MolNFT v1 · #50005 · protein

Pentamer structure of major capsid protein L1 of human papilloma virus type 11

2R5K: “Pentamer structure of major capsid protein L1 of human papilloma virus type 11”. X-ray diffraction, 20 pockets (best druggability 0.70). MolNFT v1 #50005 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2R5K
Type: protein
Length: 2,095 residues
Chains: 5
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major capsid protein L1
UniProt: P04012
Pockets: 20 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 38% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E	Major capsid protein L1	protein	419	14% helix, 38% strand	P04012

Pockets

20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1010	0.70	0.74	54	empty
2	321	0.62	0.79	52	empty
3	343	0.61	0.78	53	empty
4	354	0.61	0.77	52	empty
5	281	0.61	0.79	51	empty

Interfaces

10 interfaces between chains.

D–E · 3555 Å² buried · 63 hydrogen bonds · protein-protein
C–D · 3550 Å² buried · 64 hydrogen bonds · protein-protein
A–B · 3548 Å² buried · 60 hydrogen bonds · protein-protein
A–E · 3537 Å² buried · 59 hydrogen bonds · protein-protein
B–C · 3531 Å² buried · 60 hydrogen bonds · protein-protein

Compared structures

2R5K · Pentamer Structure of Major Capsid protein L1 of Human Papilloma Virus type 11 · 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 P04012
Elsewhere: RCSB PDB 2R5K · PDBe 2R5K · UniProt P04012

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