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Protein

Synaptonemal complex protein 1

Gene

SYCP1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Major component of the transverse filaments of synaptonemal complexes, formed between homologous chromosomes during meiotic prophase. Required for normal assembly of the central element of the synaptonemal complexes. Required for normal centromere pairing during meiosis. Required for normal meiotic chromosome synapsis during oocyte and spermatocyte development and for normal male and female fertility.By similarity

GO - Molecular functioni

  • DNA binding Source: ProtInc

GO - Biological processi

Keywordsi

Molecular functionDNA-binding
Biological processCell cycle, Cell division, Meiosis

Enzyme and pathway databases

ReactomeiR-HSA-1221632 Meiotic synapsis

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptonemal complex protein 11 Publication
Short name:
SCP-1
Alternative name(s):
Cancer/testis antigen 8
Short name:
CT8
Gene namesi
Name:SYCP11 PublicationImported
Synonyms:SCP11 Publication
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000198765.11
HGNCiHGNC:11487 SYCP1
MIMi602162 gene
neXtProtiNX_Q15431

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Centromere, Chromosome, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi101 – 111Missing : Impairs self-assembly of N-terminal ends. 1 PublicationAdd BLAST11
Mutagenesisi105V → E: Impairs self-assembly of N-terminal ends; when associated with E-109. 1 Publication1
Mutagenesisi109L → E: Impairs self-assembly of N-terminal ends; when associated with E-105. 1 Publication1
Mutagenesisi679L → A: Impairs pH-induced C-terminal tetrameric self-assembly; when associated with A-688. 1 Publication1
Mutagenesisi688I → A: Impairs pH-induced C-terminal tetrameric self-assembly; when associated with A-679. 1 Publication1
Mutagenesisi717H → E: Impairs pH-induced C-terminal tetrameric self-assembly. 1 Publication1
Mutagenesisi717H → W: Enables C-terminal tetrameric self-assembly at pH 8.0; when associated with F-721. 1 Publication1
Mutagenesisi721Y → F: Enables C-terminal tetrameric self-assembly at pH 8.0; when associated with W-717. 1 Publication1

Organism-specific databases

DisGeNETi6847
OpenTargetsiENSG00000198765
PharmGKBiPA36269

Polymorphism and mutation databases

BioMutaiSYCP1
DMDMi209572682

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000723621 – 976Synaptonemal complex protein 1Add BLAST976

Proteomic databases

EPDiQ15431
MaxQBiQ15431
PaxDbiQ15431
PeptideAtlasiQ15431
PRIDEiQ15431
ProteomicsDBi60589

PTM databases

iPTMnetiQ15431
PhosphoSitePlusiQ15431
SwissPalmiQ15431

Expressioni

Tissue specificityi

Testis.1 Publication

Gene expression databases

BgeeiENSG00000198765 Expressed in 54 organ(s), highest expression level in testis
CleanExiHS_SYCP1
ExpressionAtlasiQ15431 baseline and differential
GenevisibleiQ15431 HS

Organism-specific databases

HPAiHPA021083

Interactioni

Subunit structurei

Structural component of synaptonemal complexes (By similarity). Homotetramer that consists of an N-terminal four-helical bundle that bifurcates into two elongated C-terminal dimeric coiled coils (PubMed:29915389, PubMed:26323297). This tetrameric building block potentially self-assembles into a supramolecular zipper-like lattice to mediate meiotic chromosome synapsis. Self-assembly is likely initiated by local proton density at chromosome axis, which is predicted to trigger antiparallel back to back assembly of adjacent C-terminal ends into tetrameric structures that anchor to chromosomal DNA. Then the N-terminal ends are predicted to undergo cooperative antiparallel head to head assembly at the midline of synaptonemal complexes central element to form a zipper-like lattice between properly aligned homologous chromosomes (PubMed:29915389). The nascent synapsis generated by SYCP1 is stabilized through interaction with central element proteins SYCE1 and SYCE2 (By similarity).By similarity2 Publications

Protein-protein interaction databases

BioGridi112714, 3 interactors
IntActiQ15431, 1 interactor
STRINGi9606.ENSP00000358531

Structurei

Secondary structure

1976
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ15431
SMRiQ15431
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni676 – 770Required for pH-induced assembly of C-terminal ends into antiparallel tetramers1 PublicationAdd BLAST95
Regioni784 – 976DNA-binding1 PublicationAdd BLAST193

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili211 – 316Sequence analysisAdd BLAST106
Coiled coili391 – 439Sequence analysisAdd BLAST49
Coiled coili499 – 685Sequence analysisAdd BLAST187
Coiled coili739 – 798Sequence analysis1 PublicationAdd BLAST60

