Seroatlas · Human Serome Atlas

HMGN1

Non-histone chromosomal protein HMG-14

Also known as: FLJ27265, FLJ31471, HMG14, HMGN1_HUMAN, MGC104230, MGC117425

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

Protein identityUniProt · HPA

UniProt accession: P05114
Gene: HMGN1
Ensembl: ENSG00000205581
Chromosome: 21
Canonical length: 100 aa
Protein class: Predicted intracellular proteins
Subcellular location: Nucleoplasm

OverviewNCBI Gene

The protein encoded by this gene binds nucleosomal DNA and is associated with transcriptionally active chromatin. Along with a similar protein, HMG17, the encoded protein may help maintain an open chromatin configuration around transcribable genes. [provided by RefSeq, Aug 2011]

Canonical amino-acid sequenceUniProt

100 residues, UniProt reviewed canonical sequence.

>P05114|HMGN1
     1  MPKRKVSSAE GAAKEEPKRR SARLSAKPPA KVEAKPKKAA AKDKSSDKKV QTKGKRGAKG
    61  KQAEVANQET KEDLPAENGE TKTEESPASD EAGEKEAKSD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against HMGN1 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): 0.74
Highest tissue expression: 276 nTPM

Expression across tissuesHPA

Tissue

tonsil: 276 nTPM
retina: 228 nTPM
thymus: 222 nTPM
lymph node: 205 nTPM
bone marrow: 191 nTPM
epididymis: 177 nTPM

Single-cell type

megakaryocytes: 2,040 nCPM
extravillous trophoblasts: 1,111 nCPM
esophageal apical cells: 823 nCPM
migrating cytotrophoblasts: 767 nCPM
breast hormone-responsive cells: 758 nCPM
esophageal suprabasal cells: 734 nCPM

Immune cell

plasmacytoid DC: 296 nTPM
eosinophil: 283 nTPM
total PBMC: 231 nTPM
memory B-cell: 230 nTPM
T-reg: 222 nTPM
myeloid DC: 217 nTPM

Brain region

hypothalamus: 50 nTPM
white matter: 50 nTPM
medulla oblongata: 48 nTPM
midbrain: 48 nTPM
spinal cord: 47 nTPM
pons: 42 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about HMGN1.

Disease | ImmuneIEDB

Conditions an epitope on HMGN1 was assayed in.

systemic scleroderma B cell

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): 0.91
gnomAD pLI: 0.21
gnomAD missense Z: -1.37
DepMap mean gene effect: -0.31
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

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads HMGN1 as an antibody target. Whether an autoantibody or antibody against HMGN1 could matter depends on whether native HMGN1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

HMGN1 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 HMGN1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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