MolNFT v1 · #30304 · protein

Crystal structure of yjjv, tatd homolog from escherichia COLI K12, at 1.8 a resolution

1ZZM · Putative deoxyribonuclease yjjv: “Crystal structure of yjjv, tatd homolog from escherichia COLI K12, at 1.8 a resolution”. X-ray diffraction, 1 ligand (ZN), 1 pocket (best druggability 0.33). MolNFT v1 #30304 on GenesisL1: 3D…

PDB: 1ZZM
Type: protein
Length: 259 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative deoxyribonuclease yjjv
EC: 3.1.21.-
UniProt: P39408
Ligands: ZN
Pockets: 1 · best druggability 0.33

Structure

x-ray diffraction · 1 distinct chain · 47% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Putative deoxyribonuclease yjjv (EC 3.1.21.-)	protein	259	47% helix, 17% strand	P39408

Ligands and binding sites

ZN · Zinc ion · metal · 4 copies · chains A
P33 · 3,6,9,12,15,18-hexaoxaicosane-1,20-diol · 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	76	0.33	0.75	14	empty

Compared structures

1ZZM · Crystal structure of YJJV, TATD Homolog from Escherichia coli k12, at 1.8 A resolution · the same entry in another collection · chain A against A, TM-score 1.00
P39408 · AlphaFold monomer V2.0 prediction for uncharacterized metal-dependent hydrolase yjjv… · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P39408
Elsewhere: RCSB PDB 1ZZM · PDBe 1ZZM · UniProt P39408

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