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2hv7

Crystal structure of phosphotyrosyl phosphatase activator bound to ATPgammaS

Method: X-RAY DIFFRACTION Dmax: 141.2 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Protein phosphatase 2A, regulatory subunit B

Homo sapiens

UniProt Q15257

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 1–323 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain B； UniProt 1–323 Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain C； UniProt 1–323 Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
4 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain D； UniProt 1–323 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
5 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain E； UniProt 1–323 Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
6 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain F； UniProt 1–323 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
7 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain G； UniProt 1–323 Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312
8 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain H； UniProt 1–323 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 2.50 Å R-free 0.312

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.

Other PDB Difference from Current Entry 2HV7 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
2G62 Crystal structure of human PTPA Deposited 2006-02-24 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 22–358（337 aa）
Not recorded SO4 SULFATE ION × 4 GOL GLYCEROL × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.60 Å R-free 0.183
2HV6 Crystal structure of the phosphotyrosyl phosphatase activator Deposited 2006-07-27 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–323（323 aa）
Not recorded MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2mM Mg Formate, 5% glycerol, 17.5% PEG3350 (w/v), 0.1 M Bistris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.239
2HV6 Crystal structure of the phosphotyrosyl phosphatase activator Deposited 2006-07-27 Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 1–323（323 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；0.2mM Mg Formate, 5% glycerol, 17.5% PEG3350 (w/v), 0.1 M Bistris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.239
2IXM Structure of human PTPA Deposited 2006-07-09 Different construct Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 20–322（303 aa） Fragment：RESIDUES 20-322
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；PTPA CRYSTALS WERE GROWN USING THE HANGING DROP METHOD AT 20C. 1UL OF PROTEIN (20 MG/ML) WAS MIXED WITH 1 UL OF PRECIPITANT (23% TO 28% PEG 4000, 0.2 M LITHIUM SULFATE, 0.1 M TRIS PH 7.0-8.5 AND 5 MM DTT) WERE EQUILIBRATED AGAINST 0.5 ML OF PRECIPITANT. LARGE PLATE CRYSTALS APPEARED IN 2 TO 3 DAYS. FOR CRYOPROTECTION 5% MPD WAS ADDED TO THE PRECIPITANT SOLUTION.
Resolution 1.50 Å R-free 0.221
4LAC Crystal Structure of Protein Phosphatase 2A (PP2A) and PP2A phosphatase activator (PTPA) complex with ATPgammaS Deposited 2013-06-19 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain B 19–358（340 aa） Fragment：unp residues 19-358
Not recorded PEG DI(HYDROXYETHYL)ETHER × 1 MN MANGANESE (II) ION × 2 AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER × 1 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；298 K；0.1M MES at pH6.5 and 10-12% PEG20,000, 1mM ATPgammaS, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Resolution 2.82 Å R-free 0.242
4NY3 Human PTPA in complex with peptide Deposited 2013-12-10 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 22–323（302 aa） Fragment：UNP Residues 22-323
Not recorded SO4 SULFATE ION × 5 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；277 K；2 M (NH4)2SO4 and 0.1 M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.80 Å R-free 0.185
4NY3 Human PTPA in complex with peptide Deposited 2013-12-10 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 22–323（302 aa） Fragment：UNP Residues 22-323
Not recorded SO4 SULFATE ION × 5 GOL GLYCEROL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；277 K；2 M (NH4)2SO4 and 0.1 M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.80 Å R-free 0.185

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

View Construct and Data Evidence
UniProt name PTPA_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–323； UniProt 1–323 Author chain B； PDBConstruct 1–323； UniProt 1–323 Author chain C； PDBConstruct 1–323； UniProt 1–323 Author chain D； PDBConstruct 1–323； UniProt 1–323 Author chain E； PDBConstruct 1–323； UniProt 1–323 Author chain F； PDBConstruct 1–323； UniProt 1–323 Author chain G； PDBConstruct 1–323； UniProt 1–323 Author chain H； PDBConstruct 1–323； UniProt 1–323

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 2hv7

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2hv7
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2hv7
Deposition date deposition_date2006-07-27
Structure title titleCrystal structure of phosphotyrosyl phosphatase activator bound to ATPgammaS
Keywords keywordsphosphotyrosyl phosphatase activator, PP2A, phosphatase, phosphatase specificity, Unknown Function; UNKNOWN FUNCTION
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier43.45 Å
Radius of gyration Rg (electron density) rg_electron43.15 Å
Forward intensity I(0) i01039250000.00
Molecular weight molecular_weight277650.0 kDa
Excluded volume excluded_volume351830 ų
Envelope volume envelope_volume469650 ų
Hydration-shell volume shell_volume88145 ų
Envelope diameter envelope_diameter146.2 Å
Shell Rg shell_rg50.32 Å
Envelope Rg envelope_rg42.29 Å
Shape Rg shape_rg43.13 Å
Total Rg total_rg43.56 Å
Total atoms total_atoms19612
Residues n_residues2408
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−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
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax141.2 Å
Rg (real space) rg_real43.30 Å
Rg uncertainty (real space) rg_real_error1.32 Å
I(0) (real space) i0_real1.0390e+09
I(0) uncertainty (real space) i0_real_error1.7860e+07
Rg (reciprocal space) rg_reciprocal43.45 Å
I(0) (reciprocal space) i0_reciprocal1039000000.0000
Solution quality estimate total_estimate0.8610
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary54.9 Å
Skewness Skewness skewness0.283
Kurtosis Kurtosis kurtosis-0.180
Angular range angular_range— – 0.1800 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha215200000.0000
Real-space data points n_real_points37
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.816; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.983; Smooth: 0.758
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (2)

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7. Fold Classification (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd2hv7a_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7b_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7c_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7d_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7e_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7f_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7g_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like
Domain ID domain_idd2hv7h_
Class classa — All alpha proteins
Fold Fold folda.268 — PTPA-like
Superfamily Superfamily superfamilya.268.1 — PTPA-like
Family Family familya.268.1.1 — PTPA-like

CATH v4.4 (8 domains)

Domain ID domain_id2hv7A02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7B02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7C02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7D02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7E02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7F02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7G02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
Domain ID domain_id2hv7H02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily1150 — Phosphotyrosyl phosphate activator, C-terminal lid domain
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8. Citations (1)

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9. Files and Curves (10)