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Crystal structure of the lambda xis-DNA complex

Analyse Crystal structure of the lambda xis-DNA complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
2OG0
Type
protein + DNA
Length
139 residues
Chains
4
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
5'-D(*GP*TP*AP*TP*TP*AP*TP*GP*TP*AP*GP*TP*CP*TP*GP*TP*TP*T) -3'…
UniProt
P03699
Pockets
2 · best druggability 0.62

Structure

x-ray diffraction · 4 distinct chains · 29% helix, 27% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
C5'-D(*GP*TP*AP*TP*TP*AP*TP*GP*TP*AP*GP*TP*CP*TP*GP*TP*TP*T) -3'dna18——
D5'-D(*AP*AP*AP*CP*AP*GP*AP*CP*TP*AP*CP*AP*TP*AP*AP*TP*AP*C) -3'dna18——
AExcisionaseprotein5129% helix, 29% strandP03699
BExcisionaseprotein5229% helix, 25% strandP03699

Pockets

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

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
14250.620.7733empty
2920.320.7313empty

Interfaces

6 interfaces between chains.

  • C–D · 802 Ų buried · 76 hydrogen bonds · nucleic-nucleic
  • D–B · 462 Ų buried · 8 hydrogen bonds · protein-nucleic
  • C–B · 449 Ų buried · 10 hydrogen bonds · protein-nucleic
  • D–A · 266 Ų buried · 5 hydrogen bonds · protein-nucleic
  • A–B · 104 Ų buried · 0 hydrogen bonds · protein-protein

Compared structures

  • 2OG0 · Crystal Structure of the Lambda Xis-DNA complex · the same entry in another collection · chain C against C, TM-score 1.00

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