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Protein

Synaptonemal complex protein 2

Gene

SYCP2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Major component of the axial/lateral elements of synaptonemal complexes (SCS) during meiotic prophase. Plays a role in the assembly of synaptonemal complexes. Required for normal meiotic chromosome synapsis during oocyte and spermatocyte development and for normal male and female fertility. Required for insertion of SYCP3 into synaptonemal complexes. May be involved in the organization of chromatin by temporarily binding to DNA scaffold attachment regions. Requires SYCP3, but not SYCP1, in order to be incorporated into the axial/lateral elements.By similarity

GO - Molecular functioni

  • DNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Cell cycle, Cell division, Meiosis

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-1221632. Meiotic synapsis.

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptonemal complex protein 2
Short name:
SCP-2
Alternative name(s):
Synaptonemal complex lateral element protein
Short name:
hsSCP2
Gene namesi
Name:SYCP2
Synonyms:SCP2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 20

Organism-specific databases

HGNCiHGNC:11490. SYCP2.

Subcellular locationi

  • Nucleus By similarity
  • Chromosome By similarity

  • Note: In axial/lateral elements of the tripartite segments of synaptonemal complexes.By similarity

GO - Cellular componenti

  • lateral element Source: UniProtKB
  • nucleus Source: UniProtKB
  • synaptonemal complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA36272.

Polymorphism and mutation databases

BioMutaiSYCP2.
DMDMi23822155.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 15301530Synaptonemal complex protein 2PRO_0000072366Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei457 – 4571PhosphoserineBy similarity
Modified residuei465 – 4651PhosphoserineBy similarity
Modified residuei471 – 4711PhosphothreonineBy similarity
Modified residuei494 – 4941PhosphoserineBy similarity
Modified residuei519 – 5191PhosphoserineBy similarity
Modified residuei529 – 5291PhosphoserineBy similarity
Modified residuei538 – 5381PhosphoserineBy similarity
Modified residuei619 – 6191PhosphothreonineBy similarity
Modified residuei660 – 6601PhosphoserineBy similarity
Modified residuei664 – 6641PhosphoserineBy similarity
Modified residuei936 – 9361PhosphoserineBy similarity
Modified residuei938 – 9381PhosphothreonineBy similarity
Modified residuei1136 – 11361PhosphoserineBy similarity
Modified residuei1138 – 11381PhosphoserineBy similarity
Modified residuei1145 – 11451PhosphoserineBy similarity
Modified residuei1161 – 11611PhosphoserineBy similarity
Modified residuei1177 – 11771PhosphoserineBy similarity
Modified residuei1189 – 11891PhosphothreonineBy similarity
Modified residuei1204 – 12041PhosphoserineBy similarity
Modified residuei1234 – 12341PhosphoserineBy similarity
Modified residuei1253 – 12531PhosphoserineBy similarity
Modified residuei1295 – 12951PhosphoserineBy similarity
Modified residuei1297 – 12971PhosphoserineBy similarity
Modified residuei1339 – 13391PhosphothreonineBy similarity

Post-translational modificationi

Phosphorylated.By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ9BX26.
PaxDbiQ9BX26.
PRIDEiQ9BX26.

PTM databases

iPTMnetiQ9BX26.
PhosphoSiteiQ9BX26.

Expressioni

Gene expression databases

BgeeiQ9BX26.
CleanExiHS_SCP2.
HS_SYCP2.
ExpressionAtlasiQ9BX26. baseline and differential.
GenevisibleiQ9BX26. HS.

Interactioni

Subunit structurei

Component of the lateral elements of synaptonemal complexes. Heterodimer with SYCP3 (By similarity). Interacts with SMC1A and SMC3 (By similarity). Interacts with TEX11 (By similarity).By similarity

Protein-protein interaction databases

BioGridi115660. 1 interaction.
IntActiQ9BX26. 1 interaction.
STRINGi9606.ENSP00000350162.

Structurei

3D structure databases

ProteinModelPortaliQ9BX26.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi655 – 6606Poly-Ser

Sequence similaritiesi

Belongs to the SYCP2 family.Curated

Phylogenomic databases

eggNOGiENOG410IIGE. Eukaryota.
ENOG4111I7G. LUCA.
GeneTreeiENSGT00530000063859.
HOGENOMiHOG000231579.
HOVERGENiHBG056387.
InParanoidiQ9BX26.
KOiK19529.
OMAiCWTPVTN.
OrthoDBiEOG71G9T9.
PhylomeDBiQ9BX26.
TreeFamiTF332368.

