GapMind for catabolism of small carbon sources

 

Alignments for a candidate for arcB in Magnetospirillum magneticum AMB-1

Align ornithine carbamoyltransferase (EC 2.1.3.3) (characterized)
to candidate WP_011382764.1 AMB_RS01610 ornithine carbamoyltransferase

Query= BRENDA::Q98BB6
         (303 letters)



>NCBI__GCF_000009985.1:WP_011382764.1
          Length = 305

 Score =  341 bits (874), Expect = 1e-98
 Identities = 172/298 (57%), Positives = 210/298 (70%), Gaps = 4/298 (1%)

Query: 4   RHFTDLSTVSEGDLRFMLDDAVVRKARLKAGERTRPLEGKVLAMIFDKPSTRTRVSFDVG 63
           RHF DL       LR +LD  +  K   +      PL GK+LAMIF+KPSTRTRVSF+VG
Sbjct: 11  RHFLDLDGFDTATLRHILDLGLAYK---QGKGPKAPLAGKMLAMIFEKPSTRTRVSFEVG 67

Query: 64  MRQLGGETIMLTGTEMQLGRSETIADTAKVLSRYVDAIMIRTTSHDRLLELTENATVPVI 123
           M+QLGG+ IML   + QLGR ETIADTA+VLSR+VDA+MIRT   ++L EL + A VPVI
Sbjct: 68  MKQLGGDVIMLAAGDTQLGRGETIADTARVLSRFVDAVMIRTNLPEKLTELAKYADVPVI 127

Query: 124 NGLTDDTHPCQLMADIMTFEEHRGPVAGKTIAWTGDGNNVLHSLLEASARFRFNLNVAVP 183
           NGLTD +HPCQ+MAD+MTFEEHRG + GK +AW GDGNNV  S + A+  F   + +A P
Sbjct: 128 NGLTDQSHPCQVMADVMTFEEHRGSLKGKVVAWVGDGNNVAASWIHAAGHFGCEIRLACP 187

Query: 184 EGSEPAQKHIDWSKAHGGKLHFTRSPEEAVDQADCVVTDCWVSMGQEHRARGHNVFSPYQ 243
           +   P++  +DW++A G  +  T  P EAV  A  V+TD WVSMG +   R H +  PYQ
Sbjct: 188 DSLMPSRAAVDWARAKGASVVLTTHPAEAVAGAHLVLTDTWVSMGCQDSNR-HELLEPYQ 246

Query: 244 VNAKLMAHAKPDALFMHCLPAHRGEEVTDEVIDGPHSVVFDEAENRLHAQKAVLAWCL 301
           VN  LMA A PDALFMHCLPAHRGEEVTD V+DG  SVV+DEAENR+H QK +L WCL
Sbjct: 247 VNEALMAKAAPDALFMHCLPAHRGEEVTDPVMDGIQSVVWDEAENRMHVQKGILTWCL 304


Lambda     K      H
   0.320    0.133    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: 343
Number of extensions: 11
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: 303
Length of database: 305
Length adjustment: 27
Effective length of query: 276
Effective length of database: 278
Effective search space:    76728
Effective search space used:    76728
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 (21.8 bits)
S2: 48 (23.1 bits)

Align candidate WP_011382764.1 AMB_RS01610 (ornithine carbamoyltransferase)
to HMM TIGR00658 (argF: ornithine carbamoyltransferase (EC 2.1.3.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.30745.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.30745.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.