Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr17 49238605 . C A CCDS11578.1:NM_198175.1:c.388Cgt>Agt_NP_937818.1:p.130R>S Homo sapiens NME/NM23 nucleoside diphosphate kinase 1 (NME1), transcript variant 1, mRNA.
pdb_id: 
label_asym_id: 
label_seq_id: 
label_comp_id: 
auth_asym_id: 
auth_seq_id: 
alphafold_id: 
label_asym_id: 
label_seq_id: 
label_comp_id: 
auth_asym_id: 
auth_seq_id: 

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)
3l7u 1 P15531 100.0 6e-113 X-RAY
 2010-11-10 ARG A:125 A:105 3.0 0.013 H -67.7 -36.2 3.0 0.013 0.0 HOH
 2.805
 NH1
 O
ARG B:125 B:105 5.0 0.022 H -70.5 -35.3 5.0 0.022 0.0 PO4
HOH
 4.390
2.842
 NH2
NH1
 O3
O
ARG C:125 C:105 5.0 0.022 H -70.4 -36.3 5.0 0.022 0.0 HOH
 2.825
 NH1
 O
1jxv 1 P15531 100.0 6e-113 X-RAY
 2002-04-10 ARG A:105 A:105 11.0 0.049 H -74.2 -29.0 11.0 0.049 0.0 HOH
 3.389
 NH1
 O
ARG B:105 B:105 11.0 0.049 H -73.7 -27.9 11.0 0.049 0.0 HOH
 2.459
 NH1
 O
ARG C:105 C:105 11.0 0.049 H -73.6 -30.3 11.0 0.049 0.0 HOH
 3.483
 NH1
 O
ARG D:105 D:105 11.0 0.049 H -73.3 -31.8 11.0 0.049 0.0 HOH
 3.235
 NH1
 O
ARG E:105 E:105 11.0 0.049 H -72.9 -30.3 11.0 0.049 0.0 HOH
 2.659
 NH1
 O
ARG F:105 F:105 10.0 0.044 H -73.5 -27.5 10.0 0.044 0.0 HOH
 2.588
 NH1
 O
2hvd 1 P15531 100.0 6e-113 X-RAY
 2006-09-19 ARG A:105 A:105 9.0 0.04 H -72.1 -45.4 9.0 0.04 0.0 ADP
HOH
 4.079
3.144
 NH2
NH2
 O3B
O
ARG B:105 B:105 12.0 0.053 H -76.1 -36.7 12.0 0.053 0.0 ADP
HOH
 3.802
2.862
 NH2
NH1
 O3'
O
ARG C:105 C:105 9.0 0.04 H -65.2 -42.6 9.0 0.04 0.0 ADP
HOH
 3.784
5.585
 NH2
O
 O3B
O
4eno 1 P15531 100.0 6e-113 X-RAY
 2013-03-27 ARG A:105 A:105 11.0 0.049 H -60.1 -37.5 10.0 0.044 0.005 A:P15531:0.004
 PO4
HOH
 3.750
6.207
 NH1
NH1
 O2
O
ARG B:105 B:105 10.0 0.044 H -64.4 -46.2 10.0 0.044 0.0 PO4
HOH
 4.300
2.833
 NH1
NH1
 O3
O
5ui4 1 P15531 100.0 7e-113 X-RAY
 2018-01-17 ARG A:112 A:105 3.0 0.013 H -65.0 -38.3 3.0 0.013 0.0 A7Z
HOH
 3.911
6.624
 NH2
N
 O2
O
ARG B:112 B:105 4.0 0.018 H -64.3 -38.8 4.0 0.018 0.0 A7Z
HOH
 3.946
4.262
 NH2
NH1
 O3
O
ARG C:112 C:105 3.0 0.013 H -64.5 -38.4 3.0 0.013 0.0 A7Z
HOH
 3.796
3.066
 NH2
NH2
 O2
O
ARG D:112 D:105 3.0 0.013 H -64.6 -38.5 3.0 0.013 0.0 A7Z
HOH
 4.029
7.157
 NH2
O
 O2
O
ARG E:112 E:105 3.0 0.013 H -64.5 -38.6 3.0 0.013 0.0 A7Z
HOH
 3.938
7.122
 NH2
CB
 O3
O
ARG F:112 F:105 9.0 0.04 H -64.6 -38.1 9.0 0.04 0.0 A7Z
HOH
 3.900
7.156
 NH2
O
 O2
O
2hve 1 P15531 99.34 4e-112 X-RAY
 2006-09-19 ARG A:105 A:105 9.0 0.04 H -73.1 -38.2 9.0 0.04 0.0 ADP
HOH
 4.306
3.026
 NH2
NH2
 O2B
O
ARG B:105 B:105 14.0 0.062 H -73.4 -35.2 14.0 0.062 0.0 ADP
HOH
 4.156
3.000
 NH2
NH1
 O3'
O
