MolNFT v1 · #185185 · protein
Structure of staphylococcus capitis divalent metal ion transporter (dmt) by nabfab-fiducial assisted cryo-EM
7PIJ · Nabfab hc: “Structure of staphylococcus capitis divalent metal ion transporter (dmt) by nabfab-fiducial assisted cryo-EM”. Electron microscopy, 12 pockets (best druggability 0.69). MolNFT v1 #185185 on GenesisL1: 3D structure…
- PDB
- 7PIJ
- Type
- protein
- Length
- 1,068 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nabfab hc; Nabfab lc; Divalent metal cation transporter mnth; DMTNB16_4; Anti-Fab nanobody
- UniProt
- A0A4U9TNH6
- Pockets
- 12 · best druggability 0.69
Structure
electron microscopy · 5 distinct chains · 32% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Nabfab hc | protein | 221 | 9% helix, 44% strand | — |
| L | Nabfab lc | protein | 208 | 4% helix, 43% strand | — |
| B | Divalent metal cation transporter mnth | protein | 398 | 78% helix, 0% strand | A0A4U9TNH6 |
| N | DMTNB16_4 | protein | 121 | 0% helix, 32% strand | — |
| K | Anti-Fab nanobody | protein | 120 | 8% helix, 50% strand | — |
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 403 | 0.69 | 0.81 | 45 | empty |
| 2 | 446 | 0.60 | 0.75 | 69 | empty |
| 3 | 219 | 0.58 | 0.79 | 28 | empty |
| 4 | 246 | 0.56 | 0.78 | 31 | empty |
| 5 | 337 | 0.56 | 0.75 | 39 | empty |
Interfaces
5 interfaces between chains.
- H–L · 1898 Ų buried · 16 hydrogen bonds · protein-protein
- B–N · 812 Ų buried · 11 hydrogen bonds · protein-protein
- H–N · 759 Ų buried · 7 hydrogen bonds · protein-protein
- L–K · 588 Ų buried · 8 hydrogen bonds · protein-protein
- L–N · 268 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 7PIJ · Structure of Staphylococcus capitis divalent metal ion transporter (DMT) by… · the same entry in another collection · chain H against H, 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 A0A4U9TNH6
- Elsewhere: RCSB PDB 7PIJ · PDBe 7PIJ · UniProt A0A4U9TNH6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.