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Q8MM62

- PDE6_DICDI

UniProt

Q8MM62 - PDE6_DICDI

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Protein

cAMP/cGMP-dependent 3',5'-cAMP/cGMP phosphodiesterase B

Gene

pdeE

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

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.3 Publications

Catalytic activityi

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

Cofactori

Mn2+1 Publication, Mg2+1 Publication, Zn2+1 PublicationNote: Divalent metal cation. Can use Mn(2+) or, to a lower extent, Mg(2+) or Zn(2+). Half-maximal activation occurs between 10 and 100 uM of Mn(2+) whereas maximal activation occurs with 10 mM of Zn(2+) or Mg(2+).1 Publication

Kineticsi

cAMP/cGMP selectivity of 9.

  1. KM=200 µM for cAMP2 Publications
  2. KM=800 µM for cGMP2 Publications

Vmax=650 nmol/min/mg enzyme with cAMP as substrate2 Publications

Vmax=300 nmol/min/mg enzyme with cGMP as substrate2 Publications

pH dependencei

Optimum pH is 7.0.2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi573 – 5731Divalent metal cationSequence Analysis
Metal bindingi575 – 5751Divalent metal cationSequence Analysis
Metal bindingi577 – 5771Divalent metal cationSequence Analysis

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi783 – 930148cNMP 1Add
BLAST
Nucleotide bindingi946 – 1070125cNMP 2Add
BLAST

GO - Molecular functioni

  1. 3',5'-cyclic-AMP phosphodiesterase activity Source: dictyBase
  2. 3',5'-cyclic-GMP phosphodiesterase activity Source: dictyBase
  3. cAMP binding Source: UniProtKB-KW
  4. cGMP binding Source: UniProtKB-KW
  5. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. cAMP catabolic process Source: dictyBase
  2. cGMP catabolic process Source: dictyBase
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

cAMP, cAMP-binding, cGMP, cGMP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended 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 namesi
Name:pdeE
Synonyms:gbpB, pde6
ORF Names:DDB_G0276027
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
ProteomesiUP000002195: Chromosome 2, UP000002195: Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0276027. pdeE.

Subcellular locationi

Cytoplasmcytosol 2 Publications

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-KW
  2. intracellular Source: dictyBase
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10961096cAMP/cGMP-dependent 3',5'-cAMP/cGMP phosphodiesterase BPRO_0000353106Add
BLAST

Expressioni

Developmental stagei

Low expression during growth. Mainly expressed after 8-10 hours of starvation when cells are aggregating and in the multicellular stage.3 Publications

Interactioni

Protein-protein interaction databases

STRINGi44689.DDB_0185220.

Structurei

3D structure databases

ProteinModelPortaliQ8MM62.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi214 – 2185Poly-Ser
Compositional biasi241 – 2455Poly-Gln
Compositional biasi457 – 4604Poly-Ser

Domaini

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

Sequence similaritiesi

Contains 2 cyclic nucleotide-binding domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiNOG70621.
InParanoidiQ8MM62.
OMAiLSHINSC.

