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- EMDB-75814: Human monoclonal antibody 8C5 in complex with rabies virus glycop... -

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Basic information

Entry
Database: EMDB / ID: EMD-75814
TitleHuman monoclonal antibody 8C5 in complex with rabies virus glycoprotein
Map data
Sample
  • Complex: Complex of RABV-G pre-fusion trimers with RVA122 and 8C5 Fabs
    • Protein or peptide: Monoclonal Antibody RVA122 Heavy Chain
    • Protein or peptide: Glycoprotein
    • Protein or peptide: Monoclonal Antibody RVA122 Light Chain
    • Protein or peptide: Monoclonal Antibody 8C5 Light Chain
    • Protein or peptide: Monoclonal Antibody 8C5 Heavy Chain
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose
KeywordsRabies / Rabies virus glycoprotein / antibody / VIRAL PROTEIN
Function / homology
Function and homology information


viral membrane / entry receptor-mediated virion attachment to host cell / fusion of virus membrane with host endosome membrane / viral envelope / virion membrane
Similarity search - Function
: / Rhabdovirus glycoprotein G PH domain / : / Rhabdovirus spike glycoprotein G central domain / Rhabdovirus glycoprotein / Rhabdovirus spike glycoprotein fusion domain
Similarity search - Domain/homology
Biological speciesLyssavirus rabies / Homo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.16 Å
AuthorsCallaway HM / Zyla D / Hastie K / Harkins S / Kothalawalage S / Samarasinghe S / Flynn A / Hariharan C / Yin J / Corti D ...Callaway HM / Zyla D / Hastie K / Harkins S / Kothalawalage S / Samarasinghe S / Flynn A / Hariharan C / Yin J / Corti D / Bouhry H / Dessain S / Saphire EO
Funding support United States, 2 items
OrganizationGrant numberCountry
Other private United States
Other private United States
CitationJournal: To Be Published
Title: Antigenic landscape of rabies and related lyssaviruses revealed by cryo-EM
Authors: Callaway HM / Zyla D / Hastie K / Harkins S / Kothalawalage S / Samarasinghe S / Flynn A / Hariharan C / Yin J / Corti D / Bouhry H / Dessain S / Saphire EO
History
DepositionMar 3, 2026-
Header (metadata) releaseAug 19, 2026-
Map releaseAug 19, 2026-
UpdateAug 19, 2026-
Current statusAug 19, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_75814.png

Downloads & links

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Map

FileDownload / File: emd_75814.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.)
1.32 Å/pix.
x 256 pix.
= 337.92 Å		1.32 Å/pix.
x 256 pix.
= 337.92 Å		1.32 Å/pix.
x 256 pix.
= 337.92 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.32 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.16004573 - 0.59170914
Average (Standard dev.)0.0013770628 (±0.018364139)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 337.92 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_75814_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_75814_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 : Complex of RABV-G pre-fusion trimers with RVA122 and 8C5 Fabs

EntireName: Complex of RABV-G pre-fusion trimers with RVA122 and 8C5 Fabs
Components
  • Complex: Complex of RABV-G pre-fusion trimers with RVA122 and 8C5 Fabs
    • Protein or peptide: Monoclonal Antibody RVA122 Heavy Chain
    • Protein or peptide: Glycoprotein
    • Protein or peptide: Monoclonal Antibody RVA122 Light Chain
    • Protein or peptide: Monoclonal Antibody 8C5 Light Chain
    • Protein or peptide: Monoclonal Antibody 8C5 Heavy Chain
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose

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Supramolecule #1: Complex of RABV-G pre-fusion trimers with RVA122 and 8C5 Fabs

SupramoleculeName: Complex of RABV-G pre-fusion trimers with RVA122 and 8C5 Fabs
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#5
Source (natural)Organism: Lyssavirus rabies

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Macromolecule #1: Monoclonal Antibody RVA122 Heavy Chain

MacromoleculeName: Monoclonal Antibody RVA122 Heavy Chain / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 28.196096 KDa
Recombinant expressionOrganism: Drosophila melanogaster (fruit fly)
SequenceString: QVHLQESGPG LVKPSETLSL TCTVSGDSMN NFYWGWIRQP AGKGLEWIGY IYYSGTTNYN PSLKSRVTIS IDTSKNQFSL KVNSVTAAD TAVYYCARDS GDYVSYYYYG MDVWGPGTTV TVSSASTKGP SVFPLAPSSK STSGGTAALG CLVKDYFPEP V TVSWNSGA ...String:
QVHLQESGPG LVKPSETLSL TCTVSGDSMN NFYWGWIRQP AGKGLEWIGY IYYSGTTNYN PSLKSRVTIS IDTSKNQFSL KVNSVTAAD TAVYYCARDS GDYVSYYYYG MDVWGPGTTV TVSSASTKGP SVFPLAPSSK STSGGTAALG CLVKDYFPEP V TVSWNSGA LTSGVHTFPA VLQSSGLYSL SSVVTVPSSS LGTQTYICNV NHKPSNTKVD KKVEPKSCDL EVDDDDKAGW SH PQFEKGG GSGGGSGGGS WSHPQFEK

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Macromolecule #2: Glycoprotein

