2IOY
Crystal structure of Thermoanaerobacter tengcongensis ribose binding protein
- PDB DOI: https://doi.org/10.2210/pdb2IOY/pdb
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Caldanaerobacter subterraneus subsp. tengcongensis
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2006-10-11 Released: 2007-03-20 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.234 
- R-Value Work: 0.199 
- R-Value Observed: 0.201 
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 |
Periplasmic sugar-binding protein | 283 | Caldanaerobacter subterraneus subsp. tengcongensis | Mutation(s): 0  Gene Names: tte0206 | ||
UniProt | |||||
Find proteins for Q8RD41 (Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4)) Explore Q8RD41  Go to UniProtKB:  Q8RD41 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q8RD41 | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
RIP Query on RIP | C [auth A], D [auth B] | beta-D-ribopyranose C5 H10 O5 SRBFZHDQGSBBOR-TXICZTDVSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.234 
- R-Value Work: 0.199 
- R-Value Observed: 0.201 
- Space Group: C 1 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 123.18 | α = 90 |
b = 35.8 | β = 107.02 |
c = 118.03 | γ = 90 |
Software Name | Purpose |
---|---|
SCALA | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
MAR345 | data collection |
XDS | data reduction |
CCP4 | data scaling |
AMoRE | phasing |
Entry History 
Deposition Data
- Released Date: 2007-03-20  Deposition Author(s): Cuneo, M.J., Hellinga, H.W.
Revision History (Full details and data files)
- Version 1.0: 2007-03-20
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.5: 2024-02-21
Changes: Data collection, Database references, Structure summary