Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr19 46190846 . C A CCDS33053.1:NM_004597.5:c.322Gtg>Ttg_NP_004588.1:p.108V>L Homo sapiens small nuclear ribonucleoprotein D2 polypeptide (SNRPD2), 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)
1b34 2 P62316 100.0 5e-83 X-RAY
2000-01-13 VAL B:108 B:108 69.0 0.445 E -135.4 141.3 69.0 0.445 0.0
4f7u 2 P62317 100.0 5e-83 X-RAY
2013-01-30 VAL B:108 B:2108 62.0 0.4 E -135.6 148.2 0.0 0.0 0.4 G:P62321:0.4
HOH
3.939
CG2
O
VAL D:108 D:2108 62.0 0.4 E -136.4 159.1 NA NA NA
4pjo 4 P62316 100.0 5e-83 X-RAY
2014-12-31 VAL D:108 D:108 81.0 0.523 E -148.2 136.0 0.0 0.0 0.523 H:P08621:0.103
F:P62306:0.477
HOH
6.738
N
O
VAL O:108 d:108 81.0 0.523 E -145.6 136.3 NA NA NA
VAL Z:108 R:108 83.0 0.535 E -150.4 136.3 NA NA NA
VAL KA:108 r:108 82.0 0.529 E -148.2 138.2 NA NA NA
4v98 2 P62316 100.0 5e-83 X-RAY
2014-07-09 VAL B:108 AJ:2090 67.0 0.432 E -134.5 153.9 0.0 0.0 0.432 D:P62306:0.432
VAL J:108 AB:2090 65.0 0.419 E -134.1 154.1 NA NA NA
VAL R:108 AR:2090 68.0 0.439 E -134.0 154.4 NA NA NA
VAL Z:108 AZ:2090 68.0 0.439 E -134.3 154.1 NA NA NA
VAL HA:108 Ah:2090 69.0 0.445 E -134.6 154.3 NA NA NA
VAL PA:108 Ap:2090 68.0 0.439 E -134.2 154.5 NA NA NA
VAL BB:108 Ax:2090 68.0 0.439 E -134.9 154.1 NA NA NA
VAL FB:108 BB:2090 69.0 0.445 E -134.4 154.4 NA NA NA
VAL NB:108 BJ:2090 67.0 0.432 E -134.4 154.6 NA NA NA
VAL VB:108 BR:2090 67.0 0.432 E -134.3 154.5 NA NA NA
VAL DC:108 BZ:2090 68.0 0.439 E -135.0 154.4 NA NA NA
VAL LC:108 Bh:2090 68.0 0.439 E -135.2 154.7 NA NA NA
VAL TC:108 Bp:2090 67.0 0.432 E -134.9 154.9 NA NA NA
VAL FD:108 Bx:2090 67.0 0.432 E -134.8 154.6 NA NA NA
VAL JD:108 CB:2090 68.0 0.439 E -135.0 155.0 NA NA NA
VAL RD:108 CJ:2090 63.0 0.406 E -135.2 154.4 NA NA NA
VAL ZD:108 CR:2090 70.0 0.452 E -134.5 154.8 NA NA NA
VAL HE:108 CZ:2090 68.0 0.439 E -134.7 154.6 NA NA NA
VAL PE:108 Ch:2090 69.0 0.445 E -134.7 154.3 NA NA NA
VAL XE:108 Cp:2090 67.0 0.432 E -135.5 154.9 NA NA NA
4wzj 4 P62316 100.0 5e-83 X-RAY
2015-01-14 VAL D:108 D:108 72.0 0.465 E -134.6 149.6 5.0 0.032 0.433 E:P62306:0.432
VAL K:108 K:108 72.0 0.465 E -133.9 148.3 NA NA NA
VAL R:108 R:108 74.0 0.477 E -135.2 148.7 NA NA NA
VAL Y:108 DD:108 72.0 0.465 E -135.7 149.1 NA NA NA
VAL FA:108 KK:108 72.0 0.465 E -136.7 149.5 NA NA NA
VAL MA:108 RR:108 71.0 0.458 E -132.4 150.1 NA NA NA
VAL TA:108 DDD:108 72.0 0.465 E -135.9 148.5 NA NA NA
VAL AB:108 KKK:108 73.0 0.471 E -135.0 149.3 NA NA NA
VAL HB:108 RRR:108 72.0 0.465 E -134.2 149.8 NA NA NA
VAL OB:108 DDDD:108 71.0 0.458 E -135.7 148.0 NA NA NA
VAL VB:108 KKKK:108 72.0 0.465 E -134.3 150.0 NA NA NA
