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- PDB-2png: Type I rat fatty acid synthase acyl carrier protein (ACP) domain -

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Basic information

Entry
Database: PDB / ID: 2png
TitleType I rat fatty acid synthase acyl carrier protein (ACP) domain
ComponentsFatty acid synthase (EC 2.3.1.85)
KeywordsTRANSFERASE / acyl carrier protein / helical bundle / fatty acid synthase
Function / homology
Function and homology information


Vitamin B5 (pantothenate) metabolism / Fatty acyl-CoA biosynthesis / : / : / : / : / fatty-acid synthase system / : / : / ether lipid biosynthetic process ...Vitamin B5 (pantothenate) metabolism / Fatty acyl-CoA biosynthesis / : / : / : / : / fatty-acid synthase system / : / : / ether lipid biosynthetic process / (3R)-3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity / neutrophil differentiation / enoyl-[acyl-carrier-protein] reductase (NADPH, Re-specific) / (3R)-3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase activity / glandular epithelial cell development / : / : / glycogen granule / establishment of endothelial intestinal barrier / [acyl-carrier-protein] S-acetyltransferase / [acyl-carrier-protein] S-acetyltransferase activity / acetyl-CoA metabolic process / oleoyl-[acyl-carrier-protein] hydrolase / (3R)-3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity / (3R)-3-hydroxymyristoyl-[acyl-carrier-protein] dehydratase activity / tissue development / [acyl-carrier-protein] S-malonyltransferase / [acyl-carrier-protein] S-malonyltransferase activity / 3-hydroxyacyl-[acyl-carrier-protein] dehydratase / beta-ketoacyl-[acyl-carrier-protein] synthase I / mammary gland development / 3-oxoacyl-[acyl-carrier-protein] reductase / 3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity / fatty acid synthase activity / lipid biosynthetic process / phosphopantetheine binding / monocyte differentiation / 3-oxoacyl-[acyl-carrier-protein] synthase activity / cellular response to interleukin-4 / NADPH binding / fatty acid biosynthetic process / melanosome / Golgi apparatus / identical protein binding / plasma membrane / cytosol / cytoplasm
Similarity search - Function
: / : / Methyltransferase type 12 / Methyltransferase domain / ACP-like / Thioesterase / Thioesterase domain / Polyketide synthase dehydratase N-terminal domain / PKS_DH / Polyketide synthase, dehydratase domain ...: / : / Methyltransferase type 12 / Methyltransferase domain / ACP-like / Thioesterase / Thioesterase domain / Polyketide synthase dehydratase N-terminal domain / PKS_DH / Polyketide synthase, dehydratase domain / Polyketide synthase, dehydratase domain superfamily / Polyketide synthase, ketoreductase domain / KR domain / Malonyl-CoA ACP transacylase, ACP-binding / Polyketide synthase, C-terminal extension / Ketoacyl-synthetase C-terminal extension / Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A / Acyl transferase domain superfamily / Acyl transferase / Acyl transferase domain / Acyl transferase domain in polyketide synthase (PKS) enzymes. / Acyl transferase/acyl hydrolase/lysophospholipase / Alcohol dehydrogenase-like, C-terminal / Zinc-binding dehydrogenase / Polyketide synthase, enoylreductase domain / Enoylreductase / Polyketide synthase, phosphopantetheine-binding domain / Phosphopantetheine attachment site / Beta-ketoacyl synthase / Beta-ketoacyl synthase, active site / Ketosynthase family 3 (KS3) active site signature. / Polyketide synthase, beta-ketoacyl synthase domain / Beta-ketoacyl synthase, N-terminal / Beta-ketoacyl synthase, C-terminal / Beta-ketoacyl synthase, N-terminal domain / Beta-ketoacyl synthase, C-terminal domain / GroES-like superfamily / Phosphopantetheine attachment site / Thiolase-like / Phosphopantetheine attachment site. / Phosphopantetheine attachment site / ACP-like superfamily / Carrier protein (CP) domain profile. / Phosphopantetheine binding ACP domain / Alpha/Beta hydrolase fold / NAD(P)-binding domain superfamily / S-adenosyl-L-methionine-dependent methyltransferase superfamily / Orthogonal Bundle / Mainly Alpha
Similarity search - Domain/homology
Biological speciesRattus norvegicus (Norway rat)
MethodSOLUTION NMR / simulated annealing
AuthorsPloskon, E.A. / Arthur, C.J. / Evans, S.E. / Williams, C. / Crosby, J. / Crump, M.P.
CitationJournal: J.Biol.Chem. / Year: 2008
Title: A Mammalian type I Fatty Acid synthase acyl carrier protein domain does not sequester acyl chains.
Authors: Ploskon, E. / Arthur, C.J. / Evans, S.E. / Williams, C. / Crosby, J. / Simpson, T.J. / Crump, M.P.
History
DepositionApr 24, 2007Deposition site: RCSB / Processing site: RCSB
Revision 1.0Jun 5, 2007Provider: repository / Type: Initial release
Revision 1.1Oct 23, 2007Group: Version format compliance
SupersessionOct 30, 2007ID: 1N8L
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 16, 2022Group: Data collection / Database references / Derived calculations
Category: database_2 / pdbx_nmr_software ...database_2 / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_nmr_software.name
Revision 1.4Aug 24, 2022Group: Other / Category: pdbx_database_status / Item: _pdbx_database_status.status_code_nmr_data
Revision 1.5May 22, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Fatty acid synthase (EC 2.3.1.85)


Theoretical massNumber of molelcules
Total (without water)9,7001
Polymers9,7001
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)30 / 200structures with the lowest energy
RepresentativeModel #1closest to the average

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Components

#1: Protein Fatty acid synthase (EC 2.3.1.85)


Mass: 9700.080 Da / Num. of mol.: 1 / Fragment: RESIDUES 2114-2202, ACYL CARRIER PROTEIN
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Rattus norvegicus (Norway rat) / Gene: Fasn / Plasmid: pET15b / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P12785, fatty-acid synthase system

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experimentType: 3D 13C-separated NOESY

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Sample preparation

DetailsContents: 1-2MM ACP; 20MM SODIUM DEUTEROACETATE, 1MM NAN3, 1MMDTT, PH 5.5
Solvent system: 20MM SODIUM DEUTEROACETATE, 1MM NAN3, 1MMDTT, PH 5.5
Sample conditionsIonic strength: 20mM SODIUM ACETATE / pH: 5.5 / Pressure: 1 atm / Temperature: 298 K

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometerType: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz

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Processing

NMR software
NameVersionClassification
CNS1.1refinement
NMRPipedata analysis
CCPN Analysisdata analysis
ARIA1.2structure solution
RefinementMethod: simulated annealing / Software ordinal: 1
NMR representativeSelection criteria: closest to the average
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 200 / Conformers submitted total number: 30

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