MolNFT v1 · #92903 · protein

Structural basis of RPL5 recognition by SYO1

4GMN · 60S ribosomal protein L5-like protein: “Structural basis of RPL5 recognition by SYO1”. X-ray diffraction, 6 pockets (best druggability 0.61). MolNFT v1 #92903 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4GMN
Type: protein
Length: 570 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 60S ribosomal protein L5-like protein; Putative uncharacterized protein
UniProt: G0SEG2, G0S5S6
Pockets: 6 · best druggability 0.61

Structure

x-ray diffraction · 2 distinct chains · 71% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	60S ribosomal protein L5-like protein	protein	19	37% helix, 5% strand	G0SEG2
A	Putative uncharacterized protein	protein	551	72% helix, 1% strand	G0S5S6

Pockets

6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	301	0.61	0.79	35	empty
2	187	0.56	0.80	33	empty
3	160	0.47	0.77	26	empty
4	115	0.44	0.78	24	empty
5	101	0.43	0.78	23	empty

Interfaces

1 interface between chains.

B–A · 1266 Å² buried · 23 hydrogen bonds · protein-protein

Compared structures

4GMN · Structural basis of Rpl5 recognition by Syo1 · the same entry in another collection · chain B against B, 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
Every structure of UniProt G0SEG2
Every structure of UniProt G0S5S6
Elsewhere: RCSB PDB 4GMN · PDBe 4GMN · UniProt G0SEG2 · UniProt G0S5S6

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