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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：P38304 New Search
12PDB entries
21Biological assembly
31chain/assembly records
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
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain I 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain J 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain K 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 4 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain L 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 5 Protein heterocomplex Heteromer；Protein × 12 PDB declaration: dodecameric（12） Consistent with protein count
Chain I 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain J 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain K 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain L 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 6 Protein heterocomplex Heteromer；Protein × 12 PDB declaration: dodecameric（12） Consistent with protein count
Chain I 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain J 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain K 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain L 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 7 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count
Chain I 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain K 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain L 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
2HZS Structure of the Mediator head submodule Med8C/18/20 Deposited 2006-08-09 Assembly 8 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain I 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Chain L 189–209（21 aa） Fragment：C-terminal domain, residues 189-209
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.6；293 K；100 mM sodium acetate, 0.6 M sodium fluoride, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.70 Å R-free 0.272
3J1O Cryo-EM map of a yeast minimal preinitiation complex interacting with the Mediator Head module Deposited 2012-03-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain J 1–223（223 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer 25 mM KCl, 25 mM Tris-HCl, 10 mM DTT；pH 8；25 mM KCl, 25 mM Tris-HCl, 10 mM DTT
cryo-EM vitrification conditions Blot for ~2 sec before plunging；77 K；Cryogen ETHANE；Blot for approximately 2 seconds before plunging into liquid ethane.
Resolution 16.00 Å
3RJ1 Architecture of the Mediator Head module Deposited 2011-04-14 Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain C 1–223（223 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) SE SELENIUM ATOM × 30 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；0.1 M Tris-HCl (pH 7.6) containing 10-12.5% (w/v) PEG-6K, and 0.4 M (NH4)2SO4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 4.30 Å R-free 0.373
3RJ1 Architecture of the Mediator Head module Deposited 2011-04-14 Assembly 2 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain J 1–223（223 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) SE SELENIUM ATOM × 36 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；0.1 M Tris-HCl (pH 7.6) containing 10-12.5% (w/v) PEG-6K, and 0.4 M (NH4)2SO4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 4.30 Å R-free 0.373
3RJ1 Architecture of the Mediator Head module Deposited 2011-04-14 Assembly 3 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain Q 1–223（223 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) SE SELENIUM ATOM × 32 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；0.1 M Tris-HCl (pH 7.6) containing 10-12.5% (w/v) PEG-6K, and 0.4 M (NH4)2SO4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 4.30 Å R-free 0.373
4GWP Structure of the Mediator Head Module from S. cerevisiae Deposited 2012-09-03 Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain C 1–223（223 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；291.2 K；275mM ammonium citrate tribasic pH 7.0, 10% w/v PEG 3350, 2mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 291.2K
Resolution 4.20 Å R-free 0.357
4GWQ Structure of the Mediator Head Module from S. cerevisiae in complex with the carboxy-terminal domain (CTD) of RNA Polymerase II Rpb1 subunit Deposited 2012-09-03 Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain C 1–223（223 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7；291.2 K；275mM ammonium citrate tribasic pH 7.0, 10% w/v PEG 3350, 2mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 291.2K
Resolution 4.50 Å R-free 0.345
4V1O Architecture of the RNA polymerase II-Mediator core transcription initiation complex Deposited 2014-09-29 Assembly 1 Other combination Heteromer；Protein × 23 PDB declaration: 26-meric（26） Consistent with all polymers
Chain U 2–223（222 aa）
Not recorded ZN ZINC ION × 9 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer 25 MM HEPES-KOH PH 7.5, 180 MM POTASSIUM ACETATE, 5 % GLYCEROL, 5 MM DTT；pH 7.5；25 MM HEPES-KOH PH 7.5, 180 MM POTASSIUM ACETATE, 5 % GLYCEROL, 5 MM DTT
cryo-EM vitrification conditions Cryogen ETHANE；GRIDS WERE GLOW- DISCHARGED FOR 20 S BEFORE DEPOSITION OF 4 MICROLITERS SAMPLE AND INCUBATED FOR 30 S. GRIDS WERE WASHED TWICE WITH 4 MICROLITERS DISTILLED WATER, BLOTTED, AND VITRIFIED BY PLUNGING INTO LIQUID ETHANE WITH A MANUAL PLUNGER.
Resolution 9.70 Å
5OQM STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH AND CORE MEDIATOR Deposited 2017-08-13 Assembly 1 Insufficient information Heteromer；Protein × 44 PDB declaration: 46-meric（46） Consistent with all polymers
Chain b 1–223（223 aa）
Not recorded ZN ZINC ION × 16 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE；Grids were blotted for 8 s and plunge-frozen in liquid ethane.
Resolution 5.80 Å
5SVA Mediator-RNA Polymerase II Pre-Initiation Complex Deposited 2016-08-05 Assembly 1 Protein–DNA Heteromer；Protein × 38 PDB declaration: 40-meric（40） Consistent with all polymers
Chain N 1–223（223 aa）
Not recorded ZN ZINC ION × 8 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 15.30 Å
7UI9 Core Mediator-PICearly (Copy A) Deposited 2022-03-28 Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric（33） Consistent with protein count
Chain h 1–223（223 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
7UIF Mediator-PIC Early (Core B) Deposited 2022-03-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric（33） Consistent with protein count
Chain h 1–223（223 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.60 Å
7UIG Mediator-PIC Early (Mediator A) Deposited 2022-03-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 17 PDB declaration: heptadecameric（17） Consistent with protein count
Chain h 1–223（223 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
7UIO Mediator-PIC Early (Composite Model) Deposited 2022-03-29 Assembly 1 Protein–DNA Heteromer；Protein × 78 PDB declaration: 80-meric（80） Consistent with all polymers
Chain Ah 1–223（223 aa）
Chain Bh 1–223（223 aa）
Not recorded ZN ZINC ION × 4 THR THREONINE × 1 ALA ALANINE × 1 ASP ASPARTIC ACID × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å

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.