Research workbench

Cdia-ct from uropathogenic escherichia COLI in complex with cysk

Analyse Cdia-ct from uropathogenic escherichia COLI in complex with cysk in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5J43
Type: protein
Length: 829 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cysteine synthase a; TRNA nuclease cdia
EC: 2.5.1.47, 3.1.-.-
UniProt: P0ABK6, Q0T963
Pockets: 8 · best druggability 0.80

Structure

x-ray diffraction · 3 distinct chains · 44% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
E	Cysteine synthase a (EC 2.5.1.47)	protein	314	41% helix, 17% strand	P0ABK6
F, B	TRNA nuclease cdia (EC 3.1.-.-)	protein	101	66% helix, 0% strand	Q0T963
A	Cysteine synthase a (EC 2.5.1.47)	protein	313	41% helix, 17% strand	P0ABK6

Pockets

8 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	315	0.80	0.91	54	empty
2	169	0.50	0.78	28	empty
3	123	0.43	0.76	19	empty
4	110	0.42	0.76	17	empty
5	54	0.37	0.80	11	empty

Interfaces

3 interfaces between chains.

E–A · 2412 Å² buried · 41 hydrogen bonds · protein-protein
E–F · 1338 Å² buried · 16 hydrogen bonds · protein-protein
A–B · 1300 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 modified (cofactor).

Compared structures

5J43 · CdiA-CT from uropathogenic Escherichia coli in complex with CysK · the same entry in another collection · chain E against E, TM-score 1.00
P0ABK6 · AlphaFold monomer V2.0 prediction for cysteine synthase a (P0ABK6) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P0ABK6
Every structure of UniProt Q0T963
Elsewhere: RCSB PDB 5J43 · PDBe 5J43 · UniProt P0ABK6 · UniProt Q0T963

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