Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr12 79747379 . T A CCDS9017.1:NM_001135805.1:c.908aTg>aAg_NP_001129277.1:p.303M>K 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 MET F:163 F:302 58.0 0.314 S -60.6 -69.2 58.0 0.314 0.0 GOL
HOH
 6.284
3.244
 N
CA
 O1
O
5ccg 5 P21707 100.0 0.0 X-RAY
 2015-08-12 MET E:162 E:302 51.0 0.276 -120.2 -64.3 51.0 0.276 0.0 CA
CA
 5.723
2.986
 C
C
 CA
CA
MET F:162 F:302 54.0 0.292 -120.1 150.4 54.0 0.292 0.0 CA
 6.215
 O
 CA
MET K:162 K:302 66.0 0.357 -118.7 -66.8 NA NA NA
5cch 5 P21707 100.0 0.0 X-RAY
 2015-08-12 MET E:162 E:302 49.0 0.265 -116.6 9.6 49.0 0.265 0.0 CA
CA
 4.446
2.109
 O
O
 CA
CA
MET F:162 NA:NA DO NA DO DO DO NA NA NA
5cci 5 P21707 100.0 0.0 X-RAY
 2015-08-12 MET E:162 E:302 39.0 0.211 -119.8 -23.1 39.0 0.211 0.0 MG
 5.433
 C
 MG
MET F:162 F:302 186.0 1.0 49.2 360.0 186.0 1.0 0.0 MG
 2.373
 O
 MG
6mti 2 P21707 100.0 0.0 EM
 2019-04-24 MET B:162 2:583 39.0 0.211 -119.8 -23.1 39.0 0.211 0.0 MG
 5.433
 C
 MG
MET C:162 3:583 38.0 0.205 -119.8 -23.1 38.0 0.205 0.0 MG
 5.433
 C
 MG
MET D:162 4:583 38.0 0.205 -119.8 -23.1 38.0 0.205 0.0 MG
 5.434
 C
 MG
MET E:162 5:583 39.0 0.211 -119.9 -23.1 39.0 0.211 0.0 MG
 5.431
 C
 MG
2r83 1 P21579 99.65 0.0 X-RAY
 2008-02-12 MET A:165 A:302 50.0 0.27 -103.9 -6.5 50.0 0.27 0.0 HOH
 4.928
 O
 O
MET B:165 B:302 51.0 0.276 -104.1 -6.4 51.0 0.276 0.0 HOH
 5.213
 O
 O
5kj7 5 P21707 100.0 0.0 X-RAY
 2016-10-19 MET E:162 E:302 48.0 0.259 -119.8 -64.5 48.0 0.259 0.0 CA
CA
 5.644
3.056
 C
C
 CA
CA
MET F:162 F:302 51.0 0.276 -120.6 148.5 NA NA NA
MET K:162 K:302 64.0 0.346 -118.9 -64.1 NA NA NA
5kj8 5 P21707 100.0 0.0 X-RAY
 2016-10-19 MET E:162 E:302 62.0 0.335 -110.8 -85.1 62.0 0.335 0.0 CA
CA
 5.187
2.966
 CB
CB
 CA
CA
MET F:162 F:302 50.0 0.27 -113.4 158.4 NA NA NA
MET K:162 K:302 68.0 0.368 -114.8 -6.2 NA NA NA
2lha 1 P21579 100.0 4e-96 NMR
 2012-05-02 MET A:33 A:302 65.0 0.351 -98.2 -21.9 65.0 0.351 0.0
5w5d 6 P21707 100.0 4e-96 X-RAY
 2017-08-23 MET F:33 F:302 50.0 0.27 S -59.6 -52.6 50.0 0.27 0.0 HOH
 4.633
 N
 O
5t0s 1 P46096 100.0 2e-95 X-RAY
 2017-06-14 MET A:32 A:302 50.0 0.27 -109.4 -27.6 50.0 0.27 0.0 CD
HOH
 5.802
3.578
 CB
O
 CD
O
