MolNFT v1 · #155370 · protein

Crystal structure of human rootletin 1108-1317

6L5J: “Crystal structure of human rootletin 1108-1317”. X-ray diffraction, 5 pockets (best druggability 0.59). MolNFT v1 #155370 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6L5J
Type: protein
Length: 825 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Rootletin
UniProt: Q5TZA2
Pockets: 5 · best druggability 0.59

Structure

x-ray diffraction · 3 distinct chains · 98% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Rootletin	protein	208	98% helix, 0% strand	Q5TZA2
B, C	Rootletin	protein	208	99% helix, 0% strand	Q5TZA2
D	Rootletin	protein	201	98% helix, 0% strand	Q5TZA2

Pockets

5 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	446	0.59	0.75	51	empty
2	288	0.58	0.77	31	empty
3	259	0.50	0.74	25	empty
4	99	0.36	0.75	18	empty
5	66	0.33	0.76	16	empty

Interfaces

6 interfaces between chains.

C–D · 5065 Å² buried · 14 hydrogen bonds · protein-protein
A–B · 4955 Å² buried · 14 hydrogen bonds · protein-protein
A–C · 773 Å² buried · 9 hydrogen bonds · protein-protein
A–D · 360 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 314 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 17 modified, 1 disulfide (engineered, disulfide).

Compared structures

6L5J · Crystal structure of human rootletin 1108-1317 · the same entry in another collection · chain D against D, TM-score 1.00
Q5TZA2 · AlphaFold monomer V2.0 prediction for rootletin (Q5TZA2) · a predicted model of the same protein · chain D against A, TM-score 0.74

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 Q5TZA2
Elsewhere: RCSB PDB 6L5J · PDBe 6L5J · UniProt Q5TZA2

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