Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr12 79842833 . C A CCDS9017.1:NM_001135805.1:c.1198Cga>Aga_NP_001129277.1:p.400R>R Homo sapiens synaptotagmin 1 (SYT1), 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 100.0 0.0 X-RAY
 2017-08-23 ARG F:260 F:399 106.0 NA S -110.8 132.8 106.0 NA NA HOH
 2.713
 O
 O
5ccg 5 P21707 100.0 0.0 X-RAY
 2015-08-12 ARG E:259 E:399 154.0 0.684 -140.6 136.1 81.0 0.36 0.324 B:P32851:0.178
C:P60881:0.244
 HOH
 8.655
 NH1
 O
ARG F:259 F:399 132.0 0.587 -139.7 135.8 132.0 0.587 0.0
ARG K:259 K:399 163.0 0.724 S -142.9 138.9 NA NA NA
5cch 5 P21707 100.0 0.0 X-RAY
 2015-08-12 ARG E:259 E:399 148.0 0.658 -96.4 130.2 119.0 0.529 0.129 C:P60881:0.129
ARG F:259 F:399 162.0 0.72 -94.8 128.6 162.0 0.72 0.0
5cci 5 P21707 100.0 0.0 X-RAY
 2015-08-12 ARG E:259 E:399 157.0 0.698 S -153.3 130.5 85.0 0.378 0.32 B:P32851:0.044
C:P60881:0.209
F:P21707:0.08
ARG F:259 F:399 135.0 0.6 S -153.8 131.2 135.0 0.6 0.0
6mti 2 P21707 100.0 0.0 EM
 2019-04-24 ARG B:259 2:680 157.0 0.698 S -153.4 130.5 87.0 0.387 0.311 L:P32851:0.062
M:P60881:0.28
ARG C:259 3:680 153.0 0.68 S -153.3 130.6 91.0 0.404 0.276 H:P32851:0.044
I:P60881:0.249
ARG D:259 4:680 160.0 0.711 S -153.3 130.6 78.0 0.347 0.364 T:P32851:0.022
U:P60881:0.364
ARG E:259 5:680 157.0 0.698 S -153.3 130.6 96.0 0.427 0.271 X:P32851:0.058
Y:P60881:0.24
2r83 1 P21579 99.65 0.0 X-RAY
 2008-02-12 ARG A:262 A:399 133.0 0.591 S -114.4 137.4 133.0 0.591 0.0 HOH
 8.032
 C
 O
ARG B:262 B:399 138.0 0.613 S -115.3 137.1 138.0 0.613 0.0 HOH
 2.936
 O
 O
5kj7 5 P21707 100.0 0.0 X-RAY
 2016-10-19 ARG E:259 E:399 156.0 0.693 -141.6 137.8 81.0 0.36 0.333 B:P32851:0.16
C:P60881:0.258
 HOH
 8.392
 NH1
 O
ARG F:259 F:399 131.0 0.582 -144.4 127.1 NA NA NA
ARG K:259 K:399 168.0 0.747 S -144.1 140.3 NA NA NA
5kj8 5 P21707 100.0 0.0 X-RAY
 2016-10-19 ARG E:259 E:399 163.0 0.724 S -136.8 136.0 88.0 0.391 0.333 B:P32851:0.182
C:P60881:0.231
ARG F:259 F:399 170.0 0.756 S -134.6 134.4 NA NA NA
ARG K:259 K:399 164.0 0.729 S -137.0 136.6 NA NA NA
2lha 1 P21579 100.0 4e-96 NMR
 2012-05-02 ARG A:130 A:399 156.0 0.693 -80.3 122.4 156.0 0.693 0.0
5w5d 6 P21707 100.0 4e-96 X-RAY
 2017-08-23 ARG F:130 F:399 141.0 0.627 -135.9 123.3 141.0 0.627 0.0 HOH
 3.090
 O
 O
5t0s 1 P46096 100.0 2e-95 X-RAY
 2017-06-14 ARG A:129 A:399 152.0 0.676 S -104.4 128.9 152.0 0.676 0.0 HOH
 3.053
 CG
 O
2yoa 1 P21707 100.0 3e-95 X-RAY
 2013-03-20 ARG A:130 A:399 134.0 0.596 S -154.7 155.0 134.0 0.596 0.0 HOH
 2.780
 O
 O
ARG B:130 B:399 139.0 0.618 S -155.0 159.8 NA NA NA
6tz3 1 P21579 100.0 3e-95 X-RAY
 2020-05-13 ARG A:135 A:400 140.0 0.622 -90.1 123.1 140.0 0.622 0.0 SO4
HOH
 8.427
2.159
 N
HH11
 O2
O
1tjm 1 P21707 100.0 4e-95 X-RAY
 2004-09-28 ARG A:137 A:399 146.0 0.649 -87.3 127.1 146.0 0.649 0.0 HOH
 1.614
 HA
 H1
1tjx 1 P21707 100.0 4e-95 X-RAY
 2004-11-23 ARG A:137 A:399 149.0 0.662 -92.6 124.5 149.0 0.662 0.0 HOH
 2.445
 H
 H1
1uov 1 P21707 100.0 4e-95 X-RAY
 2004-09-09 ARG A:137 A:399 148.0 0.658 -93.9 126.5 148.0 0.658 0.0 HOH
 2.883
 O
 O
1uow 1 P21707 100.0 4e-95 X-RAY
 2004-09-16 ARG A:137 A:399 146.0 0.649 -91.2 126.5 146.0 0.649 0.0 HOH
 2.809
 O
 O
4v11 1 P21579 100.0 2e-94 X-RAY
 2015-02-25 ARG A:128 A:400 164.0 0.729 S -108.8 131.1 164.0 0.729 0.0 HOH
 2.820
 O
 O
6u4w 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 ARG A:135 A:400 144.0 0.64 -90.9 123.0 144.0 0.64 0.0 SO4
HOH
 8.235
2.803
 N
O
 O1
O
6u4u 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 ARG A:135 A:400 138.0 0.613 -92.5 126.1 138.0 0.613 0.0 HOH
 2.165
 HH11
 O
6u41 1 P21579 99.34 3e-94 X-RAY
 2020-05-13 ARG A:135 A:400 138.0 0.613 -90.5 121.5 138.0 0.613 0.0 SO4
HOH
 6.053
2.227
 HA
HH11
 O1
O
5vff 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 ARG A:129 A:399 157.0 0.698 S -113.4 130.6 157.0 0.698 0.0 HOH
 2.870
 O
 O
5vfg 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 ARG A:129 A:399 151.0 0.671 -111.9 133.1 151.0 0.671 0.0 HOH
 2.594
 O
 O
2n1t 5 P21579 100.0 3e-93 NMR
 2015-06-03 ARG E:137 E:399 43.0 0.191 -57.7 129.6 43.0 0.191 0.0
5ccj 1 P21707 96.69 7e-91 X-RAY
 2015-08-12 ALA A:130 A:399 32.0 0.278 -90.6 141.1 32.0 0.278 0.0 GOL
HOH
 3.399
2.766
 CB
O
 O3
O
ALA B:130 B:399 33.0 0.287 -73.4 138.8 NA NA NA
ALA C:130 C:399 35.0 0.304 -90.9 137.4 NA NA NA
ALA D:130 D:399 33.0 0.287 -75.9 135.8 NA NA NA

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-p21579-f1 1 P21579 100.0 0.0 ARG A:400 A:400 173.0 0.769 S -102.8 134.9