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Secondary Structure
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Colour Scheme
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Confidencegradient Confidenceclass Indels Chain Unique Chain Rainbow 2° Structure Clustal Hydrophobic Size Charged Polar Proline Ser/Thr Cysteine Aliphatic Aromatic No Colour
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NGL PV

### nsp10 / nsp16 hetero-oligomeric complex | P0DTD1 PRO_0000449628, PRO_0000449633

### Created: May 5, 2023, 9:34 p.m. at 21:34

Order by:

Oligo-State
  Hetero-1-1-mer
GMQE
  0.94
QMEANDisCo Global:
  0.86 ± 0.05

Ligands
  2 x BDF, 1 x SAM, 2 x ZN
  2 x beta-D-fructopyranose

  BDF.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-ADENOSYLMETHIONINE

  SAM.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 ION

  ZN.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

Ligand | Added to Model | Description
--- | --- | ---
BDF | ✓ | beta-D-fructopyranose
BDF | ✓ | beta-D-fructopyranose
SAM | ✓ | S-ADENOSYLMETHIONINE
ZN | ✓ | ZINC ION
ZN | ✓ | ZINC ION
ACT | ✕ - Not biologically relevant. | ACETATE ION
ACT | ✕ - Not biologically relevant. | ACETATE ION
SO3 | ✕ - Not in contact with model. | SULFITE ION

Model-Template Alignment

Oligo-State
  Hetero-1-1-mer
GMQE
  0.89
QMEANDisCo Global:
  0.83 ± 0.05

Ligands
  1 x SAH, 2 x ZN
  1 x S-ADENOSYL-L-HOMOCYSTEINE

  SAH.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 ION

  ZN.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
--- | --- | ---
SAH | ✓ | S-ADENOSYL-L-HOMOCYSTEINE
ZN | ✓ | ZINC ION
ZN | ✓ | ZINC ION
CL | ✕ - Not in contact with model. | CHLORIDE ION
CL | ✕ - Not biologically relevant. | CHLORIDE ION
MG | ✕ - Not in contact with model. | MAGNESIUM ION
NA | ✕ - Not in contact with model. | SODIUM ION
NA | ✕ - Not biologically relevant. | SODIUM ION

Model-Template Alignment

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