RegulonDB RegulonDB 11.2: Gene Form
   

ygfZ gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ygfZ yqfA sdhE ygfX ygfZp ygfZp TSS_3171 TSS_3171 sdhEp sdhEp

Gene      
Name: ygfZ    Texpresso search in the literature
Synonym(s): ECK2893, G7511, b2898, yzzW
Genome position(nucleotides): 3041313 --> 3042293
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 53.92
External database links:  
ASAP:
 ABE-0009512
ECHOBASE:
 EB2549
ECOLIHUB:
 ygfZ
MIM:
 615330
MIM:
 616451
OU-MICROARRAY:
 b2898
STRING:
 511145.b2898
COLOMBOS: ygfZ


Product      
Name: folate-binding protein
Synonym(s): YgfZ, YzzW
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 36.094
Isoelectric point: 4.914
Motif(s):
 
Type Positions Sequence Comment
2 -> 326 AFTPFPPRQPTASARLPLTLMTLDDWALATITGADSEKYMQGQVTADVSQMAEDQHLLAAHCDAKGKMWSNLRLFRDGDGFAWIERRSVREPQLTELKKYAVFSKVTIAPDDERVLLGVAGFQARAALANLFSELPSKEKQVVKEGATTLLWFEHPAERFLIVTDEATANMLTDKLRGEAELNNSQQWLALNIEAGFPVIDAANSGQFIPQATNLQALGGISFKKGCYTGQEMVARAKFRGANKRALWLLAGSASRLPEAGEDLELKMGENWRRTGTVLAAVKLEDGQVVVQVVMNNDMEPDSIFRVRDDANTLHIEPLPYSLEE UniProt: tRNA-modifying protein YgfZ.
8 -> 8 P UniProt: In Ref. 3; AA sequence..
31 -> 135 TITGADSEKYMQGQVTADVSQMAEDQHLLAAHCDAKGKMWSNLRLFRDGDGFAWIERRSVREPQLTELKKYAVFSKVTIAPDDERVLLGVAGFQARAALANLFSE

 
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.3 - protein related
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0005542 - folic acid binding
biological_process GO:0009451 - RNA modification
GO:0016226 - iron-sulfur cluster assembly
GO:0008033 - tRNA processing
Note(s): Note(s): ...[more].
Evidence: [EXP-IGI] Inferred from genetic interaction
Reference(s): [1] Ote T., et al., 2006
[2] Svanberg Frisinger F., et al., 2021
[3] Waller JC., et al., 2012
External database links:  
ALPHAFOLD:
 P0ADE8
DIP:
 DIP-48117N
ECOCYC:
 G7511-MONOMER
ECOLIWIKI:
 b2898
INTERPRO:
 IPR023758
INTERPRO:
 IPR017703
INTERPRO:
 IPR006222
INTERPRO:
 IPR029043
PDB:
 1VLY
PDB:
 1NRK
PFAM:
 PF01571
PRIDE:
 P0ADE8
REFSEQ:
 NP_417374
SMR:
 P0ADE8
SWISSMODEL:
 P0ADE8
UNIPROT:
 P0ADE8


Operon      
Name: ygfZ         
Operon arrangement:
Transcription unit        Promoter
ygfZ


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_3171 3041279 forward nd [RS-EPT-CBR] [4]


Evidence    

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


Reference(s)    

 [1] Ote T., Hashimoto M., Ikeuchi Y., Su'etsugu M., Suzuki T., Katayama T., Kato J., 2006, Involvement of the Escherichia coli folate-binding protein YgfZ in RNA modification and regulation of chromosomal replication initiation., Mol Microbiol 59(1):265-75

 [2] Svanberg Frisinger F., Jana B., Donadio S., Guardabassi L., 2021, In Silico Prediction and Prioritization of Novel Selective Antimicrobial Drug Targets in Escherichia coli., Antibiotics (Basel) 10(6)

 [3] Waller JC., Ellens KW., Hasnain G., Alvarez S., Rocca JR., Hanson AD., 2012, Evidence that the Folate-Dependent Proteins YgfZ and MnmEG Have Opposing Effects on Growth and on Activity of the Iron-Sulfur Enzyme MiaB., J Bacteriol 194(2):362-7

 [4] 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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