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Crystal structure of sialic acid binding protein from haemophilus ducreyi with NEU5AC

Analyse Crystal structure of sialic acid binding protein from haemophilus ducreyi with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5Z99
Type: protein
Length: 485 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative ABC transporter periplasmic binding protein
UniProt: Q7VL18
Ligands: SLB
Pockets: 5 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 32% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Putative ABC transporter periplasmic binding protein	protein	485	32% helix, 23% strand	Q7VL18

Ligands and binding sites

SLB · N-acetyl-beta-neuraminic acid · sugar · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

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	85	0.76	0.98	20	empty
2	272	0.73	0.87	51	SLB
3	67	0.42	0.81	16	empty
4	123	0.37	0.73	22	empty
5	55	0.32	0.77	14	empty

Compared structures

5Z99 · Crystal structure of Sialic acid Binding protein from Haemophilus ducreyi with Neu5Ac · 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 Q7VL18
Elsewhere: RCSB PDB 5Z99 · PDBe 5Z99 · UniProt Q7VL18

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