SAXSdb — 4udf

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

Capsid protein VP3

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 240	HUMAN MONOCLONAL ANTIBODY × 60 HUMAN MONOCLONAL ANTIBODY × 60	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	POLG_HPE1H
Isoform	—
PDB entities	1, 2
Chains and sequence ranges	Author chain 12； PDBConstruct 1–183； UniProt 360–542 Author chain 16； PDBConstruct 1–183； UniProt 360–542 Author chain 1A； PDBConstruct 1–183； UniProt 360–542 Author chain 1E； PDBConstruct 1–183； UniProt 360–542 Author chain 1I； PDBConstruct 1–183； UniProt 360–542 Author chain 1M； PDBConstruct 1–183； UniProt 360–542 Author chain 1Q； PDBConstruct 1–183； UniProt 360–542 Author chain 1U； PDBConstruct 1–183； UniProt 360–542 Author chain 1Y； PDBConstruct 1–183； UniProt 360–542 Author chain 22； PDBConstruct 1–183； UniProt 360–542 Author chain 26； PDBConstruct 1–183； UniProt 360–542 Author chain 2A； PDBConstruct 1–183； UniProt 360–542 Author chain 2E； PDBConstruct 1–183； UniProt 360–542 Author chain 2I； PDBConstruct 1–183； UniProt 360–542 Author chain 2M； PDBConstruct 1–183； UniProt 360–542 Author chain 2Q； PDBConstruct 1–183； UniProt 360–542 Author chain 2U； PDBConstruct 1–183； UniProt 360–542 Author chain 2Y； PDBConstruct 1–183； UniProt 360–542 Author chain 32； PDBConstruct 1–183； UniProt 360–542 Author chain 36； PDBConstruct 1–183； UniProt 360–542 Author chain 3A； PDBConstruct 1–183； UniProt 360–542 Author chain 3E； PDBConstruct 1–183； UniProt 360–542 Author chain 3I； PDBConstruct 1–183； UniProt 360–542 Author chain 3M； PDBConstruct 1–183； UniProt 360–542 Author chain 3Q； PDBConstruct 1–183； UniProt 360–542 Author chain 3U； PDBConstruct 1–183； UniProt 360–542 Author chain 3Y； PDBConstruct 1–183； UniProt 360–542 Author chain 42； PDBConstruct 1–183； UniProt 360–542 Author chain 46； PDBConstruct 1–183； UniProt 360–542 Author chain 4A； PDBConstruct 1–183； UniProt 360–542 Author chain 4E； PDBConstruct 1–183； UniProt 360–542 Author chain 4I； PDBConstruct 1–183； UniProt 360–542 Author chain 4M； PDBConstruct 1–183； UniProt 360–542 Author chain 4Q； PDBConstruct 1–183； UniProt 360–542 Author chain 4U； PDBConstruct 1–183； UniProt 360–542 Author chain 4Y； PDBConstruct 1–183； UniProt 360–542 Author chain 52； PDBConstruct 1–183； UniProt 360–542 Author chain 56； PDBConstruct 1–183； UniProt 360–542 Author chain 5A； PDBConstruct 1–183； UniProt 360–542 Author chain 5E； PDBConstruct 1–183； UniProt 360–542 Author chain 5I； PDBConstruct 1–183； UniProt 360–542 Author chain 5M； PDBConstruct 1–183； UniProt 360–542 Author chain 5Q； PDBConstruct 1–183； UniProt 360–542 Author chain 5U； PDBConstruct 1–183； UniProt 360–542 Author chain 5Y； PDBConstruct 1–183； UniProt 360–542 Author chain 62； PDBConstruct 1–183； UniProt 360–542 Author chain 66； PDBConstruct 1–183； UniProt 360–542 Author chain 6A； PDBConstruct 1–183； UniProt 360–542 Author chain 6E； PDBConstruct 1–183； UniProt 360–542 Author chain 6I； PDBConstruct 1–183； UniProt 360–542 Author chain 6M； PDBConstruct 1–183； UniProt 360–542 Author chain 6Q； PDBConstruct 1–183； UniProt 360–542 Author chain 6U； PDBConstruct 1–183； UniProt 360–542 Author chain 6Y； PDBConstruct 1–183； UniProt 360–542 Author chain 7A； PDBConstruct 1–183； UniProt 360–542 Author chain 7E； PDBConstruct 1–183； UniProt 360–542 Author chain 