2ZN9: Ca2+-bound form of des3-20ALG-2

Crystal structure of Ca2+-bound form of des3-20ALG-2. Determined by X-ray diffraction at 2.4 Å resolution. Released 9 Sept 2008.

Method: X-ray diffraction
Resolution: 2.4 Å
Organism: Homo sapiens
Chains: 2
Atoms: 2,931
Mol. weight: 41.56 kDa
Ligands: 2PE, CA
Released: 9 Sept 2008

Explore 2ZN9 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2ZN9 contains 16 α-helices and 10 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: 8 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	25-35	11
β-strand	43-44	2	1
α-helix	45-49	5
α-helix	62-72	11
β-strand	79-80	2	1
α-helix	82-102	21
β-strand	110	1	2
α-helix	112-121	10
α-helix	130-138	9
β-strand	146	1	2
α-helix	148-168	21
β-strand	175-179	5	3
α-helix	180-187	8

Chain B: 8 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	25-35	11
β-strand	43	1	4
α-helix	45-51	7
α-helix	62-72	11
β-strand	80	1	4
α-helix	82-102	21
β-strand	110	1	5
α-helix	112-121	10
α-helix	130-138	9
β-strand	146	1	5
α-helix	148-168	21
β-strand	175-179	5	3
α-helix	180-187	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Programmed cell death protein 6	A, B	protein	172	Homo sapiens	O75340 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>2ZN9_1 Programmed cell death protein 6 (chains A, B)
AALPDQSFLWNVFQRVDKDRSGVISDTELQQALSNGTWTPFNPVTVRSIISMFDRENKAG
VNFSEFTGVWKYITDWQNVFRTYDRDNSGMIDKNELKQALSGFGYRLSDQFHDILIRKFD
RQGRGQIAFDDFIQGCIVLQRLTDIFRRYDTDQDGWIQVSYEQYLSMVFSIV

Ligands and cofactors

ID	Name	Formula	Copies
2PE	Nonaethylene glycol	C18 H38 O10	1
CA	Calcium ion	Ca	7

Water and common crystallization additives (12P) are not listed.

Primary citation

Structural Basis for Ca(2+)-Dependent Formation of ALG-2/Alix Peptide Complex: Ca(2+)/EF3-Driven Arginine Switch Mechanism. Suzuki, H., Kawasaki, M., Inuzuka, T. et al. Structure (2008) 16:1562-1573. DOI 10.1016/j.str.2008.07.012 · PubMed

Other PDB entries of the same protein (UniProt O75340 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2ZND 1.7 Å, Crystal structure of Ca2+-free form of des3-20ALG-2
2ZNE 2.2 Å, Crystal structure of Zn2+-bound form of des3-23ALG-2 complexed with Alix ABS peptide
5GQQ 2.2 Å, Structure of ALG-2/HEBP2 Complex
3WXA 2.36 Å, X-ray crystal structural analysis of the complex between ALG-2 and Sec31A peptide
3AAJ 2.4 Å, Crystal structure of Ca2+-bound form of des3-23ALG-2deltaGF122
2ZN8 2.7 Å, Crystal structure of Zn2+-bound form of ALG-2
3AAK 2.7 Å, Crystal structure of Zn2+-bound form of des3-20ALG-2F122A
2ZRS 3.1 Å, Crystal structure of Ca2+-bound form of des3-23ALG-2
2ZRT 3.3 Å, Crystal structure of Zn2+-bound form of des3-23ALG-2

Browse structure collections

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