GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proB in Pseudomonas fluorescens FW300-N1B4

Align glutamate 5-kinase (EC 2.7.2.11) (characterized)
to candidate Pf1N1B4_2800 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA

Query= BRENDA::P0A7B5
         (367 letters)



>FitnessBrowser__pseudo1_N1B4:Pf1N1B4_2800
          Length = 372

 Score =  297 bits (761), Expect = 3e-85
 Identities = 161/366 (43%), Positives = 230/366 (62%), Gaps = 1/366 (0%)

Query: 1   MSDSQTLVVKLGTSVLTGGSRRLNRAHIVELVRQCAQLHAAGHRIVIVTSGAIAAGREHL 60
           ++ +Q  VVK+G+++LT   + L+RA +   V Q   LH AG  +V+V+SGA+AAG   L
Sbjct: 5   VTGAQRWVVKIGSALLTADGKGLDRAAMGVWVEQMVALHEAGVELVLVSSGAVAAGMSRL 64

Query: 61  GYPELPATIASKQLLAAVGQSRLIQLWEQLFSIYGIHVGQMLLTRADMEDRERFLNARDT 120
           G+   P+ +   Q  AA+GQ  L+Q WE  F+ +G H  Q+LLT  D+ DR+R+LNAR T
Sbjct: 65  GWTVRPSAMHELQAAAAIGQMGLVQAWESSFAEHGRHTAQILLTHDDLSDRKRYLNARST 124

Query: 121 LRALLDNNIVPVINENDAVATAEIKVGDNDNLSALAAILAGADKLLLLTDQKGLYTADPR 180
           LRAL++  ++PVINEND V T EI+ GDND L+AL A L  AD L++LTD+ G++ ADPR
Sbjct: 125 LRALVELKVIPVINENDTVVTDEIRFGDNDTLAALVANLVEADLLVILTDRDGMFDADPR 184

Query: 181 SNPQAELIKDVYGIDDALRAIAGDSVSGLGTGGMSTKLQAADVACRAGIDTIIAAGSKPG 240
           +NP A+LI +    D AL A+AG +   LG GGM TKL+AA +A R+G  TII  G    
Sbjct: 185 NNPDAKLIYEARADDPALDAVAGSTGGALGRGGMQTKLRAARLAARSGAHTIIVGGRIDR 244

Query: 241 VIGDVMEGISVGTLFHAQATPLENRKRWIFG-APPAGEITVDEGATAAILERGSSLLPKG 299
           V+  +  G  +GTL   +   L  RK+W+ G     G + +D GA  A+     SLLP G
Sbjct: 245 VLDRLKAGERIGTLLSPERGMLAARKQWLAGHLQTRGTLVLDAGAVTALSLGNKSLLPVG 304

Query: 300 IKSVTGNFSRGEVIRICNLEGRDIAHGVSRYNSDALRRIAGHHSQEIDAILGYEYGPVAV 359
           +K V G+F RGE++     +GR+IA G++ Y++   ++I G  S+ I  +LGY   P  V
Sbjct: 305 VKLVQGSFRRGEMVVCVAPDGREIARGLANYSALEAQKIIGQSSEAIVGLLGYMAEPELV 364

Query: 360 HRDDMI 365
           HRD++I
Sbjct: 365 HRDNLI 370


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: 354
Number of extensions: 12
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: 372
Length adjustment: 30
Effective length of query: 337
Effective length of database: 342
Effective search space:   115254
Effective search space used:   115254
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 Pf1N1B4_2800 (Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA)
to HMM TIGR01027 (proB: glutamate 5-kinase (EC 2.7.2.11))

Software error:

../bin/blast/fastacmd -i /tmp/list.2424.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.2424.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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