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3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)

 A0A2G7H0T6_9DEIO        Unreviewed;       352 AA.
A0A2G7H0T6;
31-JAN-2018, integrated into UniProtKB/TrEMBL.
31-JAN-2018, sequence version 1.
16-JAN-2019, entry version 8.
RecName: Full=3-isopropylmalate dehydrogenase {ECO:0000256|HAMAP-Rule:MF_01033};
EC=1.1.1.85 {ECO:0000256|HAMAP-Rule:MF_01033};
AltName: Full=3-IPM-DH {ECO:0000256|HAMAP-Rule:MF_01033};
AltName: Full=Beta-IPM dehydrogenase {ECO:0000256|HAMAP-Rule:MF_01033};
Short=IMDH {ECO:0000256|HAMAP-Rule:MF_01033};
Name=leuB {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000313|EMBL:PIG98001.1};
ORFNames=AMD26_010900 {ECO:0000313|EMBL:PIG98001.1};
Deinococcus sp. UR1.
Bacteria; Deinococcus-Thermus; Deinococci; Deinococcales;
Deinococcaceae; Deinococcus.
NCBI_TaxID=1704277 {ECO:0000313|EMBL:PIG98001.1, ECO:0000313|Proteomes:UP000051726};
[1] {ECO:0000313|Proteomes:UP000051726}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=UR1 {ECO:0000313|Proteomes:UP000051726};
Perry B.J., Steve J., Yost C.K.;
"A Deinococcus species isolated from a roadside stainless steel
surface.";
Submitted (AUG-2015) to the EMBL/GenBank/DDBJ databases.
[2] {ECO:0000313|EMBL:PIG98001.1, ECO:0000313|Proteomes:UP000051726}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=UR1 {ECO:0000313|EMBL:PIG98001.1,
ECO:0000313|Proteomes:UP000051726};
Banno H., Chua N.-H.;
Submitted (OCT-2017) to the EMBL/GenBank/DDBJ databases.
[3] {ECO:0000313|Proteomes:UP000051726}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=UR1 {ECO:0000313|Proteomes:UP000051726};
Suchan D.M., Steve J., Pierce A.J., Olshefsky S.C., Kirzinger M.W.B.,
Cameron A.D.S., Yost C.K.;
"Whole-Genome Sequence and Annotation of Deinococcus sp. UR1.";
Submitted (NOV-2017) to the EMBL/GenBank/DDBJ databases.
[4] {ECO:0000313|EMBL:PIG98001.1, ECO:0000313|Proteomes:UP000051726}
NUCLEOTIDE SEQUENCE.
STRAIN=UR1 {ECO:0000313|EMBL:PIG98001.1,
ECO:0000313|Proteomes:UP000051726};
PubMed=29326211; DOI=10.1128/genomeA.01407-17;
Suchan D.M., Steve J.J., Pierce A.J., Olshefsky S.C.,
Kirzinger M.W.B., Perry B.J., Cameron A.D.S., Yost C.K.;
"Draft Whole-Genome Sequence of Deinococcus sp. UR1, a Putative Novel
Species Isolated from an External Stainless Steel Surface in the
Canadian Prairies.";
Genome Announc. 6:e01407-17(2018).
-!- FUNCTION: Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-
methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-
oxopentanoate. The product decarboxylates to 4-methyl-2
oxopentanoate. {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445, ECO:0000256|SAAS:SAAS00571560}.
-!- CATALYTIC ACTIVITY:
Reaction=(2R,3S)-3-isopropylmalate + NAD(+) = 4-methyl-2-
oxopentanoate + CO2 + NADH; Xref=Rhea:RHEA:32271,
ChEBI:CHEBI:16526, ChEBI:CHEBI:17865, ChEBI:CHEBI:35121,
ChEBI:CHEBI:57540, ChEBI:CHEBI:57945; EC=1.1.1.85;
Evidence={ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445, ECO:0000256|SAAS:SAAS01118041};
-!- COFACTOR:
Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
Evidence={ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445};
Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
Evidence={ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445};
Note=Binds 1 Mg(2+) or Mn(2+) ion per subunit. {ECO:0000256|HAMAP-
Rule:MF_01033, ECO:0000256|RuleBase:RU004445};
-!- COFACTOR:
Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
Evidence={ECO:0000256|SAAS:SAAS00611795};
-!- PATHWAY: Amino-acid biosynthesis; L-leucine biosynthesis; L-
leucine from 3-methyl-2-oxobutanoate: step 3/4.
