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103  structures 5081  species 1  interaction 9392  sequences 26  architectures

Family: Citrate_synt (PF00285)

Summary: Citrate synthase

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This is the Wikipedia entry entitled "Citrate synthase family". More...

Citrate synthase family Edit Wikipedia article

Citrate_synt
PDB 1a59 EBI.jpg
cold-active citrate synthase
Identifiers
Symbol Citrate_synt
Pfam PF00285
InterPro IPR002020
PROSITE PDOC00422
SCOP 1csc
SUPERFAMILY 1csc
CDD cd06101

In molecular biology, the citrate synthase family of proteins includes the enzymes citrate synthase EC 2.3.3.1, and the related enzymes 2-methylcitrate synthase EC 2.3.3.5 and ATP citrate synthase EC 2.3.3.8.

Citrate synthase is a member of a small family of enzymes that can directly form a carbon-carbon bond without the presence of metal ion cofactors. It catalyses the first reaction in the Krebs' cycle, namely the conversion of oxaloacetate and acetyl-coenzyme A into citrate and coenzyme A. This reaction is important for energy generation and for carbon assimilation. The reaction proceeds via a non-covalently bound citryl-coenzyme A intermediate in a 2-step process (aldol-Claisen condensation followed by the hydrolysis of citryl-CoA).

Citrate synthase enzymes are found in two distinct structural types: type I enzymes (found in eukaryotes, Gram-positive bacteria and archaea) form homodimers and have shorter sequences than type II enzymes, which are found in Gram-negative bacteria and are hexameric in structure. In both types, the monomer is composed of two domains: a large alpha-helical domain consisting of two structural repeats, where the second repeat is interrupted by a small alpha-helical domain. The cleft between these domains forms the active site, where both citrate and acetyl-coenzyme A bind. The enzyme undergoes a conformational change upon binding of the oxaloacetate ligand, whereby the active site cleft closes over in order to form the acetyl-CoA binding site.[1] The energy required for domain closure comes from the interaction of the enzyme with the substrate. Type II enzymes possess an extra N-terminal beta-sheet domain, and some type II enzymes are allosterically inhibited by NADH.[2]

2-methylcitrate synthase catalyses the conversion of oxaloacetate and propanoyl-CoA into (2R,3S)-2-hydroxybutane-1,2,3-tricarboxylate and coenzyme A. This enzyme is induced during bacterial growth on propionate, while type II hexameric citrate synthase is constitutive.[3]

ATP citrate synthase (also known as ATP citrate lyase) catalyses the MgATP-dependent, CoA-dependent cleavage of citrate into oxaloacetate and acetyl-CoA, a key step in the reductive tricarboxylic acid pathway of CO2 assimilation used by a variety of autotrophic bacteria and archaea to fix carbon dioxide.[4] ATP citrate synthase is composed of two distinct subunits. In eukaryotes, ATP citrate synthase is a homotetramer of a single large polypeptide, and is used to produce cytosolic acetyl-CoA from mitochondrial produced citrate.[5]


References[edit]

  1. ^ Daidone I, Roccatano D, Hayward S (June 2004). "Investigating the accessibility of the closed domain conformation of citrate synthase using essential dynamics sampling". J. Mol. Biol. 339 (3): 515–25. doi:10.1016/j.jmb.2004.04.007. PMID 15147839. 
  2. ^ Francois JA, Starks CM, Sivanuntakorn S, Jiang H, Ransome AE, Nam JW, Constantine CZ, Kappock TJ (November 2006). "Structure of a NADH-insensitive hexameric citrate synthase that resists acid inactivation". Biochemistry 45 (45): 13487–99. doi:10.1021/bi061083k. PMID 17087502. 
  3. ^ Gerike U, Hough DW, Russell NJ, Dyall-Smith ML, Danson MJ (April 1998). "Citrate synthase and 2-methylcitrate synthase: structural, functional and evolutionary relationships". Microbiology (Reading, Engl.) 144 (4): 929–35. PMID 9579066. 
  4. ^ Kim W, Tabita FR (September 2006). "Both subunits of ATP-citrate lyase from Chlorobium tepidum contribute to catalytic activity". J. Bacteriol. 188 (18): 6544–52. doi:10.1128/JB.00523-06. PMC 1595482. PMID 16952946. 
  5. ^ Bauer DE, Hatzivassiliou G, Zhao F, Andreadis C, Thompson CB (September 2005). "ATP citrate lyase is an important component of cell growth and transformation". Oncogene 24 (41): 6314–22. doi:10.1038/sj.onc.1208773. PMID 16007201. 

