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Protein

(6-4)DNA photolyase

Gene

UVR3

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in repair of UV radiation-induced DNA damage. Catalyzes the photoreactivation of pyrimidine [6-4] pyrimidone photoproduct (6-4 products). Binds specifically to DNA containing 6-4 products and repairs these lesions in a visible light-dependent manner. Not required for repair of cyclobutane pyrimidine dimer (CPD).2 Publications

Catalytic activityi

6-4 photoproduct (in DNA) = 2 pyrimidine residues (in DNA).

Cofactori

FAD1 PublicationNote: Binds 1 FAD per subunit.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei262Phosphate; via amide nitrogen and carbonyl oxygen1
Binding sitei263FAD1 Publication1
Binding sitei320DNABy similarity1
Sitei348Electron transfer via tryptophanyl radicalBy similarity1
Binding sitei386FAD1 Publication1
Sitei402Electron transfer via tryptophanyl radicalBy similarity1
Binding sitei421FAD1 Publication1
Sitei425Electron transfer via tryptophanyl radicalBy similarity1
Binding sitei427DNABy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi276 – 280FAD1 Publication5
Nucleotide bindingi317 – 321FAD1 Publication5
Nucleotide bindingi380 – 383FAD1 Publication4
Nucleotide bindingi415 – 417FAD1 Publication3

GO - Molecular functioni

  • DNA (6-4) photolyase activity Source: TAIR
  • DNA binding Source: UniProtKB-KW
  • nucleotide binding Source: UniProtKB-KW

GO - Biological processi

  • DNA repair Source: UniProtKB-KW
  • response to UV Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

DNA-binding, FAD, Flavoprotein, Nucleotide-binding

Enzyme and pathway databases

BioCyciARA:GQT-2758-MONOMER.
MetaCyc:MONOMER-15021.
BRENDAi4.1.99.13. 399.

Names & Taxonomyi

Protein namesi
Recommended name:
(6-4)DNA photolyase (EC:4.1.99.13)
Alternative name(s):
Protein UV repair defective 3
Gene namesi
Name:UVR3
Ordered Locus Names:At3g15620
ORF Names:SJ11.2
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G15620.

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi263K → R: No effect on DNA repair activity. 1 Publication1
Mutagenesisi276T → P: No effect on DNA repair activity. 1 Publication1
Mutagenesisi383H → A: Loss of DNA repair activity. 1 Publication1
Mutagenesisi387H → A: Loss of DNA repair activity. 1 Publication1
Mutagenesisi439R → H or A: No effect on DNA repair activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003978861 – 556(6-4)DNA photolyaseAdd BLAST556

Proteomic databases

PaxDbiO48652.

Expressioni

Tissue specificityi

Expressed in siliques, flowers and leaves. Not detected in roots.1 Publication

Developmental stagei

Expressed at all developmental stages.1 Publication

Inductioni

Not induced by white or UV-B light.1 Publication

Gene expression databases

GenevisibleiO48652. AT.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT3G15620.1.

Structurei

Secondary structure

1556
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi25 – 32Combined sources8
Helixi40 – 46Combined sources7
Beta strandi52 – 58Combined sources7
Helixi60 – 63Combined sources4
Beta strandi69 – 73Combined sources5
Helixi79 – 98Combined sources20
Beta strandi104 – 108Combined sources5
Helixi110 – 118Combined sources9
Beta strandi123 – 128Combined sources6
Helixi134 – 149Combined sources16
Beta strandi153 – 155Combined sources3
Beta strandi160 – 163Combined sources4
Helixi165 – 171Combined sources7
Beta strandi173 – 175Combined sources3
Helixi180 – 187Combined sources8
Turni191 – 194Combined sources4
Turni221 – 225Combined sources5
Helixi228 – 230Combined sources3
Helixi241 – 251Combined sources11
Helixi255 – 259Combined sources5
Helixi263 – 265Combined sources3
Helixi280 – 284Combined sources5
Helixi290 – 302Combined sources13
Turni310 – 312Combined sources3
Helixi314 – 329Combined sources16
Turni332 – 335Combined sources4
Helixi352 – 359Combined sources8
Helixi366 – 378Combined sources13
Helixi383 – 393Combined sources11
Turni394 – 398Combined sources5
Helixi402 – 412Combined sources11
Helixi418 – 428Combined sources11
Beta strandi431 – 433Combined sources3
Turni443 – 446Combined sources4
Helixi447 – 449Combined sources3
Helixi455 – 460Combined sources6
Helixi462 – 464Combined sources3
Turni469 – 473Combined sources5
Helixi475 – 477Combined sources3
Helixi480 – 486Combined sources7
Turni490 – 492Combined sources3
Helixi501 – 521Combined sources21
Turni522 – 524Combined sources3
Helixi528 – 541Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3FY4X-ray2.70A/B/C20-556[»]
ProteinModelPortaliO48652.
SMRiO48652.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO48652.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini24 – 162Photolyase/cryptochrome alpha/betaAdd BLAST139

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni382 – 387Interaction with DNABy similarity6

Sequence similaritiesi

Belongs to the DNA photolyase class-1 family.Curated

Phylogenomic databases

eggNOGiKOG0133. Eukaryota.
COG0415. LUCA.
HOGENOMiHOG000245622.
InParanoidiO48652.
KOiK02295.
OMAiGIPNFNK.
OrthoDBiEOG0936062H.
PhylomeDBiO48652.

