Current Protein Identity：Q3E7C1
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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 |
|---|---|---|---|---|---|---|---|
| 3DGP Crystal Structure of the complex between Tfb5 and the C-terminal domain of Tfb2 Deposited 2008-06-14 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain B
2–72（71 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
EVAPORATION；pH 8.9；277 K；Tris 20 mM, NaCl 50 mM, pH 8.9, EVAPORATION, temperature 277K
|
Resolution 1.80 Å R-free 0.237 |
| 3DOM Crystal Structure of the complex between Tfb5 and the C-terminal domain of Tfb2 Deposited 2008-07-04 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain B
2–72（71 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG3350 MME, NaCl, Hepes, pH 7.5, vapor diffusion, sitting drop, temperature 293K
|
Resolution 2.60 Å R-free 0.261 |
| 3DOM Crystal Structure of the complex between Tfb5 and the C-terminal domain of Tfb2 Deposited 2008-07-04 | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain D
2–72（71 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG3350 MME, NaCl, Hepes, pH 7.5, vapor diffusion, sitting drop, temperature 293K
|
Resolution 2.60 Å R-free 0.261 |
| 5FMF the P-lobe of RNA polymerase II pre-initiation complex Deposited 2015-11-03 | Assembly 1 Protein–DNA Heteromer；Protein × 25 PDB declaration: 27-meric（27） Consistent with all polymers |
Chain X
2–64（63 aa）
|
Not recorded | MG MAGNESIUM ION × 2 ZN ZINC ION × 9 | ELECTRON MICROSCOPY |
cryo-EM buffer
20 MM HEPES (PH7.6), 5 MM DTT, 2 MM MG(OAC)2,AND 40 MM KOAC；pH 7.6；20 MM HEPES (PH7.6), 5 MM DTT, 2 MM MG(OAC)2,AND 40 MM KOAC
cryo-EM vitrification conditions
Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 100, TEMPERATURE- 120, INSTRUMENT- FEI VITROBOT MARK III,
|
Resolution 6.00 Å |
| 5OQJ STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH Deposited 2017-08-11 | Assembly 1 Protein–DNA Heteromer；Protein × 29 PDB declaration: 31-meric（31） Consistent with all polymers |
Chain 5
1–72（72 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 4.70 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 5
1–72（72 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 b
1–72（72 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 |
| 6GYM Structure of a yeast closed complex with distorted DNA (CCdist) Deposited 2018-06-30 | Assembly 1 Protein–DNA Heteromer；Protein × 29 PDB declaration: 31-meric（31） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 16 MG MAGNESIUM ION × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.70 Å |
| 7K01 Structure of TFIIH in TFIIH/Rad4-Rad23-Rad33 DNA opening complex Deposited 2020-09-02 | Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 5 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6；Sample dialyzed for 30 minutes into above buffer prior to grid making
cryo-EM vitrification conditions
Cryogen ETHANE；Grids were manually blotted for 2-3 seconds prior to plunge freezing
|
Resolution 3.90 Å |
| 7K04 Structure of TFIIH/Rad4-Rad23-Rad33/DNA in DNA opening Deposited 2020-09-03 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | CA CALCIUM ION × 2 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Manually blotted by Leica EM CPC
|
Resolution 9.25 Å |
| 7M2U Nucleotide Excision Repair complex TFIIH Rad4-33 Deposited 2021-03-17 | Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers |
Chain 5
2–67（66 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 CA CALCIUM ION × 2 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 8.20 Å |
| 7ML0 RNA polymerase II pre-initiation complex (PIC1) Deposited 2021-04-27 | Assembly 1 Protein–DNA Heteromer；Protein × 26 PDB declaration: 28-meric（28） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 17 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 7ML1 RNA polymerase II pre-initiation complex (PIC2) Deposited 2021-04-27 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 19 SF4 IRON/SULFUR CLUSTER × 1 MG MAGNESIUM ION × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 7ML2 RNA polymerase II pre-initiation complex (PIC3) Deposited 2021-04-27 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 17 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 7ML3 General transcription factor TFIIH (weak binding) Deposited 2021-04-27 | Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 7 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 7.60 Å |
| 7ML4 RNA polymerase II initially transcribing complex (ITC) Deposited 2021-04-27 | Assembly 1 Other combination Heteromer；Protein × 28 PDB declaration: 31-meric（31） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 15 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 7O4I Yeast RNA polymerase II transcription pre-initiation complex with initial transcription bubble Deposited 2021-04-06 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 17 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 7O4J Yeast RNA polymerase II transcription pre-initiation complex (consensus) Deposited 2021-04-06 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 17 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7O4K Yeast TFIIH in the contracted state within the pre-initiation complex Deposited 2021-04-06 | Assembly 1 Protein–DNA Heteromer；Protein × 15 PDB declaration: heptadecameric（17） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 10 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 7O4L Yeast TFIIH in the expanded state within the pre-initiation complex Deposited 2021-04-06 | Assembly 1 Protein–DNA Heteromer；Protein × 15 PDB declaration: heptadecameric（17） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 11 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 7O72 Yeast RNA polymerase II transcription pre-initiation complex with closed promoter DNA Deposited 2021-04-12 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 17 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 7O73 Yeast RNA polymerase II transcription pre-initiation complex with closed distorted promoter DNA Deposited 2021-04-12 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 17 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 7O75 Yeast RNA polymerase II transcription pre-initiation complex with open promoter DNA Deposited 2021-04-13 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 17 BEF BERYLLIUM TRIFLUORIDE ION × 1 MG MAGNESIUM ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 7ZS9 Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome (complex A) Deposited 2022-05-06 | Assembly 1 Protein–DNA Heteromer；Protein × 36 PDB declaration: 38-meric（38） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 17 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 7ZSA Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP (complex B) Deposited 2022-05-06 | Assembly 1 Protein–DNA Heteromer；Protein × 36 PDB declaration: 38-meric（38） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 17 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 7ZSB Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP, complex C Deposited 2022-05-06 | Assembly 1 Protein–DNA Heteromer；Protein × 36 PDB declaration: 38-meric（38） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 17 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.60 Å |
| 8UMH Consensus map of PICdeltaTFIIK form2 Deposited 2023-10-17 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 15 MG MAGNESIUM ION × 2 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6；20 mM HEPES PH 7.6
50 mM KOAc
5 mM DTT
2 mM MgOAc
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.10 Å |
| 8UMI consensus map of PICdeltaTFIIK form1 Deposited 2023-10-17 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 15 MG MAGNESIUM ION × 2 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6；20 mM HEPES PH 7.6
50 mM KOAc
5 mM DTT
2 mM MgOAc
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 8UOQ Composite map of PIC_delta_TFIIK form2 Deposited 2023-10-20 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | ZN ZINC ION × 15 MG MAGNESIUM ION × 2 SF4 IRON/SULFUR CLUSTER × 1 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 8UOT Composite map of PICdeltaTFIIK form1 Deposited 2023-10-20 | Assembly 1 Protein–DNA Heteromer；Protein × 28 PDB declaration: 30-meric（30） Consistent with all polymers |
Chain 5
1–72（72 aa）
|
Not recorded | SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 15 MG MAGNESIUM ION × 2 | ELECTRON MICROSCOPY |
cryo-EM buffer
pH 7.6；20 mM HEPES PH 7.6
50 mM KOAc
5 mM DTT
2 mM MgOAc
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |