Spike glycoprotein / ACE2_HUMAN hetero-oligomeric complex | P0DTC2, Q9BYF1
Created: Jan. 13, 2021 at 08:06
| Oligo-State | Ligands | GMQE | QMEAN | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Hetero-3-1-mer | 0.68 | -1.95 | |||||||||||||||||
7 x 2-acetamido-2-deoxy-beta-D-glucopyranose
1 x ZINC ION
| |||||||||||||||||||
| Global Quality Estimate | Local Quality Estimate | Comparison |
|---|---|---|
| Template | Seq Identity | Coverage | Description | |
|---|---|---|---|---|
| 7a94.1 | 99.89% | SARS-CoV-2 Spike Glycoprotein with 1 ACE2 Bound |
| Biounit Oligo State | Hetero-tetramer |
| QSQE | 0.60 |
| Method | EM |
| Overall Seq Identity | 99.89% |
| Overall Seq Similarity | 0.62 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| Angiotensin-converting enzyme 2 | 100.00% | 0.63 | D: 19-613 | 0.74 |
| Spike glycoprotein | 99.83% | 0.62 | ABC: 14-1146 | 0.95 |
| Ligand | Added to Model | Description |
|---|---|---|
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✓ | ZINC ION | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… |
Model-Template Alignment
| Oligo-State | Ligands | GMQE | QMEAN |
|---|---|---|---|
| Hetero-3-1-mer | None | 0.63 | -3.98 |
| Global Quality Estimate | Local Quality Estimate | Comparison |
|---|---|---|
| Template | Seq Identity | Coverage | Description | |
|---|---|---|---|---|
| 6acg.1 | 84.55% | Trypsin-cleaved and low pH-treated SARS-CoV spike glycoprotein and ACE2 complex, ACE2-bound conformation 1 |
| Biounit Oligo State | Hetero-tetramer |
| QSQE | 0.55 |
| Method | EM |
| Overall Seq Identity | 84.55% |
| Overall Seq Similarity | 0.57 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| Angiotensin-converting enzyme 2 | 100.00% | 0.63 | D: 19-615 | 0.74 |
| Spike glycoprotein | 76.79% | 0.55 | ABC: 14-1137 | 0.93 |
Model-Template Alignment
| Oligo-State | Ligands | GMQE | QMEAN | ||||
|---|---|---|---|---|---|---|---|
| Hetero-1-1-mer | 0.36 | -0.45 | |||||
1 x 2-acetamido-2-deoxy-beta-D-glucopyranose
1 x ZINC ION
| |||||||
| Global Quality Estimate | Local Quality Estimate | Comparison |
|---|---|---|
| Template | Seq Identity | Coverage | Description | |
|---|---|---|---|---|
| 6lzg.1 | 100.00% | Structure of novel coronavirus spike receptor-binding domain complexed with its receptor ACE2 |
| Biounit Oligo State | Hetero-dimer |
| QSQE | 0.46 |
| Method | X-ray, 2.50 Å |
| Overall Seq Identity | 100.00% |
| Overall Seq Similarity | 0.63 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| Angiotensin-converting enzyme 2 | 100.00% | 0.63 | A: 20-613 | 0.74 |
| Spike glycoprotein | 100.00% | 0.63 | B: 333-527 | 0.16 |
Model-Template Alignment
| Oligo-State | Ligands | GMQE | QMEAN | ||
|---|---|---|---|---|---|
| Hetero-1-1-mer | 0.35 | -0.69 | |||
1 x 1,2-ETHANEDIOL
| |||||
| Global Quality Estimate | Local Quality Estimate | Comparison |
|---|---|---|
| Template | Seq Identity | Coverage | Description | |
|---|---|---|---|---|
| 6vw1.2 | 96.19% | Structure of SARS-CoV-2 chimeric receptor-binding domain complexed with its receptor human ACE2 |
| Biounit Oligo State | Hetero-dimer |
| QSQE | 0.51 |
| Method | X-ray, 2.68 Å |
| Overall Seq Identity | 96.19% |
| Overall Seq Similarity | 0.62 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| Angiotensin-converting enzyme 2 | 100.00% | 0.63 | A: 19-614 | 0.74 |
| SARS-CoV-2 chimeric RBD | 85.71% | 0.58 | B: 331-527 | 0.17 |
| Ligand | Added to Model | Description |
|---|---|---|
| ✓ | 1,2-ETHANEDIOL | |
| ✕ - Not biologically relevant. | CHLORIDE ION | |
| ✕ - Not biologically relevant. | 1,2-ETHANEDIOL | |
| ✕ - Not biologically relevant. | 1,2-ETHANEDIOL | |
| ✕ - Not biologically relevant. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not biologically relevant. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not biologically relevant. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not biologically relevant. | ZINC ION |
Model-Template Alignment
| Oligo-State | Ligands | GMQE | QMEAN | ||
|---|---|---|---|---|---|
| Hetero-1-1-mer | 0.29 | -0.23 | |||
1 x ZINC ION
| |||||
| Global Quality Estimate | Local Quality Estimate | Comparison |
|---|---|---|
| Template | Seq Identity | Coverage | Description | |
|---|---|---|---|---|
| 6m0j.1 | 100.00% | Angiotensin-converting enzyme 2, Spike receptor binding domain |
| Biounit Oligo State | Hetero-dimer |
| QSQE | - |
| Method | X-ray, 2.45 Å |
| Overall Seq Identity | 100.00% |
| Overall Seq Similarity | 0.63 |
| Target | Seq Identity | Seq Similarity | Range | Coverage |
|---|---|---|---|---|
| Angiotensin-converting enzyme 2 | 100.00% | 0.63 | A: 19-615 | 0.74 |
| Spike receptor binding domain | 100.00% | 0.63 | B: 333-526 | 0.18 |
| Ligand | Added to Model | Description |
|---|---|---|
| ✓ | ZINC ION | |
| ✕ - Not biologically relevant. | CHLORIDE ION | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Not in contact with model. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… | |
| ✕ - Clashing with protein. | 2-acetamido-2-deoxy-beta-D-gl… |
Model-Template Alignment
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