Structure of PDB 8d9h Chain B

Receptor sequence

>8d9hB (length=1270) Species: 237368 (Candidatus Scalindua brodae)

MNITVELTFFEPYRLVEWFDWDARKKSHSAMRGQAFAQWTWKGKGRTAGK
SFITGTLVRSAVIKAVEELLSLNNGKWEGVPCCNGSFQTDESKGKKPSFL
RKRHTLQWQANNKNICDKEEACPFCILLGRFDNAGKVHERNKDYDIHFSN
FDLDHKQEKNDLRLVDIASGRILNRVDFDTGKAKDYFRTWEADYETYGTY
TGRITLRNEHAKKLLLASLGFVDKLCGALCRIEVIKDHNDELRKQAEVIV
EAFKQNDKLEKIRILADAIRTLRLHGEGVIEKDELPDGKEERDKGHHLWD
IKVQGTALRTKLKELWQSNKDIGWRKFTEMLGSNLYLIYKKETGGVSTEY
YSKAHDSEGSDLFIPVTPPEGIETKEWIIVGRLKAATPFYFGVQQPSDSI
PGKEINEHTSFNILLDKENRYRIPRSALRGALRRDLRTAFGSGCNVSLGG
QILCNCKVCIEMRRITLKDSVSDFSEPPEIRYRIAKNPGTATVEDGSLFD
IEVGPEGLTFPFVLRYRGHKFPEQLSSVIRYWEENDGKNGMAWLGGLDST
GKGRFALKDIKIFEWDLNQKINEYIKERGMRGKEKELLEMGESSLPDGLI
PYKFFEERECLFPYKENLKPQWSEVQYTIEVGSPLLTADTISALTEPGNR
DAIAYKKRVYNDGNNAIEPEPRFAVKSETHRGIFRTAVGRRTGDLGKEDH
EDCTCDMCIIFGNEHESSKIRFEDLELINGNEFEKLEKHIDHVAIDRFTG
GALDKAKFDTYPLAGSPKKPLKLKGRFWIKKGFSGDHKLLITTALSDIRD
GLYPLGSKGGVGYGWVAGISIDDNVPDDFKEMINKTNNDYVHPGHQSPKQ
DHKNKNIYYPHYFLDSGSKVYREKDIITHEEFTEELLSGKINCKLETLTP
LIIPDTSDENGLKLQGNKPGHKNYKFFNINGELMIPGSELRGMLRTHFEA
LTKSCFAIFGEDSTLSWASKTLGGKLDKALHPCTGLSDGLCPGCHLFGTT
DYKGRVKFGFAKYENGPEWLITRGNNPERSLTLGVLESPRPAFSIPDDES
EIPGRKFYLHHNGWRIIRQKQLEIRETVQPERNVTTEVMDKGNVFSFDVR
FENLREWELGLLLQSLDPGKNIAHKLGKGKPYGFGSVKIKIDSLHTFKIN
SNNDKIKRVPQSDIREYINKGYQKLIEWSGNNSIQKGNVLPQWHVIPHID
KLYKLLWVPFLNDSKLEPDVRYPVLNEESKGYIEGSDYTYKKLGDKDNLP
YKTRVKGLTTPWSPWNPFQV

3D structure

• PDB: 8d9h Craspase is a CRISPR RNA-guided, RNA-activated protease.
• Chain: B
• Resolution: 3.6 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	rna	B	R32 K42 F52 G55 T56 L57 R59 S60 S86 F87 Q88 T89 P97 S98 F99 L100 R101 G129 D132 K136 H138 N150 D152 I172 L173 N174 R175 V176 A183 F187 K224 S386 D395 G426 R467 S468 A469 R471 G491 L495 L509 Y524 R525 I526 K528 F541 G588 L589 S591 A680 R723 G724 I725 R727 T728 H784 V785 I787 R789 K799 F800 S849 K850 T964 S996 E997 R999 G1000 R1003 T1417 T1418 E1455 S1456 P1457 R1458 F1461 Y1476 K1546 G1547 K1548 Y1640 Y1658	R32 K42 F52 G55 T56 L57 R59 S60 S86 F87 Q88 T89 P97 S98 F99 L100 R101 G129 D132 K136 H138 N150 D152 I172 L173 N174 R175 V176 A183 F187 K224 S352 D361 G392 R425 S426 A427 R429 G449 L453 L467 Y482 R483 I484 K486 F499 G546 L547 S549 A638 R681 G682 I683 R685 T686 H742 V743 I745 R747 K757 F758 S807 K808 T906 S938 E939 R941 G942 R945 T999 T1000 E1037 S1038 P1039 R1040 F1043 Y1058 K1128 G1129 K1130 Y1222 Y1240
BS02	rna	B	A183 R289 R318 Y362 T382 G538 L540 D693 D796 K797 F800 E1455 S1456 R1500	A183 R263 R292 Y336 T348 G496 L498 D651 D754 K755 F758 E1037 S1038 R1082
BS03	ZN	B	C83 C116 C122 C125	C83 C116 C122 C125
BS04	ZN	B	C486 C498	C444 C456
BS05	ZN	B	C745 C750	C703 C708
BS06	ZN	B	C1013 C1401 C1409 C1412	C955 C983 C991 C994

External links

• PDB: RCSB:8d9h, PDBe:8d9h, PDBj:8d9h
• PDBsum: 8d9h
• PubMed: 36007061
• UniProt: A0A0B0EGF3