UniProtKB - P00914 (PHR_ECOLI)
Protein
Deoxyribodipyrimidine photo-lyase
Gene
phrB
Organism
Escherichia coli (strain K12)
Status
Functioni
Involved in repair of UV radiation-induced DNA damage. Catalyzes the light-dependent monomerization (300-600 nm) of cyclobutyl pyrimidine dimers (in cis-syn configuration), which are formed between adjacent bases on the same DNA strand upon exposure to ultraviolet radiation.
Miscellaneous
There are only 10-20 molecules of photolyase per E.coli cell.
Upon absorption of visible light electrons are transferred from Trp-307 through Trp-360 to Trp 383, and from there to FADH, giving rise to the fully reduced catalytic FADH-.
Catalytic activityi
- Cyclobutadipyrimidine (in DNA) = 2 pyrimidine residues (in DNA). EC:4.1.99.3
Cofactori
Protein has several cofactor binding sites:- FADNote: Binds 1 FAD per subunit.
- (6R)-5,10-methylene-5,6,7,8-tetrahydrofolateNote: Binds 1 5,10-methenyltetrahydrofolate (MTHF) non-covalently per subunit.
Absorptioni
Abs(max)=384 nm
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 223 | FAD1 Publication | 1 | |
Binding sitei | 227 | DNABy similarity | 1 | |
Binding sitei | 272 | FAD1 Publication | 1 | |
Sitei | 307 | Electron transfer via tryptophanyl radical | 1 | |
Sitei | 360 | Electron transfer via tryptophanyl radical | 1 | |
Sitei | 383 | Electron transfer via tryptophanyl radical | 1 | |
Binding sitei | 405 | DNABy similarity | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 235 – 239 | FAD1 Publication | 5 | |
Nucleotide bindingi | 275 – 282 | FAD1 Publication | 8 | |
Nucleotide bindingi | 373 – 375 | FAD1 Publication | 3 |
GO - Molecular functioni
- damaged DNA binding Source: EcoCyc
- deoxyribodipyrimidine photo-lyase activity Source: EcoCyc
- DNA binding Source: GO_Central
- FAD binding Source: GO_Central
GO - Biological processi
- photoreactive repair Source: EcoCyc
- phototransduction, visible light Source: EcoCyc
- protein-chromophore linkage Source: UniProtKB-KW
- response to light stimulus Source: GO_Central
Keywordsi
Molecular function | DNA-binding, Lyase |
Biological process | DNA damage, DNA repair |
Ligand | Chromophore, FAD, Flavoprotein, Nucleotide-binding |
Enzyme and pathway databases
BioCyci | EcoCyc:EG10736-MONOMER MetaCyc:EG10736-MONOMER |
BRENDAi | 4.1.99.3, 2026 |
SABIO-RKi | P00914 |
Names & Taxonomyi
Protein namesi | Recommended name: Deoxyribodipyrimidine photo-lyase (EC:4.1.99.3)Alternative name(s): DNA photolyase Photoreactivating enzyme |
Gene namesi | Name:phrB Synonyms:phr Ordered Locus Names:b0708, JW0698 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 278 | W → X: Reduces DNA-binding affinity. 1 Publication | 1 | |
Mutagenesisi | 383 | W → F: Abolishes photolyase activity. 1 Publication | 1 |
Chemistry databases
DrugBanki | DB03147, Flavin adenine dinucleotide |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000085108 | 1 – 472 | Deoxyribodipyrimidine photo-lyaseAdd BLAST | 472 |
Proteomic databases
jPOSTi | P00914 |
PaxDbi | P00914 |
PRIDEi | P00914 |
Interactioni
Subunit structurei
Monomer.
1 PublicationBinary interactionsi
P00914
With | #Exp. | IntAct |
---|---|---|
nfi [P68739] | 2 | EBI-555781,EBI-551698 |
Protein-protein interaction databases
BioGRIDi | 4259920, 166 interactors 851344, 1 interactor |
DIPi | DIP-10505N |
IntActi | P00914, 12 interactors |
STRINGi | 511145.b0708 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P00914 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P00914 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 2 – 134 | Photolyase/cryptochrome alpha/betaAdd BLAST | 133 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 109 – 110 | MTF binding | 2 | |
Regioni | 275 – 282 | Interaction with DNABy similarity | 8 | |
Regioni | 342 – 343 | Interaction with DNABy similarity | 2 |
Sequence similaritiesi
Belongs to the DNA photolyase class-1 family.Curated
Phylogenomic databases
eggNOGi | COG0415, Bacteria |
HOGENOMi | CLU_010348_2_2_6 |
InParanoidi | P00914 |
PhylomeDBi | P00914 |
Family and domain databases
Gene3Di | 3.40.50.620, 1 hit |
InterProi | View protein in InterPro IPR036134, Crypto/Photolyase_FAD-like_sf IPR036155, Crypto/Photolyase_N_sf IPR005101, Cryptochr/Photolyase_FAD-bd IPR002081, Cryptochrome/DNA_photolyase_1 IPR018394, DNA_photolyase_1_CS_C IPR006050, DNA_photolyase_N IPR014729, Rossmann-like_a/b/a_fold |
Pfami | View protein in Pfam PF00875, DNA_photolyase, 1 hit PF03441, FAD_binding_7, 1 hit |
PRINTSi | PR00147, DNAPHOTLYASE |
SUPFAMi | SSF48173, SSF48173, 1 hit SSF52425, SSF52425, 1 hit |
PROSITEi | View protein in PROSITE PS00394, DNA_PHOTOLYASES_1_1, 1 hit PS00691, DNA_PHOTOLYASES_1_2, 1 hit PS51645, PHR_CRY_ALPHA_BETA, 1 hit |
i Sequence
Sequence statusi: Complete.
