5L7N
Plexin A1 extracellular fragment, domains 7-10 (IPT3-IPT6)
- PDB DOI: https://doi.org/10.2210/pdb5L7N/pdb
- Classification: SIGNALING PROTEIN
- Organism(s): Mus musculus
- Expression System: Homo sapiens
- Mutation(s): No 
- Deposited: 2016-06-03 Released: 2017-03-15 
- Funding Organization(s): Cancer Research UK, Medical Research Council (United Kingdom), Wellcome Trust
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.270 
- R-Value Work: 0.230 
- R-Value Observed: 0.232 
This is version 2.0 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 |
Plexin-A1 | 393 | Mus musculus | Mutation(s): 0  Gene Names: Plxna1, Kiaa4053 | ||
UniProt | |||||
Find proteins for P70206 (Mus musculus) Explore P70206  Go to UniProtKB:  P70206 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P70206 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | B [auth A], C [auth A], D [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
PEG Query on PEG | F [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N | |||
EDO Query on EDO | E [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.270 
- R-Value Work: 0.230 
- R-Value Observed: 0.232 
- Space Group: C 2 2 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 75.88 | α = 90 |
b = 82.51 | β = 90 |
c = 125.6 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
iMOSFLM | data reduction |
Aimless | data scaling |
PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2017-03-15  Deposition Author(s): Kong, Y., Janssen, B.J.C., Malinauskas, T., Vangoor, V.R., Coles, C.H., Kaufmann, R., Ni, T., Gilbert, R.J.C., Padilla-Parra, S., Pasterkamp, R.J., Jones, E.Y.
Funding Organization | Location | Grant Number |
---|---|---|
Cancer Research UK | United Kingdom | A10976 |
Medical Research Council (United Kingdom) | United Kingdom | G9900061 |
Wellcome Trust | United Kingdom | 090532/Z/09/Z |
Revision History (Full details and data files)
- Version 1.0: 2017-03-15
Type: Initial release - Version 1.1: 2017-09-13
Changes: Author supporting evidence - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary