5G3L
ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB B-PENTAMER COMPLEXED WITH SIALYLATED SUGAR
- PDB DOI: https://doi.org/10.2210/pdb5G3L/pdb
- Classification: TOXIN
- Organism(s): Escherichia coli HB101
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2016-04-29 Released: 2016-09-14 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.72 Å
- R-Value Free: 0.197 
- R-Value Work: 0.171 
- R-Value Observed: 0.172 
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 |
HEAT-LABILE ENTEROTOXIN IIB, B CHAIN | A [auth D], B [auth E], E [auth H] | 99 | Escherichia coli HB101 | Mutation(s): 0  | |
UniProt | |||||
Find proteins for P43529 (Escherichia coli) Explore P43529  Go to UniProtKB:  P43529 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P43529 | ||||
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 |
HEAT-LABILE ENTEROTOXIN IIB, B CHAIN | C [auth F], D [auth G] | 99 | Escherichia coli HB101 | Mutation(s): 0  | |
UniProt | |||||
Find proteins for P43529 (Escherichia coli) Explore P43529  Go to UniProtKB:  P43529 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P43529 | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SIA Query on SIA | K [auth E], M [auth G] | N-acetyl-alpha-neuraminic acid C11 H19 N O9 SQVRNKJHWKZAKO-YRMXFSIDSA-N | |||
NA Query on NA | I [auth D], J [auth E], L [auth G], N [auth H] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Modified Residues 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
ME0 Query on ME0 | A [auth D], B [auth E], E [auth H] | L-PEPTIDE LINKING | C5 H11 N O3 S | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.72 Å
- R-Value Free: 0.197 
- R-Value Work: 0.171 
- R-Value Observed: 0.172 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 48.564 | α = 90 |
b = 68.015 | β = 90 |
c = 154.513 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
XDS | data reduction |
Aimless | data scaling |
PHASER | phasing |
Entry History 
Deposition Data
- Released Date: 2016-09-14  Deposition Author(s): Zalem, D., Benktander, J., Ribeiro, J.P., Varrot, A., Lebens, M., Imberty, A., Teneberg, S.
Revision History (Full details and data files)
- Version 1.0: 2016-09-14
Type: Initial release - Version 1.1: 2016-11-09
Changes: Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Other, Structure summary - Version 2.1: 2024-01-10
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary