8CGH

Structure of TDP-43 amyloid filament from type A FTLD-TDP (variant 3)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000785	cellular_component	chromatin
A	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
A	0001933	biological_process	negative regulation of protein phosphorylation
A	0003676	molecular_function	nucleic acid binding
A	0003677	molecular_function	DNA binding
A	0003690	molecular_function	double-stranded DNA binding
A	0003723	molecular_function	RNA binding
A	0003730	molecular_function	mRNA 3'-UTR binding
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005726	cellular_component	perichromatin fibrils
A	0005737	cellular_component	cytoplasm
A	0005739	cellular_component	mitochondrion
A	0006351	biological_process	DNA-templated transcription
A	0006397	biological_process	mRNA processing
A	0008289	molecular_function	lipid binding
A	0008380	biological_process	RNA splicing
A	0010468	biological_process	regulation of gene expression
A	0010494	cellular_component	cytoplasmic stress granule
A	0010629	biological_process	negative regulation of gene expression
A	0016607	cellular_component	nuclear speck
A	0031647	biological_process	regulation of protein stability
A	0032024	biological_process	positive regulation of insulin secretion
A	0034976	biological_process	response to endoplasmic reticulum stress
A	0035061	cellular_component	interchromatin granule
A	0042307	biological_process	positive regulation of protein import into nucleus
A	0042752	biological_process	regulation of circadian rhythm
A	0042802	molecular_function	identical protein binding
A	0042981	biological_process	regulation of apoptotic process
A	0043922	biological_process	host-mediated suppression of viral transcription
A	0048511	biological_process	rhythmic process
A	0051726	biological_process	regulation of cell cycle
A	0061158	biological_process	3'-UTR-mediated mRNA destabilization
A	0070935	biological_process	3'-UTR-mediated mRNA stabilization
A	0071765	biological_process	nuclear inner membrane organization
A	0097157	molecular_function	pre-mRNA intronic binding
A	0140693	molecular_function	molecular condensate scaffold activity
A	1990000	biological_process	amyloid fibril formation
B	0000785	cellular_component	chromatin
B	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
B	0001933	biological_process	negative regulation of protein phosphorylation
B	0003676	molecular_function	nucleic acid binding
B	0003677	molecular_function	DNA binding
B	0003690	molecular_function	double-stranded DNA binding
B	0003723	molecular_function	RNA binding
B	0003730	molecular_function	mRNA 3'-UTR binding
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005726	cellular_component	perichromatin fibrils
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0006351	biological_process	DNA-templated transcription
B	0006397	biological_process	mRNA processing
B	0008289	molecular_function	lipid binding
B	0008380	biological_process	RNA splicing
B	0010468	biological_process	regulation of gene expression
B	0010494	cellular_component	cytoplasmic stress granule
B	0010629	biological_process	negative regulation of gene expression
B	0016607	cellular_component	nuclear speck
B	0031647	biological_process	regulation of protein stability
B	0032024	biological_process	positive regulation of insulin secretion
B	0034976	biological_process	response to endoplasmic reticulum stress
B	0035061	cellular_component	interchromatin granule
B	0042307	biological_process	positive regulation of protein import into nucleus
B	0042752	biological_process	regulation of circadian rhythm
B	0042802	molecular_function	identical protein binding
B	0042981	biological_process	regulation of apoptotic process
B	0043922	biological_process	host-mediated suppression of viral transcription
B	0048511	biological_process	rhythmic process
B	0051726	biological_process	regulation of cell cycle
B	0061158	biological_process	3'-UTR-mediated mRNA destabilization
B	0070935	biological_process	3'-UTR-mediated mRNA stabilization
B	0071765	biological_process	nuclear inner membrane organization
B	0097157	molecular_function	pre-mRNA intronic binding
B	0140693	molecular_function	molecular condensate scaffold activity
B	1990000	biological_process	amyloid fibril formation
C	0000785	cellular_component	chromatin
C	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
C	0001933	biological_process	negative regulation of protein phosphorylation
C	0003676	molecular_function	nucleic acid binding
C	0003677	molecular_function	DNA binding
C	0003690	molecular_function	double-stranded DNA binding
C	0003723	molecular_function	RNA binding
C	0003730	molecular_function	mRNA 3'-UTR binding
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005726	cellular_component	perichromatin fibrils
C	0005737	cellular_component	cytoplasm
C	0005739	cellular_component	mitochondrion
C	0006351	biological_process	DNA-templated transcription
C	0006397	biological_process	mRNA processing
C	0008289	molecular_function	lipid binding
C	0008380	biological_process	RNA splicing
C	0010468	biological_process	regulation of gene expression
C	0010494	cellular_component	cytoplasmic stress granule
C	0010629	biological_process	negative regulation of gene expression
C	0016607	cellular_component	nuclear speck
C	0031647	biological_process	regulation of protein stability
C	0032024	biological_process	positive regulation of insulin secretion
C	0034976	biological_process	response to endoplasmic reticulum stress
C	0035061	cellular_component	interchromatin granule