VAL CC:108 RRRR:108 73.0 0.471 E -132.9 149.4 NA NA NA
5mqf 22 P62316 100.0 5e-83 EM
2017-03-22 VAL Y:108 a:108 58.0 NA E -131.9 118.8 47.0 NA NA Z:P62306:NA
VAL FA:108 h:108 53.0 NA E -135.8 148.5 38.0 NA NA GA:P62306:NA
G
9.965
N
OP2
5o9z 19 P62316 100.0 5e-83 EM
2017-08-16 VAL S:108 a:108 63.0 NA E -157.0 161.8 39.0 NA NA T:P62306:NA
U
G
8.033
9.510
N
N
O2
OP2
VAL Z:108 h:108 62.0 NA E -156.8 161.9 39.0 NA NA AA:P62306:NA
A
4.736
N
C2
VAL TA:108 S:108 NA NA NA NA NA NA NA NA
5xjc 30 P62316 100.0 5e-83 EM
2017-07-05 VAL DA:108 d:108 73.0 0.471 E -134.5 149.6 5.0 0.032 0.439 EA:P62306:0.439
VAL KA:108 k:108 74.0 0.477 E -134.5 149.6 6.0 0.039 0.438 LA:P62306:0.439
5xjl 3 P62316 100.0 5e-83 X-RAY
2018-05-02 VAL C:108 B:108 71.0 0.458 E -132.6 153.5 0.0 0.0 0.458 E:P62306:0.458
5xjq 3 P62316 100.0 5e-83 X-RAY
2018-07-04 VAL C:108 B:108 70.0 0.452 E -132.2 165.5 0.0 0.0 0.452 E:P62306:0.452
5xjr 3 P62316 100.0 5e-83 X-RAY
2018-07-04 VAL C:108 B:108 69.0 0.445 E -132.9 164.1 0.0 0.0 0.445 E:P62306:0.445
5xjs 3 P62316 100.0 5e-83 X-RAY
2018-07-04 VAL C:108 B:108 69.0 0.445 E -142.7 163.3 0.0 0.0 0.445 E:P62306:0.445
5yzg 36 P62316 100.0 5e-83 EM
2018-08-08 VAL MA:108 k:108 73.0 0.471 E -134.5 149.6 6.0 0.039 0.432 NA:P62306:0.432
VAL VA:108 d:108 73.0 0.471 E -134.5 149.6 5.0 0.032 0.439 WA:P62306:0.439
5z56 9 P62316 100.0 5e-83 EM
2018-09-19 VAL I:108 d:108 53.0 NA E -134.5 149.5 38.0 NA NA J:P62306:NA
VAL S:108 k:108 53.0 NA E -134.5 149.7 38.0 NA NA T:P62306:NA
5z57 9 P62316 100.0 5e-83 EM
2018-09-19 VAL I:108 d:108 53.0 NA E -134.5 149.5 38.0 NA NA J:P62306:NA
VAL S:108 k:108 53.0 NA E -134.5 149.7 38.0 NA NA T:P62306:NA
5z58 9 P62316 100.0 5e-83 EM
2018-09-19 VAL I:108 d:108 53.0 NA E -134.5 149.5 38.0 NA NA J:P62306:NA
VAL S:108 k:108 53.0 NA E -134.5 149.7 38.0 NA NA T:P62306:NA
6ah0 4 P62316 100.0 5e-83 EM
2018-11-14 VAL D:108 a:108 49.0 NA E -157.0 161.8 33.0 NA NA E:P62306:NA
U
G
7.404
9.649
N
N
O2
OP2
VAL Z:108 k:108 45.0 NA E -134.6 149.8 35.0 NA NA AA:P62306:NA
VAL VA:108 P:108 49.0 NA E -157.0 161.8 35.0 NA NA WA:P62306:NA
A
6.782
N
C2
6ahd 15 P62316 100.0 5e-83 EM
2018-11-14 VAL O:108 c:108 44.0 NA E -134.5 149.6 34.0 NA NA P:None:NA
U
G
7.131
9.069
N
N
O2
OP2
VAL FA:108 k:108 44.0 NA E -134.6 149.6 33.0 NA NA GA:None:NA
VAL VA:108 P:108 48.0 NA E -157.0 161.8 33.0 NA NA WA:None:NA
G
A
C
G
9.874
6.363
9.220
9.152
N
N
N
N
N2
N6
O2
O6
6ff7 39 P62316 100.0 5e-83 EM
2019-03-13 VAL PA:108 a:108 57.0 NA E -156.8 153.7 40.0 NA NA QA:P62306:NA
VAL WA:108 h:108 53.0 NA E -135.8 148.5 38.0 NA NA XA:P62306:NA
6icz 32 P62316 100.0 5e-83 EM
