Variant
| Genome | Chromosome | Position | VCF ID | Ref | Alt | mRNA Change | mRNA Info | GRCh37 | chr14 | 90442157 | . | C | A | CCDS9888.1:NM_001008744.1:c.789caC>caA_NP_001008744.1:p.263H>Q | Homo sapiens tyrosyl-DNA phosphodiesterase 1 (TDP1), transcript variant 1, mRNA. |
|---|---|---|---|---|---|---|---|
|
|
|
|
|
PDB
| Entity | Residue | Monomer | BioUnit | Ligand | View | ||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 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) | |
| 1qzq | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2004-05-11 | HIS | A:138 | A:263 | 21.0 | 0.108 | -94.6 | -13.7 | 21.0 | 0.108 | 0.0 |
HOH |
2.962 |
CE1 |
O |
|||
| HIS | B:138 | B:263 | 21.0 | 0.108 | -91.2 | -12.1 | 21.0 | 0.108 | 0.0 |
HOH |
2.609 |
NE2 |
O |
||||||||||
| 6dhu | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 45.0 | 0.231 | -96.3 | -19.2 | 45.0 | 0.231 | 0.0 |
GHM EDO HOH |
3.100 9.094 2.894 |
ND1 CB ND1 |
O3 C1 O |
|||
| HIS | B:116 | B:263 | 47.0 | 0.241 | -94.3 | -15.9 | NA | NA | NA | ||||||||||||||
| 6die | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 44.0 | 0.226 | -94.8 | -20.8 | 44.0 | 0.226 | 0.0 |
GHM EDO HOH |
3.124 9.149 3.141 |
ND1 CB CD2 |
O4 C1 O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -92.1 | -20.9 | NA | NA | NA | ||||||||||||||
| 6dih | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 44.0 | 0.226 | -93.8 | -23.5 | 44.0 | 0.226 | 0.0 |
GJS EDO HOH |
2.988 8.973 2.921 |
ND1 CB NE2 |
O03 C2 O |
|||
| HIS | B:116 | B:263 | 43.0 | 0.221 | -92.5 | -21.5 | NA | NA | NA | ||||||||||||||
| 6dim | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 46.0 | 0.236 | -100.9 | -15.5 | 46.0 | 0.236 | 0.0 |
GJP EDO HOH |
3.014 9.246 2.794 |
CD2 CB NE2 |
O1 C2 O |
|||
| HIS | B:116 | B:263 | 49.0 | 0.251 | -96.2 | -17.6 | NA | NA | NA | ||||||||||||||
| 6djd | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 44.0 | 0.226 | -100.0 | -16.8 | 44.0 | 0.226 | 0.0 |
GJP EDO HOH |
2.976 9.200 2.805 |
CD2 CB NE2 |
O1 C1 O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -93.8 | -19.4 | NA | NA | NA | ||||||||||||||
| 6dje | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 44.0 | 0.226 | -101.3 | -14.2 | 44.0 | 0.226 | 0.0 |
EDO GNY HOH |
9.145 3.180 2.731 |
CB CD2 NE2 |
C1 O14 O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -95.7 | -14.5 | NA | NA | NA | ||||||||||||||
| 6djf | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 47.0 | 0.241 | -101.0 | -12.1 | 47.0 | 0.241 | 0.0 |
EDO GNV HOH |
9.165 2.930 2.885 |
CB CD2 NE2 |
C1 O03 O |
|||
| HIS | B:116 | B:263 | 47.0 | 0.241 | -96.5 | -14.5 | NA | NA | NA | ||||||||||||||
| 6djg | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 43.0 | 0.221 | -98.7 | -12.9 | 43.0 | 0.221 | 0.0 |
GNJ HOH |
3.162 2.772 |
CD2 NE2 |
O03 O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -96.9 | -15.7 | NA | NA | NA | ||||||||||||||
