PDBsum entry 2aph

Immune system

PDB id

2aph

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Contents

			Protein chain

					165 a.a. *

			Ligands

					ALA-GMA-LYS-DAL- DAL-NH2 ×2


					SO4 ×2


					AMU ×2

			Waters ×231

* Residue conservation analysis

PDB id:

2aph

Links

Name:

Immune system

Title:

Crystal structure of human pgrp-ialphac in complex with muramyl pentapeptide

Structure:

Peptidoglycan recognition protein i-alpha. Chain: a, b. Engineered: yes. Muramyl pentapeptide. Chain: c, d. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: pglyrp3, pgrpia. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Synthetic: yes. Synthetic construct. Organism_taxid: 32630.

Biol. unit:

Dimer (from PQS)

Resolution:

2.10Å

R-factor:

0.227

R-free:

0.267

Authors:

R.Guan,A.Roychowdjury,G.Boons,R.A.Mariuzza

Key ref:

R.Guan et al. (2006). Crystal structure of human peptidoglycan recognition protein I alpha bound to a muramyl pentapeptide from Gram-positive bacteria. Protein Sci, 15, 1199-1206. PubMed id: 16641493

Date:

16-Aug-05

Release date:

27-Jun-06

PROCHECK

	Headers

	References

Protein chains

Q96LB9 (PGRP3_HUMAN) - Peptidoglycan recognition protein 3 from Homo sapiens

Seq: Struc:					341 a.a. 165 a.a.

Key:

PfamA domain

Secondary structure

CATH domain



		Enzyme reactions

Enzyme class:

E.C.?

[IntEnz] [ExPASy] [KEGG] [BRENDA]

	Protein Sci 15:1199-1206 (2006)
PubMed id: 16641493

Crystal structure of human peptidoglycan recognition protein I alpha bound to a muramyl pentapeptide from Gram-positive bacteria.
R.Guan, P.H.Brown, C.P.Swaminathan, A.Roychowdhury, G.J.Boons, R.A.Mariuzza.

ABSTRACT

Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors of the innate immune system that bind bacterial peptidoglycans (PGNs). We determined the crystal structure, to 2.1 A resolution, of the C-terminal PGN-binding domain of human PGRP-I alpha in complex with a muramyl pentapeptide (MPP) from Gram-positive bacteria containing a complete peptide stem (L-Ala-D-isoGln-L-Lys-D-Ala-D-Ala). The structure reveals important features not observed previously in the complex between PGRP-I alpha and a muramyl tripeptide lacking D-Ala at stem positions 4 and 5. Most notable are ligand-induced structural rearrangements in the PGN-binding site that are essential for entry of the C-terminal portion of the peptide stem and for locking MPP in the binding groove. We propose that similar structural rearrangements to accommodate the PGN stem likely characterize many PGRPs, both mammalian and insect.

Literature references that cite this PDB file's key reference

PubMed id

Reference

21188584

Y.Li, C.L.Efferson, R.Ramesh, G.E.Peoples, P.Hwu, and C.G.Ioannides (2011).
A peptidoglycan monomer with the glutamine to serine change and basic peptides bind in silico to TLR-2 (403-455).

Cancer Immunol Immunother, 60, 515-524.

19528155

P.C.Oyston, M.A.Fox, S.J.Richards, and G.C.Clark (2009).
Novel peptide therapeutics for treatment of infections.

J Med Microbiol, 58, 977-987.

19662170

S.Meister, B.Agianian, F.Turlure, A.Relógio, I.Morlais, F.C.Kafatos, and G.K.Christophides (2009).
Anopheles gambiae PGRPLC-mediated defense against bacteria modulates infections with malaria parasites.

PLoS Pathog, 5, e1000542.

17363965

J.Royet, and R.Dziarski (2007).
Peptidoglycan recognition proteins: pleiotropic sensors and effectors of antimicrobial defences.

Nat Rev Microbiol, 5, 264-277.

17275309

R.Guan, and R.A.Mariuzza (2007).
Peptidoglycan recognition proteins of the innate immune system.

Trends Microbiol, 15, 127-134.

17502600

S.Cho, Q.Wang, C.P.Swaminathan, D.Hesek, M.Lee, G.J.Boons, S.Mobashery, and R.A.Mariuzza (2007).
Structural insights into the bactericidal mechanism of human peptidoglycan recognition proteins.

Proc Natl Acad Sci U S A, 104, 8761-8766.

PDB codes:

2eav 2eax

17024181

L.Wang, A.N.Weber, M.L.Atilano, S.R.Filipe, N.J.Gay, and P.Ligoxygakis (2006).
Sensing of Gram-positive bacteria in Drosophila: GNBP1 is needed to process and present peptidoglycan to PGRP-SA.

EMBO J, 25, 5005-5014.

16930467

R.Dziarski, and D.Gupta (2006).
The peptidoglycan recognition proteins (PGRPs).

Genome Biol, 7, 232.

The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.