4XOR
Tailspike protein double mutant D339N/E372Q of E. coli bacteriophage HK620 in complex with pentasaccharide
- PDB DOI: https://doi.org/10.2210/pdb4XOR/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Enterobacteria phage HK620
- Expression System: Escherichia coli BL21
- Mutation(s): Yes 
- Deposited: 2015-01-16 Released: 2016-01-27 
- Funding Organization(s): German Research Foundation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.169 
- R-Value Work: 0.142 
- R-Value Observed: 0.144 
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 |
Tail spike protein | 597 | Enterobacteria phage HK620 | Mutation(s): 2  | ||
UniProt | |||||
Find proteins for Q9AYY6 (Enterobacteria phage HK620) Explore Q9AYY6  Go to UniProtKB:  Q9AYY6 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9AYY6 | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
alpha-L-rhamnopyranose-(1-6)-alpha-D-glucopyranose-(1-4)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)]alpha-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-glucopyranose | B | 6 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G81480NI GlyCosmos:  G81480NI |
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
TRS Query on TRS | C [auth A] | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O | |||
FMT Query on FMT | D [auth A], E [auth A], F [auth A], G [auth A] | FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N | |||
NA Query on NA | H [auth A], I [auth A], J [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.169 
- R-Value Work: 0.142 
- R-Value Observed: 0.144 
- Space Group: P 3 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 74.257 | α = 90 |
b = 74.257 | β = 90 |
c = 174.512 | γ = 120 |
Software Name | Purpose |
---|---|
XDS | data reduction |
Aimless | data scaling |
PHASER | phasing |
ARP | model building |
Coot | model building |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
Entry History & Funding Information
Deposition Data
- Released Date: 2016-01-27  Deposition Author(s): Gohlke, U., Broeker, N.K., Heinemann, U., Seckler, R., Barbirz, S.
Funding Organization | Location | Grant Number |
---|---|---|
German Research Foundation | Germany | BA 4046/1-1 |
Revision History (Full details and data files)
- Version 1.0: 2016-01-27
Type: Initial release - Version 1.1: 2017-09-06
Changes: Author supporting evidence, Data collection, Derived calculations - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2024-01-10
Changes: Data collection, Database references, Refinement description, Structure summary