Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr1 230338973 . T A CCDS1582.1:NM_004481.3:c.311tTc>tAc_NP_004472.1:p.104F>Y Homo sapiens polypeptide N-acetylgalactosaminyltransferase 2 (GALNT2), 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)
4d0t 1 Q10471 99.82 0.0 X-RAY
 2014-05-28 PHE A:104 A:104 0.0 0.0 S -145.0 169.7 NA NA NA
PHE B:104 B:104 0.0 0.0 S -147.2 169.3 NA NA NA
PHE C:104 C:104 0.0 0.0 S -145.0 168.7 0.0 0.0 0.0 MN
UDP
HOH
 7.871
7.835
5.096
 CE2
CE2
N
 MN
O1A
O
PHE D:104 D:104 0.0 0.0 S -147.9 168.5 NA NA NA
PHE E:104 E:104 0.0 0.0 S -148.0 168.9 NA NA NA
PHE F:104 F:104 0.0 0.0 S -146.3 168.8 0.0 0.0 0.0 MN
UD2
 7.946
7.726
 CE2
CE2
 MN
O2A
4d0z 1 Q10471 99.82 0.0 X-RAY
 2014-05-28 PHE A:104 A:104 0.0 0.0 S -144.7 169.4 NA NA NA
PHE B:104 B:104 0.0 0.0 S -142.4 168.6 0.0 0.0 0.0 MN
HWU
HOH
 7.830
7.632
5.078
 CE2
CE2
N
 MN
O2A
O
PHE C:104 C:104 0.0 0.0 S -140.1 169.3 NA NA NA
PHE D:104 D:104 0.0 0.0 S -142.7 171.2 NA NA NA
PHE E:104 E:104 0.0 0.0 S -140.2 170.5 NA NA NA
PHE F:104 F:104 0.0 0.0 S -138.8 171.6 NA NA NA
4d11 1 Q10471 99.82 0.0 X-RAY
 2014-05-28 PHE A:104 A:104 0.0 0.0 S -138.5 162.8 0.0 0.0 0.0 MN
UDP
 7.915
7.845
 CE2
CE2
 MN
O2A
PHE B:104 B:104 0.0 0.0 S -139.0 163.8 0.0 0.0 0.0 MN
UDP
 7.845
7.476
 CE2
CE2
 MN
O2A
PHE D:104 D:104 0.0 0.0 S -139.1 162.3 NA NA NA
PHE E:104 E:104 0.0 0.0 S -138.6 162.9 NA NA NA
PHE F:104 F:104 0.0 0.0 S -141.0 162.0 NA NA NA
5ajn 1 Q10471 99.82 0.0 X-RAY
 2015-03-11 PHE A:104 A:104 1.0 0.005 S -139.1 169.6 1.0 0.005 0.0 SO4
SO4
HOH
 9.182
6.672
2.760
 N
CD2
O
 O1
O1
O
5ajo 1 Q10471 99.82 0.0 X-RAY
 2015-03-11 PHE A:104 A:104 2.0 0.01 S -145.6 168.0 2.0 0.01 0.0 SO4
HOH
 9.333
2.844
 O
O
 O4
O
5ajp 1 Q10471 99.82 0.0 X-RAY
 2015-03-11 PHE A:104 A:104 0.0 0.0 S -145.2 166.2 0.0 0.0 0.0 UDP
MN
HOH
 7.868
7.903
3.148
 CE2
CE2
O
 O2A
MN
O
5fv9 1 Q10471 99.82 0.0 X-RAY
 2016-03-09 PHE A:104 A:104 0.0 0.0 S -143.1 169.0 NA NA NA
PHE B:104 B:104 0.0 0.0 S -142.2 161.7 NA NA NA
PHE C:104 C:104 0.0 0.0 S -133.6 169.8 0.0 0.0 0.0 UDP
MN
HOH
 7.419
7.993
2.727
 CE2
CE2
O
 O1B
MN
O
PHE D:104 D:104 0.0 0.0 S -134.7 165.1 0.0 0.0 0.0 UDP
MN
HOH
 7.596
7.850
6.779
 CD2
CE2
CE1
 O1B
MN
O
PHE E:104 E:104 0.0 0.0 S -150.7 165.0 NA NA NA
PHE F:104 F:104 0.0 0.0 S -147.0 159.9 NA NA NA
5ndf 1 Q10471 99.82 0.0 X-RAY
 2017-11-01 PHE A:104 A:104 0.0 0.0 S -144.8 167.9 NA NA NA
PHE B:104 B:104 0.0 0.0 S -143.8 167.6 NA NA NA
PHE C:104 C:104 0.0 0.0 S -143.8 167.7 NA NA NA
PHE D:104 D:104 0.0 0.0 S -143.7 167.3 NA NA NA
PHE E:104 E:104 0.0 0.0 S -144.0 167.7 0.0 0.0 0.0 MN
UDP
HOH
 7.863
7.680
4.956
 CE2
CE2
N
 MN
O2A
O
PHE F:104 F:104 0.0 0.0 S -143.6 168.6 NA NA NA
4d11 2 Q10471 99.65 0.0 X-RAY
 2014-05-28 PHE C:104 C:104 0.0 0.0 S -138.3 163.5 NA NA NA
6nqt 1 Q10471 99.65 0.0 X-RAY
 2020-01-29 PHE A:104 A:104 0.0 0.0 S -142.5 164.8 0.0 0.0 0.0 MN
LR7
HOH
 8.160
8.172
5.349
 CE2
CE2
N
 MN
O2A
O
PHE B:104 B:104 0.0 0.0 S -143.9 164.3 NA NA NA
PHE C:104 C:104 0.0 0.0 S -146.5 166.6 0.0 0.0 0.0 MN
LR7
 8.368
8.111
 CE2
CE2
 MN
O2A
PHE D:104 D:104 0.0 0.0 S -150.9 163.1 NA NA NA
PHE E:104 E:104 0.0 0.0 S -156.1 153.6 NA NA NA
PHE F:104 F:104 7.0 NA S -146.5 158.3 NA NA NA
2ffu 1 Q10471 100.0 0.0 X-RAY
 2006-01-31 PHE A:34 A:104 0.0 0.0 S -153.2 157.0 0.0 0.0 0.0 MN
UDP
HOH
 7.889
7.729
3.010
 CE2
CE2
O
 MN
O1A
O
2ffv 1 Q10471 100.0 0.0 X-RAY
 2006-01-31 PHE A:34 A:104 11.0 0.052 S 166.8 146.5 11.0 0.052 0.0 MN
UDP
 7.980
7.454
 CE2
CD2
 MN
O3B
PHE B:34 B:104 99.0 0.471 360.0 180.0 NA NA NA
6e7i 1 Q10471 99.6 0.0 X-RAY
 2020-01-29 PHE A:61 A:104 0.0 0.0 S -140.9 171.0 0.0 0.0 0.0 UDP
MN
HOH
 7.706
7.844
2.957
 CE2
CE2
O
 O2A
MN
O
6egs 1 Q10471 99.6 0.0 X-RAY
 2018-04-11 SER A:36 NA:NA DO NA DO DO DO NA NA NA
SER B:36 NA:NA DO NA DO DO DO NA NA NA

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-q10471-f1 1 Q10471 100.0 0.0 PHE A:104 A:104 0.0 0.0 S -141.6 165.3