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8G15

CryoEM structure of nuclear GAPDH under 24h Oxidative Stress

Functional Information from GO Data
ChainGOidnamespacecontents
A0000226biological_processmicrotubule cytoskeleton organization
A0001819biological_processpositive regulation of cytokine production
A0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005737cellular_componentcytoplasm
A0005811cellular_componentlipid droplet
A0005829cellular_componentcytosol
A0005856cellular_componentcytoskeleton
A0005886cellular_componentplasma membrane
A0006006biological_processglucose metabolic process
A0006096biological_processglycolytic process
A0006417biological_processregulation of translation
A0006915biological_processapoptotic process
A0008017molecular_functionmicrotubule binding
A0010951biological_processnegative regulation of endopeptidase activity
A0015630cellular_componentmicrotubule cytoskeleton
A0016020cellular_componentmembrane
A0016241biological_processregulation of macroautophagy
A0016491molecular_functionoxidoreductase activity
A0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
A0016740molecular_functiontransferase activity
A0017148biological_processnegative regulation of translation
A0019828molecular_functionaspartic-type endopeptidase inhibitor activity
A0031640biological_processkilling of cells of another organism
A0031965cellular_componentnuclear membrane
A0031982cellular_componentvesicle
A0032481biological_processpositive regulation of type I interferon production
A0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
A0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
A0042802molecular_functionidentical protein binding
A0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
A0043231cellular_componentintracellular membrane-bounded organelle
A0045087biological_processinnate immune response
A0048471cellular_componentperinuclear region of cytoplasm
A0050661molecular_functionNADP binding
A0050821biological_processprotein stabilization
A0050832biological_processdefense response to fungus
A0051287molecular_functionNAD binding
A0051402biological_processneuron apoptotic process
A0051873biological_processkilling by host of symbiont cells
A0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
A0070062cellular_componentextracellular exosome
A0071346biological_processcellular response to type II interferon
A0097452cellular_componentGAIT complex
A0097718molecular_functiondisordered domain specific binding
A1990904cellular_componentribonucleoprotein complex
B0000226biological_processmicrotubule cytoskeleton organization
B0001819biological_processpositive regulation of cytokine production
B0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005737cellular_componentcytoplasm
B0005811cellular_componentlipid droplet
B0005829cellular_componentcytosol
B0005856cellular_componentcytoskeleton
B0005886cellular_componentplasma membrane
B0006006biological_processglucose metabolic process
B0006096biological_processglycolytic process
B0006417biological_processregulation of translation
B0006915biological_processapoptotic process
B0008017molecular_functionmicrotubule binding
B0010951biological_processnegative regulation of endopeptidase activity
B0015630cellular_componentmicrotubule cytoskeleton
B0016020cellular_componentmembrane
B0016241biological_processregulation of macroautophagy
B0016491molecular_functionoxidoreductase activity
B0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
B0016740molecular_functiontransferase activity
B0017148biological_processnegative regulation of translation
B0019828molecular_functionaspartic-type endopeptidase inhibitor activity
B0031640biological_processkilling of cells of another organism
B0031965cellular_componentnuclear membrane
B0031982cellular_componentvesicle
B0032481biological_processpositive regulation of type I interferon production
B0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
B0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
B0042802molecular_functionidentical protein binding
B0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
B0043231cellular_componentintracellular membrane-bounded organelle
B0045087biological_processinnate immune response
B0048471cellular_componentperinuclear region of cytoplasm
B0050661molecular_functionNADP binding
B0050821biological_processprotein stabilization
B0050832biological_processdefense response to fungus
B0051287molecular_functionNAD binding
B0051402biological_processneuron apoptotic process
B0051873biological_processkilling by host of symbiont cells
B0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
B0070062cellular_componentextracellular exosome
B0071346biological_processcellular response to type II interferon
B0097452cellular_componentGAIT complex
B0097718molecular_functiondisordered domain specific binding
B1990904cellular_componentribonucleoprotein complex
C0000226biological_processmicrotubule cytoskeleton organization
C0001819biological_processpositive regulation of cytokine production
C0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005737cellular_componentcytoplasm
C0005811cellular_componentlipid droplet
C0005829cellular_componentcytosol
C0005856cellular_componentcytoskeleton
C0005886cellular_componentplasma membrane
C0006006biological_processglucose metabolic process
C0006096biological_processglycolytic process
C0006417biological_processregulation of translation
C0006915biological_processapoptotic process
C0008017molecular_functionmicrotubule binding
C0010951biological_processnegative regulation of endopeptidase activity
C0015630cellular_componentmicrotubule cytoskeleton
C0016020cellular_componentmembrane
C0016241biological_processregulation of macroautophagy
C0016491molecular_functionoxidoreductase activity
C0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
C0016740molecular_functiontransferase activity
C0017148biological_processnegative regulation of translation
C0019828molecular_functionaspartic-type endopeptidase inhibitor activity
C0031640biological_processkilling of cells of another organism
C0031965cellular_componentnuclear membrane
C0031982cellular_componentvesicle
C0032481biological_processpositive regulation of type I interferon production
C0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
C0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
C0042802molecular_functionidentical protein binding
C0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
C0043231cellular_componentintracellular membrane-bounded organelle
C0045087biological_processinnate immune response
C0048471cellular_componentperinuclear region of cytoplasm
C0050661molecular_functionNADP binding
C0050821biological_processprotein stabilization
C0050832biological_processdefense response to fungus
C0051287molecular_functionNAD binding
C0051402biological_processneuron apoptotic process
C0051873biological_processkilling by host of symbiont cells
C0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
C0070062cellular_componentextracellular exosome
C0071346biological_processcellular response to type II interferon
C0097452cellular_componentGAIT complex
C0097718molecular_functiondisordered domain specific binding
C1990904cellular_componentribonucleoprotein complex
D0000226biological_processmicrotubule cytoskeleton organization
D0001819biological_processpositive regulation of cytokine production
D0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005737cellular_componentcytoplasm
D0005811cellular_componentlipid droplet
D0005829cellular_componentcytosol
D0005856cellular_componentcytoskeleton
D0005886cellular_componentplasma membrane
D0006006biological_processglucose metabolic process
D0006096biological_processglycolytic process
D0006417biological_processregulation of translation
D0006915biological_processapoptotic process
D0008017molecular_functionmicrotubule binding
D0010951biological_processnegative regulation of endopeptidase activity
D0015630cellular_componentmicrotubule cytoskeleton
D0016020cellular_componentmembrane
D0016241biological_processregulation of macroautophagy
D0016491molecular_functionoxidoreductase activity
D0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
D0016740molecular_functiontransferase activity
D0017148biological_processnegative regulation of translation
D0019828molecular_functionaspartic-type endopeptidase inhibitor activity
D0031640biological_processkilling of cells of another organism
D0031965cellular_componentnuclear membrane
D0031982cellular_componentvesicle
D0032481biological_processpositive regulation of type I interferon production
D0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
D0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
D0042802molecular_functionidentical protein binding
D0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
D0043231cellular_componentintracellular membrane-bounded organelle
D0045087biological_processinnate immune response
D0048471cellular_componentperinuclear region of cytoplasm
D0050661molecular_functionNADP binding
D0050821biological_processprotein stabilization
D0050832biological_processdefense response to fungus
D0051287molecular_functionNAD binding
D0051402biological_processneuron apoptotic process
D0051873biological_processkilling by host of symbiont cells
D0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
D0070062cellular_componentextracellular exosome
D0071346biological_processcellular response to type II interferon
D0097452cellular_componentGAIT complex
D0097718molecular_functiondisordered domain specific binding
D1990904cellular_componentribonucleoprotein complex
Functional Information from PROSITE/UniProt
site_idPS00071
Number of Residues8
DetailsGAPDH Glyceraldehyde 3-phosphate dehydrogenase active site. ASCTTNcL
ChainResidueDetails
AALA150-LEU157

