Macromolecule Content

Total Structure Weight: 107.14 kDa
Atom Count: 8394
Residue Count: 980
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 PAO1, synthetic construct
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

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
R-Value Observed: 0.215

wwPDB Validation 3D Report Full Report

This is version 1.4 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) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PA-I galactophilic lectin	A, B, C, D, E, F, G, H	122	Pseudomonas aeruginosa PAO1	Mutation(s): 0 Gene Names: lecA, pa1L, PA2570
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
Protein Feature View Expand
Reference Sequence

Find similar proteins by: Sequence | Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
GALA-LYS-PRO-LEUNH2	I, J, N	4	synthetic construct	Mutation(s): 0
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GAL Query on GAL Download Ideal Coordinates CCD File SDF format, chain BA [F] SDF format, chain EA [G] SDF format, chain HA [H] SDF format, chain M [A] SDF format, chain P [B] SDF format, chain S [C] SDF format, chain V [D] SDF format, chain Y [E] MOL2 format, chain BA [F] MOL2 format, chain EA [G] MOL2 format, chain HA [H] MOL2 format, chain M [A] MOL2 format, chain P [B] MOL2 format, chain S [C] MOL2 format, chain V [D] MOL2 format, chain Y [E]	A, B, C, D, E, F, G, H	beta-D-galactopyranose C₆ H₁₂ O₆ WQZGKKKJIJFFOK-FPRJBGLDSA-N		Ligand Interaction
PHB Query on PHB Download Ideal Coordinates CCD File SDF format, chain CA [F] SDF format, chain FA [G] SDF format, chain IA [H] SDF format, chain N [A] SDF format, chain Q [B] SDF format, chain T [C] SDF format, chain W [D] SDF format, chain Z [E] MOL2 format, chain CA [F] MOL2 format, chain FA [G] MOL2 format, chain IA [H] MOL2 format, chain N [A] MOL2 format, chain Q [B] MOL2 format, chain T [C] MOL2 format, chain W [D] MOL2 format, chain Z [E]	A, B, C, D, E, F, G, H	P-HYDROXYBENZOIC ACID C₇ H₆ O₃ FJKROLUGYXJWQN-UHFFFAOYSA-N		Ligand Interaction
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain AA [F] SDF format, chain DA [G] SDF format, chain GA [H] SDF format, chain L [A] SDF format, chain O [B] SDF format, chain R [C] SDF format, chain U [D] SDF format, chain X [E] MOL2 format, chain AA [F] MOL2 format, chain DA [G] MOL2 format, chain GA [H] MOL2 format, chain L [A] MOL2 format, chain O [B] MOL2 format, chain R [C] MOL2 format, chain U [D] MOL2 format, chain X [E]	A, B, C, D, E, F, G, H	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.29 Å
R-Value Free: 0.240
R-Value Work: 0.214
R-Value Observed: 0.215
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.332	α = 90
b = 128.559	β = 90
c = 146.063	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Deposited Date: 2011-08-19
Released Date: 2011-09-21

Deposition Author(s):

Revision History

Version 1.0: 2011-09-21
Type: Initial release
Version 1.1: 2012-04-25
Changes: Other
Version 1.2: 2017-02-08
Changes: Source and taxonomy
Version 1.3: 2017-07-12
Changes: Derived calculations
Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Other, Structure summary

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Deposition Help & Resources

173537 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

Protein Feature View

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