Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Entry version 104 (12 Aug 2020)
Sequence version 1 (01 Jul 1997)
Previous versions | rss
Add a publicationFeedback
Protein

RNA polymerase sigma factor RpoD

Gene

rpoD

Organism
Xanthomonas campestris pv. campestris
Status
Unreviewed-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>
-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

Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth.UniRule annotation

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 and type of each DNA-binding domain present within the protein.<p><a href='/help/dna_bind' target='_top'>More...</a></p>DNA bindingi581 – 600H-T-H motifUniRule annotationAdd BLAST20

<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-bindingUniRule annotationARBA annotation, Sigma factorUniRule annotationARBA annotation
Biological processTranscription, Transcription regulation

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
2.7.7.6, 6708

<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:
RNA polymerase sigma factor RpoDUniRule annotation
Alternative name(s):
Sigma-70UniRule annotation
<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:rpoDUniRule annotationImported
<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>OrganismiXanthomonas campestris pv. campestrisImported
<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 identifieri340 [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 lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXanthomonas

<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

Keywords - Cellular componenti

CytoplasmUniRule annotationARBA annotation

<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

Interacts transiently with the RNA polymerase catalytic core.

UniRule annotation

<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>Domaini411 – 424RNA_pol_sigma70InterPro annotationAdd BLAST14
Domaini580 – 606RNA_pol_sigma70InterPro annotationAdd BLAST27

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>Regioni158 – 181DisorderedSequence analysisAdd BLAST24
Regioni387 – 457Sigma-70 factor domain-2UniRule annotationAdd BLAST71
Regioni466 – 542Sigma-70 factor domain-3UniRule annotationAdd BLAST77
Regioni555 – 608Sigma-70 factor domain-4UniRule annotationAdd BLAST54

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and domains' section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili324 – 344Sequence analysisAdd BLAST21
Coiled coili581 – 601Sequence analysisAdd BLAST21

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi411 – 414Interaction with polymerase core subunit RpoCUniRule annotation4

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 biasi162 – 181PolyampholyteSequence analysisAdd BLAST20

<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 sigma-70 factor family. RpoD/SigA subfamily.UniRule annotation

Keywords - Domaini

Coiled coilSequence analysis

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.10.10, 2 hits
1.10.220.120, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00963, Sigma70_RpoD_SigA, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR014284, RNA_pol_sigma-70_dom
IPR000943, RNA_pol_sigma70
IPR009042, RNA_pol_sigma70_r1_2
IPR007627, RNA_pol_sigma70_r2
IPR007624, RNA_pol_sigma70_r3
IPR007630, RNA_pol_sigma70_r4
IPR007631, RNA_pol_sigma_70_non-ess
IPR007127, RNA_pol_sigma_70_r1_1
IPR042189, RNA_pol_sigma_70_r1_1_sf
IPR013325, RNA_pol_sigma_r2
IPR013324, RNA_pol_sigma_r3/r4-like
IPR012760, RNA_pol_sigma_RpoD_C
IPR028630, Sigma70_RpoD
IPR036388, WH-like_DNA-bd_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF04546, Sigma70_ner, 1 hit
PF03979, Sigma70_r1_1, 1 hit
PF00140, Sigma70_r1_2, 1 hit
PF04542, Sigma70_r2, 1 hit
PF04539, Sigma70_r3, 1 hit
PF04545, Sigma70_r4, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00046, SIGMA70FCT

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF88659, SSF88659, 2 hits
SSF88946, SSF88946, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02393, RpoD_Cterm, 1 hit
TIGR02937, sigma70-ECF, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00715, SIGMA70_1, 1 hit
PS00716, SIGMA70_2, 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.

