Research workbench
X-ray crystal structure of protein Q8PZK8 from methanosarcina mazei. northeast structural genomics consortium target MAR9.
Analyse X-ray crystal structure of protein Q8PZK8 from methanosarcina mazei. northeast… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZQ7
- Type
- protein
- Length
- 813 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein MM0484
- UniProt
- Q8PZK8
- Pockets
- 6 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein MM0484 | protein | 201 | 34% helix, 26% strand | Q8PZK8 |
| B, C, D | Hypothetical protein MM0484 | protein | 204 | 33% helix, 26% strand | Q8PZK8 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 696 | 0.83 | 0.86 | 55 | empty |
| 2 | 593 | 0.81 | 0.86 | 61 | empty |
| 3 | 107 | 0.39 | 0.76 | 22 | empty |
| 4 | 88 | 0.39 | 0.77 | 16 | empty |
| 5 | 85 | 0.38 | 0.77 | 19 | empty |
Interfaces
6 interfaces between chains.
- B–C · 1502 Ų buried · 20 hydrogen bonds · protein-protein
- A–D · 1480 Ų buried · 24 hydrogen bonds · protein-protein
- B–D · 497 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 485 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 287 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 modified (engineered).
Compared structures
- 1ZQ7 · X-Ray Crystal Structure of Protein Q8PZK8 from Methanosarcina mazei. Northeast Structural… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8PZK8 · AlphaFold monomer V2.0 prediction for protein MM_0484 (Q8PZK8) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q8PZK8
- Elsewhere: RCSB PDB 1ZQ7 · PDBe 1ZQ7 · UniProt Q8PZK8
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