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The bi-loop, a new general four-stranded DNA motif

Analyse The bi-loop, a new general four-stranded DNA motif in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 284D
Type: DNA
Length: 16 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-CD(*P*AP*TP*TP*CP*AP*TP*TP*C)-3')
Ligands: BA, NA

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	DNA (5'-CD(PAPTPTPCPAPTPTP*C)-3')	dna	8	—	—

Ligands and binding sites

BA · Barium ion · metal · 11 copies · chains A, B
NA · Sodium ion · metal · 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 · 323 Å² buried · 22 hydrogen bonds · nucleic-nucleic

Compared structures

284D · The bi-loop, a new general four-stranded DNA motif · 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 284D · PDBe 284D

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