Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q8MM62 (PDE6_DICDI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 70. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
cAMP/cGMP-dependent 3',5'-cAMP/cGMP phosphodiesterase B

EC=3.1.4.35
EC=3.1.4.53
Alternative name(s):
Cyclic GMP-binding protein B
Phosphodiesterase 6
Short name=DdPDE6
Phosphodiesterase E
Gene names
Name:pdeE
Synonyms:gbpB, pde6
ORF Names:DDB_G0276027
OrganismDictyostelium discoideum (Slime mold) [Reference proteome]
Taxonomic identifier44689 [NCBI]
Taxonomic lineageEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium

Protein attributes

Sequence length1096 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Dual specificity cAMP and cGMP phosphodiesterase with marked preference for cyclic AMP, which is activated by cAMP and cGMP. Likely functions as a cAMP-stimulated cAMP-phosphodiesterase which may play a role in regulating the cAMP relay response. Ref.2 Ref.5 Ref.6

Catalytic activity

Adenosine 3',5'-cyclic phosphate + H2O = adenosine 5'-phosphate.

Guanosine 3',5'-cyclic phosphate + H2O = guanosine 5'-phosphate.

Cofactor

Divalent metal cation. Can use manganese and to a lower extent magnesium and zinc. Half-maximal activation occurs between 10 and 100 µM of manganese whereas maximal activation occurs with 10 mM of zinc or magnesium. Ref.2

Subcellular location

Cytoplasmcytosol Probable Ref.5 Ref.7.

Developmental stage

Low expression during growth. Mainly expressed after 8-10 hours of starvation when cells are aggregating and in the multicellular stage. Ref.2 Ref.5 Ref.6

Domain

The beta lactamase-like domain catalyzes the hydrolysis of cGMP By similarity.

Sequence similarities

Belongs to the metallo-beta-lactamase superfamily. cNMP phosphodiesterase family.

Contains 2 cyclic nucleotide-binding domains.

Biophysicochemical properties

Kinetic parameters:

cAMP/cGMP selectivity of 9.

KM=200 µM for cAMP Ref.5 Ref.6

KM=800 µM for cGMP

Vmax=650 nmol/min/mg enzyme with cAMP as substrate

Vmax=300 nmol/min/mg enzyme with cGMP as substrate

pH dependence:

Optimum pH is 7.0.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 10961096cAMP/cGMP-dependent 3',5'-cAMP/cGMP phosphodiesterase B
PRO_0000353106

Regions

Nucleotide binding783 – 930148cNMP 1
Nucleotide binding946 – 1070125cNMP 2
Compositional bias214 – 2185Poly-Ser
Compositional bias241 – 2455Poly-Gln
Compositional bias457 – 4604Poly-Ser

Sites

Metal binding5731Divalent metal cation Potential
Metal binding5751Divalent metal cation Potential
Metal binding5771Divalent metal cation Potential

Sequences

Sequence LengthMass (Da)Tools
Q8MM62 [UniParc].

Last modified October 1, 2002. Version 1.
Checksum: 4F4F8CF199223782

FASTA1,096124,924
        10         20         30         40         50         60 
MNSKYGDNII DFLRYLEKFV KSLTKDNKIE EFKTFDIKSL LYPRNKDYFG NLSKFLLAVI 

        70         80         90        100        110        120 
SARIGSNFIN EDDIFEISEL LKEFLGQELE HLPYLSYEEL YVEIVEQVGE INGTVSEIIE 

       130        140        150        160        170        180 
AITVTIDFLD TFEKVSQTID RSNEKQKLLA YLSAPVNQLD NSVSGVFNEN DYTDIQRFFT 

       190        200        210        220        230        240 
ELTNENNQSP DSNISILIND FQSLLNILES QQASSSSSKM IINDSPRTQQ RNGTTEQQKK 

       250        260        270        280        290        300 
QQQQQYLQKN KEPFYSKDKI MQVSGPSYVF TPSDCNVSIQ VGIPPDTLKR DQSICHFIVP 

       310        320        330        340        350        360 
HFLISKDVSL SEVEFPIFYN KFVQKGKTKV VIICTVEQKQ RIETILCESI FGPAPEHIYT 

       370        380        390        400        410        420 
DEEITIPDYK IDLLTERLAI DPRANDEKLD SYVIFKTFDT FGVVDIDLPS ASDPTKLINL 

       430        440        450        460        470        480 
RIRNTKGLIS FHEDYHVVQK QLHLKLQEQQ QDQQDKSSSS TTDKQMINTS GNRIILKNNT 

       490        500        510        520        530        540 
VSVIDSTIES QYVPVLPFGN DHEQVKKFKA PILGVTFLGV SHGLDFTHCS HTTGFIIWIN 

       550        560        570        580        590        600 
GSGVVVDPPV GNTTYLQTNG IYGKTVEHII LTHCHADHDS GILQKIIERN KVTLYTTKTI 

       610        620        630        640        650        660 
NESYMRKLKA LTGLPEQSLK NYYTWVPVTI GNKIKILGAE FEFDYSFHVI PTIRFKLEIY 

       670        680        690        700        710        720 
NKKISYSADT FYDLQKFKQL KDQGVLSKKR IERLKSFVFD ADMIIHESGV APIHTPMANL 

