1LP1: Protein Z

Protein Z in complex with an in vitro selected affibody. Determined by X-ray diffraction at 2.3 Å resolution. Released 18 Mar 2003.

Method: X-ray diffraction
Resolution: 2.3 Å
Organism: Staphylococcus aureus
Chains: 2
Atoms: 1,071
Mol. weight: 13.5 kDa
Ligands: MG
Released: 18 Mar 2003

Explore 1LP1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1LP1 contains 7 α-helices and 0 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	5-17	13
α-helix	24-36	13
α-helix	38-40	3
α-helix	41-54	14

Chain B: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	6-16	11
α-helix	24-36	13
α-helix	41-54	14

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Affibody binding protein Z	A	protein	58	Staphylococcus aureus
Immunoglobulin G binding protein A	B	protein	58	Staphylococcus aureus	P38507 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>1LP1_1 Affibody binding protein Z (chains A)
VDNKFNKELSVAGREIVTLPNLNDPQKKAFIFSLWDDPSQSANLLAEAKKLNDAQAPK

Sequence of entity 2 (B), FASTA

>1LP1_2 Immunoglobulin G binding protein A (chains B)
VDNKFNKEQQNAFYEILHLPNLNEEQRNAFIQSLKDDPSQSANLLAEAKKLNDAQAPK

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	1

Water and common crystallization additives (SO4) are not listed.

Primary citation

Structural basis for recognition by an in vitro evolved affibody. Hogbom, M., Eklund, M., Nygren, P.A. et al. Proc Natl Acad Sci U S A (2003) 100:3191-3196. DOI 10.1073/pnas.0436100100 · PubMed

Other PDB entries of the same protein (UniProt P38507 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4NPD 0.9 Å, High-resolution structure of C domain of staphylococcal protein A at cryogenic temperature
4NPE 1.42 Å, High-resolution structure of C domain of staphylococcal protein A at room temperature
4NPF 1.49 Å, High-resolution structure of two tandem B domains of staphylococcal protein A connected…
8CPL 1.6 Å, YZw2 a scaffold for cryo-EM of small proteins of interest
4ZMD 1.87 Å, C domain of staphylococcal protein A mutant - Q9W
4ZNC 2.28 Å, Fc fragment of human IgG in complex with the C domain of staphylococcal protein A mutant…
5CBN 2.3 Å, Fusion protein of mbp3-16 and B4 domain of protein A from staphylococcal aureus with…
4WWI 2.31 Å, Crystal structure of the C domain of staphylococcal protein A in complex with the Fc…
5H7D 2.57 Å, Crystal structure of the YgjG-protein A-Zpa963-calmodulin complex
5EWX 2.6 Å, Fusion protein of T4 lysozyme and B4 domain of protein A from staphylococcal aureus with…
5H76 2.6 Å, Crystal structure of the DARPin-Protein A fusion protein
5H79 2.7 Å, Crystal structure of a repeat protein with three Protein A repeat module

Browse structure collections

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