GapMind for Amino acid biosynthesis

 

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

Align Phosphoribosyl-ATP pyrophosphatase; PRA-PH; EC 3.6.1.31 (uncharacterized)
to candidate Pf1N1B4_1566 Phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31)

Query= curated2:A1U671
         (109 letters)



>FitnessBrowser__pseudo1_N1B4:Pf1N1B4_1566
          Length = 110

 Score =  143 bits (360), Expect = 7e-40
 Identities = 75/107 (70%), Positives = 86/107 (80%)

Query: 1   MSDVLERLAQVLEARKDADPDTSYVASLHAKGLNKILEKVGEECTETLLAAKDAEHSGET 60
           MSD L RLAQVLE RK A  D+SYVASL+ KGLNKILEKVGEE  ET++AAKDA  SG+ 
Sbjct: 1   MSDTLTRLAQVLEERKGAAADSSYVASLYHKGLNKILEKVGEESVETIIAAKDAAISGDC 60

Query: 61  RDLVYETADLWFHSLVMLSRLGLGPKDVLDELASRFDLSGLEEKASR 107
            D++YETADLWFHS+VML++LG  P+ VLDEL  RF LSG  EKASR
Sbjct: 61  SDVIYETADLWFHSMVMLAQLGQHPQAVLDELDRRFGLSGHAEKASR 107


Lambda     K      H
   0.313    0.131    0.361 

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: 75
Number of extensions: 2
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: 109
Length of database: 110
Length adjustment: 12
Effective length of query: 97
Effective length of database: 98
Effective search space:     9506
Effective search space used:     9506
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: 40 (21.0 bits)
S2: 40 (20.0 bits)

Align candidate Pf1N1B4_1566 (Phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31))
to HMM TIGR03188 (hisE: phosphoribosyl-ATP diphosphatase (EC 3.6.1.31))

Software error:

../bin/blast/fastacmd -i /tmp/list.4705.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.4705.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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