eF-site ID 6gtf-A
PDB Code 6gtf
Chain A

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Title Transient state structure of CRISPR-Cpf1 (Cas12a) I5 conformation
Classification HYDROLASE
Compound CRISPR-associated endonuclease Cas12a
Source (6GTF)
Sequence A:  IYQEFVNKYSLSKTLRFELIPQGKTLENIKARGLILDDEK
RAKDYKKAKQIIDKYHQFFIEEILSSVCISEDLLQNYSDV
YFKLKKSDDDNLQKDFKSAKDTIKKQISEYIKDSEKFKNL
FNQNLIDAKKGQESDLILWLKQSKDNGIELFKANSDITDI
DEALEIIKSFKGWTTYFKGFHENRKNVYSSNDIPTSIIYR
IVDDNLPKFLENKAKYESLKDKAPEAINYEQIKKDLAEEL
TFDIDYKTSEVNQRVFSLDEVFEIANFNNYLNQSGITKFN
TIIGGKFVNGENTKRKGINEYINLYSQQINDKTLKKYKMS
VLFKQILSDTESKKLEDDSDVVTTMQSFYEQIAAFKTVEE
KSIKETLSLLFDDLKAQKLDLSKIYFKNDKSLTDLSQQVF
DDYSVIGTAVLEYITQQIAPKNLDNPSKKEQELIAKKTEK
AKYLSLETIKLALEEFNKHRDIDKQCRFEEILANFAAIPM
IFDEIAQNKDNLAQISIKYQNQGKKDLLQASAEDDVKAIK
DLLDQTNNLLHKLKIFHISQSEDKANILDKDEHFYLVFEE
CYFELANIVPLYNKIRNYITQKPYSDEKFKLNFENSTLAN
GWDKNKEPDNTAILFIKDDKYYLGVMNKKNNKIFDDKAIK
ENKGEGYKKIVYKLLPGANKMLPKVFFSAKSIKFYNPSED
ILRIRNHSTHTKNGSPQKGYEKFEFNIEDCRKFIDFYKQS
ISKHPEWKDFGFRFSDTQRYNSIDEFYREVENQGYKLTFE
NISESYIDSVVNQGKLYLFQIYNKDFSAYSKGRPNLHTLY
WKALFDERNLQDVVYKLNGEAELFYRKQSIPKKITHPAKE
AIANKNKDNPKKESVFEYDLIKDKRFTEDKFFFHCPITIN
FKSSGANKFNDEINLLLKEKANDVHILSIDRGERHLAYYT
LVDGKGNIIKQDTFNIIGNDRMKTNYHDKLAAIEKDRDSA
RKDWKKINNIKEMKEGYLSQVVHEIAKLVIEYNAIVVFQD
LNVYQKLEKMLIEKLNYLVFKDNEFDKTGGVLRAYQLTAP
FETFKKMGKQTGIIYYVPAGFTSKICPVTGFVNQLYPKYE
SVSKSQEFFSKFDKICYNLDKGYFEFSFDYKNFGDKAAKG
KWTIASFGSRLINFRNSDKNHNWDTREVYPTKELEKLLKD
YSIEYGHGECIKAAICGESDKKFFAKLTSVLNTILQMRNS
KTGTELDYLISPVADVNGNFFDSRQAPKNMPQDADANGAY
HIGLKGLMLLGRIKNNQEGKKLNLVIKNEEYFEFVQNRNN
Description (1)  CRISPR-associated endonuclease Cas12a/RNA Complex


Functional site

1) chain A
residue 843
type ACT_SITE
sequence H
description For pre-crRNA processing => ECO:0000305|PubMed:28431230
source Swiss-Prot : SWS_FT_FI1

2) chain A
residue 852
type ACT_SITE
sequence K
description For pre-crRNA processing => ECO:0000305|PubMed:28431230
source Swiss-Prot : SWS_FT_FI1

3) chain A
residue 869
type ACT_SITE
sequence K
description For pre-crRNA processing => ECO:0000305|PubMed:28431230
source Swiss-Prot : SWS_FT_FI1

4) chain A
residue 671
type SITE
sequence K
description Binds PAM => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI10

5) chain A
residue 677
type SITE
sequence K
description Binds Target strand DNA => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI11

6) chain A
residue 823
type SITE
sequence K
description Binds Target strand DNA => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI11

7) chain A
residue 826
type SITE
sequence G
description Binds Target strand DNA; via amide nitrogen => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI12

8) chain A
residue 320
type SITE
sequence K
description Binds DNA in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI6

9) chain A
residue 334
type SITE
sequence S
description Binds DNA in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI6

10) chain A
residue 589
type SITE
sequence K
description Binds DNA in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI6

11) chain A
residue 410
type SITE
sequence Y
description Caps the crRNA-target DNA heteroduplex => ECO:0000305|PubMed:28431230
source Swiss-Prot : SWS_FT_FI7

12) chain A
residue 613
type SITE
sequence K
description Binds DNA protospacer adjacent motif (PAM) => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI8

13) chain A
residue 667
type SITE
sequence K
description Binds Target strand DNA => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI9

14) chain A
residue 852
type SITE
sequence K
description Stabilizes transition state for pre-crRNA processing => ECO:0000305|PubMed:28431230
source Swiss-Prot : SWS_FT_FI14

15) chain A
residue 1026
type SITE
sequence K
description Binds DNA in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI15

16) chain A
residue 1063
type SITE
sequence T
description Binds DNA in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI15

17) chain A
residue 833
type SITE
sequence R
description Binds crRNA => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI13

18) chain A
residue 917
type ACT_SITE
sequence D
description For DNase activity of RuvC domain => ECO:0000305|PubMed:26422227
source Swiss-Prot : SWS_FT_FI2

19) chain A
residue 1006
type ACT_SITE
sequence Q
description For DNase activity of RuvC domain => ECO:0000305|PubMed:26422227
source Swiss-Prot : SWS_FT_FI2

20) chain A
residue 1255
type ACT_SITE
sequence D
description For DNase activity of RuvC domain => ECO:0000305|PubMed:26422227
source Swiss-Prot : SWS_FT_FI2

21) chain A
residue 16
type SITE
sequence T
description Binds crRNA alone and in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230, ECO:0000269|PubMed:28562584
source Swiss-Prot : SWS_FT_FI3

22) chain A
residue 131
type SITE
sequence K
description Binds target strand DNA => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI4

23) chain A
residue 295
type SITE
sequence T
description Binds crRNA in crRNA-target DNA heteroduplex => ECO:0000269|PubMed:28431230
source Swiss-Prot : SWS_FT_FI5


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