GapMind for Amino acid biosynthesis

 

Alignments for a candidate for leuD in Klebsiella michiganensis M5al

Align 3-isopropylmalate dehydratase small subunit 1; Alpha-IPM isomerase 1; IPMI 1; Isopropylmalate isomerase 1; EC 4.2.1.33 (characterized)
to candidate BWI76_RS04665 BWI76_RS04665 3-isopropylmalate dehydratase small subunit

Query= SwissProt::P04787
         (201 letters)



>FitnessBrowser__Koxy:BWI76_RS04665
          Length = 201

 Score =  382 bits (981), Expect = e-111
 Identities = 184/200 (92%), Positives = 194/200 (97%)

Query: 1   MAEKFTQHTGLVVPLDAANVDTDAIIPKQFLQKVTRTGFGAHLFNDWRFLDEKGQQPNPE 60
           MAEKFTQHTGLVVPLDAANVDTDAIIPKQFLQKVTRTGFGAHLFNDWRF D+KG+QPNPE
Sbjct: 1   MAEKFTQHTGLVVPLDAANVDTDAIIPKQFLQKVTRTGFGAHLFNDWRFQDDKGEQPNPE 60

Query: 61  FVLNFPEYQGASILLARENFGCGSSREHAPWALTDYGFKVVIAPSFADIFYGNSFNNQLL 120
           FVLNFPEY+GASILLARENFGCGSSREHAPWALTDYGFKVVIAPSFADIFYGNSFNNQLL
Sbjct: 61  FVLNFPEYKGASILLARENFGCGSSREHAPWALTDYGFKVVIAPSFADIFYGNSFNNQLL 120

Query: 121 PVTLSDAQVDELFALVKANPGIKFEVDLEAQVVKAGDKTYSFKIDDFRRHCMLNGLDSIG 180
           PVTLS+AQVDELF LV + PGIKFEVDLE++VVKAGDK+YSFKID FRRHCMLNGLDSIG
Sbjct: 121 PVTLSEAQVDELFKLVHSQPGIKFEVDLESEVVKAGDKSYSFKIDAFRRHCMLNGLDSIG 180

Query: 181 LTLQHEDAIAAYENKQPAFM 200
           LTLQHE+AI+AYE KQPAFM
Sbjct: 181 LTLQHEEAISAYEQKQPAFM 200


Lambda     K      H
   0.321    0.138    0.416 

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: 259
Number of extensions: 2
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: 201
Length of database: 201
Length adjustment: 21
Effective length of query: 180
Effective length of database: 180
Effective search space:    32400
Effective search space used:    32400
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: 45 (21.9 bits)

Align candidate BWI76_RS04665 BWI76_RS04665 (3-isopropylmalate dehydratase small subunit)
to HMM TIGR00171 (leuD: 3-isopropylmalate dehydratase, small subunit (EC 4.2.1.33))

Software error:

../bin/blast/fastacmd -i /tmp/list.7312.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.7312.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.