Research workbench
Structures of the no factor slma bound to DNA and the cytoskeletal cell division protein ftsz
Analyse Structures of the no factor slma bound to DNA and the cytoskeletal cell… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5HAW
- Type
- protein + DNA
- Length
- 405 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoid occlusion factor slma; DNA (5'-D(*GP*TP*GP*AP*GP*TP*AP*CP*TP*CP*AP*C)-3'); Ftsz…
- UniProt
- Q9KVD2
- Pockets
- 5 · best druggability 0.65
Structure
x-ray diffraction · 5 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleoid occlusion factor slma | protein | 186 | 74% helix, 0% strand | Q9KVD2 |
| B | Nucleoid occlusion factor slma | protein | 189 | 77% helix, 0% strand | Q9KVD2 |
| Z | DNA (5'-D(*GP*TP*GP*AP*GP*TP*AP*CP*TP*CP*AP*C)-3') | dna | 12 | — | — |
| L | Ftsz ctt | protein | 10 | 0% helix, 0% strand | — |
| K | Ftsz ctt | protein | 8 | 0% helix, 0% strand | — |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 88 | 0.65 | 0.91 | 21 | empty |
| 2 | 151 | 0.64 | 0.86 | 24 | empty |
| 3 | 80 | 0.63 | 0.91 | 20 | empty |
| 4 | 89 | 0.55 | 0.86 | 23 | empty |
| 5 | 52 | 0.24 | 0.72 | 15 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1710 Ų buried · 32 hydrogen bonds · protein-protein
- A–L · 768 Ų buried · 11 hydrogen bonds · protein-protein
- B–K · 653 Ų buried · 8 hydrogen bonds · protein-protein
- A–Z · 364 Ų buried · 10 hydrogen bonds · protein-nucleic
- B–Z · 19 Ų buried · 0 hydrogen bonds · protein-nucleic
Compared structures
- 5HAW · structures of the NO factor SlmA bound to DNA and the cytoskeletal cell division protein… · the same entry in another collection · chain B against B, TM-score 1.00
- Q9KVD2 · AlphaFold monomer V2.0 prediction for nucleoid occlusion factor slma (Q9KVD2) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 Q9KVD2
- Elsewhere: RCSB PDB 5HAW · PDBe 5HAW · UniProt Q9KVD2
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