PangenomeTIGR4

serotype 4

D39

serotype 2

D39V

serotype 2

Hungary19A-6

serotype 19A

EF3030

serotype 19F

670-6B

serotype 6B

6A-10

serotype 6A

70585

serotype 5

A026

serotype 19F

A66

serotype 3

AP200

serotype 11A

ASP0581

serotype 12F

ATCC 49619

serotype 19F

ATCC 700669

serotype 23F

BM6001

serotype 19F

BVJ1JL

serotype 1

CGSP14

serotype 14

G54

serotype 19F

HU-OH

serotype 3

Hu15

serotype 19A

Hu17

serotype 19A

INV104

serotype 1

INV200

serotype 14

JJA

serotype 14

MDRSPN001

serotype 19F

NCTC7465

serotype 1

NCTC7466

serotype 2

NU83127

serotype 4

OXC141

serotype 3

P1031

serotype 1

R6

serotype 2

SP49

serotype 19A

SPN032672

serotype 1

SPN034156

serotype 3

SPN034183

serotype 3

SPN994038

serotype 3

SPN994039

serotype 3

SPNA45

serotype 3

ST556

serotype 19F

TCH8431/19A

serotype 19A

Taiwan19F-14

serotype 19F

Xen35

serotype 4

gamPNI0373

serotype 1

NCBI: 15-DEC-2024

⊟Summary

• organism: Streptococcus pneumoniae 70585
• locus tag: SP70585_RS06340 [old locus tag: SP70585_1273 ]
• pan locus tag^?: PNEUPAN002466000
• symbol: yycF
• pan gene symbol^?: vicR
• synonym:
• product: response regulator YycF

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SP70585_RS06340 [old locus tag: SP70585_1273 ]
• symbol: yycF
• product: response regulator YycF
• replicon: chromosome
• strand: -
• coordinates: 1182159..1182863
• length: 705
• essential: unknown other strains

⊟Accession numbers

• Location: NC_012468 (1182159..1182863) NCBI
• BioCyc: SP70585_RS06340 BioCyc
• MicrobesOnline: see SP70585_1273
• PneumoBrowse for strain D39V: SPV_1085 PneumoBrowse

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
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  121
  181
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  301
  361
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  481
  541
  601
  661
  
  ATGAAAAAAATACTAATTGTAGATGATGAGAAACCAATCTCGGATATTATCAAGTTTAAT
  ATGACCAAGGAAGGTTACGAAGTTGTAACTGCTTTTAATGGTCGTGAAGCGCTAGAGCAA
  TTTGAAGCAGAGCAACCAGATATTATTATTCTGGATTTGATGCTTCCAGAAATTGATGGT
  TTAGAAGTTGCTAAGACCATTCGTAAGACAAGCAGTGTGCCCATTCTTATGCTTTCAGCC
  AAAGATAGTGAATTTGATAAGGTTATCGGTTTGGAACTTGGGGCAGATGACTATGTAACG
  AAACCCTTCTCCAATCGTGAGTTGCAGGCGCGTGTTAAAGCTCTTCTGCGTCGTTCTCAA
  CCTATGCCAGTAGATGGTCAGGAAGCAGATAGTAAACCTCAACCTATCCAAATTGGGGAT
  TTAGAAATTGTTCCAGACGCCTACGTAGCTAAAAAATATGGCGAAGAACTAGACTTAACC
  CATCGTGAATTTGAGCTTTTGTATCATTTAGCATCGCATACAGGTCAAGTCATCACGCGC
  GAACACTTGCTTGAGACTGTCTGGGGTTATGACTATTTTGGTGATGTCCGCACAGTTGAT
  GTGACTGTACGACGTCTGCGTGAGAAGATTGAAGATACGCCCAGCCGACCAGAGTATATC
  TTGACGCGCCGTGGTGTAGGGTATTACATGAGAAATAATGCTTGA
  60
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  420
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  660
  705
  

⊟Protein

⊟General

• locus tag: SP70585_RS06340 [old locus tag: SP70585_1273 ]
• symbol: YycF
• description: response regulator YycF
• length: 234
• theoretical pI: 4.7165
• theoretical MW: 26815.4
• GRAVY: -0.396581

