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nsp10 / nsp16 hetero-oligomeric complex | P0DTD1 PRO_0000449628, PRO_0000449633
Created: May 5, 2023 at 21:34
Model 01
- Ligands
2 x BDF ,1 x SAM ,2 x ZN 2 x beta-D-fructopyranoseBDF.5: 4 residues within 4Å:- Chain A: L.57, T.58, W.189, C.209
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.58, A:T.58, A:T.58
BDF.8: 7 residues within 4Å:- Chain B: I.38, T.39, N.40, C.41, F.68, P.107,
- Chain A: M.41
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:I.38, B:N.40, B:N.40, B:C.41, A:G.39
1 x S-ADENOSYLMETHIONINESAM.2: 18 residues within 4Å:- Chain A: N.43, Y.47, G.71, A.72, G.73, S.74, P.80, G.81, D.99, L.100, N.101, G.113, D.114, C.115, D.130, M.131, Y.132, F.149
11 PLIP interactions:11 interactions with chain A- Hydrogen bonds: A:N.43, A:G.71, A:G.73, A:G.73, A:G.81, A:L.100, A:N.101, A:D.114, A:C.115, A:Y.132
- Salt bridges: A:D.130
2 x ZINC IONZN.6: 4 residues within 4Å:- Chain B: C.74, C.77, H.83, C.90
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:C.74, B:C.77, B:H.83, B:C.90
ZN.7: 4 residues within 4Å:- Chain B: C.117, C.120, C.128, C.130
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:C.117, B:C.120, B:C.128, B:C.130
QMEANDisCo Local
QMEAN Z-Scores
Template
6w4h.1
2'-O-methyltransferase, Non-structural protein 10
- Seq Identity
- 100.00%
- Coverage
| Biounit Oligo State | Hetero-dimer |
| QSQE | - |
| Method | X-ray, 1.80 Å |
| Overall Seq Identity | 100.00% |
| Overall Seq Similarity | 0.63 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| 2'-O-methyltransferase | 100.00% | 0.62 | A: 1-298 | 1.00 |
| Non-structural protein 10 | 100.00% | 0.64 | B: 18-133 | 1.00 |
Model-Template Alignment
Model 02
- Ligands
1 x SAH ,2 x ZN 1 x S-ADENOSYL-L-HOMOCYSTEINESAH.3: 16 residues within 4Å:- Chain A: N.43, Y.47, G.71, A.72, G.73, S.74, P.80, G.81, D.99, L.100, D.114, C.115, D.130, M.131, Y.132, F.149
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:N.43, A:G.71, A:G.73, A:G.81, A:L.100, A:N.101, A:D.114, A:C.115, A:Y.132
2 x ZINC IONZN.7: 4 residues within 4Å:- Chain B: C.74, C.77, H.83, C.90
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:C.74, B:C.77, B:H.83, B:C.90
ZN.8: 4 residues within 4Å:- Chain B: C.117, C.120, C.128, C.130
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:C.117, B:C.120, B:C.128, B:C.130
QMEANDisCo Local
QMEAN Z-Scores
Template
2xyq.1
Crystal structure of the nsp16 nsp10 SARS coronavirus complex
- Seq Identity
- 95.13%
- Coverage
| Biounit Oligo State | Hetero-dimer |
| QSQE | 0.92 |
| Method | X-ray, 2.00 Å |
| Overall Seq Identity | 95.13% |
| Overall Seq Similarity | 0.61 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| PUTATIVE 2'-O-METHYL TRANSFERASE | 93.77% | 0.60 | A: 1-289 | 0.97 |
| NON-STRUCTURAL PROTEIN 10 | 98.36% | 0.64 | B: 10-131 | 0.88 |
| Ligand | Added to Model | Description |
|---|---|---|
| ✓ | S-ADENOSYL-L-HOMOCYSTEINE | |
| ✓ | ZINC ION | |
| ✓ | ZINC ION | |
| ✕ - Not in contact with model. | CHLORIDE ION | |
| ✕ - Not biologically relevant. | CHLORIDE ION | |
| ✕ - Not in contact with model. | MAGNESIUM ION | |
| ✕ - Not in contact with model. | SODIUM ION | |
| ✕ - Not biologically relevant. | SODIUM ION |
Model-Template Alignment
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