Structure of PDB 8d97 Chain A

Receptor sequence

>8d97A (length=1600) Species: 237368 (Candidatus Scalindua brodae)

MNITVELTFFEPYRLVEWFDWDARKKSHSAMRGQAFAQWTWKGKGRTAGK
SFITGTLVRSAVIKAVEELLSLNNGKWEGVPCCNGSFQTDESKGKKPSFL
RKRHTLQWQANNKNICDKEEACPFCILLGRFDNAGKVHERNKDYDIHFSN
FDLDHDLRLVDIASGRILNRVDFDTGKAKDYFRTWEADYETYGTYTGRIT
LRNEHAKKLLLASLGFVDKLCGALCRIEVIKSEDHNDELRKQAEVIVEAF
KQNDKLEKIRILADAIRTLRLHGEGVIEKDELPDGKEERDKGHHLWDIKV
QGTALRTKLKELWQSNKDIGWRKFTEMLGSNLYLIYKKETGGVSTRFRIL
GDTEYYSKAHDSEGSDLFIPVTPPEGIETKEWIIVGRLKAATPFYFGVQQ
PSDSIPGKEKKSEDSLVINEHTSFNILLDKENRYRIPRSALRGALRRDLR
TAFGSGCNVSLGGQILCNCKVCIEMRRITLKDSVSDFSEPPEIRYRIAKN
PGTATVEDGSLFDIEVGPEGLTFPFVLRYRGHKFPEQLSSVIRYWEENDG
KNGMAWLGGLDSTGKGRFALKDIKIFEWDLNQKINEYIKERGMRGKEKEL
LEMGESSLPDGLIPYKFFEERECLFPYKENLKPQWSEVQYTIEVGSPLLT
ADTISALTEPGNRDAIAYKKRVYNDGNNAIEPEPRFAVKSETHRGIFRTA
VGRRTGDLGKEDHEDCTCDMCIIFGNEHESSKIRFEDLELINGNEFEKLE
KHIDHVAIDRFTGGALDKAKFDTYPLAGSPKKPLKLKGRFWIKKGFSGDH
KLLITTALSDIRDGLYPLGSKGGVGYGWVAGISIDDNVPDDFKEMINKTY
VHPGHQSPKQDHKNKNIYYPHYFLDSGSKVYREKDIITHEEFTEELLSGK
INCKLETLTPLIIPDTSDENGLKLQGNKPGHKNYKFFNINGELMIPGSEL
RGMLRTHFEALTKSCFAIFGETLSWRMNADEKDYKIDSNSIRKMESQRNP
KYRIPDELQKELRNSGNGLFNRLYTSERRFWSDVSNKFENSIDYKREILR
CAGRPKNYKGGIIRQRKDSLMAEELKVHRLPLYDNFDIPDSAYKANDHCR
KSATCSTSRGCRERFTCGIKVRDKNRVFLNAANNNRQYLNNIKKSNHDLY
LQYLKGEKKIRFNSKVITGSERSPIDVIAELNERGRQTGFIKLSGLNNSN
KSQGNTGTTFNSGWDRFELNILLDDLETRPSKSDYPRPRLLFTKDQYEYN
ITKRCERVFEIDKGNKTGYPVDDQIKKNYEDILDSYDGIKDQEVAERFDT
FTRGSKLKVGDLVYFHIDGDNKIDSLIPVRGKLDKALHPCTGLSDGLCPG
CHLFGTTDYKGRVKFGFAKYENGPEWLITRGNNPERSLTLGVLESPRPAF
SIPDDESEIPGRKFYLHHNGWRIIRQKQLEIRETVQPERNVTTEVMDKGN
VFSFDVRFENLREWELGLLLQSLDPGKNIAHKLGKGKPYGFGSVKIKIDS
LHTFKIIKRVPQSDIREYINKGYQKLIEWSLPQWHVIPHIDKLYKLLWVP
FLNDSKLEPDVRYPVLNYTYKKLGDKDNLPYKTRVKGLTTPWSPWNPFQV

3D structure

• PDB: 8d97 Craspase is a CRISPR RNA-guided, RNA-activated protease.
• Chain: A
• Resolution: 3.8 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	A	R32 F52 G55 T56 R59 S60 S86 F87 Q88 T89 K96 P97 S98 F99 L100 R101 K136 H138 Y144 F148 N150 I172 L173 N174 R175 V176 K182 A183 F187 K224 R375 D395 G426 R471 R476 S489 L490 G491 L495 L509 R525 I526 A527 K528 V535 F541 G588 L589 S591 A680 T721 R723 T728 N755 H784 V785 A786 I787 R789 A794 K799 F800 S849 K850 Y917 P962 S996 E997 R999 G1000 M1001 R1003 I1016 R1031 A1034 D1035 R1134 E1168 C1172 V1176 I1230 N1252 N1253 Y1290 K1308 R1309 Y1341 T1355 T1417 L1454 E1455 R1458 F1461 K1546 G1547 K1548 Y1640 L1643 Y1658	R32 F52 G55 T56 R59 S60 S86 F87 Q88 T89 K96 P97 S98 F99 L100 R101 K136 H138 Y144 F148 N150 I167 L168 N169 R170 V171 K177 A178 F182 K219 R346 D366 G397 R442 R447 S460 L461 G462 L466 L480 R496 I497 A498 K499 V506 F512 G559 L560 S562 A651 T692 R694 T699 N726 H755 V756 A757 I758 R760 A765 K770 F771 S820 K821 Y869 P914 S948 E949 R951 G952 M953 R955 I968 R976 A979 D980 R1079 E1113 C1117 V1121 I1175 N1197 N1198 Y1235 K1253 R1254 Y1286 T1300 T1356 L1393 E1394 R1397 F1400 K1485 G1486 K1487 Y1563 L1566 Y1570
BS02	ZN	A	C83 C116 C122	C83 C116 C122
BS03	ZN	A	H742 C745 C747 C750	H713 C716 C718 C721
BS04	ZN	A	C1013 C1401 C1412	C965 C1340 C1351

Gene Ontology

Molecular Function

• GO:0003723 RNA binding

Biological Process

• GO:0051607 defense response to virus

External links

• PDB: RCSB:8d97, PDBe:8d97, PDBj:8d97
• PDBsum: 8d97
• PubMed: 36007061
• UniProt: A0A0B0EGF3