5XSJ
XylFII-LytSN complex
- PDB DOI: https://doi.org/10.2210/pdb5XSJ/pdb
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Clostridium beijerinckii NCIMB 8052
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2017-06-14 Released: 2017-08-02 
- Funding Organization(s): National Natural Science Foundation of China (NSFC), the Chinese Academy of Sciences
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.218 
- R-Value Work: 0.194 
- R-Value Observed: 0.196 
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 |
Periplasmic binding protein/LacI transcriptional regulator | A [auth X] | 306 | Clostridium beijerinckii NCIMB 8052 | Mutation(s): 0  Gene Names: Cbei_2377 | |
UniProt | |||||
Find proteins for A6LW07 (Clostridium beijerinckii (strain ATCC 51743 / NCIMB 8052)) Explore A6LW07  Go to UniProtKB:  A6LW07 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A6LW07 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Signal transduction histidine kinase, LytS | B [auth L] | 148 | Clostridium beijerinckii NCIMB 8052 | Mutation(s): 0  Gene Names: Cbei_2378 | |
UniProt | |||||
Find proteins for A6LW08 (Clostridium beijerinckii (strain ATCC 51743 / NCIMB 8052)) Explore A6LW08  Go to UniProtKB:  A6LW08 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A6LW08 | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
XYP Query on XYP | C [auth X] | beta-D-xylopyranose C5 H10 O5 SRBFZHDQGSBBOR-KKQCNMDGSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.218 
- R-Value Work: 0.194 
- R-Value Observed: 0.196 
- Space Group: C 2 2 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 105.681 | α = 90 |
b = 143.688 | β = 90 |
c = 87.133 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
HKL-3000 | data collection |
HKL-3000 | data processing |
PHENIX | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2017-08-02  Deposition Author(s): Li, J.X., Wang, C.Y., Zhang, P.
Funding Organization | Location | Grant Number |
---|---|---|
National Natural Science Foundation of China (NSFC) | China | 31670755 |
National Natural Science Foundation of China (NSFC) | China | 31322016 |
National Natural Science Foundation of China (NSFC) | China | 31630003 |
National Natural Science Foundation of China (NSFC) | China | 31421061 |
the Chinese Academy of Sciences | China | QYZDB-SSW-SMC006 |
Revision History (Full details and data files)
- Version 1.0: 2017-08-02
Type: Initial release - Version 1.1: 2017-08-09
Changes: Database references - Version 1.2: 2019-02-20
Changes: Data collection, Source and taxonomy - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2021-09-15
Changes: Author supporting evidence, Database references, Structure summary