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1ZNQ

Crystal Structure of Human Liver GAPDH

Functional Information from GO Data
ChainGOidnamespacecontents
O0000226biological_processmicrotubule cytoskeleton organization
O0001819biological_processpositive regulation of cytokine production
O0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
O0005515molecular_functionprotein binding
O0005634cellular_componentnucleus
O0005737cellular_componentcytoplasm
O0005811cellular_componentlipid droplet
O0005829cellular_componentcytosol
O0005856cellular_componentcytoskeleton
O0005886cellular_componentplasma membrane
O0006006biological_processglucose metabolic process
O0006096biological_processglycolytic process
O0006417biological_processregulation of translation
O0006915biological_processapoptotic process
O0008017molecular_functionmicrotubule binding
O0010951biological_processnegative regulation of endopeptidase activity
O0015630cellular_componentmicrotubule cytoskeleton
O0016020cellular_componentmembrane
O0016241biological_processregulation of macroautophagy
O0016491molecular_functionoxidoreductase activity
O0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
O0016740molecular_functiontransferase activity
O0017148biological_processnegative regulation of translation
O0019828molecular_functionaspartic-type endopeptidase inhibitor activity
O0031640biological_processkilling of cells of another organism
O0031965cellular_componentnuclear membrane
O0031982cellular_componentvesicle
O0032481biological_processpositive regulation of type I interferon production
O0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
O0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
O0042802molecular_functionidentical protein binding
O0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
O0043231cellular_componentintracellular membrane-bounded organelle
O0045087biological_processinnate immune response
O0048471cellular_componentperinuclear region of cytoplasm
O0050661molecular_functionNADP binding
O0050821biological_processprotein stabilization
O0050832biological_processdefense response to fungus
O0051287molecular_functionNAD binding
O0051402biological_processneuron apoptotic process
O0051873biological_processkilling by host of symbiont cells
O0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
O0070062cellular_componentextracellular exosome
O0071346biological_processcellular response to type II interferon
O0097452cellular_componentGAIT complex
O0097718molecular_functiondisordered domain specific binding
O1990904cellular_componentribonucleoprotein complex
P0000226biological_processmicrotubule cytoskeleton organization
P0001819biological_processpositive regulation of cytokine production
P0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
P0005515molecular_functionprotein binding
P0005634cellular_componentnucleus
P0005737cellular_componentcytoplasm
P0005811cellular_componentlipid droplet
P0005829cellular_componentcytosol
P0005856cellular_componentcytoskeleton
P0005886cellular_componentplasma membrane
P0006006biological_processglucose metabolic process
P0006096biological_processglycolytic process
P0006417biological_processregulation of translation
P0006915biological_processapoptotic process
P0008017molecular_functionmicrotubule binding
P0010951biological_processnegative regulation of endopeptidase activity
P0015630cellular_componentmicrotubule cytoskeleton
P0016020cellular_componentmembrane
P0016241biological_processregulation of macroautophagy
P0016491molecular_functionoxidoreductase activity
P0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
P0016740molecular_functiontransferase activity
P0017148biological_processnegative regulation of translation
P0019828molecular_functionaspartic-type endopeptidase inhibitor activity
P0031640biological_processkilling of cells of another organism
P0031965cellular_componentnuclear membrane
P0031982cellular_componentvesicle
P0032481biological_processpositive regulation of type I interferon production
P0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
P0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
P0042802molecular_functionidentical protein binding
P0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
P0043231cellular_componentintracellular membrane-bounded organelle
P0045087biological_processinnate immune response
P0048471cellular_componentperinuclear region of cytoplasm
P0050661molecular_functionNADP binding
P0050821biological_processprotein stabilization
P0050832biological_processdefense response to fungus
P0051287molecular_functionNAD binding
P0051402biological_processneuron apoptotic process
P0051873biological_processkilling by host of symbiont cells
P0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
P0070062cellular_componentextracellular exosome
P0071346biological_processcellular response to type II interferon
P0097452cellular_componentGAIT complex
P0097718molecular_functiondisordered domain specific binding
P1990904cellular_componentribonucleoprotein complex
Q0000226biological_processmicrotubule cytoskeleton organization
Q0001819biological_processpositive regulation of cytokine production
