MolNFT v1 · #80416 · protein

Gef domain of dennd 1B in complex with rab GTPase RAB35

3TW8 · Denn domain-containing protein 1B: “Gef domain of dennd 1B in complex with rab GTPase RAB35”. X-ray diffraction, 13 pockets (best druggability 0.76). MolNFT v1 #80416 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3TW8
Type: protein
Length: 1,047 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Denn domain-containing protein 1B; RAS-related protein rab-35
UniProt: Q15286
Pockets: 13 · best druggability 0.76

Structure

x-ray diffraction · 4 distinct chains · 42% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Denn domain-containing protein 1B	protein	343	45% helix, 17% strand	—
B	RAS-related protein rab-35	protein	169	38% helix, 28% strand	Q15286
C	Denn domain-containing protein 1B	protein	362	43% helix, 17% strand	—
D	RAS-related protein rab-35	protein	173	38% helix, 28% strand	Q15286

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	563	0.76	0.83	47	empty
2	435	0.68	0.80	49	empty
3	323	0.65	0.80	25	empty
4	276	0.55	0.77	26	empty
5	104	0.55	0.84	18	empty

Interfaces

3 interfaces between chains.

C–D · 1577 Å² buried · 25 hydrogen bonds · protein-protein
A–B · 1496 Å² buried · 22 hydrogen bonds · protein-protein
A–C · 674 Å² buried · 11 hydrogen bonds · protein-protein

Compared structures

3TW8 · GEF domain of DENND 1B in complex with Rab GTPase Rab35 · the same entry in another collection · chain A against A, TM-score 1.00
Q15286 · AlphaFold monomer V2.0 prediction for RAS-related protein rab-35 (Q15286) · a predicted model of the same protein · chain B against A, TM-score 0.87

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 Q15286
Elsewhere: RCSB PDB 3TW8 · PDBe 3TW8 · UniProt Q15286

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