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- EMDB-75191: HSV-2 gHecto/gL/53S-Fab complex -

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ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-75191
TitleHSV-2 gHecto/gL/53S-Fab complex
Map dataFull map of the cryoEM generate 3D density map used to reconstruct the HSV-2 gH/gL/53S-Fab antibody complex.
Sample
  • Complex: HSV-2 gHecto/gL/53S-Fab complex
    • Protein or peptide: Envelope glycoprotein H
    • Protein or peptide: Envelope glycoprotein L
    • Protein or peptide: 53S-Fab Light Chain
    • Protein or peptide: 53S-Fab Heavy Chain
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose
  • Ligand: water
KeywordsViral Glycoprotein / Fusion Regulator / Antibody Complex / VIRAL PROTEIN-IMMUNE SYSTEM complex
Function / homology
Function and homology information


host cell endosome membrane / host cell Golgi apparatus / fusion of virus membrane with host plasma membrane / viral envelope / symbiont entry into host cell / host cell plasma membrane / virion membrane
Similarity search - Function
Herpesvirus glycoprotein L, C-terminal / dsDNA virus glycoprotein L C terminal / Herpesvirus glycoprotein L, N-terminal / Herpesvirus glycoprotein L, N-terminal domain superfamily / Herpesvirus glycoprotein L / Alphaherpesvirus glycoprotein L (gL) domain profile. / Envelope glycoprotein L / Herpesvirus glycoprotein H main domain / Herpesvirus glycoprotein H / Herpesvirus glycoprotein H, C-terminal ...Herpesvirus glycoprotein L, C-terminal / dsDNA virus glycoprotein L C terminal / Herpesvirus glycoprotein L, N-terminal / Herpesvirus glycoprotein L, N-terminal domain superfamily / Herpesvirus glycoprotein L / Alphaherpesvirus glycoprotein L (gL) domain profile. / Envelope glycoprotein L / Herpesvirus glycoprotein H main domain / Herpesvirus glycoprotein H / Herpesvirus glycoprotein H, C-terminal / Herpesvirus glycoprotein H, C-terminal domain superfamily / Herpesvirus glycoprotein H C-terminal domain
Similarity search - Domain/homology
Envelope glycoprotein L / Envelope glycoprotein H
Similarity search - Component
Biological speciesHuman herpesvirus 2 strain HG52 / Mus musculus (house mouse)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.26 Å
AuthorsGonzalez-Del Pino GL / Russell HC / Walsh RM / Heldwein EE
Funding support United States, 3 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01 AI164698 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)K12 GM133314 United States
Howard Hughes Medical Institute (HHMI)55108533 United States
CitationJournal: To Be Published
Title: HSV-2 gHecto/gL/53S-Fab complex
Authors: Gonzalez-Del Pino GL / Russell HC / Walsh RM / Heldwein EE
History
DepositionJan 21, 2026-
Header (metadata) releaseSep 30, 2026-
Map releaseSep 30, 2026-
UpdateSep 30, 2026-
Current statusSep 30, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_75191.png

Downloads & links

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Map

FileDownload / File: emd_75191.map.gz / Format: CCP4 / Size: 371.3 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationFull map of the cryoEM generate 3D density map used to reconstruct the HSV-2 gH/gL/53S-Fab antibody complex.
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.73 Å/pix.
x 460 pix.
= 335.8 Å		0.73 Å/pix.
x 460 pix.
= 335.8 Å		0.73 Å/pix.
x 460 pix.
= 335.8 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.73 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.025
Minimum - Maximum-0.0495489 - 0.1179212
Average (Standard dev.)0.000043208027 (±0.0021171626)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions460460460
Spacing460460460
CellA=B=C: 335.80002 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: Half map 1 of the cryoEM generate 3D...

Fileemd_75191_half_map_1.map
AnnotationHalf map 1 of the cryoEM generate 3D density map used to reconstruct the HSV-2 gH/gL/53S-Fab antibody complex.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Half map 2 of the cryoEM generate 3D...

