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Entry version 65 (08 May 2019)
Sequence version 1 (07 Jul 2009)
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Protein
Submitted name:

RNA polymerase II third largest subunit B44, part of central core

Gene

PAS_chr4_0344

Organism
Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast) (Pichia pastoris)
Status
Unreviewed-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>
-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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ 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 bindingi82Zinc; via carbonyl oxygenCombined sources1
Metal bindingi85ZincCombined sources1
Metal bindingi87ZincCombined sources1
Metal bindingi91ZincCombined sources1
Metal bindingi94ZincCombined sources1

<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

LigandMetal-bindingCombined sources, ZincCombined sources

<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
Submitted name:
RNA polymerase II third largest subunit B44, part of central coreImported
<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:PAS_chr4_0344Imported
<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>OrganismiKomagataella phaffii (strain GS115 / ATCC 20864) (Yeast) (Pichia pastoris)Imported
<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 identifieri644223 [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 lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesPhaffomycetaceaeKomagataella
<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
  • UP000000314 <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 Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<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

GO - Molecular functioni

Protein-protein interaction databases

Protein interaction database and analysis system

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IntActi
C4R7L2, 1 interactor

STRING: functional protein association networks

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STRINGi
4922.CAY71587

<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

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5X4ZX-ray7.80C/O1-304[»]
5X50X-ray4.29C1-304[»]
5X51X-ray7.00C/O1-304[»]
5XOGX-ray3.00C1-304[»]
5XONelectron microscopy3.83C1-304[»]
6A5Lelectron microscopy5.60C1-304[»]
6A5Oelectron microscopy9.90C1-304[»]
6A5Pelectron microscopy7.00C1-304[»]
6A5Relectron microscopy8.70C1-304[»]
6A5Telectron microscopy6.70C1-304[»]
6A5Uelectron microscopy7.60C1-304[»]
6A5Velectron microscopy6.90C1-304[»]
6IR9electron microscopy3.80C1-304[»]
6J4Welectron microscopy7.90C1-304[»]
6J4Xelectron microscopy4.30C1-304[»]
6J4Yelectron microscopy4.30C1-304[»]
6J4Zelectron microscopy4.10C1-304[»]
6J50electron microscopy4.70C1-304[»]
6J51electron microscopy4.20C1-304[»]

SWISS-MODEL Repository - a database of annotated 3D protein structure models

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SMRi
C4R7L2

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
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>Domaini16 – 261RPOLDInterPro annotationAdd BLAST246

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1522 Eukaryota
COG0202 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000230844

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
C4R7L2

KEGG Orthology (KO)

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KOi
K03011

Identification of Orthologs from Complete Genome Data

More...
OMAi
PENIVMM

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.170.120.12, 1 hit
3.30.1360.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001514 DNA-dir_RNA_pol_30-40kDasu_CS
IPR011262 DNA-dir_RNA_pol_insert
IPR011263 DNA-dir_RNA_pol_RpoA/D/Rpb3
IPR036603 RBP11-like
IPR036643 RNApol_insert_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01000 RNA_pol_A_bac, 1 hit
PF01193 RNA_pol_L, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00662 RPOLD, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF55257 SSF55257, 1 hit
SSF56553 SSF56553, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00446 RNA_POL_D_30KD, 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>.<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.

C4R7L2-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSKEPKVNII NAQDDEVELM LSDVNLSLAN SLRRTMLAEV PTLAIDLVEI
60 70 80 90 100
KMNTSVLADE FISHRLGLIP LVSEDVEEMK YSRDCTCEDY CDECSVVLEL
110 120 130 140 150
SARHEGEEGT TDVYSSSLIK VSGPGNLNVG EPVRRDDYDQ GILLCKLRNH
160 170 180 190 200
QELNIRCIAK KGIAKEHAKW SPCSAIAFEY DPHNKLKHTD FWFEVDAKKE
210 220 230 240 250
WPDSKYATWE EPPKPGEVFD YKAKPNRFYM TVETTGSLKA NQVFSRGIKT
260 270 280 290 300
LQEKLANVLF ELENSRPANT TAYGGATAYG GQTVYGRETS YGGNTNYGDY

NAPY
Length:304
Mass (Da):34,176
Last modified:July 7, 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:i817B5BA131241412
GO

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

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DDBJi
Links Updated
FN392322 Genomic DNA Translation: CAY71587.1

NCBI Reference Sequences

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RefSeqi
XP_002493766.1, XM_002493721.1

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
CAY71587; CAY71587; PAS_chr4_0344

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
8200785

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ppa:PAS_chr4_0344

<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
FN392322 Genomic DNA Translation: CAY71587.1
RefSeqiXP_002493766.1, XM_002493721.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5X4ZX-ray7.80C/O1-304[»]
5X50X-ray4.29C1-304[»]
5X51X-ray7.00C/O1-304[»]
5XOGX-ray3.00C1-304[»]
5XONelectron microscopy3.83C1-304[»]
6A5Lelectron microscopy5.60C1-304[»]
6A5Oelectron microscopy9.90C1-304[»]
6A5Pelectron microscopy7.00C1-304[»]
6A5Relectron microscopy8.70C1-304[»]
6A5Telectron microscopy6.70C1-304[»]
6A5Uelectron microscopy7.60C1-304[»]
6A5Velectron microscopy6.90C1-304[»]
6IR9electron microscopy3.80C1-304[»]
6J4Welectron microscopy7.90C1-304[»]
6J4Xelectron microscopy4.30C1-304[»]
6J4Yelectron microscopy4.30C1-304[»]
6J4Zelectron microscopy4.10C1-304[»]
6J50electron microscopy4.70C1-304[»]
6J51electron microscopy4.20C1-304[»]
SMRiC4R7L2
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiC4R7L2, 1 interactor
STRINGi4922.CAY71587

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiCAY71587; CAY71587; PAS_chr4_0344
GeneIDi8200785
KEGGippa:PAS_chr4_0344

Phylogenomic databases

eggNOGiKOG1522 Eukaryota
COG0202 LUCA
HOGENOMiHOG000230844
InParanoidiC4R7L2
KOiK03011
OMAiPENIVMM

Family and domain databases

Gene3Di2.170.120.12, 1 hit
3.30.1360.10, 1 hit
InterProiView protein in InterPro
IPR001514 DNA-dir_RNA_pol_30-40kDasu_CS
IPR011262 DNA-dir_RNA_pol_insert
IPR011263 DNA-dir_RNA_pol_RpoA/D/Rpb3
IPR036603 RBP11-like
IPR036643 RNApol_insert_sf
PfamiView protein in Pfam
PF01000 RNA_pol_A_bac, 1 hit
PF01193 RNA_pol_L, 1 hit
SMARTiView protein in SMART
SM00662 RPOLD, 1 hit
SUPFAMiSSF55257 SSF55257, 1 hit
SSF56553 SSF56553, 1 hit
PROSITEiView protein in PROSITE
PS00446 RNA_POL_D_30KD, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiC4R7L2_KOMPG
<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: C4R7L2
<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/TrEMBL: July 7, 2009
Last sequence update: July 7, 2009
Last modified: May 8, 2019
This is version 65 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)

<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-structureCombined sources, Complete proteome, Reference proteomeImported
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