9VX6
Helical structure of grna-tdna sparda complex
PDB DOI: 10.2210/pdb9vx6/pdb
Classification: CELL INVASION Organism(s): Bacteriophage Sp. , Novosphingopyxis Baekryungensis
Deposited: 2025-07-18 Deposition Author(s): Jiang, Y. , Li, S. , Li, Y. , Zheng, Q.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 2.64 Å
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| target DNA | l | 20 | NA | TATCGTCAGCTGTGCAGTAT |
| target DNA | e | 20 | NA | TATCGTCAGCTGTGCAGTAT |
| target DNA | i | 20 | NA | TATCGTCAGCTGTGCAGTAT |
| target DNA | q | 20 | NA | TATCGTCAGCTGTGCAGTAT |
| guide RNA | r | 20 | NA | AUACUGCACAGCUGACGAUA |
| guide RNA | f | 20 | NA | AUACUGCACAGCUGACGAUA |
| guide RNA | j | 20 | NA | AUACUGCACAGCUGACGAUA |
| guide RNA | v | 20 | NA | AUACUGCACAGCUGACGAUA |
| substrate ssDNA | m | 11 | NA | CTGTGCAGTAT |
| substrate ssRNA | n | 11 | NA | UACUGCACAGC |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| pAGO | S | 485 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTFETRIFDEPELEFGDHHHHQDPRLGLSEAGPLQTFLGDVIKIGVVGNSKTIEDTRKFIETVSSGVEGKGEKHPNMHPPFPGLGNQSPYRCRFEIEDGATAALTKSKLDKIGKEPDHYRAVEMAVDEIIGELQAMDDGGSRPDVAIIALPVKLLERVWNAKVDARGTTEKSDSSGSDAPNFRGMLKAKAMGLSFPIQIVWEDVIDDKVTIPQKVKESSSRKIQDIAGRTWNLMTSLYYKGSGRIPWRRMPLEGEFSACYVGISFYREADGQQLFTSAAQMFDERGRGFVLKGRRARTESRGRHPYMAREDAKKIIEDVLAAYKLHHKTLPARVFILKTSRFKDEEADGIIAALDEAGTELRDLVWVQESYTARILRDGNYPVLRGTFVDLHGKGLLYTSGSMPYYGTYPGKYDPNPLLLCPHHTSESTVAQLAEEIFSLTKVNWNSTQMNQRLPIPIRAARKVGEVLKYVGEGEVISADYRKYI |
| pAGO | O | 485 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTFETRIFDEPELEFGDHHHHQDPRLGLSEAGPLQTFLGDVIKIGVVGNSKTIEDTRKFIETVSSGVEGKGEKHPNMHPPFPGLGNQSPYRCRFEIEDGATAALTKSKLDKIGKEPDHYRAVEMAVDEIIGELQAMDDGGSRPDVAIIALPVKLLERVWNAKVDARGTTEKSDSSGSDAPNFRGMLKAKAMGLSFPIQIVWEDVIDDKVTIPQKVKESSSRKIQDIAGRTWNLMTSLYYKGSGRIPWRRMPLEGEFSACYVGISFYREADGQQLFTSAAQMFDERGRGFVLKGRRARTESRGRHPYMAREDAKKIIEDVLAAYKLHHKTLPARVFILKTSRFKDEEADGIIAALDEAGTELRDLVWVQESYTARILRDGNYPVLRGTFVDLHGKGLLYTSGSMPYYGTYPGKYDPNPLLLCPHHTSESTVAQLAEEIFSLTKVNWNSTQMNQRLPIPIRAARKVGEVLKYVGEGEVISADYRKYI |
| pAGO | W | 485 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTFETRIFDEPELEFGDHHHHQDPRLGLSEAGPLQTFLGDVIKIGVVGNSKTIEDTRKFIETVSSGVEGKGEKHPNMHPPFPGLGNQSPYRCRFEIEDGATAALTKSKLDKIGKEPDHYRAVEMAVDEIIGELQAMDDGGSRPDVAIIALPVKLLERVWNAKVDARGTTEKSDSSGSDAPNFRGMLKAKAMGLSFPIQIVWEDVIDDKVTIPQKVKESSSRKIQDIAGRTWNLMTSLYYKGSGRIPWRRMPLEGEFSACYVGISFYREADGQQLFTSAAQMFDERGRGFVLKGRRARTESRGRHPYMAREDAKKIIEDVLAAYKLHHKTLPARVFILKTSRFKDEEADGIIAALDEAGTELRDLVWVQESYTARILRDGNYPVLRGTFVDLHGKGLLYTSGSMPYYGTYPGKYDPNPLLLCPHHTSESTVAQLAEEIFSLTKVNWNSTQMNQRLPIPIRAARKVGEVLKYVGEGEVISADYRKYI |
