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Protein

Cytochrome b559 subunit beta

Gene

psbF

Organism
Thermosynechococcus elongatus (strain BP-1)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

This b-type cytochrome is tightly associated with the reaction center of photosystem II (PSII). PSII is a light-driven water:plastoquinone oxidoreductase that uses light energy to abstract electrons from H2O, generating O2 and a proton gradient subsequently used for ATP formation. It consists of a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation.UniRule annotation3 Publications

Cofactori

heme bUniRule annotationNote: With its partner (PsbE) binds heme. PSII binds additional chlorophylls, carotenoids and specific lipids.UniRule annotation12 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi24 – 241Iron (heme axial ligand); shared with alpha subunit9 PublicationsUniRule annotation2 Publications

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Electron transport, Photosynthesis, Transport

Keywords - Ligandi

Heme, Iron, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Cytochrome b559 subunit betaUniRule annotation
Alternative name(s):
PSII reaction center subunit VIUniRule annotation
Gene namesi
Name:psbFUniRule annotation
Ordered Locus Names:tsr1542
OrganismiThermosynechococcus elongatus (strain BP-1)
Taxonomic identifieri197221 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesThermosynechococcus
Proteomesi
  • UP000000440 Componenti: Chromosome

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini2 – 1918Cytoplasmic1 PublicationAdd
BLAST
Transmembranei20 – 3516Helical1 PublicationAdd
BLAST
Topological domaini36 – 4510Lumenal1 Publication

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane, Photosystem II, Thylakoid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved3 Publications
Chaini2 – 4544Cytochrome b559 subunit betaPRO_0000200472Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylthreonine2 Publications

Keywords - PTMi

Acetylation

Interactioni

Subunit structurei

Heterodimer of an alpha subunit and a beta subunit. Cyanobacterial PSII is composed of 1 copy each of membrane proteins PsbA, PsbB, PsbC, PsbD, PsbE, PsbF, PsbH, PsbI, PsbJ, PsbK, PsbL, PsbM, PsbT, PsbX, PsbY, PsbZ, Ycf12, at least 3 peripheral proteins PsbO, PsbU, PsbV and a large number of cofactors. It forms dimeric complexes.UniRule annotation10 Publications

Protein-protein interaction databases

DIPiDIP-48492N.
STRINGi197221.tsr1542.

Structurei

Secondary structure

1
45
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi11 – 133Combined sources
Helixi18 – 4023Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1S5LX-ray3.50F/f1-45[»]
1W5CX-ray3.20F/L2-45[»]
2AXTX-ray3.00F/f1-45[»]
3KZIX-ray3.60F2-45[»]
4FBYX-ray6.56F/S2-45[»]
4IXQX-ray5.70F/f1-45[»]
4IXRX-ray5.90F/f1-45[»]
4PBUX-ray5.00F/f12-45[»]
4PJ0X-ray2.44F/f1-45[»]
4RVYX-ray5.50F/f12-45[»]
4TNHX-ray4.90F/f1-45[»]
4TNIX-ray4.60F/f1-45[»]
4TNJX-ray4.50F/f1-45[»]
4TNKX-ray5.20F/f1-45[»]
4V62X-ray2.90AF/BF1-45[»]
4V82X-ray3.20AF/BF1-45[»]
5E7CX-ray4.50F/f12-45[»]
ProteinModelPortaliQ8DIN9.
SMRiQ8DIN9. Positions 9-45.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8DIN9.

Family & Domainsi

Sequence similaritiesi

Belongs to the PsbE/PsbF family.UniRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410689D. Bacteria.
ENOG410XVPP. LUCA.
HOGENOMiHOG000091420.
KOiK02708.
OrthoDBiEOG6B0B10.

