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Protein

Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta

Gene

PDE6D

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Promotes the release of prenylated target proteins from cellular membranes (PubMed:9712853). Modulates the activity of prenylated or palmitoylated Ras family members by regulating their subcellular location (PubMed:22002721, PubMed:23698361). Required for normal ciliary targeting of farnesylated target proteins, such as INPP5E (PubMed:24166846). Modulates the subcellular location of target proteins by acting as a GTP specific dissociation inhibitor (GDI) (By similarity). Increases the affinity of ARL3 for GTP by several orders of magnitude. Stabilizes ARL3-GTP by decreasing the nucleotide dissociation rate (By similarity).By similarity6 Publications

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

  • response to stimulus Source: UniProtKB-KW
  • visual perception Source: ProtInc

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processSensory transduction, Vision
LigandcGMP

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-HSA-5624958 ARL13B-mediated ciliary trafficking of INPP5E

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta
Short name:
GMP-PDE delta
Alternative name(s):
Protein p17
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:PDE6D
Synonyms:PDED
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 2

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
HostDB:ENSG00000156973.13

Human Gene Nomenclature Database

More...
HGNCi
HGNC:8788 PDE6D

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
602676 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_O43924

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cell projection, Cytoplasm, Cytoplasmic vesicle, Cytoskeleton, Membrane

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section provides information on the disease(s) associated with genetic variations in a given protein. The information is extracted from the scientific literature and diseases that are also described in the <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim">OMIM</a> database are represented with a <a href="http://www.uniprot.org/diseases">controlled vocabulary</a> in the following way:<p><a href='/help/involvement_in_disease' target='_top'>More...</a></p>Involvement in diseasei

Joubert syndrome 22 (JBTS22)1 Publication
The disease is caused by mutations affecting the gene represented in this entry.
Disease descriptionA disorder presenting with cerebellar ataxia, oculomotor apraxia, hypotonia, neonatal breathing abnormalities and psychomotor delay. Neuroradiologically, it is characterized by cerebellar vermian hypoplasia/aplasia, thickened and reoriented superior cerebellar peduncles, and an abnormally large interpeduncular fossa, giving the appearance of a molar tooth on transaxial slices (molar tooth sign). Additional variable features include retinal dystrophy, renal disease, liver fibrosis, and polydactyly.
See also OMIM:615665

Keywords - Diseasei

Ciliopathy, Joubert syndrome

Organism-specific databases

DisGeNET

More...
DisGeNETi
5147

GeneReviews a resource of expert-authored, peer-reviewed disease descriptions.

More...
GeneReviewsi
PDE6D

MalaCards human disease database

More...
MalaCardsi
PDE6D
MIMi615665 phenotype

Open Targets

More...
OpenTargetsi
ENSG00000156973

Orphanet; a database dedicated to information on rare diseases and orphan drugs

More...
Orphaneti
2754 Orofaciodigital syndrome type 6

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA33136

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL3860

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
PDE6D

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002212081 – 150Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit deltaAdd BLAST150

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
O43924

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
O43924

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
O43924

PeptideAtlas

More...
PeptideAtlasi
O43924

PRoteomics IDEntifications database

More...
PRIDEi
O43924

ProteomicsDB human proteome resource

More...
ProteomicsDBi
49239

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
O43924

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
O43924

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified ‘at protein level’. <br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Widely expressed. Detected in various tissues including spleen, prostate gland, testis, ovary, small intestine, colon, retina, and peripheral blood.1 Publication

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSG00000156973 Expressed in 220 organ(s), highest expression level in C1 segment of cervical spinal cord

CleanEx database of gene expression profiles

More...
CleanExi
HS_PDE6D

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
O43924 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
O43924 HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
HPA037433
HPA037434

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with the prenylated catalytic subunits of PDE6, an oligomer composed of two catalytic chains (PDE6A and PDE6B) and two inhibitory chains (gamma); has no effect on enzyme activity but promotes the release of the prenylated enzyme from cell membrane (By similarity). Interacts with prenylated GRK1 and GRK7 (By similarity). Interacts with prenylated Ras family members, including RAP2A and RAP2C (By similarity). Interacts with prenylated RHEB and NRAS (PubMed:22002721). Interacts with prenylated HRAS and KRAS. Interacts with RAB13 (prenylated form); dissociates RAB13 from membranes (PubMed:9712853). Interacts with prenylated INPP5E (PubMed:24166846). Interacts with RPGR (PubMed:9990021, PubMed:24166846, PubMed:23559067). Interacts with ARL2 (PubMed:24166846, PubMed:22002721). Interacts with ARL3; the interaction occurs specifically with the GTP-bound form of ARL3 (PubMed:24166846). Interaction with ARL2 and ARL3 promotes release of farnesylated cargo proteins (PubMed:22002721).By similarity7 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
111173, 28 interactors

