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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：P00581 New Search
24PDB entries
29Biological assembly
31chain/assembly records
Main Difference Dimensions in This Set
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
1SKR T7 DNA Polymerase Complexed To DNA Primer/Template and ddATP Deposited 2004-03-05 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 3 DAD 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；PEG 8000, ammonium sulfate, aces, ethylene glycol, DTT , pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 2.40 Å R-free 0.270
1SKS Binary 3' complex of T7 DNA polymerase with a DNA primer/template containing a cis-syn thymine dimer on the template Deposited 2004-03-05 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；VAPOR DIFFUSION, HANGING DROP, pH 7.5
Resolution 2.30 Å R-free 0.266
1SKW Binary 3' complex of T7 DNA polymerase with a DNA primer/template containing a disordered cis-syn thymine dimer on the template Deposited 2004-03-05 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；VAPOR DIFFUSION, HANGING DROP, pH 7.5
Resolution 2.30 Å R-free 0.278
1SL0 Ternary 3' complex of T7 DNA polymerase with a DNA primer/template containing a disordered cis-syn thymine dimer on the template and an incoming nucleotide Deposited 2004-03-05 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 1 DAD 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；pH 7.5, VAPOR DIFFUSION, HANGING DROP
Resolution 3.20 Å R-free 0.351
1SL0 Ternary 3' complex of T7 DNA polymerase with a DNA primer/template containing a disordered cis-syn thymine dimer on the template and an incoming nucleotide Deposited 2004-03-05 Assembly 2 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain C 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 1 DAD 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；pH 7.5, VAPOR DIFFUSION, HANGING DROP
Resolution 3.20 Å R-free 0.351
1SL1 Binary 5' complex of T7 DNA polymerase with a DNA primer/template containing a cis-syn thymine dimer on the template Deposited 2004-03-05 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；VAPOR DIFFUSION, HANGING DROP, pH 7.5
Resolution 2.20 Å R-free 0.262
1SL2 Ternary 5' complex of T7 DNA polymerase with a DNA primer/template containing a cis-syn thymine dimer on the template and an incoming nucleotide Deposited 2004-03-05 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) MG MAGNESIUM ION × 3 DAD 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；VAPOR DIFFUSION, HANGING DROP, pH 7.5
Resolution 2.30 Å R-free 0.279
1T7P T7 DNA POLYMERASE COMPLEXED TO DNA PRIMER/TEMPLATE,A NUCLEOSIDE TRIPHOSPHATE, AND ITS PROCESSIVITY FACTOR THIOREDOXIN Deposited 1997-09-24 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：DEL(118-123) DG3 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；pH 6.5
Resolution 2.20 Å R-free 0.279
1T8E T7 DNA Polymerase Ternary Complex with dCTP at the Insertion Site. Deposited 2004-05-12 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Not recorded MG MAGNESIUM ION × 3 SO4 SULFATE ION × 1 DCT 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE × 1 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 PG4 TETRAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.54 Å R-free 0.255
1TK0 T7 DNA polymerase ternary complex with 8 oxo guanosine and ddCTP at the insertion site Deposited 2004-06-07 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：deletion 118-123 MG MAGNESIUM ION × 3 SO4 SULFATE ION × 2 DCT 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE × 1 1PE PENTAETHYLENE GLYCOL × 1 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；PEG8000, Amonium Sulfate, PEG400, Ethylene Glycol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 21K
Resolution 2.30 Å R-free 0.263
1TK5 T7 DNA polymerase binary complex with 8 oxo guanosine in the templating strand Deposited 2004-06-08 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Not recorded MG MAGNESIUM ION × 1 SO4 SULFATE ION × 2 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 1PE PENTAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；PEG 8000, Ammonium Sulfate. PEG400, Etylen Glyco, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 100K
Resolution 2.20 Å R-free 0.246
1TK8 T7 DNA polymerase ternary complex with 8 oxo guanosine and dAMP at the elongation site Deposited 2004-06-08 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Not recorded MG MAGNESIUM ION × 4 SO4 SULFATE ION × 2 D3T 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE × 1 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 1PE PENTAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；PEG 8000, Ammonium Sulfate, PEG400, Ethylene Glycol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 2.50 Å R-free 0.261
