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Protein

Glycerol-3-phosphate dehydrogenase, mitochondrial

Gene

GPD2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalytic activityi

sn-glycerol 3-phosphate + a quinone = glycerone phosphate + a quinol.

Cofactori

Activity regulationi

Calcium-binding enhance the activity of the enzyme.

Pathwayi: glycerol degradation via glycerol kinase pathway

This protein is involved in step 1 of the subpathway that synthesizes glycerone phosphate from sn-glycerol 3-phosphate (anaerobic route).
Proteins known to be involved in this subpathway in this organism are:
  1. Glycerol-3-phosphate dehydrogenase, mitochondrial (GPD2)
This subpathway is part of the pathway glycerol degradation via glycerol kinase pathway, which is itself part of Polyol metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes glycerone phosphate from sn-glycerol 3-phosphate (anaerobic route), the pathway glycerol degradation via glycerol kinase pathway and in Polyol metabolism.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi71 – 99FADSequence analysisAdd BLAST29
Calcium bindingi672 – 683PROSITE-ProRule annotationAdd BLAST12

GO - Molecular functioni

  • calcium ion binding Source: ProtInc
  • glycerol-3-phosphate dehydrogenase (quinone) activity Source: GO_Central
  • glycerol-3-phosphate dehydrogenase [NAD+] activity Source: GO_Central
  • sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity Source: UniProtKB-EC

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
LigandCalcium, FAD, Flavoprotein, Metal-binding

Enzyme and pathway databases

BioCyciMetaCyc:HS03841-MONOMER
BRENDAi1.1.5.3 2681
ReactomeiR-HSA-1483166 Synthesis of PA
R-HSA-163560 Triglyceride catabolism
UniPathwayi
UPA00618;UER00673

Chemistry databases

SwissLipidsiSLP:000000147

Names & Taxonomyi

Protein namesi
Recommended name:
Glycerol-3-phosphate dehydrogenase, mitochondrial (EC:1.1.5.3)
Short name:
GPD-M
Short name:
GPDH-M
Alternative name(s):
mtGPD
Gene namesi
Name:GPD2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 2

Organism-specific databases

EuPathDBiHostDB:ENSG00000115159.15
HGNCiHGNC:4456 GPD2
MIMi138430 gene
neXtProtiNX_P43304

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Mitochondrion

Pathology & Biotechi

Organism-specific databases

DisGeNETi2820
MalaCardsiGPD2
OpenTargetsiENSG00000115159
PharmGKBiPA28837

Chemistry databases

ChEMBLiCHEMBL3391681

Polymorphism and mutation databases

BioMutaiGPD2
DMDMi229462943

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 42MitochondrionBy similarityAdd BLAST42
ChainiPRO_000001042943 – 727Glycerol-3-phosphate dehydrogenase, mitochondrialAdd BLAST685

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei601PhosphotyrosineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiP43304
MaxQBiP43304
PaxDbiP43304
PeptideAtlasiP43304
PRIDEiP43304
ProteomicsDBi55607
55608 [P43304-2]

2D gel databases

REPRODUCTION-2DPAGEiIPI00017895
UCD-2DPAGEiP43304

PTM databases

iPTMnetiP43304
PhosphoSitePlusiP43304
SwissPalmiP43304

Expressioni

Gene expression databases

BgeeiENSG00000115159 Expressed in 204 organ(s), highest expression level in secondary oocyte
CleanExiHS_GPD2
ExpressionAtlasiP43304 baseline and differential
GenevisibleiP43304 HS

Organism-specific databases

HPAiHPA008012
HPA045506

Interactioni

Protein-protein interaction databases

BioGridi109081, 32 interactors
IntActiP43304, 4 interactors
MINTiP43304
STRINGi9606.ENSP00000308610

Structurei

3D structure databases

ProteinModelPortaliP43304
SMRiP43304
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini623 – 658EF-hand 1PROSITE-ProRule annotationAdd BLAST36
Domaini659 – 694EF-hand 2PROSITE-ProRule annotationAdd BLAST36

