Alignments for a candidate for carA in Thioalkalivibrio paradoxus ARh 1

Align Carbamoyl-phosphate synthase small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate WP_006748500.1 THITH_RS12630 glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit

Query= SwissProt::P0A6F1
         (382 letters)



>NCBI__GCF_000227685.2:WP_006748500.1
          Length = 377

 Score =  523 bits (1346), Expect = e-153
 Identities = 253/378 (66%), Positives = 295/378 (78%), Gaps = 2/378 (0%)

Query: 1   MIKSALLVLEDGTQFHGRAIGATGSAVGEVVFNTSMTGYQEILTDPSYSRQIVTLTYPHI 60
           M   A+LVLEDGT FHG+++GA G  VGEVVFNTSMTGYQEILTDPSY+RQIVTLTYPHI
Sbjct: 1   MSAPAVLVLEDGTVFHGQSVGAAGETVGEVVFNTSMTGYQEILTDPSYARQIVTLTYPHI 60

Query: 61  GNVGTNDADEESSQVHAQGLVIRDLPLIASNFRNTEDLSSYLKRHNIVAIADIDTRKLTR 120
           GNVGT   D+ES++VHA GL++RD+P + SN+R+ E L  +L RH +VAIA IDTR+LTR
Sbjct: 61  GNVGTTPEDDESAKVHAAGLIVRDVPPLVSNWRSRESLPDFLMRHGVVAIAGIDTRRLTR 120

Query: 121 LLREKGAQNGCIIAGDNPDAALALEKARAFPGLNGMDLAKEVTTAEAYSWTQGSWTLTGG 180
           +LREKGAQN C+  G+  D   ALE+ARAFPG+ GMDLA+EV+TA  Y W  G W L G 
Sbjct: 121 ILREKGAQNACLQGGE-VDTGRALEQARAFPGIKGMDLAREVSTANRYEWLDGPWRLDGP 179

Query: 181 LPEAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMNPDGIFLSN 240
            P+    D+  FHVVAYDFG K NILRMLV RGCR+T+VPA+T A+D L + PDGIFLSN
Sbjct: 180 APQLPP-DQAEFHVVAYDFGIKHNILRMLVGRGCRVTVVPAETPADDALALEPDGIFLSN 238

Query: 241 GPGDPAPCDYAITAIQKFLETDIPVFGICLGHQLLALASGAKTVKMKFGHHGGNHPVKDV 300
           GPGDP PCDYAI  I++F     PVFGICLGHQLL LASGA TVKMKFGHHG NHP++D+
Sbjct: 239 GPGDPEPCDYAIATIRRFCAEKRPVFGICLGHQLLGLASGASTVKMKFGHHGANHPIQDL 298

Query: 301 EKNVVMITAQNHGFAVDEATLPANLRVTHKSLFDGTLQGIHRTDKPAFSFQGHPEASPGP 360
               VMI++QNHGFAVDEA LP  L  TH+SLFDG+LQGI R+D PAF FQGHPEASPGP
Sbjct: 299 RSGRVMISSQNHGFAVDEANLPETLVATHRSLFDGSLQGIARSDCPAFGFQGHPEASPGP 358

Query: 361 HDAAPLFDHFIELIEQYR 378
           HD AP FD FI  +   R
Sbjct: 359 HDVAPGFDEFIAAMRTAR 376


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: 520
Number of extensions: 17
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: 377
Length adjustment: 30
Effective length of query: 352
Effective length of database: 347
Effective search space:   122144
Effective search space used:   122144
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_006748500.1 THITH_RS12630 (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.15349.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.15349.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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