Structure of PDB 8sfq Chain A

Receptor sequence

>8sfqA (length=1240) Species: 1111120 (Acidaminococcus sp. BV3L6)

MTQFEGFTNLYQVSKTLRFELIPQGKTLKHIQEQGFIEEDKARNDHYKEL
KPIIDRIYKTYADQCLQLVQLDWENLSAAIDSYRKEKTEETRNALIEEQA
TYRNAIHDYFIGRTDNLTDAINKRHAEIYKGLFKAELFNGKVLKQLGTVT
TTEHENALLRSFDKFTTYFSGFYENRKNVFSAEDISTAIPHRIVQDNFPK
FKENCHIFTRLITAVPSLREHFENVKKAIGIFVSTSIEEVFSFPFYNQLL
TQTQIDLYNQLLGGISREAGTEKIKGLNEVLNLAIQKNDETAHIIASLPH
RFIPLFKQILSDRNTLSFILEEFKSDEEVIQSFCKYKTLLRNENVLETAE
ALFNELNSIDLTHIFISHKKLETISSALCDHWDTLRNALYERRISELKSA
KEKVQRSLKHEDINLQEIISAAGKELSEAFKQKTSEILSHAHAALDQPLP
TTLKKQEEKEILKSQLDSLLGLYHLLDWFAVDESNEVDPEFSARLTGIKL
EMEPSLSFYNKARNYATKKPYSVEKFKLNFQMPTLASGWDVNKEKNNGAI
LFVKNGLYYLGIMPKQKGRYKALSFEPTEKTSEGFDKMYYDYFPDAAKMI
PKCSTQLKAVTAHFQTHTTPILLSNNFIEPLEITKEIYDLNNPEKEPKKF
QTAYAKKTGDQKGYREALCKWIDFTRDFLSKYTKTTSIDLSSLRPSSQYK
DLGEYYAELNPLLYHISFQRIAEKEIMDAVETGKLYLFQIYNKDFAKGHH
GKPNLHTLYWTGLFSPENLAKTSIKLNGQAELFYRPKSHEIIKDRRFTSD
KFFFHVPITLNYQAANSPSKFNQRVNAYLKEHPETPIIGIDRGERNLIYI
TVIDSTGKILEQRSLNTIQQFDYQKKLDNREKERVAARQAWSVVGTIKDL
KQGYLSQVIHEIVDLMIHYQAVVVLENLNFGFKSKRTGIAEKAVYQQFEK
MLIDKLNCLVLKDYPAEKVGGVLNPYQLTDQFTSFAKMGTQSGFLFYVPA
PYTSKIDPLTGFVDPFVWKTIKNHESRKHFLEGFDFLHYDVKTGDFILHF
KMNRNLSFQRGLPGFMPAWDIVFEKNETQFDAKGTPFIAGKRIVPVIENH
RFTGRYRDLYPANELIALLEEKGIVFRDGSNILPKLLENDDSHAIDTMVA
LIRSVLQMRNSNAATGEDYINSPVRDLNGVCFDSRFQNPEWPMDADANGA
YHIALKGQLLLNHLKESKDLKLQNGISNQDWLAYIQELRN

3D structure

• PDB: 8sfq WT CRISPR-Cas12a post nontarget strand-cleavage with the the RuvC active site exposed.
• 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 N175 R176 T187 R192 T271 Q286 F306 K307 I309 W382 H479 L511 Y514 N515 R518 K530 N747 K748 K752 G753 H754 G756 K757 N759 L760 H761 E786 F788 H856 I858 R862 R863 H872 F938 Y940 R955 Q956 D966 L967 Q969 G970 S973 H977 S1001 K1022 K1029 R1168	S14 K15 T16 R18 N175 R176 T187 R192 T271 Q286 F306 K307 I309 W382 H474 L506 Y509 N510 R513 K525 N742 K743 K747 G748 H749 G751 K752 N754 L755 H756 E781 F783 H789 I791 R795 R796 H805 F871 Y873 R888 Q889 D899 L900 Q902 G903 S906 H910 S934 K955 K962 R1101
BS02	dna	A	N178 I185 S186 N278 E279 N282 R301 I319 W382 N519 T522 K523 K524 S542 G543 D545 N547 K548 Y597 K603 M604 K607 C608 L612 K613 Y687 K689 N782 G783 Q784 I964 K965 Q1013 S1051 F1052 A1053	N178 I185 S186 N278 E279 N282 R301 I319 W382 N514 T517 K518 K519 S537 G538 D540 N542 K543 Y592 K598 M599 K602 C603 L607 K608 Y682 K684 N777 G778 Q779 I897 K898 Q946 S984 F985 A986
BS03	dna	A	K134 A135 K164 F165 T166 T167 P538 K570 R574 Y575 D600 A602 K603 K607 Q611 K653 Q656 T657 D706 Y711	K134 A135 K164 F165 T166 T167 P533 K565 R569 Y570 D595 A597 K598 K602 Q606 K648 Q651 T652 D701 Y706

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