Table 3.
Step | Reactiona | Constantb | Non-extendable DNA | Extendable DNA | ||
---|---|---|---|---|---|---|
WT | E288K | WT | E288K | |||
DNA Binding | E + D → ED | KD (DNA)# | 5 | 19 | 5 | 19 |
ED → E + D | ||||||
| ||||||
dNTP Binding | ED → N + EDN | Kd(dNTP)* | 3.6±0.5 | 5.8±1.2 | 3.6±0.5 | 5.8±1.2 |
EDN → ED + N | ||||||
| ||||||
Fingers Closing | EDN → END | k+3 | 129±18 | 114±8 | 84±44 | 90±21 |
END → EDN | k−3 | 84±9 | 9±2 | 148±27 | 9±3 | |
| ||||||
Non-covalent Step | END → NDE | k+4 | 18±1 | 6.5±0.3 | 17±13 | 10±2 |
NDE → END | k−4 | 0.59±0.05 | 0.26±0.03 | 1.4±2.0 | 41±13 | |
| ||||||
Polymer-ization | NDE → EP | k+5 | 10.9±0.3 | 22.6±1.1 | ||
EP → NDE | k−5 | 0 | 0 | |||
| ||||||
Post Chemistry | EP → E + P | k+6 | 0.45±0.11 | 0.3±0.2 | ||
E + P → EP | k−6⁋ | 0.02±0.07 | 0.03±0.2 |
Reaction as modeled in KinTek Explorer. E represents enzyme, D represents DNA substrate, N represents nucleotide, and P represents product.
Rate constants all have units of s−1 exceptK has units of μM−1s−1. # has units of nM and * has units of μM.