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8QI7

Cryo-EM Structure of Human Serine Hydroxymethyltransferase, isoform 2 (SHMT2)

Functional Information from GO Data
ChainGOidnamespacecontents
A0002082biological_processregulation of oxidative phosphorylation
A0003682molecular_functionchromatin binding
A0004372molecular_functionglycine hydroxymethyltransferase activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005737cellular_componentcytoplasm
A0005739cellular_componentmitochondrion
A0005743cellular_componentmitochondrial inner membrane
A0005759cellular_componentmitochondrial matrix
A0006417biological_processregulation of translation
A0006544biological_processglycine metabolic process
A0006545biological_processglycine biosynthetic process
A0006563biological_processL-serine metabolic process
A0006564biological_processL-serine biosynthetic process
A0006730biological_processone-carbon metabolic process
A0008284biological_processpositive regulation of cell population proliferation
A0008732molecular_functionL-allo-threonine aldolase activity
A0015630cellular_componentmicrotubule cytoskeleton
A0015943biological_processformate biosynthetic process
A0016020cellular_componentmembrane
A0016597molecular_functionamino acid binding
A0016740molecular_functiontransferase activity
A0019264biological_processglycine biosynthetic process from serine
A0030170molecular_functionpyridoxal phosphate binding
A0034340biological_processresponse to type I interferon
A0035999biological_processtetrahydrofolate interconversion
A0042645cellular_componentmitochondrial nucleoid
A0042802molecular_functionidentical protein binding
A0046653biological_processtetrahydrofolate metabolic process
A0051262biological_processprotein tetramerization
A0051289biological_processprotein homotetramerization
A0070013cellular_componentintracellular organelle lumen
A0070062cellular_componentextracellular exosome
A0070129biological_processregulation of mitochondrial translation
A0070536biological_processprotein K63-linked deubiquitination
A0070552cellular_componentBRISC complex
A1903715biological_processregulation of aerobic respiration
B0002082biological_processregulation of oxidative phosphorylation
B0003682molecular_functionchromatin binding
B0004372molecular_functionglycine hydroxymethyltransferase activity
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005737cellular_componentcytoplasm
B0005739cellular_componentmitochondrion
B0005743cellular_componentmitochondrial inner membrane
B0005759cellular_componentmitochondrial matrix
B0006417biological_processregulation of translation
B0006544biological_processglycine metabolic process
B0006545biological_processglycine biosynthetic process
B0006563biological_processL-serine metabolic process
B0006564biological_processL-serine biosynthetic process
B0006730biological_processone-carbon metabolic process
B0008284biological_processpositive regulation of cell population proliferation
B0008732molecular_functionL-allo-threonine aldolase activity
B0015630cellular_componentmicrotubule cytoskeleton
B0015943biological_processformate biosynthetic process
B0016020cellular_componentmembrane
B0016597molecular_functionamino acid binding
B0016740molecular_functiontransferase activity
B0019264biological_processglycine biosynthetic process from serine
B0030170molecular_functionpyridoxal phosphate binding
B0034340biological_processresponse to type I interferon
B0035999biological_processtetrahydrofolate interconversion
B0042645cellular_componentmitochondrial nucleoid
B0042802molecular_functionidentical protein binding
B0046653biological_processtetrahydrofolate metabolic process
B0051262biological_processprotein tetramerization
B0051289biological_processprotein homotetramerization
B0070013cellular_componentintracellular organelle lumen
B0070062cellular_componentextracellular exosome
B0070129biological_processregulation of mitochondrial translation
B0070536biological_processprotein K63-linked deubiquitination
B0070552cellular_componentBRISC complex
B1903715biological_processregulation of aerobic respiration
C0002082biological_processregulation of oxidative phosphorylation
C0003682molecular_functionchromatin binding
C0004372molecular_functionglycine hydroxymethyltransferase activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005737cellular_componentcytoplasm
C0005739cellular_componentmitochondrion
C0005743cellular_componentmitochondrial inner membrane
