SAXSdb — 5kp9

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

EPN-01*

Human immunodeficiency virus type 1 group M subtype B (isolate BH10)

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Insufficient information Homooligomer Protein × 60 PDB declaration: 60-meric（60） Consistent with protein copy count	Chain B； UniProt 461–512	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
2	Insufficient information Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain B； UniProt 461–512	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
3	Insufficient information Homooligomer Protein × 5 PDB declaration: pentameric（5） Consistent with protein copy count	Chain B； UniProt 461–512	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
4	Insufficient information Homooligomer Protein × 6 PDB declaration: hexameric（6） Consistent with protein copy count	Chain B； UniProt 461–512	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
5	Insufficient information Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain B； UniProt 461–512	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 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 5KP9	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
5FJB Cyclophilin A Stabilize HIV-1 Capsid through a Novel Non- canonical Binding Site Deposited 2015-10-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 133–350（218 aa） Chain B 133–350（218 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 9.00 Å
6BHR HIV-1 immature CTD-SP1 hexamer in complex with IP6 Deposited 2017-10-31	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain G 278–372（95 aa）	Not recorded	IHP INOSITOL HEXAKISPHOSPHATE × 6	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；290 K；0.2 M NaCl 20% PEG 3350 0.1 M Bis-Tris pH 5.35	Resolution 2.91 Å R-free 0.265

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	GAG_HV1B1
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain B； PDBConstruct 231–282； UniProt 461–512

EPN-01*

Human immunodeficiency virus type 1 group M subtype B (isolate BH10)

