4WRN
Crystal structure of the polymerization region of human uromodulin/Tamm-Horsfall protein
- PDB DOI: https://doi.org/10.2210/pdb4WRN/pdb
- Classification: STRUCTURAL PROTEIN
- Organism(s): Escherichia coli O157:H7, Homo sapiens
- Expression System: Homo sapiens
- Mutation(s): Yes 
- Deposited: 2014-10-24 Released: 2016-01-27 
- Funding Organization(s): Karolinska Institutet, Center for Biosciences, Swedish Research Council, Gustafsson Foundation for Research in Natural Sciences and Medicine, Sven and Ebba-Christina Hagberg foundation, European Molecular Biology Organization, European Union
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.20 Å
- R-Value Free: 0.246 
- R-Value Work: 0.221 
- R-Value Observed: 0.222 
This is version 2.1 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,Uromodulin | 695 | Escherichia coli O157:H7, Homo sapiens This entity is chimeric | Mutation(s): 17  Gene Names: malE, Z5632, ECs5017, UMOD | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P07911 (Homo sapiens) Explore P07911  Go to UniProtKB:  P07911 | |||||
PHAROS:  P07911 GTEx:  ENSG00000169344  | |||||
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 | P07911P0AEY0 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | E [auth A], F [auth A], I [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
ZN Query on ZN | G [auth A], H [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900001 Query on PRD_900001 | C, D | alpha-maltose | Oligosaccharide / Nutrient |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.20 Å
- R-Value Free: 0.246 
- R-Value Work: 0.221 
- R-Value Observed: 0.222 
- Space Group: H 3 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 242.32 | α = 90 |
b = 242.32 | β = 90 |
c = 258.86 | γ = 120 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
XDS | data reduction |
XSCALE | data scaling |
PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2016-01-27  Deposition Author(s): Bokhove, M., De Sanctis, D., Jovine, L.
Funding Organization | Location | Grant Number |
---|---|---|
Karolinska Institutet | Sweden | -- |
Center for Biosciences | Sweden | -- |
Swedish Research Council | Sweden | 2012-5093 |
Gustafsson Foundation for Research in Natural Sciences and Medicine | Sweden | -- |
Sven and Ebba-Christina Hagberg foundation | Sweden | -- |
European Molecular Biology Organization | -- | |
European Union | ERC 260759 |
Revision History (Full details and data files)
- Version 1.0: 2016-01-27
Type: Initial release - Version 1.1: 2016-02-10
Changes: Database references - Version 1.2: 2016-02-17
Changes: Database references - Version 1.3: 2017-09-06
Changes: Author supporting evidence - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2024-01-10
Changes: Data collection, Database references, Refinement description, Structure summary