MacromoleculeName: Glycoprotein / type: protein_or_peptide / ID: 2 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Lyssavirus rabies
Molecular weightTheoretical: 52.204164 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: KFPIYTIPDK LGPWSPIDIH HLSCPNNLVV EDEGCTNLSG FSYMELKVGY ISAIKMNGFT CTGVVTEAET YTNFVGYVTT TFKRKHFRP TPDACRAAYN WKMAGDPRYE ESLHNPYPDY HWLRTVKTTK ESLVIISPSV ADLDPYDRSL HSRVFPGGNC S GVAVSSTY ...String:
KFPIYTIPDK LGPWSPIDIH HLSCPNNLVV EDEGCTNLSG FSYMELKVGY ISAIKMNGFT CTGVVTEAET YTNFVGYVTT TFKRKHFRP TPDACRAAYN WKMAGDPRYE ESLHNPYPDY HWLRTVKTTK ESLVIISPSV ADLDPYDRSL HSRVFPGGNC S GVAVSSTY CSTNHDYTIW MPENPRLGMS CDIFTNSRGK RASKGSETCG FVDERGLYKS LKGACKLKLC GVLGLRLMDG TW VAMQTSN ETKWCPPGQL VNLHDFRSDE IEHLVVEELV KKREECLDAL ESIMTTKSVS FRRLSHLRKL VPGFGKAYTI FNK TLMEAD AHYKSVRTWN EIIPSKGCLR VGGRCHPHVN GVFFNGIILG PDGNVLIPEM QSSLLQQHME LLVSSVIPLM HPLA DPSTV FKNGDEAEDF VEVHLGWSHP QFEKGGGSGG GSGGGSWSHP QFEKGSGSGL NDIFEAQKIE WHE

UniProtKB: Glycoprotein

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Macromolecule #3: Monoclonal Antibody RVA122 Light Chain

MacromoleculeName: Monoclonal Antibody RVA122 Light Chain / type: protein_or_peptide / ID: 3 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.44983 KDa
Recombinant expressionOrganism: Drosophila melanogaster (fruit fly)
SequenceString: QSVLTQSPSA SDTPGQRVTI SCSGSSSNIG SNYVYWYQQF PGTAPKLLIY KSDKRPSGVP DRFSGSTSGT SASLAISGLR SEDEADYYC AAWDNRLSGW LFGGGTKLTV LGTVAAPSVF IFPPSDEQLK SGTASVVCLL NNFYPREAKV QWKVDNALQS G NSQESVTE ...String:
QSVLTQSPSA SDTPGQRVTI SCSGSSSNIG SNYVYWYQQF PGTAPKLLIY KSDKRPSGVP DRFSGSTSGT SASLAISGLR SEDEADYYC AAWDNRLSGW LFGGGTKLTV LGTVAAPSVF IFPPSDEQLK SGTASVVCLL NNFYPREAKV QWKVDNALQS G NSQESVTE QDSKDSTYSL SSTLTLSKAD YEKHKVYACE VTHQGLRSPV TKSFNRGEC

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Macromolecule #4: Monoclonal Antibody 8C5 Light Chain

MacromoleculeName: Monoclonal Antibody 8C5 Light Chain / type: protein_or_peptide / ID: 4 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.238766 KDa
Recombinant expressionOrganism: Drosophila melanogaster (fruit fly)
SequenceString: SYELTQPPSV SVAPGQTARI TCGGNNIGDK IVHWYQQKPG RAPMLAVYDN SDRPSGIPER FSGSNSGNTA TLTISRVEAG DEADYYCQV WHSTGDHLKW VFGGGTKLVT LGQPKANPTV TLFPPSSEEL QANKATLVCL ISDFYPGAVT VAWKADGSPV K AGVETTKP ...String:
SYELTQPPSV SVAPGQTARI TCGGNNIGDK IVHWYQQKPG RAPMLAVYDN SDRPSGIPER FSGSNSGNTA TLTISRVEAG DEADYYCQV WHSTGDHLKW VFGGGTKLVT LGQPKANPTV TLFPPSSEEL QANKATLVCL ISDFYPGAVT VAWKADGSPV K AGVETTKP SKQSNNKYAA SSYLSLTPEQ WKSHRSYSCQ VTHEGSTVEK TVAPTECS

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Macromolecule #5: Monoclonal Antibody 8C5 Heavy Chain

MacromoleculeName: Monoclonal Antibody 8C5 Heavy Chain / type: protein_or_peptide / ID: 5 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 27.975875 KDa
Recombinant expressionOrganism: Drosophila melanogaster (fruit fly)
SequenceString: EVQLVESGGV AVQPGGSLRL SCAASGFTFD DYAMHWVRQA PGKGLEWIAH ISWDGGSPFY ADSVRDRFTI SRDNSKNSLF LQMNSLRPE DTAFYYCVKD EGAVAGTLPF DYWGQGTLVT VSSASTKGPS VFPLAPSSKS TSGGTAALGC LVKDYFPEPV T VSWNSGAL ...String:
EVQLVESGGV AVQPGGSLRL SCAASGFTFD DYAMHWVRQA PGKGLEWIAH ISWDGGSPFY ADSVRDRFTI SRDNSKNSLF LQMNSLRPE DTAFYYCVKD EGAVAGTLPF DYWGQGTLVT VSSASTKGPS VFPLAPSSKS TSGGTAALGC LVKDYFPEPV T VSWNSGAL TSGVHTFPAV LQSSGLYSLS SVVTVPSSSL GTQTYICNVN HKPSNTKVDK KVEPKSCDLE VDDDDKAGWS HP QFEKGGG SGGGSGGGSW SHPQFEK

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Macromolecule #6: 2-acetamido-2-deoxy-beta-D-glucopyranose

MacromoleculeName: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 6 / Number of copies: 9 / Formula: NAG
Molecular weightTheoretical: 221.208 Da
Chemical component information

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

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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

Concentration0.15 mg/mL
BufferpH: 7.4
Component:
ConcentrationFormulaName
137.0 mMNaClSodium chloride
27.0 mMKClPotassium Chloride
100.0 mMNa2HPO4Sodium Phosphate
18.0 mMKH2PO4Potassium Phosphate
GridModel: C-flat-2/1 / Support film - Material: CARBON / Support film - topology: HOLEY
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 0.5 µm
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
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: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.16 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 208987
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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