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1Z4I

Structure of the D41N variant of the human mitochondrial deoxyribonucleotidase in complex with deoxyribouridine 5'-monophosphate

Functional Information from GO Data
ChainGOidnamespacecontents
A0008253molecular_function5'-nucleotidase activity
A0009264biological_processdeoxyribonucleotide catabolic process
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG A 1228
ChainResidue
AASN41
AASP43
AASP176
AUMP1001
AGOL2001
AHOH2096

site_idAC2
Number of Residues25
DetailsBINDING SITE FOR RESIDUE UMP A 1001
ChainResidue
APHE49
APHE75
ATRP76
AVAL77
ASER78
ATRP96
APHE102
ATHR130
ASER131
APRO132
AILE133
ALYS143
ALYS165
AMG1228
AGOL2001
AHOH2012
AHOH2058
AHOH2096
AHOH2112
AHOH2186
AHOH2187
AHOH2188
AASN41
AMET42
AASP43

site_idAC3
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL A 2001
ChainResidue
AASP43
APHE49
AGLU50
APHE75
AASP176
AUMP1001
AMG1228

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsACT_SITE: Nucleophile
ChainResidueDetails
AASN41

site_idSWS_FT_FI2
Number of Residues1
DetailsACT_SITE: Proton donor => ECO:0000305
ChainResidueDetails
AASP43

site_idSWS_FT_FI3
Number of Residues2
DetailsBINDING: BINDING => ECO:0000269|PubMed:12352955
ChainResidueDetails
AASN41
AASP176

site_idSWS_FT_FI4
Number of Residues8
DetailsBINDING:
ChainResidueDetails
AASP43
APHE49
APHE75
ATRP76
AVAL77
ATRP96
ATHR130
ALYS165

Catalytic Information from CSA
site_idCSA1
Number of Residues2
DetailsAnnotated By Reference To The Literature 1q91
ChainResidueDetails
AASP43
AASN41

site_idMCSA1
Number of Residues3
DetailsM-CSA 812
ChainResidueDetails
AASN41covalently attached, metal ligand, nucleofuge, nucleophile
AASP43metal ligand
AASP176metal ligand

222415

PDB entries from 2024-07-10

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