Sequence similaritiesi

Keywords - Domaini

Repeat, Transit peptide

Phylogenomic databases

eggNOGiKOG0042 Eukaryota
COG0578 LUCA
GeneTreeiENSGT00390000001718
HOGENOMiHOG000004813
HOVERGENiHBG005897
InParanoidiP43304
KOiK00111
OMAiMDNPTVK
OrthoDBiEOG091G03ER
PhylomeDBiP43304
TreeFamiTF300359

Family and domain databases

CDDicd00051 EFh, 1 hit
Gene3Di1.10.8.870, 1 hit
3.50.50.60, 1 hit
InterProiView protein in InterPro
IPR031656 DAO_C
IPR038299 DAO_C_sf
IPR011992 EF-hand-dom_pair
IPR018247 EF_Hand_1_Ca_BS
IPR002048 EF_hand_dom
IPR006076 FAD-dep_OxRdtase
IPR036188 FAD/NAD-bd_sf
IPR000447 G3P_DH_FAD-dep
PANTHERiPTHR11985 PTHR11985, 1 hit
PfamiView protein in Pfam
PF01266 DAO, 1 hit
PF16901 DAO_C, 1 hit
PF13499 EF-hand_7, 1 hit
PRINTSiPR01001 FADG3PDH
SMARTiView protein in SMART
SM00054 EFh, 2 hits
SUPFAMiSSF47473 SSF47473, 1 hit
SSF51905 SSF51905, 1 hit
PROSITEiView protein in PROSITE
PS00018 EF_HAND_1, 1 hit
PS50222 EF_HAND_2, 2 hits
PS00977 FAD_G3PDH_1, 1 hit
PS00978 FAD_G3PDH_2, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 3 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P43304-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MAFQKAVKGT ILVGGGALAT VLGLSQFAHY RRKQMNLAYV KAADCISEPV
60 70 80 90 100
NREPPSREAQ LLTLQNTSEF DILVIGGGAT GSGCALDAVT RGLKTALVER
110 120 130 140 150
DDFSSGTSSR STKLIHGGVR YLQKAIMKLD IEQYRMVKEA LHERANLLEI
160 170 180 190 200
APHLSAPLPI MLPVYKWWQL PYYWVGIKLY DLVAGSNCLK SSYVLSKSRA
210 220 230 240 250
LEHFPMLQKD KLVGAIVYYD GQHNDARMNL AIALTAARYG AATANYMEVV
260 270 280 290 300
SLLKKTDPQT GKVRVSGARC KDVLTGQEFD VRAKCVINAT GPFTDSVRKM
310 320 330 340 350
DDKDAAAICQ PSAGVHIVMP GYYSPESMGL LDPATSDGRV IFFLPWQKMT
360 370 380 390 400
IAGTTDTPTD VTHHPIPSEE DINFILNEVR NYLSCDVEVR RGDVLAAWSG
410 420 430 440 450
IRPLVTDPKS ADTQSISRNH VVDISESGLI TIAGGKWTTY RSMAEDTINA
460 470 480 490 500
AVKTHNLKAG PSRTVGLFLQ GGKDWSPTLY IRLVQDYGLE SEVAQHLAAT
510 520 530 540 550
YGDKAFEVAK MASVTGKRWP IVGVRLVSEF PYIEAEVKYG IKEYACTAVD
560 570 580 590 600
MISRRTRLAF LNVQAAEEAL PRIVELMGRE LNWDDYKKQE QLETARKFLY
610 620 630 640 650
YEMGYKSRSE QLTDRSEISL LPSDIDRYKK RFHKFDADQK GFITIVDVQR
660 670 680 690 700
VLESINVQMD ENTLHEILNE VDLNKNGQVE LNEFLQLMSA IQKGRVSGSR
710 720
LAILMKTAEE NLDRRVPIPV DRSCGGL
Length:727
Mass (Da):80,853
Last modified:May 5, 2009 - v3
Checksum:i70D8B4E5CB4F2EFD
GO
Isoform 2 (identifier: P43304-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-126: Missing.

