Structure of PDB 4yz3 Chain B

Receptor sequence

>4yz3B (length=656) Species: 170187 (Streptococcus pneumoniae TIGR4)

NTPVLEKNNVTLTGGGENVTKELKDKFTSGDFTVVIKYNQSSEKGLQALF
GISNSKPGQQNSYVDVFLRDNGELGMEARDTSSNKNNLVSRPASVWGKYK
QEAVTNTVAVVADSVKKTYSLYANGTKVVEKKVDNFLNIKDIKGIDYYML
GGVKRAGKTAFGFNGTLENIKFFNSALDEETVKKMTTNAVTGHLIYTAND
TTGSNYFRIPVLYTFSNGRVFSSIDARYGGTHDFLNKINIATSYSDDNGK
TWTKPKLTLAFDDFAPVPLEWPREVGGRDLQISGGATYIDSVIVEKKNKQ
VLMFADVMPAGVSFREATRKDSGYKQIDGNYYLKLRKQGDTDYNYTIREN
GTVYDDRTNRPTEFSVDKNFGIKQNGNYLTVEQYSVSFEKKTEYRNGTKV
HMNIFYKDALFKVVPTNYIAYISSNDHGESWSAPTLLPPIMGLNRNAPYL
GPGRGIIESSTGRILIPSYTGKESAFIYSDDNGASWKVKVVPLPSSWSAE
AQFVELSPGVIQAYMRTNNGKIAYLTSKDAGTTWSAPEYLKFVSNPSYGT
QLSIINYSQLIDGKKAVILSTPNSTNGRKHGQIWIGLINDDNTIDWRYHH
DVDYSNYGYSYSTLTELPNHEIGLMFEKFDSWSRNELHMKNVVPYITFKI
EDLKKN

3D structure

• PDB: 4yz3 Crystal Structure of Streptococcus pneumoniae NanC.
• Chain: B
• Resolution: 2.38 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D315 E584 Y695
• Catalytic site (residue number reindexed from 1): D233 E500 Y611
• Enzyme Commision number: 3.2.1.18: exo-alpha-sialidase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	G39	B	R290 D315 D372 Y553 R600 R662 Y695 W716	R208 D233 D290 Y469 R516 R578 Y611 W632

Gene Ontology

Molecular Function

• GO:0004308 exo-alpha-sialidase activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds

Biological Process

• GO:0005975 carbohydrate metabolic process
• GO:0006689 ganglioside catabolic process
• GO:0009313 oligosaccharide catabolic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0016020 membrane
• GO:0043231 intracellular membrane-bounded organelle

External links

• PDB: RCSB:4yz3, PDBe:4yz3, PDBj:4yz3
• PDBsum: 4yz3
• UniProt: A0A0H2UQE4