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsACT_SITE: Nucleophile => ECO:0000269|PubMed:25086035
ChainResidueDetails
ACYS152
BCYS152
CCYS152
DCYS152

site_idSWS_FT_FI2
Number of Residues20
DetailsBINDING: BINDING => ECO:0000269|PubMed:16239728, ECO:0000269|PubMed:16510976
ChainResidueDetails
AARG13
BASN316
CARG13
CASP35
CARG80
CSER122
CASN316
DARG13
DASP35
DARG80
DSER122
AASP35
DASN316
AARG80
ASER122
AASN316
BARG13
BASP35
BARG80
BSER122

site_idSWS_FT_FI3
Number of Residues16
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:P22513
ChainResidueDetails
ASER151
CTHR182
CTHR211
CARG234
DSER151
DTHR182
DTHR211
DARG234
ATHR182
ATHR211
AARG234
BSER151
BTHR182
BTHR211
BARG234
CSER151

site_idSWS_FT_FI4
Number of Residues4
DetailsSITE: Activates thiol group during catalysis => ECO:0000305|PubMed:16239728, ECO:0000305|PubMed:16510976
ChainResidueDetails
AHIS179
BHIS179
CHIS179
DHIS179

site_idSWS_FT_FI5
Number of Residues20
DetailsMOD_RES: N6,N6-dimethyllysine => ECO:0000269|PubMed:18183946
ChainResidueDetails
ALYS5
BLYS334
CLYS5
CLYS66
CLYS260
CLYS263
CLYS334
DLYS5
DLYS66
DLYS260
DLYS263
ALYS66
DLYS334
ALYS260
ALYS263
ALYS334
BLYS5
BLYS66
BLYS260
BLYS263

