Research workbench
Intact ATR/MEC1-ATRIP/DDC2 complex
Analyse Intact ATR/MEC1-ATRIP/DDC2 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5X6O
- Type
- protein
- Length
- 2,701 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase MEC1; DNA damage checkpoint protein LCD1
- EC
- 2.7.11.1
- UniProt
- P38111, Q04377
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 2 distinct chains · 60% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | SERINE/THREONINE-protein kinase MEC1 (EC 2.7.11.1) | protein | 1997 | 62% helix, 0% strand | P38111 |
| G | DNA damage checkpoint protein LCD1 | protein | 704 | 55% helix, 1% strand | Q04377 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 960 | 0.86 | 0.87 | 119 | empty |
| 2 | 1007 | 0.82 | 0.83 | 115 | empty |
| 3 | 1199 | 0.81 | 0.82 | 122 | empty |
| 4 | 1102 | 0.81 | 0.82 | 102 | empty |
| 5 | 412 | 0.79 | 0.88 | 50 | empty |
Interfaces
1 interface between chains.
- C–G · 4639 Ų buried · 28 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5X6O · Intact ATR/Mec1-ATRIP/Ddc2 complex · the same entry in another collection · chain C against C, TM-score 1.00
- P38111 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase MEC1 (P38111) · a predicted model of the same protein · chain C against A, TM-score 0.94
- Q04377 · AlphaFold monomer V2.0 prediction for DNA damage checkpoint protein LCD1 (Q04377) · a predicted model of the same protein · chain G against A, TM-score 0.67
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 P38111
- Every structure of UniProt Q04377
- Elsewhere: RCSB PDB 5X6O · PDBe 5X6O · UniProt P38111 · UniProt Q04377
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