SAXSdb — 1c20

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

DEAD RINGER PROTEIN

Drosophila melanogaster

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 262–389	Fragment：DNA-BINDING DOMAIN	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 6.7；303 K；Ionic strength (raw mmCIF value) 0.10；Pressure AMBIENT NMR sample composition：1.5MM DEAD RINGER U-15N; 20MM TRIS-HCL (PH 6.7); 100MM NACL; 1.5MM ZNCL2; 2MM DTT; 0.01% NAN3 NMR sample composition：1.5MM DEAD RINGER U-15N,13C; 20MM TRIS-HCL (PH 6.7); 100MM NACL; 1.5MM ZNCL2; 2MM DTT; 0.01% NAN3	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 1C20	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1KQQ Solution Structure of the Dead ringer ARID-DNA Complex Deposited 2002-01-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions	Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: trimeric	Chain A 262–398（137 aa） Fragment：A/T Rich Interaction Domain	Mutation：F355L	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 6.7；310 K；Ionic strength (raw mmCIF value) 0；Pressure ambient NMR sample composition 2.0mM Dead ringer-DNA complex (protein U-13C,15N, DNA NA) 20mM Tris U-2H, 0.01% NaN3 NA, 0.5mM EDTA NA, 5mM DTT U-2H \| 93% H2O/7% D2O NMR sample composition 1.4mM Dead ringer-DNA complex (protein U-13C,15N, DNA NA) 20mM Tris U-2H, 0.01% NaN3 NA, 0.5mM EDTA NA, 5mM DTT U-2H \| 100% D2O	Resolution not provided

1 other PDB entries and 1 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	DRI_DROME
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–128； UniProt 262–389

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	1c20
Deposition date deposition_date	1999-07-22
Structure title title	SOLUTION STRUCTURE OF THE DNA-BINDING DOMAIN FROM THE DEAD RINGER PROTEIN
Keywords keywords	DNA-BINDING DOMAIN, ARID, AT-RICH INTERACTION DOMAIN, DNA-BINDING PROTEIN, DNA BINDING PROTEIN; DNA BINDING 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	15.72 Å
Radius of gyration Rg (electron density) rg_electron	15.10 Å
Forward intensity I(0) i0	1232770000.00
Molecular weight molecular_weight	313940.0 kDa
Excluded volume excluded_volume	399120 Å³
Envelope volume envelope_volume	33919 Å³
Hydration-shell volume shell_volume	16825 Å³
Envelope diameter envelope_diameter	56.9 Å
Shell Rg shell_rg	23.05 Å
Envelope Rg envelope_rg	17.18 Å
Shape Rg shape_rg	15.08 Å
Total Rg total_rg	15.29 Å
Total atoms total_atoms	44604
Residues n_residues	2688
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	53.4 Å
Rg (real space) rg_real	15.63 Å
Rg uncertainty (real space) rg_real_error	0.44 Å
I(0) (real space) i0_real	1.2330e+09
I(0) uncertainty (real space) i0_real_error	1.4920e+07
Rg (reciprocal space) rg_reciprocal	15.64 Å
I(0) (reciprocal space) i0_reciprocal	1233000000.0000
Solution quality estimate total_estimate	0.8486
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	3
Primary peak position r_peak_primary	17.6 Å
Skewness Skewness skewness	0.091
Kurtosis Kurtosis kurtosis	-0.366
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	236300.0000
Real-space data points n_real_points	80
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.682; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; 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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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_id	d1c20a_
Class class	a — All alpha proteins
Fold Fold fold	a.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamily	a.4.3 — ARID-like
Family Family family	a.4.3.1 — ARID domain

CATH v4.4 (1 domains)

Domain ID domain_id	1c20A00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily	60 — ARID DNA-binding domain

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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	DEAD RINGER PROTEIN
Molecular weight formula_weight	14983.3 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	44604

来源生物 organism	Drosophila melanogaster
通用名 common_name	fruit fly
NCBI Class编号 ncbi_taxonomy_id	7227
宿主生物 host_organism	Escherichia coli

SOLUTION STRUCTURE OF THE DNA-BINDING DOMAIN FROM THE DEAD RINGER PROTEIN

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

DEAD RINGER PROTEIN

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/c2/1c20/1c20.fit
pddf	/app/data/pr_computation/c2/1c20/1c20.pr.out
profile	/app/data/saxs_computation/c2/1c20/1c20.dat