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6ADE

Crystal structure of phosphorylated mutant of glyceraldehyde 3-phosphate dehydrogenase from human placenta at 3.15A resolution

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
Functional Information from PDB Data
site_idAC1
Number of Residues23
Detailsbinding site for residue NAD A 401
ChainResidue
AASN9
APHE37
AILE38
AARG80
ASER98
ATHR99
AGLY100
APHE102
ASER122
ACYS152
ATHR182
AGLY10
AASP189
APRO191
AASN316
ATYR320
APHE11
AGLY12
AARG13
AILE14
AASN34
AASP35
APRO36

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 Residues3
DetailsACT_SITE: Nucleophile => ECO:0000269|PubMed:25086035
ChainResidueDetails
ACYS152
BCYS152
CCYS152

site_idSWS_FT_FI2
Number of Residues15
DetailsBINDING: BINDING => ECO:0000269|PubMed:16239728, ECO:0000269|PubMed:16510976
ChainResidueDetails
ASER122
AASN316
BARG13
BASP35
BARG80
BSER122
BASN316
CARG13
CASP35
CARG80
CSER122
CASN316
AARG13
AASP35
AARG80

site_idSWS_FT_FI3
Number of Residues12
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:P22513
ChainResidueDetails
CTHR182
CTHR211
CARG234
ASEP151
ATHR182
ATHR211
AARG234
BSEP151
BTHR182
BTHR211
BARG234
CSEP151

site_idSWS_FT_FI4
Number of Residues3
DetailsSITE: Activates thiol group during catalysis => ECO:0000305|PubMed:16239728, ECO:0000305|PubMed:16510976
ChainResidueDetails
AHIS179
BHIS179
CHIS179

site_idSWS_FT_FI5
Number of Residues15
DetailsMOD_RES: N6,N6-dimethyllysine => ECO:0000269|PubMed:18183946
ChainResidueDetails
BLYS66
BLYS260
BLYS263
BLYS334
CLYS5
CLYS66
CLYS260
CLYS263
CLYS334
ALYS66
ALYS5
ALYS260
ALYS263
ALYS334
BLYS5

site_idSWS_FT_FI6
Number of Residues21
DetailsMOD_RES: Deamidated asparagine => ECO:0000269|PubMed:18183946
ChainResidueDetails
AASN149
AASN155
AASN225
AASN316
BASN9
BASN64
BASN70
BASN149
BASN155
BASN225
BASN316
CASN9
CASN64
CASN70
CASN149
CASN155
CASN225
CASN316
AASN9
AASN64
AASN70

site_idSWS_FT_FI7
Number of Residues3
DetailsMOD_RES: Phosphotyrosine => ECO:0007744|PubMed:15592455
ChainResidueDetails
BTYR42
ATYR42
CTYR42

site_idSWS_FT_FI8
Number of Residues3
DetailsMOD_RES: Methionine sulfoxide; in vitro => ECO:0000305|PubMed:25086035
ChainResidueDetails
BMET46
CMET46
AMET46

site_idSWS_FT_FI9
Number of Residues9
DetailsMOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861
ChainResidueDetails
BLYS61
BLYS219
BLYS254
CLYS61
CLYS219
CLYS254
ALYS61
ALYS219
ALYS254

site_idSWS_FT_FI10
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:20068231
ChainResidueDetails
ATHR75
BTHR75
CTHR75

site_idSWS_FT_FI11
Number of Residues3
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

site_idSWS_FT_FI12
Number of Residues6
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:18183946
ChainResidueDetails
BSER148
CSER122
CSER148
ASER122
ASER148
BSER122

site_idSWS_FT_FI13
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASEP151
BSEP151
CSEP151

site_idSWS_FT_FI14
Number of Residues3
DetailsMOD_RES: S-nitrosocysteine; in reversibly inhibited form => ECO:0000250|UniProtKB:P04797
ChainResidueDetails
ACYS152
CCYS152
BCYS152

site_idSWS_FT_FI15
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163
ChainResidueDetails
ATHR153
BTHR153
CTHR153

site_idSWS_FT_FI16
Number of Residues6
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:24275569
ChainResidueDetails
BTHR182
CTHR177
CTHR182
ATHR182
BTHR177
ATHR177

site_idSWS_FT_FI17
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:24275569
ChainResidueDetails
BTHR184
CTHR184
ATHR184

site_idSWS_FT_FI18
Number of Residues6
DetailsMOD_RES: N6-malonyllysine; alternate => ECO:0000269|PubMed:21908771
ChainResidueDetails
ALYS194
ALYS215
BLYS194
BLYS215
CLYS194
CLYS215

site_idSWS_FT_FI19
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:19690332
ChainResidueDetails
ATHR211
BTHR211
CTHR211

site_idSWS_FT_FI20
Number of Residues3
DetailsMOD_RES: N6-acetyllysine; alternate => ECO:0007744|PubMed:19608861
ChainResidueDetails
ALYS227
BLYS227
CLYS227

site_idSWS_FT_FI21
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:23186163
ChainResidueDetails
ATHR229
BTHR229
CTHR229

site_idSWS_FT_FI22
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946
ChainResidueDetails
ATHR237
BTHR237
CTHR237

site_idSWS_FT_FI23
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569
ChainResidueDetails
ASER241
BSER241
CSER241

site_idSWS_FT_FI24
Number of Residues3
DetailsMOD_RES: S-nitrosocysteine => ECO:0000269|PubMed:22771119, ECO:0000269|PubMed:25417112
ChainResidueDetails
ACYS247
BCYS247
CCYS247

site_idSWS_FT_FI25
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:19690332
ChainResidueDetails
ASER312
BSER312
CSER312

site_idSWS_FT_FI26
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER333
BSER333
CSER333

site_idSWS_FT_FI27
Number of Residues6
DetailsCARBOHYD: (Microbial infection) N-beta-linked (GlcNAc) arginine => ECO:0000269|PubMed:28522607
ChainResidueDetails
BARG200
CARG197
CARG200
AARG197
AARG200
BARG197

site_idSWS_FT_FI28
Number of Residues6
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733
ChainResidueDetails
CLYS186
ALYS186
BLYS186

219869

PDB entries from 2024-05-15

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