2g1r

Ketopiperazine-Based Renin Inhibitors: Optimization of the C Ring

Method: X-RAY DIFFRACTION Dmax: 110.3 Å Quality: GOOD

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

Renin

Homo sapiens

UniProt P00797

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 74–406 Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 3IG N-{2-[6-(2,4-DIAMINO-6-ETHYLPYRIMIDIN-5-YL)-2,2-DIMETHYL-3-OXO-2,3-DIHYDRO-4H-1,4-BENZOXAZIN-4-YL]ETHYL}ACETAMIDE × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.42 Å R-free 0.240
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 74–406 Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 3IG N-{2-[6-(2,4-DIAMINO-6-ETHYLPYRIMIDIN-5-YL)-2,2-DIMETHYL-3-OXO-2,3-DIHYDRO-4H-1,4-BENZOXAZIN-4-YL]ETHYL}ACETAMIDE × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.42 Å R-free 0.240
3 Protein homooligomer Homooligomer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain A; UniProt 74–406 Chain B; UniProt 74–406 Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 3IG N-{2-[6-(2,4-DIAMINO-6-ETHYLPYRIMIDIN-5-YL)-2,2-DIMETHYL-3-OXO-2,3-DIHYDRO-4H-1,4-BENZOXAZIN-4-YL]ETHYL}ACETAMIDE × 6 X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.42 Å R-free 0.240

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.

90 other PDB entries and 227 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RENI_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–333; UniProt 74–406 Author chain B; PDBConstruct 1–333; UniProt 74–406

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 2g1r

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2g1r
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2g1r
Deposition date deposition_date2006-02-14
Structure title titleKetopiperazine-Based Renin Inhibitors: Optimization of the C Ring
Keywords keywordsPROTEIN-LIGAND COMPLEXES, HYDROLASE; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier35.92
Radius of gyration Rg (electron density) rg_electron35.39
Forward intensity I(0) i082977700.00
Molecular weight molecular_weight74260.0 kDa
Excluded volume excluded_volume93197 ų
Envelope volume envelope_volume124910 ų
Hydration-shell volume shell_volume29411 ų
Envelope diameter envelope_diameter108.1
Shell Rg shell_rg42.44
Envelope Rg envelope_rg33.83
Shape Rg shape_rg35.37
Total Rg total_rg35.96
Total atoms total_atoms5230
Residues n_residues666
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 dmax110.3
Rg (real space) rg_real36.01
Rg uncertainty (real space) rg_real_error1.02
I(0) (real space) i0_real8.2980e+07
I(0) uncertainty (real space) i0_real_error1.5030e+06
Rg (reciprocal space) rg_reciprocal35.96
I(0) (reciprocal space) i0_reciprocal82970000.0000
Solution quality estimate total_estimate0.8082
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary25.1
Skewness Skewness skewness0.163
Kurtosis Kurtosis kurtosis-1.076
Angular range angular_range— – 0.2200 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha16670000.0000
Real-space data points n_real_points45
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.622; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.730; Smooth: 0.906

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2g1ra_
Class classb — All beta proteins
Fold Fold foldb.50 — Acid proteases
Superfamily Superfamily superfamilyb.50.1 — Acid proteases
Family Family familyb.50.1.2 — Pepsin-like
Domain ID domain_idd2g1rb_
Class classb — All beta proteins
Fold Fold foldb.50 — Acid proteases
Superfamily Superfamily superfamilyb.50.1 — Acid proteases
Family Family familyb.50.1.2 — Pepsin-like

CATH v4.4 (4 domains)

Domain ID domain_id2g1rA01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology70 — Cathepsin D, subunit A; domain 1
Homologous superfamily homologous superfamily10 — Acid Proteases
Domain ID domain_id2g1rA02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology70 — Cathepsin D, subunit A; domain 1
Homologous superfamily homologous superfamily10 — Acid Proteases
Domain ID domain_id2g1rB01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology70 — Cathepsin D, subunit A; domain 1
Homologous superfamily homologous superfamily10 — Acid Proteases
Domain ID domain_id2g1rB02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology70 — Cathepsin D, subunit A; domain 1
Homologous superfamily homologous superfamily10 — Acid Proteases

8. Citations (1)

9. Files and Curves (10)