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Entry version 62 (29 Sep 2021)
Sequence version 1 (03 Mar 2009)
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Protein

DNA-directed RNA polymerase subunit Rpo1N

Gene

rpo1N

Organism
Saccharolobus shibatae (Sulfolobus shibatae)
Status
Reviewed-Annotation score:

Annotation score:4 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 protein 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

DNA-dependent RNA polymerase (RNAP) catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Forms the clamp head domain.

UniRule annotation3 Publications

Miscellaneous

Corresponds to about the first two-thirds of the bacterial beta' subunit.1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<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

Protein has several cofactor binding sites:

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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 bindingi58Zinc 1UniRule annotationCombined sources1
Metal bindingi61Zinc 1UniRule annotationCombined sources1
Metal bindingi68Zinc 1UniRule annotationCombined sources1
Metal bindingi71Zinc 1; via tele nitrogenUniRule annotationCombined sources1
<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 sitei88Template DNA1 Publication1
Metal bindingi98Zinc 2UniRule annotationCombined sources1 Publication1
Metal bindingi101Zinc 2UniRule annotationCombined sources1 Publication1
Binding sitei138Non-template DNA1 Publication1
Metal bindingi146Zinc 2UniRule annotationCombined sources1 Publication1
Metal bindingi149Zinc 2UniRule annotationCombined sources1
Binding sitei303Template DNA1 Publication1
Binding sitei323Template DNA1 Publication1
Binding sitei422Template DNA1 Publication1
Metal bindingi456MagnesiumUniRule annotationCombined sources1 Publication1
Metal bindingi458MagnesiumUniRule annotationCombined sources1 Publication1
Metal bindingi460MagnesiumUniRule annotationCombined sources1 Publication1
Binding sitei815Non-template DNA1 Publication1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi92 – 95Non-template DNA1 Publication4
Nucleotide bindingi305 – 310Template DNA1 Publication6
Nucleotide bindingi812 – 822Template DNA1 PublicationAdd BLAST11

<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-binding, Nucleotidyltransferase, Transferase
Biological processTranscription
LigandMagnesium, Metal-binding, Zinc

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
2.7.7.6, 6162

<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:
DNA-directed RNA polymerase subunit Rpo1N1 PublicationUniRule annotation (EC:2.7.7.6UniRule annotation1 Publication)
Alternative name(s):
DNA-directed RNA polymerase subunit A'UniRule annotation
<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
Name:rpo1N1 PublicationUniRule annotation
Synonyms:rpoA1UniRule annotation
<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>OrganismiSaccharolobus shibatae (Sulfolobus shibatae)
<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 identifieri2286 [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 lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSaccharolobus

<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

Cytoplasm, DNA-directed RNA polymerase

<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_00004537851 – 880DNA-directed RNA polymerase subunit Rpo1NAdd BLAST880

<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 the 13-subunit RNA polymerase complex (PubMed:19419240, PubMed:21265742, PubMed:22848102). Rpo1N and Rpo5 form a cleft which docks Rpo13.

Interacts with Rpo8 on the periphery of the clamp head (PubMed:19419240, PubMed:21265742, PubMed:22848102).

3 Publications

<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
B8YB53

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
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 RNA polymerase beta' chain family.UniRule annotation1 Publication

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.132.30, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00863, RNApol_arch_Rpo1N, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000722, RNA_pol_asu
IPR006592, RNA_pol_N
IPR007080, RNA_pol_Rpb1_1
IPR007066, RNA_pol_Rpb1_3
IPR007083, RNA_pol_Rpb1_4
IPR007081, RNA_pol_Rpb1_5
IPR012758, RNAP_A1
IPR038120, Rpb1_funnel_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF04997, RNA_pol_Rpb1_1, 1 hit
PF00623, RNA_pol_Rpb1_2, 1 hit
PF04983, RNA_pol_Rpb1_3, 1 hit
PF05000, RNA_pol_Rpb1_4, 1 hit
PF04998, RNA_pol_Rpb1_5, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00663, RPOLA_N, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02390, RNA_pol_rpoA1, 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.

