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Crystal structure of putative cobalamin synthesis related protein (cobf) from corynebacterium diphtheriae

Analyse Crystal structure of putative cobalamin synthesis related protein (cobf) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2NPN
Type: protein
Length: 238 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative cobalamin synthesis related protein
UniProt: Q6NIF5
Ligands: SAM, MG
Pockets: 1 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Putative cobalamin synthesis related protein	protein	238	41% helix, 25% strand	Q6NIF5

Ligands and binding sites

SAM · S-adenosylmethionine · ligand · chains A
MG · Magnesium ion · metal · chains A
GOL · Glycerol · additive · chains A

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	397	0.70	0.82	45	SAM

Modifications

Observed in the structure: 5 modified (engineered).

Compared structures

2NPN · Crystal structure of putative cobalamin synthesis related protein (CobF) from… · 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 Q6NIF5
Elsewhere: RCSB PDB 2NPN · PDBe 2NPN · UniProt Q6NIF5

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