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Entry version 107 (12 Aug 2020)
Sequence version 1 (05 Feb 2008)
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Protein

30-kDa cleavage and polyadenylation specificity factor 30

Gene

CPSF30

Organism
Arabidopsis thaliana (Mouse-ear cress)
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

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation. May interact with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition (By similarity). Mediates poly(A) site selection (PubMed:23136375). Binds RNA in a calcium-dependent manner (PubMed:16500995, PubMed:17576667, PubMed:20214900). Exhibits endonuclease activity with an ability to nick and degrade linear as well as circular single-stranded RNA that leaves RNA 3' ends with hydroxyl groups, thus mediating processing of the pre-mRNA as a prelude to the polyadenylation (PubMed:17576667). Involved in the post-transcriptional control, probably via poly(A) addition, of the responses of plants to stress, especially genes mediating tolerance to oxidative stress (PubMed:18545667). Plays a role in the regulation of salicylic acid (SA) production via the control of messenger RNA 3' end processing, thus being a key component of programmed cell death and plant immune responses required for resistance to virulent Pseudomonas syringae pv tomato DC3000 (Pst) (PubMed:24706550).By similarity6 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Endonuclease activity is repressed by the N-terminal domain of FIPS5 (PubMed:17576667). Nuclease activity is inhibited by zinc (>100 µM), cadmium in a progressive manner (50 percent activity at 1 mM Cd2+), and high salt levels (e.g. KCl or NaCl >600 mM). Stimulated by ATP in the presence of Zn2+, even at inhibitory zinc concentrations. Elevated temperatures prevent RNA-binding at 55 degrees Celsius, but endonuclease activity at 70 degrees Celsius. The sulfhydryl reagent dithiothreitol (DTT) inhibits both RNA-binding and nuclease activities (PubMed:18331819).2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 fingeri60 – 87C3H1-type 1PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri88 – 112C3H1-type 2PROSITE-ProRule annotationAdd BLAST25
Zinc fingeri114 – 141C3H1-type 3PROSITE-ProRule annotationAdd BLAST28

<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, Endonuclease, Hydrolase, Nuclease, RNA-binding
Biological processApoptosis, Hypersensitive response, mRNA processing, Plant defense
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%5Fand%5Ftaxonomy%5Fsection">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:
30-kDa cleavage and polyadenylation specificity factor 301 Publication (EC:3.1.21.-1 Publication)
Alternative name(s):
Protein OXIDATIVE STRESS TOLERANT 61 Publication
Zinc finger CCCH domain-containing protein 11
Short name:
AtC3H11
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:CPSF301 Publication
Synonyms:OXT61 Publication
Ordered Locus Names:At1g30460Imported
ORF Names:F26G16.5Imported, F26G16.6Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fmanual">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

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT1G30460

The Arabidopsis Information Resource

More...
TAIRi
locus:2028175, AT1G30460

<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 & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

<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 describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

In oxt6, small plants, especially at temperatures above 22 degrees Celsius. Enhanced tolerance to oxidative stress associated with elevated constitutive expression of genes that encode proteins containing thioredoxin- and glutaredoxin- related domains (PubMed:18545667). Altered poly(A) site choice (PubMed:18545667, PubMed:23136375). Suppresses cell death in lesion-mimic mutants (e.g. mips1, lsd1, mkk4, cpr5, and cat2). Enhanced sensitivity to virulent Pseudomonas syringae pv tomato DC3000 (Pst) (PubMed:24706550).3 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi80 – 86CGFLHQF → STFLYQ: Loss of RNA-binding, but normal endonuclease activity. 1 Publication7
Mutagenesisi108 – 112CVYKH → QDSTYKY: Reduced endonuclease activity, but slightly increased RNA-binding. 1 Publication5
Mutagenesisi134 – 138CRYRH → STYRY: Loss of endonuclease activity, slighty reduced RNA-binding, and loss of interaction with FIPS5. 2 Publications5

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003719701 – 63130-kDa cleavage and polyadenylation specificity factor 30Add BLAST631

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei610PhosphoserineCombined sources1
Modified residuei612PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

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

More...
PaxDbi
A9LNK9

PRoteomics IDEntifications database

More...
PRIDEi
A9LNK9

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
220550 [A9LNK9-1]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
A9LNK9

<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

Expressed in seedlings, roots, leaves, siliques, stems and flowers.2 Publications

<p>This subsection of the 'Expression' section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Isoform 2 is up-regulated by exposure to the oxidative agent methyl viologen (MV).1 Publication

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
A9LNK9, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
A9LNK9, 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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the cleavage and polyadenylation specificity factor (CPSF) complex (Probable). Can form homodimers (PubMed:18479511). Binds to calmodulin (PubMed:16500995, PubMed:16897494).

