GapMind for Amino acid biosynthesis

 

Alignments for a candidate for hisE in Desulfovibrio vulgaris Miyazaki F

Align Phosphoribosyl-AMP cyclohydrolase; PRA-CH; EC 3.5.4.19 (characterized)
to candidate 8501230 DvMF_1964 phosphoribosyl-AMP cyclohydrolase (RefSeq)

Query= SwissProt::O26347
         (138 letters)



>FitnessBrowser__Miya:8501230
          Length = 133

 Score =  123 bits (308), Expect = 1e-33
 Identities = 64/115 (55%), Positives = 82/115 (71%), Gaps = 5/115 (4%)

Query: 23  LIIAVAQDHETGEVLMVAYMNREALRRTLETGTAHYWSTSRGKLWLKGESSGHVQRVKDV 82
           L+ A+AQ   TGEVLM+A+MN EA   TL TG AHY+S SRG+LW KG +SGH Q +K V
Sbjct: 21  LVPAIAQCAATGEVLMMAWMNEEAWDATLATGEAHYFSRSRGRLWHKGGTSGHTQHIKAV 80

Query: 83  LVDCDGDAVVLKVEQEG-GACHTGYRSCFYRSI-DGDELKVREDAVKVFDPEEIY 135
            +DCD D V+L V+Q+G  ACH GYRSCFYR + DG  +     + +VFDP+E+Y
Sbjct: 81  RLDCDSDTVLLLVDQKGDAACHEGYRSCFYRELKDGAPVIC---SPRVFDPKEVY 132


Lambda     K      H
   0.318    0.137    0.410 

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: 92
Number of extensions: 6
Number of successful extensions: 3
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: 138
Length of database: 133
Length adjustment: 15
Effective length of query: 123
Effective length of database: 118
Effective search space:    14514
Effective search space used:    14514
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: 42 (20.8 bits)

Align candidate 8501230 DvMF_1964 (phosphoribosyl-AMP cyclohydrolase (RefSeq))
to HMM PF01502 (PRA-CH)

Software error:

../bin/blast/fastacmd -i /tmp/list.13364.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.13364.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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