6rz4

Crystal structure of cysteinyl leukotriene receptor 1 in complex with pranlukast

Method: X-RAY DIFFRACTION Dmax: 111.0 Å Quality: REASONABLE

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

Cysteinyl leukotriene receptor 1,Soluble cytochrome b562,Cysteinyl leukotriene receptor 1

Homo sapiens

UniProt P0ABE7

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 23–127 Not recorded KNT pranlukast × 1 NA SODIUM ION × 1 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 9 OLA OLEIC ACID × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;pH 6;293 K;100 mM sodium citrate pH 6 200-600 mM lithium nitrate 30-38% v/v PEG400 Resolution 2.70 Å R-free 0.254

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.

714 other PDB entries and 822 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name C562_ECOLX
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 227–331; UniProt 23–127

Cysteinyl leukotriene receptor 1,Soluble cytochrome b562,Cysteinyl leukotriene receptor 1

Homo sapiens

UniProt Q9Y271

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 1–222 Chain A; UniProt 223–311 Not recorded KNT pranlukast × 1 NA SODIUM ION × 1 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 9 OLA OLEIC ACID × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;pH 6;293 K;100 mM sodium citrate pH 6 200-600 mM lithium nitrate 30-38% v/v PEG400 Resolution 2.70 Å R-free 0.254

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.

1 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CLTR1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 4–225; UniProt 1–222 Author chain A; PDBConstruct 335–423; UniProt 223–311

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 6rz4

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 6rz4
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2. Structure Basics 2. Structure Basics

Entry ID entry_id6rz4
Deposition date deposition_date2019-06-12
Structure title titleCrystal structure of cysteinyl leukotriene receptor 1 in complex with pranlukast
Keywords keywords;GPCR, LCP, MEMBRANE PROTEIN, cysteinyl leukotriene, LTD4, cyslt1, cysltr1, cyslt1r asthma, pranlukast, BRIL, sodium site, Cysteinyl Leukotriene Receptor 1 ;; MEMBRANE PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier31.07
Radius of gyration Rg (electron density) rg_electron30.20
Forward intensity I(0) i028303800.00
Molecular weight molecular_weight45005.0 kDa
Excluded volume excluded_volume57863 ų
Envelope volume envelope_volume72557 ų
Hydration-shell volume shell_volume23257 ų
Envelope diameter envelope_diameter113.4
Shell Rg shell_rg32.47
Envelope Rg envelope_rg30.74
Shape Rg shape_rg30.25
Total Rg total_rg30.30
Total atoms total_atoms3169
Residues n_residues395
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 dmax111.0
Rg (real space) rg_real31.74
Rg uncertainty (real space) rg_real_error1.10
I(0) (real space) i0_real2.8300e+07
I(0) uncertainty (real space) i0_real_error5.1090e+05
Rg (reciprocal space) rg_reciprocal31.46
I(0) (reciprocal space) i0_reciprocal28300000.0000
Solution quality estimate total_estimate0.6834
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary21.8
Skewness Skewness skewness0.649
Kurtosis Kurtosis kurtosis-0.430
Angular range angular_range— – 0.2550 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha6858000.0000
Real-space data points n_real_points52
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.332; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.087; Smooth: 0.797

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id6rz4A01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily10 — Cytochrome c/b562

8. Citations (1)

9. Files and Curves (10)