Structure of PDB 4zbp Chain C Binding Site BS01

Receptor Information
>4zbp Chain C (length=262) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QQIPLLEGETDNYDGVTVTMVEPMDSEVFTESLRASLSHWREEGKKGIWI
KLPLGLANLVEAAVSEGFRYHHAEPEYLMLVSWISETPDTIPANASHVVG
AGALVINKNTKEVLVVWKLPTGVINEGEDIWTGVAREVEEETGIIADFVE
VLAFRQSHKAILKKKTDMFFLCVLSPRSYDITEQKSEILQAKWMPIQEYV
DQPWNKKNEMFKFMANICQKKCEEEYLGFAIVPTTTSSGKESFIYCNADH
AKRLKVSRDQAS
Ligand information
Ligand IDADV
InChIInChI=1S/C16H25N5O13P2/c17-13-8-14(19-3-18-13)21(4-20-8)15-11(24)9(22)6(33-15)1-31-35(27,28)5-36(29,30)32-2-7-10(23)12(25)16(26)34-7/h3-4,6-7,9-12,15-16,22-26H,1-2,5H2,(H,27,28)(H,29,30)(H2,17,18,19)/t6-,7-,9-,10-,11-,12-,15-,16+/m1/s1
InChIKeyZPZRETFSCSWNDT-DBXCYWGHSA-N
SMILES
SoftwareSMILES
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)C[P](O)(=O)OC[CH]4O[CH](O)[CH](O)[CH]4O)[CH](O)[CH]3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(CP(=O)(O)OCC4C(C(C(O4)O)O)O)O)O)O)N
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(C[P@](=O)(O)OC[C@@H]4[C@H]([C@H]([C@H](O4)O)O)O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)C[P@@](O)(=O)OC[C@H]4O[C@H](O)[C@H](O)[C@@H]4O)[C@@H](O)[C@H]3O
ACDLabs 10.04O=P(O)(OCC3OC(n1c2ncnc(N)c2nc1)C(O)C3O)CP(=O)(O)OCC4OC(O)C(O)C4O
FormulaC16 H25 N5 O13 P2
NameALPHA-BETA METHYLENE ADP-RIBOSE;
AMPCPR;
{[5-(6-AMINO-PURIN-9-YL)-3,4-DIHYDROXY-TETRAHYDRO-FURAN-2-YLMETHOXY]-HYDROXY-PHOSPHORYLMETHYL}-PHOSPHONIC ACID MONO-(3,4,5-TRIHYDROXY-TETRAHYDRO-FURAN-2-YLMETHYL) ESTER
ChEMBL
DrugBankDB01975
ZINCZINC000015636817
PDB chain4zbp Chain C Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4zbp Crystal Structures of Arabidopsis thaliana Nudix Hydrolase NUDT7 Reveal a Previously Unobserved Conformation.
Resolution2.6 Å
Binding residue
(original residue number in PDB)
T138 G139 V140 D184
Binding residue
(residue number reindexed from 1)
T121 G122 V123 D167
Annotation score3
Enzymatic activity
Enzyme Commision number 3.6.1.-
3.6.1.13: ADP-ribose diphosphatase.
3.6.1.22: NAD(+) diphosphatase.
Gene Ontology
Molecular Function
GO:0000210 NAD+ diphosphatase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0035529 NADH pyrophosphatase activity
GO:0046872 metal ion binding
GO:0047631 ADP-ribose diphosphatase activity
GO:0051287 NAD binding
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005886 plasma membrane

View graph for
Molecular Function

View graph for
Cellular Component
External links
PDB RCSB:4zbp, PDBe:4zbp, PDBj:4zbp
PDBsum4zbp
PubMed26253775
UniProtQ9SU14|NUDT7_ARATH Nudix hydrolase 7 (Gene Name=NUDT7)

[Back to BioLiP]