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UniProtKB - P07071 (NRDD_BPT4)
Protein
Anaerobic ribonucleoside-triphosphate reductase
Gene
nrdD
Organism
Enterobacteria phage T4 (Bacteriophage T4)
Status
Functioni
Catalyzes the conversion of ribonucleotides into deoxyribonucleotides, which are required for DNA synthesis and repair.
2 PublicationsCatalytic activityi
- a ribonucleoside 5'-triphosphate + formate + H+ = a 2'-deoxyribonucleoside 5'-triphosphate + CO2 + H2O1 PublicationEC:1.1.98.61 Publication
Activity regulationi
Activated under anaerobic conditions by NrdG, a tightly associated activase. Activation involves the formation of a glycyl radical at Gly-580.1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 114 | Substrate 21 Publication | 1 | |
Binding sitei | 146 | Substrate 22 Publications | 1 | |
Metal bindingi | 543 | Zinc1 Publication1 Publication | 1 | |
Metal bindingi | 546 | Zinc1 Publication1 Publication | 1 | |
Metal bindingi | 561 | Zinc1 Publication1 Publication | 1 | |
Metal bindingi | 564 | Zinc1 Publication1 Publication | 1 |
GO - Molecular functioni
- metal ion binding Source: UniProtKB-KW
- ribonucleoside-triphosphate reductase activity Source: InterPro
GO - Biological processi
- DNA replication Source: InterPro
Keywordsi
Molecular function | Oxidoreductase |
Ligand | Metal-binding, Zinc |
Enzyme and pathway databases
BRENDAi | 1.1.98.6, 732 |
Names & Taxonomyi
Protein namesi | Recommended name: Anaerobic ribonucleoside-triphosphate reductaseCurated (EC:1.1.98.61 Publication)Alternative name(s): Class III ribonucleoside-triphosphate reductaseCurated |
Gene namesi | Name:nrdD1 Publication Synonyms:49.1, 55.11/55.13, SUNY |
Organismi | Enterobacteria phage T4 (Bacteriophage T4) |
Taxonomic identifieri | 10665 [NCBI] |
Taxonomic lineagei | Viruses › Duplodnaviria › Heunggongvirae › Uroviricota › Caudoviricetes › Caudovirales › Myoviridae › Tevenvirinae › Tequatrovirus |
Virus hosti | Escherichia coli [TaxID: 562] |
Proteomesi |
|
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 580 | G → A: Lacks both glycyl radical and activity. Does not affect interaction with NrdG. 1 Publication | 1 |
Chemistry databases
DrugBanki | DB03258, 2'-Deoxycytidine 5'-triphosphate DB02181, 2'-Deoxyguanosine-5'-Triphosphate DB03222, dATP DB02452, Thymidine 5'-triphosphate |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000166686 | 1 – 605 | Anaerobic ribonucleoside-triphosphate reductaseAdd BLAST | 605 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 580 | Glycine radical1 Publication | 1 |
Keywords - PTMi
Organic radicalInteractioni
Subunit structurei
Homodimer.
Forms a tetramer composed of two NrdD and two NrdG subunits.
1 PublicationStructurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P07071 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P07071 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 482 – 605 | Glycine radicalPROSITE-ProRule annotationAdd BLAST | 124 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 64 – 66 | Substrate 1 binding2 Publications | 3 | |
Regioni | 100 – 103 | Substrate 2 binding2 Publications | 4 | |
Regioni | 444 – 448 | Substrate 1 binding2 Publications | 5 |
Sequence similaritiesi
Belongs to the anaerobic ribonucleoside-triphosphate reductase family.Curated
Family and domain databases
CDDi | cd01675, RNR_III, 1 hit |
InterProi | View protein in InterPro IPR019777, Form_AcTrfase_GR_CS IPR001150, Gly_radical IPR012833, NrdD |
Pfami | View protein in Pfam PF13597, NRDD, 1 hit |
TIGRFAMsi | TIGR02487, NrdD, 1 hit |
PROSITEi | View protein in PROSITE PS00850, GLY_RADICAL_1, 1 hit PS51149, GLY_RADICAL_2, 1 hit |
i Sequence
Sequence statusi: Complete.
