Variant
Genome | Chromosome | Position | VCF ID | Ref | Alt | mRNA Change | mRNA Info | GRCh37 | chr1 | 228285047 | . | C | A | CCDS1565.1:NM_001024226.1:c.153ttC>ttA_NP_001019397.1:p.51F>L | Homo sapiens ADP ribosylation factor 1 (ARF1), 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) | |
1r8q | 1 | P84080 | 100.0 | 9e-135 |
X-RAY |
2004-01-20 | PHE | A:51 | A:51 | 182.0 | 0.867 | S | -72.8 | 145.7 | 30.0 | 0.143 | 0.724 |
B:Q99418:0.724 |
AFB HOH |
3.816 2.715 |
CD2 O |
C10 O |
|
PHE | C:51 | B:51 | 187.0 | 0.89 | S | -74.2 | 146.2 | NA | NA | NA | |||||||||||||
1rrf | 1 | P84079 | 100.0 | 9e-135 |
X-RAY |
1996-06-20 | PHE | A:51 | A:51 | 35.0 | 0.167 | E | -93.6 | 87.1 | 35.0 | 0.167 | 0.0 | ||||||
1rrg | 1 | P84079 | 100.0 | 9e-135 |
X-RAY |
1996-06-20 | PHE | A:51 | A:51 | 12.0 | 0.057 | E | -128.9 | 93.2 | 12.0 | 0.057 | 0.0 |
GDP HOH |
5.830 4.465 |
N N |
O3' O |
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PHE | B:51 | B:51 | 12.0 | 0.057 | E | -102.9 | 95.4 | 12.0 | 0.057 | 0.0 |
GDP HOH |
5.555 3.942 |
N N |
O2' O |
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1hur | 1 | P84077 | 100.0 | 9e-134 |
X-RAY |
1995-07-10 | PHE | A:50 | A:51 | 5.0 | 0.024 | -123.7 | 87.1 | 5.0 | 0.024 | 0.0 |
GDP HOH |
5.914 4.745 |
N N |
O2' O |
|||
PHE | B:50 | B:51 | 23.0 | 0.11 | E | -115.5 | 89.9 | 23.0 | 0.11 | 0.0 |
GDP HOH |
5.632 3.029 |
N CD1 |
O2' O |
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3o47 | 1 | Q8N6T3,P84077 | 99.42 | 7e-125 |
X-RAY |
2010-08-11 | PHE | A:199 | A:181 | 17.0 | 0.081 | E | -83.3 | 100.3 | 17.0 | 0.081 | 0.0 | ||||||
PHE | B:199 | B:181 | 24.0 | 0.114 | E | -86.4 | 110.3 | NA | NA | NA | |||||||||||||
7dn8 | 2 | P84077 | 98.21 | 4e-122 |
X-RAY |
2021-12-15 | PHE | B:39 | D:51 | 102.0 | 0.486 | E | -165.5 | 165.3 | 8.0 | 0.038 | 0.448 |
A:Q8ZPY9:0.448 |
MG GDP HOH |
7.521 9.212 4.884 |
CA CA O |
MG O2B O |
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PHE | D:39 | B:51 | 103.0 | 0.49 | E | -164.8 | 164.3 | NA | NA | NA | |||||||||||||
PHE | F:39 | F:51 | 103.0 | 0.49 | E | -164.8 | 164.7 | NA | NA | NA | |||||||||||||
PHE | H:39 | H:51 | 97.0 | 0.462 | E | -165.0 | 164.8 | NA | NA | NA | |||||||||||||
6cm9 | 3 | P84077 | 96.53 | 6e-122 |
EM |
2018-08-08 | PHE | D:63 | C:51 | 123.0 | 0.586 | E | -152.8 | -180.0 | 7.0 | 0.033 | 0.553 |
C:Q10567:0.552 |
GTP MG |
8.376 7.355 |
CA C |
O1G MG |
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PHE | F:63 | H:51 | 93.0 | 0.443 | E | -139.7 | 170.8 | 1.0 | 0.005 | 0.438 |
E:P22892:0.438 |
GTP MG |
8.176 7.971 |
CA C |
O2G MG |
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6d83 | 3 | P84077 | 96.53 | 6e-122 |
EM |
2018-08-08 | PHE | D:63 | C:51 | 126.0 | 0.6 | E | -134.3 | 172.7 | 4.0 | 0.019 | 0.581 |
C:Q10567:0.581 |
GTP MG |
8.071 7.572 |
CA C |
O1G MG |
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PHE | F:63 | H:51 | 94.0 | 0.448 | E | -143.4 | 178.3 | 2.0 | 0.01 | 0.438 |
E:P22892:0.438 |
GTP MG |
7.728 8.180 |
CA C |
O1G MG |
