MolNFT v1 · #2619 · protein

E. COLI methionine aminopeptidase: methionine phosphonate complex

1C23: “E. COLI methionine aminopeptidase: methionine phosphonate complex”. X-ray diffraction, 3 ligands (MPH, CO, NA), 3 pockets (best druggability 0.57). MolNFT v1 #2619 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1C23
Type: protein
Length: 262 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Methionine aminopeptidase
EC: 3.4.11.18
UniProt: P07906
Ligands: MPH, CO, NA
Pockets: 3 · best druggability 0.57

Structure

x-ray diffraction · 1 distinct chain · 29% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Methionine aminopeptidase (EC 3.4.11.18)	protein	262	29% helix, 28% strand	P07906

Ligands and binding sites

MPH · (1-amino-3-methylsulfanyl-propyl)-phosphonic acid · ligand · chains A
CO · Cobalt (II) ion · metal · 2 copies · chains A
NA · Sodium ion · metal · chains A

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

Pockets

3 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	135	0.57	0.83	25	MPH
2	52	0.27	0.74	15	empty
3	58	0.26	0.72	12	empty

Compared structures

1C23 · E. COLI methionine aminopeptidase: methionine phosphonate complex · 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 P07906
Elsewhere: RCSB PDB 1C23 · PDBe 1C23 · UniProt P07906

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