MolNFT v1 · #154377 · protein

The complex of nrs-1 N terminal domain (1-305) with dgtp

6K9A · Primase: “The complex of nrs-1 N terminal domain (1-305) with dgtp”. X-ray diffraction, 2 ligands (DGT, CA), 1 pocket (best druggability 0.51). MolNFT v1 #154377 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6K9A
Type: protein
Length: 278 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Primase
UniProt: M5AAG8
Ligands: DGT, CA
Pockets: 1 · best druggability 0.51

Structure

x-ray diffraction · 1 distinct chain · 32% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Primase	protein	278	32% helix, 22% strand	M5AAG8

Ligands and binding sites

DGT · 2'-deoxyguanosine-5'-triphosphate · ligand · chains A
CA · Calcium ion · metal · 2 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	147	0.51	0.79	24	CA, DGT

Compared structures

6K9A · The complex of NrS-1 N terminal domain (1-305) with dGTP · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt M5AAG8
Elsewhere: RCSB PDB 6K9A · PDBe 6K9A · UniProt M5AAG8

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