GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ans in Paraburkholderia bryophila 376MFSha3.1

Align L-asparaginase (EC 3.5.1.1) (characterized)
to candidate H281DRAFT_00783 H281DRAFT_00783 L-asparaginase

Query= reanno::BFirm:BPHYT_RS08815
         (347 letters)



>FitnessBrowser__Burk376:H281DRAFT_00783
          Length = 361

 Score =  589 bits (1518), Expect = e-173
 Identities = 308/347 (88%), Positives = 321/347 (92%), Gaps = 4/347 (1%)

Query: 1   MNTSTSSSAMPSDEGAMPLLPRIVVLATGGTIAGAAASATNTSGYQAGVIGVEQLLAVVP 60
           MN  TSSS+     GA  LLPRI VLATGGTIAGAAA ATNTSGYQAGV+GVEQLLAVVP
Sbjct: 19  MNAQTSSSS----PGAAALLPRIAVLATGGTIAGAAADATNTSGYQAGVVGVEQLLAVVP 74

Query: 61  ALSTVARMEREQIASVDSKDMAMPLWTTLAQRINTLLADDEIDGVVVTHGTDTLEETAYL 120
           ALSTVAR+  EQIASVDSKDMAMPLWT LAQRIN LLADD+IDGVVVTHGTDTLEETAYL
Sbjct: 75  ALSTVARIAPEQIASVDSKDMAMPLWTALAQRINALLADDDIDGVVVTHGTDTLEETAYL 134

Query: 121 LHLTIKSDKPVVLTAAMRPASALSADGPLNLLNAVTVAAQASARGQGVLVAFNNRIHSAR 180
           LHLT+KSDKPVVLTAAMRPASALSADGPLNLLNAVTVAA A ARGQGVLVAFNN+IHSAR
Sbjct: 135 LHLTVKSDKPVVLTAAMRPASALSADGPLNLLNAVTVAANAGARGQGVLVAFNNKIHSAR 194

Query: 181 DVVKTSTYAVDAFHSPEIGALGWVQDGRVEFQRGVVRPHTLATEFVIGAQWPHVEIVLSY 240
           DVVKTSTYAVDAF SPE+GALGWVQDGRVEFQR VVRPHTL+TEFVIGA WPHV+IV SY
Sbjct: 195 DVVKTSTYAVDAFQSPEVGALGWVQDGRVEFQRSVVRPHTLSTEFVIGANWPHVDIVASY 254

Query: 241 AGVSRIAVDALVAAGVRGIVVAGTGNGSIHASVQQALADAASQGVAVVRASRVGSGHVMR 300
           AGVSRIAVDALV AGVRGIVVAGTGNGSIHAS+ QALADAASQGVAVVR+SRVGSGHVMR
Sbjct: 255 AGVSRIAVDALVTAGVRGIVVAGTGNGSIHASLTQALADAASQGVAVVRSSRVGSGHVMR 314

Query: 301 NGAAADDALGFVSAGSLNPYKARVLLMLALAAGATGPMALQKIFDTY 347
           NGAAADDALGFVSAGSLNPYKARVLLM+ALAAG  GP+ALQK FDTY
Sbjct: 315 NGAAADDALGFVSAGSLNPYKARVLLMVALAAGGAGPVALQKAFDTY 361


Lambda     K      H
   0.317    0.129    0.360 

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: 424
Number of extensions: 7
Number of successful extensions: 1
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: 347
Length of database: 361
Length adjustment: 29
Effective length of query: 318
Effective length of database: 332
Effective search space:   105576
Effective search space used:   105576
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 (21.7 bits)
S2: 49 (23.5 bits)

Align candidate H281DRAFT_00783 H281DRAFT_00783 (L-asparaginase)
to HMM TIGR00520 (L-asparaginase, type II (EC 3.5.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.3540.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.3540.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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