5EMA: SNX27 PDZ domain

Crystal structure of the SNX27 PDZ domain bound to the phosphorylated C-terminal LRRC3B PDZ binding motif. Determined by X-ray diffraction at 1.32 Å resolution. Released 7 Sept 2016.

Method: X-ray diffraction
Resolution: 1.32 Å
Organisms: Rattus norvegicus, Homo sapiens
Chains: 2
Atoms: 946
Mol. weight: 11.59 kDa
Released: 7 Sept 2016

Explore 5EMA in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5EMA contains 2 α-helices and 11 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: 2 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	42-47	6	1
β-strand	49	1	2
β-strand	52	1	2
β-strand	55-59	5	1
β-strand	68-70	3	3
β-strand	73-75	3	3
β-strand	80-84	5	1
α-helix	89-93	5
β-strand	100-104	5	1
β-strand	107-108	2	1
α-helix	114-121	8
β-strand	127-133	7	1

Chain B: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	3-6	4	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Sorting nexin-27	A	protein	101	Rattus norvegicus	Q8K4V4 (AlphaFold model)
Asp-asp-ile-sep-thr-val-val	B	protein	8	Homo sapiens	Q96PB8 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>5EMA_1 Sorting nexin-27 (chains A)
GSHGGSPRVVRIVKSESGYGFNVRGQVSEGGQLRSINGELYAPLQHVSAVLPGGAADRAG
VRKGDRILEVNGVNVEGATHKQVVDLIRAGEKELILTVLSV

Sequence of entity 2 (B), FASTA

>5EMA_2 ASP-ASP-ILE-SEP-THR-VAL-VAL (chains B)
PDDISTVV

Primary citation

A molecular code for endosomal recycling of phosphorylated cargos by the SNX27-retromer complex. Clairfeuille, T., Mas, C., Chan, A.S. et al. Nat Struct Mol Biol (2016) 23:921-932. DOI 10.1038/nsmb.3290 · PubMed

Other PDB entries of the same protein (UniProt Q8K4V4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5EMB 0.85 Å, Crystal structure of the SNX27 PDZ domain bound to the C-terminal phosphorylated PTHR…
4Z8J 0.95 Å, Crystal structure of the SNX27 PDZ domain bound to the C-terminal PTHR PDZ binding motif
5ELQ 1.1 Å, Crystal structure of the SNX27 PDZ domain bound to the C-terminal DGKzeta PDZ binding…
5EM9 1.6 Å, Crystal structure of the SNX27 PDZ domain bound to the phosphorylated C-terminal…
3QE1 1.68 Å, Crystal Structure of PDZ domain of sorting nexin 27 (SNX27) fused to the C-terminal…
3QDO 1.88 Å, Crystal Structure of PDZ domain of sorting nexin 27 (SNX27) fused to the Gly-Gly linker…
4P2A 2.7 Å, Structure of mouse VPS26A bound to rat SNX27 PDZ domain
3QGL 3.31 Å, Crystal Structure of PDZ domain of sorting nexin 27 (SNX27) in complex with the ESESKV…

Browse structure collections

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