6T4B | pdb_00006t4b

CRYSTAL STRUCTURE OF HUMAN TDP-43 N-TERMINAL DOMAIN AT 2.55 A RESOLUTION

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)
E [auth I]	RNase_P_p30	e6t4bI1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (v294.1)
D [auth G]	RNase_P_p30	e6t4bG1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (v294.1)
C [auth E]	RNase_P_p30	e6t4bE1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (v294.1)
B [auth C]	RNase_P_p30	e6t4bC1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (v294.1)
A	RNase_P_p30	e6t4bA1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth E], D [auth G], E [auth I]	PF18694	TAR DNA-binding protein 43, N-terminal domain (TDP-43_N)	TAR DNA-binding protein 43, N-terminal domain	This is the N-terminal domain of transactive response DNA-binding protein 43 kDa (TDP-43), an RNA transporting and processing protein whose aberrant aggregates are implicated in neurodegenerative diseases. TDP-43 N-terminal domain has been shown to p ...	This is the N-terminal domain of transactive response DNA-binding protein 43 kDa (TDP-43), an RNA transporting and processing protein whose aberrant aggregates are implicated in neurodegenerative diseases. TDP-43 N-terminal domain has been shown to play an important role in the aggregation of TDP-43 monomers and its loss of function affects the RNA metabolic levels. Secondary structure of the N-terminal domain consists of six beta-strands and it resembles axin 1 [1-3]. This domain is known to mediate TDP-43 dimerization. This region is followed by a nuclear localization sequence (NLS) which links the N-terminal domain with the RNA recognition motif 1 (RRM1).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth E], D [auth G], E [auth I]	TAR DNA-binding protein 43	DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity mRNA 3'-UTR binding RNA binding mRNA binding lipid binding pre-mRNA binding pre-mRNA intronic binding identical protein binding protein binding	membrane organization cellular component organization nucleus organization organelle organization nuclear envelope organization nuclear inner membrane organization cellular process cellular component organization or biogenesis endomembrane system organization nuclear membrane organization rhythmic process regulation of biological process circadian rhythm biological regulation membrane organization cellular component organization nucleus organization organelle organization nuclear envelope organization nuclear inner membrane organization cellular process cellular component organization or biogenesis endomembrane system organization nuclear membrane organization rhythmic process regulation of biological process circadian rhythm biological regulation regulation of circadian rhythm metabolic process primary metabolic process protein metabolic process macromolecule metabolic process supramolecular fiber organization amyloid fibril formation regulation of biosynthetic process regulation of cellular process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process regulation of primary metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process protein modification process phosphorus metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process negative regulation of protein phosphorylation macromolecule modification negative regulation of phosphorus metabolic process regulation of phosphorylation regulation of phosphorus metabolic process negative regulation of phosphorylation regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death 3'-UTR-mediated mRNA destabilization nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process positive regulation of mRNA metabolic process nucleobase-containing compound catabolic process positive regulation of RNA metabolic process negative regulation of gene expression negative regulation of macromolecule biosynthetic process nucleic acid catabolic process catabolic process positive regulation of biological process RNA metabolic process mRNA destabilization macromolecule catabolic process regulation of mRNA catabolic process positive regulation of cellular process RNA destabilization regulation of catabolic process mRNA metabolic process nucleic acid metabolic process positive regulation of catabolic process regulation of mRNA stability negative regulation of biosynthetic process positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process nucleobase-containing compound biosynthetic process mRNA processing RNA biosynthetic process nucleic acid biosynthetic process RNA processing regulation of localization establishment of protein localization cellular localization regulation of protein localization nucleocytoplasmic transport transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of establishment of protein localization regulation of protein localization to nucleus positive regulation of protein transport localization intercellular transport import into nucleus regulation of protein import into nucleus establishment of localization in cell protein import into nucleus positive regulation of intracellular transport intracellular protein localization regulation of intracellular transport regulation of transport positive regulation of protein localization to nucleus regulation of establishment of protein localization positive regulation of protein import into nucleus intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of localization establishment of protein localization to organelle positive regulation of transport protein transport regulation of cellular localization macromolecule localization protein localization to organelle positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport RNA splicing regulation of protein stability biological process involved in interspecies interaction between organisms host-mediated suppression of viral proces host-mediated perturbation of viral transcription host-mediated suppression of viral transcription host-mediated perturbation of viral process modulation of process of another organism host-mediated perturbation of symbiont process cell cycle regulation of cell cycle positive regulation of macromolecule biosynthetic process negative regulation of nucleobase-containing compound metabolic process mRNA stabilization negative regulation of RNA metabolic process negative regulation of mRNA metabolic process 3'-UTR-mediated mRNA stabilization positive regulation of biosynthetic process negative regulation of catabolic process negative regulation of mRNA catabolic process negative regulation of RNA catabolic process RNA stabilization positive regulation of gene expression positive regulation of cell communication nitrogen compound transport cell communication positive regulation of insulin secretion regulation of peptide hormone secretion regulation of hormone levels positive regulation of peptide hormone secretion establishment of protein localization to extracellular region protein secretion regulation of protein secretion regulation of secretion regulation of hormone secretion regulation of peptide secretion signaling positive regulation of secretion by cell hormone secretion protein localization to extracellular region peptide secretion regulation of secretion by cell secretion by cell positive regulation of hormone secretion positive regulation of secretion signal release positive regulation of peptide secretion regulation of signaling secretion regulation of peptide transport export from cell cell-cell signaling positive regulation of protein secretion peptide transport regulation of insulin secretion peptide hormone secretion hormone transport regulation of cell communication insulin secretion positive regulation of signaling cellular response to stimulus cellular response to stress response to stimulus response to stress response to endoplasmic reticulum stress	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen perichromatin fibrils nuclear chromosome intracellular membraneless organelle chromosome membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen perichromatin fibrils nuclear chromosome intracellular membraneless organelle chromosome chromatin intracellular organelle lumen organelle lumen membraneless organelle nuclear lumen cytoplasmic ribonucleoprotein granule ribonucleoprotein granule supramolecular complex cytoplasmic stress granule nuclear speck nuclear body nucleoplasm nuclear ribonucleoprotein granule interchromatin granule

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth E], D [auth G], E [auth I]	IPR000504	RNA recognition motif domain	Domain
A, B [auth C], C [auth E], D [auth G], E [auth I]	IPR049124	TAR DNA-binding protein 43, C-terminal	Domain
A, B [auth C], C [auth E], D [auth G], E [auth I]	IPR041105	TAR DNA-binding protein 43, N-terminal	Domain
A, B [auth C], C [auth E], D [auth G], E [auth I]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G], E [auth I]	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B [auth C], C [auth E], D [auth G], E [auth I]	Pharos: Q13148	amyotrophic lateral sclerosis amyotrophic lateral sclerosis type 10 Frontotemporal Lobar Degeneration neurodegenerative disease intellectual disability Pick disease acute myeloid leukemia androgenetic alopecia brain disease diabetes mellitus frontotemporal dementia with motor neuron disease juvenile dermatomyositis osteosarcoma plasma cell myeloma aphasia amyotrophic lateral sclerosis amyotrophic lateral sclerosis type 10 Frontotemporal Lobar Degeneration neurodegenerative disease intellectual disability Pick disease acute myeloid leukemia androgenetic alopecia brain disease diabetes mellitus frontotemporal dementia with motor neuron disease juvenile dermatomyositis osteosarcoma plasma cell myeloma aphasia dementia Ewing sarcoma lung carcinoma ovarian cancer astrocytic tumor dermatomyositis frontotemporal dementia

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.