Hp1bp3 heterochromatin protein 1, binding protein 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hp1bp3provided by MGI
Official Full Name: heterochromatin protein 1, binding protein 3provided by MGI
Primary source: MGI:MGI:109369
See related: Ensembl:ENSMUSG00000028759 AllianceGenome:MGI:109369
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Hp1bp74
Summary: Predicted to enable DNA binding activity and nucleosome binding activity. Predicted to be involved in several processes, including cellular response to hypoxia; heterochromatin organization; and regulation of nucleus size. Predicted to be located in nuclear speck. Predicted to be part of nucleosome. Predicted to be active in chromosome and nucleus. Orthologous to human HP1BP3 (heterochromatin protein 1 binding protein 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in CNS E14 (RPKM 21.0), whole brain E14.5 (RPKM 19.4) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 D3; 4 70.03 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (137943781..137971994)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (138216470..138244683)

Chromosome 4 - NC_000070.7 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: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Hp1bp3 is a critical mediator of aging-related changes at the phenotypic, cellular, and molecular level.
Title: Knockdown of heterochromatin protein 1 binding protein 3 recapitulates phenotypic, cellular, and molecular features of aging.
Hp1bp3 and associated molecular networks are modulators of cognitive aging.
Title: Systems genetics identifies Hp1bp3 as a novel modulator of cognitive aging.
Hp1bp3(-/-) females showed no deficits in behaviors often associated with impaired maternal care, including social behavior, depression, motor coordination and olfactory capability; and maintained unchanged anxiety-associated hallmarks such as cholinergic status and brain miRNA profiles. Results suggest a novel role for HP1BP3 in regulating maternal and anxiety-related behavior in mice
Title: HP1BP3 expression determines maternal behavior and offspring survival.
Loss of Hp1bp3 expression is associated with cognitive decline in both mice and humans.
Title: Systems genetics identifies Hp1bp3 as a novel modulator of cognitive aging.
Study identified Hp1bp3 overexpression as a potential novel marker for intrinsic 5-5-Fluorouracil resistance in colon cancer .
Title: Heterochromatin Protein 1 Binding Protein 3 Expression as a Candidate Marker of Intrinsic 5-Fluorouracil Resistance.
HP1BP3 plays a key role in normal growth and bone development by regulating transcription of endocrine IGF-1 components.
Title: Proportionate Dwarfism in Mice Lacking Heterochromatin Protein 1 Binding Protein 3 (HP1BP3) Is Associated With Alterations in the Endocrine IGF-1 Pathway.
HP1BP3 regulates hepatic expression of IGF-1 and its binding proteins, thus regulating the endocrine IGF-1 pathway.
Title: Proportionate Dwarfism in Mice Lacking Heterochromatin Protein 1 Binding Protein 3 (HP1BP3) Is Associated With Alterations in the Endocrine IGF-1 Pathway.
The results suggest that HP1BP3 is a ubiquitous histone H1 like nuclear protein with distinct and non-redundant functions necessary for survival and growth.
Title: HP1BP3 is a novel histone H1 related protein with essential roles in viability and growth.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Spontaneous (1) 1 citation
Targeted (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D11Bhm20 (e-PCR), detects polymorphism
- UniSTS:141619

NoName (e-PCR)
- UniSTS:235074

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables nucleosome binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleosome binding	ISO Inferred from Sequence Orthology more info
enables nucleosome binding	ISS Inferred from Sequence or Structural Similarity more info
enables structural constituent of chromatin	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cellular response to hypoxia	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hypoxia	ISS Inferred from Sequence or Structural Similarity more info
involved_in heterochromatin organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in heterochromatin organization	ISO Inferred from Sequence Orthology more info
involved_in heterochromatin organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleosome assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of nucleus size	ISO Inferred from Sequence Orthology more info
involved_in regulation of nucleus size	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in chromosome	IBA Inferred from Biological aspect of Ancestor more info
located_in chromosome	ISO Inferred from Sequence Orthology more info
located_in chromosome	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
part_of nucleosome	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: heterochromatin protein 1-binding protein 3

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_001122896.3 → NP_001116368.1 heterochromatin protein 1-binding protein 3 isoform 2

See identical proteins and their annotated locations for NP_001116368.1

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

Consensus CDS

CCDS51334.1

UniProtKB/TrEMBL

Z4YKA3

Related

ENSMUSP00000095447.4, ENSMUST00000097836.10

Conserved Domains (5) summary

PRK13808
Location:417 → 516

PRK13808; adenylate kinase; Provisional

smart00526
Location:215 → 281

H15; Domain in histone families 1 and 5

PRK13108
Location:24 → 122

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:119 → 203

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:308 → 374

Linker_histone; linker histone H1 and H5 family
NM_001122897.3 → NP_001116369.1 heterochromatin protein 1-binding protein 3 isoform 1

