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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：Q92900 New Search
12PDB entries
15Biological assembly
20chain/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
2GJK Structural and functional insights into the human Upf1 helicase core Deposited 2006-03-31 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 295–914（620 aa） Fragment：helicase core domain(residues 295-914)
Not recorded MG MAGNESIUM ION × 1 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 6；295 K；50mM MES, 0.5-3% PEG4000, 0.005mM MgSO4, 10mM DTT, pH 6.0, EVAPORATION, temperature 295K
Resolution 2.60 Å R-free 0.271
2GK6 Structural and Functional insights into the human Upf1 helicase core Deposited 2006-03-31 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 295–914（620 aa） Fragment：helicase core domain(residues 295-914)
Not recorded MG MAGNESIUM ION × 1 PO4 PHOSPHATE ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 7.5；295 K；100mM Tris, 8-13% PEG3350, 140mM (NH4)3PO4, 10% EG, 10mM DTT, pH 7.5, EVAPORATION, temperature 295K
Resolution 2.40 Å R-free 0.272
2GK6 Structural and Functional insights into the human Upf1 helicase core Deposited 2006-03-31 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 295–914（620 aa） Fragment：helicase core domain(residues 295-914)
Not recorded MG MAGNESIUM ION × 1 PO4 PHOSPHATE ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 7.5；295 K；100mM Tris, 8-13% PEG3350, 140mM (NH4)3PO4, 10% EG, 10mM DTT, pH 7.5, EVAPORATION, temperature 295K
Resolution 2.40 Å R-free 0.272
2GK7 Structural and Functional insights into the human Upf1 helicase core Deposited 2006-03-31 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 295–914（620 aa） Fragment：helicase core domain(residues 295-914)
Not recorded PO4 PHOSPHATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 5.8；295 K；100mM Na/K Phosphate, 6-8% PEG3350, 10mM DTT, pH 5.8, EVAPORATION, temperature 295K
Resolution 2.80 Å R-free 0.298
2IYK Crystal structure of the UPF2-interacting domain of nonsense mediated mRNA decay factor UPF1 Deposited 2006-07-18 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 115–272（158 aa） Fragment：UPF2-INTERACTING DOMAIN, RESIDUES 115-272
Not recorded ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；30% PENTAERYTHRITOL ETHOXYLATE (15/4EO/OH) (V/V), 50 MM AMMONIUM SULPHATE,50 MM BIS-TRIS PH 6.5
Resolution 2.95 Å R-free 0.259
2IYK Crystal structure of the UPF2-interacting domain of nonsense mediated mRNA decay factor UPF1 Deposited 2006-07-18 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 115–272（158 aa） Fragment：UPF2-INTERACTING DOMAIN, RESIDUES 115-272
Not recorded ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；30% PENTAERYTHRITOL ETHOXYLATE (15/4EO/OH) (V/V), 50 MM AMMONIUM SULPHATE,50 MM BIS-TRIS PH 6.5
Resolution 2.95 Å R-free 0.259
2WJV Crystal structure of the complex between human nonsense mediated decay factors UPF1 and UPF2 Deposited 2009-06-01 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 115–914（800 aa） Fragment：CH-DOMAIN AND HELICASE DOMAIN, RESIDUES 115-914
Not recorded ZN ZINC ION × 3 SO4 SULFATE ION × 13 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；1.5-1.6M AMMONIUM SULPHATE, 100 MM MES PH 6.3-6.5 AND 2% V/V GLYCEROL
Resolution 2.85 Å R-free 0.248
2WJV Crystal structure of the complex between human nonsense mediated decay factors UPF1 and UPF2 Deposited 2009-06-01 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 115–914（800 aa） Fragment：CH-DOMAIN AND HELICASE DOMAIN, RESIDUES 115-914
Not recorded ZN ZINC ION × 3 SO4 SULFATE ION × 10 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；1.5-1.6M AMMONIUM SULPHATE, 100 MM MES PH 6.3-6.5 AND 2% V/V GLYCEROL
Resolution 2.85 Å R-free 0.248
2WJY Crystal structure of the complex between human nonsense mediated decay factors UPF1 and UPF2 Orthorhombic form Deposited 2009-06-01 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 115–914（800 aa） Fragment：CH-DOMAIN AND HELICASE DOMAIN, RESIDUES 115-914
Not recorded ZN ZINC ION × 3 SO4 SULFATE ION × 8 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6；1.6M AMMONIUM SULPHATE, 100 MM MES PH 6, 10% DIOXANE
Resolution 2.50 Å R-free 0.240
2XZO Upf1 helicase - RNA complex Deposited 2010-11-26 Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric（2） Consistent with all polymers
Chain A 295–914（620 aa） Fragment：HELICASE DOMAIN, RESIDUES 295-914
Not recorded 1PE PENTAETHYLENE GLYCOL × 3 ADP ADENOSINE-5'-DIPHOSPHATE × 1 ALF TETRAFLUOROALUMINATE ION × 1 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4.6；100 MM SODIUM ACETATE PH 4.6, 20 MM CACL2, 15% MPD
Resolution 2.40 Å R-free 0.233
2XZP Upf1 helicase Deposited 2010-11-26 Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 295–914（620 aa） Fragment：HELICASE DOMAIN, RESIDUES 295-914
Not recorded GOL GLYCEROL × 9 MLI MALONATE ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6；50MM SODIUM CITRATE PH 6.0, 1.5M SODIUM MALONATE
Resolution 2.72 Å R-free 0.214
6EJ5 A conserved structural element in the RNA helicase UPF1 regulates its catalytic activity in an isoform-specific manner Deposited 2017-09-20 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 295–925（631 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions BATCH MODE；291 K；1.4 M sodium malonate, 50 mM sodium citrate pH 6.2
Resolution 3.34 Å R-free 0.309
6Z3R Structure of SMG1-8-9 kinase complex bound to UPF1-LSQ Deposited 2020-05-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain E 1085–1095（11 aa）
Not recorded ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 IHP INOSITOL HEXAKISPHOSPHATE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 2.97 Å
8RXB Human UPF1 CH domain in complex with SMG6 peptide Deposited 2024-02-06 Assembly 1 Protein heterocomplex Heteromer；Protein × 12 PDB declaration: 12-meric（12） Consistent with protein count
Chain A 115–287（173 aa）
Chain D 115–287（173 aa）
Chain E 115–287（173 aa）
Chain I 115–287（173 aa）
Chain L 115–287（173 aa）
Chain P 115–287（173 aa）
Not recorded ZN ZINC ION × 13 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；solution (28% (w/v) PEG 3500, 0.2M Lithium sulfate and 0.1 M Tris pH 7.8)
Resolution 2.60 Å R-free 0.295
9QWN Human UPF1 in complex with the histone stem loop RNA Deposited 2025-04-14 Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric（2） Consistent with all polymers
Chain A 115–914（800 aa）
Not recorded ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.60 Å

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.