Research workbench
Structure of glycoprotein B domain IV of pseudorabies virus with 7B11 antibody
Analyse Structure of glycoprotein B domain IV of pseudorabies virus with 7B11 antibody in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ZS0
- Type
- protein
- Length
- 603 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 7B11 light chain; 7B11 heavy chain; Envelope glycoprotein B,ENVELOPE glycoprotein B
- UniProt
- A0A0U3FH21, A0A1Q0AKY5
- Pockets
- 5 · best druggability 0.58
Structure
x-ray diffraction · 3 distinct chains · 10% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 7B11 light chain | protein | 211 | 5% helix, 41% strand | — |
| B | 7B11 heavy chain | protein | 205 | 6% helix, 46% strand | — |
| C | Envelope glycoprotein B,ENVELOPE glycoprotein B | protein | 187 | 19% helix, 34% strand | A0A0U3FH21, A0A1Q0AKY5 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 486 | 0.58 | 0.73 | 58 | empty |
| 2 | 155 | 0.43 | 0.74 | 27 | empty |
| 3 | 133 | 0.42 | 0.75 | 20 | empty |
| 4 | 86 | 0.35 | 0.75 | 15 | empty |
| 5 | 63 | 0.31 | 0.75 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1791 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 484 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 284 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide (disulfide).
Compared structures
- 5ZS0 · Structure of glycoprotein B Domain IV of pseudorabies virus with 7B11 antibody · 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 A0A0U3FH21
- Every structure of UniProt A0A1Q0AKY5
- Elsewhere: RCSB PDB 5ZS0 · PDBe 5ZS0 · UniProt A0A0U3FH21 · UniProt A0A1Q0AKY5
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