MolNFT v1 · #31505 · DNA

Crystal structure analysis of a 2-O-[2-(METHOXY)ETHYL]-2-thiothymidine modified oligodeoxynucleotide duplex

2AXB · 5'-D(*GP*CP*GP*TP*AP*(S2M)P*AP*CP*GP*C)-3'): “Crystal structure analysis of a 2-O-[2-(METHOXY)ETHYL]-2-thiothymidine modified oligodeoxynucleotide duplex”. X-ray diffraction, 1 pocket (best druggability 0.24). MolNFT v1 #31505 on…

PDB: 2AXB
Type: DNA
Length: 20 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*GP*CP*GP*TP*AP*(S2M)P*AP*CP*GP*C)-3')
Pockets: 1 · best druggability 0.24

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	5'-D(GPCPGPTPAP(S2M)PAPCPGPC)-3')	dna	10	—	—

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	62	0.24	0.72	11	empty

Interfaces

1 interface between chains.

A–B · 513 Å² buried · 55 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 2 modified (nucleotide modification).

Compared structures

2AXB · Crystal Structure Analysis Of A 2-O-[2-(methoxy)ethyl]-2-thiothymidine Modified… · 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 2AXB · PDBe 2AXB

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