Structure of PDB 6i1l Chain A

Receptor sequence

>6i1lA (length=1277) Species: 401614 (Francisella tularensis subsp. novicida U112)

NASIYQEFVNKYSLSKTLRFELIPQGKTLENIKARGLILDDEKRAKDYKK
AKQIIDKYHQFFIEEILSSVCISEDLLQNYSDVYFKLKKSDDDNLQKDFK
SAKDTIKKQISEYIKDSEKFKNLFNQNLIDAKKGQESDLILWLKQSKDNG
IELFKANSDITDIDEALEIIKSFKGWTTYFKGFHENRKNVYSSNDIPTSI
IYRIVDDNLPKFLENKAKYESLKDKAPEAINYEQIKKDLAEELTFDIDYK
TSEVNQRVFSLDEVFEIANFNNYLNQSGITKFNTIIGGKFVNGENTKRKG
INEYINLYSQQINDKTLKKYKMSVLFKQILSDTESKSFVIDKLEDDSDVV
TTMQSFYEQIAAFKTVEEKSIKETLSLLFDDLKAQKLDLSKIYFKNDKSL
TDLSQQVFDDYSVIGTAVLEYITQQIAPKNLDNPSKKEQELIAKKTEKAK
YLSLETIKLALEEFNKHRDIDKQCRFEEILANFAAIPMIFDEIAQNKDNL
AQISIKYQNQGKKDLLQASAEDDVKAIKDLLDQTNNLLHKLKIFHISQSE
ILDKDEHFYLVFEECYFELANIVPLYNKIRNYITQKPYSDEKFKLNFENS
TLANGWDKNKEPDNTAILFIKDDKYYLGVMNKKNNKIFDDKAIKENKGEG
YKKIVYKLLPGANKMLPKVFFSAKSIKFYNPSEDILRIRNHSTHTKNGSP
QKGYEKFEFNIEDCRKFIDFYKQSISKHPEWKDFGFRFSDTQRYNSIDEF
YREVENQGYKLTFENISESYIDSVVNQGKLYLFQIYNKDFSAYSKGRPNL
HTLYWKALFDERNLQDVVYKLNGEAELFYRKQSIPKKITHPAKEAIANKN
KKESVFEYDLIKDKRFTEDKFFFHCPITINFKSSGANKFNDEINLLLKEK
ANDVHILSIDRGERHLAYYTLVDGKGNIIKQDTFNIIGNDRMKTNYHDKL
AAIEKDRDSARKDWKKINNIKEMKEGYLSQVVHEIAKLVIEYNAIVVFQD
LRGRFKVEKQVYQKLEKMLIEKLNYLVFKDNEFDKTGGVLRAYQLTAPFE
TFKKMGKQTGIIYYVPAGFTSKICPVTGFVNQLYPKYESVSKSQEFFSKF
DKICYNLDKGYFEFSFDYKNFGDKAAKGKWTIASFGSRLINFRWDTREVY
PTKELEKLLKDYSIEYGHGECIKAAICGESDKKFFAKLTSVLNTILQMRN
SKTGTELDYLISPVADVNGNFFDSRQAPKNMPQDADANGAYHIGLKGLML
LGRIKNNKKLNLVIKNEEYFEFVQNRN

3D structure

• PDB: 6i1l Mechanistic Insights into the cis- and trans-Acting DNase Activities of Cas12a.
• Chain: A
• Resolution: 2.98 Å

Enzymatic activity

• Enzyme Commision number: 3.1.21.1: deoxyribonuclease I.
  4.6.1.22: Bacillus subtilis ribonuclease.

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 N185 R186 R202 F289 N294 L306 Q309 K326 I328 Y410 H538 K541 N580 R583 K595 N790 K791 S794 S797 R800 N802 H804 E829 F831 R833 H843 I849 A850 K852 N853 S861 V862 F863 Y865 L867 I868 K869 K871 R872 F879 H881 M949 Y953 K956 R968 E979 G983 S986 H990 R1016 K1018 K1034 K1041	S15 K16 T17 R19 K52 N186 R187 R203 F290 N295 L307 Q310 K327 I329 Y411 H539 K542 N577 R580 K592 N787 K788 S791 S794 R797 N799 H801 E826 F828 R830 H840 I846 A847 K849 N850 S854 V855 F856 Y858 L860 I861 K862 K864 R865 F872 H874 M942 Y946 K949 R961 E972 G976 S979 H983 R1004 K1006 K1022 K1029
BS02	dna	A	N188 P196 G286 K296 E302 N305 K317 K320 S334 K397 T400 Q404 Y410 N584 Q588 K589 G826 E827 R964 K978 R1014 K1026 T1063	N189 P197 G287 K297 E303 N306 K318 K321 S335 K398 T401 Q405 Y411 N581 Q585 K586 G823 E824 R957 K971 R1002 K1014 T1051
BS03	MG	A	N602 T604	N599 T601

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:6i1l, PDBe:6i1l, PDBj:6i1l
• PDBsum: 6i1l
• PubMed: 30639240
• UniProt: A0Q7Q2|CS12A_FRATN CRISPR-associated endonuclease Cas12a (Gene Name=cas12a)