8eji

Lassa virus glycoprotein complex (Josiah) bound to 19.7E Fab

Method: ELECTRON MICROSCOPY D_max: 116.3 Å Quality: REASONABLE

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Glycoprotein G1

Lassa mammarenavirus

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Other combination Heteromer Protein × 8 其他Polymer 19 PDB declaration: octameric（8） Consistent with protein copy count	Chain A； UniProt 1–259 Chain B； UniProt 1–259 Chain C； UniProt 1–259 Chain a； UniProt 260–424 Chain b； UniProt 260–424 Chain c； UniProt 260–424	Mutation：R207C, L258R, L259R Mutation：E328P, G359C	19.7E Fab heavy chain × 1 19.7E Fab light chain × 1 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 6 ;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 2 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 7 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.4；TBS cryo-EM vitrification conditions：Cryogen ETHANE；Wait time 10 s; blotting time varied between 3-7 s; blotting force of 0	Resolution 3.81 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 8EJI	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
5FT2 Sub-tomogram averaging of Lassa virus glycoprotein spike from virus- like particles at pH 5 Deposited 2016-01-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Monomer；Protein × 1 PDB declaration: monomeric	Chain B 75–237（163 aa） Fragment：RECEPTOR BINDING DOMAIN, UNP RESIDUES 75-237	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2	ELECTRON MICROSCOPY cryo-EM buffer 50 MM BUFFER OF SUCCINIC ACID, DIHYDROGEN PHOSPHATE AND GLYCINE (SPG)；pH 5.2；50 MM BUFFER OF SUCCINIC ACID, DIHYDROGEN PHOSPHATE AND GLYCINE (SPG) cryo-EM vitrification conditions Cryogen ETHANE-PROPANE；VITRIFICATION 1 -- CRYOGEN- ETHANE-PROPANE MIXTURE, HUMIDITY- 80, TEMPERATURE- 120, INSTRUMENT- GATAN CRYOPLUNGE 3, METHOD- BLOT FOR 3 SECONDS BEFORE PLUNGING.,	Resolution 16.40 Å
5VK2 Structural basis for antibody-mediated neutralization of Lassa virus Deposited 2017-04-20	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric	Chain A 1–259（259 aa） Fragment：UNP residues 1-259 Chain B 1–259（259 aa） Fragment：UNP residues 1-259 Chain C 1–259（259 aa） Fragment：UNP residues 1-259 Chain a 260–423（164 aa） Fragment：UNP residues 260-423 Chain b 260–423（164 aa） Fragment：UNP residues 260-423 Chain c 260–423（164 aa） Fragment：UNP residues 260-423	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；296 K；0.1M Tris pH 8, 15-18% PEG 3350 and 0.1M-0.3M magnesium acetate	Resolution 3.20 Å R-free 0.231
6P95 Structure of Lassa virus glycoprotein in complex with Fab 25.6A Deposited 2019-06-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–433（174 aa） Chain b 260–433（174 aa） Chain c 260–433（174 aa）	Mutation：R207C, L258R, L259RG Mutation：R207C, L258R, L259RG Mutation：R207C, L258R, L259RG Mutation：G360P, M332T, E329C Mutation：G360P, M332T, E329C Mutation：G360P, M332T, E329C	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；0.1 M Tris pH 8, 15-18% PEG 3350 and 0.1 M-0.3 M magnesium acetate	Resolution 3.50 Å R-free 0.247
7PUY Structure of the membrane soluble spike complex from the Lassa virus in a C3-symmetric map Deposited 2021-10-01	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.30 Å
7PVD Structure of the membrane soluble spike complex from the Lassa virus in a C1-symmetric map focused on the ectodomain Deposited 2021-10-02	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.70 Å
7S8H Structure of Lassa virus glycoprotein bound to Fab 18.5C and Fab 36.1F Deposited 2021-09-17	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric	Chain A 59–259（201 aa） Chain a 260–424（165 aa）	Mutation：G243C, Residues 256-259 mutated from RRLL to RRRR Mutation：E329P, M332T, I350C	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；293.15 K；0.1 M Tris, pH 8.0, 1.25 M LiCl and 15% PEG 8k	Resolution 2.70 Å R-free 0.251
7TYV Structure of Lassa Virus glycoprotein (Josiah) bound to Fab 25.10C Deposited 2022-02-14	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–423（164 aa） Chain b 260–423（164 aa） Chain c 260–423（164 aa）	Mutation：R207C, Residues 256-259 mutated from RRLL to RRRR Mutation：R207C, Residues 256-259 mutated from RRLL to RRRR Mutation：R207C, Residues 256-259 mutated from RRLL to RRRR Mutation：E329P, M332T, G360C Mutation：E329P, M332T, G360C Mutation：E329P, M332T, G360C	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.80 Å
7UOT Native Lassa glycoprotein in complex with neutralizing antibodies 8.9F and 37.2D Deposited 2022-04-13	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.77 Å
7UOV Native Lassa glycoprotein in complex with neutralizing antibodies 12.1F and 37.2D Deposited 2022-04-14	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.75 Å
