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Protein

Zinc finger CCCH domain-containing protein 5

Gene

Os01g0257400

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score:

Annotation score:2 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 transcript 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

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri51 – 79C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri101 – 129C3H1-type 2PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri145 – 173C3H1-type 3PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri299 – 327C3H1-type 4PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri345 – 373C3H1-type 5PROSITE-ProRule annotationAdd BLAST29

<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

<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

Molecular functionDNA-binding
LigandMetal-binding, Zinc

<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:
Zinc finger CCCH domain-containing protein 5
Short name:
OsC3H5
Alternative name(s):
Zinc finger CCCH domain-containing protein ZFN-like 3
<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
Ordered Locus Names:Os01g0257400, LOC_Os01g15350
ORF Names:P0462H08.6
<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>OrganismiOryza sativa subsp. japonica (Rice)
<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 identifieri39947 [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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryzaOryza sativa
<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
  • UP000059680 <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 1

<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 Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<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_00002139241 – 466Zinc finger CCCH domain-containing protein 5Add BLAST466

Proteomic databases

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

More...
PaxDbi
Q5NAV3

PRoteomics IDEntifications database

More...
PRIDEi
Q5NAV3

<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

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q5NAV3 differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q5NAV3 OS

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
39947.LOC_Os01g15350.1

<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

3D structure databases

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
Q5NAV3

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<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

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi9 – 69Gly-richAdd BLAST61

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri51 – 79C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri101 – 129C3H1-type 2PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri145 – 173C3H1-type 3PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri299 – 327C3H1-type 4PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri345 – 373C3H1-type 5PROSITE-ProRule annotationAdd BLAST29

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1677 Eukaryota
COG5063 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000237733

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q5NAV3

Identification of Orthologs from Complete Genome Data

More...
OMAi
EPMWQLG

Database of Orthologous Groups

More...
OrthoDBi
625016at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000571 Znf_CCCH
IPR036855 Znf_CCCH_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00642 zf-CCCH, 5 hits

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00356 ZnF_C3H1, 5 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF90229 SSF90229, 5 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50103 ZF_C3H1, 5 hits

<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>Sequencei

<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.

Q5NAV3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEPYAAAEGG GGGGGGGSTD TGLEESMWRM GLGGGGGGGG EAVAAGRLPE
60 70 80 90 100
RPGEADCVYY LRTGACGYGE NCRYNHPRDR AAAAVLNGGG KTTHSAEYPE
110 120 130 140 150
RPGQPVCEYY MKNGTCKFGS NCKYDHPREG SVQAVMLNSS GYPLRSGEKD
160 170 180 190 200
CTYYVKTGHC KFGSTCKFHH PEIGGVSETP NMYPPVQPQP ISSSHPYQHL
210 220 230 240 250
AGWQMGRPPV LPGSFLSGSY PPMMLPSTVV PMQGWNPYIS PVNQVASAGG
260 270 280 290 300
HQTVQAGPFY GLSHQGPSAA VTYGSQYAPL SSSTMPSSSS KQEPAFPARP
310 320 330 340 350
GQPECQYYLK TGSCKFGSAC KYHHPQYLNT PKSNCMLSPL GLPLRPGSQP
360 370 380 390 400
CAYYTQHGFC KFGPTCKFDH PMGTLSYSPS ASSITDLPIA PYPLNYAVAP
410 420 430 440 450
VAPPSSSSDL RPEYLLTKEF SANQSASPGT TCGPAGAMLK AYAPHMLIRP
460
QTSGAGGMVT THGGEL
Length:466
Mass (Da):49,089
Last modified:February 1, 2005 - 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:iA799CB01CB5B68A8
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AP002525 Genomic DNA Translation: BAD81393.1
AP008207 Genomic DNA Translation: BAF04546.2
AP014957 Genomic DNA Translation: BAS71401.1
AK073920 mRNA Translation: BAG93710.1

NCBI Reference Sequences

More...
RefSeqi
XP_015622429.1, XM_015766943.1

UniGene gene-oriented nucleotide sequence clusters

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UniGenei
Os.9029

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
Os01t0257400-01; Os01t0257400-01; Os01g0257400

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
4326230

Gramene; a comparative resource for plants

More...
Gramenei
Os01t0257400-01; Os01t0257400-01; Os01g0257400

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
osa:4326230

<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
AP002525 Genomic DNA Translation: BAD81393.1
AP008207 Genomic DNA Translation: BAF04546.2
AP014957 Genomic DNA Translation: BAS71401.1
AK073920 mRNA Translation: BAG93710.1
RefSeqiXP_015622429.1, XM_015766943.1
UniGeneiOs.9029

3D structure databases

ProteinModelPortaliQ5NAV3
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os01g15350.1

Proteomic databases

PaxDbiQ5NAV3
PRIDEiQ5NAV3

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOs01t0257400-01; Os01t0257400-01; Os01g0257400
GeneIDi4326230
GrameneiOs01t0257400-01; Os01t0257400-01; Os01g0257400
KEGGiosa:4326230

Phylogenomic databases

eggNOGiKOG1677 Eukaryota
COG5063 LUCA
HOGENOMiHOG000237733
InParanoidiQ5NAV3
OMAiEPMWQLG
OrthoDBi625016at2759

Gene expression databases

ExpressionAtlasiQ5NAV3 differential
GenevisibleiQ5NAV3 OS

Family and domain databases

InterProiView protein in InterPro
IPR000571 Znf_CCCH
IPR036855 Znf_CCCH_sf
PfamiView protein in Pfam
PF00642 zf-CCCH, 5 hits
SMARTiView protein in SMART
SM00356 ZnF_C3H1, 5 hits
SUPFAMiSSF90229 SSF90229, 5 hits
PROSITEiView protein in PROSITE
PS50103 ZF_C3H1, 5 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
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 nameiC3H5_ORYSJ
<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: Q5NAV3
Secondary accession number(s): A0A0N7KCP6, B7EMW3, Q0JNY2
<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: April 26, 2005
Last sequence update: February 1, 2005
Last modified: January 16, 2019
This is version 77 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 programPlant Protein Annotation Program

<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

Complete proteome, Reference proteome

Documents

  1. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
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