Variant
Genome | Chromosome | Position | VCF ID | Ref | Alt | mRNA Change | mRNA Info | GRCh37 | chr1 | 202571048 | . | C | A | CCDS1427.1:NM_001136504.1:c.771tgG>tgT_NP_001129976.1:p.257W>C | Homo sapiens synaptotagmin 2 (SYT2), transcript variant 1, 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) | |
5w5c | 6 | P21707 | 86.52 | 1e-174 |
X-RAY |
2017-08-23 | TRP | F:120 | F:259 | 168.0 | 0.659 | E | -99.7 | 122.5 | 168.0 | 0.659 | 0.0 | ||||||
2r83 | 1 | P21579 | 86.17 | 5e-174 |
X-RAY |
2008-02-12 | TRP | A:122 | A:259 | 89.0 | 0.349 | E | -108.8 | 145.6 | 89.0 | 0.349 | 0.0 |
CL HOH |
4.698 4.187 |
O CD1 |
CL O |
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TRP | B:122 | B:259 | 91.0 | 0.357 | E | -108.1 | 146.1 | 91.0 | 0.357 | 0.0 |
HOH |
4.177 |
CD1 |
O |
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5ccg | 5 | P21707 | 86.79 | 6e-174 |
X-RAY |
2015-08-12 | TRP | E:119 | E:259 | 109.0 | 0.427 | E | -93.8 | 128.9 | 109.0 | 0.427 | 0.0 | ||||||
TRP | F:119 | F:259 | 92.0 | 0.361 | E | -93.5 | 128.9 | 92.0 | 0.361 | 0.0 |
HOH |
7.110 |
NE1 |
O |
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TRP | K:119 | K:259 | 102.0 | 0.4 | E | -95.0 | 128.4 | NA | NA | NA | |||||||||||||
5cch | 5 | P21707 | 86.79 | 6e-174 |
X-RAY |
2015-08-12 | TRP | E:119 | E:259 | 87.0 | 0.341 | E | -93.6 | 130.0 | 87.0 | 0.341 | 0.0 | ||||||
TRP | F:119 | F:259 | 94.0 | 0.369 | E | -95.8 | 129.6 | 94.0 | 0.369 | 0.0 | |||||||||||||
5cci | 5 | P21707 | 86.79 | 6e-174 |
X-RAY |
2015-08-12 | TRP | E:119 | E:259 | 93.0 | 0.365 | E | -98.5 | 129.7 | 93.0 | 0.365 | 0.0 | ||||||
TRP | F:119 | F:259 | 108.0 | 0.424 | E | -100.5 | 129.8 | 108.0 | 0.424 | 0.0 | |||||||||||||
6mti | 2 | P21707 | 86.79 | 6e-174 |
EM |
2019-04-24 | TRP | B:119 | 2:259 | 94.0 | 0.369 | E | -98.5 | 129.8 | 94.0 | 0.369 | 0.0 | ||||||
TRP | C:119 | 3:259 | 91.0 | 0.357 | E | -98.5 | 129.8 | 62.0 | 0.243 | 0.114 |
R:P60881:0.02 Q:P60881:0.094 |
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TRP | D:119 | 4:259 | 93.0 | 0.365 | E | -98.4 | 129.7 | 39.0 | 0.153 | 0.212 |
DA:P60881:0.098 CA:P60881:0.169 |
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TRP | E:119 | 5:259 | 93.0 | 0.365 | E | -98.5 | 129.8 | 93.0 | 0.365 | 0.0 | |||||||||||||
5kj7 | 5 | P21707 | 87.36 | 6e-174 |
X-RAY |
2016-10-19 | TRP | E:119 | E:259 | 106.0 | 0.416 | E | -95.9 | 131.9 | 106.0 | 0.416 | 0.0 | ||||||
TRP | F:119 | F:259 | 93.0 | 0.365 | E | -87.3 | 136.9 | NA | NA | NA | |||||||||||||
TRP | K:119 | K:259 | 103.0 | 0.404 | E | -96.8 | 132.1 | NA | NA | NA | |||||||||||||
5kj8 | 5 | P21707 | 87.36 | 6e-174 |
X-RAY |
2016-10-19 | TRP | E:119 | E:259 | 108.0 | 0.424 | E | -90.8 | 131.8 | 108.0 | 0.424 | 0.0 | ||||||
TRP | F:119 | F:259 | 106.0 | 0.416 | E | -90.2 | 131.4 | NA | NA | NA | |||||||||||||
TRP | K:119 | K:259 | 106.0 | 0.416 | E | -91.3 | 131.4 | NA | NA | NA | |||||||||||||
2k8m | 1 | Q6AI31 | 85.94 | 9e-77 |
