Variant
| Genome | Chromosome | Position | VCF ID | Ref | Alt | mRNA Change | mRNA Info | GRCh37 | chr3 | 19992466 | . | C | A | CCDS2633.1:NM_004162.4:c.76Ctg>Atg_NP_004153.2:p.26L>M | Homo sapiens RAB5A, member RAS oncogene family (RAB5A), 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) | |
| 4q9u | 2 | P20339 | 99.42 | 2e-126 |
X-RAY |
2014-07-23 | LEU | B:13 | B:26 | 29.0 | 0.171 | E | -116.5 | 151.4 | 29.0 | 0.171 | 0.0 | ||||||
| LEU | F:13 | NA:NA | DO | NA | DO | DO | DO | NA | NA | NA | |||||||||||||
| 1tu3 | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2004-10-05 | LEU | A:13 | A:26 | 0.0 | 0.0 | E | -137.3 | 148.6 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.327 7.285 3.579 |
C C CA |
MG O1B O |
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| LEU | B:13 | B:26 | 0.0 | 0.0 | E | -129.8 | 151.9 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.365 7.417 3.511 |
C C CA |
MG O3G O |
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| LEU | C:13 | C:26 | 0.0 | 0.0 | E | -136.4 | 151.5 | NA | NA | NA | |||||||||||||
| LEU | D:13 | D:26 | 0.0 | 0.0 | E | -134.3 | 155.8 | NA | NA | NA | |||||||||||||
| LEU | E:13 | E:26 | 0.0 | 0.0 | E | -130.6 | 146.9 | NA | NA | NA | |||||||||||||
| 1tu4 | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2004-10-05 | LEU | A:13 | A:26 | 0.0 | 0.0 | E | -139.7 | 154.3 | 0.0 | 0.0 | 0.0 |
CO GDP HOH |
8.979 6.863 3.613 |
N O CA |
CO O2B O |
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| LEU | B:13 | B:26 | 0.0 | 0.0 | E | -126.4 | 155.4 | NA | NA | NA | |||||||||||||
| LEU | C:13 | C:26 | 1.0 | 0.006 | E | -133.2 | 166.4 | NA | NA | NA | |||||||||||||
| LEU | D:13 | D:26 | 0.0 | 0.0 | E | -118.2 | 141.0 | NA | NA | NA | |||||||||||||
| 1n6h | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -132.0 | 152.3 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.422 7.265 3.381 |
C C CA |
MG O1B O |
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| 1r2q | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2003-12-23 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -132.9 | 149.8 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.449 7.291 3.366 |
C C CA |
MG O1B O |
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| 1n6p | 1 | P20339 | 99.41 | 2e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -133.0 | 152.4 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.364 7.275 3.422 |
C C CA |
MG O1B O |
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| 1n6o | 1 | P20339 | 99.41 | 2e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -132.5 | 151.8 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.367 7.312 3.429 |
C C CA |
MG O1B O |
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| 1n6r | 1 | P20339 | 99.41 | 2e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -133.0 | 151.5 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.415 7.297 3.381 |
C C CA |
MG O1B O |
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| 1n6n | 1 | P20339 | 99.41 | 3e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -133.7 | 152.3 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.410 7.278 3.415 |
C C CA |
MG O1B O |
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| 1n6i | 1 | P20339 | 99.41 | 4e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -131.9 | 153.8 | 0.0 | 0.0 | 0.0 |
MG GDP HOH |