Q0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
Q0005515molecular_functionprotein binding
Q0005634cellular_componentnucleus
Q0005737cellular_componentcytoplasm
Q0005811cellular_componentlipid droplet
Q0005829cellular_componentcytosol
Q0005856cellular_componentcytoskeleton
Q0005886cellular_componentplasma membrane
Q0006006biological_processglucose metabolic process
Q0006096biological_processglycolytic process
Q0006417biological_processregulation of translation
Q0006915biological_processapoptotic process
Q0008017molecular_functionmicrotubule binding
Q0010951biological_processnegative regulation of endopeptidase activity
Q0015630cellular_componentmicrotubule cytoskeleton
Q0016020cellular_componentmembrane
Q0016241biological_processregulation of macroautophagy
Q0016491molecular_functionoxidoreductase activity
Q0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
Q0016740molecular_functiontransferase activity
Q0017148biological_processnegative regulation of translation
Q0019828molecular_functionaspartic-type endopeptidase inhibitor activity
Q0031640biological_processkilling of cells of another organism
Q0031965cellular_componentnuclear membrane
Q0031982cellular_componentvesicle
Q0032481biological_processpositive regulation of type I interferon production
Q0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
Q0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
Q0042802molecular_functionidentical protein binding
Q0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
Q0043231cellular_componentintracellular membrane-bounded organelle
Q0045087biological_processinnate immune response
Q0048471cellular_componentperinuclear region of cytoplasm
Q0050661molecular_functionNADP binding
Q0050821biological_processprotein stabilization
Q0050832biological_processdefense response to fungus
Q0051287molecular_functionNAD binding
Q0051402biological_processneuron apoptotic process
Q0051873biological_processkilling by host of symbiont cells
Q0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
Q0070062cellular_componentextracellular exosome
Q0071346biological_processcellular response to type II interferon
Q0097452cellular_componentGAIT complex
Q0097718molecular_functiondisordered domain specific binding
Q1990904cellular_componentribonucleoprotein complex
R0000226biological_processmicrotubule cytoskeleton organization
R0001819biological_processpositive regulation of cytokine production
R0004365molecular_functionglyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
R0005515molecular_functionprotein binding
R0005634cellular_componentnucleus
R0005737cellular_componentcytoplasm
R0005811cellular_componentlipid droplet
R0005829cellular_componentcytosol
R0005856cellular_componentcytoskeleton
R0005886cellular_componentplasma membrane
R0006006biological_processglucose metabolic process
R0006096biological_processglycolytic process
R0006417biological_processregulation of translation
R0006915biological_processapoptotic process
R0008017molecular_functionmicrotubule binding
R0010951biological_processnegative regulation of endopeptidase activity
R0015630cellular_componentmicrotubule cytoskeleton
R0016020cellular_componentmembrane
R0016241biological_processregulation of macroautophagy
R0016491molecular_functionoxidoreductase activity
R0016620molecular_functionoxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
R0016740molecular_functiontransferase activity
R0017148biological_processnegative regulation of translation
R0019828molecular_functionaspartic-type endopeptidase inhibitor activity
R0031640biological_processkilling of cells of another organism
R0031965cellular_componentnuclear membrane
R0031982cellular_componentvesicle
R0032481biological_processpositive regulation of type I interferon production
R0035605molecular_functionpeptidyl-cysteine S-nitrosylase activity
R0035606biological_processpeptidyl-cysteine S-trans-nitrosylation
R0042802molecular_functionidentical protein binding
R0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
R0043231cellular_componentintracellular membrane-bounded organelle
R0045087biological_processinnate immune response
R0048471cellular_componentperinuclear region of cytoplasm
R0050661molecular_functionNADP binding
R0050821biological_processprotein stabilization
R0050832biological_processdefense response to fungus
R0051287molecular_functionNAD binding
R0051402biological_processneuron apoptotic process
R0051873biological_processkilling by host of symbiont cells
R0061844biological_processantimicrobial humoral immune response mediated by antimicrobial peptide
R0070062cellular_componentextracellular exosome
R0071346biological_processcellular response to type II interferon
R0097452cellular_componentGAIT complex
R0097718molecular_functiondisordered domain specific binding
R1990904cellular_componentribonucleoprotein complex
Functional Information from PDB Data
site_idAC1
Number of Residues21
DetailsBINDING SITE FOR RESIDUE NAD O 1001
ChainResidue
OASN9
OPHE37
OILE38
OARG80
OSER98
OTHR99
OGLY100
OPHE102
OSER122
OALA123
OCYS152
OGLY10
OASN316
OHOH1010
OPHE11
OGLY12
OARG13
OILE14
OASN34
OASP35
OPRO36

