GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argG in Shewanella amazonensis SB2B

Align argininosuccinate synthase (EC 6.3.4.5) (characterized)
to candidate 6936062 Sama_0259 argininosuccinate synthase (RefSeq)

Query= BRENDA::A4I066
         (418 letters)



>FitnessBrowser__SB2B:6936062
          Length = 407

 Score =  418 bits (1075), Expect = e-121
 Identities = 210/394 (53%), Positives = 274/394 (69%), Gaps = 3/394 (0%)

Query: 15  RVVLAYSGGLDTSVIIPWLKENYDY-EVIACCANVGQGAGEIDGLEEKAKKSGASKLYLL 73
           +VVLAYSGGLDTS IIPWLKENYD  E++A CA+VGQG  E+ GL EKA  SGAS+ +++
Sbjct: 12  KVVLAYSGGLDTSAIIPWLKENYDNCEIVAFCADVGQGEEELVGLTEKALASGASECHIV 71

Query: 74  DLREEYVTDYIFPTLKAGATYEGKYMLGTSHARPLIAKHLVEVAHKEGAVAICHGATGKG 133
           DL+EE+V DYI+PT+  GA YEG Y+LGTS ARP+IAK  VEVA K GA A+CHG TGKG
Sbjct: 72  DLKEEFVKDYIYPTIATGAIYEGTYLLGTSMARPIIAKAQVEVARKVGADALCHGCTGKG 131

Query: 134 NDQVRFELAVMALDPSLKCVAPWREWNIKSREDAIDYAEAHGVPVPCTKSDLYSRDRNLW 193
           NDQVRFE    AL P LK +APWREW+++SRED + Y     +    + + +YSRD N W
Sbjct: 132 NDQVRFEGCFAALAPDLKVIAPWREWDMESREDLLAYLAERNIKTSASATKIYSRDANAW 191

Query: 194 HISHEGMDLEDPANEPAYARLLRLCNTVEKAPDEAEYVTVQFEKGIPVAVNGRKMSSVEL 253
           HISHEG +LEDP NEP+        + ++ APDE EYVT++ E      VNG  +S  + 
Sbjct: 192 HISHEGGELEDPWNEPSKQVWTMTVDPLD-APDEPEYVTLKIENARVTEVNGEALSPYQA 250

Query: 254 VEELNALGGKHAIGIEDIVEDRLVGMKSRGVYETPAGTILYKALDMLESLCLDRDTQSFK 313
           + +LNA+   H +G  DI E+RLVGMKSRG YETP GT+++ AL  +E L LD+ ++ ++
Sbjct: 251 LMKLNAIAAPHGVGRIDITENRLVGMKSRGCYETPGGTVMFAALRAVEELVLDKSSREWR 310

Query: 314 RQSAVRFSELVYDGKWFTPLRESMSAMFDQMAETVTGEATLKLYKGNLVPAGAQSPYSLY 373
            Q A R + LVYDG+WFTPL +S+ A  + +A  V GE  +KLYKG  VP   +SP SLY
Sbjct: 311 EQVAARMAHLVYDGRWFTPLCDSLLAASESLATMVNGEVVVKLYKGQAVPVKKRSPNSLY 370

Query: 374 NKNIASFGDSQHLYNHHDAEGFIRLFGLPLRVRS 407
           ++  A+FG    +Y+   AEGFIRL+ L  R+R+
Sbjct: 371 SEAFATFGQDS-VYDQKHAEGFIRLYSLASRIRA 403


Lambda     K      H
   0.317    0.134    0.397 

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: 475
Number of extensions: 13
Number of successful extensions: 4
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: 418
Length of database: 407
Length adjustment: 31
Effective length of query: 387
Effective length of database: 376
Effective search space:   145512
Effective search space used:   145512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)

Align candidate 6936062 Sama_0259 (argininosuccinate synthase (RefSeq))
to HMM TIGR00032 (argG: argininosuccinate synthase (EC 6.3.4.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.31451.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.31451.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.