SAXSdb — 1hbw

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

REGULATORY PROTEIN GAL4

OrganismNot specified

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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 50–106 Chain B； UniProt 50–106	Fragment：DIMERIZATION DOMAIN RESIDUES 50-106 Mutation：YES	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 7.4；308 K；Ionic strength (raw mmCIF value) 50 MM SODIUM PHOSPHATE	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 1HBW	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1AW6 GAL4 (CD), NMR, 24 STRUCTURES Deposited 1997-10-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–43（43 aa） Fragment：DNA-BINDING DOMAIN	Not recorded	CD CADMIUM ION × 2	SOLUTION NMR NMR measurement conditions pH 7.2；298 K	Resolution not provided
1D66 DNA RECOGNITION BY GAL4: STRUCTURE OF A PROTEIN/DNA COMPLEX Deposited 1992-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric	Chain A 1–65（65 aa） Chain B 1–65（65 aa）	Not recorded	CD CADMIUM ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；pH 6.80, VAPOR DIFFUSION, HANGING DROP	Resolution 2.70 Å
3BTS Crystal structure of a ternary complex of the transcriptional repressor Gal80p (Gal80S0 [G301R]) and the acidic activation domain of Gal4p (aa 854-874) from Saccharomyces cerevisiae with NAD Deposited 2007-12-30	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain E 854–874（21 aa） Fragment：S. cerevisiae Gal4p peptide; UNP residues 854-874 Chain F 854–874（21 aa） Fragment：S. cerevisiae Gal4p peptide; UNP residues 854-874	Not recorded	NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；290 K；20% PEG 3350, 0.15M Sodium fluoride, followed by soaking in NAD to a final concentration of 5mM, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K	Resolution 2.70 Å R-free 0.232
3COQ Structural Basis for Dimerization in DNA Recognition by Gal4 Deposited 2008-03-29	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric	Chain A 8–96（89 aa） Fragment：DNA binding domain with complete dimerization domain Chain B 8–96（89 aa） Fragment：DNA binding domain with complete dimerization domain	Not recorded	MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 1 ZN ZINC ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；298 K；40mM Mg(OAc)2, 25mM sodium phosphate, 5% PEG400, 5% MPD, pH 5.5, VAPOR DIFFUSION, temperature 298K	Resolution 2.40 Å R-free 0.269
7UIK Mediator-PIC Early (Tail A + Upstream DNA & Activator) Deposited 2022-03-29	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric	Chain T 1–147（147 aa） Chain U 1–147（147 aa）	Not recorded	ZN ZINC ION × 4	ELECTRON MICROSCOPY cryo-EM buffer pH 7.6 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.70 Å
7UIO Mediator-PIC Early (Composite Model) Deposited 2022-03-29	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Heteromer；Protein × 78 PDB declaration: 80-meric	Chain GA 1–147（147 aa） Chain GB 1–147（147 aa）	Not recorded	ZN ZINC ION × 4 THR THREONINE × 1 ALA ALANINE × 1 ASP ASPARTIC ACID × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.6 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.30 Å

6 other PDB entries and 6 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	GAL4_YEAST
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–57； UniProt 50–106 Author chain B； PDBConstruct 1–57； UniProt 50–106

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	1hbw
Deposition date deposition_date	2001-04-20
Structure title title	Solution nmr structure of the dimerization domain of the yeast transcriptional activator Gal4 (residues 50-106)
Keywords keywords	TRANSCRIPTIONAL ACTIVATOR, GALACTOSE AND MELIBIOSE METABOLISM, DIMERIZATION DOMAIN, COILED-COIL DIMERIC; TRANSCRIPTIONAL ACTIVATOR
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	23.80 Å
Radius of gyration Rg (electron density) rg_electron	23.39 Å
Forward intensity I(0) i0	705941000.00
Molecular weight molecular_weight	227140.0 kDa
Excluded volume excluded_volume	286320 Å³
Envelope volume envelope_volume	72611 Å³
Hydration-shell volume shell_volume	23700 Å³
Envelope diameter envelope_diameter	92.9 Å
Shell Rg shell_rg	33.03 Å
Envelope Rg envelope_rg	27.88 Å
Shape Rg shape_rg	23.41 Å
Total Rg total_rg	23.57 Å
Total atoms total_atoms	32334
Residues n_residues	1938
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	86.3 Å
Rg (real space) rg_real	24.30 Å
Rg uncertainty (real space) rg_real_error	0.88 Å
I(0) (real space) i0_real	7.0590e+08
I(0) uncertainty (real space) i0_real_error	1.0520e+07
Rg (reciprocal space) rg_reciprocal	24.18 Å
I(0) (reciprocal space) i0_reciprocal	705900000.0000
Solution quality estimate total_estimate	0.7221
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	16.2 Å
Skewness Skewness skewness	0.582
Kurtosis Kurtosis kurtosis	-0.478
Angular range angular_range	— – 0.3350 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	335800.0000
Real-space data points n_real_points	65
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.451; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.092; Smooth: 0.939

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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) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d1hbwa_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.3 — Leucine zipper domain
Family Family family	h.1.3.1 — Leucine zipper domain

Domain ID domain_id	d1hbwb_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.3 — Leucine zipper domain
Family Family family	h.1.3.1 — Leucine zipper domain

CATH v4.4 (2 domains)

Domain ID domain_id	1hbwA00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily	170 —

Domain ID domain_id	1hbwB00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily	170 —

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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	REGULATORY PROTEIN GAL4
Molecular weight formula_weight	6693.7 kDa
Mutation mutation	YES
Source method src_method	syn
Copy count entity_count	2

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	32334

fit	/app/data/saxs_computation/hb/1hbw/1hbw.fit
pddf	/app/data/pr_computation/hb/1hbw/1hbw.pr.out
profile	/app/data/saxs_computation/hb/1hbw/1hbw.dat

Solution nmr structure of the dimerization domain of the yeast transcriptional activator Gal4 (residues 50-106)

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

REGULATORY PROTEIN GAL4

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

7. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)