site_idAC2
Number of Residues22
DetailsBINDING SITE FOR RESIDUE NAD P 1002
ChainResidue
PASN9
PGLY10
PPHE11
PGLY12
PARG13
PILE14
PASP35
PPRO36
PPHE37
PILE38
PARG80
PSER98
PTHR99
PGLY100
PSER122
PALA123
PCYS152
PASN316
PGLU317
PTYR320
PHOH1009
PHOH1033

site_idAC3
Number of Residues22
DetailsBINDING SITE FOR RESIDUE NAD R 1003
ChainResidue
RASN9
RGLY10
RPHE11
RGLY12
RARG13
RILE14
RASP35
RPRO36
RPHE37
RILE38
RARG80
RSER98
RTHR99
RGLY100
RSER122
RALA123
RCYS152
RALA183
RASN316
RTYR320
RHOH1006
RHOH1020

site_idAC4
Number of Residues21
DetailsBINDING SITE FOR RESIDUE NAD Q 1004
ChainResidue
QASN9
QGLY10
QPHE11
QGLY12
QARG13
QILE14
QASP35
QPRO36
QPHE37
QILE38
QARG80
QSER98
QTHR99
QGLY100
QPHE102
QSER122
QALA123
QCYS152
QASN316
QGLU317
QTYR320

Functional Information from PROSITE/UniProt
site_idPS00071
Number of Residues8
DetailsGAPDH Glyceraldehyde 3-phosphate dehydrogenase active site. ASCTTNcL
ChainResidueDetails
OALA150-LEU157

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsACT_SITE: Nucleophile => ECO:0000269|PubMed:25086035
ChainResidueDetails
OTHR153
PTHR153
RTHR153
QTHR153

site_idSWS_FT_FI2
Number of Residues20
DetailsBINDING: BINDING => ECO:0000269|PubMed:16239728, ECO:0000269|PubMed:16510976
ChainResidueDetails
OILE14
PGLU317
RILE14
RPRO36
RASP81
RALA123
RGLU317
QILE14
QPRO36
QASP81
QALA123
OPRO36
QGLU317
OASP81
OALA123
OGLU317
PILE14
PPRO36
PASP81
PALA123

site_idSWS_FT_FI3
Number of Residues16
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:P22513
ChainResidueDetails
OCYS152
RALA183
RGLY212
RVAL235
QCYS152
QALA183
QGLY212
QVAL235
OALA183
OGLY212
OVAL235
PCYS152
PALA183
PGLY212
PVAL235
RCYS152

site_idSWS_FT_FI4
Number of Residues4
DetailsSITE: Activates thiol group during catalysis => ECO:0000305|PubMed:16239728, ECO:0000305|PubMed:16510976
ChainResidueDetails
OALA180
PALA180
RALA180
QALA180

site_idSWS_FT_FI5
Number of Residues20
DetailsMOD_RES: N6,N6-dimethyllysine => ECO:0000269|PubMed:18183946
ChainResidueDetails
OVAL6
PGLU335
RVAL6
RLEU67
RVAL261
RGLN264
RGLU335
QVAL6
QLEU67
QVAL261
QGLN264
OLEU67
QGLU335
OVAL261
OGLN264
OGLU335
PVAL6
PLEU67
PVAL261
PGLN264

site_idSWS_FT_FI6
Number of Residues28
DetailsMOD_RES: Deamidated asparagine => ECO:0000269|PubMed:18183946
ChainResidueDetails
OGLY10
PGLY71
PALA150
PCYS156
PGLY226
PGLU317
RGLY10
RGLY65
RGLY71
RALA150
RCYS156
OGLY65
RGLY226
RGLU317
QGLY10
QGLY65
QGLY71
QALA150
QCYS156
QGLY226
QGLU317
OGLY71
OALA150
OCYS156
OGLY226
OGLU317
PGLY10
PGLY65

site_idSWS_FT_FI7
Number of Residues4
DetailsMOD_RES: Phosphotyrosine => ECO:0007744|PubMed:15592455
ChainResidueDetails
OMET43
PMET43
RMET43
QMET43

site_idSWS_FT_FI8
Number of Residues4
DetailsMOD_RES: Methionine sulfoxide; in vitro => ECO:0000305|PubMed:25086035
ChainResidueDetails
OPHE47
PPHE47
RPHE47
QPHE47

site_idSWS_FT_FI9
Number of Residues12
DetailsMOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861
ChainResidueDetails
OALA62
QALA62
QVAL220
QTYR255
OVAL220
OTYR255
PALA62
PVAL220
PTYR255
RALA62
RVAL220
RTYR255

site_idSWS_FT_FI10
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:20068231
ChainResidueDetails
OILE76
PILE76
RILE76
QILE76

