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Entry version 91 (08 May 2019)
Sequence version 1 (01 Oct 2003)
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Protein

Transport inhibitor response 1-like protein Os04g0395600

Gene

Os04g0395600

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

Miscellaneous

The myo-inositol hexakisphosphate acts as a structural cofactor.By similarity

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei69Myo-inositol hexakisphosphateBy similarity1
Binding sitei340Myo-inositol hexakisphosphateBy similarity1
Binding sitei431Myo-inositol hexakisphosphateBy similarity1
Binding sitei504Myo-inositol hexakisphosphateBy similarity1

<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

Biological processAuxin signaling pathway, Ubl conjugation pathway

Enzyme and pathway databases

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00143

<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:
Transport inhibitor response 1-like protein Os04g0395600
Short name:
TIR1-like protein
<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:Os04g0395600, LOC_Os04g32460
ORF Names:OsJ_14626, OSJNBa0072K14.18
<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 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

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_00003707321 – 575Transport inhibitor response 1-like protein Os04g0395600Add BLAST575

Proteomic databases

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

More...
PaxDbi
Q7XVM8

PRoteomics IDEntifications database

More...
PRIDEi
Q7XVM8

<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
Q7XVM8 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q7XVM8 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

<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

Part of a SCF (SKP1-cullin-F-box) protein ligase complex. May interact with auxin and auxin-responsive proteins (By similarity).

By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections (‘Function’, ‘PTM / Processing’, ‘Pathology and Biotech’) according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei134Interaction with auxin-responsive proteinsBy similarity1
Sitei160Interaction with auxin-responsive proteinsBy similarity1
Sitei375Interaction with auxin-responsive proteinsBy similarity1
Sitei484Interaction with auxin-responsive proteinsBy similarity1

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
4530.OS04T0395600-01

<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
Q7XVM8

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">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>Domaini1 – 45F-boxAdd BLAST45

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>Regioni76 – 77Interaction with auxin-responsive proteinsBy similarity2
Regioni108 – 109Myo-inositol hexakisphosphate bindingBy similarity2
Regioni343 – 348Interaction with auxin-responsive proteinsBy similarity6
Regioni396 – 398Myo-inositol hexakisphosphate bindingBy similarity3
Regioni400 – 404Interaction with auxin-responsive proteinsBy similarity5
Regioni459 – 460Interaction with auxin-responsive proteinsBy similarity2
Regioni479 – 480Myo-inositol hexakisphosphate bindingBy similarity2

<p>This subsection of the ‘Family and domains’ section provides general information on the biological role of a domain. The term ‘domain’ is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

The F-box is necessary for the interaction with SKP1.By similarity

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1947 Eukaryota
ENOG410XQ54 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000239805

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q7XVM8

Identification of Orthologs from Complete Genome Data

More...
OMAi
LEVAPRC

Database of Orthologous Groups

More...
OrthoDBi
1282076at2759

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.80.10.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR041567 COI1_F-box
IPR036047 F-box-like_dom_sf
IPR001810 F-box_dom
IPR006553 Leu-rich_rpt_Cys-con_subtyp
IPR032675 LRR_dom_sf
IPR041101 Transp_inhibit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF18511 F-box_5, 1 hit
PF18791 Transp_inhibit, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00256 FBOX, 1 hit
SM00367 LRR_CC, 6 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF81383 SSF81383, 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>. 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>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 1 potential isoform that is computationally mapped.Show allAlign All

