Assemblies
Assembly Name:
DNA-directed RNA polymerase II complex
Multimeric state:
hetero 33-mer
Accessible surface area:
376638.08 Å2
Buried surface area:
145616.9 Å2
Dissociation area:
8,562.11
Å2
Dissociation energy (ΔGdiss):
-7.54
kcal/mol
Dissociation entropy (TΔSdiss):
85.19
kcal/mol
Symmetry number:
1
PDBe Complex ID:
PDB-CPX-137342
Macromolecules
Chain: M
Length: 345 amino acids
Theoretical weight: 38.26 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
Pfam:
InterPro:
Length: 345 amino acids
Theoretical weight: 38.26 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
- Canonical:
P29055 (Residues: 1-345; Coverage: 100%)
Pfam:
InterPro:
Chain: P
Length: 735 amino acids
Theoretical weight: 82.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
InterPro:
Length: 735 amino acids
Theoretical weight: 82.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P41895 (Residues: 1-735; Coverage: 100%)
Pfam: Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
InterPro:
Chain: Q
Length: 400 amino acids
Theoretical weight: 46.68 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam:
InterPro:
Length: 400 amino acids
Theoretical weight: 46.68 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P41896 (Residues: 1-400; Coverage: 100%)
Pfam:
InterPro:
Chain: S
Length: 309 amino acids
Theoretical weight: 34.9 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
Pfam:
Length: 309 amino acids
Theoretical weight: 34.9 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
- Canonical:
P07273 (Residues: 1-309; Coverage: 100%)
Pfam:
- Transcription factor S-II (TFIIS)
- TFIIS helical bundle-like domain
- Transcription factor S-II (TFIIS), central domain
- Zinc finger, TFIIS-type
- Transcription elongation factor, IIS-type
- TFIIS/LEDGF domain superfamily
- Transcription elongation factor, TFIIS
- Transcription factor IIS, N-terminal
- Transcription elongation factor, TFIIS/CRSP70, N-terminal, sub-type
- Transcription elongation factor S-II, central domain superfamily
- Transcription elongation factor S-II, central domain
Chain: a
Length: 566 amino acids
Theoretical weight: 64.31 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Mediator of RNA polymerase II transcription subunit 1
InterPro: Mediator complex, subunit Med1
Length: 566 amino acids
Theoretical weight: 64.31 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
Q12321 (Residues: 1-566; Coverage: 100%)
Pfam: Mediator of RNA polymerase II transcription subunit 1
InterPro: Mediator complex, subunit Med1
Chain: d
Length: 284 amino acids
Theoretical weight: 32.24 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Vitamin-D-receptor interacting Mediator subunit 4
InterPro: Mediator complex, subunit Med4
Length: 284 amino acids
Theoretical weight: 32.24 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
Q12343 (Residues: 1-284; Coverage: 100%)
Pfam: Vitamin-D-receptor interacting Mediator subunit 4
InterPro: Mediator complex, subunit Med4
Chain: f
Length: 295 amino acids
Theoretical weight: 32.84 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: MED6 mediator sub complex component
InterPro:
Length: 295 amino acids
Theoretical weight: 32.84 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P38782 (Residues: 1-295; Coverage: 100%)
Pfam: MED6 mediator sub complex component
InterPro:
Chain: g
Length: 222 amino acids
Theoretical weight: 25.62 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: MED7 protein
InterPro:
Length: 222 amino acids
Theoretical weight: 25.62 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
Q08278 (Residues: 1-222; Coverage: 100%)
Pfam: MED7 protein
InterPro:
Chain: h
Length: 223 amino acids
Theoretical weight: 25.3 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Mediator of RNA polymerase II transcription complex subunit 8
InterPro: Mediator complex, subunit Med8, fungi/metazoa
Length: 223 amino acids
Theoretical weight: 25.3 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P38304 (Residues: 1-223; Coverage: 100%)
Pfam: Mediator of RNA polymerase II transcription complex subunit 8
InterPro: Mediator complex, subunit Med8, fungi/metazoa
Chain: i
Length: 149 amino acids
Theoretical weight: 17.4 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerase II transcription mediator complex subunit 9
InterPro: Mediator of RNA polymerase II transcription subunit 9
Length: 149 amino acids
Theoretical weight: 17.4 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P33308 (Residues: 1-149; Coverage: 100%)
Pfam: RNA polymerase II transcription mediator complex subunit 9
InterPro: Mediator of RNA polymerase II transcription subunit 9
Chain: j
Length: 157 amino acids
Theoretical weight: 17.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Transcription factor subunit Med10 of Mediator complex
InterPro: Mediator complex, subunit Med10
Length: 157 amino acids
Theoretical weight: 17.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
Q06213 (Residues: 1-157; Coverage: 100%)
Pfam: Transcription factor subunit Med10 of Mediator complex
InterPro: Mediator complex, subunit Med10
Chain: k
Length: 115 amino acids
Theoretical weight: 13.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Mediator complex protein
InterPro: Mediator complex, subunit Med11
Length: 115 amino acids
Theoretical weight: 13.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
Q99278 (Residues: 1-115; Coverage: 100%)
Pfam: Mediator complex protein
InterPro: Mediator complex, subunit Med11
Chain: n
Length: 1082 amino acids
Theoretical weight: 123.5 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Mediator complex subunit MED14
InterPro: Mediator complex, subunit Med14
Length: 1082 amino acids
Theoretical weight: 123.5 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P19263 (Residues: 1-1082; Coverage: 100%)
Pfam: Mediator complex subunit MED14
InterPro: Mediator complex, subunit Med14
Chain: q
Length: 687 amino acids
Theoretical weight: 78.58 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Subunit 17 of Mediator complex
InterPro: Mediator complex, subunit Med17
Length: 687 amino acids
Theoretical weight: 78.58 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P32569 (Residues: 1-687; Coverage: 100%)
Pfam: Subunit 17 of Mediator complex
InterPro: Mediator complex, subunit Med17
Chain: r
Length: 307 amino acids
Theoretical weight: 34.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Med18 protein
InterPro: Mediator complex, subunit Med18
Length: 307 amino acids
Theoretical weight: 34.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P32585 (Residues: 1-307; Coverage: 100%)
Pfam: Med18 protein
InterPro: Mediator complex, subunit Med18
Chain: s
Length: 220 amino acids
Theoretical weight: 24.89 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Rox3 mediator complex subunit
InterPro: Mediator complex, subunit Med19, fungi
Length: 220 amino acids
Theoretical weight: 24.89 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P25046 (Residues: 1-220; Coverage: 100%)
Pfam: Rox3 mediator complex subunit
InterPro: Mediator complex, subunit Med19, fungi
Chain: t
Length: 210 amino acids
Theoretical weight: 22.92 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: TATA-binding related factor (TRF) of subunit 20 of Mediator complex
InterPro:
Length: 210 amino acids
Theoretical weight: 22.92 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P34162 (Residues: 1-210; Coverage: 100%)
Pfam: TATA-binding related factor (TRF) of subunit 20 of Mediator complex
InterPro:
Chain: u
Length: 140 amino acids
Theoretical weight: 16.09 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Subunit 21 of Mediator complex
InterPro:
Length: 140 amino acids
Theoretical weight: 16.09 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P47822 (Residues: 1-140; Coverage: 100%)
Pfam: Subunit 21 of Mediator complex
InterPro:
Chain: v
Length: 120 amino acids
Theoretical weight: 13.77 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: Surfeit locus protein 5 subunit 22 of Mediator complex
InterPro:
Length: 120 amino acids
Theoretical weight: 13.77 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P32570 (Residues: 1-120; Coverage: 99%)
Pfam: Surfeit locus protein 5 subunit 22 of Mediator complex
InterPro:
Chain: z
Length: 25 amino acids
Theoretical weight: 2.61 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerase Rpb1 C-terminal repeat
InterPro: RNA polymerase II, heptapeptide repeat, eukaryotic
Length: 25 amino acids
Theoretical weight: 2.61 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P04050 (Residues: 1666-1690; Coverage: 1%)
Pfam: RNA polymerase Rpb1 C-terminal repeat
InterPro: RNA polymerase II, heptapeptide repeat, eukaryotic
Chain: A
Length: 1453 amino acids
Theoretical weight: 162.95 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam:
Length: 1453 amino acids
Theoretical weight: 162.95 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P04050 (Residues: 1-1453; Coverage: 84%)
Pfam:
- RNA polymerase Rpb1, domain 1
- RNA polymerase Rpb1, domain 2
- RNA polymerase Rpb1, domain 3
- RNA polymerase Rpb1, domain 4
- RNA polymerase Rpb1, domain 5
- RNA polymerase Rpb1, domain 6
- RNA polymerase Rpb1, domain 7
- RNA polymerase Rpb1, clamp domain superfamily
- RNA polymerase Rpb1, domain 1
- DNA-directed RNA polymerase, subunit beta-prime
- RNA polymerase, N-terminal
- RNA polymerase, alpha subunit
- RNA polymerase Rpb1, domain 3
- RNA polymerase Rpb1, domain 3 superfamily
- RNA polymerase Rpb1, funnel domain superfamily
- RNA polymerase Rpb1, domain 4
- RNA polymerase Rpb1, domain 5
- RNA polymerase Rpb1, domain 6
- RNA polymerase Rpb1, domain 7
- RNA polymerase Rpb1, domain 7 superfamily
Chain: B
Length: 1224 amino acids
Theoretical weight: 138.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam:
Length: 1224 amino acids
Theoretical weight: 138.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P08518 (Residues: 1-1224; Coverage: 100%)
Pfam:
- RNA polymerase beta subunit
- RNA polymerase Rpb2, domain 2
- RNA polymerase Rpb2, domain 3
- RNA polymerase Rpb2, domain 4
- RNA polymerase Rpb2, domain 5
- RNA polymerase Rpb2, domain 6
- RNA polymerase Rpb2, domain 7
- DNA-directed RNA polymerase, subunit 2
- RNA polymerase, beta subunit, protrusion
- RNA polymerase Rpb2, domain 2
- RNA polymerase Rpb2, domain 2 superfamily
- RNA polymerase Rpb2, domain 3
- RNA polymerase Rpb2, domain 4
- RNA polymerase Rpb2, domain 5
- DNA-directed RNA polymerase, subunit 2, hybrid-binding domain
- DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily
- RNA polymerase Rpb2, OB-fold
- RNA polymerase, beta subunit, conserved site
- RNA polymerase Rpb2, domain 7
Chain: C
Length: 318 amino acids
Theoretical weight: 35.33 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam:
InterPro:
Length: 318 amino acids
Theoretical weight: 35.33 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P16370 (Residues: 1-318; Coverage: 100%)
Pfam:
InterPro:
Chain: D
Length: 221 amino acids
Theoretical weight: 25.45 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerase Rpb4
InterPro:
Length: 221 amino acids
Theoretical weight: 25.45 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P20433 (Residues: 1-221; Coverage: 100%)
Pfam: RNA polymerase Rpb4
InterPro:
Chain: F
Length: 155 amino acids
Theoretical weight: 17.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerase Rpb6
InterPro:
Length: 155 amino acids
Theoretical weight: 17.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P20435 (Residues: 1-155; Coverage: 100%)
Pfam: RNA polymerase Rpb6
InterPro:
Chain: G
Length: 171 amino acids
Theoretical weight: 19.08 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam:
InterPro:
Length: 171 amino acids
Theoretical weight: 19.08 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P34087 (Residues: 1-171; Coverage: 100%)
Pfam:
InterPro:
Chain: H
Length: 146 amino acids
Theoretical weight: 16.53 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerase Rpb8
InterPro:
Length: 146 amino acids
Theoretical weight: 16.53 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P20436 (Residues: 1-146; Coverage: 100%)
Pfam: RNA polymerase Rpb8
InterPro:
Chain: I
Length: 122 amino acids
Theoretical weight: 14.31 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam:
InterPro:
Length: 122 amino acids
Theoretical weight: 14.31 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P27999 (Residues: 1-122; Coverage: 100%)
Pfam:
InterPro:
Chain: J
Length: 70 amino acids
Theoretical weight: 8.29 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerases N / 8 kDa subunit
InterPro:
Length: 70 amino acids
Theoretical weight: 8.29 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P22139 (Residues: 1-70; Coverage: 100%)
Pfam: RNA polymerases N / 8 kDa subunit
InterPro:
Chain: K
Length: 120 amino acids
Theoretical weight: 13.63 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: RNA polymerase Rpb3/Rpb11 dimerisation domain
InterPro:
Length: 120 amino acids
Theoretical weight: 13.63 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P38902 (Residues: 1-120; Coverage: 100%)
Pfam: RNA polymerase Rpb3/Rpb11 dimerisation domain
InterPro:
Chain: L
Length: 70 amino acids
Theoretical weight: 7.73 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
Pfam: DNA directed RNA polymerase, 7 kDa subunit
InterPro:
Length: 70 amino acids
Theoretical weight: 7.73 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
- Canonical:
P40422 (Residues: 1-70; Coverage: 100%)
Pfam: DNA directed RNA polymerase, 7 kDa subunit
InterPro: