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- PDB-5u3c: CryoEM structure of the CTP synthase filament at 4.6 Angstrom res... -

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Entry
Database: PDB / ID: 5u3c
TitleCryoEM structure of the CTP synthase filament at 4.6 Angstrom resolution
DescriptorCTP synthase (E.C.6.3.4.2)
KeywordsPROTEIN FIBRIL / LIGASE / nucleotide metabolism / metabolic filament
Specimen sourceEscherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
MethodElectron microscopy (4.6 A resolution / Helical)
AuthorsKollman, J.M. / Lynch, E.M.
CitationNat. Struct. Mol. Biol., 2017

Nat. Struct. Mol. Biol., 2017 StrPapers
Human CTP synthase filament structure reveals the active enzyme conformation.
Eric M Lynch / Derrick R Hicks / Matthew Shepherd / James A Endrizzi / Allison Maker / Jesse M Hansen / Rachael M Barry / Zemer Gitai / Enoch P Baldwin / Justin M Kollman

DateDeposition: Dec 1, 2016 / Release: Apr 26, 2017 / Last modification: May 17, 2017

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Assembly

Deposited unit
A: CTP synthase
B: CTP synthase
C: CTP synthase
D: CTP synthase
hetero molecules


Theoretical massNumber of molelcules
Total (without water)245,42912
Polyers241,7884
Non-polymers3,6418
Water0
#1
A: CTP synthase
B: CTP synthase
C: CTP synthase
D: CTP synthase
hetero molecules
x 7


Theoretical massNumber of molelcules
Total (without water)1,718,00584
Polyers1,692,51528
Non-polymers25,49056
Water0
TypeNameSymmetry operationNumber
helical symmetry operation7
#2


  • idetical with deposited unit in distinct coordinate
  • helical asymmetric unit
TypeNameSymmetry operationNumber
helical symmetry operation1
#3


  • idetical with deposited unit in distinct coordinate
  • helical asymmetric unit, std helical frame
TypeNameSymmetry operationNumber
transform to helical frame1

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Components

#1: Polypeptide(L)
CTP synthase / Cytidine 5'-triphosphate synthase / Cytidine triphosphate synthetase / CTPS / UTP--ammonia ligase


Mass: 60446.980 Da / Num. of mol.: 4
Source: (gene. exp.) Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
References: UniProt: B7MLA1, EC: 6.3.4.2
#2: Chemical
ChemComp-CTP / CYTIDINE-5'-TRIPHOSPHATE


Mass: 483.156 Da / Num. of mol.: 4 / Formula: C9H16N3O14P3
#3: Chemical
ChemComp-ADP / ADENOSINE-5'-DIPHOSPHATE / ADP *YM


Mass: 427.201 Da / Num. of mol.: 4 / Formula: C10H15N5O10P2

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentReconstruction method: HELICAL

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Sample preparation

ComponentName: CTP synthase filament
Details: CTP synthase was incubated in the presence of substrates, and filaments form as the product CTP builds up in the reaction.
Type: COMPLEX
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

MicroscopyMicroscope model: FEI POLARA 300
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: OTHER
Electron lensMode: BRIGHT FIELD

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Processing

EM helical entityAngular rotation per subunit: 48.5 deg. / Axial rise per subunit: 81.6 A / Axial symmetry: C1
3D reconstructionResolution: 4.6 A / Resolution method: FSC 0.143 CUT-OFF / Number of particles: 8622

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