| pAGO | U | 485 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTFETRIFDEPELEFGDHHHHQDPRLGLSEAGPLQTFLGDVIKIGVVGNSKTIEDTRKFIETVSSGVEGKGEKHPNMHPPFPGLGNQSPYRCRFEIEDGATAALTKSKLDKIGKEPDHYRAVEMAVDEIIGELQAMDDGGSRPDVAIIALPVKLLERVWNAKVDARGTTEKSDSSGSDAPNFRGMLKAKAMGLSFPIQIVWEDVIDDKVTIPQKVKESSSRKIQDIAGRTWNLMTSLYYKGSGRIPWRRMPLEGEFSACYVGISFYREADGQQLFTSAAQMFDERGRGFVLKGRRARTESRGRHPYMAREDAKKIIEDVLAAYKLHHKTLPARVFILKTSRFKDEEADGIIAALDEAGTELRDLVWVQESYTARILRDGNYPVLRGTFVDLHGKGLLYTSGSMPYYGTYPGKYDPNPLLLCPHHTSESTVAQLAEEIFSLTKVNWNSTQMNQRLPIPIRAARKVGEVLKYVGEGEVISADYRKYI |
| DREN-APAZ | T | 442 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTKKITANQIIGEIGENEVRGRFLTLGWQFDGRSRLEAGIDGIAEVMNEGQPMARMIAVQIKSTKEGKYTSESDTSFTYLLRTQDLAYWRGSNLPVIVVFYRQSDHSFYWKEVSRDAGPGERRLNIDKVADLFNASTVNKLAALTVPKTGLGYYVPPLGGGEDALINMLPLTLPNEMYIASTTYEPRKAIAVILNGDGPKRFDWVINGGTFWSFHDPRTSACSEIVDIDQVEAINTKELALHDDIDEQNRFSHLLRQTLRYQTDSDLGWDKDHKALYFRAIEREVSRNFAYTSSKKKTDANVVSVFKNSKDETRVSFVRHHAFSPRFELMADQWYLIITPTYYYTTNGYAPHQFAAPLLAGKKRLDKSAALRGQVIMWHRFLTQSDHEDLFHSEETPEAYLMFGEPPSIHLDVRVPEDGWVKEKVKRIDEAAQGEGLFSDDI |
| DREN-APAZ | P | 442 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTKKITANQIIGEIGENEVRGRFLTLGWQFDGRSRLEAGIDGIAEVMNEGQPMARMIAVQIKSTKEGKYTSESDTSFTYLLRTQDLAYWRGSNLPVIVVFYRQSDHSFYWKEVSRDAGPGERRLNIDKVADLFNASTVNKLAALTVPKTGLGYYVPPLGGGEDALINMLPLTLPNEMYIASTTYEPRKAIAVILNGDGPKRFDWVINGGTFWSFHDPRTSACSEIVDIDQVEAINTKELALHDDIDEQNRFSHLLRQTLRYQTDSDLGWDKDHKALYFRAIEREVSRNFAYTSSKKKTDANVVSVFKNSKDETRVSFVRHHAFSPRFELMADQWYLIITPTYYYTTNGYAPHQFAAPLLAGKKRLDKSAALRGQVIMWHRFLTQSDHEDLFHSEETPEAYLMFGEPPSIHLDVRVPEDGWVKEKVKRIDEAAQGEGLFSDDI |
| DREN-APAZ | Y | 442 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTKKITANQIIGEIGENEVRGRFLTLGWQFDGRSRLEAGIDGIAEVMNEGQPMARMIAVQIKSTKEGKYTSESDTSFTYLLRTQDLAYWRGSNLPVIVVFYRQSDHSFYWKEVSRDAGPGERRLNIDKVADLFNASTVNKLAALTVPKTGLGYYVPPLGGGEDALINMLPLTLPNEMYIASTTYEPRKAIAVILNGDGPKRFDWVINGGTFWSFHDPRTSACSEIVDIDQVEAINTKELALHDDIDEQNRFSHLLRQTLRYQTDSDLGWDKDHKALYFRAIEREVSRNFAYTSSKKKTDANVVSVFKNSKDETRVSFVRHHAFSPRFELMADQWYLIITPTYYYTTNGYAPHQFAAPLLAGKKRLDKSAALRGQVIMWHRFLTQSDHEDLFHSEETPEAYLMFGEPPSIHLDVRVPEDGWVKEKVKRIDEAAQGEGLFSDDI |
| DREN-APAZ | X | 442 | Bacteriophage Sp. , Novosphingopyxis Baekryungensis | MTKKITANQIIGEIGENEVRGRFLTLGWQFDGRSRLEAGIDGIAEVMNEGQPMARMIAVQIKSTKEGKYTSESDTSFTYLLRTQDLAYWRGSNLPVIVVFYRQSDHSFYWKEVSRDAGPGERRLNIDKVADLFNASTVNKLAALTVPKTGLGYYVPPLGGGEDALINMLPLTLPNEMYIASTTYEPRKAIAVILNGDGPKRFDWVINGGTFWSFHDPRTSACSEIVDIDQVEAINTKELALHDDIDEQNRFSHLLRQTLRYQTDSDLGWDKDHKALYFRAIEREVSRNFAYTSSKKKTDANVVSVFKNSKDETRVSFVRHHAFSPRFELMADQWYLIITPTYYYTTNGYAPHQFAAPLLAGKKRLDKSAALRGQVIMWHRFLTQSDHEDLFHSEETPEAYLMFGEPPSIHLDVRVPEDGWVKEKVKRIDEAAQGEGLFSDDI |
Experimental Data
Method: ELECTRON MICROSCOPY