6EM6
Crystal structure of the Protein-Kinase A catalytic subunit from Criteculus Griseus in complex with compounds RKp032 and ADP
- PDB DOI: https://doi.org/10.2210/pdb6EM6/pdb
- Classification: TRANSFERASE
- Organism(s): Cricetulus griseus
- Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
- Mutation(s): Yes 
- Deposited: 2017-10-01 Released: 2018-10-10 
- Funding Organization(s): Loewe-Corporation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.64 Å
- R-Value Free: 0.191 
- R-Value Work: 0.174 
- R-Value Observed: 0.175 
This is version 1.2 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
cAMP-dependent protein kinase catalytic subunit alpha | 353 | Cricetulus griseus | Mutation(s): 0  Gene Names: PRKACA EC: 2.7.11.11 | ||
UniProt | |||||
Find proteins for P25321 (Cricetulus griseus) Explore P25321  Go to UniProtKB:  P25321 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P25321 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
UPF0418 protein FAM164A | B [auth C] | 18 | Cricetulus griseus | Mutation(s): 1  | |
UniProt | |||||
Find proteins for G3HK48 (Cricetulus griseus) Explore G3HK48  Go to UniProtKB:  G3HK48 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | G3HK48 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ADP Query on ADP | C [auth A] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N | |||
RIP Query on RIP | F [auth C] | beta-D-ribopyranose C5 H10 O5 SRBFZHDQGSBBOR-TXICZTDVSA-N | |||
MG Query on MG | D [auth A], E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Modified Residues 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
SEP Query on SEP | A | L-PEPTIDE LINKING | C3 H8 N O6 P | SER | |
TPO Query on TPO | A | L-PEPTIDE LINKING | C4 H10 N O6 P | THR |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.64 Å
- R-Value Free: 0.191 
- R-Value Work: 0.174 
- R-Value Observed: 0.175 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 70.439 | α = 90 |
b = 73.162 | β = 90 |
c = 77.037 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
XDS | data reduction |
XDS | data scaling |
PHASER | phasing |
Coot | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2018-10-10  Deposition Author(s): Mueller, J.M., Heine, A., Klebe, G.
Funding Organization | Location | Grant Number |
---|---|---|
Loewe-Corporation | Germany | -- |
Revision History (Full details and data files)
- Version 1.0: 2018-10-10
Type: Initial release - Version 1.1: 2019-05-15
Changes: Data collection, Database references, Structure summary - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary