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Crystal structure of C-terminal truncated tip-1 (6-113)

Analyse Crystal structure of C-terminal truncated tip-1 (6-113) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3DJ3
Type: protein
Length: 400 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TAX1-binding protein 3
UniProt: Q9DBG9
Pockets: 8 · best druggability 0.70

Structure

x-ray diffraction · 3 distinct chains · 16% helix, 36% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	TAX1-binding protein 3	protein	100	16% helix, 38% strand	Q9DBG9
B	TAX1-binding protein 3	protein	101	14% helix, 36% strand	Q9DBG9
D	TAX1-binding protein 3	protein	99	19% helix, 34% strand	Q9DBG9

Pockets

8 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	106	0.70	0.92	23	empty
2	302	0.57	0.77	41	empty
3	147	0.44	0.75	21	empty
4	82	0.37	0.76	17	empty
5	73	0.33	0.75	17	empty

Interfaces

5 interfaces between chains.

B–C · 409 Å² buried · 2 hydrogen bonds · protein-protein
A–B · 365 Å² buried · 4 hydrogen bonds · protein-protein
C–D · 320 Å² buried · 0 hydrogen bonds · protein-protein
B–D · 213 Å² buried · 0 hydrogen bonds · protein-protein
A–C · 189 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

3DJ3 · Crystal Structure of C-terminal Truncated TIP-1 (6-113) · the same entry in another collection · chain A against A, TM-score 1.00
Q9DBG9 · AlphaFold monomer V2.0 prediction for TAX1-binding protein 3 (Q9DBG9) · a predicted model of the same protein · chain B against A, TM-score 0.96

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 Q9DBG9
Elsewhere: RCSB PDB 3DJ3 · PDBe 3DJ3 · UniProt Q9DBG9

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