SAXSdb — 1hyw

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

HEAD-TO-TAIL JOINING PROTEIN W

Enterobacteria phage lambda

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count	Chain A； UniProt 1–68	Not recorded	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 6.5；298 K；Ionic strength (raw mmCIF value) 200mM NaCl；Pressure ambient NMR sample composition：1.5mM gpW U-15N, 13C; 10mM phosphate buffer NA, 200mM NaCl,90% H2O,10% D2O \| 90% H2O/10% D2O	Resolution not provided

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 1HYW	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
8K38 The structure of bacteriophage lambda portal-adaptor Deposited 2023-07-14	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric	Chain M 1–68（68 aa） Chain N 1–68（68 aa） Chain O 1–68（68 aa） Chain P 1–68（68 aa） Chain Q 1–68（68 aa） Chain R 1–68（68 aa） Chain S 1–68（68 aa） Chain T 1–68（68 aa） Chain U 1–68（68 aa） Chain V 1–68（68 aa） Chain W 1–68（68 aa） Chain X 1–68（68 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.20 Å
8XOW Mature virion portal of bacteriophage lambda Deposited 2024-01-02	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain W 1–68（68 aa） Chain W1 1–68（68 aa） Chain W2 1–68（68 aa） Chain W3 1–68（68 aa） Chain W4 1–68（68 aa） Chain W5 1–68（68 aa） Chain w 1–68（68 aa） Chain w1 1–68（68 aa） Chain w2 1–68（68 aa） Chain w3 1–68（68 aa） Chain w4 1–68（68 aa） Chain w5 1–68（68 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 3.32 Å
8XPM Mature virion portal of phage lambda with DNA Deposited 2024-01-04	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Heteromer；Protein × 66 PDB declaration: 68-meric	Chain W 1–68（68 aa） Chain W1 1–68（68 aa） Chain W2 1–68（68 aa） Chain W3 1–68（68 aa） Chain W4 1–68（68 aa） Chain W5 1–68（68 aa） Chain w 1–68（68 aa） Chain w1 1–68（68 aa） Chain w2 1–68（68 aa） Chain w3 1–68（68 aa） Chain w4 1–68（68 aa） Chain w5 1–68（68 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 3.90 Å
8XQB Mature virion portal vertex of bacteriophage lambda Deposited 2024-01-05	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 71 PDB declaration: 71-meric	Chain W 1–68（68 aa） Chain W1 1–68（68 aa） Chain W2 1–68（68 aa） Chain W3 1–68（68 aa） Chain W4 1–68（68 aa） Chain W5 1–68（68 aa） Chain w 1–68（68 aa） Chain w1 1–68（68 aa） Chain w2 1–68（68 aa） Chain w3 1–68（68 aa） Chain w4 1–68（68 aa） Chain w5 1–68（68 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen NITROGEN	Resolution 4.07 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	VHTJ_LAMBD
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–68； UniProt 1–68

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	1hyw
Deposition date deposition_date	2001-01-22
Structure title title	SOLUTION STRUCTURE OF BACTERIOPHAGE LAMBDA GPW
Keywords keywords	novel fold; two helices, one two-stranded beta-sheet, Viral protein; VIRAL PROTEIN
Experimental Method method	SOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier	11.52 Å
Radius of gyration Rg (electron density) rg_electron	11.07 Å
Forward intensity I(0) i0	143223000.00
Molecular weight molecular_weight	96546.0 kDa
Excluded volume excluded_volume	119710 Å³
Envelope volume envelope_volume	13290 Å³
Hydration-shell volume shell_volume	9214 Å³
Envelope diameter envelope_diameter	45.7 Å
Shell Rg shell_rg	17.90 Å
Envelope Rg envelope_rg	13.47 Å
Shape Rg shape_rg	11.00 Å
Total Rg total_rg	11.51 Å
Total atoms total_atoms	12255
Residues n_residues	870
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	40.9 Å
Rg (real space) rg_real	11.53 Å
Rg uncertainty (real space) rg_real_error	0.36 Å
I(0) (real space) i0_real	1.4320e+08
I(0) uncertainty (real space) i0_real_error	1.5990e+06
Rg (reciprocal space) rg_reciprocal	11.53 Å
I(0) (reciprocal space) i0_reciprocal	143200000.0000
Solution quality estimate total_estimate	0.7674
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	13.5 Å
Skewness Skewness skewness	0.334
Kurtosis Kurtosis kurtosis	-0.114
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	62610.0000
Real-space data points n_real_points	80
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.677; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.947; Smooth: 0.000

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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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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_id	d1hywa_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.186 — gpW/XkdW-like
Superfamily Superfamily superfamily	d.186.1 — Head-to-tail joining protein W, gpW
Family Family family	d.186.1.1 — Head-to-tail joining protein W, gpW

CATH v4.4 (1 domains)

Domain ID domain_id	1hywA00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1580 — Head-to-tail joining protein W, gpW
Homologous superfamily homologous superfamily	10 — Head-to-tail joining protein W

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8. Citations (1)

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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	—

Description description	HEAD-TO-TAIL JOINING PROTEIN W
Molecular weight formula_weight	7625.7 kDa
Source method src_method	man
Copy count entity_count	1

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	12255

来源生物 organism	Enterobacteria phage lambda
NCBI Class编号 ncbi_taxonomy_id	10710
宿主生物 host_organism	Escherichia coli

SOLUTION STRUCTURE OF BACTERIOPHAGE LAMBDA GPW

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

HEAD-TO-TAIL JOINING PROTEIN W

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

6. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

CATH v4.4 (1 domains)

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)

fit	/app/data/saxs_computation/hy/1hyw/1hyw.fit
pddf	/app/data/pr_computation/hy/1hyw/1hyw.pr.out
profile	/app/data/saxs_computation/hy/1hyw/1hyw.dat