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Protein

Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein

Gene

HMCES

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Specifically binds 5-hydroxymethylcytosine (5hmC)-containing DNA in stem cells, suggesting that it acts as a specific reader of 5hmC in stem cells (By similarity). May act as a peptidase; experimental evidences are however required to confirm this prediction (PubMed:23945014).By similarity1 Publication

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciZFISH:G66-32394-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein
Short name:
ES cell-specific 5hmC-binding protein
Alternative name(s):
Putative peptidase SRAPD1 (EC:3.4.-.-)
SRAP domain-containing protein 1
Gene namesi
Name:HMCES
Synonyms:C3orf37, DC12, SRAPD1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

HGNCiHGNC:24446. HMCES.

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000183624.
PharmGKBiPA142672398.

Polymorphism and mutation databases

BioMutaiC3orf37.
DMDMi74731769.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001643941 – 354Embryonic stem cell-specific 5-hydroxymethylcytosine-binding proteinAdd BLAST354

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei160PhosphoserineCombined sources1
Modified residuei295PhosphoserineCombined sources1
Modified residuei322PhosphoserineCombined sources1
Cross-linki339Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ96FZ2.
MaxQBiQ96FZ2.
PaxDbiQ96FZ2.
PeptideAtlasiQ96FZ2.
PRIDEiQ96FZ2.

PTM databases

iPTMnetiQ96FZ2.
PhosphoSitePlusiQ96FZ2.
SwissPalmiQ96FZ2.

Expressioni

Gene expression databases

BgeeiENSG00000183624.
CleanExiHS_C3orf37.
ExpressionAtlasiQ96FZ2. baseline and differential.
GenevisibleiQ96FZ2. HS.

Organism-specific databases

HPAiHPA044968.
HPA050337.

Interactioni

Protein-protein interaction databases

BioGridi121265. 21 interactors.
IntActiQ96FZ2. 13 interactors.
STRINGi9606.ENSP00000372955.

Structurei

Secondary structure

1354
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi5 – 7Combined sources3
Helixi11 – 16Combined sources6
Beta strandi31 – 34Combined sources4
Helixi35 – 37Combined sources3
Beta strandi41 – 44Combined sources4
Beta strandi48 – 55Combined sources8
Helixi56 – 58Combined sources3
Beta strandi67 – 76Combined sources10
Helixi87 – 89Combined sources3
Beta strandi96 – 98Combined sources3
Helixi99 – 101Combined sources3
Turni102 – 104Combined sources3
Helixi106 – 113Combined sources8
Beta strandi117 – 130Combined sources14
Beta strandi137 – 143Combined sources7
Helixi166 – 168Combined sources3
Beta strandi174 – 183Combined sources10
Beta strandi192 – 201Combined sources10
Helixi204 – 206Combined sources3
Turni207 – 209Combined sources3
Beta strandi211 – 214Combined sources4
Helixi220 – 227Combined sources8
Turni229 – 231Combined sources3
Helixi234 – 238Combined sources5
Beta strandi248 – 252Combined sources5
Helixi254 – 257Combined sources4
Helixi264 – 267Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5KO9X-ray1.50A1-270[»]
ProteinModelPortaliQ96FZ2.
SMRiQ96FZ2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG2618. Eukaryota.
COG2135. LUCA.
GeneTreeiENSGT00390000018439.
HOGENOMiHOG000104694.
HOVERGENiHBG081414.
InParanoidiQ96FZ2.
OMAiEQQMNDW.
OrthoDBiEOG091G09R0.
PhylomeDBiQ96FZ2.
TreeFamiTF324343.

Family and domain databases

Gene3Di3.90.1680.10. 1 hit.
InterProiIPR003738. SRAP.
[Graphical view]
PANTHERiPTHR13604. PTHR13604. 2 hits.
PfamiPF02586. SRAP. 1 hit.
[Graphical view]
SUPFAMiSSF143081. SSF143081. 1 hit.

Sequencei

Sequence statusi: Complete.

Q96FZ2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MCGRTSCHLP RDVLTRACAY QDRRGQQRLP EWRDPDKYCP SYNKSPQSNS
60 70 80 90 100
PVLLSRLHFE KDADSSERII APMRWGLVPS WFKESDPSKL QFNTTNCRSD
110 120 130 140 150
TVMEKRSFKV PLGKGRRCVV LADGFYEWQR CQGTNQRQPY FIYFPQIKTE
160 170 180 190 200
KSGSIGAADS PENWEKVWDN WRLLTMAGIF DCWEPPEGGD VLYSYTIITV
210 220 230 240 250
DSCKGLSDIH HRMPAILDGE EAVSKWLDFG EVSTQEALKL IHPTENITFH
260 270 280 290 300
AVSSVVNNSR NNTPECLAPV DLVVKKELRA SGSSQRMLQW LATKSPKKED
310 320 330 340 350
SKTPQKEESD VPQWSSQFLQ KSPLPTKRGT AGLLEQWLKR EKEEEPVAKR

