Structure of PDB 7yvq Chain B Binding Site BS03

Receptor Information

>7yvq Chain B (length=494) Species: 1496 (Clostridioides difficile) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

EDLDTDNDNIPDSYERNGYTIKDLIAVKWEDSFAEQGYKKYVSNYLESNT
AGDPYTDYEKASGSFDKAIKTEARDPLVAAYPIVGVGMEKLIISTNEHAS
TDQGKTVSRATTNSKSTAVQDSNGESWNTGLSINKGESAYINANVRYYNT
GTAPMYKVTPTTNLVLDGDTLSTIKAQENQIGNNLSPGDTYPKKGLSPLA
LNTMDQFSSRLIPINYDQLKKLDAGKQIKLETTQVSGNFGTKNSSGQIVT
EGNSWSDYISQIDSISASIILDTENESYERRVTAKNLQDPEDKTPELTIG
EAIEKAFGATKKDGLLYFNDIPIDESCVELIFDDNTANKIKDSLKTLSDK
KIYNVKLERGMNILIKTPTYFTNFDDYNNYPSTWSNVNTTNQDGLQGSAN
KLNGETKIKIPMSELKPYKRYVFSGYSKDPLTSNSIIVKIKAKEEKTDYL
VPEQGYTKFSYEFETTEKDSSNIEITLIGSGTTYLDNLSITELN

Ligand information

Ligand ID

InChI

InChI=1S/Ca/q+2

InChIKey

BHPQYMZQTOCNFJ-UHFFFAOYSA-N

SMILES

Software	SMILES
CACTVS 3.341	[Ca++]
ACDLabs 10.04 OpenEye OEToolkits 1.5.0	[Ca+2]

Formula

Name

CALCIUM ION

PDB chain

7yvq Chain B Residue 903 [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	7yvq Cryo-EM structures of the translocational binary toxin complex CDTa-bound CDTb-pore from Clostridioides difficile.
Resolution	3.18 Å
Binding residue (original residue number in PDB)	N621 D623 Q644 S646 D734
Binding residue (residue number reindexed from 1)	N373 D375 Q396 S398 D486
Annotation score	4

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Biological Process
GO:0051260	protein homooligomerization

	Cellular Component
GO:0005576	extracellular region

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:7yvq, PDBe:7yvq, PDBj:7yvq
PDBsum	7yvq
PubMed	36253419
UniProt	A8DS70

[Back to BioLiP]