ARG C:105 C:105 8.0 0.036 H -67.9 -37.7 8.0 0.036 0.0 ADP
HOH
 3.948
5.321
 NH2
NH2
 O3B
O
1ucn 1 P15531 98.68 2e-110 X-RAY
 2003-09-30 ARG A:105 A:105 7.0 0.031 H -70.3 -37.6 7.0 0.031 0.0 PO4
CA
ADP
HOH
 5.290
6.249
2.792
5.399
 NH2
NH2
NH1
O
 O4
CA
O2B
O
ARG B:105 B:105 7.0 0.031 H -70.6 -38.1 7.0 0.031 0.0 PO4
CA
ADP
HOH
 5.086
6.426
2.743
4.421
 NH2
NH2
NH1
NH2
 O3
CA
O2B
O
ARG C:105 C:105 8.0 0.036 H -67.1 -37.0 8.0 0.036 0.0 PO4
CA
ADP
HOH
 5.557
6.375
2.744
4.406
 NH2
NH2
NH1
NH2
 O3
CA
O2B
O
1bhn 1 P52174 94.08 8e-108 X-RAY
 1999-02-16 ARG A:105 A:105 5.0 0.022 H -72.0 -39.8 5.0 0.022 0.0 35G
GDP
HOH
 3.343
3.643
2.457
 NH2
NH2
NH2
 O2P
O2B
O
ARG B:105 B:105 3.0 0.013 H -57.9 -53.6 3.0 0.013 0.0 35G
GDP
HOH
 3.186
4.474
2.702
 NH2
NH2
NH2
 O2P
O3'
O
ARG C:105 C:105 14.0 0.062 H -66.1 -57.6 14.0 0.062 0.0 35G
GDP
HOH
 3.743
3.561
2.841
 NH2
NH2
NH2
 O2P
O2B
O
ARG D:105 D:105 5.0 0.022 H -91.7 -24.9 5.0 0.022 0.0 35G
GDP
HOH
 3.805
3.650
6.217
 NH2
NH2
O
 O2P
O3B
O
ARG E:105 E:105 7.0 0.031 H -64.3 -42.3 7.0 0.031 0.0 35G
GDP
HOH
 4.044
5.020
2.760
 NH2
NH2
NH1
 O2P
O3B
O
ARG F:105 F:105 3.0 0.013 H -57.6 -45.3 3.0 0.013 0.0 35G
GDP
HOH
 3.335
4.069
5.842
 NH2
NH2
O
 O2P
O3B
O
1be4 1 P52175 93.38 2e-105 X-RAY
 1999-01-13 ARG A:104 A:105 7.0 0.031 H -80.4 -34.6 6.0 0.027 0.004 B:P52175:0.004
 PCG
HOH
 4.167
3.500
 NH2
NH1
 O2A
O
ARG B:104 B:105 4.0 0.018 H -58.4 -23.6 4.0 0.018 0.0 PCG
HOH
 3.749
2.878
 NH2
NH2
 O2A
O
ARG C:104 C:105 4.0 0.018 H -63.4 -49.7 4.0 0.018 0.0 PCG
HOH
 3.802
2.672
 NH2
NH1
 O2A
O
1nsk 1 P22392 88.16 4e-100 X-RAY
 1995-10-15 ARG A:105 R:105 5.0 0.022 H -62.8 -41.0 5.0 0.022 0.0
ARG B:105 L:105 5.0 0.022 H -62.7 -40.7 5.0 0.022 0.0
ARG C:105 T:105 5.0 0.022 H -67.7 -38.3 5.0 0.022 0.0
ARG D:105 U:105 6.0 0.027 H -66.4 -42.3 6.0 0.027 0.0
ARG E:105 N:105 5.0 0.022 H -67.8 -42.2 5.0 0.022 0.0
ARG F:105 O:105 6.0 0.027 H -66.9 -38.5 6.0 0.027 0.0
7kpf 1 P22392 88.16 4e-100 X-RAY
 2022-02-02 ARG A:105 A:105 4.0 0.018 H -65.7 -38.7 4.0 0.018 0.0 WYV
HOH
 3.428
2.199
 HH21
HH12
 O9A
O
ARG B:105 B:105 9.0 0.04 H -65.7 -40.7 9.0 0.04 0.0 WYV
MG
HOH
 3.141
6.041
2.205
 HH21
HH21
HH12
 O7A
MG
O
ARG C:105 C:105 5.0 0.022 H -65.6 -40.7 5.0 0.022 0.0 WYV
HOH
 3.185
2.068
 HH21
HH12
 O9A
O
ARG D:105 D:105 4.0 0.018 H -71.0 -32.7 4.0 0.018 0.0 GOL
MG
HOH
 7.758
4.192
2.037
 HH21
HH21
HH12
 O2
MG
O
ARG E:105 E:105 6.0 0.027 H -70.6 -34.3 6.0 0.027 0.0 MG
HOH
 4.226
2.336
 HH21
HH22
 MG
O
ARG F:105 F:105 5.0 0.022 H -69.9 -34.2 5.0 0.022 0.0 MG
MG
HOH
 6.174
3.838
2.097
 HB2
HH22
HH12
 MG
MG
O
1nue 1 P22392 88.08 4e-99 X-RAY
