SubmitCancel

Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.

Q9NPB8

- GPCP1_HUMAN

UniProt

Q9NPB8 - GPCP1_HUMAN

(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Protein

Glycerophosphocholine phosphodiesterase GPCPD1

Gene
GPCPD1, GDE5, KIAA1434
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

May be involved in the negative regulation of skeletal muscle differentiation, independently of its glycerophosphocholine phosphodiesterase activity By similarity.

Catalytic activityi

sn-glycero-3-phosphocholine + H2O = choline + sn-glycerol 3-phosphate.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei70 – 701Substrate Reviewed prediction

GO - Molecular functioni

  1. glycerophosphocholine phosphodiesterase activity Source: UniProtKB-EC
  2. glycerophosphodiester phosphodiesterase activity Source: InterPro
  3. starch binding Source: InterPro

GO - Biological processi

  1. glycerol metabolic process Source: InterPro
  2. glycerophospholipid biosynthetic process Source: Reactome
  3. phospholipid metabolic process Source: Reactome
  4. small molecule metabolic process Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Enzyme and pathway databases

ReactomeiREACT_120785. Hydrolysis of LPE.
REACT_120977. Hydrolysis of LPC.

Protein family/group databases

CAZyiCBM20. Carbohydrate-Binding Module Family 20.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycerophosphocholine phosphodiesterase GPCPD1 (EC:3.1.4.2)
Alternative name(s):
Glycerophosphodiester phosphodiesterase 5
Gene namesi
Name:GPCPD1
Synonyms:GDE5, KIAA1434
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 20

Organism-specific databases

HGNCiHGNC:26957. GPCPD1.

Subcellular locationi

Cytoplasmcytosol By similarity

GO - Cellular componenti

  1. cytosol Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA165392351.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 672672Glycerophosphocholine phosphodiesterase GPCPD1PRO_0000050797Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei608 – 6081Phosphotyrosine By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ9NPB8.
PaxDbiQ9NPB8.
PRIDEiQ9NPB8.

PTM databases

PhosphoSiteiQ9NPB8.

Expressioni

Tissue specificityi

Widely expressed, with highest expression in spinal chord.

Gene expression databases

ArrayExpressiQ9NPB8.
BgeeiQ9NPB8.
GenevestigatoriQ9NPB8.

Organism-specific databases

HPAiHPA039556.
HPA042987.

Interactioni

Protein-protein interaction databases

BioGridi121125. 1 interaction.
IntActiQ9NPB8. 1 interaction.
MINTiMINT-4650772.
STRINGi9606.ENSP00000368305.

Structurei

Secondary structure

1
672
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 118
Beta strandi19 – 268
Helixi27 – 293
Turni30 – 323
Helixi34 – 363
Beta strandi49 – 5810
Beta strandi64 – 7411
Beta strandi84 – 907
Beta strandi97 – 993
Beta strandi103 – 11210

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2Z0BX-ray2.00A/B/C/D/E/F3-120[»]
ProteinModelPortaliQ9NPB8.
SMRiQ9NPB8. Positions 3-115, 321-611.

Miscellaneous databases

EvolutionaryTraceiQ9NPB8.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 115115CBM20Add
BLAST
Domaini318 – 618301GP-PDEAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni88 – 892Substrate binding Reviewed prediction

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi169 – 1724Poly-Asp

Sequence similaritiesi

Contains 1 GP-PDE domain.

Phylogenomic databases

eggNOGiCOG0584.
HOGENOMiHOG000231653.
HOVERGENiHBG080384.
InParanoidiQ9NPB8.
OMAiHDLTCCI.
OrthoDBiEOG7RNJZM.
PhylomeDBiQ9NPB8.
TreeFamiTF314722.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.20.20.190. 1 hit.
InterProiIPR013784. Carb-bd-like_fold.
IPR002044. CBM_fam20.
IPR013783. Ig-like_fold.
IPR017946. PLC-like_Pdiesterase_TIM-brl.
[Graphical view]
PfamiPF00686. CBM_20. 1 hit.
[Graphical view]
SMARTiSM01065. CBM_2. 1 hit.
[Graphical view]
SUPFAMiSSF49452. SSF49452. 1 hit.
SSF51695. SSF51695. 1 hit.
PROSITEiPS51166. CBM20. 1 hit.
PS51704. GP_PDE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9NPB8-1 [UniParc]FASTAAdd to Basket

