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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

9DPD

Cryo-EM structure of SerRS dimer in complex with one SIRT2

Functional Information from GO Data
ChainGOidnamespacecontents
B0000049molecular_functiontRNA binding
B0000122biological_processnegative regulation of transcription by RNA polymerase II
B0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
B0001514biological_processselenocysteine incorporation
B0001887biological_processselenium compound metabolic process
B0002181biological_processcytoplasmic translation
B0004828molecular_functionserine-tRNA ligase activity
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005737cellular_componentcytoplasm
B0005829cellular_componentcytosol
B0006400biological_processtRNA modification
B0006412biological_processtranslation
B0006434biological_processseryl-tRNA aminoacylation
B0016525biological_processnegative regulation of angiogenesis
B0019899molecular_functionenzyme binding
B0042803molecular_functionprotein homodimerization activity
B0043527cellular_componenttRNA methyltransferase complex
B0060090molecular_functionmolecular adaptor activity
B0070062cellular_componentextracellular exosome
B0098619molecular_functionselenocysteine-tRNA ligase activity
B0106217biological_processtRNA C3-cytosine methylation
B1904046biological_processnegative regulation of vascular endothelial growth factor production
C0000122biological_processnegative regulation of transcription by RNA polymerase II
C0000183biological_processrDNA heterochromatin formation
C0000781cellular_componentchromosome, telomeric region
C0000792cellular_componentheterochromatin
C0003682molecular_functionchromatin binding
C0003950molecular_functionNAD+ poly-ADP-ribosyltransferase activity
C0004407molecular_functionhistone deacetylase activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005677cellular_componentchromatin silencing complex
C0005694cellular_componentchromosome
C0005730cellular_componentnucleolus
C0005737cellular_componentcytoplasm
C0005739cellular_componentmitochondrion
C0005813cellular_componentcentrosome
C0005814cellular_componentcentriole
C0005819cellular_componentspindle
C0005829cellular_componentcytosol
C0005856cellular_componentcytoskeleton
C0005874cellular_componentmicrotubule
C0006476biological_processprotein deacetylation
C0007084biological_processmitotic nuclear membrane reassembly
C0007096biological_processregulation of exit from mitosis
C0008270molecular_functionzinc ion binding
C0010507biological_processnegative regulation of autophagy
C0010801biological_processnegative regulation of peptidyl-threonine phosphorylation
C0016042biological_processlipid catabolic process
C0017136molecular_functionhistone deacetylase activity, NAD-dependent
C0021762biological_processsubstantia nigra development
C0022011biological_processmyelination in peripheral nervous system
C0030426cellular_componentgrowth cone
C0030496cellular_componentmidbody
C0031507biological_processheterochromatin formation
C0031509biological_processsubtelomeric heterochromatin formation
C0031641biological_processregulation of myelination
C0032436biological_processpositive regulation of proteasomal ubiquitin-dependent protein catabolic process
C0033010cellular_componentparanodal junction
C0033270cellular_componentparanode region of axon
C0033558molecular_functionprotein lysine deacetylase activity
C0034599biological_processcellular response to oxidative stress
C0034979molecular_functionNAD-dependent protein lysine deacetylase activity
C0034983biological_processpeptidyl-lysine deacetylation
C0035035molecular_functionhistone acetyltransferase binding
C0040029biological_processepigenetic regulation of gene expression
C0042177biological_processnegative regulation of protein catabolic process
C0042325biological_processregulation of phosphorylation
C0042826molecular_functionhistone deacetylase binding
C0042903molecular_functiontubulin deacetylase activity
C0043130molecular_functionubiquitin binding
C0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
C0043204cellular_componentperikaryon
C0043209cellular_componentmyelin sheath
C0043219cellular_componentlateral loop
C0043220cellular_componentSchmidt-Lanterman incisure
C0043388biological_processpositive regulation of DNA binding
C0043687biological_processpost-translational protein modification
C0044224cellular_componentjuxtaparanode region of axon
C0045599biological_processnegative regulation of fat cell differentiation
C0045723biological_processpositive regulation of fatty acid biosynthetic process
C0045836biological_processpositive regulation of meiotic nuclear division
C0045843biological_processnegative regulation of striated muscle tissue development
C0045892biological_processnegative regulation of DNA-templated transcription
C0045944biological_processpositive regulation of transcription by RNA polymerase II
C0046890biological_processregulation of lipid biosynthetic process
C0046970molecular_functionhistone H4K16 deacetylase activity, NAD-dependent
C0048471cellular_componentperinuclear region of cytoplasm
C0051093biological_processnegative regulation of developmental process
C0051239biological_processregulation of multicellular organismal process
C0051726biological_processregulation of cell cycle
C0051775biological_processresponse to redox state
C0051781biological_processpositive regulation of cell division
C0051987biological_processpositive regulation of attachment of spindle microtubules to kinetochore
C0061433biological_processcellular response to caloric restriction
C0070403molecular_functionNAD+ binding
C0070446biological_processnegative regulation of oligodendrocyte progenitor proliferation
C0071456biological_processcellular response to hypoxia
C0071872biological_processcellular response to epinephrine stimulus
C0072686cellular_componentmitotic spindle
C0072687cellular_componentmeiotic spindle
C0090042biological_processtubulin deacetylation
C0097386cellular_componentglial cell projection
C0140219molecular_functionhistone methacryllysine demethacrylase activity
C0140228molecular_functionhistone benzoyllysine debenzoylase activity
C0140297molecular_functionDNA-binding transcription factor binding
C0140773molecular_functionNAD-dependent protein demyristoylase activity
C0140774molecular_functionNAD-dependent protein depalmitoylase activity
C0141218molecular_functionNAD-dependent protein lysine deacylase activity
C1900119biological_processpositive regulation of execution phase of apoptosis
C1900195biological_processpositive regulation of oocyte maturation
C1902725biological_processnegative regulation of satellite cell differentiation
C1990404molecular_functionNAD+-protein mono-ADP-ribosyltransferase activity
C2000378biological_processnegative regulation of reactive oxygen species metabolic process
D0000049molecular_functiontRNA binding
D0000122biological_processnegative regulation of transcription by RNA polymerase II
D0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
D0001514biological_processselenocysteine incorporation
D0001887biological_processselenium compound metabolic process
D0002181biological_processcytoplasmic translation
D0004828molecular_functionserine-tRNA ligase activity
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005737cellular_componentcytoplasm
D0005829cellular_componentcytosol
D0006400biological_processtRNA modification
D0006412biological_processtranslation
D0006434biological_processseryl-tRNA aminoacylation
D0016525biological_processnegative regulation of angiogenesis
D0019899molecular_functionenzyme binding
D0042803molecular_functionprotein homodimerization activity
D0043527cellular_componenttRNA methyltransferase complex
D0060090molecular_functionmolecular adaptor activity
D0070062cellular_componentextracellular exosome
D0098619molecular_functionselenocysteine-tRNA ligase activity
D0106217biological_processtRNA C3-cytosine methylation
D1904046biological_processnegative regulation of vascular endothelial growth factor production
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"24095058","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4L87","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"24095058","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"26433229","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4L87","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues2
DetailsSite: {"description":"Important for serine binding","evidences":[{"source":"PubMed","id":"28236339","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues2
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues1
DetailsActive site: {"description":"Proton acceptor","evidences":[{"source":"PROSITE-ProRule","id":"PRU00236","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues13
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"25672491","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4RMG","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues4
DetailsBinding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00236","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"11427894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23454361","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24389023","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25672491","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25704306","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4R8M","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q5RJQ4","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

253795

PDB entries from 2026-05-20

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