Structure of PDB 8d1v Chain A

Receptor sequence

>8d1vA (length=1229) Species: 45657 (Desulfonema ishimotonii)

MTTTMKISIEFLEPFRMTKWQESTRRNKNNKEFVRGQAFARWHRNKKDNT
KGRPYITGTLLRSAVIRSAENLLTLSDGKISEKTCCPGKFDTEDKDRLLQ
LRQRSTLRWTDKNPCPDNAETYCPFCELLGRSGKDWRFRIHFGNLSLPGK
PDFDGPKAIGSQRVLNRVDFKSGKAHDFFKAYEVDHTRFPRFEGEITIDN
KVSAEARKLLCDSLKFTDRLCGALCVIRFDPNANLAEKTAEQIISILDDN
KKTEYTRLLADAIRSLRRSSKLVAGLPKDHDGKDDHYLWDIGKKKKDENS
VTIRQILTTSADTKELKNAGKWREFCEKLGEALYLKSKDMFHGKPDRLEK
SRSVSIGSVLKETVVCGELVAKTPFFFGAIDEDAKQTDLQVLLTPDNKYR
LPRSAVRGILRRDLQTYFDSPCNAELGGRPCMCKTCRIMRGITVMDARSE
YNAPPEIRHRTRINPFTGTVAEGALFNMEVAPEGIVFPFQLRYRGSEDGL
PDALKTVLKWWAEGQAFMSGAASTGKGRFRMENAKYETLDLSDENQRNDY
LKNWGWRDEKGLEELKKRLNSGLPEPGNYRDPKWHEINVSIEMASPFING
DPIRAAVDKRGTDVVTFVKYKAEGEEAKPVCAYKAESFRGVIRSAVARIH
MEDGVPLTELTHSDCECLLCQIFGSEYEAGKIRFEDLVFESDPEPVTFDH
VAIDRFTGGAADKKKFDDSPLPGSPARPLMLKGSFWIRRDVLEDEEYCKA
LGKALADVNNGLYPLGGKSAIGYGQVKSLGIKGDDKRISRLMNPAFDETD
VAVPEKPKTDAEVRIEAEKVYYPHYFVEPHKKVEREEKPCGHQKFHEGRL
TGKIRCKLITKTPLIVPDTSNDDFFRPADKEARKEKDEYHKSYAFFRLHK
QIMIPGSELRGMVSSVYETVTNSCFRIFDETKRLSWRVDDRMIGKRMSAD
LRPCHGDEKRLLLRHPKGLCPACRLFGTGSYKGRVRFGFASLENDPEWLI
PGKNPGDPFHGGPVMLSLLERPRPTWSIPGSDNKFKVPGRKFYVHHHAWK
TIKDGNHPTTGKAIEQSPNNRTVEALAGGNSFSFEIAFENLKEWELGLLI
HSLQLEKGLAHKLGMAKSMGFGSVEIDVESVRLRKDWKQWRNGNSEIPNW
LGKGFAKLKEWFRDELDFIENLKKLLWFPEGDQAPRVCYPMLRKKDDPNG
NSGYEELKDGEFKKEDRQKKLTTPWTPWA

3D structure

• PDB: 8d1v Molecular mechanism of active Cas7-11 in processing CRISPR RNA and interfering target RNA.
• Chain: A
• Resolution: 2.82 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	E13 R35 Q37 A38 F39 H43 R53 Y55 T57 G58 T59 L60 R62 S63 R67 K89 F90 D91 T92 E93 Q100 L101 R102 Q103 R104 L129 F146 H149 F150 N152 S154 V172 L173 N174 R175 V176 G181 K182 A183 F186 F187 R227 G230 L232 G384 F417 G419 R444 S445 A446 R448 G449 I450 R453 L467 G468 G469 P471 T484 V485 H500 R501 T502 R503 I504 T510 V511 L516 F517 G561 A562 S564 G641 P643 K675 E677 S678 R680 G681 G715 S716 E717 A720 D740 H741 V742 A743 I744 R746 G749 A751 K756 F757 G808 K809 A811 Y863 P908 T910 S948 E949 R951 R967 R978 F1348 T1350 G1351 Y1353 K1354 L1391 E1392 R1393 P1394 R1395 T1397 W1398 Y1415 G1486 M1487 A1488 K1489 Y1561 L1564 Y1576 K1580	E13 R35 Q37 A38 F39 H43 R53 Y55 T57 G58 T59 L60 R62 S63 R67 K89 F90 D91 T92 E93 Q100 L101 R102 Q103 R104 L129 F138 H141 F142 N144 S146 V164 L165 N166 R167 V168 G173 K174 A175 F178 F179 R219 G222 L224 G343 F376 G378 R403 S404 A405 R407 G408 I409 R412 L426 G427 G428 P430 T443 V444 H459 R460 T461 R462 I463 T469 V470 L475 F476 G520 A521 S523 G600 P602 K634 E636 S637 R639 G640 G674 S675 E676 A679 D699 H700 V701 A702 I703 R705 G708 A710 K715 F716 G767 K768 A770 Y822 P867 T869 S907 E908 R910 R926 R937 F976 T978 G979 Y981 K982 L1019 E1020 R1021 P1022 R1023 T1025 W1026 Y1043 G1114 M1115 A1116 K1117 Y1189 L1192 Y1204 K1208
BS02	rna	A	Y281 R283 H306 Y313 D429 R503 A512 E513 G514 L516 F517 D654 D753 K754 K755 K756 F757 L1391 E1392 R1393 N1441 R1443 L1564 R1565	Y255 R257 H280 Y287 D388 R462 A471 E472 G473 L475 F476 D613 D712 K713 K714 K715 F716 L1019 E1020 R1021 N1069 R1071 L1192 R1193
BS03	ZN	A	C965 C1312 C1342 C1345	C924 C954 C970 C973
BS04	ZN	A	H703 C706 C708	H662 C665 C667
BS05	ZN	A	C463 C472 C474 C477	C422 C431 C433 C436
BS06	ZN	A	C86 C115 C123 C126	C86 C115 C123 C126

Gene Ontology

Biological Process

• GO:0051607 defense response to virus

External links

• PDB: RCSB:8d1v, PDBe:8d1v, PDBj:8d1v
• PDBsum: 8d1v
• PubMed: 36190192
• UniProt: A0A401FT36