Research workbench
Crystal structure of a CBF5-NOP10-GAR1 complex from saccharomyces cerevisiae
Analyse Crystal structure of a CBF5-NOP10-GAR1 complex from saccharomyces cerevisiae in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3U28
- Type
- protein
- Length
- 475 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- H/ACA ribonucleoprotein complex subunit 4; H/ACA ribonucleoprotein complex subunit 3…
- EC
- 5.4.99.-
- UniProt
- P33322, Q6Q547, P28007
- Pockets
- 3 · best druggability 0.45
Structure
x-ray diffraction · 3 distinct chains · 25% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | H/ACA ribonucleoprotein complex subunit 4 (EC 5.4.99.-) | protein | 335 | 31% helix, 31% strand | P33322 |
| B | H/ACA ribonucleoprotein complex subunit 3 | protein | 48 | 13% helix, 25% strand | Q6Q547 |
| C | H/ACA ribonucleoprotein complex subunit 1 | protein | 92 | 11% helix, 49% strand | P28007 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 91 | 0.45 | 0.80 | 19 | empty |
| 2 | 67 | 0.34 | 0.76 | 14 | empty |
| 3 | 59 | 0.28 | 0.73 | 13 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1298 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 875 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3U28 · Crystal structure of a Cbf5-Nop10-Gar1 complex from Saccharomyces cerevisiae · the same entry in another collection · chain A against A, TM-score 1.00
- P33322 · AlphaFold monomer V2.0 prediction for H/ACA ribonucleoprotein complex subunit CBF5… · a predicted model of the same protein · chain A against A, TM-score 0.99
- P28007 · AlphaFold monomer V2.0 prediction for H/ACA ribonucleoprotein complex subunit GAR1… · a predicted model of the same protein · chain C against A, TM-score 0.98
- Q6Q547 · AlphaFold monomer V2.0 prediction for H/ACA ribonucleoprotein complex subunit NOP10… · a predicted model of the same protein · chain B against A, TM-score 0.74
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 P33322
- Every structure of UniProt Q6Q547
- Every structure of UniProt P28007
- Elsewhere: RCSB PDB 3U28 · PDBe 3U28 · UniProt P33322 · UniProt Q6Q547 · UniProt P28007
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