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- EMDB-64671: Cryo-EM structure of hMPV pre-F in complex with antibody CNR2047 -

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Basic information

Entry
Database: EMDB / ID: EMD-64671
TitleCryo-EM structure of hMPV pre-F in complex with antibody CNR2047
Map data
Sample
  • Complex: hMPV antibody CNR2047
    • Complex: hMPV Fusion Protein
      • Protein or peptide: hMPV fusion protein
    • Complex: CNR2047
      • Protein or peptide: CNR2047 heavy chain
      • Protein or peptide: CNR2047 light chain
KeywordshMPV / Fusion Protein / Antibody / VIRAL PROTEIN
Biological speciesHuman metapneumovirus A / Homo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.12 Å
AuthorsZhai H / Deng J / Yu W
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: To Be Published
Title: hMPV pre-F in complex with antibody CNR2047
Authors: Zhai H / Zhai H
History
DepositionMay 18, 2025-
Header (metadata) releaseDec 31, 2025-
Map releaseDec 31, 2025-
UpdateDec 31, 2025-
Current statusDec 31, 2025Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_64671.png

Downloads & links

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Map

FileDownload / File: emd_64671.map.gz / Format: CCP4 / Size: 40.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
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Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.04 Å/pix.
x 220 pix.
= 227.92 Å		1.04 Å/pix.
x 220 pix.
= 227.92 Å		1.04 Å/pix.
x 220 pix.
= 227.92 Å

Surface

Projections

Slices (1/3)

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Images are generated by Spider.

Voxel sizeX=Y=Z: 1.036 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.332
Minimum - Maximum-0.75787354 - 1.4037699
Average (Standard dev.)0.001397231 (±0.0390629)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions220220220
Spacing220220220
CellA=B=C: 227.92 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_64671_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_64671_half_map_2.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : hMPV antibody CNR2047

EntireName: hMPV antibody CNR2047
Components
  • Complex: hMPV antibody CNR2047
    • Complex: hMPV Fusion Protein
      • Protein or peptide: hMPV fusion protein
    • Complex: CNR2047
      • Protein or peptide: CNR2047 heavy chain
      • Protein or peptide: CNR2047 light chain

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Supramolecule #1: hMPV antibody CNR2047

SupramoleculeName: hMPV antibody CNR2047 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Human metapneumovirus A

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Supramolecule #2: hMPV Fusion Protein

SupramoleculeName: hMPV Fusion Protein / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #3
Source (natural)Organism: Human metapneumovirus A

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Supramolecule #3: CNR2047

SupramoleculeName: CNR2047 / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #1-#2
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: CNR2047 heavy chain

MacromoleculeName: CNR2047 heavy chain / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 12.947601 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
VQLVESGGGL VKPGESLRLS CAVSGSMFSS YVMHWVRQAP GKGLDWVSSI TGGGNYISYA DSVKGRFIIS RDNGRNSLSL QMSSLRVDD TAVYYCVRGL SGVMGVTWFD SWGQGTLVTV SS

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Macromolecule #2: CNR2047 light chain

MacromoleculeName: CNR2047 light chain / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 11.717903 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
QSVLTQPPSV SGAPGQRVTI SCTGSSSNIG AGFDVHWYQH LPGKAPKVII YENSHRPSGV PDRFFGSKSG TSASLSISGL QPEDEADYY CQSYDRGLDW VFGGGTKLTV L

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Macromolecule #3: hMPV fusion protein

MacromoleculeName: hMPV fusion protein / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Human metapneumovirus A
Molecular weightTheoretical: 59.332301 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MSWKVVIIFS LLITPQHGLK ESYLEESCST ITEGYLSVLR TGWYTNVFTL EVGDVENLTC ADGPSLIKTE LDLTKSALRE LRTVSADQL AREEQIENPR RRRFVLGAIA LGVATAAAVT AGVAIAKTIR LESEVTAIKN ALKKTNEAVS TLGNGVRVLA T AVRELKDF ...String:
MSWKVVIIFS LLITPQHGLK ESYLEESCST ITEGYLSVLR TGWYTNVFTL EVGDVENLTC ADGPSLIKTE LDLTKSALRE LRTVSADQL AREEQIENPR RRRFVLGAIA LGVATAAAVT AGVAIAKTIR LESEVTAIKN ALKKTNEAVS TLGNGVRVLA T AVRELKDF VSKNLTRAIN KNKCDIPDLK MAVSFSQFNR RFLNVVRQFS DNAGITPAIS LDLMTDAELA RAVSNMPTSA GQ IKLMLEN RAMVRRKGFG ILIGVYGSSV IYMVQLPIFG VIDTPCWIVK AAPSCSEKKG NYACLLREDQ GWYCQNAGST VYY PNEKDC ETRGDHVFCD TAAGINVAEQ SKECNINIST TNYPCKVSTG RHPISMVALS PLGALVACYK GVSCSIGSNR VGII KQLNK GCSYITNQDA DTVTIDNTVY QLSKVEGEQH VIKGRPVSSS FDPVKFPEDQ FNVALDQVFE SIENSQALVD QSNRI LSSA EKGNTSGREN LYFQGGGGSG YIPEAPRDGQ AYVRKDGEWV LLSTFLGGIE GRHHHHHH

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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: 8
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: 60.0 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: DARK 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: PDB ENTRY
PDB model - PDB ID:

5wb0

Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.12 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: PHENIX / Number images used: 49711
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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