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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：P04390 New Search
32PDB entries
34Biological assembly
65chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion 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
1AZ0 ECORV ENDONUCLEASE/DNA COMPLEX Deposited 1997-11-24 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6；293 K；pH 6.00, VAPOR DIFFUSION, SITTING DROP, temperature 293.00K
Resolution 2.00 Å R-free 0.246
1AZ3 ECORV ENDONUCLEASE, UNLIGANDED, FORM B Deposited 1997-11-24 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；pH 7.5
Resolution 2.40 Å R-free 0.315
1AZ4 ECORV ENDONUCLEASE, UNLIGANDED, FORM B, T93A MUTANT Deposited 1997-11-24 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 2–245（244 aa）
Chain B 2–245（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；pH 7.5
Resolution 2.40 Å R-free 0.337
1B94 RESTRICTION ENDONUCLEASE ECORV WITH CALCIUM Deposited 1999-02-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；pH 7.0, VAPOR DIFFUSION, SITTING DROP
Resolution 1.90 Å R-free 0.270
1B95 ANALYSIS OF A MUTATIONAL HOT-SPOT IN THE ECORV RESTRICTION ENDONUCLEASE: A CATALYTIC ROLE FOR A MAIN CHAIN CARBONYL GROUP Deposited 1999-02-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；pH 7.0, VAPOR DIFFUSION, SITTING DROP
Resolution 2.05 Å R-free 0.282
1B96 ANALYSIS OF A MUTATIONAL HOT-SPOT IN THE ECORV RESTRICTION ENDONUCLEASE: A CATALYTIC ROLE FOR A MAIN CHAIN CARBONYL GROUP Deposited 1999-02-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：Q69E Mutation：Q69E No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；pH 7.0, VAPOR DIFFUSION, SITTING DROP
Resolution 2.30 Å R-free 0.282
1B97 ANALYSIS OF A MUTATIONAL HOT-SPOT IN THE ECORV RESTRICTION ENDONUCLEASE: A CATALYTIC ROLE FOR A MAIN CHAIN CARBONYL GROUP Deposited 1999-02-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：Q69L Mutation：Q69L No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；pH 7.0, VAPOR DIFFUSION, SITTING DROP
Resolution 1.90 Å R-free 0.279
1BGB ECORV ENDONUCLEASE COMPLEX WITH 5'-CGGGATATCCC DNA Deposited 1998-05-28 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；CRYSTALLIZED FROM 15% PEG 4K, 100 MM IMIDAZOLE, (PH 6.5), 150 MM NACL., VAPOR DIFFUSION, HANGING DROP
Resolution 2.00 Å R-free 0.246
1BSS ECORV-T93A/DNA/CA2+ Deposited 1998-08-30 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：T93A Mutation：T93A CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；pH 7.50
Resolution 2.15 Å R-free 0.246
1BSU STRUCTURAL AND ENERGETIC ORIGINS OF INDIRECT READOUT IN SITE-SPECIFIC DNA CLEAVAGE BY A RESTRICTION ENDONUCLEASE Deposited 1998-08-30 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；293 K；pH 7.5, temperature 293K
Resolution 2.00 Å R-free 0.258
1BUA STRUCTURAL AND ENERGETIC ORIGINS OF INDIRECT READOUT IN SITE-SPECIFIC DNA CLEAVAGE BY A RESTRICTION ENDONUCLEASE Deposited 1998-09-03 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；pH 7.5, VAPOR DIFFUSION, HANGING DROP
Resolution 2.15 Å R-free 0.288
1EO3 INHIBITION OF ECORV ENDONUCLEASE BY DEOXYRIBO-3'-S-PHOSPHOROTHIOLATES: A HIGH RESOLUTION X-RAY CRYSTALLOGRAPHIC STUDY Deposited 2000-03-21 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded MG MAGNESIUM ION × 4 ACY ACETIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；290 K；25% PEG 4000, 0.1M HEPES, 0.15M NaCl, 50 mM MgCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.00 Å R-free 0.290
1EO4 ECORV BOUND TO MN2+ AND COGNATE DNA CONTAINING A 3'S SUBSTITION AT THE CLEAVAGE SITE Deposited 2000-03-21 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded MN MANGANESE (II) ION × 5 ACY ACETIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；290 K；25% PEG 4000, 0.1M HEPES, 0.15M NaCl, 50 mM MnCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 1.90 Å R-free 0.305
1EON ECORV BOUND TO 3'-S-PHOSPHOROTHIOLATE DNA AND CA2+ Deposited 2000-03-23 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded CL CHLORIDE ION × 4 ACY ACETIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；290 K；25% PEG 4000, 0.1 M HEPES, 0.15 M NaCl, 50m M CaCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 1.60 Å R-free 0.281
1EOO ECORV BOUND TO COGNATE DNA Deposited 2000-03-23 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；297 K；1.5 M ammonium sulfate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Resolution 2.16 Å R-free 0.316
1EOP ECORV BOUND TO COGNATE DNA Deposited 2000-03-23 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；290 K；25% PEG 4000, 0.1 M acetate, 0.2 M tartrate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.60 Å R-free 0.302
1RV5 COMPLEX OF ECORV ENDONUCLEASE WITH D(AAAGAT)/D(ATCTT) Deposited 1998-06-01 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；pH 7.5
Resolution 2.10 Å R-free 0.272
1RVA MG2+ BINDING TO THE ACTIVE SITE OF ECO RV ENDONUCLEASE: A CRYSTALLOGRAPHIC STUDY OF COMPLEXES WITH SUBSTRATE AND PRODUCT DNA AT 2 ANGSTROMS RESOLUTION Deposited 1994-10-21 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.00 Å
1RVB MG2+ BINDING TO THE ACTIVE SITE OF ECO RV ENDONUCLEASE: A CRYSTALLOGRAPHIC STUDY OF COMPLEXES WITH SUBSTRATE AND PRODUCT DNA AT 2 ANGSTROMS RESOLUTION Deposited 1994-10-21 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded MG MAGNESIUM ION × 2 X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.10 Å
