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Entry version 135 (07 Oct 2020)
Sequence version 3 (23 Nov 2004)
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Protein

UPF0313 protein YgiQ

Gene

ygiQ

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-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

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

[4Fe-4S] clusterCuratedNote: Binds 1 [4Fe-4S] cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.Curated

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi386Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1
Metal bindingi390Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1
Metal bindingi393Iron-sulfur (4Fe-4S-S-AdoMet)Sequence analysis1

<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

<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

Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
EcoCyc:G7568-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%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:
UPF0313 protein YgiQ
<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:ygiQ
Synonyms:ygiR
Ordered Locus Names:b4469, JW5501
<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>OrganismiEscherichia coli (strain K12)
<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 identifieri83333 [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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
<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
  • UP000000318 <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
  • UP000000625 Componenti: Chromosome

<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_00000763831 – 739UPF0313 protein YgiQAdd BLAST739

Proteomic databases

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

More...
PaxDbi
Q46861

PRoteomics IDEntifications database

More...
PRIDEi
Q46861

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
4260933, 21 interactors

Database of interacting proteins

More...
DIPi
DIP-12224N

Protein interaction database and analysis system

More...
IntActi
Q46861, 2 interactors

STRING: functional protein association networks

More...
STRINGi
511145.b4469

<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>Domaini372 – 650Radical SAM corePROSITE-ProRule annotationAdd BLAST279

<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 UPF0313 family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG1032, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_018288_2_0_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q46861

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q46861

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.80.30.20, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_01251, UPF0313, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006638, Elp3/MiaB/NifB
IPR020612, Methylthiotransferase_CS
IPR007197, rSAM
IPR023404, rSAM_horseshoe
IPR022946, UPF0313
IPR024560, UPF0313_C
IPR013704, UPF0313_N

The PANTHER Classification System

More...
PANTHERi
PTHR32331, PTHR32331, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF11842, DUF3362, 1 hit
PF04055, Radical_SAM, 1 hit
PF08497, Radical_SAM_N, 1 hit

Structure-Function Linkage Database

More...
SFLDi
SFLDS00029, Radical_SAM, 1 hit
SFLDG01069, UPF0313, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

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SMARTi
View protein in SMART
SM00729, Elp3, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR03904, SAM_YgiQ, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51918, RADICAL_SAM, 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>Sequencei

<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.

Q46861-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSSISLIQPD RDLFSWPQYW AACFGPAPFL PMSREEMDQL GWDSCDIILV
60 70 80 90 100
TGDAYVDHPS FGMAICGRML EAQGFRVGII AQPDWSSKDD FMRLGKPNLF
110 120 130 140 150
FGVTAGNMDS MINRYTADRR LRHDDAYTPD NVAGKRPDRA TLVYTQRCKE
160 170 180 190 200
AWKDVPVILG GIEASLRRTA HYDYWSDTVR RSVLVDSKAD MLMFGNGERP
210 220 230 240 250
LVEVAHRLAM GEPISEIRDV RNTAIIVKEA LPGWSGVDST RLDTPGKIDP
260 270 280 290 300
IPHPYGEDLP CADNKPVAPK KQEAKAVTVQ PPRPKPWEKT YVLLPSFEKV
310 320 330 340 350
KGDKVLYAHA SRILHHETNP GCARALMQKH GDRYVWINPP AIPLSTEEMD
360 370 380 390 400
SVFALPYKRV PHPAYGNARI PAYEMIRFSV NIMRGCFGGC SFCSITEHEG
410 420 430 440 450
RIIQSRSEDS IINEIEAIRD TVPGFTGVIS DLGGPTANMY MLRCKSPRAE
460 470 480 490 500
QTCRRLSCVY PDICPHMDTN HEPTINLYRR ARDLKGIKKI LIASGVRYDI
510 520 530 540 550
AVEDPRYIKE LATHHVGGYL KIAPEHTEEG PLSKMMKPGM GSYDRFKELF
560 570 580 590 600
DTYSKQAGKE QYLIPYFISA HPGTRDEDMV NLALWLKKHR FRLDQVQNFY
610 620 630 640 650
PSPLANSTTM YYTGKNPLAK IGYKSEDVFV PKGDKQRRLH KALLRYHDPA
660 670 680 690 700
NWPLIRQALE AMGKKHLIGS RRDCLVPAPT IEEMREARRQ NRNTRPALTK
710 720 730
HTPMATQRQT PATAKKASST QSRPVNAGAK KRPKAAVGR
Length:739
Mass (Da):83,478
Last modified:November 23, 2004 - v3
<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:iF85248757612026B
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 AAA69183 differs from that shown. Reason: Frameshift.Curated
The sequence AAA69184 differs from that shown. Reason: Frameshift.Curated

