Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr4 25127349 . G A CCDS3432.2:NM_016955.3:c.1178tCg>tTg_NP_058651.3:p.393S>L 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 SER A:393 A:393 66.0 0.574 H -67.3 -47.5 66.0 0.574 0.0
SER B:393 B:393 72.0 0.626 H -67.4 -22.3 72.0 0.626 0.0 G
C
C
G
C
C
 7.725
8.929
8.380
3.025
4.063
6.805
 O
O
O
CB
OG
CB
 N1
O4'
N3
O2'
C5'
O3'
SER C:393 C:393 73.0 0.635 H -62.1 -52.6 NA NA NA
SER D:393 D:393 81.0 0.704 H -55.1 -50.2 NA NA NA
4zdl 1 Q9HD40 99.8 0.0 X-RAY
 2016-04-20 SER A:393 A:393 71.0 0.617 H -62.2 -29.1 71.0 0.617 0.0 HOH
 4.447
 O
 O
SER B:393 B:393 75.0 0.652 H -65.6 -30.9 75.0 0.652 0.0
4zdo 1 Q9HD40 99.8 0.0 X-RAY
 2016-04-20 SER A:393 A:393 70.0 0.609 H -65.0 -53.5 64.0 0.557 0.052 B:Q9HD40:0.052
SER B:393 B:393 71.0 0.617 H -73.8 -27.3 71.0 0.617 0.0 G
A
C
C
G
 8.113
5.523
8.451
8.172
3.347
 O
OG
O
O
CB
 N1
OP1
O4'
N3
O2'
SER C:393 C:393 69.0 0.6 H -77.7 -41.1 NA NA NA
SER D:393 D:393 74.0 0.643 H -76.4 -21.9 NA NA NA
4zdp 1 Q9HD40 99.8 0.0 X-RAY
 2016-04-20 SER A:393 A:393 69.0 0.6 H -64.3 -41.4 69.0 0.6 0.0 HOH
 2.800
 OG
 O
SER B:393 B:393 79.0 0.687 H -56.9 -32.4 79.0 0.687 0.0 G
A
C
C
G
HOH
 8.264
5.181
8.414
8.350
3.071
6.834
 O
O
O
O
OG
N
 N1
OP2
O2
N3
C2'
O
SER C:393 C:393 69.0 0.6 H -65.3 -42.3 NA NA NA
SER D:393 D:393 78.0 0.678 H -65.0 -38.5 NA NA NA
3bc8 1 Q6P6M7 90.2 0.0 X-RAY
 2007-12-18 SER A:375 A:393 67.0 0.583 H -61.5 -43.6 67.0 0.583 0.0 HOH
 2.730
 OG
 O
3bca 1 Q6P6M7 90.2 0.0 X-RAY
 2007-12-18 SER A:375 A:393 66.0 0.574 H -68.1 -37.1 52.0 0.452 0.122 A:Q6P6M7:0.122
 IOD
IOD
IOD
IOD
HOH
 9.600
9.074
3.651
3.034
3.598
 OG
CA
O
OG
OG
 I
I
I
I
O
3bcb 1 Q6P6M7 90.2 0.0 X-RAY
 2007-12-18 SER A:375 A:393 68.0 0.591 H -65.0 -43.7 68.0 0.591 0.0 HOH
 3.520
 N
 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 SER A:393 A:393 53.0 0.461 H -67.4 -35.8