GapMind for catabolism of small carbon sources

 

Alignments for a candidate for arcB in Synechococcus elongatus PCC 7942

Align ornithine carbamoyltransferase (EC 2.1.3.3) (characterized)
to candidate Synpcc7942_2514 Synpcc7942_2514 ornithine carbamoyltransferase

Query= BRENDA::Q51742
         (315 letters)



>FitnessBrowser__SynE:Synpcc7942_2514
          Length = 305

 Score =  303 bits (775), Expect = 4e-87
 Identities = 160/312 (51%), Positives = 211/312 (67%), Gaps = 8/312 (2%)

Query: 3   VSLAGRDLLCLQDYTAEEIWTILETAKMFKIWQK-IGKPHRLLEGKTLAMIFQKPSTRTR 61
           + LAGRDLL L D ++ E+  ILE A   K  Q  +  P      KTL +IF K STRTR
Sbjct: 1   MGLAGRDLLTLADLSSAEVLEILELAATLKSGQTTVHCP------KTLGLIFSKSSTRTR 54

Query: 62  VSFEVAMAHLGGHALYLNAQDLQLRRGETIADTARVLSRYVDAIMARVYDHKDVEDLAKY 121
           VSF  A+  +GG  L LN    Q+ RGE IADTARVLSRY+DA+  R +  +D+E+ A Y
Sbjct: 55  VSFSAAIMQMGGQVLDLNPNVTQVGRGEPIADTARVLSRYLDALAIRTFAQQDLEEYAHY 114

Query: 122 ATVPVINGLSDFSHPCQALADYMTIWEKKGTIKGVKVVYVGDGNNVAHSLMIAGTKLGAD 181
           A +PVIN L+D  HPCQ LAD  TI E  G  + + + Y+GDGNNVAHSL++   ++G +
Sbjct: 115 ADIPVINALTDDYHPCQILADLQTIQENFGQWQDLTLTYLGDGNNVAHSLLLGCAQVGMN 174

Query: 182 VVVATPEGYEPDEKVIKWAEQNAAESGGSFELLHDPVKAVKDADVIYTDVWASMGQEAEA 241
           V +A P  Y+P E+++  A+Q A +     E+LHDP+ A + A V+YTDVWASMGQE EA
Sbjct: 175 VRIACPPDYQPQERIVAKAQQIAGDR-AKVEILHDPIAASQGAHVLYTDVWASMGQEEEA 233

Query: 242 EERRKIFRPFQVNKDLVKHAKPDYMFMHCLPAHRGEEVTDDVIDSPNSVVWDQAENRLHA 301
           + R K F P+Q+N+ L++ A P  + +HCLPAHR EE+T +V++   S VWDQAENRLHA
Sbjct: 234 QARVKAFTPYQLNQALLEKADPAAIVLHCLPAHREEEITAEVLEGSQSRVWDQAENRLHA 293

Query: 302 QKAVLALVMGGI 313
           QKAVLAL++G I
Sbjct: 294 QKAVLALLLGAI 305


Lambda     K      H
   0.319    0.134    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: 283
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: 315
Length of database: 305
Length adjustment: 27
Effective length of query: 288
Effective length of database: 278
Effective search space:    80064
Effective search space used:    80064
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 Synpcc7942_2514 Synpcc7942_2514 (ornithine carbamoyltransferase)
to HMM TIGR00658 (argF: ornithine carbamoyltransferase (EC 2.1.3.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.11701.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11701.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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