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Protein

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

Gene

Pde6b

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: 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

a divalent metal cationBy similarityNote: 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)DescriptionActionsGraphical viewLength
Active sitei557Proton donorBy similarity1
Metal bindingi561Divalent metal cation 1By similarity1
Metal bindingi597Divalent metal cation 1By similarity1
Metal bindingi598Divalent metal cation 1By similarity1
Metal bindingi598Divalent metal cation 2By similarity1
Metal bindingi718Divalent metal cation 1By similarity1

GO - Molecular functioni

GO - Biological processi

  • detection of light stimulus Source: MGI
  • GMP metabolic process Source: MGI
  • regulation of cytosolic calcium ion concentration Source: MGI
  • retina development in camera-type eye Source: MGI
  • visual perception Source: UniProtKB-KW
  • Wnt signaling pathway, calcium modulating pathway Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Sensory transduction, Vision

Keywords - Ligandi

cGMP, Metal-binding

Enzyme and pathway databases

ReactomeiR-MMU-2485179. Activation of the phototransduction cascade.
R-MMU-2514859. Inactivation, recovery and regulation of the phototransduction cascade.
R-MMU-4086398. 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
Proteomesi
  • UP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:97525. Pde6b.

Subcellular locationi

GO - Cellular componenti

  • photoreceptor outer segment Source: MGI
  • 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)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000233502 – 853Rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit betaAdd BLAST852
PropeptideiPRO_0000023351854 – 856Removed in mature formBy similarity3

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Lipidationi853S-geranylgeranyl cysteineBy similarity1

Keywords - PTMi

Lipoprotein, Prenylation

Proteomic databases

MaxQBiP23440.
PaxDbiP23440.
PRIDEiP23440.

PTM databases

iPTMnetiP23440.
PhosphoSitePlusiP23440.

Expressioni

Gene expression databases

BgeeiENSMUSG00000029491.
GenevisibleiP23440. MM.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000031456.

Structurei

3D structure databases

ProteinModelPortaliP23440.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini71 – 220GAF 1Add BLAST150
Domaini252 – 429GAF 2Add BLAST178

Sequence similaritiesi

Contains 2 GAF domains.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG3689. Eukaryota.
ENOG410XRI7. LUCA.
GeneTreeiENSGT00760000119066.
HOGENOMiHOG000007069.
HOVERGENiHBG053539.
InParanoidiP23440.
KOiK13756.
OMAiSWVEYLS.
OrthoDBiEOG091G01RK.
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. AlignAdd to basket

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

        10         20         30         40         50
MSLSEEQVRS FLDGNPTFAH QYFGKKLSPE NVAGACEDGW LADCGSLREL
60 70 80 90 100
CQVEESAALF ELVQDMQESV NMERVVFKIL RRLCTILHAD RCSLFMYRQR
110 120 130 140 150
NGIAELATRL FSVQPDSLLE DCLVPPDSEI VFPLDIGIVG HVAQTKKMIN
160 170 180 190 200
VQDVAECPHF SSFADELTDY VTKNILSTPI MNGKDVVAVI MAVNKLDGPC
210 220 230 240 250
FTSEDEDVFT KYLNFATLNL KIYHLSYLHN CETRRGQVLL WSANKVFEEL
260 270 280 290 300
TDIERQFHKA FYTVRAYLNC ERYSVGLLDM TKEKEFFDVW PVLMGEAQPY
310 320 330 340 350
SGPRTPDGRE IVFYKVIDYI LHGKEDIKVI PTPPADHWAL ASGLPTYVAE
360 370 380 390 400
SGFICNIMNA SADEMFNFQE GPLDDSGWVI KNVLSMPIVN KKEEIVGVAT
410 420 430 440 450
FYNRKDGKPF DDQDEVLMES LTQFLGWSVL NTDTYDKMNK LENRKDIAQD
460 470 480 490 500
MVLYHVRCDK DEIQEILPTR DRLGKEPADC EEDELGKILK EELPGPTKFD
510 520 530 540 550
IYEFHFSDLE CTELELVKCG IQMYYELGVV RKFQIPQEVL VRFLFSVSKA
560 570 580 590 600
YRRITYHNWR HGFNVAQTMF TLLMTGKLKS YYTDLEAFAM VTAGLCHDID
610 620 630 640 650
HRGTNNLYQM KSQNPLAKLH GSSILERHHL EFGKFLLAEE SLNIYQNLNR
660 670 680 690 700
RQHEHVIHLM DIAIIATDLA LYFKKRTMFQ KIVDESKNYE DKKSWVEYLS
710 720 730 740 750
LETTRKEIVM AMMMTACDLS AITKPWEVQS KVALLVAAEF WEQGDLERTV
760 770 780 790 800
LDQQPIPMMD RNKAAELPKL QVGFIDFVCT FVYKEFSRFH EEILPMFDRL
810 820 830 840 850
QNNRKEWKAL ADEYEAKVKA LEEEKKKEED RVAAKKVGTE VCNGGPAPKS

STCCIL
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

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti5E → G in CAA39439 (PubMed:1977087).Curated1
Sequence conflicti19A → S in CAA39439 (PubMed:1977087).Curated1
Sequence conflicti49 – 50EL → DV in CAA39439 (PubMed:1977087).Curated2
Sequence conflicti158P → T in CAA39439 (PubMed:1977087).Curated1
Sequence conflicti176L → C in CAA39439 (PubMed:1977087).Curated1
Sequence conflicti232E → R in CAA39439 (PubMed:1977087).Curated1
Sequence conflicti236G → S in CAA39439 (PubMed:1977087).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_004592801 – 856Missing in isoform 2. CuratedAdd BLAST56

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

ProteinModelPortaliP23440.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000031456.

PTM databases

iPTMnetiP23440.
PhosphoSitePlusiP23440.

Proteomic databases

MaxQBiP23440.
PaxDbiP23440.
PRIDEiP23440.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi5158.
MGIiMGI:97525. Pde6b.

Phylogenomic databases

eggNOGiKOG3689. Eukaryota.
ENOG410XRI7. LUCA.
GeneTreeiENSGT00760000119066.
HOGENOMiHOG000007069.
HOVERGENiHBG053539.
InParanoidiP23440.
KOiK13756.
OMAiSWVEYLS.
OrthoDBiEOG091G01RK.
TreeFamiTF316499.

Enzyme and pathway databases

ReactomeiR-MMU-2485179. Activation of the phototransduction cascade.
R-MMU-2514859. Inactivation, recovery and regulation of the phototransduction cascade.
R-MMU-4086398. Ca2+ pathway.

Miscellaneous databases

ChiTaRSiPde6b. mouse.
PROiP23440.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000029491.
GenevisibleiP23440. MM.

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]
ProtoNetiSearch...

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: November 2, 2016
This is version 145 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

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.