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Rdc refined solution structure of the thap zinc finger of THAP1 in complex with its 16BP RRM1 DNA target

Analyse Rdc refined solution structure of the thap zinc finger of THAP1 in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
2L1G
Type
protein + DNA
Length
119 residues
Chains
3
Method
solution nmr
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Thap domain-containing protein 1; DNA (5'-D(*GP*CP*TP*TP*GP*TP*GP*TP*GP*GP*GP*CP*AP*GP*CP*…
UniProt
Q9NVV9
Ligands
ZN

Structure

solution nmr · 3 distinct chains · 18% helix, 7% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AThap domain-containing protein 1protein8718% helix, 7% strandQ9NVV9
BDNA (5'-D(*GP*CP*TP*TP*GP*TP*GP*TP*GP*GP*GP*CP*AP*GP*CP*G)- 3')dna16——
CDNA (5'- D(P*CP*GP*CP*TP*GP*CP*CP*CP*AP*CP*AP*CP*AP*AP*GP*C)-3')dna16——

Ligands and binding sites

  • ZN · Zinc ion · metal · chains A

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

Interfaces

3 interfaces between chains.

  • B–C · 787 Ų buried · 82 hydrogen bonds · nucleic-nucleic
  • A–B · 611 Ų buried · 13 hydrogen bonds · protein-nucleic
  • A–C · 579 Ų buried · 17 hydrogen bonds · protein-nucleic

Compared structures

  • 2L1G · RDC refined solution structure of the THAP zinc finger of THAP1 in complex with its 16bp… · the same entry in another collection · chain A against A, TM-score 1.00
  • Q9NVV9 · AlphaFold monomer V2.0 prediction for thap domain-containing protein 1 (Q9NVV9) · a predicted model of the same protein · chain A against A, TM-score 0.67

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