8EJD Structure of lineage IV Lassa virus glycoprotein complex (strain Josiah) Deposited 2022-09-16	Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics	Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Mutation：R207C, L258R, L259R Mutation：R207C, L258R, L259R Mutation：R207C, L258R, L259R Mutation：E329P, G360C Mutation：E329P, G360C Mutation：E329P, G360C	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；TBS cryo-EM vitrification conditions Cryogen ETHANE；Wait time 10 s; blotting time varied between 3-7 s; blotting force of 0	Resolution 3.80 Å
8EJH Lassa virus glycoprotein complex (Josiah) bound to 12.1F Fab Deposited 2022-09-16	Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Mutation：R207C, L258R, L259R Mutation：R207C, L258R, L259R Mutation：R207C, L258R, L259R Mutation：E329P, G360C Mutation：E329P, G360C Mutation：E329P, G360C	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 MAN alpha-D-mannopyranose × 3	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；TBS cryo-EM vitrification conditions Cryogen ETHANE；Wait time 10 s; blotting time varied between 3-7 s; blotting force of 0	Resolution 3.71 Å
8T5C Lassa GPC Trimer in complex with Fab 8.11G and nanobody D5 Deposited 2023-06-13	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 11 PDB declaration: undecameric	Chain A 59–257（199 aa） Chain B 59–257（199 aa） Chain C 59–257（199 aa） Chain a 260–418（159 aa） Chain b 260–418（159 aa） Chain c 260–418（159 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 23	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；PBS cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.70 Å
8TYC Lassa GPC (strain Josiah) bound to rabbit polyclonal base-targeting antibody Base-1 Deposited 2023-08-24	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–423（164 aa） Chain b 260–423（164 aa） Chain c 260–423（164 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.30 Å
8TYE Lassa GPC (strain Josiah) bound to rabbit polyclonal fusion-peptide-targeting antibody FP-1 Deposited 2023-08-25	Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.80 Å
8VCV Lineage IV Lassa virus glycoprotein (Josiah) in complex with rabbit polyclonal antibody (GPC-C epitope) Deposited 2023-12-14	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.80 Å
8VE8 Lineage IV Lassa virus glycoprotein (Josiah) in complex with rabbit polyclonal antibody (GP1-A epitope) Deposited 2023-12-18	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.80 Å
9CJ7 Lineage IV Lassa virus glycoprotein (Josiah) in complex with monoclonal antibody 8.9F Deposited 2024-07-05	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；TBS cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.00 Å
9CJ8 Lineage IV Lassa virus glycoprotein (Josiah) in complex with rabbit polyclonal antibody (LAVA01-like epitope) Deposited 2024-07-05	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 25	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.74 Å
9CK7 Lineage IV Lassa virus glycoprotein (Josiah) in complex with polyclonal antibody (GPC-A epitope) from rabbit 187 Deposited 2024-07-08	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.45 Å
9CK8 Lineage IV Lassa virus glycoprotein (Josiah) in complex with polyclonal antibody (GPC-A epitope) from rabbit 189 Deposited 2024-07-08	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–424（165 aa） Chain b 260–424（165 aa） Chain c 260–424（165 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.04 Å
9MHE Native tagless Lassa virus spike complex bound to ARN-75039 at pH 8.0 Deposited 2024-12-11	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 UNX UNKNOWN LIGAND × 2 A1BK9 (4S)-3-(4-tert-butoxyphenyl)-7-methyl-6-{4-[(propan-2-yl)oxy]phenyl}imidazo[1,2-a]pyridine × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.01 Å
9MIV Native tagless Lassa virus spike complex pH 6.0 Deposited 2024-12-13	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 UNX UNKNOWN LIGAND × 3	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.02 Å
9MIY Focused reconstruction of the transmembrane region of the Lassa virus spike complex Deposited 2024-12-13	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–58（58 aa） Chain B 1–58（58 aa） Chain C 1–58（58 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.72 Å
9MJ1 Native tagless Lassa virus spike complex bound at pH 8.0 Deposited 2024-12-13	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 UNX UNKNOWN LIGAND × 2	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 1.90 Å
9MJ2 Flag-tag Lassa virus spike complex at pH 6.0 Deposited 2024-12-13	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 59–259（201 aa） Chain B 59–259（201 aa） Chain C 59–259（201 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 UNX UNKNOWN LIGAND × 3	ELECTRON MICROSCOPY cryo-EM buffer pH 6 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.58 Å
9R8U Flag-tag LASV spike acidified to pH 5.0 and re-equilibrated to pH 8.0 Deposited 2025-05-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–259（259 aa） Chain B 1–259（259 aa） Chain C 1–259（259 aa） Chain a 260–491（232 aa） Chain b 260–491（232 aa） Chain c 260–491（232 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 UNX UNKNOWN LIGAND × 2	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.30 Å

