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1y1w

Complete RNA Polymerase II elongation complex

Method: X-RAY DIFFRACTION
▼

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

DNA-directed RNA polymerase II largest subunit

OrganismNot specified

UniProt P04050

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

219 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB1_YEAST
Isoform —
PDB entities 4
Chains and sequence ranges Author chain A； PDBConstruct 1–1733； UniProt 1–1733

DNA-directed RNA polymerase II 140 kDa polypeptide

OrganismNot specified

UniProt P08518

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

203 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB2_YEAST
Isoform —
PDB entities 5
Chains and sequence ranges Author chain B； PDBConstruct 1–1224； UniProt 1–1224

DNA-directed RNA polymerase II 45 kDa polypeptide

OrganismNot specified

UniProt P16370

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

201 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB3_YEAST
Isoform —
PDB entities 6
Chains and sequence ranges Author chain C； PDBConstruct 1–318； UniProt 1–318

DNA-directed RNA polymerase II 32 kDa polypeptide

OrganismNot specified

UniProt P20433

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1nt9 1pqv 1y14 1y14 1y14 1y1v 1y1w 1y1y 1y77 2b63 2b8k 2ja5

108 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB4_YEAST
Isoform —
PDB entities 7
Chains and sequence ranges Author chain D； PDBConstruct 1–221； UniProt 1–221

DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide

OrganismNot specified

UniProt P20434

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1dzf

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

277 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB5_YEAST
Isoform —
PDB entities 8
Chains and sequence ranges Author chain E； PDBConstruct 1–215； UniProt 1–215

DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide

OrganismNot specified

UniProt P20435

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

294 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB6_YEAST
Isoform —
PDB entities 9
Chains and sequence ranges Author chain F； PDBConstruct 1–155； UniProt 1–155

DNA-directed RNA polymerase II 19 kDa polypeptide

OrganismNot specified

UniProt P34087

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1nt9 1pqv 1y14 1y14 1y14 1y1v 1y1w 1y1y 1y77 2b63 2b8k 2ja5

109 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB7_YEAST
Isoform —
PDB entities 10
Chains and sequence ranges Author chain G； PDBConstruct 1–171； UniProt 1–171

DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide

OrganismNot specified

UniProt P20436

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1a1d

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

277 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB8_YEAST
Isoform —
PDB entities 11
Chains and sequence ranges Author chain H； PDBConstruct 1–146； UniProt 1–146

DNA-directed RNA polymerase II subunit 9

OrganismNot specified

UniProt P27999

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

200 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB9_YEAST
Isoform —
PDB entities 12
Chains and sequence ranges Author chain I； PDBConstruct 1–122； UniProt 1–122

DNA-directed RNA polymerases I/II/III subunit 10

OrganismNot specified

UniProt P22139

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

277 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPAB5_YEAST
Isoform —
PDB entities 13
Chains and sequence ranges Author chain J； PDBConstruct 1–70； UniProt 1–70

DNA-directed RNA polymerase II 13.6 kDa polypeptide

OrganismNot specified

UniProt P38902

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide × 1 （P40422） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

201 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPB11_YEAST
Isoform —
PDB entities 14
Chains and sequence ranges Author chain K； PDBConstruct 1–120； UniProt 1–120

DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide

OrganismNot specified

UniProt P40422

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 12 DNA 2 RNA 1 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP*T)-3' × 1 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' × 1 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' × 1 DNA-directed RNA polymerase II largest subunit × 1 （P04050） DNA-directed RNA polymerase II 140 kDa polypeptide × 1 （P08518） DNA-directed RNA polymerase II 45 kDa polypeptide × 1 （P16370） DNA-directed RNA polymerase II 32 kDa polypeptide × 1 （P20433） DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide × 1 （P20434） DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide × 1 （P20435） DNA-directed RNA polymerase II 19 kDa polypeptide × 1 （P34087） DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide × 1 （P20436） DNA-directed RNA polymerase II subunit 9 × 1 （P27999） DNA-directed RNA polymerases I/II/III subunit 10 × 1 （P22139） DNA-directed RNA polymerase II 13.6 kDa polypeptide × 1 （P38902） ZINC ION × 8 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1i3q 1i50 1i50 1i6h 1k83 1nik 1nt9 1pqv 1r5u 1r9s 1r9t 1sfo

277 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPAB4_YEAST
Isoform —
PDB entities 15
Chains and sequence ranges Author chain L； PDBConstruct 1–70； UniProt 1–70