 1996-04-03 ARG A:104 A:105 7.0 0.031 H -73.1 -34.3 7.0 0.031 0.0 MG
GDP
HOH
 8.605
3.659
3.119
 NH2
NH2
NH2
 MG
O3B
O
ARG B:104 B:105 7.0 0.031 H -73.1 -33.9 7.0 0.031 0.0 GDP
HOH
 3.704
2.683
 NH2
NH1
 O3B
O
ARG C:104 C:105 7.0 0.031 H -70.7 -34.4 7.0 0.031 0.0 MG
GDP
HOH
 8.706
3.716
3.005
 NH2
NH2
NH1
 MG
O3B
O
ARG D:104 D:105 6.0 0.027 H -70.1 -32.1 6.0 0.027 0.0 GDP
HOH
 3.635
2.798
 NH2
NH1
 O3B
O
ARG E:104 E:105 7.0 0.031 H -70.2 -29.7 7.0 0.031 0.0 GDP
HOH
 3.642
4.833
 NH2
NH2
 O3B
O
ARG F:104 F:105 6.0 0.027 H -73.8 -32.4 6.0 0.027 0.0 GDP
HOH
 3.685
2.601
 NH2
NH1
 O3B
O
3bbb 1 P22392 88.08 4e-99 X-RAY
 2008-09-23 ARG A:104 A:105 7.0 0.031 H -68.5 -38.0 7.0 0.031 0.0 HOH
 2.908
 NH2
 O
ARG B:104 B:105 7.0 0.031 H -71.8 -32.5 7.0 0.031 0.0 DG
HOH
 6.224
2.994
 NH2
NH2
 O3'
O
ARG C:104 C:105 8.0 0.036 H -68.3 -37.9 8.0 0.036 0.0 DA
DG
HOH
 4.795
3.994
2.989
 NH2
NH2
NH2
 O3'
OP1
O
ARG D:104 D:105 7.0 0.031 H -63.6 -42.5 7.0 0.031 0.0 HOH
 2.875
 NH2
 O
ARG E:104 E:105 4.0 0.018 H -69.1 -36.3 4.0 0.018 0.0 DA
DG
HOH
 6.317
3.989
2.928
 NH2
NH2
NH2
 O3'
OP1
O
ARG F:104 F:105 7.0 0.031 H -73.5 -34.9 7.0 0.031 0.0 DG
HOH
 5.958
2.899
 NH2
NH2
 C3'
O
3bbf 1 P22392 88.08 4e-99 X-RAY
 2008-09-23 ARG A:104 A:105 11.0 0.049 H -68.6 -41.0 11.0 0.049 0.0 GDP
MG
HOH
 4.172
9.180
2.859
 NH2
NH2
NH1
 O3B
MG
O
ARG B:104 B:105 10.0 0.044 H -70.9 -33.0 10.0 0.044 0.0 GDP
MG
HOH
 4.002
9.217
2.884
 NH2
NH2
NH1
 O3B
MG
O
ARG C:104 C:105 11.0 0.049 H -66.3 -35.3 11.0 0.049 0.0 GDP
MG
HOH
 3.914
8.791
2.844
 NH2
NH2
NH1
 O3B
MG
O
ARG D:104 D:105 9.0 0.04 H -69.2 -36.6 9.0 0.04 0.0 GDP
MG
HOH
 3.947
9.022
2.895
 NH2
NH2
NH1
 O3B
MG
O
ARG E:104 E:105 9.0 0.04 H -69.8 -34.9 9.0 0.04 0.0 GDP
MG
HOH
 3.875
9.075
2.884
 NH2
NH2
NH1
 O3B
MG
O
ARG F:104 F:105 9.0 0.04 H -71.8 -34.8 9.0 0.04 0.0 GDP
MG
HOH
 3.977
9.120
2.907
 NH2
NH2
NH1
 O3B
MG
O
3bbc 1 P22392 87.42 3e-98 X-RAY
 2008-09-23 ARG A:104 A:105 19.0 0.084 H -70.8 -36.2 19.0 0.084 0.0 HOH
 2.859
 NH2
 O
ARG B:104 B:105 15.0 0.067 H -65.7 -38.4 15.0 0.067 0.0 HOH
 2.886
 NH2
 O
ARG C:104 C:105 17.0 0.076 H -63.7 -35.7 17.0 0.076 0.0 HOH
 3.047
 NH2
 O
ARG D:104 D:105 11.0 0.049 H -69.7 -34.1 11.0 0.049 0.0 HOH
 2.852
 NH2
 O
ARG E:104 E:105 16.0 0.071 H -68.9 -34.8 16.0 0.071 0.0 HOH
 2.830
 NH2
 O
ARG F:104 F:105 15.0 0.067 H -69.9 -35.4 15.0 0.067 0.0 HOH
 2.960
 NH1
 O

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-p15531-f1 1 P15531 100.0 3e-113 ARG A:105 A:105 4.0 0.018 H -73.6 -35.4
af-p22392-f1 1 P22392 88.16 2e-100 ARG A:105 A:105 4.0 0.018 H -72.6 -40.0
af-o60361-f1 1 O60361 84.67 2e-84 ARG A:90 A:90 5.0 0.022 H -73.8 -38.0