Sftpd surfactant protein D [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sftpdprovided by RGD
Official Full Name: surfactant protein Dprovided by RGD
Primary source: RGD:3667
See related: Ensembl:ENSRNOG00000056001 AllianceGenome:RGD:3667
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: SPD; SP-D
Summary: Enables identical protein binding activity; lipopolysaccharide binding activity; and monosaccharide binding activity. Involved in several processes, including negative regulation of interleukin-2 production; opsonization; and regulation of phagocytosis. Located in extracellular space; multivesicular body; and rough endoplasmic reticulum. Biomarker of Coronavirus infectious disease; asthma; bacterial pneumonia; lung disease; and newborn respiratory distress syndrome. Human ortholog(s) of this gene implicated in asthma; lung disease (multiple); respiratory syncytial virus infectious disease; and rhinitis. Orthologous to human SFTPD (surfactant protein D). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 2253.8) See more
Orthologs: human mouse all
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Genomic context

Location:: 16p14

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (17080575..17093047, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (17046491..17058968, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (18753535..18766100, complement)

Chromosome 16 - NC_086034.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Innate/Inflammatory Bioregulation of Surfactant Protein D Alleviates Rat Osteoarthritis by Inhibiting Toll-Like Receptor 4 Signaling.
Title: Innate/Inflammatory Bioregulation of Surfactant Protein D Alleviates Rat Osteoarthritis by Inhibiting Toll-Like Receptor 4 Signaling.
Surfactant Proteins A/D-CD14 on Alveolar Macrophages Is a Common Pathway Associated With Phagocytosis of Nanomaterials and Cytokine Production.
Title: Surfactant Proteins A/D-CD14 on Alveolar Macrophages Is a Common Pathway Associated With Phagocytosis of Nanomaterials and Cytokine Production.
Polydatin significantly reduced the inflammatory mediators and restored the normal values of oxidative and nitrosative stress biomarkers. It also significantly reduced the expression of surfactant-D and UCN as compared to asthma control
Title: Polydatin protects against ovalbumin-induced bronchial asthma in rats; involvement of urocortin and surfactant-D expression.
in acute lung injury, serum level increased from day 5, peaked on day 10, and then gradually decreased until day 28
Title: Surfactant protein D is a useful biomarker for monitoring acute lung injury in rats.
SPA binds dipalmitoyl-phosphatidylcholine, the major surfactant lipid component, but not phosphatidylinositol; SPD exhibits the opposite preference. Data suggest flexibility in a key surface loop supports distinctive lipid binding of SPA; quadruple mutant SPA (E171D/P175E/R197N/K203D) that introduces SPD-like loop-stabilizing Ca2+ binding site in carbohydrate recognition domain exhibits ligand-binding preferences of SPD.
Title: Differential Ligand Binding Specificities of the Pulmonary Collectins Are Determined by the Conformational Freedom of a Surface Loop.
In rat SP-D overexpressed mice, the lipopolysaccharide-induced levels of TNF-alpha and IL-10 in amniotic fluid and fetal serum and the expression of IL-10 in placenta and fetal membranes were significantly different from wild-type mice.
Title: Surfactant protein D modulates levels of IL-10 and TNF-α in intrauterine compartments during lipopolysaccharide-induced preterm birth.
Surfactant protein D modulated subpollen particle uptake in a cell type specific way (e.g. greater number of macrophages and epithelial cells, which participated in allergen particle uptake) and led to a decreased secretion of pro-inflammatory cytokines.
Title: Surfactant Protein D modulates allergen particle uptake and inflammatory response in a human epithelial airway model.
Silica exposure causes dynamic changes of SP-D and CC16 protein expression in lung tissue and bronchoalveolar lavage fluid.
Title: [Dynamic changes of surfactant protein-D and Clara cell protein expressions in lung tissue and bronchoalveolar lavage fluid of silica-treated rats].
An extended binding site for influenza A virus; calcium-dependent antiviral activity involves residues flanking the primary carbohydrate binding site as well as more remote residues displayed on the carbohydrate recognition domain surface.
Title: Monoclonal antibody-assisted structure-function analysis of the carbohydrate recognition domain of surfactant protein D.
SP-D promotes attachment of allergen-containing subpollen particles to epithelial cells and may thus be involved in the inflammatory response to inhaled allergen.
Title: Allergen particle binding by human primary bronchial epithelial cells is modulated by surfactant protein D.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Sftpd (e-PCR), detects polymorphism
- UniSTS:516723

AI573415 (e-PCR)
- UniSTS:185997

RH94509 (e-PCR)
- UniSTS:119757

D16Wox24 (e-PCR)
- UniSTS:518626

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables lipopolysaccharide binding	IDA Inferred from Direct Assay more info	PubMed
enables monosaccharide binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in lung alveolus development	ISO Inferred from Sequence Orthology more info
involved_in lung alveolus development	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of T cell proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of interleukin-2 production	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of phagocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in opsonization	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of phagocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of phagocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in respiratory gaseous exchange by respiratory system	IEA Inferred from Electronic Annotation more info
involved_in response to glucocorticoid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to growth factor	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hyperoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in surfactant homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in surfactant homeostasis	IDA Inferred from Direct Assay more info	PubMed
involved_in surfactant homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in surfactant homeostasis	ISO Inferred from Sequence Orthology more info
involved_in surfactant homeostasis	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of collagen trimer	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
is_active_in multivesicular body	IBA Inferred from Biological aspect of Ancestor more info
located_in multivesicular body	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: pulmonary surfactant-associated protein D

Names: CP4; PSP-D; lung surfactant protein D; pulmonary surfactant protein D; surfactant associated protein D; surfactant, pulmonary-associated protein D

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_012878.3 → NP_037010.1 pulmonary surfactant-associated protein D precursor

See identical proteins and their annotated locations for NP_037010.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000016

UniProtKB/Swiss-Prot

P35248

UniProtKB/TrEMBL

A6K9M0, Q6IRS7

Related

ENSRNOP00000074951.2, ENSRNOT00000084172.2

Conserved Domains (3) summary

pfam01391
Location:66 → 124

Collagen; Collagen triple helix repeat (20 copies)

pfam09006
Location:223 → 268

Surfac_D-trimer; Lung surfactant protein D coiled-coil trimerization

cl02432
Location:261 → 374

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain