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Mazf from S. aureus crystal form I, P212121, 2.1 a

Analyse Mazf from S. aureus crystal form I, P212121, 2.1 a in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4MZM
Type: protein
Length: 446 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: MRNA interferase mazf
EC: 3.1.-.-
UniProt: Q7A4G9
Pockets: 5 · best druggability 0.73

Structure

x-ray diffraction · 4 distinct chains · 21% helix, 38% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	MRNA interferase mazf (EC 3.1.-.-)	protein	115	20% helix, 38% strand	Q7A4G9
B	MRNA interferase mazf (EC 3.1.-.-)	protein	109	21% helix, 39% strand	Q7A4G9
C	MRNA interferase mazf (EC 3.1.-.-)	protein	108	21% helix, 38% strand	Q7A4G9
D	MRNA interferase mazf (EC 3.1.-.-)	protein	114	20% helix, 39% strand	Q7A4G9

Pockets

5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	656	0.73	0.80	73	empty
2	325	0.59	0.77	43	empty
3	56	0.40	0.81	17	empty
4	68	0.36	0.77	16	empty
5	71	0.28	0.72	15	empty

Interfaces

6 interfaces between chains.

A–B · 1309 Å² buried · 31 hydrogen bonds · protein-protein
C–D · 1283 Å² buried · 34 hydrogen bonds · protein-protein
A–D · 245 Å² buried · 2 hydrogen bonds · protein-protein
A–C · 235 Å² buried · 0 hydrogen bonds · protein-protein
B–C · 162 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

4MZM · MazF from S. aureus crystal form I, P212121, 2.1 A · the same entry in another collection · chain D against D, TM-score 1.00
Q7A4G9 · AlphaFold monomer V2.0 prediction for endoribonuclease mazf (Q7A4G9) · a predicted model of the same protein · chain B 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 Q7A4G9
Elsewhere: RCSB PDB 4MZM · PDBe 4MZM · UniProt Q7A4G9

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