1RVC MG2+ BINDING TO THE ACTIVE SITE OF ECO RV ENDONUCLEASE: A CRYSTALLOGRAPHIC STUDY OF COMPLEXES WITH SUBSTRATE AND PRODUCT DNA AT 2 ANGSTROMS RESOLUTION Deposited 1994-10-21 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded MG MAGNESIUM ION × 4 X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.10 Å
1RVE THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA FRAGMENTS Deposited 1992-02-24 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.50 Å
1STX Structure of the K38A mutant of EcoRV bound to cognate DNA and Mn2+ Deposited 2004-03-25 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：K38A Mutation：K38A MN MANGANESE (II) ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；290 K；17% PEG 4000, 0.1M HEPES pH 7.5, 0.15M NaCl 50mM MnCl2, Vapor diffusion, temperature 290K
Resolution 2.10 Å R-free 0.262
1SUZ The structure of K92A EcoRV bound to cognate DNA and Mg2+ Deposited 2004-03-26 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：K92A Mutation：K92A MG MAGNESIUM ION × 2 NA SODIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7.5；295 K；17% PEG 4K, 0.1M tartrate, 0.1M HPETES, 50mM MgCl2, pH 7.5, VAPOR DIFFUSION, temperature 22K
Resolution 1.80 Å R-free 0.244
1SX5 K38A EcoRV bound to cleaved DNA and Mn2+: P1 crystal form Deposited 2004-03-30 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：K38A Mutation：K38A MN MANGANESE (II) ION × 9 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；315 K；PEG 4000, 0.1M HEPES, 0.15M NaCl, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 315K
Resolution 1.50 Å R-free 0.254
1SX8 EcoRV bound to cognate DNA and Mn2+ Deposited 2004-03-30 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Mutation：K92A Mutation：K92A MN MANGANESE (II) ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；PEG 4000, 0.1M HEPES, 0.15M NaCl, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 100K
Resolution 2.15 Å R-free 0.254
2B0D EcoRV Restriction Endonuclease/GAATTC/Ca2+ Deposited 2005-09-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 0–244（245 aa）
Chain B 0–244（245 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；297 K；PEG 4K, Hepes, NaCl, CaCl2, Glycerol, pH 7.5, vapor diffusion, hanging drop, temperature 297K
Resolution 2.00 Å R-free 0.302
2B0E EcoRV Restriction Endonuclease/GAAUTC/Ca2+ Deposited 2005-09-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 0–244（245 aa）
Chain B 0–244（245 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；297 K；PEG 4K, Hepes, NaCl, CaCl2, pH 7.5, vapor diffusion, hanging drop, temperature 297K
Resolution 1.90 Å R-free 0.314
2GE5 EcoRV Restriction Endonuclease C-terminal deletion mutant/GATATC/Ca2+ Deposited 2006-03-17 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–219（219 aa） Fragment：residues 1-219
Chain B 1–219（219 aa） Fragment：residues 1-219
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；250 mM NaCl, 8-12% PEG 4k, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.40 Å R-free 0.284
2RVE THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA SEGMENTS Deposited 1991-03-19 Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: trimeric（3） Consistent with all polymers
Chain A 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 6；pH 6.00, VAPOR DIFFUSION
Resolution 3.00 Å
2RVE THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA SEGMENTS Deposited 1991-03-19 Assembly 2 Protein–DNA Monomer；Protein × 1 PDB declaration: trimeric（3） Consistent with all polymers
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 6；pH 6.00, VAPOR DIFFUSION
Resolution 3.00 Å
4RVE THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA SEGMENTS Deposited 1993-02-18 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–244（244 aa）
Chain B 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；pH 7.00, VAPOR DIFFUSION
Resolution 3.00 Å
4RVE THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA SEGMENTS Deposited 1993-02-18 Assembly 2 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain C 1–244（244 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；pH 7.00, VAPOR DIFFUSION
Resolution 3.00 Å
5F8A Crystal structure of the ternary EcoRV-DNA-Lu complex with uncleaved DNA substrate. Lanthanide binding to EcoRV-DNA complex inhibits cleavage. Deposited 2015-12-09 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–245（244 aa）
Chain B 2–245（244 aa）
Not recorded LU LUTETIUM (III) ION × 2 NA SODIUM ION × 2 EDO 1,2-ETHANEDIOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.4；285 K；4.5 mg/mL (monomer), protein(dimer):DNA - 1:1, Enzyme:Well - 3uL:3uL, Well - 500uL of 100 mM HEPES pH 7.4, 8% Ethylene glycol, 4% Polyethylene glycol 8000, 10% glycerol.
Resolution 1.76 Å R-free 0.199
5HLK Crystal structure of the ternary EcoRV-DNA-Lu complex with cleaved DNA substrate. Deposited 2016-01-15 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–245（244 aa）
Chain B 2–245（244 aa）
Not recorded EDO 1,2-ETHANEDIOL × 7 NA SODIUM ION × 4 LU LUTETIUM (III) ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；9.4 mg/mL, 3:3 Enzyme:Well, 100 mM HEPES pH 7.5, 8% Ethylene glycol, 7% Polyethylene glycol 8000, 10% glycerol
Resolution 2.00 Å R-free 0.228

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.