Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr12 79747399 . G A CCDS9017.1:NM_001135805.1:c.928Gat>Aat_NP_001129277.1:p.310D>N 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:170 F:309 6.0 0.04 -124.7 77.8 6.0 0.04 0.0 GOL
HOH
5.569
2.387
N
OD2
O2
O
5ccg 5 P21707 100.0 0.0 X-RAY
2015-08-12 ASP E:169 E:309 35.0 0.233 -133.4 72.7 35.0 0.233 0.0 CA
CA
2.462
6.362
OD2
OD2
CA
CA
ASP F:169 F:309 60.0 0.4 -134.2 74.0 60.0 0.4 0.0 CA
2.587
OD2
CA
ASP K:169 K:309 23.0 0.153 -135.6 72.4 NA NA NA
5cch 5 P21707 100.0 0.0 X-RAY
2015-08-12 ASP E:169 E:309 18.0 0.12 51.1 41.0 18.0 0.12 0.0 CA
CA
3.279
6.600
OD2
OD2
CA
CA
ASP F:169 F:309 46.0 0.307 -137.1 89.7 46.0 0.307 0.0 CA
CA
2.508
4.431
OD2
N
CA
CA
5cci 5 P21707 100.0 0.0 X-RAY
2015-08-12 ASP E:169 E:309 33.0 0.22 -117.9 78.0 33.0 0.22 0.0 MG
2.995
OD2
MG
ASP F:169 F:309 54.0 0.36 -118.6 76.4 54.0 0.36 0.0 MG
4.556
OD2
MG
6mti 2 P21707 100.0 0.0 EM
2019-04-24 ASP B:169 2:590 33.0 0.22 -117.8 77.9 33.0 0.22 0.0 MG
2.994
OD2
MG
ASP C:169 3:590 33.0 0.22 -117.9 78.1 33.0 0.22 0.0 MG
2.994
OD2
MG
ASP D:169 4:590 33.0 0.22 -117.9 78.0 33.0 0.22 0.0 MG
2.994
OD2
MG
ASP E:169 5:590 33.0 0.22 -117.9 78.0 33.0 0.22 0.0 MG
2.995
OD2
MG
2r83 1 P21579 99.65 0.0 X-RAY
2008-02-12 ASP A:172 A:309 27.0 0.18 -128.8 68.0 27.0 0.18 0.0 HOH
2.329
OD1
O
ASP B:172 B:309 27.0 0.18 -128.3 66.9 27.0 0.18 0.0 HOH
2.512
OD1
O
5kj7 5 P21707 100.0 0.0 X-RAY
2016-10-19 ASP E:169 E:309 34.0 0.227 -132.7 74.4 34.0 0.227 0.0 CA
CA
2.396
6.402
OD2
OD2
CA
CA
ASP F:169 F:309 60.0 0.4 -137.7 76.2 NA NA NA
ASP K:169 K:309 21.0 0.14 -135.6 75.0 NA NA NA
5kj8 5 P21707 100.0 0.0 X-RAY
2016-10-19 ASP E:169 E:309 35.0 0.233 -128.1 73.0 35.0 0.233 0.0 CA
CA
2.687
6.228
OD2
OD2
CA
CA
ASP F:169 F:309 58.0 0.387 -130.0 72.7 NA NA NA
ASP K:169 K:309 20.0 0.133 -130.8 71.3 NA NA NA
2lha 1 P21579 100.0 4e-96 NMR
2012-05-02 ASP A:40 A:309 4.0 0.027 -114.9 94.3 4.0 0.027 0.0 IHP
3.618
HB3
O21
5w5d 6 P21707 100.0 4e-96 X-RAY
2017-08-23 ASP F:40 F:309 18.0 0.12 -118.2 72.2 18.0 0.12 0.0 HOH
4.165
N
O
5t0s 1 P46096 100.0 2e-95 X-RAY
2017-06-14 ASP A:39 A:309 31.0 0.207 -120.5 77.4 31.0 0.207 0.0 CD
HOH
2.670
3.411
OD2
OD2
CD
O
2yoa 1 P21707 100.0 3e-95 X-RAY