Fileemd_75191_half_map_2.map
AnnotationHalf map 2 of the cryoEM generate 3D density map used to reconstruct the HSV-2 gH/gL/53S-Fab antibody complex.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : HSV-2 gHecto/gL/53S-Fab complex

EntireName: HSV-2 gHecto/gL/53S-Fab complex
Components
  • Complex: HSV-2 gHecto/gL/53S-Fab complex
    • Protein or peptide: Envelope glycoprotein H
    • Protein or peptide: Envelope glycoprotein L
    • Protein or peptide: 53S-Fab Light Chain
    • Protein or peptide: 53S-Fab Heavy Chain
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose
  • Ligand: water

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Supramolecule #1: HSV-2 gHecto/gL/53S-Fab complex

SupramoleculeName: HSV-2 gHecto/gL/53S-Fab complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#4
Source (natural)Organism: Human herpesvirus 2 strain HG52

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Macromolecule #1: Envelope glycoprotein H

MacromoleculeName: Envelope glycoprotein H / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Human herpesvirus 2 strain HG52
Molecular weightTheoretical: 86.887961 KDa
Recombinant expressionOrganism: Spodoptera frugiperda (fall armyworm)
SequenceString: MGPGLWVVMG VLVGVAGGHD TYWTEQIDPW FLHGLGLART YWRDTNTGRL WLPNTPDASD PQRGRLAPPG ELNLTTASVP MLRWYAERF CFVLVTTAEF PRDPGQLLYI PKTYLLGRPR NASLPELPEA GPTSRPPAEV TQLKGLSHNP GASALLRSRA W VTFAAAPD ...String:
MGPGLWVVMG VLVGVAGGHD TYWTEQIDPW FLHGLGLART YWRDTNTGRL WLPNTPDASD PQRGRLAPPG ELNLTTASVP MLRWYAERF CFVLVTTAEF PRDPGQLLYI PKTYLLGRPR NASLPELPEA GPTSRPPAEV TQLKGLSHNP GASALLRSRA W VTFAAAPD REGLTFPRGD DGATERHPDG RRNAPPPGPP AGTPRHPTTN LSIAHLHNAS VTWLAARGLL RTPGRYVYLS PS ASTWPVG VWTTGGLAFG CDAALVRARY GKGFMGLVIS MRDSPPAEII VVPADKTLAR VGNPTDENAP AVLPGPPAGP RYR VFVLGA PTPADNGSAL DALRRVAGYP EESTNYAQYM SRAYAEFLGE DPGSGTDARP SLFWRLAGLL ASSGFAFVNA AHAH DAIRL SDLLGFLAHS RVLAGLAARG AAGCAADSVF LNVSVLDPAA RLRLEARLGH LVAAILEREQ SLVAHALGYQ LAFVL DSPA AYGAVAPSAA RLIDALYAEF LGGRALTAPM VRRALFYATA VLRAPFLAGA PSAEQRERAR RGLLITTALC TSDVAA ATH ADLRAALART DHQKNLFWLP DHFSPCAASL RFDLAEGGFI LDALAMATRS DIPADVMAQQ TRGVASVLTR WAHYNAL IR AFVPEATHQC SGPSHNAEPR ILVPITHNAS YVVTHTPLPR GIGYKLTGVD VRRPLFITYL TATCEGHARE IEPKRLVR T ENRRDLGLVG AVFLRYTPAG EVMSVLLVDT DATQQQLAQG PVAGTPNVFS SDVPSVALLL FPNGTVIHLL AFDTLPIAT IAPHHHHHH

UniProtKB: Envelope glycoprotein H

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Macromolecule #2: Envelope glycoprotein L

