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UniProtKB - P16113 (PYP_HALHA)

Entry version 122 (07 Oct 2020)
Sequence version 3 (01 Nov 1995)
Previous versions | rss
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Protein

Photoactive yellow protein

Gene

pyp

Organism
Halorhodospira halophila (Ectothiorhodospira halophila)
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

Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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 functionPhotoreceptor protein, Receptor
Biological processSensory transduction
LigandChromophore

<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:
Photoactive yellow protein
Short name:
PYP
<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:pyp
<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>OrganismiHalorhodospira halophila (Ectothiorhodospira halophila)
<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 identifieri1053 [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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Chromatiales › Ectothiorhodospiraceae › Halorhodospira

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Chemistry databases

Drug and drug target database

More...DrugBanki		DB01880, 3,4-Dihydroxycinnamic Acid
DB04066, p-Coumaric acid

<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_00001449141 – 125Photoactive yellow proteinAdd BLAST125

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei69S-(4-hydroxycinnamyl)cysteine1 Publication1

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

The 4-hydroxycinnamic acid (p-coumaric acid) chromophore is covalently bound via a thioester linkage.

<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

Monomer.

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

P16113
With#Exp.IntAct
itself4EBI-15592191,EBI-15592191

GO - Molecular functioni

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

Database of interacting proteins

More...DIPi		DIP-61234N

<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

Secondary structure

1125
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Biological Magnetic Resonance Data Bank

More...BMRBi		P16113

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

More...SMRi		P16113

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		P16113

<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>Domaini23 – 86PASPROSITE-ProRule annotationAdd BLAST64

<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 photoactive yellow protein family.Curated

Family and domain databases

Conserved Domains Database

More...CDDi		cd00130, PAS, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR000014, PAS
IPR035965, PAS-like_dom_sf
IPR013767, PAS_fold
IPR012130, PYP

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00989, PAS, 1 hit

PIRSF; a whole-protein classification database

More...PIRSFi		PIRSF000087, PYP, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00091, PAS, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF55785, SSF55785, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR02373, photo_yellow, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50112, PAS, 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.

P16113-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEHVAFGSED IENTLAKMDD GQLDGLAFGA IQLDGDGNIL QYNAAEGDIT 
        60         70         80         90        100
GRDPKQVIGK NFFKDVAPCT DSPEFYGKFK EGVASGNLNT MFEYTFDYQM 
       110        120 
TPTKVKVHMK KALSGDSYWV FVKRV
Length:125
Mass (Da):13,874
Last modified:November 1, 1995 - 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:i291B08416510F0A3
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti56Q → E AA sequence (PubMed:8358295).Curated1

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
U17017 Genomic DNA Translation: AAA61735.1
X98887 Genomic DNA Translation: CAA67391.1

Protein sequence database of the Protein Information Resource

More...PIRi		B55993, JC5446

<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
U17017 Genomic DNA Translation: AAA61735.1
X98887 Genomic DNA Translation: CAA67391.1
PIRiB55993, JC5446

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
1D7EX-ray1.39A4-125[»]
1F98X-ray1.15A1-125[»]
1F9IX-ray1.10A1-125[»]
1GSVX-ray1.75A1-125[»]
1GSWX-ray1.85A1-125[»]
1GSXX-ray1.79A1-125[»]
1KOUX-ray1.16A1-125[»]
1NWZX-ray0.82A1-125[»]
1ODVX-ray1.14A/B26-125[»]
1OT6X-ray0.95A1-125[»]
1OT9X-ray1.00A1-125[»]
1OTAX-ray1.10A1-125[»]
1OTBX-ray1.10A1-125[»]
1OTDX-ray1.25A/B1-125[»]
1OTEX-ray1.40A1-125[»]
1OTIX-ray1.40A1-125[»]
1S1YX-ray1.60A1-125[»]
1S1ZX-ray1.60A1-125[»]
1S4RX-ray1.90A1-125[»]
1S4SX-ray1.90A1-125[»]
1T18X-ray1.60A1-125[»]
1T19X-ray1.60A1-125[»]
1T1AX-ray1.60A1-125[»]
1T1BX-ray1.60A1-125[»]
1T1CX-ray1.60A1-125[»]
1TS0X-ray1.60A1-125[»]
1TS6X-ray1.60A1-125[»]
1TS7X-ray1.60A1-125[»]
1TS8X-ray1.60A1-125[»]
1UGUX-ray1.20A1-125[»]
1UWNX-ray1.20X1-125[»]
1UWPX-ray1.20X1-125[»]
1XFNNMR-A26-125[»]
1XFQNMR-A26-125[»]
2D01X-ray1.34A1-125[»]
2D02X-ray1.42A1-125[»]
2I9VX-ray2.20A1-125[»]
2KX6Other-A1-125[»]
2PHYX-ray1.40A1-125[»]
2PYPX-ray1.90A1-125[»]
2PYRX-ray1.90A1-125[»]
2QJ5X-ray1.20A1-125[»]
2QJ7X-ray1.05A1-125[»]
2QWSX-ray2.50A1-125[»]
2ZOHX-ray1.25A1-125[»]
2ZOIneutron diffraction1.50A1-125[»]
3PHYNMR-A1-125[»]
3PYPX-ray0.85A1-125[»]
3UMDX-ray1.80A1-125[»]
3UMEX-ray1.80A1-125[»]
3VE3X-ray1.60A1-125[»]
3VE4X-ray1.60A1-125[»]
4B9OX-ray1.60A1-125[»]
4BBTX-ray1.60A1-125[»]
4BBUX-ray1.60A1-125[»]
4BBVX-ray1.60A1-125[»]
4HY8X-ray1.60A1-125[»]
4I38X-ray1.60A1-125[»]
4I39X-ray1.60A1-125[»]
4I3AX-ray1.60A1-125[»]
4I3IX-ray1.60A1-125[»]
4I3JX-ray1.60A1-125[»]
4WL9X-ray1.60A1-125[»]
4WLAX-ray1.60A1-125[»]
5GX9neutron diffraction1.49A1-125[»]
5HD3X-ray1.60A1-125[»]
5HD5X-ray1.60A1-125[»]
5HDCX-ray1.60A1-125[»]
5HDDX-ray1.60A1-125[»]
5HDSX-ray1.60A1-125[»]
6MHIX-ray1.35A1-125[»]
6MHNX-ray1.67A1-125[»]
6MKTX-ray1.60A1-125[»]
6MMDX-ray1.23A/B1-125[»]
6P4IX-ray1.60A1-125[»]
6P5DX-ray1.60A1-125[»]
6P5EX-ray1.60A1-125[»]
6P5FX-ray1.70A1-125[»]
6P5GX-ray1.60A1-125[»]
6UMYX-ray0.92A1-125[»]
6UMZX-ray0.90A1-125[»]
6UN0X-ray0.85A1-125[»]
6UN2X-ray0.97A1-125[»]
BMRBiP16113
SMRiP16113
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

DIPiDIP-61234N

Chemistry databases

DrugBankiDB01880, 3,4-Dihydroxycinnamic Acid
DB04066, p-Coumaric acid

Miscellaneous databases

EvolutionaryTraceiP16113

Family and domain databases

CDDicd00130, PAS, 1 hit
InterProiView protein in InterPro
IPR000014, PAS
IPR035965, PAS-like_dom_sf
IPR013767, PAS_fold
IPR012130, PYP
PfamiView protein in Pfam
PF00989, PAS, 1 hit
PIRSFiPIRSF000087, PYP, 1 hit
SMARTiView protein in SMART
SM00091, PAS, 1 hit
SUPFAMiSSF55785, SSF55785, 1 hit
TIGRFAMsiTIGR02373, photo_yellow, 1 hit
PROSITEiView protein in PROSITE
PS50112, PAS, 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 nameiPYP_HALHA
<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: P16113
<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: April 1, 1990
Last sequence update: November 1, 1995
Last modified: October 7, 2020
This is version 122 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

3D-structure, Direct protein sequencing

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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