MolNFT v1 · #144491 · protein

Crystal structure of hif-2ALPHA-pvhl-elongin B-elongin C

6BVB · Von hippel-lindau disease tumor suppressor: “Crystal structure of hif-2ALPHA-pvhl-elongin B-elongin C”. X-ray diffraction, 1 pocket (best druggability 0.42). MolNFT v1 #144491 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 6BVB
Type: protein
Length: 360 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Von hippel-lindau disease tumor suppressor; Elongin-B; Elongin-C; Hypoxia-inducible…
UniProt: P40337, Q15370, Q15369
Pockets: 1 · best druggability 0.42

Structure

x-ray diffraction · 4 distinct chains · 28% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
V	Von hippel-lindau disease tumor suppressor	protein	151	26% helix, 28% strand	P40337
B	Elongin-B	protein	106	20% helix, 34% strand	Q15370
C	Elongin-C	protein	89	46% helix, 16% strand	Q15369
H	Hypoxia-inducible factor 2 alpha	protein	14	0% helix, 7% strand	—

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	161	0.42	0.74	23	empty

Interfaces

4 interfaces between chains.

B–C · 1157 Å² buried · 14 hydrogen bonds · protein-protein
V–C · 1088 Å² buried · 12 hydrogen bonds · protein-protein
V–H · 720 Å² buried · 11 hydrogen bonds · protein-protein
V–B · 199 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (hydroxylation).

Compared structures

6BVB · Crystal structure of HIF-2alpha-pVHL-elongin B-elongin C · the same entry in another collection · chain V against V, TM-score 1.00
Q15370 · AlphaFold monomer V2.0 prediction for elongin-B (Q15370) · a predicted model of the same protein · chain B against A, TM-score 0.97
Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain C against A, TM-score 0.95

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 P40337
Every structure of UniProt Q15370
Every structure of UniProt Q15369
Elsewhere: RCSB PDB 6BVB · PDBe 6BVB · UniProt P40337 · UniProt Q15370 · UniProt Q15369

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