1TKD T7 DNA polymerase ternary complex with 8 oxo guanosine and dCMP at the elongation site Deposited 2004-06-08 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Not recorded MG MAGNESIUM ION × 3 SO4 SULFATE ION × 3 D3T 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE × 1 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 1PE PENTAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；PEG8000, Ammonium Sulfate, PEG400, Ethylene Glycol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 2.49 Å R-free 0.265
1X9M T7 DNA polymerase in complex with an N-2-acetylaminofluorene-adducted DNA Deposited 2004-08-23 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：deletion of 118-123 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7.5；295 K；PEG 8000, ammonium sulfate, magnesium chloride, pH 7.5, VAPOR DIFFUSION, temperature 295K
Resolution 2.10 Å R-free 0.236
1X9S T7 DNA polymerase in complex with a primer/template DNA containing a disordered N-2 aminofluorene on the template, crystallized with dideoxy-CTP as the incoming nucleotide. Deposited 2004-08-24 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：deletion of 118-123 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；PEG 8000, ammonium sulfate, magnesium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.70 Å R-free 0.279
1X9W T7 DNA polymerase in complex with a primer/template DNA containing a disordered N-2 aminofluorene on the template, crystallized with dideoxy-ATP as the incoming nucleotide. Deposited 2004-08-24 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：deletion of 118-123 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；PEG 8000, ammonium sulfate, magnesium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.30 Å R-free 0.258
1ZYQ T7 DNA polymerase in complex with 8oG and incoming ddATP Deposited 2005-06-10 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：K536A MG MAGNESIUM ION × 3 DAD 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；PEG, amonium sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 2.70 Å R-free 0.272
2AJQ Structure of replicative DNA polymerase provides insigts into the mechanisms for processivity, frameshifting and editing Deposited 2005-08-02 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：Residues 5 and 7 mutated to Ala No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；273 K；A complex of 1x10^-4 M T7 DNA polymerase 5A7A:thioredoxin was assembled with an equimolar amount of double stranded DNA substrate. Crystallization was achieved using a buffer containing 50mM HEPES pH 7.5, 10mM MgCl_2, 2mM DTT, and 0.5 mM terminal ddTTP Seed crystals were grown by hanging drop vapor diffusion by mixing 1ul each of protein-DNA solution and a reservoir solutions containing between 16 to 20% PEG 8000, 100mM ACES pH 7.5, 120 ammonium sulfate, 30mM MgCl2, and 5mM DTT. These crystals were used to streak-seed a grid of protein/reservoir solutions with concentrations of PEG 8000 between 13 to 15%. Pyramidal crystals appeared overnight and reached a maximum size of ~150 X 150 X 100 um3 after 3 to 4 days. Crystals were harvested overnight in mother-liquor containing 10 % PEG 400, temperature 273K, VAPOR DIFFUSION, HANGING DROP
Resolution 2.60 Å R-free 0.284
2AJQ Structure of replicative DNA polymerase provides insigts into the mechanisms for processivity, frameshifting and editing Deposited 2005-08-02 Assembly 2 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain F 1–704（704 aa）
Mutation：Residues 5 and 7 mutated to Ala No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；273 K；A complex of 1x10^-4 M T7 DNA polymerase 5A7A:thioredoxin was assembled with an equimolar amount of double stranded DNA substrate. Crystallization was achieved using a buffer containing 50mM HEPES pH 7.5, 10mM MgCl_2, 2mM DTT, and 0.5 mM terminal ddTTP Seed crystals were grown by hanging drop vapor diffusion by mixing 1ul each of protein-DNA solution and a reservoir solutions containing between 16 to 20% PEG 8000, 100mM ACES pH 7.5, 120 ammonium sulfate, 30mM MgCl2, and 5mM DTT. These crystals were used to streak-seed a grid of protein/reservoir solutions with concentrations of PEG 8000 between 13 to 15%. Pyramidal crystals appeared overnight and reached a maximum size of ~150 X 150 X 100 um3 after 3 to 4 days. Crystals were harvested overnight in mother-liquor containing 10 % PEG 400, temperature 273K, VAPOR DIFFUSION, HANGING DROP