Q7XVM8-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTYFPEEVVE HIFSFLPAQR DRNTVSLVCK VWYEIERLSR RGVFVGNCYA
60 70 80 90 100
VRAGRVAARF PNVRALTVKG KPHFADFNLV PPDWGGYAGP WIEAAARGCH
110 120 130 140 150
GLEELRMKRM VVSDESLELL ARSFPRFRAL VLISCEGFST DGLAAVASHC
160 170 180 190 200
KLLRELDLQE NEVEDRGPRW LSCFPDSCTS LVSLNFACIK GEVNAGSLER
210 220 230 240 250
LVSRSPNLRS LRLNRSVSVD TLAKILLRTP NLEDLGTGNL TDDFQTESYF
260 270 280 290 300
KLTSALEKCK MLRSLSGFWD ASPVCLSFIY PLCAQLTGLN LSYAPTLDAS
310 320 330 340 350
DLTKMISRCV KLQRLWVLDC ISDKGLQVVA SSCKDLQELR VFPSDFYVAG
360 370 380 390 400
YSAVTEEGLV AVSLGCPKLN SLLYFCHQMT NAALVTVAKN CPNFTRFRLC
410 420 430 440 450
ILEPGKPDVV TSQPLDEGFG AIVRECKGLQ RLSISGLLTD KVFMYIGKYA
460 470 480 490 500
KQLEMLSIAF AGDSDKGMMH VMNGCKNLRK LEIRDSPFGD AALLGNFARY
510 520 530 540 550
ETMRSLWMSS CNVTLKGCQV LASKMPMLNV EVINERDGSN EMEENHGDLP
560 570
KVEKLYVYRT TAGARDDAPN FVKIL
Length:575
Mass (Da):64,055
Last modified:October 1, 2003 - 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:i63EBFB6B510AF668
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 is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0P0WA53A0A0P0WA53_ORYSJ
Os04g0395600 protein
Os04g0395600, OSNPB_040395600
74Annotation 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>

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
AL606621 Genomic DNA Translation: CAD40545.1
AP008210 Genomic DNA Translation: BAF14573.1
AP014960 Genomic DNA Translation: BAS88999.1
CM000141 Genomic DNA Translation: EAZ30576.1
AK100862 mRNA Translation: BAG94804.1

NCBI Reference Sequences

More...
RefSeqi
XP_015635915.1, XM_015780429.1

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
Os04t0395600-01; Os04t0395600-01; Os04g0395600
Os04t0395600-02; Os04t0395600-02; Os04g0395600

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
4335696

Gramene; a comparative resource for plants

More...
Gramenei
Os04t0395600-01; Os04t0395600-01; Os04g0395600
Os04t0395600-02; Os04t0395600-02; Os04g0395600

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
osa:4335696

<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
AL606621 Genomic DNA Translation: CAD40545.1
AP008210 Genomic DNA Translation: BAF14573.1
AP014960 Genomic DNA Translation: BAS88999.1
CM000141 Genomic DNA Translation: EAZ30576.1
AK100862 mRNA Translation: BAG94804.1
RefSeqiXP_015635915.1, XM_015780429.1

3D structure databases

SMRiQ7XVM8
ModBaseiSearch...

Protein-protein interaction databases

STRINGi4530.OS04T0395600-01

Proteomic databases

PaxDbiQ7XVM8
PRIDEiQ7XVM8

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOs04t0395600-01; Os04t0395600-01; Os04g0395600
Os04t0395600-02; Os04t0395600-02; Os04g0395600
GeneIDi4335696
GrameneiOs04t0395600-01; Os04t0395600-01; Os04g0395600
Os04t0395600-02; Os04t0395600-02; Os04g0395600
KEGGiosa:4335696

Phylogenomic databases

eggNOGiKOG1947 Eukaryota
ENOG410XQ54 LUCA
HOGENOMiHOG000239805
InParanoidiQ7XVM8
OMAiLEVAPRC
OrthoDBi1282076at2759

Enzyme and pathway databases

UniPathwayiUPA00143

Gene expression databases

ExpressionAtlasiQ7XVM8 baseline and differential
GenevisibleiQ7XVM8 OS

Family and domain databases

Gene3Di3.80.10.10, 1 hit
InterProiView protein in InterPro
IPR041567 COI1_F-box
IPR036047 F-box-like_dom_sf
IPR001810 F-box_dom
IPR006553 Leu-rich_rpt_Cys-con_subtyp
IPR032675 LRR_dom_sf
IPR041101 Transp_inhibit
PfamiView protein in Pfam
PF18511 F-box_5, 1 hit
PF18791 Transp_inhibit, 1 hit
SMARTiView protein in SMART
SM00256 FBOX, 1 hit
SM00367 LRR_CC, 6 hits
SUPFAMiSSF81383 SSF81383, 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 nameiTIR1B_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: Q7XVM8
Secondary accession number(s): A0A0P0WA04
<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, 2003
Last modified: May 8, 2019
This is version 91 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
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