Show »
Length:601
Mass (Da):67,531
Checksum:i1953A7AC32B5DF02
GO

Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F5GYK7F5GYK7_HUMAN
Glycerol-3-phosphate dehydrogenase
GPD2
379Annotation score:
E7EM56E7EM56_HUMAN
Glycerol-3-phosphate dehydrogenase
GPD2
109Annotation score:
E9PDK4E9PDK4_HUMAN
Glycerol-3-phosphate dehydrogenase,...
GPD2
56Annotation score:

Sequence cautioni

The sequence BAD92636 differs from that shown. Reason: Erroneous initiation.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_049113264R → H8 PublicationsCorresponds to variant dbSNP:rs2116665Ensembl.1
Natural variantiVAR_049114453K → Q. Corresponds to variant dbSNP:rs35096779Ensembl.1
Natural variantiVAR_025215525R → H2 PublicationsCorresponds to variant dbSNP:rs1051916Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0171341 – 126Missing in isoform 2. 2 PublicationsAdd BLAST126

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U12424 mRNA Translation: AAA65701.1
U36310 mRNA Translation: AAB60403.1
U40367
, U40353, U40354, U40355, U40357, U40358, U40359, U40360, U40361, U40362, U40363, U40364, U40365 Genomic DNA Translation: AAC50556.1
AF311325 mRNA Translation: AAG33851.1
AK093198 mRNA Translation: BAG52671.1
AK291065 mRNA Translation: BAF83754.1
AK292817 mRNA Translation: BAF85506.1
AB209399 mRNA Translation: BAD92636.1 Different initiation.
AC011308 Genomic DNA No translation available.
AC092686 Genomic DNA No translation available.
CH471058 Genomic DNA Translation: EAX11453.1
U79250 mRNA Translation: AAB50200.1
CCDSiCCDS2202.1 [P43304-1]
PIRiG02093
RefSeqiNP_000399.3, NM_000408.4 [P43304-1]
NP_001076581.2, NM_001083112.2 [P43304-1]
XP_005246526.1, XM_005246469.2 [P43304-1]
XP_011509279.1, XM_011510977.2 [P43304-1]
XP_016859319.1, XM_017003830.1 [P43304-1]
UniGeneiHs.512382

Genome annotation databases

EnsembliENST00000310454; ENSP00000308610; ENSG00000115159 [P43304-1]
ENST00000409125; ENSP00000386484; ENSG00000115159 [P43304-2]
ENST00000409674; ENSP00000386425; ENSG00000115159 [P43304-1]
ENST00000409861; ENSP00000386626; ENSG00000115159 [P43304-1]
ENST00000438166; ENSP00000409708; ENSG00000115159 [P43304-1]
GeneIDi2820
KEGGihsa:2820
UCSCiuc002tzd.5 human [P43304-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U12424 mRNA Translation: AAA65701.1
U36310 mRNA Translation: AAB60403.1
U40367
, U40353, U40354, U40355, U40357, U40358, U40359, U40360, U40361, U40362, U40363, U40364, U40365 Genomic DNA Translation: AAC50556.1
AF311325 mRNA Translation: AAG33851.1
AK093198 mRNA Translation: BAG52671.1
AK291065 mRNA Translation: BAF83754.1
AK292817 mRNA Translation: BAF85506.1
AB209399 mRNA Translation: BAD92636.1 Different initiation.
AC011308 Genomic DNA No translation available.
AC092686 Genomic DNA No translation available.
CH471058 Genomic DNA Translation: EAX11453.1
U79250 mRNA Translation: AAB50200.1
CCDSiCCDS2202.1 [P43304-1]
PIRiG02093
RefSeqiNP_000399.3, NM_000408.4 [P43304-1]
NP_001076581.2, NM_001083112.2 [P43304-1]
XP_005246526.1, XM_005246469.2 [P43304-1]
XP_011509279.1, XM_011510977.2 [P43304-1]
XP_016859319.1, XM_017003830.1 [P43304-1]
UniGeneiHs.512382

3D structure databases

ProteinModelPortaliP43304
SMRiP43304
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi109081, 32 interactors
IntActiP43304, 4 interactors
MINTiP43304
STRINGi9606.ENSP00000308610

