Alignments for a candidate for carA in Pseudomonas fluorescens FW300-N1B4

Align Carbamoyl-phosphate synthase small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate Pf1N1B4_1173 Carbamoyl-phosphate synthase small chain (EC 6.3.5.5)

Query= SwissProt::P0A6F1
         (382 letters)



>FitnessBrowser__pseudo1_N1B4:Pf1N1B4_1173
          Length = 378

 Score =  536 bits (1380), Expect = e-157
 Identities = 262/378 (69%), Positives = 300/378 (79%)

Query: 1   MIKSALLVLEDGTQFHGRAIGATGSAVGEVVFNTSMTGYQEILTDPSYSRQIVTLTYPHI 60
           + K A+L L DG+ F G AIGA G  VGEVVFNT+MTGYQEILTDPSY++QIVTLTYPHI
Sbjct: 1   LTKPAILALADGSIFRGEAIGADGQTVGEVVFNTAMTGYQEILTDPSYAQQIVTLTYPHI 60

Query: 61  GNVGTNDADEESSQVHAQGLVIRDLPLIASNFRNTEDLSSYLKRHNIVAIADIDTRKLTR 120
           GN GT   D ES +V + GLVIRDLPL+ASN+RNT  LS YLK +N+VAIA IDTR+LTR
Sbjct: 61  GNTGTTPEDAESDRVWSAGLVIRDLPLVASNWRNTMSLSDYLKANNVVAIAGIDTRRLTR 120

Query: 121 LLREKGAQNGCIIAGDNPDAALALEKARAFPGLNGMDLAKEVTTAEAYSWTQGSWTLTGG 180
           +LREKGAQNGCI+AGDN     A+  A+ FPGL GMDLAK V+T E Y W    W L   
Sbjct: 121 ILREKGAQNGCIMAGDNISEEAAIAAAQGFPGLKGMDLAKVVSTKEKYEWRSTVWDLKTD 180

Query: 181 LPEAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMNPDGIFLSN 240
                +  ELP+HVVAYD+G K NILRMLV+RGCR+T+VPAQT A + L + PDG+FLSN
Sbjct: 181 SHATLEASELPYHVVAYDYGVKVNILRMLVERGCRVTVVPAQTPAAEALALKPDGVFLSN 240

Query: 241 GPGDPAPCDYAITAIQKFLETDIPVFGICLGHQLLALASGAKTVKMKFGHHGGNHPVKDV 300
           GPGDP PCDYAI AI+  LET+IPVFGICLGHQLLALASGAKT+KM  GHHG NHPV+D+
Sbjct: 241 GPGDPEPCDYAIQAIKDVLETEIPVFGICLGHQLLALASGAKTLKMGHGHHGANHPVQDL 300

Query: 301 EKNVVMITAQNHGFAVDEATLPANLRVTHKSLFDGTLQGIHRTDKPAFSFQGHPEASPGP 360
           +  VVMIT+QNHGFAVDEATLP N+R  HKSLFDGTLQGI RTDK AFSFQGHPEASPGP
Sbjct: 301 DSGVVMITSQNHGFAVDEATLPGNVRAIHKSLFDGTLQGIERTDKSAFSFQGHPEASPGP 360

Query: 361 HDAAPLFDHFIELIEQYR 378
           +D APLFD FI  + + R
Sbjct: 361 NDVAPLFDRFINEMAKRR 378


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: 515
Number of extensions: 9
Number of successful extensions: 1
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: 378
Length adjustment: 30
Effective length of query: 352
Effective length of database: 348
Effective search space:   122496
Effective search space used:   122496
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 Pf1N1B4_1173 (Carbamoyl-phosphate synthase small chain (EC 6.3.5.5))
to HMM TIGR01368 (carA: carbamoyl-phosphate synthase, small subunit (EC 6.3.5.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.10935.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.10935.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.