O08348-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MANERPAQQS DIKLLISKGL EQGYLTYAEV NDHLPDDLVD PEQIEDIISM
60 70 80 90 100
INGMGIDVHE VAPDAETLLL NDGNTGNREV DDTAAEAAAA ALTALDTEGG
110 120 130 140 150
RTTDPVRMYM REMGTVELLT REAEIAIAKR IEEGLSQVQA ALGTFPLVDR
160 170 180 190 200
AAAVRLRSAQ GRQEAPGRDR GRLQRPDRRS RRCRCSLAAA GRSPLTKMRW
210 220 230 240 250
TKTQTKTAMT TLPRKKSGPT VRTRWKLPRA WRTWPTSTPS SRRPYVKYGA
260 270 280 290 300
EHKNVAKARE DMAAIFTTLN VPLTDALVTQ LRGVVNGIKD HERKVLHLAT
310 320 330 340 350
TVARMPRKDF IRSWEGNQTN LEWVEDALKR KQKWSSALRD VKDQIVSEQQ
360 370 380 390 400
GSIEMEKANY LTLAEIKDIS RAMAYGEAKA RKAKKEMVEA NLRLVISIAK
410 420 430 440 450
KYTNRGLQFL DLIQEGNIGL MKAVDKFEYR RGYKFSTYAT WWIRQAITRS
460 470 480 490 500
IADQARTIRI PVHMIETINK LNRISRQMLQ QFGREPTPEE LAKEMDMPED
510 520 530 540 550
KIRKVMKIAK EPISMETPIG DDEDSHLGDF IEDTNVESPI DNTTNINLSE
560 570 580 590 600
TVRDVLAGLT PREAKVLRMR FGIDMNTDHT LEEVGKQFDV TRERIRQIEA
610 620
KALRKLRHPS RSEQLRSFLD ID
Length:622
Mass (Da):70,694
Last modified:July 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:iD613B9794FEFD7F8
GO

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
U82763 Genomic DNA Translation: AAC45155.1

Protein sequence database of the Protein Information Resource

More...
PIRi
JC5425

<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
U82763 Genomic DNA Translation: AAC45155.1
PIRiJC5425

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...

Enzyme and pathway databases

BRENDAi2.7.7.6, 6708

Family and domain databases

Gene3Di1.10.10.10, 2 hits
1.10.220.120, 1 hit
HAMAPiMF_00963, Sigma70_RpoD_SigA, 1 hit
InterProiView protein in InterPro
IPR014284, RNA_pol_sigma-70_dom
IPR000943, RNA_pol_sigma70
IPR009042, RNA_pol_sigma70_r1_2
IPR007627, RNA_pol_sigma70_r2
IPR007624, RNA_pol_sigma70_r3
IPR007630, RNA_pol_sigma70_r4
IPR007631, RNA_pol_sigma_70_non-ess
IPR007127, RNA_pol_sigma_70_r1_1
IPR042189, RNA_pol_sigma_70_r1_1_sf
IPR013325, RNA_pol_sigma_r2
IPR013324, RNA_pol_sigma_r3/r4-like
IPR012760, RNA_pol_sigma_RpoD_C
IPR028630, Sigma70_RpoD
IPR036388, WH-like_DNA-bd_sf
PfamiView protein in Pfam
PF04546, Sigma70_ner, 1 hit
PF03979, Sigma70_r1_1, 1 hit
PF00140, Sigma70_r1_2, 1 hit
PF04542, Sigma70_r2, 1 hit
PF04539, Sigma70_r3, 1 hit
PF04545, Sigma70_r4, 1 hit
PRINTSiPR00046, SIGMA70FCT
SUPFAMiSSF88659, SSF88659, 2 hits
SSF88946, SSF88946, 1 hit
TIGRFAMsiTIGR02393, RpoD_Cterm, 1 hit
TIGR02937, sigma70-ECF, 1 hit
PROSITEiView protein in PROSITE
PS00715, SIGMA70_1, 1 hit
PS00716, SIGMA70_2, 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 nameiO08348_XANCE
<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: O08348
<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/TrEMBL: July 1, 1997
Last sequence update: July 1, 1997
Last modified: August 12, 2020
This is version 104 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 statusiUnreviewed (UniProtKB/TrEMBL)
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

We'd like to inform you that we have updated our Privacy Notice to comply with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018.

Do not show this banner again