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1K4O

Crystal Structure of 3,4-dihydroxy-2-butanone 4-phosphate synthase in complex with one Manganese, and a glycerol

Functional Information from GO Data
ChainGOidnamespacecontents
A0005758cellular_componentmitochondrial intermembrane space
A0005829cellular_componentcytosol
A0008686molecular_function3,4-dihydroxy-2-butanone-4-phosphate synthase activity
A0009231biological_processriboflavin biosynthetic process
A0016829molecular_functionlyase activity
A0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues10
DetailsBINDING SITE FOR RESIDUE SO4 A 1001
ChainResidue
AARG36
AHOH1180
AGLU37
ATHR92
AARG150
AGLY152
AHIS153
ATHR154
AMN1003
AGOL1004

site_idAC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE SO4 A 1002
ChainResidue
AGLN81
AARG141
AARG205
AHOH1110
AHOH1124

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MN A 1003
ChainResidue
AGLU37
AHIS153
ASO41001
AGOL1004
AHOH1016

site_idAC4
Number of Residues12
DetailsBINDING SITE FOR RESIDUE GOL A 1004
ChainResidue
AGLU37
AASP41
ATYR94
AHIS136
AHIS153
AILE172
AGLU174
ASO41001
AMN1003
AHOH1016
AHOH1048
AHOH1102

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"11827524","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1K4L","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"UniProtKB","id":"Q5A3V6","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues2
DetailsSite: {"description":"Essential for catalytic activity","evidences":[{"evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI4
Number of Residues1
DetailsModified residue: {"description":"S-glutathionyl cysteine","evidences":[{"source":"UniProtKB","id":"Q99258","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

Catalytic Information from CSA
site_idCSA1
Number of Residues6
DetailsAnnotated By Reference To The Literature 1k4l
ChainResidueDetails
AHIS136
AGLU174
AASP99
ATYR94
ACYS66
AASP41

site_idMCSA1
Number of Residues8
DetailsM-CSA 683
ChainResidueDetails
AGLU37metal ligand
AASP41proton acceptor
ACYS66proton donor
ATYR94electrostatic stabiliser
AASP99electrostatic stabiliser
AHIS136electrostatic stabiliser, proton acceptor, proton donor
AHIS153metal ligand
AGLU174proton acceptor, proton donor

246031

PDB entries from 2025-12-10

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