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Protein

Deoxyribodipyrimidine photo-lyase

Gene

phr

Organism
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methanobacterium thermoautotrophicum)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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.

Catalytic activityi

Cyclobutadipyrimidine (in DNA) = 2 pyrimidine residues (in DNA).

Cofactori

Protein has several cofactor binding sites:
  • FADNote: Binds 1 FAD. The FAD is in its reduced state.
  • oxidized coenzyme F420Note: Binds 1 F420 non-covalently per subunit. The F420 is in its oxidized state.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei239 – 2391DNABy similarity

GO - Molecular functioni

  1. deoxyribodipyrimidine photo-lyase activity Source: UniProtKB-EC
  2. DNA binding Source: UniProtKB-KW

GO - Biological processi

  1. DNA repair Source: UniProtKB-KW
  2. protein-chromophore linkage Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Chromophore, DNA-binding, FAD, Flavoprotein

Enzyme and pathway databases

BioCyciMMAR79929:GH5J-1301-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Deoxyribodipyrimidine photo-lyase (EC:4.1.99.3)
Alternative name(s):
DNA photolyase
Photoreactivating enzyme
Gene namesi
Name:phr
Ordered Locus Names:MTBMA_c12980
OrganismiMethanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methanobacterium thermoautotrophicum)
Taxonomic identifieri79929 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanothermobacter
ProteomesiUP000000345 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 444444Deoxyribodipyrimidine photo-lyasePRO_0000085118Add
BLAST

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini20 – 148129Photolyase/cryptochrome alpha/betaAdd
BLAST

Sequence similaritiesi

Belongs to the DNA photolyase class-2 family.Curated

Phylogenomic databases

HOGENOMiHOG000016456.
KOiK01669.
OMAiSANTARK.

Family and domain databases

Gene3Di3.40.50.620. 1 hit.
InterProiIPR008148. DNA_photolyase_2.
IPR006050. DNA_photolyase_N.
IPR005101. Photolyase_FAD-bd/Cryptochr_C.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
PANTHERiPTHR10211. PTHR10211. 1 hit.
PfamiPF00875. DNA_photolyase. 1 hit.
PF03441. FAD_binding_7. 1 hit.
[Graphical view]
SUPFAMiSSF48173. SSF48173. 1 hit.
SSF52425. SSF52425. 1 hit.
TIGRFAMsiTIGR00591. phr2. 1 hit.
PROSITEiPS01083. DNA_PHOTOLYASES_2_1. 1 hit.
PS01084. DNA_PHOTOLYASES_2_2. 1 hit.
PS51645. PHR_CRY_ALPHA_BETA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P58818-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIHDERIRSL NTEKPARDGK YVIYWMQASV RAHWNHALEY AIETANSLHK
60 70 80 90 100
PLIVIFGLTD EFPNANSRHY RFLIEGLRDV GDALMKRGAR LVVENERPPS
110 120 130 140 150
AVMRYSDEAS AVVVDRGYLD IQKEWVDELA ESLHVPLMQV ESNVIVPVET
160 170 180 190 200
ASPKEEYSAG TFRPKITREL ERFMVPLKER RLAVDSLDLD PGPDLNDVTG
210 220 230 240 250
KFRASEELEP SIFSGGASEA IRLFDEFLSE KLACFEKYRN DPVKNCLSNM
260 270 280 290 300
SPYLHFGHIS PLYLAMKASK TGECPEFLEE LIVRRELSMN FVHYSDNYSS
310 320 330 340 350
IRCLPEWAQK TLMEHARDPK EYEYTLREFE EARTHDPYWN AAQKEMVITG
360 370 380 390 400
KMHGYMRMYW GKKILEWTDH PERAYDIAIY LNDKYEIDGR DPNGFTGVAW
410 420 430 440
CFGKHDRAWA EREIFGKVRY MNDRGLERKF RIGEYVRRVQ ELEE
Length:444
Mass (Da):51,888
Last modified:November 30, 2010 - v2
Checksum:i442143277F21894D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001710 Genomic DNA. Translation: ADL58886.1.
RefSeqiYP_003850199.1. NC_014408.1.

Genome annotation databases

EnsemblBacteriaiADL58886; ADL58886; MTBMA_c12980.
GeneIDi9705006.
KEGGimmg:MTBMA_c12980.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001710 Genomic DNA. Translation: ADL58886.1.
RefSeqiYP_003850199.1. NC_014408.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADL58886; ADL58886; MTBMA_c12980.
GeneIDi9705006.
KEGGimmg:MTBMA_c12980.

Phylogenomic databases

HOGENOMiHOG000016456.
KOiK01669.
OMAiSANTARK.

Enzyme and pathway databases

BioCyciMMAR79929:GH5J-1301-MONOMER.

Family and domain databases

Gene3Di3.40.50.620. 1 hit.
InterProiIPR008148. DNA_photolyase_2.
IPR006050. DNA_photolyase_N.
IPR005101. Photolyase_FAD-bd/Cryptochr_C.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
PANTHERiPTHR10211. PTHR10211. 1 hit.
PfamiPF00875. DNA_photolyase. 1 hit.
PF03441. FAD_binding_7. 1 hit.
[Graphical view]
SUPFAMiSSF48173. SSF48173. 1 hit.
SSF52425. SSF52425. 1 hit.
TIGRFAMsiTIGR00591. phr2. 1 hit.
PROSITEiPS01083. DNA_PHOTOLYASES_2_1. 1 hit.
PS01084. DNA_PHOTOLYASES_2_2. 1 hit.
PS51645. PHR_CRY_ALPHA_BETA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete genome sequence of Methanothermobacter marburgensis, a methanoarchaeon model organism."
    Liesegang H., Kaster A.K., Wiezer A., Goenrich M., Wollherr A., Seedorf H., Gottschalk G., Thauer R.K.
    J. Bacteriol. 192:5850-5851(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg.
  2. "Purification and properties of Methanobacterium thermoautotrophicum DNA photolyase."
    Kiener A., Husain I., Sancar A., Walsh C.
    J. Biol. Chem. 264:13880-13887(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-28.
    Strain: DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg.

Entry informationi

Entry nameiPHR_METTM
AccessioniPrimary (citable) accession number: P58818
Secondary accession number(s): D9PXD8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 10, 2002
Last sequence update: November 30, 2010
Last modified: January 7, 2015
This is version 49 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.