MacromoleculeName: Envelope glycoprotein L / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Human herpesvirus 2 strain HG52
Molecular weightTheoretical: 25.229676 KDa
Recombinant expressionOrganism: Spodoptera frugiperda (fall armyworm)
SequenceString: MGFVCLFGLV VMGAWGAWGG SQATEYVLRS VIAKEVGDIL RVPCMRTPAD DVSWRYEAPS VIDYARIDGI FLRYHCPGLD TFLWDRHAQ RAYLVNPFLF AAGFLEDLSH SVFPADTQET TTRRALYKEI RDALGSRKQA VSHAPVRAGC VNFDYSRTRR C VGRRDLRP ...String:
MGFVCLFGLV VMGAWGAWGG SQATEYVLRS VIAKEVGDIL RVPCMRTPAD DVSWRYEAPS VIDYARIDGI FLRYHCPGLD TFLWDRHAQ RAYLVNPFLF AAGFLEDLSH SVFPADTQET TTRRALYKEI RDALGSRKQA VSHAPVRAGC VNFDYSRTRR C VGRRDLRP ANTTSTWEPP VSSDDEASSQ SKPLATQPPV LALSNAPPRR VSPTRGRRRH TRLRRN

UniProtKB: Envelope glycoprotein L

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Macromolecule #3: 53S-Fab Light Chain

MacromoleculeName: 53S-Fab Light Chain / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mus musculus (house mouse)
Molecular weightTheoretical: 25.610508 KDa
Recombinant expressionOrganism: Mus musculus (house mouse)
SequenceString: MSVLTQVLAL LLLWLTGARC DIQMTQSPAS LSASVGETVT ITCRASGNIH NYLAWYQQKQ GKSPQLLVYN GKNLADGVPS RFSGSGSGT QYSLKINSLQ PEDFGSYYCQ HFWSTTWTFG GGTKLEIKRA DAAPTVSIFP PSSEQLTSGG ASVVCFLNNF Y PKDINVKW ...String:
MSVLTQVLAL LLLWLTGARC DIQMTQSPAS LSASVGETVT ITCRASGNIH NYLAWYQQKQ GKSPQLLVYN GKNLADGVPS RFSGSGSGT QYSLKINSLQ PEDFGSYYCQ HFWSTTWTFG GGTKLEIKRA DAAPTVSIFP PSSEQLTSGG ASVVCFLNNF Y PKDINVKW KIDGSERQNG VLNSWTDQDS KDSTYSMSST LTLTKDEYER HNSYTCEATH KTSTSPIVKS FNRN

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Macromolecule #4: 53S-Fab Heavy Chain

MacromoleculeName: 53S-Fab Heavy Chain / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mus musculus (house mouse)
Molecular weightTheoretical: 25.179031 KDa
Recombinant expressionOrganism: Mus musculus (house mouse)
SequenceString: MEWTWAFLFL LSVTAGVHSQ VQLQQSGAEL MKPGASVKIS CKASGYTFSS NWIEWIKQRP GHGLEWIGEI LPGSDNTHYN ENFKGKATF SAYTSSNTVY MQLSSLTSED SAVYYCARRD YDYEGFAYWG QGTLVTVSAK TTPPSVYPLA PGCGDTTGSS V TLGCLVKG ...String:
MEWTWAFLFL LSVTAGVHSQ VQLQQSGAEL MKPGASVKIS CKASGYTFSS NWIEWIKQRP GHGLEWIGEI LPGSDNTHYN ENFKGKATF SAYTSSNTVY MQLSSLTSED SAVYYCARRD YDYEGFAYWG QGTLVTVSAK TTPPSVYPLA PGCGDTTGSS V TLGCLVKG YFPESVTVTW NSGSLSSSVH TFPALLQSGL YTMSSSVTVP SSTWPSQTVT CSVAHPASST TVDKK

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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: 3 / Formula: NAG
Molecular weightTheoretical: 221.208 Da
Chemical component information

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

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Macromolecule #7: water

MacromoleculeName: water / type: ligand / ID: 7 / Number of copies: 4 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER

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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: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: TFS FALCON 4i (4k x 4k) / Average electron dose: 49.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: 4D-STEM / Nominal defocus max: 4.3 µm / Nominal defocus min: 0.9 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:

10ie

Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.26 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 204072
Initial angle assignmentType: NOT APPLICABLE
Final angle assignmentType: NOT APPLICABLE

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