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi101 – 111Mediates head to head self-assembly of N-terminal ends1 PublicationAdd BLAST11
Motifi117 – 120Nuclear localization signalSequence analysis4
Motifi679 – 682Nuclear localization signalSequence analysis4
Motifi880 – 883Nuclear localization signalSequence analysis4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi12 – 100Asp/Glu-rich (acidic)Add BLAST89
Compositional biasi961 – 969Arg/Lys-rich (basic)9

Domaini

The molecule is in a coiled coil structure that is formed by 4 polypeptide chains. The N-terminal and C-terminal regions exhibit a prominent seven-residues periodicity.1 Publication

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiENOG410IH3F Eukaryota
ENOG410XZPD LUCA
GeneTreeiENSGT00390000003368
HOGENOMiHOG000154467
HOVERGENiHBG059062
InParanoidiQ15431
KOiK19533
OMAiWKFDSKA
OrthoDBiEOG091G0116
PhylomeDBiQ15431
TreeFamiTF331737

Family and domain databases

InterProiView protein in InterPro
IPR008827 SYCP1
IPR024835 SYCP1/2
PANTHERiPTHR15607 PTHR15607, 1 hit
PfamiView protein in Pfam
PF05483 SCP-1, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

Q15431-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEKQKPFALF VPPRSSSSQV SAVKPQTLGG DSTFFKSFNK CTEDDFEFPF
60 70 80 90 100
AKTNLSKNGE NIDSDPALQK VNFLPVLEQV GNSDCHYQEG LKDSDLENSE
110 120 130 140 150
GLSRVYSKLY KEAEKIKKWK VSTEAELRQK ESKLQENRKI IEAQRKAIQE
160 170 180 190 200
LQFGNEKVSL KLEEGIQENK DLIKENNATR HLCNLLKETC ARSAEKTKKY
210 220 230 240 250
EYEREETRQV YMDLNNNIEK MITAFEELRV QAENSRLEMH FKLKEDYEKI
260 270 280 290 300
QHLEQEYKKE INDKEKQVSL LLIQITEKEN KMKDLTFLLE ESRDKVNQLE
310 320 330 340 350
EKTKLQSENL KQSIEKQHHL TKELEDIKVS LQRSVSTQKA LEEDLQIATK
360 370 380 390 400
TICQLTEEKE TQMEESNKAR AAHSFVVTEF ETTVCSLEEL LRTEQQRLEK
410 420 430 440 450
NEDQLKILTM ELQKKSSELE EMTKLTNNKE VELEELKKVL GEKETLLYEN
460 470 480 490 500
KQFEKIAEEL KGTEQELIGL LQAREKEVHD LEIQLTAITT SEQYYSKEVK
510 520 530 540 550
DLKTELENEK LKNTELTSHC NKLSLENKEL TQETSDMTLE LKNQQEDINN
560 570 580 590 600
NKKQEERMLK QIENLQETET QLRNELEYVR EELKQKRDEV KCKLDKSEEN
610 620 630 640 650
CNNLRKQVEN KNKYIEELQQ ENKALKKKGT AESKQLNVYE IKVNKLELEL
660 670 680 690 700
ESAKQKFGEI TDTYQKEIED KKISEENLLE EVEKAKVIAD EAVKLQKEID
710 720 730 740 750
KRCQHKIAEM VALMEKHKHQ YDKIIEERDS ELGLYKSKEQ EQSSLRASLE
760 770 780 790 800
IELSNLKAEL LSVKKQLEIE REEKEKLKRE AKENTATLKE KKDKKTQTFL
810 820 830 840 850
LETPEIYWKL DSKAVPSQTV SRNFTSVDHG ISKDKRDYLW TSAKNTLSTP
860 870 880 890 900
LPKAYTVKTP TKPKLQQREN LNIPIEESKK KRKMAFEFDI NSDSSETTDL
910 920 930 940 950
LSMVSEEETL KTLYRNNNPP ASHLCVKTPK KAPSSLTTPG STLKFGAIRK
960 970
MREDRWAVIA KMDRKKKLKE AEKLFV
Length:976
Mass (Da):114,192
Last modified:October 14, 2008 - v2
Checksum:i43058F1A4B7F57E5
GO