B8YB53-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSEKNIKGIK FGILSPDEIR KMSVTAIITP DVYDEDGTPI EGSVMDPRLG
60 70 80 90 100
VIEPGQKCPT CGNTLGNCPG HFGHIELVRP VIHVGFVKHV YEFLKATCRR
110 120 130 140 150
CGRVKISEDE IEKYSRIYNA IKKRWPSAAR RLTEYVKKTA MKAQVCPHCG
160 170 180 190 200
EKQFKIKLEK PYNFYEERKE GVAKLTPSDI RERLEKVPES DVEILGYDPT
210 220 230 240 250
TSRPEWMILT VLPVPPITIR PSIMIESGIR AEDDLTHKLV DIVRINERLK
260 270 280 290 300
ESIDAGAPQL IIEDLWDLLQ YHVATYFDNE IPGLPPSKHR SGRPLRTLAQ
310 320 330 340 350
RLKGKEGRFR GNLSGKRVDF SSRTVISPDP NISIDEVGVP EIIARTLTVP
360 370 380 390 400
ERITPWNIEK LRQFVINGPD KWPGANYVIR PDGRRIDLRY VKDRKELAST
410 420 430 440 450
LAPGYVVERH LTDGDVVLFN RQPSLHRISM MAHRVRVLKG LTFRLNLLVC
460 470 480 490 500
PPYNADFDGD EMNLHVPQSE EAIAEAKEIM LVHKNIITPR YGGPIIGAAQ
510 520 530 540 550
DYISGAYLLT VKTTLLTKEE AQQILGVADV KIDLGEPAIL APREYYTGKQ
560 570 580 590 600
VVSAFLPKDF NFHGQANVSS GPRLCKNEDC PHDSYVVIKN GILLEGVFDK
610 620 630 640 650
KAIGNQQPES ILHWLIKEYS DEYGKWLMDN LFRVFIRFVE LQGFTMRLED
660 670 680 690 700
VSLGDDVKKE IYNEIDRAKV EVDNLIQKYK NGELEPIPGR TLEESLENYI
710 720 730 740 750
LDTLDKLRST AGDIASKYLD PFNFAYVMAR TGARGSVLNI TQMAAMLGQQ
760 770 780 790 800
SVRGERIKRG YMTRTLPHFK PYDISPEARG FIYSSFRTGL KPTELFFHAA
810 820 830 840 850
GGREGLVDTA VRTSQSGYMQ RRLINALSDL RAEYDGTVRS LYGEVIQVAY
860 870 880
GDDGVFPMYS AHGKTVDVNR IFERVVGWKT
Length:880
Mass (Da):99,625
Last modified:March 3, 2009 - 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:i90F176C758C6F7A9
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
FJ515665 Genomic DNA Translation: ACL36488.1

<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
FJ515665 Genomic DNA Translation: ACL36488.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2WAQX-ray3.35A1-880[»]
2WB1X-ray3.52A/W1-880[»]
2Y0SX-ray3.80A/W1-880[»]
4AYBX-ray3.20A1-880[»]
4V8SX-ray4.32AW/BA1-880[»]
SMRiB8YB53
ModBaseiSearch...
PDBe-KBiSearch...

Enzyme and pathway databases

BRENDAi2.7.7.6, 6162

Family and domain databases

Gene3Di1.10.132.30, 1 hit
HAMAPiMF_00863, RNApol_arch_Rpo1N, 1 hit
InterProiView protein in InterPro
IPR000722, RNA_pol_asu
IPR006592, RNA_pol_N
IPR007080, RNA_pol_Rpb1_1
IPR007066, RNA_pol_Rpb1_3
IPR007083, RNA_pol_Rpb1_4
IPR007081, RNA_pol_Rpb1_5
IPR012758, RNAP_A1
IPR038120, Rpb1_funnel_sf
PfamiView protein in Pfam
PF04997, RNA_pol_Rpb1_1, 1 hit
PF00623, RNA_pol_Rpb1_2, 1 hit
PF04983, RNA_pol_Rpb1_3, 1 hit
PF05000, RNA_pol_Rpb1_4, 1 hit
PF04998, RNA_pol_Rpb1_5, 1 hit
SMARTiView protein in SMART
SM00663, RPOLA_N, 1 hit
TIGRFAMsiTIGR02390, RNA_pol_rpoA1, 1 hit

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 nameiRPO1N_SACSH
<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: B8YB53
<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: September 29, 2021
Last sequence update: March 3, 2009
Last modified: September 29, 2021
This is version 62 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

Keywords - Technical termi

3D-structure

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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