CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-003657
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Transposon Ty2-LR1 Gag-Pol polyprotein 
Protein Synonyms/Alias
 TY2A-TY2B; Transposon Ty2 TYA-TYB polyprotein; Capsid protein; CA; Ty2 protease; PR; Integrase; IN; Reverse transcriptase/ribonuclease H; RT; RT-RH 
Gene Name
 TY2B-LR1 
Gene Synonyms/Alias
 YLRWTy2-1 POL; YLR410W-B; L9931.7b 
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
487INIVDAQKQDIPINAubiquitination[1]
1191SNVLTTTKSKKRSLEubiquitination[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] 
Functional Description
 Capsid protein (CA) is the structural component of the virus-like particle (VLP), forming the shell that encapsulates the retrotransposons dimeric RNA genome. The particles are assembled from trimer-clustered units and there are holes in the capsid shells that allow for the diffusion of macromolecules. CA has also nucleocapsid-like chaperone activity, promoting primer tRNA(i)-Met annealing to the multipartite primer-binding site (PBS), dimerization of Ty2 RNA and initiation of reverse transcription (By similarity). 
Sequence Annotation
 DOMAIN 656 831 Integrase catalytic.
 DOMAIN 1353 1491 Reverse transcriptase Ty1/copia-type.
 DOMAIN 1625 1767 RNase H Ty1/copia-type.
 REGION 295 397 RNA-binding (By similarity).
 REGION 579 636 Integrase-type zinc finger-like.
 MOTIF 1193 1227 Bipartite nuclear localization signal (By
 ACT_SITE 457 457 For protease activity; shared with
 METAL 667 667 Magnesium; catalytic; for integrase
 METAL 732 732 Magnesium; catalytic; for integrase
 METAL 1361 1361 Magnesium; catalytic; for reverse
 METAL 1442 1442 Magnesium; catalytic; for reverse
 METAL 1443 1443 Magnesium; catalytic; for reverse
 METAL 1625 1625 Magnesium; catalytic; for RNase H
 METAL 1667 1667 Magnesium; catalytic; for RNase H
 METAL 1700 1700 Magnesium; catalytic; for RNase H  
Keyword
 Aspartyl protease; ATP-binding; Capsid maturation; Complete proteome; Cytoplasm; DNA integration; DNA recombination; DNA-binding; DNA-directed DNA polymerase; Endonuclease; Hydrolase; Magnesium; Metal-binding; Multifunctional enzyme; Nuclease; Nucleotide-binding; Nucleotidyltransferase; Nucleus; Protease; Reference proteome; Ribosomal frameshifting; RNA-binding; RNA-directed DNA polymerase; Transferase; Transposable element; Transposition; Zinc; Zinc-finger. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1770 AA 
Protein Sequence
MESQQLHQNP HSLHGSAYAS VTSKEVPSNQ DPLAVSASNL PEFDRDSTKV NSQQETTPGT 60
SAVPENHHHV SPQPASVPPP QNGQYQQHGM MTPNKAMASN WAHYQQPSMM TCSHYQTSPA 120
YYQPDPHYPL PQYIPPLSTS SPDPIDLKNQ HSEIPQAKTK VGNNVLPPHT LTSEENFSTW 180
VKFYIRFLKN SNLGDIIPND QGEIKRQMTY EEHAYIYNTF QAFAPFHLLP TWVKQILEIN 240
YADILTVLCK SVSKMQTNNQ ELKDWIALAN LEYDGSTSAD TFEITVSTII QRLKENNINV 300
SDRLACQLIL KGLSGDFKYL RNQYRTKTNM KLSQLFAEIQ LIYDENKIMN LNKPSQYKQH 360
