Current Protein Identity:P31345 New Search
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
2GMO NMR-structure of an independently folded C-terminal domain of influenza polymerase subunit PB2 Deposited 2006-04-07 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 678–759(82 aa) Fragment:PB2 C-terminal 678-759 fragment
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7.5;283 K;Ionic strength (raw mmCIF value) 200 mM NaCl;Pressure ambient
NMR sample composition 50 mM Tris buffer pH 7.5, 200 mM NaCl, 1 mM EDTA, 0.01% NaN3, 90% H2O, 10% D2O | 90% H2O/10% D2O
NMR sample composition 50 mM Tris buffer pH 7.5, 200 mM NaCl, 1 mM EDTA, 0.01% NaN3, 100% D2O | 100% D2O
Resolution not provided
2JDQ C-terminal domain of influenza A virus polymerase PB2 subunit in complex with human importin alpha5 Deposited 2007-01-11 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain E 678–759(82 aa) Fragment:C-TERMINAL DOMAIN, RESIDUES 678-759
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 4.6;1 MICROLITRE OF PROTEIN SOLUTION, AT 20 MG/ML IN 30 MM TRIS-HCL, PH 7.5, 150 MM NACL, 3 MM BETA-MERCAPTOETHANOL WAS MIXED WITH AN EQUAL VOLUME OF RESERVOIR SOLUTION (0.1 M NAAC, PH 4.6, 5 MM CACL2, 15% MPD)
Resolution 2.20 Å R-free 0.247
2JDQ C-terminal domain of influenza A virus polymerase PB2 subunit in complex with human importin alpha5 Deposited 2007-01-11 Assembly 2 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain D 678–759(82 aa) Fragment:C-TERMINAL DOMAIN, RESIDUES 678-759
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 4.6;1 MICROLITRE OF PROTEIN SOLUTION, AT 20 MG/ML IN 30 MM TRIS-HCL, PH 7.5, 150 MM NACL, 3 MM BETA-MERCAPTOETHANOL WAS MIXED WITH AN EQUAL VOLUME OF RESERVOIR SOLUTION (0.1 M NAAC, PH 4.6, 5 MM CACL2, 15% MPD)
Resolution 2.20 Å R-free 0.247
2VQZ Structure of the cap-binding domain of influenza virus polymerase subunit PB2 with bound m7GTP Deposited 2008-03-21 Assembly 1 Protein homooligomer Homooligomer;Protein × 5 PDB declaration: pentameric(5) Consistent with protein count
Chain A 318–483(166 aa) Fragment:CAP-BINDING DOMAIN, RESIDUES 318-483
Chain B 318–483(166 aa) Fragment:CAP-BINDING DOMAIN, RESIDUES 318-483
Chain D 318–483(166 aa) Fragment:CAP-BINDING DOMAIN, RESIDUES 318-483
Chain E 318–483(166 aa) Fragment:CAP-BINDING DOMAIN, RESIDUES 318-483
Chain F 318–483(166 aa) Fragment:CAP-BINDING DOMAIN, RESIDUES 318-483
Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) MGT 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 5 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4.6;1 MICROLITRE OF PROTEIN SOLUTION AT 11 MG PER ML IN 50 MM TRIS-HCL (PH 8.0), 200 MM NACL, 2 MM DTT, 5 MM M7GTP WITH AN EQUAL VOLUME OF A SOLUTION CONTAINING 0.1 M CITRIC ACID PH 4.6, 1.6-1.8 M SODIUM FORMATE.
Resolution 2.30 Å R-free 0.235
2VY6 Two domains from the C-terminal region of influenza A virus polymerase PB2 subunit Deposited 2008-07-18 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 538–753(216 aa) Fragment:627- AND NLS-DOMAINS, RESIDUES 538-753
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions 1 MICROLITRE OF 5.5 MG/ML PROTEIN SOLUTION IN 10 MM TRIS-HCL PH 7.0 AND 200 MM NACL WITH EQUAL VOLUME OF 100 MM HEPES PH 7.5 AND K/NA TARTRATE AT 1.2 M.
