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8CGH

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

Functional Information from GO Data
ChainGOidnamespacecontents
A0000785cellular_componentchromatin
A0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
A0001933biological_processnegative regulation of protein phosphorylation
A0003676molecular_functionnucleic acid binding
A0003677molecular_functionDNA binding
A0003690molecular_functiondouble-stranded DNA binding
A0003723molecular_functionRNA binding
A0003730molecular_functionmRNA 3'-UTR binding
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005726cellular_componentperichromatin fibrils
A0005737cellular_componentcytoplasm
A0005739cellular_componentmitochondrion
A0006397biological_processmRNA processing
A0008289molecular_functionlipid binding
A0008380biological_processRNA splicing
A0010467biological_processgene expression
A0010468biological_processregulation of gene expression
A0010494cellular_componentcytoplasmic stress granule
A0010629biological_processnegative regulation of gene expression
A0016607cellular_componentnuclear speck
A0031647biological_processregulation of protein stability
A0032024biological_processpositive regulation of insulin secretion
A0034976biological_processresponse to endoplasmic reticulum stress
A0035061cellular_componentinterchromatin granule
A0042307biological_processpositive regulation of protein import into nucleus
A0042752biological_processregulation of circadian rhythm
A0042802molecular_functionidentical protein binding
A0042981biological_processregulation of apoptotic process
A0043232cellular_componentintracellular non-membrane-bounded organelle
A0043922biological_processnegative regulation by host of viral transcription
A0048511biological_processrhythmic process
A0051726biological_processregulation of cell cycle
A0061158biological_process3'-UTR-mediated mRNA destabilization
A0070935biological_process3'-UTR-mediated mRNA stabilization
A0071765biological_processnuclear inner membrane organization
A0097157molecular_functionpre-mRNA intronic binding
A0140693molecular_functionmolecular condensate scaffold activity
A1990000biological_processamyloid fibril formation
B0000785cellular_componentchromatin
B0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
B0001933biological_processnegative regulation of protein phosphorylation
B0003676molecular_functionnucleic acid binding
B0003677molecular_functionDNA binding
B0003690molecular_functiondouble-stranded DNA binding
B0003723molecular_functionRNA binding
B0003730molecular_functionmRNA 3'-UTR binding
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005726cellular_componentperichromatin fibrils
B0005737cellular_componentcytoplasm
B0005739cellular_componentmitochondrion
B0006397biological_processmRNA processing
B0008289molecular_functionlipid binding
B0008380biological_processRNA splicing
B0010467biological_processgene expression
B0010468biological_processregulation of gene expression
B0010494cellular_componentcytoplasmic stress granule
B0010629biological_processnegative regulation of gene expression
B0016607cellular_componentnuclear speck
B0031647biological_processregulation of protein stability
B0032024biological_processpositive regulation of insulin secretion
B0034976biological_processresponse to endoplasmic reticulum stress
B0035061cellular_componentinterchromatin granule
B0042307biological_processpositive regulation of protein import into nucleus
B0042752biological_processregulation of circadian rhythm
B0042802molecular_functionidentical protein binding
B0042981biological_processregulation of apoptotic process
B0043232cellular_componentintracellular non-membrane-bounded organelle
B0043922biological_processnegative regulation by host of viral transcription
B0048511biological_processrhythmic process
B0051726biological_processregulation of cell cycle
B0061158biological_process3'-UTR-mediated mRNA destabilization
B0070935biological_process3'-UTR-mediated mRNA stabilization
B0071765biological_processnuclear inner membrane organization
B0097157molecular_functionpre-mRNA intronic binding
B0140693molecular_functionmolecular condensate scaffold activity
B1990000biological_processamyloid fibril formation
C0000785cellular_componentchromatin
C0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
C0001933biological_processnegative regulation of protein phosphorylation
C0003676molecular_functionnucleic acid binding
C0003677molecular_functionDNA binding
C0003690molecular_functiondouble-stranded DNA binding
C0003723molecular_functionRNA binding
C0003730molecular_functionmRNA 3'-UTR binding
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005726cellular_componentperichromatin fibrils
C0005737cellular_componentcytoplasm
C0005739cellular_componentmitochondrion
C0006397biological_processmRNA processing
C0008289molecular_functionlipid binding
C0008380biological_processRNA splicing
C0010467biological_processgene expression
C0010468biological_processregulation of gene expression
C0010494cellular_componentcytoplasmic stress granule
C0010629biological_processnegative regulation of gene expression
C0016607cellular_componentnuclear speck
C0031647biological_processregulation of protein stability
C0032024biological_processpositive regulation of insulin secretion
C0034976biological_processresponse to endoplasmic reticulum stress
C0035061cellular_componentinterchromatin granule
C0042307biological_processpositive regulation of protein import into nucleus
C0042752biological_processregulation of circadian rhythm
C0042802molecular_functionidentical protein binding
C0042981biological_processregulation of apoptotic process
C0043232cellular_componentintracellular non-membrane-bounded organelle
C0043922biological_processnegative regulation by host of viral transcription
C0048511biological_processrhythmic process
C0051726biological_processregulation of cell cycle
C0061158biological_process3'-UTR-mediated mRNA destabilization
C0070935biological_process3'-UTR-mediated mRNA stabilization
C0071765biological_processnuclear inner membrane organization
C0097157molecular_functionpre-mRNA intronic binding
C0140693molecular_functionmolecular condensate scaffold activity
C1990000biological_processamyloid fibril formation
D0000785cellular_componentchromatin
D0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
D0001933biological_processnegative regulation of protein phosphorylation
D0003676molecular_functionnucleic acid binding
D0003677molecular_functionDNA binding
D0003690molecular_functiondouble-stranded DNA binding
D0003723molecular_functionRNA binding
D0003730molecular_functionmRNA 3'-UTR binding
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005654cellular_componentnucleoplasm
D0005726cellular_componentperichromatin fibrils
D0005737cellular_componentcytoplasm
D0005739cellular_componentmitochondrion
D0006397biological_processmRNA processing
D0008289molecular_functionlipid binding
D0008380biological_processRNA splicing
D0010467biological_processgene expression
D0010468biological_processregulation of gene expression
D0010494cellular_componentcytoplasmic stress granule
D0010629biological_processnegative regulation of gene expression
D0016607cellular_componentnuclear speck
D0031647biological_processregulation of protein stability
D0032024biological_processpositive regulation of insulin secretion
D0034976biological_processresponse to endoplasmic reticulum stress
D0035061cellular_componentinterchromatin granule
D0042307biological_processpositive regulation of protein import into nucleus
D0042752biological_processregulation of circadian rhythm
D0042802molecular_functionidentical protein binding
D0042981biological_processregulation of apoptotic process
D0043232cellular_componentintracellular non-membrane-bounded organelle
D0043922biological_processnegative regulation by host of viral transcription
D0048511biological_processrhythmic process
D0051726biological_processregulation of cell cycle
D0061158biological_process3'-UTR-mediated mRNA destabilization
D0070935biological_process3'-UTR-mediated mRNA stabilization
D0071765biological_processnuclear inner membrane organization
D0097157molecular_functionpre-mRNA intronic binding
D0140693molecular_functionmolecular condensate scaffold activity
D1990000biological_processamyloid fibril formation
U0000785cellular_componentchromatin
U0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
U0001933biological_processnegative regulation of protein phosphorylation
U0003676molecular_functionnucleic acid binding
U0003677molecular_functionDNA binding
U0003690molecular_functiondouble-stranded DNA binding
U0003723molecular_functionRNA binding
U0003730molecular_functionmRNA 3'-UTR binding
U0005515molecular_functionprotein binding
U0005634cellular_componentnucleus
U0005654cellular_componentnucleoplasm
U0005726cellular_componentperichromatin fibrils
U0005737cellular_componentcytoplasm
U0005739cellular_componentmitochondrion
U0006397biological_processmRNA processing
U0008289molecular_functionlipid binding
U0008380biological_processRNA splicing
U0010467biological_processgene expression
U0010468biological_processregulation of gene expression
U0010494cellular_componentcytoplasmic stress granule
U0010629biological_processnegative regulation of gene expression
U0016607cellular_componentnuclear speck
U0031647biological_processregulation of protein stability
U0032024biological_processpositive regulation of insulin secretion
U0034976biological_processresponse to endoplasmic reticulum stress
U0035061cellular_componentinterchromatin granule
U0042307biological_processpositive regulation of protein import into nucleus
U0042752biological_processregulation of circadian rhythm
U0042802molecular_functionidentical protein binding
U0042981biological_processregulation of apoptotic process
U0043232cellular_componentintracellular non-membrane-bounded organelle
U0043922biological_processnegative regulation by host of viral transcription
U0048511biological_processrhythmic process
U0051726biological_processregulation of cell cycle
U0061158biological_process3'-UTR-mediated mRNA destabilization
U0070935biological_process3'-UTR-mediated mRNA stabilization
U0071765biological_processnuclear inner membrane organization
U0097157molecular_functionpre-mRNA intronic binding
U0140693molecular_functionmolecular condensate scaffold activity
U1990000biological_processamyloid fibril formation
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues5
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163
ChainResidueDetails
USER183
ASER183
BSER183
CSER183
DSER183

