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Protein

Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B

Gene

PDE1B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Cyclic nucleotide phosphodiesterase with a dual-specificity for the second messengers cAMP and cGMP, which are key regulators of many important physiological processes. Has a preference for cGMP as a substrate.1 Publication

Catalytic activityi

Nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate.

Cofactori

a divalent metal cation1 PublicationNote: Binds 2 divalent metal cations per subunit. Site 1 may preferentially bind zinc ions, while site 2 has a preference for magnesium and/or manganese ions.1 Publication

Enzyme regulationi

Type I PDE are activated by the binding of calmodulin in the presence of Ca2+.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei223Proton donorBy similarity1
Metal bindingi227Divalent metal cation 11
Metal bindingi263Divalent metal cation 11
Metal bindingi264Divalent metal cation 11
Metal bindingi264Divalent metal cation 21
Metal bindingi370Divalent metal cation 11

GO - Molecular functioni

GO - Biological processi

  • apoptotic process Source: ProtInc
  • cAMP catabolic process Source: UniProtKB
  • cellular response to granulocyte macrophage colony-stimulating factor stimulus Source: UniProtKB
  • cellular response to macrophage colony-stimulating factor stimulus Source: UniProtKB
  • cGMP catabolic process Source: UniProtKB
  • locomotory behavior Source: Ensembl
  • monocyte differentiation Source: UniProtKB
  • regulation of dopamine metabolic process Source: Ensembl
  • regulation of neurotransmitter levels Source: Ensembl
  • response to amphetamine Source: Ensembl
  • serotonin metabolic process Source: Ensembl
  • signal transduction Source: Ensembl
  • visual learning Source: Ensembl
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Calmodulin-binding, cAMP, cGMP, Metal-binding

Enzyme and pathway databases

BioCyciZFISH:HS04651-MONOMER.
BRENDAi3.1.4.17. 2681.
ReactomeiR-HSA-111957. Cam-PDE 1 activation.
R-HSA-418457. cGMP effects.
R-HSA-418555. G alpha (s) signalling events.

Names & Taxonomyi

Protein namesi
Recommended name:
Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B (EC:3.1.4.17)
Short name:
Cam-PDE 1B
Alternative name(s):
63 kDa Cam-PDE
Gene namesi
Name:PDE1B
Synonyms:PDE1B1, PDES1B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 12

Organism-specific databases

HGNCiHGNC:8775. PDE1B.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Organism-specific databases

DisGeNETi5153.
OpenTargetsiENSG00000123360.
PharmGKBiPA33123.

Chemistry databases

ChEMBLiCHEMBL4425.
DrugBankiDB01244. Bepridil.
DB00201. Caffeine.
DB01023. Felodipine.
DB00622. Nicardipine.
GuidetoPHARMACOLOGYi1295.

Polymorphism and mutation databases

BioMutaiPDE1B.
DMDMi3183514.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001987891 – 536Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1BAdd BLAST536

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei7PhosphoserineBy similarity1
Modified residuei15PhosphoserineBy similarity1
Modified residuei466PhosphoserineBy similarity1
Modified residuei514PhosphoserineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ01064.
PaxDbiQ01064.
PeptideAtlasiQ01064.
PRIDEiQ01064.

PTM databases

iPTMnetiQ01064.
PhosphoSitePlusiQ01064.

Expressioni

Gene expression databases

BgeeiENSG00000123360.
CleanExiHS_PDE1B.
ExpressionAtlasiQ01064. baseline and differential.
GenevisibleiQ01064. HS.

Organism-specific databases

HPAiHPA018492.

Interactioni

Subunit structurei

Homodimer.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
POT1Q9NUX52EBI-7413304,EBI-752420

Protein-protein interaction databases

BioGridi111179. 3 interactors.
IntActiQ01064. 2 interactors.
STRINGi9606.ENSP00000243052.

Chemistry databases

BindingDBiQ01064.

Structurei

Secondary structure

1536
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi152 – 158Combined sources7
Turni159 – 162Combined sources4
Helixi168 – 174Combined sources7
Helixi179 – 190Combined sources12
Helixi193 – 196Combined sources4
Helixi201 – 215Combined sources15
Turni216 – 218Combined sources3
Beta strandi221 – 224Combined sources4
Helixi225 – 242Combined sources18
Helixi244 – 247Combined sources4
Helixi250 – 262Combined sources13
Turni263 – 266Combined sources4
Helixi272 – 278Combined sources7
Helixi281 – 286Combined sources6
Helixi291 – 303Combined sources13
Helixi307 – 309Combined sources3
Turni311 – 314Combined sources4
Helixi317 – 332Combined sources16
Helixi336 – 338Combined sources3
Helixi339 – 351Combined sources13
Helixi358 – 370Combined sources13
Helixi373 – 375Combined sources3
Helixi378 – 402Combined sources25
Helixi414 – 427Combined sources14
Helixi429 – 444Combined sources16
Turni446 – 448Combined sources3
Helixi476 – 501Combined sources26

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1LXRmodel-A158-461[»]
1TAZX-ray1.77A146-506[»]
4NPVX-ray2.40A142-507[»]
4NPWX-ray1.90A142-507[»]
5B25X-ray1.90A/B/C/D146-506[»]
ProteinModelPortaliQ01064.
SMRiQ01064.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ01064.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni27 – 47Calmodulin-bindingSequence analysisAdd BLAST21
Regioni197 – 496CatalyticBy similarityAdd BLAST300

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG3688. Eukaryota.
ENOG410XQDD. LUCA.
GeneTreeiENSGT00760000118889.
HOGENOMiHOG000231888.
HOVERGENiHBG056120.
KOiK13755.
OMAiLMQDDEM.
OrthoDBiEOG091G04C4.
PhylomeDBiQ01064.
TreeFamiTF314638.

Family and domain databases

Gene3Di1.10.1300.10. 2 hits.
InterProiIPR003607. HD/PDEase_dom.
IPR023088. PDEase.
IPR002073. PDEase_catalytic_dom.
IPR023174. PDEase_CS.
IPR013706. PDEase_N.
[Graphical view]
PfamiPF00233. PDEase_I. 1 hit.
PF08499. PDEase_I_N. 1 hit.
[Graphical view]
PRINTSiPR00387. PDIESTERASE1.
SMARTiSM00471. HDc. 1 hit.
[Graphical view]
PROSITEiPS00126. PDEASE_I. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

Isoform PDE1B1 (identifier: Q01064-1) [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
MELSPRSPPE MLEESDCPSP LELKSAPSKK MWIKLRSLLR YMVKQLENGE
60 70 80 90 100
INIEELKKNL EYTASLLEAV YIDETRQILD TEDELQELRS DAVPSEVRDW
110 120 130 140 150
LASTFTQQAR AKGRRAEEKP KFRSIVHAVQ AGIFVERMFR RTYTSVGPTY
160 170 180 190 200
STAVLNCLKN LDLWCFDVFS LNQAADDHAL RTIVFELLTR HNLISRFKIP
210 220 230 240 250
TVFLMSFLDA LETGYGKYKN PYHNQIHAAD VTQTVHCFLL RTGMVHCLSE
260 270 280 290 300
IELLAIIFAA AIHDYEHTGT TNSFHIQTKS ECAIVYNDRS VLENHHISSV
310 320 330 340 350
FRLMQDDEMN IFINLTKDEF VELRALVIEM VLATDMSCHF QQVKTMKTAL
360 370 380 390 400
QQLERIDKPK ALSLLLHAAD ISHPTKQWLV HSRWTKALME EFFRQGDKEA
410 420 430 440 450
ELGLPFSPLC DRTSTLVAQS QIGFIDFIVE PTFSVLTDVA EKSVQPLADE
460 470 480 490 500
DSKSKNQPSF QWRQPSLDVE VGDPNPDVVS FRSTWVKRIQ ENKQKWKERA
510 520 530
ASGITNQMSI DELSPCEEEA PPSPAEDEHN QNGNLD
Length:536
Mass (Da):61,380
Last modified:July 15, 1998 - v2
Checksum:iD15211AC32C756A4
GO
Isoform PDE1B2 (identifier: Q01064-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-18: MELSPRSPPEMLEESDCP → MANPVPVQRSHLQGPILR
     19-38: Missing.

Show »
Length:516
Mass (Da):59,051
Checksum:i0A9093462479DC5C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti225 – 226QI → SM in AAA58405 (PubMed:9419816).Curated2
Sequence conflicti337S → A in AAA58405 (PubMed:9419816).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0386431 – 18MELSP…ESDCP → MANPVPVQRSHLQGPILR in isoform PDE1B2. 2 PublicationsAdd BLAST18
Alternative sequenceiVSP_03864419 – 38Missing in isoform PDE1B2. 2 PublicationsAdd BLAST20

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U56976 mRNA. Translation: AAC50769.1.
U86078 mRNA. Translation: AAC51872.1.
AJ401609 mRNA. Translation: CAC82207.1.
AK302931 mRNA. Translation: BAG64092.1.
CH471054 Genomic DNA. Translation: EAW96790.1.
BC032226 mRNA. Translation: AAH32226.1.
M94539 mRNA. Translation: AAA58405.1.
CCDSiCCDS53800.1. [Q01064-2]
CCDS8882.1. [Q01064-1]
PIRiJC6129.
RefSeqiNP_000915.1. NM_000924.3. [Q01064-1]
NP_001159447.1. NM_001165975.2. [Q01064-2]
NP_001275697.1. NM_001288768.1.
NP_001275698.1. NM_001288769.1.
NP_001302463.1. NM_001315534.1.
NP_001302464.1. NM_001315535.1.
UniGeneiHs.530871.

