MolNFT v1 · #118850 · protein

Crystal structure of the bacteriophage PHI29 tail knob protein GP9 truncation variant

5FEI · Distal tube protein: “Crystal structure of the bacteriophage PHI29 tail knob protein GP9 truncation variant”. X-ray diffraction, 9 pockets (best druggability 0.75). MolNFT v1 #118850 on GenesisL1: 3D structure, binding sites and…

PDB: 5FEI
Type: protein
Length: 1,021 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Distal tube protein
UniProt: P04331
Pockets: 9 · best druggability 0.75

Structure

x-ray diffraction · 2 distinct chains · 16% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Distal tube protein	protein	509	17% helix, 38% strand	P04331
B	Distal tube protein	protein	512	16% helix, 36% strand	P04331

Ligands and binding sites

PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	792	0.75	0.80	80	empty
2	306	0.62	0.79	51	empty
3	257	0.56	0.78	37	empty
4	93	0.48	0.81	23	empty
5	56	0.36	0.79	19	empty

Interfaces

1 interface between chains.

A–B · 2918 Å² buried · 26 hydrogen bonds · protein-protein

Compared structures

5FEI · Crystal structure of the bacteriophage phi29 tail knob protein gp9 truncation variant · the same entry in another collection · chain A against A, 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 P04331
Elsewhere: RCSB PDB 5FEI · PDBe 5FEI · UniProt P04331

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