Family and domain databases

HAMAPiMF_00643. PSII_PsbF.
InterProiIPR006241. PSII_cyt_b559_bsu.
IPR006216. PSII_cyt_b559_CS.
IPR013081. PSII_cyt_b559_N.
[Graphical view]
PfamiPF00283. Cytochrom_B559. 1 hit.
[Graphical view]
PIRSFiPIRSF000037. PsbF. 1 hit.
TIGRFAMsiTIGR01333. cyt_b559_beta. 1 hit.
PROSITEiPS00537. CYTOCHROME_B559. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q8DIN9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40 
MTSNTPNQEP VSYPIFTVRW VAVHTLAVPT IFFLGAIAAM QFIQR
Length:45
Mass (Da):5,065
Last modified:March 1, 2003 - v1
Checksum:iC8D3083549A696C0
GO

Mass spectrometryi

Molecular mass is 4981±5 Da from positions 2 - 45. Determined by MALDI. 1 Publication
Molecular mass is 4977 Da from positions 2 - 45. Determined by MALDI. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000039 Genomic DNA. Translation: BAC09094.1.
RefSeqiNP_682332.1. NC_004113.1.
WP_011057382.1. NC_004113.1.

Genome annotation databases

EnsemblBacteriaiBAC09094; BAC09094; BAC09094.
GeneIDi1011058.
KEGGitel:tsr1542.
PATRICi23928448. VBITheElo119873_1618.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000039 Genomic DNA. Translation: BAC09094.1.
RefSeqiNP_682332.1. NC_004113.1.
WP_011057382.1. NC_004113.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1S5LX-ray3.50F/f1-45[»]
1W5CX-ray3.20F/L2-45[»]
2AXTX-ray3.00F/f1-45[»]
3KZIX-ray3.60F2-45[»]
4FBYX-ray6.56F/S2-45[»]
4IXQX-ray5.70F/f1-45[»]
4IXRX-ray5.90F/f1-45[»]
4PBUX-ray5.00F/f12-45[»]
4PJ0X-ray2.44F/f1-45[»]
4RVYX-ray5.50F/f12-45[»]
4TNHX-ray4.90F/f1-45[»]
4TNIX-ray4.60F/f1-45[»]
4TNJX-ray4.50F/f1-45[»]
4TNKX-ray5.20F/f1-45[»]
4V62X-ray2.90AF/BF1-45[»]
4V82X-ray3.20AF/BF1-45[»]
5E7CX-ray4.50F/f12-45[»]
ProteinModelPortaliQ8DIN9.
SMRiQ8DIN9. Positions 9-45.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-48492N.
STRINGi197221.tsr1542.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC09094; BAC09094; BAC09094.
GeneIDi1011058.
KEGGitel:tsr1542.
PATRICi23928448. VBITheElo119873_1618.

Phylogenomic databases

eggNOGiENOG410689D. Bacteria.
ENOG410XVPP. LUCA.
HOGENOMiHOG000091420.
KOiK02708.
OrthoDBiEOG6B0B10.

Miscellaneous databases

EvolutionaryTraceiQ8DIN9.