| 6djh | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 44.0 | 0.226 | -97.7 | -13.0 | 44.0 | 0.226 | 0.0 |
GNM EDO HOH |
2.963 9.274 2.801 |
CD2 CB NE2 |
O03 C1 O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -97.6 | -14.4 | NA | NA | NA | ||||||||||||||
| 6dji | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 44.0 | 0.226 | -93.4 | -20.6 | 44.0 | 0.226 | 0.0 |
GOG EDO HOH |
2.842 9.078 3.147 |
ND1 CB NE2 |
O03 C1 O |
|||
| HIS | B:116 | B:263 | 46.0 | 0.236 | -91.7 | -18.9 | NA | NA | NA | ||||||||||||||
| 6djj | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-05-29 | HIS | A:116 | A:263 | 47.0 | 0.241 | -89.3 | -30.7 | 47.0 | 0.241 | 0.0 |
HOH |
2.965 |
ND1 |
O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -91.2 | -26.9 | NA | NA | NA | ||||||||||||||
| 6myz | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-11-06 | HIS | A:116 | A:263 | 45.0 | 0.231 | -98.0 | -19.6 | 45.0 | 0.231 | 0.0 |
HOH |
2.747 |
NE2 |
O |
|||
| HIS | B:116 | B:263 | 47.0 | 0.241 | -91.8 | -19.2 | NA | NA | NA | ||||||||||||||
| 6mz0 | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-11-06 | HIS | A:116 | A:263 | 20.0 | 0.103 | -103.4 | -15.1 | 20.0 | 0.103 | 0.0 |
K7A EDO HOH |
2.722 8.752 3.249 |
NE2 ND1 ND1 |
N09 C1 O |
|||
| HIS | B:116 | B:263 | 21.0 | 0.108 | -93.6 | -16.2 | NA | NA | NA | ||||||||||||||
| 6n0d | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-11-13 | HIS | A:116 | A:263 | 24.0 | 0.123 | -99.5 | -23.3 | 24.0 | 0.123 | 0.0 |
K8J EDO HOH |
2.763 8.463 3.091 |
NE2 ND1 ND1 |
O13 C2 O |
|||
| HIS | B:116 | B:263 | 25.0 | 0.128 | -99.7 | -22.4 | NA | NA | NA | ||||||||||||||
| 6n0n | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-11-13 | HIS | A:116 | A:263 | 45.0 | 0.231 | -92.8 | -30.8 | 45.0 | 0.231 | 0.0 |
HOH |
2.919 |
CE1 |
O |
|||
| HIS | B:116 | B:263 | 46.0 | 0.236 | -89.9 | -33.2 | NA | NA | NA | ||||||||||||||
| 6n0o | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-11-13 | HIS | A:116 | A:263 | 23.0 | 0.118 | -99.9 | -18.7 | 23.0 | 0.118 | 0.0 |
EDO K8G HOH |
8.912 2.840 3.559 |
ND1 NE2 ND1 |
C1 O15 O |
|||
| HIS | B:116 | B:263 | 23.0 | 0.118 | -87.4 | -20.5 | NA | NA | NA | ||||||||||||||
| 6n0r | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-11-13 | HIS | A:116 | A:263 | 24.0 | 0.123 | -101.5 | -18.5 | 24.0 | 0.123 | 0.0 |
K8D EDO HOH |
2.755 8.637 3.196 |
NE2 ND1 ND1 |
O13 C1 O |
|||
| HIS | B:116 | B:263 | 24.0 | 0.123 | -100.2 | -20.2 | NA | NA | NA | ||||||||||||||
| 6n17 | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-07-03 | HIS | A:116 | A:263 | 47.0 | 0.241 | -94.9 | -23.2 | 47.0 | 0.241 | 0.0 |
HOH |
4.864 |
O |
O |
|||
| HIS | B:116 | B:263 | 43.0 | 0.221 | -88.8 | -26.9 | NA | NA | NA | ||||||||||||||
| 6n19 | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-07-03 | HIS | A:116 | A:263 | 25.0 | 0.128 | -98.5 | -20.3 | 25.0 | 0.128 | 0.0 |
K8V EDO HOH |
2.795 8.493 3.054 |
NE2 ND1 CD2 |
O19 C1 O |
|||
| HIS | B:116 | B:263 | 26.0 | 0.133 | -101.2 | -21.0 | NA | NA | NA | ||||||||||||||
| 6w4r | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2021-03-17 | HIS | A:116 | A:263 | 43.0 | 0.221 | -92.1 | -20.6 | 43.0 | 0.221 | 0.0 |
MPO SZV EDO HOH |
2.758 2.817 9.028 3.181 |
NE2 ND1 CB CD2 |
O3 O29 C1 O |
|||
| HIS | B:116 | B:263 | 41.0 | 0.21 | -90.4 | -20.7 | NA | NA | NA | ||||||||||||||
| 6w7j | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2021-03-24 | HIS | A:116 | A:263 | 25.0 | 0.128 | -107.0 | -7.5 | 25.0 | 0.128 | 0.0 |
TGM EDO HOH |
2.511 8.868 3.683 |
NE2 ND1 CE1 |
O01 C1 O |
|||
| HIS | B:116 | B:263 | 42.0 | 0.215 | -96.2 | -18.5 | NA | NA | NA | ||||||||||||||
| 6w7k | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2021-03-24 | HIS | A:116 | A:263 | 24.0 | 0.123 | -108.4 | -1.4 | 24.0 | 0.123 | 0.0 |
TG7 EDO HOH |
2.654 8.911 3.800 |
NE2 ND1 CE1 |
O01 C1 O |
|||
| HIS | B:116 | B:263 | 40.0 | 0.205 | -94.5 | -18.2 | NA | NA | NA | ||||||||||||||
| 6w7l | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2021-03-24 | HIS | A:116 | A:263 | 44.0 | 0.226 | -94.1 | -16.4 | 44.0 | 0.226 | 0.0 |
TGV EDO HOH |
2.790 9.025 3.114 |
ND1 CB CD2 |
O27 C1 O |
|||
| HIS | B:116 | B:263 | 44.0 | 0.226 | -90.7 | -22.6 | NA | NA | NA | ||||||||||||||
| 6mj5 | 1 | Q9NUW8 | 100.0 | 0.0 |
X-RAY |
2019-07-03 | HIS | A:115 | A:263 | 45.0 | 0.231 | -99.5 | -10.7 | 45.0 | 0.231 | 0.0 |
EDO JTA HOH |
9.114 3.107 2.893 |
CB CD2 NE2 |
C1 O01 O |
|||
| HIS | B:115 | B:263 | 46.0 | 0.236 | -102.2 | -12.8 | NA | NA | NA | ||||||||||||||
| 1jy1 | 1 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2002-02-20 | HIS | A:119 | A:263 | 17.0 | 0.087 | -104.5 | -7.8 | 17.0 | 0.087 | 0.0 |
HOH |
3.101 |
NE2 |
O |
|||
| 1mu7 | 1 | 20127586 | 98.92 | 0.0 |
X-RAY |
2003-01-07 | HIS | A:140 | A:263 | 19.0 | 0.097 | -102.9 | -14.1 | 19.0 | 0.097 | 0.0 |
WO4 GOL HOH |
2.332 2.620 3.678 |
NE2 NE2 CE1 |
W O1 O |
|||
| HIS | B:140 | B:263 | 16.0 | 0.082 | -102.3 | -12.5 | NA | NA | NA | ||||||||||||||
| 1mu9 | 1 | 20127586 | 98.92 | 0.0 |
X-RAY |
2003-01-07 | HIS | A:140 | A:263 | 17.0 | 0.087 | -102.3 | -8.6 | 17.0 | 0.087 | 0.0 |
VO4 GOL HOH |
2.069 2.777 3.244 |
NE2 NE2 ND1 |
V O1 O |
|||
| HIS | B:140 | B:263 | 16.0 | 0.082 | -100.4 | -14.8 | NA | NA | NA | ||||||||||||||
| 1nop | 2 | 20127586 | 98.92 | 0.0 |
X-RAY |
2003-03-11 | HIS | C:140 | A:263 | 12.0 | 0.062 | -98.2 | -16.5 | 6.0 | 0.031 | 0.031 |
E:None:0.031 |
DT DT VO4 HOH |
6.980 2.575 2.040 3.493 |
CD2 NE2 NE2 ND1 |
O3' O3' V O |
||
| HIS | D:140 | B:263 | 13.0 | 0.067 | -99.6 | -21.5 | NA | NA | NA | ||||||||||||||
| 1rff | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 14.0 | 0.072 | -105.1 | -12.4 | 8.0 | 0.041 | 0.031 |
E:None:0.031 |
DT DT VO4 HOH |
6.987 2.605 2.144 3.390 |
CG NE2 NE2 ND1 |
