Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr16 68714912 . G A CCDS10868.1:NM_001793.4:c.909atG>atA_NP_001784.2:p.303M>I Homo sapiens cadherin 3, type 1, P-cadherin (placental) (CDH3), 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)
4zmt 1 P22223 100.0 1e-163 X-RAY
 2016-09-07 MET A:197 A:196 69.0 0.373 G 53.0 40.6 25.0 0.135 0.238 B:P22223:0.238
 CA
CA
CA
CA
HOH
 5.546
9.529
7.977
8.602
3.144
 N
SD
CE
CE
CE
 CA
CA
CA
CA
O
MET B:197 B:196 67.0 0.362 G 53.2 39.9 27.0 0.146 0.216 A:P22223:0.216
 CA
CA
CA
CA
HOH
 9.399
8.627
8.047
5.484
3.223
 SD
SD
CE
N
CE
 CA
CA
CA
CA
O
MET C:197 C:196 68.0 0.368 G 52.2 40.0 NA NA NA
MET D:197 D:196 66.0 0.357 G 52.4 40.8 NA NA NA
MET E:197 E:196 66.0 0.357 G 53.2 40.5 NA NA NA
MET F:197 F:196 67.0 0.362 G 52.8 40.6 NA NA NA
4zmn 1 P22223 100.0 1e-163 X-RAY
 2016-09-07 MET A:196 A:196 68.0 0.368 H 50.2 41.6 68.0 0.368 0.0 CA
CA
GOL
HOH
 5.504
5.072
7.837
4.318
 N
O
O
O
 CA
CA
O3
O
6ztb 1 P22223 100.0 1e-151 X-RAY
 2021-05-05 MET A:198 I:303 61.0 0.33 G 55.3 33.6 61.0 0.33 0.0 CA
HOH
 5.671
2.736
 N
O
 CA
O
6ztr 3 P22223 100.0 1e-151 X-RAY
 2021-05-05 MET D:198 I:303 71.0 0.384 G 56.7 32.1 NA NA NA
MET E:198 J:303 67.0 0.362 G 56.7 32.1 67.0 0.362 0.0 CA
HOH
 5.615
3.118
 N
SD
 CA
O
4zmz 1 P22223 100.0 1e-149 X-RAY
 2016-09-07 MET A:197 A:196 60.0 0.324 G 45.6 43.0 60.0 0.324 0.0 CA
CA
CA
HOH
 9.959
5.639
7.008
2.862
 SD
N
CB
O
 CA
CA
CA
O
7cmf 1 P22223 100.0 1e-149 X-RAY
 2021-09-15 MET A:197 A:196 58.0 0.314 H 52.7 31.5 58.0 0.314 0.0 CA
CA
CA
HOH
 9.697
5.706
7.406
4.460
 SD
N
CB
CE
 CA
CA
CA
O
4zmq 1 P22223 100.0 9e-149 X-RAY
 2016-09-07 MET A:197 A:196 72.0 0.389 G 52.1 40.8 18.0 0.097 0.292 B:P22223:0.292
 CA
CA
CA
CA
HOH
 5.519
7.969
7.704
8.456
3.538
 N
CE
CE
SD
CE
 CA
CA
CA
CA
O
MET B:197 B:196 69.0 0.373 H 46.7 44.0 13.0 0.07 0.303 A:P22223:0.303
 CA
CA
CA
CA
CA
HOH
 8.849
7.408
8.232
9.497
5.409
3.563
 CE
CE
CE
CE
N
CE
 CA
CA
CA
CA
CA
O
7cme 1 P22223 100.0 9e-149 X-RAY
 2021-09-15 MET A:197 A:196 74.0 0.4 G 49.7 38.5 21.0 0.114 0.286 B:P22223:0.286
 DMS
G60
G60
CA
CA
CA
CA
HOH
 2.278
9.456
8.612
5.483
9.593
8.271
7.680
7.247
 O
CE
SD
N
CE
CE
CE
C
 H12
H62
H141
CA
CA
CA
CA
O
MET B:197 B:196 61.0 0.33 G 42.6 43.9 23.0 0.124 0.206 A:P22223:0.205
 G60
CA
CA
DMS
CA
HOH
 7.676
8.145
8.980
2.319
5.580
9.118
