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Protein

Probable formamidopyrimidine-DNA glycosylase

Gene

MIMI_L315

Organism
Acanthamoeba polyphaga mimivirus (APMV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

Hydrolysis of DNA containing ring-opened 7-methylguanine residues, releasing 2,6-diamino-4-hydroxy-5-(N-methyl)formamidopyrimidine.
The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei2Schiff-base intermediate with DNAPROSITE-ProRule annotation1
Active sitei3Proton donorPROSITE-ProRule annotation1
Active sitei58Proton donor; for beta-elimination activityPROSITE-ProRule annotation1
Active sitei277Proton donor; for delta-elimination activityPROSITE-ProRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Glycosidase, Hydrolase, Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Probable formamidopyrimidine-DNA glycosylase (EC:3.2.2.23)
Short name:
Fapy-DNA glycosylase
Alternative name(s):
DNA-(apurinic or apyrimidinic site) lyase (EC:4.2.99.18)
Short name:
AP lyase
Gene namesi
Ordered Locus Names:MIMI_L315
OrganismiAcanthamoeba polyphaga mimivirus (APMV)
Taxonomic identifieri212035 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageMimiviridaeMimivirus
Virus hostiAcanthamoeba polyphaga (Amoeba) [TaxID: 5757]
Proteomesi
  • UP000001134 Componenti: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved; by hostBy similarity
ChainiPRO_00001708922 – 287Probable formamidopyrimidine-DNA glycosylaseAdd BLAST286

Structurei

Secondary structure

1287
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi4 – 18Combined sources15
Beta strandi22 – 28Combined sources7
Helixi32 – 35Combined sources4
Helixi41 – 45Combined sources5
Beta strandi49 – 58Combined sources10
Beta strandi61 – 68Combined sources8
Beta strandi71 – 81Combined sources11
Turni83 – 85Combined sources3
Beta strandi86 – 91Combined sources6
Beta strandi96 – 102Combined sources7
Helixi103 – 105Combined sources3
Beta strandi107 – 112Combined sources6
Beta strandi118 – 123Combined sources6
Helixi125 – 132Combined sources8
Turni139 – 141Combined sources3
Helixi147 – 152Combined sources6
Helixi157 – 162Combined sources6
Beta strandi164 – 167Combined sources4
Helixi173 – 182Combined sources10
Helixi191 – 193Combined sources3
Helixi196 – 215Combined sources20
Beta strandi219 – 221Combined sources3
Helixi223 – 225Combined sources3
Helixi226 – 229Combined sources4
Beta strandi230 – 232Combined sources3
Beta strandi244 – 247Combined sources4
Beta strandi259 – 261Combined sources3
Beta strandi265 – 268Combined sources4
Helixi273 – 275Combined sources3
Beta strandi278 – 281Combined sources4
Turni283 – 285Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3A42X-ray2.60A1-287[»]
3A45X-ray2.30A/B1-287[»]
3A46X-ray2.20A/B1-287[»]
3VK7X-ray2.10A/B1-287[»]
3VK8X-ray2.00A/B1-287[»]
4NRWX-ray2.84A/B2-287[»]
ProteinModelPortaliQ5UQ00.
SMRiQ5UQ00.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5UQ00.

Family & Domainsi

Sequence similaritiesi

Belongs to the FPG family.PROSITE-ProRule annotation

Phylogenomic databases

KOiK10563.

Family and domain databases

InterProiIPR015886. DNA_glyclase/AP_lyase_DNA-bd.
IPR012319. FPG_cat.
IPR010979. Ribosomal_S13-like_H2TH.
[Graphical view]
PfamiPF01149. Fapy_DNA_glyco. 1 hit.
PF06831. H2TH. 1 hit.
[Graphical view]
SMARTiSM00898. Fapy_DNA_glyco. 1 hit.
SM01232. H2TH. 1 hit.
[Graphical view]
SUPFAMiSSF46946. SSF46946. 1 hit.
SSF81624. SSF81624. 1 hit.
PROSITEiPS51068. FPG_CAT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q5UQ00-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEGPEVALT ADILEKYFKG KTLEYIDFIS GRYSKSEPEG YDDFIANLPL
60 70 80 90 100
KVSNVDTKGK FLWFELFDPN DKSNKWYIWN TFGLTGMWSL FEAKYTRAVL
110 120 130 140 150
SFDNELMAYF SDMRNFGTFK FSNSEKELKR KLNELGPDFL KNDDIDISKI
160 170 180 190 200
KKYKQPIVAL LMDQKKIGSG LGNYLVAEIL YRAKIDPHKL GSNLTDQEIE
210 220 230 240 250
NLWYWIKYET KLAYDSNHIG YMVNLENESS KIGRKNYHPN IHPTEKEFDF
260 270 280
LVYRKKKDPN GNKVIADKII GSGKNKRTTY WAPAIQK
Length:287
Mass (Da):33,463
Last modified:January 23, 2007 - v3
Checksum:i745EE3385D9581AB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY653733 Genomic DNA. Translation: AAV50585.1.
RefSeqiYP_003986818.1. NC_014649.1.

Genome annotation databases

GeneIDi9924932.
KEGGivg:9924932.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY653733 Genomic DNA. Translation: AAV50585.1.
RefSeqiYP_003986818.1. NC_014649.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3A42X-ray2.60A1-287[»]
3A45X-ray2.30A/B1-287[»]
3A46X-ray2.20A/B1-287[»]
3VK7X-ray2.10A/B1-287[»]
3VK8X-ray2.00A/B1-287[»]
4NRWX-ray2.84A/B2-287[»]
ProteinModelPortaliQ5UQ00.
SMRiQ5UQ00.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi9924932.
KEGGivg:9924932.

Phylogenomic databases

KOiK10563.

Miscellaneous databases

EvolutionaryTraceiQ5UQ00.

Family and domain databases

InterProiIPR015886. DNA_glyclase/AP_lyase_DNA-bd.
IPR012319. FPG_cat.
IPR010979. Ribosomal_S13-like_H2TH.
[Graphical view]
PfamiPF01149. Fapy_DNA_glyco. 1 hit.
PF06831. H2TH. 1 hit.
[Graphical view]
SMARTiSM00898. Fapy_DNA_glyco. 1 hit.
SM01232. H2TH. 1 hit.
[Graphical view]
SUPFAMiSSF46946. SSF46946. 1 hit.
SSF81624. SSF81624. 1 hit.
PROSITEiPS51068. FPG_CAT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiFPG_MIMIV
AccessioniPrimary (citable) accession number: Q5UQ00
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 13, 2005
Last sequence update: January 23, 2007
Last modified: November 2, 2016
This is version 59 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Multifunctional enzyme, 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.