GL1X · GenesisL1 explorer

MolNFT v1 · #29930 · protein + DNA

Crystal structure of N-COLE7/12-bp DNA/ZN complex

1ZNS · 5'-D(*CP*GP*GP*GP*AP*TP*AP*TP*CP*CP*CP*G)-3': “Crystal structure of N-COLE7/12-bp DNA/ZN complex”. X-ray diffraction, 1 ligand (ZN), 4 pockets (best druggability 0.46). MolNFT v1 #29930 on GenesisL1: 3D structure, binding sites and…

PDB
1ZNS
Type
protein + DNA
Length
142 residues
Chains
3
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
5'-D(*CP*GP*GP*GP*AP*TP*AP*TP*CP*CP*CP*G)-3'; Colicin E7
EC
3.1.-.-
UniProt
Q47112
Ligands
ZN
Pockets
4 · best druggability 0.46

Structure

x-ray diffraction · 2 distinct chains · 37% helix, 17% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
B, C5'-D(*CP*GP*GP*GP*AP*TP*AP*TP*CP*CP*CP*G)-3'dna12——
AColicin E7 (EC 3.1.-.-)protein11837% helix, 17% strandQ47112

Ligands and binding sites

  • ZN · Zinc ion · metal · chains B, A

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

Pockets

4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
1850.460.8117empty
2720.440.8213empty
31110.410.7716empty
4800.310.7312empty

Interfaces

3 interfaces between chains.

  • B–C · 498 Ų buried · 46 hydrogen bonds · nucleic-nucleic
  • B–A · 465 Ų buried · 14 hydrogen bonds · protein-nucleic
  • C–A · 456 Ų buried · 6 hydrogen bonds · protein-nucleic

Compared structures

  • 1ZNS · Crystal structure of N-ColE7/12-bp DNA/Zn complex · the same entry in another collection · chain B against B, TM-score 1.00
  • Q47112 · AlphaFold monomer V2.0 prediction for colicin-E7 (Q47112) · a predicted model of the same protein · chain A against A, TM-score 0.98

Analyse

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