Resolution 1.95 Å R-free 0.258
2VY7 The 627-domain from influenza A virus polymerase PB2 subunit Deposited 2008-07-18 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 538–693(156 aa) Fragment:627- DOMAIN, RESIDUES 538-693
Non-standard monomer:Yes (specific site not provided by mmCIF) No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions 1 MICROLITRE OF 2.4 MG/ML PROTEIN SOLUTION IN 10 MM TRIS-HCL PH 7.0 AND 200 MM NACL WITH 1 MICROLITRE OF 100 MM CITRIC ACID PH 4.0-7.0 AND 1.4-1.6 M AMMONIUM SULFATE SOLUTION
Resolution 1.53 Å R-free 0.185
2VY8 The 627-domain from influenza A virus polymerase PB2 subunit with Glu- 627 Deposited 2008-07-19 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 538–693(156 aa) Fragment:627-DOMAIN, RESIDUES 538-693
Mutation:YES No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions 1 MICROLITRE OF 2.4 MG/ML PROTEIN SOLUTION IN 10 MM TRIS-HCL PH 7.0 AND 200 MM NACL WITH 1 MICROLITRE OF 100 MM CITRIC ACID PH 4.0-7.0 AND 1.4-1.6 M AMMONIUM SULFATE SOLUTION
Resolution 1.20 Å R-free 0.214
4NCE Influenza polymerase basic protein 2 (PB2) bound to 7-methyl-GTP Deposited 2013-10-24 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 317–483(167 aa) Fragment:CAP-BINDING DOMAIN
Mutation:R389K MGT 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE × 1 11H 9,10-dioxo-9,10-dihydroanthracene-2,6-disulfonic acid × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 4.7;298 K;0.7 uL of protein solution (9.7 mg/mL protein, 50 mM Tris buffer pH 8, 200 mM sodium chloride, 2 mM dithiothreitol, 5 mM m7GTP) was mixed with 0.35 uL Hampton Research Silver Bullet screening reagent #36. This mixture was combined with 0.35 uL of well solution (approximately 1.3 M sodium formate, 100 mM sodium citrate buffer pH 4.6, 5 mM dithiothreitol) and suspended over 1 mL of well solution, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.30 Å R-free 0.229
4NCM Influenza polymerase basic protein 2 (PB2) bound to a small-molecule inhibitor Deposited 2013-10-24 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 317–483(167 aa) Fragment:CAP-BINDING DOMAIN
Mutation:R389K 704 N~2~-[2-(5-chloro-1H-pyrrolo[2,3-b]pyridin-3-yl)-5-fluoropyrimidin-4-yl]-N,N-dimethyl-L-alaninamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 4.7;298 K;0.7 uL of protein solution (9.7 mg/mL protein, 50 mM Tris buffer pH 8, 200 mM sodium chloride, 2 mM dithiothreitol, 5 mM m7GTP) was mixed with 0.35 uL Hampton Research Silver Bullet screening reagent #36. This mixture was combined with 0.35 uL of well solution (approximately 1.3 M sodium formate, 100 mM sodium citrate buffer pH 4.6, 5 mM dithiothreitol) and suspended over 1 mL of well solution, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.82 Å R-free 0.191
4P1U Influenza A (flu) virus polymerase basic protein 2 (PB2) bound to VX787, an azaindole inhibitor Deposited 2014-02-27 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 318–483(166 aa)
Not recorded 21G (2S,3S)-3-[[5-fluoranyl-2-(5-fluoranyl-1H-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 4.7;293 K;1 ?L protein solution (2.8 mg/ml protein, 50 mM Tris buffer pH 8, 200 mM sodium chloride, 2 mM dithiothreitol, 1 mM anthraquinone-2,6-disulfonic acid disodium salt, 7.5 mM GTP) and 0.4 ?L well solution (1.5 M sodium formate, 100 mM sodium citrate buffer pH 4.7, 10 mM dithiothreitol) was suspended over 1 mL of well solution. The crystals were transferred to a soaking solution (3.25 M sodium formate, 100 mM sodium citrate buffer pH 4.7) containing 1 mM VRT-0928787. Crystals were incubated approximately 15 hours t room temperature, and then transferred to a cryo-preservative solution (soaking solution with 25 % v/v glycerol) prior to freezing in liquid nitrogen.
