6TXA

Crystal structure of tetrameric human D137N-SAMHD1 (residues 109-626) with XTP, dGMPNPP and Mg

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	PF01966	e6txaC1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
D	PF01966	e6txaD1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
E	PF01966	e6txaE1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
F	PF01966	e6txaF1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
G	PF01966	e6txaG1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
H	PF01966	e6txaH1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
I	PF01966	e6txaI1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
J	PF01966	e6txaJ1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
K	PF01966	e6txaK1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
L	PF01966	e6txaL1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
M	PF01966	e6txaM1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
O	PF01966	e6txaO1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
P	PF01966	e6txaP1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
A	PF01966	e6txaA1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
B	PF01966	e6txaB1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
N	PF01966	e6txaN1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	PF01966	HD domain (HD)	HD domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	Deoxynucleoside triphosphate triphosphohydrolase SAMHD1	binding organic cyclic compound binding nucleic acid binding dGTP binding guanyl nucleotide binding deoxyribonucleotide binding nucleotide binding purine deoxyribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding guanyl deoxyribonucleotide binding heterocyclic compound binding binding organic cyclic compound binding nucleic acid binding dGTP binding guanyl nucleotide binding deoxyribonucleotide binding nucleotide binding purine deoxyribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding guanyl deoxyribonucleotide binding heterocyclic compound binding carbohydrate derivative binding small molecule binding phosphoric ester hydrolase activity triphosphoric monoester hydrolase activity dGTPase activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity RNA binding GTP binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding ribonucleotide binding nuclease activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity deoxynucleoside triphosphate hydrolase activity cation binding transition metal ion binding zinc ion binding metal ion binding identical protein binding protein binding DNA binding single-stranded DNA binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process immune response immune system process deoxyribonucleotide catabolic process catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process nucleobase-containing compound metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process immune response immune system process deoxyribonucleotide catabolic process catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process nucleobase-containing compound metabolic process organic substance metabolic process deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process nucleotide catabolic process nucleoside phosphate metabolic process carbohydrate derivative catabolic process cellular metabolic process primary metabolic process nucleotide metabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process organic cyclic compound metabolic process organophosphate metabolic process metabolic process organic substance catabolic process response to organic substance regulation of cellular process regulation of type I interferon-mediated signaling pathway negative regulation of biological process response to cytokine regulation of signal transduction response to biotic stimulus cell communication interferon-mediated signaling pathway cellular response to type I interferon cellular response to cytokine stimulus regulation of immune system process signal transduction regulation of biological process response to other organism regulation of innate immune response negative regulation of immune response response to external stimulus regulation of response to cytokine stimulus negative regulation of response to cytokine stimulus regulation of response to stimulus response to chemical defense response to other organism negative regulation of response to external stimulus negative regulation of defense response regulation of immune response response to type I interferon regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus negative regulation of response to biotic stimulus negative regulation of signaling signaling negative regulation of cell communication cytokine-mediated signaling pathway regulation of response to stress negative regulation of cellular process innate immune response cellular response to organic substance response to external biotic stimulus regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus defense response regulation of cytokine-mediated signaling pathway biological regulation defense response to symbiont negative regulation of signal transduction cellular response to chemical stimulus negative regulation of immune system process negative regulation of cytokine-mediated signaling pathway type I interferon-mediated signaling pathway regulation of cell communication negative regulation of type I interferon-mediated signaling pathway negative regulation of innate immune response protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis immune system development multicellular organismal process immunoglobulin production cellular biosynthetic process somatic diversification of immune receptors via somatic mutation multicellular organism development anatomical structure development organic substance biosynthetic process somatic diversification of immune receptors somatic hypermutation of immunoglobulin genes system development developmental process production of molecular mediator of immune response gene expression macromolecule biosynthetic process somatic diversification of immunoglobulins biosynthetic process macromolecule metabolic process nucleoside triphosphate catabolic process purine nucleoside triphosphate catabolic process purine deoxyribonucleoside triphosphate metabolic process dGTP metabolic process deoxyribose phosphate catabolic process purine nucleotide metabolic process purine deoxyribonucleoside triphosphate catabolic process deoxyribonucleoside triphosphate metabolic process organonitrogen compound catabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process purine deoxyribonucleotide catabolic process organonitrogen compound metabolic process 2'-deoxyribonucleotide metabolic process purine-containing compound catabolic process deoxyribonucleoside triphosphate catabolic process deoxyribose phosphate metabolic process purine-containing compound metabolic process purine deoxyribonucleotide metabolic process nucleoside triphosphate metabolic process dGTP catabolic process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity DNA metabolic process nucleic acid metabolic process DNA replication DNA strand resection involved in replication fork processing replication fork processing double-strand break repair DNA recombination recombinational repair double-strand break repair via homologous recombination DNA repair dATP metabolic process dATP catabolic process defense response to virus response to virus	cell periphery plasma membrane membrane cellular anatomical entity membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle cell periphery plasma membrane membrane cellular anatomical entity membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen site of double-strand break intracellular non-membrane-bounded organelle site of DNA damage chromosome non-membrane-bounded organelle tetraspanin-enriched microdomain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR006674	HD domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR003607	HD/PDEase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR013761	Sterile alpha motif/pointed domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR001660	Sterile alpha motif domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	Pharos: Q9Y3Z3	Aicardi-Goutieres syndrome chilblain lupus Aicardi-Goutieres syndrome 5 chilblain lupus 2 mitochondrial DNA depletion syndrome, hepatocerebral form HIV infectious disease interstitial cystitis leukodystrophy lung carcinoma adenoma Mitochondrial Diseases Aicardi-Goutieres syndrome 2 non-small cell lung carcinoma astrocytic tumor ovarian cancer Aicardi-Goutieres syndrome chilblain lupus Aicardi-Goutieres syndrome 5 chilblain lupus 2 mitochondrial DNA depletion syndrome, hepatocerebral form HIV infectious disease interstitial cystitis leukodystrophy lung carcinoma adenoma Mitochondrial Diseases Aicardi-Goutieres syndrome 2 non-small cell lung carcinoma astrocytic tumor ovarian cancer pancreatic intraductal papillary-mucinous neoplasm cutaneous lupus erythematosus pituitary cancer Emery-Dreifuss muscular dystrophy subependymal giant cell astrocytoma gastric carcinoma IgA glomerulonephritis juvenile dermatomyositis limb-girdle muscular dystrophy malignant glioma oligodendroglioma B-cell chronic lymphocytic leukemia pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pseudo-TORCH syndrome tuberculosis glioblastoma intellectual disability large cell medulloblastoma lung cancer medulloblastoma Aicardi-Goutieres syndrome 1 myopathy osteosarcoma cerebrovascular disorder pancreatic intraductal papillary-mucinous carcinoma Crohn disease pilocytic astrocytoma Duchenne muscular dystrophy Sjogren syndrome facioscapulohumeral muscular dystrophy ulcerative colitis

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.