MolNFT v1 · #137048 · protein + DNA

Crystal structure of the WHSC1 PWWP1 domain

5VC8: “Crystal structure of the WHSC1 PWWP1 domain”. X-ray diffraction, 2 ligands (DN, UNX). MolNFT v1 #137048 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5VC8
Type: protein + DNA
Length: 288 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: O96028
Ligands: DN, UNX

Structure

x-ray diffraction · 4 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	protein	125	—	O96028
B	—	protein	125	—	O96028
W, X, Y	—	dna	12	—	—
Z	—	dna	2	—	—

Ligands and binding sites

DN · Unknown 2'-deoxynucleotide · ligand · chains Z
UNX · Unknown atom or ion · ion · 39 copies · chains A, B

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

Compared structures

5VC8 · Crystal structure of the WHSC1 PWWP1 domain · the same entry in another collection · chain B against B, TM-score 1.00
O96028 · AlphaFold monomer V2.0 prediction for histone-lysine N-methyltransferase NSD2 (O96028) · a predicted model of the same protein · chain A 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 O96028
Elsewhere: RCSB PDB 5VC8 · PDBe 5VC8 · UniProt O96028

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