GL1X · GenesisL1 explorer

MolNFT v1 · #154120 · protein

RUVBL1-RUVBL2 with truncated domain II in complex with phosphorylated cordycepin

6K0R: “RUVBL1-RUVBL2 with truncated domain II in complex with phosphorylated cordycepin”. X-ray diffraction, 5 ligands (CUU, 3AT, ADP). MolNFT v1 #154120 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
6K0R
Type
protein
Length
3,705 residues
Chains
12
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt
Q9Y265, Q9Y230
Ligands
CUU, 3AT, ADP, CU0, MG

Structure

x-ray diffraction · 11 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein316—Q9Y265
B, H—protein318—Q9Y265
C—protein313—Q9Y265
D—protein303—Q9Y230
E—protein304—Q9Y230
F—protein307—Q9Y230
G—protein311—Q9Y265
I—protein313—Q9Y265
J—protein302—Q9Y230
K—protein300—Q9Y230
L—protein300—Q9Y230

Ligands and binding sites

  • CUU · [(2~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-oxolan-2-yl]methyl phosphono hydrogen phosphate · ligand · 8 copies · chains B, C, D, F, G, H, I, K
  • 3AT · 3'-deoxyadenosine-5'-triphosphate · ligand · 2 copies · chains A, E, I, J
  • ADP · Adenosine-5'-diphosphate · ligand · chains A
  • CU0 · [(2~{R},3~{S},4~{S})-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate · ligand · chains L
  • MG · Magnesium ion · metal · 2 copies · chains C

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

Compared structures

  • 6K0R · Ruvbl1-Ruvbl2 with truncated domain II in complex with phosphorylated Cordycepin · the same entry in another collection · chain L against L, TM-score 1.00

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