2013-03-20 ASP A:40 A:309 4.0 0.027 -122.0 74.0 4.0 0.027 0.0 CA
CA
CA
SEP
CA
SCN
SCN
HOH
2.353
6.021
9.135
2.800
3.609
7.179
9.551
2.739
OD2
OD2
OD2
OD2
CG
O
CA
OD1
CA
CA
CA
N
CA
S
C
O
ASP B:40 B:309 4.0 0.027 -124.0 72.4 NA NA NA
6tz3 1 P21579 100.0 3e-95 X-RAY
2020-05-13 ASP A:45 A:310 32.0 0.213 -118.0 78.4 32.0 0.213 0.0 SO4
HOH
9.853
3.263
O
OD2
O2
O
1tjm 1 P21707 100.0 4e-95 X-RAY
2004-09-28 ASP A:47 A:309 25.0 0.167 -121.5 72.3 25.0 0.167 0.0 SR
HOH
2.450
1.690
OD1
HB3
SR
H2
1tjx 1 P21707 100.0 4e-95 X-RAY
2004-11-23 ASP A:47 A:309 29.0 0.193 -123.5 72.8 29.0 0.193 0.0 CA
CA
HOH
6.091
2.496
2.478
OD1
OD1
OD1
CA
CA
H1
1uov 1 P21707 100.0 4e-95 X-RAY
2004-09-09 ASP A:47 A:309 17.0 0.113 -126.1 71.5 17.0 0.113 0.0 CA
CA
CA
HOH
5.940
2.350
2.369
3.047
OD2
OD2
OD1
OD2
CA
CA
CA
O
1uow 1 P21707 100.0 4e-95 X-RAY
2004-09-16 ASP A:47 A:309 29.0 0.193 -123.7 72.8 29.0 0.193 0.0 CA
CA
HOH
6.088
2.495
3.002
OD1
OD1
OD1
CA
CA
O
4v11 1 P21579 100.0 2e-94 X-RAY
2015-02-25 ASP A:38 A:310 28.0 0.187 -125.0 71.5 28.0 0.187 0.0 CA
CA
HOH
2.370
6.032
2.652
OD2
OD2
OD1
CA
CA
O
6u4w 1 P21579 99.34 2e-94 X-RAY
2020-05-13 ASP A:45 A:310 13.0 0.087 -128.4 76.4 13.0 0.087 0.0 SO4
SO4
HOH
8.730
9.846
2.629
HA
O
OD2
O4
O2
O
6u4u 1 P21579 99.34 2e-94 X-RAY
2020-05-13 ASP A:45 A:310 15.0 0.1 -130.9 76.6 15.0 0.1 0.0 SO4
HOH
8.881
2.553
HA
OD1
O4
O
6u41 1 P21579 99.34 3e-94 X-RAY
2020-05-13 ASP A:45 A:310 16.0 0.107 -126.6 76.2 16.0 0.107 0.0 SO4
SO4
HOH
9.836
9.094
2.667
O
HA
OD1
O1
O3
O
5vff 1 P46096 99.34 5e-94 X-RAY
2018-04-11 ASP A:39 A:309 39.0 0.26 -119.3 75.4 39.0 0.26 0.0 PB
HOH
2.596
2.943
OD2
OD2
PB
O
5vfg 1 P46096 99.34 5e-94 X-RAY
2018-04-11 ASP A:39 A:309 26.0 0.173 -123.0 68.4 26.0 0.173 0.0 PB
HOH
2.705
2.744
OD2
OD2
PB
O
2n1t 5 P21579 100.0 3e-93 NMR
2015-06-03 ASP E:47 E:309 31.0 0.207 -121.0 76.0 26.0 0.173 0.034 B:P32851:0.033
5ccj 1 P21707 96.69 7e-91 X-RAY
2015-08-12 ASP A:40 A:309 26.0 0.173 -120.9 84.0 26.0 0.173 0.0 GOL
GOL
SO4
HOH
7.559
9.338
9.884
2.605
O
N
O
OD2
C1
O1
O1
O
ASP B:40 B:309 16.0 0.107 -127.1 77.7 NA NA NA
ASP C:40 C:309 20.0 0.133 -131.1 77.4 NA NA NA
ASP D:40 D:309 26.0 0.173 -124.3 81.0 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:310 A:310 21.0 0.14 -105.5 65.9