Macromolecule Content

Total Structure Weight: 26.42 kDa
Atom Count: 2,490
Modelled Residue Count: 242
Deposited Residue Count: 244
Unique protein chains: 1

3ZYH

CRYSTAL STRUCTURE OF PA-IL LECTIN COMPLEXED WITH GALBG0 AT 1.5 A RESOLUTION

PDB DOI: 10.2210/pdb3ZYH/pdb

Classification: SUGAR BINDING PROTEIN/INHIBITOR
Organism(s): Pseudomonas aeruginosa PAO1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2011-08-23 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: 1.50 Å
R-Value Free: 0.202
R-Value Work: 0.185
R-Value Observed: 0.186

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.9 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:
3ZYB, 3ZYF, 3ZYH

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PA-I galactophilic lectin	A, B	122	Pseudomonas aeruginosa PAO1	Mutation(s): 0 Gene Names: lecA, pa1L, PA2570
UniProt
Find proteins for Q05097 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q05097 Go to UniProtKB: Q05097
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q05097
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
G0S Query on G0S Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain F [auth B] MOL2 format, chain D [auth A] MOL2 format, chain F [auth B]	D [auth A], F [auth B]	3-(beta-D-galactopyranosylthio)propanoic acid C₉ H₁₆ O₇ S XMQYQVUZHDCFEM-MRCFXUCSSA-N		Ligand Interaction
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain E [auth B] MOL2 format, chain C [auth A] MOL2 format, chain E [auth B]	C [auth A], E [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.202
R-Value Work: 0.185
R-Value Observed: 0.186
Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.559	α = 90
b = 72.865	β = 90
c = 133.723	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2011-09-21

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-09-21
Type: Initial release
Version 1.1: 2011-09-28
Changes: Database references
Version 1.2: 2011-10-05
Changes: Atomic model, Other
Version 1.3: 2011-10-26
Changes: Atomic model
Version 1.4: 2011-11-16
Changes: Database references
Version 1.5: 2012-11-30
Changes: Other
Version 1.6: 2015-09-16
Changes: Source and taxonomy
Version 1.7: 2017-08-02
Changes: Structure summary
Version 1.8: 2019-10-02
Changes: Data collection, Derived calculations, Experimental preparation, Other
Version 1.9: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations