Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr12 79842733 . C A CCDS9017.1:NM_001135805.1:c.1098gaC>gaA_NP_001129277.1:p.366D>E 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 ASP F:226 F:365 96.0 0.64 G -70.4 -12.4 96.0 0.64 0.0 GOL
HOH
 8.392
2.327
 OD2
OD2
 O1
O
5ccg 5 P21707 100.0 0.0 X-RAY
 2015-08-12 ASP E:225 E:365 35.0 0.233 -107.3 130.3 35.0 0.233 0.0 CA
CA
 2.600
2.840
 OD1
OD1
 CA
CA
ASP F:225 F:365 13.0 0.087 -105.5 128.8 13.0 0.087 0.0 CA
 4.121
 CA
 CA
ASP K:225 K:365 36.0 0.24 -109.3 128.2 NA NA NA
5cch 5 P21707 100.0 0.0 X-RAY
 2015-08-12 ASP E:225 E:365 44.0 0.293 -151.5 117.3 44.0 0.293 0.0 CA
CA
 3.135
3.028
 OD1
OD2
 CA
CA
ASP F:225 F:365 113.0 0.753 -129.6 360.0 113.0 0.753 0.0 CA
CA
 4.362
2.856
 OD1
OD1
 CA
CA
5cci 5 P21707 100.0 0.0 X-RAY
 2015-08-12 ASP E:225 E:365 68.0 0.453 -112.8 143.1 68.0 0.453 0.0 MG
 2.298
 OD1
 MG
ASP F:225 F:365 65.0 0.433 -110.8 155.4 65.0 0.433 0.0 MG
 3.377
 OD1
 MG
6mti 2 P21707 100.0 0.0 EM
 2019-04-24 ASP B:225 2:646 68.0 0.453 -112.8 143.1 68.0 0.453 0.0 MG
 2.298
 OD1
 MG
ASP C:225 3:646 67.0 0.447 -112.8 143.0 67.0 0.447 0.0 MG
 2.297
 OD1
 MG
ASP D:225 4:646 68.0 0.453 -112.8 143.1 68.0 0.453 0.0 MG
 2.297
 OD1
 MG
ASP E:225 5:646 69.0 0.46 -112.9 143.0 69.0 0.46 0.0 MG
 2.298
 OD1
 MG
2r83 1 P21579 99.65 0.0 X-RAY
 2008-02-12 ASP A:228 A:365 52.0 0.347 -135.7 113.6 52.0 0.347 0.0 HOH
 3.058
 O
 O
ASP B:228 B:365 53.0 0.353 -135.8 113.0 53.0 0.353 0.0 HOH
 2.900
 OD1
 O
5kj7 5 P21707 100.0 0.0 X-RAY
 2016-10-19 ASP E:225 E:365 34.0 0.227 -109.6 132.2 34.0 0.227 0.0 CA
CA
 2.732
2.923
 OD1
OD1
 CA
CA
ASP F:225 F:365 17.0 0.113 -114.0 132.1 NA NA NA
ASP K:225 K:365 33.0 0.22 -112.8 130.8 NA NA NA
5kj8 5 P21707 100.0 0.0 X-RAY
 2016-10-19 ASP E:225 E:365 23.0 0.153 -106.1 132.3 23.0 0.153 0.0 CA
CA
 3.338
2.617
 OD1
OD1
 CA
CA
ASP F:225 F:365 10.0 0.067 -108.1 132.2 NA NA NA
ASP K:225 K:365 34.0 0.227 -109.5 132.1 NA NA NA
2lha 1 P21579 100.0 4e-96 NMR
 2012-05-02 ASP A:96 A:365 74.0 0.493 G -42.6 110.0 74.0 0.493 0.0 IHP
 5.852
 N
 O33
5w5d 6 P21707 100.0 4e-96 X-RAY
 2017-08-23 ASP F:96 F:365 114.0 0.76 G -70.7 -22.1 114.0 0.76 0.0 HOH
 3.296
 CB
 O
5t0s 1 P46096 100.0 2e-95 X-RAY
 2017-06-14 ASP A:95 A:365 74.0 0.493 -132.0 -61.0 74.0 0.493 0.0 CD
HOH
 4.079
2.882
