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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：Q8TDX7 New Search
13PDB entries
23Biological assembly
35chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
2WQM Structure of apo human Nek7 Deposited 2009-08-24 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1–302（302 aa）
Not recorded SO4 SULFATE ION × 1 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 100 MM HEPES, PH 7.5, 15% PEG 5000 MME, 400 MM AMMONIUM SULFATE
Resolution 2.10 Å R-free 0.215
2WQN Structure of ADP-bound human Nek7 Deposited 2009-08-24 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1–302（302 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 NI NICKEL (II) ION × 1 MG MAGNESIUM ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 100MM HEPES 7.5, 15% PEG 5000MME, 400MM AMMONIUM SULFATE
Resolution 2.30 Å R-free 0.221
5DE2 Structural mechanism of Nek7 activation by Nek9-induced dimerisation Deposited 2015-08-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–302（302 aa）
Mutation：Y97F No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；291 K；The composition of the reservoir buffer was: 0.2M Potassium thiocyanate, 0.1M Bis-Tris propane pH 7.5, 20% (w/v) PEG 3350.
Resolution 2.78 Å R-free 0.254
5DE2 Structural mechanism of Nek7 activation by Nek9-induced dimerisation Deposited 2015-08-25 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 1–302（302 aa）
Mutation：Y97F No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；291 K；The composition of the reservoir buffer was: 0.2M Potassium thiocyanate, 0.1M Bis-Tris propane pH 7.5, 20% (w/v) PEG 3350.
Resolution 2.78 Å R-free 0.254
6NPY Cryo-EM structure of NLRP3 bound to NEK7 Deposited 2019-01-18 Assembly 1 Insufficient information Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 34–302（269 aa）
Mutation：L54R,V58K,P59T,K87A,A99V,S100C,E103T,D104G ADP ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
6S73 Crystal structure of Nek7 SRS mutant bound to compound 51 Deposited 2019-07-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1–302（302 aa）
Mutation：L86H, Y97F, L180F F9N 3-[[6-(cyclohexylmethoxy)-7~{H}-purin-2-yl]amino]-~{N}-[3-(dimethylamino)propyl]benzenesulfonamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；0.02 M Sodium/potassium phosphate, 0.1 M Bis-Tris propane pH 6.5, 20 % w/v PEG 3350
Resolution 3.50 Å R-free 0.271
6S73 Crystal structure of Nek7 SRS mutant bound to compound 51 Deposited 2019-07-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 1–302（302 aa）
Mutation：L86H, Y97F, L180F F9N 3-[[6-(cyclohexylmethoxy)-7~{H}-purin-2-yl]amino]-~{N}-[3-(dimethylamino)propyl]benzenesulfonamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；0.02 M Sodium/potassium phosphate, 0.1 M Bis-Tris propane pH 6.5, 20 % w/v PEG 3350
Resolution 3.50 Å R-free 0.271
6S73 Crystal structure of Nek7 SRS mutant bound to compound 51 Deposited 2019-07-04 Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain C 1–302（302 aa）
Mutation：L86H, Y97F, L180F F9N 3-[[6-(cyclohexylmethoxy)-7~{H}-purin-2-yl]amino]-~{N}-[3-(dimethylamino)propyl]benzenesulfonamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；0.02 M Sodium/potassium phosphate, 0.1 M Bis-Tris propane pH 6.5, 20 % w/v PEG 3350
Resolution 3.50 Å R-free 0.271
6S73 Crystal structure of Nek7 SRS mutant bound to compound 51 Deposited 2019-07-04 Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain D 1–302（302 aa）
Mutation：L86H, Y97F, L180F No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；0.02 M Sodium/potassium phosphate, 0.1 M Bis-Tris propane pH 6.5, 20 % w/v PEG 3350
Resolution 3.50 Å R-free 0.271
6S75 Crystal structure of Nek7 bound to compound 51 Deposited 2019-07-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1–302（302 aa）
Not recorded F9N 3-[[6-(cyclohexylmethoxy)-7~{H}-purin-2-yl]amino]-~{N}-[3-(dimethylamino)propyl]benzenesulfonamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0, 3% w/v 1,6-Hexanediol
Resolution 3.30 Å R-free 0.317
6S75 Crystal structure of Nek7 bound to compound 51 Deposited 2019-07-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 1–302（302 aa）
