RegulonDB RegulonDB 10.8: Gene Form
   

nrdB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

nrdA nrdB inaA yfaE yoaM yfaEp1 yfaEp1 yfaEp2 yfaEp2 TSS_2515 TSS_2515 TSS_2514 TSS_2514 TSS_2513 TSS_2513 TSS_2512 TSS_2512 TSS_2511 TSS_2511 TSS_2510 TSS_2510

Gene      
Name: nrdB    Texpresso search in the literature
Synonym(s): ECK2227, EG10661, b2235, ftsB
Genome position(nucleotides): 2347384 --> 2348514 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.57
External database links:  
ASAP:
 ABE-0007386
CGSC:
 444
ECHOBASE:
 EB0655
MIM:
 612075
MIM:
 613077
OU-MICROARRAY:
 b2235
PortEco:
 nrdB
STRING:
 511145.b2235
COLOMBOS: nrdB


Product      
Name: ribonucleoside-diphosphate reductase 1 subunit β
Synonym(s): FtsB, NrdB, ribonucleoside diphosphate reductase 1, beta; subunit, ferritin-like
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 43.517
Isoelectric point: 4.431
Motif(s):
 
Type Positions Sequence
2 -> 376 AYTTFSQTKNDQLKEPMFFGQPVNVARYDQQKYDIFEKLIEKQLSFFWRPEEVDVSRDRIDYQALPEHEKHIFISNLKYQTLLDSIQGRSPNVALLPLISIPELETWVETWAFSETIHSRSYTHIIRNIVNDPSVVFDDIVTNEQIQKRAEGISSYYDELIEMTSYWHLLGEGTHTVNGKTVTVSLRELKKKLYLCLMSVNALEAIRFYVSFACSFAFAERELMEGNAKIIRLIARDEALHLTGTQHMLNLLRSGADDPEMAEIAEECKQECYDLFVQAAQQEKDWADYLFRDGSMIGLNKDILCQYVEYITNIRMQAVGLDLPFQTRSNPIPWINTWLVSDNVQVAPQEVEVSSYLVGQIDSEVDTDDLSNFQL
32 -> 332 QKYDIFEKLIEKQLSFFWRPEEVDVSRDRIDYQALPEHEKHIFISNLKYQTLLDSIQGRSPNVALLPLISIPELETWVETWAFSETIHSRSYTHIIRNIVNDPSVVFDDIVTNEQIQKRAEGISSYYDELIEMTSYWHLLGEGTHTVNGKTVTVSLRELKKKLYLCLMSVNALEAIRFYVSFACSFAFAERELMEGNAKIIRLIARDEALHLTGTQHMLNLLRSGADDPEMAEIAEECKQECYDLFVQAAQQEKDWADYLFRDGSMIGLNKDILCQYVEYITNIRMQAVGLDLPFQTRSNP

 
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:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0005971 - ribonucleoside-diphosphate reductase complex
molecular_function GO:0005515 - protein binding
GO:0046872 - metal ion binding
GO:0016491 - oxidoreductase activity
GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor
GO:0005506 - iron ion binding
GO:0042802 - identical protein binding
GO:0042803 - protein homodimerization activity
biological_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-36213N
DISPROT:
 DP00107
ECOCYC:
 NRDB-MONOMER
ECOLIWIKI:
 b2235
INTERPRO:
 IPR033909
INTERPRO:
 IPR030475
INTERPRO:
 IPR012348
INTERPRO:
 IPR009078
INTERPRO:
 IPR000358
MINT:
 MINT-1269534
PANTHER:
 PTHR23409
PDB:
 1PIU
PDB:
 1PIY
PDB:
 1PIZ
PDB:
 1PJ0
PDB:
 1PJ1
PDB:
 1PM2
PDB:
 1R1R
PDB:
 1R65
PDB:
 1RIB
PDB:
 1RNR
PDB:
 1RSR
PDB:
 1RSV
PDB:
 1XIK
PDB:
 1YFD
PDB:
 2ALX
PDB:
 2AV8
PDB:
 2R1R
PDB:
 2X0X
PDB:
 2XAK
PDB:
 2XAP
PDB:
 2XAV
PDB:
 2XAW
PDB:
 2XAX
PDB:
 2XAY
PDB:
 2XAZ
PDB:
 2XO4
PDB:
 2XO5
PDB:
 2XOF
PDB:
 3R1R
PDB:
 3UUS
PDB:
 4ERM
PDB:
 4ERP
PDB:
 4R1R
PDB:
 5CI2
PDB:
 5CI3
PDB:
 5CNS
PDB:
 5CNT
PDB:
 5CNU
PDB:
 5CNV
PDB:
 5R1R
PDB:
 6R1R
PDB:
 7R1R
PDB:
 1PIM
PDB:
 1PFR
PDB:
 1MXR
PDB:
 1MRR
PDB:
 1JQC
PDB:
 1AV8
PDB:
 1BIQ
PDB:
 1JPR
PFAM:
 PF00268
PRIDE:
 P69924
PRODB:
 PRO_000023403
PROSITE:
 PS00368
REFSEQ:
 NP_416738
SMR:
 P69924
UNIPROT:
 P69924


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


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


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_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]
  promoter TSS_2515 2347642 forward nd [RS-EPT-CBR] [1]
  promoter yfaEp2 2348338 forward Similarity to the consensus
Read more > 		[ICWHO] [2]
  promoter yfaEp1 2348341 forward Similarity to the consensus
Read more > 		[ICWHO] [2]


Evidence    

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

 [ICWHO] Inferred computationally without human oversight


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.

 [2] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

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