2uzu

PKA structures of indazole-pyridine series of AKT inhibitors

Method: X-RAY DIFFRACTION Dmax: 66.2 Å Quality: GOOD

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

CAMP-DEPENDENT PROTEIN KINASE, ALPHA-CATALYTIC SUBUNIT

BOS TAURUS

UniProt P00517

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 E; UniProt 15–350 Fragment:RESIDUES 15-350 CAMP-DEPENDENT PROTEIN KINASE INHIBITOR ALPHA × 1 (Q3SX13) L20 (2S)-1-(1H-INDOL-3-YL)-3-{[5-(3-METHYL-1H-INDAZOL-5-YL)PYRIDIN-3-YL]OXY}PROPAN-2-AMINE × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.40 Å R-free 0.371

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.

97 other PDB entries and 111 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name KAPCA_BOVIN
Isoform
PDB entities 1
Chains and sequence ranges Author chain E; PDBConstruct 1–336; UniProt 15–350

CAMP-DEPENDENT PROTEIN KINASE INHIBITOR ALPHA

BOS TAURUS

UniProt Q3SX13

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 I; UniProt 5–24 Fragment:RESIDUES 5-24 CAMP-DEPENDENT PROTEIN KINASE, ALPHA-CATALYTIC SUBUNIT × 1 (P00517) L20 (2S)-1-(1H-INDOL-3-YL)-3-{[5-(3-METHYL-1H-INDAZOL-5-YL)PYRIDIN-3-YL]OXY}PROPAN-2-AMINE × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 2.40 Å R-free 0.371

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.

18 other PDB entries and 28 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name IPKA_BOVIN
Isoform
PDB entities 2
Chains and sequence ranges Author chain I; PDBConstruct 1–20; UniProt 5–24

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 2uzu

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id2uzu
Deposition date deposition_date2007-05-01
Structure title titlePKA structures of indazole-pyridine series of AKT inhibitors
Keywords keywords;CAMP, KINASE, MYRISTATE, TRANSFERASE, LIPOPROTEIN, SERINE/THREONINE-PROTEIN KINASE, PHOSPHORYLATION, PROTEIN KINASE A, NUCLEOTIDE-BINDING, PROTEIN KINASE INHIBITOR, ATP- BINDING, AKT INHIBITORS, NUCLEAR PROTEIN ;; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier21.35
Radius of gyration Rg (electron density) rg_electron20.05
Forward intensity I(0) i027373100.00
Molecular weight molecular_weight41756.0 kDa
Excluded volume excluded_volume52926 ų
Envelope volume envelope_volume59698 ų
Hydration-shell volume shell_volume24153 ų
Envelope diameter envelope_diameter68.7
Shell Rg shell_rg27.23
Envelope Rg envelope_rg20.26
Shape Rg shape_rg20.01
Total Rg total_rg21.12
Total atoms total_atoms2957
Residues n_residues356
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 dmax66.2
Rg (real space) rg_real21.20
Rg uncertainty (real space) rg_real_error0.28
I(0) (real space) i0_real2.7370e+07
I(0) uncertainty (real space) i0_real_error3.2580e+05
Rg (reciprocal space) rg_reciprocal21.23
I(0) (reciprocal space) i0_reciprocal27370000.0000
Solution quality estimate total_estimate0.8997
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary27.3
Skewness Skewness skewness0.155
Kurtosis Kurtosis kurtosis-0.424
Angular range angular_range— – 0.3700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha8399000.0000
Real-space data points n_real_points69
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.903; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.989; Smooth: 0.996

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2uzue_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.144 — Protein kinase-like (PK-like)
Superfamily Superfamily superfamilyd.144.1 — Protein kinase-like (PK-like)
Family Family familyd.144.1.7 — Protein kinases, catalytic subunit
Domain ID domain_idd2uzui_
Class classj — Peptides
Fold Fold foldj.126 — cAMP-dependent protein kinase inhibitor
Superfamily Superfamily superfamilyj.126.1 — cAMP-dependent protein kinase inhibitor
Family Family familyj.126.1.1 — cAMP-dependent protein kinase inhibitor

CATH v4.4 (2 domains)

Domain ID domain_id2uzuE01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1
Domain ID domain_id2uzuE02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1

8. Citations (1)

9. Files and Curves (10)