Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr12 79747397 . C A CCDS9017.1:NM_001135805.1:c.926tCc>tAc_NP_001129277.1:p.309S>Y 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 SER F:169 F:308 5.0 0.043 -99.5 133.7 5.0 0.043 0.0 GOL
HOH
 2.900
3.340
 N
OG
 O2
O
5ccg 5 P21707 100.0 0.0 X-RAY
 2015-08-12 SER E:168 E:308 0.0 0.0 -168.4 161.9 0.0 0.0 0.0 CA
CA
 5.386
7.240
 C
CA
 CA
CA
SER F:168 F:308 3.0 0.026 -165.5 161.2 3.0 0.026 0.0 CA
 5.775
 C
 CA
SER K:168 K:308 2.0 0.017 -168.4 160.3 NA NA NA
5cch 5 P21707 100.0 0.0 X-RAY
 2015-08-12 SER E:168 E:308 16.0 0.139 -139.9 154.6 16.0 0.139 0.0 CA
CA
 2.953
6.152
 OG
OG
 CA
CA
SER F:168 F:308 65.0 0.565 360.0 169.6 65.0 0.565 0.0 CA
CA
 4.087
4.196
 C
CA
 CA
CA
5cci 5 P21707 100.0 0.0 X-RAY
 2015-08-12 SER E:168 E:308 6.0 0.052 B -107.7 167.9 6.0 0.052 0.0 MG
 5.026
 C
 MG
SER F:168 F:308 30.0 0.261 360.0 166.7 30.0 0.261 0.0 MG
 4.823
 OG
 MG
6mti 2 P21707 100.0 0.0 EM
 2019-04-24 SER B:168 2:589 6.0 0.052 B -107.7 167.8 6.0 0.052 0.0 MG
 5.026
 C
 MG
SER C:168 3:589 6.0 0.052 B -107.7 167.9 6.0 0.052 0.0 MG
 5.025
 C
 MG
SER D:168 4:589 6.0 0.052 B -107.7 167.8 6.0 0.052 0.0 MG
 5.026
 C
 MG
SER E:168 5:589 6.0 0.052 B -107.7 167.8 6.0 0.052 0.0 MG
 5.025
 C
 MG
2r83 1 P21579 99.65 0.0 X-RAY
 2008-02-12 SER A:171 A:308 1.0 0.009 -158.1 168.8 1.0 0.009 0.0 HOH
 5.219
 C
 O
SER B:171 B:308 1.0 0.009 -158.1 168.3 1.0 0.009 0.0 HOH
 5.773
 C
 O
5kj7 5 P21707 100.0 0.0 X-RAY
 2016-10-19 SER E:168 E:308 0.0 0.0 -166.7 164.5 0.0 0.0 0.0 CA
CA
 5.312
7.266
 C
CA
 CA
CA
SER F:168 F:308 2.0 0.017 -161.3 164.7 NA NA NA
SER K:168 K:308 1.0 0.009 -166.8 162.8 NA NA NA
5kj8 5 P21707 100.0 0.0 X-RAY
 2016-10-19 SER E:168 E:308 1.0 0.009 -172.7 162.8 1.0 0.009 0.0 CA
CA
 4.263
6.382
 C
CA
 CA
CA
SER F:168 F:308 3.0 0.026 -168.1 160.5 NA NA NA
SER K:168 K:308 0.0 0.0 -171.2 160.9 NA NA NA
2lha 1 P21579 100.0 4e-96 NMR
 2012-05-02 SER A:39 A:308 3.0 0.026 B -93.0 165.0 3.0 0.026 0.0 IHP
 7.659
 O
 O21
5w5d 6 P21707 100.0 4e-96 X-RAY
 2017-08-23 SER F:39 F:308 2.0 0.017 -87.3 166.0 2.0 0.017 0.0 HOH
 2.189
 OG
 O
5t0s 1 P46096 100.0 2e-95 X-RAY
 2017-06-14 SER A:38 A:308 0.0 0.0 -151.1 158.6 0.0 0.0 0.0 CD
HOH
 4.667
4.174
