Download MendeleyThe PDZ domains of human SDCBP with a bound SDC4 C-terminal peptide
Bradshaw, W.J., Katis, V.L., Daniel-Mozo, M., Bountra, C., von Delft, F., Brennan, P.E.To be published.
8BLV
The PDZ domains of human SDCBP with a bound SDC4 C-terminal peptide
- PDB DOI: https://doi.org/10.2210/pdb8BLV/pdb
- Classification: SIGNALING PROTEIN
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21
- Mutation(s): No
- Deposited: 2022-11-10 Released: 2022-12-21
- Funding Organization(s): National Institutes of Health/National Institute on Aging (NIH/NIA)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.222
- R-Value Work: 0.182
Starting Model: experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Syntenin-1 | 195 | Homo sapiens | Mutation(s): 0 Gene Names: SDCBP, MDA9, SYCL |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O00560 (Homo sapiens) Explore O00560 Go to UniProtKB: O00560 | |||||
PHAROS: O00560 GTEx: ENSG00000137575 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O00560 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Syndecan-4 | 8 | Homo sapiens | Mutation(s): 0 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P31431 (Homo sapiens) Explore P31431 Go to UniProtKB: P31431 | |||||
PHAROS: P31431 GTEx: ENSG00000124145 | |||||
Entity Groups | |||||
| UniProt Group | P31431 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | E [auth A], F [auth A], I [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| EDO Query on EDO | G [auth A], H [auth A], J [auth B], K [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.222
- R-Value Work: 0.182
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 56.71 | α = 90 |
| b = 67.462 | β = 90 |
| c = 106.74 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| DIALS | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2022-12-21 Deposition Author(s): Bradshaw, W.J., Katis, V.L., Daniel-Mozo, M., Bountra, C., von Delft, F., Brennan, P.E.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute on Aging (NIH/NIA) | United States | 5U54AG065187-03 |
Revision History (Full details and data files)
- Version 1.0: 2022-12-21
Type: Initial release - Version 1.1: 2024-01-31
Changes: Data collection, Refinement description
