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Entry version 84 (16 Oct 2019)
Sequence version 1 (01 Nov 1997)
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Protein

Uncharacterized protein y4jD

Gene

NGR_a03120

Organism
Sinorhizobium fredii (strain NBRC 101917 / NGR234)
Status
Reviewed-Annotation 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>
-Protein inferred from homologyi <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

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
SFRE394:GBYN-6343-MONOMER

<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:
Uncharacterized protein y4jD
<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:NGR_a03120
ORF Names:y4jD
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates if the gene coding for the protein originates from the hydrogenosome, the mitochondrion, the nucleomorph, different plastids or a plasmid. The absence of this section means that the gene is located in one of the main chromosomal element(s).<p><a href='/help/encoded_on' target='_top'>More...</a></p>Encoded oniPlasmid sym pNGR234a0 Publication
<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>OrganismiSinorhizobium fredii (strain NBRC 101917 / NGR234)
<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 identifieri394 [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 lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
<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
  • UP000001054 <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: Plasmid sym pNGR234a

<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_00002008701 – 511Uncharacterized protein y4jDAdd BLAST511

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P55504

<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

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STRINGi
394.NGR_a03120

<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

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SMRi
P55504

Database of comparative protein structure models

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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

<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 transposase 25 family.Curated

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

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HOGENOMi
HOG000222395

Identification of Orthologs from Complete Genome Data

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OMAi
TETARCE

Database of Orthologous Groups

More...
OrthoDBi
768876at2

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR039552 IS66_C
IPR027417 P-loop_NTPase
IPR004291 Transposase_25
IPR024463 Transposase_TnpC_homeodom
IPR024474 Znf_dom_IS66

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF03050 DDE_Tnp_IS66, 1 hit
PF13817 DDE_Tnp_IS66_C, 1 hit
PF13007 LZ_Tnp_IS66, 1 hit
PF13005 zf-IS66, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF52540 SSF52540, 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>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.

P55504-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSLRHEQLPQ DVEQLSRMVL DLRAEVAYLK RLIHGARSEV LSTIDPTQTS
60 70 80 90 100
LDLGDLSTVP VAANDDQPDG SRQSVRGRQS AARNIGFLPK HLPRYDVIIE
110 120 130 140 150
PESRACACCS GALHRIGETT SEALDIVPAI LRVKRTIRPR YACRACENGV
160 170 180 190 200
MQAPAPARFM DGGMATTALA AHIVVSKFAW HLPLYRQAQI FAGYGITLDR
210 220 230 240 250
GTLGIWGTRV AWWLKPLYDR LLAFIRSQPR VFSDETRLPR LDPGRKRTKV
260 270 280 290 300
CQLWAQAVDD RPWKGPAPPA VGYIFSESRS AREAERQLAS FNGVLQVDGY
310 320 330 340 350
TAYKTLARHR GKSNSSPLRL AFCLAHARRK FVDVVKLTGS PEALEIVSIL
360 370 380 390 400
AEVYQIEREI RGQSAEDRQN ARQLRSAPVM RQLKARLLDL KNDISTQSAL
410 420 430 440 450
AKAIKYTLAH WTGLNAFLDD GTIEVDSNIV ERSMKSVALT RKNSMFVGNV
460 470 480 490 500
QGGETFAVLA SLINSAKLSG LDPYAWLADV LERIVSGSTT INQLETLLPW
510
NWKADQVGQA A
Length:511
Mass (Da):56,702
Last modified:November 1, 1997 - 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:iBB67F48B9EDE9601
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
U00090 Genomic DNA Translation: AAB91716.1

NCBI Reference Sequences

More...
RefSeqi
NP_443914.1, NC_000914.2
WP_010875332.1, NC_000914.2

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAB91716; AAB91716; NGR_a03120

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
962582

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rhi:NGR_a03120

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|394.7.peg.320

<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
U00090 Genomic DNA Translation: AAB91716.1
RefSeqiNP_443914.1, NC_000914.2
WP_010875332.1, NC_000914.2

3D structure databases

SMRiP55504
ModBaseiSearch...

Protein-protein interaction databases

STRINGi394.NGR_a03120

Proteomic databases

PRIDEiP55504

Genome annotation databases

EnsemblBacteriaiAAB91716; AAB91716; NGR_a03120
GeneIDi962582
KEGGirhi:NGR_a03120
PATRICifig|394.7.peg.320

Phylogenomic databases

HOGENOMiHOG000222395
OMAiTETARCE
OrthoDBi768876at2

Enzyme and pathway databases

BioCyciSFRE394:GBYN-6343-MONOMER

Family and domain databases

InterProiView protein in InterPro
IPR039552 IS66_C
IPR027417 P-loop_NTPase
IPR004291 Transposase_25
IPR024463 Transposase_TnpC_homeodom
IPR024474 Znf_dom_IS66
PfamiView protein in Pfam
PF03050 DDE_Tnp_IS66, 1 hit
PF13817 DDE_Tnp_IS66_C, 1 hit
PF13007 LZ_Tnp_IS66, 1 hit
PF13005 zf-IS66, 1 hit
SUPFAMiSSF52540 SSF52540, 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 nameiY4JD_SINFN
<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: P55504
<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: November 1, 1997
Last sequence update: November 1, 1997
Last modified: October 16, 2019
This is version 84 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 programProkaryotic 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

<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>Keywords - Technical termi

Complete proteome, Plasmid

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Rhizobium plasmid pNGR234a
    Rhizobium plasmid pNGR234a: entries and gene names
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