6sjv

Structure of HPV18 E6 oncoprotein in complex with mutant E6AP LxxLL motif

Method: X-RAY DIFFRACTION D_max: 96.1 Å Quality: REASONABLE

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A

Homo sapiens

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Insufficient information Homooligomer Protein × 2 其他Polymer 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 27–392	Mutation：;K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R ;	alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose × 2 ZN ZINC ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions：EVAPORATION；pH 6.5；298 K；Sodium Cacodylate 100 mM pH 6.5, PEG 8000 5%, 2-methyl-2,4-pentanediol 40%	Resolution 2.03 Å R-free 0.242

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 6SJV	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
6I4Y X-ray structure of the human mitochondrial PRELID3b-TRIAP1 complex Deposited 2018-11-12	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 27–393（367 aa）	Not recorded	NA SODIUM ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；Tacsimate (60% v/v) pH 7	Resolution 2.91 Å R-free 0.296
6QF7 Crystal structures of the recombinant beta-Factor XIIa protease with bound Thr-Arg and Pro-Arg substrate mimetics Deposited 2019-01-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 26–393（368 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 0G6 D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide × 1	X-RAY DIFFRACTION X-ray crystallization conditions EVAPORATION；292 K；0.1 M sodium citrate, pH 5.6 with 10% PEG 4000 and 0.15 M MgCl2	Resolution 4.00 Å R-free 0.356
6QF7 Crystal structures of the recombinant beta-Factor XIIa protease with bound Thr-Arg and Pro-Arg substrate mimetics Deposited 2019-01-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 26–393（368 aa）	Not recorded	0G6 D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide × 1	X-RAY DIFFRACTION X-ray crystallization conditions EVAPORATION；292 K；0.1 M sodium citrate, pH 5.6 with 10% PEG 4000 and 0.15 M MgCl2	Resolution 4.00 Å R-free 0.356
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 10 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain J 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1 PO4 PHOSPHATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 11 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain K 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1 SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 12 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain L 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1 SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain B 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain C 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1 SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 4 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain D 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1 PO4 PHOSPHATE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 5 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain E 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 6 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain F 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 7 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain G 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 8 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain H 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6QUG GHK tagged MBP-Nup98(1-29) Deposited 2019-02-27	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 9 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain I 27–392（366 aa）	Not recorded	CU COPPER (II) ION × 1 PO4 PHOSPHATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；PEG550, PEG20,000, MOPS, HEPES, sodium Phosphate, sodium nitrate, ammonium sulphate	Resolution 2.70 Å R-free 0.226
6WBH Crystal structure of mRECK(CC4) in fusion with engineered MBP at medium resolution Deposited 2020-03-26	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 29–392（364 aa）	Mutation：D84A,K85A,E174A,N175A,A217H,K221H,K241A,A314V,I319V,E361A,K364A,D365A	CL CHLORIDE ION × 1 ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 4.6；293 K；0.2 M ammonium sulfate, 0.1 M sodium acetate, pH 4.6, 25% PEG 4000	Resolution 2.46 Å R-free 0.220
6WBJ High resolution crystal structure of mRECK(CC4) in fusion with engineered MBP Deposited 2020-03-26	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 29–392（364 aa）	Mutation：D84A,K85A,E174A,N175A,A217H,K221H,K241A,A314V,I319V,E361A,K364A,D365A	SO4 SULFATE ION × 1 ZN ZINC ION × 2 GOL GLYCEROL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 4.6；293 K；0.2 M ammonium sulfate, 0.1 M sodium acetate, pH 4.6, 25% PEG 4000	Resolution 1.65 Å R-free 0.177
7B01 ADAMTS13-CUB12 Deposited 2020-11-18	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 27–387（361 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；21% (v/v) PEG1500, 100 mM Sodium propionate, sodium cacodylate trihydrate, 200 mM MnCl2, Bis-Tris propane, pH 5	Resolution 2.80 Å R-free 0.292
