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Crystal structure of the traf domain of TRAF5

Analyse Crystal structure of the traf domain of TRAF5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4GJH
Type: protein
Length: 528 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TNF receptor-associated factor 5
UniProt: P70191
Pockets: 8 · best druggability 0.68

Structure

x-ray diffraction · 3 distinct chains · 22% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	TNF receptor-associated factor 5	protein	175	22% helix, 32% strand	P70191
B	TNF receptor-associated factor 5	protein	176	20% helix, 32% strand	P70191
C	TNF receptor-associated factor 5	protein	177	23% helix, 32% strand	P70191

Pockets

8 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	324	0.68	0.82	42	empty
2	262	0.61	0.80	28	empty
3	294	0.60	0.78	31	empty
4	184	0.56	0.80	27	empty
5	225	0.56	0.78	28	empty

Interfaces

3 interfaces between chains.

A–C · 786 Å² buried · 9 hydrogen bonds · protein-protein
A–B · 779 Å² buried · 7 hydrogen bonds · protein-protein
B–C · 752 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

4GJH · Crystal Structure of the TRAF domain of TRAF5 · the same entry in another collection · chain A against A, TM-score 1.00
P70191 · AlphaFold monomer V2.0 prediction for TNF receptor-associated factor 5 (P70191) · a predicted model of the same protein · chain A against A, TM-score 0.94

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 P70191
Elsewhere: RCSB PDB 4GJH · PDBe 4GJH · UniProt P70191

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