CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-011649
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 tRNA wybutosine-synthesizing protein 1 
Protein Synonyms/Alias
  
Gene Name
 TYW1 
Gene Synonyms/Alias
 YPL207W 
Created Date
 July 27, 2013 
Organism
 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) 
NCBI Taxa ID
 559292 
Lysine Modification
Position
Peptide
Type
References
58QEKLDLNKQQKKPCCubiquitination[1]
121GGCCSSKKNIGDNENubiquitination[1]
165STPKVFSKNSSSNSRubiquitination[1]
406GGKGSNGKFSGADEIubiquitination[1]
414FSGADEIKQMVAKDSubiquitination[1]
429PTYKNLTKQGYKVIGubiquitination[1]
496HGTNPVSKNWRWEVDubiquitination[1, 2, 3, 4]
536VIAERFAKAFEVRHCubiquitination[1]
Reference
 [1] Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.
 Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J.
 Nat Methods. 2013 Jul;10(7):676-82. [PMID: 23749301]
 [2] A proteomics approach to understanding protein ubiquitination.
 Peng J, Schwartz D, Elias JE, Thoreen CC, Cheng D, Marsischky G, Roelofs J, Finley D, Gygi SP.
 Nat Biotechnol. 2003 Aug;21(8):921-6. [PMID: 12872131]
 [3] Computational identification of ubiquitylation sites from protein sequences.
 Tung CW, Ho SY.
 BMC Bioinformatics. 2008 Jul 15;9:310. [PMID: 18625080]
 [4] Identification, analysis, and prediction of protein ubiquitination sites.
 Radivojac P, Vacic V, Haynes C, Cocklin RR, Mohan A, Heyen JW, Goebl MG, Iakoucheva LM.
 Proteins. 2010 Feb 1;78(2):365-80. [PMID: 19722269] 
Functional Description
 Component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Probably catalyzes tricyclic formation of wybutosine from tRNA(Phe) methylated on guanosine-37. 
Sequence Annotation
 DOMAIN 205 360 Flavodoxin-like.
 NP_BIND 211 215 FMN (By similarity).
 NP_BIND 304 337 FMN (By similarity).
 METAL 479 479 Iron-sulfur (4Fe-4S-S-AdoMet).
 METAL 483 483 Iron-sulfur (4Fe-4S-S-AdoMet).
 METAL 486 486 Iron-sulfur (4Fe-4S-S-AdoMet).
 CROSSLNK 496 496 Glycyl lysine isopeptide (Lys-Gly)  
Keyword
 4Fe-4S; Complete proteome; Endoplasmic reticulum; Iron; Iron-sulfur; Isopeptide bond; Metal-binding; Nucleotide-binding; Reference proteome; S-adenosyl-L-methionine; tRNA processing; Ubl conjugation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 810 AA 
Protein Sequence
MDGFRVAGAL VVGALTAAYL YFGGRFSIAL VIIVGYGIYC NEASGGSQDS QEKLDLNKQQ 60
KKPCCSDKKI ADGGKKTGGC CSDKKNGGGK GGGCCSSKGG KKGGCCSSKG GKKGGCCSSK 120
KNIGDNENTA TEVEKAVNYP VTVDFTEVFR KPTKKRSSTP KVFSKNSSSN SRVGKKLSVS 180
KKIGPDGLIK SALTISNETL LSSQIYVLYS SLQGAASKAA KSVYDKLKEL DELTNEPKLL 240
NLDDLSDFDD YFINVPVENA LYVLVLPSYD IDCPLDYFLQ TLEENANDFR VDSFPLRKLV 300
GYTVLGLGDS ESWPEKFCYQ AKRADHWISR LGGRRIFPLG KVCMKTGGSA KIDEWTSLLA 360
ETLKDDEPII YEYDENADSE EDEEEGNGSD ELGDVEDIGG KGSNGKFSGA DEIKQMVAKD 420
SPTYKNLTKQ GYKVIGSHSG VKICRWTKNE LRGKGSCYKK SLFNIASSRC MELTPSLACS 480
SKCVFCWRHG TNPVSKNWRW EVDEPEYILE NALKGHYSMI KQMRGVPGVI AERFAKAFEV 540
RHCALSLVGE PILYPHINKF IQLLHQKGIT SFLVCNAQHP EALRNIVKVT QLYVSIDAPT 600
KTELKKVDRP LYKDFWERMV ECLEILKTVQ NHQRTVFRLT LVKGFNMGDV SAYADLVQRG 660
LPGFIEVKGA TFSGSSDGNG NPLTMQNIPF YEECVKFVKA FTTELQRRGL HYDLAAEHAH 720
SNCLLIADTK FKINGEWHTH IDFDKFFVLL NSGKDFTYMD YLEKTPEWAL FGNGGFAPGN 780
TRVYRKDKKK QNKENQETTT RETPLPPIPA 810 
Gene Ontology
 GO:0005783; C:endoplasmic reticulum; IDA:SGD.
 GO:0051539; F:4 iron, 4 sulfur cluster binding; IEA:UniProtKB-KW.
 GO:0010181; F:FMN binding; IEA:InterPro.
 GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
 GO:0016491; F:oxidoreductase activity; IEA:InterPro.
 GO:0055114; P:oxidation-reduction process; IEA:GOC.
 GO:0031591; P:wybutosine biosynthetic process; IMP:SGD. 
Interpro
 IPR013785; Aldolase_TIM.
 IPR008254; Flavodoxin/NO_synth.
 IPR007197; rSAM.
 IPR013917; tRNA_wybutosine-synth. 
Pfam
 PF00258; Flavodoxin_1
 PF04055; Radical_SAM
 PF08608; Wyosine_form 
SMART
  
PROSITE
 PS50902; FLAVODOXIN_LIKE 
PRINTS