Family and domain databases

InterProiIPR024835. SYCP1/2.
IPR024832. SYCP2.
[Graphical view]
PANTHERiPTHR15607. PTHR15607. 2 hits.
PTHR15607:SF12. PTHR15607:SF12. 2 hits.

Sequencei

Sequence statusi: Complete.

Q9BX26-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPIRPDLQQL EKCIDDALRK NDFKPLKTLL QIDICEDVKI KCSKQFFHKV
60 70 80 90 100
DNLICRELNK EDIHNVSAIL VSVGRCGKNI SVLGQAGLLT MIKQGLIQKM
110 120 130 140 150
VAWFEKSKDI IQSQGNSKDE AVLNMIEDLV DLLLVIHDVS DEGKKQVVES
160 170 180 190 200
FVPRICSLVI DSRVNICIQQ EIIKKMNAML DKMPQDARKI LSNQEMLILM
210 220 230 240 250
SSMGERILDA GDYDLQVGIV EALCRMTTEK QRQELAHQWF SMDFIAKAFK
260 270 280 290 300
RIKDSEFETD CRIFLNLVNG MLGDKRRVFT FPCLSAFLDK YELQIPSDEK
310 320 330 340 350
LEEFWIDFNL GSQTLSFYIA GDNDDHQWEA VTVPEEKVQI YSIEVRESKK
360 370 380 390 400
LLTIILKNTV KISKREGKEL LLYFDASLEI TNVTQKIFGA TKHRESIRKQ
410 420 430 440 450
GISVAKTSLH ILFDASGSQI LVPESQISPV GEELVSLKEK SKSPKEFAKP
460 470 480 490 500
SKYIKNSDKG NRNNSQLEKT TPSKRKMSEA SMIVSGADRY TMRSPVLFSN
510 520 530 540 550
TSIPPRRRRI KPPLQMTSSA EKPSVSQTSE NRVDNAASLK SRSSEGRHRR
560 570 580 590 600
DNIDKHIKTA KCVENTENKN VEFPNQNFSE LQDVIPDSQA AEKRDHTILP
610 620 630 640 650
GVLDNICGNK IHSKWACWTP VTNIELCNNQ RASTSSGDTL NQDIVINKKL
660 670 680 690 700
TKQKSSSSIS DHNSEGTGKV KYKKEQTDHI KIDKAEVEVC KKHNQQQNHP
710 720 730 740 750
KYSGQKNTEN AKQSDWPVES ETTFKSVLLN KTIEESLIYR KKYILSKDVN
760 770 780 790 800
TATCDKNPSA SKNVQSHRKA EKELTSELNS WDSKQKKMRE KSKGKEFTNV
810 820 830 840 850
AESLISQINK RYKTKDDIKS TRKLKESLIN SGFSNKPVVQ LSKEKVQKKS
860 870 880 890 900
YRKLKTTFVN VTSECPVNDV YNFNLNGADD PIIKLGIQEF QATAKEACAD
910 920 930 940 950
RSIRLVGPRN HDELKSSVKT KDKKIITNHQ KKNLFSDTET EYRCDDSKTD
960 970 980 990 1000
ISWLREPKSK PQLIDYSRNK NVKNHKSGKS RSSLEKGQPS SKMTPSKNIT
1010 1020 1030 1040 1050
KKMDKTIPEG RIRLPRKATK TKKNYKDLSN SESECEQEFS HSFKENIPVK
1060 1070 1080 1090 1100
EENIHSRMKT VKLPKKQQKV FCAETEKELS KQWKNSSLLK DAIRDNCLDL
1110 1120 1130 1140 1150
SPRSLSGSPS SIEVTRCIEK ITEKDFTQDY DCITKSISPY PKTSSLESLN
1160 1170 1180 1190 1200
SNSGVGGTIK SPKNNEKNFL CASESCSPIP RPLFLPRHTP TKSNTIVNRK
1210 1220 1230 1240 1250
KISSLVLTQE TQNSNSYSDV SSYSSEERFM EIESPHINEN YIQSKREESH
1260 1270 1280 1290 1300
LASSLSKSSE GREKTWFDMP CDATHVSGPT QHLSRKRIYI EDNLSNSNEV
1310 1320 1330 1340 1350
EMEEKGERRA NLLPKKLCKI EDADHHIHKM SESVSSLSTN DFSIPWETWQ
1360 1370 1380 1390 1400
NEFAGIEMTY ETYERLNSEF KRRNNIRHKM LSYFTTQSWK TAQQHLRTMN
1410 1420 1430 1440 1450
HQSQDSRIKK LDKFQFIIIE ELENFEKDSQ SLKDLEKEFV DFWEKIFQKF
1460 1470 1480 1490 1500
SAYQKSEQQR LHLLKTSLAK SVFCNTDSEE TVFTSEMCLM KEDMKVLQDR
1510 1520 1530
LLKDMLEEEL LNVRRELMSV FMSHERNANV
Length:1,530
Mass (Da):175,639
Last modified:October 10, 2002 - v2
Checksum:i3676EB133C53F1FA
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti218 – 2181G → A in CAA70171 (PubMed:10341103).Curated
Sequence conflicti691 – 6911K → R in CAA70171 (PubMed:10341103).Curated
Sequence conflicti794 – 7974GKEF → KKKK (PubMed:17974005).Curated
Sequence conflicti1179 – 11791I → T in CAA70171 (PubMed:10341103).Curated
Sequence conflicti1186 – 11861P → A in CAA70171 (PubMed:10341103).Curated
Sequence conflicti1222 – 12221S → R in CAA70171 (PubMed:10341103).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti353 – 3531T → K.
Corresponds to variant rs13039338 [ dbSNP | Ensembl ].
VAR_054059
Natural varianti523 – 5231P → L.
Corresponds to variant rs1359836 [ dbSNP | Ensembl ].
VAR_014115
Natural varianti751 – 7511T → I.
Corresponds to variant rs6071006 [ dbSNP | Ensembl ].
VAR_054060
Natural varianti1155 – 11551V → A.
Corresponds to variant rs6128714 [ dbSNP | Ensembl ].
VAR_054061

