GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proA in Herbaspirillum seropedicae SmR1

Align Gamma-glutamyl phosphate reductase; GPR; Glutamate-5-semialdehyde dehydrogenase; Glutamyl-gamma-semialdehyde dehydrogenase; GSA dehydrogenase; EC 1.2.1.41 (characterized)
to candidate HSERO_RS02965 HSERO_RS02965 gamma-glutamyl phosphate reductase

Query= SwissProt::P07004
         (417 letters)



>FitnessBrowser__HerbieS:HSERO_RS02965
          Length = 422

 Score =  370 bits (951), Expect = e-107
 Identities = 187/415 (45%), Positives = 278/415 (66%), Gaps = 1/415 (0%)

Query: 2   LEQMGIAAKQASYKLAQLSSREKNRVLEKIADELEAQSEIILNANAQDVADARANGLSEA 61
           + ++G  A+ AS  +A+  +  KN+ L  IA  +   ++ +  ANA D+  ARANGL+EA
Sbjct: 8   MNRIGQQARAASRAMARADTAAKNQALLLIAAAIRRDADALRAANALDLEAARANGLAEA 67

Query: 62  MLDRLALTPARLKGIADDVRQVCNLADPVGQVIDGGVLDSGLRLERRRVPLGVIGVIYEA 121
           MLDRL L+   +  +A+ + Q+ +L DP+G++ +     +G+++ + RVPLGVIG+IYEA
Sbjct: 68  MLDRLTLSDKAIATMAEGLEQIASLPDPIGEISNMKYRPTGIQVGQMRVPLGVIGIIYEA 127

Query: 122 RPNVTVDVASLCLKTGNAVILRGGKETCRTNAATVAVIQDALKSCGLPAGAVQAIDNPDR 181
           RPNVTVD A LC+K+GNA ILRGG E    N A   ++++ L   GLP  AVQ ++  DR
Sbjct: 128 RPNVTVDAAGLCIKSGNATILRGGSEAIHCNQALAKLVKEGLAGAGLPEQAVQVVETTDR 187

Query: 182 ALVSEMLRMDKYIDMLIPRGGAGLHKLCREQSTIPVITGGIGVCHIYVDESVEIAEALKV 241
           A V  ++ M +Y+D+++PRGG GL +   +++ +P+I    G+CH+Y+D+  +  +AL V
Sbjct: 188 AAVGALITMQEYVDVIVPRGGKGLIERLMKEAKVPMIKHLDGICHVYIDDKADTRKALDV 247

Query: 242 IVNAKTQRPSTCNTVETLLVNKNIADSFLPALSKQMAESGVTLHADAAALAQLQAGPAKV 301
             NAK  R  TCNT+ETLLV +NIA + LP LS+      V L  DA A A++ AG   +
Sbjct: 248 AFNAKCHRYGTCNTMETLLVARNIAAAILPPLSELYRVKEVELRCDAEA-AEILAGYPLL 306

Query: 302 VAVKAEEYDDEFLSLDLNVKIVSDLDDAIAHIREHGTQHSDAILTRDMRNAQRFVNEVDS 361
            A   E++D E+L+  L VK+V+D+D+AI HI  H +QH+++I+T D   A RF+ EVDS
Sbjct: 307 KAATEEDWDTEYLAPILAVKVVADMDEAIEHINRHSSQHTESIITEDYTRAMRFLREVDS 366

Query: 362 SAVYVNASTRFTDGGQFGLGAEVAVSTQKLHARGPMGLEALTTYKWIGIGDYTIR 416
           ++V VNASTRF DG ++GLGAE+ +S  KLHARGP+GLE LT+ K+I +G+  +R
Sbjct: 367 ASVMVNASTRFADGFEYGLGAEIGISNDKLHARGPVGLEGLTSLKYIVLGNGQVR 421


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: 427
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: 417
Length of database: 422
Length adjustment: 32
Effective length of query: 385
Effective length of database: 390
Effective search space:   150150
Effective search space used:   150150
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 HSERO_RS02965 HSERO_RS02965 (gamma-glutamyl phosphate reductase)
to HMM TIGR00407 (proA: glutamate-5-semialdehyde dehydrogenase (EC 1.2.1.41))

Software error:

../bin/blast/fastacmd -i /tmp/list.28828.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.28828.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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