Alignments for a candidate for leuC in Phaeobacter inhibens BS107

Align 3-isopropylmalate dehydratase large subunit; EC 4.2.1.33 (characterized)
to candidate GFF2931 PGA1_c29780 3-isopropylmalate dehydratase large subunit

Query= CharProtDB::CH_024771
         (466 letters)



>FitnessBrowser__Phaeo:GFF2931
          Length = 467

 Score =  619 bits (1597), Expect = 0.0
 Identities = 309/466 (66%), Positives = 370/466 (79%), Gaps = 6/466 (1%)

Query: 3   KTLYEKLFDAHVVYEAENETPLLYIDRHLVHEVTSPQAFDGLRAHGRPVRQPGKTFATMD 62
           KTLY+K++DAHV +EAE+ T LLYIDRHLVHEVTSPQAF+GLR  GR V  P KT A  D
Sbjct: 4   KTLYDKIWDAHVAHEAEDGTCLLYIDRHLVHEVTSPQAFEGLRMAGRKVHAPDKTIAVPD 63

Query: 63  HNVST---QTKDINACGEMARIQMQELIKNCKEFGVELYDLNHPYQGIVHVMGPEQGVTL 119
           HNV T   + K I    E +RIQ++ L KN +EFGV  Y ++   QGIVH++GPEQG TL
Sbjct: 64  HNVPTTLDRAKGIE--NEESRIQVEALDKNAREFGVHYYPVDDVRQGIVHIVGPEQGWTL 121

Query: 120 PGMTIVCGDSHTATHGAFGALAFGIGTSEVEHVLATQTLKQGRAKTMKIEVQGKAAPGIT 179
           PGMT+VCGDSHTATHGAFGALA GIGTSEVEHVLATQTL Q ++K MK+E+ GK  PG+T
Sbjct: 122 PGMTVVCGDSHTATHGAFGALAHGIGTSEVEHVLATQTLIQKKSKNMKVEITGKLKPGVT 181

Query: 180 AKDIVLAIIGKTGSAGGTGHVVEFCGEAIRDLSMEGRMTLCNMAIEMGAKAGLVAPDETT 239
           AKDI LA+IG+TG+AGGTG+V+E+CGEAIRDL+MEGRMT+CNMAIE GA+AGL+APDETT
Sbjct: 182 AKDITLAVIGETGTAGGTGYVIEYCGEAIRDLTMEGRMTVCNMAIEGGARAGLIAPDETT 241

Query: 240 FNYVKGRLHAPKGKDFDDAVAYWKTLQTDEGATFDTVVTLQAEEISPQVTWGTNPGQVIS 299
           F YVKGR HAPKG  ++ A+ +WKTL TDEGA FD VVTL+ E+I P VTWGT+P  V+ 
Sbjct: 242 FEYVKGRPHAPKGAQWEAALNWWKTLFTDEGAHFDKVVTLKGEDIQPVVTWGTSPEDVLP 301

Query: 300 VNDNIPDPASFADPVERASAEKALAYMGLKPGIPLTEVAIDKVFIGSCTNSRIEDLRAAA 359
           +   +P P  F      A A ++L YMGL PG  LT++ ID VFIGSCTN RIEDLRA A
Sbjct: 302 ITGVVPAPEDFTGGKVEA-ARRSLEYMGLTPGQKLTDIEIDTVFIGSCTNGRIEDLRAVA 360

Query: 360 EIAKGRKVAPGVQALVVPGSGPVKAQAEAEGLDKIFIEAGFEWRLPGCSMCLAMNNDRLN 419
           E+ KG+K+  G++A+VVPGSG V+AQAE EG+ +I  +AGFEWRL GCSMCLAMN D+L+
Sbjct: 361 EVVKGKKIKDGMRAMVVPGSGLVRAQAEEEGIAEILQDAGFEWRLAGCSMCLAMNPDQLS 420

Query: 420 PGERCASTSNRNFEGRQGRGGRTHLVSPAMAAAAAVTGHFADIRNI 465
            GERCA+TSNRNFEGRQG  GRTHLVSPAMAAAAA+TG   D+R +
Sbjct: 421 EGERCAATSNRNFEGRQGYKGRTHLVSPAMAAAAALTGKLTDVREL 466


Lambda     K      H
   0.317    0.134    0.396 

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: 801
Number of extensions: 26
Number of successful extensions: 3
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: 466
Length of database: 467
Length adjustment: 33
Effective length of query: 433
Effective length of database: 434
Effective search space:   187922
Effective search space used:   187922
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: 51 (24.3 bits)

Align candidate GFF2931 PGA1_c29780 (3-isopropylmalate dehydratase large subunit)
to HMM TIGR00170 (leuC: 3-isopropylmalate dehydratase, large subunit (EC 4.2.1.33))

Software error:

../bin/blast/fastacmd -i /tmp/list.22331.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.22331.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.