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MolNFT v1 · #11372 · protein + DNA

Testing the water-mediated hin recombinase DNA recognition by systematic mutations

1JKP · 5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*GP*AP*AP*GP*A)- 3': “Testing the water-mediated hin recombinase DNA recognition by systematic mutations”. X-ray diffraction, 2 pockets (best druggability 0.32). MolNFT v1 #11372 on GenesisL1: 3D…

PDB
1JKP
Type
protein + DNA
Length
75 residues
Chains
3
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*GP*AP*AP*GP*A)- 3'…
UniProt
P03013
Pockets
2 · best druggability 0.32

Structure

x-ray diffraction · 3 distinct chains · 55% helix, 0% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
A5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*GP*AP*AP*GP*A)- 3'dna14——
B5'-D(*AP*TP*CP*TP*TP*CP*TP*CP*AP*AP*AP*AP*AP*C)- 3'dna14——
CDNA-invertase hinprotein4755% helix, 0% strandP03013

Pockets

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

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
1710.320.7514empty
2520.240.7310empty

Interfaces

3 interfaces between chains.

  • A–B · 513 Ų buried · 48 hydrogen bonds · nucleic-nucleic
  • A–C · 451 Ų buried · 9 hydrogen bonds · protein-nucleic
  • B–C · 439 Ų buried · 9 hydrogen bonds · protein-nucleic

Compared structures

  • 1JKP · Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations · the same entry in another collection · chain A against A, TM-score 1.00
  • P03013 · AlphaFold monomer V2.0 prediction for DNA-invertase hin (P03013) · a predicted model of the same protein · chain C against A, TM-score 0.93

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