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Structure of a nanobody recognizing the fumarate transporter SLC26DG

Analyse Structure of a nanobody recognizing the fumarate transporter SLC26DG in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5DA4
Type: protein
Length: 369 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nanobody recognizing the membrane protein SLC26DG
Pockets: 5 · best druggability 0.60

Structure

x-ray diffraction · 1 distinct chain · 6% helix, 55% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Nanobody recognizing the membrane protein SLC26DG	protein	123	6% helix, 55% strand	—

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	102	0.60	0.87	22	empty
2	244	0.48	0.74	46	empty
3	113	0.46	0.78	22	empty
4	58	0.35	0.79	15	empty
5	63	0.28	0.74	22	empty

Interfaces

2 interfaces between chains.

A–C · 738 Å² buried · 11 hydrogen bonds · protein-protein
B–C · 549 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

5DA4 · Structure of a nanobody recognizing the fumarate transporter SLC26Dg · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 5DA4 · PDBe 5DA4

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