Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr17 18250896 . C A CCDS11196.1:NM_004169.3:c.433Gat>Tat_NP_004160.3:p.145D>Y Homo sapiens serine hydroxymethyltransferase 1 (SHMT1), transcript variant 1, mRNA.
pdb_id: 
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auth_asym_id: 
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alphafold_id: 
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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)
6m5w 1 P34896 100.0 0.0 X-RAY
 2021-01-20 ASP A:165 A:145 24.0 0.16 T -91.3 1.5 24.0 0.16 0.0 DXC
 8.556
 N
 C24
6fl5 1 P34896 99.36 0.0 X-RAY
 2018-10-10 ASP A:135 A:145 23.0 0.153 G -102.9 3.5 23.0 0.153 0.0
ASP B:135 D:145 22.0 0.147 G -98.8 6.2 22.0 0.147 0.0
ASP C:135 G:145 22.0 0.147 G -94.4 5.7 22.0 0.147 0.0
ASP D:135 J:145 21.0 0.14 G -93.0 10.0 21.0 0.14 0.0
1bj4 1 P34896 99.36 0.0 X-RAY
 1999-08-16 ASP A:135 A:145 20.0 0.133 G -101.0 12.3 20.0 0.133 0.0 HOH
 3.715
 CA
 O
1ls3 1 p07511 92.92 0.0 X-RAY
 2003-02-04 ASP A:144 A:123 15.0 0.1 G -98.5 8.1 15.0 0.1 0.0 HOH
 6.002
 OD2
 O
ASP B:144 B:123 16.0 0.107 G -99.5 16.3 16.0 0.107 0.0 TGF
HOH
 5.065
7.012
 C
OD1
 NA2
O
ASP C:144 C:123 19.0 0.127 G -102.9 12.2 19.0 0.127 0.0 HOH
 3.106
 CA
 O
ASP D:144 D:123 7.0 0.047 G -104.7 15.9 7.0 0.047 0.0 TGF
HOH
 4.995
6.176
 C
OD2
 NA2
O
1rvu 1 P07511 92.71 0.0 X-RAY
 2004-06-15 ASP A:144 A:145 9.0 0.06 G -94.7 12.7 9.0 0.06 0.0 HOH
 6.924
 OD2
 O
ASP B:144 B:145 10.0 0.067 G -94.5 12.0 10.0 0.067 0.0 HOH
 6.968
 OD2
 O
1rvy 1 P07511 92.71 0.0 X-RAY
 2004-06-15 ASP A:144 A:145 14.0 0.093 G -101.0 1.8 14.0 0.093 0.0 HOH
 7.123
 OD2
 O
ASP B:144 B:145 13.0 0.087 G -99.9 0.6 13.0 0.087 0.0 HOH
 7.178
 OD2
 O
1rv3 1 P07511 92.71 0.0 X-RAY
 2004-06-15 ASP A:144 A:145 12.0 0.08 G -100.6 7.8 12.0 0.08 0.0 HOH
 6.961
 OD2
 O
ASP B:144 B:145 12.0 0.08 G -101.0 8.2 12.0 0.08 0.0 HOH
 6.935
 OD2
 O
1rv4 1 P07511 92.71 0.0 X-RAY
 2004-06-15 ASP A:144 A:145 10.0 0.067 G -97.7 15.8 10.0 0.067 0.0 HOH
 7.448
 OD2
 O
ASP B:144 B:145 10.0 0.067 G -96.6 15.2 10.0 0.067 0.0 HOH
 7.334
 OD2
 O
1cj0 1 P07511 93.4 0.0 X-RAY
 1999-05-06 ASP A:131 A:123 20.0 0.133 T -82.9 9.0 20.0 0.133 0.0 HOH
 6.780
 OD2
 O
ASP B:131 B:123 16.0 0.107 G -91.6 6.8 16.0 0.107 0.0
1eji 1 P50431 91.19 0.0 X-RAY
 2000-11-03 ASP A:139 A:145 11.0 0.073 G -105.0 -4.3 11.0 0.073 0.0 THF
HOH
 5.719
9.668
 C
N
 NA2
O
ASP B:139 B:145 18.0 0.12 G -106.8 18.7 18.0 0.12 0.0 THF
HOH
 5.577
7.799
 C
N
 NA2
O
ASP C:139 C:145 16.0 0.107 G -96.6 -12.5 16.0 0.107 0.0 HOH
 6.573
 OD1
 O
ASP D:139 D:145 16.0 0.107 G -90.6 -13.5 16.0 0.107 0.0 THF
HOH
 8.007
7.064
 N
N
 N3
O

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-p34896-f1 1 P34896 100.0 0.0 ASP A:145 A:145 16.0 0.107 G -95.3 7.7