2yoa 1 P21707 100.0 3e-95 X-RAY
 2013-03-20 MET A:33 A:302 54.0 0.292 -129.8 10.4 54.0 0.292 0.0 CA
CA
CA
SEP
HOH
 5.107
2.334
6.010
6.337
3.090
 O
O
O
O
O
 CA
CA
CA
O
O
MET B:33 B:302 51.0 0.276 -127.8 10.0 NA NA NA
6tz3 1 P21579 100.0 3e-95 X-RAY
 2020-05-13 MET A:38 A:303 45.0 0.243 -113.9 -7.9 45.0 0.243 0.0 HOH
 3.292
 HE3
 O
1tjm 1 P21707 100.0 4e-95 X-RAY
 2004-09-28 MET A:40 A:302 48.0 0.259 -116.0 -26.5 48.0 0.259 0.0 SR
HOH
 4.962
2.736
 HB2
HB2
 SR
H1
1tjx 1 P21707 100.0 4e-95 X-RAY
 2004-11-23 MET A:40 A:302 33.0 0.178 -126.4 2.7 33.0 0.178 0.0 CA
CA
HOH
 2.482
4.912
2.872
 O
HB2
O
 CA
CA
H1
1uov 1 P21707 100.0 4e-95 X-RAY
 2004-09-09 MET A:40 A:302 43.0 0.232 -122.6 3.5 43.0 0.232 0.0 CA
CA
CA
HOH
 2.372
5.014
7.602
3.013
 O
O
C
O
 CA
CA
CA
O
1uow 1 P21707 100.0 4e-95 X-RAY
 2004-09-16 MET A:40 A:302 34.0 0.184 -126.3 2.8 34.0 0.184 0.0 CA
CA
HOH
 2.476
5.106
3.154
 O
O
O
 CA
CA
O
4v11 1 P21579 100.0 2e-94 X-RAY
 2015-02-25 MET A:31 A:303 36.0 0.195 -116.8 7.6 36.0 0.195 0.0 CA
CA
HOH
 5.184
2.469
3.167
 O
O
O
 CA
CA
O
6u4w 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 MET A:38 A:303 38.0 0.205 S -81.3 -62.5 38.0 0.205 0.0 HOH
 2.690
 H
 O
6u4u 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 MET A:38 A:303 38.0 0.205 S -90.9 -36.8 38.0 0.205 0.0 SO4
HOH
 9.878
2.663
 HE3
HB2
 O4
O
6u41 1 P21579 99.34 3e-94 X-RAY
 2020-05-13 MET A:38 A:303 40.0 0.216 -114.7 161.5 40.0 0.216 0.0 HOH
 1.960
 H
 O
5vff 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 MET A:32 A:302 39.0 0.211 -77.6 -34.2 39.0 0.211 0.0 PB
HOH
 6.116
3.089
 CB
N
 PB
O
5vfg 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 MET A:32 A:302 42.0 0.227 -112.1 -14.8 42.0 0.227 0.0 PB
HOH
 5.695
2.429
 CB
O
 PB
O
2n1t 5 P21579 100.0 3e-93 NMR
 2015-06-03 MET E:40 E:302 69.0 0.373 -87.5 -54.7 69.0 0.373 0.0
5ccj 1 P21707 96.69 7e-91 X-RAY
 2015-08-12 MET A:33 A:302 52.0 0.281 -128.3 -3.5 52.0 0.281 0.0 SO4
HOH
 5.570
2.957
 SD
O
 O3
O
MET B:33 B:302 50.0 0.27 -92.4 -30.1 NA NA NA
MET C:33 C:302 54.0 0.292 S -90.3 -16.6 NA NA NA
MET D:33 D:302 59.0 0.319 S -84.1 -33.8 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 MET A:303 A:303 54.0 0.292 -116.0 -33.2