GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proA in Pseudomonas fluorescens GW456-L13

Align Gamma-glutamyl phosphate reductase; GPR; Glutamate-5-semialdehyde dehydrogenase; Glutamyl-gamma-semialdehyde dehydrogenase; GSA dehydrogenase; EC 1.2.1.41 (characterized)
to candidate PfGW456L13_1356 Gamma-glutamyl phosphate reductase (EC 1.2.1.41)

Query= SwissProt::P07004
         (417 letters)



>FitnessBrowser__pseudo13_GW456_L13:PfGW456L13_1356
          Length = 415

 Score =  368 bits (944), Expect = e-106
 Identities = 189/415 (45%), Positives = 269/415 (64%), Gaps = 5/415 (1%)

Query: 2   LEQMGIAAKQASYKLAQLSSREKNRVLEKIADELEAQSEIILNANAQDVADARANGLSEA 61
           + ++G AA++AS  + + S+ +KNR L+  A+ L+A    +  AN QD+A  RANGL  A
Sbjct: 1   MTRLGRAAREASRVIGRASTAQKNRALQAAANALDAARAELTAANEQDLAAGRANGLEPA 60

Query: 62  MLDRLALTPARLKGIADDVRQVCNLADPVGQVIDGGVLDSGLRLERRRVPLGVIGVIYEA 121
           +L+RLALTPAR+ G+   +RQV  L DPVG + D     SG+++ + RVPLGVIG+IYE+
Sbjct: 61  LLERLALTPARIDGMIVGLRQVAALPDPVGAIRDMSFRPSGIQVGKMRVPLGVIGIIYES 120

Query: 122 RPNVTVDVASLCLKTGNAVILRGGKETCRTNAATVAVIQDALKSCGLPAGAVQAIDNPDR 181
           RPNVT+D ASLCLK+GNA ILRGG E   +N A  A IQ  L    LPA  VQ ++  DR
Sbjct: 121 RPNVTIDAASLCLKSGNATILRGGSEAIHSNRAIAACIQRGLAEADLPAAVVQVVETTDR 180

Query: 182 ALVSEMLRMDKYIDMLIPRGGAGLHKLCREQSTIPVITGGIGVCHIYVDESVEIAEALKV 241
           A V  ++ M +Y+D+++PRGG GL +     + +PVI    G+CH+YV E  ++A+A ++
Sbjct: 181 AAVGALITMPEYVDVIVPRGGRGLIERVSRDARVPVIKHLDGICHVYVSEHADLAKAQRI 240

Query: 242 IVNAKTQRPSTCNTVETLLVNKNIADSFLPALSKQMAESGVTLHADAAALAQLQAGPAKV 301
             NAKT R   C  +ETLLV+  +A  FLPA++ Q  E GV L       A + A     
Sbjct: 241 AFNAKTYRYGICGAMETLLVDHTVAKDFLPAMAAQFREKGVELRGCERTRAIIDA----- 295

Query: 302 VAVKAEEYDDEFLSLDLNVKIVSDLDDAIAHIREHGTQHSDAILTRDMRNAQRFVNEVDS 361
           VA   E++  E+L+  L++++V  L  AI HI  +G+ H+D+I++    + +RFV EVDS
Sbjct: 296 VAATEEDWSTEYLAAILSIRVVDGLGQAIEHINHYGSHHTDSIVSEHQGDTRRFVAEVDS 355

Query: 362 SAVYVNASTRFTDGGQFGLGAEVAVSTQKLHARGPMGLEALTTYKWIGIGDYTIR 416
           S+V +N  T F DG ++GLGAE+ +ST KLHARGP+GLE LT  K+I +GD  +R
Sbjct: 356 SSVMINTPTCFADGFEYGLGAEIGISTDKLHARGPVGLEGLTCEKYIVVGDGQLR 410


Lambda     K      H
   0.317    0.133    0.369 

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: 408
Number of extensions: 17
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: 417
Length of database: 415
Length adjustment: 31
Effective length of query: 386
Effective length of database: 384
Effective search space:   148224
Effective search space used:   148224
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: 50 (23.9 bits)

Align candidate PfGW456L13_1356 (Gamma-glutamyl phosphate reductase (EC 1.2.1.41))
to HMM TIGR00407 (proA: glutamate-5-semialdehyde dehydrogenase (EC 1.2.1.41))

Software error:

../bin/blast/fastacmd -i /tmp/list.27606.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27606.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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