Research workbench

Parm from plasmid R1 in complex with amppnp

Analyse Parm from plasmid R1 in complex with amppnp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4A61
Type: protein
Length: 309 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Plasmid segregation protein parm
UniProt: P11904
Ligands: ANP, MG
Pockets: 2 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Plasmid segregation protein parm	protein	309	38% helix, 26% strand	P11904

Ligands and binding sites

ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains A
MG · Magnesium ion · metal · chains A

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	611	0.71	0.79	66	ANP, MG
2	52	0.30	0.76	17	empty

Compared structures

4A61 · ParM from plasmid R1 in complex with AMPPNP · the same entry in another collection · chain A against A, TM-score 1.00
P11904 · AlphaFold monomer V2.0 prediction for plasmid segregation protein parm (P11904) · 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 P11904
Elsewhere: RCSB PDB 4A61 · PDBe 4A61 · UniProt P11904

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