GapMind for catabolism of small carbon sources

 

Alignments for a candidate for hutG' in Azospirillum brasilense Sp245

Align N-formylglutamate amidohydrolase (EC 3.5.1.68) (characterized)
to candidate AZOBR_RS23510 AZOBR_RS23510 N-formylglutamate amidohydrolase

Query= metacyc::MONOMER-11615
         (267 letters)



>FitnessBrowser__azobra:AZOBR_RS23510
          Length = 266

 Score =  293 bits (750), Expect = 3e-84
 Identities = 140/263 (53%), Positives = 184/263 (69%), Gaps = 2/263 (0%)

Query: 4   VLSFHQGRLPLLISMPHAGLRLSDAVRDGLVEEARSLPDTDWHIPQLYDFARDLGASVVA 63
           V  F   R P+L+S+PH G  L D     LV EA+ LPDTDWH+P+LYDF  DLG  V+ 
Sbjct: 3   VFGFRAARRPVLVSLPHVGTALPDGFIGRLVPEAQGLPDTDWHLPRLYDFLEDLGVGVIQ 62

Query: 64  AEYSRFVIDLNRPDDDKPLYAGATTGLYPATLFEGEPLFKEGLAPSGEERKRYLEQIWRP 123
           A +SR+V+DLNRP +D PLY+GATTGL P TLF+G PL++ G  P   E    + + W P
Sbjct: 63  ARFSRYVVDLNRPSNDTPLYSGATTGLCPTTLFDGAPLYQPGAEPDPGEVAERVTRYWTP 122

Query: 124 YHGTLRRELDRLREQFGYALLWDAHSIRSHIPHLFDGKLPDFNLGTFNGASCDPVLAERL 183
           YH  +  E+ RLR++FG A+L+DAHSIRS +P LF+G+LPD N+GT +G S DPVL++RL
Sbjct: 123 YHDAITAEMTRLRDRFGRAVLFDAHSIRSVVPRLFEGRLPDLNIGTNDGRSADPVLSDRL 182

Query: 184 QGVCAE--ATGYSHVLNGRFKGGHITRHYGDPAKHIHAVQLELAQSTYMEETEPFTYRED 241
             V A+  A G++HVLNGRFKGGHITRH+G P++  HAVQLE+AQ TYMEE  PF + E 
Sbjct: 183 VAVGADAGADGFTHVLNGRFKGGHITRHFGRPSEGWHAVQLEMAQVTYMEEDAPFAFDEA 242

Query: 242 LAQPTQVVLKQLLQALLAWGAER 264
            A+  +  L++ + A+  W  ER
Sbjct: 243 RAERIRPHLRRFIGAMADWAEER 265


Lambda     K      H
   0.321    0.139    0.430 

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: 306
Number of extensions: 20
Number of successful extensions: 2
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: 267
Length of database: 266
Length adjustment: 25
Effective length of query: 242
Effective length of database: 241
Effective search space:    58322
Effective search space used:    58322
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: 47 (22.7 bits)

Align candidate AZOBR_RS23510 AZOBR_RS23510 (N-formylglutamate amidohydrolase)
to HMM TIGR02017 (hutG: N-formylglutamate deformylase (EC 3.5.1.68))

Software error:

../bin/blast/fastacmd -i /tmp/list.23423.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.23423.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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