4iar

Crystal structure of the chimeric protein of 5-HT1B-BRIL in complex with ergotamine (PSI Community Target)

Method: X-RAY DIFFRACTION Dmax: 96.3 Å Quality: GOOD

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

Chimera protein of human 5-hydroxytryptamine receptor 1B and E. Coli soluble cytochrome b562

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 23–128 Mutation:L138W, M29W, H124I, R128L ERM Ergotamine × 1 OLB (2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 1 X-RAY DIFFRACTION X-ray crystallization conditions:Lipid Cubic Phase (LCP);pH 7.5;293 K;100 mM Tris pH 7.5, 30% (v/v) PEG400, 400 mM lithium chloride , Lipid Cubic Phase (LCP), temperature 293K Resolution 2.70 Å R-free 0.261

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 211–316; UniProt 23–128

Chimera protein of human 5-hydroxytryptamine receptor 1B and E. Coli soluble cytochrome b562

Homo sapiens

UniProt P28222

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 33–239 Chain A; UniProt 306–390 Mutation:L138W, M29W, H124I, R128L ERM Ergotamine × 1 OLB (2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 1 X-RAY DIFFRACTION X-ray crystallization conditions:Lipid Cubic Phase (LCP);pH 7.5;293 K;100 mM Tris pH 7.5, 30% (v/v) PEG400, 400 mM lithium chloride , Lipid Cubic Phase (LCP), temperature 293K Resolution 2.70 Å R-free 0.261

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.

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name 5HT1B_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 4–210; UniProt 33–239 Author chain A; PDBConstruct 317–401; UniProt 306–390

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 4iar

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id4iar
Deposition date deposition_date2012-12-07
Structure title titleCrystal structure of the chimeric protein of 5-HT1B-BRIL in complex with ergotamine (PSI Community Target)
Keywords keywords;ergotamine, Novel protein engineering, GPCR Network, Membrane protein, PSI-Biology, Structural Genomics, GPCR, SIGNALING PROTEIN, ELECTRON TRANSPORT, GPCR Dock ;; SIGNALING PROTEIN, ELECTRON TRANSPORT
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier27.33
Radius of gyration Rg (electron density) rg_electron27.00
Forward intensity I(0) i025541100.00
Molecular weight molecular_weight42283.0 kDa
Excluded volume excluded_volume54352 ų
Envelope volume envelope_volume66682 ų
Hydration-shell volume shell_volume22976 ų
Envelope diameter envelope_diameter100.2
Shell Rg shell_rg31.10
Envelope Rg envelope_rg27.64
Shape Rg shape_rg26.99
Total Rg total_rg27.56
Total atoms total_atoms2990
Residues n_residues379
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 dmax96.3
Rg (real space) rg_real27.81
Rg uncertainty (real space) rg_real_error0.94
I(0) (real space) i0_real2.5540e+07
I(0) uncertainty (real space) i0_real_error3.7930e+05
Rg (reciprocal space) rg_reciprocal27.66
I(0) (reciprocal space) i0_reciprocal25540000.0000
Solution quality estimate total_estimate0.7753
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary23.2
Skewness Skewness skewness0.700
Kurtosis Kurtosis kurtosis-0.015
Angular range angular_range— – 0.2900 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha6226000.0000
Real-space data points n_real_points59
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.611; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.579; Smooth: 0.662

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id4iarA01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1070 — Rhopdopsin 7-helix transmembrane proteins
Homologous superfamily homologous superfamily10 — Rhodopsin 7-helix transmembrane proteins
Domain ID domain_id4iarA02
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)