NMR |
2009-03-17 | TRP | A:120 | A:120 | 158.0 | 0.62 | E | -122.9 | 74.6 | 158.0 | 0.62 | 0.0 | ||||||
TRP | D:120 | D:120 | 169.0 | 0.663 | E | -103.1 | 75.8 | 169.0 | 0.663 | 0.0 | |||||||||||||
2ki6 | 1 | P21579 | 85.94 | 9e-77 |
NMR |
2010-03-09 | TRP | A:120 | A:120 | 152.0 | 0.596 | E | -93.2 | 83.3 | 152.0 | 0.596 | 0.0 | ||||||
TRP | F:120 | F:120 | 161.0 | 0.631 | E | -93.5 | 87.1 | 124.0 | 0.486 | 0.145 |
C:Q99584:0.145 |
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6mti | 1 | P21707 | 86.51 | 4e-76 |
EM |
2019-04-24 | TRP | A:119 | 1:259 | 91.0 | 0.357 | E | -98.5 | 129.7 | 68.0 | 0.267 | 0.09 |
I:P60881:0.082 C:P21707:0.008 |
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TRP | F:119 | 6:259 | 94.0 | 0.369 | E | -98.5 | 129.7 | 50.0 | 0.196 | 0.173 |
V:P60881:0.09 U:P60881:0.118 |
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4wee | 1 | P21707 | 85.83 | 4e-76 |
X-RAY |
2014-10-01 | TRP | A:137 | A:259 | 102.0 | 0.4 | E | -93.1 | 132.3 | 102.0 | 0.4 | 0.0 |
NA NA NA HOH |
3.643 9.003 8.883 2.019 |
HH2 HE3 HB3 HE1 |
NA NA NA O |
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5t0r | 1 | P46096 | 85.71 | 2e-75 |
X-RAY |
2017-06-14 | TRP | A:120 | A:259 | 86.0 | 0.337 | E | -99.1 | 142.1 | 86.0 | 0.337 | 0.0 |
HOH |
2.616 |
N |
O |
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5vfe | 1 | P46096 | 85.71 | 2e-75 |
X-RAY |
2018-04-11 | TRP | A:120 | A:259 | 102.0 | 0.4 | E | -88.1 | 138.3 | 102.0 | 0.4 | 0.0 |
HOH |
2.630 |
O |
O |
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TRP | B:120 | B:259 | 84.0 | 0.329 | E | -91.7 | 136.5 | NA | NA | NA | |||||||||||||
1rsy | 1 | P21707 | 86.4 | 2e-75 |
X-RAY |
1995-05-08 | TRP | A:145 | A:259 | 102.0 | 0.4 | E | -103.5 | 126.6 | 102.0 | 0.4 | 0.0 |
HOH |
2.885 |
N |
O |
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3f00 | 1 | P21579 | 85.71 | 3e-75 |
X-RAY |
2009-09-08 | TRP | A:137 | A:259 | 89.0 | 0.349 | E | -93.8 | 133.1 | 89.0 | 0.349 | 0.0 |
HOH |
2.824 |
O |
O |
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3f01 | 1 | P21579 | 85.71 | 3e-75 |
X-RAY |
2009-10-06 | TRP | A:137 | A:259 | 88.0 | 0.345 | E | -95.1 | 134.4 | 88.0 | 0.345 | 0.0 |
HOH |
2.744 |
O |
O |
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3f04 | 1 | P21579 | 85.71 | 3e-75 |
X-RAY |
2009-09-08 | TRP | A:137 | A:259 | 103.0 | 0.404 | E | -94.9 | 131.3 | 103.0 | 0.404 | 0.0 |
HOH |
2.848 |
NE1 |
O |
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3f05 | 1 | P21579 | 85.71 | 3e-75 |
X-RAY |
2009-10-06 | TRP | A:137 | A:259 | 95.0 | 0.373 | E | -93.9 | 134.3 | 95.0 | 0.373 | 0.0 |
HOH |
2.857 |
O |
O |
AlphaFold DB
Entity | Residue | Monomer | View | ||||||||||
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ID | Entity | Uniprot | Identity | Evalue | Name | Label | Auth | ASA | rASA | SS | φ | ψ | |
af-q8n9i0-f1 | 1 | Q8N9I0 | 100.0 | 0.0 | TRP | A:257 | A:257 | 103.0 | 0.404 | E | -98.3 | 136.6 |