2LRR | pdb_00002lrr

Solution structure of the R3H domain from human Smubp-2 in complex with 2'-deoxyguanosine-5'-monophosphate

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2lrra_	Alpha and beta proteins (a+b)	IF3-like	R3H domain	R3H domain	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	R3H domain	8043763	3000516	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Peptidase_M1	e2lrrA1	A: a/b three-layered sandwiches	X: Globin-like	H: Nucleoside diphosphate kinases	T: Nucleoside diphosphate kinases	F: Peptidase_M1	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1370.50	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01424	R3H domain (R3H)	R3H domain	The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	DNA-binding protein SMUBP-2	nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity macromolecular conformation isomerase activity transcription factor binding protein binding binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity macromolecular conformation isomerase activity transcription factor binding protein binding binding general transcription initiation factor binding RNA binding nucleic acid binding single-stranded RNA binding tRNA binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding ATP-dependent activity, acting on RNA ribonucleoprotein complex binding protein-containing complex binding ribosome binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity, acting on RNA RNA helicase activity 5'-3' RNA helicase activity cation binding transition metal ion binding zinc ion binding metal ion binding identical protein binding single-stranded DNA binding double-stranded DNA helicase activity	-	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol growth cone axon cell projection distal axon neuron projection plasma membrane bounded cell projection site of polarized growth membrane-bounded organelle nucleus cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol growth cone axon cell projection distal axon neuron projection plasma membrane bounded cell projection site of polarized growth membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex ribonucleoprotein complex intracellular membraneless organelle nuclear body membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR041677	DNA2/NAM7 helicase, helicase domain	Domain
A	IPR050534	Coronaviruses polyprotein 1ab	Family
A	IPR034072	DNA-binding protein SMUBP-2, R3H domain	Domain
A	IPR048761	Helicase SMUBP-2/HCS1, 1B domain	Domain
A	IPR041679	DNA2/NAM7 helicase-like, C-terminal	Domain
A	IPR001374	R3H domain	Domain
A	IPR003593	AAA+ ATPase domain	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR000058	Zinc finger, AN1-type	Domain
A	IPR004483	Helicase SMUBP-2/Hcs1-like	Family
A	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A	IPR035896	AN1-like Zinc finger	Homologous Superfamily
A	IPR036867	R3H domain superfamily	Homologous Superfamily
A	IPR047187	Upf1-like, C-terminal helicase domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P38935	autosomal recessive distal spinal muscular atrophy 1 Charcot-Marie-Tooth disease axonal type 2S Charcot-Marie-Tooth disease peripheral neuropathy arthrogryposis motor peripheral neuropathy intellectual disability neurodegenerative disease psoriasis malignant mesothelioma peripheral nervous system disease spinal muscular atrophy, type 1

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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.