6FG8
Crystal structure of the BIR3 - SERK1 complex from Arabidopsis thaliana.
- PDB DOI: https://doi.org/10.2210/pdb6FG8/pdb
- Classification: PROTEIN BINDING
- Organism(s): Arabidopsis thaliana
- Expression System: Trichoplusia ni
- Mutation(s): No
- Deposited: 2018-01-10 Released: 2018-01-24
- Funding Organization(s): Swiss National Science Foundation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.25 Å
- R-Value Free: 0.184
- R-Value Work: 0.151
- R-Value Observed: 0.153
wwPDB Validation 3D Report Full Report
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 |
| Somatic embryogenesis receptor kinase 1 | 265 | Arabidopsis thaliana | Mutation(s): 0 Gene Names: SERK1, At1g71830, F14O23.21, F14O23_24 EC: 2.7.10.1 (PDB Primary Data), 2.7.11.1 (PDB Primary Data) |  | |
UniProt | |||||
Find proteins for Q94AG2 (Arabidopsis thaliana) Explore Q94AG2 Go to UniProtKB: Q94AG2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q94AG2 | ||||
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 |
| Probable inactive receptor kinase At1g27190 | 241 | Arabidopsis thaliana | Mutation(s): 0 Gene Names: At1g27190, T7N9.25 |  | |
UniProt | |||||
Find proteins for O04567 (Arabidopsis thaliana) Explore O04567 Go to UniProtKB: O04567 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O04567 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | C, D, F, G | 2 |  | N-Glycosylation | |
Glycosylation Resources | |||||
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT | |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 1PE Query on 1PE | J [auth A] | PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N |  | ||
| PEG Query on PEG | I [auth A], K [auth B], L [auth B], M [auth B] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.25 Å
- R-Value Free: 0.184
- R-Value Work: 0.151
- R-Value Observed: 0.153
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 52.173 | α = 90 |
| b = 50.757 | β = 96.72 |
| c = 77.425 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2018-01-24 Deposition Author(s): Hothorn, M., Hohmann, U.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Swiss National Science Foundation | Switzerland | 31003A_176237 |
Revision History (Full details and data files)
- Version 1.0: 2018-01-24
Type: Initial release - Version 1.1: 2018-05-16
Changes: Data collection, Database references - Version 1.2: 2018-09-05
Changes: Data collection, Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2024-01-17
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary
