Research workbench
Structure of the fibrinogen G chain integrin binding and factor xiiia crosslinking sites obtained through carrier protein driven crystallization
Analyse Structure of the fibrinogen G chain integrin binding and factor xiiia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1DUG
- Type
- protein
- Length
- 468 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chimera of glutathione S-transferase-synthetic linker-C- terminal fibrinogen gamma chain
- EC
- 2.5.1.18
- UniProt
- P08515, P02679
- Ligands
- GSH
- Pockets
- 2 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Chimera of glutathione S-transferase-synthetic linker-C- terminal fibrinogen gamma chain (EC 2.5.1.18) | protein | 234 | 48% helix, 8% strand | P08515, P02679 |
Ligands and binding sites
- GSH · Glutathione · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1194 | 0.80 | 0.81 | 100 | GSH |
| 2 | 68 | 0.60 | 0.90 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 1491 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 1DUG · Structure of the fibrinogen G chain integrin binding and factor xiiia crosslinking sites… · the same entry in another collection · chain A against A, TM-score 1.00
- P08515 · AlphaFold monomer V2.0 prediction for glutathione S-transferase class-mu 26 kda isozyme… · a predicted model of the same protein · chain A against A, TM-score 0.92
- P02679 · AlphaFold monomer V2.0 prediction for fibrinogen gamma chain (P02679) · a predicted model of the same protein · chain A against A, TM-score 0.30
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 P08515
- Every structure of UniProt P02679
- Elsewhere: RCSB PDB 1DUG · PDBe 1DUG · UniProt P08515 · UniProt P02679
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