GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proB in Shewanella loihica PV-4

Align glutamate 5-kinase (EC 2.7.2.11) (characterized)
to candidate 5210407 Shew_2848 gamma-glutamyl kinase (RefSeq)

Query= BRENDA::P0A7B5
         (367 letters)



>FitnessBrowser__PV4:5210407
          Length = 374

 Score =  445 bits (1145), Expect = e-130
 Identities = 226/360 (62%), Positives = 286/360 (79%), Gaps = 1/360 (0%)

Query: 7   LVVKLGTSVLTGGSRRLNRAHIVELVRQCAQLHAAGHRIVIVTSGAIAAGREHLGYPELP 66
           +VVKLGTSVLT GSR+L++AH+VEL RQ A+L  +G  +V+ TSGAIAAGREHLGYP LP
Sbjct: 13  VVVKLGTSVLTSGSRQLDKAHMVELARQMAKLMKSGVEVVLCTSGAIAAGREHLGYPTLP 72

Query: 67  ATIASKQLLAAVGQSRLIQLWEQLFSIYGIHVGQMLLTRADMEDRERFLNARDTLRALLD 126
            T+A+KQLLAAVGQS+LI  W QLFSIYG+HVGQ+LLTRAD+ DRER+LNARD+L ALL 
Sbjct: 73  DTVANKQLLAAVGQSQLILAWSQLFSIYGLHVGQLLLTRADLHDRERYLNARDSLNALLA 132

Query: 127 NNIVPVINENDAVATAEIKVGDNDNLSALAAILAGADKLLLLTDQKGLYTADPRSNPQAE 186
           N I+P+INENDAVAT EIKVGDNDNLSA AA+L  AD L+LLTDQKGL+ ADPR+NP A+
Sbjct: 133 NGIIPIINENDAVATNEIKVGDNDNLSARAALLCDADLLILLTDQKGLFDADPRANPDAK 192

Query: 187 LIKDVYGIDDALRAIAGDSVSGLGTGGMSTKLQAADVACRAGIDTIIAAGSKPGVIGDVM 246
           LIK V  IDD+LR++AG +VSGLGTGGM+TKLQAAD+A RAG++ +IA+G  P VI D +
Sbjct: 193 LIKQVVNIDDSLRSLAGGAVSGLGTGGMATKLQAADIARRAGVEVVIASGHHPKVILDAV 252

Query: 247 EGISVGTLFHAQATPLENRKRWIFGAPPA-GEITVDEGATAAILERGSSLLPKGIKSVTG 305
             + VGT F A   PLE+RK+WI   P   G + +D GA  A+  +G SLL KGI SV+G
Sbjct: 253 CQLPVGTHFTALENPLESRKQWILAGPATKGRLVLDSGAINAVTLKGRSLLSKGIVSVSG 312

Query: 306 NFSRGEVIRICNLEGRDIAHGVSRYNSDALRRIAGHHSQEIDAILGYEYGPVAVHRDDMI 365
            F RG  +++ + +GR+ A G+SRY++  L++IAG HS EI+++LGY+YG   VHR+DM+
Sbjct: 313 VFDRGATLQLVDEQGREHARGMSRYSAKDLQKIAGKHSDEIESLLGYDYGDAIVHRNDMV 372


Lambda     K      H
   0.318    0.135    0.384 

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: 426
Number of extensions: 11
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: 367
Length of database: 374
Length adjustment: 30
Effective length of query: 337
Effective length of database: 344
Effective search space:   115928
Effective search space used:   115928
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)

Align candidate 5210407 Shew_2848 (gamma-glutamyl kinase (RefSeq))
to HMM TIGR01027 (proB: glutamate 5-kinase (EC 2.7.2.11))

Software error:

../bin/blast/fastacmd -i /tmp/list.21833.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.21833.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.