MolNFT v1 · #155917 · protein
Cryoem structure of SERCA2B T1032STOP in E1-2CA2+-amppcp (CLASS1)
6LN5 · SARCOPLASMIC/ENDOPLASMIC reticulum calcium ATPase 2: “Cryoem structure of SERCA2B T1032STOP in E1-2CA2+-amppcp (CLASS1)”. Electron microscopy, 3 ligands (ACP, CA, MG), 14 pockets (best druggability 0.85). MolNFT v1 #155917 on…
- PDB
- 6LN5
- Type
- protein
- Length
- 1,011 residues
- Chains
- 1
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SARCOPLASMIC/ENDOPLASMIC reticulum calcium ATPase 2
- EC
- 7.2.2.10
- UniProt
- P16615
- Ligands
- ACP, CA, MG
- Pockets
- 14 · best druggability 0.85
Structure
electron microscopy · 1 distinct chain · 47% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SARCOPLASMIC/ENDOPLASMIC reticulum calcium ATPase 2 (EC 7.2.2.10) | protein | 1011 | 47% helix, 16% strand | P16615 |
Ligands and binding sites
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains A
- CA · Calcium ion · metal · 2 copies · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 943 | 0.85 | 0.86 | 88 | ACP |
| 2 | 374 | 0.68 | 0.81 | 50 | empty |
| 3 | 429 | 0.66 | 0.79 | 42 | empty |
| 4 | 377 | 0.61 | 0.76 | 33 | empty |
| 5 | 338 | 0.59 | 0.77 | 27 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6LN5 · CryoEM structure of SERCA2b T1032stop in E1-2Ca2+-AMPPCP (class1) · the same entry in another collection · chain A against A, TM-score 1.00
- P16615 · AlphaFold monomer V2.0 prediction for SARCOPLASMIC/ENDOPLASMIC reticulum calcium ATPase 2… · a predicted model of the same protein · chain A 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 P16615
- Elsewhere: RCSB PDB 6LN5 · PDBe 6LN5 · UniProt P16615
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