GapMind for Amino acid biosynthesis

 

Alignments for a candidate for leuB in Magnetospirillum magneticum AMB-1

Align 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (characterized)
to candidate WP_011386420.1 AMB_RS20570 3-isopropylmalate dehydrogenase

Query= BRENDA::P24404
         (370 letters)



>NCBI__GCF_000009985.1:WP_011386420.1
          Length = 369

 Score =  429 bits (1103), Expect = e-125
 Identities = 214/370 (57%), Positives = 277/370 (74%), Gaps = 1/370 (0%)

Query: 1   MTVRSLFLLPGDGIGPEAMTEVRKLIEYMNSAHNAGFTVSEGLVGGSAYDAHGVAISDAD 60
           M  + L +LPGDGIG E M +VR++I++M       F ++EGL+GG+AYD HG       
Sbjct: 1   MAAKKLLILPGDGIGVEVMAQVRRIIDWMGRKRKIEFEITEGLLGGAAYDVHGTPYPAET 60

Query: 61  MEKALAADAILFGAVGGPKWDGVPYEHRPEAGLLRLRKDLELFANLRPAICYPALAAASS 120
           +E ALAADA+L GAVGGPKWD +P++ +PE GLL +RKD+ LFANLRPA    ALA AS+
Sbjct: 61  LEAALAADAVLLGAVGGPKWDDLPFDKKPERGLLGIRKDMGLFANLRPATVLEALADAST 120

Query: 121 LKPELVEGLDILIVRELTGGVYFGEPKQIIDLGNGQKRGIDTQIYDTFEIERIASVAFEL 180
           LK E+V GLDI+I+RELTGG+YFG+P+ I  L +G ++G +T +Y T EI+RI  VAF+L
Sbjct: 121 LKAEVVSGLDIMILRELTGGLYFGQPRGIDTLPDGTRKGYNTLVYTTPEIQRIGRVAFDL 180

Query: 181 ARSRDNRVCSMEKRNVMKSGVLWNQVVTETHAAKYKDVQLEHMLADAGGMQLVRKPKQFD 240
           AR R+ ++CS++K NV++  VLW + + +    ++ DV+L HM  D   MQLVR PKQFD
Sbjct: 181 ARKRNKKLCSVDKANVLECTVLWREEMIKLQKEEFPDVELTHMYVDNAAMQLVRNPKQFD 240

Query: 241 VIVTDNLFGDMLSDVAAMLTGSLGMLPSASLGAPDAKTGKRKAMYEPVHGSAPDIAGKSI 300
           V+VT+N+FGD+LSD AAMLTGSLGMLPSASLG  DA+ GKRKA+YEPVHGSAPDIAGK +
Sbjct: 241 VMVTENMFGDILSDCAAMLTGSLGMLPSASLGEADAQ-GKRKALYEPVHGSAPDIAGKDM 299

Query: 301 ANPIAMIASFAMCLRYSFNMVDEATKLEAAIANVLDKGIRTADIMADGCRQVGTSDMGDA 360
           ANP+A I SFAMCLRYSF+M  EA  +E A+ NVL  G+RTADIM  G  +V T+ MG+A
Sbjct: 300 ANPLATIMSFAMCLRYSFDMAAEADLIETAVKNVLKGGLRTADIMQPGKAKVSTTVMGEA 359

Query: 361 VLAEFKALSA 370
           V+ E   L+A
Sbjct: 360 VVRELDKLNA 369


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: 434
Number of extensions: 8
Number of successful extensions: 2
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: 369
Length adjustment: 30
Effective length of query: 340
Effective length of database: 339
Effective search space:   115260
Effective search space used:   115260
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 WP_011386420.1 AMB_RS20570 (3-isopropylmalate dehydrogenase)
to HMM TIGR00169 (leuB: 3-isopropylmalate dehydrogenase (EC 1.1.1.85))

Software error:

../bin/blast/fastacmd -i /tmp/list.10420.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.10420.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.