{ECO:0000256|HAMAP-Rule:MF_01033, ECO:0000256|RuleBase:RU004445,
ECO:0000256|SAAS:SAAS00571573}.
-!- SUBUNIT: Homodimer. {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445, ECO:0000256|SAAS:SAAS00571561}.
-!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000256|HAMAP-Rule:MF_01033}.
-!- SIMILARITY: Belongs to the isocitrate and isopropylmalate
dehydrogenases family. LeuB type 1 subfamily. {ECO:0000256|HAMAP-
Rule:MF_01033}.
-!- CAUTION: Lacks conserved residue(s) required for the propagation
of feature annotation. {ECO:0000256|HAMAP-Rule:MF_01033}.
-!- CAUTION: The sequence shown here is derived from an
EMBL/GenBank/DDBJ whole genome shotgun (WGS) entry which is
preliminary data. {ECO:0000313|EMBL:PIG98001.1}.
-----------------------------------------------------------------------
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Distributed under the Creative Commons Attribution (CC BY 4.0) License
-----------------------------------------------------------------------
EMBL; LIYN02000010; PIG98001.1; -; Genomic_DNA.
UniPathway; UPA00048; UER00072.
Proteomes; UP000051726; Unassembled WGS sequence.
GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
GO; GO:0003862; F:3-isopropylmalate dehydrogenase activity; IEA:UniProtKB-UniRule.
GO; GO:0000287; F:magnesium ion binding; IEA:InterPro.
GO; GO:0051287; F:NAD binding; IEA:InterPro.
GO; GO:0009098; P:leucine biosynthetic process; IEA:UniProtKB-UniRule.
HAMAP; MF_01033; LeuB_type1; 1.
InterPro; IPR019818; IsoCit/isopropylmalate_DH_CS.
InterPro; IPR024084; IsoPropMal-DH-like_dom.
InterPro; IPR004429; Isopropylmalate_DH.
PANTHER; PTHR42979; PTHR42979; 1.
Pfam; PF00180; Iso_dh; 1.
SMART; SM01329; Iso_dh; 1.
TIGRFAMs; TIGR00169; leuB; 1.
PROSITE; PS00470; IDH_IMDH; 1.
3: Inferred from homology;
Amino-acid biosynthesis {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445, ECO:0000256|SAAS:SAAS00571574};
Branched-chain amino acid biosynthesis {ECO:0000256|HAMAP-
Rule:MF_01033, ECO:0000256|RuleBase:RU004445,
ECO:0000256|SAAS:SAAS00571574};
Complete proteome {ECO:0000313|Proteomes:UP000051726};
Cytoplasm {ECO:0000256|HAMAP-Rule:MF_01033};
Leucine biosynthesis {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445, ECO:0000256|SAAS:SAAS00571574};
Magnesium {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|SAAS:SAAS00571572};
Manganese {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|SAAS:SAAS00571566};
Metal-binding {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|RuleBase:RU004445, ECO:0000256|SAAS:SAAS00571558};
NAD {ECO:0000256|HAMAP-Rule:MF_01033, ECO:0000256|RuleBase:RU004445,
ECO:0000256|SAAS:SAAS00571565};
Oxidoreductase {ECO:0000256|HAMAP-Rule:MF_01033,
ECO:0000256|SAAS:SAAS00571564}.
DOMAIN 3 341 Iso_dh. {ECO:0000259|SMART:SM01329}.
NP_BIND 275 287 NAD. {ECO:0000256|HAMAP-Rule:MF_01033}.
METAL 218 218 Magnesium or manganese.
{ECO:0000256|HAMAP-Rule:MF_01033}.
METAL 242 242 Magnesium or manganese.
{ECO:0000256|HAMAP-Rule:MF_01033}.
METAL 246 246 Magnesium or manganese.
{ECO:0000256|HAMAP-Rule:MF_01033}.
BINDING 94 94 Substrate. {ECO:0000256|HAMAP-
Rule:MF_01033}.
BINDING 104 104 Substrate. {ECO:0000256|HAMAP-
Rule:MF_01033}.
BINDING 132 132 Substrate. {ECO:0000256|HAMAP-
Rule:MF_01033}.
BINDING 218 218 Substrate. {ECO:0000256|HAMAP-
Rule:MF_01033}.
SITE 139 139 Important for catalysis.
{ECO:0000256|HAMAP-Rule:MF_01033}.
SITE 185 185 Important for catalysis.
{ECO:0000256|HAMAP-Rule:MF_01033}.
SEQUENCE 352 AA; 37575 MW; 103D5454C6CD0F75 CRC64;
MPKIVSLPGD GIGPEVTAAA VQVLREVAPD LTIEEHLIGG VAYDTHGDPF PQPTRDALKD
ADAVLLGTVG GAQDSAWNLL PRHLRPESGL LALRKALGCY ANLRPVRVQP GLEHLSPLKP
ELARGVDILI VRELLGGVYF DGDRKIDGDT AYNTMRYTTA EVERVAKVAF WAAEQRRGRV
TSVDKANVLE VSELWRRDVT ALRDRDYRGI HLNHEYVDSV AMLIVSDPSR YDVIVTENLF
GDILSDLAAV IPGSLGLMPS ASLGDGAGLF EPIHGSAPDI AGKGVANPAA AIMSAGMLLR
HGLKRPDAAN QIDRAVALAL RAQPTRDLGG TADTQTFTRA VLNALESSPA VG


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Pathways :
WP1566: Citrate cycle (TCA cycle)
WP1614: 1- and 2-Methylnaphthalene degradation
WP1628: beta-Alanine metabolism
WP1655: Geraniol degradation
WP1493: Carbon assimilation C4 pathway
WP1567: Glycolysis and Gluconeogenesis
WP1581: Histidine metabolism
WP1612: 1,2-Dichloroethane degradation
WP1615: 3-Chloroacrylic acid degradation
WP1621: Arginine and proline metabolism
WP1622: Ascorbate and aldarate metabolism
WP1626: Benzoate degradation via CoA ligation
WP1627: Benzoate degradation via hydroxylation
WP1633: Bisphenol A degradation
WP1634: Butanoate metabolism
WP1647: Fatty acid biosynthesis
WP1652: Fructose and mannose metabolism
WP1654: gamma-Hexachlorocyclohexane degradation
WP1657: Glycerolipid metabolism
WP1665: Limonene and pinene degradation
WP1666: Linoleic acid metabolism
WP167: Eicosanoid Synthesis
WP1671: Methane metabolism
WP1673: Naphthalene and anthracene degradation
WP1680: Oxidative phosphorylation

Related Genes :
[IMDH2 IMD2 IMDH IPMDH2 At1g80560 T21F11.11] 3-isopropylmalate dehydrogenase 2, chloroplastic (3-IPM-DH 2) (AtIMDH2) (AtIMDH3) (IMDH 2) (EC 1.1.1.85) (Beta-IPM dehydrogenase 2) (Isopropylmalate dehydrogenase 2) (AtIMD2)
[IMDH1 IMD1 IPMDH1 MAM-D1 At5g14200 MUA22.20] 3-isopropylmalate dehydrogenase 1, chloroplastic (3-IPM-DH 1) (AtIMDH1) (IMDH 1) (EC 1.1.1.85) (Beta-IPM dehydrogenase 1) (Isopropylmalate dehydrogenase 1) (AtIMD1) (Methylthioalkylmalate dehydrogenase 1)
[IMDH3 IMD3 IPMDH3 At1g31180 F28K20.14] 3-isopropylmalate dehydrogenase 3, chloroplastic (3-IPM-DH 3) (AtIMDH2) (AtIMDH3) (IMDH 3) (EC 1.1.1.85) (Beta-IPM dehydrogenase 3) (Isopropylmalate dehydrogenase 3) (AtIMD3)
[leuB MJ0720] 3-isopropylmalate/3-methylmalate dehydrogenase (EC 1.1.1.85) (EC 1.1.1.n5) (3-isopropylmalate dehydrogenase) (3-IPM-DH) (IMDH) (IPMDH) (Beta-IPM dehydrogenase) (D-malate dehydrogenase [decarboxylating]) (EC 1.1.1.83)
[leuB] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB STM0112] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB asd CMQ79_05370] Multifunctional fusion protein [Includes: 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH); Aspartate-semialdehyde dehydrogenase (ASA dehydrogenase) (ASADH) (EC 1.2.1.11) (Aspartate-beta-semialdehyde dehydrogenase)]
[leuB TTHA1230] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB b0073 JW5807] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB STK_04330] 3-isopropylmalate dehydrogenase (3-IPM-DH) (IMDH) (EC 1.1.1.85) (Beta-IPM dehydrogenase)
[leuB leuD BSU04_32030] Multifunctional fusion protein [Includes: 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) (Alpha-IPM isomerase) (Isopropylmalate isomerase) (IPMI); 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)]
[leu1 SPBC1A4.02c SPBC1E8.07c] 3-isopropylmalate dehydrogenase (3-IPM-DH) (IMDH) (EC 1.1.1.85) (Beta-IPM dehydrogenase)
[leuB] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuD leuB DMD63_14200] Multifunctional fusion protein [Includes: 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) (Alpha-IPM isomerase) (Isopropylmalate isomerase) (IPMI); 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)]
[leuA leuB NCTC8500_04662] Multifunctional fusion protein [Includes: 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH); 2-isopropylmalate synthase (EC 2.3.3.13) (Alpha-IPM synthase) (Alpha-isopropylmalate synthase)]
[leuA leuB NCTC9962_05821] Multifunctional fusion protein [Includes: 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH); 2-isopropylmalate synthase (EC 2.3.3.13) (Alpha-IPM synthase) (Alpha-isopropylmalate synthase)]
[leuB] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[LEU2 YCL018W YCL18W] 3-isopropylmalate dehydrogenase (3-IPM-DH) (IMDH) (EC 1.1.1.85) (Beta-IPM dehydrogenase)
[leuB] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB Rv2995c MTV012.09] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[rep 1a-1b] Replicase polyprotein 1ab (ORF1ab polyprotein) [Cleaved into: Nsp1-alpha papain-like cysteine proteinase (EC 3.4.22.-) (PCP1-alpha); Nsp1-beta papain-like cysteine proteinase (EC 3.4.22.-) (PCP1-beta); Nsp2 cysteine proteinase (EC 3.4.22.-) (CP2) (CP); Non-structural protein 3 (Nsp3); 3C-like serine proteinase (3CLSP) (EC 3.4.21.-) (Nsp4); Non-structural protein 5-6-7 (Nsp5-6-7); Non-structural protein 5 (Nsp5); Non-structural protein 6 (Nsp6); Non-structural protein 7-alpha (Nsp7-alpha); Non-structural protein 7-beta (Nsp7-beta); Non-structural protein 8 (Nsp8); RNA-directed RNA polymerase (Pol) (RdRp) (EC 2.7.7.48) (Nsp9); Helicase (Hel) (EC 3.6.4.12) (EC 3.6.4.13) (Nsp10); Non-structural protein 11 (Nsp11); Non-structural protein 12 (Nsp12)]
[leu-1 NCU06232] 3-isopropylmalate dehydrogenase (3-IPM-DH) (IMDH) (EC 1.1.1.85) (Beta-IPM dehydrogenase)
