Variant
| Genome | Chromosome | Position | VCF ID | Ref | Alt | mRNA Change | mRNA Info | GRCh37 | chr3 | 19992500 | . | T | A | CCDS2633.1:NM_004162.4:c.110gTg>gAg_NP_004153.2:p.37V>E | 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 | VAL | B:24 | B:37 | 25.0 | 0.161 | H | -73.0 | -41.2 | 25.0 | 0.161 | 0.0 | ||||||
| VAL | F:24 | F:37 | 8.0 | 0.052 | H | -84.9 | -11.1 | 8.0 | 0.052 | 0.0 | |||||||||||||
| 1tu3 | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2004-10-05 | VAL | A:24 | A:37 | 4.0 | 0.026 | H | -75.8 | -31.8 | 4.0 | 0.026 | 0.0 |
MG GNP HOH |
8.017 7.010 5.464 |
CG2 N CB |
MG O1A O |
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| VAL | B:24 | B:37 | 5.0 | 0.032 | H | -76.5 | -38.8 | 5.0 | 0.032 | 0.0 |
MG GNP HOH |
7.957 6.890 4.993 |
CG2 N CB |
MG O1A O |
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| VAL | C:24 | C:37 | 2.0 | 0.013 | H | -73.3 | -34.3 | NA | NA | NA | |||||||||||||
| VAL | D:24 | D:37 | 3.0 | 0.019 | H | -80.6 | -45.9 | NA | NA | NA | |||||||||||||
| VAL | E:24 | E:37 | 5.0 | 0.032 | H | -65.9 | -52.8 | NA | NA | NA | |||||||||||||
| 1tu4 | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2004-10-05 | VAL | A:24 | A:37 | 5.0 | 0.032 | H | -56.9 | -52.4 | 5.0 | 0.032 | 0.0 |
CO GDP HOH |
7.508 7.022 3.859 |
CG2 N CG1 |
CO O2A O |
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| VAL | B:24 | B:37 | 3.0 | 0.019 | H | -78.1 | -30.7 | NA | NA | NA | |||||||||||||
| VAL | C:24 | C:37 | 4.0 | 0.026 | H | -55.1 | -47.7 | NA | NA | NA | |||||||||||||
| VAL | D:24 | D:37 | 0.0 | 0.0 | H | -75.6 | -43.4 | NA | NA | NA | |||||||||||||
| 1n6h | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 0.0 | 0.0 | H | -67.5 | -42.1 | 0.0 | 0.0 | 0.0 |
GNP HOH |
7.030 7.193 |
N O |
O1A O |
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| 1r2q | 1 | P20339 | 100.0 | 3e-126 |
X-RAY |
2003-12-23 | VAL | A:23 | A:37 | 1.0 | 0.006 | H | -63.0 | -44.0 | 1.0 | 0.006 | 0.0 |
GNP HOH |
7.004 5.954 |
N N |
O1A O |
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| 1n6p | 1 | P20339 | 99.41 | 2e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 0.0 | 0.0 | H | -66.7 | -40.1 | 0.0 | 0.0 | 0.0 |
GNP HOH |
7.035 6.920 |
N O |
O1A O |
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| 1n6o | 1 | P20339 | 99.41 | 2e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 0.0 | 0.0 | H | -61.0 | -46.4 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
7.957 7.064 5.687 |
CG2 N CB |
MG O1A O |
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| 1n6r | 1 | P20339 | 99.41 | 2e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 1.0 | 0.006 | H | -65.9 | -45.3 | 1.0 | 0.006 | 0.0 |
MG GNP HOH |
8.022 6.980 5.696 |
CG2 N CB |
MG O1A O |
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| 1n6n | 1 | P20339 | 99.41 | 3e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 0.0 | 0.0 | H | -65.3 | -44.6 | 0.0 | 0.0 | 0.0 |
MG GNP HOH |
7.851 6.980 5.756 |
CG2 N CB |
MG O1A O |
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| 1n6i | 1 | P20339 | 99.41 | 4e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 0.0 | 0.0 | H | -65.4 | -44.2 | 0.0 | 0.0 | 0.0 |
