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3D EM MAP of the sodium proton antiporter MJNHAP1 from methanocaldococcus jannaschii

Analyse 3D EM MAP of the sodium proton antiporter MJNHAP1 from methanocaldococcus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4D0A
Type: protein
Length: 419 residues
Chains: 1
Method: electron crystallography
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: NA(+)/H(+) antiporter 1
UniProt: Q60362
Pockets: 7 · best druggability 0.78

Structure

electron crystallography · 1 distinct chain · 72% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	NA(+)/H(+) antiporter 1	protein	419	72% helix, 0% strand	Q60362

Pockets

7 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	790	0.78	0.81	97	empty
2	169	0.66	0.86	34	empty
3	286	0.66	0.82	41	empty
4	292	0.63	0.80	35	empty
5	179	0.59	0.82	33	empty

Compared structures

4D0A · 3D EM map of the sodium proton antiporter MjNhaP1 from Methanocaldococcus jannaschii · the same entry in another collection · chain B against B, TM-score 1.00
Q60362 · AlphaFold monomer V2.0 prediction for NA(+)/H(+) antiporter 1 (Q60362) · a predicted model of the same protein · chain B against A, TM-score 0.88

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 Q60362
Elsewhere: RCSB PDB 4D0A · PDBe 4D0A · UniProt Q60362

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