GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvE in Sinorhizobium meliloti 1021

Align Branched-chain amino acid aminotransferase (EC 2.6.1.42) (characterized)
to candidate SMc02896 SMc02896 branched-chain amino acid aminotransferase

Query= reanno::Cup4G11:RR42_RS25890
         (363 letters)



>FitnessBrowser__Smeli:SMc02896
          Length = 365

 Score =  446 bits (1148), Expect = e-130
 Identities = 215/356 (60%), Positives = 266/356 (74%), Gaps = 1/356 (0%)

Query: 4   QTTFSLEPNPNALDAATRDALMRDPAFGRVFTDHMVTITWREGQGWQDAKVTARKPFSID 63
           + TF  E NP  +  + RDAL+ +P FGRVFTDHM TI + EG+GW DAK+  RK F +D
Sbjct: 6   EQTFLFEQNPTRVANSERDALLANPGFGRVFTDHMATIRYSEGRGWHDAKIGPRKAFDLD 65

Query: 64  PACSVLHYGQEIFEGMKAYRGADGAVTLFRPLENARRFQASAKRMAMPALPESLFLEAIE 123
           P+  VLHY QEIFEGMKAYR  DG  TLFRP  NARRF+ SA R+AM  LPE LF++++ 
Sbjct: 66  PSTLVLHYAQEIFEGMKAYRLPDGGATLFRPDANARRFRNSALRLAMAPLPEELFVQSVR 125

Query: 124 QLVRIDQAWVPHGSGS-LYLRPFMFANEVFLGIKPASEFIFCVIACPVGPYFKGGDKAVS 182
           +LVRID+ W+P G G+ LYLRPFM A EV LG+KP++E+++CVIA  VG YFKGG  A++
Sbjct: 126 ELVRIDRDWIPAGEGAALYLRPFMIATEVLLGVKPSAEYLYCVIASSVGSYFKGGAPAIT 185

Query: 183 VWVSENYTRAAPGGTGEAKCGGNYAGSLVAQNEATANGCDQVVFLDAAEHRWVEELGGMN 242
           +WVSENYTRAAPGGTGEAKCGGNYA SL AQ EA   GC+QVVFLDA E R+VEELGGMN
Sbjct: 186 IWVSENYTRAAPGGTGEAKCGGNYAASLAAQAEAMQEGCEQVVFLDAVERRFVEELGGMN 245

Query: 243 IFFVMDDGTLVTPPLSGSILPGITRASVIELAREMGMVVEERRYSYPEWEADAKSGRLAE 302
           +FF   DG+L TPPL+G+ILPGITR S+I LAR+MG+ V E  Y+  +W+ADA+SGRL E
Sbjct: 246 VFFGFRDGSLQTPPLTGTILPGITRDSLITLARDMGLTVREEPYAIDQWQADAESGRLTE 305

Query: 303 AFVCGTAATLVAIGEVRSARTRFAIGNGTAGNTVKVLRDRLVEIQRNQAAGPAGWV 358
           AF CGTAA +  IG+V+     F IG+G AG     L+  L++IQ  +A  P GW+
Sbjct: 306 AFACGTAAVVTPIGKVKGREHSFTIGDGGAGPVASRLKSALLDIQNGRAPDPHGWL 361


Lambda     K      H
   0.321    0.135    0.415 

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: 452
Number of extensions: 18
Number of successful extensions: 2
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: 363
Length of database: 365
Length adjustment: 29
Effective length of query: 334
Effective length of database: 336
Effective search space:   112224
Effective search space used:   112224
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: 49 (23.5 bits)

Align candidate SMc02896 SMc02896 (branched-chain amino acid aminotransferase)
to HMM TIGR01123 (ilvE: branched-chain amino acid aminotransferase (EC 2.6.1.42))

Software error:

../bin/blast/fastacmd -i /tmp/list.26053.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.26053.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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