7CY5 Crystal Structure of CMD1 in complex with vitamin C Deposited 2020-09-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 27–392（366 aa） Fragment：dioxygenase,dioxygenase	Mutation：D108A, K109A, E198A, N199A, E385A, K388A, D389A	FE FE (III) ION × 1 ASC ASCORBIC ACID × 1 CIT CITRIC ACID × 2	X-RAY DIFFRACTION X-ray crystallization conditions EVAPORATION；pH 5.6；290 K；2% Tacsimate, 0.1M CIT pH 5.6, 16% PEG 3350	Resolution 2.20 Å R-free 0.221
7CY6 Crystal Structure of CMD1 in complex with 5mC-DNA Deposited 2020-09-03	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: trimeric	Chain A 27–392（366 aa）	Mutation：D108A, K109A, E198A, N199A, E385A, K388A, D389A	PG4 TETRAETHYLENE GLYCOL × 2 EDO 1,2-ETHANEDIOL × 13 FE2 FE (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；290 K；15% (v/v) 2-propanol, 0.1 M sodium citrate, pH 5.0, and 10% (w/v) PEG 10000	Resolution 2.10 Å R-free 0.227
7CY7 Crystal Structure of CMD1 in complex with DNA Deposited 2020-09-03	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: trimeric	Chain A 27–392（366 aa）	Mutation：D108A, K109A, E198A, N199A, E385A, K388A, D389A	EDO 1,2-ETHANEDIOL × 8 IPA ISOPROPYL ALCOHOL × 1 FE2 FE (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；290 K；15% (v/v) 2-propanol, 0.1 M sodium citrate, pH 5.0, and 10% (w/v) PEG 10000	Resolution 2.15 Å R-free 0.221
7CY8 Crystal Structure of CMD1 in complex with 5mC-DNA and vitamin C Deposited 2020-09-03	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: trimeric	Chain A 27–392（366 aa）	Mutation：D108A, K109A, E198A, N199A, E385A, K388A, D389A	ASC ASCORBIC ACID × 1 EDO 1,2-ETHANEDIOL × 2 IPA ISOPROPYL ALCOHOL × 1 FE2 FE (II) ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；290 K；15% (v/v) 2-propanol, 0.1 M sodium citrate, pH 5.0, and 10% (w/v) PEG 10000	Resolution 2.40 Å R-free 0.235
7U0G structure of LIN28b nucleosome bound 3 OCT4 Deposited 2022-02-18	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 13 PDB declaration: pentadecameric	Chain K 26–392（367 aa） Chain L 26–392（367 aa） Chain M 26–392（367 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.60 Å
7U0I Structure of LIN28b nucleosome bound 2 OCT4 Deposited 2022-02-18	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 12 PDB declaration: tetradecameric	Chain L 26–392（367 aa） Chain M 26–392（367 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.60 Å
7XMN Structure of SARS-CoV-2 ORF8 Deposited 2022-04-26	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 27–392（366 aa）	Not recorded	MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 2 SO4 SULFATE ION × 10 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NNH NOR-N-OMEGA-HYDROXY-L-ARGININE × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；0.1 M MES pH6.1, 2%Polyethylene glycol 400, 2.1 M Ammonium sulfate	Resolution 2.30 Å R-free 0.245
8CDY N-terminal domain of human apolipoprotein E Deposited 2023-02-01	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 27–392（366 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293.15 K；HEPES, PEG 6000	Resolution 1.90 Å R-free 0.231
8CE0 N-terminal domain of human apolipoprotein E Deposited 2023-02-01	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 24–396（373 aa）	Not recorded	GOL GLYCEROL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293.15 K；NaCl, Hepes, PEG 8000	Resolution 1.75 Å R-free 0.215
8D9X Cryo-EM structure of human DELE1 in oligomeric form Deposited 2022-06-11	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Homooligomer；Protein × 8 PDB declaration: octameric	Chain A 27–387（361 aa） Chain B 27–387（361 aa） Chain C 27–387（361 aa） Chain D 27–387（361 aa） Chain E 27–387（361 aa） Chain F 27–387（361 aa） Chain G 27–387（361 aa） Chain H 27–387（361 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.80 Å
8JYX Crystal structure of the gasdermin-like protein RCD-1-1 from Neurospora crassa Deposited 2023-07-04	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 27–392（366 aa）	Mutation：D108A, K109A, E198A, N199A, K265A, K388A, D389A, K174A, K175A, K176A	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.4；291 K；0.1 M Bicine pH 7.4, 11% PEG 3350, 3% (w/v) D(+)-Glucose monohydrate	Resolution 2.35 Å R-free 0.248
8JYX Crystal structure of the gasdermin-like protein RCD-1-1 from Neurospora crassa Deposited 2023-07-04	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain B 27–392（366 aa）	Mutation：D108A, K109A, E198A, N199A, K265A, K388A, D389A, K174A, K175A, K176A	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.4；291 K；0.1 M Bicine pH 7.4, 11% PEG 3350, 3% (w/v) D(+)-Glucose monohydrate	Resolution 2.35 Å R-free 0.248
8SPS High resolution structure of ESRRB nucleosome bound OCT4 at site a and site b Deposited 2023-05-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 12 PDB declaration: tetradecameric	Chain L 26–387（362 aa） Chain M 26–387（362 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.00 Å
8SPU Structure of ESRRB nucleosome bound OCT4 at site c Deposited 2023-05-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 11 PDB declaration: tridecameric	Chain L 26–387（362 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.80 Å

