5LLS
Porcine dipeptidyl peptidase IV in complex with 8-(3-aminopiperidin-1-yl)-7-[(2-bromophenyl)methyl]-1,3-dimethyl-2,3,6,7-tetrahydro-1H-purine-2,6-dione
- PDB DOI: https://doi.org/10.2210/pdb5LLS/pdb
- Classification: HYDROLASE
- Organism(s): Sus scrofa
- Mutation(s): No 
- Deposited: 2016-07-28 Released: 2016-09-14 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.41 Å
- R-Value Free: 0.228 
- R-Value Work: 0.190 
- R-Value Observed: 0.192 
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 |
Dipeptidyl peptidase 4 | 766 | Sus scrofa | Mutation(s): 0  EC: 3.4.14.5 | ||
UniProt | |||||
Find proteins for P22411 (Sus scrofa) Explore P22411  Go to UniProtKB:  P22411 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P22411 | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | E, F, G, H, I E, F, G, H, I, J, K, L, M | 2 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT |
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
6Z8 Query on 6Z8 | AA [auth B] GA [auth C] IA [auth C] LA [auth D] NA [auth D] | 8-[(3~{R})-3-azanylpiperidin-1-yl]-7-[(2-bromophenyl)methyl]-1,3-dimethyl-purine-2,6-dione C19 H23 Br N6 O2 CADOMWLQFMIXFQ-CYBMUJFWSA-N | |||
NAG Query on NAG | BA [auth C] CA [auth C] DA [auth C] EA [auth C] FA [auth C] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
SO4 Query on SO4 | HA [auth C], MA [auth D], S [auth A], Z [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.41 Å
- R-Value Free: 0.228 
- R-Value Work: 0.190 
- R-Value Observed: 0.192 
- Space Group: P 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 61.9 | α = 112.7 |
b = 117.68 | β = 94.6 |
c = 133.12 | γ = 91.2 |
Software Name | Purpose |
---|---|
BUSTER | refinement |
XDS | data reduction |
XSCALE | data scaling |
CNX | phasing |
Entry History 
Deposition Data
- Released Date: 2016-09-14  Deposition Author(s): Nar, H., Blaesse, M.
Revision History (Full details and data files)
- Version 1.0: 2016-09-14
Type: Initial release - Version 1.1: 2019-10-16
Changes: Data collection - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2024-01-10
Changes: Data collection, Database references, Refinement description, Structure summary