MolNFT v1 · #21745 · DNA

The ultra-high resolution structure of D(CTTTTAAAAG)2: modulation of bending by T-a steps and its role in DNA recognition

1SK5 · 5'-D(*CP*TP*TP*TP*TP*AP*AP*AP*AP*G)-3': “The ultra-high resolution structure of D(CTTTTAAAAG)2: modulation of bending by T-a steps and its role in DNA…”. X-ray diffraction, 1 ligand (CA), 1 pocket (best druggability 0.31). MolNFT v1…

PDB: 1SK5
Type: DNA
Length: 20 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*CP*TP*TP*TP*TP*AP*AP*AP*AP*G)-3'
Ligands: CA
Pockets: 1 · best druggability 0.31

Structure

x-ray diffraction · 1 distinct chain.

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

Ligands and binding sites

CA · Calcium ion · metal · 8 copies · chains A, B

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

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	79	0.31	0.74	14	CA

Interfaces

1 interface between chains.

A–B · 470 Å² buried · 31 hydrogen bonds · nucleic-nucleic

Compared structures

1SK5 · The ultra-high resolution structure of d(CTTTTAAAAG)2: modulation of bending by T-A steps… · 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 1SK5 · PDBe 1SK5

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