site_idSWS_FT_FI6
Number of Residues28
DetailsMOD_RES: Deamidated asparagine => ECO:0000269|PubMed:18183946
ChainResidueDetails
AASN9
BASN70
BASN149
BASN155
BASN225
BASN316
CASN9
CASN64
CASN70
CASN149
CASN155
AASN64
CASN225
CASN316
DASN9
DASN64
DASN70
DASN149
DASN155
DASN225
DASN316
AASN70
AASN149
AASN155
AASN225
AASN316
BASN9
BASN64

site_idSWS_FT_FI7
Number of Residues4
DetailsMOD_RES: Phosphotyrosine => ECO:0007744|PubMed:15592455
ChainResidueDetails
ATYR42
BTYR42
CTYR42
DTYR42

site_idSWS_FT_FI8
Number of Residues4
DetailsMOD_RES: Methionine sulfoxide; in vitro => ECO:0000305|PubMed:25086035
ChainResidueDetails
AMET46
BMET46
CMET46
DMET46

site_idSWS_FT_FI9
Number of Residues12
DetailsMOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861
ChainResidueDetails
ALYS61
DLYS61
DLYS219
DLYS254
ALYS219
ALYS254
BLYS61
BLYS219
BLYS254
CLYS61
CLYS219
CLYS254

site_idSWS_FT_FI10
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:20068231
ChainResidueDetails
ATHR75
BTHR75
CTHR75
DTHR75

site_idSWS_FT_FI11
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:17081983, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER83
BSER83
CSER83
DSER83

site_idSWS_FT_FI12
Number of Residues8
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:18183946
ChainResidueDetails
ASER122
ASER148
BSER122
BSER148
CSER122
CSER148
DSER122
DSER148

site_idSWS_FT_FI13
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER151
BSER151
CSER151
DSER151

site_idSWS_FT_FI14
Number of Residues4
DetailsMOD_RES: S-nitrosocysteine; in reversibly inhibited form => ECO:0000250|UniProtKB:P04797
ChainResidueDetails
ACYS152
BCYS152
CCYS152
DCYS152

site_idSWS_FT_FI15
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163
ChainResidueDetails
ATHR153
BTHR153
CTHR153
DTHR153

site_idSWS_FT_FI16
Number of Residues8
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:24275569
ChainResidueDetails
ATHR177
ATHR182
BTHR177
BTHR182
CTHR177
CTHR182
DTHR177
DTHR182

site_idSWS_FT_FI17
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:24275569
ChainResidueDetails
ATHR184
BTHR184
CTHR184
DTHR184

site_idSWS_FT_FI18
Number of Residues8
DetailsMOD_RES: N6-malonyllysine; alternate => ECO:0000269|PubMed:21908771
ChainResidueDetails
ALYS194
ALYS215
BLYS194
BLYS215
CLYS194
CLYS215
DLYS194
DLYS215

site_idSWS_FT_FI19
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:19690332
ChainResidueDetails
ATHR211
BTHR211
CTHR211
DTHR211

site_idSWS_FT_FI20
Number of Residues4
DetailsMOD_RES: N6-acetyllysine; alternate => ECO:0007744|PubMed:19608861
ChainResidueDetails
ALYS227
BLYS227
CLYS227
DLYS227

site_idSWS_FT_FI21
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:23186163
ChainResidueDetails
ATHR229
BTHR229
CTHR229
DTHR229

site_idSWS_FT_FI22
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946
ChainResidueDetails
ATHR237
BTHR237
CTHR237
DTHR237

site_idSWS_FT_FI23
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569
ChainResidueDetails
ASER241
BSER241
CSER241
DSER241

site_idSWS_FT_FI24
Number of Residues4
DetailsMOD_RES: S-nitrosocysteine => ECO:0000269|PubMed:22771119, ECO:0000269|PubMed:25417112
ChainResidueDetails
ACYS247
BCYS247
CCYS247
DCYS247

site_idSWS_FT_FI25
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:19690332
ChainResidueDetails
ASER312
BSER312
CSER312
DSER312

site_idSWS_FT_FI26
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER333
BSER333
CSER333
DSER333

site_idSWS_FT_FI27
Number of Residues8
DetailsCARBOHYD: (Microbial infection) N-beta-linked (GlcNAc) arginine => ECO:0000269|PubMed:28522607
ChainResidueDetails
AARG197
AARG200
BARG197
BARG200
CARG197
CARG200
DARG197
DARG200

site_idSWS_FT_FI28
Number of Residues8
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733
ChainResidueDetails
ALYS186
BLYS186
CLYS186
DLYS186

222036

PDB entries from 2024-07-03

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