CORUM comprehensive resource of mammalian protein complexes

More...
CORUMi
O43924

Database of interacting proteins

More...
DIPi
DIP-36660N

Protein interaction database and analysis system

More...
IntActi
O43924, 19 interactors

Molecular INTeraction database

More...
MINTi
O43924

STRING: functional protein association networks

More...
STRINGi
9606.ENSP00000287600

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
O43924

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1150
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1KSGX-ray2.30B1-150[»]
1KSHX-ray1.80B1-150[»]
1KSJX-ray2.60B1-150[»]
3T5GX-ray1.70B1-150[»]
3T5IX-ray2.10A/B/C/D1-150[»]
4JHPX-ray1.90B1-150[»]
4JV6X-ray1.87B1-150[»]
4JV8X-ray1.45B1-150[»]
4JVBX-ray1.75B1-150[»]
4JVFX-ray2.40B1-150[»]
5E80X-ray2.60A/B2-150[»]
5E8FX-ray2.10A/C2-150[»]
5F2UX-ray1.85A/B2-150[»]
5ML2X-ray1.60B2-150[»]
5ML3X-ray1.40B2-150[»]
5ML4X-ray2.40B2-150[»]
5ML6X-ray1.87B2-150[»]
5ML8X-ray2.60B2-150[»]
5NALX-ray2.20B1-150[»]
5TARX-ray1.90B3-150[»]
5TB5X-ray2.00B/D1-150[»]
5X72X-ray1.95A1-150[»]
5X73X-ray2.50A1-150[»]
5X74X-ray2.25A1-150[»]
5YAVX-ray1.99B1-150[»]
5YAWX-ray2.03B1-150[»]

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
O43924

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
O43924

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
O43924

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni144 – 150Required for association with membranes1 Publication7

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the PDE6D/unc-119 family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG4038 Eukaryota
ENOG4110ZMQ LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000000263

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000007689

The HOVERGEN Database of Homologous Vertebrate Genes

More...
HOVERGENi
HBG053542

KEGG Orthology (KO)

More...
KOi
K13758

Identification of Orthologs from Complete Genome Data

More...
OMAi
STNTWQN

Database of Orthologous Groups

More...
OrthoDBi
1192412at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O43924

TreeFam database of animal gene trees

More...
TreeFami
TF314474

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.70.50.40, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR014756 Ig_E-set
IPR008015 PDED_dom
IPR037036 PDED_dom_sf
IPR017287 Rhodop-sen_GMP-Pdiesterase_dsu

The PANTHER Classification System

More...
PANTHERi
PTHR12976 PTHR12976, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF05351 GMP_PDE_delta, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF037825 GMP-Pdiesterase_delta, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF81296 SSF81296, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

O43924-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSAKDERARE ILRGFKLNWM NLRDAETGKI LWQGTEDLSV PGVEHEARVP
60 70 80 90 100
KKILKCKAVS RELNFSSTEQ MEKFRLEQKV YFKGQCLEEW FFEFGFVIPN
110 120 130 140 150
STNTWQSLIE AAPESQMMPA SVLTGNVIIE TKFFDDDLLV STSRVRLFYV
Length:150
Mass (Da):17,420
Last modified:June 1, 1998 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iAB8D9309C33B4411
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
B8ZZK5B8ZZK5_HUMAN
Phosphodiesterase 6D, cGMP-specific...
PDE6D hCG_32951
93Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
C9IZ52C9IZ52_HUMAN
Retinal rod rhodopsin-sensitive cGM...
PDE6D
104Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti117M → V in CAA04880 (PubMed:9712853).Curated1
Sequence conflicti146R → G in CAA04880 (PubMed:9712853).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AF045999 Genomic DNA Translation: AAC39720.1
AF022912 mRNA Translation: AAB87872.1
AF042835, AF042833, AF042834 Genomic DNA Translation: AAC25953.1
AJ001626 mRNA Translation: CAA04880.1
BT007278 mRNA Translation: AAP35942.1
BC007831 mRNA Translation: AAH07831.1

The Consensus CDS (CCDS) project

More...
CCDSi
CCDS33398.1

NCBI Reference Sequences

More...
RefSeqi
NP_001277947.1, NM_001291018.1
NP_002592.1, NM_002601.3

UniGene gene-oriented nucleotide sequence clusters

More...
UniGenei
Hs.516808

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENST00000287600; ENSP00000287600; ENSG00000156973

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
5147

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
hsa:5147

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF045999 Genomic DNA Translation: AAC39720.1
AF022912 mRNA Translation: AAB87872.1
AF042835, AF042833, AF042834 Genomic DNA Translation: AAC25953.1
AJ001626 mRNA Translation: CAA04880.1
BT007278 mRNA Translation: AAP35942.1
BC007831 mRNA Translation: AAH07831.1
CCDSiCCDS33398.1
RefSeqiNP_001277947.1, NM_001291018.1
NP_002592.1, NM_002601.3
UniGeneiHs.516808

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1KSGX-ray2.30B1-150[»]
1KSHX-ray1.80B1-150[»]
1KSJX-ray2.60B1-150[»]
3T5GX-ray1.70B1-150[»]
3T5IX-ray2.10A/B/C/D1-150[»]
4JHPX-ray1.90B1-150[»]
4JV6X-ray1.87B1-150[»]
4JV8X-ray1.45B1-150[»]
4JVBX-ray1.75B1-150[»]
4JVFX-ray2.40B1-150[»]
5E80X-ray2.60A/B2-150[»]
5E8FX-ray2.10A/C2-150[»]
5F2UX-ray1.85A/B2-150[»]
5ML2X-ray1.60B2-150[»]
5ML3X-ray1.40B2-150[»]
5ML4X-ray2.40B2-150[»]
5ML6X-ray1.87B2-150[»]
5ML8X-ray2.60B2-150[»]
5NALX-ray2.20B1-150[»]
5TARX-ray1.90B3-150[»]
5TB5X-ray2.00B/D1-150[»]
5X72X-ray1.95A1-150[»]
5X73X-ray2.50A1-150[»]
5X74X-ray2.25A1-150[»]
5YAVX-ray1.99B1-150[»]
5YAWX-ray2.03B1-150[»]
ProteinModelPortaliO43924
SMRiO43924
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi111173, 28 interactors
CORUMiO43924
DIPiDIP-36660N
IntActiO43924, 19 interactors
MINTiO43924
STRINGi9606.ENSP00000287600

Chemistry databases

BindingDBiO43924
ChEMBLiCHEMBL3860

PTM databases

iPTMnetiO43924
PhosphoSitePlusiO43924

Polymorphism and mutation databases

BioMutaiPDE6D

Proteomic databases

EPDiO43924
jPOSTiO43924
PaxDbiO43924
PeptideAtlasiO43924
PRIDEiO43924
ProteomicsDBi49239

Protocols and materials databases

The DNASU plasmid repository

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DNASUi
5147
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000287600; ENSP00000287600; ENSG00000156973
GeneIDi5147
KEGGihsa:5147

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
5147
DisGeNETi5147
EuPathDBiHostDB:ENSG00000156973.13

GeneCards: human genes, protein and diseases

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GeneCardsi
PDE6D
GeneReviewsiPDE6D
HGNCiHGNC:8788 PDE6D
HPAiHPA037433
HPA037434
MalaCardsiPDE6D
MIMi602676 gene
615665 phenotype
neXtProtiNX_O43924
OpenTargetsiENSG00000156973
Orphaneti2754 Orofaciodigital syndrome type 6
PharmGKBiPA33136

GenAtlas: human gene database

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GenAtlasi
Search...

Phylogenomic databases

eggNOGiKOG4038 Eukaryota
ENOG4110ZMQ LUCA
GeneTreeiENSGT00390000000263
HOGENOMiHOG000007689
HOVERGENiHBG053542
KOiK13758
OMAiSTNTWQN
OrthoDBi1192412at2759
PhylomeDBiO43924
TreeFamiTF314474

Enzyme and pathway databases

ReactomeiR-HSA-5624958 ARL13B-mediated ciliary trafficking of INPP5E

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

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ChiTaRSi
PDE6D human
EvolutionaryTraceiO43924

The Gene Wiki collection of pages on human genes and proteins

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GeneWikii
PDE6D

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

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GenomeRNAii
5147

Protein Ontology

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PROi
PR:O43924

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
Search...

Gene expression databases

BgeeiENSG00000156973 Expressed in 220 organ(s), highest expression level in C1 segment of cervical spinal cord
CleanExiHS_PDE6D
ExpressionAtlasiO43924 baseline and differential
GenevisibleiO43924 HS

Family and domain databases

Gene3Di2.70.50.40, 1 hit
InterProiView protein in InterPro
IPR014756 Ig_E-set
IPR008015 PDED_dom
IPR037036 PDED_dom_sf
IPR017287 Rhodop-sen_GMP-Pdiesterase_dsu
PANTHERiPTHR12976 PTHR12976, 1 hit
PfamiView protein in Pfam
PF05351 GMP_PDE_delta, 1 hit
PIRSFiPIRSF037825 GMP-Pdiesterase_delta, 1 hit
SUPFAMiSSF81296 SSF81296, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiPDE6D_HUMAN
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: O43924
Secondary accession number(s): O43250
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: June 1, 1998
Last modified: January 16, 2019
This is version 169 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>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.

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human chromosome 2
    Human chromosome 2: entries, gene names and cross-references to MIM
  3. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  4. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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