GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argC in Pedobacter sp. GW460-11-11-14-LB5

Align N-acetyl-gamma-glutamyl-phosphate reductase; AGPR; EC 1.2.1.38; N-acetyl-glutamate semialdehyde dehydrogenase; NAGSA dehydrogenase (uncharacterized)
to candidate CA265_RS18540 CA265_RS18540 N-acetyl-gamma-glutamyl-phosphate reductase

Query= curated2:A6KXY5
         (322 letters)



>FitnessBrowser__Pedo557:CA265_RS18540
          Length = 326

 Score =  401 bits (1031), Expect = e-116
 Identities = 196/325 (60%), Positives = 246/325 (75%), Gaps = 5/325 (1%)

Query: 2   IKAGIIGGAGYTAGELIRLLINHPDVDIKFINSSSNAGNKITDVHEGLYGETDLVFTDEL 61
           IKAGIIGGAGYT GE++R+L+NHP+V+I F+NS+SNAGN I+DVH  L G+TDL F  ++
Sbjct: 3   IKAGIIGGAGYTGGEMLRILVNHPNVEIAFVNSTSNAGNLISDVHTDLIGDTDLKFVSDI 62

Query: 62  PLDEIDVLFFCTAHGDTKKFMDSHNVPEDLKIIDLSMDYRIKSD----DHDFIYGLPELN 117
           P D IDVLF C  HGD KKF+ ++ + +++KIIDLS D+R+ ++      DF+YGLPELN
Sbjct: 63  PQD-IDVLFLCVGHGDAKKFLTANPIKDNIKIIDLSQDFRLHANASFSTKDFVYGLPELN 121

Query: 118 RRAICHSKHVANPGCFATCIQLGLLPLAKHLLLNEDIMVNAITGSTGAGVKPGATSHFSW 177
           R  I  +K++ANPGCFATCIQLGLLPLA   L+  ++ +NA TGSTGAG     TSHFSW
Sbjct: 122 RDKIKAAKNIANPGCFATCIQLGLLPLAAKGLIQNEVHINATTGSTGAGQSLSTTSHFSW 181

Query: 178 RNNNMSIYKPFSHQHVPEIKQSLKQLQNSFNAEIDFIPYRGDFPRGIFATLVVKCKVELE 237
           RNNN+SIYK F HQH+ EI +SL QLQ S +  ++FIP RG F RGI A + ++  + LE
Sbjct: 182 RNNNLSIYKAFEHQHLNEISESLLQLQPSISEALNFIPQRGAFTRGILAAMYLESDLSLE 241

Query: 238 ELVKMYQDYYAEDSFVHIVDKNIDLKQVVNTNKCLIHLEKHGDKLLVISCIDNLLKGASG 297
           E   +Y+ YY+   F H+  KNIDLKQVVNTNK L+HLEKHG KL +IS IDNLLKGASG
Sbjct: 242 EAQNIYEAYYSAHPFTHVSRKNIDLKQVVNTNKALVHLEKHGGKLFIISIIDNLLKGASG 301

Query: 298 QAVHNMNLMFNLEETVGLRLKPSAF 322
           QAV NMNLMF L+ET GL+LK + F
Sbjct: 302 QAVQNMNLMFGLDETAGLKLKAAYF 326


Lambda     K      H
   0.321    0.139    0.417 

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: 334
Number of extensions: 9
Number of successful extensions: 3
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: 322
Length of database: 326
Length adjustment: 28
Effective length of query: 294
Effective length of database: 298
Effective search space:    87612
Effective search space used:    87612
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: 48 (23.1 bits)

Align candidate CA265_RS18540 CA265_RS18540 (N-acetyl-gamma-glutamyl-phosphate reductase)
to HMM TIGR01850 (argC: N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38))

Software error:

../bin/blast/fastacmd -i /tmp/list.27731.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27731.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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