MolNFT v1 · #42376 · DNA

2-hydroxy-7-nitrofluorene covalently linked into a 13MER DNA duplex - solution structure of the face-up orientation

2KH1 · 5'-D(*GP*CP*TP*GP*CP*AP*(3DR)P*AP*CP*GP*TP*CP*G)-3': “2-hydroxy-7-nitrofluorene covalently linked into a 13MER DNA duplex - solution structure of the face-up…”. Solution nmr, 1 ligand (HNF). MolNFT v1 #42376 on GenesisL1: 3D…

PDB: 2KH1
Type: DNA
Length: 26 nucleotides
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*GP*CP*TP*GP*CP*AP*(3DR)P*AP*CP*GP*TP*CP*G)-3'…
Ligands: HNF

Structure

solution nmr · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	5'-D(GPCPTPGPCPAP(3DR)PAPCPGPTPCP*G)-3'	dna	13	—	—
B	5'-D(CPGPAPCPGPTP(3DR)PTPGPCPAPGP*C)-3'	dna	13	—	—

Ligands and binding sites

HNF · 7-nitro-9H-fluoren-2-ol · ligand · 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 · 580 Å² buried · 84 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 2 modified, 1 covalent (nucleotide modification, covalent ligand).

Compared structures

2KH1 · 2-Hydroxy-7-nitrofluorene covalently linked into a 13mer DNA duplex - solution structure… · 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 2KH1 · PDBe 2KH1

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