Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr1 202569534 . G A CCDS1427.1:NM_001136504.1:c.870tgC>tgT_NP_001129976.1:p.290C>C 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:153 F:292 20.0 0.129 E -110.2 113.1 20.0 0.129 0.0 HOH
 3.475
 CG2
 O
2r83 1 P21579 86.17 5e-174 X-RAY
 2008-02-12 VAL A:155 A:292 22.0 0.142 E -110.4 115.9 22.0 0.142 0.0 HOH
 4.109
 CB
 O
VAL B:155 B:292 23.0 0.148 E -110.6 115.6 23.0 0.148 0.0 HOH
 6.553
 CG2
 O
5ccg 5 P21707 86.79 6e-174 X-RAY
 2015-08-12 VAL E:152 E:292 24.0 0.155 E -96.6 99.1 7.0 0.045 0.11 C:P60881:0.11
VAL F:152 F:292 22.0 0.142 E -98.9 99.7 22.0 0.142 0.0
VAL K:152 K:292 25.0 0.161 E -97.2 98.6 NA NA NA
5cch 5 P21707 86.79 6e-174 X-RAY
 2015-08-12 VAL E:152 E:292 26.0 0.168 E -110.2 112.6 11.0 0.071 0.097 C:P60881:0.097
VAL F:152 F:292 27.0 0.174 E -110.2 114.7 27.0 0.174 0.0
5cci 5 P21707 86.79 6e-174 X-RAY
 2015-08-12 VAL E:152 E:292 22.0 0.142 E -104.5 106.3 9.0 0.058 0.084 C:P60881:0.084
VAL F:152 F:292 21.0 0.135 E -104.6 108.0 21.0 0.135 0.0
6mti 2 P21707 86.79 6e-174 EM
 2019-04-24 VAL B:152 2:573 22.0 0.142 E -104.4 106.3 13.0 0.084 0.058 M:P60881:0.058
VAL C:152 3:573 21.0 0.135 E -104.4 106.4 13.0 0.084 0.051 I:P60881:0.052
VAL D:152 4:573 22.0 0.142 E -104.4 106.4 16.0 0.103 0.039 U:P60881:0.039
VAL E:152 5:573 22.0 0.142 E -104.3 106.4 13.0 0.084 0.058 Y:P60881:0.058
5kj7 5 P21707 87.36 6e-174 X-RAY
 2016-10-19 VAL E:152 E:292 23.0 0.148 E -98.1 99.4 7.0 0.045 0.103 C:P60881:0.103
VAL F:152 F:292 24.0 0.155 E -107.1 104.8 NA NA NA
VAL K:152 K:292 24.0 0.155 E -98.5 99.4 NA NA NA
5kj8 5 P21707 87.36 6e-174 X-RAY
 2016-10-19 VAL E:152 E:292 20.0 0.129 E -101.6 103.2 5.0 0.032 0.097 C:P60881:0.097
VAL F:152 F:292 24.0 0.155 E -102.4 102.8 NA NA NA
VAL K:152 K:292 21.0 0.135 E -101.9 102.1 NA NA NA
6tz3 1 P21579 84.71 1e-84 X-RAY
 2020-05-13 VAL A:28 A:293 22.0 0.142 E -112.5 116.9 22.0 0.142 0.0 HOH
 2.867
 HG23
 O
2yoa 1 P21707 87.42 2e-84 X-RAY
 2013-03-20 VAL A:23 A:292 18.0 0.116 E -110.2 116.8 18.0 0.116 0.0 HOH
 3.511
 CG2
 O
VAL B:23 B:292 19.0 0.123 E -110.7 120.7 NA NA NA
5t0s 1 P46096 87.42 2e-84 X-RAY
 2017-06-14 VAL A:22 A:292 21.0 0.135 E -108.6 117.2 21.0 0.135 0.0 HOH
 3.557
 CG2
 O
2lha 1 P21579 87.42 3e-84 NMR
 2012-05-02 VAL A:23 A:292 13.0 0.084 E -99.2 100.9 13.0 0.084 0.0
5w5d 6 P21707 87.42 3e-84 X-RAY
 2017-08-23 VAL F:23 F:292 24.0 0.155 E -99.1 111.4 24.0 0.155 0.0 HOH
 3.616
 CG2
 O
6u4u 1 P21579 84.71 4e-84 X-RAY
 2020-05-13 VAL A:28 A:293 22.0 0.142 E -110.1 117.7 22.0 0.142 0.0 HOH
 2.802
 HG23
 O
1tjm 1 P21707 84.81 4e-84 X-RAY
 2004-09-28 VAL A:30 A:292 23.0 0.148 E -111.5 116.9 23.0 0.148 0.0 HOH
 2.070
 HG21
 H1
1tjx 1 P21707 84.81 4e-84 X-RAY
 2004-11-23 VAL A:30 A:292 24.0 0.155 E -111.1 116.8 24.0 0.155 0.0 HOH
 2.714
 HG23
 H1
1uov 1 P21707 84.81 4e-84 X-RAY
 2004-09-09 VAL A:30 A:292 23.0 0.148 E -111.0 117.3 23.0 0.148 0.0 GOL
HOH
 7.401
3.506
 CG1
CG2
 C3
O
1uow 1 P21707 84.81 4e-84 X-RAY
 2004-09-16 VAL A:30 A:292 24.0 0.155 E -111.3 117.0 24.0 0.155 0.0 HOH
 3.293
 CG2
 O
6u4w 1 P21579 84.08 7e-84 X-RAY
 2020-05-13 VAL A:28 A:293 23.0 0.148 E -111.5 116.1 23.0 0.148 0.0 HOH
 2.823
 HG23
 O
2n1t 5 P21579 85.81 7e-84 NMR
 2015-06-03 VAL E:30 E:292 9.0 0.058 E -121.3 123.9 9.0 0.058 0.0
4v11 1 P21579 87.33 1e-83 X-RAY
 2015-02-25 VAL A:21 A:293 22.0 0.142 E -106.4 114.6 22.0 0.142 0.0 GOL
HOH
 8.075
3.545
 O
CG2
 C3
O
5vff 1 P46096 86.75 2e-83 X-RAY
 2018-04-11 VAL A:22 A:292 21.0 0.135 E -108.4 117.5 21.0 0.135 0.0 HOH
 3.496
 CG2
 O
5vfg 1 P46096 86.75 2e-83 X-RAY
 2018-04-11 VAL A:22 A:292 20.0 0.129 E -102.9 117.8 20.0 0.129 0.0 HOH
 3.572
 CG2
 O
6u41 1 P21579 84.08 2e-83 X-RAY
 2020-05-13 VAL A:28 A:293 22.0 0.142 E -111.2 116.3 22.0 0.142 0.0 HOH
 2.816
 HG23
 O
5ccj 1 P21707 84.11 8e-80 X-RAY
 2015-08-12 VAL A:23 A:292 21.0 0.135 E -108.5 119.4 21.0 0.135 0.0 SO4
HOH
 8.320
3.434
 CG1
CG2
 O2
O
VAL B:23 B:292 25.0 0.161 E -109.9 123.4 NA NA NA
VAL C:23 C:292 23.0 0.148 E -109.7 118.3 NA NA NA
VAL D:23 D:292 24.0 0.155 E -113.0 122.4 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 CYS A:290 A:290 12.0 0.089 E -98.8 125.3