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MolNFT v1 · #13462 · protein + DNA

Structure of the complex of lac repressor headpiece and an 11 base- pair half-operator determined by nuclear magnetic resonance spectroscopy and restrained molecular dynamics

1LCC · DNA (5'-D(*AP*AP*TP*TP*GP*TP*GP*AP*GP*CP*G)-3'): “Structure of the complex of lac repressor headpiece and an 11 base- pair half-operator determined by nuclear…”. Solution nmr, 1 ligand (NA). MolNFT v1 #13462 on GenesisL1: 3D…

PDB
1LCC
Type
protein + DNA
Length
73 residues
Chains
3
Method
solution nmr
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
DNA (5'-D(*AP*AP*TP*TP*GP*TP*GP*AP*GP*CP*G)-3'); DNA…
UniProt
P03023
Ligands
NA

Structure

solution nmr · 3 distinct chains · 57% helix, 0% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
BDNA (5'-D(*AP*AP*TP*TP*GP*TP*GP*AP*GP*CP*G)-3')dna11——
CDNA (5'-D(*CP*GP*CP*TP*CP*AP*CP*AP*AP*TP*T)-3')dna11——
ALac repressorprotein5157% helix, 0% strandP03023

Ligands and binding sites

  • NA · Sodium ion · metal · chains C, A

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

Interfaces

3 interfaces between chains.

  • C–A · 502 Ų buried · 16 hydrogen bonds · protein-nucleic
  • B–C · 495 Ų buried · 51 hydrogen bonds · nucleic-nucleic
  • B–A · 364 Ų buried · 8 hydrogen bonds · protein-nucleic

Compared structures

  • 1LCC · Structure of the complex of lac repressor headpiece and an 11 base-pair half-operator… · the same entry in another collection · chain B against B, TM-score 1.00
  • P03023 · AlphaFold monomer V2.0 prediction for lactose operon repressor (P03023) · a predicted model of the same protein · chain A against A, TM-score 0.78

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