4UX8

RET recognition of GDNF-GFRalpha1 ligand by a composite binding site promotes membrane-proximal self-association

• PDB DOI: https://doi.org/10.2210/pdb4UX8/pdb
• EM Map EMD-2712: EMDB EMDataResource

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Rattus norvegicus
• Expression System: Cricetulus griseus, Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-08-19 Released: 2014-10-01 
• Deposition Author(s): Goodman, K., Kjaer, S., Beuron, F., Knowles, P., Nawrotek, A., Burns, E., Purkiss, A., George, R., Santoro, M., Morris, E.P., McDonald, N.Q.

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 24.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A2B2C2 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 269.31 kDa 
• Atom Count: 13,046 
• Modelled Residue Count: 1,650 
• Deposited Residue Count: 2,408 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTO-ONCOGENE TYROSINE-PROTEIN KINASE RECEPTOR RET	A, B	607	Homo sapiens	Mutation(s): 2  EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P07949 (Homo sapiens) Explore P07949  Go to UniProtKB:  P07949
PHAROS:  P07949 GTEx:  ENSG00000165731

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
GDNF FAMILY RECEPTOR ALPHA-1	C, E	463	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for Q62997 (Rattus norvegicus) Explore Q62997  Go to UniProtKB:  Q62997

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
GLIAL CELL LINE-DERIVED NEUROTROPHIC FACTOR	D, F	134	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P39905 (Homo sapiens) Explore P39905  Go to UniProtKB:  P39905
PHAROS:  P39905 GTEx:  ENSG00000168621

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	G, H	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	I [auth A], J [auth A], K [auth A], L [auth B], M [auth B], N [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 24.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	Custom
RECONSTRUCTION	IMAGIC
RECONSTRUCTION	SPIDER

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-01 
Deposition Author(s): Goodman, K., Kjaer, S., Beuron, F., Knowles, P., Nawrotek, A., Burns, E., Purkiss, A., George, R., Santoro, M., Morris, E.P., McDonald, N.Q.

Revision History  

• Version 1.0: 2014-10-01
  Type: Initial release
  
• Version 1.1: 2014-10-08
  Changes: Database references
• Version 1.2: 2017-08-23
  Changes: Data collection
• Version 1.3: 2019-10-23
  Changes: Data collection, Derived calculations, Other
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary