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- EMDB-63391: Structure of yeast 1,3-beta-glucan synthase FKS2 -

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ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-63391
TitleStructure of yeast 1,3-beta-glucan synthase FKS2
Map data
Sample
  • Complex: FKS2, encoding an alternate catalytic subunit of the 1,3-beta-glucan synthase (GS) complex
    • Protein or peptide: 1,3-beta-glucan synthase component GSC2
  • Ligand: MAGNESIUM ION
KeywordsFKS2 / 1 / 3-beta-glucan synthase / glycotransferase / MEMBRANE PROTEIN
Function / homology
Function and homology information


fungal-type cell wall polysaccharide biosynthetic process / 1,3-beta-glucan synthase / 1,3-beta-D-glucan synthase activity / (1->3)-beta-D-glucan biosynthetic process / 1,3-beta-D-glucan synthase complex / prospore membrane / ascospore wall assembly / cellular bud neck / cell periphery / membrane / plasma membrane
Similarity search - Function
: / 1,3-beta-glucan synthase component FKS1, second domain / Glycosyl transferase, family 48 / 1,3-beta-glucan synthase subunit FKS1-like, domain-1 / 1,3-beta-glucan synthase component / 1,3-beta-glucan synthase subunit FKS1, domain-1 / 1,3-beta-glucan synthase subunit FKS1
Similarity search - Domain/homology
1,3-beta-glucan synthase component GSC2
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast) / Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.99 Å
AuthorsXiang W / Jialu L
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32471264 China
CitationJournal: To Be Published
Title: Structure of yeast 1,3-beta-glucan synthase FKS2
Authors: Xiang W / Jialu L
History
DepositionFeb 8, 2025-
Header (metadata) releaseApr 22, 2026-
Map releaseApr 22, 2026-
UpdateApr 22, 2026-
Current statusApr 22, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_63391.png

Downloads & links

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Map

FileDownload / File: emd_63391.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.1 Å/pix.
x 256 pix.
= 281.6 Å		1.1 Å/pix.
x 256 pix.
= 281.6 Å		1.1 Å/pix.
x 256 pix.
= 281.6 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.1 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.2
Minimum - Maximum-1.9843885 - 3.01052
Average (Standard dev.)0.0014454521 (±0.06032942)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 281.6 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_63391_msk_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_63391_half_map_1.map
Projections & Slices
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Histogram

Histogram (log scale)

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Half map: #1

Fileemd_63391_half_map_2.map
Projections & Slices
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Sample components

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Entire : FKS2, encoding an alternate catalytic subunit of the 1,3-beta-glu...

EntireName: FKS2, encoding an alternate catalytic subunit of the 1,3-beta-glucan synthase (GS) complex
Components
  • Complex: FKS2, encoding an alternate catalytic subunit of the 1,3-beta-glucan synthase (GS) complex
    • Protein or peptide: 1,3-beta-glucan synthase component GSC2
  • Ligand: MAGNESIUM ION

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Supramolecule #1: FKS2, encoding an alternate catalytic subunit of the 1,3-beta-glu...

SupramoleculeName: FKS2, encoding an alternate catalytic subunit of the 1,3-beta-glucan synthase (GS) complex
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1
Details: FKS2 is required for spore wall assembly as it synthesizes 1,3-beta-glucan, a major structural component of the yeast cell wall, with its activity positively regulated by RHO1 and negatively ...Details: FKS2 is required for spore wall assembly as it synthesizes 1,3-beta-glucan, a major structural component of the yeast cell wall, with its activity positively regulated by RHO1 and negatively regulated by SMK1 to ensure proper spore wall deposition.
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)

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Macromolecule #1: 1,3-beta-glucan synthase component GSC2

MacromoleculeName: 1,3-beta-glucan synthase component GSC2 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: 1,3-beta-glucan synthase
Source (natural)Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Molecular weightTheoretical: 218.211859 KDa
Recombinant expressionOrganism: Saccharomyces cerevisiae (brewer's yeast)
SequenceString: MSYNDPNLNG QYYSNGDGTG DGNYPTYQVT QDQSAYDEYG QPIYTQNQLD DGYYDPNEQY VDGTQFPQGQ DPSQDQGPYN NDASYYNQP PNMMNPSSQD GENFSDFSSY GPPSGTYPND QYTPSQMSYP DQDGSSGAST PYGNGVVNGN GQYYDPNAIE M ALPNDPYP ...String:
MSYNDPNLNG QYYSNGDGTG DGNYPTYQVT QDQSAYDEYG QPIYTQNQLD DGYYDPNEQY VDGTQFPQGQ DPSQDQGPYN NDASYYNQP PNMMNPSSQD GENFSDFSSY GPPSGTYPND QYTPSQMSYP DQDGSSGAST PYGNGVVNGN GQYYDPNAIE M ALPNDPYP AWTADPQSPL PIEQIEDIFI DLTNKFGFQR DSMRNMFDHF MTLLDSRSSR MSPEQALLSL HADYIGGDTA NY KKWYFAA QLDMDDEIGF RNMKLGKLSR KARKAKKKNK KAMQEASPED TEETLNQIEG DNSLEAADFR WKSKMNQLSP FEM VRQIAL FLLCWGEANQ VRFTPECLCF IYKCASDYLD SAQCQQRPDP LPEGDFLNRV ITPLYRFIRS QVYEIVDGRY VKSE KDHNK VIGYDDVNQL FWYPEGIAKI VMEDGTRLID LPAEERYLKL GEIPWDDVFF KTYKETRSWL HLVTNFNRIW IMHIS VYWM YCAYNAPTFY THNYQQLVDN QPLAAYKWAT AALGGTVASL IQVAATLCEW SFVPRKWAGA QHLSRRFWFL CVIMGI NLG PVIFVFAYDK DTVYSTAAHV VGAVMFFVAV ATLVFFSVMP LGGLFTSYMK KSTRSYVASQ TFTASFAPLH GLDRWMS YL VWVTVFAAKY AESYFFLILS LRDPIRILST TSMRCTGEYW WGNKICKVQP KIVLGLMIAT DFILFFLDTY LWYIVVNT V FSVGKSFYLG ISILTPWRNI FTRLPKRIYS KILATTDMEI KYKPKVLISQ IWNAIIISMY REHLLAIDHV QKLLYHQVP SEIEGKRTLR APTFFVSQDD NNFETEFFPR DSEAERRISF FAQSLSTPIP EPLPVDNMPT FTVLTPHYAE RILLSLREII REDDQFSRV TLLEYLKQLH PVEWDCFVKD TKILAEETAA YENNEDEPEK EDALKSQIDD LPFYCIGFKS AAPEYTLRTR I WASLRSQT LYRTISGFMN YSRAIKLLYR VENPEIVQMF GGNADGLERE LEKMARRKFK FLVSMQRLAK FKPHELENAE FL LRAYPDL QIAYLDEEPP LNEGEEPRIY SALIDGHCEI LENGRRRPKF RVQLSGNPIL GDGKSDNQNH ALIFYRGEYI QLI DANQDN YLEECLKIRS VLAEFEELGI EQIHPYTPGL KYEDQSTNHP VAIVGAREYI FSENSGVLGD VAAGKEQTFG TLFA RTLAQ IGGKLHYGHP DFINATFMTT RGGVSKAQKG LHLNEDIYAG MNAVLRGGRI KHCEYYQCGK GRDLGFGTIL NFTTK IGAG MGEQMLSREY YYLGTQLPID RFLTFYYAHP GFHLNNLFIQ LSLQMFMLTL VNLHALAHES ILCVYDRDKP ITDVLY PIG CYNFHPAIDW VRRYTLSIFI VFWIAFVPIV VQELIERGLW KATQRFFRHI LSLSPMFEVF AGQIYSSALL SDIAVGG AR YISTGRGFAT SRIPFSILYS RFAGSAIYMG SRSMLMLLFG TVAHWQAPLL WFWASLSALI FAPFIFNPHQ FAWEDFFL D YRDYIRWLSR GNNKYHRNSW IGYVRMSRSR VTGFKRKLVG DESEKSAGDA SRAHRTNLIM AEIIPCAIYA AGCFIAFTF INAQTGVKTT DEDRVNSTLR IIICTLAPIV IDIGVLFFCM GLSCCSGPLL GMCCKKTGSV MAGIAHGIAV VVHIVFFIVM WVLEGFSFV RMLIGVVTCI QCQRLIFHCM TVLLLTREFK NDHANTAFWT GKWYSTGLGY MAWTQPTREL TAKVIELSEF A ADFVLGHV ILIFQLPVIC IPKIDKFHSI MLFWLKPSRQ IRPPIYSLKQ ARLRKRMVRR YCSLYFLVLI IFAGCIVGPA VA SAHVPKD LGSGLTGTFH NLVQPRNVSN NDTGSQMSTY KSHYYTHTPS LKTWSTIKDY KDDDDK

UniProtKB: 1,3-beta-glucan synthase component GSC2

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Macromolecule #4: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 4 / Number of copies: 1 / Formula: MG
Molecular weightTheoretical: 24.305 Da

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

Concentration9 mg/mL
BufferpH: 8
Component:
ConcentrationFormulaName
150.0 mMNaclsodium chloride
0.06 %GDNGDN
25.0 mMTrisTirs
GridMaterial: GOLD / Mesh: 300
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 57.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.2 µm
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 2.99 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 450233
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION
FSC plot (resolution estimation)

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