Alignments for a candidate for leuD in Phaeobacter inhibens BS107

Align 3-isopropylmalate dehydratase small subunit; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 (characterized)
to candidate GFF2932 PGA1_c29790 3-isopropylmalate dehydratase small subunit

Query= SwissProt::Q1MA52
         (202 letters)



>FitnessBrowser__Phaeo:GFF2932
          Length = 201

 Score =  294 bits (753), Expect = 6e-85
 Identities = 138/200 (69%), Positives = 165/200 (82%)

Query: 1   MDKFVKLTGVAAPLPVVNVDTDMIIPKDYLKTIKRTGLGTGLFAEARYNEDGSENPDFVL 60
           M+KF K+ G+AAP+P+VN+DTDMIIPK +LK+I+RTG G  LF E RYN DGSE  DFVL
Sbjct: 1   MEKFTKIQGIAAPMPLVNIDTDMIIPKVFLKSIQRTGFGKNLFDEMRYNRDGSEIADFVL 60

Query: 61  NKPAYRDAKILVAGDNFGCGSSREHAPWALLDFGIRCVISTSFADIFYNNCFKNGILPIK 120
           NKP YRDA+IL+AGDNFGCGSSREHAPWA+ DFGIRC++STSFADIF+NN FKNGILPI 
Sbjct: 61  NKPQYRDAEILIAGDNFGCGSSREHAPWAIADFGIRCIVSTSFADIFFNNSFKNGILPIV 120

Query: 121 VSQEDLDKLMDDASRGSNAILTVDLENLEITGPDGGLIKFDLDEFKRHCLLNGLDDIGLT 180
           + QE +D LM DA +G+NA +TVDLE  EI+  DG +IKF++D FK+HCLLNGLDDIGLT
Sbjct: 121 LPQEQVDLLMKDAEKGANARMTVDLEAQEISTSDGEVIKFEVDAFKKHCLLNGLDDIGLT 180

Query: 181 LEKGKAIDSFEKKNAASHPW 200
           +EK  +I SFE K A   PW
Sbjct: 181 MEKATSIASFEDKAAQERPW 200


Lambda     K      H
   0.319    0.140    0.419 

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: 206
Number of extensions: 7
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: 202
Length of database: 201
Length adjustment: 21
Effective length of query: 181
Effective length of database: 180
Effective search space:    32580
Effective search space used:    32580
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 (21.7 bits)
S2: 45 (21.9 bits)

Align candidate GFF2932 PGA1_c29790 (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.10833.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.10833.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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