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6WOD

Diphosphoinositol polyphosphate phosphohydrolase 1 (DIPP1/NUDT3) in complex with inositol hexakisphosphate and Mg, presoaked with 5-IP7, Mg and Fluoride, soaking 2min in the absence of Fluoride.

Functional Information from GO Data
ChainGOidnamespacecontents
A0016462molecular_functionpyrophosphatase activity
A0016787molecular_functionhydrolase activity
Functional Information from PDB Data
site_idAC1
Number of Residues6
Detailsbinding site for residue MG A 501
ChainResidue
AGLY50
AGLY51
AGLU70
AIHP504
AHOH629
AHOH643

site_idAC2
Number of Residues2
Detailsbinding site for residue CL A 502
ChainResidue
AASN86
AHOH684

site_idAC3
Number of Residues6
Detailsbinding site for residue CL A 503
ChainResidue
ASER30
AGLU31
AGLU32
AGLU33
AHOH664
ASER28

site_idAC4
Number of Residues27
Detailsbinding site for residue IHP A 504
ChainResidue
AARG10
ALYS18
AARG20
ASER39
ASER40
AARG41
AILE47
AGLY50
AGLY51
AGLY52
AGLU70
AARG89
AHIS91
AARG115
ALYS133
AMG501
AHOH601
AHOH602
AHOH603
AHOH615
AHOH629
AHOH636
AHOH643
AHOH653
AHOH672
AHOH679
AHOH692

Functional Information from PROSITE/UniProt
site_idPS00893
Number of Residues22
DetailsNUDIX_BOX Nudix box signature. GgmepeEepsvAAvREVcEEaG
ChainResidueDetails
AGLY51-GLY72

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsACT_SITE: Proton acceptor => ECO:0000305
ChainResidueDetails
AGLU69

site_idSWS_FT_FI2
Number of Residues5
DetailsBINDING: BINDING => ECO:0000269|PubMed:19585659, ECO:0007744|PDB:2FVV, ECO:0007744|PDB:2Q9P
ChainResidueDetails
AARG10
ALYS18
ASER39
AARG89
ALYS133

site_idSWS_FT_FI3
Number of Residues4
DetailsBINDING: BINDING => ECO:0000269|PubMed:19585659, ECO:0007744|PDB:2Q9P
ChainResidueDetails
AGLY50
AGLU66
AGLU70
AARG115

site_idSWS_FT_FI4
Number of Residues1
DetailsMOD_RES: N-acetylmethionine => ECO:0007744|PubMed:22814378
ChainResidueDetails
AMET1

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PDB entries from 2025-07-02

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