⊟Function

• TIGRFAM:
  Signal transduction Regulatory functions DNA interactions phosphate regulon transcriptional regulatory protein PhoB (TIGR02154; HMM-score: 223.1)
  Signal transduction Signal transduction Two-component systems phosphate regulon transcriptional regulatory protein PhoB (TIGR02154; HMM-score: 223.1)
  and 8 more
  Signal transduction Regulatory functions DNA interactions heavy metal response regulator (TIGR01387; HMM-score: 177.7)
  proteobacterial dedicated sortase system response regulator (TIGR03787; HMM-score: 133)
  Cellular processes Cellular processes Sporulation and germination sporulation transcription factor Spo0A (TIGR02875; HMM-score: 67.6)
  Metabolism Central intermediary metabolism Nitrogen metabolism nitrogen regulation protein NR(I) (TIGR01818; HMM-score: 60.7)
  Signal transduction Regulatory functions DNA interactions nitrogen regulation protein NR(I) (TIGR01818; HMM-score: 60.7)
  Signal transduction Signal transduction Two-component systems nitrogen regulation protein NR(I) (TIGR01818; HMM-score: 60.7)
  Signal transduction Signal transduction Two-component systems TMAO reductase sytem sensor TorS (TIGR02956; EC 2.7.13.3; HMM-score: 44.2)
  Signal transduction Regulatory functions DNA interactions PEP-CTERM-box response regulator transcription factor (TIGR02915; HMM-score: 37.6)
• TheSEED: see SP70585_1273
• PFAM:
  CheY (CL0304) Response_reg; Response regulator receiver domain (PF00072; HMM-score: 106.3)
  HTH (CL0123) Trans_reg_C; Transcriptional regulatory protein, C terminal (PF00486; HMM-score: 97)
  and 1 more
  CheY (CL0304) VpsR; VpsR domain (PF20161; HMM-score: 13.1)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effectors:

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 9.97
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0.01
  • Extracellular Score: 0.02
  • Internal Helices: 0
• DeepLocPro: Cytoplasmic
  • Cytoplasmic Score: 0.9959
  • Cytoplasmic Membrane Score: 0.0014
  • Cell wall & surface Score: 0
  • Extracellular Score: 0.0026
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.002466
  • TAT(Tat/SPI): 0.000078
  • LIPO(Sec/SPII): 0.000232
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq: WP_000722076 NCBI
• UniProt: see SP70585_1273

⊟Protein sequence

• MKKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQPMPVDGQEADSKPQPIQIGDLEIVPDAYVAKKYGEELDLTHREFELLYHLASHTGQVITREHLLETVWGYDYFGDVRTVDVTVRRLREKIEDTPSRPEYILTRRGVGYYMRNNA

⊟Experimental data

• protein localization:
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: SP70585_RS06330 < vicK < yycF < mutY

⊟Regulation

• regulator:

⊟Transcription

• transcription start site:

⊟Expression data

• PneumoExpress for strain D39V: SPV_1085 PneumoExpress

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You can add further information about the gene and protein here. [edit]

⊟Literature

⊟References

⊟Relevant publications

J R Echenique, M C Trombe
Competence repression under oxygen limitation through the two-component MicAB signal-transducing system in Streptococcus pneumoniae and involvement of the PAS domain of MicB.
J Bacteriol: 2001, 183(15);4599-608
[PubMed:11443095] [WorldCat.org] [DOI] (P p)Aras Kadioglu, Josè Echenique, Sonia Manco, Marie-Claude Trombe, Peter W Andrew
The MicAB two-component signaling system is involved in virulence of Streptococcus pneumoniae.
Infect Immun: 2003, 71(11);6676-9
[PubMed:14573696] [WorldCat.org] [DOI] (P p)Wai-Leung Ng, Gregory T Robertson, Krystyna M Kazmierczak, Jingyong Zhao, Raymond Gilmour, Malcolm E Winkler
Constitutive expression of PcsB suppresses the requirement for the essential VicR (YycF) response regulator in Streptococcus pneumoniae R6.
Mol Microbiol: 2003, 50(5);1647-63
[PubMed:14651645] [WorldCat.org] [DOI] (P p)M Luz Mohedano, Karin Overweg, Alicia de la Fuente, Mark Reuter, Silvia Altabe, Francis Mulholland, Diego de Mendoza, Paloma López, Jerry M Wells
Evidence that the essential response regulator YycF in Streptococcus pneumoniae modulates expression of fatty acid biosynthesis genes and alters membrane composition.
J Bacteriol: 2005, 187(7);2357-67
[PubMed:15774879] [WorldCat.org] [DOI] (P p)Wai-Leung Ng, Ho-Ching Tiffany Tsui, Malcolm E Winkler
Regulation of the pspA virulence factor and essential pcsB murein biosynthetic genes by the phosphorylated VicR (YycF) response regulator in Streptococcus pneumoniae.
J Bacteriol: 2005, 187(21);7444-59
[PubMed:16237028] [WorldCat.org] [DOI] (P p)Skye M Barendt, Lok-To Sham, Malcolm E Winkler
Characterization of mutants deficient in the L,D-carboxypeptidase (DacB) and WalRK (VicRK) regulon, involved in peptidoglycan maturation of Streptococcus pneumoniae serotype 2 strain D39.
J Bacteriol: 2011, 193(9);2290-300
[PubMed:21378199] [WorldCat.org] [DOI] (I p)Maria L Mohedano, Mónica Amblar, Alicia de la Fuente, Jerry M Wells, Paloma López
The Response Regulator YycF Inhibits Expression of the Fatty Acid Biosynthesis Repressor FabT in Streptococcus pneumoniae.
Front Microbiol: 2016, 7;1326
[PubMed:27610104] [WorldCat.org] [DOI] (P e)