19 other PDB entries and 32 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	A0A376KDN7_ECOLX
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 2–367； UniProt 27–392

Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A

Homo sapiens

UniProt P06463

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Insufficient information Homooligomer Protein × 2 其他Polymer 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 1–152	Mutation：;K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R ;	alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose × 2 ZN ZINC ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions：EVAPORATION；pH 6.5；298 K；Sodium Cacodylate 100 mM pH 6.5, PEG 8000 5%, 2-methyl-2,4-pentanediol 40%	Resolution 2.03 Å R-free 0.242

Other States of the Same Protein in the Database

Other PDB	Difference from Current Entry 6SJV	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
2I04 X-ray crystal structure of MAGI-1 PDZ1 bound to the C-terminal peptide of HPV18 E6 Deposited 2006-08-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain C 152–158（7 aa） Chain D 152–158（7 aa）	Not recorded	SO4 SULFATE ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 4.6；291 K；PEG2000, 0.1 M Na Acetate , pH 4.6, VAPOR DIFFUSION, temperature 291K	Resolution 2.15 Å R-free 0.269
2I0I X-ray crystal structure of Sap97 PDZ3 bound to the C-terminal peptide of HPV18 E6 Deposited 2006-08-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 152–158（7 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.5；291 K；PEG4000, 0.1M MES, pH 6.5, VAPOR DIFFUSION, temperature 291K	Resolution 2.80 Å R-free 0.289
2I0I X-ray crystal structure of Sap97 PDZ3 bound to the C-terminal peptide of HPV18 E6 Deposited 2006-08-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain E 152–158（7 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.5；291 K；PEG4000, 0.1M MES, pH 6.5, VAPOR DIFFUSION, temperature 291K	Resolution 2.80 Å R-free 0.289
2I0I X-ray crystal structure of Sap97 PDZ3 bound to the C-terminal peptide of HPV18 E6 Deposited 2006-08-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain F 152–158（7 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.5；291 K；PEG4000, 0.1M MES, pH 6.5, VAPOR DIFFUSION, temperature 291K	Resolution 2.80 Å R-free 0.289
2I0L X-ray crystal structure of Sap97 PDZ2 bound to the C-terminal peptide of HPV18 E6. Deposited 2006-08-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 152–158（7 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 8；291 K；2M Ammonium Sulfate, 0.1M sodium citrate, pH 8.0, VAPOR DIFFUSION, temperature 291K	Resolution 2.31 Å R-free 0.302
2I0L X-ray crystal structure of Sap97 PDZ2 bound to the C-terminal peptide of HPV18 E6. Deposited 2006-08-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 152–158（7 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 8；291 K；2M Ammonium Sulfate, 0.1M sodium citrate, pH 8.0, VAPOR DIFFUSION, temperature 291K	Resolution 2.31 Å R-free 0.302
4JOR CFTR Associated Ligand (CAL) PDZ domain bound to HPV18 E6 oncoprotein C-terminal peptide (RLQRRRETQV) Deposited 2013-03-18	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 149–158（10 aa） Fragment：HPV18 E6 peptide	Not recorded	GOL GLYCEROL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；29% (w/v) polyethylene glycol (PEG), 0.075 M sodium chloride, 0.1 M tris(hydroxymethyl)aminomethane (Tris), pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K	Resolution 1.34 Å R-free 0.181