site_idSWS_FT_FI2
Number of Residues5
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:23186163, ECO:0007744|PubMed:24275569
ChainResidueDetails
USER292
ASER292
BSER292
CSER292
DSER292

site_idSWS_FT_FI3
Number of Residues5
DetailsMOD_RES: Omega-N-methylarginine => ECO:0007744|PubMed:24129315
ChainResidueDetails
UARG293
AARG293
BARG293
CARG293
DARG293

site_idSWS_FT_FI4
Number of Residues25
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733
ChainResidueDetails
ULYS79
ALYS263
BLYS79
BLYS84
BLYS95
BLYS263
CLYS79
CLYS84
CLYS95
CLYS263
DLYS79
DLYS84
DLYS95
DLYS263
ULYS84
ULYS95
ULYS263
ALYS79
ALYS84
ALYS95

site_idSWS_FT_FI5
Number of Residues5
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:25772364
ChainResidueDetails
ULYS102
ALYS102
BLYS102
CLYS102
DLYS102

site_idSWS_FT_FI6
Number of Residues5
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:25218447, ECO:0007744|PubMed:25772364, ECO:0007744|PubMed:28112733
ChainResidueDetails
ULYS181
ALYS181
BLYS181
CLYS181
DLYS181

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PDB entries from 2024-10-30

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