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id1y1w
Deposition date deposition_date2004-11-19
Structure title titleComplete RNA Polymerase II elongation complex
Keywords keywordsRNA Polymerase II, transcription bubble, transcription, elongation complex, TRANSFERASE-DNA-RNA HYBRID COMPLEX; TRANSCRIPTION,TRANSFERASE/DNA-RNA HYBRID
Experimental Method methodX-RAY DIFFRACTION
▼

3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

1y1w__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1y1w__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1y1w__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）50.62 Å
Rg (electron density)50.45 Å
Total Rg50.64 Å
Atom count31802
Residues3953
Excluded volume564920 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1y1w__assembly_1__model_1 pentadecameric （15） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (17)

▼

6. Fold Classification (SCOP + CATH) 36 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1y1wa_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wb_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wc_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wd_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1we_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wf_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wg_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wh_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wi_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wj_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wk_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1y1wl_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase

CATH v4.4 (24 domains)

Domain ID domain_id1y1wA03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology40 — Barwin-like endoglucanases
Homologous superfamily homologous superfamily20 —
Domain ID domain_id1y1wA04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1490 — Dna Ligase; domain 1
Homologous superfamily homologous superfamily180 — RNA polymerase ii
Domain ID domain_id1y1wA05
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology274 — Enzyme I; Chain A, domain 2
Homologous superfamily homologous superfamily100 — RNA polymerase Rpb1, domain 3
Domain ID domain_id1y1wA06
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology132 — Topoisomerase I; Chain A, domain 4
Homologous superfamily homologous superfamily30 — RNA polymerase Rpb1 funnel domain
Domain ID domain_id1y1wA09
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily140 —
Domain ID domain_id1y1wB04
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1110 — Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3
Homologous superfamily homologous superfamily10 — RNA polymerase Rpb2, domain 2
Domain ID domain_id1y1wB05
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1070 — Hypothetical Protein Ta0175; Chain: A, domain 2
Homologous superfamily homologous superfamily20 —
Domain ID domain_id1y1wB06
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology270 — Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6
Homologous superfamily homologous superfamily10 — DNA-directed RNA polymerase, subunit 2, domain 6
Domain ID domain_id1y1wB07
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily150 — RNA polymerase II, Rpb2 subunit, wall domain
Domain ID domain_id1y1wB08
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1800 — DCoH-like
Homologous superfamily homologous superfamily10 — RNA polymerase alpha subunit dimerisation domain
Domain ID domain_id1y1wC01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily10 — RNA polymerase, RBP11-like subunit
Domain ID domain_id1y1wC02
Class class2 — Mainly Beta
Architecture architecture170 — Beta Complex
Topology topology120 — RNA Polymerase Alpha Subunit; Chain A, domain 2
Homologous superfamily homologous superfamily12 — DNA-directed RNA polymerase, insert domain
Domain ID domain_id1y1wD02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1250 — Growth Hormone; Chain: A;
Homologous superfamily homologous superfamily40 — RNA Polymerase II, Rpb4 subunit
Domain ID domain_id1y1wE01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1340 — Dna-directed Rna Polymerases I, Ii, And Iii 27 Kd Polypeptide; Chain: A; domain 1
Homologous superfamily homologous superfamily10 — RNA polymerase, Rpb5, N-terminal domain
Domain ID domain_id1y1wE02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology940 — Eukaryotic RPB6 RNA polymerase subunit
Homologous superfamily homologous superfamily20 — RPB5-like RNA polymerase subunit
Domain ID domain_id1y1wF00
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology940 — Eukaryotic RPB6 RNA polymerase subunit
Homologous superfamily homologous superfamily10 — RNA polymerase subunit, RPB6/omega
Domain ID domain_id1y1wG01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1490 — Dna Ligase; domain 1
Homologous superfamily homologous superfamily120 — RNA polymerase Rpb7-like, N-terminal domain
Domain ID domain_id1y1wG02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily140 — Nucleic acid-binding proteins
Domain ID domain_id1y1wH00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily140 — Nucleic acid-binding proteins
Domain ID domain_id1y1wI01
Class class2 — Mainly Beta
Architecture architecture20 — Single Sheet
Topology topology25 — N-terminal domain of TfIIb
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1y1wI02
Class class2 — Mainly Beta
Architecture architecture20 — Single Sheet
Topology topology25 — N-terminal domain of TfIIb
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1y1wJ00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily60 — Homeodomain-like
Domain ID domain_id1y1wK00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily10 — RNA polymerase, RBP11-like subunit
Domain ID domain_id1y1wL00
Class class2 — Mainly Beta
Architecture architecture20 — Single Sheet
Topology topology28 — Rubrerythrin, domain 2
Homologous superfamily homologous superfamily30 — RNA polymerase ii, chain L
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7. Citations (1)