CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-004788
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Spermidine synthase 
Protein Synonyms/Alias
 SPDSY; Putrescine aminopropyltransferase 
Gene Name
 SRM 
Gene Synonyms/Alias
 SPS1; SRML1 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
57DILVFRSKTYGNVLVubiquitination[1]
96CSHPNPRKVLIIGGGubiquitination[1, 2, 3, 4, 5, 6, 7]
135DVIQVSKKFLPGMAIubiquitination[2, 4, 7]
194ESYYQLMKTALKEDGubiquitination[3]
198QLMKTALKEDGVLCCubiquitination[8]
277QVAQMQLKYYNSDVHubiquitination[2, 3, 5, 6, 7]
Reference
 [1] Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin.
 Oshikawa K, Matsumoto M, Oyamada K, Nakayama KI.
 J Proteome Res. 2012 Feb 3;11(2):796-807. [PMID: 22053931]
 [2] 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]
 [3] 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]
 [4] Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
 Povlsen LK, Beli P, Wagner SA, Poulsen SL, Sylvestersen KB, Poulsen JW, Nielsen ML, Bekker-Jensen S, Mailand N, Choudhary C.
 Nat Cell Biol. 2012 Oct;14(10):1089-98. [PMID: 23000965]
 [5] 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]
 [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] 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]
 [8] Global identification of modular cullin-RING ligase substrates.
 Emanuele MJ, Elia AE, Xu Q, Thoma CR, Izhar L, Leng Y, Guo A, Chen YN, Rush J, Hsu PW, Yen HC, Elledge SJ.
 Cell. 2011 Oct 14;147(2):459-74. [PMID: 21963094
Functional Description
 Catalyzes the production of spermidine from putrescine and decarboxylated S-adenosylmethionine (dcSAM). Has a strong preference for putrescine as substrate, and has very low activity towards 1,3-diaminopropane. Has extremely low activity towards spermidine. 
Sequence Annotation
 REGION 155 156 S-adenosylmethioninamine binding.
 REGION 173 176 Putrescine binding.
 ACT_SITE 173 173 Proton acceptor (Probable).
 BINDING 49 49 S-adenosylmethioninamine.
 BINDING 79 79 Putrescine.
 BINDING 80 80 S-adenosylmethioninamine.
 BINDING 104 104 S-adenosylmethioninamine.
 BINDING 124 124 S-adenosylmethioninamine.
 BINDING 173 173 S-adenosylmethioninamine.
 BINDING 241 241 Putrescine.
 MOD_RES 1 1 N-acetylmethionine.  
Keyword
 3D-structure; Acetylation; Complete proteome; Polymorphism; Reference proteome; Spermidine biosynthesis; Transferase. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 302 AA 
Protein Sequence
MEPGPDGPAA SGPAAIREGW FRETCSLWPG QALSLQVEQL LHHRRSRYQD ILVFRSKTYG 60
NVLVLDGVIQ CTERDEFSYQ EMIANLPLCS HPNPRKVLII GGGDGGVLRE VVKHPSVESV 120
VQCEIDEDVI QVSKKFLPGM AIGYSSSKLT LHVGDGFEFM KQNQDAFDVI ITDSSDPMGP 180
AESLFKESYY QLMKTALKED GVLCCQGECQ WLHLDLIKEM RQFCQSLFPV VAYAYCTIPT 240
YPSGQIGFML CSKNPSTNFQ EPVQPLTQQQ VAQMQLKYYN SDVHRAAFVL PEFARKALND 300
VS 302 
Gene Ontology
 GO:0005829; C:cytosol; TAS:Reactome.
 GO:0042803; F:protein homodimerization activity; IDA:UniProtKB.
 GO:0004766; F:spermidine synthase activity; IDA:UniProtKB.
 GO:0044281; P:small molecule metabolic process; TAS:Reactome.
 GO:0008295; P:spermidine biosynthetic process; IDA:UniProtKB. 
Interpro
 IPR001045; Spermidine/spermine_synthase. 
Pfam
 PF01564; Spermine_synth 
SMART
  
PROSITE
 PS01330; SPERMIDINE_SYNTHASE_1
 PS51006; SPERMIDINE_SYNTHASE_2 
PRINTS