9R83
KOD-H4 DNA polymerase mutant in a ternary complex with HNA:DNA containing six HNA nucleotides and a 2',3'-dideoxycytidine at the 3'-end of the DNA primer complexed to a natural dATP in the active site
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, D (F, C) | DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*CP*AP*C)-3') | polymer | 12 | 3617.4 | 2 | synthetic construct | ||
| 2 | B, C (A, B) | DNA polymerase | polymer | 774 | 89976.5 | 2 | UniProt (D0VWU9) | Thermococcus kodakarensis KOD1 | |
| 3 | E, F (D, E) | DNA (5'-D(P*(6HA)P*(6HC)P*(6HT)P*(6HG)P*(6HT)P*GP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3') | polymer | 16 | 5014.3 | 2 | synthetic construct | ||
| 4 | G, Q (A, B) | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE | non-polymer | 491.2 | 2 | Chemie (DTP) | |||
| 5 | H, I, M, N, O... (A, B, D, E) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 8 | Chemie (EDO) | |||
| 6 | J, K, R, S (A, B) | CALCIUM ION | non-polymer | 40.1 | 4 | Chemie (CA) PubChem (271) | |||
| 7 | L, U (B, D) | GLYCEROL | non-polymer | 92.1 | 2 | Chemie (GOL) PubChem (753) | |||
| 8 | W, X, Y, Z (A, B, D, E) | water | water | 18.0 | 73 | Chemie (HOH) |
Sequence modifications
A, B: 1 - 774 (UniProt: D0VWU9)
| PDB | External Database | Details |
|---|---|---|
| Gln 93 | Val 93 | engineered mutation |
| Thr 114 | Ile 114 | engineered mutation |
| Ala 141 | Asp 141 | engineered mutation |
| Ala 143 | Glu 143 | engineered mutation |
| His 147 | Glu 147 | conflict |
| Lys 383 | Ser 383 | engineered mutation |
| Gly 429 | Lys 429 | engineered mutation |
| Leu 445 | Phe 445 | engineered mutation |
| Leu 485 | Ala 485 | engineered mutation |
| Val 493 | Tyr 493 | engineered mutation |
| His 496 | Tyr 496 | engineered mutation |
| Met 497 | Tyr 497 | engineered mutation |
| Phe 499 | Tyr 499 | engineered mutation |
| Glu 500 | Ala 500 | engineered mutation |
| Asn 501 | Arg 501 | engineered mutation |
| Leu 521 | Ile 521 | engineered mutation |
| Lys 584 | Glu 584 | conflict |
| Lys 664 | Glu 664 | engineered mutation |
| Arg 726 | Lys 726 | engineered mutation |
| Lys 735 | Asn 735 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 197216.4 | |
| Non-Polymers* | Number of molecules | 16 |
| Total formula weight | 1823.4 | |
| All* | Total formula weight | 199039.8 |