 CA
OD1
 CD
O
2yoa 1 P21707 100.0 3e-95 X-RAY
 2013-03-20 ASP A:96 A:365 24.0 0.16 -122.1 137.8 24.0 0.16 0.0 CA
CA
CA
SEP
CA
SCN
HOH
 2.419
2.517
2.328
3.083
6.067
6.951
3.117
 OD1
OD1
OD2
OD1
CA
N
OD2
 CA
CA
CA
O
CA
S
O
ASP B:96 B:365 22.0 0.147 -122.8 136.7 NA NA NA
6tz3 1 P21579 100.0 3e-95 X-RAY
 2020-05-13 ASP A:101 A:366 50.0 0.333 -128.3 135.3 50.0 0.333 0.0 SO4
HOH
 6.714
2.351
 H
O
 O4
O
1tjm 1 P21707 100.0 4e-95 X-RAY
 2004-09-28 ASP A:103 A:365 76.0 0.507 -145.5 146.2 76.0 0.507 0.0 SR
HOH
 3.824
2.071
 HB2
HA
 SR
H2
1tjx 1 P21707 100.0 4e-95 X-RAY
 2004-11-23 ASP A:103 A:365 43.0 0.287 -127.9 137.4 43.0 0.287 0.0 CA
CA
HOH
 2.607
2.494
1.904
 OD2
OD1
HA
 CA
CA
H2
1uov 1 P21707 100.0 4e-95 X-RAY
 2004-09-09 ASP A:103 A:365 46.0 0.307 -124.4 133.1 46.0 0.307 0.0 CA
CA
CA
HOH
 2.522
2.422
6.447
2.469
 OD2
OD1
OD1
O
 CA
CA
CA
O
1uow 1 P21707 100.0 4e-95 X-RAY
 2004-09-16 ASP A:103 A:365 45.0 0.3 -128.0 137.2 45.0 0.3 0.0 CA
CA
HOH
 2.621
2.482
2.355
 OD2
OD1
O
 CA
CA
O
4v11 1 P21579 100.0 2e-94 X-RAY
 2015-02-25 ASP A:94 A:366 33.0 0.22 -126.3 135.4 33.0 0.22 0.0 CA
CA
HOH
 2.339
2.459
2.343
 OD1
OD2
OD2
 CA
CA
O
6u4w 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 GLU A:101 A:366 70.0 0.368 -134.0 135.5 70.0 0.368 0.0 SO4
HOH
 6.905
2.464
 H
O
 O1
O
6u4u 1 P21579 99.34 2e-94 X-RAY
 2020-05-13 ASP A:101 A:366 42.0 0.28 -131.6 134.9 42.0 0.28 0.0 SO4
HOH
 6.778
2.417
 H
O
 O4
O
6u41 1 P21579 99.34 3e-94 X-RAY
 2020-05-13 ASP A:101 A:366 57.0 0.38 -128.2 143.2 57.0 0.38 0.0 HOH
 2.196
 HB2
 O
5vff 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 ASP A:95 A:365 67.0 0.447 -118.8 125.7 67.0 0.447 0.0 HOH
 2.373
 O
 O
5vfg 1 P46096 99.34 5e-94 X-RAY
 2018-04-11 ASP A:95 A:365 52.0 0.347 -127.0 128.2 52.0 0.347 0.0 PB
HOH
 2.442
2.321
 OD1
OD1
 PB
O
2n1t 5 P21579 100.0 3e-93 NMR
 2015-06-03 ASP E:103 E:365 71.0 0.473 -122.2 140.5 70.0 0.467 0.006 B:P32851:0.007
5ccj 1 P21707 96.69 7e-91 X-RAY
 2015-08-12 ASP A:96 A:365 61.0 0.407 -130.1 106.7 61.0 0.407 0.0 GOL
SO4
HOH
 7.339
8.198
2.595
 N
N
OD1
 C1
O3
O
ASP B:96 B:365 48.0 0.32 -122.6 140.2 NA NA NA
ASP C:96 C:365 67.0 0.447 -128.7 132.6 NA NA NA
ASP D:96 D:365 81.0 0.54 -135.7 134.4 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 ASP A:366 A:366 30.0 0.2 -81.3 128.9