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6d84 | 3 | P84077 | 96.53 | 6e-122 |
EM |
2018-08-08 | PHE | D:63 | C:51 | 127.0 | 0.605 | E | -133.0 | -179.0 | 2.0 | 0.01 | 0.595 |
C:Q10567:0.595 |
GTP MG |
7.872 7.508 |
CA C |
O1G MG |
|
PHE | F:63 | H:51 | 101.0 | 0.481 | E | -146.2 | 177.0 | 0.0 | 0.0 | 0.481 |
E:P22892:0.481 |
GTP MG |
7.840 8.371 |
CA C |
O1G MG |
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PHE | L:63 | I:51 | 129.0 | 0.614 | E | -136.0 | 179.9 | 3.0 | 0.014 | 0.6 |
K:Q10567:0.6 |
GTP MG |
7.884 7.388 |
CA C |
O3G MG |
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PHE | N:63 | N:51 | 103.0 | 0.49 | E | -143.4 | 175.3 | 1.0 | 0.005 | 0.485 |
M:P22892:0.486 |
GTP MG |
7.735 8.207 |
CA C |
O3G MG |
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6dff | 3 | P84077 | 96.53 | 6e-122 |
EM |
2018-08-08 | PHE | D:63 | C:51 | 115.0 | 0.548 | E | -156.7 | 163.3 | 6.0 | 0.029 | 0.519 |
C:Q10567:0.519 |
GTP MG |
7.669 7.402 |
CA CA |
O3G MG |
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PHE | F:63 | H:51 | 94.0 | 0.448 | E | -139.4 | 173.1 | 0.0 | 0.0 | 0.448 |
E:P22892:0.448 |
GTP MG |
8.073 8.038 |
CA C |
O2G MG |
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7mge | 4 | P84077 | 100.0 | 1e-121 |
EM |
2021-06-23 | PHE | D:37 | E:51 | 109.0 | 0.519 | 179.4 | 168.3 | 38.0 | 0.181 | 0.338 |
B:Q8TEV9:0.019 C:Q96LT7:0.333 |
BEF |
6.727 |
CA |
F1 |
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1r8s | 1 | P84080 | 100.0 | 2e-121 |
X-RAY |
2004-01-20 | PHE | A:34 | A:51 | 131.0 | 0.624 | -71.9 | 155.2 | 3.0 | 0.014 | 0.61 |
B:Q99418:0.61 |
SO3 HOH |
7.426 2.650 |
C O |
O1 O |
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1re0 | 1 | P32889 | 100.0 | 2e-121 |
X-RAY |
2003-12-16 | PHE | A:34 | A:51 | 191.0 | 0.91 | S | -75.5 | 151.7 | 29.0 | 0.138 | 0.772 |
B:P47102:0.771 |
AFB HOH |
3.737 2.640 |
CD2 O |
C6 O |
|
1s9d | 1 | P84080 | 100.0 | 2e-121 |
X-RAY |
2004-02-10 | PHE | A:34 | A:51 | 186.0 | 0.886 | -72.9 | 149.9 | 34.0 | 0.162 | 0.724 |
B:Q99418:0.724 |
AFB HOH |
3.849 2.654 |
CD2 O |
C10 O |
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1u81 | 1 | P84077 | 100.0 | 2e-121 |
NMR |
2004-10-05 | PHE | A:34 | A:51 | 29.0 | 0.138 | B | -81.2 | 106.4 | 29.0 | 0.138 | 0.0 |
MG |
9.309 |
C |
MG |
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4c0a | 2 | P84080 | 100.0 | 2e-121 |
X-RAY |
2013-09-25 | PHE | C:34 | C:51 | 146.0 | 0.695 | S | -69.7 | 167.4 | NA | NA | NA | ||||||
PHE | D:34 | D:51 | 118.0 | 0.562 | S | -73.9 | -178.9 | NA | NA | NA | |||||||||||||
PHE | G:34 | G:51 | 122.0 | 0.581 | S | -74.2 | 172.1 | 5.0 | 0.024 | 0.557 |
B:Q6DN90:0.557 |
G3D |
9.740 |
CB |
O1B |
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PHE | H:34 | H:51 | 119.0 | 0.567 | S | -72.6 | -177.1 | NA | NA | NA | |||||||||||||
6fae | 2 | P84077 | 98.8 | 4e-121 |
X-RAY |
2018-01-17 | PHE | B:83 | B:51 | 129.0 | 0.614 | S | -91.3 | 146.5 | 1.0 | 0.005 | 0.609 |
A:Q5JU85:0.61 |
HOH |
3.619 |
O |
O |
|
6cri | 3 | P84077 | 99.39 | 5e-121 |