26 other PDB entries and 26 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	GLYC_LASSJ
Isoform	—
PDB entities	1, 2
Chains and sequence ranges	Author chain A； PDBConstruct 1–259； UniProt 1–259 Author chain B； PDBConstruct 1–259； UniProt 1–259 Author chain C； PDBConstruct 1–259； UniProt 1–259 Author chain a； PDBConstruct 1–165； UniProt 260–424 Author chain b； PDBConstruct 1–165； UniProt 260–424 Author chain c； PDBConstruct 1–165； UniProt 260–424

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	8eji
Deposition date deposition_date	2022-09-16
Structure title title	Lassa virus glycoprotein complex (Josiah) bound to 19.7E Fab
Keywords keywords	;glycoprotein complex, Lassa mammarenavirus, LASV, GPC, immune system, viral fusion protein, Lassa virus, lineage IV, Josiah, 19.7E, VIRAL PROTEIN ;; VIRAL PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	35.52 Å
Radius of gyration Rg (electron density) rg_electron	34.92 Å
Forward intensity I(0) i0	398339000.00
Molecular weight molecular_weight	157780.0 kDa
Excluded volume excluded_volume	195760 Å³
Envelope volume envelope_volume	253160 Å³
Hydration-shell volume shell_volume	58864 Å³
Envelope diameter envelope_diameter	122.7 Å
Shell Rg shell_rg	42.51 Å
Envelope Rg envelope_rg	35.20 Å
Shape Rg shape_rg	34.92 Å
Total Rg total_rg	35.44 Å
Total atoms total_atoms	11023
Residues n_residues	1257
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	116.3 Å
Rg (real space) rg_real	36.29 Å
Rg uncertainty (real space) rg_real_error	0.36 Å
I(0) (real space) i0_real	3.9340e+08
I(0) uncertainty (real space) i0_real_error	5.5050e+06
Rg (reciprocal space) rg_reciprocal	35.51 Å
I(0) (reciprocal space) i0_reciprocal	398300000.0000
Solution quality estimate total_estimate	0.6987
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	1
Primary peak position r_peak_primary	41.4 Å
Skewness Skewness skewness	0.451
Kurtosis Kurtosis kurtosis	-0.104
Angular range angular_range	— – 0.2250 Å⁻¹
Current regularization parameter α current_alpha	2.9060
Highest regularization parameter α highest_alpha	149500000.0000
Real-space data points n_real_points	46
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.865; Stabil: 0.922; Sysdev: 0.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.746

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (11)

Entity 1 Entity 1 polymer

Description description	Glycoprotein G1
Molecular weight formula_weight	29098.4 kDa
Mutation mutation	R207C, L258R, L259R
Source method src_method	man
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C
Atom count atom_count	11023

MGQIVTFFQEVPHVIEEVMNIVLIALSVLAVLKGLYNFATCGLVGLVTFLLLCGRSCTTSLYKGVYELQTLELNMETLNMTMPLSCTKNNSHHYIMVGNETGLELTLTNTSIINHKFCNLSDAHKKNLYDHALMSIISTFHLSIPNFNQYEAMSCDFNGGKISVQYNLSHSYAGDAANHCGTVANGVLQTFMRMAWGGSYIALDSGCGNWDCIMTSYQYLIIQNTTWEDHCQFSRPSPIGYLGLLSQRTRDIYISRRRR

来源 Source

来源生物 organism	Lassa mammarenavirus
NCBI Class编号 ncbi_taxonomy_id	11620
宿主生物 host_organism	Homo sapiens

Entity 2 Entity 2 polymer

Description description	Glycoprotein G2
Molecular weight formula_weight	44765.0 kDa
Mutation mutation	E328P, G359C
Source method src_method	man
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	a,b,c

