Seroatlas · Human Serome Atlas

HDGFL2

Hepatoma-derived growth factor-related protein 2

Also known as: Hdgfrp2, HDGR2_HUMAN, HRP2

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: Q7Z4V5
Gene: HDGFL2
Ensembl: ENSG00000167674
Chromosome: 19
Canonical length: 671 aa
Protein class: Predicted intracellular proteins
Subcellular location: Nucleoplasm,Mitochondria

OverviewNCBI Gene

This gene encodes a member of the hepatoma-derived growth factor (HDGF) family. The protein includes an N-terminal PWWP domain that binds to methyl-lysine-containing histones, with specific binding of this protein to tri-methylated lysines 36 and 79 of histone H3, and di- and tri-methylated lysine 20 of histone H4. The protein functions in LEDGF/p75-independent HIV-1 replication by determining HIV-1 integration site selection. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Apr 2014]

Canonical amino-acid sequenceUniProt

671 residues, UniProt reviewed canonical sequence.

>Q7Z4V5|HDGFL2
     1  MPHAFKPGDL VFAKMKGYPH WPARIDDIAD GAVKPPPNKY PIFFFGTHET AFLGPKDLFP
    61  YDKCKDKYGK PNKRKGFNEG LWEIQNNPHA SYSAPPPVSS SDSEAPEANP ADGSDADEDD
   121  EDRGVMAVTA VTATAASDRM ESDSDSDKSS DNSGLKRKTP ALKMSVSKRA RKASSDLDQA
   181  SVSPSEEENS ESSSESEKTS DQDFTPEKKA AVRAPRRGPL GGRKKKKAPS ASDSDSKADS
   241  DGAKPEPVAM ARSASSSSSS SSSSDSDVSV KKPPRGRKPA EKPLPKPRGR KPKPERPPSS
   301  SSSDSDSDEV DRISEWKRRD EARRRELEAR RRREQEEELR RLREQEKEEK ERRRERADRG
   361  EAERGSGGSS GDELREDDEP VKKRGRKGRG RGPPSSSDSE PEAELEREAK KSAKKPQSSS
   421  TEPARKPGQK EKRVRPEEKQ QAKPVKVERT RKRSEGFSMD RKVEKKKEPS VEEKLQKLHS
   481  EIKFALKVDS PDVKRCLNAL EELGTLQVTS QILQKNTDVV ATLKKIRRYK ANKDVMEKAA
   541  EVYTRLKSRV LGPKIEAVQK VNKAGMEKEK AEEKLAGEEL AGEEAPQEKA EDKPSTDLSA
   601  PVNGEATSQK GESAEDKEHE EGRDSEEGPR CGSSEDLHDS VREGPDLDRP GSDRQERERA
   661  RGDSEALDEE S

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against HDGFL2 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.6
Highest tissue expression: 71 nTPM

Expression across tissuesHPA

Tissue

testis: 71 nTPM
skeletal muscle: 64 nTPM
cerebellum: 53 nTPM
ovary: 48 nTPM
cervix: 43 nTPM
cerebral cortex: 40 nTPM

Single-cell type

late primary spermatocytes: 86 nCPM
cytotrophoblasts: 48 nCPM
müller glia: 44 nCPM
retinal amacrine cells: 40 nCPM
epididymal basal cells: 40 nCPM
migrating cytotrophoblasts: 39 nCPM

Immune cell

naive B-cell: 5.7 nTPM
eosinophil: 1.7 nTPM
NK-cell: 1.2 nTPM
naive CD4 T-cell: 1.1 nTPM
plasmacytoid DC: 1 nTPM
T-reg: 1 nTPM

Brain region

hippocampal formation: 48 nTPM
cerebral cortex: 48 nTPM
amygdala: 43 nTPM
white matter: 42 nTPM
cerebellum: 42 nTPM
medulla oblongata: 39 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance): 0.38
gnomAD pLI: 0.77
DepMap mean gene effect: -0.13
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of HDGFL2 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads HDGFL2 as an antibody target. Whether an autoantibody or antibody against HDGFL2 could matter depends on whether native HDGFL2 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

HDGFL2 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label HDGFL2 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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