Structure of PDB 8s9x Chain D

Receptor sequence

>8s9xD (length=514) Species: 1148 (Synechocystis sp. PCC 6803)

MARKVTTRWKITGTLIAETPLHIGGVGGDADTDLALAVNGAGEYYVPGTS
LAGALRGWMTQLLNNDESQIKDLWGDHLDAKRGASFVIVDDAVIHIPNNA
DVEIREGVGIDRHFGTAANGFKYSRAVIPKGSKFKLPLTFDSQDDGLPNA
LIQLLCALEAGDIRLGAAKTRGLGRIKLDDLKLKSFALDKPEGIFSALLD
QGKKLDWNQLKANVTYQSPPYLGISITWNPKDPVMVKAEGDGLAIDILPL
VSQVGSDVRFVIPGSSIKGILRTQAERIIRTICQSNGSEKNFLEQLRINL
VNELFGSASLSQKIDLGKIGALAVNDCFSSLSMTPDQWKAVENATEMTGN
LQPALKQATGYPNNISQAYKVLQPAMHVAVDRWTGGAAEGMLYSVLEPIG
VTWEPIQVHLDIARLKNYYHGKEEKLKPAIALLLLVLRDLANKKIPVGYG
TNRGMGTITVSQITLNGKALPTELEPLNKTMTCPNLTDLDEAFRQDLSTA
WKEWIADPIDLCQQ

3D structure

• PDB: 8s9x RNA targeting and cleavage by the type III-Dv CRISPR effector complex.
• Chain: D
• Resolution: 3.44 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	rna	D	G24 S50 G53 A54 R56 W74 G75 H77 G83 S85 E106 V108 G109 I110 R112 K122 Y123 G166 A167 A168 K169 T170 R171 V236 K237 S265 S266 K268 G269 R272 F305 G306 S307 A308 S309 K323 I324 G325 M381 H382 V383 A384 V385 R387 G391 M396 Y398 G453 Y454 G455 T456 N457 R458	G24 S50 G53 A54 R56 W74 G75 H77 G83 S85 E106 V108 G109 I110 R112 K122 Y123 G166 A167 A168 K169 T170 R171 V236 K237 S265 S266 K268 G269 R272 F305 G306 S307 A308 S309 K318 I319 G320 M376 H377 V378 A379 V380 R382 G386 M391 Y393 G448 Y449 G450 T451 N452 R453
BS02	rna	D	D33 G120 K122 D246 E394 G395 M396 L397 Y398	D33 G120 K122 D246 E389 G390 M391 L392 Y393

Gene Ontology

Molecular Function

• GO:0003723 RNA binding

Biological Process

• GO:0051607 defense response to virus

External links

• PDB: RCSB:8s9x, PDBe:8s9x, PDBj:8s9x
• PDBsum: 8s9x
• PubMed: 38637512
• UniProt: Q6ZED3