UniProt Q9WXS1

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Insufficient information Homooligomer Protein × 60 PDB declaration: 60-meric（60） Consistent with protein copy count	Chain B； UniProt 2–205	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
2	Insufficient information Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain B； UniProt 2–205	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
3	Insufficient information Homooligomer Protein × 5 PDB declaration: pentameric（5） Consistent with protein copy count	Chain B； UniProt 2–205	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
4	Insufficient information Homooligomer Protein × 6 PDB declaration: hexameric（6） Consistent with protein copy count	Chain B； UniProt 2–205	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 Å
5	Insufficient information Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain B； UniProt 2–205	Not recorded	No other associated polymer	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；Phosphate-buffered saline cryo-EM vitrification conditions：Cryogen ETHANE；11 second blot, 0 mm offset	Resolution 5.70 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 5KP9	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1VLW Crystal structure of 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase (TM0066) from Thermotoga maritima at 2.30 A resolution Deposited 2004-08-18	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION,SITTING DROP,NANODROP；pH 7.5；277 K；22.5% PEG-1000, 0.1M Tris pH 7.5 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K	Resolution 2.30 Å R-free 0.221
1VLW Crystal structure of 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase (TM0066) from Thermotoga maritima at 2.30 A resolution Deposited 2004-08-18	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 1–205（205 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION,SITTING DROP,NANODROP；pH 7.5；277 K；22.5% PEG-1000, 0.1M Tris pH 7.5 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K	Resolution 2.30 Å R-free 0.221
1VLW Crystal structure of 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase (TM0066) from Thermotoga maritima at 2.30 A resolution Deposited 2004-08-18	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain C 1–205（205 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION,SITTING DROP,NANODROP；pH 7.5；277 K；22.5% PEG-1000, 0.1M Tris pH 7.5 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K	Resolution 2.30 Å R-free 0.221
1VLW Crystal structure of 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase (TM0066) from Thermotoga maritima at 2.30 A resolution Deposited 2004-08-18	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 4 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 1–205（205 aa） Chain B 1–205（205 aa） Chain C 1–205（205 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION,SITTING DROP,NANODROP；pH 7.5；277 K；22.5% PEG-1000, 0.1M Tris pH 7.5 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K	Resolution 2.30 Å R-free 0.221
1WA3 Mechanism of the Class I KDPG aldolase Deposited 2004-10-22	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 1–205（205 aa） Chain B 1–205（205 aa） Chain C 1–205（205 aa）	Not recorded	PYR PYRUVIC ACID × 3 SO4 SULFATE ION × 3	X-RAY DIFFRACTION X-ray crystallization conditions pH 4.6；0.075M SODIUM ACETATE, 0.1M AMMONIUM SULPHATE, 28%W/V PEG4000, pH 4.60	Resolution 1.90 Å R-free 0.239
1WA3 Mechanism of the Class I KDPG aldolase Deposited 2004-10-22	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain D 1–205（205 aa） Chain E 1–205（205 aa） Chain F 1–205（205 aa）	Not recorded	PYR PYRUVIC ACID × 3 SO4 SULFATE ION × 3	X-RAY DIFFRACTION X-ray crystallization conditions pH 4.6；0.075M SODIUM ACETATE, 0.1M AMMONIUM SULPHATE, 28%W/V PEG4000, pH 4.60	Resolution 1.90 Å R-free 0.239
7B3Y Structure of a nanoparticle for a COVID-19 vaccine candidate Deposited 2020-12-01	Different construct Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Homooligomer；Protein × 60 PDB declaration: 60-meric	Chain B 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；PBS cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.70 Å
8A8N Structure of self-assembling engineered protein nanocage (EPN) fused with hepatitis A pX protein Deposited 2022-06-23	Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 2–205（204 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7；PBS cryo-EM vitrification conditions Cryogen ETHANE；Blot time 4-5 s.	Resolution 6.70 Å
8E01 Structure of engineered nano-cage fusion protein Deposited 2022-08-08	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: 60-meric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8.1；Tris, 100 mM NaCl, 1 mM DTT cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
8E01 Structure of engineered nano-cage fusion protein Deposited 2022-08-08	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8.1；Tris, 100 mM NaCl, 1 mM DTT cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
8E01 Structure of engineered nano-cage fusion protein Deposited 2022-08-08	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8.1；Tris, 100 mM NaCl, 1 mM DTT cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
8E01 Structure of engineered nano-cage fusion protein Deposited 2022-08-08	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8.1；Tris, 100 mM NaCl, 1 mM DTT cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
8E01 Structure of engineered nano-cage fusion protein Deposited 2022-08-08	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8.1；Tris, 100 mM NaCl, 1 mM DTT cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
8JGA Cryo-EM structure of Mi3 fused with FKBP Deposited 2023-05-20	Different construct Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.68 Å
8JGC Cryo-EM structure of Mi3 fused with LOV2 Deposited 2023-05-20	Different construct Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.44 Å
8SZZ CryoEM Structure of Computationally Designed Nanocage O32-ZL4 Deposited 2023-05-30	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 48 PDB declaration: 48-meric	Chain I 1–205（205 aa） Chain J 1–205（205 aa） Chain K 1–205（205 aa） Chain L 1–205（205 aa） Chain M 1–205（205 aa） Chain N 1–205（205 aa） Chain O 1–205（205 aa） Chain U 1–205（205 aa） Chain Y 1–205（205 aa） Chain Z 1–205（205 aa） Chain a 1–205（205 aa） Chain b 1–205（205 aa） Chain c 1–205（205 aa） Chain d 1–205（205 aa） Chain e 1–205（205 aa） Chain f 1–205（205 aa） Chain g 1–205（205 aa） Chain h 1–205（205 aa） Chain i 1–205（205 aa） Chain j 1–205（205 aa） Chain k 1–205（205 aa） Chain l 1–205（205 aa） Chain m 1–205（205 aa） Chain n 1–205（205 aa）	Not recorded	NA SODIUM ION × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；25 mM Tris/HCl pH 7.5, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.90 Å
8TVB Ghanaian virus fusion glycoprotein (GhV F) Deposited 2023-08-17	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 2–205（204 aa） Chain B 2–205（204 aa） Chain C 2–205（204 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.90 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 2–205（204 aa） Chain b 2–205（204 aa） Chain c 2–205（204 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 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 2–205（204 aa） Chain b 2–205（204 aa） Chain c 2–205（204 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
9FO3 Structure of a gp140 SpyTag-SpyCatcher mi3 nanoparticle including mi3 density only. Deposited 2024-06-11	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: 60-meric	Chain 0 1–205（205 aa） Chain 1 1–205（205 aa） Chain 2 1–205（205 aa） Chain 3 1–205（205 aa） Chain 4 1–205（205 aa） Chain 5 1–205（205 aa） Chain 6 1–205（205 aa） Chain 7 1–205（205 aa） Chain A 1–205（205 aa） Chain B 1–205（205 aa） Chain C 1–205（205 aa） Chain D 1–205（205 aa） Chain E 1–205（205 aa） Chain F 1–205（205 aa） Chain G 1–205（205 aa） Chain H 1–205（205 aa） Chain I 1–205（205 aa） Chain J 1–205（205 aa） Chain K 1–205（205 aa） Chain L 1–205（205 aa） Chain M 1–205（205 aa） Chain N 1–205（205 aa） Chain O 1–205（205 aa） Chain P 1–205（205 aa） Chain Q 1–205（205 aa） Chain R 1–205（205 aa） Chain S 1–205（205 aa） Chain T 1–205（205 aa） Chain U 1–205（205 aa） Chain V 1–205（205 aa） Chain W 1–205（205 aa） Chain X 1–205（205 aa） Chain Y 1–205（205 aa） Chain Z 1–205（205 aa） Chain a 1–205（205 aa） Chain b 1–205（205 aa） Chain c 1–205（205 aa） Chain d 1–205（205 aa） Chain e 1–205（205 aa） Chain f 1–205（205 aa） Chain g 1–205（205 aa） Chain h 1–205（205 aa） Chain i 1–205（205 aa） Chain j 1–205（205 aa） Chain k 1–205（205 aa） Chain l 1–205（205 aa） Chain m 1–205（205 aa） Chain n 1–205（205 aa） Chain o 1–205（205 aa） Chain p 1–205（205 aa） Chain q 1–205（205 aa） Chain r 1–205（205 aa） Chain s 1–205（205 aa） Chain t 1–205（205 aa） Chain u 1–205（205 aa） Chain v 1–205（205 aa） Chain w 1–205（205 aa） Chain x 1–205（205 aa） Chain y 1–205（205 aa） Chain z 1–205（205 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 5.30 Å
9UAQ CryoEM structure of GFP-like protein from Aequorea coerulescens with Trimbody Deposited 2025-04-01	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric	Chain A 2–205（204 aa） Chain B 2–205（204 aa） Chain C 2–205（204 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.29 Å
9UBR CryoEM structure of human Galectin-10 with iTrimbody Deposited 2025-04-03	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric	Chain A 2–205（204 aa） Chain B 2–205（204 aa） Chain C 2–205（204 aa） Chain D 2–205（204 aa） Chain E 2–205（204 aa） Chain F 2–205（204 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.62 Å
9UCL CryoEM structure of IgV domain of human Nectin-4 with Trimbody Deposited 2025-04-04	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric	Chain A 2–205（204 aa） Chain B 2–205（204 aa） Chain C 2–205（204 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.43 Å
9XOU CryoEM structure of LacY with Trimbody Deposited 2025-11-15	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric	Chain A 2–205（204 aa） Chain B 2–205（204 aa） Chain C 2–205（204 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.50 Å

16 other PDB entries and 24 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	Q9WXS1_THEMA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain B； PDBConstruct 19–222； UniProt 2–205

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	5kp9
Deposition date deposition_date	2016-07-02
Structure title title	Structure of Nanoparticle Released from Enveloped Protein Nanoparticle
Keywords keywords	;protein design, icosahedral assemblies, cell transduction, enveloped viruses, virus assembly, enveloped protein, nanoparticle, STRUCTURAL PROTEIN ;; STRUCTURAL 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	17.26 Å
Radius of gyration Rg (electron density) rg_electron	16.07 Å
Forward intensity I(0) i0	7540430.00
Molecular weight molecular_weight	21598.0 kDa
Excluded volume excluded_volume	27705 Å³
Envelope volume envelope_volume	30708 Å³
Hydration-shell volume shell_volume	15893 Å³
Envelope diameter envelope_diameter	51.7 Å
Shell Rg shell_rg	22.21 Å
Envelope Rg envelope_rg	16.30 Å
Shape Rg shape_rg	16.03 Å
Total Rg total_rg	17.28 Å
Total atoms total_atoms	1518
Residues n_residues	202
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	52.2 Å
Rg (real space) rg_real	17.14 Å
Rg uncertainty (real space) rg_real_error	0.24 Å
I(0) (real space) i0_real	7.5400e+06
I(0) uncertainty (real space) i0_real_error	7.3800e+04
Rg (reciprocal space) rg_reciprocal	17.15 Å
I(0) (reciprocal space) i0_reciprocal	7540000.0000
Solution quality estimate total_estimate	0.8986
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	22.7 Å
Skewness Skewness skewness	0.095
Kurtosis Kurtosis kurtosis	-0.488
Angular range angular_range	— – 0.4600 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	2407000.0000
Real-space data points n_real_points	77
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.902; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.988; Smooth: 0.988

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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8. Citations (1)

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Resolution resolution	5.70 Å
Resolution测定方法 resolution_method	—
颗粒数 num_particles	8573

Description description	EPN-01*
Molecular weight formula_weight	30304.9 kDa
Source method src_method	man
Copy count entity_count	1

Polymer type type	polypeptide(L)
Chain IDs strand_id	B
Atom count atom_count	1518

来源生物 organism	Human immunodeficiency virus type 1 group M subtype B (isolate BH10)
通用名 common_name	HIV-1
NCBI Class编号 ncbi_taxonomy_id	11678
宿主生物 host_organism	Homo sapiens

fit	/app/data/saxs_computation/kp/5kp9/5kp9.fit
pddf	/app/data/pr_computation/kp/5kp9/5kp9.pr.out
profile	/app/data/saxs_computation/kp/5kp9/5kp9.dat

Structure of Nanoparticle Released from Enveloped Protein Nanoparticle

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

EPN-01*

State in the Current Structure

Other States of the Same Protein in the Database

EPN-01*

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

冷冻电镜 EM 3D

6. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)