MolNFT v1 · #65767 · protein

Crystal structure of the ubiquitin-like domain of plexin D1

3H6N · Plexin-D1: “Crystal structure of the ubiquitin-like domain of plexin D1”. X-ray diffraction, 2 ligands (ARS, UNX). MolNFT v1 #65767 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3H6N
Type: protein
Length: 104 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Plexin-D1
UniProt: Q9Y4D7
Ligands: ARS, UNX

Structure

x-ray diffraction · 1 distinct chain · 17% helix, 35% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Plexin-D1	protein	104	17% helix, 35% strand	Q9Y4D7

Ligands and binding sites

ARS · Arsenic · metal · 2 copies · chains A
UNX · Unknown atom or ion · ion · chains A

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

Modifications

Observed in the structure: 3 modified (engineered).

Compared structures

3H6N · Crystal Structure of the ubiquitin-like domain of plexin D1 · the same entry in another collection · chain A against A, TM-score 1.00
Q9Y4D7 · AlphaFold monomer V2.0 prediction for plexin-D1 (Q9Y4D7) · a predicted model of the same protein · chain A against A, TM-score 0.91

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 Q9Y4D7
Elsewhere: RCSB PDB 3H6N · PDBe 3H6N · UniProt Q9Y4D7

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