Research workbench
Bartonella henselae nrnc bound to pgg. D4 symmetry
Analyse Bartonella henselae nrnc bound to pgg. D4 symmetry in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MQB
- Type
- protein + RNA
- Length
- 1,656 residues
- Chains
- 16
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nanornase C; RNA (5'-R(P*GP*G)-3')
- UniProt
- X5MEI1
- Pockets
- 17 · best druggability 0.69
Structure
electron microscopy · 2 distinct chains · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K, M, O | Nanornase C | protein | 205 | 40% helix, 17% strand | X5MEI1 |
| B, D, F, H, J, L, N, P | RNA (5'-R(P*GP*G)-3') | rna | 2 | — | — |
Pockets
17 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 650 | 0.69 | 0.77 | 80 | empty |
| 2 | 536 | 0.68 | 0.78 | 68 | empty |
| 3 | 511 | 0.66 | 0.78 | 56 | empty |
| 4 | 514 | 0.66 | 0.77 | 56 | empty |
| 5 | 125 | 0.42 | 0.76 | 25 | empty |
Interfaces
40 interfaces between chains.
- E–I · 1224 Ų buried · 5 hydrogen bonds · protein-protein
- G–O · 1222 Ų buried · 5 hydrogen bonds · protein-protein
- A–M · 1219 Ų buried · 5 hydrogen bonds · protein-protein
- C–K · 1212 Ų buried · 5 hydrogen bonds · protein-protein
- G–H · 447 Ų buried · 8 hydrogen bonds · protein-nucleic
Compared structures
- 7MQB · Bartonella henselae NrnC bound to pGG. D4 Symmetry · the same entry in another collection · chain M against M, 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 7MQB · PDBe 7MQB · UniProt X5MEI1
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