Structure of PDB 8sfp Chain A

Receptor sequence

>8sfpA (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: 8sfp WT CRISPR-Cas12a with the target strand in the RuvC active site.
• Chain: A
• Resolution: 3.8 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 K51 N175 R176 R192 T271 Q286 F306 K307 I309 K369 E372 W382 K414 H479 L511 Y514 N515 R518 K530 N747 K748 H754 H755 G756 K757 N759 L760 H761 F788 H856 E857 I858 I859 K860 R862 R863 F870 H872 F938 Y940 R955 Q956 D966 G970 S973 H977 K1022 K1029	S14 K15 T16 R18 K51 N175 R176 R192 T271 Q286 F306 K307 I309 K369 E372 W382 K409 H474 L506 Y509 N510 R513 K525 N742 K743 H749 H750 G751 K752 N754 L755 H756 F783 H789 E790 I791 I792 K793 R795 R796 F803 H805 F871 Y873 R888 Q889 D899 G903 S906 H910 K955 K962
BS02	dna	A	N178 I185 S186 S266 N278 E279 R301 I319 E372 W382 N519 T522 K523 K524 S542 G543 D545 N547 K548 Y597 P599 M604 K607 L612 K613 N631 Y687 N782 G783 E911 T963 I964 K965 F999 R1003 S1051 F1052 R1127 R1226	N178 I185 S186 S266 N278 E279 R301 I319 E372 W382 N514 T517 K518 K519 S537 G538 D540 N542 K543 Y592 P594 M599 K602 L607 K608 N626 Y682 N777 G778 E844 T896 I897 K898 F932 R936 S984 F985 R1060 R1159
BS03	dna	A	K134 A135 K164 F165 T166 T167 P538 Y575 A602 K603 K607 Q611 K653 Q656 T657 K661	K134 A135 K164 F165 T166 T167 P533 Y570 A597 K598 K602 Q606 K648 Q651 T652 K656

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