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(-) Description

Title :  ASCPF1(E993A)-CRRNA-DNA TERNARY COMPLEX
 
Authors :  P. Gao, H. Yang, K. R. Rajashankar, Z. Huang, D. J. Patel
Date :  21 Jun 16  (Deposition) - 10 Aug 16  (Release) - 17 Aug 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.29
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Cpf1, Crispr-Cas, Crrna, Hydrolase-Dna-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Gao, H. Yang, K. R. Rajashankar, Z. Huang, D. J. Patel
Type V Crispr-Cas Cpf1 Endonuclease Employs A Unique Mechanism For Crrna-Mediated Target Dna Recognition.
Cell Res. V. 26 901 2016
PubMed-ID: 27444870  |  Reference-DOI: 10.1038/CR.2016.88

(-) Compounds

Molecule 1 - CRISPR-ASSOCIATED ENDONUCLEASE CPF1
    Chains: A
    EC Number: 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)-RIL
    Expression System Taxid: 562
    Gene: CPF1, HMPREF1246_0236
    Mutation: YES
    Organism Scientific: ACIDAMINOCOCCUS SP. (STRAIN BV3L6)
    Organism Taxid: 1111120
    Strain: BV3L6
    Synonym: ASCPF1
 
Molecule 2 - RNA (40-MER)
    Chains: B
    Engineered: YES
    Organism Scientific: ACIDAMINOCOCCUS SP. BV3L6
    Organism Taxid: 1111120
    Synthetic: YES
 
Molecule 3 - DNA (28-MER)
    Chains: C
    Engineered: YES
    Organism Scientific: ACIDAMINOCOCCUS SP. BV3L6
    Organism Taxid: 1111120
    Synthetic: YES
 
Molecule 4 - DNA (8-MER)
    Chains: D
    Engineered: YES
    Organism Scientific: ACIDAMINOCOCCUS SP. BV3L6
    Organism Taxid: 1111120
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5KK5)

(-) Sites  (0, 0)

(no "Site" information available for 5KK5)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KK5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5KK5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KK5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KK5)

(-) Exons   (0, 0)

(no "Exon" information available for 5KK5)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:1201
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhh....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhee........eehhhhhhhhhhhh.hhhhhhhhhh..........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eee..............hhhhhheeeeee..eeeeee.................eeeeee...hhhhhhhhhh..hhhhhhhhhhh...eee.......eeehhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhheeeeee.hhhhhhhhhhhh..eeeeeehhhhh.......hhhhhhhhhhhhhhhhhh..eee....eeeee......hhhhhh.eeeeeeeeee..........hhhhhhhhhhhh....eeeee.......eeeee.....eeeeee..ee..eehhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhh.....................................eeee.................hhhhh.hhhhhhhhhhh..eeee......eeee.......................eee.....eee.........hhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh..eeee....eeee............hhhhh......hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5kk5 A    5 EGFTNLYQVSKTLRFELIPQGKTLKHIQEQGFIEEDKARNDHYKELKPIIDRIYKTYADQCLQLVQLDWENLSAAIDSYRKEKTEETRNALIEEQATYRNAIHDYFIGRTDNLTDAINKRHAEIYKGLFKAELFNGKVLKQLGTTEHENALLRSFDKFTTYFSGFYENRKNVFSAEDISTAIPHRIVQDNFPKFKENCHIFTRLITAVPSLREHFENVKKAIGIFVSTSIEEVFSFPFYNQLLTQTQIDLYNQLLGGISREAGTEKIKGLNEVLNLAIQKNDETAHIIASLPHRFIPLFKQILSDRNTLSFILEEFKSDEEVIQSFCKYKTLLRNENVLETAEALFNELNSIDLTHIFISHKKLETISSALCDHWDTLRNALYERRISELTGKITKSAKEKVQRSLKHEDINLQEIISAAGKELSEAFKQKTSEILSHAHAALDQPLPTTLKKQEEKEILKSQLDSLLGLYHLLDWFAVDESNEVDPEFSARLTGIKLEMEPSLSFYNKARNYATKKPYSVEKFKLNFQMPTLASGWDVNKEKNNGAILFVKNGLYYLGIMPKQLSFEPTEKTSEGFDKMYYDYFPDAAKMIPKCSTQLKAVTAHFQTHTTPILLSNNFIEPLEITKEIYDLNNPEKEPKKFQTAYAKKTGDQKGYREALCKWIDFTRDFLSKYTKTTSIDLSSLRPSSQYKDLGEYYAELNPLLYHISFQRIAEKEIMDAVETGKLYLFQIYNKDFAKGHHGKPNLHTLYWTGLFSPENLAKTSIKLNGQAELFYRPKSIIKDRRFTSDKFFFHVPITLNYQAANSPSKFNQRVNAYLKEHPETPIIGIDRGERNLIYITVIDSTGKILEQRSLNTIQQFDYQKKLDNREKERVAARQAWSVVGTIKDLKQGYLSQVIHEIVDLMIHYQAVVVLANLEKAVYQQFEKMLIDKLNCLVLKDYPAEKVGGVLNPYQLTDQFTSFAKMGTQSGFLFYVPAPYTSKIDPLTGFVDPFVWKTIKNHESRKHFLEGFDFLHYDVKTGDFILHFKMNRNLSFQRGLPGFMPAEKNETQFDAKGTPFIAGKRIYRDLYPANELIALLEEKGIVFRDGSNILPKLLENDDSHAIDTMVALIRSVLQMRNSNAATGEDYINSPVRDLNGVCFDSRFQNPEWPMDADANGAYHIALKGQLLLNHLKESKDLKLQNGISNQDWLAYIQELRN 1307
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144  ||   157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567   ||  583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793|      867       877       887       897       907       917       927       937       947       957       967       977       987      1009      1019      1029      1039      1049      1059      1069      1079      1089      1099      1109      1119      1129     |1144      1154     |1176      1186      1196      1206      1216      1226      1236      1246      1256      1266      1276      1286      1296      1306 
                                                                                                                                                                        147|                                                                                                                                                                                                                                                                                                                                                                                                                                 571|                                                                                                                                                                                                                    793|                                                                                                                                      995|                                                                                                                           1135|               1160|                                                                                                                                      
                                                                                                                                                                         151                                                                                                                                                                                                                                                                                                                                                                                                                                  578                                                                                                                                                                                                                     858                                                                                                                                      1008                                                                                                                            1141                1173                                                                                                                                      


Chain B from PDB  Type:DNA/RNA  Length:40
                                                                         
                5kk5 B  -19 AAUUUCUACUCUUGUAGAUGAGAAGUCAUUUAAUAAGGCC   20
                                   -10         0        10        20


Chain C from PDB  Type:DNA  Length:28
                                                             
                5kk5 C  -19 GCCTTATTAAATGACTTCTCGAAACATG    8
                                   -10         0        


Chain D from PDB  Type:DNA  Length:8
                                         
                5kk5 D   -8 CATGTTTC   -1
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5KK5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KK5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KK5)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  5kk5
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CPF1_ACISB | U2UMQ6: 5b43 5xh6 5xh7

(-) Related Entries Specified in the PDB File

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