GapMind for Amino acid biosynthesis

 

Alignments for a candidate for PAH in Shewanella amazonensis SB2B

Align Phenylalanine 4-monooxygenase (EC 1.14.16.1) (characterized)
to candidate 6938101 Sama_2222 phenylalanine 4-monooxygenase (RefSeq)

Query= reanno::MR1:200831
         (271 letters)



>FitnessBrowser__SB2B:6938101
          Length = 263

 Score =  416 bits (1068), Expect = e-121
 Identities = 200/258 (77%), Positives = 230/258 (89%), Gaps = 1/258 (0%)

Query: 11  YVARSADDSGYIHYPQEEHDIWRQLYARQAVNLPGRACKEYLQGLDALAMPKDRIPQLAE 70
           YVAR  D  G I YP +E++IW +LYARQAVNLPGRAC+EYL GL+ LA+PKDR+PQLAE
Sbjct: 5   YVARKPDAHGVIAYPDQENEIWAELYARQAVNLPGRACQEYLDGLERLALPKDRVPQLAE 64

Query: 71  IDKVLMATTGWKTADVPALISFGRFFELLANKEFPVATFIRRKEEFDYLQEPDIFHEIFG 130
           +D+VL+ TTGWKTA VPALISF RFFELLA+++FPVATFIR +EEFDYLQEPDIFHEIFG
Sbjct: 65  VDEVLLDTTGWKTAAVPALISFERFFELLASRQFPVATFIRSREEFDYLQEPDIFHEIFG 124

Query: 131 HCPLLTNPSFAHFSHMYGQLGLNASKEDRVFLARLYWFTVEFGLLKPQEGELCIYGGGIL 190
           HCPLLTNP+FA+FSH+YG+LGL A+KE+RV+LARLYWFTVEFGLLKP++GEL IYGGGIL
Sbjct: 125 HCPLLTNPAFANFSHIYGKLGLAATKEERVYLARLYWFTVEFGLLKPRDGELRIYGGGIL 184

Query: 191 SSPGETLYAMESQVPERKPFDLLDVLRTPYRIDIMQPIYYVIEHIDVLDEIAKMDIMAYV 250
           SSPGETLYAM  + P RKPFDLLDVLRTPYRIDIMQP+Y+ IEHID LDEIA+MDIM  V
Sbjct: 185 SSPGETLYAMGDK-PLRKPFDLLDVLRTPYRIDIMQPVYFEIEHIDFLDEIARMDIMQSV 243

Query: 251 AKARQLGLFAPKYPPKAK 268
            +ARQLGL AP + PKAK
Sbjct: 244 TRARQLGLHAPLFEPKAK 261


Lambda     K      H
   0.323    0.140    0.430 

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: 323
Number of extensions: 7
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: 271
Length of database: 263
Length adjustment: 25
Effective length of query: 246
Effective length of database: 238
Effective search space:    58548
Effective search space used:    58548
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)

Align candidate 6938101 Sama_2222 (phenylalanine 4-monooxygenase (RefSeq))
to HMM TIGR01267 (phhA: phenylalanine-4-hydroxylase (EC 1.14.16.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.27745.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27745.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.