Alignments for a candidate for carA in Paraburkholderia phymatum STM815

Align Carbamoyl-phosphate synthase small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate WP_012400281.1 BPHY_RS04425 glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit

Query= SwissProt::P0A6F1
         (382 letters)



>NCBI__GCF_000020045.1:WP_012400281.1
          Length = 384

 Score =  498 bits (1282), Expect = e-145
 Identities = 245/373 (65%), Positives = 290/373 (77%), Gaps = 4/373 (1%)

Query: 4   SALLVLEDGTQFHGRAIGATGSAVGEVVFNTSMTGYQEILTDPSYSRQIVTLTYPHIGNV 63
           SALL L DGT F G +IGA G  +GEVVFNT++TGYQEILTDPSY+RQIVTLTYPHIGNV
Sbjct: 7   SALLALADGTVFRGYSIGAPGHTIGEVVFNTAITGYQEILTDPSYARQIVTLTYPHIGNV 66

Query: 64  GTNDADEESSQVHAQGLVIRDLPLIASNFRNTEDLSSYLKRHNIVAIADIDTRKLTRLLR 123
           G N  D E+++VHA GL+IRDLP++ASNFR    L  YLK   +VAIA IDTRKLTR+LR
Sbjct: 67  GVNAEDVEATKVHAAGLIIRDLPILASNFRMERTLPDYLKAEGVVAIAGIDTRKLTRVLR 126

Query: 124 EKGAQNGCIIAGDNPDAALALEKARAFPGLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPE 183
           +KGAQNG I+AG + D A A+E AR+FPGL GMDLAK V+T + Y W Q  W L  G   
Sbjct: 127 DKGAQNGAILAGSD-DEAKAIELARSFPGLAGMDLAKVVSTQKPYEWKQTEWRLGSGYG- 184

Query: 184 AKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMNPDGIFLSNGPG 243
              ++   + VVA+D+G K NILRML +RGC++T++PAQ SA D L +NPDG+FLSNGPG
Sbjct: 185 --MQNTPRYRVVAFDYGVKYNILRMLAERGCQVTVLPAQASAADALALNPDGVFLSNGPG 242

Query: 244 DPAPCDYAITAIQKFLETDIPVFGICLGHQLLALASGAKTVKMKFGHHGGNHPVKDVEKN 303
           DP PCDYAI A ++F+E  IP FGICLGHQ++ LA GAKT+KMK GHHG NHPVKD++  
Sbjct: 243 DPEPCDYAIAATREFIERGIPTFGICLGHQIMGLAVGAKTMKMKTGHHGANHPVKDLQDG 302

Query: 304 VVMITAQNHGFAVDEATLPANLRVTHKSLFDGTLQGIHRTDKPAFSFQGHPEASPGPHDA 363
            V+IT+QNHGFAVD  TLPAN +VTH SLFDGTLQG   TDKPAF FQGHPEASPGPHD 
Sbjct: 303 RVVITSQNHGFAVDADTLPANAKVTHVSLFDGTLQGFALTDKPAFCFQGHPEASPGPHDI 362

Query: 364 APLFDHFIELIEQ 376
           A LFD F  L++Q
Sbjct: 363 AYLFDRFTALMDQ 375


Lambda     K      H
   0.318    0.135    0.400 

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: 497
Number of extensions: 14
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: 382
Length of database: 384
Length adjustment: 30
Effective length of query: 352
Effective length of database: 354
Effective search space:   124608
Effective search space used:   124608
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 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate WP_012400281.1 BPHY_RS04425 (glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit)
to HMM TIGR01368 (carA: carbamoyl-phosphate synthase, small subunit (EC 6.3.5.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.12172.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.12172.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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