UniProt Accession

 GLYM_HUMAN; P34897; B7Z9F1; E7EQ19; E7EU43; O00740; Q8N1A5 

Genbank Protein ID

 AK315916; BT006866; AC137834; CH471054; CH471054; BC011911; BC013677; BC032584; BC044211; Y12331; U23143; L11932 

Genbank Nucleotide ID

 BAH14287.1; AAP35512.1; EAW96994.1; EAW96998.1; AAH11911.1; AAH13677.1; AAH32584.1; AAH44211.1; CAA72999.1; AAA64572.1; AAA63258.1 

Protein Name

 Serine hydroxymethyltransferase, mitochondrial 

Protein Synonyms/Alias

 SHMT; Glycine hydroxymethyltransferase; Serine methylase 

Gene Name

 SHMT2 

Gene Synonyms/Alias

  

Created Date

 July 27, 2013 

Organism

 Homo sapiens (Human) 

NCBI Taxa ID

 9606 

Lysine Modification

Position	Peptide	Type	References
95	LGSCLNNKYSEGYPG	ubiquitination	[1, 2, 3]
103	YSEGYPGKRYYGGAE	acetylation	[4]
103	YSEGYPGKRYYGGAE	ubiquitination	[2, 5]
181	HGYMSDVKRISATSI	acetylation	[4]
181	HGYMSDVKRISATSI	ubiquitination	[2, 5, 6]
196	FFESMPYKLNPKTGL	acetylation	[4]
196	FFESMPYKLNPKTGL	ubiquitination	[2, 6]
200	MPYKLNPKTGLIDYN	ubiquitination	[1, 2, 3, 5, 6, 7]
262	ISGLVAAKVIPSPFK	ubiquitination	[2]
269	KVIPSPFKHADIVTT	acetylation	[4]
269	KVIPSPFKHADIVTT	ubiquitination	[2]
280	IVTTTTHKTLRGARS	ubiquitination	[2, 5]
297	IFYRKGVKAVDPKTG	acetylation	[4]
356	EYSLQVLKNARAMAD	acetylation	[4]
356	EYSLQVLKNARAMAD	ubiquitination	[2]
389	VLVDLRPKGLDGARA	ubiquitination	[2, 6]
409	LVSITANKNTCPGDR	ubiquitination	[2]
464	EVKSKTAKLQDFKSF	acetylation	[4]
464	EVKSKTAKLQDFKSF	ubiquitination	[2]
469	TAKLQDFKSFLLKDS	acetylation	[4, 8]
469	TAKLQDFKSFLLKDS	ubiquitination	[1, 2, 3, 5, 6]
474	DFKSFLLKDSETSQR	acetylation	[4]
474	DFKSFLLKDSETSQR	ubiquitination	[1, 2, 3, 5, 6]

Reference

 [1] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [2] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [3] hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
 Chen Z, Zhou Y, Song J, Zhang Z.
 Biochim Biophys Acta. 2013 Aug;1834(8):1461-7. [PMID: 23603789]
 [4] Lysine acetylation targets protein complexes and co-regulates major cellular functions.
 Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M.
 Science. 2009 Aug 14;325(5942):834-40. [PMID: 19608861]
 [5] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [6] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661]
 [7] Ubiquitin ligase substrate identification through quantitative proteomics at both the protein and peptide levels.
 Lee KA, Hammerle LP, Andrews PS, Stokes MP, Mustelin T, Silva JC, Black RA, Doedens JR.
 J Biol Chem. 2011 Dec 2;286(48):41530-8. [PMID: 21987572]
 [8] Regulation of cellular metabolism by protein lysine acetylation.
 Zhao S, Xu W, Jiang W, Yu W, Lin Y, Zhang T, Yao J, Zhou L, Zeng Y, Li H, Li Y, Shi J, An W, Hancock SM, He F, Qin L, Chin J, Yang P, Chen X, Lei Q, Xiong Y, Guan KL.
 Science. 2010 Feb 19;327(5968):1000-4. [PMID: 20167786] 

Functional Description

 Contributes to the de novo mitochondrial thymidylate biosynthesis pathway. Required to prevent uracil accumulation in mtDNA. Interconversion of serine and glycine. Associates with mitochondrial DNA. 

Sequence Annotation

 MOD_RES 103 103 N6-acetyllysine.
 MOD_RES 181 181 N6-acetyllysine.
 MOD_RES 196 196 N6-acetyllysine.
 MOD_RES 280 280 N6-(pyridoxal phosphate)lysine (By
 MOD_RES 297 297 N6-acetyllysine.
 MOD_RES 356 356 N6-acetyllysine.
 MOD_RES 464 464 N6-acetyllysine.
 MOD_RES 469 469 N6-acetyllysine.
 MOD_RES 474 474 N6-acetyllysine.  

Keyword

 3D-structure; Acetylation; Alternative splicing; Complete proteome; Membrane; Mitochondrion; Mitochondrion inner membrane; Mitochondrion nucleoid; One-carbon metabolism; Pyridoxal phosphate; Reference proteome; Transferase; Transit peptide. 

Sequence Source

 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 

Protein Length

 504 AA 

Protein Sequence

Gene Ontology

 GO:0015630; C:microtubule cytoskeleton; IDA:HPA.
 GO:0005743; C:mitochondrial inner membrane; IDA:UniProtKB.
 GO:0005758; C:mitochondrial intermembrane space; IEA:Compara.
 GO:0042645; C:mitochondrial nucleoid; IDA:BHF-UCL.
 GO:0016597; F:amino acid binding; IEA:Compara.
 GO:0003682; F:chromatin binding; IDA:UniProtKB.
 GO:0004372; F:glycine hydroxymethyltransferase activity; IDA:UniProtKB.
 GO:0008732; F:L-allo-threonine aldolase activity; IEA:Compara.
 GO:0030170; F:pyridoxal phosphate binding; IEA:InterPro.
 GO:0019264; P:glycine biosynthetic process from serine; IEA:Compara.
 GO:0006564; P:L-serine biosynthetic process; IEA:Compara.
 GO:0006730; P:one-carbon metabolic process; IDA:UniProtKB.
 GO:0008284; P:positive regulation of cell proliferation; IEA:Compara.
 GO:0051289; P:protein homotetramerization; IEA:Compara.
 GO:0035999; P:tetrahydrofolate interconversion; IEA:UniProtKB-UniPathway. 

Interpro

 IPR015424; PyrdxlP-dep_Trfase.
 IPR015421; PyrdxlP-dep_Trfase_major_sub1.
 IPR015422; PyrdxlP-dep_Trfase_major_sub2.
 IPR001085; Ser_HO-MeTrfase.
 IPR019798; Ser_HO-MeTrfase_PLP_BS. 

Pfam

 PF00464; SHMT 

SMART

  

PROSITE

 PS00096; SHMT 

PRINTS