Family and domain databases

Gene3Di2.60.120.10. 2 hits.
3.60.15.10. 1 hit.
InterProiIPR001279. Beta-lactamas-like.
IPR018490. cNMP-bd-like.
IPR000595. cNMP-bd_dom.
IPR014710. RmlC-like_jellyroll.
[Graphical view]
PfamiPF00027. cNMP_binding. 2 hits.
[Graphical view]
SMARTiSM00100. cNMP. 2 hits.
SM00849. Lactamase_B. 1 hit.
[Graphical view]
SUPFAMiSSF51206. SSF51206. 3 hits.
SSF56281. SSF56281. 1 hit.
PROSITEiPS50042. CNMP_BINDING_3. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8MM62-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNSKYGDNII DFLRYLEKFV KSLTKDNKIE EFKTFDIKSL LYPRNKDYFG
60 70 80 90 100
NLSKFLLAVI SARIGSNFIN EDDIFEISEL LKEFLGQELE HLPYLSYEEL
110 120 130 140 150
YVEIVEQVGE INGTVSEIIE AITVTIDFLD TFEKVSQTID RSNEKQKLLA
160 170 180 190 200
YLSAPVNQLD NSVSGVFNEN DYTDIQRFFT ELTNENNQSP DSNISILIND
210 220 230 240 250
FQSLLNILES QQASSSSSKM IINDSPRTQQ RNGTTEQQKK QQQQQYLQKN
260 270 280 290 300
KEPFYSKDKI MQVSGPSYVF TPSDCNVSIQ VGIPPDTLKR DQSICHFIVP
310 320 330 340 350
HFLISKDVSL SEVEFPIFYN KFVQKGKTKV VIICTVEQKQ RIETILCESI
360 370 380 390 400
FGPAPEHIYT DEEITIPDYK IDLLTERLAI DPRANDEKLD SYVIFKTFDT
410 420 430 440 450
FGVVDIDLPS ASDPTKLINL RIRNTKGLIS FHEDYHVVQK QLHLKLQEQQ
460 470 480 490 500
QDQQDKSSSS TTDKQMINTS GNRIILKNNT VSVIDSTIES QYVPVLPFGN
510 520 530 540 550
DHEQVKKFKA PILGVTFLGV SHGLDFTHCS HTTGFIIWIN GSGVVVDPPV
560 570 580 590 600
GNTTYLQTNG IYGKTVEHII LTHCHADHDS GILQKIIERN KVTLYTTKTI
610 620 630 640 650
NESYMRKLKA LTGLPEQSLK NYYTWVPVTI GNKIKILGAE FEFDYSFHVI
660 670 680 690 700
PTIRFKLEIY NKKISYSADT FYDLQKFKQL KDQGVLSKKR IERLKSFVFD
710 720 730 740 750
ADMIIHESGV APIHTPMANL LELPSEIRKK IRVVHCSSSV DTKGEIIRPK
760 770 780 790 800
EGLENTEIIK VDRKYKGVAE CIQIQTALNH CSVFSKLSPA EVQRVFFLCK
810 820 830 840 850
KIWVKRNDVI IKKGSPSDMF YIILSGKVLV YENEYEPIKS TTSVGTVVTD
860 870 880 890 900
TTTITTTVKT DAIKIPTIKL CAGETLGESA LQLDKNIDAS ATVIAETDVC
910 920 930 940 950
LLVWKTMDLR TEFHSNLNTF ISKVHMDLSH INSCRDAIIR AFQHNITQHI
960 970 980 990 1000
NKEEVDSIAN GSKDVSFAHH QVIFNEGDTS DSMYIIKQGR VRIHSKKNKN
1010 1020 1030 1040 1050
IIRYLNVGDF FGETAYRRSN EDSNFLPTRS FTATAIDPTI LLKLDIESIV
1060 1070 1080 1090
NPRIQNIIEQ KAKKNAEDNI RYHAYSPKIR TPRTPRKVYP IEGLSI
Length:1,096
Mass (Da):124,924
Last modified:October 1, 2002 - v1
Checksum:i4F4F8CF199223782
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF481922 Genomic DNA. Translation: AAM34040.1.
AY047364 Genomic DNA. Translation: AAL06060.1.
AAFI02000014 Genomic DNA. Translation: EAL69313.1.
RefSeqiXP_643272.1. XM_638180.1.

Genome annotation databases

EnsemblProtistsiDDB0185220; DDB0185220; DDB_G0276027.
GeneIDi8620315.
KEGGiddi:DDB_G0276027.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF481922 Genomic DNA. Translation: AAM34040.1 .
AY047364 Genomic DNA. Translation: AAL06060.1 .
AAFI02000014 Genomic DNA. Translation: EAL69313.1 .
RefSeqi XP_643272.1. XM_638180.1.

3D structure databases

ProteinModelPortali Q8MM62.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 44689.DDB_0185220.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblProtistsi DDB0185220 ; DDB0185220 ; DDB_G0276027 .
GeneIDi 8620315.
KEGGi ddi:DDB_G0276027.

Organism-specific databases

dictyBasei DDB_G0276027. pdeE.

Phylogenomic databases

eggNOGi NOG70621.
InParanoidi Q8MM62.
OMAi LSHINSC.

Family and domain databases

Gene3Di 2.60.120.10. 2 hits.
3.60.15.10. 1 hit.
InterProi IPR001279. Beta-lactamas-like.
IPR018490. cNMP-bd-like.
IPR000595. cNMP-bd_dom.
IPR014710. RmlC-like_jellyroll.
[Graphical view ]
Pfami PF00027. cNMP_binding. 2 hits.
[Graphical view ]
SMARTi SM00100. cNMP. 2 hits.
SM00849. Lactamase_B. 1 hit.
[Graphical view ]
SUPFAMi SSF51206. SSF51206. 3 hits.
SSF56281. SSF56281. 1 hit.
PROSITEi PS50042. CNMP_BINDING_3. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. 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. 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.
    , 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.

Entry informationi

Entry nameiPDE6_DICDI
AccessioniPrimary (citable) accession number: Q8MM62
Secondary accession number(s): Q552E1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 25, 2008
Last sequence update: October 1, 2002
Last modified: November 26, 2014
This is version 73 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3