Resolution 2.60 Å R-free 0.284
5IKN Crystal Structure of the T7 Replisome in the Absence of DNA Deposited 2016-03-03 Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric（13） Consistent with protein count
Chain A 1–704（704 aa）
Chain B 1–704（704 aa）
Chain C 1–704（704 aa）
Mutation：D5A, E7A Mutation：D5A, E7A Mutation：D5A, E7A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；295.15 K；1.47-1.62M Sodium Formate 0.1M Tris pH 7.5
Resolution 4.80 Å R-free 0.318
6N7W Structure of bacteriophage T7 leading-strand DNA polymerase (D5A/E7A)/Trx in complex with a DNA fork and incoming dTTP (from multiple lead complexes) Deposited 2018-11-28 Assembly 1 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain H 1–704（704 aa）
Mutation：D5A, E7A MG MAGNESIUM ION × 1 TTP THYMIDINE-5'-TRIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
6N9U Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) interacting with primase domains of two gp4 subunits bound to an RNA/DNA hybrid and dTTP (from LagS1) Deposited 2018-12-04 Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: pentameric（5） Consistent with all polymers
Chain H 1–704（704 aa）
Mutation：D5A, E7A ZN ZINC ION × 1 TTP THYMIDINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6N9V Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) and gp4 (helicase/primase) bound to DNA including RNA/DNA hybrid, and an incoming dTTP (LagS1) Deposited 2018-12-04 Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain H 1–704（704 aa）
Mutation：D5A, E7A TTP THYMIDINE-5'-TRIPHOSPHATE × 6 MG MAGNESIUM ION × 7 ZN ZINC ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
6N9W Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) and gp4 (helicase/primase) bound to DNA including RNA/DNA hybrid, and an incoming dTTP (LagS2) Deposited 2018-12-04 Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain H 1–704（704 aa）
Mutation：D5A, E7A ZN ZINC ION × 1 TTP THYMIDINE-5'-TRIPHOSPHATE × 5 MG MAGNESIUM ION × 6 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
6N9X Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) and gp4 (helicase/primase) bound to DNA including RNA/DNA hybrid, and an incoming dTTP (LagS3) Deposited 2018-12-04 Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain H 1–704（704 aa）
Mutation：D5A, E7A ZN ZINC ION × 1 TTP THYMIDINE-5'-TRIPHOSPHATE × 5 MG MAGNESIUM ION × 6 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
6P7E Structure of T7 DNA Polymerase Bound to a Primer/Template DNA and a Peptide that Mimics the C-terminal Tail of the Primase-Helicase Deposited 2019-06-05 Assembly 1 Protein–DNA Heteromer；Protein × 3 PDB declaration: pentameric（5） Consistent with all polymers
Chain A 1–704（704 aa）
Mutation：D5A, E7A TTP THYMIDINE-5'-TRIPHOSPHATE × 2 MG MAGNESIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295.15 K；25% PEG 4000, 0.1M LiSO4, and 0.1 M Tris pH 7.5
Resolution 3.00 Å R-free 0.248
6P7E Structure of T7 DNA Polymerase Bound to a Primer/Template DNA and a Peptide that Mimics the C-terminal Tail of the Primase-Helicase Deposited 2019-06-05 Assembly 2 Protein–DNA Heteromer；Protein × 3 PDB declaration: pentameric（5） Consistent with all polymers
Chain B 1–704（704 aa）
Mutation：D5A, E7A TTP THYMIDINE-5'-TRIPHOSPHATE × 2 MG MAGNESIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295.15 K；25% PEG 4000, 0.1M LiSO4, and 0.1 M Tris pH 7.5
Resolution 3.00 Å R-free 0.248
6P7E Structure of T7 DNA Polymerase Bound to a Primer/Template DNA and a Peptide that Mimics the C-terminal Tail of the Primase-Helicase Deposited 2019-06-05 Assembly 3 Protein–DNA Heteromer；Protein × 3 PDB declaration: pentameric（5） Consistent with all polymers
Chain C 1–704（704 aa）
Mutation：D5A, E7A TTP THYMIDINE-5'-TRIPHOSPHATE × 2 MG MAGNESIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295.15 K；25% PEG 4000, 0.1M LiSO4, and 0.1 M Tris pH 7.5
Resolution 3.00 Å R-free 0.248
6P7E Structure of T7 DNA Polymerase Bound to a Primer/Template DNA and a Peptide that Mimics the C-terminal Tail of the Primase-Helicase Deposited 2019-06-05 Assembly 4 Protein–DNA Heteromer；Protein × 2 PDB declaration: tetrameric（4） Consistent with all polymers
Chain D 1–704（704 aa）
Mutation：D5A, E7A TTP THYMIDINE-5'-TRIPHOSPHATE × 2 MG MAGNESIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295.15 K；25% PEG 4000, 0.1M LiSO4, and 0.1 M Tris pH 7.5
Resolution 3.00 Å R-free 0.248

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.