GapMind for Amino acid biosynthesis

 

Alignments for a candidate for leuA in Marinobacter adhaerens HP15

Align 2-isopropylmalate synthase (EC 2.3.3.13) (characterized)
to candidate GFF555 HP15_538 2-isopropylmalate synthase

Query= BRENDA::Q9JZG1
         (517 letters)



>FitnessBrowser__Marino:GFF555
          Length = 516

 Score =  649 bits (1675), Expect = 0.0
 Identities = 321/500 (64%), Positives = 399/500 (79%)

Query: 1   MTQTNRVIIFDTTLRDGEQSPGAAMTKEEKIRVARQLEKLGVDIIEAGFAAASPGDFEAV 60
           M  T+ ++IFDTTLRDGEQSPGA M K EK+R+A+ LEKL VD+IEAGFA AS GDFEAV
Sbjct: 1   MPATDHLVIFDTTLRDGEQSPGATMNKAEKLRIAKALEKLRVDVIEAGFAIASQGDFEAV 60

Query: 61  NAIAKTITKSTVCSLSRAIERDIRQAGEAVAPAPKKRIHTFIATSPIHMEYKLKMKPKQV 120
            AIA++I  ST+CSL+RA+++DI +A EA+ PA + RIHTFIATSPIHM++KL+M+P +V
Sbjct: 61  KAIAESIKDSTICSLARALDKDIDRAAEAIRPAQRGRIHTFIATSPIHMKHKLQMQPDEV 120

Query: 121 IEAAVKAVKIAREYTDDVEFSCEDALRSEIDFLAEICGAVIEAGATTINIPDTVGYSIPY 180
           IE AV++VK AR + DDVEFSCEDA RSE+DFL  I  A I+AGA+TINIPDTVGY+IP 
Sbjct: 121 IEQAVRSVKRARSHVDDVEFSCEDAGRSELDFLCRIIEAAIDAGASTINIPDTVGYAIPE 180

Query: 181 KTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLAALKGGARQVECTVNGLGERAGN 240
           +  E  R+L+ + PN  K ++S HCHNDLGLAV+NSLAA+  GARQVECT+NGLGERAGN
Sbjct: 181 QFGETIRQLLNRIPNADKAIFSVHCHNDLGLAVSNSLAAVSQGARQVECTINGLGERAGN 240

Query: 241 ASVEEIVMALKVRHDLFGLETGIDTTQIVPSSKLVSTITGYPVQPNKAIVGANAFSHESG 300
           A++EEIVMA++ R DLF ++T ID   IVP+S+LVSTITG+PVQPNKAIVGANAF+HESG
Sbjct: 241 AALEEIVMAVRTRQDLFHIDTRIDAQHIVPASRLVSTITGFPVQPNKAIVGANAFAHESG 300

Query: 301 IHQDGVLKHRETYEIMSAESVGWATNRLSLGKLSGRNAFKTKLADLGIELESEEALNAAF 360
           IHQDGVLKHRETYEIM A+ VGW TN L LGK SGRNAF+T+L +LGI+ E+E  LN AF
Sbjct: 301 IHQDGVLKHRETYEIMRAQDVGWHTNSLVLGKHSGRNAFRTRLLELGIQFETETELNEAF 360

Query: 361 ARFKELADKKREIFDEDLHALVSDEMGSMNAESYKFISQKISTETGEEPRADIVFSIKGE 420
            RFK LAD K EIFDEDL A+ SD         Y  +  ++ +ETG  P+A++  S+ G+
Sbjct: 361 TRFKALADLKHEIFDEDLQAIASDTRQKEEDGRYGLVCMQVCSETGVVPKANLTLSVDGK 420

Query: 421 EKRASATGSGPVDAIFKAIESVAQSGAALQIYSVNAVTQGTESQGETSVRLARGNRVVNG 480
           E +  A GSGPVDA FKAIES+  SG  LQ+YSVN +T GT++QGE +VRL RG R+VNG
Sbjct: 421 EHKVEAEGSGPVDATFKAIESLVDSGCNLQLYSVNNITSGTDAQGEVTVRLERGGRIVNG 480

Query: 481 QGADTDVLVATAKAYLSALS 500
            GADTD+++A+AKAY+ AL+
Sbjct: 481 VGADTDIIIASAKAYIEALN 500


Lambda     K      H
   0.313    0.129    0.352 

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: 677
Number of extensions: 25
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: 517
Length of database: 516
Length adjustment: 35
Effective length of query: 482
Effective length of database: 481
Effective search space:   231842
Effective search space used:   231842
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)

Align candidate GFF555 HP15_538 (2-isopropylmalate synthase)
to HMM TIGR00973 (leuA: 2-isopropylmalate synthase (EC 2.3.3.13))

Software error:

../bin/blast/fastacmd -i /tmp/list.11498.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11498.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.