5Z8X
Crystal structure of human LRRTM2
- PDB DOI: https://doi.org/10.2210/pdb5Z8X/pdb
- Classification: CELL ADHESION
- Organism(s): Homo sapiens
- Expression System: Homo sapiens
- Mutation(s): Yes 
- Deposited: 2018-02-01 Released: 2018-10-10 
- Funding Organization(s): JSPS/MEXT, JST
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.15 Å
- R-Value Free: 0.231 
- R-Value Work: 0.203 
- R-Value Observed: 0.204 
This is version 1.3 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 |
Leucine-rich repeat transmembrane neuronal protein 2 | 346 | Homo sapiens | Mutation(s): 1  Gene Names: LRRTM2, KIAA0416, LRRN2 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O43300 (Homo sapiens) Explore O43300  Go to UniProtKB:  O43300 | |||||
PHAROS:  O43300 GTEx:  ENSG00000146006  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O43300 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | E [auth A] F [auth A] G [auth B] H [auth B] I [auth C] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.15 Å
- R-Value Free: 0.231 
- R-Value Work: 0.203 
- R-Value Observed: 0.204 
- Space Group: C 2 2 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 90.691 | α = 90 |
b = 240.959 | β = 90 |
c = 259.434 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
MOLREP | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2018-10-10  Deposition Author(s): Yamagata, A., Fukai, S.
Funding Organization | Location | Grant Number |
---|---|---|
JSPS/MEXT | Japan | JP16H04749 |
JST | Japan | JPMJCR12M5 |
Revision History (Full details and data files)
- Version 1.0: 2018-10-10
Type: Initial release - Version 1.1: 2018-10-31
Changes: Data collection, Structure summary - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.3: 2023-11-22
Changes: Data collection, Database references, Refinement description, Structure summary