GapMind for catabolism of small carbon sources

 

Alignments for a candidate for hutF in Azospirillum brasilense Sp245

Align formimidoylglutamate deiminase (EC 3.5.3.13) (characterized)
to candidate AZOBR_RS23505 AZOBR_RS23505 N-formimino-L-glutamate deiminase

Query= BRENDA::Q9HU77
         (453 letters)



>FitnessBrowser__azobra:AZOBR_RS23505
          Length = 462

 Score =  528 bits (1360), Expect = e-154
 Identities = 270/452 (59%), Positives = 321/452 (71%), Gaps = 9/452 (1%)

Query: 1   MSAIFAERALLPEGWARNVRFEISADGVLAEIRPDANADGAERLGGAVLPGMPNLHSHAF 60
           M+ +F ERALLPEGWA NV     A G L  +  DA++DG  R  G V+PGMPNLHSHAF
Sbjct: 1   MNGLFCERALLPEGWASNVALRFDARGTLTAVERDASSDGLPRAAGPVIPGMPNLHSHAF 60

Query: 61  QRAMAGLAEVAGNPNDSFWTWRELMYRMVARLSPEQIEVIACQLYIEMLKAGYTAVAEFH 120
           QRAMAGL E AG   DSFWTWR+ MY  V R++PE  E +A  LY+EM K GYTAVAEFH
Sbjct: 61  QRAMAGLTEYAGASEDSFWTWRDAMYGFVRRMTPEAAEAVAALLYMEMAKQGYTAVAEFH 120

Query: 121 YVHHDLDGRSYADPAELSLRISRAASAAGIGLTLLPVLYSHAGFGGQPASEGQRRFINGS 180
           Y+HH  DGR YAD AE+S RI  AA  AGIGLT LPVLY+H+GFGG+P S+GQ+RFIN  
Sbjct: 121 YLHHSADGRPYADRAEMSRRILAAADTAGIGLTHLPVLYAHSGFGGKPPSDGQKRFINDV 180

Query: 181 EAYLELLQRLRAPL--EAAGHSLGLCFHSLRAVTPQQIATVLAAGHDDL----PVHIHIA 234
           +  L ++  +   +  E AG   GL  HSLRAVTP+++   L  G D L    P+HIHIA
Sbjct: 181 DGLLSIVSAMEKAMGAERAGRRAGLALHSLRAVTPEEMRDAL-TGLDALDPGAPIHIHIA 239

Query: 235 EQQKEVDDCQAWSGRRPLQWLYENVAVDQRWCLVHATHADPAEVAAMARSGAVAGLCLST 294
           EQ  EVDDC AWS +RP++WL EN  V  RWCLVHATH  PAEV  MA SGAVAGLCL+T
Sbjct: 240 EQTAEVDDCVAWSSKRPVEWLLENAPVGPRWCLVHATHVTPAEVDGMAASGAVAGLCLTT 299

Query: 295 EANLGDGIFPATDFLAQGGRLGIGSDSHVSLSVVEELRWLEYGQRLRDRKRNRLYRDDQP 354
           EANLGDG+FPA  FLAQGGR G+GSDSH+S+S  EELR LEYGQRL  R+RN L   D P
Sbjct: 300 EANLGDGLFPAIPFLAQGGRFGVGSDSHISVSAAEELRLLEYGQRLVQRRRNVLRIGDCP 359

Query: 355 MIGRTLYDAALAGGAQALGQPI--GSLAVGRRADLLVLDGNDPYLASAEGDALLNRWLFA 412
            IG  LY AA+AGGAQALGQP+  G + VG+ ADL+VLD ++P L S   D+LL+ ++FA
Sbjct: 360 SIGGGLYRAAVAGGAQALGQPVTGGGVQVGQPADLVVLDADNPKLLSRTDDSLLDAYVFA 419

Query: 413 GGDRQVRDVMVAGRWVVRDGRHAGEERSARAF 444
                VRDV+ AGR VVR+GRH  E+    A+
Sbjct: 420 SDGHAVRDVIAAGRTVVREGRHVREDAIRAAY 451


Lambda     K      H
   0.321    0.136    0.415 

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: 665
Number of extensions: 29
Number of successful extensions: 5
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: 453
Length of database: 462
Length adjustment: 33
Effective length of query: 420
Effective length of database: 429
Effective search space:   180180
Effective search space used:   180180
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 (21.9 bits)
S2: 51 (24.3 bits)

Align candidate AZOBR_RS23505 AZOBR_RS23505 (N-formimino-L-glutamate deiminase)
to HMM TIGR02022 (hutF: formiminoglutamate deiminase (EC 3.5.3.13))

Software error:

../bin/blast/fastacmd -i /tmp/list.16235.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.16235.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.