Download MendeleyCathepsin B in complex with DARPin 81
Turk, D., Kramer, L.To be published.
5MBL
Cathepsin B in complex with DARPin 81
- PDB DOI: https://doi.org/10.2210/pdb5MBL/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens, synthetic construct
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2016-11-08 Released: 2017-12-20
- Funding Organization(s): Slovenian Research Agency
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.81 Å
- R-Value Free: 0.193
- R-Value Work: 0.170
- R-Value Observed: 0.170
Starting Model: other
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wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Cathepsin B | 256 | Homo sapiens | Mutation(s): 0 Gene Names: CTSB, CPSB EC: 3.4.22.1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P07858 (Homo sapiens) Explore P07858 Go to UniProtKB: P07858 | |||||
PHAROS: P07858 GTEx: ENSG00000164733 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P07858 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| DARPin 81 | 171 | synthetic construct | Mutation(s): 0 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | C [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| SCH Query on SCH | A | L-PEPTIDE LINKING | C4 H9 N O2 S2 |  | CYS |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.81 Å
- R-Value Free: 0.193
- R-Value Work: 0.170
- R-Value Observed: 0.170
- Space Group: P 42 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 105.79 | α = 90 |
| b = 105.79 | β = 90 |
| c = 92.61 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MAIN | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2017-12-20 Deposition Author(s): Turk, D., Kramer, L., Renko, M., Turk, B.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Slovenian Research Agency | Slovenia | P100048 |
Revision History (Full details and data files)
- Version 1.0: 2017-12-20
Type: Initial release - Version 1.1: 2024-05-01
Changes: Advisory, Data collection, Database references, Refinement description
