Structure of PDB 7xsp Chain B

Receptor sequence

>7xspB (length=1271) Species: 237368 (Candidatus Scalindua brodae)

DMNITVELTFFEPYRLVEWFDWDARKKSHSAMRGQAFAQWTWKGKGRTAG
KSFITGTLVRSAVIKAVEELLSLNNGKWEGVPCCNGSFQTDESKGKKPSF
LRKRHTLQWQANNKNICDKEEACPFCILLGRFDNAGKVHERNKDYDIHFS
NFDLDHKQEKNDLRLVDIASGRILNRVDFDTGKAKDYFRTWEADYETYGT
YTGRITLRNEHAKKLLLASLGFVDKLCGALCRIEVIKSEDHNDELRKQAE
VIVEAFKQNDKLEKIRILADAIRTLRLHGEGVIEKDELPDGKEERDKGHH
LWDIKVQGTALRTKLKELWQSNKDIGWRKFTEMLGSNLYLIYKKETGGVS
TEYYSKSEGSDLFIPVTPPEGIETKEWIIVGRLKAATPFYFGVQQPSDSI
PGKEKKEHTSFNILLDKENRYRIPRSALRGALRRDLRTAFGSGCNVSLGG
QILCNCKVCIEMRRITLKDSVSDFSEPPEIRYRIAKNPGTATVEDGSLFD
IEVGPEGLTFPFVLRYRGHKFPEQLSSVIRYWEENDGKNGMAWLGGLDST
GKGRFALKDIKIFEWDLNQKINEYIKERGMRGKEKELLEMGESSLPDGLI
PYKFFEERECLFPYKENLKPQWSEVQYTIEVGSPLLTADTISALTEPGNR
DAIAYKKRVYNDGNNAIEPEPRFAVKSETHRGIFRTAVGRRTGDLGKEDH
EDCTCDMCIIFGNEHESSKIRFEDLELINGNEFEKLEKHIDHVAIDRFTG
GALDKAKFDTYPLAGSPKKPLKLKGRFWIKKGFSGDHKLLITTALSDIRD
GLYPLGSKGGVGYGWVAGISIDDNVPDDFKEMINGPINNDYVHPGHQSPK
QDHKNKNIYYPHYFLDSGSKVYREKDIITHEEFTEELLSGKINCKLETLT
PLIIPDTSDENGLKLQGNKPGHKNYKFFNINGELMIPGSELRGMLRTHFE
ALTKSCFAIFGEDSTLSWCASKTLGGKLDKALHPCTGLSDGLCPGCHLFG
TTDYKGRVKFGFAKYENGPEWLITRGNNPERSLTLGVLESPRPAFSIPDD
ESEIPGRKFYLHHNGWRIIRQKQLEIRETVQPERNVTTEVMDKGNVFSFD
VRFENLREWELGLLLQSLDPGKNIAHKLGKGKPYGFGSVKIKIDSLHTFK
INSNNDKIKRVPQSDIREYINKGYQKLIEWSGNNSIQKGNVLPQWHVIPH
IDKLYKLLWVPFLNDSKLEPDVRYPVLNEESKGYIEGSDYTYKKLGDKDN
LPYKTRVKGLTTPWSPWNPFQ

3D structure

• PDB: 7xsp Target RNA activates the protease activity of Craspase to confer antiviral defense.
• Chain: B
• Resolution: 2.89 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	R294 I295 R323 Y367 K371 F458 D542 G543 L545 F546 D698 D801 K802 K804 F805 E1460 S1461 R1505 L1648	R266 I267 R295 Y339 K343 F411 D495 G496 L498 F499 D651 D754 K755 K757 F758 E1039 S1040 R1084 L1227
BS02	rna	B	E16 W23 R37 F41 T45 K47 F57 T59 R64 S91 F92 Q93 T94 P102 S103 F104 L105 R106 R108 G134 K141 H143 Y149 H152 F153 N155 D157 I177 L178 N179 R180 V181 G186 K187 A188 D190 F192 K229 Y389 S391 D400 R472 S473 R476 R481 S494 L495 L500 T513 L514 Y529 R530 I531 A532 K533 T539 L545 F546 G593 S596 A685 R728 I730 N760 S765 H789 V790 I792 R794 K804 F805 S854 Y922 P967 T969 E1002 R1004 R1008 T1422 T1423 K1426 L1459 E1460 P1462 R1463 F1466 Y1481 K1551 K1553 P1554 Y1645 L1648 Y1663	E12 W19 R33 F37 T41 K43 F53 T55 R60 S87 F88 Q89 T90 P98 S99 F100 L101 R102 R104 G130 K137 H139 Y145 H148 F149 N151 D153 I173 L174 N175 R176 V177 G182 K183 A184 D186 F188 K225 Y353 S355 D361 R425 S426 R429 R434 S447 L448 L453 T466 L467 Y482 R483 I484 A485 K486 T492 L498 F499 G546 S549 A638 R681 I683 N713 S718 H742 V743 I745 R747 K757 F758 S807 Y860 P905 T907 E940 R942 R946 T1001 T1002 K1005 L1038 E1039 P1041 R1042 F1045 Y1060 K1130 K1132 P1133 Y1224 L1227 Y1242
BS03	ZN	B	C88 C127	C84 C123
BS04	ZN	B	H747 C750 C752 C755	H700 C703 C705 C708
BS05	ZN	B	C1414 C1417	C993 C996

Gene Ontology

Molecular Function

• GO:0003723 RNA binding

Biological Process

• GO:0051607 defense response to virus

External links

• PDB: RCSB:7xsp, PDBe:7xsp, PDBj:7xsp
• PDBsum: 7xsp
• PubMed: 36306795
• UniProt: A0A0B0EGF3