Resolution 2.52 Å R-free 0.243
4UAD Importin alpha 7 delta IBB in complex with Influenza PB2 Nuclear Localization Domain Deposited 2014-08-08 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain E 683–759(77 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;298 K;0.2 M magnesium acetate 12% PEG 8000 0.1M Na cacodylate at pH 6.5
Resolution 2.42 Å R-free 0.231
4UAE Importin alpha 3 delta IBB in complex with Influenza PB2 Nuclear Localization Domain Deposited 2014-08-08 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain F 678–759(82 aa)
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;298 K;0.1 M Na cacodylate, pH 6.5 0.1 M NaCl 1.1 M ammonium sulfate
Resolution 2.70 Å R-free 0.239
4UAF Importin alpha 1 delta IBB in complex with Influenza PB2 nuclear localization domain Deposited 2014-08-08 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain E 678–759(82 aa)
Not recorded PO4 PHOSPHATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;298 K;0.49 M Na phosphate monobasic 0.91 M K phosphate dibasic pH 6.9
Resolution 1.70 Å R-free 0.193
6EUV Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindole cap-binding inhibitor (VX-787) Deposited 2017-10-31 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 247–536(290 aa)
Not recorded 21G (2S,3S)-3-[[5-fluoranyl-2-(5-fluoranyl-1H-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 2 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;293 K;Crystals were obtained by mixing protein at 16 mg per mL mixed with 2 mM VX-787 in 0.1 M MES pH6, 0.7 M sodium formate pH 6.
Resolution 2.70 Å R-free 0.282
6EUV Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindole cap-binding inhibitor (VX-787) Deposited 2017-10-31 Assembly 2 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain C 247–536(290 aa)
Not recorded 21G (2S,3S)-3-[[5-fluoranyl-2-(5-fluoranyl-1H-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 2 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;293 K;Crystals were obtained by mixing protein at 16 mg per mL mixed with 2 mM VX-787 in 0.1 M MES pH6, 0.7 M sodium formate pH 6.
Resolution 2.70 Å R-free 0.282
6EUV Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindole cap-binding inhibitor (VX-787) Deposited 2017-10-31 Assembly 3 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain F 247–536(290 aa)
Not recorded 21G (2S,3S)-3-[[5-fluoranyl-2-(5-fluoranyl-1H-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;293 K;Crystals were obtained by mixing protein at 16 mg per mL mixed with 2 mM VX-787 in 0.1 M MES pH6, 0.7 M sodium formate pH 6.
Resolution 2.70 Å R-free 0.282
6EUV Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindole cap-binding inhibitor (VX-787) Deposited 2017-10-31 Assembly 4 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain I 247–536(290 aa)
Not recorded 21G (2S,3S)-3-[[5-fluoranyl-2-(5-fluoranyl-1H-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;293 K;Crystals were obtained by mixing protein at 16 mg per mL mixed with 2 mM VX-787 in 0.1 M MES pH6, 0.7 M sodium formate pH 6.
