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3I76

The crystal structure of the orthorhombic form of the putative HAD-hydrolase YfnB from Bacillus subtilis bound to magnesium reveals interdomain movement

Functional Information from GO Data
ChainGOidnamespacecontents
A0008253molecular_function5'-nucleotidase activity
A0009222biological_processpyrimidine ribonucleotide catabolic process
A0016787molecular_functionhydrolase activity
B0008253molecular_function5'-nucleotidase activity
B0009222biological_processpyrimidine ribonucleotide catabolic process
B0016787molecular_functionhydrolase activity
C0008253molecular_function5'-nucleotidase activity
C0009222biological_processpyrimidine ribonucleotide catabolic process
C0016787molecular_functionhydrolase activity
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG A 1001
ChainResidue
AASP10
AASP12
AASP181
AHOH246
AHOH248
AHOH250

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL A 1002
ChainResidue
AGOL243
AASP10
AASN123
ALYS155

site_idAC3
Number of Residues10
DetailsBINDING SITE FOR RESIDUE GOL A 243
ChainResidue
AASP12
APHE18
ATRP53
AGLY124
AGLN129
AHOH246
AHOH282
AHOH284
AHOH295
ACL1002

site_idAC4
Number of Residues2
DetailsBINDING SITE FOR RESIDUE CL A 244
ChainResidue
AARG70
AARG92

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 1001
ChainResidue
BASP10
BASP12
BASP181
BHOH244
BHOH245
BHOH246

site_idAC6
Number of Residues3
DetailsBINDING SITE FOR RESIDUE CL B 1002
ChainResidue
BASP10
BASN123
BLYS155

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 243
ChainResidue
BHIS99
BHOH272
BHOH274
BHOH275
BHOH276
BHOH278

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG C 1001
ChainResidue
CASP10
CASP12
CASP181
CHOH243
CHOH244
CHOH245

site_idAC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL C 1002
ChainResidue
CASP10
CASN123
CLYS155
CHOH245

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues3
DetailsActive site: {"description":"Nucleophile","evidences":[{"evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

Catalytic Information from CSA
site_idCSA1
Number of Residues2
DetailsAnnotated By Reference To The Literature 1lvh
ChainResidueDetails
ALYS155
AGLY124

site_idCSA2
Number of Residues2
DetailsAnnotated By Reference To The Literature 1lvh
ChainResidueDetails
BLYS155
BGLY124

site_idCSA3
Number of Residues2
DetailsAnnotated By Reference To The Literature 1lvh
ChainResidueDetails
CLYS155
CGLY124

246704

PDB entries from 2025-12-24

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