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pax box

paired box protein Pax-5 isoform X8

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

– Protein predicted i

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.

Select a section on the left to see content.

This section provides any useful information about the protein, mostly biological knowledge.

The Gene Ontology (GO) project provides a set of hierarchical controlled vocabulary split into 3 categories:

GO – Molecular function i

  • DNA binding Source: InterPro
GO – Biological process i
  • multicellular organism development Source: UniProtKB-KW
  • regulation of transcription, DNA-templated Source: InterPro

UniProtKB Keywords constitute a controlled vocabulary with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.

Information which has been generated by the UniProtKB automatic annotation system, without manual validation.

Automatic assertion according to rules i

Automatic assertion according to rules i

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.

Names & Taxonomy i

This subsection of the Names and taxonomy section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.

Information which has been imported from another database using automatic procedures.

Automatic assertion inferred from database entries i

This subsection of the Names and taxonomy 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’.

Automatic assertion inferred from database entries i

This subsection of the Names and taxonomy section provides information on the name(s) of the organism that is the source of the protein sequence.

Automatic assertion inferred from database entries i

This subsection of the Names and taxonomy 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’.

This subsection of the Names and taxonomy 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.

This subsection of the Names and taxonomy section is present for entries that are part of a proteome, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.

A UniProt proteome can consist of several components.
The component name refers to the genomic component encoding a set of proteins.

This section provides information on the location and the topology of the mature protein in the cell.

Subcellular location i

Extracellular region or secreted

Automatic computational assertion

Graphics by Christian Stolte & Seán O’Donoghue; Source:

  • UniProt annotation
  • GO – Cellular component
Nucleus
  • Nucleus ARBA annotation

Automatic assertion according to rules i

Nucleus
  • nucleus Source: UniProtKB-SubCell
Keywords – Cellular component i

Automatic assertion according to rules i

This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.

Family & Domains i

Domains and Repeats

This subsection of the Family and Domains 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.

Information which has been generated by the UniProtKB automatic annotation system, without manual validation.

Automatic assertion inferred from signature match i

Region

This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.

Automatic assertion according to sequence analysis i

Automatic assertion according to sequence analysis i

Automatic assertion according to sequence analysis i

Keywords – Domain i

Automatic assertion according to rules i

Family and domain databases

Conserved Domains Database

Gene3D Structural and Functional Annotation of Protein Families

Integrated resource of protein families, domains and functional sites

The PANTHER Classification System

Pfam protein domain database

Protein Motif fingerprint database; a protein domain database

Simple Modular Architecture Research Tool; a protein domain database

Superfamily database of structural and functional annotation

PROSITE; a protein domain and family database

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 length and molecular weight. The information is filed in different subsections. The current subsections and their content are listed below:

This subsection of the Sequence section indicates if the canonical sequence displayed by default in the entry is complete or not.

Sequence status i : Complete.

This entry has 1 described isoform and 8 potential isoforms that are computationally mapped.Show allAlign All

The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.

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.

However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).

The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x 64 + x 4 + x 3 + x + 1. The algorithm is described in the ISO 3309 standard.

Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.
Cyclic redundancy and other checksums
Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993))

Checksum: i 46BC9D57362AFBC7

In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.

Computationally mapped potential isoform sequences i

Annotation score:2 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Annotation score:1 out of 5

The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.

Sequence databases

NCBI Reference Sequences

Genome annotation databases

Database of genes from NCBI RefSeq genomes

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 (UniRef).

Similar proteins i

  • 90% Identity
  • 50% Identity

This section is used to point to information related to entries and found in data collections other than UniProtKB.

Sequence databases
3D structure databases

Database of comparative protein structure models

SWISS-MODEL Interactive Workspace

Genome annotation databases
Organism-specific databases

Comparative Toxicogenomics Database

Family and domain databases

ProtoNet; Automatic hierarchical classification of proteins

MobiDB: a database of protein disorder and mobility annotations

This section provides general information on the entry.

Entry information i

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.

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’.

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 canonical sequence are also displayed.

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 (reviewed) or to the computer-annotated TrEMBL section (unreviewed).

This section contains any relevant information that doesn’t fit in any other defined sections

Keywords – Technical term i

Automatic assertion inferred from database entries i

Tools
  • BLAST
  • Align
  • Retrieve/ID mapping
  • Peptide search
Core data
  • Protein knowledgebase (UniProtKB)
  • Sequence clusters (UniRef)
  • Sequence archive (UniParc)
  • Proteomes
Supporting data
  • Literature citations
  • Taxonomy
  • Keywords
  • Subcellular locations
  • Cross-referenced databases
  • Diseases
Information
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  • UniProtKB manual
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paired box protein Pax-5 isoform X8 Annotation score:1 out of 5 The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score cannot ]]>