Research workbench
Crystal structure of the monobody ysmb-9 bound to human SUMO1
Analyse Crystal structure of the monobody ysmb-9 bound to human SUMO1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RZW
- Type
- protein
- Length
- 331 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Monobody ysmb-9; Small ubiquitin-related modifier 1
- UniProt
- P63165
Structure
x-ray diffraction · 3 distinct chains · 15% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Monobody ysmb-9 | protein | 89 | 0% helix, 60% strand | — |
| C | Small ubiquitin-related modifier 1 | protein | 75 | 24% helix, 39% strand | P63165 |
| D | Small ubiquitin-related modifier 1 | protein | 78 | 23% helix, 36% strand | P63165 |
Ligands and binding sites
- GOL · Glycerol · additive · 2 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
3 interfaces between chains.
- A–D · 644 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 631 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 44 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 3RZW · Crystal Structure of the Monobody ySMB-9 bound to human SUMO1 · the same entry in another collection · chain A against A, TM-score 1.00
- P63165 · AlphaFold monomer V2.0 prediction for small ubiquitin-related modifier 1 (P63165) · a predicted model of the same protein · chain C against A, TM-score 0.98
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 P63165
- Elsewhere: RCSB PDB 3RZW · PDBe 3RZW · UniProt P63165
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