Research workbench
Second native structure of xylanase A1 from paenibacillus sp. jdr-2
Analyse Second native structure of xylanase A1 from paenibacillus sp. jdr-2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4E4P
- Type
- protein
- Length
- 586 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endo-1,4-beta-xylanase a
- EC
- 3.2.1.8
- UniProt
- C6CRV0
- Ligands
- MG, CL
- Pockets
- 1 · best druggability 0.29
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Endo-1,4-beta-xylanase a (EC 3.2.1.8) | protein | 293 | 44% helix, 22% strand | C6CRV0 |
Ligands and binding sites
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 | 70 | 0.29 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 59 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4E4P · Second native structure of Xylanase A1 from Paenibacillus sp. JDR-2 · the same entry in another collection · chain A against A, TM-score 1.00
- C6CRV0 · AlphaFold monomer V2.0 prediction for endo-1,4-beta-xylanase a (C6CRV0) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 C6CRV0
- Elsewhere: RCSB PDB 4E4P · PDBe 4E4P · UniProt C6CRV0
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