Research workbench
Cryo-EM structure of human rhinovirus 16 (HRV16) complexed with a two- domain fragment of its cellular receptor, intercellular adhesion molecule-1 (D1D2-icam-1). implications for virus-receptor interactions. alpha carbons only
Analyse Cryo-EM structure of human rhinovirus 16 (HRV16) complexed with a two- domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1D3E
- Type
- protein
- Length
- 989 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (intercellular adhesion molecule-1); Protein (rhinovirus 16 coat protein VP1)…
- UniProt
- P05362, Q82122
Structure
electron microscopy · 5 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I | Protein (intercellular adhesion molecule-1) | protein | 185 | 0% helix, 0% strand | — |
| 1 | Protein (rhinovirus 16 coat protein VP1) | protein | 285 | 0% helix, 0% strand | P05362, Q82122 |
| 2 | Protein (rhinovirus 16 coat protein VP2) | protein | 252 | 0% helix, 0% strand | Q82122 |
| 3 | Protein (rhinovirus 16 coat protein VP3) | protein | 238 | 0% helix, 0% strand | Q82122 |
| 4 | Protein (rhinovirus 16 coat protein VP4) | protein | 29 | 0% helix, 0% strand | Q82122 |
Interfaces
5 interfaces between chains.
- 1–3 · 569 Ų buried · 0 hydrogen bonds · protein-protein
- 1–2 · 379 Ų buried · 0 hydrogen bonds · protein-protein
- 2–3 · 226 Ų buried · 0 hydrogen bonds · protein-protein
- 3–4 · 70 Ų buried · 0 hydrogen bonds · protein-protein
- 1–4 · 60 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 1D3E · Cryo-EM structure of human rhinovirus 16 (HRV16) complexed with a two-domain fragment of… · the same entry in another collection · chain 3 against 3, TM-score 1.00
- P05362 · AlphaFold monomer V2.0 prediction for intercellular adhesion molecule 1 (P05362) · a predicted model of the same protein · chain 1 against A, TM-score 0.24
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 P05362
- Every structure of UniProt Q82122
- Elsewhere: RCSB PDB 1D3E · PDBe 1D3E · UniProt P05362 · UniProt Q82122
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