« Hide

MTPSQVAFEI RGTLLPGEVF AICGSCDALG NWNPQNAVAL LPENDTGESM    50
LWKATIVLSR GVSVQYRYFK GYFLEPKTIG GPCQVIVHKW ETHLQPRSIT 100
PLESEIIIDD GQFGIHNGVE TLDSGWLTCQ TEIRLRLHYS EKPPVSITKK 150
KLKKSRFRVK LTLEGLEEDD DDRVSPTVLH KMSNSLEISL ISDNEFKCRH 200
SQPECGYGLQ PDRWTEYSIQ TMEPDNLELI FDFFEEDLSE HVVQGDALPG 250
HVGTACLLSS TIAESGKSAG ILTLPIMSRN SRKTIGKVRV DYIIIKPLPG 300
YSCDMKSSFS KYWKPRIPLD VGHRGAGNST TTAQLAKVQE NTIASLRNAA 350
SHGAAFVEFD VHLSKDFVPV VYHDLTCCLT MKKKFDADPV ELFEIPVKEL 400
TFDQLQLLKL THVTALKSKD RKESVVQEEN SFSENQPFPS LKMVLESLPE 450
DVGFNIEIKW ICQQRDGMWD GNLSTYFDMN LFLDIILKTV LENSGKRRIV 500
FSSFDADICT MVRQKQNKYP ILFLTQGKSE IYPELMDLRS RTTPIAMSFA 550
QFENLLGINV HTEDLLRNPS YIQEAKAKGL VIFCWGDDTN DPENRRKLKE 600
LGVNGLIYDR IYDWMPEQPN IFQVEQLERL KQELPELKSC LCPTVSRFVP 650
SSLCGESDIH VDANGIDNVE NA 672
Length:672
Mass (Da):76,035
Last modified:October 10, 2002 - v2
Checksum:i9AA17024D231AD74
GO

Sequence cautioni

The sequence BAA91994.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
The sequence BAA92672.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti273 – 2731T → I.
Corresponds to variant rs2273373 [ dbSNP | Ensembl ].
VAR_022060

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB037855 mRNA. Translation: BAA92672.1. Different initiation.
AL109935 Genomic DNA. Translation: CAB91047.2.
CH471133 Genomic DNA. Translation: EAX10414.1.
CH471133 Genomic DNA. Translation: EAX10415.1.
BC027588 mRNA. Translation: AAH27588.1.
AK001947 mRNA. Translation: BAA91994.1. Different initiation.
CCDSiCCDS13090.1.
RefSeqiNP_062539.1. NM_019593.3.
XP_005260815.1. XM_005260758.2.
XP_006723658.1. XM_006723595.1.
XP_006723659.1. XM_006723596.1.
UniGeneiHs.636359.

Genome annotation databases

EnsembliENST00000379019; ENSP00000368305; ENSG00000125772.
GeneIDi56261.
KEGGihsa:56261.
UCSCiuc002wmd.4. human.

Polymorphism databases

DMDMi23821811.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB037855 mRNA. Translation: BAA92672.1 . Different initiation.
AL109935 Genomic DNA. Translation: CAB91047.2 .
CH471133 Genomic DNA. Translation: EAX10414.1 .
CH471133 Genomic DNA. Translation: EAX10415.1 .
BC027588 mRNA. Translation: AAH27588.1 .
AK001947 mRNA. Translation: BAA91994.1 . Different initiation.
CCDSi CCDS13090.1.
RefSeqi NP_062539.1. NM_019593.3.
XP_005260815.1. XM_005260758.2.
XP_006723658.1. XM_006723595.1.
XP_006723659.1. XM_006723596.1.
UniGenei Hs.636359.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2Z0B X-ray 2.00 A/B/C/D/E/F 3-120 [» ]
ProteinModelPortali Q9NPB8.
SMRi Q9NPB8. Positions 3-115, 321-611.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 121125. 1 interaction.
IntActi Q9NPB8. 1 interaction.
MINTi MINT-4650772.
STRINGi 9606.ENSP00000368305.

Chemistry

BindingDBi Q9NPB8.

Protein family/group databases

CAZyi CBM20. Carbohydrate-Binding Module Family 20.

PTM databases

PhosphoSitei Q9NPB8.

Polymorphism databases

DMDMi 23821811.

Proteomic databases

MaxQBi Q9NPB8.
PaxDbi Q9NPB8.
PRIDEi Q9NPB8.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000379019 ; ENSP00000368305 ; ENSG00000125772 .
GeneIDi 56261.
KEGGi hsa:56261.
UCSCi uc002wmd.4. human.

Organism-specific databases

CTDi 56261.
GeneCardsi GC20M005525.
HGNCi HGNC:26957. GPCPD1.
HPAi HPA039556.
HPA042987.
MIMi 614124. gene.
neXtProti NX_Q9NPB8.
PharmGKBi PA165392351.
HUGEi Search...
GenAtlasi Search...

