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- EMDB-71547: Human antibody Fab MPV513 bound to hMPV DsCav-ES2 -

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Open data


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Basic information

Entry
Database: EMDB / ID: EMD-71547
TitleHuman antibody Fab MPV513 bound to hMPV DsCav-ES2
Map data
Sample
  • Complex: MPV513 Fab bound to hMPV DsCav-ES2 F protein
    • Protein or peptide: Fusion glycoprotein F0
    • Protein or peptide: MPV513 Heavy Chain
    • Protein or peptide: MPV513 Light Chain
KeywordshMPV / Human respiratory disease / cryoem / human metapneumovirus / VIRAL PROTEIN-IMMUNE SYSTEM complex
Function / homologyPrecursor fusion glycoprotein F0, Paramyxoviridae / Fusion glycoprotein F0 / fusion of virus membrane with host plasma membrane / viral envelope / symbiont entry into host cell / host cell plasma membrane / virion membrane / membrane / Fusion glycoprotein F0
Function and homology information
Biological speciesHomo sapiens (human) / human metapneumovirus
Methodsingle particle reconstruction / cryo EM / Resolution: 3.94 Å
AuthorsGhazi Esfahani B / Mousa J / Khalil AM
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01 AI143865 United States
CitationJournal: To Be Published
Title: Human metapneumovirus-specific antibodies isolated from infected children target diverse epitopes and have prophylactic efficacy in mice
Authors: Khalil AM / Ghazi Esfahani B / Mousa J
History
DepositionJul 1, 2025-
Header (metadata) releaseSep 3, 2025-
Map releaseSep 3, 2025-
UpdateFeb 11, 2026-
Current statusFeb 11, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_71547.png

Downloads & links

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Map

FileDownload / File: emd_71547.map.gz / Format: CCP4 / Size: 83.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.88 Å/pix.
x 280 pix.
= 246.4 Å		0.88 Å/pix.
x 280 pix.
= 246.4 Å		0.88 Å/pix.
x 280 pix.
= 246.4 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.88 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.15
Minimum - Maximum-1.5094576 - 1.7648897
Average (Standard dev.)0.0003831654 (±0.030819928)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions280280280
Spacing280280280
CellA=B=C: 246.4 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: sharpened by deepEMhancer

Fileemd_71547_additional_1.map
Annotationsharpened by deepEMhancer
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: MPV499- hMPV DsCav-ES2

Fileemd_71547_additional_2.map
AnnotationMPV499- hMPV DsCav-ES2
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map B

Fileemd_71547_half_map_1.map
Annotationhalf map B
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map A

Fileemd_71547_half_map_2.map
Annotationhalf map A
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : MPV513 Fab bound to hMPV DsCav-ES2 F protein

EntireName: MPV513 Fab bound to hMPV DsCav-ES2 F protein
Components
  • Complex: MPV513 Fab bound to hMPV DsCav-ES2 F protein
    • Protein or peptide: Fusion glycoprotein F0
    • Protein or peptide: MPV513 Heavy Chain
    • Protein or peptide: MPV513 Light Chain

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Supramolecule #1: MPV513 Fab bound to hMPV DsCav-ES2 F protein

SupramoleculeName: MPV513 Fab bound to hMPV DsCav-ES2 F protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #3, #1-#2
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 421 KDa

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Macromolecule #1: MPV513 Heavy Chain

MacromoleculeName: MPV513 Heavy Chain / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 13.402724 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
EVQLVQSGAE VKKPGESLRI SCKGSGYDFP SYWISWVRQM PGKGLEWMGR IDPTDSNTNY SPSFQGHVTL SADKSISTAY LQWSSLKAS DTAIYYCARH SDSWSYYEDS WGQGTLVTVS S

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Macromolecule #2: MPV513 Light Chain

MacromoleculeName: MPV513 Light Chain / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 11.724072 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
DIQMTQSPSS LSASVGDRVT ITCRASQSIS TYLNWYQQKP GKAPKLLIYA ASSLQSGVPS RFSGRLSGTD FTLTISSLQP EDFATYYCQ QTYSSPRTFG QGTKVEIK

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Macromolecule #3: Fusion glycoprotein F0

MacromoleculeName: Fusion glycoprotein F0 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: human metapneumovirus
Molecular weightTheoretical: 49.269281 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: LKESYLEESC STITEGYLSV LRTGWYTNVF TLEVGDVENL TCADGPSLIK TELDLTKSAL RELRTVSADQ LAREEQIENP RQSRFVLGA IACGVATAAA VTAGVAIAKC IRLESEVTAI KNCLKKTNEC VSTLGCGVRV LATAVRELKD FVSKNLTRAI N KNKCDIPD ...String:
LKESYLEESC STITEGYLSV LRTGWYTNVF TLEVGDVENL TCADGPSLIK TELDLTKSAL RELRTVSADQ LAREEQIENP RQSRFVLGA IACGVATAAA VTAGVAIAKC IRLESEVTAI KNCLKKTNEC VSTLGCGVRV LATAVRELKD FVSKNLTRAI N KNKCDIPD LKMAVSFSQF NRRFLNVVRQ FSDNAGITPA ISKDLMTDAE LARAISNMPT SAGQIKLMLE NRAMVRRKGF GI LIGVYGS SVIYMVQLPI FGVIDTPCWI VKAAPSCSEK KGNYACLLRE DQGWYCQNAG STVYYPCEKD CETRGDHVFC DTA AGINVA EQSKECNINI STTNYPCKVS CGRHPISMVA LSPLGALVAC YKGVSCSIGS NRVGIIKQLN KGCSYITNQD ADTV TIDNT VYQLSKVEGE QHVIKGRPVS SSFDPVKFPQ DQFNVALDQC FESIEN

UniProtKB: Fusion glycoprotein F0

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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
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.8000000000000003 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: PDB ENTRY
PDB model - PDB ID:

7m0i

Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.94 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 204000
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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