GapMind for catabolism of small carbon sources

 

Alignments for a candidate for astA in Burkholderia phytofirmans PsJN

Align Arginine N-succinyltransferase; AST; AOST; EC 2.3.1.109 (characterized)
to candidate BPHYT_RS07705 BPHYT_RS07705 arginine succinyltransferase

Query= SwissProt::P0AE37
         (344 letters)



>FitnessBrowser__BFirm:BPHYT_RS07705
          Length = 346

 Score =  320 bits (819), Expect = 4e-92
 Identities = 162/341 (47%), Positives = 227/341 (66%), Gaps = 8/341 (2%)

Query: 1   MMVIRPVERSDVSALMQLASKTGGGLTSLPANEATLSARIERAIKTWQGELPKSEQGYVF 60
           M+V+R V+R DV ALM+LA +TG GLT+   +   L+AR+ERA +T + +    E GY F
Sbjct: 1   MIVVRVVQRGDVDALMRLAQETGPGLTTFKPDRDALAARVERARRTMEDKAEAHEAGYFF 60

Query: 61  VLEDSETGTVAGICAIEVAVGLNDPWYNYRVGTLVHASKELNVYNALPTLFLSNDHTGSS 120
           V+ED++TG VAG+C IE AVGL  P+YNYRV T+VHAS++L ++  +  L +S+D TG +
Sbjct: 61  VMEDTDTGDVAGVCGIETAVGLQQPFYNYRVSTVVHASQDLGIWTRMRALNISHDLTGYA 120

Query: 121 ELCTLFLDPDWRKEGNGYLLSKSRFMFMAAFRDKFNDKVVAEMRGVIDEHGYSPFWQSLG 180
           E+C+LFL P +R  G G LLS+SRFMF+A FR++F  ++ AE+RG  D  G SPFW+++G
Sbjct: 121 EVCSLFLSPRYRTSGVGGLLSRSRFMFLAQFRERFPQRLCAELRGHFDAEGTSPFWRAVG 180

Query: 181 KRFFSMDFSRADFLCGTGQKAFIAELMPKHPIYTHFLSQEAQDVIGQVHPQTAPARAVLE 240
             F+ +DF+ AD+L   G+KAF+AELMP++P+Y   L +EAQ  +G  H  T PAR +LE
Sbjct: 181 SHFYQIDFNAADYLSSHGRKAFLAELMPRYPVYVELLPEEAQQCVGLTHNDTIPARRMLE 240

Query: 241 KEGFRYRNYIDIFDGGPTLECDIDRVRAIRKSRLVEV------AEGQPAQGDFPACLVAN 294
            EG RY N++DIFD GP LEC I  +R +R+S +V V      A G P  G  P  +V+N
Sbjct: 241 SEGLRYENHVDIFDAGPVLECHIADLRTVRESVVVPVEIAPSSASGAPQDG--PKSMVSN 298

Query: 295 ENYHHFRVVLVRTDPATERLILTAAQLDALKCHAGDRVRLV 335
            +   FRV +V   P      L+A +  AL   AGD VR++
Sbjct: 299 TSLGDFRVGVVAGVPQDGVFRLSATEAAALDVKAGDLVRVL 339


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: 348
Number of extensions: 8
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: 346
Length adjustment: 29
Effective length of query: 315
Effective length of database: 317
Effective search space:    99855
Effective search space used:    99855
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 BPHYT_RS07705 BPHYT_RS07705 (arginine succinyltransferase)
to HMM TIGR03244 (astA: arginine N-succinyltransferase (EC 2.3.1.109))

Software error:

../bin/blast/fastacmd -i /tmp/list.18748.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.18748.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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