2019-03-13 VAL FA:108 k:108 53.0 NA E -134.6 149.7 38.0 NA NA GA:P62306:NA
VAL PA:108 d:108 51.0 NA E -134.6 149.6 37.0 NA NA QA:P62306:NA
6id0 23 P62316 100.0 5e-83 EM
2019-03-13 VAL W:108 d:108 51.0 NA E -134.6 149.6 37.0 NA NA X:P62306:NA
VAL IA:108 k:108 54.0 NA E -134.5 149.7 39.0 NA NA JA:P62306:NA
C
9.873
N
O4'
6id1 22 P62316 100.0 5e-83 EM
2019-03-13 VAL V:108 d:108 51.0 NA E -134.5 149.7 37.0 NA NA W:P62306:NA
VAL KA:108 k:108 51.0 NA E -134.5 149.7 36.0 NA NA LA:P62306:NA
C
9.938
N
O4'
6qdv 39 P62316 100.0 5e-83 EM
2019-02-20 VAL MA:108 j:108 76.0 0.49 E -147.3 147.3 2.0 0.013 0.477 IA:P62306:0.477
VAL PA:108 m:108 68.0 0.439 E -139.8 126.2 0.0 0.0 0.439 TA:P62306:0.439
6qw6 4 P62316 100.0 5e-83 EM
2019-04-17 VAL D:108 42:108 75.0 0.484 E -131.3 137.6 0.0 0.0 0.484 L:P62306:0.445
LA:O43290:0.084
VAL P:108 52:108 77.0 0.497 E -131.7 156.9 9.0 0.058 0.439 AA:P62306:0.439
6qx9 16 P62316 100.0 5e-83 EM
2019-04-17 VAL Q:108 22:108 67.0 0.432 E -139.8 126.2 0.0 0.0 0.432 Y:P62306:0.432
VAL CA:108 42:108 75.0 0.484 E -131.3 137.6 0.0 0.0 0.484 GA:O43290:0.084
OA:P62306:0.445
VAL BB:108 52:108 77.0 0.497 E -131.7 156.8 9.0 0.058 0.439 HA:P62306:0.439
VAL CB:108 12:108 81.0 0.523 E -148.2 138.2 0.0 0.0 0.523 I:P08621:0.097
M:P62306:0.477
6y53 12 P62316 100.0 5e-83 EM
2020-06-17 VAL L:108 h:108 45.0 NA E -125.1 139.7 41.0 NA NA O:P62306:NA
6y5q 17 P62316 100.0 5e-83 EM
2020-06-17 VAL Q:108 h:108 45.0 NA E -125.1 139.7 41.0 NA NA T:P62306:NA
7a5p 24 P62316 100.0 5e-83 EM
2020-10-14 VAL AA:108 d:108 54.0 NA E -135.3 145.8 39.0 NA NA CA:P62306:NA
VAL EA:108 h:108 55.0 NA E -135.9 145.2 40.0 NA NA FA:P62306:NA
7abg 43 P62316 100.0 5e-83 EM
2020-12-23 VAL QA:108 h:108 59.0 NA E -139.8 126.2 46.0 NA NA RA:P62306:NA
VAL ZA:108 a:108 62.0 NA E -156.6 161.7 38.0 NA NA CB:P62306:NA
U
8.986
N
O2
7abi 32 P62316 100.0 5e-83 EM
2021-02-10 VAL FA:108 h:108 59.0 NA E -139.8 126.2 46.0 NA NA HA:P62306:NA
VAL ZA:108 a:108 62.0 NA E -153.4 158.3 38.0 NA NA C:P62306:NA
U
9.293
N
O2
7b0y 19 P62316 100.0 5e-83 EM
2021-01-13 VAL S:108 e:108 81.0 0.523 E -142.4 151.1 1.0 0.006 0.517 T:P62306:0.471
Q:P08621:0.09
7dvq 9 P62316 100.0 5e-83 EM
2021-03-31 VAL I:108 d:108 53.0 NA E -134.6 149.5 38.0 NA NA J:P62306:NA
VAL S:108 k:108 53.0 NA E -134.6 149.6 37.0 NA NA T:P62306:NA
5xjt 3 P62316 99.15 4e-82 X-RAY
2018-07-04 VAL C:108 B:108 72.0 0.465 E -143.7 154.1 0.0 0.0 0.465 E:P62306:0.465
5xju 3 P62316 99.15 4e-82 X-RAY
2018-07-04 VAL C:108 B:108 75.0 0.484 E -133.0 162.8 0.0 0.0 0.484 E:P62306:0.484

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-p62316-f1 1 P62316 100.0 2e-83 VAL A:108 A:108 65.0 0.419 E -137.9 139.2