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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：Q94702 New Search
50PDB entries
51Biological assembly
102chain/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
1A73 INTRON-ENCODED ENDONUCLEASE I-PPOI COMPLEXED WITH DNA Deposited 1998-03-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 1–163（163 aa） Fragment：ENDONUCLEASE (I-PPO) ENCODED ENDONUCLEASE
Chain B 1–163（163 aa） Fragment：ENDONUCLEASE (I-PPO) ENCODED ENDONUCLEASE
Not recorded MG MAGNESIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；THE CRYSTALS WERE GROWN FROM A 2:1 MOLAR RATIO SOLUTION OF PROTEIN AND DNA SUPPLEMENTED WITH 2.5 MM EDTA AND 5 MM SPERMINE. THE COMPLEX WAS CRYSTALLIZED FROM 21 - 27% PEG 4000, 0.1 M CITRATE, PH 5.4 - 5.8, 20 MM NACL, 2 MM EDTA., pH 5.6, VAPOR DIFFUSION, HANGING DROP
Resolution 1.80 Å R-free 0.297
1A74 I-PPOL HOMING ENDONUCLEASE/DNA COMPLEX Deposited 1998-03-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–163（163 aa）
Chain B 1–163（163 aa）
Not recorded ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.6；THE CRYSTALS WERE GROWN FROM A 2:1 MOLAR RATIO SOLUTION OF PROTEIN AND DNA SUPPLEMENTED WITH 2.5 MM EDTA AND 5 MM SPERMINE. THE COMPLEX WAS CRYSTALLIZED FROM 21 - 27% PEG 4000, 0.1 M CITRATE, PH 5.4 - 5.8; 20 MM NACL, 2 MM EDTA., pH 5.60, VAPOR DIFFUSION
Resolution 2.20 Å R-free 0.265
1CYQ INTRON ENCODED HOMING ENDONUCLEASE I-PPOI (H98A)/DNA HOMING SITE COMPLEX Deposited 1999-08-31 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Mutation：H98A Mutation：H98A MG MAGNESIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；PEG 3350, SODIUM CITRATE, SODIUM CHLORIDE, SPERMINE, EDTA, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 1.93 Å R-free 0.235
1CZ0 INTRON ENCODED HOMING ENDONUCLEASE I-PPOI/DNA COMPLEX LACKING CATALYTIC METAL ION Deposited 1999-08-31 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.6；277 K；PEG 3350, SODIUM CITRATE, SODIUM CHLORIDE, SPERMINE, EDTA, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 2.10 Å R-free 0.216
1EVW L116A MUTANT OF THE HOMING ENDONUCLEASE I-PPOI COMPLEXED TO HOMING SITE DNA. Deposited 2000-04-20 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 1–163（163 aa）
Chain B 1–163（163 aa）
Mutation：L116A Mutation：L116A MG MAGNESIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, MES pH 6.5, NaCl, MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 3.10 Å R-free 0.320
1EVW L116A MUTANT OF THE HOMING ENDONUCLEASE I-PPOI COMPLEXED TO HOMING SITE DNA. Deposited 2000-04-20 Assembly 2 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain C 1–163（163 aa）
Chain D 1–163（163 aa）
Mutation：L116A Mutation：L116A MG MAGNESIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, MES pH 6.5, NaCl, MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 3.10 Å R-free 0.320
1EVX APO CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE, I-PPOI Deposited 2000-04-20 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded ZN ZINC ION × 4 SO4 SULFATE ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；ammonium sulfate, PEG 8K, sodium cacodylate pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 4K
Resolution 2.00 Å R-free 0.229
1IPP HOMING ENDONUCLEASE/DNA COMPLEX Deposited 1998-03-19 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 23–185（163 aa）
Chain B 23–185（163 aa）
Not recorded CD CADMIUM ION × 4 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.4；THE CRYSTALS WERE GROWN FROM A 2:1 MOLAR RATIO SOLUTION OF PROTEIN AND DNA SUPPLEMENTED WITH 2.5 MM EDTA AND 5 MM SPERMINE. THE COMPLEX WAS CRYSTALLIZED FROM 21 - 27% PEG 4000, 0.1 M CITRATE, PH 5.4 - 5.8; 20 MM NACL, 2 MM EDTA., VAPOR DIFFUSION
Resolution 2.20 Å R-free 0.316
2O6M H98Q mutant of the homing endonuclease I-PPOI complexed with DNA Deposited 2006-12-07 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–163（163 aa）
Chain B 1–163（163 aa）
Mutation：H98Q Mutation：H98Q MG MAGNESIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；278 K；0.1 M Citrate, pH 5.2-5.8, 20 mM NaCl, 2 mM EDTA, 20-30% PEG 4000, VAPOR DIFFUSION, HANGING DROP, temperature 278K
Resolution 2.30 Å R-free 0.244
8VMO Homing endonuclease I-PpoI-DNA complex:ground state at pH7.0 (K+ MES) with Na+ Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.68 Å R-free 0.189
8VMP Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 10s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.45 Å R-free 0.185
8VMQ Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 20s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 1 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.48 Å R-free 0.188
8VMR Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 40s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 1 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.50 Å R-free 0.194
8VMS Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 80s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.42 Å R-free 0.189
8VMT Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 160s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.48 Å R-free 0.196
8VMU Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 320s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.52 Å R-free 0.194
8VMV Homing endonuclease I-PpoI-DNA complex:reaction at pH7.0 (K+ MES) with 500 uM Mg2+ for 600s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MG MAGNESIUM ION × 2 NA SODIUM ION × 1 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.59 Å R-free 0.196
8VMW Homing endonuclease I-PpoI-DNA complex:ground state at pH6.0 (K+ MES) with Na+ Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.60 Å R-free 0.198
8VMX Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 10s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.45 Å R-free 0.184
