Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr4 25153614 . G A CCDS3432.2:NM_016955.3:c.772Cag>Tag_NP_058651.3:p.258Q>* Homo sapiens Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase (SEPSECS), 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)
3hl2 1 Q9HD40 100.0 0.0 X-RAY
 2009-10-06 GLN A:258 A:258 3.0 0.017 T -76.8 3.1 3.0 0.017 0.0 PLR
U
C
PLR
HOH
 8.790
9.183
8.162
8.790
2.733
 NE2
O
O
NE2
O
 O3
O3'
OP1
O3
O
GLN B:258 B:258 1.0 0.006 T -77.1 -1.1 1.0 0.006 0.0 PLR
PLR
HOH
 8.661
8.661
3.612
 NE2
NE2
C
 O3
O3
O
GLN C:258 C:258 3.0 0.017 G -76.5 5.8 NA NA NA
GLN D:258 D:258 1.0 0.006 T -77.9 9.4 NA NA NA
4zdl 1 Q9HD40 99.8 0.0 X-RAY
 2016-04-20 GLN A:258 A:258 5.0 0.028 T -76.5 2.9 4.0 0.022 0.006 A:Q9HD40:0.006
 PLR
HOH
 8.998
2.830
 NE2
O
 O3
O
GLN B:258 B:258 4.0 0.022 T -75.7 -5.4 4.0 0.022 0.0 PLR
HOH
 8.798
2.650
 NE2
O
 O3
O
4zdo 1 Q9HD40 99.8 0.0 X-RAY
 2016-04-20 GLN A:258 A:258 4.0 0.022 T -80.8 4.0 3.0 0.017 0.005 A:Q9HD40:0.006
 U
C
PLR
HOH
 9.244
8.509
9.004
2.576
 O
O
NE2
O
 O3'
OP1
O3
O
GLN B:258 B:258 4.0 0.022 T -76.5 -4.1 3.0 0.017 0.005 B:Q9HD40:0.006
 PLR
HOH
 8.653
2.667
 NE2
O
 O3
O
GLN C:258 C:258 3.0 0.017 T -79.7 0.6 NA NA NA
GLN D:258 D:258 3.0 0.017 S -74.3 -17.2 NA NA NA
4zdp 1 Q9HD40 99.8 0.0 X-RAY
 2016-04-20 GLN A:258 A:258 7.0 0.039 T -78.6 -0.2 6.0 0.033 0.006 A:Q9HD40:0.006
 U
C
PLR
HOH
 9.232
8.425
8.815
3.856
 O
O
NE2
CA
 O3'
OP1
O3
O
GLN B:258 B:258 3.0 0.017 T -77.4 0.5 2.0 0.011 0.006 B:Q9HD40:0.006
 PLR
HOH
 8.923
2.680
 NE2
O
 O3
O
GLN C:258 C:258 6.0 0.033 T -85.6 -0.9 NA NA NA
GLN D:258 D:258 5.0 0.028 T -78.9 2.1 NA NA NA
3bc8 1 Q6P6M7 90.2 0.0 X-RAY
 2007-12-18 GLN A:240 A:258 2.0 0.011 T -64.9 -9.1 1.0 0.006 0.005 A:Q6P6M7:0.006
 CL
HOH
 5.057
2.796
 O
O
 CL
O
3bca 1 Q6P6M7 90.2 0.0 X-RAY
 2007-12-18 GLN A:240 A:258 1.0 0.006 T -69.5 -1.6 0.0 0.0 0.006 A:Q6P6M7:0.006
 IOD
IOD
IOD
HOH
 5.237
9.981
8.800
2.819
 O
C
O
O
 I
I
I
O
3bcb 1 Q6P6M7 90.2 0.0 X-RAY
 2007-12-18 GLN A:240 A:258 2.0 0.011 T -64.6 -4.6 1.0 0.006 0.005 A:Q6P6M7:0.006
 CL
HOH
 5.130
2.833
 O
O
 CL
O

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-q9hd40-f1 1 Q9HD40 100.0 0.0 GLN A:258 A:258 3.0 0.017 T -67.5 -4.0