Family and domain databases

Gene3Di3.40.50.620. 1 hit.
InterProiIPR005101. Cryptochr/Photolyase_FAD-bd.
IPR006050. DNA_photolyase_N.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
PfamiPF00875. DNA_photolyase. 1 hit.
PF03441. FAD_binding_7. 1 hit.
[Graphical view]
SUPFAMiSSF48173. SSF48173. 1 hit.
SSF52425. SSF52425. 1 hit.
PROSITEiPS51645. PHR_CRY_ALPHA_BETA. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O48652-1) [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
MQRFCVCSPS SYRLNPITSM ATGSGSLIWF RKGLRVHDNP ALEYASKGSE
60 70 80 90 100
FMYPVFVIDP HYMESDPSAF SPGSSRAGVN RIRFLLESLK DLDSSLKKLG
110 120 130 140 150
SRLLVFKGEP GEVLVRCLQE WKVKRLCFEY DTDPYYQALD VKVKDYASST
160 170 180 190 200
GVEVFSPVSH TLFNPAHIIE KNGGKPPLSY QSFLKVAGEP SCAKSELVMS
210 220 230 240 250
YSSLPPIGDI GNLGISEVPS LEELGYKDDE QADWTPFRGG ESEALKRLTK
260 270 280 290 300
SISDKAWVAN FEKPKGDPSA FLKPATTVMS PYLKFGCLSS RYFYQCLQNI
310 320 330 340 350
YKDVKKHTSP PVSLLGQLLW REFFYTTAFG TPNFDKMKGN RICKQIPWNE
360 370 380 390 400
DHAMLAAWRD GKTGYPWIDA IMVQLLKWGW MHHLARHCVA CFLTRGDLFI
410 420 430 440 450
HWEQGRDVFE RLLIDSDWAI NNGNWMWLSC SSFFYQFNRI YSPISFGKKY
460 470 480 490 500
DPDGKYIRHF LPVLKDMPKQ YIYEPWTAPL SVQTKANCIV GKDYPKPMVL
510 520 530 540 550
HDSASKECKR KMGEAYALNK KMDGKVDEEN LRDLRRKLQK DEHEESKIRN

QRPKLK
Length:556
Mass (Da):63,790
Last modified:October 5, 2010 - v2
Checksum:i3110841DBA33CAC8
GO
Isoform 2 (identifier: O48652-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     437-445: FNRIYSPIS → ALSPFCFSF
     446-556: Missing.

Note: Derived from EST data. No experimental confirmation available.
Show »
Length:445
Mass (Da):50,609
Checksum:iC3881E2AF621661B
GO

Sequence cautioni

The sequence BAA24449 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BAA34711 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_039720437 – 445FNRIYSPIS → ALSPFCFSF in isoform 2. Curated9
Alternative sequenceiVSP_039721446 – 556Missing in isoform 2. CuratedAdd BLAST111

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB003687 mRNA. Translation: BAA24449.1. Different initiation.
AB017331 Genomic DNA. Translation: BAA34711.1. Different initiation.
AB017071 Genomic DNA. Translation: BAB02293.1.
CP002686 Genomic DNA. Translation: AEE75703.1.
CP002686 Genomic DNA. Translation: AEE75704.1.
RefSeqiNP_001030703.1. NM_001035626.2. [O48652-2]
NP_566520.1. NM_112432.2. [O48652-1]
UniGeneiAt.188.

Genome annotation databases

EnsemblPlantsiAT3G15620.1; AT3G15620.1; AT3G15620. [O48652-1]
GeneIDi820804.
GrameneiAT3G15620.1; AT3G15620.1; AT3G15620.
KEGGiath:AT3G15620.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB003687 mRNA. Translation: BAA24449.1. Different initiation.
AB017331 Genomic DNA. Translation: BAA34711.1. Different initiation.
AB017071 Genomic DNA. Translation: BAB02293.1.
CP002686 Genomic DNA. Translation: AEE75703.1.
CP002686 Genomic DNA. Translation: AEE75704.1.
RefSeqiNP_001030703.1. NM_001035626.2. [O48652-2]
NP_566520.1. NM_112432.2. [O48652-1]
UniGeneiAt.188.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3FY4X-ray2.70A/B/C20-556[»]
ProteinModelPortaliO48652.
SMRiO48652.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT3G15620.1.

Proteomic databases

PaxDbiO48652.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G15620.1; AT3G15620.1; AT3G15620. [O48652-1]
GeneIDi820804.
GrameneiAT3G15620.1; AT3G15620.1; AT3G15620.
KEGGiath:AT3G15620.

Organism-specific databases

TAIRiAT3G15620.

Phylogenomic databases

eggNOGiKOG0133. Eukaryota.
COG0415. LUCA.
HOGENOMiHOG000245622.
InParanoidiO48652.
KOiK02295.
OMAiGIPNFNK.
OrthoDBiEOG0936062H.
PhylomeDBiO48652.

Enzyme and pathway databases

BioCyciARA:GQT-2758-MONOMER.
MetaCyc:MONOMER-15021.
BRENDAi4.1.99.13. 399.

Miscellaneous databases

EvolutionaryTraceiO48652.
PROiO48652.

Gene expression databases

GenevisibleiO48652. AT.

Family and domain databases

Gene3Di3.40.50.620. 1 hit.
InterProiIPR005101. Cryptochr/Photolyase_FAD-bd.
IPR006050. DNA_photolyase_N.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
PfamiPF00875. DNA_photolyase. 1 hit.
PF03441. FAD_binding_7. 1 hit.
[Graphical view]
SUPFAMiSSF48173. SSF48173. 1 hit.
SSF52425. SSF52425. 1 hit.
PROSITEiPS51645. PHR_CRY_ALPHA_BETA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUVR3_ARATH
AccessioniPrimary (citable) accession number: O48652
Secondary accession number(s): Q2V3V6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 5, 2010
Last sequence update: October 5, 2010
Last modified: November 30, 2016
This is version 95 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.