EM |
2018-08-01 | PHE | C:35 | C:51 | 126.0 | 0.6 | E | -150.6 | 177.0 | 7.0 | 0.033 | 0.567 |
B:Q10567:0.567 |
GTP MG |
7.819 7.762 |
CA C |
O3G MG |
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PHE | E:35 | H:51 | 94.0 | 0.448 | E | -130.1 | -177.7 | 1.0 | 0.005 | 0.443 |
D:P22892:0.443 |
GTP MG |
7.460 7.516 |
CA C |
O1G MG |
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PHE | K:35 | K:51 | 124.0 | 0.59 | E | -153.3 | 179.0 | 5.0 | 0.024 | 0.566 |
J:Q10567:0.567 |
GTP MG |
7.773 7.759 |
CA C |
O3G MG |
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PHE | M:35 | U:51 | 93.0 | 0.443 | E | -137.7 | -176.4 | 2.0 | 0.01 | 0.433 |
L:P22892:0.433 |
GTP MG |
7.498 7.532 |
CA C |
O1G MG |
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PHE | S:35 | L:51 | 128.0 | 0.61 | E | -150.9 | -178.9 | 6.0 | 0.029 | 0.581 |
R:Q10567:0.581 |
GTP MG |
7.737 7.722 |
CA C |
O3G MG |
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PHE | U:35 | V:51 | 95.0 | 0.452 | E | -136.8 | 177.0 | 0.0 | 0.0 | 0.452 |
T:P22892:0.452 |
GTP MG |
7.529 7.600 |
CA C |
O1G MG |
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7dn9 | 2 | P84077 | 99.39 | 5e-121 |
X-RAY |
2021-12-15 | PHE | B:35 | B:51 | 95.0 | 0.452 | E | -161.8 | 152.6 | 7.0 | 0.033 | 0.419 |
A:Q8ZPY9:0.419 |
MG GDP |
8.384 9.611 |
CA CA |
MG O3B |
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PHE | D:35 | D:51 | 94.0 | 0.448 | E | -161.2 | 152.4 | NA | NA | NA | |||||||||||||
PHE | F:35 | F:51 | 98.0 | 0.467 | E | -161.1 | 151.8 | NA | NA | NA | |||||||||||||
PHE | H:35 | H:51 | 95.0 | 0.452 | E | -161.5 | 152.4 | NA | NA | NA | |||||||||||||
4hmy | 5 | P84077 | 99.39 | 6e-121 |
X-RAY |
2013-03-06 | PHE | E:42 | C:51 | 64.0 | 0.305 | 20.4 | 99.7 | 4.0 | 0.019 | 0.286 |
B:Q10567:0.286 |
GTP MG |
8.285 8.023 |
N CA |
O3G MG |
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1j2j | 1 | Q8BSL7 | 99.39 | 4e-120 |
X-RAY |
2003-05-06 | PHE | A:36 | A:51 | 97.0 | 0.462 | E | -153.0 | 169.7 | 7.0 | 0.033 | 0.429 |
B:Q9UJY5:0.429 |
MG GTP HOH |
7.294 7.939 2.870 |
C CA O |
MG O2G O |
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1o3y | 1 | P84078 | 99.39 | 4e-120 |
X-RAY |
2003-05-20 | PHE | A:36 | A:51 | 88.0 | 0.419 | E | -154.9 | 160.6 | 88.0 | 0.419 | 0.0 |
MG GTP HOH |
7.429 8.066 2.725 |
CA CA O |
MG O2G O |
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PHE | B:36 | B:51 | 89.0 | 0.424 | E | -145.7 | 160.4 | NA | NA | NA | |||||||||||||
2j59 | 1 | P84078 | 99.39 | 4e-120 |
X-RAY |
2007-02-20 | PHE | A:36 | A:51 | 96.0 | 0.457 | E | -157.6 | 158.7 | 3.0 | 0.014 | 0.443 |
G:Q8NI19:0.443 |
GTP MG HOH |
7.997 7.331 3.147 |
CA CA N |
O3G MG O |
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PHE | B:36 | B:51 | 96.0 | 0.457 | E | -158.3 | 162.1 | NA | NA | NA | |||||||||||||
PHE | C:36 | C:51 | 98.0 | 0.467 | E | -156.7 | 161.1 | NA | NA | NA | |||||||||||||
PHE | D:36 | D:51 | 94.0 | 0.448 | E | -157.7 | 160.0 | NA | NA | NA | |||||||||||||
