Research workbench
Crystal structure of monobody MB(S4) bound to PRDM14 in complex with MTGR1
Analyse Crystal structure of monobody MB(S4) bound to PRDM14 in complex with MTGR1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ECJ
- Type
- protein
- Length
- 712 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pr domain zinc finger protein 14,PROTEIN CBFA2T2; Monobody MB(S4)
- EC
- 2.1.1.-
- UniProt
- E9Q3T6, O70374
- Pockets
- 11 · best druggability 0.65
Structure
x-ray diffraction · 3 distinct chains · 26% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pr domain zinc finger protein 14,PROTEIN CBFA2T2 (EC 2.1.1.-) | protein | 263 | 30% helix, 26% strand | E9Q3T6, O70374 |
| F, E | Monobody MB(S4) | protein | 93 | 0% helix, 61% strand | — |
| B | Pr domain zinc finger protein 14,PROTEIN CBFA2T2 (EC 2.1.1.-) | protein | 263 | 31% helix, 27% strand | E9Q3T6, O70374 |
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 654 | 0.65 | 0.75 | 52 | empty |
| 2 | 78 | 0.63 | 0.90 | 22 | empty |
| 3 | 125 | 0.57 | 0.84 | 31 | empty |
| 4 | 315 | 0.57 | 0.76 | 36 | empty |
| 5 | 53 | 0.53 | 0.88 | 20 | empty |
Interfaces
3 interfaces between chains.
- A–B · 882 Ų buried · 9 hydrogen bonds · protein-protein
- A–E · 597 Ų buried · 7 hydrogen bonds · protein-protein
- F–B · 582 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5ECJ · Crystal structure of monobody Mb(S4) bound to Prdm14 in complex with Mtgr1 · the same entry in another collection · chain E against E, TM-score 1.00
- E9Q3T6 · AlphaFold monomer V2.0 prediction for pr domain zinc finger protein 14 (E9Q3T6) · a predicted model of the same protein · chain A against A, TM-score 0.64
- O70374 · AlphaFold monomer V2.0 prediction for protein CBFA2T2 (O70374) · a predicted model of the same protein · chain A against A, TM-score 0.34
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 E9Q3T6
- Every structure of UniProt O70374
- Elsewhere: RCSB PDB 5ECJ · PDBe 5ECJ · UniProt E9Q3T6 · UniProt O70374
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