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08982 mRNA. Translation: CAA70171.1.
AL109928, AL158092 Genomic DNA. Translation: CAI21795.1.
AL158092 Genomic DNA. Translation: CAC36022.2.
BC132864 mRNA. Translation: AAI32865.1.
BC132870 mRNA. Translation: AAI32871.1.
AL080226 mRNA. Translation: CAB45780.1.
CCDSiCCDS13482.1.
RefSeqiNP_055073.2. NM_014258.3.
XP_011526791.1. XM_011528489.1.
UniGeneiHs.202676.

Genome annotation databases

EnsembliENST00000357552; ENSP00000350162; ENSG00000196074.
ENST00000371001; ENSP00000360040; ENSG00000196074.
GeneIDi10388.
KEGGihsa:10388.
UCSCiuc002yaz.4. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08982 mRNA. Translation: CAA70171.1.
AL109928, AL158092 Genomic DNA. Translation: CAI21795.1.
AL158092 Genomic DNA. Translation: CAC36022.2.
BC132864 mRNA. Translation: AAI32865.1.
BC132870 mRNA. Translation: AAI32871.1.
AL080226 mRNA. Translation: CAB45780.1.
CCDSiCCDS13482.1.
RefSeqiNP_055073.2. NM_014258.3.
XP_011526791.1. XM_011528489.1.
UniGeneiHs.202676.

3D structure databases

ProteinModelPortaliQ9BX26.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115660. 1 interaction.
IntActiQ9BX26. 1 interaction.
STRINGi9606.ENSP00000350162.

PTM databases

iPTMnetiQ9BX26.
PhosphoSiteiQ9BX26.

Polymorphism and mutation databases

BioMutaiSYCP2.
DMDMi23822155.

Proteomic databases

EPDiQ9BX26.
PaxDbiQ9BX26.
PRIDEiQ9BX26.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000357552; ENSP00000350162; ENSG00000196074.
ENST00000371001; ENSP00000360040; ENSG00000196074.
GeneIDi10388.
KEGGihsa:10388.
UCSCiuc002yaz.4. human.

