MolNFT v1 · #156413 · protein
Hapc-H1573 Fab complex
6M3C · Vitamin K-dependent protein C heavy chain: “Hapc-H1573 Fab complex”. X-ray diffraction, 20 pockets (best druggability 0.69). MolNFT v1 #156413 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6M3C
- Type
- protein
- Length
- 2,193 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vitamin K-dependent protein C heavy chain; Vitamin K-dependent protein C light chain…
- EC
- 3.4.21.69
- UniProt
- P04070
- Pockets
- 20 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 7% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, G | Vitamin K-dependent protein C heavy chain (EC 3.4.21.69) | protein | 239 | 13% helix, 36% strand | P04070 |
| B, D, I | Vitamin K-dependent protein C light chain (EC 3.4.21.69) | protein | 53 | 8% helix, 26% strand | P04070 |
| L, E, J | H1573 Fab H chain | protein | 218 | 6% helix, 46% strand | — |
| H, F, K | H1573 Fab L chain | protein | 221 | 1% helix, 43% strand | — |
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1142 | 0.69 | 0.74 | 115 | empty |
| 2 | 871 | 0.67 | 0.74 | 91 | empty |
| 3 | 562 | 0.63 | 0.75 | 62 | empty |
| 4 | 271 | 0.56 | 0.77 | 50 | empty |
| 5 | 108 | 0.54 | 0.83 | 26 | empty |
Interfaces
15 interfaces between chains.
- J–K · 2055 Ų buried · 11 hydrogen bonds · protein-protein
- L–H · 1998 Ų buried · 19 hydrogen bonds · protein-protein
- E–F · 1973 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 906 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 877 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 33 disulfide (disulfide).
Compared structures
- 6M3C · hAPC-h1573 Fab complex · the same entry in another collection · chain K against K, 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 P04070
- Elsewhere: RCSB PDB 6M3C · PDBe 6M3C · UniProt P04070
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