GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ans in Herbaspirillum seropedicae SmR1

Align Glutaminase-asparaginase; L-ASNase/L-GLNase; L-asparagine/L-glutamine amidohydrolase; EC 3.5.1.38 (characterized)
to candidate HSERO_RS07255 HSERO_RS07255 glutaminase

Query= SwissProt::O68897
         (362 letters)



>FitnessBrowser__HerbieS:HSERO_RS07255
          Length = 356

 Score =  438 bits (1127), Expect = e-128
 Identities = 223/352 (63%), Positives = 273/352 (77%), Gaps = 5/352 (1%)

Query: 11  GALALLLLFPVAAQAKEVETKTKLANVVILATGGTIAGAGASAANSATYQAAKVGIEQLI 70
           GA+ +L L    A A   + + K  NVV++ TGGTIAGAGAS+ N+A YQ+A V ++++I
Sbjct: 10  GAVMILSL----ACAFSAQAQDKKPNVVVIGTGGTIAGAGASSVNTAAYQSAVVPVDKII 65

Query: 71  AGVPELSQIANVRGEQVMQIASESINNENLLQLGRRVAELADSKDVDGIVITHGTDTLEE 130
           A VPE+S+IANVRGEQ+ QI SES N+E L++LG+RV+EL    DVDGIVITHGTDT+EE
Sbjct: 66  AAVPEISKIANVRGEQIFQIGSESFNDERLIKLGKRVSELLKQNDVDGIVITHGTDTIEE 125

Query: 131 TAYFLNLVEKTDKPIIVVGSMRPGTAMSADGMLNLYNAVAVAGSKDARGKGVLVTMNDEI 190
           TAYFLNLV K+DKP++VVGSMRPGTA+ ADG LNLY+AV VAGSK+A GKG LV MNDEI
Sbjct: 126 TAYFLNLVLKSDKPVVVVGSMRPGTALGADGALNLYDAVLVAGSKEAAGKGTLVVMNDEI 185

Query: 191 QSGRDVSKMINIKTEAFKSPWGPLGMVVEGKSYWFRLPAKRHTMDSEFDIKTIKSLPDVE 250
            SGRDV+K    K E F+SP+GPLG VVE K  ++RLPA+ HT  +EFDI  I SLP V+
Sbjct: 186 HSGRDVTKSNTFKVETFRSPYGPLGYVVENKLSFYRLPARPHTTQTEFDIDKISSLPRVD 245

Query: 251 IAYGYGNVSDTAVKALAQAGAKAIIHAGTGNGSVSSKVVPALQELRKQGVQIIRSSHVNA 310
           I Y YGNVS TA  A   AGAKAIIH GTGNGSV+ ++VP LQE+R +GVQ+IR+S   +
Sbjct: 246 IVYNYGNVSRTAYDAFVAAGAKAIIHDGTGNGSVAEQIVPVLQEVRSKGVQVIRASRTGS 305

Query: 311 GGFVLRNAEQPDDKYDWVVAHDLNPQKARILAMVALTKTQDSKELQRMFWEY 362
            G V+RN EQPDDK+DWVV  D N QKARILA +ALTKT D KELQ++ W+Y
Sbjct: 306 -GVVIRNGEQPDDKFDWVVTDDQNAQKARILAELALTKTNDPKELQKIMWKY 356


Lambda     K      H
   0.315    0.130    0.361 

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: 330
Number of extensions: 10
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: 362
Length of database: 356
Length adjustment: 29
Effective length of query: 333
Effective length of database: 327
Effective search space:   108891
Effective search space used:   108891
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 (21.5 bits)
S2: 49 (23.5 bits)

Align candidate HSERO_RS07255 HSERO_RS07255 (glutaminase)
to HMM TIGR00520 (L-asparaginase, type II (EC 3.5.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.30983.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.30983.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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