 CE
CE
SD
O
N
C
 H141
CA
CA
H22
CA
O
4oy9 1 P22223 100.0 9e-149 X-RAY
 2015-04-01 MET A:196 A:196 64.0 0.346 G 51.0 37.2 64.0 0.346 0.0 CA
CA
HOH
 5.663
9.825
3.161
 N
SD
O
 CA
CA
O
4zml 1 P22223 100.0 9e-149 X-RAY
 2016-09-07 MET A:196 A:196 67.0 0.362 G 47.9 45.7 67.0 0.362 0.0 CA
HOH
 5.732
4.586
 N
SD
 CA
O
5jym 1 P22223 100.0 9e-149 X-RAY
 2016-12-28 MET A:196 A:196 67.0 0.362 G 50.4 39.0 67.0 0.362 0.0 CA
HOH
 5.626
6.179
 N
SD
 CA
O
MET C:196 C:196 64.0 0.346 G 51.0 39.7 64.0 0.346 0.0 CA
HOH
 5.704
8.589
 N
CA
 CA
O
4zmo 1 P22223 99.53 4e-148 X-RAY
 2016-09-07 MET A:196 A:196 67.0 0.362 G 60.3 29.3 67.0 0.362 0.0 CA
CA
 9.842
5.692
 CE
N
 CA
CA
4zmy 1 P22223 99.53 4e-148 X-RAY
 2016-09-07 MET A:197 A:196 60.0 0.324 G 49.3 37.9 60.0 0.324 0.0 CA
CA
HOH
 9.799
5.650
3.239
 SD
N
O
 CA
CA
O
4zmp 1 P22223 99.53 2e-147 X-RAY
 2016-09-07 MET A:196 A:196 59.0 0.319 G 58.3 45.3 59.0 0.319 0.0 CA
HOH
 5.616
4.771
 N
O
 CA
O
4zmw 1 P22223 99.53 2e-147 X-RAY
 2016-09-07 MET A:197 A:196 68.0 0.368 G 55.3 38.5 68.0 0.368 0.0 CA
CA
HOH
 9.985
5.584
3.409
 CE
N
O
 CA
CA
O
MET B:197 B:196 66.0 0.357 G 43.4 46.2 66.0 0.357 0.0 CA
CA
HOH
 9.782
5.321
3.468
 CE
N
O
 CA
CA
O
4zmx 1 P22223 99.53 3e-147 X-RAY
 2016-09-07 MET A:196 A:196 68.0 0.368 G 53.1 39.3 21.0 0.114 0.254 B:P22223:0.254
 CA
CA
CA
CA
 5.452
8.084
7.899
8.371
 N
CE
CE
SD
 CA
CA
CA
CA
MET B:196 B:196 70.0 0.378 G 52.7 41.7 12.0 0.065 0.313 A:P22223:0.314
 CA
CA
CA
CA
CA
 8.265
7.024
8.229
9.846
5.463
 CE
CE
CE
CE
N
 CA
CA
CA
CA
CA
4zmv 1 P22223 98.59 5e-146 X-RAY
 2016-09-07 MET A:197 A:196 69.0 0.373 G 36.5 48.7 19.0 0.103 0.27 B:P22223:0.27
 CA
GOL
CA
CA
SO4
HOH
 5.552
3.737
8.879
7.268
9.535
5.152
 N
O
CE
CE
CE
CE
 CA
C1
CA
CA
O3
O
MET B:197 B:196 64.0 0.346 G 50.7 41.2 13.0 0.07 0.276 A:P22223:0.276
 CA
CA
SO4
CA
GOL
HOH
 7.262
8.857
9.483
5.626
3.157
6.505
 CE
SD
SD
N
O
SD
 CA
CA
O1
CA
C3
O
4nqq 1 P10287 88.26 4e-132 X-RAY
 2014-09-24 MET A:196 A:196 55.0 0.297 G 62.2 26.0 55.0 0.297 0.0 CA
HOH
 5.175
3.983
 H
O
 CA
O
MET B:196 B:196 51.0 0.276 G 61.1 25.0 51.0 0.276 0.0 CA
 4.990
 H
 CA
MET C:196 C:196 58.0 0.314 G 61.4 25.7 NA NA NA
MET D:196 D:196 60.0 0.324 G 60.7 24.1 NA NA NA

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-p22223-f1 1 P22223 100.0 0.0 MET A:303 A:303 80.0 0.432 G 54.0 38.8