Organism-specific databases

CTDi10388.
GeneCardsiSYCP2.
HGNCiHGNC:11490. SYCP2.
MIMi604105. gene.
neXtProtiNX_Q9BX26.
PharmGKBiPA36272.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IIGE. Eukaryota.
ENOG4111I7G. LUCA.
GeneTreeiENSGT00530000063859.
HOGENOMiHOG000231579.
HOVERGENiHBG056387.
InParanoidiQ9BX26.
KOiK19529.
OMAiCWTPVTN.
OrthoDBiEOG71G9T9.
PhylomeDBiQ9BX26.
TreeFamiTF332368.

Enzyme and pathway databases

ReactomeiR-HSA-1221632. Meiotic synapsis.

Miscellaneous databases

GenomeRNAii10388.
NextBioi39352.
PROiQ9BX26.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BX26.
CleanExiHS_SCP2.
HS_SYCP2.
ExpressionAtlasiQ9BX26. baseline and differential.
GenevisibleiQ9BX26. HS.

Family and domain databases

InterProiIPR024835. SYCP1/2.
IPR024832. SYCP2.
[Graphical view]
PANTHERiPTHR15607. PTHR15607. 2 hits.
PTHR15607:SF12. PTHR15607:SF12. 2 hits.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation and characterization of the human SCP2 cDNA and chromosomal localization of the gene."
    Schalk J.A., Offenberg H.H., Peters E., Groot N.P., Hoovers J.M.N., Heyting C.
    Mamm. Genome 10:642-644(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Testis.
  2. "The DNA sequence and comparative analysis of human chromosome 20."
    Deloukas P., Matthews L.H., Ashurst J.L., Burton J., Gilbert J.G.R., Jones M., Stavrides G., Almeida J.P., Babbage A.K., Bagguley C.L., Bailey J., Barlow K.F., Bates K.N., Beard L.M., Beare D.M., Beasley O.P., Bird C.P., Blakey S.E.
    , Bridgeman A.M., Brown A.J., Buck D., Burrill W.D., Butler A.P., Carder C., Carter N.P., Chapman J.C., Clamp M., Clark G., Clark L.N., Clark S.Y., Clee C.M., Clegg S., Cobley V.E., Collier R.E., Connor R.E., Corby N.R., Coulson A., Coville G.J., Deadman R., Dhami P.D., Dunn M., Ellington A.G., Frankland J.A., Fraser A., French L., Garner P., Grafham D.V., Griffiths C., Griffiths M.N.D., Gwilliam R., Hall R.E., Hammond S., Harley J.L., Heath P.D., Ho S., Holden J.L., Howden P.J., Huckle E., Hunt A.R., Hunt S.E., Jekosch K., Johnson C.M., Johnson D., Kay M.P., Kimberley A.M., King A., Knights A., Laird G.K., Lawlor S., Lehvaeslaiho M.H., Leversha M.A., Lloyd C., Lloyd D.M., Lovell J.D., Marsh V.L., Martin S.L., McConnachie L.J., McLay K., McMurray A.A., Milne S.A., Mistry D., Moore M.J.F., Mullikin J.C., Nickerson T., Oliver K., Parker A., Patel R., Pearce T.A.V., Peck A.I., Phillimore B.J.C.T., Prathalingam S.R., Plumb R.W., Ramsay H., Rice C.M., Ross M.T., Scott C.E., Sehra H.K., Shownkeen R., Sims S., Skuce C.D., Smith M.L., Soderlund C., Steward C.A., Sulston J.E., Swann R.M., Sycamore N., Taylor R., Tee L., Thomas D.W., Thorpe A., Tracey A., Tromans A.C., Vaudin M., Wall M., Wallis J.M., Whitehead S.L., Whittaker P., Willey D.L., Williams L., Williams S.A., Wilming L., Wray P.W., Hubbard T., Durbin R.M., Bentley D.R., Beck S., Rogers J.
    Nature 414:865-871(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 279-797.
    Tissue: Kidney.

Entry informationi

Entry nameiSYCP2_HUMAN
AccessioniPrimary (citable) accession number: Q9BX26
Secondary accession number(s): A2RUE5
, O75763, Q5JX11, Q9NTX8, Q9UG27
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 10, 2002
Last sequence update: October 10, 2002
Last modified: April 13, 2016
This is version 120 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.