Research workbench

Crystal structure of the srcr domain of mouse SCARA5

Analyse Crystal structure of the srcr domain of mouse SCARA5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7BZZ
Type: protein
Length: 218 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Scavenger receptor class a member 5
UniProt: Q8K299
Ligands: NAG, CA
Pockets: 4 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 17% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	Scavenger receptor class a member 5	protein	109	17% helix, 32% strand	Q8K299

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A, D
CA · Calcium ion · metal · 6 copies · chains A, D

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

Pockets

4 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	118	0.71	0.92	20	empty
2	75	0.34	0.75	24	empty
3	67	0.33	0.76	16	empty
4	63	0.31	0.75	17	empty

Interfaces

1 interface between chains.

A–D · 503 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide, 2 glycan (disulfide, N-glycosylation).

Compared structures

7BZZ · Crystal structure of the SRCR domain of mouse SCARA5 · the same entry in another collection · chain A against A, TM-score 1.00
Q8K299 · AlphaFold monomer V2.0 prediction for scavenger receptor class a member 5 (Q8K299) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 Q8K299
Elsewhere: RCSB PDB 7BZZ · PDBe 7BZZ · UniProt Q8K299

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.