4cro

PROTEIN-DNA CONFORMATIONAL CHANGES IN THE CRYSTAL STRUCTURE OF A LAMBDA CRO-OPERATOR COMPLEX

Method: X-RAY DIFFRACTION Dmax: 155.2 Å Quality: REASONABLE

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

PROTEIN (LAMBDA CRO)

OrganismNot specified

UniProt P03040

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–DNA Homooligomer Protein × 2 DNA 2 PDB declaration: tetrameric(4) Consistent with all polymer counts Chain A; UniProt 1–66 Chain B; UniProt 1–66 Not recorded ;DNA (5'-D(*TP*AP*TP*CP*AP*CP*CP*GP*CP*GP*GP*GP*TP*GP*AP*TP*A)-3') ; × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 6.9;NA CACODYLATE, NACL, pH 6.90, VAPOR DIFFUSION Resolution 3.90 Å
2 Protein–DNA Homooligomer Protein × 2 DNA 2 PDB declaration: tetrameric(4) Consistent with all polymer counts Chain C; UniProt 1–66 Chain D; UniProt 1–66 Not recorded ;DNA (5'-D(*TP*AP*TP*CP*AP*CP*CP*GP*CP*GP*GP*GP*TP*GP*AP*TP*A)-3') ; × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 6.9;NA CACODYLATE, NACL, pH 6.90, VAPOR DIFFUSION Resolution 3.90 Å
3 Protein–DNA Homooligomer Protein × 2 DNA 2 PDB declaration: tetrameric(4) Consistent with all polymer counts Chain E; UniProt 1–66 Chain F; UniProt 1–66 Not recorded ;DNA (5'-D(*TP*AP*TP*CP*AP*CP*CP*GP*CP*GP*GP*GP*TP*GP*AP*TP*A)-3') ; × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 6.9;NA CACODYLATE, NACL, pH 6.90, VAPOR DIFFUSION Resolution 3.90 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.

11 other PDB entries and 19 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RCRO_LAMBD
Isoform
PDB entities 2
Chains and sequence ranges Author chain A; PDBConstruct 1–66; UniProt 1–66 Author chain B; PDBConstruct 1–66; UniProt 1–66 Author chain C; PDBConstruct 1–66; UniProt 1–66 Author chain D; PDBConstruct 1–66; UniProt 1–66 Author chain E; PDBConstruct 1–66; UniProt 1–66 Author chain F; PDBConstruct 1–66; UniProt 1–66

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.

SAXS scattering curve SAXS Profile

SAXS profile for 4cro

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4cro
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4cro
Deposition date deposition_date1992-01-15
Structure title titlePROTEIN-DNA CONFORMATIONAL CHANGES IN THE CRYSTAL STRUCTURE OF A LAMBDA CRO-OPERATOR COMPLEX
Keywords keywordsPROTEIN-DNA COMPLEX, DOUBLE HELIX, TRANSCRIPTION-DNA COMPLEX; TRANSCRIPTION/DNA
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier44.65
Radius of gyration Rg (electron density) rg_electron45.47
Forward intensity I(0) i041610200.00
Molecular weight molecular_weight45593.0 kDa
Excluded volume excluded_volume52922 ų
Envelope volume envelope_volume81349 ų
Hydration-shell volume shell_volume18146 ų
Envelope diameter envelope_diameter161.1
Shell Rg shell_rg38.36
Envelope Rg envelope_rg45.21
Shape Rg shape_rg46.01
Total Rg total_rg45.07
Total atoms total_atoms96
Residues n_residues96
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax155.2
Rg (real space) rg_real45.75
Rg uncertainty (real space) rg_real_error1.65
I(0) (real space) i0_real4.1610e+07
I(0) uncertainty (real space) i0_real_error8.1010e+05
Rg (reciprocal space) rg_reciprocal44.66
I(0) (reciprocal space) i0_reciprocal41560000.0000
Solution quality estimate total_estimate0.6260
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary26.6
Skewness Skewness skewness0.646
Kurtosis Kurtosis kurtosis-0.439
Angular range angular_range— – 0.1750 −1
Current regularization parameter α current_alpha0.0002
Highest regularization parameter α highest_alpha2473000.0000
Real-space data points n_real_points36
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.335; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.063; Smooth: 0.067

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd4croa_
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.2 — Phage repressors
Domain ID domain_idd4crob_
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.2 — Phage repressors
Domain ID domain_idd4croc_
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.2 — Phage repressors
Domain ID domain_idd4crod_
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.2 — Phage repressors
Domain ID domain_idd4croe_
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.2 — Phage repressors
Domain ID domain_idd4crof_
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.2 — Phage repressors

8. Citations (3)

9. Files and Curves (10)