4JOR CFTR Associated Ligand (CAL) PDZ domain bound to HPV18 E6 oncoprotein C-terminal peptide (RLQRRRETQV) Deposited 2013-03-18	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 149–158（10 aa） Fragment：HPV18 E6 peptide	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；29% (w/v) polyethylene glycol (PEG), 0.075 M sodium chloride, 0.1 M tris(hydroxymethyl)aminomethane (Tris), pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K	Resolution 1.34 Å R-free 0.181
5K4F CAL PDZ mutant C319A with a peptide Deposited 2016-05-20	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 149–158（10 aa） Fragment：UNP residues 149-158	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；31% PEG3350, 125mM NaCl, 0.1M Tris7.5	Resolution 1.36 Å R-free 0.183
5K4F CAL PDZ mutant C319A with a peptide Deposited 2016-05-20	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 149–158（10 aa） Fragment：UNP residues 149-158	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；31% PEG3350, 125mM NaCl, 0.1M Tris7.5	Resolution 1.36 Å R-free 0.183
6ZFD 14-3-3 zeta bound to the phosphorylated 18E6 C-terminus Deposited 2020-06-17	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 152–158（7 aa） Chain B 152–158（7 aa）	Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF)	GOL GLYCEROL × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；277 K；19% PEG4000, 0.1M cacodylate, 20%glycerol as a cryoprotectant	Resolution 1.90 Å R-free 0.207
6ZFG 14-3-3 zeta chimera with 18E6 and fusicoccin Deposited 2020-06-17	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 152–158（7 aa） Chain B 152–158（7 aa）	Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF)	GOL GLYCEROL × 1 FSC FUSICOCCIN × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；19% PEG4000, 0.1M cacodylate, 20%glycerol as a cryoprotectant	Resolution 1.85 Å R-free 0.219
8B82 Crystal structure of Scribble PDZ1 with human papillomavirus strain 16 E6 peptide Deposited 2022-10-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain C 149–158（10 aa） Chain D 149–158（10 aa）	Not recorded	CL CHLORIDE ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；293.15 K；15% PEG 4000, 0.05 M Ammonium Sulfate	Resolution 2.80 Å R-free 0.278
8OEP Crystal structure of the PTPN3 PDZ domain bound to the HPV18 E6 oncoprotein C-terminal peptide Deposited 2023-03-11	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 146–158（13 aa）	Not recorded	NA SODIUM ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；20% w/v PEG 3350, 0.2 M NaI at pH 7;	Resolution 1.87 Å R-free 0.249
8OEP Crystal structure of the PTPN3 PDZ domain bound to the HPV18 E6 oncoprotein C-terminal peptide Deposited 2023-03-11	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 146–158（13 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；20% w/v PEG 3350, 0.2 M NaI at pH 7;	Resolution 1.87 Å R-free 0.249

9 other PDB entries and 15 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	VE6_HPV18
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 372–523； UniProt 1–152

Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A

Homo sapiens

UniProt Q05086

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Insufficient information Homooligomer Protein × 2 其他Polymer 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 403–417	Mutation：;K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R ;	alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose × 2 ZN ZINC ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions：EVAPORATION；pH 6.5；298 K；Sodium Cacodylate 100 mM pH 6.5, PEG 8000 5%, 2-methyl-2,4-pentanediol 40%	Resolution 2.03 Å R-free 0.242

Other States of the Same Protein in the Database

Other PDB	Difference from Current Entry 6SJV	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1C4Z STRUCTURE OF AN E6AP-UBCH7 COMPLEX: INSIGHTS INTO THE UBIQUITINATION PATHWAY Deposited 1999-10-14	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 518–875（358 aa） Fragment：HECT CATALYTIC DOMAIN Chain B 518–875（358 aa） Fragment：HECT CATALYTIC DOMAIN Chain C 518–875（358 aa） Fragment：HECT CATALYTIC DOMAIN	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；PEG1500, MAGNESIUM CHLORIDE, MES-NA, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K	Resolution 2.60 Å R-free 0.290
1D5F STRUCTURE OF E6AP: INSIGHTS INTO UBIQUITINATION PATHWAY Deposited 1999-10-07	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 495–852（358 aa） Chain B 495–852（358 aa） Chain C 495–852（358 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；PEG1500, AMMONIUM ACETATE,SODIUM CHLORIDE, HEPES-NA, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K	Resolution 2.80 Å R-free 0.283
1EQX SOLUTION STRUCTURE DETERMINATION AND MUTATIONAL ANALYSIS OF THE PAPILLOMAVIRUS E6-INTERACTING PEPTIDE OF E6AP Deposited 2000-04-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 401–418（18 aa） Fragment：E6-INTERACTING PEPTIDE	Not recorded	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 6.2；288 K；Ionic strength (raw mmCIF value) 10 mM Na3PO4；Pressure ambient NMR sample composition 2 mM E6ap; 10 mM phosphate buffer; 40% TFE, 60% H2O \| 40% TFE, 60% H2O	Resolution not provided
4GIZ Crystal structure of full-length human papillomavirus oncoprotein E6 in complex with LXXLL peptide of ubiquitin ligase E6AP at 2.55 A resolution Deposited 2012-08-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 403–414（12 aa） Fragment：unp residues 27-392/403-414	Mutation：D83A,K84A,K240A,E360A,D364A,K363A	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9.5；290 K；10% peg8000, pH 9.5, VAPOR DIFFUSION, SITTING DROP, temperature 290K	Resolution 2.55 Å R-free 0.196
4GIZ Crystal structure of full-length human papillomavirus oncoprotein E6 in complex with LXXLL peptide of ubiquitin ligase E6AP at 2.55 A resolution Deposited 2012-08-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Insufficient information Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 403–414（12 aa） Fragment：unp residues 27-392/403-414	Mutation：D83A,K84A,K240A,E360A,D364A,K363A	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9.5；290 K；10% peg8000, pH 9.5, VAPOR DIFFUSION, SITTING DROP, temperature 290K	Resolution 2.55 Å R-free 0.196
6SLM Crystal structure of full-length HPV31 E6 oncoprotein in complex with LXXLL peptide of ubiquitin ligase E6AP Deposited 2019-08-20	Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric	Chain A 403–417（15 aa）	Not recorded	ZN ZINC ION × 2 GOL GLYCEROL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；200mM tri-lithium citrate, 20% PEG 33350 protein concentration: 30mg/ml cryo condition: 35% glycerol	Resolution 2.80 Å R-free 0.268
