6QZK
Structure of Clostridium butyricum Argonaute bound to a guide DNA (5' deoxycytidine) and a 19-mer target DNA
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Protein argonaute | polymer | 748 | 85827.0 | 1 | UniProt (A0ABF7PLX0) | Clostridium butyricum | |
| 2 | B (B) | siDNA guide (5'-D(P*CP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*TP*AP*GP*T)-3') | polymer | 21 | 6573.3 | 1 | synthetic construct | ||
| 3 | C (C) | DNA target (5'-D(T*AP*TP*AP*CP*AP*AP*CP*CP*TP*AP*CP*TP*AP*CP*CP*TP*CP*T)-3') | polymer | 19 | 5683.7 | 1 | synthetic construct | ||
| 4 | D (A) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) PubChem (888) | |||
| 5 | E, F, G, H, I (A, B) | FORMIC ACID | non-polymer | 46.0 | 5 | Chemie (FMT) PubChem (284) | |||
| 6 | J, K (A, B) | water | water | 18.0 | 3 | Chemie (HOH) |
Sequence modifications
A: 1 - 748 (UniProt: A0ABF7PLX0)
| PDB | External Database | Details |
|---|---|---|
| Ala 1 | Met 1 | conflict |
| Asp 188 | Asn 188 | conflict |
| Gly 191 | Asp 191 | conflict |
| Lys 200 | Arg 200 | conflict |
| Ala 204 | Ser 204 | conflict |
| Lys 212 | Glu 212 | conflict |
| Asn 216 | Lys 216 | conflict |
| Thr 217 | Ser 217 | conflict |
| Asp 220 | Glu 220 | conflict |
| Asn 253 | Lys 253 | conflict |
| Gln 258 | Lys 258 | conflict |
| Val 343 | Ile 343 | conflict |
| Leu 466 | Ser 466 | conflict |
| Ala 541 | Asp 541 | engineered mutation |
| Ala 611 | Asp 611 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 98084.0 | |
| Non-Polymers* | Number of molecules | 6 |
| Total formula weight | 254.4 | |
| All* | Total formula weight | 98338.4 |
