8Z8W | pdb_00008z8w

Crystal Structure of EphA6/Caskin1 complex

PDB DOI: https://doi.org/10.2210/pdb8Z8W/pdb

Classification: PROTEIN BINDING
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-04-22 Released: 2025-04-30
Deposition Author(s): Li, J., Liu, W.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.30 Å
R-Value Free:
0.257 (Depositor), 0.256 (DCC)
R-Value Work:
0.196 (Depositor), 0.196 (DCC)
R-Value Observed:
0.199 (Depositor)

Starting Model: experimental
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This is version 1.0 of the entry. See complete history.

Literature

Crystal Structure of EphA6/Caskin1 complex

Li, J., Liu, W.

To be published.

Macromolecule Content

Total Structure Weight: 20.58 kDa
Atom Count: 975
Modeled Residue Count: 124
Deposited Residue Count: 182
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Caskin-1,Ephrin type-A receptor 6	A	182	Mus musculus	Mutation(s): 0 Gene Names: Caskin1, Kiaa1306, Epha6, Ehk-2, Ehk2 EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q62413 (Mus musculus) Explore Q62413 Go to UniProtKB: Q62413
IMPC: MGI:108034
Find proteins for Q6P9K8 (Mus musculus) Explore Q6P9K8 Go to UniProtKB: Q6P9K8
IMPC: MGI:2442952
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Groups	Q62413 Q6P9K8
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.30 Å
R-Value Free: 0.257 (Depositor), 0.256 (DCC)
R-Value Work: 0.196 (Depositor), 0.196 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.434	α = 90
b = 70.434	β = 90
c = 74.486	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALEPACK	data scaling
DENZO	data reduction
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-04-30

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2025-04-30
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.