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Crystal structure of a self-assembling DNA scaffold containing sequence modifications to attempt to disrupt crystal contacts in a rhombohedral lattice.

Analyse Crystal structure of a self-assembling DNA scaffold containing sequence… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6UEF
Type: DNA
Length: 42 nucleotides
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'- D(*CP*AP*AP*TP*GP*AP*CP*TP*CP*AP*TP*GP*CP*TP*CP*AP*TP*CP*GP*GP*A)- 3'); DNA…

Structure

x-ray diffraction · 4 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	DNA (5'- D(CPAPAPTPGPAPCPTPCPAPTPGPCPTPCPAPTPCPGPGP*A)- 3')	dna	21	—	—
A	DNA (5'-D(PAPGPCPAPTPGP*A)-3')	dna	7	—	—
C	DNA (5'-D(TPGPTPCPCPGPAPTP*G)-3')	dna	9	—	—
D	DNA (5'-D(PGPTPCPAP*T)-3')	dna	5	—	—

Interfaces

5 interfaces between chains.

B–C · 336 Å² buried · 23 hydrogen bonds · nucleic-nucleic
B–A · 328 Å² buried · 30 hydrogen bonds · nucleic-nucleic
B–D · 256 Å² buried · 27 hydrogen bonds · nucleic-nucleic
A–C · 108 Å² buried · 3 hydrogen bonds · nucleic-nucleic
A–D · 103 Å² buried · 1 hydrogen bond · nucleic-nucleic

Compared structures

6UEF · Crystal Structure of a Self-Assembling DNA Scaffold Containing Sequence Modifications to… · the same entry in another collection · chain B against B, 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 6UEF · PDBe 6UEF

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