Alignments for a candidate for leuD in Thioalkalivibrio denitrificans ALJD

Align 3-isopropylmalate dehydratase small subunit; EC 4.2.1.33 (characterized, see rationale)
to candidate WP_077277801.1 B1C78_RS03705 3-isopropylmalate dehydratase small subunit

Query= uniprot:Q845W4
         (216 letters)



>NCBI__GCF_002000365.1:WP_077277801.1
          Length = 212

 Score =  296 bits (759), Expect = 1e-85
 Identities = 142/210 (67%), Positives = 158/210 (75%)

Query: 1   MEKFTVHTGVVAPLDRENVDTDAIIPKQFLKSIKRTGFGPNAFDEWRYLDHGEPGQDNSK 60
           M+  T   G+V PLDR NVDTDAIIPKQ+LKS+KRTGFGPN FD+WRYLD GEPG D+SK
Sbjct: 1   MKPLTTVDGLVVPLDRSNVDTDAIIPKQYLKSVKRTGFGPNLFDDWRYLDPGEPGMDHSK 60

Query: 61  RPLNPDFVLNQPRYQGASILVTRKNFGCGSSREHAPWALQQYGFRAIIAPSFADIFFNNC 120
           R +NPDFVLN P Y GA IL+ RKNFGCGSSREHA WAL  YG R +IAPSFADIFF+N 
Sbjct: 61  RRINPDFVLNDPHYWGAEILLARKNFGCGSSREHAVWALTDYGIRVVIAPSFADIFFSNS 120

Query: 121 FKNGLLPIVLTEQQVDHLINETVAFNGYQLTIDLEAQVVRTPDGRDYPFEITAFRKYCLL 180
           FKNGLLPIVL E  VD L  E  A  GY+L +DL AQ V TP G   PFE+  F K+CLL
Sbjct: 121 FKNGLLPIVLDEAVVDRLFAEVSATPGYRLNVDLAAQTVTTPSGEAIPFEVGEFHKHCLL 180

Query: 181 NGFDDIGLTLRHADKIRQFEAERLAKQPWL 210
           NG DDI LTL HAD IR +E  R A+ PWL
Sbjct: 181 NGLDDIALTLEHADDIRAYEQRRRAEAPWL 210


Lambda     K      H
   0.322    0.141    0.437 

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: 204
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: 216
Length of database: 212
Length adjustment: 22
Effective length of query: 194
Effective length of database: 190
Effective search space:    36860
Effective search space used:    36860
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 WP_077277801.1 B1C78_RS03705 (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.4165.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.4165.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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