6TGK Domain swapped E6AP C-lobe dimer Deposited 2019-11-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain C 765–869（105 aa）	Not recorded	ACT ACETATE ION × 4 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；0.1 M CaCl 0.1 M Sodiumacetat 30% PEG400	Resolution 1.30 Å R-free 0.207
6U19 Solution Structure of the RAZUL domain from 26S proteasome subunit hRpn10/S5a complexed with the AZUL domain from E3 ligase E6AP/UBE3A Deposited 2019-08-15	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 24–87（64 aa） Fragment：UNP Residues 24-87	Not recorded	ZN ZINC ION × 1	SOLUTION NMR NMR measurement conditions pH 6.5；298 K；Ionic strength (raw mmCIF value) 50；Pressure 1 NMR sample composition 0.5 mM [U-100% 13C; U-100% 15N; U-35% 2H] 26S proteasome non-ATPase regulatory subunit 4 (305-377), 0.75 mM Ubiquitin-protein ligase E3A (24-87), 10 mM MOPS, 50 mM sodium chloride, 5 mM DTT, 10 uM zinc sulphate, 0.1 % sodium azide, 1 mM pefabloc, 95% H2O/5% D2O \| 95% H2O/5% D2O NMR sample composition 0.5 mM [U-100% 13C; U-100% 15N; U-35% 2H] 26S proteasome non-ATPase regulatory subunit 4 (305-377), 0.75 mM Ubiquitin-protein ligase E3A (24-87), 10 mM MOPS, 50 mM sodium chloride, 5 mM DTT, 10 uM zinc sulphate, 0.1 % sodium azide, 1 mM pefabloc, 100% D2O \| 100% D2O NMR sample composition 0.5 mM [U-100% 13C; U-100% 15N] Ubiquitin-protein ligase E3A (24-87), 0.75 mM 26S proteasome non-ATPase regulatory subunit 4 (305-377), 10 mM MOPS, 50 mM sodium chloride, 5 mM DTT, 10 uM zinc sulphate, 0.1 % sodium azide, 1 mM pefabloc, 95% H2O/5% D2O \| 95% H2O/5% D2O NMR sample composition 0.5 mM [U-100% 13C; U-100% 15N] Ubiquitin-protein ligase E3A (24-87), 0.75 mM 26S proteasome non-ATPase regulatory subunit 4 (305-377), 10 mM MOPS, 50 mM sodium chloride, 5 mM DTT, 10 uM zinc sulphate, 0.1 % sodium azide, 1 mM pefabloc, 100% D2O \| 100% D2O	Resolution not provided
7QPB Catalytic C-lobe of the HECT-type ubiquitin ligase E6AP in complex with a hybrid foldamer-peptide macrocycle Deposited 2022-01-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 741–852（112 aa） Chain C 741–852（112 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；277 K；12% PEG 8000, 0.1 M sodium cacodylate, 0.1 M calcium acetate pH 5.5	Resolution 2.34 Å R-free 0.263
7QPB Catalytic C-lobe of the HECT-type ubiquitin ligase E6AP in complex with a hybrid foldamer-peptide macrocycle Deposited 2022-01-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 741–852（112 aa） Chain C 741–852（112 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；277 K；12% PEG 8000, 0.1 M sodium cacodylate, 0.1 M calcium acetate pH 5.5	Resolution 2.34 Å R-free 0.263
7QPB Catalytic C-lobe of the HECT-type ubiquitin ligase E6AP in complex with a hybrid foldamer-peptide macrocycle Deposited 2022-01-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain B 741–852（112 aa） Chain D 741–852（112 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；277 K；12% PEG 8000, 0.1 M sodium cacodylate, 0.1 M calcium acetate pH 5.5	Resolution 2.34 Å R-free 0.263
7QPB Catalytic C-lobe of the HECT-type ubiquitin ligase E6AP in complex with a hybrid foldamer-peptide macrocycle Deposited 2022-01-03	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain B 741–852（112 aa） Chain D 741–852（112 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；277 K；12% PEG 8000, 0.1 M sodium cacodylate, 0.1 M calcium acetate pH 5.5	Resolution 2.34 Å R-free 0.263
8ENP UBE3A isoform 3 AZUL Deposited 2022-09-30	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–84（84 aa）	Not recorded	ZN ZINC ION × 1	SOLUTION NMR NMR measurement conditions pH 6；298 K；Ionic strength (raw mmCIF value) 450；Pressure 1 NMR sample composition 1.7 mM [U-99% 13C; U-99% 15N] UBE3A iso 3 AZUL, 10 mM MOPS, 450 mM sodium chloride, 10 mM beta-mercaptoethanol, 10 uM zinc sulfate, 90% H2O/10% D2O \| 90% H2O/10% D2O	Resolution not provided
