4y18

Structure of BRCA1 BRCT domains in complex with Abraxas double phosphorylated peptide

Method: X-RAY DIFFRACTION Dmax: 160.6 Å Quality: GOOD

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

Breast cancer type 1 susceptibility protein

Homo sapiens

UniProt P38398

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 heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
10 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain G; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
11 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain G; UniProt 1646–1859 Chain H; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 2 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
12 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain H; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
2 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1646–1859 Chain B; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 2 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
3 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain B; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
4 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain C; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
5 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain C; UniProt 1646–1859 Chain E; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 2 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
6 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain D; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
7 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain D; UniProt 1646–1859 Chain F; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 2 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
8 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain E; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
9 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain F; UniProt 1646–1859 Fragment:BRCT domains, UNP residues 1646-1859 BRCA1-A complex subunit Abraxas × 1 (Q6UWZ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297

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.

31 other PDB entries and 59 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BRCA1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 11–224; UniProt 1646–1859 Author chain B; PDBConstruct 11–224; UniProt 1646–1859 Author chain C; PDBConstruct 11–224; UniProt 1646–1859 Author chain D; PDBConstruct 11–224; UniProt 1646–1859 Author chain E; PDBConstruct 11–224; UniProt 1646–1859 Author chain F; PDBConstruct 11–224; UniProt 1646–1859 Author chain G; PDBConstruct 11–224; UniProt 1646–1859 Author chain H; PDBConstruct 11–224; UniProt 1646–1859

BRCA1-A complex subunit Abraxas

OrganismNot specified

UniProt Q6UWZ7

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 heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain I; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
10 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain O; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
11 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain O; UniProt 399–409 Chain P; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 2 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
12 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain P; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
2 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain I; UniProt 399–409 Chain J; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 2 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
3 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain J; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
4 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain K; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
5 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain K; UniProt 399–409 Chain M; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 2 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
6 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain L; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
7 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain L; UniProt 399–409 Chain N; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 2 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
8 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain M; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297
9 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain N; UniProt 399–409 Fragment:UNP residues 399-409 Non-standard monomer:Yes (specific site not provided by mmCIF) Breast cancer type 1 susceptibility protein × 1 (P38398) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7;291 K;HEPES, Ammonium Sulphate, PEG 4000. Resolution 3.50 Å R-free 0.297

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.

3 other PDB entries and 5 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name F175A_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain I; PDBConstruct 1–11; UniProt 399–409 Author chain J; PDBConstruct 1–11; UniProt 399–409 Author chain K; PDBConstruct 1–11; UniProt 399–409 Author chain L; PDBConstruct 1–11; UniProt 399–409 Author chain M; PDBConstruct 1–11; UniProt 399–409 Author chain N; PDBConstruct 1–11; UniProt 399–409 Author chain O; PDBConstruct 1–11; UniProt 399–409 Author chain P; PDBConstruct 1–11; UniProt 399–409

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 4y18

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4y18
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4y18
Deposition date deposition_date2015-02-06
Structure title titleStructure of BRCA1 BRCT domains in complex with Abraxas double phosphorylated peptide
Keywords keywordsDNA damage response, BRCT, phosphopeptide, ligase-peptide complex, antitumor protein; ANTITUMOR PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier48.62
Radius of gyration Rg (electron density) rg_electron48.57
Forward intensity I(0) i0588472000.00
Molecular weight molecular_weight199200.0 kDa
Excluded volume excluded_volume248380 ų
Envelope volume envelope_volume379350 ų
Hydration-shell volume shell_volume66795 ų
Envelope diameter envelope_diameter163.9
Shell Rg shell_rg51.17
Envelope Rg envelope_rg46.99
Shape Rg shape_rg48.57
Total Rg total_rg48.70
Total atoms total_atoms13975
Residues n_residues1753
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 dmax160.6
Rg (real space) rg_real48.57
Rg uncertainty (real space) rg_real_error1.46
I(0) (real space) i0_real5.8850e+08
I(0) uncertainty (real space) i0_real_error1.0840e+07
Rg (reciprocal space) rg_reciprocal48.62
I(0) (reciprocal space) i0_reciprocal588500000.0000
Solution quality estimate total_estimate0.8944
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary55.2
Skewness Skewness skewness0.206
Kurtosis Kurtosis kurtosis-0.588
Angular range angular_range— – 0.1600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha23350000.0000
Real-space data points n_real_points33
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.924; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.854

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 16 domains

CATH v4.4 (16 domains)

Domain ID domain_id4y18A01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18A02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18B01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18B02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18C01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18C02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18D01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18D02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18E01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18E02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18F01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18F02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18G01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18G02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18H01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain
Domain ID domain_id4y18H02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10190 — BRCT domain

8. Citations (1)

9. Files and Curves (10)