Alignments for a candidate for leuC in Dinoroseobacter shibae DFL-12

Align 3-isopropylmalate dehydratase large subunit; EC 4.2.1.33 (characterized)
to candidate 3606654 Dshi_0085 3-isopropylmalate dehydratase, large subunit (RefSeq)

Query= CharProtDB::CH_024771
         (466 letters)



>FitnessBrowser__Dino:3606654
          Length = 467

 Score =  610 bits (1574), Expect = e-179
 Identities = 305/466 (65%), Positives = 374/466 (80%), Gaps = 4/466 (0%)

Query: 2   AKTLYEKLFDAHVVYEAENETPLLYIDRHLVHEVTSPQAFDGLRAHGRPVRQPGKTFATM 61
           A+TLY+K++DAH+ +EAE+ T LLYIDRHLVHEVTSPQAF+GLR  GR VR P KT A  
Sbjct: 3   ARTLYDKIWDAHLAHEAEDGTCLLYIDRHLVHEVTSPQAFEGLRMAGRTVRAPDKTIAVP 62

Query: 62  DHNVSTQT--KDINACGEMARIQMQELIKNCKEFGVELYDLNHPYQGIVHVMGPEQGVTL 119
           DHNV T    ++ +   E +RIQ++ L KN K+FG+  Y ++   QGIVH++GPEQG TL
Sbjct: 63  DHNVPTTLGRENPDQMTEDSRIQVEALDKNAKDFGIHYYPVSDIRQGIVHIVGPEQGWTL 122

Query: 120 PGMTIVCGDSHTATHGAFGALAFGIGTSEVEHVLATQTLKQGRAKTMKIEVQGKAAPGIT 179
           PGMT+VCGDSHTATHGAFGALA GIGTSEVEHVLATQTL Q ++K MK+E+ GK  PG+T
Sbjct: 123 PGMTVVCGDSHTATHGAFGALAHGIGTSEVEHVLATQTLIQKKSKNMKVEITGKLRPGVT 182

Query: 180 AKDIVLAIIGKTGSAGGTGHVVEFCGEAIRDLSMEGRMTLCNMAIEMGAKAGLVAPDETT 239
           AKDI L++IG TG+AGGTG+V+E+CGEAIRDLSMEGRMT+CNMAIE GA+AGL+APDE T
Sbjct: 183 AKDITLSVIGATGTAGGTGYVIEYCGEAIRDLSMEGRMTVCNMAIEGGARAGLIAPDEKT 242

Query: 240 FNYVKGRLHAPKGKDFDDAVAYWKTLQTDEGATFDTVVTLQAEEISPQVTWGTNPGQVIS 299
           + YV+GR HAPKG  ++ A+A+WKTL +D+ A +D VVT++ E+I+P VTWGT+P  V+ 
Sbjct: 243 YEYVQGRPHAPKGAQWEAALAWWKTLYSDDDAHWDKVVTIKGEDIAPVVTWGTSPEDVLP 302

Query: 300 VNDNIPDPASFADPVERASAEKALAYMGLKPGIPLTEVAIDKVFIGSCTNSRIEDLRAAA 359
           ++  +P P  F      A A ++L YMGL PG PL+E+ ID VFIGSCTN RIEDLRAAA
Sbjct: 303 ISAMVPAPEDFTGGKVDA-ARRSLDYMGLTPGTPLSEIEIDTVFIGSCTNGRIEDLRAAA 361

Query: 360 EIAKGRKVAPGVQALVVPGSGPVKAQAEAEGLDKIFIEAGFEWRLPGCSMCLAMNNDRLN 419
           EI KG+K+A   +A+VVPGSG V+AQAE EGL  IF +AGFEWR+ GCSMCLAMN D+L+
Sbjct: 362 EILKGKKIAV-KRAMVVPGSGLVRAQAEEEGLADIFKQAGFEWRMAGCSMCLAMNPDQLS 420

Query: 420 PGERCASTSNRNFEGRQGRGGRTHLVSPAMAAAAAVTGHFADIRNI 465
            GERCASTSNRNFEGRQG  GRTHLVSPAMAAAAAVTG   D+R++
Sbjct: 421 EGERCASTSNRNFEGRQGYKGRTHLVSPAMAAAAAVTGKLTDVRDL 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: 767
Number of extensions: 25
Number of successful extensions: 4
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 3606654 Dshi_0085 (3-isopropylmalate dehydratase, large subunit (RefSeq))
to HMM TIGR00170 (leuC: 3-isopropylmalate dehydratase, large subunit (EC 4.2.1.33))

Software error:

../bin/blast/fastacmd -i /tmp/list.19869.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.19869.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.