MolNFT v1 · #61049 · protein

Crystal structure of colicin M, a novel phosphatase specifically imported by escherichia COLI

3DA3 · Colicin-M: “Crystal structure of colicin M, a novel phosphatase specifically imported by escherichia COLI”. X-ray diffraction, 1 ligand (MG), 2 pockets (best druggability 0.73). MolNFT v1 #61049 on GenesisL1: 3D structure, binding…

PDB: 3DA3
Type: protein
Length: 540 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Colicin-M
UniProt: P05820
Ligands: MG
Pockets: 2 · best druggability 0.73

Structure

x-ray diffraction · 1 distinct chain · 40% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Colicin-M	protein	270	40% helix, 20% strand	P05820

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1021	0.73	0.76	82	empty
2	52	0.29	0.76	13	empty

Interfaces

1 interface between chains.

A–B · 1082 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

3DA3 · Crystal Structure of Colicin M, A Novel Phosphatase Specifically Imported by Escherichia… · the same entry in another collection · chain A against A, TM-score 1.00
P05820 · AlphaFold monomer V2.0 prediction for colicin-M (P05820) · a predicted model of the same protein · chain B against A, TM-score 0.96

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 P05820
Elsewhere: RCSB PDB 3DA3 · PDBe 3DA3 · UniProt P05820

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