Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

8RIY

Human NUDT5 with ibrutinib derivative

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
AAA	0000287	molecular_function	magnesium ion binding
AAA	0003723	molecular_function	RNA binding
AAA	0005515	molecular_function	protein binding
AAA	0005634	cellular_component	nucleus
AAA	0005829	cellular_component	cytosol
AAA	0006139	biological_process	nucleobase-containing compound metabolic process
AAA	0006338	biological_process	chromatin remodeling
AAA	0006753	biological_process	nucleoside phosphate metabolic process
AAA	0009117	biological_process	nucleotide metabolic process
AAA	0009191	biological_process	ribonucleoside diphosphate catabolic process
AAA	0016462	molecular_function	pyrophosphatase activity
AAA	0016740	molecular_function	transferase activity
AAA	0016779	molecular_function	nucleotidyltransferase activity
AAA	0016787	molecular_function	hydrolase activity
AAA	0017110	molecular_function	nucleoside diphosphate phosphatase activity
AAA	0019144	molecular_function	ADP-sugar diphosphatase activity
AAA	0019303	biological_process	D-ribose catabolic process
AAA	0019693	biological_process	ribose phosphate metabolic process
AAA	0030515	molecular_function	snoRNA binding
AAA	0042802	molecular_function	identical protein binding
AAA	0042803	molecular_function	protein homodimerization activity
AAA	0044715	molecular_function	8-oxo-dGDP phosphatase activity
AAA	0044716	molecular_function	8-oxo-GDP phosphatase activity
AAA	0046872	molecular_function	metal ion binding
AAA	0047631	molecular_function	ADP-ribose diphosphatase activity
AAA	0055086	biological_process	nucleobase-containing small molecule metabolic process
AAA	0070062	cellular_component	extracellular exosome
AAA	0140933	molecular_function	5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity
AAA	1990966	biological_process	ATP generation from poly-ADP-D-ribose
BBB	0000287	molecular_function	magnesium ion binding
BBB	0003723	molecular_function	RNA binding
BBB	0005515	molecular_function	protein binding
BBB	0005634	cellular_component	nucleus
BBB	0005829	cellular_component	cytosol
BBB	0006139	biological_process	nucleobase-containing compound metabolic process
BBB	0006338	biological_process	chromatin remodeling
BBB	0006753	biological_process	nucleoside phosphate metabolic process
BBB	0009117	biological_process	nucleotide metabolic process
BBB	0009191	biological_process	ribonucleoside diphosphate catabolic process
BBB	0016462	molecular_function	pyrophosphatase activity
BBB	0016740	molecular_function	transferase activity
BBB	0016779	molecular_function	nucleotidyltransferase activity
BBB	0016787	molecular_function	hydrolase activity
BBB	0017110	molecular_function	nucleoside diphosphate phosphatase activity
BBB	0019144	molecular_function	ADP-sugar diphosphatase activity
BBB	0019303	biological_process	D-ribose catabolic process
BBB	0019693	biological_process	ribose phosphate metabolic process
BBB	0030515	molecular_function	snoRNA binding
BBB	0042802	molecular_function	identical protein binding
BBB	0042803	molecular_function	protein homodimerization activity
BBB	0044715	molecular_function	8-oxo-dGDP phosphatase activity
BBB	0044716	molecular_function	8-oxo-GDP phosphatase activity
BBB	0046872	molecular_function	metal ion binding
BBB	0047631	molecular_function	ADP-ribose diphosphatase activity
BBB	0055086	biological_process	nucleobase-containing small molecule metabolic process
BBB	0070062	cellular_component	extracellular exosome
BBB	0140933	molecular_function	5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity
BBB	1990966	biological_process	ATP generation from poly-ADP-D-ribose

Functional Information from PROSITE/UniProt

site_id	PS00893
Number of Residues	22
Details	NUDIX_BOX Nudix box signature. GliddgEtpeaAAlRELeEEtG

Chain	Residue	Details
AAA	GLY97-GLY118

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	BINDING: in other chain => ECO:0000269\|PubMed:17052728, ECO:0000269\|PubMed:18462755, ECO:0000269\|PubMed:21768126

Chain	Residue	Details
AAA	TRP28
AAA	ARG84
BBB	TRP28
BBB	ARG84

site_id	SWS_FT_FI2
Number of Residues	12
Details	BINDING: BINDING => ECO:0000269\|PubMed:17052728, ECO:0000269\|PubMed:18462755, ECO:0000269\|PubMed:21768126

Chain	Residue	Details
AAA	TRP46
BBB	GLU112
BBB	GLU116
BBB	GLU166
AAA	ARG51
AAA	ALA96
AAA	GLU112
AAA	GLU116
AAA	GLU166
BBB	TRP46
BBB	ARG51
BBB	ALA96

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: in other chain => ECO:0000269\|PubMed:17052728

Chain	Residue	Details
AAA	LEU98
AAA	ASP133
BBB	LEU98
BBB	ASP133

site_id	SWS_FT_FI4
Number of Residues	2
Details	MOD_RES: N-acetylmethionine => ECO:0007744\|PubMed:19413330, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:21406692, ECO:0007744\|PubMed:22223895

Chain	Residue	Details
AAA	MET1
BBB	MET1

site_id	SWS_FT_FI5
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:21406692, ECO:0007744\|PubMed:23186163

Chain	Residue	Details
AAA	SER3
BBB	SER3

site_id	SWS_FT_FI6
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:20068231

Chain	Residue	Details
AAA	SER10
BBB	SER10

site_id	SWS_FT_FI7
Number of Residues	2
Details	MOD_RES: Phosphothreonine => ECO:0000269\|PubMed:27257257

Chain	Residue	Details
AAA	THR45
BBB	THR45

site_id	SWS_FT_FI8
Number of Residues	2
Details	MOD_RES: Phosphotyrosine => ECO:0007744\|PubMed:15592455

Chain	Residue	Details
AAA	TYR74
BBB	TYR74

site_id	SWS_FT_FI9
Number of Residues	4
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744\|PubMed:28112733

Chain	Residue	Details
AAA	LYS42
BBB	LYS42

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)