RegulonDB RegulonDB 10.8: Gene Form
   

nrdA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

nrdA ypaB yoaM nrdB NrdR NrdR DnaA DnaA DnaA Fis CRP Fis ArgP terminator anti-anti-terminator anti-terminator TSS_2514 TSS_2514 TSS_2513 TSS_2513 TSS_2512 TSS_2512 TSS_2511 TSS_2511 TSS_2510 TSS_2510 TSS_2509 TSS_2509 nrdAp nrdAp

Gene      
Name: nrdA    Texpresso search in the literature
Synonym(s): ECK2226, EG10660, b2234, dnaF
Genome position(nucleotides): 2344865 --> 2347150 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 53.67
External database links:  
ASAP:
 ABE-0007383
CGSC:
 445
ECHOBASE:
 EB0654
OU-MICROARRAY:
 b2234
PortEco:
 nrdA
STRING:
 511145.b2234
COLOMBOS: nrdA


Shine dalgarno      
Sequence: aattccaaaaACAGGTacgacatacATG


Product      
Name: ribonucleoside-diphosphate reductase 1 subunit α
Synonym(s): DnaF, NrdA
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 85.775
Isoelectric point: 6.097
Motif(s):
 
Type Positions Sequence
223 -> 659 SSCVLIECGDSLDSINATSSAIVKYVSQRAGIGINAGRIRALGSPIRGGEAFHTGCIPFYKHFQTAVKSCSQGGVRGGAATLFYPMWHLEVESLLVLKNNRGVEGNRVRHMDYGVQINKLMYTRLLKGEDITLFSPSDVPGLYDAFFADQEEFERLYTKYEKDDSIRKQRVKAVELFSLMMQERASTGRIYIQNVDHCNTHSPFDPAIAPVRQSNLCLEIALPTKPLNDVNDENGEIALCTLSAFNLGAINNLDELEELAILAVRALDALLDYQDYPIPAAKRGAMGRRTLGIGVINFAYYLAKHGKRYSDGSANNLTHKTFEAIQYYLLKASNELAKEQGACPWFNETTYAKGILPIDTYKKDLDTIANEPLHYDWEALRESIKTHGLRNSTLSALMPSETSSQISNATNGIEPPRGYVSIKASKDGILRQVVPDY
731 -> 731 Y
441 -> 441 E
621 -> 625 PSETS
662 -> 731 LHDAYELLWEMPGNDGYLQLVGIMQKFIDQSISANTNYDPSRFPSGKVPMQQLLKDLLTAYKFGVKTLYY

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.33 - nucleotide and nucleoside conversions
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
GO:0005971 - ribonucleoside-diphosphate reductase complex
molecular_function GO:0003824 - catalytic activity
GO:0005515 - protein binding
GO:0016491 - oxidoreductase activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor
GO:0042802 - identical protein binding
GO:0042803 - protein homodimerization activity
biological_process GO:0008152 - metabolic process
GO:0006260 - DNA replication
GO:0009263 - deoxyribonucleotide biosynthetic process
GO:0015949 - nucleobase-containing small molecule interconversion
GO:0055114 - oxidation-reduction process
Note(s): Note(s): ...[more].
External database links:  
DIP:
 DIP-584N
ECOCYC:
 NRDA-MONOMER
ECOLIWIKI:
 b2234
INTERPRO:
 IPR013346
INTERPRO:
 IPR008926
INTERPRO:
 IPR000788
INTERPRO:
 IPR005144
INTERPRO:
 IPR039718
INTERPRO:
 IPR013509
MINT:
 MINT-1233906
MODBASE:
 P00452
PANTHER:
 PTHR11573
PDB:
 2XO4
PDB:
 2XO5
PDB:
 3R1R
PDB:
 3UUS
PDB:
 4ERM
PDB:
 4R1R
PDB:
 5CNS
PDB:
 5CNT
PDB:
 5CNU
PDB:
 5CNV
PDB:
 5R1R
PDB:
 6R1R
PDB:
 7R1R
PDB:
 2XAZ
PDB:
 2XAY
PDB:
 2XAX
PDB:
 2XAW
PDB:
 2XAV
PDB:
 2XAP
PDB:
 2XAK
PDB:
 2X0X
PDB:
 2R1R
PDB:
 1RLR
PDB:
 1R1R
PDB:
 1QFN
PDB:
 4ERP
PFAM:
 PF02867
PFAM:
 PF03477
PFAM:
 PF00317
PRIDE:
 P00452
PRINTS:
 PR01183
PRODB:
 PRO_000023402
PROSITE:
 PS00089
PROSITE:
 PS51161
REFSEQ:
 NP_416737
SMR:
 P00452
UNIPROT:
 P00452


Operon      
Name: nrdAB-yfaE         
Operon arrangement:
Transcription unit        Promoter
nrdAB-yfaE
yfaE


Transcriptional Regulation      
Display Regulation             
Activated by: CRP, ArgP, DnaA, Fis
Repressed by: H-NS, DnaA, NrdR


RNA cis-regulatory element    
Attenuation: Transcriptional


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_2509 2344861 forward nd [RS-EPT-CBR] [1]
  promoter TSS_2510 2344875 forward nd [RS-EPT-CBR] [1]
  promoter TSS_2511 2345253 forward nd [RS-EPT-CBR] [1]
  promoter TSS_2512 2345987 forward nd [RS-EPT-CBR] [1]
  promoter TSS_2513 2346007 forward nd [RS-EPT-CBR] [1]
  promoter TSS_2514 2347352 forward nd [RS-EPT-CBR] [1]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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