GapMind for catabolism of small carbon sources

 

Alignments for a candidate for speB in Klebsiella michiganensis M5al

Align agmatinase; EC 3.5.3.11 (characterized)
to candidate BWI76_RS24025 BWI76_RS24025 agmatinase

Query= CharProtDB::CH_024895
         (306 letters)



>FitnessBrowser__Koxy:BWI76_RS24025
          Length = 306

 Score =  615 bits (1587), Expect = 0.0
 Identities = 302/306 (98%), Positives = 303/306 (99%)

Query: 1   MSTLGHQYDNSLVSNAFGFLRLPMNFQPYDSDADWVITGVPFDMATSGRAGGRHGPAAIR 60
           MSTLGHQYDNSLVSNAFGFLRLPMNF PYDSDADWVITGVPFDMATSGRAGGRHGPAAIR
Sbjct: 1   MSTLGHQYDNSLVSNAFGFLRLPMNFMPYDSDADWVITGVPFDMATSGRAGGRHGPAAIR 60

Query: 61  QVSTNLAWEHNRFPWNFDMRERLNVVDCGDLVYAFGDAREMSEKLQAHAEKLLAAGKRML 120
           QVSTNLAWEHNRFPWNFDMRERLNVVDCGDLVYAFGDAREMSEKLQAHAEKLLAAGKRML
Sbjct: 61  QVSTNLAWEHNRFPWNFDMRERLNVVDCGDLVYAFGDAREMSEKLQAHAEKLLAAGKRML 120

Query: 121 SFGGDHFVTLPLLRAHAKHFGKMALVHFDAHTDTYANGCEFDHGTMFYTAPKEGLIDPNH 180
           SFGGDHFVTLPLLRAHAKHFGKMALVHFDAHTDTYANGCEFDHGTMFYTAP EGLIDP+H
Sbjct: 121 SFGGDHFVTLPLLRAHAKHFGKMALVHFDAHTDTYANGCEFDHGTMFYTAPNEGLIDPHH 180

Query: 181 SVQIGIRTEFDKDNGFTVLDACQVNDRSVDDVIAQVKQIVGDMPVYLTFDIDCLDPAFAP 240
           SVQIGIRTEFDKDNGFTVLDA QVNDRSVDDVIAQVKQIVGDMPVYLTFDIDCLDPAFAP
Sbjct: 181 SVQIGIRTEFDKDNGFTVLDAGQVNDRSVDDVIAQVKQIVGDMPVYLTFDIDCLDPAFAP 240

Query: 241 GTGTPVIGGLTSDRAIKLVRGLKDLNIVGMDVVEVAPAYDQSEITALAAATLALEMLYIQ 300
           GTGTPVIGGLTSDRAIKLVRGLKDLNIVGMDVVEVAPAYDQSEITALAAATLALEMLYIQ
Sbjct: 241 GTGTPVIGGLTSDRAIKLVRGLKDLNIVGMDVVEVAPAYDQSEITALAAATLALEMLYIQ 300

Query: 301 AAKKGE 306
           AAKKGE
Sbjct: 301 AAKKGE 306


Lambda     K      H
   0.322    0.138    0.419 

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: 529
Number of extensions: 11
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: 306
Length of database: 306
Length adjustment: 27
Effective length of query: 279
Effective length of database: 279
Effective search space:    77841
Effective search space used:    77841
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: 48 (23.1 bits)

Align candidate BWI76_RS24025 BWI76_RS24025 (agmatinase)
to HMM TIGR01230 (speB: agmatinase (EC 3.5.3.11))

Software error:

../bin/blast/fastacmd -i /tmp/list.30428.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.30428.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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