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Crystal structure of new delhi metal-beta-lactamase-1 from klebsiella pneumoniae

Analyse Crystal structure of new delhi metal-beta-lactamase-1 from klebsiella pneumoniae in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3SBL
Type: protein
Length: 232 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-lactamase ndm-1
EC: 3.5.2.6
UniProt: C7C422
Pockets: 1 · best druggability 0.49

Structure

x-ray diffraction · 1 distinct chain · 24% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Beta-lactamase ndm-1 (EC 3.5.2.6)	protein	232	24% helix, 31% strand	C7C422

Ligands and binding sites

CIT · Citric acid · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	215	0.49	0.75	31	empty

Compared structures

3SBL · Crystal Structure of New Delhi Metal-beta-lactamase-1 from Klebsiella pneumoniae · the same entry in another collection · chain A against A, TM-score 1.00
C7C422 · AlphaFold monomer V2.0 prediction for metallo-beta-lactamase type 2 (C7C422) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 C7C422
Elsewhere: RCSB PDB 3SBL · PDBe 3SBL · UniProt C7C422

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