P00914-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MTTHLVWFRQ DLRLHDNLAL AAACRNSSAR VLALYIATPR QWATHNMSPR
60 70 80 90 100
QAELINAQLN GLQIALAEKG IPLLFREVDD FVASVEIVKQ VCAENSVTHL
110 120 130 140 150
FYNYQYEVNE RARDVEVERA LRNVVCEGFD DSVILPPGAV MTGNHEMYKV
160 170 180 190 200
FTPFKNAWLK RLREGMPECV AAPKVRSSGS IEPSPSITLN YPRQSFDTAH
210 220 230 240 250
FPVEEKAAIA QLRQFCQNGA GEYEQQRDFP AVEGTSRLSA SLATGGLSPR
260 270 280 290 300
QCLHRLLAEQ PQALDGGAGS VWLNELIWRE FYRHLITYHP SLCKHRPFIA
310 320 330 340 350
WTDRVQWQSN PAHLQAWQEG KTGYPIVDAA MRQLNSTGWM HNRLRMITAS
360 370 380 390 400
FLVKDLLIDW REGERYFMSQ LIDGDLAANN GGWQWAASTG TDAAPYFRIF
410 420 430 440 450
NPTTQGEKFD HEGEFIRQWL PELRDVPGKV VHEPWKWAQK AGVTLDYPQP
460 470
IVEHKEARVQ TLAAYEAARK GK
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | K01299 Genomic DNA Translation: AAA24388.1 X57399 Genomic DNA Translation: CAB56782.1 U00096 Genomic DNA Translation: AAC73802.1 AP009048 Genomic DNA Translation: BAA35367.1 |
PIRi | A01137, WZECD |
RefSeqi | NP_415236.1, NC_000913.3 WP_000207142.1, NZ_SSZK01000033.1 |
Genome annotation databases
EnsemblBacteriai | AAC73802; AAC73802; b0708 BAA35367; BAA35367; BAA35367 |
GeneIDi | 947005 |
KEGGi | ecj:JW0698 eco:b0708 |
PATRICi | fig|1411691.4.peg.1565 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | K01299 Genomic DNA Translation: AAA24388.1 X57399 Genomic DNA Translation: CAB56782.1 U00096 Genomic DNA Translation: AAC73802.1 AP009048 Genomic DNA Translation: BAA35367.1 |
PIRi | A01137, WZECD |
RefSeqi | NP_415236.1, NC_000913.3 WP_000207142.1, NZ_SSZK01000033.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1DNP | X-ray | 2.30 | A/B | 2-472 | [»] | |
SMRi | P00914 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4259920, 166 interactors 851344, 1 interactor |
DIPi | DIP-10505N |
IntActi | P00914, 12 interactors |
STRINGi | 511145.b0708 |
Chemistry databases
DrugBanki | DB03147, Flavin adenine dinucleotide |
Proteomic databases
jPOSTi | P00914 |
PaxDbi | P00914 |
PRIDEi | P00914 |
Genome annotation databases
EnsemblBacteriai | AAC73802; AAC73802; b0708 BAA35367; BAA35367; BAA35367 |
GeneIDi | 947005 |
KEGGi | ecj:JW0698 eco:b0708 |
PATRICi | fig|1411691.4.peg.1565 |
Organism-specific databases
EchoBASEi | EB0729 |
Phylogenomic databases
eggNOGi | COG0415, Bacteria |
HOGENOMi | CLU_010348_2_2_6 |
InParanoidi | P00914 |
PhylomeDBi | P00914 |
Enzyme and pathway databases
BioCyci | EcoCyc:EG10736-MONOMER MetaCyc:EG10736-MONOMER |
BRENDAi | 4.1.99.3, 2026 |
SABIO-RKi | P00914 |
Miscellaneous databases
EvolutionaryTracei | P00914 |
PROi | PR:P00914 |
Family and domain databases
Gene3Di | 3.40.50.620, 1 hit |
InterProi | View protein in InterPro IPR036134, Crypto/Photolyase_FAD-like_sf IPR036155, Crypto/Photolyase_N_sf IPR005101, Cryptochr/Photolyase_FAD-bd IPR002081, Cryptochrome/DNA_photolyase_1 IPR018394, DNA_photolyase_1_CS_C IPR006050, DNA_photolyase_N IPR014729, Rossmann-like_a/b/a_fold |
Pfami | View protein in Pfam PF00875, DNA_photolyase, 1 hit PF03441, FAD_binding_7, 1 hit |
PRINTSi | PR00147, DNAPHOTLYASE |
SUPFAMi | SSF48173, SSF48173, 1 hit SSF52425, SSF52425, 1 hit |
PROSITEi | View protein in PROSITE PS00394, DNA_PHOTOLYASES_1_1, 1 hit PS00691, DNA_PHOTOLYASES_1_2, 1 hit PS51645, PHR_CRY_ALPHA_BETA, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | PHR_ECOLI | |
Accessioni | P00914Primary (citable) accession number: P00914 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 21, 1986 |
Last sequence update: | July 21, 1986 | |
Last modified: | December 2, 2020 | |
This is version 176 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families