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SERCA2A from pig heart

Analyse SERCA2A from pig heart in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5MPM
Type: protein
Length: 992 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: SARCOPLASMIC/ENDOPLASMIC reticulum calcium ATPase 2
EC: 3.6.3.8
UniProt: P11607
Ligands: MGF, CZA, MG, K
Pockets: 11 · best druggability 0.84

Structure

x-ray diffraction · 1 distinct chain · 48% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	SARCOPLASMIC/ENDOPLASMIC reticulum calcium ATPase 2 (EC 3.6.3.8)	protein	992	48% helix, 16% strand	P11607

Ligands and binding sites

MGF · Trifluoromagnesate · ligand · chains A
CZA · (6ar,11as,11br)-10-acetyl-9-hydroxy-7,7-dimethyl-2,6, 6A,7,11A,11B-hexahydro-11H-pyrrolo[1',2':2, 3]isoindolo[4,5,6-cd]indol-11-one · ligand · chains A
MG · Magnesium ion · metal · 2 copies · chains A
K · Potassium ion · metal · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1166	0.84	0.85	100	CZA, MG
2	774	0.72	0.78	60	empty
3	487	0.67	0.79	34	empty
4	247	0.55	0.77	34	empty
5	344	0.55	0.75	34	empty

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

5MPM · SERCA2a from pig heart · the same entry in another collection · chain A against A, TM-score 1.00
P11607 · 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 0.97

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 P11607
Elsewhere: RCSB PDB 5MPM · PDBe 5MPM · UniProt P11607

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