Structure of PDB 7xt4 Chain B

Receptor sequence

>7xt4B (length=1263) Species: 237368 (Candidatus Scalindua brodae)

DMNITVELTFFEPYRLVEWFDWDARKKSHSAMRGQAFAQWTWKGKGRTAG
KSFITGTLVRSAVIKAVEELLSLNNGKWEGVPCCNGSFQTDESKGKKPSF
LRKRHTLQWQANNKNICDKEEACPFCILLGRFDNAGKVHERNKDYDIHFS
NFDLDHKQEKNDLRLVDIASGRILNRVDFDTGKAKDYFRTWEADYETYGT
YTGRITLRNEHAKKLLLASLGFVDKLCGALCRIEVIKSEDHNDELRKQAE
VIVEAFKQNDKLEKIRILADAIRTLRLHGEGVIEKDELPDGKEERDKGHH
LWDIKVQGTALRTKLKELWQSNKDIGWRKFTEMLGSNLYLIYKKETGGVS
TRFRILGDTEYYSKDSEGSDLFIPVTPPEGIETKEWIIVGRLKAATPFYF
GVQQPSDSIPGKEHTSFNILLDKENRYRIPRSALRGALRRDLRTAFGSGC
NVSLGGQILCNCKVCIEMRRITLKDSVSDFSEPPEIRYRIAKNPGTATVE
DGSLFDIEVGPEGLTFPFVLRYRGHKFPEQLSSVIRYWEENDGKNGMAWL
GGLDSTGKGRFALKDIKIFEWDLNQKINEYIKERGMRGKEKELLEMGESS
LPDGLIPYKFFEERECLFPYKENLKPQWSEVQYTIEVGSPLLTADTISAL
TEPGNRDAIAYKKRVYNDGNNAIEPEPRFAVKSETHRGIFRTAVGRRTGD
LGKEDHEDCTCDMCIIFGNEHESSKIRFEDLELINGNEFEKLEKHIDHVA
IDRFTGGALDKAKFDTYPLAGSPKKPLKLKGRFWIKKGFSGDHKLLITTA
LSDIRDGLYPLGSKGGVGYGWVAGISIDDNVPDDFKEMINKTGPINNDYV
HPGHQSPKQDHKNKNIYYPHYFLDSGSKVYREKDIITHEEFTEELLSGKI
NCKLETLTPLIIPDTSDENGLKLQGNKPGHKNYKFFNINGELMIPGSELR
GMLRTHFEALTKSCFAIFGEDSTKTLGGKLDKALHPCTGLSDGLCPGCHL
FGTTDYKGRVKFGFAKYENGPEWLITRGNNPERSLTLGVLESPRPAFSIP
DDESEIPGRKFYLHHNGWRIIRQKQLEIRETVQPERNVTTEVMDKGNVFS
FDVRFENLREWELGLLLQSLDPGKNIAHKLGKGKPYGFGSVKIKIDSLHT
FKIDKIKRVPQSDIREYINKGYQKLIEWSGNNVLPQWHVIPHIDKLYKLL
WVPFLNDSKLEPDVRYPVLNEESKGYIEGSDYTYKKLGDKDNLPYKTRVK
GLTTPWSPWNPFQ

3D structure

• PDB: 7xt4 Target RNA activates the protease activity of Craspase to confer antiviral defense.
• Chain: B
• Resolution: 3.08 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	R180 A188 K189 D190 R294 K320 R323 H328 Y367 K371 R380 R382 T387 Y389 F458 N492 S494 L495 G496 D542 G543 L545 F546 D698 E761 K802 K804 F805 S1461 R1505	R176 A184 K185 D186 R266 K292 R295 H300 Y339 K343 R352 R354 T359 Y361 F417 N451 S453 L454 G455 D501 G502 L504 F505 D657 E720 K761 K763 F764 S1042 R1086
BS02	rna	B	E16 W23 R37 Q39 F41 T45 K47 F57 T59 T61 L62 R64 S65 S91 F92 Q93 T94 P102 S103 F104 L105 R106 K107 R108 G134 D137 K141 H143 H152 F153 N155 D157 R176 I177 L178 N179 V181 G186 A188 D190 Y191 F192 K229 Y389 S391 D400 G431 R472 S473 R476 R481 L495 L500 R510 T513 L514 R530 I531 K533 L545 F546 G592 G593 S596 A685 E725 R728 I730 R732 N760 E761 S765 D788 H789 V790 A791 I792 R794 K804 F805 S854 Y922 P967 T969 S1001 E1002 R1004 G1005 R1008 T1422 T1423 K1426 V1458 L1459 E1460 P1462 R1463 Y1481 K1551 G1552 K1553 P1554 Y1645 L1648 Y1663	E12 W19 R33 Q35 F37 T41 K43 F53 T55 T57 L58 R60 S61 S87 F88 Q89 T90 P98 S99 F100 L101 R102 K103 R104 G130 D133 K137 H139 H148 F149 N151 D153 R172 I173 L174 N175 V177 G182 A184 D186 Y187 F188 K225 Y361 S363 D370 G401 R431 S432 R435 R440 L454 L459 R469 T472 L473 R489 I490 K492 L504 F505 G551 G552 S555 A644 E684 R687 I689 R691 N719 E720 S724 D747 H748 V749 A750 I751 R753 K763 F764 S813 Y868 P913 T915 S947 E948 R950 G951 R954 T1003 T1004 K1007 V1039 L1040 E1041 P1043 R1044 Y1062 K1132 G1133 K1134 P1135 Y1216 L1219 Y1234
BS03	ZN	B	C127 C130	C123 C126
BS04	ZN	B	C501 C506	C460 C465
BS05	ZN	B	H747 C750 C752 C755	H706 C709 C711 C714
BS06	ZN	B	C1406 C1414 C1417	C987 C995 C998

Gene Ontology

Molecular Function

• GO:0003723 RNA binding

Biological Process

• GO:0051607 defense response to virus

External links

• PDB: RCSB:7xt4, PDBe:7xt4, PDBj:7xt4
• PDBsum: 7xt4
• PubMed: 36306795
• UniProt: A0A0B0EGF3