MolNFT v1 · #57174 · DNA

Hydration and recognition of methylated cpg steps in DNA

384D · 5'-D(*CP*(5CM)P*GP*CP*(5CM)P*GP*GP*(5CM)P*GP*G)-3': “Hydration and recognition of methylated cpg steps in DNA”. X-ray diffraction, 1 ligand (MG). MolNFT v1 #57174 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 384D
Type: DNA
Length: 20 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*CP*(5CM)P*GP*CP*(5CM)P*GP*GP*(5CM)P*GP*G)-3'
Ligands: MG

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	5'-D(CP(5CM)PGPCP(5CM)PGPGP(5CM)PGPG)-3'	dna	10	—	—

Ligands and binding sites

MG · Magnesium ion · metal

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

Interfaces

1 interface between chains.

A–B · 540 Å² buried · 53 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 6 modified (nucleotide modification).

Compared structures

384D · Hydration and recognition of methylated cpg steps in DNA · 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
Elsewhere: RCSB PDB 384D · PDBe 384D

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