4NYQ
In-vivo crystallisation (midguts of a viviparous cockroach) and structure at 1.2 A resolution of a glycosylated, lipid-binding, lipocalin-like protein
- PDB DOI: https://doi.org/10.2210/pdb4NYQ/pdb
- Classification: LIPID BINDING PROTEIN
- Organism(s): Diploptera punctata
- Mutation(s): No 
- Deposited: 2013-12-11 Released: 2014-01-01 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.20 Å
- R-Value Free: 0.192 
- R-Value Work: 0.143 
- R-Value Observed: 0.146 
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 |
Milk protein | 164 | Diploptera punctata | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q6SVB6 (Diploptera punctata) Explore Q6SVB6  Go to UniProtKB:  Q6SVB6 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q6SVB6 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
OLA Query on OLA | E [auth A] | OLEIC ACID C18 H34 O2 ZQPPMHVWECSIRJ-KTKRTIGZSA-N | |||
EIC Query on EIC | F [auth A] | LINOLEIC ACID C18 H32 O2 OYHQOLUKZRVURQ-HZJYTTRNSA-N | |||
NAG Query on NAG | D [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
GOL Query on GOL | G [auth A], H [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.20 Å
- R-Value Free: 0.192 
- R-Value Work: 0.143 
- R-Value Observed: 0.146 
- Space Group: P 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 32.333 | α = 99.07 |
b = 33.28 | β = 100.17 |
c = 40.136 | γ = 103.7 |
Software Name | Purpose |
---|---|
SOLVE | phasing |
REFMAC | refinement |
d*TREK | data reduction |
d*TREK | data scaling |
Entry History 
Deposition Data
- Released Date: 2014-01-01  Deposition Author(s): Coussens, N.P., Gallat, F.-X., Ramaswamy, S., Yagi, K., Tobe, S.S., Stay, B., Chavas, L.M.G.
Revision History (Full details and data files)
- Version 1.0: 2014-01-01
Type: Initial release - Version 1.1: 2016-07-20
Changes: Database references - Version 1.2: 2017-11-22
Changes: Refinement description - Version 1.3: 2020-01-01
Changes: Database references, Derived calculations - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary