GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argC in Shewanella oneidensis MR-1

Align N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38) (characterized)
to candidate 199470 SO0275 N-acetyl-gamma-glutamyl-phosphate reductase (NCBI ptt file)

Query= BRENDA::P11446
         (334 letters)



>FitnessBrowser__MR1:199470
          Length = 326

 Score =  298 bits (762), Expect = 2e-85
 Identities = 165/329 (50%), Positives = 208/329 (63%), Gaps = 9/329 (2%)

Query: 1   MLNTLIVGASGYAGAELVTYVNRHPHMNITALTVSAQSNDAGKLISDLHPQLKGIVDLPL 60
           M N  I+GASGY GA+L   V+    ++I  L VS  S D G+ ++DL+P    I +L L
Sbjct: 1   MKNIAIIGASGYTGAQLTALVHAESELSIQGLYVSENSLDKGRALADLYPVYSHI-ELTL 59

Query: 61  QPMSDISEFS--PGVDVVFLATAHEVSHDLAPQFLEAGCVVFDLSGAFRVNDATFYEKYY 118
            P+++ ++ +     D V LAT H VS  LA  F   G  VFDLSGA+R +D   Y K+Y
Sbjct: 60  SPLTEEAKANIVAEADAVVLATEHSVSLHLAAWFYSQGLAVFDLSGAYRFSDVAQYPKWY 119

Query: 119 GFTHQYPELLEQAAYGLAEWCGNKLKEANLIAVPGCYPTAAQLALKPLIDADLLDLNQWP 178
           GF H+YPE+L +A YGLAEW    +    +IAVPGCYPTA+  ALKPL +   L  + +P
Sbjct: 120 GFEHEYPEVLAKAVYGLAEWNAKDVAATKMIAVPGCYPTASLTALKPLKN---LLTSAYP 176

Query: 179 VINATSGVSGAGRKAAISNSFCEVSLQPYGVFTHRHQPEIATHLGADVIFTPHLGNFPRG 238
           VINA SGV+GAGRKA +  SFCEVSL PYGV  HRHQPEIAT LG +VIFTPHLGNF RG
Sbjct: 177 VINAVSGVTGAGRKAQLHTSFCEVSLTPYGVLGHRHQPEIATQLGQEVIFTPHLGNFKRG 236

Query: 239 ILETITCRLKSGVTQAQVAQVLQQAYAHKPLVRLYDKGVPALKNVVGLPFCDIG--FAVQ 296
           IL TIT +LK G T A VA      Y   PLV +     P + +VV  P C +G  F   
Sbjct: 237 ILATITVQLKPGTTTADVA-AAYSVYDQAPLVTVKQNQFPKVDDVVLTPNCHLGWKFDES 295

Query: 297 GEHLIIVATEDNLLKGAAAQAVQCANIRF 325
             +L++ +  DNL+KGAA+QA+QC  I F
Sbjct: 296 SGYLVVASAIDNLMKGAASQALQCIKIHF 324


Lambda     K      H
   0.321    0.136    0.409 

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: 353
Number of extensions: 11
Number of successful extensions: 5
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: 334
Length of database: 326
Length adjustment: 28
Effective length of query: 306
Effective length of database: 298
Effective search space:    91188
Effective search space used:    91188
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 199470 SO0275 (N-acetyl-gamma-glutamyl-phosphate reductase (NCBI ptt file))
to HMM TIGR01850 (argC: N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38))

Software error:

../bin/blast/fastacmd -i /tmp/list.1367.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.1367.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.