6I1K: Catalytically inactive FnCas12a

Crystal structure of catalytically inactive FnCas12a in complex with a crRNA guide and a dsDNA target. Determined by X-ray diffraction at 2.65 Å resolution. Released 23 Jan 2019.

Method

X-ray diffraction

Resolution

2.65 Å

Organisms

Francisella tularensis subsp. novicida (strain U112), synthetic construct

Chains

4

Atoms

12,982

Mol. weight

189.46 kDa

Ligands

MG

Released

23 Jan 2019

Explore 6I1K in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6I1K contains 73 α-helices and 47 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 73 helices, 47 β-strands

Molecules and chains

>6I1K_1 CRISPR-associated endonuclease Cas12a (chains A)
SNASIYQEFVNKYSLSKTLRFELIPQGKTLENIKARGLILDDEKRAKDYKKAKQIIDKYH
QFFIEEILSSVCISEDLLQNYSDVYFKLKKSDDDNLQKDFKSAKDTIKKQISEYIKDSEK
FKNLFNQNLIDAKKGQESDLILWLKQSKDNGIELFKANSDITDIDEALEIIKSFKGWTTY
FKGFHENRKNVYSSNDIPTSIIYRIVDDNLPKFLENKAKYESLKDKAPEAINYEQIKKDL
AEELTFDIDYKTSEVNQRVFSLDEVFEIANFNNYLNQSGITKFNTIIGGKFVNGENTKRK
GINEYINLYSQQINDKTLKKYKMSVLFKQILSDTESKSFVIDKLEDDSDVVTTMQSFYEQ
IAAFKTVEEKSIKETLSLLFDDLKAQKLDLSKIYFKNDKSLTDLSQQVFDDYSVIGTAVL
EYITQQIAPKNLDNPSKKEQELIAKKTEKAKYLSLETIKLALEEFNKHRDIDKQCRFEEI
LANFAAIPMIFDEIAQNKDNLAQISIKYQNQGKKDLLQASAEDDVKAIKDLLDQTNNLLH
KLKIFHISQSEDKANILDKDEHFYLVFEECYFELANIVPLYNKIRNYITQKPYSDEKFKL
NFENSTLANGWDKNKEPDNTAILFIKDDKYYLGVMNKKNNKIFDDKAIKENKGEGYKKIV
YKLLPGANKMLPKVFFSAKSIKFYNPSEDILRIRNHSTHTKNGSPQKGYEKFEFNIEDCR
KFIDFYKQSISKHPEWKDFGFRFSDTQRYNSIDEFYREVENQGYKLTFENISESYIDSVV
NQGKLYLFQIYNKDFSAYSKGRPNLHTLYWKALFDERNLQDVVYKLNGEAELFYRKQSIP
KKITHPAKEAIANKNKDNPKKESVFEYDLIKDKRFTEDKFFFHCPITINFKSSGANKFND
EINLLLKEKANDVHILSIDRGERHLAYYTLVDGKGNIIKQDTFNIIGNDRMKTNYHDKLA
AIEKDRDSARKDWKKINNIKEMKEGYLSQVVHEIAKLVIEYNAIVVFEDLNFGFKRGRFK
VEKQVYQKLEKMLIEKLNYLVFKDNEFDKTGGVLRAYQLTAPFETFKKMGKQTGIIYYVP
AGFTSKICPVTGFVNQLYPKYESVSKSQEFFSKFDKICYNLDKGYFEFSFDYKNFGDKAA
KGKWTIASFGSRLINFRNSDKNHNWDTREVYPTKELEKLLKDYSIEYGHGECIKAAICGE
SDKKFFAKLTSVLNTILQMRNSKTGTELDYLISPVADVNGNFFDSRQAPKNMPQDADANG
AYHIGLKGLMLLGRIKNNQEGKKLNLVIKNEEYFEFVQNRNN

>6I1K_2 crRNA (40-MER) (chains B)
AAUUUCUACUGUUGUAGAUAGAUUAAAAGGUAAUUCUAUC

>6I1K_3 DNA target strand (38-MER) (chains C)
ATAGTTCATAGAATTACCTTTTAATCTTAAAGGACTGC

>6I1K_4 DNA non-target strand (33-MER) (chains D)
AGTCCTTTATCTAATTTTCCATTAAGATAGAACTATGC

Ligands and cofactors

Water and common crystallization additives (EDO) are not listed.

Primary citation

Mechanistic Insights into the cis- and trans-Acting DNase Activities of Cas12a. Swarts, D.C., Jinek, M. Mol Cell (2019) 73:589-600.e4. DOI 10.1016/j.molcel.2018.11.021 · PubMed

Related structures

Other PDB entries of the same protein (UniProt A0Q7Q2 (AlphaFold model), which also has an AlphaFold model), best resolution first:

• 8Y0B 2.3 Å, Crystal structure of FnCas12a in complex with pre-crRNA and 12nt target DNA
• 5NFV 2.5 Å, Crystal structure of catalytically inactive FnCas12 mutant bound to an R-loop structure…
• 6I1L 2.98 Å, Crystal structure of FnCas12a in complex with a crRNA guide and ssDNA target
• 5MGA 3.0 Å, Structure of the Cpf1 endonuclease R-loop complex after DNA cleavage
• 9MKX 3.21 Å, FnoCas12a bridge helix variant state 4b
• 9MKT 3.26 Å, FnoCas12a bridge helix variant state 1
• 6GTG 3.27 Å, Transition state structure of Cpf1(Cas12a) I4 conformation
• 5NG6 3.34 Å, Crystal structure of FnCas12a bound to a crRNA
• 8Y0C 3.45 Å, Crystal structure of FnCas12a in complex with pre-crRNA and 18nt target DNA
• 6GTF 3.63 Å, Transient state structure of CRISPR-Cpf1 (Cas12a) I5 conformation
• 9MKW 3.63 Å, FnoCas12a bridge helix variant state 4a
• 9MKV 3.68 Å, FnoCas12a bridge helix variant state 3

Browse more

6I1K is part of these collections:

• CRISPR and genome editing

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