GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proB in Caulobacter crescentus NA1000

Align glutamate 5-kinase (EC 2.7.2.11) (characterized)
to candidate CCNA_00316 CCNA_00316 glutamate 5-kinase

Query= BRENDA::P0A7B5
         (367 letters)



>FitnessBrowser__Caulo:CCNA_00316
          Length = 377

 Score =  282 bits (721), Expect = 1e-80
 Identities = 161/365 (44%), Positives = 228/365 (62%), Gaps = 7/365 (1%)

Query: 4   SQTLVVKLGTSVLTGGSR-RLNRAHIVELVRQCAQLHAAGHRIVIVTSGAIAAGREHLGY 62
           ++ +V K+G+++L        NRA +       A L AAG ++++V+SGA+A GR  LG 
Sbjct: 12  ARRIVFKVGSALLVDAETGAANRAWLEAFCADAADLRAAGKQVLVVSSGAVALGRRRLGL 71

Query: 63  PELPATIASKQLLAAVGQSRLIQLWEQLFSIYGIHVGQMLLTRADMEDRERFLNARDTLR 122
                T+  KQ  AA GQS L++ WE+ F  +GI V Q+LLTR D E R R+LNAR T  
Sbjct: 72  TGRKTTLPEKQAAAAAGQSLLMRAWEEAFEPHGIGVAQILLTRDDTEMRRRWLNARATTE 131

Query: 123 ALLDNNIVPVINENDAVATAEIKVGDNDNLSALAAILAGADKLLLLTDQKGLYTADPRSN 182
            L+   +VPV+NEND V T EI+ GDND L+A  A +AGAD L+LL+D  GLYTADPR N
Sbjct: 132 TLMGLGVVPVVNENDTVVTEEIRYGDNDRLAARVAQMAGADLLVLLSDIDGLYTADPRKN 191

Query: 183 PQAELIKDVYGIDDALRAIA--GDSVSGLGTGGMSTKLQAADVACRAGIDTIIAAGSKPG 240
           P+A+ I  V  I   +  +A   ++ +G+GTGGM+TK+ AA +A  AG  T+I  GS+P 
Sbjct: 192 PKAQHIPRVSEITPEIAGMAEGANAAAGVGTGGMATKIAAARIARAAGCATLITLGSRPR 251

Query: 241 VIGDVMEGISVGTLFHAQATPLENRKRWIFGA-PPAGEITVDEGATAAILERGSSLLPKG 299
            +  +  G    TL  A A+P    K WI G+  P G +TVD GA +A+L  G SLLP G
Sbjct: 252 PLAAIAAG-EKATLIEAGASPAAAYKAWIAGSLAPQGWVTVDAGAASALL-AGKSLLPAG 309

Query: 300 IKSVTGNFSRGEVIRICNLEGRDIAHGVSRYNSDALRRIAGHHSQEIDAILGYEYGPVAV 359
           +++V G F +G+ +R+ +  GR++A G+ RY+S   +RIAG  S  I+A LG+  GP+ +
Sbjct: 310 VRAVEGPFDKGDAVRVRDENGREVARGLVRYDSADAQRIAGLRSDAIEAELGFTEGPM-I 368

Query: 360 HRDDM 364
           H DD+
Sbjct: 369 HADDL 373


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: 384
Number of extensions: 23
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: 367
Length of database: 377
Length adjustment: 30
Effective length of query: 337
Effective length of database: 347
Effective search space:   116939
Effective search space used:   116939
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 CCNA_00316 CCNA_00316 (glutamate 5-kinase)
to HMM TIGR01027 (proB: glutamate 5-kinase (EC 2.7.2.11))

Software error:

../bin/blast/fastacmd -i /tmp/list.16532.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.16532.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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