Research workbench
Kshv pan RNA mta-response element fragment complexed with the globular domain of herpesvirus saimiri ORF57
Analyse Kshv pan RNA mta-response element fragment complexed with the globular domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HAU
- Type
- protein + RNA
- Length
- 552 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MRNA export factor ICP27 homolog; Mre fragment of pan RNA
- UniProt
- P13199
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 60% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | MRNA export factor ICP27 homolog | protein | 273 | 60% helix, 3% strand | P13199 |
| D | Mre fragment of pan RNA | rna | 6 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1002 | 0.75 | 0.78 | 94 | empty |
| 2 | 438 | 0.62 | 0.76 | 44 | empty |
| 3 | 82 | 0.45 | 0.81 | 19 | empty |
| 4 | 52 | 0.33 | 0.78 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–B · 3958 Ų buried · 23 hydrogen bonds · protein-protein
- B–D · 305 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–D · 252 Ų buried · 6 hydrogen bonds · protein-nucleic
Compared structures
- 6HAU · KSHV PAN RNA Mta-response element fragment complexed with the globular domain of… · the same entry in another collection · chain A against A, TM-score 1.00
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 P13199
- Elsewhere: RCSB PDB 6HAU · PDBe 6HAU · UniProt P13199
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