4ET7 | pdb_00004et7

Crystal structure of Eph receptor 5

PDB DOI: https://doi.org/10.2210/pdb4ET7/pdb

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2012-04-24 Released: 2013-05-22
Deposition Author(s): Shi, J.H., Zhu, W.L., Song, J.X.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.282 (Depositor), 0.295 (DCC)
R-Value Work:
0.205 (Depositor), 0.212 (DCC)
R-Value Observed:
0.212 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 4ET7

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of Eph receptor 5

Shi, J.H., Zhu, W.L., Song, J.X.

To be published.

Macromolecule Content

Total Structure Weight: 20.32 kDa
Atom Count: 1,435
Modeled Residue Count: 174
Deposited Residue Count: 179
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ephrin type-A receptor 5	A	179	Homo sapiens	Mutation(s): 1 Gene Names: BSK, EHK1, EPHA5, HEK7, TYRO4 EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P54756 (Homo sapiens) Explore P54756 Go to UniProtKB: P54756
PHAROS: P54756 GTEx: ENSG00000145242
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P54756
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.282 (Depositor), 0.295 (DCC)
R-Value Work: 0.205 (Depositor), 0.212 (DCC)
R-Value Observed: 0.212 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.04	α = 90
b = 82.721	β = 90
c = 81.166	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PROTEUM PLUS	data collection
SAINT	data reduction
PROTEUM PLUS	data scaling
PHASES	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2013-05-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-05-22
Type: Initial release
Version 1.1: 2023-11-08
Changes: Data collection, Database references, Refinement description
Version 1.2: 2024-10-16
Changes: Structure summary

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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.