7I； PDBConstruct 1–183； UniProt 360–542 Author chain 7M； PDBConstruct 1–183； UniProt 360–542 Author chain 7Q； PDBConstruct 1–183； UniProt 360–542 Author chain 7U； PDBConstruct 1–183； UniProt 360–542 Author chain 13； PDBConstruct 1–229； UniProt 61–289 Author chain 17； PDBConstruct 1–229； UniProt 61–289 Author chain 1B； PDBConstruct 1–229； UniProt 61–289 Author chain 1F； PDBConstruct 1–229； UniProt 61–289 Author chain 1J； PDBConstruct 1–229； UniProt 61–289 Author chain 1N； PDBConstruct 1–229； UniProt 61–289 Author chain 1R； PDBConstruct 1–229； UniProt 61–289 Author chain 1V； PDBConstruct 1–229； UniProt 61–289 Author chain 1Z； PDBConstruct 1–229； UniProt 61–289 Author chain 23； PDBConstruct 1–229； UniProt 61–289 Author chain 27； PDBConstruct 1–229； UniProt 61–289 Author chain 2B； PDBConstruct 1–229； UniProt 61–289 Author chain 2F； PDBConstruct 1–229； UniProt 61–289 Author chain 2J； PDBConstruct 1–229； UniProt 61–289 Author chain 2N； PDBConstruct 1–229； UniProt 61–289 Author chain 2R； PDBConstruct 1–229； UniProt 61–289 Author chain 2V； PDBConstruct 1–229； UniProt 61–289 Author chain 2Z； PDBConstruct 1–229； UniProt 61–289 Author chain 33； PDBConstruct 1–229； UniProt 61–289 Author chain 37； PDBConstruct 1–229； UniProt 61–289 Author chain 3B； PDBConstruct 1–229； UniProt 61–289 Author chain 3F； PDBConstruct 1–229； UniProt 61–289 Author chain 3J； PDBConstruct 1–229； UniProt 61–289 Author chain 3N； PDBConstruct 1–229； UniProt 61–289 Author chain 3R； PDBConstruct 1–229； UniProt 61–289 Author chain 3V； PDBConstruct 1–229； UniProt 61–289 Author chain 3Z； PDBConstruct 1–229； UniProt 61–289 Author chain 43； PDBConstruct 1–229； UniProt 61–289 Author chain 47； PDBConstruct 1–229； UniProt 61–289 Author chain 4B； PDBConstruct 1–229； UniProt 61–289 Author chain 4F； PDBConstruct 1–229； UniProt 61–289 Author chain 4J； PDBConstruct 1–229； UniProt 61–289 Author chain 4N； PDBConstruct 1–229； UniProt 61–289 Author chain 4R； PDBConstruct 1–229； UniProt 61–289 Author chain 4V； PDBConstruct 1–229； UniProt 61–289 Author chain 4Z； PDBConstruct 1–229； UniProt 61–289 Author chain 53； PDBConstruct 1–229； UniProt 61–289 Author chain 57； PDBConstruct 1–229； UniProt 61–289 Author chain 5B； PDBConstruct 1–229； UniProt 61–289 Author chain 5F； PDBConstruct 1–229； UniProt 61–289 Author chain 5J； PDBConstruct 1–229； UniProt 61–289 Author chain 5N； PDBConstruct 1–229； UniProt 61–289 Author chain 5R； PDBConstruct 1–229； UniProt 61–289 Author chain 5V； PDBConstruct 1–229； UniProt 61–289 Author chain 5Z； PDBConstruct 1–229； UniProt 61–289 Author chain 63； PDBConstruct 1–229； UniProt 61–289 Author chain 67； PDBConstruct 1–229； UniProt 61–289 Author chain 6B； PDBConstruct 1–229； UniProt 61–289 Author chain 6F； PDBConstruct 1–229； UniProt 61–289 Author chain 6J； PDBConstruct 1–229； UniProt 61–289 Author chain 6N； PDBConstruct 1–229； UniProt 61–289 Author chain 6R； PDBConstruct 1–229； UniProt 61–289 Author chain 6V； PDBConstruct 1–229； UniProt 61–289 Author chain 6Z； PDBConstruct 1–229； UniProt 61–289 Author chain 7B； PDBConstruct 1–229； UniProt 61–289 Author chain 7F； PDBConstruct 1–229； UniProt 61–289 Author chain 7J； PDBConstruct 1–229； UniProt 61–289 Author chain 7N； PDBConstruct 1–229； UniProt 61–289 Author chain 7R； PDBConstruct 1–229； UniProt 61–289 Author chain 7V； PDBConstruct 1–229； UniProt 61–289

