A Glycopeptide Dendrimer Inhibitor of the Galactose-Specific Lectin Leca and of Pseudomonas Aeruginosa Biofilms.

Kadam, R.U.; Bergmann, M.; Hurley, M.; Garg, D.; Cacciarini, M.; Swiderska, M.A.; Nativi, C.; Sattler, M.; Smyth, A.R.; Williams, P.; Camara, M.; Stocker, A.; Darbre, T.; Reymond, J.-L.

doi:10.2210/pdb3zyb/pdb

Macromolecule Content

Total Structure Weight: 107143.93
Atom Count: 7451
Residue Count: 988
Unique protein chains: 2

3ZYB

CRYSTAL STRUCTURE OF PA-IL LECTIN COMPLEXED WITH GALAG0 AT 2.3 A RESOLUTION

DOI: 10.2210/pdb3ZYB/pdb

Classification: SUGAR BINDING PROTEIN
Organism(s): Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
Expression System: Escherichia coli BL21(DE3)

Deposited: 2011-08-19 Released: 2011-09-21
Deposition Author(s): Kadam, R.U., Bergmann, M., Hurley, M., Garg, D., Cacciarini, M., Swiderska, M.A., Nativi, C., Sattler, M., Smyth, A.R., Williams, P., Camara, M., Stocker, A., Darbre, T., Reymond, J.-L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.29 Å
R-Value Free: 0.240
R-Value Work: 0.214

wwPDB Validation3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

A Glycopeptide Dendrimer Inhibitor of the Galactose-Specific Lectin Leca and of Pseudomonas Aeruginosa Biofilms.

Kadam, R.U., Bergmann, M., Hurley, M., Garg, D., Cacciarini, M., Swiderska, M.A., Nativi, C., Sattler, M., Smyth, A.R., Williams, P., Camara, M., Stocker, A., Darbre, T., Reymond, J.-L.

(2011) Angew.Chem.Int.Ed.Engl. 50: 10631

PubMed: 21919164 Search on PubMedSearch on PubMed Central
DOI: 10.1002/anie.201104342
Primary Citation of Related Structures:
3ZYH, 3ZYF

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PA-I galactophilic lectin	A, B, C, D, E, F, G, H	122	Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)	Mutation(s): 0 Gene Names: lecA (pa1L)
Find proteins for Q05097 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Go to UniProtKB: Q05097
Protein Feature View Full Protein Feature View for Q05097

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
GALA-LYS-PRO-LEUNH2	I, J, N	4	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
CA Query on CA Download SDF File Download CCD File	A, B, C, D, E, F, G, H	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Ligand Interaction
GAL Query on GAL Download SDF File Download CCD File	A, B, C, D, E, F, G, H	BETA-D-GALACTOSE C₆ H₁₂ O₆ WQZGKKKJIJFFOK-FPRJBGLDSA-N		Ligand Interaction
PHB Query on PHB Download SDF File Download CCD File	A, B, C, D, E, F, G, H	P-HYDROXYBENZOIC ACID C₇ H₆ O₃ FJKROLUGYXJWQN-UHFFFAOYSA-N		Ligand Interaction

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
NH2 Query on NH2	I, J, N	NON-POLYMER	H₂ N		--

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.29 Å
R-Value Free: 0.240
R-Value Work: 0.214
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 53.332	α = 90.00
b = 128.559	β = 90.00
c = 146.063	γ = 90.00

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2011-08-19
Released Date: 2011-09-21
Deposition Author(s): Kadam, R.U., Bergmann, M., Hurley, M., Garg, D., Cacciarini, M., Swiderska, M.A., Nativi, C., Sattler, M., Smyth, A.R., Williams, P., Camara, M., Stocker, A., Darbre, T., Reymond, J.-L.

Revision History

Version 1.0: 2011-09-21
Type: Initial release
Version 1.1: 2012-04-25
Type: Other
Version 1.2: 2017-02-08
Type: Source and taxonomy
Version 1.3: 2017-07-12
Type: Derived calculations

Prepare Data

Validate Data

Deposit Data

Deposition Help & Resources

156101 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

3ZYB

CRYSTAL STRUCTURE OF PA-IL LECTIN COMPLEXED WITH GALAG0 AT 2.3 A RESOLUTION

A Glycopeptide Dendrimer Inhibitor of the Galactose-Specific Lectin Leca and of Pseudomonas Aeruginosa Biofilms.

Entity ID: 1

Entity ID: 2

Experimental Data

Structure Validation

Deposition Data

Revision History