8G9U
Exploiting activation and inactivation mechanisms in type i-c crispr-cas3 for genome editing applications
PDB DOI: 10.2210/pdb8g9u/pdb
Classification: DNA BINDING PROTEIN Organism(s): Neisseria Lactamica , Synthetic Construct
Deposited: 2023-02-22 Deposition Author(s): Hu, C. , Ke, A. , Nam, K.H.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.0 Å
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| Cas3 | P | 771 | Neisseria Lactamica , Synthetic Construct | DYIAHARQDSSNAWHSHPLQKHLQKVAQLAKRFAGRYGSLFAEYAGLLHDLGKFQESFQKYIRNASGFEKENAHLEDVESTKLRKIPHSTAGAKYAVERLNPFFGHLLAYLIAGHHAGLADWYDKGSLKRRLQQADDELAASLSGFVESSLPEDFFPLSDDDLMRDFFAFWEDGAKLEELHIWMRFLFSCLVDADFLDTEAFMNGYADADAAAAAAAAAAAAAAAARRYAEQYAQLSAAEDADKNSSLNQERHAILQQCFSAAETDRTLFSLTVPTGGGKTLASLGFALKHALKFGKKRIIYAIPFTSIIEQNANVFRNALGDDVVLEHHSNLEVKEDKETAKTRLATENWDAPLIVTTNVQLFESLFAAKTSRCRKIHNIADSVVILDEAQQLPRDFQKPITDMMRVLARDYGVTFVLCTATQPELGKNIDAFGRTILEGLPDVREIVADKIALSEKLRRVRIKMPPPNGETQSWQKIADEIAARPCVLAVVNTRKHAQKLFAALPSNGIKLHLSANMCATHCSEVIALVRRYLALYRAGSLHKPLWLVSTQLIEAGVDLDFPCVYRAMAGLDSIAQAAGRCNREGKLPQLGEVVVFRAEEGAPSGSLKQGQDITEEMLKAGLLDDPLSPLAFAEYFRRFNGKGDVDKHDITRLLTAEASNENPLAIKFRTAAERFHLIDNQGVALIVPFIPLAHWEKDGSPQIVEANELDDFFRRHLAAAAAAAAWAAAAAAAAAAFPQPPDNPDNPFGQTDQPLLAAAAAAAAAAAAA |
| CRISPR-associated protein, Csd2 family | A | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| CRISPR-associated protein, Csd2 family | B | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| CRISPR-associated protein, Csd2 family | D | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| CRISPR-associated protein, Csd2 family | C | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| CRISPR-associated protein, Csd2 family | E | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| CRISPR-associated protein, Csd2 family | F | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| CRISPR-associated protein, Csd2 family | M | 283 | Neisseria Lactamica , Synthetic Construct | TIEKRYDFVFLFDVQDGNPNGDPDAGNLPRIDPQTGEGLVTDVCLKRKVRNFIQMTQNDEHHDIFIREKGILNNLIDEAHEQENVKGKEKGEKTEAARQYMCSRYYDIRTFGAVMTTGKNAGQVRGPVQLTFSRSIDPIMTLEHSITRMAVTNEKDASETGDNRTMGRKFTVPYGLYRCHGFISTHFAKQTGFSENDLELFWQALVNMFDHDHSAARGQMNARGLYVFEHSNNLGDAPADSLFKRIQVVKKDGVEVVRSFDDYLVSVDDKNLEETKLLRKLGG |
| Phage associated protein | I | 124 | Neisseria Lactamica , Synthetic Construct | GLDRNRQDIGYVLGRLFAVLEKIQAEANPGLNATIADRYFGSASSTPIAVFGTLMRLLPHHLNKLEFEGRAVQLQWEIRQILEHCQRFPNHLNLEQQGLFAIGYYHETQFLFTKDALKNLFNEA |
| Phage associated protein | G | 124 | Neisseria Lactamica , Synthetic Construct | GLDRNRQDIGYVLGRLFAVLEKIQAEANPGLNATIADRYFGSASSTPIAVFGTLMRLLPHHLNKLEFEGRAVQLQWEIRQILEHCQRFPNHLNLEQQGLFAIGYYHETQFLFTKDALKNLFNEA |
| Phage associated protein | J | 124 | Neisseria Lactamica , Synthetic Construct | GLDRNRQDIGYVLGRLFAVLEKIQAEANPGLNATIADRYFGSASSTPIAVFGTLMRLLPHHLNKLEFEGRAVQLQWEIRQILEHCQRFPNHLNLEQQGLFAIGYYHETQFLFTKDALKNLFNEA |
| CRISPR-associated protein, Csd1 family | H | 582 | Neisseria Lactamica , Synthetic Construct | MILHALTQYYQRKAESDGGIAQEGFENKEIPFIIVIDKQGNFIQLEDTRELKVKKKVGRTFLVPKGLGRSGSKSYEVSNLLWDHYGYVLAYAGEKGQEQADKQHASFTAKVNELKQALPDDAGVTAVAAFLSSAEEKSKVMQAANWAECAKVKGCNLSFRLVDEAVDLVCQSKAVREYVSQANQTQSDNAQKGICLVTGKAAPIARLHNAVKGVNAKPAPFASVNLSAFESYGKEQGFAFPIGEQAMFEYTTALNTLLAGENRFRIGDVTTVCWGAKRTPLEESLASMINGGGKDNPDAHIDAVKALYKSLYNGQYCKPDGEDKFYLLGLSPNSARIVVRFWHETTVAALSESIAAWYDDLQMVRGENSPYPEYMPLPRLLGNLVLDGKMENLPSDLIAQITDAALNNRVLPVSLLQAALRRNKAEQKITYGRASLLKAYINRAIRAGRLKNMKELTMGLDRNRQDIGYVLGRLFAVLEKIQAEANPGLNATIADRYFGSASSTPIAVFGTLMRLLPHHLNKLEFEGRAVQLQWEIRQILEHCQRFPNHLNLEQQGLFAIGYYHETQFLFTKDALKNLFNEA |
| pre-crRNA processing endonuclease | N | 205 | Neisseria Lactamica , Synthetic Construct | RFILEISGDLACFTRSELKVERVSYPVITPSAARNILMAILWKPAIRWKVLKIEILKPIQWTNIRRNEVGTKMSERSGSLYIEDNRQQRASMLLKDVAYRIHADFDMTSEAGESDNYVKFAEMFKRRAKKGQYFHQPYLGCREFPCDFRLLEKAEDGLPLEDITQDFGFMLYDMDFSKSDPRDSNNAEPMFYQCKAVNGVITVPP |
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| crRNA (43-MER) | k | 43 | NA | GUUGAAACAGGGUCAGCUUGCCGUAGGUGGCAUCGCCCUCGUC |
| Traget strand DNA (53-MER) | l | 53 | NA | AGGAGGGCGAGGGCGATGCCACCTACGGCAAGCTGACCCTGAAGTTCATCTGC |
| proximal nontarget strand DNA (5'-D(P*AP*TP*GP*AP*AP*CP*TP*TP*CP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3') | o | 20 | NA | ATGAACTTCAAAAAAAAAAA |
| Distal nontarget DNA (5'-D(P*TP*TP*AP*TP*AP*TP*TP*AP*AP*TP*AP*TP*TP*AP*TP*AP*TP*TP*TP*A)-3') | q | 20 | NA | TTATATTAATATTATATTTA |
Experimental Data
Method: ELECTRON MICROSCOPY