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	4udf
Deposition date deposition_date	2014-12-10
Structure title title	STRUCTURAL BASIS OF HUMAN PARECHOVIRUS NEUTRALIZATION BY HUMAN MONOCLONAL ANTIBODIES
Keywords keywords	HUMAN PARECHOVIRUS 1, VIRUS, HUMAN MONOCLONAL ANTIBODY, HPEV1-AM28 FAB; VIRUS
Experimental Method method	ELECTRON MICROSCOPY

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

4udf__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

4udf__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

4udf__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	0.00 Å
Rg (electron density)	143.00 Å
Total Rg	143.10 Å
Atom count	321240
Residues	38580
Excluded volume	5326900 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`4udf__assembly_1__model_1`	240-meric （240）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Description description	Capsid protein VP3
Molecular weight formula_weight	20555.2 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;1A,1E,1I,1M,1Q,1U,1Y,12,16,2A,2E,2I,2M,2Q,2U,2Y,22,26,3A,3E,3I,3M,3Q,3U,3Y,32,36,4A,4E,4I,4M,4Q,4U,4Y,42,46,5A,5E,5I,5M,5Q,5U,5Y,52,56,6A,6E,6I,6M,6Q,6U,6Y,62,66,7A,7E,7I,7M,7Q,7U ;
Atom count atom_count	326520

DLVKIAQLFSVMADSTTPSENHGVDAKGYFKWSATTAPQSIVHRNIVYLRLFPNLNVFVNSYSYFRGSLVLRLSVYASTFNRGRLRMGFFPNATTDSTSTLDNAIYTICDIGSDNSFEITIPYSFSTWMRKTNGHPIGLFQIEVLNRLTYNSSSPSEVYCIVQGKMGQDARFFCPTGSVVTFQ

Entity 2 Entity 2 polymer

Description description	Capsid protein VP0
Molecular weight formula_weight	25594.4 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;1B,1F,1J,1N,1R,1V,1Z,13,17,2B,2F,2J,2N,2R,2V,2Z,23,27,3B,3F,3J,3N,3R,3V,3Z,33,37,4B,4F,4J,4N,4R,4V,4Z,43,47,5B,5F,5J,5N,5R,5V,5Z,53,57,6B,6F,6J,6N,6R,6V,6Z,63,67,7B,7F,7J,7N,7R,7V ;

AEPENKNVVQATTTVNTTNLTQHPSAPTMPFSPDFSNVDNFHSMAYDITTGDKNPSKLVRLETHEWTPSWARGYQITHVELPKVFWDHQDKPAYGQSRYFAAVRCGFHFQVQVNVNQGTAGSALVVYEPKPVVTYDSKLEFGAFTNLPHVLMNLAETTQADLCIPYVADTNYVKTDSSDLGQLKVYVWTPLSIPTGSANQVDVTILGSLLQLDFQNPRVFAQDVNIYDN

Entity 3 Entity 3 polymer

Description description	HUMAN MONOCLONAL ANTIBODY
Molecular weight formula_weight	12168.5 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;1C,1G,1K,1O,1S,1W,10,14,18,2C,2G,2K,2O,2S,2W,20,24,28,3C,3G,3K,3O,3S,3W,30,34,38,4C,4G,4K,4O,4S,4W,40,44,48,5C,5G,5K,5O,5S,5W,50,54,58,6C,6G,6K,6O,6S,6W,60,64,68,7C,7G,7K,7O,7S,7W ;

EIVMTQSPATLSVSPGERATLSCRASQYVHSTLAWYQQKPGQAPRLLIYYASTRATGIPDRFSGSGSGTEFTLTISSLQSEDFAVYYCQQYNNWPYTFGQGTKLEIERT

Entity 4 Entity 4 polymer

Description description	HUMAN MONOCLONAL ANTIBODY
Molecular weight formula_weight	13032.2 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;1D,1H,1L,1P,1T,1X,11,15,19,2D,2H,2L,2P,2T,2X,21,25,29,3D,3H,3L,3P,3T,3X,31,35,39,4D,4H,4L,4P,4T,4X,41,45,49,5D,5H,5L,5P,5T,5X,51,55,59,6D,6H,6L,6P,6T,6X,61,65,69,7D,7H,7L,7P,7T,7X ;

EVQLLDSGGGLVQPGGSLRLSCAASGFPFSDYAMSWIRQAPGKGLEWVSPISGSGGRAYYADSVKGRFTISRDNSEGTVYLQMNSLSPDDTALYYCAKDGSGSHYNNNYFDSWGQGTLVTVS

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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	1

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

Resolution resolution	20.000 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	20.00 Å
Resolution测定Method resolution_method	POLAR FOURIER TRANSFORM
颗粒数 num_particles	270

STRUCTURAL BASIS OF HUMAN PARECHOVIRUS NEUTRALIZATION BY HUMAN MONOCLONAL ANTIBODIES

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

Capsid protein VP3

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

4udf__assembly_1__model_1

4udf__assembly_1__model_1 | I(q)

4udf__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

7. Citations (1)

STRUCTURAL BASIS OF HUMAN PARECHOVIRUS NEUTRALIZATION BY HUMAN MONOCLONAL ANTIBODIES

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

Capsid protein VP3

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

4udf__assembly_1__model_1

4udf__assembly_1__model_1 | I(q)

4udf__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

7. Citations (1)