Structure of PDB 4rdt Chain A

Receptor sequence

>4rdtA (length=635) Species: 122586 (Neisseria meningitidis MC58)

PRATSGLLHTSTASDKIISGDTLRQKAVNLGDALDGVPGIHASQYGGGAS
APVIRGQTGRRIKVLNHHGETGDMADFSPDHAIMVDTALSQQVEILRGPV
TLLYSSGNVAGLVDVADGKIPEKMPENGVSGELGLRLSSGNLEKLTSGGI
NIGLGKNFVLHTEGLYRKSGDYAVPRYRNLKRLPDSHADSQTGSIGLSWV
GEKGFIGVAYSDRRDQYGLPAHDCHADIIWQKSLTEEDIDYDNPGLSCGF
GRPWIDLRNKRYELRAEWKQPFPGFEALRVHLNRNDYRHDEKAGDAVENF
FNNQTQNARIELRHQPIGRLKGSWGVQYLQQKSSALSAISEAVKQPMLLD
NKVQHYSFFGVEQANWDNFTLEGGVRVEKQKASIRQTARSFALSGNWYFT
PQHKLSLTASHQERLPSTQELYAHGKHVATNTFEVGNKHLNKERSNNIEL
ALGYEGDRWQYNLALYRNRFGNYIYAQTLNDSEMKLVRYNQSGADFYGAE
GEIYFKPTPRYRIGVSGDYVRGRLKNLPDDQNAPRVPAARLGFHLKASLT
DRIDANLDYYRVFAQNKLARYETRTPGHHMLNLGANYRRNTRYGEWNWYV
KADNLLNQSVYAHSSFLSDTPQMGRSFTGGVNVKF

3D structure

• PDB: 4rdt The molecular mechanism of Zinc acquisition by the neisserial outer-membrane transporter ZnuD.
• Chain: A
• Resolution: 3.2 Å

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	ZN	A	D99 H100 E340 H499	D80 H81 E291 H427
BS02	C8E	A	Q210 D231 K309	Q191 D212 K260
BS03	C8E	A	F418 L465 W469	F369 L393 W397

Gene Ontology

Molecular Function

• GO:0015344 siderophore uptake transmembrane transporter activity
• GO:0046872 metal ion binding

Biological Process

• GO:0033214 siderophore-dependent iron import into cell
• GO:0044718 siderophore transmembrane transport

Cellular Component

• GO:0009279 cell outer membrane

External links

• PDB: RCSB:4rdt, PDBe:4rdt, PDBj:4rdt
• PDBsum: 4rdt
• PubMed: 26282243
• UniProt: Q9JZN9|Y964_NEIMB Probable TonB-dependent receptor NMB0964 (Gene Name=NMB0964)