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A087WZC3A0A087WZC3_HUMAN
Synaptonemal complex protein 1
SYCP1
951Annotation score:
Q5VXJ5Q5VXJ5_HUMAN
Synaptonemal complex protein 1
SYCP1
792Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti46F → L in CAA64956 (PubMed:9119375).Curated1
Sequence conflicti106Y → F in CAA64956 (PubMed:9119375).Curated1
Sequence conflicti153F → C in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti161K → T in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti168E → D in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti216N → S in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti225 – 226FE → HG in CAA64956 (PubMed:9119375).Curated2
Sequence conflicti350K → N in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti360E → D in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti400 – 401KN → NY in BAA22586 (PubMed:9371398).Curated2
Sequence conflicti406K → I in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti415K → T in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti449E → D in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti483 – 510IQLTA…LENEK → YSYCHYHKWTVLPKRGQRPK LSSKRE in BAA22586 (PubMed:9371398).CuratedAdd BLAST28
Sequence conflicti516 – 528LTSHC…SLENK → YFTLQQASPPPN in BAA22586 (PubMed:9371398).CuratedAdd BLAST13
Sequence conflicti549N → I in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti560K → T in BAA22586 (PubMed:9371398).Curated1
Sequence conflicti941S → P in CAA64956 (PubMed:9119375).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_04699378E → D. Corresponds to variant dbSNP:rs12563933Ensembl.1
Natural variantiVAR_046994805E → D1 PublicationCorresponds to variant dbSNP:rs1053812Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X95654 mRNA Translation: CAA64956.1
D67035 mRNA Translation: BAA22586.1
AL645502 Genomic DNA No translation available.
AL358372 Genomic DNA No translation available.
CH471122 Genomic DNA Translation: EAW56622.1
BC126266 mRNA Translation: AAI26267.1
CCDSiCCDS879.1
RefSeqiNP_001269470.1, NM_001282541.1
NP_003167.2, NM_003176.3
XP_006710922.1, XM_006710859.1
XP_016857673.1, XM_017002184.1
UniGeneiHs.112743

Genome annotation databases

EnsembliENST00000369518; ENSP00000358531; ENSG00000198765
ENST00000369522; ENSP00000358535; ENSG00000198765
ENST00000618516; ENSP00000480997; ENSG00000198765
GeneIDi6847
KEGGihsa:6847
UCSCiuc001efq.5 human

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X95654 mRNA Translation: CAA64956.1
D67035 mRNA Translation: BAA22586.1
AL645502 Genomic DNA No translation available.
AL358372 Genomic DNA No translation available.
CH471122 Genomic DNA Translation: EAW56622.1
BC126266 mRNA Translation: AAI26267.1
CCDSiCCDS879.1
RefSeqiNP_001269470.1, NM_001282541.1
NP_003167.2, NM_003176.3
XP_006710922.1, XM_006710859.1
XP_016857673.1, XM_017002184.1
UniGeneiHs.112743

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4YTOX-ray2.00A/B662-801[»]
6F5XX-ray1.91A101-175[»]
6F62X-ray2.07A/B101-206[»]
6F63X-ray2.15A/B/C/D676-770[»]
6F64X-ray2.49A676-770[»]
ProteinModelPortaliQ15431
SMRiQ15431
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112714, 3 interactors
IntActiQ15431, 1 interactor
STRINGi9606.ENSP00000358531

PTM databases

iPTMnetiQ15431
PhosphoSitePlusiQ15431
SwissPalmiQ15431

Polymorphism and mutation databases

BioMutaiSYCP1
DMDMi209572682

Proteomic databases

EPDiQ15431
MaxQBiQ15431
PaxDbiQ15431
PeptideAtlasiQ15431
PRIDEiQ15431
ProteomicsDBi60589

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000369518; ENSP00000358531; ENSG00000198765
ENST00000369522; ENSP00000358535; ENSG00000198765
ENST00000618516; ENSP00000480997; ENSG00000198765
GeneIDi6847
KEGGihsa:6847
UCSCiuc001efq.5 human

Organism-specific databases

CTDi6847
DisGeNETi6847
EuPathDBiHostDB:ENSG00000198765.11
GeneCardsiSYCP1
H-InvDBiHIX0028584
HGNCiHGNC:11487 SYCP1
HPAiHPA021083
MIMi602162 gene
neXtProtiNX_Q15431
OpenTargetsiENSG00000198765
PharmGKBiPA36269
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IH3F Eukaryota
ENOG410XZPD LUCA
GeneTreeiENSGT00390000003368
HOGENOMiHOG000154467
HOVERGENiHBG059062
InParanoidiQ15431
KOiK19533
OMAiWKFDSKA
OrthoDBiEOG091G0116
PhylomeDBiQ15431
TreeFamiTF331737

Enzyme and pathway databases

ReactomeiR-HSA-1221632 Meiotic synapsis

Miscellaneous databases

ChiTaRSiSYCP1 human
GeneWikiiSYCP1
GenomeRNAii6847
PROiPR:Q15431
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000198765 Expressed in 54 organ(s), highest expression level in testis
CleanExiHS_SYCP1
ExpressionAtlasiQ15431 baseline and differential
GenevisibleiQ15431 HS

Family and domain databases

InterProiView protein in InterPro
IPR008827 SYCP1
IPR024835 SYCP1/2
PANTHERiPTHR15607 PTHR15607, 1 hit
PfamiView protein in Pfam
PF05483 SCP-1, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSYCP1_HUMAN
AccessioniPrimary (citable) accession number: Q15431
Secondary accession number(s): O14963, Q5VXJ6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: October 14, 2008
Last modified: November 7, 2018
This is version 140 of the entry and version 2 of the sequence. See 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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