Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr16 68713757 . C A CCDS10868.1:NM_001793.4:c.747taC>taA_NP_001784.2:p.249Y>* 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 TYR A:143 A:142 157.0 0.683 S -88.4 -4.0 87.0 0.378 0.305 B:P22223:0.304
 CA
CA
HOH
 9.349
5.832
9.107
 C
O
O
 CA
CA
O
TYR B:143 B:142 154.0 0.67 S -88.9 -3.2 85.0 0.37 0.3 A:P22223:0.3
 CA
CA
HOH
 5.781
9.298
8.479
 O
C
O
 CA
CA
O
TYR C:143 C:142 157.0 0.683 S -89.2 -3.0 NA NA NA
TYR D:143 D:142 156.0 0.678 S -88.6 -3.1 NA NA NA
TYR E:143 E:142 158.0 0.687 S -89.1 -2.8 NA NA NA
TYR F:143 F:142 163.0 0.709 S -89.2 -2.7 NA NA NA
4zmn 1 P22223 100.0 1e-163 X-RAY
 2016-09-07 TYR A:142 A:142 151.0 0.657 S -93.8 -2.2 151.0 0.657 0.0 CA
CA
CA
HOH
 5.776
9.416
6.542
3.821
 O
C
CD2
CE1
 CA
CA
CA
O
6ztb 1 P22223 100.0 1e-151 X-RAY
 2021-05-05 TYR A:144 I:249 140.0 0.609 S -100.9 14.8 140.0 0.609 0.0 CA
CA
NA
HOH
 5.724
9.857
8.290
3.228
 O
C
O
N
 CA
CA
NA
O
6ztr 3 P22223 100.0 1e-151 X-RAY
 2021-05-05 TYR D:144 I:249 157.0 0.683 S -102.3 -0.9 NA NA NA
TYR E:144 J:249 157.0 0.683 S -97.4 -0.8 157.0 0.683 0.0 CA
CA
HOH
 9.429
5.942
2.668
 C
O
OH
 CA
CA
O
4zmz 1 P22223 100.0 1e-149 X-RAY
 2016-09-07 TYR A:143 A:142 141.0 0.613 S -94.5 10.6 141.0 0.613 0.0 CA
CA
HOH
 9.822
5.656
2.988
 C
O
N
 CA
CA
O
7cmf 1 P22223 100.0 1e-149 X-RAY
 2021-09-15 TYR A:143 A:142 136.0 0.591 S -96.1 13.2 136.0 0.591 0.0 CA
CA
G60
HOH
 9.474
5.799
8.323
3.118
 C
O
N
N
 CA
CA
H42
O
4zmq 1 P22223 100.0 9e-149 X-RAY
 2016-09-07 TYR A:143 A:142 155.0 0.674 S -95.3 6.0 81.0 0.352 0.322 B:P22223:0.322
 CA
CA
HOH
 9.414
5.857
2.467
 C
O
OH
 CA
CA
O
TYR B:143 B:142 150.0 0.652 S -89.2 1.5 78.0 0.339 0.313 A:P22223:0.313
 CA
CA
HOH
 9.420
5.879
2.460
 C
O
OH
 CA
CA
O
7cme 1 P22223 100.0 9e-149 X-RAY
 2021-09-15 TYR A:143 A:142 156.0 0.678 S -92.2 -6.1 87.0 0.378 0.3 B:P22223:0.3
 DMS
G60
CA
CA
HOH
 2.314
6.366
5.863
9.161
5.481
 CG
N
O
C
N
 H13
H62
CA
CA
O
TYR B:143 B:142 154.0 0.67 S -98.4 -3.0 82.0 0.357 0.313 A:P22223:0.313
 G60
DMS
CA
CA
HOH
 7.548
2.677
5.981
9.230
8.100
 N
CD2
O
C
CE2
 H12
H13
CA
CA
O
4oy9 1 P22223 100.0 9e-149 X-RAY
 2015-04-01 TYR A:142 A:142 142.0 0.617 S -97.0 7.1 142.0 0.617 0.0 CA
