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P23440

- PDE6B_MOUSE

UniProt

P23440 - PDE6B_MOUSE

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Protein

Rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit beta

Gene
Pde6b, Mpb, Pdeb, rd
Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

This protein participates in processes of transmission and amplification of the visual signal. Necessary for the formation of a functional phosphodiesterase holoenzyme.

Catalytic activityi

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

Cofactori

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 By similarity.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei557 – 5571Proton donor By similarity
Metal bindingi561 – 5611Divalent metal cation 1 By similarity
Metal bindingi597 – 5971Divalent metal cation 1 By similarity
Metal bindingi598 – 5981Divalent metal cation 1 By similarity
Metal bindingi598 – 5981Divalent metal cation 2 By similarity
Metal bindingi718 – 7181Divalent metal cation 1 By similarity

GO - Molecular functioni

  1. 3',5'-cyclic-GMP phosphodiesterase activity Source: UniProtKB-EC
  2. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. cytosolic calcium ion homeostasis Source: Ensembl
  2. detection of light stimulus Source: MGI
  3. GMP metabolic process Source: Ensembl
  4. retina development in camera-type eye Source: MGI
  5. signal transduction Source: InterPro
  6. visual perception Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Sensory transduction, Vision

Keywords - Ligandi

cGMP, Metal-binding

Enzyme and pathway databases

ReactomeiREACT_188252. Activation of the phototransduction cascade.
REACT_188266. Inactivation, recovery and regulation of the phototransduction cascade.
REACT_221970. Ca2+ pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit beta (EC:3.1.4.35)
Short name:
GMP-PDE beta
Gene namesi
Name:Pde6b
Synonyms:Mpb, Pdeb, rd
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 5

Organism-specific databases

MGIiMGI:97525. Pde6b.

Subcellular locationi

GO - Cellular componenti

  1. plasma membrane Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Involvement in diseasei

Defects in Pde6b are the cause of retinal degeneration.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed By similarity
Chaini2 – 853852Rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit betaPRO_0000023350Add
BLAST
Propeptidei854 – 8563Removed in mature form By similarityPRO_0000023351

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserine By similarity
Lipidationi853 – 8531S-geranylgeranyl cysteine By similarity

Keywords - PTMi

Acetylation, Lipoprotein, Prenylation

Proteomic databases

MaxQBiP23440.
PaxDbiP23440.
PRIDEiP23440.

PTM databases

PhosphoSiteiP23440.

Expressioni

Gene expression databases

BgeeiP23440.
GenevestigatoriP23440.

Interactioni

Subunit structurei

Oligomer composed of two catalytic chains (alpha and beta), an inhibitory chain (gamma) and the delta chain.

Structurei

3D structure databases

ProteinModelPortaliP23440.
SMRiP23440. Positions 45-815.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini71 – 220150GAF 1Add
BLAST
Domaini252 – 429178GAF 2Add
BLAST

Sequence similaritiesi

Contains 2 GAF domains.

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiNOG242608.
GeneTreeiENSGT00750000117253.
HOGENOMiHOG000007069.
HOVERGENiHBG053539.
InParanoidiQ80UF0.
KOiK13756.
OMAiGVVKKFQ.
OrthoDBiEOG7BGHK1.
TreeFamiTF316499.

Family and domain databases

Gene3Di1.10.1300.10. 1 hit.
3.30.450.40. 3 hits.
InterProiIPR003018. GAF.
IPR029016. GAF_dom_like.
IPR003607. HD/PDEase_dom.
IPR023088. PDEase.
IPR002073. PDEase_catalytic_dom.
IPR023174. PDEase_CS.
[Graphical view]
PfamiPF01590. GAF. 2 hits.
PF00233. PDEase_I. 1 hit.
[Graphical view]
PRINTSiPR00387. PDIESTERASE1.
SMARTiSM00065. GAF. 2 hits.
SM00471. HDc. 1 hit.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 3 hits.
PROSITEiPS00126. PDEASE_I. 1 hit.
[Graphical view]

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. Align

Isoform 1 (identifier: P23440-1) [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

MSLSEEQVRS FLDGNPTFAH QYFGKKLSPE NVAGACEDGW LADCGSLREL    50
CQVEESAALF ELVQDMQESV NMERVVFKIL RRLCTILHAD RCSLFMYRQR 100
NGIAELATRL FSVQPDSLLE DCLVPPDSEI VFPLDIGIVG HVAQTKKMIN 150
VQDVAECPHF SSFADELTDY VTKNILSTPI MNGKDVVAVI MAVNKLDGPC 200
FTSEDEDVFT KYLNFATLNL KIYHLSYLHN CETRRGQVLL WSANKVFEEL 250
TDIERQFHKA FYTVRAYLNC ERYSVGLLDM TKEKEFFDVW PVLMGEAQPY 300
SGPRTPDGRE IVFYKVIDYI LHGKEDIKVI PTPPADHWAL ASGLPTYVAE 350
SGFICNIMNA SADEMFNFQE GPLDDSGWVI KNVLSMPIVN KKEEIVGVAT 400
FYNRKDGKPF DDQDEVLMES LTQFLGWSVL NTDTYDKMNK LENRKDIAQD 450
MVLYHVRCDK DEIQEILPTR DRLGKEPADC EEDELGKILK EELPGPTKFD 500
IYEFHFSDLE CTELELVKCG IQMYYELGVV RKFQIPQEVL VRFLFSVSKA 550
YRRITYHNWR HGFNVAQTMF TLLMTGKLKS YYTDLEAFAM VTAGLCHDID 600
HRGTNNLYQM KSQNPLAKLH GSSILERHHL EFGKFLLAEE SLNIYQNLNR 650
RQHEHVIHLM DIAIIATDLA LYFKKRTMFQ KIVDESKNYE DKKSWVEYLS 700
LETTRKEIVM AMMMTACDLS AITKPWEVQS KVALLVAAEF WEQGDLERTV 750
LDQQPIPMMD RNKAAELPKL QVGFIDFVCT FVYKEFSRFH EEILPMFDRL 800
QNNRKEWKAL ADEYEAKVKA LEEEKKKEED RVAAKKVGTE VCNGGPAPKS 850
STCCIL 856
Length:856
Mass (Da):98,535
Last modified:July 27, 2011 - v3
Checksum:i209F3A936DD16D46
GO
Isoform 2 (identifier: P23440-2) [UniParc]FASTAAdd to Basket

Also known as: Beta'

The sequence of this isoform differs from the canonical sequence as follows:
     801-856: Missing.

