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Protein

Chlorophyll a-b binding protein CP29.2, chloroplastic

Gene

LHCB4.2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated.

Miscellaneous

This protein is phosphorylated under normal plant growth conditions, whereas phosphorylation of maize CP29 was induced only by high light in the cold.

Cofactori

Note: Binds at least 14 chlorophylls (8 Chl-a and 6 Chl-b) and carotenoids such as lutein and neoxanthin.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi55Magnesium (chlorophyll-b 1 axial ligand); via carbonyl oxygenBy similarity1
Binding sitei75Chlorophyll-a 1; via amide nitrogenBy similarity1
Metal bindingi137Magnesium (chlorophyll-a 1 axial ligand)By similarity1
Metal bindingi140Magnesium (chlorophyll-a 2 axial ligand)By similarity1
Binding sitei177Chlorophyll-a 3; via amide nitrogenBy similarity1
Metal bindingi200Magnesium (chlorophyll-b 3 axial ligand)By similarity1
Binding sitei203Chlorophyll-b 4By similarity1
Metal bindingi239Magnesium (chlorophyll-a 3 axial ligand)By similarity1
Metal bindingi242Magnesium (chlorophyll-a 4 axial ligand)By similarity1
Binding sitei244Chlorophyll-a 1By similarity1
Metal bindingi256Magnesium (chlorophyll-a 5 axial ligand)By similarity1
Metal bindingi271Magnesium (chlorophyll-a 6 axial ligand)By similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processPhotosynthesis
LigandChlorophyll, Chromophore, Magnesium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Chlorophyll a-b binding protein CP29.2, chloroplastic
Alternative name(s):
LHCB4.2
LHCII protein 4.2
Gene namesi
Name:LHCB4.2
Ordered Locus Names:At3g08940
ORF Names:T16O11.12
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

AraportiAT3G08940
TAIRilocus:2097608 AT3G08940

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei143 – 163HelicalSequence analysisAdd BLAST21
Transmembranei181 – 201HelicalSequence analysisAdd BLAST21
Transmembranei245 – 265HelicalSequence analysisAdd BLAST21

Keywords - Cellular componenti

Chloroplast, Membrane, Photosystem I, Photosystem II, Plastid, Thylakoid

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 31Chloroplast1 PublicationAdd BLAST31
ChainiPRO_000000365232 – 287Chlorophyll a-b binding protein CP29.2, chloroplasticAdd BLAST256

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei32N2-acetylarginine1 Publication1
Modified residuei37PhosphothreonineCombined sources1 Publication1
Modified residuei109PhosphothreonineCombined sources1
Modified residuei111PhosphothreonineCombined sources1

Post-translational modificationi

Photoregulated by reversible phosphorylation of its threonine residues.By similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ9XF88
PRIDEiQ9XF88

PTM databases

iPTMnetiQ9XF88

Expressioni

Gene expression databases

ExpressionAtlasiQ9XF88 baseline and differential
GenevisibleiQ9XF88 AT

Interactioni

Subunit structurei

The LHC complex consists of chlorophyll a-b binding proteins.

Protein-protein interaction databases

IntActiQ9XF88, 1 interactor
MINTiQ9XF88
STRINGi3702.AT3G08940.2

Structurei

3D structure databases

ProteinModelPortaliQ9XF88
SMRiQ9XF88
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domaini

The N-terminus of the protein extends into the stroma where it is involved with adhesion of granal membranes and post-translational modifications; both are believed to mediate the distribution of excitation energy between photosystems I and II.

Sequence similaritiesi

Keywords - Domaini

Transit peptide, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IEXD Eukaryota
ENOG410YYUX LUCA
HOGENOMiHOG000238033
InParanoidiQ9XF88
KOiK08915
OMAiVEWLTGI
OrthoDBiEOG09360J56
PhylomeDBiQ9XF88

Family and domain databases

Gene3Di1.10.3460.10, 1 hit
InterProiView protein in InterPro
IPR001344 Chloro_AB-bd_pln
IPR022796 Chloroa_b-bind
IPR023329 Chlorophyll_a/b-bd_dom_sf
PANTHERiPTHR21649 PTHR21649, 1 hit
PfamiView protein in Pfam
PF00504 Chloroa_b-bind, 1 hit

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: Q9XF88-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MAATSTAAAA SSIMGTRVVS DISSNSSRFT ARFGFGTKKA SPKKAKTVIS
60 70 80 90 100
DRPLWFPGAK SPEYLDGSLV GDYGFDPFGL GKPAEYLQFD LDSLDQNLAK
110 120 130 140 150
NLYGEVIGTR TEAVDPKSTP FQPYSEVFGL QRFRECELIH GRWAMLATLG
160 170 180 190 200
AITVEWLTGV TWQDAGKVEL VDGSSYLGQP LPFSISTLIW IEVLVIGYIE
210 220 230 240 250
FQRNAELDSE KRLYPGGKFF DPLGLASDPV KKAQLQLAEI KHARLAMVGF
260 270 280
LGFAVQAAAT GKGPLNNWAT HLSDPLHTTI IDTFSSS
Length:287
Mass (Da):31,194
Last modified:November 1, 1999 - v1
Checksum:iCA70FF75292172D4
GO
Isoform 2 (identifier: Q9XF88-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     169-227: ELVDGSSYLG...KFFDPLGLAS → SPLFFSSLLR...MDRSVSDRLH
     228-287: Missing.