 C
N
 CD
O
2yoa 1 P21707 100.0 3e-95 X-RAY
 2013-03-20 SER A:39 A:308 0.0 0.0 -143.4 164.5 0.0 0.0 0.0 CA
CA
SEP
CA
SCN
HOH
 4.841
6.474
6.113
7.010
8.313
3.479
 C
OG
C
C
O
N
 CA
CA
N
CA
N
O
SER B:39 B:308 0.0 0.0 -143.6 164.2 NA NA NA
6tz3 1 P21579 100.0 3e-95 X-RAY
 2020-05-13 SER A:44 A:309 0.0 0.0 -139.0 166.2 0.0 0.0 0.0 HOH
 4.381
 HA
 O
1tjm 1 P21707 100.0 4e-95 X-RAY
 2004-09-28 SER A:46 A:308 0.0 0.0 -143.6 164.1 0.0 0.0 0.0 SR
HOH
 4.194
1.510
 HA
HB3
 SR
H1
1tjx 1 P21707 100.0 4e-95 X-RAY
 2004-11-23 SER A:46 A:308 0.0 0.0 -143.9 166.1 0.0 0.0 0.0 CA
CA
HOH
 5.722
4.251
2.063
 HA
HA
HB3
 CA
CA
O
1uov 1 P21707 100.0 4e-95 X-RAY
 2004-09-09 SER A:46 A:308 0.0 0.0 -145.8 168.7 0.0 0.0 0.0 CA
CA
CA
HOH
 6.619
4.891
4.692
3.307
 CA
C
O
N
 CA
CA
CA
O
1uow 1 P21707 100.0 4e-95 X-RAY
 2004-09-16 SER A:46 A:308 0.0 0.0 -144.2 166.4 0.0 0.0 0.0 CA
CA
HOH
 6.674
4.898
2.909
 CA
C
CB
 CA
CA
O
4v11 1 P21579 100.0 2e-94 X-RAY
 2015-02-25 SER A:37 A:309 0.0 0.0 -144.3 164.8 0.0 0.0 0.0 CA
CA
HOH
 4.736
6.415
3.814
 C
CA
O
 CA
CA
O
6u4w 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 SER A:44 A:309 3.0 0.026 -109.3 121.0 3.0 0.026 0.0 SO4
HOH
 6.165
2.253
 HB3
H
 O4
O
6u4u 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 SER A:44 A:309 11.0 0.096 -100.4 121.4 11.0 0.096 0.0 SO4
HOH
 6.346
2.132
 HB3
H
 O2
O
6u41 1 P21579 99.34 3e-94 X-RAY
 2020-05-13 SER A:44 A:309 11.0 0.096 -91.5 119.6 11.0 0.096 0.0 SO4
HOH
 6.004
2.211
 HB3
H
 O4
O
5vff 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 SER A:38 A:308 1.0 0.009 -60.7 158.6 1.0 0.009 0.0 PB
HOH
 4.990
2.962
 C
N
 PB
O
5vfg 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 SER A:38 A:308 0.0 0.0 -144.2 165.8 0.0 0.0 0.0 PB
HOH
 5.124
6.789
 C
N
 PB
O
2n1t 5 P21579 100.0 3e-93 NMR
 2015-06-03 SER E:46 E:308 3.0 0.026 -64.7 147.9 3.0 0.026 0.0
5ccj 1 P21707 96.69 7e-91 X-RAY
 2015-08-12 SER A:39 A:308 1.0 0.009 -149.9 165.2 1.0 0.009 0.0 GOL
SO4
HOH
 7.032
9.734
7.286
 N
OG
O
 O1
O3
O
SER B:39 B:308 3.0 0.026 -94.3 119.0 NA NA NA
SER C:39 C:308 2.0 0.017 -94.1 123.2 NA NA NA
SER D:39 D:308 3.0 0.026 -94.2 114.7 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 SER A:309 A:309 0.0 0.0 -147.4 156.3