Family and domain databases

HAMAPiMF_00643. PSII_PsbF.
InterProiIPR006241. PSII_cyt_b559_bsu.
IPR006216. PSII_cyt_b559_CS.
IPR013081. PSII_cyt_b559_N.
[Graphical view]
PfamiPF00283. Cytochrom_B559. 1 hit.
[Graphical view]
PIRSFiPIRSF000037. PsbF. 1 hit.
TIGRFAMsiTIGR01333. cyt_b559_beta. 1 hit.
PROSITEiPS00537. CYTOCHROME_B559. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: BP-1.
  2. Cited for: PROTEIN SEQUENCE OF 2-16, CLEAVAGE OF INITIATOR METHIONINE, SUBCELLULAR LOCATION.
  3. "Crystal structure of cyanobacterial photosystem II at 3.2 A resolution: a closer look at the Mn-cluster."
    Biesiadka J., Loll B., Kern J., Irrgang K.-D., Zouni A.
    Phys. Chem. Chem. Phys. 6:4733-4736(2004)
    Cited for: X-RAY CRYSTALLOGRAPHY (3.20 ANGSTROMS) OF 2-45 IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
  4. "Architecture of the photosynthetic oxygen-evolving center."
    Ferreira K.N., Iverson T.M., Maghlaoui K., Barber J., Iwata S.
    Science 303:1831-1838(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
  5. "Cyanobacterial photosystem II at 3.2 A resolution -- the plastoquinone binding pockets."
    Kern J., Loll B., Zouni A., Saenger W., Irrgang K.D., Biesiadka J.
    Photosyn. Res. 84:153-159(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.2 ANGSTROMS) IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
  6. "Towards complete cofactor arrangement in the 3.0 A resolution structure of photosystem II."
    Loll B., Kern J., Saenger W., Zouni A., Biesiadka J.
    Nature 438:1040-1044(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS)IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
    Strain: BP-1.
  7. "The antenna system of photosystem II from Thermosynechococcus elongatus at 3.2 A resolution."
    Loll B., Kern J., Zouni A., Saenger W., Biesiadka J., Irrgang K.D.
    Photosyn. Res. 86:175-184(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.2 ANGSTROMS).
  8. "Cyanobacterial photosystem II at 2.9-A resolution and the role of quinones, lipids, channels and chloride."
    Guskov A., Kern J., Gabdulkhakov A., Broser M., Zouni A., Saenger W.
    Nat. Struct. Mol. Biol. 16:334-342(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.90 ANGSTROMS) IN PHOTOSYSTEM II WITH HEME, FUNCTION, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION, MASS SPECTROMETRY, ACETYLATION AT THR-2, TOPOLOGY.
    Strain: BP-1.
  9. "Crystal structure of monomeric photosystem II from Thermosynechococcus elongatus at 3.6 A resolution."
    Broser M., Gabdulkhakov A., Kern J., Guskov A., Muh F., Saenger W., Zouni A.
    J. Biol. Chem. 285:26255-26262(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.60 ANGSTROMS) OF 2-45 IN PHOTOSYSTEM II WITH HEME, FUNCTION, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION, ACETYLATION AT THR-2, MASS SPECTROMETRY.
    Strain: BP-1.
  10. "Structural basis of cyanobacterial photosystem II inhibition by the herbicide terbutryn."
    Broser M., Glockner C., Gabdulkhakov A., Guskov A., Buchta J., Kern J., Muh F., Dau H., Saenger W., Zouni A.
    J. Biol. Chem. 286:15964-15972(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.20 ANGSTROMS) IN PHOTOSYSTEM II WITH HEME, FUNCTION, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
  11. Cited for: X-RAY CRYSTALLOGRAPHY (6.56 ANGSTROMS) OF 2-45 IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
    Strain: BP-1.
  12. Cited for: X-RAY CRYSTALLOGRAPHY (5.70 ANGSTROMS) IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
    Strain: BP-1.
  13. "Serial time-resolved crystallography of photosystem II using a femtosecond X-ray laser."
    Kupitz C., Basu S., Grotjohann I., Fromme R., Zatsepin N.A., Rendek K.N., Hunter M.S., Shoeman R.L., White T.A., Wang D., James D., Yang J.H., Cobb D.E., Reeder B., Sierra R.G., Liu H., Barty A., Aquila A.L.
    , Deponte D., Kirian R.A., Bari S., Bergkamp J.J., Beyerlein K.R., Bogan M.J., Caleman C., Chao T.C., Conrad C.E., Davis K.M., Fleckenstein H., Galli L., Hau-Riege S.P., Kassemeyer S., Laksmono H., Liang M., Lomb L., Marchesini S., Martin A.V., Messerschmidt M., Milathianaki D., Nass K., Ros A., Roy-Chowdhury S., Schmidt K., Seibert M., Steinbrener J., Stellato F., Yan L., Yoon C., Moore T.A., Moore A.L., Pushkar Y., Williams G.J., Boutet S., Doak R.B., Weierstall U., Frank M., Chapman H.N., Spence J.C., Fromme P.
    Nature 513:261-265(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (5.00 ANGSTROMS) OF 12-45 IN PHOTOSYSTEM II WITH HEME, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
    Strain: BP-1.
  14. Cited for: X-RAY CRYSTALLOGRAPHY (4.50 ANGSTROMS) IN PHOTOSYSTEM II WITH HEME, FUNCTION, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
    Strain: BP-1.

Entry informationi

Entry nameiPSBF_THEEB
AccessioniPrimary (citable) accession number: Q8DIN9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2003
Last sequence update: March 1, 2003
Last modified: April 13, 2016
This is version 102 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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.