GapMind for catabolism of small carbon sources

 

Alignments for a candidate for astA in Pseudomonas simiae WCS417

Align Arginine N-succinyltransferase; AST; AOST; EC 2.3.1.109 (characterized)
to candidate GFF4236 PS417_21700 arginine N-succinyltransferase

Query= SwissProt::P0AE37
         (344 letters)



>FitnessBrowser__WCS417:GFF4236
          Length = 341

 Score =  331 bits (849), Expect = 1e-95
 Identities = 168/342 (49%), Positives = 234/342 (68%), Gaps = 2/342 (0%)

Query: 2   MVIRPVERSDVSALMQLASKTGGGLTSLPANEATLSARIERAIKTWQGELPKSEQGYVFV 61
           M++RPV  SD+ AL+ LA  TG GLT+LPANE  L+ R+  A KT++G+  + +  Y+FV
Sbjct: 1   MIVRPVRSSDLPALIDLARSTGTGLTTLPANEERLTHRVGWAEKTFRGDAGRGDADYLFV 60

Query: 62  LEDSETGTVAGICAIEVAVGLNDPWYNYRVGTLVHASKELNVYNALPTLFLSNDHTGSSE 121
           LE+ E G V GI AI  AVGL +PWYN+RVG  V AS+ELN+Y  +PTLFL+ND TG+SE
Sbjct: 61  LENDE-GRVVGISAIAGAVGLREPWYNFRVGLTVSASQELNIYREIPTLFLANDLTGNSE 119

Query: 122 LCTLFLDPDWRKEGNGYLLSKSRFMFMAAFRDKFNDKVVAEMRGVIDEHGYSPFWQSLGK 181
           LC+LFL  D+R   NG +L+K+R +F+A F   F +K++AEMRGV ++ G SPFW+SLG+
Sbjct: 120 LCSLFLHADYRTGLNGRMLAKARLLFIAEFPHLFGNKIIAEMRGVSNDAGRSPFWESLGR 179

Query: 182 RFFSMDFSRADFLCGTGQKAFIAELMPKHPIYTHFLSQEAQDVIGQVHPQTAPARAVLEK 241
            FF M+FS+AD+L G G KAFIAELMPK P+Y+ FLS++A++VIG+VHP T PA ++L+ 
Sbjct: 180 HFFKMEFSQADYLTGVGNKAFIAELMPKFPLYSCFLSEDARNVIGKVHPDTEPALSMLKS 239

Query: 242 EGFRYRNYIDIFDGGPTLECDIDRVRAIRKSRLVEVAEGQPAQGDFPACLVANENYHHFR 301
           EGF Y+ Y+DIFD GP +EC+  ++RA+R S+ + +A G P   D    L+ N      R
Sbjct: 240 EGFSYQGYVDIFDAGPAVECETTKIRAVRDSQSLVLAIGTPGD-DATPFLIHNRKREECR 298

Query: 302 VVLVRTDPATERLILTAAQLDALKCHAGDRVRLVRLCAEEKT 343
           +       A   L++       L+   GD+VR V L A  ++
Sbjct: 299 ITAAPARLAAGTLVVDPQTAKRLQLVVGDQVRAVPLSAARES 340


Lambda     K      H
   0.321    0.136    0.411 

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: 373
Number of extensions: 19
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: 344
Length of database: 341
Length adjustment: 29
Effective length of query: 315
Effective length of database: 312
Effective search space:    98280
Effective search space used:    98280
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 (21.9 bits)
S2: 49 (23.5 bits)

Align candidate GFF4236 PS417_21700 (arginine N-succinyltransferase)
to HMM TIGR03244 (astA: arginine N-succinyltransferase (EC 2.3.1.109))

Software error:

../bin/blast/fastacmd -i /tmp/list.10938.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.10938.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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