GapMind for catabolism of small carbon sources

 

Alignments for a candidate for pta in Escherichia coli BW25113

Align ethanolamine utilization protein eutD (characterized)
to candidate 16557 b2458 predicted phosphotransacetylase subunit (NCBI)

Query= CharProtDB::CH_024378
         (338 letters)



>FitnessBrowser__Keio:16557
          Length = 338

 Score =  659 bits (1701), Expect = 0.0
 Identities = 338/338 (100%), Positives = 338/338 (100%)

Query: 1   MIIERCRELALRAPARVVFPDALDQRVLKAAQYLHQQGLATPILVANPFELRQFALSHGV 60
           MIIERCRELALRAPARVVFPDALDQRVLKAAQYLHQQGLATPILVANPFELRQFALSHGV
Sbjct: 1   MIIERCRELALRAPARVVFPDALDQRVLKAAQYLHQQGLATPILVANPFELRQFALSHGV 60

Query: 61  AMDGLQVIDPHGNLAMREEFAHRWLARAGEKTPPDALEKLTDPLMFAAAMVSAGKADVCI 120
           AMDGLQVIDPHGNLAMREEFAHRWLARAGEKTPPDALEKLTDPLMFAAAMVSAGKADVCI
Sbjct: 61  AMDGLQVIDPHGNLAMREEFAHRWLARAGEKTPPDALEKLTDPLMFAAAMVSAGKADVCI 120

Query: 121 AGNLSSTANVLRAGLRIIGLQPGCKTLSSIFLMLPQYSGPALGFADCSVVPQPTAAQLAD 180
           AGNLSSTANVLRAGLRIIGLQPGCKTLSSIFLMLPQYSGPALGFADCSVVPQPTAAQLAD
Sbjct: 121 AGNLSSTANVLRAGLRIIGLQPGCKTLSSIFLMLPQYSGPALGFADCSVVPQPTAAQLAD 180

Query: 181 IALASAETWRAITGEEPRVAMLSFSSNGSARHPCVANVQQATEIVRERAPKLVVDGELQF 240
           IALASAETWRAITGEEPRVAMLSFSSNGSARHPCVANVQQATEIVRERAPKLVVDGELQF
Sbjct: 181 IALASAETWRAITGEEPRVAMLSFSSNGSARHPCVANVQQATEIVRERAPKLVVDGELQF 240

Query: 241 DAAFVPEVAAQKAPASPLQGKANVMVFPSLEAGNIGYKIAQRLGGYRAVGPLIQGLAAPM 300
           DAAFVPEVAAQKAPASPLQGKANVMVFPSLEAGNIGYKIAQRLGGYRAVGPLIQGLAAPM
Sbjct: 241 DAAFVPEVAAQKAPASPLQGKANVMVFPSLEAGNIGYKIAQRLGGYRAVGPLIQGLAAPM 300

Query: 301 HDLSRGCSVQEIIELALVAAVPRQTEVNRESSLQTLVE 338
           HDLSRGCSVQEIIELALVAAVPRQTEVNRESSLQTLVE
Sbjct: 301 HDLSRGCSVQEIIELALVAAVPRQTEVNRESSLQTLVE 338


Lambda     K      H
   0.320    0.134    0.387 

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: 521
Number of extensions: 10
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: 338
Length of database: 338
Length adjustment: 28
Effective length of query: 310
Effective length of database: 310
Effective search space:    96100
Effective search space used:    96100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)

Align candidate 16557 b2458 (predicted phosphotransacetylase subunit (NCBI))
to HMM TIGR00651 (pta: phosphate acetyltransferase (EC 2.3.1.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.11060.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11060.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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