Not recorded F9N 3-[[6-(cyclohexylmethoxy)-7~{H}-purin-2-yl]amino]-~{N}-[3-(dimethylamino)propyl]benzenesulfonamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0, 3% w/v 1,6-Hexanediol
Resolution 3.30 Å R-free 0.317
6S75 Crystal structure of Nek7 bound to compound 51 Deposited 2019-07-04 Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain C 1–302（302 aa）
Not recorded F9N 3-[[6-(cyclohexylmethoxy)-7~{H}-purin-2-yl]amino]-~{N}-[3-(dimethylamino)propyl]benzenesulfonamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0, 3% w/v 1,6-Hexanediol
Resolution 3.30 Å R-free 0.317
6S75 Crystal structure of Nek7 bound to compound 51 Deposited 2019-07-04 Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain D 1–302（302 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0, 3% w/v 1,6-Hexanediol
Resolution 3.30 Å R-free 0.317
6S76 Crystal structure of human Nek7 Deposited 2019-07-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1–302（302 aa）
Not recorded PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0
Resolution 3.38 Å R-free 0.286
6S76 Crystal structure of human Nek7 Deposited 2019-07-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 1–302（302 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0
Resolution 3.38 Å R-free 0.286
6S76 Crystal structure of human Nek7 Deposited 2019-07-04 Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain C 1–302（302 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0
Resolution 3.38 Å R-free 0.286
6S76 Crystal structure of human Nek7 Deposited 2019-07-04 Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain D 1–302（302 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20 % w/v Polyethylene glycol 3,350, 150 mM di-Sodium DL-malate; pH 7.0
Resolution 3.38 Å R-free 0.286
8EJ4 Cryo-EM structure of the active NLRP3 inflammasome disk Deposited 2022-09-16 Assembly 1 Protein heterocomplex Heteromer；Protein × 20 PDB declaration: eicosameric（20） Consistent with protein count
Chain K 20–297（278 aa）
Chain L 20–297（278 aa）
Chain M 20–297（278 aa）
Chain N 20–297（278 aa）
Chain O 20–297（278 aa）
Chain P 20–297（278 aa）
Chain Q 20–297（278 aa）
Chain R 20–297（278 aa）
Chain S 20–297（278 aa）
Chain T 20–297（278 aa）
Not recorded AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER × 10 MG MAGNESIUM ION × 10 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
8SXN Structure of NLRP3 and NEK7 complex Deposited 2023-05-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–302（302 aa）
Chain B 1–302（302 aa）
Not recorded 7YN 1-[4-(2-oxidanylpropan-2-yl)furan-2-yl]sulfonyl-3-(1,2,3,5-tetrahydro-s-indacen-4-yl)urea × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.04 Å
8WS0 Crystal structure of human NEK7 S195D mutant Deposited 2023-10-16 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–302（302 aa）
Chain B 1–302（302 aa）
Mutation：S195D Mutation：S195D No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M Tris pH 8.5, 20% PEG 3350
Resolution 2.12 Å R-free 0.242
8WS1 Crystal structure of human NEK7 D161N mutant Deposited 2023-10-16 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–302（302 aa）
Chain B 1–302（302 aa）
Mutation：D161N Mutation：D161N EDO 1,2-ETHANEDIOL × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；294 K；0.1 M Tris pH 8.4, PEG 8000 15%
Resolution 2.40 Å R-free 0.238
9H59 Cryo-EM structure of DDB1-CRBN in complex with NK7-902 and NEK7 Deposited 2024-10-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain C 1–302（302 aa）
Not recorded A1ISP 2-[(3S)-2,6-bis(oxidanylidene)piperidin-3-yl]-5-[(1S,2R,5S)-2-(ethylamino)-8-azabicyclo[3.2.1]octan-8-yl]isoindole-1,3-dione × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
9NFQ Crystal structure of CRBN-DDB1 and MRT-3486 in complex with NEK7 Deposited 2025-02-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain C 1–302（302 aa）
Not recorded A1BX6 (3S)-N-{[(4R)-3-(2,4-dioxo-1,3-diazinan-1-yl)imidazo[1,2-a]pyridin-7-yl]methyl}-2-(phenylmethanesulfonyl)-1,2,3,4-tetrahydroisoquinoline-3-carboxamide × 1 ZN ZINC ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.029 M HEPES salt, 0.071 M MOPS acid, 0.06 M NaNO3, 0.06 M Na2HPO4, 0.06 M (NH4)2SO4, 11 % (w/v) PEG 8,000 and 25 % (v/v) ethylene glycol.
Resolution 3.25 Å R-free 0.261

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.