Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr1 202569500 . C A CCDS1427.1:NM_001136504.1:c.904Gtg>Ttg_NP_001129976.1:p.302V>L Homo sapiens synaptotagmin 2 (SYT2), 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)
5w5c 6 P21707 86.52 1e-174 X-RAY
 2017-08-23 VAL F:165 F:304 138.0 0.89 T -72.7 148.5 138.0 0.89 0.0 GOL
HOH
 6.390
3.206
 C
CG2
 O1
O
2r83 1 P21579 86.17 5e-174 X-RAY
 2008-02-12 VAL A:167 A:304 149.0 0.961 T -60.2 135.0 149.0 0.961 0.0 HOH
 7.112
 N
 O
VAL B:167 B:304 148.0 0.955 T -59.8 135.3 148.0 0.955 0.0 HOH
 7.188
 N
 O
5ccg 5 P21707 86.79 6e-174 X-RAY
 2015-08-12 VAL E:164 E:304 144.0 0.929 T -72.7 125.9 144.0 0.929 0.0 CA
CA
 6.290
4.767
 N
N
 CA
CA
VAL F:164 NA:NA DO NA DO DO DO NA NA NA
VAL K:164 K:304 148.0 0.955 T -72.1 126.4 NA NA NA
5cch 5 P21707 86.79 6e-174 X-RAY
 2015-08-12 VAL E:164 E:304 143.0 0.923 T -62.1 125.4 143.0 0.923 0.0 CA
CA
 6.328
5.856
 N
N
 CA
CA
VAL F:164 NA:NA DO NA DO DO DO NA NA NA
5cci 5 P21707 86.79 6e-174 X-RAY
 2015-08-12 VAL E:164 E:304 151.0 0.974 T -80.1 118.3 151.0 0.974 0.0 MG
 6.862
 N
 MG
VAL F:164 NA:NA DO NA DO DO DO NA NA NA
6mti 2 P21707 86.79 6e-174 EM
 2019-04-24 VAL B:164 2:585 153.0 0.987 T -80.1 118.3 153.0 0.987 0.0 MG
 6.861
 N
 MG
VAL C:164 3:585 151.0 0.974 T -80.0 118.4 151.0 0.974 0.0 MG
 6.862
 N
 MG
VAL D:164 4:585 154.0 0.994 T -80.1 118.3 154.0 0.994 0.0 MG
 6.862
 N
 MG
VAL E:164 5:585 152.0 0.981 T -80.0 118.3 152.0 0.981 0.0 MG
 6.862
 N
 MG
5kj7 5 P21707 87.36 6e-174 X-RAY
 2016-10-19 VAL E:164 E:304 143.0 0.923 T -71.9 130.6 143.0 0.923 0.0 CA
CA
 6.263
4.730
 N
N
 CA
CA
VAL F:164 NA:NA DO NA DO DO DO NA NA NA
VAL K:164 K:304 150.0 0.968 T -71.5 130.9 NA NA NA
5kj8 5 P21707 87.36 6e-174 X-RAY
 2016-10-19 VAL E:164 E:304 148.0 0.955 T -68.5 129.3 148.0 0.955 0.0 CA
CA
 6.965
5.185
 N
N
 CA
CA
VAL F:164 NA:NA DO NA DO DO DO NA NA NA
VAL K:164 K:304 151.0 0.974 T -78.4 129.9 NA NA NA
6tz3 1 P21579 84.71 1e-84 X-RAY
 2020-05-13 VAL A:40 A:305 156.0 1.0 T -70.9 120.2 156.0 1.0 0.0 HOH
 1.688
 H
 O
2yoa 1 P21707 87.42 2e-84 X-RAY
 2013-03-20 VAL A:35 A:304 159.0 1.0 T -60.9 132.5 159.0 1.0 0.0 CA
CA
CA
SEP
HOH
 7.298
5.716
8.939
7.322
4.827
 N
N
N
N
N
 CA
CA
CA
O
O
