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UniProtKB - Q5JQD7 (YSL12_ORYSJ)

Entry version 74 (12 Aug 2020)
Sequence version 2 (10 Feb 2009)
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Protein

Probable metal-nicotianamine transporter YSL12

Gene

YSL12

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

Annotation score:3 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

May be involved in the transport of nicotianamine-chelated metals.By similarity

<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 - Biological processi

Complete GO annotation on QuickGO ...

<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 processTransport

<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:
Probable metal-nicotianamine transporter YSL12
Alternative name(s):
Protein YELLOW STRIPE LIKE 12
Short name:
OsYSL12
<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:YSL12
Ordered Locus Names:Os04g0524600, LOC_Os04g44320
ORF Names:OSJNBb0065J09.17
<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>OrganismiOryza sativa subsp. japonica (Rice)
<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 identifieri39947 [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 lineageiEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliopsida › Liliopsida › Poales › Poaceae › BOP clade › Oryzoideae › Oryzeae › Oryzinae › Oryza › Oryza sativa
<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
  • UP000059680 <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 4
  • UP000000763 Componenti: Chromosome 4

<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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei76 – 96HelicalSequence analysisAdd BLAST21
Transmembranei99 – 119HelicalSequence analysisAdd BLAST21
Transmembranei144 – 164HelicalSequence analysisAdd BLAST21
Transmembranei186 – 206HelicalSequence analysisAdd BLAST21
Transmembranei248 – 268HelicalSequence analysisAdd BLAST21
Transmembranei306 – 326HelicalSequence analysisAdd BLAST21
Transmembranei351 – 371HelicalSequence analysisAdd BLAST21
Transmembranei422 – 442HelicalSequence analysisAdd BLAST21
Transmembranei450 – 470HelicalSequence analysisAdd BLAST21
Transmembranei482 – 502HelicalSequence analysisAdd BLAST21
Transmembranei536 – 556HelicalSequence analysisAdd BLAST21
Transmembranei593 – 613HelicalSequence analysisAdd BLAST21
Transmembranei636 – 656HelicalSequence analysisAdd BLAST21
Transmembranei671 – 691HelicalSequence analysisAdd BLAST21

Keywords - Cellular componenti

Membrane

<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_00003638751 – 717Probable metal-nicotianamine transporter YSL12Add BLAST717

Proteomic databases

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

More...PaxDbi		Q5JQD7

PRoteomics IDEntifications database

More...PRIDEi		Q5JQD7

<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 root cortex and stele.1 Publication

Gene expression databases

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		Q5JQD7, 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		4530.OS04T0524600-01

<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

<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 YSL (TC 2.A.67.2) family. [View classification]Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG502QQ2H, Eukaryota

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q5JQD7

Identification of Orthologs from Complete Genome Data

More...OMAi		FGMSDIV

Database of Orthologous Groups

More...OrthoDBi		525938at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR004813, OPT

Pfam protein domain database

More...Pfami		View protein in Pfam
PF03169, OPT, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00728, OPT_sfam, 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%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
Isoform 1 (identifier: Q5JQD7-1) [UniParc]FASTAAdd to basket

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
MASHANASGG GGDEEMVEAS TLRHRHGAGK DANGVGTERQ LAAAAAEGEE 
        60         70         80         90        100
EGPSSVERAF VDRAVPSWRE QLTVRAFVVS FFLSIMFSII VMKLNLTTGI 
       110        120        130        140        150
IPSLNVSAGL LGFFFVRLWT AAIERVGLLR QPFTRQENTV IQTCVVAAYG 
       160        170        180        190        200
IAFSGGFGTY LFGMSETIAK QATEANNAQN VKNPHIGWMI GFLFLVSFIG 
       210        220        230        240        250
LLALVPLRKI MIVDYKLTYP SGTATAYLIN GFHTPEGAKL AKKQVKELGK 
       260        270        280        290        300
FFLFSFVWGF FQWFYTAGDG CGFQSFPTLG LQAYKNRFYF DFSPTYVGVG 
       310        320        330        340        350
MICPHIVNVS VLLGGILSWG IMWPLIRNKK GSWYAASLSE TSLHGLQGYR 
       360        370        380        390        400
VFISIALILG DGLYNFVKVL IRTTAGFVVM MKKNSTLPVS NNGSPMVATE 
       410        420        430        440        450
AISFDDERRT ELFLKDQIPK TVAFGGYVAV AAVSIGTLPQ IFPQLKWYYI 
       460        470        480        490        500
LVAYVFAPVL AFCNAYGAGL TDWSLASTYG KLAIFIFGAW AGASNGGVLV 
       510        520        530        540        550
GLAACGVMMS IVSTASDLMQ DFKTGYLTLA SPRSMFVSQV IGTAMGCVIA 
       560        570        580        590        600
PCVFWLFYKA FADIGVSGTE YPAPYAIVYR NMAILGVDGF SSLPKHCLTL 
       610        620        630        640        650
CYIFFAAAIA INLARDLAPS KVARFIPLPM AMAIPFYIGS YFAIDMFIGT 
       660        670        680        690        700
VILFVWEMVN KAKAEAFAPA VASGLICGDG IWTLPQSILA LAKVKPPICM 
       710 
KFLSRSVNAQ VDGFLGN
Length:717
Mass (Da):77,692
Last modified:February 10, 2009 - v2
<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:iEFBEEE02E13EC627
GO
Isoform 2 (identifier: Q5JQD7-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     8-148: Missing.

