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Zinc bound structure of an archaeal member of the ligd 3'- phosphoesterase DNA repair enzyme family

Analyse Zinc bound structure of an archaeal member of the ligd 3'- phosphoesterase DNA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3TA7
Type: protein
Length: 118 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: ATP-dependent DNA ligase, N-terminal domain protein
UniProt: B1L4V6
Ligands: ZN, PO4
Pockets: 1 · best druggability 0.44

Structure

x-ray diffraction · 1 distinct chain · 4% helix, 64% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	ATP-dependent DNA ligase, N-terminal domain protein	protein	118	4% helix, 64% strand	B1L4V6

Ligands and binding sites

ZN · Zinc ion · metal · chains A
PO4 · Phosphate ion · ion · chains A
PEG · Di(hydroxyethyl)ether · additive · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	137	0.44	0.76	20	ZN, PO4

Compared structures

3TA7 · Zinc bound structure of an archaeal member of the LigD 3'-phosphoesterase DNA repair… · 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 B1L4V6
Elsewhere: RCSB PDB 3TA7 · PDBe 3TA7 · UniProt B1L4V6

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