5CL1
Complex structure of Norrin with human Frizzled 4
- PDB DOI: https://doi.org/10.2210/pdb5CL1/pdb
- Classification: SIGNALING PROTEIN
- Organism(s): Escherichia coli O157:H7, Homo sapiens
- Expression System: Trichoplusia ni
- Mutation(s): No 
- Deposited: 2015-07-16 Released: 2015-08-12 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.80 Å
- R-Value Free: 0.310 
- R-Value Work: 0.262 
- R-Value Observed: 0.264 
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 |
Maltose-binding periplasmic protein,Norrin | 483 | Escherichia coli O157:H7, Homo sapiens This entity is chimeric | Mutation(s): 0  Gene Names: malE, Z5632, ECs5017, NDP, EVR2 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q00604 (Homo sapiens) Explore Q00604  Go to UniProtKB:  Q00604 | |||||
PHAROS:  Q00604 GTEx:  ENSG00000124479  | |||||
Find proteins for P0AEY0 (Escherichia coli O157:H7) Explore P0AEY0  Go to UniProtKB:  P0AEY0 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Groups | P0AEY0Q00604 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Frizzled-4 | 131 | Homo sapiens | Mutation(s): 0  Gene Names: FZD4 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9ULV1 (Homo sapiens) Explore Q9ULV1  Go to UniProtKB:  Q9ULV1 | |||||
PHAROS:  Q9ULV1 GTEx:  ENSG00000174804  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9ULV1 | ||||
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 C], F [auth C], G [auth D], H [auth D] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.80 Å
- R-Value Free: 0.310 
- R-Value Work: 0.262 
- R-Value Observed: 0.264 
- Space Group: P 21 21 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 143.291 | α = 90 |
b = 150.589 | β = 90 |
c = 92.32 | γ = 90 |
Software Name | Purpose |
---|---|
HKL-2000 | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
HKL-2000 | data reduction |
PHASER | phasing |
Entry History 
Deposition Data
Revision History (Full details and data files)
- Version 1.0: 2015-08-12
Type: Initial release - Version 1.1: 2015-09-16
Changes: Database references - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.3: 2023-09-27
Changes: Data collection, Database references, Refinement description, Structure summary