- FASTA Sequence
- PDBx/mmCIF Format
- PDBx/mmCIF Format (gz)
- BinaryCIF Format (gz)
- Legacy PDB Format
- Legacy PDB Format (gz)
- PDBML/XML Format (gz)
- Structure Factors (CIF)
- Structure Factors (CIF - gz)
- Validation Full (PDF - gz)
- Validation (XML - gz)
- Validation (CIF - gz)
- Validation 2fo-fc coefficients (CIF - gz)
- Validation fo-fc coefficients (CIF - gz)
- Biological Assembly 1 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
2QV2 | pdb_00002qv2
A role of the Lowe syndrome protein OCRL in early steps of the endocytic pathway
- PDB DOI: https://doi.org/10.2210/pdb2QV2/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21
- Mutation(s): No
- Deposited: 2007-08-07 Released: 2007-08-21
- Deposition Author(s): Mao, Y., Erdman, K.S., McCrea, H.J., De Camilli, P.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.288 (Depositor), 0.290 (DCC)
- R-Value Work: 0.248 (Depositor), 0.250 (DCC)
wwPDB Validation 3D Report Full Report
- 👁 Image
Download Mendeley
A role of the Lowe syndrome protein OCRL in early steps of the endocytic pathway
Erdmann, K.S., Mao, Y., McCrea, H.J., Zoncu, R., Lee, S., Paradise, S., Modregger, J., Biemesderfer, D., Toomre, D., De Camilli, P.(2007) Dev Cell 13: 377-390
- PubMed: 17765681 Search on PubMedSearch on PubMed Central
- DOI: https://doi.org/10.1016/j.devcel.2007.08.004
- Primary Citation Related Structures:
2QV2 - PubMed Abstract:
Mutations in the inositol 5-phosphatase OCRL are responsible for Lowe syndrome, whose manifestations include mental retardation and renal Fanconi syndrome. OCRL has been implicated in membrane trafficking, but disease mechanisms remain unclear. We show that OCRL visits late-stage, endocytic clathrin-coated pits and binds the Rab5 effector APPL1 on peripheral early endosomes. The interaction with APPL1, which is mediated by the ASH-RhoGAP-like domains of OCRL and is abolished by disease mutations, provides a link to protein networks implicated in the reabsorptive function of the kidney and in the trafficking and signaling of growth factor receptors in the brain. Crystallographic studies reveal a role of the ASH-RhoGAP-like domains in positioning the phosphatase domain at the membrane interface and a clathrin box protruding from the RhoGAP-like domain. Our results support a role of OCRL in the early endocytic pathway, consistent with the predominant localization of its preferred substrates, PI(4,5)P(2) and PI(3,4,5)P(3), at the cell surface.
- Department of Cell Biology, School of Medicine, Yale University, New Haven, CT 06510, USA.
Organizational Affiliation:
Explore in 3D: Structure | Sequence Annotations | Electron Density | Validation Report
Explore in 3D: Structure | Sequence Annotations | Electron Density | Validation Report
Global Symmetry: Cyclic - C2 (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PISA (software)
Macromolecule Content
- Total Structure Weight: 39.47 kDa
- Atom Count: 2,531
- Modeled Residue Count: 305
- Deposited Residue Count: 342
- Unique protein chains: 1
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Inositol polyphosphate 5-phosphatase OCRL-1 | 342 | Homo sapiens | Mutation(s): 0 Gene Names: OCRL, INPP5F, OCRL1 EC: 3.1.3.36 (PDB Primary Data), 3.1.3.56 (UniProt), 3.1.3.86 (UniProt) | 👁 Image | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q01968 (Homo sapiens) Explore Q01968 Go to UniProtKB: Q01968 | |||||
PHAROS: Q01968 GTEx: ENSG00000122126 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q01968 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.288 (Depositor), 0.290 (DCC)
- R-Value Work: 0.248 (Depositor), 0.250 (DCC)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 91.3 | α = 90 |
| b = 91.3 | β = 90 |
| c = 103.9 | γ = 120 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| CNS | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| CNS | phasing |
Deposition Data
- Released Date: 2007-08-21 Deposition Author(s): Mao, Y., Erdman, K.S., McCrea, H.J., De Camilli, P.
Revision History (Full details and data files)
- Version 1.0: 2007-08-21
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2024-02-21
Changes: Data collection, Database references
