Other Characterized Proteins Similar to leuC

GapMind for Amino acid biosynthesis

Other Characterized Proteins Similar to leuC

Finding the characterized proteins for leuC (3-isopropylmalate dehydratase / citramalate isomerase, large subunit) in L-isoleucine biosynthesis

Or see clustering for step leuC

Or see all steps for L-isoleucine biosynthesis

Or cluster curated proteins matching a keyword

Definition of leuC

Curated proteins matching citramalate isomerase large subunit
Curated proteins matching 3-isopropylmalate dehydratase large subunit
Curated proteins matching 3-isopropylmalate dehydratase%LeuC
HMM TIGR00170
HMM TIGR02083
HMM TIGR02086
Ignore hits to Q0QLE2 when looking for 'other' hits (2,3-dimethylmalate dehydratase large subunit; EC 4.2.1.85. dimethylmaleate hydratase subunit A (EC 4.2.1.85))
Ignore hits to items matching EC 4.2.1.33 when looking for 'other' hits
Ignore hits to items matching EC 4.2.1.35 when looking for 'other' hits
UniProt sequence LEUC_DESVH: RecName: Full=3-isopropylmalate dehydratase large subunit {ECO:0000255|HAMAP-Rule:MF_01027}; EC=4.2.1.33 {ECO:0000255|HAMAP-Rule:MF_01027}; AltName: Full=Alpha-IPM isomerase {ECO:0000255|HAMAP-Rule:MF_01027}; Short=IPMI {ECO:0000255|HAMAP-Rule:MF_01027}; AltName: Full=Isopropylmalate isomerase {ECO:0000255|HAMAP-Rule:MF_01027};
Ignore hits to CH_122621 when looking for 'other' hits (alpha isopropylmalate isomerase (Eurofung))
Ignore hits to S3E7P8 when looking for 'other' hits (3-isopropylmalate dehydratase large subunit gloJ; L-homotyrosine biosynthesis sub-cluster protein gloJ; Pneumocandin biosynthesis cluster protein J; EC 4.2.1.33)
UniProt sequence A0A1X9Z7T5: RecName: Full=3-isopropylmalate dehydratase large subunit {ECO:0000256|HAMAP-Rule:MF_01026}; EC=4.2.1.33 {ECO:0000256|HAMAP-Rule:MF_01026}; AltName: Full=Alpha-IPM isomerase {ECO:0000256|HAMAP-Rule:MF_01026}; Short=IPMI {ECO:0000256|HAMAP-Rule:MF_01026}; AltName: Full=Isopropylmalate isomerase {ECO:0000256|HAMAP-Rule:MF_01026};
Comment: In leucine synthesis, LeuCD allows the dehydration of 2-isopropylmalate and hydration to 3-isopropylmalate. Similarly, many of these enzymes allow the isomerization of citramalate to 3-methylmalate via citraconate. Citramalate isomerase is usually given as EC 4.2.1.35, as opposed to 4.2.1.33 for traditional leuCD. However, many the bacteria with the citramalate pathway appeared to have "typical" leuBCD (i.e., Desulfovibrio vulgaris Hildenborough, Desulfovibrio vulgaris Miyazaki F, Bacteroides thetaiotaomicron, Magnetospirillum magneticum AMB-1, and Synechococcus elongatus PCC 7942). So we do not try to distinguish between 3-isoprpylmalate dehydratase and citramalate isomerase. Ignore a 2,3-methylmalate dehydratase (Q0QLE2,Q0QLE1) which is >50% identical to leuCD from DvH (DVU2982,DVU2983). Ignore some BRENDA annotations without subunit information, and ignore CharProtDB::CH_122621 (leuCD fusion) which is not actually characterized. DvH leuC (DVU2982) has similarity to both LeuC and to homoaconitase, and fitness data confirms its role in amino acid biosynthesis, so explicitly include it. CA265_RS15830 (A0A1X9Z7T5) from Pedobacter sp. GW460-11-11-14-LB5 is important for fitness unless amino acids are added. S3E7P8 is annotated as this in SwissProt but we did not find experimental evidence, so it is ignored.

Fetched 12 sequences

Running ublast to find other characterized proteins with 40% identity and 70% coverage

Found hits to 5 other characterized sequences. (Found 15 hits including self hits.)

Removing ignored items reduces this to 0 close sequences.

There are also 3 HMM-only high-coverage hits.

HMM-only sequences

(Since these sequences' annotations are outside the definition for leuC, HMM hits that are over 40% similar to these sequences will be scored as moderate confidence.)

B2J8P2 benzylmalate isomerase from Nostoc punctiforme (strain ATCC 29133 / PCC 73102)
PFams: Aconitase_C, Aconitase, Aconitase
569 amino acids: PaperBLAST, CDD

Q9ZNE0 homoaconitase large subunit (EC 4.2.1.36) from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27)
HACA_THET2 / Q9ZNE0 Homoaconitase large subunit; HACN; Homoaconitate hydratase; EC 4.2.1.36 from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27)
PFams: Aconitase
Heteromeric, 418 amino acids: PaperBLAST, CDD

Q58409 homoaconitase α subunit (EC 4.2.1.36) from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)
HACA_METJA / Q58409 Methanogen homoaconitase large subunit; HACN; Homoaconitate hydratase; EC 4.2.1.114 from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Q58409 methanogen homoaconitase (EC 4.2.1.114) from Methanocaldococcus jannaschii
CH_091727 homoaconitase; EC 4.2.1.-; EC 4.2.1.36 from Methanocaldococcus jannaschii
PFams: Aconitase, Aconitase
Heteromeric, 420 amino acids: PaperBLAST, CDD

Close but ignored sequences

(Sequences that are similar to these will still be high-confidence candidates for leuC.)

P9WQF5 3-isopropylmalate dehydratase (EC 4.2.1.33) from Mycobacterium tuberculosis
PFams: Aconitase
473 amino acids: PaperBLAST, CDD, BRENDA::P9WQF5
99% identical to

LEUC_MYCBO / Q7TXH6 3-isopropylmalate dehydratase large subunit; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 from Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
PFams: Aconitase
Heteromeric, 473 amino acids: PaperBLAST, CDD

Q8F4E6 isopropylmalate isomerase large subunit (EC 4.2.1.35) from Leptospira interrogans serogroup Icterohaemorrhagiae serovar Lai (strain 56601)
PFams: Aconitase
Heteromeric, 465 amino acids: PaperBLAST, CDD, metacyc::MONOMER-11896
66% identical to

b0072 3-isopropylmalate dehydratase subunit LeuC (EC 4.2.1.33) from Escherichia coli K-12 substr. MG1655
P0A6A6 3-isopropylmalate dehydratase subunit LeuC (EC 4.2.1.33) from Escherichia coli (strain K12)
ECOCYC|LEUC-MONOMER 3-isopropylmalate dehydratase large subunit; EC 4.2.1.33 from Escherichia coli K12
PFams: Aconitase
Heteromeric, 466 amino acids: PaperBLAST, CDD

LEUC_YEAST / P07264 3-isopropylmalate dehydratase; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
PFams: Aconitase, Aconitase_C
779 amino acids: PaperBLAST, CDD, SwissProt::P07264
60% identical to

CH_122621 alpha isopropylmalate isomerase (Eurofung) from Emericella nidulans
PFams: Aconitase, Aconitase_C
772 amino acids: PaperBLAST, CDD, CharProtDB::CH_122621
60% identical to

Q0QLE2 dimethylmaleate hydratase subunit A (EC 4.2.1.85) from Eubacterium barkeri
DMDA_EUBBA / Q0QLE2 2,3-dimethylmalate dehydratase large subunit; EC 4.2.1.85 from Eubacterium barkeri (Clostridium barkeri)
PFams: Aconitase
Heteromeric, 420 amino acids: PaperBLAST, CDD, SwissProt::Q0QLE2
53% identical to

LEUC_DESVH 3-isopropylmalate dehydratase large subunit {ECO:0000255|HAMAP-Rule:MF_01027}; EC=4.2.1.33 {ECO:0000255|HAMAP-Rule:MF_01027}; Alpha-IPM isomerase {ECO:0000255|HAMAP-Rule:MF_01027}; Short=IPMI {ECO:0000255|HAMAP-Rule:MF_01027}; AltName: Full=Isopropylmalate isomerase {ECO:0000255|HAMAP-Rule:MF_01027}
419 amino acids: PaperBLAST, CDD