Research workbench
Kinetically trapped pseudomonas-phage PAP3 portal protein - delta barrel mutant class-3
Analyse Kinetically trapped pseudomonas-phage PAP3 portal protein - delta barrel mutant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SZ6
- Type
- protein
- Length
- 5,349 residues
- Chains
- 11
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Portal protein
- UniProt
- Q8H9R8
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 8 distinct chains · 45% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| k | Portal protein | protein | 483 | 45% helix, 8% strand | Q8H9R8 |
| j | Portal protein | protein | 476 | 46% helix, 9% strand | Q8H9R8 |
| i | Portal protein | protein | 471 | 46% helix, 8% strand | Q8H9R8 |
| a, c, d, e | Portal protein | protein | 505 | 44% helix, 8% strand | Q8H9R8 |
| b | Portal protein | protein | 499 | 42% helix, 7% strand | Q8H9R8 |
| f | Portal protein | protein | 481 | 45% helix, 7% strand | Q8H9R8 |
| h | Portal protein | protein | 468 | 47% helix, 8% strand | Q8H9R8 |
| g | Portal protein | protein | 451 | 45% helix, 8% strand | Q8H9R8 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 894 | 0.88 | 0.90 | 127 | empty |
| 2 | 796 | 0.88 | 0.91 | 103 | empty |
| 3 | 941 | 0.88 | 0.89 | 107 | empty |
| 4 | 933 | 0.87 | 0.89 | 123 | empty |
| 5 | 1015 | 0.87 | 0.88 | 105 | empty |
Interfaces
11 interfaces between chains.
- b–c · 3164 Ų buried · 29 hydrogen bonds · protein-protein
- k–j · 3119 Ų buried · 23 hydrogen bonds · protein-protein
- a–b · 3081 Ų buried · 22 hydrogen bonds · protein-protein
- c–d · 2921 Ų buried · 16 hydrogen bonds · protein-protein
- k–a · 2861 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 7SZ6 · Kinetically trapped Pseudomonas-phage PaP3 portal protein - delta barrel mutant class-3 · the same entry in another collection · chain k against k, 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 Q8H9R8
- Elsewhere: RCSB PDB 7SZ6 · PDBe 7SZ6 · UniProt Q8H9R8
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