Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr12 79747391 . G A CCDS9017.1:NM_001135805.1:c.920gGc>gAc_NP_001129277.1:p.307G>D 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 GLY F:167 F:306 16.0 0.213 S -78.9 178.3 16.0 0.213 0.0 GOL
HOH
 2.840
3.842
 O
C
 O1
O
5ccg 5 P21707 100.0 0.0 X-RAY
 2015-08-12 GLY E:166 E:306 23.0 0.307 S -131.8 173.6 23.0 0.307 0.0 CA
CA
 7.431
7.657
 C
O
 CA
CA
GLY F:166 F:306 110.0 1.0 360.0 173.1 110.0 1.0 0.0 CA
 7.243
 CA
 CA
GLY K:166 K:306 24.0 0.32 S -131.9 172.9 NA NA NA
5cch 5 P21707 100.0 0.0 X-RAY
 2015-08-12 GLY E:166 E:306 17.0 0.227 B -167.6 169.0 17.0 0.227 0.0 CA
CA
 6.067
6.762
 O
O
 CA
CA
GLY F:166 NA:NA DO NA DO DO DO NA NA NA
5cci 5 P21707 100.0 0.0 X-RAY
 2015-08-12 GLY E:166 E:306 35.0 0.467 S -178.9 -175.5 35.0 0.467 0.0 MG
 8.148
 O
 MG
GLY F:166 NA:NA DO NA DO DO DO NA NA NA
6mti 2 P21707 100.0 0.0 EM
 2019-04-24 GLY B:166 2:587 35.0 0.467 S -178.8 -175.5 35.0 0.467 0.0 MG
 8.147
 O
 MG
GLY C:166 3:587 34.0 0.453 S -178.9 -175.4 34.0 0.453 0.0 MG
 8.148
 O
 MG
GLY D:166 4:587 34.0 0.453 S -178.9 -175.5 34.0 0.453 0.0 MG
 8.148
 O
 MG
GLY E:166 5:587 34.0 0.453 S -178.8 -175.5 34.0 0.453 0.0 MG
 8.147
 O
 MG
2r83 1 P21579 99.65 0.0 X-RAY
 2008-02-12 GLY A:169 A:306 28.0 0.373 S -166.8 -159.5 28.0 0.373 0.0 HOH
 8.563
 C
 O
GLY B:169 B:306 28.0 0.373 S -166.9 -159.2 28.0 0.373 0.0 HOH
 8.896
 C
 O
5kj7 5 P21707 100.0 0.0 X-RAY
 2016-10-19 GLY E:166 E:306 25.0 0.333 S -133.0 179.7 25.0 0.333 0.0 CA
CA
 7.411
7.801
 C
O
 CA
CA
GLY F:166 F:306 114.0 1.0 360.0 -174.7 NA NA NA
GLY K:166 K:306 24.0 0.32 S -133.0 178.4 NA NA NA
5kj8 5 P21707 100.0 0.0 X-RAY
 2016-10-19 GLY E:166 E:306 38.0 0.507 S -131.1 170.2 38.0 0.507 0.0 CA
CA
 7.296
7.337
 C
O
 CA
CA
GLY F:166 F:306 104.0 1.0 360.0 169.1 NA NA NA
GLY K:166 K:306 18.0 0.24 S -132.7 167.5 NA NA NA
2lha 1 P21579 100.0 4e-96 NMR
 2012-05-02 GLY A:37 A:306 21.0 0.28 S -135.5 -150.3 21.0 0.28 0.0
5w5d 6 P21707 100.0 4e-96 X-RAY
 2017-08-23 GLY F:37 F:306 37.0 0.493 S -110.9 177.1 37.0 0.493 0.0 HOH
 3.160
 CA
 O
5t0s 1 P46096 100.0 2e-95 X-RAY
 2017-06-14 GLY A:36 A:306 27.0 0.36 S -108.8 -147.0 27.0 0.36 0.0 CD
HOH
 8.058
3.048
 C
O
 CD
O
2yoa 1 P21707 100.0 3e-95 X-RAY
 2013-03-20 GLY A:37 A:306 30.0 0.4 S -155.1 -150.5 30.0 0.4 0.0 CA
CA
SEP
HOH
 7.921
8.533
6.928
2.735
 C
C
CA
O
 CA
CA
N
O
GLY B:37 B:306 28.0 0.373 S -148.4 -148.6 NA NA NA
6tz3 1 P21579 100.0 3e-95 X-RAY
 2020-05-13 GLY A:42 A:307 31.0 0.413 S -130.7 -159.3 31.0 0.413 0.0 HOH
 4.406
 H
 O
1tjm 1 P21707 100.0 4e-95 X-RAY
 2004-09-28 GLY A:44 A:306 27.0 0.36 S -151.3 -148.4 27.0 0.36 0.0 SR
HOH
 7.570
1.980
 HA3
HA2
 SR
H1
1tjx 1 P21707 100.0 4e-95 X-RAY
 2004-11-23 GLY A:44 A:306 27.0 0.36 S -146.1 -149.0 27.0 0.36 0.0 CA
CA
HOH
 8.459
7.636
2.763
 HA3
HA3
HA2
 CA
CA
H2
1uov 1 P21707 100.0 4e-95 X-RAY
 2004-09-09 GLY A:44 A:306 29.0 0.387 S 100.6 -1.1 29.0 0.387 0.0 CA
CA
CA
HOH
 9.057
9.137
7.666
3.472
 N
N
N
N
 CA
CA
CA
O
1uow 1 P21707 100.0 4e-95 X-RAY
 2004-09-16 GLY A:44 A:306 28.0 0.373 S -145.3 -148.1 28.0 0.373 0.0 CA
CA
HOH
 8.793
8.217
3.732
 C
C
CA
 CA
CA
O
4v11 1 P21579 100.0 2e-94 X-RAY
 2015-02-25 GLY A:35 A:307 21.0 0.28 S -176.8 -177.4 21.0 0.28 0.0 CA
CA
HOH
 7.204
8.217
4.001
 C
C
CA
 CA
CA
O
6u4w 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 GLY A:42 A:307 35.0 0.467 S -100.6 -153.8 35.0 0.467 0.0 HOH
 4.670
 O
 O
6u4u 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 GLY A:42 A:307 42.0 0.56 S -114.0 -147.2 42.0 0.56 0.0 HOH
 2.780
 C
 O
6u41 1 P21579 99.34 3e-94 X-RAY
 2020-05-13 GLY A:42 A:307 75.0 1.0 S 78.2 -157.9 75.0 1.0 0.0 HOH
 3.726
 HA3
 O
5vff 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 GLY A:36 NA:NA DO NA DO DO DO NA NA NA
5vfg 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 GLY A:36 A:306 23.0 0.307 S -143.0 -144.9 23.0 0.307 0.0 PB
HOH
 8.082
3.923
 C
CA
 PB
O
2n1t 5 P21579 100.0 3e-93 NMR
 2015-06-03 GLY E:44 E:306 29.0 0.387 S -80.8 -178.2 29.0 0.387 0.0
5ccj 1 P21707 96.69 7e-91 X-RAY
 2015-08-12 GLY A:37 A:306 31.0 0.413 S 94.6 4.0 31.0 0.413 0.0 GOL
HOH
 7.178
3.632
 O
N
 O1
O
GLY B:37 B:306 17.0 0.227 S -88.5 -164.5 NA NA NA
GLY C:37 C:306 20.0 0.267 S -136.6 -162.2 NA NA NA
GLY D:37 D:306 19.0 0.253 S -105.1 -163.2 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 GLY A:307 A:307 27.0 0.36 S -103.3 -154.7