GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ans in Burkholderia phytofirmans PsJN

Align L-asparaginase (EC 3.5.1.1) (characterized)
to candidate BPHYT_RS08815 BPHYT_RS08815 L-asparaginase

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



>FitnessBrowser__BFirm:BPHYT_RS08815
          Length = 347

 Score =  662 bits (1707), Expect = 0.0
 Identities = 347/347 (100%), Positives = 347/347 (100%)

Query: 1   MNTSTSSSAMPSDEGAMPLLPRIVVLATGGTIAGAAASATNTSGYQAGVIGVEQLLAVVP 60
           MNTSTSSSAMPSDEGAMPLLPRIVVLATGGTIAGAAASATNTSGYQAGVIGVEQLLAVVP
Sbjct: 1   MNTSTSSSAMPSDEGAMPLLPRIVVLATGGTIAGAAASATNTSGYQAGVIGVEQLLAVVP 60

Query: 61  ALSTVARMEREQIASVDSKDMAMPLWTTLAQRINTLLADDEIDGVVVTHGTDTLEETAYL 120
           ALSTVARMEREQIASVDSKDMAMPLWTTLAQRINTLLADDEIDGVVVTHGTDTLEETAYL
Sbjct: 61  ALSTVARMEREQIASVDSKDMAMPLWTTLAQRINTLLADDEIDGVVVTHGTDTLEETAYL 120

Query: 121 LHLTIKSDKPVVLTAAMRPASALSADGPLNLLNAVTVAAQASARGQGVLVAFNNRIHSAR 180
           LHLTIKSDKPVVLTAAMRPASALSADGPLNLLNAVTVAAQASARGQGVLVAFNNRIHSAR
Sbjct: 121 LHLTIKSDKPVVLTAAMRPASALSADGPLNLLNAVTVAAQASARGQGVLVAFNNRIHSAR 180

Query: 181 DVVKTSTYAVDAFHSPEIGALGWVQDGRVEFQRGVVRPHTLATEFVIGAQWPHVEIVLSY 240
           DVVKTSTYAVDAFHSPEIGALGWVQDGRVEFQRGVVRPHTLATEFVIGAQWPHVEIVLSY
Sbjct: 181 DVVKTSTYAVDAFHSPEIGALGWVQDGRVEFQRGVVRPHTLATEFVIGAQWPHVEIVLSY 240

Query: 241 AGVSRIAVDALVAAGVRGIVVAGTGNGSIHASVQQALADAASQGVAVVRASRVGSGHVMR 300
           AGVSRIAVDALVAAGVRGIVVAGTGNGSIHASVQQALADAASQGVAVVRASRVGSGHVMR
Sbjct: 241 AGVSRIAVDALVAAGVRGIVVAGTGNGSIHASVQQALADAASQGVAVVRASRVGSGHVMR 300

Query: 301 NGAAADDALGFVSAGSLNPYKARVLLMLALAAGATGPMALQKIFDTY 347
           NGAAADDALGFVSAGSLNPYKARVLLMLALAAGATGPMALQKIFDTY
Sbjct: 301 NGAAADDALGFVSAGSLNPYKARVLLMLALAAGATGPMALQKIFDTY 347


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: 478
Number of extensions: 6
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: 347
Length adjustment: 29
Effective length of query: 318
Effective length of database: 318
Effective search space:   101124
Effective search space used:   101124
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 BPHYT_RS08815 BPHYT_RS08815 (L-asparaginase)
to HMM TIGR00520 (L-asparaginase, type II (EC 3.5.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.13662.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.13662.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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