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Entry version 108 (11 Dec 2019)
Sequence version 1 (01 Oct 2000)
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Protein

Zinc finger CCCH domain-containing protein 39

Gene

At3g19360

Organism
Arabidopsis thaliana (Mouse-ear cress)
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 <a href="http://www.uniprot.org/help/function_section">Function</a> 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 fingeri104 – 131C3H1-type 1PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri183 – 211C3H1-type 2PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri269 – 297C3H1-type 3PROSITE-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

GO - Biological processi

<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 39
Short name:
AtC3H39
<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:At3g19360
ORF Names:MLD14.9
<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>OrganismiArabidopsis thaliana (Mouse-ear cress)
<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 identifieri3702 [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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<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
  • UP000006548 <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 3

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT3G19360

The Arabidopsis Information Resource

More...
TAIRi
locus:2090669 AT3G19360

<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_00003719941 – 386Zinc finger CCCH domain-containing protein 39Add BLAST386

Proteomic databases

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

More...
PaxDbi
Q9LT81

<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
Q9LT81 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9LT81 AT

<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

The Biological General Repository for Interaction Datasets (BioGrid)

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BioGridi
6803, 1 interactor

Protein interaction database and analysis system

More...
IntActi
Q9LT81, 1 interactor

STRING: functional protein association networks

More...
STRINGi
3702.AT3G19360.1

<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

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

More...
SMRi
Q9LT81

Database of comparative protein structure models

More...
ModBasei
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

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri104 – 131C3H1-type 1PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri183 – 211C3H1-type 2PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri269 – 297C3H1-type 3PROSITE-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
HOG000090850

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9LT81

Identification of Orthologs from Complete Genome Data

More...
OMAi
NNTSWNV

Database of Orthologous Groups

More...
OrthoDBi
954544at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9LT81

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, 2 hits

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00356 ZnF_C3H1, 3 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF90229 SSF90229, 3 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50103 ZF_C3H1, 3 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>. The information is filed in different subsections. The current subsections and their content are listed below:<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.

Q9LT81-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDSSYSDSRP MFVQSPYGGW NQTQMIDSMA NPMNNEQGDL HSLSESQSQS
60 70 80 90 100
QPSQQLQPAL KRPRLVDDNL FNPASSFPQP SSSNPWMVPS LNPPPVNKGT
110 120 130 140 150
ANIFYKTRMC AKFRAGTCRN GELCNFAHGI EDLRQPPSNW QEIVGPPPAG
160 170 180 190 200
QDRERERERE RERERPSLAP VVNNNWEDDQ KIILRMKLCR KFCFGEECPY
210 220 230 240 250
GDRCNFIHED LSKFREDSGK LRESSVISVG ATAADQPSDT ASNLIEVNRQ
260 270 280 290 300
GSIPVPAPMN NGGVVKTVYW KTRLCMKFDI TGQCPFGDKC HFAHGQAELH
310 320 330 340 350
NSVGRVEGEA MNAVASVNKQ AVVPANEAFA MKPITQVTAD SSGLNEEGRR
360 370 380
KKCLLKWSDS KKINRIYGDW IDDLPVGQKS TKPVES
Length:386
Mass (Da):43,121
Last modified:October 1, 2000 - 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:i753E5B04E09C1BAD
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
AB025624 Genomic DNA Translation: BAB02460.1
CP002686 Genomic DNA Translation: AEE76229.1
CP002686 Genomic DNA Translation: ANM65744.1
AY037226 mRNA Translation: AAK59826.1
AY081745 mRNA Translation: AAL87398.1

NCBI Reference Sequences

More...
RefSeqi
NP_001327691.1, NM_001338393.1
NP_566631.1, NM_112823.4

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT3G19360.1; AT3G19360.1; AT3G19360
AT3G19360.2; AT3G19360.2; AT3G19360

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
821470

Gramene; a comparative resource for plants

More...
Gramenei
AT3G19360.1; AT3G19360.1; AT3G19360
AT3G19360.2; AT3G19360.2; AT3G19360

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT3G19360

<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
AB025624 Genomic DNA Translation: BAB02460.1
CP002686 Genomic DNA Translation: AEE76229.1
CP002686 Genomic DNA Translation: ANM65744.1
AY037226 mRNA Translation: AAK59826.1
AY081745 mRNA Translation: AAL87398.1
RefSeqiNP_001327691.1, NM_001338393.1
NP_566631.1, NM_112823.4

3D structure databases

SMRiQ9LT81
ModBaseiSearch...

Protein-protein interaction databases

BioGridi6803, 1 interactor
IntActiQ9LT81, 1 interactor
STRINGi3702.AT3G19360.1

Proteomic databases

PaxDbiQ9LT81

Genome annotation databases

EnsemblPlantsiAT3G19360.1; AT3G19360.1; AT3G19360
AT3G19360.2; AT3G19360.2; AT3G19360
GeneIDi821470
GrameneiAT3G19360.1; AT3G19360.1; AT3G19360
AT3G19360.2; AT3G19360.2; AT3G19360
KEGGiath:AT3G19360

Organism-specific databases

AraportiAT3G19360
TAIRilocus:2090669 AT3G19360

Phylogenomic databases

eggNOGiKOG1677 Eukaryota
COG5063 LUCA
HOGENOMiHOG000090850
InParanoidiQ9LT81
OMAiNNTSWNV
OrthoDBi954544at2759
PhylomeDBiQ9LT81

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9LT81

Gene expression databases

ExpressionAtlasiQ9LT81 baseline and differential
GenevisibleiQ9LT81 AT

Family and domain databases

InterProiView protein in InterPro
IPR000571 Znf_CCCH
IPR036855 Znf_CCCH_sf
PfamiView protein in Pfam
PF00642 zf-CCCH, 2 hits
SMARTiView protein in SMART
SM00356 ZnF_C3H1, 3 hits
SUPFAMiSSF90229 SSF90229, 3 hits
PROSITEiView protein in PROSITE
PS50103 ZF_C3H1, 3 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
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 nameiC3H39_ARATH
<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: Q9LT81
<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: May 5, 2009
Last sequence update: October 1, 2000
Last modified: December 11, 2019
This is version 108 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

Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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