MolNFT v1 · #17906 · protein

Crystal structure of phospholipase A2 (MIPLA4) from micropechis ikaheka

1P7O: “Crystal structure of phospholipase A2 (MIPLA4) from micropechis ikaheka”. X-ray diffraction, 7 pockets (best druggability 0.79). MolNFT v1 #17906 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1P7O
Type: protein
Length: 744 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Phospholipase A2
EC: 3.1.1.4
Pockets: 7 · best druggability 0.79

Structure

x-ray diffraction · 1 distinct chain · 44% helix, 8% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Phospholipase A2 (EC 3.1.1.4)	protein	124	44% helix, 8% strand	—

Pockets

7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	848	0.79	0.82	61	empty
2	520	0.66	0.77	63	empty
3	266	0.63	0.81	28	empty
4	239	0.62	0.81	27	empty
5	440	0.61	0.76	45	empty

Interfaces

9 interfaces between chains.

A–E · 542 Å² buried · 5 hydrogen bonds · protein-protein
B–F · 502 Å² buried · 5 hydrogen bonds · protein-protein
A–F · 350 Å² buried · 0 hydrogen bonds · protein-protein
A–B · 235 Å² buried · 3 hydrogen bonds · protein-protein
E–F · 226 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 42 disulfide (disulfide).

Compared structures

1P7O · Crystal structure of phospholipase A2 (MIPLA4) from Micropechis ikaheka · the same entry in another collection · chain D against D, 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
Elsewhere: RCSB PDB 1P7O · PDBe 1P7O

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