CA
HOH
 5.764
9.749
3.053
 O
C
N
 CA
CA
O
4zml 1 P22223 100.0 9e-149 X-RAY
 2016-09-07 TYR A:142 A:142 146.0 0.635 S -99.3 14.0 146.0 0.635 0.0 CA
CA
CL
HOH
 9.917
5.660
9.741
3.020
 C
O
N
N
 CA
CA
CL
O
5jym 1 P22223 100.0 9e-149 X-RAY
 2016-12-28 TYR A:142 A:142 148.0 0.643 S -101.4 9.8 148.0 0.643 0.0 CA
CA
HOH
 9.477
5.797
4.299
 C
O
CE1
 CA
CA
O
TYR C:142 C:142 147.0 0.639 S -101.5 9.5 147.0 0.639 0.0 CA
CA
HOH
 9.555
5.915
3.707
 C
O
CD1
 CA
CA
O
4zmo 1 P22223 99.53 4e-148 X-RAY
 2016-09-07 TYR A:142 A:142 154.0 0.67 S -95.1 16.4 154.0 0.67 0.0 CA
CA
HOH
 9.486
5.708
9.332
 C
O
N
 CA
CA
O
4zmy 1 P22223 99.53 4e-148 X-RAY
 2016-09-07 TYR A:143 A:142 135.0 0.587 S -95.1 9.9 17.0 0.074 0.513 A:P22223:0.513
 CA
CA
HOH
 9.807
5.701
2.964
 C
O
N
 CA
CA
O
4zmp 1 P22223 99.53 2e-147 X-RAY
 2016-09-07 TYR A:142 A:142 148.0 0.643 S -96.7 15.5 148.0 0.643 0.0 CA
CA
HOH
 9.947
5.754
3.360
 C
O
CE1
 CA
CA
O
4zmw 1 P22223 99.53 2e-147 X-RAY
 2016-09-07 TYR A:143 A:142 154.0 0.67 S -95.3 -1.3 154.0 0.67 0.0 CA
CA
HOH
 9.261
5.934
3.864
 C
O
CB
 CA
CA
O
TYR B:143 B:142 150.0 0.652 S -93.1 -1.8 150.0 0.652 0.0 CA
CA
HOH
 9.210
5.818
2.670
 C
O
OH
 CA
CA
O
4zmx 1 P22223 99.53 3e-147 X-RAY
 2016-09-07 TYR A:142 A:142 153.0 0.665 S -94.9 3.7 80.0 0.348 0.317 B:P22223:0.317
 CA
CA
 9.326
5.819
 C
O
 CA
CA
TYR B:142 B:142 152.0 0.661 G -82.5 -7.2 72.0 0.313 0.348 A:P22223:0.348
 CA
CA
 9.376
5.773
 C
O
 CA
CA
4zmv 1 P22223 98.59 5e-146 X-RAY
 2016-09-07 TYR A:143 A:142 159.0 0.691 S -82.5 -2.3 68.0 0.296 0.395 B:P22223:0.396
 CA
CA
GOL
HOH
 6.101
9.300
3.745
2.668
 O
C
CE2
OH
 CA
CA
O2
O
TYR B:143 B:142 156.0 0.678 S -89.6 -1.8 69.0 0.3 0.378 A:P22223:0.378
 CA
CA
GOL
HOH
 9.274
5.987
3.875
3.234
 C
O
CD2
N
 CA
CA
C2
O
4nqq 1 P10287 88.26 4e-132 X-RAY
 2014-09-24 TYR A:142 A:142 141.0 0.613 S -107.0 10.1 141.0 0.613 0.0 CA
CA
HOH
 9.502
5.614
3.787
 C
O
HH
 CA
CA
O
TYR B:142 B:142 145.0 0.63 S -106.4 8.2 145.0 0.63 0.0 CA
CA
HOH
 9.663
5.530
5.349
 C
O
HE2
 CA
CA
O
TYR C:142 C:142 143.0 0.622 S -106.3 8.7 NA NA NA
TYR D:142 D:142 139.0 0.604 S -106.1 9.7 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 TYR A:249 A:249 156.0 0.678 S -93.7 2.5