6A5P
RNA polymerase II elongation complex stalled at SHL(-5) of the nucleosome
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | DNA-directed RNA polymerase subunit | polymer | 1743 | 194107.4 | 1 | UniProt (C4R4Y0) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | DNA-directed RNA polymerase subunit Rpb1 |
2 | B | DNA-directed RNA polymerase subunit beta | polymer | 1227 | 139746.1 | 1 | UniProt (C4QZQ7) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | DNA-directed RNA polymerase subunit Rpb2 |
3 | C | RNA polymerase II third largest subunit B44, part of central core | polymer | 304 | 34216.3 | 1 | UniProt (C4R7L2) Pfam (PF01193) Pfam (PF01000) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | RNA polymerase II third largest subunit Rpb3 |
4 | D | RNA polymerase II subunit B32 | polymer | 186 | 20623.0 | 1 | UniProt (C4R2U9) Pfam (PF03874) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | |
5 | E | RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III | polymer | 214 | 24962.7 | 1 | UniProt (C4R3P8) Pfam (PF03871) Pfam (PF01191) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | |
6 | F | RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III | polymer | 155 | 17803.6 | 1 | UniProt (C4R1V1) Pfam (PF01192) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | |
7 | G | RNA polymerase II subunit | polymer | 171 | 18802.6 | 1 | UniProt (C4R9A1) Pfam (PF03876) Pfam (PF00575) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | RNA polymerase II subunit Rpb7 |
8 | H | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | polymer | 145 | 16249.2 | 1 | UniProt (C4R273) Pfam (PF03870) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | RNA polymerase subunit ABC14.5, common to RNA polymerases I, II, and III |
9 | I | DNA-directed RNA polymerase subunit | polymer | 115 | 13612.3 | 1 | UniProt (F2QPE6) Pfam (PF02150) Pfam (PF01096) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | DNA-directed RNA polymerase subunit, Rpb9 |
10 | J | RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III | polymer | 72 | 8554.1 | 1 | UniProt (C4R009) Pfam (PF01194) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | |
11 | K | RNA polymerase II subunit B12.5 | polymer | 118 | 13832.9 | 1 | UniProt (C4R3Z5) Pfam (PF13656) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | |
12 | L | RNA polymerase subunit ABC10-alpha | polymer | 72 | 7862.0 | 1 | UniProt (F2QMI1) Pfam (PF03604) In PDB | Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) | |
13 | P | RNA (5'-R(P*UP*GP*GP*GP*UP*GP*GP*UP*GP*GP*C)-3') | polymer | 11 | 3595.2 | 1 | synthetic construct | ||
14 | T | DNA (198-MER) | polymer | 198 | 60870.0 | 1 | synthetic construct | ||
15 | N | DNA (198-MER) | polymer | 198 | 61381.9 | 1 | synthetic construct | ||
16 | a, e | Histone H3.3 | polymer | 139 | 15643.3 | 2 | UniProt (P84243) Pfam (PF00125) In PDB | Homo sapiens (Human) | |
17 | b, f | Histone H4 | polymer | 106 | 11676.7 | 2 | UniProt (P62805) Pfam (PF15511) In PDB | Homo sapiens (Human) | |
18 | c, g | Histone H2A type 1-B/E | polymer | 133 | 14447.8 | 2 | UniProt (P04908) Pfam (PF00125) Pfam (PF16211) In PDB | Homo sapiens (Human) | Histone H2A, Histone H2A.2,Histone H2A/a,Histone H2A/m |
19 | d, h | Histone H2B type 1-J | polymer | 129 | 14217.5 | 2 | UniProt (P06899) Pfam (PF00125) In PDB | Homo sapiens (Human) | Histone H2B, Histone H2B.1,Histone H2B.r,H2B/r |
20 | B, C, I, J, L... | ZINC ION | non-polymer | 65.4 | 8 | Chemie (ZN) | |||
21 | A | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence modifications
a, e: 0 - 135 (UniProt: P84243)
b, f: 0 - 102 (UniProt: P62805)
c, g: 0 - 129 (UniProt: P04908)
d, h: -3 - 122 (UniProt: P06899)
PDB | External Database | Details |
---|---|---|
Gly -3 | - | expression tag |
Ser -2 | - | expression tag |
His -1 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Gly -3 | - | expression tag |
Ser -2 | - | expression tag |
His -1 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Gly -3 | - | expression tag |
Ser -2 | - | expression tag |
His -1 | - | expression tag |
PDB | External Database | Details |
---|---|---|
Gly -6 | - | expression tag |
Ser -5 | - | expression tag |
His -4 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 23 |
Total formula weight | 748189.9 | |
Non-Polymers* | Number of molecules | 9 |
Total formula weight | 547.6 | |
All* | Total formula weight | 748737.5 |