[rep 1a-1b] Replicase polyprotein 1ab (ORF1ab polyprotein) [Cleaved into: Nsp1-alpha papain-like cysteine proteinase (EC 3.4.22.-) (PCP1-alpha); Nsp1-beta papain-like cysteine proteinase (EC 3.4.22.-) (PCP1-beta); Nsp2 cysteine proteinase (EC 3.4.22.-) (CP2) (CP); Non-structural protein 3 (Nsp3); 3C-like serine proteinase (3CLSP) (EC 3.4.21.-) (Nsp4); Non-structural protein 5-6-7 (Nsp5-6-7); Non-structural protein 5 (Nsp5); Non-structural protein 6 (Nsp6); Non-structural protein 7-alpha (Nsp7-alpha); Non-structural protein 7-beta (Nsp7-beta); Non-structural protein 8 (Nsp8); RNA-directed RNA polymerase (Pol) (RdRp) (EC 2.7.7.48) (Nsp9); Helicase (Hel) (EC 3.6.4.12) (EC 3.6.4.13) (Nsp10); Non-structural protein 11 (Nsp11); Non-structural protein 12 (Nsp12)]
[leuB leuD Dtox_0597] Multifunctional fusion protein [Includes: 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) (Alpha-IPM isomerase) (Isopropylmalate isomerase) (IPMI); 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)]
[leuB leuC BSU28270] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB PA3118] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB SO_4235] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB LL1218 L0074] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB TM_0556] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)
[leuB A8C65_16170 A9R57_20565 AC789_1c00740 ACN77_15030 ACN81_29045 ACU57_16160 ACU90_27020 AKG99_14315 AM270_12150 AM464_17130 AMK83_01505 AML07_23700 APZ14_15280 AUQ13_07980 AUS26_14560 AW106_03845 B1K96_13500 BB545_20390 BHS81_00145 BHS87_00290 BIU72_13940 BJJ90_21845 BK248_20925 BK292_13190 BK400_04090 BMT53_09995 BMT91_01845 BTQ06_18480 BUE81_03620 BVL39_02695 BW690_22125 BZL31_15445 C2U48_10135 C4J69_03945 C5N07_08065 C5P01_08410 C5P43_03000 C5P44_14830 C6669_04770 C6986_00445 C7235_20745 C9E25_07405 CA593_03380 CG691_02450 CG692_01345 CG705_02355 COD30_03475 COD46_06125 CR538_21150 CRD98_07535 CRM83_15600 CWS33_09105 CXB56_23640 D0X26_09930 DIV22_05755 DIV25_04800 DL545_20930 DL800_01980 DS732_05260 DTL43_06435 DTL84_04860 EC1094V2_3782 EC3234A_2c00590 EL75_3687 EL79_3797 EL80_3744 ERS085365_01048 ERS085379_00631 ERS085416_01564 ERS139211_00767 ERS150873_01017 ERS150876_00160 FORC28_5128 HW43_04105 NCTC10418_06229 NCTC10865_05187 NCTC11022_04795 NCTC11181_01474 NCTC11341_03470 NCTC13148_05064 NCTC13462_02332 NCTC7152_04210 NCTC8179_01252 NCTC8622_02529 NCTC8960_01658 NCTC9010_04309 NCTC9037_04283 NCTC9045_04826 NCTC9050_02120 NCTC9055_01060 NCTC9058_02700 NCTC9062_04120 NCTC9073_03518 NCTC9111_04360 NCTC9703_03532 NCTC9706_01519 PU06_14930 RG28_04385 RK56_013585 RX35_04812 SAMEA3472044_01941 SAMEA3472047_00221 SAMEA3472055_04308 SAMEA3472067_01319 SAMEA3472070_02488 SAMEA3472080_02142 SAMEA3472114_03714 SAMEA3484433_03002 SAMEA3752557_00779 SAMEA3752559_03919 SAMEA3753064_03276 SAMEA3753097_01914 SAMEA3753106_01602 SAMEA3753290_00299 SAMEA3753300_01974 SAMEA3753391_00938 SAMEA3753397_02829 SK85_00073 UN86_27790 WQ89_09075 WR15_01850] 3-isopropylmalate dehydrogenase (EC 1.1.1.85) (3-IPM-DH) (Beta-IPM dehydrogenase) (IMDH)

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