Show »
Length:800
Mass (Da):92,331
Checksum:i23F1AC68F7CC7AF7
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei801 – 85656Missing in isoform 2. VSP_004592Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti5 – 51E → G in CAA39439. 1 Publication
Sequence conflicti19 – 191A → S in CAA39439. 1 Publication
Sequence conflicti49 – 502EL → DV in CAA39439. 1 Publication
Sequence conflicti158 – 1581P → T in CAA39439. 1 Publication
Sequence conflicti176 – 1761L → C in CAA39439. 1 Publication
Sequence conflicti232 – 2321E → R in CAA39439. 1 Publication
Sequence conflicti236 – 2361G → S in CAA39439. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X55968 mRNA. Translation: CAA39439.1.
X60133 mRNA. Translation: CAA42719.1.
AK044364 mRNA. Translation: BAC31885.1.
CH466529 Genomic DNA. Translation: EDL20122.1.
CCDSiCCDS19510.1. [P23440-1]
PIRiS30762.
RefSeqiNP_032832.2. NM_008806.2. [P23440-1]
UniGeneiMm.1372.

Genome annotation databases

EnsembliENSMUST00000031456; ENSMUSP00000031456; ENSMUSG00000029491. [P23440-1]
GeneIDi18587.
KEGGimmu:18587.
UCSCiuc008ynz.1. mouse. [P23440-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X55968 mRNA. Translation: CAA39439.1 .
X60133 mRNA. Translation: CAA42719.1 .
AK044364 mRNA. Translation: BAC31885.1 .
CH466529 Genomic DNA. Translation: EDL20122.1 .
CCDSi CCDS19510.1. [P23440-1 ]
PIRi S30762.
RefSeqi NP_032832.2. NM_008806.2. [P23440-1 ]
UniGenei Mm.1372.

3D structure databases

ProteinModelPortali P23440.
SMRi P23440. Positions 45-815.
ModBasei Search...
MobiDBi Search...

PTM databases

PhosphoSitei P23440.

Proteomic databases

MaxQBi P23440.
PaxDbi P23440.
PRIDEi P23440.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000031456 ; ENSMUSP00000031456 ; ENSMUSG00000029491 . [P23440-1 ]
GeneIDi 18587.
KEGGi mmu:18587.
UCSCi uc008ynz.1. mouse. [P23440-1 ]

Organism-specific databases

CTDi 5158.
MGIi MGI:97525. Pde6b.

Phylogenomic databases

eggNOGi NOG242608.
GeneTreei ENSGT00750000117253.
HOGENOMi HOG000007069.
HOVERGENi HBG053539.
InParanoidi Q80UF0.
KOi K13756.
OMAi GVVKKFQ.
OrthoDBi EOG7BGHK1.
TreeFami TF316499.

Enzyme and pathway databases

Reactomei REACT_188252. Activation of the phototransduction cascade.
REACT_188266. Inactivation, recovery and regulation of the phototransduction cascade.
REACT_221970. Ca2+ pathway.

Miscellaneous databases

NextBioi 294464.
PROi P23440.
SOURCEi Search...

Gene expression databases

Bgeei P23440.
Genevestigatori P23440.

Family and domain databases

Gene3Di 1.10.1300.10. 1 hit.
3.30.450.40. 3 hits.
InterProi IPR003018. GAF.
IPR029016. GAF_dom_like.
IPR003607. HD/PDEase_dom.
IPR023088. PDEase.
IPR002073. PDEase_catalytic_dom.
IPR023174. PDEase_CS.
[Graphical view ]
Pfami PF01590. GAF. 2 hits.
PF00233. PDEase_I. 1 hit.
[Graphical view ]
PRINTSi PR00387. PDIESTERASE1.
SMARTi SM00065. GAF. 2 hits.
SM00471. HDc. 1 hit.
[Graphical view ]
SUPFAMi SSF55781. SSF55781. 3 hits.
PROSITEi PS00126. PDEASE_I. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Retinal degeneration in the rd mouse is caused by a defect in the beta subunit of rod cGMP-phosphodiesterase."
    Bowes C., Li T., Danciger M., Baxter L.C., Applebury M.L., Farber D.B.
    Nature 347:677-680(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Strain: C57BL/6.
    Tissue: Retina.
  2. "Complete cDNA sequences of mouse rod photoreceptor cGMP phosphodiesterase alpha- and beta-subunits, and identification of beta'-, a putative beta-subunit isozyme produced by alternative splicing of the beta-subunit gene."
    Baehr W., Champagne M.S., Lee A.K., Pittler S.J.
    FEBS Lett. 278:107-114(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), ALTERNATIVE SPLICING (ISOFORM 2).
    Tissue: Retina.
  3. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: C57BL/6J.
    Tissue: Retina.
  4. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiPDE6B_MOUSE
AccessioniPrimary (citable) accession number: P23440
Secondary accession number(s): Q80UF0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1991
Last sequence update: July 27, 2011
Last modified: September 3, 2014
This is version 127 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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