Research workbench
Structure of RNA-dependent RNA polymerase 2 (RDR2) from arabidopsis thaliana
Analyse Structure of RNA-dependent RNA polymerase 2 (RDR2) from arabidopsis thaliana in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ROZ
- Type
- protein
- Length
- 1,064 residues
- Chains
- 1
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-dependent RNA polymerase 2
- EC
- 2.7.7.48
- UniProt
- O82504
- Ligands
- MG
- Pockets
- 15 · best druggability 0.78
Structure
electron microscopy · 1 distinct chain · 31% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-dependent RNA polymerase 2 (EC 2.7.7.48) | protein | 1064 | 31% helix, 20% strand | O82504 |
Ligands and binding sites
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 817 | 0.78 | 0.81 | 118 | empty |
| 2 | 1004 | 0.74 | 0.77 | 109 | empty |
| 3 | 347 | 0.73 | 0.85 | 36 | empty |
| 4 | 898 | 0.71 | 0.76 | 78 | empty |
| 5 | 50 | 0.66 | 0.96 | 21 | empty |
Compared structures
- 7ROZ · Structure of RNA-dependent RNA polymerase 2 (RDR2) from Arabidopsis thaliana · the same entry in another collection · chain A against A, TM-score 1.00
- O82504 · AlphaFold monomer V2.0 prediction for RNA-dependent RNA polymerase 2 (O82504) · a predicted model of the same protein · chain A against A, TM-score 0.95
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt O82504
- Elsewhere: RCSB PDB 7ROZ · PDBe 7ROZ · UniProt O82504
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