Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr16 68712417 . A C CCDS10868.1:NM_001793.4:c.404aAa>aCa_NP_001784.2:p.135K>T 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 LYS A:29 A:28 91.0 0.455 G -86.1 0.3 91.0 0.455 0.0
LYS B:29 B:28 85.0 0.425 T -81.9 6.2 85.0 0.425 0.0
LYS C:29 C:28 91.0 0.455 G -85.0 4.5 NA NA NA
LYS D:29 D:28 109.0 0.545 -101.5 360.0 NA NA NA
LYS E:29 E:28 84.0 0.42 G -85.3 25.1 NA NA NA
LYS F:29 NA:NA DO NA DO DO DO NA NA NA
4zmn 1 P22223 100.0 1e-163 X-RAY
 2016-09-07 LYS A:28 A:28 94.0 0.47 G -50.9 -4.5 94.0 0.47 0.0 HOH
 5.886
 NZ
 O
6ztb 1 P22223 100.0 1e-151 X-RAY
 2021-05-05 LYS A:30 I:135 93.0 0.465 G -70.3 -9.1 93.0 0.465 0.0 HOH
 5.636
 CE
 O
6ztr 3 P22223 100.0 1e-151 X-RAY
 2021-05-05 LYS D:30 I:135 99.0 0.495 G -66.5 -11.7 NA NA NA
LYS E:30 J:135 102.0 0.51 G -66.4 -12.1 102.0 0.51 0.0 HOH
 6.888
 NZ
 O
4zmz 1 P22223 100.0 1e-149 X-RAY
 2016-09-07 LYS A:29 A:28 68.0 0.34 G -73.4 -3.1 68.0 0.34 0.0 HOH
 5.826
 NZ
 O
7cmf 1 P22223 100.0 1e-149 X-RAY
 2021-09-15 LYS A:29 A:28 26.0 NA T -84.6 12.0 26.0 NA NA HOH
 9.315
 N
 O
4zmq 1 P22223 100.0 9e-149 X-RAY
 2016-09-07 LYS A:29 NA:NA DO NA DO DO DO NA NA NA
LYS B:29 B:28 69.0 0.345 -82.6 77.7 69.0 0.345 0.0 HOH
 4.567
 NZ
 O
7cme 1 P22223 100.0 9e-149 X-RAY
 2021-09-15 LYS A:29 A:28 97.0 0.485 G -76.4 1.9 97.0 0.485 0.0
LYS B:29 B:28 91.0 0.455 -76.3 75.9 91.0 0.455 0.0 HOH
 9.255
 CE
 O
4oy9 1 P22223 100.0 9e-149 X-RAY
 2015-04-01 LYS A:28 A:28 87.0 0.435 G -81.0 0.6 87.0 0.435 0.0 HOH
 4.517
 NZ
 O
4zml 1 P22223 100.0 9e-149 X-RAY
 2016-09-07 LYS A:28 A:28 90.0 0.45 G -79.4 -2.6 90.0 0.45 0.0 HOH
 4.023
 CG
 O
5jym 1 P22223 100.0 9e-149 X-RAY
 2016-12-28 LYS A:28 A:28 94.0 0.47 G -77.6 7.3 87.0 0.435 0.035 C:P22223:0.035
 HOH
 6.506
 NZ
 O
LYS C:28 C:28 92.0 0.46 G -75.1 5.9 87.0 0.435 0.025 A:P22223:0.025
 HOH
 5.639
 NZ
 O
4zmo 1 P22223 99.53 4e-148 X-RAY
 2016-09-07 LYS A:28 A:28 91.0 0.455 G -77.9 7.4 85.0 0.425 0.03 A:P22223:0.03
 HOH
 6.182
 NZ
 O
4zmy 1 P22223 99.53 4e-148 X-RAY
 2016-09-07 LYS A:29 A:28 77.0 0.385 G -71.1 -9.7 77.0 0.385 0.0 HOH
 4.195
 NZ
 O
4zmp 1 P22223 99.53 2e-147 X-RAY
 2016-09-07 LYS A:28 A:28 91.0 0.455 G -86.6 2.5 84.0 0.42 0.035 A:P22223:0.035
 HOH
 5.976
 C
 O
4zmw 1 P22223 99.53 2e-147 X-RAY
 2016-09-07 LYS A:29 A:28 81.0 0.405 G -71.3 2.5 81.0 0.405 0.0 HOH
 8.151
 O
 O
LYS B:29 B:28 82.0 0.41 G -77.5 12.7 82.0 0.41 0.0 SO4
HOH
 7.370
5.282
 O
NZ
 O4
O
4zmx 1 P22223 99.53 3e-147 X-RAY
 2016-09-07 LYS A:28 NA:NA DO NA DO DO DO NA NA NA
LYS B:28 B:28 82.0 0.41 -68.2 81.7 82.0 0.41 0.0
4zmv 1 P22223 98.59 5e-146 X-RAY
 2016-09-07 LYS A:29 A:28 76.0 0.38 G -65.0 -2.4 47.0 0.235 0.145 B:P22223:0.145
 NI
HOH
 5.783
3.211
 NZ
NZ
 NI
O
LYS B:29 B:28 98.0 0.49 G -75.8 -1.1 71.0 0.355 0.135 A:P22223:0.135
 NI
HOH
 6.292
6.445
 NZ
NZ
 NI
O
4nqq 1 P10287 88.26 4e-132 X-RAY
 2014-09-24 LYS A:28 A:28 101.0 0.505 G -80.5 11.8 96.0 0.48 0.025 B:P10287:0.025
 HOH
 3.941
 HZ1
 O
LYS B:28 B:28 95.0 0.475 G -81.0 13.9 93.0 0.465 0.01 A:P10287:0.01
 HOH
 3.095
 HA
 O
LYS C:28 C:28 96.0 0.48 G -79.9 10.3 NA NA NA
LYS D:28 D:28 117.0 0.585 G -81.9 11.3 NA NA NA
5jyl 1 P22223 100.0 3e-63 X-RAY
 2016-12-28 LYS A:29 A:28 88.0 0.44 T -106.0 3.1 0.0 0.0 0.44 B:None:0.44
 GOL
HOH
 8.219
3.498
 NZ
CB
 O3
O
LYS C:29 C:28 107.0 0.535 T -104.0 0.9 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 LYS A:135 A:135 79.0 0.395 T -87.8 2.6