8EPT UBE3A isoform 2 AZUL domain Deposited 2022-10-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–87（87 aa）	Not recorded	ZN ZINC ION × 1	SOLUTION NMR NMR measurement conditions pH 6；298 K；Ionic strength (raw mmCIF value) 450；Pressure 1 NMR sample composition 1.8 mM [U-99% 13C; U-99% 15N] UBE3A iso2 AZUL, 10 mM MOPS, 450 mM sodium chloride, 10 mM beta-mercaptoethanol, 10 uM zinc sulfate, 90% H2O/10% D2O \| 90% H2O/10% D2O	Resolution not provided
8GCR HPV16 E6-E6AP-p53 complex Deposited 2023-03-02	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 3 PDB declaration: trimeric	Chain R 1–875（875 aa）	Not recorded	ZN ZINC ION × 3	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.38 Å
8JRN Structure of E6AP-E6 complex in Att1 state Deposited 2023-06-17	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 1–875（875 aa） Chain C 1–875（875 aa）	Mutation：C843A Mutation：C843A	ZN ZINC ION × 4	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.60 Å
8JRO Structure of E6AP-E6 complex in Att2 state Deposited 2023-06-17	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 1–875（875 aa） Chain C 1–875（875 aa）	Mutation：C843A Mutation：C843A	ZN ZINC ION × 4	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.01 Å
8JRP Structure of E6AP-E6 complex in Att3 state Deposited 2023-06-17	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 1–875（875 aa） Chain C 1–875（875 aa）	Mutation：C843A Mutation：C843A	ZN ZINC ION × 4	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.58 Å
8JRQ Structure of E6AP-E6 complex in Det1 state Deposited 2023-06-17	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 1–875（875 aa） Chain C 1–875（875 aa）	Mutation：C843A Mutation：C843A	ZN ZINC ION × 4	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.15 Å
8JRR Structure of E6AP-E6 complex in Det2 state Deposited 2023-06-17	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 1–875（875 aa） Chain C 1–875（875 aa）	Mutation：T798A/D799A/C843A Mutation：T798A/D799A/C843A	ZN ZINC ION × 4	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.35 Å
8R1F Monomeric E6AP-E6-p53 ternary complex Deposited 2023-11-01	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 1–875（875 aa）	Not recorded	ZN ZINC ION × 3	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.67 Å
8R1G Dimeric ternary structure of E6AP-E6-p53 Deposited 2023-11-01	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–875（875 aa） Chain D 1–875（875 aa）	Not recorded	ZN ZINC ION × 6	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.99 Å
9CHT Human E3 ligase E6AP in complex with HPV16-E6 and p53 Deposited 2024-07-02	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 1–875（875 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.54 Å
9L3L Crystal structure of the C lobe of E6AP in complex with K48-linked diUb Deposited 2024-12-18	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 765–872（108 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；291 K；0.2 M Sodium citrate tribasic dihydrate, 0.1 M TRIS hydrochloride pH 8.5, 30% v/v Polyethylene glycol 400	Resolution 2.59 Å R-free 0.269
9VG5 NMR Solution Structure of the Monomeric Catalytic C-terminal Lobe of the E6AP HECT E3 Ubiquitin Ligase Deposited 2025-06-12	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 762–875（114 aa）	Not recorded	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 7.7；298 K；Ionic strength (raw mmCIF value) 100；Pressure AMBIENT NMR sample composition 20 mM NaPi, 100 mM NaCl, 0.15 mM DSS, 5 mM DTT, 95% H2O/5% D2O \| 95% H2O/5% D2O	Resolution not provided

