Structure of PDB 8kde Chain D

Receptor sequence

>8kdeD (length=351) Species: 3055 (Chlamydomonas reinhardtii)

TIAIGTYQEKRTWFDDADDWLRQDRFVFVGWSGLLLFPCAYFALGGWLTG
TTFVTSWYTHGLATSYLEGCNFLTAAVSTPANSMAHSLLFVWGPEAQGDF
TRWCQLGGLWAFVALHGAFGLIGFMLRQFEIARSVNLRPYNAIAFSAPIA
VFVSVFLIYPLGQSGWFFAPSFGVAAIFRFILFFQGFHNWTLNPFHMMGV
AGVLGAALLCAIHGATVENTLFEDGDGANTFRAFNPTQAEETYSMVTANR
FWSQIFGVAFSNKRWLHFFMLLVPVTGLWMSAIGVVGLALNLRAYDFVSQ
EIRAAEDPEFETFYTKNILLNEGIRAWMAAQDQPHERLVFPEEVLPRGNA
L

3D structure

• PDB: 8kde Structural basis for an early stage of the photosystem II repair cycle in Chlamydomonas reinhardtii.
• Chain: D
• Resolution: 2.6 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	CLA	D	F120 M126 L127	F119 M125 L126
BS02	CLA	D	P149 V152 V156 I182 F185 Q186 W191 T192 H197 G200 V201 S282 V286	P148 V151 V155 I181 F184 Q185 W190 T191 H196 G199 V200 S281 V285
BS03	CLA	D	C40 F43 F91 V92 F113 L116 H117 F120	C39 F42 F90 V91 F112 L115 H116 F119
BS04	CLA	D	M198 V201 L205	M197 V200 L204
BS05	PHO	D	L209 I213 W253 F257	L208 I212 W252 F256
BS06	PHO	D	W48 F125 Q129 N142 A145 F146 G174 L279	W47 F124 Q128 N141 A144 F145 G173 L278
BS07	VTQ	D	L35 F38	L34 F37
BS08	BCT	D	E242 Y244 H268	E241 Y243 H267
BS09	FE2	D	H214 H268	H213 H267
BS10	CLA	D	V175 I178 I182	V174 I177 I181

Gene Ontology

Molecular Function

• GO:0005506 iron ion binding
• GO:0009055 electron transfer activity
• GO:0010242 oxygen evolving activity
• GO:0016168 chlorophyll binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0015979 photosynthesis

Cellular Component

• GO:0009507 chloroplast
• GO:0009523 photosystem II
• GO:0009535 chloroplast thylakoid membrane
• GO:0009579 thylakoid
• GO:0016020 membrane

External links

• PDB: RCSB:8kde, PDBe:8kde, PDBj:8kde
• PDBsum: 8kde
• PubMed: 38890314
• UniProt: P06007|PSBD_CHLRE Photosystem II D2 protein (Gene Name=psbD)