ATP5PD (ATP synthase peripheral stalk subunit d) - Rat Genome Database

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Gene: ATP5PD (ATP synthase peripheral stalk subunit d) Chlorocebus sabaeus
Analyze
Symbol: ATP5PD
Name: ATP synthase peripheral stalk subunit d
RGD ID: 18669370
Description: ENCODES a protein that exhibits protein-containing complex binding (ortholog); proton-transporting ATP synthase activity, rotational mechanism (ortholog); INVOLVED IN cellular response to peptide (ortholog); proton motive force-driven mitochondrial ATP synthesis (ortholog); ASSOCIATED WITH Brain Injuries (ortholog); congenital hypothyroidism (ortholog); depressive disorder (ortholog); FOUND IN mitochondrial proton-transporting ATP synthase complex (ortholog); mitochondrial proton-transporting ATP synthase complex, coupling factor F(o) (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP synthase subunit d, mitochondrial; ATP synthase, H+ transporting, mitochondrial Fo complex subunit D; ATP5H
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11646,625,512 - 46,630,613 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607717,410,867 - 17,416,350 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
ATP5PD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11646,625,512 - 46,630,613 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607717,410,867 - 17,416,350 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ATP5PD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381775,038,863 - 75,046,969 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1775,038,863 - 75,046,985 (-)EnsemblGRCh38hg38GRCh38
GRCh371773,034,958 - 73,043,064 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361770,546,550 - 70,554,669 (-)NCBINCBI36Build 36hg18NCBI36
Build 341770,546,549 - 70,554,669NCBI
Celera1769,628,209 - 69,636,011 (-)NCBICelera
Cytogenetic Map17q25.1NCBI
HuRef1768,445,036 - 68,452,842 (-)NCBIHuRef
CHM1_11773,099,751 - 73,107,553 (-)NCBICHM1_1
T2T-CHM13v2.01775,930,610 - 75,938,401 (-)NCBIT2T-CHM13v2.0
Atp5pd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911115,306,517 - 115,310,775 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11115,306,515 - 115,310,788 (-)EnsemblGRCm39 Ensembl
GRCm3811115,415,691 - 115,419,919 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11115,415,689 - 115,419,962 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711115,277,011 - 115,281,233 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611115,231,787 - 115,236,009 (-)NCBIMGSCv36mm8
Celera11127,181,768 - 127,186,018 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1180.84NCBI
Atp5pd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810101,156,673 - 101,161,926 (-)NCBIGRCr8
mRatBN7.210100,657,700 - 100,662,960 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10100,657,708 - 100,663,479 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10105,717,816 - 105,722,979 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010105,180,884 - 105,186,047 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010100,578,681 - 100,583,844 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010103,967,340 - 103,972,552 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10103,967,312 - 103,972,668 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010104,306,420 - 104,330,303 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410105,474,107 - 105,499,413 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15172,421,360 - 172,421,928 (-)NCBI
Celera1099,232,881 - 99,238,044 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
Atp5pd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555531,892,670 - 1,897,175 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555531,893,767 - 1,897,175 (-)NCBIChiLan1.0ChiLan1.0
ATP5PD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21991,077,905 - 91,085,794 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11795,900,959 - 95,908,845 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01768,986,362 - 68,994,246 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11774,541,363 - 74,549,700 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1774,541,363 - 74,549,700 (-)Ensemblpanpan1.1panPan2
LOC102151342
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1766,856,651 - 66,857,162 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha766,310,455 - 66,310,966 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0766,921,267 - 66,921,778 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1766,586,318 - 66,586,829 (-)NCBIUMICH_Zoey_3.1
UU_Cfam_GSD_1.0766,912,013 - 66,912,524 (-)NCBIUU_Cfam_GSD_1.0
Atp5pd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244056026,052,504 - 6,057,540 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936594353,980 - 359,414 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936594354,416 - 359,415 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP5PD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1126,241,467 - 6,247,344 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2126,320,537 - 6,321,045 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Atp5pd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248014,857,692 - 4,861,430 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248014,857,689 - 4,863,249 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 36 18 60
Low 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: XM_008011798   ⟹   XP_008009989
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11646,625,512 - 46,630,613 (+)NCBI
Vero_WHO_p1.0NW_02366607717,410,867 - 17,416,350 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037993800   ⟹   XP_037849728
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366607717,411,053 - 17,416,350 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008009989 (Get FASTA)   NCBI Sequence Viewer  
  XP_037849728 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000000990
  ENSCSAP00000000990.1
  ENSCSAP00000017610.1
Reference Protein Sequences
RefSeq Acc Id: XP_008009989   ⟸   XM_008011798
- UniProtKB: A0A0D9QXA1 (UniProtKB/TrEMBL),   A0A0D9S9S1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037849728   ⟸   XM_037993800
- UniProtKB: A0A0D9QXA1 (UniProtKB/TrEMBL),   A0A0D9S9S1 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000000392 UniProtKB/TrEMBL
  ENSCSAG00000004661 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000002691.1 UniProtKB/TrEMBL
  ENSCSAT00000018143.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.280.70 UniProtKB/TrEMBL
InterPro ATP_synth_F0_dsu_mt UniProtKB/TrEMBL
  ATP_synth_F0_dsu_sf_mt UniProtKB/TrEMBL
KEGG Report csab:103243059 UniProtKB/TrEMBL
NCBI Gene ATP5PD ENTREZGENE
PANTHER ATP SYNTHASE SUBUNIT D, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR12700 UniProtKB/TrEMBL
Pfam Mt_ATP-synt_D UniProtKB/TrEMBL
PIRSF ATPase_F0_D_mt UniProtKB/TrEMBL
Superfamily-SCOP SSF161065 UniProtKB/TrEMBL
UniProt A0A0D9QXA1 ENTREZGENE, UniProtKB/TrEMBL
  A0A0D9S9S1 ENTREZGENE, UniProtKB/TrEMBL