Chemistry databases

ChEMBLiCHEMBL3391681
SwissLipidsiSLP:000000147

PTM databases

iPTMnetiP43304
PhosphoSitePlusiP43304
SwissPalmiP43304

Polymorphism and mutation databases

BioMutaiGPD2
DMDMi229462943

2D gel databases

REPRODUCTION-2DPAGEiIPI00017895
UCD-2DPAGEiP43304

Proteomic databases

EPDiP43304
MaxQBiP43304
PaxDbiP43304
PeptideAtlasiP43304
PRIDEiP43304
ProteomicsDBi55607
55608 [P43304-2]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000310454; ENSP00000308610; ENSG00000115159 [P43304-1]
ENST00000409125; ENSP00000386484; ENSG00000115159 [P43304-2]
ENST00000409674; ENSP00000386425; ENSG00000115159 [P43304-1]
ENST00000409861; ENSP00000386626; ENSG00000115159 [P43304-1]
ENST00000438166; ENSP00000409708; ENSG00000115159 [P43304-1]
GeneIDi2820
KEGGihsa:2820
UCSCiuc002tzd.5 human [P43304-1]

Organism-specific databases

CTDi2820
DisGeNETi2820
EuPathDBiHostDB:ENSG00000115159.15
GeneCardsiGPD2
H-InvDBiHIX0002519
HGNCiHGNC:4456 GPD2
HPAiHPA008012
HPA045506
MalaCardsiGPD2
MIMi138430 gene
neXtProtiNX_P43304
OpenTargetsiENSG00000115159
PharmGKBiPA28837
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0042 Eukaryota
COG0578 LUCA
GeneTreeiENSGT00390000001718
HOGENOMiHOG000004813
HOVERGENiHBG005897
InParanoidiP43304
KOiK00111
OMAiMDNPTVK
OrthoDBiEOG091G03ER
PhylomeDBiP43304
TreeFamiTF300359

Enzyme and pathway databases

UniPathwayi
UPA00618;UER00673

BioCyciMetaCyc:HS03841-MONOMER
BRENDAi1.1.5.3 2681
ReactomeiR-HSA-1483166 Synthesis of PA
R-HSA-163560 Triglyceride catabolism

Miscellaneous databases

ChiTaRSiGPD2 human
GenomeRNAii2820
PROiPR:P43304
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000115159 Expressed in 204 organ(s), highest expression level in secondary oocyte
CleanExiHS_GPD2
ExpressionAtlasiP43304 baseline and differential
GenevisibleiP43304 HS

Family and domain databases

CDDicd00051 EFh, 1 hit
Gene3Di1.10.8.870, 1 hit
3.50.50.60, 1 hit
InterProiView protein in InterPro
IPR031656 DAO_C
IPR038299 DAO_C_sf
IPR011992 EF-hand-dom_pair
IPR018247 EF_Hand_1_Ca_BS
IPR002048 EF_hand_dom
IPR006076 FAD-dep_OxRdtase
IPR036188 FAD/NAD-bd_sf
IPR000447 G3P_DH_FAD-dep
PANTHERiPTHR11985 PTHR11985, 1 hit
PfamiView protein in Pfam
PF01266 DAO, 1 hit
PF16901 DAO_C, 1 hit
PF13499 EF-hand_7, 1 hit
PRINTSiPR01001 FADG3PDH
SMARTiView protein in SMART
SM00054 EFh, 2 hits
SUPFAMiSSF47473 SSF47473, 1 hit
SSF51905 SSF51905, 1 hit
PROSITEiView protein in PROSITE
PS00018 EF_HAND_1, 1 hit
PS50222 EF_HAND_2, 2 hits
PS00977 FAD_G3PDH_1, 1 hit
PS00978 FAD_G3PDH_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiGPDM_HUMAN
AccessioniPrimary (citable) accession number: P43304
Secondary accession number(s): A8K4V0
, B3KSA9, Q59FR1, Q9HAP9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: May 5, 2009
Last modified: November 7, 2018
This is version 181 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human chromosome 2
    Human chromosome 2: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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