21 other PDB entries and 25 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	UBE3A_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 529–543； UniProt 403–417

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	6sjv
Deposition date deposition_date	2019-08-14
Structure title title	Structure of HPV18 E6 oncoprotein in complex with mutant E6AP LxxLL motif
Keywords keywords	HPV18 E6 protein, E6AP, LxxLL motif, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method method	X-RAY DIFFRACTION

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	29.35 Å
Radius of gyration Rg (electron density) rg_electron	28.60 Å
Forward intensity I(0) i0	56468400.00
Molecular weight molecular_weight	59413.0 kDa
Excluded volume excluded_volume	74573 Å³
Envelope volume envelope_volume	97502 Å³
Hydration-shell volume shell_volume	29606 Å³
Envelope diameter envelope_diameter	102.1 Å
Shell Rg shell_rg	34.30 Å
Envelope Rg envelope_rg	29.17 Å
Shape Rg shape_rg	28.58 Å
Total Rg total_rg	29.21 Å
Total atoms total_atoms	4182
Residues n_residues	529
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	96.1 Å
Rg (real space) rg_real	29.44 Å
Rg uncertainty (real space) rg_real_error	0.70 Å
I(0) (real space) i0_real	5.6470e+07
I(0) uncertainty (real space) i0_real_error	7.9630e+05
Rg (reciprocal space) rg_reciprocal	29.40 Å
I(0) (reciprocal space) i0_reciprocal	56470000.0000
Solution quality estimate total_estimate	0.6831
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	30.2 Å
Skewness Skewness skewness	0.381
Kurtosis Kurtosis kurtosis	-0.486
Angular range angular_range	— – 0.2700 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	8942000.0000
Real-space data points n_real_points	55
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.899; Stabil: 1.000; Sysdev: 0.092; Positv: 1.000; Valcen: 0.955; Smooth: 0.948

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Description description	Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A
Molecular weight formula_weight	60651.8 kDa
EC 编号 ec_number	2.3.2.26
Mutation mutation	;K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R,K84A,K240A,E360A,K363A,D364A,F1049R,L2386F,E2393R ;
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	4307

MKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPAAAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSAVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDAALAAAQTNAAAMARFEDPTRRPYKLPDLCTELNTSLQDIEITCVYCKTVLELTEVFEFARKDLFVVYRDSIPHAACHKCIDFYSRIRELRHYSDSVYGDTLEKLTNTGLYNLLIRCLRCQKPLNPAEKLRHLNEKRRFHNIAGHYRGQCHSCCNRARQERLQRGSAAAESSELTFQELLGERR

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	Human
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Escherichia coli BL21(DE3)

Entity 2 Entity 2 branched

Description description	alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose
Molecular weight formula_weight	342.3 kDa
Source method src_method	man
Copy count entity_count	1

Entity 3 Entity 3 non-polymer

Description description	ZINC ION
Molecular weight formula_weight	65.4 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	121

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7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id	6sjvA01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily	10 — Periplasmic binding protein-like II

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8. Citations (1)

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Unit-cell length a length_a	106.825 Å
Unit-cell length b length_b	106.825 Å
Unit-cell length c length_c	100.377 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	120.00 °
Molecules per unit cell Z z_pdb	6

Space group space_group	P 31 2 1
Space-group number int_tables_number	152
Crystal system crystal_system	trigonal

Resolution resolution	2.029 Å
Low-resolution limit resolution_low	19.792 Å
R factor r_factor	—
R_work r_work	0.2032
R_free r_free	0.2424

fit	/app/data/saxs_computation/sj/6sjv/6sjv.fit
pddf	/app/data/pr_computation/sj/6sjv/6sjv.pr.out
profile	/app/data/saxs_computation/sj/6sjv/6sjv.dat

Structure of HPV18 E6 oncoprotein in complex with mutant E6AP LxxLL motif

1. Protein Identity and Related Structures Protein Identity & Related Structures

Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A

State in the Current Structure

Other States of the Same Protein in the Database

Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A

State in the Current Structure

Other States of the Same Protein in the Database

Maltodextrin-binding protein,Protein E6,Ubiquitin-protein ligase E3A

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

6. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)