See identical proteins and their annotated locations for NP_001116369.1

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

Consensus CDS

CCDS38927.1

UniProtKB/Swiss-Prot

A2AM64, A2AM68, Q3TEA8, Q3TM38, Q3TU07, Q61688, Q8BT17, Q8C6H2, Q8C911, Q8VE06, Q99KR0, Q9DBI1

UniProtKB/TrEMBL

Z4YKB8

Related

ENSMUSP00000132614.2, ENSMUST00000165861.8

Conserved Domains (5) summary

PRK13808
Location:455 → 554

PRK13808; adenylate kinase; Provisional

smart00526
Location:253 → 319

H15; Domain in histone families 1 and 5

PRK13108
Location:14 → 160

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:157 → 241

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:346 → 412

Linker_histone; linker histone H1 and H5 family
NM_001285478.2 → NP_001272407.1 heterochromatin protein 1-binding protein 3 isoform 2

See identical proteins and their annotated locations for NP_001272407.1

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

Consensus CDS

CCDS38927.1

UniProtKB/Swiss-Prot

A2AM64, A2AM68, Q3TEA8, Q3TM38, Q3TU07, Q61688, Q8BT17, Q8C6H2, Q8C911, Q8VE06, Q99KR0, Q9DBI1

UniProtKB/TrEMBL

Z4YKB8

Related

ENSMUSP00000101452.2, ENSMUST00000105826.8

Conserved Domains (5) summary

PRK13808
Location:455 → 554

PRK13808; adenylate kinase; Provisional

smart00526
Location:253 → 319

H15; Domain in histone families 1 and 5

PRK13108
Location:14 → 160

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:157 → 241

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:346 → 412

Linker_histone; linker histone H1 and H5 family
NM_001285479.2 → NP_001272408.1 heterochromatin protein 1-binding protein 3 isoform 3

See identical proteins and their annotated locations for NP_001272408.1

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

UniProtKB/TrEMBL

Z4YKB8

Conserved Domains (4) summary

smart00526
Location:252 → 318

H15; Domain in histone families 1 and 5

cd00073
Location:157 → 241

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:345 → 411

Linker_histone; linker histone H1 and H5 family

pfam04774
Location:69 → 123

HABP4_PAI-RBP1; Hyaluronan / mRNA binding family
NM_001285480.2 → NP_001272409.1 heterochromatin protein 1-binding protein 3 isoform 4

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (4) summary

smart00526
Location:202 → 268

H15; Domain in histone families 1 and 5

PRK14900
Location:405 → 497

valS; valyl-tRNA synthetase; Provisional

cd00073
Location:106 → 190

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:295 → 361

Linker_histone; linker histone H1 and H5 family
NM_001285481.2 → NP_001272410.1 heterochromatin protein 1-binding protein 3 isoform 5

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

UniProtKB/TrEMBL

Z4YKB8

Conserved Domains (4) summary

PRK13808
Location:442 → 541

PRK13808; adenylate kinase; Provisional

smart00526
Location:240 → 306

H15; Domain in histone families 1 and 5

cd00073
Location:144 → 228

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:333 → 399

Linker_histone; linker histone H1 and H5 family
NM_001356431.2 → NP_001343360.1 heterochromatin protein 1-binding protein 3 isoform 6

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (4) summary

smart00526
Location:201 → 267

H15; Domain in histone families 1 and 5

cd00073
Location:106 → 190

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:294 → 360

Linker_histone; linker histone H1 and H5 family

cl27057
Location:403 → 502

ADK; Adenylate kinase
NM_001356432.2 → NP_001343361.1 heterochromatin protein 1-binding protein 3 isoform 2

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

Consensus CDS

CCDS51334.1

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (5) summary

PRK13808
Location:417 → 516

PRK13808; adenylate kinase; Provisional

smart00526
Location:215 → 281

H15; Domain in histone families 1 and 5

PRK13108
Location:24 → 122

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:119 → 203

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:308 → 374

Linker_histone; linker histone H1 and H5 family
NM_001421055.1 → NP_001407984.1 heterochromatin protein 1-binding protein 3 isoform 7

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_001421056.1 → NP_001407985.1 heterochromatin protein 1-binding protein 3 isoform 2

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_001421057.1 → NP_001407986.1 heterochromatin protein 1-binding protein 3 isoform 4

