GapMind for Amino acid biosynthesis

 

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

Align Argininosuccinate synthase; Citrulline--aspartate ligase; EC 6.3.4.5 (characterized)
to candidate 199473 SO0278 argininosuccinate synthase (NCBI ptt file)

Query= SwissProt::P59846
         (400 letters)



>FitnessBrowser__MR1:199473
          Length = 407

 Score =  422 bits (1085), Expect = e-123
 Identities = 213/393 (54%), Positives = 274/393 (69%), Gaps = 2/393 (0%)

Query: 2   KIVLAYSGGLDTSIILKWLKETY-RAEVIAFTADIGQGEE-VEEAREKALRTGASKAIAL 59
           K+VLAYSGGLDTS I+ WLKE Y   E+IAF AD+GQGEE +    EKAL +GAS+   +
Sbjct: 12  KVVLAYSGGLDTSAIIPWLKENYDNCEIIAFCADVGQGEEELIGLTEKALASGASECHIV 71

Query: 60  DLKEEFVRDFVFPMMRAGAVYEGYYLLGTSIARPLIAKHLVRIAEEEGAEAIAHGATGKG 119
           DLKEEFV+D+++P M  GA+YEG YLLGTS+ARP+IAK  V +A + GA+A+ HG TGKG
Sbjct: 72  DLKEEFVKDYIYPTMATGAIYEGTYLLGTSMARPIIAKAQVEVARKVGADALCHGCTGKG 131

Query: 120 NDQVRFELTAYALKPDIKVIAPWREWSFQGRKEMIAYAEAHGIPVPVTQEKPYSMDANLL 179
           NDQVRFE    AL PD+KVIAPWREW+ Q R++++AY     I    +  K YS DAN  
Sbjct: 132 NDQVRFEGCFAALAPDLKVIAPWREWTMQSREDLLAYLAERNIKTSASATKIYSRDANAF 191

Query: 180 HISYEGGVLEDPWAEPPKGMFRMTQDPEEAPDAPEYVEVEFFEGDPVAVNGERLSPAALL 239
           HIS+EGG LEDPW EP KG++ +T DPE+AP+  EYV +E   G    VNGE L+P A L
Sbjct: 192 HISHEGGELEDPWNEPSKGVWTLTADPEDAPNQAEYVSLEVENGRVTKVNGEALTPYAAL 251

Query: 240 QRLNEIGGRHGVGRVDIVENRFVGMKSRGVYETPGGTILYHARRAVESLTLDREVLHQRD 299
            +LN I   HGVGR+DI ENR VGMKSRG YETPGGT+++ A RA+E L LD+   + R+
Sbjct: 252 MKLNAIAAPHGVGRIDITENRLVGMKSRGCYETPGGTVMFAALRAIEELVLDKTSRNWRE 311

Query: 300 MLSPKYAELVYYGFWYAPEREALQAYFDHVARSVTGVARLKLYKGNVYVVGRKAPKSLYR 359
            +  + A LVY G W+ P  ++L A  + +A SV G   +KLYKG+   V +++P SLY 
Sbjct: 312 QVGAQMAHLVYDGRWFTPLCKSLLAASESLAESVNGEVVVKLYKGHAIAVKKRSPNSLYS 371

Query: 360 QDLVSFDEAGGYDQKDAEGFIKIQALRLRVRAL 392
           +   +F E   YDQK AEGFI++ +L  R+RAL
Sbjct: 372 EAFATFGEDQVYDQKHAEGFIRLYSLASRIRAL 404


Lambda     K      H
   0.319    0.137    0.402 

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: 436
Number of extensions: 15
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: 400
Length of database: 407
Length adjustment: 31
Effective length of query: 369
Effective length of database: 376
Effective search space:   138744
Effective search space used:   138744
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 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate 199473 SO0278 (argininosuccinate synthase (NCBI ptt file))
to HMM TIGR00032 (argG: argininosuccinate synthase (EC 6.3.4.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.17901.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.17901.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.