5JMO
X-ray structure of furin in complex with the inhibitory antibody Nb14
- PDB DOI: https://doi.org/10.2210/pdb5JMO/pdb
- Classification: Hydrolase/Antibody
- Organism(s): Homo sapiens, Camelus dromedarius, synthetic construct
- Expression System: Homo sapiens, Escherichia coli
- Mutation(s): No
- Deposited: 2016-04-29 Released: 2016-12-07
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.197
- R-Value Work: 0.163
- R-Value Observed: 0.165
This is version 1.5 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 |
| Furin | 482 | Homo sapiens | Mutation(s): 0 Gene Names: FURIN, FUR, PACE, PCSK3 EC: 3.4.21.75 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P09958 (Homo sapiens) Explore P09958 Go to UniProtKB: P09958 | |||||
PHAROS: P09958 GTEx: ENSG00000140564 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P09958 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| camelid VHH fragment | 117 | Camelus dromedarius | Mutation(s): 0 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| CMK-inhibitor | E [auth G], F [auth H] | 6 | synthetic construct | Mutation(s): 0 |  |
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | G [auth A], H [auth A], M [auth B], N [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
| CA Query on CA | I [auth A] J [auth A] K [auth A] O [auth B] P [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| NA Query on NA | L [auth A], R [auth B] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| AR7 Query on AR7 | E [auth G], F [auth H] | PEPTIDE-LIKE | C6 H17 N4 O2 |  | ARG |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_000278 Query on PRD_000278 | E [auth G], F [auth H] | DECANOYL-ARG-VAL-LYS-ARG-CHLOROMETHYLKETONE | Peptide-like / Inhibitor |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.197
- R-Value Work: 0.163
- R-Value Observed: 0.165
- Space Group: P 21 2 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 169.775 | α = 90 |
| b = 50.039 | β = 90 |
| c = 144.244 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2016-12-07 Deposition Author(s): Dahms, S.O., Than, M.E.
Revision History (Full details and data files)
- Version 1.0: 2016-12-07
Type: Initial release - Version 1.1: 2016-12-21
Changes: Non-polymer description - Version 1.2: 2017-01-11
Changes: Structure summary - Version 1.3: 2018-03-07
Changes: Advisory, Data collection - Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.5: 2024-01-10
Changes: Advisory, Data collection, Database references, Refinement description, Structure summary