MG GDP HOH |
7.360 6.992 4.501 |
CG2 N CB |
MG O1A O |
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| 1n6k | 1 | P20339 | 99.41 | 4e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 1.0 | 0.006 | H | -66.1 | -43.7 | 1.0 | 0.006 | 0.0 |
MG GDP AF3 HOH |
7.997 6.958 9.800 4.314 |
CG2 N CG2 CB |
MG O2A F2 O |
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| 1n6l | 1 | P20339 | 99.41 | 4e-125 |
X-RAY |
2002-11-27 | VAL | A:23 | A:37 | 1.0 | 0.006 | H | -65.2 | -47.5 | 1.0 | 0.006 | 0.0 |
MG GTP HOH |
8.004 6.981 4.288 |
CG2 N CB |
MG O1A O |
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| 3mjh | 1 | P20339 | 99.4 | 2e-123 |
X-RAY |
2010-05-05 | VAL | A:22 | A:37 | 1.0 | 0.006 | H | -72.4 | -35.8 | 1.0 | 0.006 | 0.0 |
GTP MG HOH |
7.035 7.255 3.737 |
N CG1 CG1 |
O1A MG O |
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| VAL | C:22 | C:37 | 1.0 | 0.006 | H | -68.1 | -46.8 | NA | NA | NA | |||||||||||||
| 7bl1 | 6 | P20339 | 98.21 | 2e-121 |
EM |
2021-03-03 | VAL | F:22 | DDD:37 | 1.0 | 0.006 | H | -71.5 | -36.9 | 1.0 | 0.006 | 0.0 |
GTP MG |
7.086 7.330 |
N CG1 |
O1A MG |
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| 2hei | 1 | P61020 | 88.14 | 2e-119 |
X-RAY |
2006-07-04 | VAL | A:25 | A:37 | 0.0 | 0.0 | H | -63.4 | -46.6 | 0.0 | 0.0 | 0.0 |
GDP HOH |
6.999 5.846 |
N C |
O1A O |
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| VAL | B:25 | B:37 | 0.0 | 0.0 | H | -61.2 | -48.4 | 0.0 | 0.0 | 0.0 |
GDP HOH |
7.014 5.825 |
N C |
O1A O |
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| 4kyi | 2 | P51148 | 93.41 | 1e-116 |
X-RAY |
2014-08-13 | VAL | B:26 | B:38 | 8.0 | 0.052 | H | -66.0 | -39.7 | 8.0 | 0.052 | 0.0 |
GNP EDO MG |
7.011 3.895 7.718 |
N CB CG2 |
O1A C1 MG |
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| VAL | D:26 | D:38 | 5.0 | 0.032 | H | -61.6 | -29.5 | NA | NA | NA | |||||||||||||
| VAL | F:26 | F:38 | 2.0 | 0.013 | H | -56.4 | -45.4 | NA | NA | NA | |||||||||||||
| VAL | H:26 | H:38 | 3.0 | 0.019 | H | -61.4 | -46.9 | NA | NA | NA | |||||||||||||
| 1huq | 1 | P35278 | 94.51 | 4e-116 |
X-RAY |
2001-02-07 | VAL | A:20 | A:38 | 1.0 | 0.006 | H | -65.0 | -47.2 | 1.0 | 0.006 | 0.0 |
MG GNP HOH |
7.673 7.022 5.473 |
CG2 N CB |
MG O1A O |
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| 1z0d | 1 | P35278 | 93.94 | 7e-116 |
X-RAY |
2005-07-26 | VAL | A:22 | A:38 | 2.0 | 0.013 | H | -58.3 | -49.7 | 2.0 | 0.013 | 0.0 |
MG GDP HOH |
8.071 6.993 4.419 |
CG2 N CG1 |
MG O1A O |
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| VAL | B:22 | C:38 | 1.0 | 0.006 | H | -64.9 | -48.0 | NA | NA | NA | |||||||||||||
| 1z07 | 1 | P35278 | 93.9 | 8e-115 |
X-RAY |
2005-07-26 | VAL | A:22 | A:38 | 1.0 | 0.006 | H | -61.4 | -43.0 | 1.0 | 0.006 | 0.0 |
MG GNP HOH |
7.977 7.187 5.972 |
CG2 N CB |
MG O1A 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 | VAL | A:37 | A:37 | 2.0 | 0.013 | H | -64.7 | -43.9 | |
| af-p51148-f1 | 1 | P51148 | 87.04 | 2e-140 | VAL | A:38 | A:38 | 2.0 | 0.013 | H | -64.9 | -44.6 | |
| af-p61020-f1 | 1 | P61020 | 81.86 | 1e-135 | VAL | A:37 | A:37 | 2.0 | 0.013 | H | -64.8 | -44.8 | |