Alignments for a candidate for leuD in Paraburkholderia phymatum STM815

Align 3-isopropylmalate dehydratase small subunit; EC 4.2.1.33 (characterized, see rationale)
to candidate WP_012403656.1 BPHY_RS21970 3-isopropylmalate dehydratase small subunit

Query= uniprot:Q845W4
         (216 letters)



>NCBI__GCF_000020045.1:WP_012403656.1
          Length = 217

 Score =  416 bits (1069), Expect = e-121
 Identities = 197/216 (91%), Positives = 208/216 (96%), Gaps = 1/216 (0%)

Query: 1   MEKFTVHTGVVAPLDRENVDTDAIIPKQFLKSIKRTGFGPNAFDEWRYLDHGEPGQDNSK 60
           M+KF VHTGVVAPLDRENVDTDAIIPKQFLKSIKRTGFGPNAFDEWRYLDHGEPGQDNSK
Sbjct: 1   MDKFIVHTGVVAPLDRENVDTDAIIPKQFLKSIKRTGFGPNAFDEWRYLDHGEPGQDNSK 60

Query: 61  RPLNPDFVLNQPRYQGASILVTRKNFGCGSSREHAPWALQQYGFRAIIAPSFADIFFNNC 120
           RPLNPDFVLNQPRYQGASIL+TR+NFGCGSSREHAPWALQQYGFRAIIAPSFADIF+NNC
Sbjct: 61  RPLNPDFVLNQPRYQGASILLTRQNFGCGSSREHAPWALQQYGFRAIIAPSFADIFYNNC 120

Query: 121 FKNGLLPIVLTEQQVDHLINETVAFNGYQLTIDLEAQVVRTPD-GRDYPFEITAFRKYCL 179
           FKNGLLPIVLTEQQVDHL NET AFNG+QLT+DLE QVVRT D G +YPFE+ AFRKYCL
Sbjct: 121 FKNGLLPIVLTEQQVDHLFNETFAFNGFQLTVDLEKQVVRTTDGGTEYPFEVAAFRKYCL 180

Query: 180 LNGFDDIGLTLRHADKIRQFEAERLAKQPWLNNKLV 215
           LNGFDDIGLTLRHADKIRQ+EAER+AKQPWLNN+LV
Sbjct: 181 LNGFDDIGLTLRHADKIRQYEAERIAKQPWLNNRLV 216


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: 286
Number of extensions: 5
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: 216
Length of database: 217
Length adjustment: 22
Effective length of query: 194
Effective length of database: 195
Effective search space:    37830
Effective search space used:    37830
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_012403656.1 BPHY_RS21970 (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.32235.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.32235.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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