SEYKNVSRTS PNTTNTKVTT RNYHRTNSSK PRAAKAHNIA TSSKFSRVNN DHINESTVSS 420
QYLSDDNELS LGQQQKESKP THTIDSNDEL PDHLLIDSGA SQTLVRSAHY LHHATPNSEI 480
NIVDAQKQDI PINAIGNLHF NFQNGTKTSI KALHTPNIAY DLLSLSELAN QNITACFTRN 540
TLERSDGTVL APIVKHGDFY WLSKKYLIPS HISKLTINNV NKSKSVNKYP YPLIHRMLGH 600
ANFRSIQKSL KKNAVTYLKE SDIEWSNAST YQCPDCLIGK STKHRHVKGS RLKYQESYEP 660
FQYLHTDIFG PVHHLPKSAP SYFISFTDEK TRFQWVYPLH DRREESILNV FTSILAFIKN 720
QFNARVLVIQ MDRGSEYTNK TLHKFFTNRG ITACYTTTAD SRAHGVAERL NRTLLNDCRT 780
LLHCSGLPNH LWFSAVEFST IIRNSLVSPK NDKSARQHAG LAGLDITTIL PFGQPVIVNN 840
HNPDSKIHPR GIPGYALHPS RNSYGYIIYL PSLKKTVDTT NYVILQDNQS KLDQFNYDTL 900
TFDDDLNRLT AHNQSFIEQN ETEQSYDQNT ESDHDYQSEI EINSDPLVND FSSQSMNPLQ 960
LDHEPVQKVR APKEVDADIS EYNILPSPVR SRTPHIINKE STEMGGTIES DTTSPRHSST 1020
FTARNQKRPG SPNDMIDLTS QDRVNYGLEN IKTTRLGGTE EPYIQRNSDT NIKYRTTNST 1080
PSIDDRSSNS ESTTPIISIE TKAVCDNTPS IDTDPPEYRS SDHATPNIMP DKSSKNVTAD 1140
SILDDLPLPD LTHKSPTDTS DVSKDIPHIH SRQTNSSLGG MDDSNVLTTT KSKKRSLEDN 1200
ETEIEVSRDT WNNKNMRSLE PPRSKKRINL IAAIKGVKSI KPVRTTLRYD EAITYNKDNK 1260
EKDRYVEAYH KEISQLLKMN TWDTNKYYDR NDIDPKKVIN SMFIFNKKRD GTHKARFVAR 1320
GDIQHPDTYD SDMQSNTVHH YALMTSLSIA LDNDYYITQL DISSAYLYAD IKEELYIRPP 1380
PHLGLNDKLL RLRKSLYGLK QSGANWYETI KSYLINCCDM QEVRGWSCVF KNSQVTICLF 1440
VDDMILFSKD LNANKKIITT LKKQYDTKII NLGERDNEIQ YDILGLEIKY QRSKYMKLGM 1500
EKSLTEKLPK LNVPLNPKGK KLRAPGQPGH YIDQDELEID EDEYKEKVHE MQKLIGLASY 1560
VGYKFRFDLL YYINTLAQHI LFPSRQVLDM TYELIQFMWD TRDKQLIWHK NKPTKPDNKL 1620
VAISDASYGN QPYYKSQIGN IFLLNGKVIG GKSTKASLTC TSTTEAEIHA VSEAIPLLNN 1680
LSHLVQELNK KPIIKGLLTD SRSTISIIKS TNEEKFRNRF FGTKAMRLRD EVSGNNLYVY 1740
YIETKKNIAD VMTKPLPIKT FKLLTNKWIH 1770 
Gene Ontology
 GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
 GO:0000943; C:retrotransposon nucleocapsid; ISS:SGD.
 GO:0004190; F:aspartic-type endopeptidase activity; IEA:UniProtKB-KW.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
 GO:0003887; F:DNA-directed DNA polymerase activity; ISS:SGD.
 GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
 GO:0008233; F:peptidase activity; ISS:SGD.
 GO:0004540; F:ribonuclease activity; ISS:SGD.
 GO:0004523; F:ribonuclease H activity; IEA:EC.
 GO:0003723; F:RNA binding; ISS:SGD.
 GO:0003964; F:RNA-directed DNA polymerase activity; ISS:SGD.
 GO:0015074; P:DNA integration; IEA:UniProtKB-KW.
 GO:0006310; P:DNA recombination; IEA:UniProtKB-KW.
 GO:0006508; P:proteolysis; IEA:UniProtKB-KW.
 GO:0032197; P:transposition, RNA-mediated; ISS:SGD.
 GO:0046797; P:viral procapsid maturation; IEA:UniProtKB-KW. 
Interpro
 IPR025724; GAG-pre-integrase_dom.
 IPR001584; Integrase_cat-core.
 IPR015820; Retrotransposon_Ty1A_N.
 IPR012337; RNaseH-like_dom.
 IPR013103; RVT_2. 
Pfam
 PF13976; gag_pre-integrs
 PF00665; rve
 PF07727; RVT_2
 PF01021; TYA 
SMART
  
PROSITE
 PS50994; INTEGRASE 
PRINTS