Structure of PDB 8q5u Chain F Binding Site BS03

Receptor Information

>8q5u Chain F (length=769) Species: 1314 (Streptococcus pyogenes) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

TDQQVGAKLVQEIREGKRGPLYAGYFRTWHDRASTGIDGKQQHPENTMAE
VPKEVDILFVFHDHTASDSPFWSELKDSYVHKLHQQGTALVQTIGVNELN
GRTGLSKDYPDTPEGNKALAAAIVKAFVTDRGVDGLDIAILHEFTNKRTP
EEDARALNVFKEIAQLIGKNGSDKSKLLIMDTTLSVENNPIFKGIAEDLD
YLLRQYYGSQGGEAEVDTINSDWNQYQNYIDASQFMIGFSFFEESASKGN
LWFEGTRAKKYAEWQPSTGGLKAGIFSYAIDRDGVAHVPSTYKNRTSTQR
HEVDNISHTDYTVSRKLKTLMTEDKRYDVIDQKDIPDPALREQIIQQVGQ
YKGDLERYNKTLVLTGDKIQNLKGLEKLSKLQKLELRQLSNVKEITPELL
PESMKKDAELVMVGMTGLEKLNLSGLNRQTLDGIDVNSITHLTSFDISHN
SLDLSEKSEDRKLLMTLMEQVSNHQKITVKNTAFENQKPKGYYPQTYDTK
EGHYDVDNAEHDILTDFVFGTVTKRNTFIGDEEAFAIYKEGAVDGRQYVS
KDYTYEAFRKDYKGYKVHLTASNLGETVTSKVTATTDETYLVDVSDGEKV
VHHMKLNIGSGAIMMENLAKGAKVIGTSGDFEQAKKIFDGEKSDRFFTWG
QTNWIAFDLGEINLAKEWRLFNAETNTEIKTDSSLNVAKGRLQILKDTTI
DLEKMDIKNRKEYLSNDENWTDVAQMDDAKAIFNSKLSNVLSRYWRFCVD
GGASSYYPQYTELQILGQR

Ligand information

Ligand ID

FUC

InChI

InChI=1S/C6H12O5/c1-2-3(7)4(8)5(9)6(10)11-2/h2-10H,1H3/t2-,3+,4+,5-,6+/m0/s1

InChIKey

SHZGCJCMOBCMKK-SXUWKVJYSA-N

SMILES

Software	SMILES
CACTVS 3.341	C[C@@H]1O[C@@H](O)[C@@H](O)[C@H](O)[C@@H]1O
ACDLabs 10.04	OC1C(O)C(OC(O)C1O)C
OpenEye OEToolkits 1.5.0	CC1C(C(C(C(O1)O)O)O)O
OpenEye OEToolkits 1.5.0	C[C@H]1[C@H]([C@H]([C@@H]([C@@H](O1)O)O)O)O
CACTVS 3.341	C[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O

Formula

C6 H12 O5

Name

alpha-L-fucopyranose;
alpha-L-fucose;
6-deoxy-alpha-L-galactopyranose;
L-fucose;
fucose

PDB chain

8q5u Chain H Residue 7 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

Global view

Local view

Structure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

PDB	8q5u The IgG-specific endoglycosidases EndoS and EndoS2 are distinguished by conformation and antibody recognition.
Resolution	3.0 Å
Binding residue (original residue number in PDB)	T228 Q250 Y252
Binding residue (residue number reindexed from 1)	T183 Q205 Y207
Annotation score	1

Gene Ontology

	Molecular Function
GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0005509	calcium ion binding
GO:0016798	hydrolase activity, acting on glycosyl bonds
GO:0033925	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity
GO:0046872	metal ion binding

	Biological Process
GO:0042783	evasion of host immune response

	Cellular Component
GO:0005576	extracellular region
GO:0043655	host extracellular space

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8q5u, PDBe:8q5u, PDBj:8q5u
PDBsum	8q5u
PubMed	38569940
UniProt	T1WGN1\|ENDS2_STRP9 Endo-beta-N-acetylglucosaminidase EndoS2 (Gene Name=endoS2)

[Back to BioLiP]