Show »
Length:576
Mass (Da):62,516
Checksum:i2ECB0EAE6EF048F7
GO

<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 BAE91892 differs from that shown. Reason: Frameshift.Curated
The sequence CAI44637 differs from that shown. Reason: Erroneous gene model prediction.Curated

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 conflicti251F → L in AK069437 (PubMed:12869764).Curated1
Sequence conflicti361D → N in BAE91892 (PubMed:15255870).Curated1
Sequence conflicti373T → K in BAE91892 (PubMed:15255870).Curated1

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_0363298 – 148Missing in isoform 2. 1 PublicationAdd BLAST141

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
AB190922 mRNA Translation: BAE91892.1 Frameshift.
AL663010 Genomic DNA Translation: CAI44637.1 Sequence problems.
AP008210 Genomic DNA Translation: BAF15265.1
AP014960 Genomic DNA Translation: BAS90151.1
AK069437 mRNA No translation available.

NCBI Reference Sequences

More...RefSeqi		XP_015635779.1, XM_015780293.1 [Q5JQD7-1]

Genome annotation databases

Ensembl plant genome annotation project

More...EnsemblPlantsi		Os04t0524600-01; Os04t0524600-01; Os04g0524600 [Q5JQD7-2]

Database of genes from NCBI RefSeq genomes

More...GeneIDi		4336442

Gramene; a comparative resource for plants

More...Gramenei		Os04t0524600-01; Os04t0524600-01; Os04g0524600 [Q5JQD7-2]

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		osa:4336442

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
AB190922 mRNA Translation: BAE91892.1 Frameshift.
AL663010 Genomic DNA Translation: CAI44637.1 Sequence problems.
AP008210 Genomic DNA Translation: BAF15265.1
AP014960 Genomic DNA Translation: BAS90151.1
AK069437 mRNA No translation available.
RefSeqiXP_015635779.1, XM_015780293.1 [Q5JQD7-1]

3D structure databases

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Protein-protein interaction databases

STRINGi4530.OS04T0524600-01

Proteomic databases

PaxDbiQ5JQD7
PRIDEiQ5JQD7

Genome annotation databases

EnsemblPlantsiOs04t0524600-01; Os04t0524600-01; Os04g0524600 [Q5JQD7-2]
GeneIDi4336442
GrameneiOs04t0524600-01; Os04t0524600-01; Os04g0524600 [Q5JQD7-2]
KEGGiosa:4336442

Phylogenomic databases

eggNOGiENOG502QQ2H, Eukaryota
InParanoidiQ5JQD7
OMAiFGMSDIV
OrthoDBi525938at2759

Gene expression databases

GenevisibleiQ5JQD7, OS

Family and domain databases

InterProiView protein in InterPro
IPR004813, OPT
PfamiView protein in Pfam
PF03169, OPT, 1 hit
TIGRFAMsiTIGR00728, OPT_sfam, 1 hit

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 nameiYSL12_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: Q5JQD7
Secondary accession number(s): Q0JBM2, Q25CH4
<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: February 10, 2009
Last sequence update: February 10, 2009
Last modified: August 12, 2020
This is version 74 of the entry and version 2 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. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  2. SIMILARITY comments
    Index of protein domains and families
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