Research workbench
Merozoite surface protein 1 (msp-1) from plasmodium falciparum, alternative conformation 2
Analyse Merozoite surface protein 1 (msp-1) from plasmodium falciparum, alternative… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ZBD
- Type
- protein
- Length
- 1,159 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Merozoite surface antigens; Merozoite surface protein-1; Merozoite surface protein 1
- UniProt
- Q25922, M1V901, M1VNZ6, C4PDY5
- Pockets
- 20 · best druggability 0.75
Structure
electron microscopy · 4 distinct chains · 79% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Merozoite surface antigens | protein | 561 | 78% helix, 1% strand | Q25922 |
| B | Merozoite surface antigens | protein | 112 | 74% helix, 1% strand | M1V901 |
| C | Merozoite surface protein-1 | protein | 285 | 78% helix, 1% strand | M1VNZ6 |
| D | Merozoite surface protein 1 | protein | 201 | 86% helix, 1% strand | C4PDY5 |
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1145 | 0.75 | 0.78 | 111 | empty |
| 2 | 56 | 0.67 | 0.95 | 15 | empty |
| 3 | 599 | 0.67 | 0.76 | 55 | empty |
| 4 | 333 | 0.60 | 0.77 | 28 | empty |
| 5 | 263 | 0.60 | 0.79 | 26 | empty |
Interfaces
5 interfaces between chains.
- B–C · 3002 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 2321 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 2193 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 1507 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 983 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6ZBD · Merozoite surface protein 1 (MSP-1) from Plasmodium falciparum, alternative conformation 2 · 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 Q25922
- Every structure of UniProt M1V901
- Every structure of UniProt M1VNZ6
- Every structure of UniProt C4PDY5
- Elsewhere: RCSB PDB 6ZBD · PDBe 6ZBD · UniProt Q25922 · UniProt M1V901 · UniProt M1VNZ6 · UniProt C4PDY5
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