Seroatlas · Human Serome Atlas

SDF2

Stromal cell-derived factor 2

Also known as: SDF2_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q99470
Gene: SDF2
Ensembl: ENSG00000132581
Chromosome: 17
Canonical length: 211 aa
Protein class: Predicted intracellular proteins
Subcellular location: Vesicles
Secretome location: Intracellular and membrane

OverviewNCBI Gene

The protein encoded by this gene is believed to be a secretory protein. It has regions of similarity to hydrophilic segments of yeast mannosyltransferases. Its expression is ubiquitous and the gene appears to be relatively conserved among mammals. Alternate splicing results in both coding and non-coding variants. A pseudogene of this gene is located on chromosome 15. [provided by RefSeq, Dec 2011]

Canonical amino-acid sequenceUniProt

211 residues, UniProt reviewed canonical sequence.

>Q99470|SDF2
     1  MAVVPLLLLG GLWSAVGASS LGVVTCGSVV KLLNTRHNVR LHSHDVRYGS GSGQQSVTGV
    61  TSVDDSNSYW RIRGKSATVC ERGTPIKCGQ PIRLTHVNTG RNLHSHHFTS PLSGNQEVSA
   121  FGEEGEGDYL DDWTVLCNGP YWVRDGEVRF KHSSTEVLLS VTGEQYGRPI SGQKEVHGMA
   181  QPSQNNYWKA MEGIFMKPSE LLKAEAHHAE L

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SDF2 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: Secreted
Secreted: Yes
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.3
Highest tissue expression: 37 nTPM

Expression across tissuesHPA

Tissue

choroid plexus: 37 nTPM
adrenal gland: 36 nTPM
epididymis: 26 nTPM
ovary: 24 nTPM
liver: 22 nTPM
blood vessel: 21 nTPM

Single-cell type

syncytiotrophoblasts: 272 nCPM
esophageal apical cells: 227 nCPM
neutrophils: 163 nCPM
cytotrophoblasts: 158 nCPM
extravillous trophoblasts: 151 nCPM
migrating cytotrophoblasts: 123 nCPM

Immune cell

neutrophil: 205 nTPM
basophil: 191 nTPM
eosinophil: 130 nTPM
T-reg: 75 nTPM
NK-cell: 71 nTPM
gdT-cell: 65 nTPM

Brain region

choroid plexus: 18 nTPM
hypothalamus: 14 nTPM
medulla oblongata: 13 nTPM
thalamus: 13 nTPM
midbrain: 12 nTPM
spinal cord: 12 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): 0.95
gnomAD pLI: 0.03
gnomAD missense Z: 0.65
DepMap mean gene effect: -0.17
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 7% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

protein refolding

Molecular functions

misfolded protein binding

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of SDF2 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

DNAJB11

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads SDF2 as an antibody target. Whether an autoantibody or antibody against SDF2 could matter depends on whether native SDF2 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SDF2 is annotated as secreted, so native SDF2 circulates and is directly accessible to antibodies. Secreted and cell-surface proteins are the autoantibody targets most likely to act like drugs, blocking or depleting the native protein.

Annotation status

The present source text does not explicitly label SDF2 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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