MolNFT v1 · #5805 · protein

Azurin mutant with met 121 replaced by glu

1ETJ: “Azurin mutant with met 121 replaced by glu”. X-ray diffraction, 1 ligand (CU), 5 pockets (best druggability 0.44). MolNFT v1 #5805 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1ETJ
Type: protein
Length: 512 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Azurin
UniProt: P00282
Ligands: CU
Pockets: 5 · best druggability 0.44

Structure

x-ray diffraction · 1 distinct chain · 19% helix, 34% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Azurin	protein	128	19% helix, 34% strand	P00282

Ligands and binding sites

CU · Copper (II) ion · metal · 4 copies · chains A, B, C, D

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

Pockets

5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	168	0.44	0.75	27	empty
2	142	0.40	0.74	33	empty
3	69	0.35	0.77	16	empty
4	58	0.31	0.76	13	empty
5	59	0.31	0.76	20	empty

Interfaces

5 interfaces between chains.

A–B · 325 Å² buried · 5 hydrogen bonds · protein-protein
C–D · 299 Å² buried · 4 hydrogen bonds · protein-protein
A–D · 40 Å² buried · 1 hydrogen bond · protein-protein
A–C · 26 Å² buried · 0 hydrogen bonds · protein-protein
B–D · 23 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

1ETJ · Azurin mutant with met 121 replaced by glu · the same entry in another collection · chain D against D, TM-score 1.00
P00282 · AlphaFold monomer V2.0 prediction for azurin (P00282) · a predicted model of the same protein · chain B 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 P00282
Elsewhere: RCSB PDB 1ETJ · PDBe 1ETJ · UniProt P00282

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