6Q9L: HDM2

HDM2 (17-111, WILDTYPE) COMPLEXED WITH COMPOUND 9 AT 1.13A; Structural states of Hdm2 and HdmX: X-ray elucidation of adaptations and binding interactions for different chemical compound classes. Determined by X-ray diffraction at 1.13 Å resolution. Released 15 May 2019.

Method: X-ray diffraction
Resolution: 1.13 Å
Organism: Homo sapiens
Chains: 2
Atoms: 1,914
Mol. weight: 23.92 kDa
Ligands: HTZ
Released: 15 May 2019

Explore 6Q9L in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6Q9L contains 10 α-helices and 12 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: 5 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	21-24	4
β-strand	27-30	4	1
α-helix	32-39	8
β-strand	48-49	2	1
α-helix	50-63	14
β-strand	67	1	2
β-strand	74-76	3	2
α-helix	81-86	6
β-strand	90-92	3	2
α-helix	96-104	9
β-strand	107-109	3	1

Chain B: 5 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	21-24	4
β-strand	27-30	4	3
α-helix	32-40	9
β-strand	48-49	2	3
α-helix	50-63	14
β-strand	67	1	4
β-strand	74-76	3	4
α-helix	81-86	6
β-strand	90-92	3	4
α-helix	96-104	9
β-strand	107-109	3	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
E3 ubiquitin-protein ligase Mdm2	A, B	protein	96	Homo sapiens	Q00987 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>6Q9L_1 E3 ubiquitin-protein ligase Mdm2 (chains A, B)
GSQIPASEQETLVRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIV
YCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNLVVVN

Ligands and cofactors

ID	Name	Formula	Copies
HTZ	[6-chloranyl-3-[3-[[4-chloranyl-2-(hydroxymethyl)phenyl]methyl]-5-phenyl-imidaz…	C36 H40 Cl2 N6 O2	2

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

Primary citation

Structural States of Hdm2 and HdmX: X-ray Elucidation of Adaptations and Binding Interactions for Different Chemical Compound Classes. Kallen, J., Izaac, A., Chau, S. et al. ChemMedChem (2019) 14:1305-1314. DOI 10.1002/cmdc.201900201 · PubMed

Other PDB entries of the same protein (UniProt Q00987 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5C5A 1.15 Å, Crystal Structure of HDM2 in complex with Nutlin-3a
6Q9O 1.21 Å, HDM2 (17-111, WILDTYPE) COMPLEXED WITH COMPOUND 10 AT 1.21A; Structural states of Hdm2…
5ZXF 1.25 Å, The 1.25A Crystal structure of His6-tagged Mdm2 in complex with nutlin-3a
7QDQ 1.26 Å, Crystal Structure of HDM2 in complex with Caylin-1
8F10 1.28 Å, Structure of the MDM2 P53 binding domain in complex with H102, an all-D Helicon…
8P0D 1.31 Å, Human 14-3-3 sigma in complex with human MDM2 peptide
5Z02 1.35 Å, Crystal structure of HIS6-tagged Mdm2 with nutlin-3a
8J81 1.35 Å, MDM2 bound with a peptoid
4OGN 1.38 Å, Co-Crystal Structure of MDM2 with Inhbitor Compound 3
2AXI 1.4 Å, HDM2 in complex with a beta-hairpin
7KJM 1.4 Å, Crystal structure of human MDM2 in complex with D-peptide inhibitor (dpmi-omega)
8F13 1.4 Å, Structure of the MDM2 P53 binding domain in complex with H103, an all-D Helicon…

Browse structure collections

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