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NI2+/GUANINE interactions and NETROPSIN/GUANINE stacking in D(CGTATATACG)2

Analyse NI2+/GUANINE interactions and NETROPSIN/GUANINE stacking in D(CGTATATACG)2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 473D
Type: DNA
Length: 18 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-D(*CP*GP*TP*AP*TP*AP*TP*AP*CP*G)-3')
Ligands: NT, NI

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	DNA (5'-D(CPGPTPAPTPAPTPAPCPG)-3')	dna	9	—	—

Ligands and binding sites

NT · Netropsin · ligand · chains A, B
NI · Nickel (II) ion · metal · 4 copies · chains A, B

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

Interfaces

1 interface between chains.

A–B · 349 Å² buried · 28 hydrogen bonds · nucleic-nucleic

Compared structures

473D · NI2+/GUANINE interactions and NETROPSIN/GUANINE stacking in D(CGTATATACG)2 · 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 473D · PDBe 473D

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