6qyx

p38(alpha) MAP kinase with the activation loop of ERK2

Method: X-RAY DIFFRACTION Dmax: 74.0 Å Quality: GOOD

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

Mitogen-activated protein kinase 14,Mitogen-activated protein kinase 1,Mitogen-activated protein kinase 14

Homo sapiens

UniProt D2CIU1

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 18–34 Not recorded BOG octyl beta-D-glucopyranoside × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;277 K;0.1 M HEPES pH 7.5, 0.2 M KF, 13%-17% (w/v) PEG 3350, 25 mM beta-D-octyl glucoside (bOG) Resolution 1.66 Å R-free 0.242

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.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name D2CIU1_CRAAR
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 173–189; UniProt 18–34

Mitogen-activated protein kinase 14,Mitogen-activated protein kinase 1,Mitogen-activated protein kinase 14

Homo sapiens

UniProt Q16539

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 1–172 Chain A; UniProt 184–360 Not recorded BOG octyl beta-D-glucopyranoside × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;277 K;0.1 M HEPES pH 7.5, 0.2 M KF, 13%-17% (w/v) PEG 3350, 25 mM beta-D-octyl glucoside (bOG) Resolution 1.66 Å R-free 0.242

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.

266 other PDB entries and 288 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name MK14_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–172; UniProt 1–172 Author chain A; PDBConstruct 190–366; UniProt 184–360

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 6qyx

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id6qyx
Deposition date deposition_date2019-03-10
Structure title titlep38(alpha) MAP kinase with the activation loop of ERK2
Keywords keywordsNleD, effector, T3SS, MAP kinase, phosphorylation, TRANSFERASE; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier23.15
Radius of gyration Rg (electron density) rg_electron22.17
Forward intensity I(0) i025298600.00
Molecular weight molecular_weight39276.0 kDa
Excluded volume excluded_volume49607 ų
Envelope volume envelope_volume59846 ų
Hydration-shell volume shell_volume22869 ų
Envelope diameter envelope_diameter74.3
Shell Rg shell_rg28.68
Envelope Rg envelope_rg22.22
Shape Rg shape_rg22.16
Total Rg total_rg23.06
Total atoms total_atoms2766
Residues n_residues339
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 dmax74.0
Rg (real space) rg_real23.12
Rg uncertainty (real space) rg_real_error0.40
I(0) (real space) i0_real2.5300e+07
I(0) uncertainty (real space) i0_real_error3.2550e+05
Rg (reciprocal space) rg_reciprocal23.13
I(0) (reciprocal space) i0_reciprocal25300000.0000
Solution quality estimate total_estimate0.8992
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary26.2
Skewness Skewness skewness0.325
Kurtosis Kurtosis kurtosis-0.355
Angular range angular_range— – 0.3450 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha5681000.0000
Real-space data points n_real_points66
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.902; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.979

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 1 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd6qyxa_
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

8. Citations (1)

9. Files and Curves (10)