P07071-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MTIEKEIEGL IHKTNKDLLN ENANKDSRVF PTQRDLMAGI VSKHIAKNMV
60 70 80 90 100
PSFIMKAHES GIIHVHDIDY SPALPFTNCC LVDLKGMLEN GFKLGNAQIE
110 120 130 140 150
TPKSIGVATA IMAQITAQVA SHQYGGTTFA NVDKVLSPYV KRTYAKHIED
160 170 180 190 200
AEKWQIADAL NYAQSKTEKD VYDAFQAYEY EVNTLFSSNG QTPFVTITFG
210 220 230 240 250
TGTDWTERMI QKAILKNRIK GLGRDGITPI FPKLVMFVEE GVNLYKDDPN
260 270 280 290 300
YDIKQLALEC ASKRMYPDII SAKNNKAITG SSVPVSPMGC RSFLSVWKDS
310 320 330 340 350
TGNEILDGRN NLGVVTLNLP RIALDSYIGT QFNEQKFVEL FNERMDLCFE
360 370 380 390 400
ALMCRISSLK GVKATVAPIL YQEGAFGVRL KPDDDIIELF KNGRSSVSLG
410 420 430 440 450
YIGIHELNIL VGRDIGREIL TKMNAHLKQW TERTGFAFSL YSTPAENLCY
460 470 480 490 500
RFCKLDTEKY GSVKDVTDKG WYTNSFHVSV EENITPFEKI SREAPYHFIA
510 520 530 540 550
TGGHISYVEL PDMKNNLKGL EAVWDYAAQH LDYFGVNMPV DKCFTCGSTH
560 570 580 590 600
EMTPTENGFV CSICGETDPK KMNTIRRTCG YLGNPNERGF NLGKNKEIMH
RVKHQ
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Y00122 Genomic DNA Translation: CAA68308.1 Y00122 Genomic DNA Translation: CAA68310.1 Sequence problems. AF158101 Genomic DNA Translation: AAD42633.1 X12629 Genomic DNA Translation: CAA31150.1 |
PIRi | E29284, Z6BPT9 S01907, Z4BPT9 |
RefSeqi | NP_049690.1, NC_000866.4 |
Genome annotation databases
GeneIDi | 1258655 |
KEGGi | vg:1258655 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Y00122 Genomic DNA Translation: CAA68308.1 Y00122 Genomic DNA Translation: CAA68310.1 Sequence problems. AF158101 Genomic DNA Translation: AAD42633.1 X12629 Genomic DNA Translation: CAA31150.1 |
PIRi | E29284, Z6BPT9 S01907, Z4BPT9 |
RefSeqi | NP_049690.1, NC_000866.4 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1H78 | X-ray | 2.50 | A | 1-605 | [»] | |
1H79 | X-ray | 2.90 | A | 1-605 | [»] | |
1H7A | X-ray | 2.75 | A | 1-605 | [»] | |
1H7B | X-ray | 2.45 | A | 1-605 | [»] | |
1HK8 | X-ray | 2.45 | A | 1-605 | [»] | |
SMRi | P07071 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Chemistry databases
DrugBanki | DB03258, 2'-Deoxycytidine 5'-triphosphate DB02181, 2'-Deoxyguanosine-5'-Triphosphate DB03222, dATP DB02452, Thymidine 5'-triphosphate |
Genome annotation databases
GeneIDi | 1258655 |
KEGGi | vg:1258655 |
Enzyme and pathway databases
BRENDAi | 1.1.98.6, 732 |
Miscellaneous databases
EvolutionaryTracei | P07071 |
PROi | PR:P07071 |
Family and domain databases
CDDi | cd01675, RNR_III, 1 hit |
InterProi | View protein in InterPro IPR019777, Form_AcTrfase_GR_CS IPR001150, Gly_radical IPR012833, NrdD |
Pfami | View protein in Pfam PF13597, NRDD, 1 hit |
TIGRFAMsi | TIGR02487, NrdD, 1 hit |
PROSITEi | View protein in PROSITE PS00850, GLY_RADICAL_1, 1 hit PS51149, GLY_RADICAL_2, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | NRDD_BPT4 | |
Accessioni | P07071Primary (citable) accession number: P07071 Secondary accession number(s): P07073, Q38428, Q9T0V5 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | April 1, 1988 |
Last sequence update: | January 23, 2002 | |
Last modified: | February 23, 2022 | |
This is version 134 of the entry and version 4 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral 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