Human DNA polymerase eta-DNA-dGMPNPP ternary mismatch complex in 0.1 mM Mg2+ for 600s. Determined by X-ray diffraction at 1.54 Å resolution. Released 4 May 2022.
Explore 7U7U in 3D Show helices and sheets RCSB PDB PDBe
7U7U contains 22 α-helices and 20 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 9-14 | 6 | 1 |
| α-helix | 17-25 | 9 | |
| α-helix | 27-29 | 3 | |
| β-strand | 34-38 | 5 | 2 |
| β-strand | 46-50 | 5 | 2 |
| α-helix | 52-55 | 4 | |
| β-strand | 64 | 1 | 2 |
| α-helix | 65-71 | 7 | |
| β-strand | 76-79 | 4 | 2 |
| α-helix | 80-81 | 2 | |
| β-strand | 82-83 | 2 | 3 |
| β-strand | 86-87 | 2 | 3 |
| α-helix | 90-106 | 17 | |
| β-strand | 109-113 | 5 | 1 |
| β-strand | 116-120 | 5 | 1 |
| α-helix | 122-132 | 11 | |
| α-helix | 135-138 | 4 | |
| α-helix | 139-141 | 3 | |
| β-strand | 145-147 | 3 | 1 |
| α-helix | 163-176 | 14 | |
| α-helix | 186-208 | 23 | |
| β-strand | 212-217 | 6 | 1 |
| α-helix | 220-227 | 8 | |
| β-strand | 235-237 | 3 | 1 |
| α-helix | 243-248 | 6 | |
| β-strand | 251 | 1 | 4 |
| α-helix | 252-254 | 3 | |
| α-helix | 261-270 | 10 | |
| β-strand | 274 | 1 | 4 |
| α-helix | 275-280 | 6 | |
| α-helix | 283-290 | 8 | |
| α-helix | 292-301 | 10 | |
| β-strand | 313 | 1 | 1 |
| β-strand | 319-324 | 6 | 5 |
| α-helix | 327-329 | 3 | |
| β-strand | 331-333 | 3 | 5 |
| α-helix | 334-359 | 26 | |
| β-strand | 361-372 | 12 | 5 |
| β-strand | 381-386 | 6 | 5 |
| α-helix | 392-403 | 12 | |
| α-helix | 404-406 | 3 | |
| β-strand | 414-431 | 18 | 5 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| DNA polymerase eta | A | protein | 435 | Homo sapiens | Q9Y253 (AlphaFold model) |
| DNA (5'-d(*cp*ap*tp*tp*ap*tp*gp*ap*cp*gp*cp*t)-3') | T | DNA | 12 | synthetic construct | |
| DNA (5'-d(*ap*gp*cp*gp*tp*cp*ap*t)-3') | P | DNA | 8 | synthetic construct |
>7U7U_1 DNA polymerase eta (chains A) GPHMATGQDRVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAF GVTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEA YVDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDS LQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTL VSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSW LYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRN DNDRVATQLVVSIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSP PLTMLFLCATKFSAS
>7U7U_2 DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3') (chains T) CATTATGACGCT
>7U7U_3 DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3') (chains P) AGCGTCAT
| ID | Name | Formula | Copies |
|---|---|---|---|
| XG4 | 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphory… | C10 H17 N6 O12 P3 | 1 |
| MG | Magnesium ion | Mg | 2 |
Water and common crystallization additives (GOL) are not listed.
In crystallo observation of three metal ion promoted DNA polymerase misincorporation. Chang, C., Lee Luo, C., Gao, Y. Nat Commun (2022) 13:2346-2346. DOI 10.1038/s41467-022-30005-3 · PubMed
Other PDB entries of the same protein (UniProt Q9Y253 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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