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6DZ0

Crystal structure of human 5'-deoxy-5'-methylthioadenosine phosphorylase in complex with (3R,4S)-1-((4-amino-5H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl)-4-((pent-4-yn-1-ylthio)methyl)pyrrolidin-3-ol

Functional Information from GO Data
ChainGOidnamespacecontents
A0003824molecular_functioncatalytic activity
A0004645molecular_function1,4-alpha-oligoglucan phosphorylase activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005737cellular_componentcytoplasm
A0005829cellular_componentcytosol
A0006139biological_processnucleobase-containing compound metabolic process
A0006166biological_processpurine ribonucleoside salvage
A0006738biological_processnicotinamide riboside catabolic process
A0009116biological_processnucleoside metabolic process
A0016757molecular_functionglycosyltransferase activity
A0016763molecular_functionpentosyltransferase activity
A0017061molecular_functionS-methyl-5-thioadenosine phosphorylase activity
A0019509biological_processL-methionine salvage from methylthioadenosine
A0032259biological_processmethylation
A0033574biological_processresponse to testosterone
A0070062cellular_componentextracellular exosome
Functional Information from PDB Data
site_idAC1
Number of Residues9
Detailsbinding site for residue PO4 A 301
ChainResidue
AGLY17
ATHR18
AARG60
AHIS61
ATHR93
AALA94
ATHR197
AOS3307
AHOH415

site_idAC2
Number of Residues9
Detailsbinding site for residue EDO A 302
ChainResidue
AASP115
AARG116
ATHR117
AHOH403
AHOH423
AHOH443
AHOH499
AHOH499
AHOH499

site_idAC3
Number of Residues3
Detailsbinding site for residue EDO A 303
ChainResidue
ATYR33
AGLU101
AARG162

site_idAC4
Number of Residues6
Detailsbinding site for residue EDO A 304
ChainResidue
AALA9
AVAL10
AASN52
AVAL53
AASP54
AHOH435

site_idAC5
Number of Residues5
Detailsbinding site for residue EDO A 305
ChainResidue
ATYR221
ALYS225
AGLU228
AGLU229
AHOH419

site_idAC6
Number of Residues4
Detailsbinding site for residue EDO A 306
ChainResidue
AARG162
ACYS163
AHIS164
AHOH593

site_idAC7
Number of Residues21
Detailsbinding site for residue OS3 A 307
ChainResidue
ATHR18
AHIS65
APRO69
AALA94
ACYS95
AGLY96
AVAL135
AHIS137
APHE177
AILE194
AASN195
AMET196
ATHR219
AASP220
AASP222
AVAL236
ALEU279
APO4301
AHOH415
AHOH434
AHOH484

site_idAC8
Number of Residues3
Detailsbinding site for residue CL A 308
ChainResidue
AARG116
AARG116
AARG116

Functional Information from PROSITE/UniProt
site_idPS01240
Number of Residues41
DetailsPNP_MTAP_2 Purine and other phosphorylases family 2 signature. LarhGrqHtImpskVnyqAn.IwAlkeeGcth.VIvtTAcGSL
ChainResidueDetails
ALEU58-LEU98

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues6
DetailsBINDING:
ChainResidueDetails
ATHR18
AARG60
ATHR93
AMET196
ATHR197
AASP220

site_idSWS_FT_FI2
Number of Residues2
DetailsSITE: Important for substrate specificity
ChainResidueDetails
ASER178
AVAL233

site_idSWS_FT_FI3
Number of Residues1
DetailsMOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:Q9CQ65
ChainResidueDetails
ALYS51

Catalytic Information from CSA
site_idMCSA1
Number of Residues2
DetailsM-CSA 244
ChainResidueDetails
AASP220hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor
AASP222electrostatic stabiliser

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PDB entries from 2024-05-01

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