MolNFT v1 · #15998 · protein

The crystal structure of HSP40 YDJ1

1NLT · Mitochondrial protein import protein MAS5: “The crystal structure of HSP40 YDJ1”. X-ray diffraction, 1 ligand (ZN). MolNFT v1 #15998 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1NLT
Type: protein
Length: 235 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mitochondrial protein import protein MAS5; Seven residue peptide
UniProt: P25491
Ligands: ZN

Structure

x-ray diffraction · 2 distinct chains · 4% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Mitochondrial protein import protein MAS5	protein	228	4% helix, 40% strand	P25491
B	Seven residue peptide	protein	7	0% helix, 57% strand	—

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A

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

Interfaces

1 interface between chains.

A–B · 496 Å² buried · 10 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 11 disulfide (disulfide).

Compared structures

1NLT · The crystal structure of Hsp40 Ydj1 · the same entry in another collection · chain A against A, TM-score 1.00
P25491 · AlphaFold monomer V2.0 prediction for mitochondrial protein import protein MAS5 (P25491) · a predicted model of the same protein · chain A against A, TM-score 0.93

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 P25491
Elsewhere: RCSB PDB 1NLT · PDBe 1NLT · UniProt P25491

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