Genome annotation databases

EnsembliENST00000243052; ENSP00000243052; ENSG00000123360. [Q01064-1]
ENST00000550620; ENSP00000448519; ENSG00000123360. [Q01064-2]
GeneIDi5153.
KEGGihsa:5153.
UCSCiuc001sgd.3. human. [Q01064-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U56976 mRNA. Translation: AAC50769.1.
U86078 mRNA. Translation: AAC51872.1.
AJ401609 mRNA. Translation: CAC82207.1.
AK302931 mRNA. Translation: BAG64092.1.
CH471054 Genomic DNA. Translation: EAW96790.1.
BC032226 mRNA. Translation: AAH32226.1.
M94539 mRNA. Translation: AAA58405.1.
CCDSiCCDS53800.1. [Q01064-2]
CCDS8882.1. [Q01064-1]
PIRiJC6129.
RefSeqiNP_000915.1. NM_000924.3. [Q01064-1]
NP_001159447.1. NM_001165975.2. [Q01064-2]
NP_001275697.1. NM_001288768.1.
NP_001275698.1. NM_001288769.1.
NP_001302463.1. NM_001315534.1.
NP_001302464.1. NM_001315535.1.
UniGeneiHs.530871.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1LXRmodel-A158-461[»]
1TAZX-ray1.77A146-506[»]
4NPVX-ray2.40A142-507[»]
4NPWX-ray1.90A142-507[»]
5B25X-ray1.90A/B/C/D146-506[»]
ProteinModelPortaliQ01064.
SMRiQ01064.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi111179. 3 interactors.
IntActiQ01064. 2 interactors.
STRINGi9606.ENSP00000243052.

Chemistry databases

BindingDBiQ01064.
ChEMBLiCHEMBL4425.
DrugBankiDB01244. Bepridil.
DB00201. Caffeine.
DB01023. Felodipine.
DB00622. Nicardipine.
GuidetoPHARMACOLOGYi1295.

PTM databases

iPTMnetiQ01064.
PhosphoSitePlusiQ01064.

Polymorphism and mutation databases

BioMutaiPDE1B.
DMDMi3183514.

Proteomic databases

MaxQBiQ01064.
PaxDbiQ01064.
PeptideAtlasiQ01064.
PRIDEiQ01064.

Protocols and materials databases

DNASUi5153.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000243052; ENSP00000243052; ENSG00000123360. [Q01064-1]
ENST00000550620; ENSP00000448519; ENSG00000123360. [Q01064-2]
GeneIDi5153.
KEGGihsa:5153.
UCSCiuc001sgd.3. human. [Q01064-1]

Organism-specific databases

CTDi5153.
DisGeNETi5153.
GeneCardsiPDE1B.
HGNCiHGNC:8775. PDE1B.
HPAiHPA018492.
MIMi171891. gene.
neXtProtiNX_Q01064.
OpenTargetsiENSG00000123360.
PharmGKBiPA33123.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3688. Eukaryota.
ENOG410XQDD. LUCA.
GeneTreeiENSGT00760000118889.
HOGENOMiHOG000231888.
HOVERGENiHBG056120.
KOiK13755.
OMAiLMQDDEM.
OrthoDBiEOG091G04C4.
PhylomeDBiQ01064.
TreeFamiTF314638.

Enzyme and pathway databases

BioCyciZFISH:HS04651-MONOMER.
BRENDAi3.1.4.17. 2681.
ReactomeiR-HSA-111957. Cam-PDE 1 activation.
R-HSA-418457. cGMP effects.
R-HSA-418555. G alpha (s) signalling events.

Miscellaneous databases

EvolutionaryTraceiQ01064.
GeneWikiiPDE1B.
GenomeRNAii5153.
PROiQ01064.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000123360.
CleanExiHS_PDE1B.
ExpressionAtlasiQ01064. baseline and differential.
GenevisibleiQ01064. HS.

Family and domain databases

Gene3Di1.10.1300.10. 2 hits.
InterProiIPR003607. HD/PDEase_dom.
IPR023088. PDEase.
IPR002073. PDEase_catalytic_dom.
IPR023174. PDEase_CS.
IPR013706. PDEase_N.
[Graphical view]
PfamiPF00233. PDEase_I. 1 hit.
PF08499. PDEase_I_N. 1 hit.
[Graphical view]
PRINTSiPR00387. PDIESTERASE1.
SMARTiSM00471. HDc. 1 hit.
[Graphical view]
PROSITEiPS00126. PDEASE_I. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPDE1B_HUMAN
AccessioniPrimary (citable) accession number: Q01064
Secondary accession number(s): Q92825, Q96KP3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: July 15, 1998
Last modified: November 2, 2016
This is version 160 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 12
    Human chromosome 12: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.