1h9o

PHOSPHATIDYLINOSITOL 3-KINASE, P85-ALPHA SUBUNIT: C-TERMINAL SH2 DOMAIN COMPLEXED WITH A TYR751 PHOSPHOPEPTIDE FROM THE PDGF RECEPTOR, CRYSTAL STRUCTURE AT 1.79 A

Method: X-RAY DIFFRACTION Dmax: 46.6 Å Quality: GOOD

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

PHOSPHATIDYLINOSITOL 3-KINASE

HOMO SAPIENS

UniProt P27986

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 617–724 Fragment:C-TERMINAL SH2 DOMAIN, P85-ALPHA REGULATORY SUBUNIT RESIDUES 617 - 724 BETA-PLATELET-DERIVED GROWTH FACTOR RECEPTOR × 1 (P09619) X-RAY DIFFRACTION X-ray crystallization conditions:pH 7;40MG/ML PROTEIN IN 20 MM PHOSPHATE PH6.2 + PEG8000, RESERVOIR WITH SAME PHOSPHATE + PEG8000 + 250MM NACL, pH 7.00 Resolution 1.79 Å R-free 0.219

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.

103 other PDB entries and 116 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name P85A_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 5–112; UniProt 617–724

BETA-PLATELET-DERIVED GROWTH FACTOR RECEPTOR

OrganismNot specified

UniProt P09619

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 B; UniProt 751–755 Fragment:RESIDUES 751 - 755 Non-standard monomer:Yes (specific site not provided by mmCIF) PHOSPHATIDYLINOSITOL 3-KINASE × 1 (P27986) X-RAY DIFFRACTION X-ray crystallization conditions:pH 7;40MG/ML PROTEIN IN 20 MM PHOSPHATE PH6.2 + PEG8000, RESERVOIR WITH SAME PHOSPHATE + PEG8000 + 250MM NACL, pH 7.00 Resolution 1.79 Å R-free 0.219

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.

7 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name PGDR_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–5; UniProt 751–755

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 1h9o

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1h9o
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1h9o
Deposition date deposition_date2001-03-14
Structure title titlePHOSPHATIDYLINOSITOL 3-KINASE, P85-ALPHA SUBUNIT: C-TERMINAL SH2 DOMAIN COMPLEXED WITH A TYR751 PHOSPHOPEPTIDE FROM THE PDGF RECEPTOR, CRYSTAL STRUCTURE AT 1.79 A
Keywords keywords;TRANSFERASE/RECEPTOR, COMPLEX (PHOSPHOTRANSFERASE-RECEPTOR), PHOSPHOTRANSFERASE, SH2 DOMAIN, SIGNAL TRANSDUCTION, PHOSPHOINOSITIDE 3-KINASE, TRANSFERASE-RECEPTOR complex ;; TRANSFERASE/RECEPTOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier14.37
Radius of gyration Rg (electron density) rg_electron12.93
Forward intensity I(0) i03508600.00
Molecular weight molecular_weight12725.0 kDa
Excluded volume excluded_volume15762 ų
Envelope volume envelope_volume17447 ų
Hydration-shell volume shell_volume11398 ų
Envelope diameter envelope_diameter44.4
Shell Rg shell_rg18.78
Envelope Rg envelope_rg13.28
Shape Rg shape_rg12.91
Total Rg total_rg14.24
Total atoms total_atoms895
Residues n_residues113
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 dmax46.6
Rg (real space) rg_real14.26
Rg uncertainty (real space) rg_real_error0.30
I(0) (real space) i0_real3.5090e+06
I(0) uncertainty (real space) i0_real_error4.0850e+04
Rg (reciprocal space) rg_reciprocal14.27
I(0) (reciprocal space) i0_reciprocal3509000.0000
Solution quality estimate total_estimate0.8766
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary19.4
Skewness Skewness skewness0.052
Kurtosis Kurtosis kurtosis-0.381
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha784900.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.801; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.994

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1h9oa_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.93 — SH2-like
Superfamily Superfamily superfamilyd.93.1 — SH2 domain
Family Family familyd.93.1.1 — SH2 domain

CATH v4.4 (1 domains)

Domain ID domain_id1h9oA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily10 — SH2 domain

8. Citations (1)

9. Files and Curves (10)