Variant
| Genome | Chromosome | Position | VCF ID | Ref | Alt | mRNA Change | mRNA Info | GRCh37 | chr4 | 25125703 | . | C | A | CCDS3432.2:NM_016955.3:c.1356aaG>aaT_NP_058651.3:p.452K>N | Homo sapiens Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase (SEPSECS), mRNA. |
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PDB
| Entity | Residue | Monomer | BioUnit | Ligand | View | ||||||||||||||||||
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| PDB | Entity | Uniprot | Identity | Evalue | ExpMethod | Date | Name | Label | Auth | ASA | rASA | SS | φ | ψ | ASA | rASA | ΔASA | Interaction | Name | Distance | Atom(p) | Atom(l) | |
| 3hl2 | 1 | Q9HD40 | 100.0 | 0.0 |
X-RAY |
2009-10-06 | LYS | A:452 | A:452 | 142.0 | 0.71 | H | -59.2 | -44.2 | 142.0 | 0.71 | 0.0 | ||||||
| LYS | B:452 | B:452 | 150.0 | 0.75 | H | -57.4 | -56.5 | 150.0 | 0.75 | 0.0 |
G G G G G C C U U U C |
5.868 6.885 3.619 3.315 8.327 9.219 8.802 8.302 6.034 4.051 7.342 |
NZ NZ NZ NZ CE CE NZ NZ NZ NZ CE |
OP3 O3' O3' OP1 OP2 OP1 OP1 O3' O3' OP2 OP2 |
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| LYS | C:452 | C:452 | 114.0 | 0.57 | H | -58.1 | -42.3 | NA | NA | NA | |||||||||||||
| LYS | D:452 | D:452 | 152.0 | 0.76 | H | -56.5 | -55.0 | NA | NA | NA | |||||||||||||
| 4zdl | 1 | Q9HD40 | 99.8 | 0.0 |
X-RAY |
2016-04-20 | LYS | A:452 | A:452 | 98.0 | NA | H | -55.2 | -47.4 | 98.0 | NA | NA |
HOH |
3.632 |
N |
O |
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| LYS | B:452 | B:452 | 59.0 | NA | H | -65.7 | -48.8 | 59.0 | NA | NA |
HOH |
4.688 |
N |
O |
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| 4zdo | 1 | Q9HD40 | 99.8 | 0.0 |
X-RAY |
2016-04-20 | LYS | A:452 | A:452 | 90.0 | NA | H | -58.1 | -42.5 | 90.0 | NA | NA |
HOH |
6.974 |
N |
O |
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| LYS | B:452 | B:452 | 102.0 | NA | H | -59.7 | -39.2 | 102.0 | NA | NA |
G G G G G C U U C |
7.178 9.938 6.086 5.931 9.284 9.386 8.128 6.273 9.072 |
CD CD CD CD O O CD CD CG |
OP3 O3' O3' OP1 OP1 OP1 O3' OP1 OP2 |
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| LYS | C:452 | C:452 | 87.0 | NA | H | -59.3 | -41.9 | NA | NA | NA | |||||||||||||
| LYS | D:452 | D:452 | 87.0 | 0.435 | H | -63.4 | -38.2 | NA | NA | NA | |||||||||||||
| 4zdp | 1 | Q9HD40 | 99.8 | 0.0 |
X-RAY |
2016-04-20 | LYS | A:452 | A:452 | 90.0 | NA | H | -60.9 | -39.5 | 90.0 | NA | NA |
HOH |
7.183 |
N |
O |
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| LYS | B:452 | B:452 | 97.0 | NA | H | -51.6 | -60.3 | 97.0 | NA | NA |
G G G G G C U U C HOH |
7.169 9.399 6.159 6.027 9.979 9.233 8.338 6.424 9.107 3.739 |
CD CD CD CD O O CD CD CG N |
OP3 O3' O3' OP1 OP1 OP1 O3' OP1 OP2 O |
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| LYS | C:452 | C:452 | 72.0 | NA | H | -66.8 | -43.3 | NA | NA | NA | |||||||||||||
| LYS | D:452 | D:452 | 103.0 | NA | H | -54.5 | -41.1 | NA | NA | NA | |||||||||||||
| 3bc8 | 1 | Q6P6M7 | 90.2 | 0.0 |
X-RAY |
2007-12-18 | LYS | A:434 | A:452 | 117.0 | 0.585 | H | -60.2 | -47.5 | 117.0 | 0.585 | 0.0 |
HOH |
2.888 |
O |
O |
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| 3bca | 1 | Q6P6M7 | 90.2 | 0.0 |
X-RAY |
2007-12-18 | LYS | A:434 | A:452 | 109.0 | 0.545 | H | -57.1 | -51.0 | 109.0 | 0.545 | 0.0 |
IOD IOD IOD IOD IOD IOD HOH |
4.701 4.006 6.525 9.241 9.341 5.073 4.060 |
CB CD NZ CB NZ CG N |
I I I I I I O |
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| 3bcb | 1 | Q6P6M7 | 90.2 | 0.0 |
X-RAY |
2007-12-18 | LYS | A:434 | A:452 | 87.0 | 0.435 | H | -57.8 | -48.3 | 87.0 | 0.435 | 0.0 |
HOH |
2.583 |
NZ |
O |
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AlphaFold DB
| Entity | Residue | Monomer | View | ||||||||||
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| ID | Entity | Uniprot | Identity | Evalue | Name | Label | Auth | ASA | rASA | SS | φ | ψ | |
| af-q9hd40-f1 | 1 | Q9HD40 | 100.0 | 0.0 | LYS | A:452 | A:452 | 130.0 | 0.65 | H | -60.1 | -41.2 | |