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
U28377 Genomic DNA Translation: AAA69183.1 Frameshift.
U28377 Genomic DNA Translation: AAA69184.1 Frameshift.
U00096 Genomic DNA Translation: AAT48161.1
AP009048 Genomic DNA Translation: BAE77072.1

NCBI Reference Sequences

More...
RefSeqi
WP_000095187.1, NZ_STEB01000001.1
YP_026196.1, NC_000913.3

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAT48161; AAT48161; b4469
BAE77072; BAE77072; BAE77072

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
948963

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ecj:JW5501
eco:b4469

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|1411691.4.peg.3714

<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
U28377 Genomic DNA Translation: AAA69183.1 Frameshift.
U28377 Genomic DNA Translation: AAA69184.1 Frameshift.
U00096 Genomic DNA Translation: AAT48161.1
AP009048 Genomic DNA Translation: BAE77072.1
RefSeqiWP_000095187.1, NZ_STEB01000001.1
YP_026196.1, NC_000913.3

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

BioGRIDi4260933, 21 interactors
DIPiDIP-12224N
IntActiQ46861, 2 interactors
STRINGi511145.b4469

Proteomic databases

PaxDbiQ46861
PRIDEiQ46861

Genome annotation databases

EnsemblBacteriaiAAT48161; AAT48161; b4469
BAE77072; BAE77072; BAE77072
GeneIDi948963
KEGGiecj:JW5501
eco:b4469
PATRICifig|1411691.4.peg.3714

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...
EchoBASEi
EB2838

Phylogenomic databases

eggNOGiCOG1032, Bacteria
HOGENOMiCLU_018288_2_0_6
InParanoidiQ46861
PhylomeDBiQ46861

Enzyme and pathway databases

BioCyciEcoCyc:G7568-MONOMER

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q46861

Family and domain databases

Gene3Di3.80.30.20, 1 hit
HAMAPiMF_01251, UPF0313, 1 hit
InterProiView protein in InterPro
IPR006638, Elp3/MiaB/NifB
IPR020612, Methylthiotransferase_CS
IPR007197, rSAM
IPR023404, rSAM_horseshoe
IPR022946, UPF0313
IPR024560, UPF0313_C
IPR013704, UPF0313_N
PANTHERiPTHR32331, PTHR32331, 1 hit
PfamiView protein in Pfam
PF11842, DUF3362, 1 hit
PF04055, Radical_SAM, 1 hit
PF08497, Radical_SAM_N, 1 hit
SFLDiSFLDS00029, Radical_SAM, 1 hit
SFLDG01069, UPF0313, 1 hit
SMARTiView protein in SMART
SM00729, Elp3, 1 hit
TIGRFAMsiTIGR03904, SAM_YgiQ, 1 hit
PROSITEiView protein in PROSITE
PS51918, RADICAL_SAM, 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 nameiYGIQ_ECOLI
<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: Q46861
Secondary accession number(s): Q2M9I4, Q46862, Q6BF53
<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: July 15, 1998
Last sequence update: November 23, 2004
Last modified: October 7, 2020
This is version 135 of the entry and version 3 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

Keywords - Technical termi

Reference proteome

Documents

  1. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries
  2. SIMILARITY comments
    Index of protein domains and families
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