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_001421058.1 → NP_001407987.1 heterochromatin protein 1-binding protein 3 isoform 8

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_001421059.1 → NP_001407988.1 heterochromatin protein 1-binding protein 3 isoform 7

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_001421060.1 → NP_001407989.1 heterochromatin protein 1-binding protein 3 isoform 8

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_001421061.1 → NP_001407990.1 heterochromatin protein 1-binding protein 3 isoform 2

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NM_010470.4 → NP_034600.2 heterochromatin protein 1-binding protein 3 isoform 1

See identical proteins and their annotated locations for NP_034600.2

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

Consensus CDS

CCDS38927.1

UniProtKB/Swiss-Prot

A2AM64, A2AM68, Q3TEA8, Q3TM38, Q3TU07, Q61688, Q8BT17, Q8C6H2, Q8C911, Q8VE06, Q99KR0, Q9DBI1

UniProtKB/TrEMBL

Z4YKB8

Related

ENSMUSP00000030541.7, ENSMUST00000030541.13

Conserved Domains (5) summary

PRK13808
Location:455 → 554

PRK13808; adenylate kinase; Provisional

smart00526
Location:253 → 319

H15; Domain in histone families 1 and 5

PRK13108
Location:14 → 160

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:157 → 241

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:346 → 412

Linker_histone; linker histone H1 and H5 family

RNA

NR_185235.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NR_185236.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL807249, AL929388
NR_185237.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL807249, AL929388

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000070.7 Reference GRCm39 C57BL/6J

Range

137943781..137971994

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030253218.2 → XP_030109078.1 heterochromatin protein 1-binding protein 3 isoform X5

UniProtKB/TrEMBL

Z4YKB8

Conserved Domains (4) summary

PRK13808
Location:442 → 541

PRK13808; adenylate kinase; Provisional

smart00526
Location:240 → 306

H15; Domain in histone families 1 and 5

cd00073
Location:144 → 228

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:333 → 399

Linker_histone; linker histone H1 and H5 family
XM_030253221.2 → XP_030109081.1 heterochromatin protein 1-binding protein 3 isoform X7

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (5) summary

PRK13808
Location:417 → 516

PRK13808; adenylate kinase; Provisional

smart00526
Location:215 → 281

H15; Domain in histone families 1 and 5

PRK13108
Location:24 → 122

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:119 → 203

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:308 → 374

Linker_histone; linker histone H1 and H5 family
XM_030253217.2 → XP_030109077.1 heterochromatin protein 1-binding protein 3 isoform X3

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (4) summary

PRK13808
Location:468 → 567

PRK13808; adenylate kinase; Provisional

smart00526
Location:266 → 332

H15; Domain in histone families 1 and 5

cd00073
Location:171 → 255

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:359 → 425

Linker_histone; linker histone H1 and H5 family
XM_036163695.1 → XP_036019588.1 heterochromatin protein 1-binding protein 3 isoform X9

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (4) summary

smart00526
Location:202 → 268

H15; Domain in histone families 1 and 5

PRK14900
Location:405 → 497

valS; valyl-tRNA synthetase; Provisional

cd00073
Location:106 → 190

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:295 → 361

Linker_histone; linker histone H1 and H5 family
XM_006538568.5 → XP_006538631.1 heterochromatin protein 1-binding protein 3 isoform X4

See identical proteins and their annotated locations for XP_006538631.1

UniProtKB/Swiss-Prot

A2AM64, A2AM68, Q3TEA8, Q3TM38, Q3TU07, Q61688, Q8BT17, Q8C6H2, Q8C911, Q8VE06, Q99KR0, Q9DBI1

UniProtKB/TrEMBL

Z4YKB8

Conserved Domains (5) summary

PRK13808
Location:455 → 554

PRK13808; adenylate kinase; Provisional

smart00526
Location:253 → 319

H15; Domain in histone families 1 and 5

PRK13108
Location:14 → 160

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:157 → 241

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:346 → 412

Linker_histone; linker histone H1 and H5 family
XM_030253222.2 → XP_030109082.1 heterochromatin protein 1-binding protein 3 isoform X7

UniProtKB/TrEMBL

Z4YKA3

Conserved Domains (5) summary

PRK13808
Location:417 → 516

PRK13808; adenylate kinase; Provisional

smart00526
Location:215 → 281

H15; Domain in histone families 1 and 5

PRK13108
Location:24 → 122

PRK13108; prolipoprotein diacylglyceryl transferase; Reviewed

cd00073
Location:119 → 203

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

pfam00538
Location:308 → 374

Linker_histone; linker histone H1 and H5 family