9K11
A cryo-EM structure of B. oleracea RNA polymerase V in complex with 0U scaffold at 2.96 Angstrom
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (T) | 0U template DNA (34-mer) | polymer | 34 | 10526.8 | 1 | Brassica oleracea | ||
| 2 | B (N) | 0U nontemplated DNA (34-MER) | polymer | 34 | 10416.7 | 1 | Brassica oleracea | ||
| 3 | C (P) | RNA (5'-R(*UP*AP*UP*AP*UP*GP*CP*AP*GP*AP*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3') | polymer | 20 | 6453.9 | 1 | Brassica oleracea | ||
| 4 | D (A) | DNA-directed RNA polymerase V largest subunit | polymer | 2032 | 222876.9 | 1 | Brassica oleracea (wild cabbage) | ||
| 5 | E (C) | DNA-directed RNA polymerase RpoA/D/Rpb3-type domain-containing protein | polymer | 319 | 35484.1 | 1 | UniProt (A0A0D3D418) | Brassica oleracea (wild cabbage) | DNA-directed RNA polymerase II, IV and V subunit 3 |
| 6 | F (F) | DNA-directed RNA polymerase RpoA/D/Rpb3-type domain-containing protein | polymer | 144 | 16686.3 | 1 | UniProt (A0A0D3BZZ8) | Brassica oleracea (wild cabbage) | DNA-directed RNA polymerase V subunit 6 |
| 7 | G (J) | DNA-directed RNA polymerase II, IV and V subunit 10 | polymer | 71 | 8167.5 | 1 | UniProt (A0A0D3AAT3) | Brassica oleracea (wild cabbage) | |
| 8 | H (K) | DNA-directed RNA polymerase RBP11-like dimerisation domain-containing protein | polymer | 116 | 13538.3 | 1 | UniProt (A0A0D3DS91) | Brassica oleracea (wild cabbage) | DNA-directed RNA polymerase II, IV and V subunit 11 |
| 9 | I (L) | DNA-directed RNA polymerase II, IV and V subunit 12 | polymer | 51 | 5983.8 | 1 | UniProt (A0A0D2ZPP3) | Brassica oleracea (wild cabbage) | |
| 10 | J (H) | DNA-directed RNA polymerase II, IV and V subunit 8 | polymer | 146 | 16607.3 | 1 | UniProt (A0A0D3DUD8) | Brassica oleracea (wild cabbage) | |
| 11 | K (I) | DNA-directed RNA polymerase subunit | polymer | 114 | 13123.8 | 1 | UniProt (A0A0D3A7P5) | Brassica oleracea (wild cabbage) | DNA-directed RNA polymerase V subunit 9 |
| 12 | L (E) | RNA polymerase subunit H/Rpb5 C-terminal domain-containing protein | polymer | 230 | 26260.1 | 1 | UniProt (A0A0D3DTU3) | Brassica oleracea (wild cabbage) | DNA-directed RNA polymerase V subunit 5 |
| 13 | M (B) | DNA-directed RNA polymerase IV and V subunit 2 | polymer | 1169 | 132377.8 | 1 | Brassica oleracea (wild cabbage) | ||
| 14 | N (A) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) PubChem (888) | |||
| 15 | O, P, Q, R, S... (A, C, J, L, I) | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) |
Sequence modifications
C: 0 - 318 (UniProt: A0A0D3D418)
F: 1 - 144 (UniProt: A0A0D3BZZ8)
L: 1 - 51 (UniProt: A0A0D2ZPP3)
I: 1 - 114 (UniProt: A0A0D3A7P5)
E: 1 - 230 (UniProt: A0A0D3DTU3)
| PDB | External Database | Details |
|---|---|---|
| Thr 2 | Ser 3 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Glu 51 | Asp 51 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Glu 18 | Lys 18 | conflict |
| Cys 32 | Arg 32 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 20 | Lys 20 | conflict |
| Asp 40 | Asn 40 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 101 | Ser 101 | conflict |
| Gln 182 | His 182 | conflict |
| Ile 210 | Val 210 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 13 |
| Total formula weight | 518503.3 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 416.8 | |
| All* | Total formula weight | 518920.1 |