Forms a complex with cleavage and polyadenylation specificity factor (CPSF) subunits CPSF73-I, CPSF73-II, CPSF100, CPSF160, CFIS2, FIPS3, FIPS5, PAPS2, PAPS3, CLPS3, PCFS1, PCFS4, CSTF50 and CSTF77 (PubMed:16282318, PubMed:18479511, PubMed:20214900, PubMed:17576667, PubMed:19573236).

Curated7 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">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="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Hide details

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
25160, 50 interactors

Protein interaction database and analysis system

More...
IntActi
A9LNK9, 49 interactors

Molecular INTeraction database

More...
MINTi
A9LNK9

STRING: functional protein association networks

More...
STRINGi
3702.AT1G30460.1

<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

Secondary structure

1631
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...
SMRi
A9LNK9

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini237 – 372YTHPROSITE-ProRule annotationAdd BLAST136

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 biasi142 – 147Poly-Pro6
Compositional biasi199 – 212Poly-GlnAdd BLAST14
Compositional biasi417 – 431Poly-GluAdd BLAST15
Compositional biasi435 – 553Gly-richAdd BLAST119

<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 CPSF4/YTH1 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri60 – 87C3H1-type 1PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri88 – 112C3H1-type 2PROSITE-ProRule annotationAdd BLAST25
Zinc fingeri114 – 141C3H1-type 3PROSITE-ProRule annotationAdd BLAST28

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1040, Eukaryota
KOG1902, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_413563_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
A9LNK9

KEGG Orthology (KO)

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KOi
K14404

Identification of Orthologs from Complete Genome Data

More...
OMAi
VGMAPFM

Database of Orthologous Groups

More...
OrthoDBi
688490at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
A9LNK9

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR007275, YTH_domain
IPR000571, Znf_CCCH
IPR036855, Znf_CCCH_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF04146, YTH, 1 hit

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, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50882, YTH, 1 hit
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%5Flength">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>Sequences (2+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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 describes 2 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform. This section is only present in reviewed entries, i.e. in UniProtKB/Swiss-Prot.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

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

Isoform 1 (identifier: A9LNK9-1) [UniParc]FASTAAdd to basket
Also known as: AtCPSF30-YT521B

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali 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
MEDADGLSFD FEGGLDSGPV QNTASVPVAP PENSSSAAVN VAPTYDHSSA
60 70 80 90 100
TVAGAGRGRS FRQTVCRHWL RGLCMKGDAC GFLHQFDKAR MPICRFFRLY
110 120 130 140 150
GECREQDCVY KHTNEDIKEC NMYKLGFCPN GPDCRYRHAK LPGPPPPVEE
160 170 180 190 200
VLQKIQQLTT YNYGTNRLYQ ARNVAPQLQD RPQGQVPMQG QPQESGNLQQ
210 220 230 240 250
QQQQQPQQSQ HQVSQTLIPN PADQTNRTSH PLPQGVNRYF VVKSNNRENF
260 270 280 290 300
ELSVQQGVWA TQRSNEAKLN EAFDSVENVI LIFSVNRTRH FQGCAKMTSR
310 320 330 340 350
IGGYIGGGNW KHEHGTAQYG RNFSVKWLKL CELSFHKTRN LRNPYNENLP
360 370 380 390 400
VKISRDCQEL EPSVGEQLAS LLYLEPDSEL MAISIAAEAK REEEKAKGVN
410 420 430 440 450
PESRAENPDI VPFEDNEEEE EEEDESEEEE ESMAGGPQGR GRGRGIMWPP
460 470 480 490 500
QMPLGRGIRP MPGMGGFPLG VMGPGDAFPY GPGGYNGMPD PFGMGPRPFG
510 520 530 540 550
PYGPRFGGDF RGPVPGMMFP GRPPQQFPHG GYGMMGGGRG PHMGGMGNAP
560 570 580 590 600
RGGRPMYYPP ATSSARPGPS NRKTPERSDE RGVSGDQQNQ DASHDMEQFE
610 620 630
VGNSLRNEES ESEDEDEAPR RSRHGEGKKR R
Length:631
Mass (Da):70,015
Last modified:February 5, 2008 - 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:i120272CD4142355F
GO
Isoform 2 (identifier: A9LNK9-2) [UniParc]FASTAAdd to basket
Also known as: AtCPSF30

The sequence of this isoform differs from the canonical sequence as follows:
     239-250: YFVVKSNNRENF → CVQSPKVFNWVL
     251-631: Missing.

