Structure of PDB 8sfi Chain A

Receptor sequence

>8sfiA (length=1227) Species: 1111120 (Acidaminococcus sp. BV3L6)

MTQFEGFTNLYQVSKTLRFELIPQGKTLKHIQEQGFIEEDKARNDHYKEL
KPIIDRIYKTYADQCLQLVQLDWENLSAAIDSYRKEKTEETRNALIEEQA
TYRNAIHDYFIGRTDNLTDAINKRHAEIYKGLFKAELFNGKVLKQLGTVT
TTEHENALLRSFDKFTTYFSGFYENRKNVFSAEDISTAIPHRIVQDNFPK
FKENCHIFTRLITAVPSLREHFENVKKAIGIFVSTSIEEVFSFPFYNQLL
TQTQIDLYNQLLGGISIKGLNEVLNLAIQKNDETAHIIASLPHRFIPLFK
QILSDRDEEVIQSFCKYKTLLRNENVLETAEALFNELNSIDLTHIFISHK
KLETISSALCDHWDTLRNALYERRISELTGKITKSAKEKVQRSLKHEDIN
LQEIISAAGKELSEAFKQKTSEILSHAHAALDQPLPTTLKKQEEKEILKS
QLDSLLGLYHLLDWFAVDESNEVDPEFSARLTGIKLEMEPSLSFYNKARN
YATKKPYSVEKFKLNFQMPTLASGWDVNKEKNNGAILFVKNGLYYLGIMP
KQKGRYKALSFEPTEKTSEGFDKMYYDYFPDAAKMIPKCSTQLKAVTAHF
QTHTTPILLSNNFIEPLEITKEIYDLNNPEKEPKKFQTAYAKKTGDQKGY
REALCKWIDFTRDFLSKYTKTTSIDLSSLRPSSQYKDLGEYYAELNPLLY
HISFQRIAEKEIMDAVETGKLYLFQIYNKDFAKGHHGKPNLHTLYWTGLF
SPENLAKTSIKLNGQAELFYRPKSRHEIIKDRRFTSDKFFFHVPITLNYQ
AANSPSKFNQRVNAYLKEHPETPIIGIDRGERNLIYITVIDSTGKILEQR
SLNTIQQFDYQKKLDNREKERVAARQAWSVVGTIKDLKQGYLSQVIHEIV
DLMIHYQAVVVLENLNFGFKSKRTGIAEKAVYQQFEKMLIDKLNCLVLKD
YPAEKVGGVLNPYQLTDQFTSFAKMGTQSGFLFYVPAPYTSKIDPLTGFV
DPFVWKTIKNHESRKHFLEGFDFLHYDVKTGDFILHFKMNRNLSFQRGLP
GFMPAWDIVFEKNETQFDAKGTPFIAGKRIVPVIENHRFTGRYRDLYPAN
ELIALLEEKGIVFRDGSNILPKLLENDDSHAIDTMVALIRSVLQMRNSNA
ATGEDYINSPVRDLNGVCFDSRFQNPEWPMDADANGAYHIALKGQLLLNH
LKESKDLKLQNGISNQDWLAYIQELRN

3D structure

• PDB: 8sfi WT CRISPR-Cas12a with a 8bp R-loop
• Chain: A
• Resolution: 3.5 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	S14 K15 T16 R18 E20 K51 N175 R176 R192 F306 K307 I309 N747 K748 G753 H755 G756 K757 F788 H856 I858 I859 K860 D861 R862 R863 F938 D966 S973 Q974 H977 K1022 K1029	S14 K15 T16 R18 E20 K51 N175 R176 R192 F299 K300 I302 N728 K729 G734 H736 G737 K738 F769 H776 I778 I779 K780 D781 R782 R783 F858 D886 S893 Q894 H897 K942 K949
BS02	dna	A	E174 N178 I185 S186 G543 D545 N547 K548 P599 K607 L612 K613 Y687 K689 K780 N782 G783 F1052 K1054	E174 N178 I185 S186 G524 D526 N528 K529 P580 K588 L593 K594 Y668 K670 K761 N763 G764 F972 K974
BS03	dna	A	R92 K134 A135 K164 F165 T166 T167 P538 Y575 D600 A602 K603 P606 K607 Q656 T657 L707	R92 K134 A135 K164 F165 T166 T167 P519 Y556 D581 A583 K584 P587 K588 Q637 T638 L688

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003723 RNA binding
• GO:0004519 endonuclease activity
• GO:0004530 deoxyribonuclease I activity
• GO:0016829 lyase activity

Biological Process

• GO:0006259 DNA metabolic process
• GO:0051607 defense response to virus

External links

• PDB: RCSB:8sfi, PDBe:8sfi, PDBj:8sfi
• PDBsum: 8sfi
• UniProt: U2UMQ6|CS12A_ACISB CRISPR-associated endonuclease Cas12a (Gene Name=cas12a)