MolNFT v1 · #26880 · protein
Crystal structure of apo-habu IX-bp at pH 4.6
1X2W · Coagulation factor IX/X-binding protein a chain: “Crystal structure of apo-habu IX-bp at pH 4.6”. X-ray diffraction, 3 ligands (RB, CL, SO4), 1 pocket (best druggability 0.38). MolNFT v1 #26880 on GenesisL1: 3D structure, binding…
- PDB
- 1X2W
- Type
- protein
- Length
- 252 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coagulation factor IX/X-binding protein a chain; Coagulation factor IX/FACTOR X-binding…
- UniProt
- Q7LZ71, P23807
- Ligands
- RB, CL, SO4
- Pockets
- 1 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Coagulation factor IX/X-binding protein a chain | protein | 129 | 22% helix, 30% strand | Q7LZ71 |
| B | Coagulation factor IX/FACTOR X-binding protein B chain | protein | 123 | 20% helix, 33% strand | P23807 |
Ligands and binding sites
- RB · Rubidium ion · metal · 2 copies · chains A
- CL · Chloride ion · ion · chains A, B
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 84 | 0.38 | 0.77 | 15 | SO4 |
Interfaces
1 interface between chains.
- A–B · 1887 Ų buried · 24 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide (disulfide).
Compared structures
- 1X2W · Crystal Structure of Apo-Habu IX-bp at pH 4.6 · the same entry in another collection · chain A against A, TM-score 1.00
- Q7LZ71 · AlphaFold monomer V2.0 prediction for snaclec coagulation factor IX- binding protein… · a predicted model of the same protein · chain A against A, TM-score 0.94
- P23807 · AlphaFold monomer V2.0 prediction for snaclec coagulation factor IX/FACTOR X-binding… · a predicted model of the same protein · chain B against A, TM-score 0.91
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 Q7LZ71
- Every structure of UniProt P23807
- Elsewhere: RCSB PDB 1X2W · PDBe 1X2W · UniProt Q7LZ71 · UniProt P23807
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