C0005759cellular_componentmitochondrial matrix
C0006417biological_processregulation of translation
C0006544biological_processglycine metabolic process
C0006545biological_processglycine biosynthetic process
C0006563biological_processL-serine metabolic process
C0006564biological_processL-serine biosynthetic process
C0006730biological_processone-carbon metabolic process
C0008284biological_processpositive regulation of cell population proliferation
C0008732molecular_functionL-allo-threonine aldolase activity
C0015630cellular_componentmicrotubule cytoskeleton
C0015943biological_processformate biosynthetic process
C0016020cellular_componentmembrane
C0016597molecular_functionamino acid binding
C0016740molecular_functiontransferase activity
C0019264biological_processglycine biosynthetic process from serine
C0030170molecular_functionpyridoxal phosphate binding
C0034340biological_processresponse to type I interferon
C0035999biological_processtetrahydrofolate interconversion
C0042645cellular_componentmitochondrial nucleoid
C0042802molecular_functionidentical protein binding
C0046653biological_processtetrahydrofolate metabolic process
C0051262biological_processprotein tetramerization
C0051289biological_processprotein homotetramerization
C0070013cellular_componentintracellular organelle lumen
C0070062cellular_componentextracellular exosome
C0070129biological_processregulation of mitochondrial translation
C0070536biological_processprotein K63-linked deubiquitination
C0070552cellular_componentBRISC complex
C1903715biological_processregulation of aerobic respiration
D0002082biological_processregulation of oxidative phosphorylation
D0003682molecular_functionchromatin binding
D0004372molecular_functionglycine hydroxymethyltransferase activity
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005737cellular_componentcytoplasm
D0005739cellular_componentmitochondrion
D0005743cellular_componentmitochondrial inner membrane
D0005759cellular_componentmitochondrial matrix
D0006417biological_processregulation of translation
D0006544biological_processglycine metabolic process
D0006545biological_processglycine biosynthetic process
D0006563biological_processL-serine metabolic process
D0006564biological_processL-serine biosynthetic process
D0006730biological_processone-carbon metabolic process
D0008284biological_processpositive regulation of cell population proliferation
D0008732molecular_functionL-allo-threonine aldolase activity
D0015630cellular_componentmicrotubule cytoskeleton
D0015943biological_processformate biosynthetic process
D0016020cellular_componentmembrane
D0016597molecular_functionamino acid binding
D0016740molecular_functiontransferase activity
D0019264biological_processglycine biosynthetic process from serine
D0030170molecular_functionpyridoxal phosphate binding
D0034340biological_processresponse to type I interferon
D0035999biological_processtetrahydrofolate interconversion
D0042645cellular_componentmitochondrial nucleoid
D0042802molecular_functionidentical protein binding
D0046653biological_processtetrahydrofolate metabolic process
D0051262biological_processprotein tetramerization
D0051289biological_processprotein homotetramerization
D0070013cellular_componentintracellular organelle lumen
D0070062cellular_componentextracellular exosome
D0070129biological_processregulation of mitochondrial translation
D0070536biological_processprotein K63-linked deubiquitination
D0070552cellular_componentBRISC complex
D1903715biological_processregulation of aerobic respiration
Functional Information from PROSITE/UniProt
site_idPS00096
Number of Residues17
DetailsSHMT Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. DIvTTTTHKTLrGARSG
ChainResidueDetails
AASP272-GLY288

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues32
DetailsMOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861
ChainResidueDetails
ALYS103
DLYS181
DLYS196
DLYS297
DLYS356
DLYS464
DLYS469
DLYS474
BLYS103
BLYS181
BLYS196
ALYS181
BLYS297
BLYS356
BLYS464
BLYS469
BLYS474
CLYS103
CLYS181
CLYS196
CLYS297
CLYS356
ALYS196
CLYS464
CLYS469
CLYS474
ALYS297
ALYS356
ALYS464
ALYS469
ALYS474
DLYS103

site_idSWS_FT_FI2
Number of Residues4
DetailsMOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:29180469
ChainResidueDetails
ALLP280
DLLP280
BLLP280
CLLP280

site_idSWS_FT_FI3
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER470
DSER470
BSER470
CSER470

237423

PDB entries from 2025-06-11

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