Show »
Length:250
Mass (Da):27,969
Checksum:i0E404CD1EEB168A5
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
A0A2H1ZEB9A0A2H1ZEB9_ARATH
Cleavage and polyadenylation specif...
CPSF30 ATCPSF30, At1g30460, F26G16.6, F26G16_6
401Annotation 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>
A0A1P8AQZ1A0A1P8AQZ1_ARATH
Cleavage and polyadenylation specif...
CPSF30 ATCPSF30, At1g30460, F26G16.6, F26G16_6
244Annotation 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>

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAF19746 differs from that shown. Reason: Erroneous gene model prediction.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_037127239 – 250YFVVK…NRENF → CVQSPKVFNWVL in isoform 2. 1 PublicationAdd BLAST12
Alternative sequenceiVSP_037128251 – 631Missing in isoform 2. 1 PublicationAdd BLAST381

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
EU250988 mRNA Translation: ABX26048.1
AY140901 mRNA Translation: AAN41459.1
AC009917 Genomic DNA Translation: AAF19746.1 Sequence problems.
AC009917 Genomic DNA Translation: AAF19747.1
CP002684 Genomic DNA Translation: AEE31221.1

Protein sequence database of the Protein Information Resource

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PIRi
B86429
C86429

NCBI Reference Sequences

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RefSeqi
NP_174334.2, NM_102782.4 [A9LNK9-1]

Genome annotation databases

Ensembl plant genome annotation project

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EnsemblPlantsi
AT1G30460.1; AT1G30460.1; AT1G30460 [A9LNK9-1]

Database of genes from NCBI RefSeq genomes

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GeneIDi
839925

Gramene; a comparative resource for plants

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Gramenei
AT1G30460.1; AT1G30460.1; AT1G30460 [A9LNK9-1]

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
ath:AT1G30460

Keywords - Coding sequence diversityi

Alternative splicing

<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
EU250988 mRNA Translation: ABX26048.1
AY140901 mRNA Translation: AAN41459.1
AC009917 Genomic DNA Translation: AAF19746.1 Sequence problems.
AC009917 Genomic DNA Translation: AAF19747.1
CP002684 Genomic DNA Translation: AEE31221.1
PIRiB86429
C86429
RefSeqiNP_174334.2, NM_102782.4 [A9LNK9-1]

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5ZUUX-ray1.95A/B/C/D221-400[»]
SMRiA9LNK9
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi25160, 50 interactors
IntActiA9LNK9, 49 interactors
MINTiA9LNK9
STRINGi3702.AT1G30460.1

PTM databases

iPTMnetiA9LNK9

Proteomic databases

PaxDbiA9LNK9
PRIDEiA9LNK9
ProteomicsDBi220550 [A9LNK9-1]

Genome annotation databases

EnsemblPlantsiAT1G30460.1; AT1G30460.1; AT1G30460 [A9LNK9-1]
GeneIDi839925
GrameneiAT1G30460.1; AT1G30460.1; AT1G30460 [A9LNK9-1]
KEGGiath:AT1G30460

Organism-specific databases

AraportiAT1G30460
TAIRilocus:2028175, AT1G30460

Phylogenomic databases

eggNOGiKOG1040, Eukaryota
KOG1902, Eukaryota
HOGENOMiCLU_413563_0_0_1
InParanoidiA9LNK9
KOiK14404
OMAiVGMAPFM
OrthoDBi688490at2759
PhylomeDBiA9LNK9

Miscellaneous databases

Protein Ontology

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PROi
PR:A9LNK9

Gene expression databases

ExpressionAtlasiA9LNK9, baseline and differential
GenevisibleiA9LNK9, AT

Family and domain databases

InterProiView protein in InterPro
IPR007275, YTH_domain
IPR000571, Znf_CCCH
IPR036855, Znf_CCCH_sf
PfamiView protein in Pfam
PF04146, YTH, 1 hit
SMARTiView protein in SMART
SM00356, ZnF_C3H1, 3 hits
SUPFAMiSSF90229, SSF90229, 1 hit
PROSITEiView protein in PROSITE
PS50882, YTH, 1 hit
PS50103, ZF_C3H1, 3 hits

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

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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 nameiCPSF_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: A9LNK9
Secondary accession number(s): Q9S9Q5, Q9S9Q6
<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%5Fand%5Fisoforms">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: February 5, 2008
Last modified: August 12, 2020
This is version 107 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

3D-structure, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
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