VAL B:35 B:304 159.0 1.0 T -60.0 134.3 NA NA NA
5t0s 1 P46096 87.42 2e-84 X-RAY
 2017-06-14 VAL A:34 A:304 154.0 0.994 T -59.4 125.3 154.0 0.994 0.0 CD
HOH
 7.465
3.924
 N
CA
 CD
O
2lha 1 P21579 87.42 3e-84 NMR
 2012-05-02 VAL A:35 A:304 143.0 0.923 T -63.3 104.1 143.0 0.923 0.0
5w5d 6 P21707 87.42 3e-84 X-RAY
 2017-08-23 VAL F:35 F:304 118.0 0.761 S -85.9 149.2 118.0 0.761 0.0 HOH
 7.116
 O
 O
6u4u 1 P21579 84.71 4e-84 X-RAY
 2020-05-13 VAL A:40 A:305 137.0 0.884 T -55.7 132.8 137.0 0.884 0.0 HOH
 4.008
 HG22
 O
1tjm 1 P21707 84.81 4e-84 X-RAY
 2004-09-28 VAL A:42 A:304 152.0 0.981 T -59.3 125.0 152.0 0.981 0.0 SR
HOH
 7.099
2.025
 H
HG13
 SR
H1
1tjx 1 P21707 84.81 4e-84 X-RAY
 2004-11-23 VAL A:42 A:304 155.0 1.0 T -64.4 126.4 155.0 1.0 0.0 CA
CA
HOH
 5.301
7.148
2.695
 H
H
HG21
 CA
CA
O
1uov 1 P21707 84.81 4e-84 X-RAY
 2004-09-09 VAL A:42 A:304 160.0 1.0 T -65.4 -17.9 160.0 1.0 0.0 CA
CA
CA
HOH
 5.901
7.211
7.519
2.991
 N
N
N
N
 CA
CA
CA
O
1uow 1 P21707 84.81 4e-84 X-RAY
 2004-09-16 VAL A:42 A:304 155.0 1.0 T -64.8 126.5 155.0 1.0 0.0 CA
CA
HOH
 5.782
7.378
3.110
 N
N
CG2
 CA
CA
O
6u4w 1 P21579 84.08 7e-84 X-RAY
 2020-05-13 VAL A:40 A:305 129.0 0.832 T -40.7 140.0 129.0 0.832 0.0 HOH
 6.258
 HG22
 O
2n1t 5 P21579 85.81 7e-84 NMR
 2015-06-03 VAL E:42 E:304 138.0 0.89 S -69.1 -51.0 138.0 0.89 0.0
4v11 1 P21579 87.33 1e-83 X-RAY
 2015-02-25 VAL A:33 A:305 152.0 0.981 T -95.5 127.2 152.0 0.981 0.0 CA
CA
HOH
 7.085
5.798
2.842
 N
N
N
 CA
CA
O
5vff 1 P46096 86.75 2e-83 X-RAY
 2018-04-11 VAL A:34 A:304 189.0 1.0 -73.8 360.0 189.0 1.0 0.0 PB
HOH
 8.717
3.086
 O
O
 PB
O
5vfg 1 P46096 86.75 2e-83 X-RAY
 2018-04-11 VAL A:34 A:304 153.0 0.987 T -56.1 129.4 153.0 0.987 0.0 PB
HOH
 7.435
3.383
 N
C
 PB
O
6u41 1 P21579 84.08 2e-83 X-RAY
 2020-05-13 VAL A:40 A:305 165.0 1.0 S -78.1 -53.6 165.0 1.0 0.0 HOH
 5.012
 HG12
 O
5ccj 1 P21707 84.11 8e-80 X-RAY
 2015-08-12 VAL A:35 A:304 142.0 0.916 T -59.8 -26.8 142.0 0.916 0.0 SO4
HOH
 9.589
3.696
 N
CG1
 O3
O
VAL B:35 B:304 142.0 0.916 T -59.9 131.5 NA NA NA
VAL C:35 C:304 86.0 NA T -61.9 138.3 NA NA NA
VAL D:35 D:304 88.0 NA T -65.5 136.8 NA NA NA

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-q8n9i0-f1 1 Q8N9I0 100.0 0.0 VAL A:302 A:302 162.0 1.0 T -56.3 -23.8