Note: Derived from EST data. May be due to an intron retention. No experimental confirmation available.
Show »
Length:227
Mass (Da):25,002
Checksum:i48D54ED3D387271C
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_011361169 – 227ELVDG…LGLAS → SPLFFSSLLRLCLAFRHLSD CFIFNLPGRASGWIILLRTA IAVLYLDIDMDRSVSDRLH in isoform 2. CuratedAdd BLAST59
Alternative sequenceiVSP_011362228 – 287Missing in isoform 2. CuratedAdd BLAST60

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF134127 mRNA Translation: AAD28774.1
AC010871 Genomic DNA Translation: AAF07831.1
CP002686 Genomic DNA Translation: AEE74697.1
CP002686 Genomic DNA Translation: AEE74698.1
AY065140 mRNA Translation: AAL38316.1
AY081608 mRNA Translation: AAM10170.1
PIRiT52317
RefSeqiNP_187506.1, NM_111728.5 [Q9XF88-1]
NP_850545.1, NM_180214.1 [Q9XF88-2]
UniGeneiAt.21828
At.22485
At.6984

Genome annotation databases

EnsemblPlantsiAT3G08940.1; AT3G08940.1; AT3G08940 [Q9XF88-2]
AT3G08940.2; AT3G08940.2; AT3G08940 [Q9XF88-1]
GeneIDi820043
GrameneiAT3G08940.1; AT3G08940.1; AT3G08940 [Q9XF88-2]
AT3G08940.2; AT3G08940.2; AT3G08940 [Q9XF88-1]
KEGGiath:AT3G08940

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF134127 mRNA Translation: AAD28774.1
AC010871 Genomic DNA Translation: AAF07831.1
CP002686 Genomic DNA Translation: AEE74697.1
CP002686 Genomic DNA Translation: AEE74698.1
AY065140 mRNA Translation: AAL38316.1
AY081608 mRNA Translation: AAM10170.1
PIRiT52317
RefSeqiNP_187506.1, NM_111728.5 [Q9XF88-1]
NP_850545.1, NM_180214.1 [Q9XF88-2]
UniGeneiAt.21828
At.22485
At.6984

3D structure databases

ProteinModelPortaliQ9XF88
SMRiQ9XF88
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ9XF88, 1 interactor
MINTiQ9XF88
STRINGi3702.AT3G08940.2

PTM databases

iPTMnetiQ9XF88

Proteomic databases

PaxDbiQ9XF88
PRIDEiQ9XF88

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G08940.1; AT3G08940.1; AT3G08940 [Q9XF88-2]
AT3G08940.2; AT3G08940.2; AT3G08940 [Q9XF88-1]
GeneIDi820043
GrameneiAT3G08940.1; AT3G08940.1; AT3G08940 [Q9XF88-2]
AT3G08940.2; AT3G08940.2; AT3G08940 [Q9XF88-1]
KEGGiath:AT3G08940

Organism-specific databases

AraportiAT3G08940
TAIRilocus:2097608 AT3G08940

Phylogenomic databases

eggNOGiENOG410IEXD Eukaryota
ENOG410YYUX LUCA
HOGENOMiHOG000238033
InParanoidiQ9XF88
KOiK08915
OMAiVEWLTGI
OrthoDBiEOG09360J56
PhylomeDBiQ9XF88

Miscellaneous databases

PROiPR:Q9XF88

Gene expression databases

ExpressionAtlasiQ9XF88 baseline and differential
GenevisibleiQ9XF88 AT

Family and domain databases

Gene3Di1.10.3460.10, 1 hit
InterProiView protein in InterPro
IPR001344 Chloro_AB-bd_pln
IPR022796 Chloroa_b-bind
IPR023329 Chlorophyll_a/b-bd_dom_sf
PANTHERiPTHR21649 PTHR21649, 1 hit
PfamiView protein in Pfam
PF00504 Chloroa_b-bind, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiCB4B_ARATH
AccessioniPrimary (citable) accession number: Q9XF88
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 21, 2003
Last sequence update: November 1, 1999
Last modified: April 25, 2018
This is version 137 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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Main funding by: National Institutes of Health

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