Resolution 2.70 Å R-free 0.282
6EUY Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindazole cap-binding inhibitor Deposited 2017-10-31 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 247–536(290 aa)
Not recorded BYB (2~{S},3~{S})-3-[[5-fluoranyl-2-(5-fluoranyl-1~{H}-pyrazolo[3,4-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 SO4 SULFATE ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;293 K;Crystals were obtained with A/H3N2 double domain at 15 mg/ml in 20 mM Tris pH 8, 150 mM NaCl, 5% glycerol, 2 mM beta-mercaptoethanolmixed with 5 mM of VX-787 mixed with 0.2 M ammonium sulphate, 20% PEG3350
Resolution 3.00 Å R-free 0.263
6EUY Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindazole cap-binding inhibitor Deposited 2017-10-31 Assembly 2 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain B 247–536(290 aa)
Not recorded BYB (2~{S},3~{S})-3-[[5-fluoranyl-2-(5-fluoranyl-1~{H}-pyrazolo[3,4-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;293 K;Crystals were obtained with A/H3N2 double domain at 15 mg/ml in 20 mM Tris pH 8, 150 mM NaCl, 5% glycerol, 2 mM beta-mercaptoethanolmixed with 5 mM of VX-787 mixed with 0.2 M ammonium sulphate, 20% PEG3350
Resolution 3.00 Å R-free 0.263
6EUY Structure of the midlink and cap-binding domains of influenza A polymerase PB2 subunit with a bound azaindazole cap-binding inhibitor Deposited 2017-10-31 Assembly 3 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain C 247–536(290 aa)
Not recorded BYB (2~{S},3~{S})-3-[[5-fluoranyl-2-(5-fluoranyl-1~{H}-pyrazolo[3,4-b]pyridin-3-yl)pyrimidin-4-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;293 K;Crystals were obtained with A/H3N2 double domain at 15 mg/ml in 20 mM Tris pH 8, 150 mM NaCl, 5% glycerol, 2 mM beta-mercaptoethanolmixed with 5 mM of VX-787 mixed with 0.2 M ammonium sulphate, 20% PEG3350
Resolution 3.00 Å R-free 0.263
7XME Structure of Influenza A virus polymerase basic protein 2 (PB2) with an azazindole derivative Deposited 2022-04-25 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 318–483(166 aa)
Not recorded IOD IODIDE ION × 1 GIH (2~{S},3~{S})-3-[[5-dimethoxyphosphoryl-4-(5-fluoranyl-1~{H}-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-2-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;277.15 K;Soudium,BIS-Tris propane pH 8.5,PEG3350
Resolution 2.52 Å R-free 0.330
7XME Structure of Influenza A virus polymerase basic protein 2 (PB2) with an azazindole derivative Deposited 2022-04-25 Assembly 2 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain B 318–483(166 aa)
Not recorded IOD IODIDE ION × 1 GIH (2~{S},3~{S})-3-[[5-dimethoxyphosphoryl-4-(5-fluoranyl-1~{H}-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-2-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;277.15 K;Soudium,BIS-Tris propane pH 8.5,PEG3350
Resolution 2.52 Å R-free 0.330
7XME Structure of Influenza A virus polymerase basic protein 2 (PB2) with an azazindole derivative Deposited 2022-04-25 Assembly 3 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain C 318–483(166 aa)
Not recorded IOD IODIDE ION × 1 GIH (2~{S},3~{S})-3-[[5-dimethoxyphosphoryl-4-(5-fluoranyl-1~{H}-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-2-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;277.15 K;Soudium,BIS-Tris propane pH 8.5,PEG3350
Resolution 2.52 Å R-free 0.330
7XME Structure of Influenza A virus polymerase basic protein 2 (PB2) with an azazindole derivative Deposited 2022-04-25 Assembly 4 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain D 318–483(166 aa)
Not recorded IOD IODIDE ION × 1 GIH (2~{S},3~{S})-3-[[5-dimethoxyphosphoryl-4-(5-fluoranyl-1~{H}-pyrrolo[2,3-b]pyridin-3-yl)pyrimidin-2-yl]amino]bicyclo[2.2.2]octane-2-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;277.15 K;Soudium,BIS-Tris propane pH 8.5,PEG3350
Resolution 2.52 Å R-free 0.330
9V44 Coupling of polymerase-nucleoprotein-RNA in an influenza virus mini ribonucleoprotein complex Deposited 2025-05-22 Assembly 1 Protein–RNA Heteromer;Protein × 4 PDB declaration: hexameric(6) Consistent with all polymers
Chain C 1–759(759 aa)
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.97 Å
9V46 Coupling of polymerase-nucleoprotein-RNA in an influenza virus mini ribonucleoprotein complex Deposited 2025-05-22 Assembly 1 Protein–RNA Heteromer;Protein × 3 PDB declaration: pentameric(5) Consistent with all polymers
Chain C 1–759(759 aa)
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.62 Å