Research workbench
Bartonella henselae nrnc complexed with paaagg. D4 symmetry.
Analyse Bartonella henselae nrnc complexed with paaagg. D4 symmetry. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MQF
- Type
- protein + RNA
- Length
- 1,624 residues
- Chains
- 16
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nanornase C; RNA (5'-R(P*AP*AP*AP*GP*G)-3')
- UniProt
- X5MEI1
- Pockets
- 20 · best druggability 0.67
Structure
electron microscopy · 2 distinct chains · 41% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K, M, O | Nanornase C | protein | 201 | 41% helix, 16% strand | X5MEI1 |
| B, D, F, H, J, L, N, P | RNA (5'-R(P*AP*AP*AP*GP*G)-3') | rna | 2 | — | — |
Pockets
20 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 556 | 0.67 | 0.77 | 58 | empty |
| 2 | 560 | 0.66 | 0.77 | 59 | empty |
| 3 | 522 | 0.66 | 0.77 | 59 | empty |
| 4 | 524 | 0.65 | 0.77 | 56 | empty |
| 5 | 133 | 0.47 | 0.78 | 26 | empty |
Interfaces
40 interfaces between chains.
- G–O · 1188 Ų buried · 8 hydrogen bonds · protein-protein
- E–I · 1187 Ų buried · 8 hydrogen bonds · protein-protein
- A–M · 1187 Ų buried · 8 hydrogen bonds · protein-protein
- C–K · 1186 Ų buried · 8 hydrogen bonds · protein-protein
- E–G · 407 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7MQF · Bartonella henselae NrnC complexed with pAAAGG. D4 symmetry. · 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 X5MEI1
- Elsewhere: RCSB PDB 7MQF · PDBe 7MQF · UniProt X5MEI1
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