GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proC in Escherichia coli BW25113

Align pyrroline-5-carboxylate reductase (characterized)
to candidate 14524 b0386 pyrroline-5-carboxylate reductase (NCBI)

Query= CharProtDB::CH_024367
         (269 letters)



>FitnessBrowser__Keio:14524
          Length = 269

 Score =  522 bits (1344), Expect = e-153
 Identities = 269/269 (100%), Positives = 269/269 (100%)

Query: 1   MEKKIGFIGCGNMGKAILGGLIASGQVLPGQIWVYTPSPDKVAALHDQFGINAAESAQEV 60
           MEKKIGFIGCGNMGKAILGGLIASGQVLPGQIWVYTPSPDKVAALHDQFGINAAESAQEV
Sbjct: 1   MEKKIGFIGCGNMGKAILGGLIASGQVLPGQIWVYTPSPDKVAALHDQFGINAAESAQEV 60

Query: 61  AQIADIIFAAVKPGIMIKVLSEITSSLNKDSLVVSIAAGVTLDQLARALGHDRKIIRAMP 120
           AQIADIIFAAVKPGIMIKVLSEITSSLNKDSLVVSIAAGVTLDQLARALGHDRKIIRAMP
Sbjct: 61  AQIADIIFAAVKPGIMIKVLSEITSSLNKDSLVVSIAAGVTLDQLARALGHDRKIIRAMP 120

Query: 121 NTPALVNAGMTSVTPNALVTPEDTADVLNIFRCFGEAEVIAEPMIHPVVGVSGSSPAYVF 180
           NTPALVNAGMTSVTPNALVTPEDTADVLNIFRCFGEAEVIAEPMIHPVVGVSGSSPAYVF
Sbjct: 121 NTPALVNAGMTSVTPNALVTPEDTADVLNIFRCFGEAEVIAEPMIHPVVGVSGSSPAYVF 180

Query: 181 MFIEAMADAAVLGGMPRAQAYKFAAQAVMGSAKMVLETGEHPGALKDMVCSPGGTTIEAV 240
           MFIEAMADAAVLGGMPRAQAYKFAAQAVMGSAKMVLETGEHPGALKDMVCSPGGTTIEAV
Sbjct: 181 MFIEAMADAAVLGGMPRAQAYKFAAQAVMGSAKMVLETGEHPGALKDMVCSPGGTTIEAV 240

Query: 241 RVLEEKGFRAAVIEAMTKCMEKSEKLSKS 269
           RVLEEKGFRAAVIEAMTKCMEKSEKLSKS
Sbjct: 241 RVLEEKGFRAAVIEAMTKCMEKSEKLSKS 269


Lambda     K      H
   0.318    0.133    0.374 

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: 423
Number of extensions: 11
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: 269
Length of database: 269
Length adjustment: 25
Effective length of query: 244
Effective length of database: 244
Effective search space:    59536
Effective search space used:    59536
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: 47 (22.7 bits)

Align candidate 14524 b0386 (pyrroline-5-carboxylate reductase (NCBI))
to HMM TIGR00112 (proC: pyrroline-5-carboxylate reductase (EC 1.5.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.3114.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.3114.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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