSASLGAPDAKTGKRKAMYEPVHGSAPDIAGKSI 300
           VIVTDNLFGD+LSD AAMLTGSLGMLPSASLG P  + G+ KA+YEPVHGSAPDIAG+  
Sbjct: 240 VIVTDNLFGDLLSDAAAMLTGSLGMLPSASLGLP-MENGRPKALYEPVHGSAPDIAGQGK 298

Query: 301 ANPIAMIASFAMCLRYSFNMVDEATKLEAAIANVLDKGIRTADIMADG-CRQVGTSDMGD 359
           ANP A I SFAM LRYSF+   EA +LEAA+  VL +GIRTAD+M  G      TS MGD
Sbjct: 299 ANPCACILSFAMALRYSFDQGAEADRLEAAVNQVLAQGIRTADLMQAGDTAPASTSQMGD 358

Query: 360 AVLAEFKA 367
           AV+A   A
Sbjct: 359 AVIAALDA 366


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: 448
Number of extensions: 14
Number of successful extensions: 4
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: 368
Length adjustment: 30
Effective length of query: 340
Effective length of database: 338
Effective search space:   114920
Effective search space used:   114920
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 3606650 Dshi_0081 (3-isopropylmalate dehydrogenase (RefSeq))
to HMM TIGR00169 (leuB: 3-isopropylmalate dehydrogenase (EC 1.1.1.85))

Software error:

../bin/blast/fastacmd -i /tmp/list.19811.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.19811.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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