PYSQ
Length:354
Mass (Da):40,575
Last modified:December 1, 2001 - v1
Checksum:i209496BB7E331785
GO

Sequence cautioni

The sequence AAF86870 differs from that shown. Reason: Frameshift at positions 285, 326 and 344.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti60E → D in AAH09993 (PubMed:15489334).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF201934 mRNA. Translation: AAF86870.1. Frameshift.
AC137695 Genomic DNA. No translation available.
CH471052 Genomic DNA. Translation: EAW79266.1.
BC009993 mRNA. Translation: AAH09993.1.
BC010125 mRNA. Translation: AAH10125.1.
BC050686 mRNA. Translation: AAH50686.1.
BC088363 mRNA. Translation: AAH88363.1.
CCDSiCCDS33852.1.
RefSeqiNP_001006109.1. NM_001006109.1.
NP_064572.2. NM_020187.2.
XP_005247693.1. XM_005247636.3.
XP_016862366.1. XM_017006877.1.
UniGeneiHs.458320.

Genome annotation databases

EnsembliENST00000383463; ENSP00000372955; ENSG00000183624.
ENST00000389735; ENSP00000374385; ENSG00000183624.
ENST00000502878; ENSP00000426215; ENSG00000183624.
GeneIDi56941.
KEGGihsa:56941.
UCSCiuc003elt.4. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF201934 mRNA. Translation: AAF86870.1. Frameshift.
AC137695 Genomic DNA. No translation available.
CH471052 Genomic DNA. Translation: EAW79266.1.
BC009993 mRNA. Translation: AAH09993.1.
BC010125 mRNA. Translation: AAH10125.1.
BC050686 mRNA. Translation: AAH50686.1.
BC088363 mRNA. Translation: AAH88363.1.
CCDSiCCDS33852.1.
RefSeqiNP_001006109.1. NM_001006109.1.
NP_064572.2. NM_020187.2.
XP_005247693.1. XM_005247636.3.
XP_016862366.1. XM_017006877.1.
UniGeneiHs.458320.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5KO9X-ray1.50A1-270[»]
ProteinModelPortaliQ96FZ2.
SMRiQ96FZ2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121265. 21 interactors.
IntActiQ96FZ2. 13 interactors.
STRINGi9606.ENSP00000372955.

PTM databases

iPTMnetiQ96FZ2.
PhosphoSitePlusiQ96FZ2.
SwissPalmiQ96FZ2.

Polymorphism and mutation databases

BioMutaiC3orf37.
DMDMi74731769.

Proteomic databases

EPDiQ96FZ2.
MaxQBiQ96FZ2.
PaxDbiQ96FZ2.
PeptideAtlasiQ96FZ2.
PRIDEiQ96FZ2.

Protocols and materials databases

DNASUi56941.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000383463; ENSP00000372955; ENSG00000183624.
ENST00000389735; ENSP00000374385; ENSG00000183624.
ENST00000502878; ENSP00000426215; ENSG00000183624.
GeneIDi56941.
KEGGihsa:56941.
UCSCiuc003elt.4. human.

Organism-specific databases

CTDi56941.
GeneCardsiHMCES.
H-InvDBHIX0022529.
HGNCiHGNC:24446. HMCES.
HPAiHPA044968.
HPA050337.
neXtProtiNX_Q96FZ2.
OpenTargetsiENSG00000183624.
PharmGKBiPA142672398.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2618. Eukaryota.
COG2135. LUCA.
GeneTreeiENSGT00390000018439.
HOGENOMiHOG000104694.
HOVERGENiHBG081414.
InParanoidiQ96FZ2.
OMAiEQQMNDW.
OrthoDBiEOG091G09R0.
PhylomeDBiQ96FZ2.
TreeFamiTF324343.

Enzyme and pathway databases

BioCyciZFISH:G66-32394-MONOMER.

Miscellaneous databases

ChiTaRSiHMCES. human.
GenomeRNAii56941.
PROiQ96FZ2.

Gene expression databases

BgeeiENSG00000183624.
CleanExiHS_C3orf37.
ExpressionAtlasiQ96FZ2. baseline and differential.
GenevisibleiQ96FZ2. HS.

Family and domain databases

Gene3Di3.90.1680.10. 1 hit.
InterProiIPR003738. SRAP.
[Graphical view]
PANTHERiPTHR13604. PTHR13604. 2 hits.
PfamiPF02586. SRAP. 1 hit.
[Graphical view]
SUPFAMiSSF143081. SSF143081. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiHMCES_HUMAN
AccessioniPrimary (citable) accession number: Q96FZ2
Secondary accession number(s): A6NJR9, Q96G34, Q9NRP3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 24, 2006
Last sequence update: December 1, 2001
Last modified: November 30, 2016
This is version 108 of the entry and version 1 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 3
    Human chromosome 3: entries, gene names and cross-references to MIM
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.