8VMY Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 20s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 MG MAGNESIUM ION × 1 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.53 Å R-free 0.189
8VMZ Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 40s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.57 Å R-free 0.196
8VN0 Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 80s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.60 Å R-free 0.196
8VN1 Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 160s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.79 Å R-free 0.200
8VN2 Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 320s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.63 Å R-free 0.192
8VN3 Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 600s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MG MAGNESIUM ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.63 Å R-free 0.193
8VN4 Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 1200s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MG MAGNESIUM ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.75 Å R-free 0.202
8VN5 Homing endonuclease I-PpoI-DNA complex:ground state at pH8.0 (Tris) with Na+ Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.65 Å R-free 0.188
8VN6 Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 10s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.54 Å R-free 0.197
8VN7 Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 20s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MG MAGNESIUM ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.67 Å R-free 0.196
8VN8 Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 40s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.60 Å R-free 0.194
8VN9 Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 80s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.69 Å R-free 0.192
8VNA Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 160s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MG MAGNESIUM ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.54 Å R-free 0.197
8VNB Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 240s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 ZN ZINC ION × 4 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.72 Å R-free 0.197
8VNC Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 320s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 ZN ZINC ION × 4 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.62 Å R-free 0.188
8VND Homing endonuclease I-PpoI-DNA complex:reaction at pH8.0 (Tris) with 500 uM Mg2+ for 600s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 ZN ZINC ION × 4 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.60 Å R-free 0.192
8VNE Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 10s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.57 Å R-free 0.196
8VNF Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 20s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.50 Å R-free 0.196
8VNG Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 40s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.60 Å R-free 0.192
8VNH Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 80s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.76 Å R-free 0.206
8VNJ Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 120s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.61 Å R-free 0.196
8VNK Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 160s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.61 Å R-free 0.194
8VNL Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 240s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.64 Å R-free 0.188
8VNM Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 320s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.59 Å R-free 0.190
8VNN Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 480s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.79 Å R-free 0.195
8VNO Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mn2+ for 600s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.70 Å R-free 0.193
8VNP Homing endonuclease I-PpoI-DNA complex at pH6.0 (K+ MES) with 0.2 M sodium malonate Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.79 Å R-free 0.190
8VNQ Homing endonuclease H98A I-PpoI-DNA complex at pH6.0 (K+ MES) with 1 mM Mn2+ for 1800s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.93 Å R-free 0.210
8VNR Homing endonuclease H98A I-PpoI-DNA complex at pH6.0 (K+ MES) with 1 mM Mn2+ for 600s and then 100 mM imidazole for 15 hrs Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.98 Å R-free 0.216
8VNS Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 200 mM Mn2+ for 600s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded MN MANGANESE (II) ION × 2 NA SODIUM ION × 2 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 2.11 Å R-free 0.252
8VNT Homing endonuclease I-PpoI-DNA complex:reaction at pH6.0 (K+ MES) with 500 uM Mg2+ for 1800s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: hexameric（6） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded GOL GLYCEROL × 5 ZN ZINC ION × 4 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 1.62 Å R-free 0.198
8VNU Homing endonuclease H98A I-PpoI-DNA complex at pH6.0 (K+ MES) with 70 mM Tl+ for 1800s Deposited 2024-01-13 Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 2–163（162 aa）
Chain B 2–163（162 aa）
Not recorded TL THALLIUM (I) ION × 2 NA SODIUM ION × 2 GOL GLYCEROL × 5 ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.2 M Sodium Malonate, PEG 3350, 0.1 M MES
Resolution 2.20 Å R-free 0.219

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.