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- PDB-2cf2: Architecture of mammalian fatty acid synthase -

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Basic information

Entry
Database: PDB / ID: 2cf2
TitleArchitecture of mammalian fatty acid synthase
Components
  • FATTY ACID SYNTHASE, DH DOMAIN
  • FATTY ACID SYNTHASE, ER DOMAIN
  • FATTY ACID SYNTHASE, KR DOMAIN
  • FATTY ACID SYNTHASE, KS DOMAIN
  • FATTY ACID SYNTHASE, MAT DOMAIN
KeywordsTRANSFERASE / FATTY ACID METABOLISM / FATTY ACID BIOSYNTHESIS / MULTIENZYME
Function / homology
Function and homology information


monounsaturated fatty acid biosynthetic process / beta-ketoacyl-[acyl-carrier-protein] synthase I / 3-oxoacyl-[acyl-carrier-protein] synthase activity / fatty acid biosynthetic process / cytosol
Similarity search - Function
Beta-ketoacyl synthase / Beta-ketoacyl synthase / Beta-ketoacyl synthase, active site / Ketosynthase family 3 (KS3) active site signature. / Ketosynthase family 3 (KS3) domain profile. / Beta-ketoacyl synthase, N-terminal / Beta-ketoacyl synthase, C-terminal / Polyketide synthase, beta-ketoacyl synthase domain / Beta-ketoacyl synthase, N-terminal domain / Beta-ketoacyl synthase, C-terminal domain / Thiolase-like
Similarity search - Domain/homology
3-oxoacyl-[acyl-carrier-protein] synthase 1
Similarity search - Component
Biological speciesSUS SCROFA (pig)
MethodX-RAY DIFFRACTION / SYNCHROTRON / MIRAS / Resolution: 4.3 Å
Model type detailsCA ATOMS ONLY, CHAIN A, J, B, K, C, L, D, M, E, N
AuthorsMaier, T. / Jenni, S. / Ban, N.
CitationJournal: Science / Year: 2006
Title: Architecture of Mammalian Fatty Acid Synthase at 4.5 A Resolution.
Authors: Maier, T. / Jenni, S. / Ban, N.
History
DepositionFeb 14, 2006Deposition site: PDBE / Processing site: PDBE
Revision 1.0Mar 7, 2006Provider: repository / Type: Initial release
Revision 1.1May 8, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: FATTY ACID SYNTHASE, KS DOMAIN
B: FATTY ACID SYNTHASE, MAT DOMAIN
C: FATTY ACID SYNTHASE, DH DOMAIN
D: FATTY ACID SYNTHASE, ER DOMAIN
E: FATTY ACID SYNTHASE, KR DOMAIN
J: FATTY ACID SYNTHASE, KS DOMAIN
K: FATTY ACID SYNTHASE, MAT DOMAIN
L: FATTY ACID SYNTHASE, DH DOMAIN
M: FATTY ACID SYNTHASE, ER DOMAIN
N: FATTY ACID SYNTHASE, KR DOMAIN


Theoretical massNumber of molelcules
Total (without water)333,13310
Polymers333,13310
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author&software
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
MethodPQS
Unit cell
Length a, b, c (Å)96.100, 245.000, 134.100
Angle α, β, γ (deg.)90.00, 101.20, 90.00
Int Tables number4
Space group name H-MP1211

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Components

#1: Protein FATTY ACID SYNTHASE, KS DOMAIN / Coordinate model: Cα atoms only


Mass: 42668.191 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) SUS SCROFA (pig) / Tissue: MAMMARY GLAND
References: UniProt: P0A953*PLUS, fatty-acid synthase system
#2: Protein FATTY ACID SYNTHASE, MAT DOMAIN / Coordinate model: Cα atoms only


Mass: 30981.406 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) SUS SCROFA (pig) / Tissue: MAMMARY GLAND / References: fatty-acid synthase system
#3: Protein FATTY ACID SYNTHASE, DH DOMAIN / Coordinate model: Cα atoms only


Mass: 37701.637 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) SUS SCROFA (pig) / Tissue: MAMMARY GLAND / References: fatty-acid synthase system
#4: Protein FATTY ACID SYNTHASE, ER DOMAIN / Coordinate model: Cα atoms only


Mass: 31513.039 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) SUS SCROFA (pig) / Tissue: MAMMARY GLAND / References: fatty-acid synthase system
#5: Protein FATTY ACID SYNTHASE, KR DOMAIN / Coordinate model: Cα atoms only


Mass: 23702.061 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) SUS SCROFA (pig) / Tissue: MAMMARY GLAND / References: fatty-acid synthase system
Sequence detailsTHIS PDB FILE CONTAINS INDIVIDUAL HOMOLOGOUS DOMAINS PLACED INTO AN EXPERIMENTALLY PHASED 4.5A ...THIS PDB FILE CONTAINS INDIVIDUAL HOMOLOGOUS DOMAINS PLACED INTO AN EXPERIMENTALLY PHASED 4.5A RESOLUTION ELECTRON DENISTY MAP TO ILLUSTRATE THE ARCHITECTURE OF MAMMALIAN FATTY ACID SYNTHASE

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Experimental details

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Experiment

ExperimentMethod: X-RAY DIFFRACTION / Number of used crystals: 1

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Sample preparation

CrystalDensity Matthews: 4.65 Å3/Da / Density % sol: 57 %

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Data collection

DiffractionMean temperature: 100 K
Diffraction sourceSource: SYNCHROTRON / Site: SLS / Beamline: X06SA / Wavelength: 1
DetectorType: MARRESEARCH / Detector: CCD / Date: Apr 16, 2005
RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelengthWavelength: 1 Å / Relative weight: 1
ReflectionResolution: 4.3→50 Å / Num. obs: 41085 / % possible obs: 99.1 % / Observed criterion σ(I): -3 / Redundancy: 4.2 % / Rmerge(I) obs: 0.12 / Net I/σ(I): 10
Reflection shellResolution: 4.3→4.5 Å / Redundancy: 4.2 % / Rmerge(I) obs: 0.41 / Mean I/σ(I) obs: 4 / % possible all: 99.5

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Processing

Software
NameClassification
XDSdata reduction
XDSdata scaling
SHARPphasing
RefinementMethod to determine structure: MIRAS / Resolution: 4.3→50 Å / Num. reflection obs: 41085
Details: THIS PDB FILE CONTAINS INDIVIDUAL HOMOLOGOUS DOMAINS PLACED INTO AN EXPERIMENTALLY PHASED 4.5A RESOLUTION ELECTRON DENISTY MAP TO ILLUSTRATE THE ARCHITECTURE OF MAMMALIAN FATTY ACID SYNTHASE. ...Details: THIS PDB FILE CONTAINS INDIVIDUAL HOMOLOGOUS DOMAINS PLACED INTO AN EXPERIMENTALLY PHASED 4.5A RESOLUTION ELECTRON DENISTY MAP TO ILLUSTRATE THE ARCHITECTURE OF MAMMALIAN FATTY ACID SYNTHASE. FOR FURTHER INFORMATION ABOUT THE PLACED DOMAINS, SEE THE PRIMARY REFERENCE.
Refinement stepCycle: LAST / Resolution: 4.3→50 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms3146 0 0 0 3146

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