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Crystal structure of the complex between the N-terminal domain of ravj and LEGL1 from legionella pneumophila str. philadelphia

Analyse Crystal structure of the complex between the N-terminal domain of ravj and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4XA9
Type: protein
Length: 3,791 residues
Chains: 16
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Gala protein type 1, 3 or 4; Uncharacterized protein
UniProt: Q5ZWY8, Q5ZWY9
Pockets: 20 · best druggability 0.83

Structure

x-ray diffraction · 9 distinct chains · 38% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, H	Gala protein type 1, 3 or 4	protein	247	34% helix, 14% strand	Q5ZWY8
a, d	Uncharacterized protein	protein	228	39% helix, 18% strand	Q5ZWY9
b	Uncharacterized protein	protein	227	39% helix, 19% strand	Q5ZWY9
c	Uncharacterized protein	protein	224	38% helix, 18% strand	Q5ZWY9
e	Uncharacterized protein	protein	227	40% helix, 19% strand	Q5ZWY9
f	Uncharacterized protein	protein	226	39% helix, 19% strand	Q5ZWY9
G	Gala protein type 1, 3 or 4	protein	248	33% helix, 15% strand	Q5ZWY8
g	Uncharacterized protein	protein	225	40% helix, 19% strand	Q5ZWY9
h	Uncharacterized protein	protein	229	38% helix, 19% strand	Q5ZWY9

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1163	0.83	0.84	124	empty
2	778	0.81	0.84	96	empty
3	655	0.76	0.82	77	empty
4	809	0.74	0.79	88	empty
5	245	0.65	0.83	43	empty

Interfaces

40 interfaces between chains.

G–g · 1407 Å² buried · 14 hydrogen bonds · protein-protein
H–h · 1406 Å² buried · 13 hydrogen bonds · protein-protein
C–c · 1381 Å² buried · 14 hydrogen bonds · protein-protein
F–f · 1373 Å² buried · 14 hydrogen bonds · protein-protein
A–a · 1352 Å² buried · 13 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 22 modified (engineered).

Compared structures

4XA9 · Crystal structure of the complex between the N-terminal domain of RavJ and LegL1 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 Q5ZWY8
Every structure of UniProt Q5ZWY9
Elsewhere: RCSB PDB 4XA9 · PDBe 4XA9 · UniProt Q5ZWY8 · UniProt Q5ZWY9

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