Alignments for a candidate for leuD in Herbaspirillum autotrophicum IAM 14942

Align 3-isopropylmalate dehydratase small subunit; EC 4.2.1.33 (characterized, see rationale)
to candidate WP_050463055.1 AKL27_RS11960 3-isopropylmalate dehydratase small subunit

Query= uniprot:Q845W4
         (216 letters)



>NCBI__GCF_001189915.1:WP_050463055.1
          Length = 215

 Score =  356 bits (913), Expect = e-103
 Identities = 170/215 (79%), Positives = 181/215 (84%), Gaps = 1/215 (0%)

Query: 1   MEKFTVHTGVVAPLDRENVDTDAIIPKQFLKSIKRTGFGPNAFDEWRYLDHGEPGQDNSK 60
           M KF VH G+VAPLDR NVDTDAIIPKQFLKSIKR+GFGPN FDEWRYLDHGEPG DNSK
Sbjct: 1   MNKFIVHDGLVAPLDRANVDTDAIIPKQFLKSIKRSGFGPNLFDEWRYLDHGEPGMDNSK 60

Query: 61  RPLNPDFVLNQPRYQGASILVTRKNFGCGSSREHAPWALQQYGFRAIIAPSFADIFFNNC 120
           RPLNPDFVLNQ RYQGASIL+ RKNFGCGSSREHAPWAL QYGFRA+IAPSFADIFFNNC
Sbjct: 61  RPLNPDFVLNQARYQGASILLARKNFGCGSSREHAPWALDQYGFRAVIAPSFADIFFNNC 120

Query: 121 FKNGLLPIVLTEQQVDHLINETVAFNGYQLTIDLEAQVVRTPDGRD-YPFEITAFRKYCL 179
           +KNGLLPIVL EQQ+DHL NE  AF G++L IDLE Q+V T  G   YPFE+  FRKYCL
Sbjct: 121 YKNGLLPIVLPEQQIDHLFNEVKAFPGFRLVIDLEKQIVTTASGSQIYPFEVGEFRKYCL 180

Query: 180 LNGFDDIGLTLRHADKIRQFEAERLAKQPWLNNKL 214
           LNG DDIGLTLR ADKIR FE   L  QPWL N +
Sbjct: 181 LNGLDDIGLTLRQADKIRAFEERHLFDQPWLANTI 215


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: 238
Number of extensions: 4
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: 215
Length adjustment: 22
Effective length of query: 194
Effective length of database: 193
Effective search space:    37442
Effective search space used:    37442
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_050463055.1 AKL27_RS11960 (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.26876.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.26876.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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