       730        740        750        760        770        780 
LELPSEIRKK IRVVHCSSSV DTKGEIIRPK EGLENTEIIK VDRKYKGVAE CIQIQTALNH 

       790        800        810        820        830        840 
CSVFSKLSPA EVQRVFFLCK KIWVKRNDVI IKKGSPSDMF YIILSGKVLV YENEYEPIKS 

       850        860        870        880        890        900 
TTSVGTVVTD TTTITTTVKT DAIKIPTIKL CAGETLGESA LQLDKNIDAS ATVIAETDVC 

       910        920        930        940        950        960 
LLVWKTMDLR TEFHSNLNTF ISKVHMDLSH INSCRDAIIR AFQHNITQHI NKEEVDSIAN 

       970        980        990       1000       1010       1020 
GSKDVSFAHH QVIFNEGDTS DSMYIIKQGR VRIHSKKNKN IIRYLNVGDF FGETAYRRSN 

      1030       1040       1050       1060       1070       1080 
EDSNFLPTRS FTATAIDPTI LLKLDIESIV NPRIQNIIEQ KAKKNAEDNI RYHAYSPKIR 

      1090 
TPRTPRKVYP IEGLSI 

« Hide

References

« Hide 'large scale' references
[1]"Identification of four candidate cGMP targets in Dictyostelium."
Goldberg J.M., Bosgraaf L., Van Haastert P.J.M., Smith J.L.
Proc. Natl. Acad. Sci. U.S.A. 99:6749-6754(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Characterization of a cAMP-stimulated cAMP phosphodiesterase in Dictyostelium discoideum."
Meima M.E., Weening K.E., Schaap P.
J. Biol. Chem. 278:14356-14362(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, DEVELOPMENTAL STAGE, COFACTOR.
[3]"Sequence and analysis of chromosome 2 of Dictyostelium discoideum."
Gloeckner G., Eichinger L., Szafranski K., Pachebat J.A., Bankier A.T., Dear P.H., Lehmann R., Baumgart C., Parra G., Abril J.F., Guigo R., Kumpf K., Tunggal B., Cox E.C., Quail M.A., Platzer M., Rosenthal A., Noegel A.A.
Nature 418:79-85(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: AX4.
[4]"The genome of the social amoeba Dictyostelium discoideum."
Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N. expand/collapse author list , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: AX4.
[5]"A novel cGMP signalling pathway mediating myosin phosphorylation and chemotaxis in Dictyostelium."
Bosgraaf L., Russcher H., Smith J.L., Wessels D., Soll D.R., Van Haastert P.J.M.
EMBO J. 21:4560-4570(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION, BIOPHYSICOCHEMICAL PROPERTIES, DEVELOPMENTAL STAGE.
[6]"Identification and characterization of two unusual cGMP-stimulated phoshodiesterases in dictyostelium."
Bosgraaf L., Russcher H., Snippe H., Bader S., Wind J., Van Haastert P.J.M.
Mol. Biol. Cell 13:3878-3889(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, BIOPHYSICOCHEMICAL PROPERTIES, DEVELOPMENTAL STAGE.
[7]"Seven Dictyostelium discoideum phosphodiesterases degrade three pools of cAMP and cGMP."
Bader S., Kortholt A., Van Haastert P.J.M.
Biochem. J. 402:153-161(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF481922 Genomic DNA. Translation: AAM34040.1.
AY047364 Genomic DNA. Translation: AAL06060.1.
AAFI02000014 Genomic DNA. Translation: EAL69313.1.
RefSeqXP_643272.1. XM_638180.1.

3D structure databases

ProteinModelPortalQ8MM62.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING44689.DDB_0185220.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsDDB0185220; DDB0185220; DDB_G0276027.
GeneID8620315.
KEGGddi:DDB_G0276027.

Organism-specific databases

dictyBaseDDB_G0276027. pdeE.

Phylogenomic databases

eggNOGNOG70621.
OMALSHINSC.

Family and domain databases

Gene3D2.60.120.10. 2 hits.
3.60.15.10. 1 hit.
InterProIPR001279. Beta-lactamas-like.
IPR018490. cNMP-bd-like.
IPR000595. cNMP-bd_dom.
IPR014710. RmlC-like_jellyroll.
[Graphical view]
PfamPF00027. cNMP_binding. 2 hits.
[Graphical view]
SMARTSM00100. cNMP. 2 hits.
SM00849. Lactamase_B. 1 hit.
[Graphical view]
SUPFAMSSF51206. SSF51206. 3 hits.
SSF56281. SSF56281. 1 hit.
PROSITEPS50042. CNMP_BINDING_3. 2 hits.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePDE6_DICDI
AccessionPrimary (citable) accession number: Q8MM62
Secondary accession number(s): Q552E1
Entry history
Integrated into UniProtKB/Swiss-Prot: November 25, 2008
Last sequence update: October 1, 2002
Last modified: May 14, 2014
This is version 70 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)

Relevant documents

SIMILARITY comments

Index of protein domains and families

Dictyostelium discoideum

Dictyostelium discoideum: entries, gene names and cross-references to dictyBase