GapMind for catabolism of small carbon sources

 

Alignments for a candidate for manA in Klebsiella michiganensis M5al

Align mannose-6-phosphate isomerase (EC 5.3.1.8) (characterized)
to candidate BWI76_RS16280 BWI76_RS16280 mannose-6-phosphate isomerase

Query= BRENDA::P25081
         (391 letters)



>FitnessBrowser__Koxy:BWI76_RS16280
          Length = 392

 Score =  645 bits (1664), Expect = 0.0
 Identities = 325/391 (83%), Positives = 350/391 (89%)

Query: 1   MQKLINSVQNYAWGSKTALTELYGIANPQQQPMAELWMGAHPKSSSRITTANGETVSLRD 60
           MQKLINSVQNYAWGS TALTELYGIANP   PMAELWMGAHPKSSS+I   +G   SLRD
Sbjct: 1   MQKLINSVQNYAWGSHTALTELYGIANPNNLPMAELWMGAHPKSSSQILDNSGTPRSLRD 60

Query: 61  AIEKNKTAMLGEAVANRFGELPFLFKVLCAAQPLSIQVHPNKRNSEIGFAKENAAGIPMD 120
           AI+ +K  +LGE VA RFGELPFLFKVLCAAQPLSIQVHPNK+ SEIGFAKENAAGIP+D
Sbjct: 61  AIDSDKATLLGEKVAGRFGELPFLFKVLCAAQPLSIQVHPNKQASEIGFAKENAAGIPLD 120

Query: 121 AAERNYKDPNHKPELVFALTPFLAMNAFREFSDIVSLLQPVAGAHSAIAHFLQVPNAERL 180
           AAERNYKDPNHKPELVFALTPFLAMNAFREFSDIV+LLQPVA AH AIA FL  PN E L
Sbjct: 121 AAERNYKDPNHKPELVFALTPFLAMNAFREFSDIVNLLQPVADAHPAIAQFLAQPNGEHL 180

Query: 181 SQLFASLLNMQGEEKSRALAVLKAALNSQQGEPWQTIRVISEYYPDDSGLFSPLLLNVVK 240
           SQLFASLLNM+GEEK+ AL VL+AAL+S+QGEPWQTIR+I+E+YPDDSGLFSPLLLNVVK
Sbjct: 181 SQLFASLLNMKGEEKAHALRVLQAALDSEQGEPWQTIRLIAEFYPDDSGLFSPLLLNVVK 240

Query: 241 LNPGEAMFLFAETPHAYLQGVALEVMANSDNVLRAGLTPKYIDIPELVANVKFEPKPAGE 300
           LNPGEAMFLFAETPHAYL+GVALEVMANSDNVLRAGLTPKYIDIPELVANVKF PKPAGE
Sbjct: 241 LNPGEAMFLFAETPHAYLRGVALEVMANSDNVLRAGLTPKYIDIPELVANVKFTPKPAGE 300

Query: 301 LLTAPVKSGAELDFPIPVDDFAFSLHDLALQETSIGQHSAAILFCVEGEAVLRKDEQRLV 360
           LLT PV  GAELDFPIPVDDFAFSLHDL+ Q ++I Q SAAILFCVEGEAV+ KD+  L 
Sbjct: 301 LLTQPVSRGAELDFPIPVDDFAFSLHDLSAQASTIAQDSAAILFCVEGEAVITKDKHSLT 360

Query: 361 LKPGESAFIGADESPVNASGTGRLARVYNKL 391
           LKPGESAFIG +ESPV  SG GR+ARV+NKL
Sbjct: 361 LKPGESAFIGCNESPVQVSGYGRVARVFNKL 391


Lambda     K      H
   0.317    0.132    0.379 

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: 604
Number of extensions: 14
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: 391
Length of database: 392
Length adjustment: 31
Effective length of query: 360
Effective length of database: 361
Effective search space:   129960
Effective search space used:   129960
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 (21.6 bits)
S2: 50 (23.9 bits)

Align candidate BWI76_RS16280 BWI76_RS16280 (mannose-6-phosphate isomerase)
to HMM TIGR00218 (manA: mannose-6-phosphate isomerase, class I (EC 5.3.1.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.19706.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.19706.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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