O3' O3' V O |
||
| HIS | D:140 | B:263 | 13.0 | 0.067 | -104.4 | -14.5 | NA | NA | NA | ||||||||||||||
| 1rfi | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 14.0 | 0.072 | -96.9 | -16.7 | 8.0 | 0.041 | 0.031 |
E:None:0.031 |
DT DC VO4 HOH |
6.992 2.670 2.077 3.220 |
CG NE2 NE2 ND1 |
O3' O3' V O |
||
| HIS | D:140 | B:263 | 14.0 | 0.072 | -97.9 | -18.7 | NA | NA | NA | ||||||||||||||
| 1rg1 | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 14.0 | 0.072 | -100.9 | -10.2 | 14.0 | 0.072 | 0.0 |
DT DT VO4 OTS HOH |
7.034 2.549 1.985 3.944 3.362 |
CG NE2 NE2 NE2 ND1 |
O3' O3' V O4 O |
|||
| HIS | D:140 | B:263 | 14.0 | 0.072 | -96.9 | -20.3 | NA | NA | NA | ||||||||||||||
| 1rg2 | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 15.0 | 0.077 | -99.8 | -12.9 | 15.0 | 0.077 | 0.0 |
DT DA VO4 OTS OTR HOH |
6.983 2.529 1.988 3.925 3.925 3.323 |
CG NE2 NE2 NE2 NE2 ND1 |
O3' O3' V O4 O4 O |
|||
| HIS | D:140 | B:263 | 14.0 | 0.072 | -98.8 | -20.3 | NA | NA | NA | ||||||||||||||
| 1rgt | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 13.0 | 0.067 | -106.1 | -9.8 | 13.0 | 0.067 | 0.0 |
DT DC VO4 OTS OTR HOH |
6.928 2.590 2.056 4.072 4.072 3.298 |
CG NE2 NE2 NE2 NE2 ND1 |
O3' O3' V O4 O4 O |
|||
| HIS | D:140 | B:263 | 14.0 | 0.072 | -102.4 | -19.3 | NA | NA | NA | ||||||||||||||
| 1rgu | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 14.0 | 0.072 | -101.6 | -17.8 | 14.0 | 0.072 | 0.0 |
DT DG VO4 OTS HOH |
6.991 2.627 2.022 3.942 3.323 |
CG NE2 NE2 NE2 ND1 |
O3' O3' V O4 O |
|||
| HIS | D:140 | B:263 | 15.0 | 0.077 | -97.1 | -20.0 | NA | NA | NA | ||||||||||||||
| 1rh0 | 2 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2004-03-02 | HIS | C:140 | A:263 | 15.0 | 0.077 | -102.7 | -20.3 | 15.0 | 0.077 | 0.0 |
DT DT VO4 OTS HOH |
6.998 2.627 2.126 4.147 3.244 |
CG NE2 NE2 NE2 ND1 |
O3' O3' V O4 O |
|||
| HIS | D:140 | B:263 | 15.0 | 0.077 | -103.1 | -20.1 | NA | NA | NA | ||||||||||||||
| 5nw9 | 1 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2018-01-10 | HIS | A:140 | A:263 | 13.0 | 0.067 | -94.2 | -18.3 | 13.0 | 0.067 | 0.0 |
DG DT DA DG DT DA HOH |
6.902 2.949 2.678 6.902 2.949 2.678 3.179 |
CG NE2 NE2 CG NE2 NE2 ND1 |
O3' O3' OP1 O3' O3' OP1 O |
|||
| HIS | B:140 | B:263 | 36.0 | 0.185 | -86.3 | -17.8 | NA | NA | NA | ||||||||||||||
| 5nwa | 1 | Q9NUW8 | 98.92 | 0.0 |
X-RAY |
2018-01-10 | HIS | A:140 | A:263 | 14.0 | 0.072 | -102.1 | -12.5 | 14.0 | 0.072 | 0.0 |
DT DT DA |
6.742 3.182 3.052 |
ND1 NE2 NE2 |
O3' O3' OP1 |
|||
| HIS | C:140 | B:263 | 29.0 | 0.149 | -86.0 | -11.2 | NA | NA | NA | ||||||||||||||
AlphaFold DB
| Entity | Residue | Monomer | View | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ID | Entity | Uniprot | Identity | Evalue | Name | Label | Auth | ASA | rASA | SS | φ | ψ | |
| af-q9nuw8-f1 | 1 | Q9NUW8 | 100.0 | 0.0 | HIS | A:263 | A:263 | 14.0 | 0.072 | -119.1 | 0.8 | ||