GTFTWTLSDSEGKDTPGGYCLTRWMLIEAELKCFGNTAVAKCNEKHDEEFCDMLRLFDFNKQAIQRLKAPAQMSIQLINKAVNALINDQLIMKNHLRDIMCIPYCNYSKYWYLNHTTTGRTSLPKCWLVSNGSYLNETHFSDDIEQQADNMITEMLQKEYMERQGGSGGSGGSGGSGGSEKAAKAEEAARKMEELFKKHKIVAVLRANSVEEAIEKAVAVFAGGVHLIEITFTVPDADTVIKALSVLKEKGAIIGAGTVTSVEQCRKAVESGAEFIVSPHLDEEISQFCKEKGVFYMPGVMTPTELVKAMKLGHDILKLFPGEVVGPEFVKAMKGPFPNVKFVPTGGVDLDNVCEWFDAGVLAVGVGDALVEGDPDEVREKAKEFVEKIRGCTEGSLEWSHPQFEK

来源 Source

来源生物 organism	Lassa mammarenavirus
NCBI Class编号 ncbi_taxonomy_id	11620
宿主生物 host_organism	Homo sapiens

Entity 3 Entity 3 polymer

Description description	19.7E Fab heavy chain
Molecular weight formula_weight	13112.8 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	H

EVQLVESGGGLVRPGGSLRLSCAASGFSFSSYSMHWVRHVPGKGLVWVSYINSDGSTKIYADSVKGRFSISRDNAKNKLYLQMDSLRVEDTAVYSCVRLVHYDWSPFVWGQGTLVTVSS

来源 Source

来源生物 organism	Homo sapiens
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Homo sapiens

Entity 4 Entity 4 polymer

Description description	19.7E Fab light chain
Molecular weight formula_weight	11686.9 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	L

EIVLTQSPSTLSASVGDRVTITCRASQSINNWLAWYQEKPGKAPKLLINKASSLESGVPSRFSGSGSGTEFTLTITSLQPDDFATYYCQQYNSNSWTFGQGTKVDMK

来源 Source

来源生物 organism	Homo sapiens
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Homo sapiens

Entity 5 Entity 5 branched

Description description	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
Molecular weight formula_weight	586.5 kDa
Source method src_method	man
Copy count entity_count	6

Entity 6 Entity 6 branched

Description description	;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
Molecular weight formula_weight	910.8 kDa
Source method src_method	man
Copy count entity_count	1

Entity 7 Entity 7 branched

Description description	;alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
Molecular weight formula_weight	910.8 kDa
Source method src_method	man
Copy count entity_count	2

Entity 8 Entity 8 branched

Description description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
Molecular weight formula_weight	424.4 kDa
Source method src_method	man
Copy count entity_count	7

Entity 9 Entity 9 branched

Description description	;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
Molecular weight formula_weight	910.8 kDa
Source method src_method	man
Copy count entity_count	1

Entity 10 Entity 10 branched

Description description	;alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
Molecular weight formula_weight	1073.0 kDa
Source method src_method	man
Copy count entity_count	2

Entity 11 Entity 11 non-polymer

Description description	2-acetamido-2-deoxy-beta-D-glucopyranose
Molecular weight formula_weight	221.2 kDa
Source method src_method	syn
Copy count entity_count	14

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7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id	8ejiH01
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	40 — Immunoglobulin-like
Homologous superfamily homologous superfamily	10 — Immunoglobulins

Domain ID domain_id	8ejiL01
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	40 — Immunoglobulin-like
Homologous superfamily homologous superfamily	10 — Immunoglobulins

▶

8. Citations (1)

▶

Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	3.81 Å
Resolution测定方法 resolution_method	—
颗粒数 num_particles	70071

fit	/app/data/saxs_computation/ej/8eji/8eji.fit
pddf	/app/data/pr_computation/ej/8eji/8eji.pr.out
profile	/app/data/saxs_computation/ej/8eji/8eji.dat

Lassa virus glycoprotein complex (Josiah) bound to 19.7E Fab

1. Protein Identity and Related Structures Protein Identity & Related Structures

Glycoprotein G1

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

6. Entities and Polymers Entities & Polymers (11)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

Entity 2 Entity 2 polymer

Polymer Polymer

来源 Source

Entity 3 Entity 3 polymer

Polymer Polymer

来源 Source

Entity 4 Entity 4 polymer

Polymer Polymer

来源 Source

Entity 5 Entity 5 branched

Entity 6 Entity 6 branched

Entity 7 Entity 7 branched

Entity 8 Entity 8 branched

Entity 9 Entity 9 branched

Entity 10 Entity 10 branched

Entity 11 Entity 11 non-polymer

7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)