GL1X · GenesisL1 explorer

Research workbench

Mutm (fpg)-DNA estranged thymine mismatch recognition complex

Analyse Mutm (fpg)-DNA estranged thymine mismatch recognition complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
1L2C
Type
protein + DNA
Length
283 residues
Chains
3
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
5'- D(*AP*G*GP*TP*AP*GP*AP*CP*TP*TP*GP*GP*AP*CP*GP*C)-3'…
Ligands
ZN
Pockets
2 · best druggability 0.67

Structure

x-ray diffraction · 3 distinct chains · 31% helix, 25% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
B5'- D(*AP*G*GP*TP*AP*GP*AP*CP*TP*TP*GP*GP*AP*CP*GP*C)-3'dna12——
C5'-D(*TP*GP*C*GP*TP*CP*CP*AP*(HPD) P*GP*TP*CP*TP*AP*CP*C)-3'dna12——
AMutmprotein25931% helix, 25% strand—

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.

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
15930.670.7744empty
21000.390.7621empty

Interfaces

3 interfaces between chains.

  • C–A · 645 Ų buried · 13 hydrogen bonds · protein-nucleic
  • B–C · 484 Ų buried · 49 hydrogen bonds · nucleic-nucleic
  • B–A · 416 Ų buried · 5 hydrogen bonds · protein-nucleic

Modifications

Observed in the structure: 1 modified (nucleotide modification).

Compared structures

  • 1L2C · MutM (Fpg)-DNA Estranged Thymine Mismatch Recognition Complex · the same entry in another collection · chain B against B, TM-score 1.00

Analyse

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.