Phylogenomic databases

eggNOGi COG0584.
HOGENOMi HOG000231653.
HOVERGENi HBG080384.
InParanoidi Q9NPB8.
OMAi HDLTCCI.
OrthoDBi EOG7RNJZM.
PhylomeDBi Q9NPB8.
TreeFami TF314722.

Enzyme and pathway databases

Reactomei REACT_120785. Hydrolysis of LPE.
REACT_120977. Hydrolysis of LPC.

Miscellaneous databases

ChiTaRSi GPCPD1. human.
EvolutionaryTracei Q9NPB8.
GenomeRNAii 56261.
NextBioi 61917.
PROi Q9NPB8.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q9NPB8.
Bgeei Q9NPB8.
Genevestigatori Q9NPB8.

Family and domain databases

Gene3Di 2.60.40.10. 1 hit.
3.20.20.190. 1 hit.
InterProi IPR013784. Carb-bd-like_fold.
IPR002044. CBM_fam20.
IPR013783. Ig-like_fold.
IPR017946. PLC-like_Pdiesterase_TIM-brl.
[Graphical view ]
Pfami PF00686. CBM_20. 1 hit.
[Graphical view ]
SMARTi SM01065. CBM_2. 1 hit.
[Graphical view ]
SUPFAMi SSF49452. SSF49452. 1 hit.
SSF51695. SSF51695. 1 hit.
PROSITEi PS51166. CBM20. 1 hit.
PS51704. GP_PDE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Kikuno R., Ishikawa K., Hirosawa M., Ohara O.
    DNA Res. 7:65-73(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.
  2. "The DNA sequence and comparative analysis of human chromosome 20."
    Deloukas P., Matthews L.H., Ashurst J.L., Burton J., Gilbert J.G.R., Jones M., Stavrides G., Almeida J.P., Babbage A.K., Bagguley C.L., Bailey J., Barlow K.F., Bates K.N., Beard L.M., Beare D.M., Beasley O.P., Bird C.P., Blakey S.E.
    , Bridgeman A.M., Brown A.J., Buck D., Burrill W.D., Butler A.P., Carder C., Carter N.P., Chapman J.C., Clamp M., Clark G., Clark L.N., Clark S.Y., Clee C.M., Clegg S., Cobley V.E., Collier R.E., Connor R.E., Corby N.R., Coulson A., Coville G.J., Deadman R., Dhami P.D., Dunn M., Ellington A.G., Frankland J.A., Fraser A., French L., Garner P., Grafham D.V., Griffiths C., Griffiths M.N.D., Gwilliam R., Hall R.E., Hammond S., Harley J.L., Heath P.D., Ho S., Holden J.L., Howden P.J., Huckle E., Hunt A.R., Hunt S.E., Jekosch K., Johnson C.M., Johnson D., Kay M.P., Kimberley A.M., King A., Knights A., Laird G.K., Lawlor S., Lehvaeslaiho M.H., Leversha M.A., Lloyd C., Lloyd D.M., Lovell J.D., Marsh V.L., Martin S.L., McConnachie L.J., McLay K., McMurray A.A., Milne S.A., Mistry D., Moore M.J.F., Mullikin J.C., Nickerson T., Oliver K., Parker A., Patel R., Pearce T.A.V., Peck A.I., Phillimore B.J.C.T., Prathalingam S.R., Plumb R.W., Ramsay H., Rice C.M., Ross M.T., Scott C.E., Sehra H.K., Shownkeen R., Sims S., Skuce C.D., Smith M.L., Soderlund C., Steward C.A., Sulston J.E., Swann R.M., Sycamore N., Taylor R., Tee L., Thomas D.W., Thorpe A., Tracey A., Tromans A.C., Vaudin M., Wall M., Wallis J.M., Whitehead S.L., Whittaker P., Willey D.L., Williams L., Williams S.A., Wilming L., Wray P.W., Hubbard T., Durbin R.M., Bentley D.R., Beck S., Rogers J.
    Nature 414:865-871(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Testis.
  5. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 413-672.
    Tissue: Placenta.
  6. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  7. "Crystal structure of CBM20 domain of human putative glycerophosphodiester phosphodiesterase 5 (KIAA1434)."
    RIKEN structural genomics initiative (RSGI)
    Submitted (MAY-2008) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) OF 1-120 IN COMPLEX WITH PHOSPHATE.

Entry informationi

Entry nameiGPCP1_HUMAN
AccessioniPrimary (citable) accession number: Q9NPB8
Secondary accession number(s): D3DW06, Q9BQL8, Q9NUX0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 10, 2002
Last sequence update: October 10, 2002
Last modified: September 3, 2014
This is version 116 of the entry and version 2 of the sequence. [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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi