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Protein

Photoactive yellow protein

Gene

pyp

Organism
Halorhodospira halophila (Ectothiorhodospira halophila)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

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

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Photoreceptor protein, Receptor

Keywords - Biological processi

Sensory transduction

Keywords - Ligandi

Chromophore

Names & Taxonomyi

Protein namesi
Recommended name:
Photoactive yellow protein
Short name:
PYP
Gene namesi
Name:pyp
OrganismiHalorhodospira halophila (Ectothiorhodospira halophila)
Taxonomic identifieri1053 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaChromatialesEctothiorhodospiraceaeHalorhodospira

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001449141 – 125Photoactive yellow proteinAdd BLAST125

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei69S-(4-hydroxycinnamyl)cysteine1 Publication1

Post-translational modificationi

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

Interactioni

Subunit structurei

Monomer.

Protein-protein interaction databases

DIPiDIP-61234N.

Structurei

Secondary structure

1125
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni8 – 10Combined sources3
Helixi11 – 14Combined sources4
Turni15 – 17Combined sources3
Helixi20 – 23Combined sources4
Beta strandi27 – 34Combined sources8
Turni35 – 37Combined sources3
Beta strandi38 – 42Combined sources5
Helixi44 – 50Combined sources7
Helixi54 – 57Combined sources4
Helixi62 – 66Combined sources5
Helixi68 – 70Combined sources3
Turni73 – 75Combined sources3
Helixi76 – 85Combined sources10
Beta strandi89 – 96Combined sources8
Beta strandi98 – 100Combined sources3
Beta strandi103 – 111Combined sources9
Beta strandi113 – 124Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
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[»]
5HD3X-ray1.60A1-125[»]
5HD5X-ray1.60A1-125[»]
5HDCX-ray1.60A1-125[»]
5HDDX-ray1.60A1-125[»]
5HDSX-ray1.60A1-125[»]
ProteinModelPortaliP16113.
SMRiP16113.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP16113.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini23 – 86PASPROSITE-ProRule annotationAdd BLAST64

Sequence similaritiesi

Belongs to the photoactive yellow protein family.Curated
Contains 1 PAS (PER-ARNT-SIM) domain.PROSITE-ProRule annotation

Family and domain databases

InterProiIPR000014. PAS.
IPR013767. PAS_fold.
IPR012130. PYP.
[Graphical view]
PfamiPF00989. PAS. 1 hit.
[Graphical view]
PIRSFiPIRSF000087. PYP. 1 hit.
SMARTiSM00091. PAS. 1 hit.
[Graphical view]
SUPFAMiSSF55785. SSF55785. 1 hit.
TIGRFAMsiTIGR02373. photo_yellow. 1 hit.
PROSITEiPS50112. PAS. 1 hit.
[Graphical view]

Sequencei

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
Checksum:i291B08416510F0A3
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti56Q → E AA sequence (PubMed:8358295).Curated1

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.

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:
PDBei
RCSB PDBi
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[»]
5HD3X-ray1.60A1-125[»]
5HD5X-ray1.60A1-125[»]
5HDCX-ray1.60A1-125[»]
5HDDX-ray1.60A1-125[»]
5HDSX-ray1.60A1-125[»]
ProteinModelPortaliP16113.
SMRiP16113.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-61234N.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Miscellaneous databases

EvolutionaryTraceiP16113.

Family and domain databases

InterProiIPR000014. PAS.
IPR013767. PAS_fold.
IPR012130. PYP.
[Graphical view]
PfamiPF00989. PAS. 1 hit.
[Graphical view]
PIRSFiPIRSF000087. PYP. 1 hit.
SMARTiSM00091. PAS. 1 hit.
[Graphical view]
SUPFAMiSSF55785. SSF55785. 1 hit.
TIGRFAMsiTIGR02373. photo_yellow. 1 hit.
PROSITEiPS50112. PAS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPYP_HALHA
AccessioniPrimary (citable) accession number: P16113
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1990
Last sequence update: November 1, 1995
Last modified: November 2, 2016
This is version 110 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.