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- EMDB-49951: MERSmut-CoV M protein dimer in complex with FAb B -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-49951
TitleMERSmut-CoV M protein dimer in complex with FAb B
Map data
Sample
  • Complex: MERSmut-CoV M protein dimer in complex with FAb B
    • Protein or peptide: Membrane protein
    • Protein or peptide: FAb B light chain
    • Protein or peptide: FAb B heavy chain
KeywordsM protein / SARS-CoV-2 / inhibitor bound complex / viral protein / MEMBRANE PROTEIN-IMMUNE SYSTEM-INHIBITOR complex
Function / homology
Function and homology information


host cell Golgi membrane / structural constituent of virion / viral envelope / virion membrane / membrane
Similarity search - Function
M matrix/glycoprotein, MERS-like-CoV / M matrix/glycoprotein, coronavirus / Coronavirus M matrix/glycoprotein / Coronavirus membrane (Cov-M) protein profile.
Similarity search - Domain/homology
Biological speciesHomo sapiens (human) / Middle East respiratory syndrome-related coronavirus
Methodsingle particle reconstruction / cryo EM / Resolution: 3.15 Å
AuthorsMann MK / Abeywickrema P
Funding support United States, 1 items
OrganizationGrant numberCountry
Department of Health & Human Services (HHS)HHSO100201700018C United States
CitationJournal: To Be Published
Title: MERSmut-CoV M protein dimer in complex with FAb B
Authors: Mann MK / Abeywickrema P
History
DepositionMar 31, 2025-
Header (metadata) releaseOct 29, 2025-
Map releaseOct 29, 2025-
UpdateOct 29, 2025-
Current statusOct 29, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_49951.png

Downloads & links

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Map

FileDownload / File: emd_49951.map.gz / Format: CCP4 / Size: 91.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.84 Å/pix.
x 288 pix.
= 241.056 Å		0.84 Å/pix.
x 288 pix.
= 241.056 Å		0.84 Å/pix.
x 288 pix.
= 241.056 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.837 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.156
Minimum - Maximum-1.2261189 - 1.9507579
Average (Standard dev.)-0.00035150567 (±0.030584462)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions288288288
Spacing288288288
CellA=B=C: 241.056 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_49951_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_49951_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : MERSmut-CoV M protein dimer in complex with FAb B

EntireName: MERSmut-CoV M protein dimer in complex with FAb B
Components
  • Complex: MERSmut-CoV M protein dimer in complex with FAb B
    • Protein or peptide: Membrane protein
    • Protein or peptide: FAb B light chain
    • Protein or peptide: FAb B heavy chain

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Supramolecule #1: MERSmut-CoV M protein dimer in complex with FAb B

SupramoleculeName: MERSmut-CoV M protein dimer in complex with FAb B / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Membrane protein

MacromoleculeName: Membrane protein / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Middle East respiratory syndrome-related coronavirus
Molecular weightTheoretical: 29.542191 KDa
Recombinant expressionOrganism: Mammalian expression vector Flag-MCS-pcDNA3.1 (others)
SequenceString: MSNMTQLTEA QIIAIIKDWN FAWSLIFLLI TIVLQYGYPS RSMTVYVFKM FVLWLLWPSS MALSIFSAVY PIDLASQIIS GIVAAVSAM MWISYFVQSI RLFMRTGSWW SFNPETNCLL NVPFGGTIVV RPLVEDSTSV TAVVTRGHLK MAGMHFGACD Y DRLPKEVT ...String:
MSNMTQLTEA QIIAIIKDWN FAWSLIFLLI TIVLQYGYPS RSMTVYVFKM FVLWLLWPSS MALSIFSAVY PIDLASQIIS GIVAAVSAM MWISYFVQSI RLFMRTGSWW SFNPETNCLL NVPFGGTIVV RPLVEDSTSV TAVVTRGHLK MAGMHFGACD Y DRLPKEVT VAKPNVLIYL KMVKRQSYGT NSGVAIYSRY RIGNYRSPPI TADIELALLR ASNSLEVLFQ GPSRGGSGAA AG SGSGSGS PSRLEEELRR RLTEGSEPEA

UniProtKB: Membrane protein

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Macromolecule #2: FAb B light chain

MacromoleculeName: FAb B light chain / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 24.157424 KDa
Recombinant expressionOrganism: Mammalian expression vector Flag-MCS-pcDNA3.1 (others)
SequenceString: ASDIVMTQSP ASLAVSLGQR ATISCKASQS IDYDGDNYMN WYQQKPGQPP KLLIYTTSNL ESGIPARFSG SGSGTDFTLN IHPVEEGDA ATYYCQQNNE DPYTFGGGTK LEIKRADAAP TVSIFPPSSE QLTSGGASVV CFLNNFYPKD INVKWKIDGS E RQNGVLNS ...String:
ASDIVMTQSP ASLAVSLGQR ATISCKASQS IDYDGDNYMN WYQQKPGQPP KLLIYTTSNL ESGIPARFSG SGSGTDFTLN IHPVEEGDA ATYYCQQNNE DPYTFGGGTK LEIKRADAAP TVSIFPPSSE QLTSGGASVV CFLNNFYPKD INVKWKIDGS E RQNGVLNS WTDQDSKDST YSMSSTLTLT KDEYERHNSY TCEATHKTST SPIVKSFNRN EC

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Macromolecule #3: FAb B heavy chain

MacromoleculeName: FAb B heavy chain / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 24.211092 KDa
Recombinant expressionOrganism: Mammalian expression vector Flag-MCS-pcDNA3.1 (others)
SequenceString: EVQLQQSGPE LVKPGASMKI SCKTSGYSFT GYTMNWVKQS HGKNLEWIGL INPYNGDTSY NQKFKGKATL TVDKSSSTAY MELLSLTSE DSAVYYCEVI NTYWGQGTLV TVSAAKTTPP SVYPLAPGSA AQTNSMVTLG CLVKGYFPEP VTVTWNSGSL S SGVHTFPA ...String:
EVQLQQSGPE LVKPGASMKI SCKTSGYSFT GYTMNWVKQS HGKNLEWIGL INPYNGDTSY NQKFKGKATL TVDKSSSTAY MELLSLTSE DSAVYYCEVI NTYWGQGTLV TVSAAKTTPP SVYPLAPGSA AQTNSMVTLG CLVKGYFPEP VTVTWNSGSL S SGVHTFPA VLQSDLYTLS SSVTVPSSTW PSETVTCNVA HPASSTKVDK KIVPRDCGSG SHHHHHH

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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

BufferpH: 7.5
VitrificationCryogen name: NITROGEN

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 51.96 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: DIFFRACTION / Nominal defocus max: 2.3000000000000003 µm / Nominal defocus min: 1.4000000000000001 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: PDB ENTRY
PDB model - PDB ID:

7vgs

Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.15 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 827876
Initial angle assignmentType: NOT APPLICABLE
Final angle assignmentType: NOT APPLICABLE

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