This article incorporates text from the public domain Pfam and InterPro IPR002020

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InterPro entry IPR002020

Citrate synthase EC is a member of a small family of enzymes that can directly form a carbon-carbon bond without the presence of metal ion cofactors. It catalyses the first reaction in the Krebs' cycle, namely the conversion of oxaloacetate and acetyl-coenzyme A into citrate and coenzyme A. This reaction is important for energy generation and for carbon assimilation. The reaction proceeds via a non-covalently bound citryl-coenzyme A intermediate in a 2-step process (aldol-Claisen condensation followed by the hydrolysis of citryl-CoA).

Citrate synthase enzymes are found in two distinct structural types: type I enzymes (found in eukaryotes, Gram-positive bacteria and archaea) form homodimers and have shorter sequences than type II enzymes, which are found in Gram-negative bacteria and are hexameric in structure. In both types, the monomer is composed of two domains: a large alpha-helical domain consisting of two structural repeats, where the second repeat is interrupted by a small alpha-helical domain. The cleft between these domains forms the active site, where both citrate and acetyl-coenzyme A bind. The enzyme undergoes a conformational change upon binding of the oxaloacetate ligand, whereby the active site cleft closes over in order to form the acetyl-CoA binding site [PUBMED:15147839]. The energy required for domain closure comes from the interaction of the enzyme with the substrate. Type II enzymes possess an extra N-terminal beta-sheet domain, and some type II enzymes are allosterically inhibited by NADH [PUBMED:17087502].

This entry represents types I and II citrate synthase enzymes, as well as the related enzymes 2-methylcitrate synthase and ATP citrate synthase. 2-methylcitrate (EC) synthase catalyses the conversion of oxaloacetate and propanoyl-CoA into (2R,3S)-2-hydroxybutane-1,2,3-tricarboxylate and coenzyme A. This enzyme is induced during bacterial growth on propionate, while type II hexameric citrate synthase is constitutive [PUBMED:9579066]. ATP citrate synthase (EC) (also known as ATP citrate lyase) catalyses the MgATP-dependent, CoA-dependent cleavage of citrate into oxaloacetate and acetyl-CoA, a key step in the reductive tricarboxylic acid pathway of CO2 assimilation used by a variety of autotrophic bacteria and archaea to fix carbon dioxide [PUBMED:16952946]. ATP citrate synthase is composed of two distinct subunits. In eukaryotes, ATP citrate synthase is a homotetramer of a single large polypeptide, and is used to produce cytosolic acetyl-CoA from mitochondrial produced citrate [PUBMED:16007201].

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Domain organisation

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(121)
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(9392)
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(7278)
Meta
(4274)
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(694)
RP35
(1359)
RP55
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RP75
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  Seed
(121)
Full
(9392)
Representative proteomes NCBI
(7278)
Meta
(4274)
RP15
(694)
RP35
(1359)
RP55
(1866)
RP75
(2244)
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  Seed
(121)
Full
(9392)
Representative proteomes NCBI
(7278)
Meta
(4274)
RP15
(694)
RP35
(1359)
RP55
(1866)
RP75
(2244)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download  

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Seed source: Prosite
Previous IDs: citrate_synt;
Type: Domain
Author: Finn RD
Number in seed: 121
Number in full: 9392
Average length of the domain: 289.30 aa
Average identity of full alignment: 36 %
Average coverage of the sequence by the domain: 82.11 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.1 20.1
Trusted cut-off 20.3 20.1
Noise cut-off 19.8 20.0
Model length: 356
Family (HMM) version: 16
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Citrate_synt

Structures

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