RegulonDB RegulonDB 10.9: Gene Form
   

sdhD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

sdhA sdhB sdhC sdhD ybgU ybgV CRP ArcA ArcA ArcA Fur CRP IHF ArcA ArcA ArcA TSS_845 TSS_845 TSS_844 (cluster) TSS_844 (cluster) TSS_843 (cluster) TSS_843 (cluster) TSS_842 TSS_842 TSS_841 TSS_841 TSS_840 TSS_840 sdhDp2 sdhDp2 sdhCp sdhCp gltAp1 gltAp1 TSS_839 TSS_839

Gene      
Name: sdhD    Texpresso search in the literature
Synonym(s): ECK0711, EG10934, b0722, cybS, dhsD
Genome position(nucleotides): 755560 --> 755907 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 51.15
External database links:  
ASAP:
 ABE-0002464
CGSC:
 17899
ECHOBASE:
 EB0927
ECOLIHUB:
 sdhD
OU-MICROARRAY:
 b0722
STRING:
 511145.b0722
COLOMBOS: sdhD


Product      
Name: succinate:quinone oxidoreductase, membrane protein SdhD
Synonym(s): CybS, DhsD, SdhD, small subunit of cytochrome b556
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 12.868
Isoelectric point: 8.873
Motif(s):
 
Type Positions Sequence
59 -> 80 VFTLLALFSILIHAWIGMWQVL
91 -> 115 LMLQLVIVVALVVYVIYGFVVVWGV
11 -> 105 NGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTDYVKPLALRLMLQLVIVVALVVYV
16 -> 36 FILVRATAIVLTLYIIYMVGF

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.3 - energy metabolism, carbon --> 1.3.4 - TCA cycle
  1 - metabolism --> 1.3 - energy metabolism, carbon --> 1.3.6 - aerobic respiration
  1 - metabolism --> 1.4 - energy production/transport --> 1.4.1 - electron donors
  1 - metabolism --> 1.6 - biosynthesis of macromolecules (cellular constituents) --> 1.6.15 - large molecule carriers --> 1.6.15.1 - cytochromes
  6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0009055 - electron transfer activity
GO:0046872 - metal ion binding
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors
GO:0000104 - succinate dehydrogenase activity
GO:0020037 - heme binding
biological_process GO:0006099 - tricarboxylic acid cycle
GO:0009060 - aerobic respiration
GO:0017004 - cytochrome complex assembly
GO:0022900 - electron transport chain
GO:0055114 - oxidation-reduction process
Note(s): Note(s): ...[more].
External database links:  
DIP:
 DIP-10838N
ECOCYC:
 SDH-MEMB2
ECOLIWIKI:
 b0722
INTERPRO:
 IPR000701
INTERPRO:
 IPR014312
INTERPRO:
 IPR034804
MODBASE:
 P0AC44
PANTHER:
 PTHR38689
PDB:
 1NEK
PDB:
 2WU2
PDB:
 2WU5
PDB:
 1NEN
PDB:
 2ACZ
PDB:
 2AD0
PDB:
 2WDQ
PDB:
 2WDR
PDB:
 2WDV
PDB:
 2WP9
PDB:
 2WS3
PFAM:
 PF01127
PRIDE:
 P0AC44
PRODB:
 PRO_000023921
REFSEQ:
 NP_415250
SMR:
 P0AC44
UNIPROT:
 P0AC44


Operon      
Name: sdhCDAB-sucABCD-sdhX         
Operon arrangement:
Transcription unit        Promoter
sdhCDAB-sucABCD-sdhX
sdhDAB
sucAB
sucABCD


Transcriptional Regulation      
Display Regulation             
Activated by: CRP, Fur, ArcA
Repressed by: FNR, ArcA


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_839 754683 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_840 755805 forward nd [RS-EPT-CBR] [1]
  promoter TSS_841 755883 forward nd [RS-EPT-CBR] [1]
  promoter TSS_842 756352 forward nd [RS-EPT-CBR] [1]
  promoter TSS_843 (cluster) 758036 forward For this promoter, there
Read more > 		[RS-EPT-CBR] [1]
  promoter TSS_844 (cluster) 758044 forward For this promoter, there
Read more > 		[RS-EPT-CBR] [1]
  promoter TSS_845 758063 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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