Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 13.11 kDa 
• Atom Count: 924 
• Residue Count: 117 
• Unique protein chains: 2

2KFF

Structure of the C-terminal domain of EHD1 with FNYESTNPFTAK

• DOI: 10.2210/pdb2KFF/pdb
• BMRB: 16179

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-02-20 Released: 2009-12-22 
• Deposition Author(s): Kieken, F., Jovic, M., Tonelli, M., Naslavsky, N., Caplan, S., Sorgen, P.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 30 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Literature

Structural insight into the interaction of proteins containing NPF, DPF, and GPF motifs with the C-terminal EH-domain of EHD1.

Kieken, F., Jovic, M., Tonelli, M., Naslavsky, N., Caplan, S., Sorgen, P.L.

(2009) Protein Sci 18: 2471-2479

• PubMed: 19798736 
• DOI: 10.1002/pro.258
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Eps15 homology (EH)-domain containing proteins are regulators of endocytic membrane trafficking. EH-domain binding to proteins containing the tripeptide NPF has been well characterized, but recent studies have shown that EH-domains are also able to interact with ligands containing DPF or GPF motifs. We demonstrate that the three motifs interact in a similar way with the EH-domain of EHD1, with the NPF motif having the highest affinity due to the presence of an intermolecular hydrogen bond. The weaker affinity for the DPF and GPF motifs suggests that if complex formation occurs in vivo, they may require high ligand concentrations, the presence of successive motifs and/or specific flanking residues.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biology and Eppley Cancer Center, University of Nebraska Medical Center, Omaha, Nebraska 68198-5870, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
EH domain-containing protein 1	A	105	Homo sapiens	Mutation(s): 0  Gene Names: EHD1, PAST, PAST1, CDABP0131
Find proteins for Q9H4M9 (Homo sapiens) Explore Q9H4M9  Go to UniProtKB:  Q9H4M9
NIH Common Fund Data Resources
PHAROS  Q9H4M9 GTEx  ENSG00000110047

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Rab11-FIP2 NPF peptide FNYESTNPFTAK	B	12	N/A	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 30 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2KFF Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-02-20 
• Released Date: 2009-12-22 
Deposition Author(s): Kieken, F., Jovic, M., Tonelli, M., Naslavsky, N., Caplan, S., Sorgen, P.

Revision History 

• Version 1.0: 2009-12-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2020-02-19
  Changes: Database references, Other