C	0042307	biological_process	positive regulation of protein import into nucleus
C	0042752	biological_process	regulation of circadian rhythm
C	0042802	molecular_function	identical protein binding
C	0042981	biological_process	regulation of apoptotic process
C	0043922	biological_process	host-mediated suppression of viral transcription
C	0048511	biological_process	rhythmic process
C	0051726	biological_process	regulation of cell cycle
C	0061158	biological_process	3'-UTR-mediated mRNA destabilization
C	0070935	biological_process	3'-UTR-mediated mRNA stabilization
C	0071765	biological_process	nuclear inner membrane organization
C	0097157	molecular_function	pre-mRNA intronic binding
C	0140693	molecular_function	molecular condensate scaffold activity
C	1990000	biological_process	amyloid fibril formation
D	0000785	cellular_component	chromatin
D	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
D	0001933	biological_process	negative regulation of protein phosphorylation
D	0003676	molecular_function	nucleic acid binding
D	0003677	molecular_function	DNA binding
D	0003690	molecular_function	double-stranded DNA binding
D	0003723	molecular_function	RNA binding
D	0003730	molecular_function	mRNA 3'-UTR binding
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005726	cellular_component	perichromatin fibrils
D	0005737	cellular_component	cytoplasm
D	0005739	cellular_component	mitochondrion
D	0006351	biological_process	DNA-templated transcription
D	0006397	biological_process	mRNA processing
D	0008289	molecular_function	lipid binding
D	0008380	biological_process	RNA splicing
D	0010468	biological_process	regulation of gene expression
D	0010494	cellular_component	cytoplasmic stress granule
D	0010629	biological_process	negative regulation of gene expression
D	0016607	cellular_component	nuclear speck
D	0031647	biological_process	regulation of protein stability
D	0032024	biological_process	positive regulation of insulin secretion
D	0034976	biological_process	response to endoplasmic reticulum stress
D	0035061	cellular_component	interchromatin granule
D	0042307	biological_process	positive regulation of protein import into nucleus
D	0042752	biological_process	regulation of circadian rhythm
D	0042802	molecular_function	identical protein binding
D	0042981	biological_process	regulation of apoptotic process
D	0043922	biological_process	host-mediated suppression of viral transcription
D	0048511	biological_process	rhythmic process
D	0051726	biological_process	regulation of cell cycle
D	0061158	biological_process	3'-UTR-mediated mRNA destabilization
D	0070935	biological_process	3'-UTR-mediated mRNA stabilization
D	0071765	biological_process	nuclear inner membrane organization
D	0097157	molecular_function	pre-mRNA intronic binding
D	0140693	molecular_function	molecular condensate scaffold activity
D	1990000	biological_process	amyloid fibril formation
U	0000785	cellular_component	chromatin
U	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
U	0001933	biological_process	negative regulation of protein phosphorylation
U	0003676	molecular_function	nucleic acid binding
U	0003677	molecular_function	DNA binding
U	0003690	molecular_function	double-stranded DNA binding
U	0003723	molecular_function	RNA binding
U	0003730	molecular_function	mRNA 3'-UTR binding
U	0005515	molecular_function	protein binding
U	0005634	cellular_component	nucleus
U	0005654	cellular_component	nucleoplasm
U	0005726	cellular_component	perichromatin fibrils
U	0005737	cellular_component	cytoplasm
U	0005739	cellular_component	mitochondrion
U	0006351	biological_process	DNA-templated transcription
U	0006397	biological_process	mRNA processing
U	0008289	molecular_function	lipid binding
U	0008380	biological_process	RNA splicing
U	0010468	biological_process	regulation of gene expression
U	0010494	cellular_component	cytoplasmic stress granule
U	0010629	biological_process	negative regulation of gene expression
U	0016607	cellular_component	nuclear speck
U	0031647	biological_process	regulation of protein stability
U	0032024	biological_process	positive regulation of insulin secretion
U	0034976	biological_process	response to endoplasmic reticulum stress
U	0035061	cellular_component	interchromatin granule
U	0042307	biological_process	positive regulation of protein import into nucleus
U	0042752	biological_process	regulation of circadian rhythm
U	0042802	molecular_function	identical protein binding
U	0042981	biological_process	regulation of apoptotic process
U	0043922	biological_process	host-mediated suppression of viral transcription
U	0048511	biological_process	rhythmic process
U	0051726	biological_process	regulation of cell cycle
U	0061158	biological_process	3'-UTR-mediated mRNA destabilization
U	0070935	biological_process	3'-UTR-mediated mRNA stabilization
U	0071765	biological_process	nuclear inner membrane organization
U	0097157	molecular_function	pre-mRNA intronic binding
U	0140693	molecular_function	molecular condensate scaffold activity
U	1990000	biological_process	amyloid fibril formation

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	80
Details	Compositional bias: {"description":"Low complexity","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI2
Number of Residues	5
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	5
Details	Modified residue: {"description":"Omega-N-methylarginine","evidences":[{"source":"PubMed","id":"24129315","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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