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
OLYS84
PLYS84
RLYS84
QLYS84

site_idSWS_FT_FI12
Number of Residues8
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:18183946
ChainResidueDetails
OALA123
OASN149
PALA123
PASN149
RALA123
RASN149
QALA123
QASN149

site_idSWS_FT_FI13
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:23186163
ChainResidueDetails
OCYS152
PCYS152
RCYS152
QCYS152

site_idSWS_FT_FI14
Number of Residues4
DetailsMOD_RES: S-nitrosocysteine; in reversibly inhibited form => ECO:0000250|UniProtKB:P04797
ChainResidueDetails
OTHR153
PTHR153
RTHR153
QTHR153

site_idSWS_FT_FI15
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163
ChainResidueDetails
OTHR154
PTHR154
RTHR154
QTHR154

site_idSWS_FT_FI16
Number of Residues8
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:24275569
ChainResidueDetails
OVAL178
OALA183
PVAL178
PALA183
RVAL178
RALA183
QVAL178
QALA183

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
OGLN185
PGLN185
RGLN185
QGLN185

site_idSWS_FT_FI18
Number of Residues8
DetailsMOD_RES: N6-malonyllysine; alternate => ECO:0000269|PubMed:21908771
ChainResidueDetails
OLEU195
OALA216
PLEU195
PALA216
RLEU195
RALA216
QLEU195
QALA216

site_idSWS_FT_FI19
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:19690332
ChainResidueDetails
OGLY212
PGLY212
RGLY212
QGLY212

site_idSWS_FT_FI20
Number of Residues4
DetailsMOD_RES: N6-acetyllysine; alternate => ECO:0007744|PubMed:19608861
ChainResidueDetails
OLEU228
PLEU228
RLEU228
QLEU228

site_idSWS_FT_FI21
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:23186163
ChainResidueDetails
OGLY230
PGLY230
RGLY230
QGLY230

site_idSWS_FT_FI22
Number of Residues4
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:18183946
ChainResidueDetails
OALA238
PALA238
RALA238
QALA238

site_idSWS_FT_FI23
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569
ChainResidueDetails
OVAL242
PVAL242
RVAL242
QVAL242

site_idSWS_FT_FI24
Number of Residues4
DetailsMOD_RES: S-nitrosocysteine => ECO:0000269|PubMed:22771119, ECO:0000269|PubMed:25417112
ChainResidueDetails
OARG248
PARG248
RARG248
QARG248

site_idSWS_FT_FI25
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:18183946, ECO:0007744|PubMed:19690332
ChainResidueDetails
OTRP313
PTRP313
RTRP313
QTRP313

site_idSWS_FT_FI26
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163
ChainResidueDetails
OLYS334
PLYS334
RLYS334
QLYS334

site_idSWS_FT_FI27
Number of Residues8
DetailsCARBOHYD: (Microbial infection) N-beta-linked (GlcNAc) arginine => ECO:0000269|PubMed:28522607
ChainResidueDetails
OASP198
OGLY201
PASP198
PGLY201
RASP198
RGLY201
QASP198
QGLY201

site_idSWS_FT_FI28
Number of Residues8
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733
ChainResidueDetails
OTHR187
PTHR187
RTHR187
QTHR187

Catalytic Information from CSA
site_idCSA1
Number of Residues2
DetailsAnnotated By Reference To The Literature 1szj
ChainResidueDetails
OHIS179
OCYS152

site_idCSA2
Number of Residues2
DetailsAnnotated By Reference To The Literature 1szj
ChainResidueDetails
PHIS179
PCYS152

site_idCSA3
Number of Residues2
DetailsAnnotated By Reference To The Literature 1szj
ChainResidueDetails
RHIS179
RCYS152

site_idCSA4
Number of Residues2
DetailsAnnotated By Reference To The Literature 1szj
ChainResidueDetails
QHIS179
QCYS152

225158

PDB entries from 2024-09-18

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