9.501 7.655 3.459 |
C C CA |
MG O2B O |
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| 1n6k | 1 | P20339 | 99.41 | 4e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -133.4 | 152.7 | 0.0 | 0.0 | 0.0 |
MG GDP AF3 HOH |
9.426 7.349 7.420 3.375 |
C C C CA |
MG O1B F1 O |
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| 1n6l | 1 | P20339 | 99.41 | 4e-125 |
X-RAY |
2002-11-27 | LEU | A:12 | A:26 | 0.0 | 0.0 | E | -133.6 | 153.7 | 0.0 | 0.0 | 0.0 |
MG GTP HOH |
9.416 7.305 3.392 |
C C CA |
MG O1B O |
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| 3mjh | 1 | P20339 | 99.4 | 2e-123 |
X-RAY |
2010-05-05 | LEU | A:11 | A:26 | 0.0 | 0.0 | E | -133.3 | 148.2 | 0.0 | 0.0 | 0.0 |
GTP MG HOH |
7.173 9.307 3.469 |
C N CA |
O1B MG O |
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| LEU | C:11 | C:26 | 0.0 | 0.0 | E | -131.1 | 147.1 | NA | NA | NA | |||||||||||||
| 7bl1 | 6 | P20339 | 98.21 | 2e-121 |
EM |
2021-03-03 | LEU | F:11 | DDD:26 | 0.0 | 0.0 | E | -132.6 | 149.1 | 0.0 | 0.0 | 0.0 |
GTP MG |
7.186 9.364 |
C C |
O1B MG |
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| 2hei | 1 | P61020 | 88.14 | 2e-119 |
X-RAY |
2006-07-04 | LEU | A:14 | A:26 | 5.0 | 0.029 | E | -122.9 | 161.7 | 5.0 | 0.029 | 0.0 |
GDP D1D HOH |
6.853 4.229 3.475 |
O CD2 CA |
O2B C3 O |
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| LEU | B:14 | B:26 | 6.0 | 0.035 | E | -123.4 | 158.3 | 6.0 | 0.035 | 0.0 |
GDP HOH |
6.943 5.435 |
O O |
O2B O |
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| 4kyi | 2 | P51148 | 93.41 | 1e-116 |
X-RAY |
2014-08-13 | LEU | B:15 | B:27 | 3.0 | 0.018 | E | -114.3 | 170.6 | 3.0 | 0.018 | 0.0 |
GNP MG |
7.009 8.839 |
O C |
O1B MG |
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| LEU | D:15 | D:27 | 5.0 | 0.029 | E | -115.8 | 158.9 | NA | NA | NA | |||||||||||||
| LEU | F:15 | F:27 | 2.0 | 0.012 | E | -130.3 | 153.8 | NA | NA | NA | |||||||||||||
| LEU | H:15 | H:27 | 1.0 | 0.006 | E | -127.1 | 148.8 | NA | NA | NA | |||||||||||||
| 1huq | 1 | P35278 | 94.51 | 4e-116 |
X-RAY |
2001-02-07 | LEU | A:9 | A:27 | 0.0 | 0.0 | E | -132.6 | 149.7 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.426 7.307 3.423 |
C C CA |
MG O1B O |
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| 1z0d | 1 | P35278 | 93.94 | 7e-116 |
X-RAY |
2005-07-26 | LEU | A:11 | A:27 | 2.0 | 0.012 | E | -129.9 | 154.7 | 2.0 | 0.012 | 0.0 |
PO4 MG GDP HOH |
7.019 9.557 7.078 3.388 |
C N C CA |
O3 MG O1B O |
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| LEU | B:11 | C:27 | 2.0 | 0.012 | E | -129.5 | 160.6 | NA | NA | NA | |||||||||||||
| 1z07 | 1 | P35278 | 93.9 | 8e-115 |
X-RAY |
2005-07-26 | LEU | A:11 | A:27 | 0.0 | 0.0 | E | -134.6 | 149.2 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
9.520 7.438 3.483 |
C C CA |
MG O1B O |
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AlphaFold DB
| Entity | Residue | Monomer | View | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ID | Entity | Uniprot | Identity | Evalue | Name | Label | Auth | ASA | rASA | SS | φ | ψ | |
| af-p20339-f1 | 1 | P20339 | 100.0 | 3e-164 | LEU | A:26 | A:26 | 0.0 | 0.0 | E | -125.3 | 161.7 | |
| af-p51148-f1 | 1 | P51148 | 87.04 | 2e-140 | LEU | A:27 | A:27 | 0.0 | 0.0 | E | -125.0 | 159.6 | |
| af-p61020-f1 | 1 | P61020 | 81.86 | 1e-135 | LEU | A:26 | A:26 | 0.0 | 0.0 | E | -126.7 | 161.4 | |