PHE | E:36 | E:51 | 95.0 | 0.452 | E | -157.4 | 163.0 | NA | NA | NA | |||||||||||||
PHE | F:36 | F:51 | 92.0 | 0.438 | E | -158.5 | 159.7 | NA | NA | NA | |||||||||||||
6ii6 | 2 | P61204 | 98.18 | 1e-119 |
X-RAY |
2019-08-07 | PHE | C:39 | C:51 | 89.0 | 0.424 | E | -150.0 | 159.8 | 8.0 | 0.038 | 0.386 |
A:None:0.386 |
GTP MG HOH |
8.157 7.580 2.771 |
CA C O |
O3G MG O |
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PHE | D:39 | D:51 | 93.0 | 0.443 | E | -156.3 | 155.9 | NA | NA | NA | |||||||||||||
3aq4 | 1 | P36397 | 88.33 | 1e-116 |
X-RAY |
2011-01-26 | PHE | A:54 | A:51 | 29.0 | 0.138 | E | -123.5 | 97.6 | 29.0 | 0.138 | 0.0 |
HOH |
3.513 |
CD1 |
O |
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PHE | B:54 | B:51 | 72.0 | 0.343 | E | -119.3 | 93.7 | NA | NA | NA | |||||||||||||
5uf8 | 1 | Q5AND9 | 85.08 | 1e-114 |
X-RAY |
2017-01-25 | PHE | A:51 | A:51 | 6.0 | 0.029 | E | -141.3 | 96.4 | 6.0 | 0.029 | 0.0 |
HOH |
3.487 |
N |
O |
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PHE | B:51 | B:51 | 6.0 | 0.029 | E | -112.9 | 87.2 | NA | NA | NA | |||||||||||||
PHE | C:51 | C:51 | 5.0 | 0.024 | E | -136.1 | 95.7 | NA | NA | NA | |||||||||||||
PHE | D:51 | D:51 | 2.0 | 0.01 | -105.3 | 96.8 | NA | NA | NA | ||||||||||||||
6pta | 1 | P22274 | 84.18 | 4e-112 |
X-RAY |
2019-07-24 | PHE | A:51 | A:51 | 19.0 | 0.09 | -127.2 | 95.6 | 19.0 | 0.09 | 0.0 |
GDP HOH |
5.324 4.083 |
N C |
O3' O |
|||
PHE | B:51 | B:51 | 21.0 | 0.1 | -121.9 | 100.0 | NA | NA | NA | ||||||||||||||
PHE | C:51 | C:51 | 11.0 | 0.052 | -116.3 | 100.3 | 11.0 | 0.052 | 0.0 |
GDP HOH |
5.839 4.883 |
N C |
O3' O |
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PHE | D:51 | D:51 | 19.0 | 0.09 | E | -121.1 | 100.5 | NA | NA | NA | |||||||||||||
1z6x | 1 | P18085 | 81.92 | 2e-108 |
X-RAY |
2005-04-12 | PHE | A:51 | A:51 | 18.0 | 0.086 | E | -123.9 | 83.7 | 18.0 | 0.086 | 0.0 |
HOH |
4.938 |
C |
O |
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PHE | B:51 | B:51 | 1.0 | 0.005 | E | -139.6 | 87.7 | NA | NA | NA | |||||||||||||
2b6h | 1 | P84085 | 83.14 | 9e-107 |
X-RAY |
2005-10-11 | PHE | A:63 | A:51 | 10.0 | 0.048 | E | -120.1 | 90.7 | 10.0 | 0.048 | 0.0 |
HOH |
3.559 |
CD1 |
O |
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4ylg | 1 | C4LXL1 | 80.12 | 6e-102 |
X-RAY |
2015-05-20 | PHE | A:47 | A:47 | 26.0 | 0.124 | E | -119.9 | 88.7 | 26.0 | 0.124 | 0.0 |
GDP HOH |
5.604 3.581 |
N CA |
O2' O |
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PHE | B:47 | B:47 | 70.0 | 0.333 | E | -106.1 | 96.0 | 70.0 | 0.333 | 0.0 |
GDP HOH |
5.685 4.534 |
N CD1 |
O2' 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-p84077-f1 | 1 | P84077 | 100.0 | 4e-135 | PHE | A:51 | A:51 | 108.0 | 0.514 | E | -131.8 | 145.3 | |
af-p61204-f1 | 1 | P61204 | 96.13 | 2e-130 | PHE | A:51 | A:51 | 115.0 | 0.548 | E | -144.3 | 147.2 | |
af-p18085-f1 | 1 | P18085 | 81.92 | 1e-108 | PHE | A:51 | A:51 | 107.0 | 0.51 | E | -146.4 | 149.8 | |
af-p84085-f1 | 1 | P84085 | 81.92 | 1e-108 | PHE | A:51 | A:51 | 114.0 | 0.543 | E | -144.2 | 144.3 |